Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_053368
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 1122546
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
File 2 of 2
Found at i:941935 original size:23 final size:23
Alignment explanation
Indices: 941893--941945 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
941883 AGGGAAAGGT
*
941893 ATACACATAAGAGTGAAAGTCA-G
1 ATACATATAAGAGTGAAAGT-AGG
941916 ATACATATAAGAGT-ACAAGTAGG
1 ATACATATAAGAGTGA-AAGTAGG
941939 ATACATA
1 ATACATA
941946 AGGCAAGTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 2 0.07
23 25 0.93
ACGTcount: A:0.49, C:0.11, G:0.19, T:0.21
Consensus pattern (23 bp):
ATACATATAAGAGTGAAAGTAGG
Left flanking sequence: Indices 941393 -- 941892
GAAATCTCACTCATTTTATGCCATCGGTCCTAATCTAATAAAAGGCTTCCTTTCCTCCCTCTGAT
CAGCTGGACCTATATTAGCCCAAGAACTGCTTCCCTGGTACCTTTTTCCCTTTTCCATCCGCTTG
TGGAAGGGCTACTCTTGAAAGGCTGACCTCAAAGGATCCGGTAAACAGGGTAGCCCCTGGTACGC
TTGGGGCTGGATTGAATCCTTCGCGATGGAAGTGATACAACTGTACTGACCTGCTCTACTTGTCG
AGTACAACAGCAATAGAGCAGCTAAACTGTAAGAAGACTTACACCAAACATCTCACGACAGGATC
TACTTCTAGCTCTGCAACGGTATCTGGATCTGGATCACGATCTGTATCTGGAAATGAAACTACTG
ACCCCGCTACAGCTACTGGTCCAACTCCACCAACTAGATAAGCTGGATCAACGGCGGCAAGCTTG
GAGACTCTGGTTGGAATCTAAAACACTCTAGGGTTAGGGAAAGGT
Right flanking sequence: Indices 941946 -- 942445
AGGCAAGTAACGAAAGAGAAGCAGTCGAAGGCGACTAGATTCTTCAAACCATTAAGCGGGACAAA
GACCGGGGCGGGCTCTAGTAGTGGAAACCATGAATCCAATTCCTCGATTGCTCTCCCATCCACCA
ACCTCTCTCCTCTTCCCAATATCTAGCCAGCACTGCCCTCGAACAGAACCCATCTTTCTCTCTAT
CTCTCGGCTTGGAAATAGCTACCAAAGAAGGAATCTGATGCACCAGTGGGTTCTCGATCGAATGA
AATAACGTCTCTAAAGGCCCACCTAATGGATCCAACGAAGAGCCATCAACAGAACCTCCACCAAG
CTCTCAACTAATCGGGATCGACTCAACCAGATAAGCTTTCCTATGCTGGTGAGCCCACTTCTCCA
AGTCCATATCTTCCGGCATCACCATTCCCAATGAATTCTCTTCCTTTCCTTCCAAAGCTATCCTT
TCGTGCCCAAGTCCAAGCACGGGATGAGACTTACCAACTGATCCT
Found at i:952762 original size:64 final size:64
Alignment explanation
Indices: 952683--952803 Score: 242
Period size: 64 Copynumber: 1.9 Consensus size: 64
952673 TGCTTTACTT
952683 AACAAGCAACGGATGAGCGCTAACGCGCGAAAGCCCCATTCAATAAACGTAAGGTGCGTTAGCC
1 AACAAGCAACGGATGAGCGCTAACGCGCGAAAGCCCCATTCAATAAACGTAAGGTGCGTTAGCC
952747 AACAAGCAACGGATGAGCGCTAACGCGCGAAAGCCCCATTCAATAAACGTAAGGTGC
1 AACAAGCAACGGATGAGCGCTAACGCGCGAAAGCCCCATTCAATAAACGTAAGGTGC
952804 TAACGCCTTT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 57 1.00
ACGTcount: A:0.36, C:0.26, G:0.25, T:0.13
Consensus pattern (64 bp):
AACAAGCAACGGATGAGCGCTAACGCGCGAAAGCCCCATTCAATAAACGTAAGGTGCGTTAGCC
Left flanking sequence: Indices 952183 -- 952682
GTGAACGAACAAAACCAAAAAGAGGGCCGTCTCAGCGGAAGGAGAAGGACCTGCAACGGCAGAGA
CTACTGACCCTCTTCTTGCTTGTTCCTAGCCGTCTGTTACGAGTCCGGGAAGCCTGGAATCATCA
ATATGAGGGATCCCTCAATAAAAATAGAGAAGGGCGGGCAGGGCTTCCGCAAGAGCCTCCCCCTC
TTCCCGGTCAAGATAGATGGGAAGGAGCCCTATCAAGTAAAGGCATAACCAGCCTCTTTATTTAT
GTACGCACACCTTTGTTTCAGGGTGAGGCCGCCCTCCCTCCTGCTAATCCGGCCATTTCCGAACC
TGTCTTTCCCACCCCAGCTCCGAGATGAGAACGCGGAACATTCCCCTTCCACCTTCGCCTTTGAC
TATATAAGGTCGGGAGAGGCTCCCGATTTCTGGTTTATAGGCGAGATCTTTTAGAACCTGCGCGT
CATAAATAGGGCGCGGAACTATAAAGAATGAAAGCTGCTTTACTT
Right flanking sequence: Indices 952804 -- 953303
TAACGCCTTTATATATATAGGGCGTTTTCTTGCTGGCCTCAACTCGCAATGAAATAGTTCTTGCT
CTTGCTCTTTCATTGAATAGTGCCGGAATTGCCGCAACTAATTCACTAATGGATTGCGGGGCCTT
GCTTCTTGCTTGCTGCTCGCTTTCTCGCTTCCGAGAGGCGAAGGGAGCCTGACTTACGGCTTCCA
AGCCTGGCGCGAAGCGAAGGGATTGGATTTCACCTATGATCAGATCAGTGGGCAACCATATTTCA
TTTTTGAGTGGTGTTGTTGACGTTGTTGAAAGCTAATTTTTAAGTAGGCCTAGCTTTTCGGAGCT
GCTCCCAGCTCACACTATGGTGGAGGAGGTGCCGTGAAGATCTAGGAGTGTGAGCAGTACGAGCT
GAAAGGCTCCCATACTGTTTGGAGGGCAGGGGGCATAGATGCCAAACCTGACCCCTATCTATCGT
CGTAGAAGCTGTTCCTAGGAAAGATTATGGTTCTCGGGTATCCAA
Found at i:964909 original size:13 final size:13
Alignment explanation
Indices: 964891--964923 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
964881 GAGTGAAGGA
964891 GAACGAGGTATCT
1 GAACGAGGTATCT
964904 GAACGAGGTATCT
1 GAACGAGGTATCT
964917 GAACGAG
1 GAACGAG
964924 ATGCCTGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.33, C:0.15, G:0.33, T:0.18
Consensus pattern (13 bp):
GAACGAGGTATCT
Left flanking sequence: Indices 964391 -- 964890
TTGGATGCATTCTTCCTTTCTCGGTCACAGCCATGCATCGAACTGAGAGAAGACTTAGCAGTGAA
GGCTCCACCCTTAGCTTAGCAGGCGAGGCAAGGCTACTCATGAACCCAATGAAAGGAAGAAGAGA
ATGAGAGTGCCAAAGACAGAAGGACACTGAACTCAACTTTCAATCTCCGCTATGCCACAAAAGAG
AAAGAAATTACAGGCTCTTATCAATGCGTCTTGAGAAATCCATGGGGGTTCCGTAGTGGTGAAAG
CTTATCCGGAAGTTTGAGTTCTGTACTCGCATATTATGGTTTCGAGACCACCGACCTAGCTTTTA
TGACTAGTGGTGATCGATCCACACATTCCCTCTCTTTCCCTATACGACCTACTACCCGGTGATGC
AGCAGGCGATACCGATCCCACCGCTGTAGCTGGTGATACCCTTCCTGATTCCATTTTATATCCCT
TGCCTAGCCGGTGATTCAATCAGTGAGGGAAAGATGAGTGAAGGA
Right flanking sequence: Indices 964924 -- 965423
ATGCCTGAATAGCAAGATTGAGGGGTTAATCCAATGAAAGTACGGAAAGACTTGAATCTCATTCC
TTTCCTCTATATGCTCTTCTCCTGAGAGTGACTCTTTCCAGCTTCCGATGGCGACTGACTTGGAA
GTGGAGTTGATTGTCTTCCCCGATTTCTCATATGAGACGAGGGGATCTTTTTTAACCGAATGAAA
GCCTTAAGTCGAGACTCCCATCCGCCTTAGTGGTCGGCGAAAGGCAGGCTAAAGAGGGGAATCAA
TCAATCGCAGCGCCCTGTCTTATTCGAGTTAGGACCCGTCAATCTCAACCAAAGGAACTGGAGCT
GGATCGGGGAAATACATTCCATTGTTTTTGCCTAGGCTTAGTTTCATCCTGAAAGCTATTGAATA
ATCTTGGACAGAAGAGAGTACGAAAGAGAAGTTCATACCCTGTAGATAAGAATCCCGAGTCCACG
ATAAAGACTACCCTGTCAGCAAGCAATTGGTCTTCCGCTTTCGAT
Found at i:973821 original size:3 final size:3
Alignment explanation
Indices: 973815--973841 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
973805 TCAGCAGCCT
973815 CAG CAG CAG CAG CAG CAG CAG CAG CAG
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG
973842 TATCAACACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.33, T:0.00
Consensus pattern (3 bp):
CAG
Left flanking sequence: Indices 973315 -- 973814
AACCTTTGAAGACATCTCGCATTTTGTGCCGAGCGTCTAGAGCTATGACATATACCGAGCTTTTC
AATCTGGCTTTGGGGATAGAGGATGATCAGGCTTCCATGCGGAAGTCTGCCGTTGCTAGACGAGA
CAGTGGTGGTCCAGTGAGAGGACAGTTTTATGGCAGAGGTAGCGATAGATTCAGGCCGTATGATC
AGCCCCGTCAGGGAGGAGGCCGTGGTAGAGATTTCCGCAGAGGTGGCGGAAGGTTTCAGCAGCAG
AGAGGTGGGTTCCAGCAGAGGACTCACGATTAGAGAGTTTATCAGGCTCAGCCAGTTCAGGCCAG
ACCGCAACCCTTGCCTTTACCTACTCCTTTCCTTGCAGCCCATGGAGGACAGCAGCAGCGGGGAG
TCCAGACTTGCCGTAGATGTGGGGATCCCTCACATTTCATCAGGGATTGCCCTTGGTTTGTGACC
CAGACTGGTCAGTTGGTTCCTGATAGGAACAGAGCTCAGCAGCCT
Right flanking sequence: Indices 973842 -- 974341
TATCAACACCAGGGCCGTGGTGGTGGCCAGGGTGGTAGAGGCGGAGGCCGAGCAGGAGCTCGAGG
AGGACATCAGCAGAGAGGAGGCCGAGGTGGCCCGGTTCTTGCAGCTATTCCAGGAGCTAATCTGG
CTGGAAGGTACTTTAAACTCACCTACTGGATTGCATCATGTACTGTTTGATACTGGTTCGCATTT
ATCCTACATATCTCATCAGTTGGTAGTAGCACGTAGTTTACCTACTGTTCCTCTAGTTCCTTCTA
CGACTATGTCTACTCCTTTGGGAGGTTCTGCTCGTTTGGATGAAGTAGTTCATCAGCATCCCTTG
CATCTGGGGGATAGAGTTCTGTTTGCAGACCTGATAGTTCTTGGCTTTGAGGGTTTCTATTACAT
TCTCGGTATGGATTGGATGGAGCGGAATGGAGTTACTGTCGACATGACTCGTCGAACAGTAAGGA
TAGAGTTGCCTGGAGCTTTGCCTATCGTTGTTCAGTGCGAGGGTG
Found at i:975725 original size:13 final size:13
Alignment explanation
Indices: 975707--975732 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
975697 CAGAAGGATC
975707 TCAAAAGCGCAAA
1 TCAAAAGCGCAAA
975720 TCAAAAGCGCAAA
1 TCAAAAGCGCAAA
975733 CATGAGTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.23, G:0.15, T:0.08
Consensus pattern (13 bp):
TCAAAAGCGCAAA
Left flanking sequence: Indices 975207 -- 975706
CGTTGACCCAGAGAAAGTAGTGGCAGTAAAAGAGTGGAAGCAGCCCACTAGTGCCACGGAGATTC
GCAGTTTCTTGGGTACCGCAGGGTACTATCGGAGGTTTATCCAGGATTTAAGTAAAATCGCCACA
CCTTTGACATAGCTCACGAGGAAAGACGTTCAGTTTATCTGGACAGATGAGTGTGAGTCAGCTTT
TCAGGAGCTGAAGCAGAGATTGACTACTGCACCTATATTGGTTATACCAGTTAGAGGAGGAAAGC
TAGTAGTATATACTGATGCTTGTGGTACTGGTTTTGGAGCAGTTCTGATACAGGAAGGGAGAGTA
GTAGCTTATACGTCGAGGCAGCTGAAGCCTCATGAGAGGCGGTATCCTGTGCATGATCTTGAGTT
GGCAGCTATTATCTTCGCTCTGAAGATGTGGCAACACTATCTATATGGCGAGAAGTTTGAGCTCT
TCACGGATCACAAGAGTCTGAAGTATCTTAGGACTCAGAAGGATC
Right flanking sequence: Indices 975733 -- 976232
CATGAGTTCTTCCCTTACTCCTTTGCTTTCCACTCGCCACTCTCGACTAGAGAGTGACTCGCTCC
TTTAACGCTTAGCTCAACAAGTAGCTCCTTAACTATTAGCTCTTAGCTCTTAGCTCAACAAGTAG
CTCAACAAGAACAAGCCTTCGGTAACTCCTGACTTTCCTTTGTTCCCCACTCGCACTCTCTCCTA
GAGAGTGTCTCGTTCTCTTAGCAAGAGGAAGATGTTTAATTACCAAAAGCAAGGGCCGTTACCCA
ATAGCAACAACAGTAACAGTCCTAGCCATTTCATCCCGAGTTCAATGTCTGGACTGTTACTGTTG
TTGTTCCTGTTGCTATTCCTTTCCTTGAAGCTAGAACTAGCAACTCAACTCTTATCTCTGATCTG
ATATGACAAGACAAAGGAGTGAGGGCGGGTTTCCTCTTTAGAGGGAACCAACCGAGTGGCAGTAA
TGACTTACCGAAGGAACAGGTAACAAGTGTTGCTAACGTGTGCAG
Found at i:983550 original size:33 final size:33
Alignment explanation
Indices: 983512--983577 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
983502 AAGACCAAGC
983512 CTTCACTGTAAGGTATAGTTCGTGTTTCCTTCT
1 CTTCACTGTAAGGTATAGTTCGTGTTTCCTTCT
983545 CTTCACTGTAAGGTATAGTTCGTGTTTCCTTCT
1 CTTCACTGTAAGGTATAGTTCGTGTTTCCTTCT
983578 ATCGGTAATC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.45
Consensus pattern (33 bp):
CTTCACTGTAAGGTATAGTTCGTGTTTCCTTCT
Left flanking sequence: Indices 983012 -- 983511
GGGGTTGGCTATTGTAGGAACTCCTGGTGTTGGAGACGAGTAGCTTGCTTACATATTTCCTCAGC
CTATACCAATGAATGGATTGCCACTGCGTCTGATTCGACTGTCTCCGTCGTGTTCCGCTGCCAAA
CTTCTTATTGATATGATATAAAACTAAGCGGAAGAAAGCAGTTTCAGTTTAGTAAGGACTGATGC
CCCTAGTTCACTATTGAACCTATTCCCCGAGGAAGAAAAGGCTGTCTCGCTTTCCTCTATCTTCT
GTTATGCTTGGCTCGGCTTCCGGTGCTTCCCCTTCCAATGTTGGGCTGTCTCTGCGGTGCCGGCT
CCCGTTTCTGTCTTAGCTAAGCAGGTTCATGATTGAAGCCGAGAATGGGCCTACAGGTGTAGTAC
CAGTGTCTGTTAATACGTGGGTTGTAAAGAGTCTTCCTTTCTCCCTTTCCTTAAGGATGATTTGT
GCTGGCTTTACCAAAGTCTAGTCCAAGTGTATAGCAAGACCAAGC
Right flanking sequence: Indices 983578 -- 984077
ATCGGTAATCAACTTATTGATCTATAGGCATTTCACCGCTATTTAACACATTAGAACTCAGCGCT
CTACCGTTGCTTGTTGTGGAGCGAGTCTTAAATGAGTGATAAGGAGAAGTGCAACTACGAGAGAT
TCAGGAAGAAGCAACGAAGAAAGATGAAATCCAGTGAGATACTGGAGAAAGGTGGTCGTAACGAC
TGCGGGTCCATTCCATCTCATCCAGTCCAGACTCGAGCAGCTATACATATAGATGAATGAAGATC
ACCCTCATGAGTTGATTGAGTTCAAAAAGTAGAAGTTGGCCACTTCGTTGAATAGGCTGCTTGCT
ACCAGTTAGTCACCCCCAAACCTGAATGAACTAAGTCGTCCATTCTTTAGCGCACACCTCCCTCC
TTGAACAGTAACTCGAACCGAACGATTCCTTGGTAAAGCTAGCTTCTGATCCTGCTTGTTGTTAA
GTGGAGCCTACCTAGTCTTCCTTCTTATGCTTGCTGAATGAAGTT
Found at i:990162 original size:26 final size:28
Alignment explanation
Indices: 990128--990201 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 28
990118 TCTTCAAGTG
990128 GTAGTGAACTCACCGGATAGGA-A-GAA
1 GTAGTGAACTCACCGGATAGGATAGGAA
* *
990154 GTAGTGAACTCACC-CACAGGATAGGAA
1 GTAGTGAACTCACCGGATAGGATAGGAA
990181 GTAGTGAACTCACCGGATAGG
1 GTAGTGAACTCACCGGATAGG
990202 TAGTTCGGAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
25 5 0.12
26 15 0.37
27 17 0.41
28 4 0.10
ACGTcount: A:0.35, C:0.19, G:0.30, T:0.16
Consensus pattern (28 bp):
GTAGTGAACTCACCGGATAGGATAGGAA
Left flanking sequence: Indices 989628 -- 990127
TTAGCTGCAACTCCCACAGAGCTACAACCGTAACCAGTTCTTAAAGTAGCTCTCCTTTCTTCCGA
TCGAACCTCTCTTTTGAGAGCTCCTCGCTCACATATCAACTCTAATATCACACATGCCGCATCGT
AGAATAGGATGTTCGAAACCACTGCAACCGTAGTCGAATGTCCGAAGCTCCCTCCCCGGAATTGC
TATACGTATGGGGTCACTGCAGAATGAAAAGATAAGGTGGCCGCTGTACGGAATGTCCCGTTTGA
GCCAGTCAGTTCTTTTGCAGTAACCATCCTGTGGGGAAGGCGGAGGAGGAGTTAGCTCTACCCGA
GAACAACCCGAAGGCGCACATCGCATGGGTCAAGAATCGGGAAGGGGACTCCAGGCCGGAGAGAT
CAGACTCCCTGATGCAGCAAATATTCATTCTAGTGGTAGTCGTGTACAAGTGTAAGTCTTACTCT
CAAAGAGAGTTCTAAAGTCGCTTTCTATGAGAAGTTCTTCAAGTG
Right flanking sequence: Indices 990202 -- 990701
TAGTTCGGATAGGAAGAAAGTTGTATTTCTCAATCATTAGCTAAACGATGGAAAGCAGCTTCAGT
CTGGTCTGGAGATCGATGCTAGCCCAATAGCTAAACCTTTCTTTCCCCTTCTTTCGGCCTTAAAA
GTCTAGTTCTTAATCTCCATCTCCTGAGTTCTAATGCTGCTATACGAGTTAAGGAAGGGCTGAAG
CTATGAGTTCTAGAACTGCCGCTTTGTTCTTTCAACCTCTGGGGACTAAATATCTGATCTCCTTC
TACTTCTATCAGGTCTTTCATATACGAGATTCAGCTTCTGCTTGGCTCACCAACTGGTCCTATCC
TAAGGTAAAAAATAAGCTATTAGTAAAGAGCAAAACAGGCAAACGACTAATTTACTGTTACAAAA
GCTCTCTATCCAGCAGCAGCCTTCCCTTCCTCGACAAATGGATGTCTTAGAAGAGAAGCCAGAAT
GCCCCTTGTTTCACCAGTATATGGTGCTTCTATTGCAAGAATTGC
Found at i:998423 original size:23 final size:23
Alignment explanation
Indices: 998397--998441 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
998387 ACATTGCGAG
* *
998397 CTAAACAAAGAAGGGATTCGTGA
1 CTAAACAAACAAAGGATTCGTGA
998420 CTAAACAAACAAAGGATTCGTG
1 CTAAACAAACAAAGGATTCGTG
998442 CTCGCTAGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.44, C:0.16, G:0.22, T:0.18
Consensus pattern (23 bp):
CTAAACAAACAAAGGATTCGTGA
Left flanking sequence: Indices 997897 -- 998396
CCTAGCTCGTGGCAAGAGAGCGGGGAAGAAGCAGGAGATGCAGATTCTCCCGAGGATGCTTCCTC
CTCATATTCACTAGAATTAACCCCCCCTGTAACATTTGGGGACCATTTCGAGAGATTTTCGGAGG
GGGATATATTTACACAGAAGTCTTTACATAAATCGGAATTCATTTACTGATGGCGGAGGAAAAGA
CGGGAATCCCTAGATCTACTAGACCTAGACCAATGAAAGGCTGGTTGTAAATCAGAGATGAAAGC
GATTCACCGAAAAAGACAGCAAAGAGCGGACAGGCGGACTAGAGGTCGATTCCAGATAAGAGAAT
CGCGGCAAGGGCAGTGCTTTACAGAGGGCTTAGCTCTATAAGTAAGGAAATTTTTAGATTTTCGA
GAAAAATTCAAAAAAAGAAGGGAACTTACCAATAGCGAAAGCAGATCCTGCTGAAGCAATTCTTG
CATCCCCAAATGCTACTATTCATTTTGCACAAGATACATTGCGAG
Right flanking sequence: Indices 998442 -- 998941
CTCGCTAGCATTTGATCTTAATTGAACTCCTACGCCTCCGGATCCTATCCTGCTCACCGGAATGC
GGACTCAAGGGATTCGAGCGCACCTGGCTTTCACTCCGGCACCTGATCTACGACCACCCTTTACT
GCCTACGCCTACGCTCACGAAAGACAAAGCCACTCACGAATCCATTTTCTTGCTCCTAGCGCAGC
CTGCCCGAAGCCACTATCACCTATGCAGCGGCCATCGCCTACCCTAATGCTCCTGCTCCGGACCT
TACTGCTGGCTTTTAGCTTTCTTGCTTGCTATGCGCCAGCTAGCGGAATGCTTTACCGAATGCGC
CAACCAACCGGAGGTGCCGGGCCTACGTGTGCCAACTCCAACTAGGAAACGACTACCGCTTGGGC
CTAAGCTCCTGAACCAGCAGGAAGAAGAAGCGCACCCGAACCCCCCCGGAAAAGTATATGGATTT
GAAAAATGAATGTTTAGCCGACCAAGTAAGGGCTGAGTGTGATGT
Found at i:1025608 original size:20 final size:22
Alignment explanation
Indices: 1025583--1025626 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
1025573 TTGTATACTG
1025583 TATATGC-T-TTTATTTATATA
1 TATATGCTTATTTATTTATATA
*
1025603 TATATGCTTATTTGTTTATATA
1 TATATGCTTATTTATTTATATA
1025625 TA
1 TA
1025627 ACAGTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.33
21 1 0.05
22 13 0.62
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.59
Consensus pattern (22 bp):
TATATGCTTATTTATTTATATA
Left flanking sequence: Indices 1025083 -- 1025582
TACGCAGCTCCGTCTGCAAGAGGAAGTCGAAAACTAGATTCGGAAATGGGTCTTGAAAGAGAACC
AGAACAGGAACTTAGTTACCCGGATCAGTCCAGATTGGCAACTTGAAGTCAGTCAGAAAAGCGCT
AACAAGAATTGCGTAAGTAAATAGAGATCGTTCAGTAGGCTAGTCGAAGATCGAAGATGGAGACT
GTCAAGATTGATAGAGTGGTCGGGCCCAATGCGCTCTACAGTAGTGCCTCGCGAGGTCGTAGAGC
CGGTAACCTTGGATCGCCTAGGATCTTGATTCATGCTCCGTCTGTGATTGAGATTGAATCCGATC
TTAAATGCTTAACACATGCATGAAAGTTTCACACATGCAACTCGGTAGAGGGAGATAACTATCAT
ATTATTGGACATTTATTGTTGTGATTGATAGGTCTCTGATACTATAGGTTTATATATAACAGTTT
ATTGCTTTTTATATCTCTAAAGACCGTATCAATACTTGTATACTG
Right flanking sequence: Indices 1025627 -- 1026126
ACAGTTTATTGCTTTTAATATCTCTAAAGACCGTTTGTATAGTGTATATGCTTTTTTCTCCATCT
AGAGTTCGAAGGGCTTTTGCAAGTACCGAGTTGTTTGCTTTTGAATTCCTCTTTTAAGAGTTTCA
GTAAGTGGTTTCCGCTCCAAGTCTCATTGGCGGACGAGACATATATTGTTTCCTTTTCCCTCGCC
TGGGATGAAGCTTAAGCTGCTTCAGTTCGAAGGTCCTTATCAAGTACCGAAAGGAAGCTAGGTGG
CTAACAACCAGTCTGTCGCTCGTTCCTTTAGTTCCCCCCACCCCTTCTGTGGCTCTAGCATCTGT
AGGAGCTAAGACCATTGGGTTAGGGACTGCTCGTGCTTTTGTTTTTGGGTTCCGGTGCCTTCCTT
CTTTCTCTGCTAAGGCTGTTCTTTCTAGCTCAAATCATTGTTTTAGCCCTCCTCCCGATATGGGT
CTTTACGCCAGCCTCTTTCTTTCCCCTCTATAAGCCTCTGAAGCT
Found at i:1026243 original size:31 final size:31
Alignment explanation
Indices: 1026205--1026266 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
1026195 TCGCCACCTT
*
1026205 TTATCTCAGCGATGGTGTGGTTACATACAAG
1 TTATCTCAGCGATGGTGTGATTACATACAAG
1026236 TTATCTCAGCGATGGTGTGATTACATACAAG
1 TTATCTCAGCGATGGTGTGATTACATACAAG
1026267 GTCAAGTATG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.32
Consensus pattern (31 bp):
TTATCTCAGCGATGGTGTGATTACATACAAG
Left flanking sequence: Indices 1025705 -- 1026204
CTTTTGCAAGTACCGAGTTGTTTGCTTTTGAATTCCTCTTTTAAGAGTTTCAGTAAGTGGTTTCC
GCTCCAAGTCTCATTGGCGGACGAGACATATATTGTTTCCTTTTCCCTCGCCTGGGATGAAGCTT
AAGCTGCTTCAGTTCGAAGGTCCTTATCAAGTACCGAAAGGAAGCTAGGTGGCTAACAACCAGTC
TGTCGCTCGTTCCTTTAGTTCCCCCCACCCCTTCTGTGGCTCTAGCATCTGTAGGAGCTAAGACC
ATTGGGTTAGGGACTGCTCGTGCTTTTGTTTTTGGGTTCCGGTGCCTTCCTTCTTTCTCTGCTAA
GGCTGTTCTTTCTAGCTCAAATCATTGTTTTAGCCCTCCTCCCGATATGGGTCTTTACGCCAGCC
TCTTTCTTTCCCCTCTATAAGCCTCTGAAGCTCCCTCCCTTTTCTTTTAGAGCTAGCTTCTATTC
CTTATCCTTCTCTTCTCTTGCCAAAGACGCGGATTTCGCCACCTT
Right flanking sequence: Indices 1026267 -- 1026766
GTCAAGTATGATTTCCTGGAGTTATTAACCCTGGTTCGTAAGAAAAGTTTCTATATGCTCTTCTA
TCTTGCCGTAGATAGTGATGATAGAAGGTCATATACCATACTTTAAAAAGATGATCTAGCGAGCT
GCGTAAAAGTGGATGCCGAGGAAGCTAATAAAGGTACTTCTAATCTCTCGAAGAGTTATAAGCAT
ATCCGAATAGAACGGGAATAGCAAGATCATAAAAGAAAGAGAGCTACAAGAAAGCATCTCTCACT
GAACAATTAAGCTTCAGTTTCTAATAAGGAAGGTATACTACTTCTAATCTGATCTGCTCCGTAGA
GGTGAGCAGTCAGTTATAGATATAGGGATATGGAGAGATGGCTATTCGAACATGTTCGAAGCATA
TCTGAAACGAACGGGTTAAAACACCCAATCTGGTATCCTAAAATGAGCTAAATATGAAAGACCCA
AGATTTCCGCCAATAGCATGATGGTTGCTAAGGTGATGTTGAACA
Found at i:1044866 original size:24 final size:25
Alignment explanation
Indices: 1044831--1044880 Score: 93
Period size: 24 Copynumber: 2.0 Consensus size: 25
1044821 GCATAGGAGA
1044831 AGAGAAAAGATCTATTTGCGTATAT
1 AGAGAAAAGATCTATTTGCGTATAT
1044856 AGAG-AAAGATCTATTTGCGTATAT
1 AGAGAAAAGATCTATTTGCGTATAT
1044880 A
1 A
1044881 AAGTATGCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 21 0.84
25 4 0.16
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.32
Consensus pattern (25 bp):
AGAGAAAAGATCTATTTGCGTATAT
Left flanking sequence: Indices 1044331 -- 1044830
CATCGACGGAAGGAAGCTAAGCGGCACCGGTTTCGTCAACCGGTCGGCTGGAGATGGATGATGAA
CTTCAAGAGCGGAACCGAAACAGTCCACCTCTAGCGGCATCTATAGAACTCCTTTCTTCCCGGCG
AGGCAGTCAGTCCGTAAGGAACTCACCTGTATGTAAAGGAGAAGAGAACGTTAGGGGGAGACTAG
TGGAATAGCCAGCACGAGGGTGAATTCAATATCTCTCCCAAACTCTGATCCAACGCTCACCAACT
GTTGATCAAGCAGCCCTGAATAGCCTCACGCTGAACCATACACACTCTTCTATCTCCCGATTAGT
ACAAGCGGAATGCGAGACCGAGAATAGAGCCATTTAAGACACGTAAAGCTATCTTATAGGCAATC
ACCTTAAGGCCCTGCCCGTAGCTTCTTTTCTTATACGAATTCGGAGAACTAAAGCAAGCTCTATC
GAAGAGGACTGCTTAAGTAGATCAGTTGATGCTACGCATAGGAGA
Right flanking sequence: Indices 1044881 -- 1045380
AAGTATGCTAATGTCTCTTTCCTGCCTCAATCATTTACACCGATGTATATATCTCGACTAGGTCA
TCCACCGCTCATTGATTAGCTTAGTCGTATTCCGGTTAGGTACTTATTGAAGTGGAAGAAGGGCA
CCAATGCACGGGAATGCGCTCTTGATCGCTTAACCGCGGAAGCAAGCACAAGACACTCGAGAATA
GAGCCATTTAAGACAGGAAAATGAGCCTTTATAGGGAATCACCTTAAGCCAACTTGAAGTCATGC
TTTTCAGTACTTTTTTAAAAGCGCACTAAGAACCCCCCTTTTTTTCCGCCTTTCTTTTAGCTATA
TTTCGAGCTATATTATCTTGATTCTTCTGACTTCTTTTCCCACTCTTCTTCCCGGCTCCTTTCTC
TTCTGAGAGAGTGCGGGATGAATCAGCCTGGGGTGAGTCTGAGTCAATTAGGGATGAATCAGTCA
TAGCTTCTGAAAGAGGTTGAGCATCAACACTCTTTCTTTCTTTAG
Found at i:1051727 original size:15 final size:15
Alignment explanation
Indices: 1051707--1051748 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
1051697 TACAGCTCAG
1051707 TCATACCCTCTTTAC
1 TCATACCCTCTTTAC
*
1051722 TCATACCGTCTTTAC
1 TCATACCCTCTTTAC
*
1051737 TCATACCTTCTT
1 TCATACCCTCTT
1051749 CATGATGGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.19, C:0.36, G:0.02, T:0.43
Consensus pattern (15 bp):
TCATACCCTCTTTAC
Left flanking sequence: Indices 1051207 -- 1051706
ATCCGAACTACCTATCCGGTGAGTTCACTACTTCTTCCTATCATCACCTTTCTTCTTCTTCTTCT
TCTTCTTATTCTGTGCTTTCTCAGCTTTCCTTTTCTCTATATTTCTTTCTTTATTCTTCTTAGAA
CCTACTATCTCTTTATTCTTAGCTGCCTTCTTCTCCTCTGACGGAGAGCCTGTTTGGGATGAATC
AGTCTTATCTTCTTCCGGTTGGGGTTCATCAGTTAACTCTGTATGGGATGAATCAGTCTGAGCAT
CCGAAAGAGCCTGAGGTTTGGATTCATTAGTCATACCTTCTTCAGGAGGCTGCTCACTCCGACCT
TCTTCACTCTCCCCTTCTGAAGGAAGTTGCCCACTCTGAGCATCCGAAATAGGTTGGTTAGTCAT
ACCTTCTTCTTCAACCAGAGCTTCTTCAGGAGGCTGCTCACTCCGACCTTCTTCACTCTGAGCAT
CCTCAAGAGGTTGATCAGTCAGAGGTTGTTCAGGATACAGCTCAG
Right flanking sequence: Indices 1051749 -- 1052248
CATGATGGTCACTCCAAGCTTCTTCAGGTTGTTGGGGGGAATCAATCTTCACTTTCTTATGAGAC
TTCATCGATTCTATTTTTGAAATAATAGACTTCTTCTCATCTATCTCTTTTTCCATTTTAGCTAT
AGTCGTAGCTTTTTTCTCATCTGAGAATAGGTGTCGATCCGAACTATCTTTATAAGATAGAGTAT
GACCATATGCCACCTCTTTCTCATCATATTTTTTACGTACAGCATCTAATTCTTTTTGAAGAAGT
TTGATTTCAAATCGAAGTTTATAAATTATATACTCTTTATCACCGTCATCTGACACATCTATAGG
ATTTGTATCAAACCAGTATTCATTTTCTTCATATTCTTCATAGACTGCAATTCTTTTATTATTCA
GCTGCAACCCCATTTTGATAAGGGATTCCTTACGCAGTATATCCATACTGGATATATCTTTATAG
AAATGATGTATGTGCGCAACATCTTCAACACGATTCAAATCAAAA
Found at i:1054898 original size:25 final size:21
Alignment explanation
Indices: 1054864--1054943 Score: 82
Period size: 25 Copynumber: 3.9 Consensus size: 21
1054854 AAGCACATCA
1054864 GCTTCCGTAGCGTATTAGCTTTTTT
1 GCTTCCGTAGCGTATTAGC----TT
1054889 GCTTCCGTAGCGTATTAGC--
1 GCTTCCGTAGCGTATTAGCTT
1054908 GCTTCCGTAGCGTATTA----
1 GCTTCCGTAGCGTATTAGCTT
1054925 GCTTCCGTAGCGTATTAGC
1 GCTTCCGTAGCGTATTAGC
1054944 ATAGAAGAGA
Statistics
Matches: 53, Mismatches: 0, Indels: 10
0.84 0.00 0.16
Matches are distributed among these distances:
17 17 0.32
19 17 0.32
25 19 0.36
ACGTcount: A:0.15, C:0.24, G:0.24, T:0.38
Consensus pattern (21 bp):
GCTTCCGTAGCGTATTAGCTT
Left flanking sequence: Indices 1054364 -- 1054863
TATTTGAGAATTAGTCTCATAACAATCAAAGCAATTAGGTGAGTCTCTTCACATCTGAGGGGTAG
ATCAGCGCACTCCAGAAAAGAAACTTCAGCATATCTCTGCTCCCTATAAGGATCTTCAAAAAATT
CCCCCACCACTAGACTTTGAAACCTTGCGATATAACCTTGGAATTCTGCTTTCGAATAACCCAAC
GTCTTAGAAAAATAAGATCCATACTCCACACCATCAGAGTCCCACCAAACCCCTCCATAATGGCG
TTTATGACTAAATTGAGAGTTTGTGGTACCCAAATCTTCCACTTGTGATCTAATTGTCGATTTAT
GGAATATATCTCTTGTCTTAAGAGTTTGTTTTAGTGCTGTATTACCATTAATCGAGTGTAAGTAG
TTAGTTTTTAGTATCATGGGTACCATATCAATCATCAGACAAGCTTTTATGGCTTATCCAAGAGA
GAGGTTTTTTCTCTCTTAAAGTGTGTTTTCGAAGCAAGCACATCA
Right flanking sequence: Indices 1054944 -- 1055443
ATAGAAGAGAAGTGAGCGTATCATCGCATCTTCTAAAGGGAATTTCTTATGAATCCTGTGAATAT
TTAAATCGTTTAAATGATTTTTTAGTTTTTGAACAAAAATATTTATTTAATATGTTCAAAGCAGG
TTTATCTATTCGATACTGCCCTATACATAGTTCTGCTACAGGAATGTTGCAGAGTGTATACGGAC
AGACTGGTTTAATCTTACCAGCCATCTTAGGGGATGTGCTAGAGCGTATTAAAGATATAGTATGG
GTTGATGTTGTACATTTTCTATTTGTAGCGCCTAAAGAAGAAGATGTTATATATCCTCTTGGTGT
GAGTGAAAAAATAAGAACAGTCAGGCCTTTCACAACAATGGACTACGCTATGATCCCCCTAAAAA
AGAAAAGAGAAGTGGATCGTGAAATGATGAATATTGAATTAGGTCAATATAATGAACATTTTGGA
AGGAAGTTTTTTAACCAACCAGTCTTTACATTCCATCTATTCGAT
Found at i:1054913 original size:19 final size:19
Alignment explanation
Indices: 1054889--1054943 Score: 96
Period size: 17 Copynumber: 3.0 Consensus size: 19
1054879 TAGCTTTTTT
1054889 GCTTCCGTAGCGTATTAGC
1 GCTTCCGTAGCGTATTAGC
1054908 GCTTCCGTAGCGTATTA--
1 GCTTCCGTAGCGTATTAGC
1054925 GCTTCCGTAGCGTATTAGC
1 GCTTCCGTAGCGTATTAGC
1054944 ATAGAAGAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
17 17 0.50
19 17 0.50
ACGTcount: A:0.16, C:0.25, G:0.25, T:0.33
Consensus pattern (19 bp):
GCTTCCGTAGCGTATTAGC
Left flanking sequence: Indices 1054389 -- 1054888
TCAAAGCAATTAGGTGAGTCTCTTCACATCTGAGGGGTAGATCAGCGCACTCCAGAAAAGAAACT
TCAGCATATCTCTGCTCCCTATAAGGATCTTCAAAAAATTCCCCCACCACTAGACTTTGAAACCT
TGCGATATAACCTTGGAATTCTGCTTTCGAATAACCCAACGTCTTAGAAAAATAAGATCCATACT
CCACACCATCAGAGTCCCACCAAACCCCTCCATAATGGCGTTTATGACTAAATTGAGAGTTTGTG
GTACCCAAATCTTCCACTTGTGATCTAATTGTCGATTTATGGAATATATCTCTTGTCTTAAGAGT
TTGTTTTAGTGCTGTATTACCATTAATCGAGTGTAAGTAGTTAGTTTTTAGTATCATGGGTACCA
TATCAATCATCAGACAAGCTTTTATGGCTTATCCAAGAGAGAGGTTTTTTCTCTCTTAAAGTGTG
TTTTCGAAGCAAGCACATCAGCTTCCGTAGCGTATTAGCTTTTTT
Right flanking sequence: Indices 1054944 -- 1055443
ATAGAAGAGAAGTGAGCGTATCATCGCATCTTCTAAAGGGAATTTCTTATGAATCCTGTGAATAT
TTAAATCGTTTAAATGATTTTTTAGTTTTTGAACAAAAATATTTATTTAATATGTTCAAAGCAGG
TTTATCTATTCGATACTGCCCTATACATAGTTCTGCTACAGGAATGTTGCAGAGTGTATACGGAC
AGACTGGTTTAATCTTACCAGCCATCTTAGGGGATGTGCTAGAGCGTATTAAAGATATAGTATGG
GTTGATGTTGTACATTTTCTATTTGTAGCGCCTAAAGAAGAAGATGTTATATATCCTCTTGGTGT
GAGTGAAAAAATAAGAACAGTCAGGCCTTTCACAACAATGGACTACGCTATGATCCCCCTAAAAA
AGAAAAGAGAAGTGGATCGTGAAATGATGAATATTGAATTAGGTCAATATAATGAACATTTTGGA
AGGAAGTTTTTTAACCAACCAGTCTTTACATTCCATCTATTCGAT
Found at i:1059296 original size:19 final size:19
Alignment explanation
Indices: 1059272--1059309 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
1059262 TGAATACCCA
* *
1059272 ACCTACTCTTATTTTTTAG
1 ACCTACTCTGATATTTTAG
1059291 ACCTACTCTGATATTTTAG
1 ACCTACTCTGATATTTTAG
1059310 CTTAGCCGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.21, G:0.08, T:0.47
Consensus pattern (19 bp):
ACCTACTCTGATATTTTAG
Left flanking sequence: Indices 1058772 -- 1059271
CGCTGCAGATGTTAGATTGCAGTTGGCATTAGGAGATAGAAAGCAAAAGGAATGAATCTAGTGTA
CTTAGTCAAGGCAATCACAAACAAGAAAGCGGTTAGTCCTTATGCAACTAAGAGCACAGGAAGGA
AATCAAGCTGCATCTACAAAGAAAGAAAGAGATTAGCTCCTACAAGCTTGATAGAAACCAGTGCT
AGATATAAACCATTCTTATCTGTCCCTGGCTTATTTGTTGGTTTGATATTAAGGCTCAAGCACTC
AAAAAGTGTTCCTTTTTTTAGCTATTGTTTTGTGATGTGATGATAGAGATCACATTACCTATTAG
ATAAGGGTAGGCAACGAAACAAACAGGTTTTTTTCCACTACTAGCCTATAACCAACCACCCTTTT
CAAAATGAAACTGGGGAAACACACCTATGAAGATGGGTAAGCCGGTTGCTTCCTCTTTTTCCTCA
TTACTCGCAGGCACACCGGTTCCTGTGTTCATTTATGAATACCCA
Right flanking sequence: Indices 1059310 -- 1059809
CTTAGCCGACGAAAGAACGGAAAGAGCTCGGCCTGAGGTGAGGGATAGAAGCGAACCAGATTCAG
GAATCAGATGAGCTTTTATGGAAGCAGCGGCTATTCATAGATCTGGAGTTAGGCCCCTATAGCTT
CTACTTAGCAGCTCAAATAAAGTACACATAAGTACGCTCGCGTAAGTAAACAACCAGATCAGCTC
TCTTGGCGGATGTCAGTTCTGCCTGTTAGAGCTAAGGGAAGAGTGCCTACTAGGTGCTTTACTAA
AGGGACATGCGGTGTTTCACTCCATCGATAGAAAACTTGGAGGAAATAGCTTATTCAGAGTTATA
ATTATCCTCATTCTGTAAGAAATATGGATGGTCTGTTCTGACGACTCCTCGGCAAGAACTTATGG
AGATGGAGCCCGAGGTTTAAGAATTCCTAAAGAAAGACCCCTTGCGCCATCCAGCTCTCCCAACT
ACAAAGAGAAGACAGCCTAGCGCTACTAGGCAAGAAGAGCTAACA
Found at i:1063716 original size:24 final size:25
Alignment explanation
Indices: 1063666--1063719 Score: 83
Period size: 27 Copynumber: 2.1 Consensus size: 25
1063656 CGTATTATGA
1063666 TGAGTATTAGTTACATGCTGCTGTGAT
1 TGAGTATTAGTTACA--CTGCTGTGAT
1063693 TGAGTATTAGTTACA-TGCTGTGAT
1 TGAGTATTAGTTACACTGCTGTGAT
1063717 TGA
1 TGA
1063720 CTTCTGGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
24 12 0.44
27 15 0.56
ACGTcount: A:0.24, C:0.09, G:0.26, T:0.41
Consensus pattern (25 bp):
TGAGTATTAGTTACACTGCTGTGAT
Left flanking sequence: Indices 1063166 -- 1063665
TGCTTCCTAAAGAAGAATGTGTAACATATGAAATAGAAACTACAGCACAACCTAGTACAACCATA
GTAACGACTTGCCCTCCACTGGTGGATGCCTCTCTTATTACCACCTCTCCCAGATTTGAAGCTAA
GGATGCAAATGATGAGGGTATTATACCCGAGATAGCATGACTATCCTCTATACGTAGACTTTGCT
GTCTATCTAGTTCAGCCCAAACATTGGTATGTGGGAGATTGTTGATTCTTGATAGAGCAGAGCCT
ACGGTGGTAGCTGGTAGAATATGCTGAGGTGTGGAGCGAGCCAGGTTAGCTAAACTCAGTGGTTC
TGGAATACGTCTCATAGCGTTCGGGGACATAGAAAGTGGTGCATAATTAAGAGAACCTAGAGAGA
GACCATTACTTAGAGATAAACCATGCCTACCAGTACTTATAGGTTGGGGTAATCCATAGTTAGTT
CGTAGTGAAGGATCATGCCTAAACCCTCTTAGAGGCGTATTATGA
Right flanking sequence: Indices 1063720 -- 1064219
CTTCTGGATTGAACAATTGGGGGGATTACATTCGATACGACGGAACTGAACATATTGATAAAGGA
TTGCATTTGCTTTAGATTTCAAGGTCATTGGTAGGGACGTTCTTTCCCCACCTTTTTAGGATCTT
TATCTCTTAACCAGAAGCAAGCACATCAGCAAGAAAACGGCTGTGCGTTAGCACAACGGCTTTCG
CGCTAGGGCGCTCTACCGTTGCTTGTTGCTTAGGCTTTCGCGCTAGGCTTGAAACCGTTGCTTGT
TGCGCAACGGCTTTCGCGCTAGGCGCTCATCCCTTGCTTGTTGGGCCGTTGTACGGATTTTCTTC
CGTATCAACTAAGCTGTCGGCCAAAGTTATACGTTCTCCAATAGCAGTAGATTCCTCATGTTGAT
TGGCAACTATTGCACATGTCTTTAATTGTCTTTAATCCCACCGAGTCTGTAATTGAGCTAATTGT
CCCTTGAGCATTAGTGGCTCACCAGAAAGAAAGGAAAAGAACATT
Found at i:1064002 original size:41 final size:40
Alignment explanation
Indices: 1063903--1064022 Score: 127
Period size: 41 Copynumber: 3.0 Consensus size: 40
1063893 TGCGTTAGCA
**
1063903 CAACGGCTTTCGCGCTAGGGCGCTCTACCGTTGCTTGTTGC
1 CAACGGCTTTCGCGCTA-GGCGCTAAACCGTTGCTTGTTGC
** *
1063944 TTA-GGCTTTCGCGCTAGGC-TTGAAACCGTTGCTTGTTGC
1 CAACGGCTTTCGCGCTAGGCGCT-AAACCGTTGCTTGTTGC
* * *
1063983 GCAACGGCTTTCGCGCTAGGCGCTCATCCCTTGCTTGTTG
1 -CAACGGCTTTCGCGCTAGGCGCTAAACCGTTGCTTGTTG
1064023 GGCCGTTGTA
Statistics
Matches: 64, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
38 1 0.02
39 18 0.28
40 14 0.22
41 30 0.47
42 1 0.02
ACGTcount: A:0.11, C:0.29, G:0.28, T:0.32
Consensus pattern (40 bp):
CAACGGCTTTCGCGCTAGGCGCTAAACCGTTGCTTGTTGC
Left flanking sequence: Indices 1063403 -- 1063902
TGATTCTTGATAGAGCAGAGCCTACGGTGGTAGCTGGTAGAATATGCTGAGGTGTGGAGCGAGCC
AGGTTAGCTAAACTCAGTGGTTCTGGAATACGTCTCATAGCGTTCGGGGACATAGAAAGTGGTGC
ATAATTAAGAGAACCTAGAGAGAGACCATTACTTAGAGATAAACCATGCCTACCAGTACTTATAG
GTTGGGGTAATCCATAGTTAGTTCGTAGTGAAGGATCATGCCTAAACCCTCTTAGAGGCGTATTA
TGATGAGTATTAGTTACATGCTGCTGTGATTGAGTATTAGTTACATGCTGTGATTGACTTCTGGA
TTGAACAATTGGGGGGATTACATTCGATACGACGGAACTGAACATATTGATAAAGGATTGCATTT
GCTTTAGATTTCAAGGTCATTGGTAGGGACGTTCTTTCCCCACCTTTTTAGGATCTTTATCTCTT
AACCAGAAGCAAGCACATCAGCAAGAAAACGGCTGTGCGTTAGCA
Right flanking sequence: Indices 1064023 -- 1064522
GGCCGTTGTACGGATTTTCTTCCGTATCAACTAAGCTGTCGGCCAAAGTTATACGTTCTCCAATA
GCAGTAGATTCCTCATGTTGATTGGCAACTATTGCACATGTCTTTAATTGTCTTTAATCCCACCG
AGTCTGTAATTGAGCTAATTGTCCCTTGAGCATTAGTGGCTCACCAGAAAGAAAGGAAAAGAACA
TTACAAGCAAAGAAAACAAAAAAAGAAAAGCCTTCTACGAGGCGAAATCTTCTTGAGCCTTCTCT
TCTCGAGGTCAGCTCGTCGAGACGCCTGAACATCCCTAGCAGCGTTAGCCTCGGTACCAAGGTTG
ATCTGTTCAGCCCGGGCAGCGTGAAGTTCATCAATCGCCACTTGACGTGACGCCCTGTTCACCTC
CAAGATAGCCTGGGGCGATGAAACCCTCTGACTAGCTTCCGCCAAGAGTAGGATCTGCTTGAACA
GTTGCTGCTTGCTCTCCTTTACCTTACTCTCTTGAGACTCGATCA
Found at i:1065874 original size:64 final size:64
Alignment explanation
Indices: 1065773--1065894 Score: 244
Period size: 64 Copynumber: 1.9 Consensus size: 64
1065763 ATTACCACTA
1065773 CAACAAGCAACGGATGAGCGCTAACGCGCGAAAGCCCCATTCAATAAACGTAAGGTGCGTTAGC
1 CAACAAGCAACGGATGAGCGCTAACGCGCGAAAGCCCCATTCAATAAACGTAAGGTGCGTTAGC
1065837 CAACAAGCAACGGATGAGCGCTAACGCGCGAAAGCCCCATTCAATAAACGTAAGGTGC
1 CAACAAGCAACGGATGAGCGCTAACGCGCGAAAGCCCCATTCAATAAACGTAAGGTGC
1065895 TAACGCCTTT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.35, C:0.27, G:0.25, T:0.13
Consensus pattern (64 bp):
CAACAAGCAACGGATGAGCGCTAACGCGCGAAAGCCCCATTCAATAAACGTAAGGTGCGTTAGC
Left flanking sequence: Indices 1065273 -- 1065772
GCCCCATAAAGGGCGTCAGGTCTCATCCGAGGAAGATAAGTTCATTGCCGAGGCCATGAGCTTGG
GACCCGTGTACTCTGGCAATGGCTCTGCACCCGAATCATCTTCGTCTGAACCTTCGAACTCAACG
GCTTCGTGCTCTTCTTCCTCGACTACCACCTCCTTACCTTTGTAAGAAGTAGAGGCAGGAGGTTA
TTTTCAAGATCTGGGTTGTAGTAGAGAACAGTAAAGAAAATAAAAAAAACGAAGGGTCTACACTG
CTCTCCACAATAGGTTTCGGCGCGCTCCCAGCTTGCTTCGGCAATCGGCAAGTTCTTCCACTTCA
CCAAAGACTCCATATGTGCCTTGTTGTCCCAGAAATTCTCGCCTTCTTCGATGAAAAAATCGTTG
CTCTTGTGGGTGGATAAAACACCCATACTTTCTATCGTGAAGATGTACTTGGTTTGCTCTGAAGC
TGGTGGCATTAGGTTATTAAGTAGCTCTTATAGACATTACCACTA
Right flanking sequence: Indices 1065895 -- 1066394
TAACGCCTTTATATATATAGGGCGTTTTCTTGCTTATATATAGGGCGTTTTCTTGCTTAGATCTC
CCCTTCTTTCATGCATGTGTTAAGCATTTCACATAGTTCGCTTAGTAATCCGCTATAACATGAAA
ATGAGACTCGAAATACGGGGTTTTAGCACTCAAAAAGAGAGGTTTTGCTTACATTCAAAAAAAGC
ATACTCTACGAGAATAGCTTAAAAAGTGCCAAAAAAACGCTTTTCATTGAAAAATCCCGGGAAAA
CGCAAAAGTCCTTGCTCTGGTTGCCGAGACTAGACCGCTAACTCATATCCCTTCTCTCCAGTAAG
TGCAGTGAAGGACTCTCGCCTCACCCGCCCGTTTGACTTATGGCATCATCGATTTGCTTTTCAAC
CTAAGCGATTTCATAACCAGAAAGAAAGACCTCTCTTTCGGGATCAGTCCCGTCCCTAGATGTAG
TAGTCAATCAGCGGGACATTCAAAGAAGCTATGCACCTTCACTGA
Found at i:1065935 original size:23 final size:23
Alignment explanation
Indices: 1065906--1065953 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
1065896 AACGCCTTTA
1065906 TATATATAGGGCGTTTTCTTGCT
1 TATATATAGGGCGTTTTCTTGCT
1065929 TATATATAGGGCGTTTTCTTGCT
1 TATATATAGGGCGTTTTCTTGCT
1065952 TA
1 TA
1065954 GATCTCCCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.19, C:0.12, G:0.21, T:0.48
Consensus pattern (23 bp):
TATATATAGGGCGTTTTCTTGCT
Left flanking sequence: Indices 1065406 -- 1065905
TCGTGCTCTTCTTCCTCGACTACCACCTCCTTACCTTTGTAAGAAGTAGAGGCAGGAGGTTATTT
TCAAGATCTGGGTTGTAGTAGAGAACAGTAAAGAAAATAAAAAAAACGAAGGGTCTACACTGCTC
TCCACAATAGGTTTCGGCGCGCTCCCAGCTTGCTTCGGCAATCGGCAAGTTCTTCCACTTCACCA
AAGACTCCATATGTGCCTTGTTGTCCCAGAAATTCTCGCCTTCTTCGATGAAAAAATCGTTGCTC
TTGTGGGTGGATAAAACACCCATACTTTCTATCGTGAAGATGTACTTGGTTTGCTCTGAAGCTGG
TGGCATTAGGTTATTAAGTAGCTCTTATAGACATTACCACTACAACAAGCAACGGATGAGCGCTA
ACGCGCGAAAGCCCCATTCAATAAACGTAAGGTGCGTTAGCCAACAAGCAACGGATGAGCGCTAA
CGCGCGAAAGCCCCATTCAATAAACGTAAGGTGCTAACGCCTTTA
Right flanking sequence: Indices 1065954 -- 1066453
GATCTCCCCTTCTTTCATGCATGTGTTAAGCATTTCACATAGTTCGCTTAGTAATCCGCTATAAC
ATGAAAATGAGACTCGAAATACGGGGTTTTAGCACTCAAAAAGAGAGGTTTTGCTTACATTCAAA
AAAAGCATACTCTACGAGAATAGCTTAAAAAGTGCCAAAAAAACGCTTTTCATTGAAAAATCCCG
GGAAAACGCAAAAGTCCTTGCTCTGGTTGCCGAGACTAGACCGCTAACTCATATCCCTTCTCTCC
AGTAAGTGCAGTGAAGGACTCTCGCCTCACCCGCCCGTTTGACTTATGGCATCATCGATTTGCTT
TTCAACCTAAGCGATTTCATAACCAGAAAGAAAGACCTCTCTTTCGGGATCAGTCCCGTCCCTAG
ATGTAGTAGTCAATCAGCGGGACATTCAAAGAAGCTATGCACCTTCACTGAATGTTAATGAAAGC
AAGCCCTTTCATCCTAATCTCATCTACTGAAAAGGGGGCCGGGCG
Found at i:1089383 original size:27 final size:27
Alignment explanation
Indices: 1089345--1089398 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
1089335 TCTATTTATC
*
1089345 CGGCTATGCCCTCAATCGGCGGGGCCT
1 CGGCTATGCCCTCAAACGGCGGGGCCT
1089372 CGGCTATGCCCTCAAACGGCGGGGCCT
1 CGGCTATGCCCTCAAACGGCGGGGCCT
1089399 TATTCGCTCG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.13, C:0.37, G:0.33, T:0.17
Consensus pattern (27 bp):
CGGCTATGCCCTCAAACGGCGGGGCCT
Left flanking sequence: Indices 1088845 -- 1089344
AATAAGATGCACGAGATGGAAGCTGAACCTAGTGAGGGAGTGACTGAAGTACATATCTCCTACTA
CTGTGCGAACAGAAGAGAAAGAACAAGACGAAGGCCTAGTAAAACTTAGCTAGGAGAAGCAGAAG
TGCAGAACCACAAGATGGTGCAATACATCCTGGTGGTGGCAGTAGCAGTAATGTTGGACTTTTGA
GAGCCAATGCATGGGAAACAGATTTATATGAAGAGTAGTGGTTTTGGCGCACAATATAGTAGAAG
AGAGCCTAGCCCCAAGCATACAAATGCAACACATAGAGGTGGAGGGAGTAAGAACCAAGTGTCTG
CAAGCACTATAAATCCTAAGAAGGTGAAATAGATGGCGACAAACCTTGGGTGCTGGAACATGAGA
GGCTTTAATAAACCCTAATAACATACTGAAGTGAAAAGAATGATTATGAAACATTCACTTTATTT
CATGGGTTTAGTAGAAACAAGGCTGAAGGAGGTTCTCTATTTATC
Right flanking sequence: Indices 1089399 -- 1089898
TATTCGCTCGGGTCCCATCGAAAGATGAGCCCCTCCCTGTGCTAGTAAGCTGCAAGGACTCACTC
TTAACCGATAGCTGCAGGGCGAAGGACACTGCAACAACCGAGGTTAGCTCTATTAACCAGTAGCC
GCGTCCACTCACTGCAACAACCGAGGTTAACTCCCTTACCCGATAGCTGCATCGATCGAGTCGGC
AACATAAGGAGTTAGCTCTCTCTTTACCCGTAGCAGCACGGGGTACCCAATCTGGACACTACAAC
ACTGCTAAGAGTTTACCTCACAAGCCCAGTTTACGGGCCATCCCCGAGACCCGCTACTGCCCATA
CGGGAGGGATTGTGCGACCTCTCTTTTCTCGTAAGTGATGAATGAAAGTTCTAAGGCAGAGTTAG
AAGTAGTCGGGTATGCTTCCAGGAAGTGCAACTGCGCATCAGTCTCAAAGACAGCACCTATGACT
ACGGCTAAAGCTACTTAGACACGAGACGGCATCCATCGGAGAAAG
Found at i:1091656 original size:28 final size:28
Alignment explanation
Indices: 1091616--1091671 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
1091606 TGATCCGCTT
1091616 CTTCTCATATATGTGCACTACTCTCTAA
1 CTTCTCATATATGTGCACTACTCTCTAA
*
1091644 CTTCTCTTATATGTGCACTACTCTCTAA
1 CTTCTCATATATGTGCACTACTCTCTAA
1091672 TCTGATCGCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.23, C:0.29, G:0.07, T:0.41
Consensus pattern (28 bp):
CTTCTCATATATGTGCACTACTCTCTAA
Left flanking sequence: Indices 1091116 -- 1091615
CTTTCTGCCGTGAACTGCCAAAGTGGTTAGTCTGCGACCCCCCTCATTTCCCGTAAGTGAGAGCA
CTGCCCGAACTCCATTCTAGAAGGCCACCTGCGCTACCAATCCATCTAAATAAGGTCTTCTCCCG
TGTTCTTCCCTGTTCCTATGGTCTTGACCTGCAAAGTGATTTCCGAAAGCTCCCACCATGACTAA
AAAGCTCCCAATAGGCAAAGTAGCCGCTTATATTAGAATATAGTAAGTAGGAAGGAGCTCTAGAT
GGGATTCACACGCAGCTTCTTTTTTTATATTGACCCTATGCGCCTGCTCTTTAGGGGACCTGGGA
TGAATCTCCGACCGTAGCGTAGCCTTCGCGTCCCTTTTTTCCAATTCTGTTTAGCAATCGATAAG
ATCGGTCAAACGAAGGGCTTCCTTTTCTTTCCGATCAGATACATAAATCAAAGAAAGAGAAAAAA
CATCTCCGATGAGATCATACTCTAGGCATCCCTTTTGATCCGCTT
Right flanking sequence: Indices 1091672 -- 1092171
TCTGATCGCTTGCCGTAGATGTTGATGTGATCAGGTGAGAGGTGTTGTAGAGAGAACAGAAAGAA
GCTCTAAGATGAGCAAGAAAACGTATGCAGCAAGAAAACGTATGTGCGTGAGCAAGGAAACGGCT
GTGCGGGAGCTACTGAGCAAGGAAATGTATGCTAGCTCATCTCGTTTCGCTAACGCTACACTCGT
TCTACGCTAGCTACATATACAGTTCTTCCGCGCTCCATCCGTTGCTTGTTGACTACGACCCGACA
TAAATGCCAGTGGGTGCTATGTAGGCTCATTGGTCCCGCCGCTTTGTTGATTGAAAAGCTATGTC
AAAGCGCTTCCTCTCCCTGCCTCTTAGTGGCCATTTCTCTACATATATATGATATGATAAGGACA
CGACTCTCTATATATGATAATTGGTTGAAGTAAGCTAATTCTCTAAGCTCGCTAGTCATCTACTA
TCGCTAGCTTGCTTGTTACGCTAGTAAGACGAACTTGCCCGCCTC
Found at i:1091770 original size:17 final size:17
Alignment explanation
Indices: 1091748--1091780 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
1091738 CTCTAAGATG
1091748 AGCAAGAAAACGTATGC
1 AGCAAGAAAACGTATGC
1091765 AGCAAGAAAACGTATG
1 AGCAAGAAAACGTATG
1091781 TGCGTGAGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.15, G:0.24, T:0.12
Consensus pattern (17 bp):
AGCAAGAAAACGTATGC
Left flanking sequence: Indices 1091248 -- 1091747
TTCTTCCCTGTTCCTATGGTCTTGACCTGCAAAGTGATTTCCGAAAGCTCCCACCATGACTAAAA
AGCTCCCAATAGGCAAAGTAGCCGCTTATATTAGAATATAGTAAGTAGGAAGGAGCTCTAGATGG
GATTCACACGCAGCTTCTTTTTTTATATTGACCCTATGCGCCTGCTCTTTAGGGGACCTGGGATG
AATCTCCGACCGTAGCGTAGCCTTCGCGTCCCTTTTTTCCAATTCTGTTTAGCAATCGATAAGAT
CGGTCAAACGAAGGGCTTCCTTTTCTTTCCGATCAGATACATAAATCAAAGAAAGAGAAAAAACA
TCTCCGATGAGATCATACTCTAGGCATCCCTTTTGATCCGCTTCTTCTCATATATGTGCACTACT
CTCTAACTTCTCTTATATGTGCACTACTCTCTAATCTGATCGCTTGCCGTAGATGTTGATGTGAT
CAGGTGAGAGGTGTTGTAGAGAGAACAGAAAGAAGCTCTAAGATG
Right flanking sequence: Indices 1091781 -- 1092280
TGCGTGAGCAAGGAAACGGCTGTGCGGGAGCTACTGAGCAAGGAAATGTATGCTAGCTCATCTCG
TTTCGCTAACGCTACACTCGTTCTACGCTAGCTACATATACAGTTCTTCCGCGCTCCATCCGTTG
CTTGTTGACTACGACCCGACATAAATGCCAGTGGGTGCTATGTAGGCTCATTGGTCCCGCCGCTT
TGTTGATTGAAAAGCTATGTCAAAGCGCTTCCTCTCCCTGCCTCTTAGTGGCCATTTCTCTACAT
ATATATGATATGATAAGGACACGACTCTCTATATATGATAATTGGTTGAAGTAAGCTAATTCTCT
AAGCTCGCTAGTCATCTACTATCGCTAGCTTGCTTGTTACGCTAGTAAGACGAACTTGCCCGCCT
CTTTGGTCGAGAAGTTCCCTTTACTAGTCTCTTATGTGCTTTCTTGTAGCGATAGTACTGAACTC
TAGGAGTGGACGAGCGGTAGTGAGAGAGAGGGGCATGCATCTATC
Found at i:1091804 original size:22 final size:22
Alignment explanation
Indices: 1091765--1091811 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
1091755 AAACGTATGC
* *
1091765 AGCAAGAAAACGTATGTGCGTG
1 AGCAAGAAAACGGATGTGCGGG
* *
1091787 AGCAAGGAAACGGCTGTGCGGG
1 AGCAAGAAAACGGATGTGCGGG
1091809 AGC
1 AGC
1091812 TACTGAGCAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.17, G:0.38, T:0.13
Consensus pattern (22 bp):
AGCAAGAAAACGGATGTGCGGG
Left flanking sequence: Indices 1091265 -- 1091764
GGTCTTGACCTGCAAAGTGATTTCCGAAAGCTCCCACCATGACTAAAAAGCTCCCAATAGGCAAA
GTAGCCGCTTATATTAGAATATAGTAAGTAGGAAGGAGCTCTAGATGGGATTCACACGCAGCTTC
TTTTTTTATATTGACCCTATGCGCCTGCTCTTTAGGGGACCTGGGATGAATCTCCGACCGTAGCG
TAGCCTTCGCGTCCCTTTTTTCCAATTCTGTTTAGCAATCGATAAGATCGGTCAAACGAAGGGCT
TCCTTTTCTTTCCGATCAGATACATAAATCAAAGAAAGAGAAAAAACATCTCCGATGAGATCATA
CTCTAGGCATCCCTTTTGATCCGCTTCTTCTCATATATGTGCACTACTCTCTAACTTCTCTTATA
TGTGCACTACTCTCTAATCTGATCGCTTGCCGTAGATGTTGATGTGATCAGGTGAGAGGTGTTGT
AGAGAGAACAGAAAGAAGCTCTAAGATGAGCAAGAAAACGTATGC
Right flanking sequence: Indices 1091812 -- 1092311
TACTGAGCAAGGAAATGTATGCTAGCTCATCTCGTTTCGCTAACGCTACACTCGTTCTACGCTAG
CTACATATACAGTTCTTCCGCGCTCCATCCGTTGCTTGTTGACTACGACCCGACATAAATGCCAG
TGGGTGCTATGTAGGCTCATTGGTCCCGCCGCTTTGTTGATTGAAAAGCTATGTCAAAGCGCTTC
CTCTCCCTGCCTCTTAGTGGCCATTTCTCTACATATATATGATATGATAAGGACACGACTCTCTA
TATATGATAATTGGTTGAAGTAAGCTAATTCTCTAAGCTCGCTAGTCATCTACTATCGCTAGCTT
GCTTGTTACGCTAGTAAGACGAACTTGCCCGCCTCTTTGGTCGAGAAGTTCCCTTTACTAGTCTC
TTATGTGCTTTCTTGTAGCGATAGTACTGAACTCTAGGAGTGGACGAGCGGTAGTGAGAGAGAGG
GGCATGCATCTATCCACTTTGAGGCAGGAAGATAGGACTTCTTAT
Found at i:1094886 original size:64 final size:63
Alignment explanation
Indices: 1094785--1094912 Score: 222
Period size: 64 Copynumber: 2.0 Consensus size: 63
1094775 ACGAGAAGGG
1094785 AACAAGCAACTCCTGAGCGCGCTAGCGCGAAAGCCCCATTCAATAAACGTAAGGTGCGTTAGCC
1 AACAAGCAACTCCTGA-CGCGCTAGCGCGAAAGCCCCATTCAATAAACGTAAGGTGCGTTAGCC
1094849 AACAAGCAACTCCTGA-GCGCTAACGCGCGAAAGCCCCATTCAATAAACGTAAGGTGCGTTAGCC
1 AACAAGCAACTCCTGACGCGCT-A-GCGCGAAAGCCCCATTCAATAAACGTAAGGTGCGTTAGCC
1094913 CTTTATATAT
Statistics
Matches: 62, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
62 5 0.08
63 1 0.02
64 56 0.90
ACGTcount: A:0.32, C:0.30, G:0.23, T:0.16
Consensus pattern (63 bp):
AACAAGCAACTCCTGACGCGCTAGCGCGAAAGCCCCATTCAATAAACGTAAGGTGCGTTAGCC
Left flanking sequence: Indices 1094285 -- 1094784
GCGCGTAGCATGAAGAAAAGAGAAATCTTCGGGTTCCCATTAGCTTTCCTATGGCTGGACAGCTC
CCCCATCTTTAGACGGCGGTGAAAGAACCACTGGATTCAGTTAAGTTTTCCCCCCGGATCTAAAA
AATTATGCATCCCCGGCTAAGCGCGGAGAAGGGAGGCGAAAGGATCGGGTAACGAGGTCGCACAA
TTAGGATCCTGGTTATCGCCAGAGTCCTAGCTGCCTAGCATTTGCCCTTTAATGAAAATCATCTG
AATCTTAGAAGCATCGGTCGGCCTCAAGAGCCTTTGTTTCCTCTTTGGATTGAGAAACTGAGTCT
ATATGACTCCGGAGATGCTCCATAAGTATGGTAAGTATGGCAATTCGGATCAGGGAAATGAGCTC
CTGGCTGGAATGGCCCATTTCACTACATCTATTGTTTTGGCCTTCGTAAATGGAGCGAGTGAAAG
CCATTCAGAGGCGGACTATTGAAAGCAAAGTCAGGACGAGAAGGG
Right flanking sequence: Indices 1094913 -- 1095412
CTTTATATATATAGGGCGTTTTCTTGCTTATATATAGGGCGTTTTCTTGCTCTAGGCGCATTACG
ATCTGCAGCTCGGTACCATATGAATTCATTCTCTCTGTACTTCTCTTTGTAATTGGGATATATGG
CTGAGTGGACACGGACTAAGGCAGATGATTAATCCGTTGAGGATCAGGGAAGAAAAGAAATAGAA
TAGGTCCAGGCCTTTACTTTAGTAGGTGGATTTGGTTATCATTTAGGTAGAGATCTAAACTGACT
TTCATCCCGCTAATGGTGATCGATAGACACTTTCCTCCCGAAAAGCGCTTTGGCTACGTAACGTT
AAGCTACGCGCTTAGGGTCGGTATTACGAGAAGGCGGCATGCCATACCAACCACTGCTCTTACCG
CAAAGAAAGAGATGTAGTTTCGAAACTCAGTCATATTGGCTGGTGGCCCTTCAAAATCTTCATTG
ACTGGAATCGCTTGACCAGCAGGCTGTCTTATACCTTGTATCGGA
Found at i:1094945 original size:23 final size:23
Alignment explanation
Indices: 1094918--1094963 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
1094908 TAGCCCTTTA
1094918 TATATATAGGGCGTTTTCTTGCT
1 TATATATAGGGCGTTTTCTTGCT
1094941 TATATATAGGGCGTTTTCTTGCT
1 TATATATAGGGCGTTTTCTTGCT
1094964 CTAGGCGCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.17, C:0.13, G:0.22, T:0.48
Consensus pattern (23 bp):
TATATATAGGGCGTTTTCTTGCT
Left flanking sequence: Indices 1094418 -- 1094917
TATGCATCCCCGGCTAAGCGCGGAGAAGGGAGGCGAAAGGATCGGGTAACGAGGTCGCACAATTA
GGATCCTGGTTATCGCCAGAGTCCTAGCTGCCTAGCATTTGCCCTTTAATGAAAATCATCTGAAT
CTTAGAAGCATCGGTCGGCCTCAAGAGCCTTTGTTTCCTCTTTGGATTGAGAAACTGAGTCTATA
TGACTCCGGAGATGCTCCATAAGTATGGTAAGTATGGCAATTCGGATCAGGGAAATGAGCTCCTG
GCTGGAATGGCCCATTTCACTACATCTATTGTTTTGGCCTTCGTAAATGGAGCGAGTGAAAGCCA
TTCAGAGGCGGACTATTGAAAGCAAAGTCAGGACGAGAAGGGAACAAGCAACTCCTGAGCGCGCT
AGCGCGAAAGCCCCATTCAATAAACGTAAGGTGCGTTAGCCAACAAGCAACTCCTGAGCGCTAAC
GCGCGAAAGCCCCATTCAATAAACGTAAGGTGCGTTAGCCCTTTA
Right flanking sequence: Indices 1094964 -- 1095463
CTAGGCGCATTACGATCTGCAGCTCGGTACCATATGAATTCATTCTCTCTGTACTTCTCTTTGTA
ATTGGGATATATGGCTGAGTGGACACGGACTAAGGCAGATGATTAATCCGTTGAGGATCAGGGAA
GAAAAGAAATAGAATAGGTCCAGGCCTTTACTTTAGTAGGTGGATTTGGTTATCATTTAGGTAGA
GATCTAAACTGACTTTCATCCCGCTAATGGTGATCGATAGACACTTTCCTCCCGAAAAGCGCTTT
GGCTACGTAACGTTAAGCTACGCGCTTAGGGTCGGTATTACGAGAAGGCGGCATGCCATACCAAC
CACTGCTCTTACCGCAAAGAAAGAGATGTAGTTTCGAAACTCAGTCATATTGGCTGGTGGCCCTT
CAAAATCTTCATTGACTGGAATCGCTTGACCAGCAGGCTGTCTTATACCTTGTATCGGATTATTA
ATCTCAATCATCCGGGGGAACGAATAGCAACCAGGATTGGATCTA
Found at i:1105035 original size:19 final size:18
Alignment explanation
Indices: 1105011--1105055 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
1105001 TTATTTCTTC
*
1105011 TCTTCTTTCTATACGCTAT
1 TCTTCTATCTA-ACGCTAT
* *
1105030 TCTTCTATCTAGCGCTTT
1 TCTTCTATCTAACGCTAT
1105048 TCTTCTAT
1 TCTTCTAT
1105056 TTTCTATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 13 0.57
19 10 0.43
ACGTcount: A:0.13, C:0.27, G:0.07, T:0.53
Consensus pattern (18 bp):
TCTTCTATCTAACGCTAT
Left flanking sequence: Indices 1104511 -- 1105010
ACGAAGGTTACCGGGGTCTAGGTTTATGGATGGATTCAGTCAGCGCCAACTCAATCAATATCAAC
AACATGTCGTTACCGGTTAGGTTAGGCTTGGTTGATGACTTTGTCAGAAAAGAAAGTAGGGTTCG
GGGGTTCATTGATTAGTAAACCTCAGGTGCTGGTAAGGTCGGGACCGTGGTCGTCCGTCTCCGGT
TTGCCGGCCGATAAGATCTCTGAGATTGACCAGCCAGCTGGGTTGGTTTGGCTATTCCTTTCTAT
TGAAAAGGAGTCAGCTGTCTGCGCGAGTCACTTCTATTCTTTTAACTAGCTAGCCATATGAGAAC
AGAGACATAGAAATTCTTTTCTTACAGCTGCTAAAGGATACCGGACTGCGACCCGACACGAATGC
CAGTGGGCGCTATTGCAGTCACATTGGCCCTGCCGCTTTGTCGAACGGAATGCTATGTCAAAGCT
CAAACAAATTACCCATTTCTAATGAGACGACTCTTTTATTTCTTC
Right flanking sequence: Indices 1105056 -- 1105555
TTTCTATTTATATGGGAATCTTGTTAAGATTGAACATTGCCTTTCTGGTTCTATTCAACTTTGTT
TTTAAGATTATTCCAGTTATAGGATCAGGCTAAGAGAACGATAAGAGCATAAAGAGAGCCAAGTC
ATAGCGACTCTTATCATTAAGATTCGCTCTATTATGACAATACTTCTCACACTTTCGTTGACAAT
CTATGATACTTCATCCCGTGTCTTGCCCCGCAGTGATTTCGACTGGCCTTTCTTTCTACTCAAGA
GTAGGAGATCGAGTAGTGGATTCTCCCCTCGCCTTAACCCTCCGAGCAGCTGGCCTGTACTGGCG
GAGGGTTAAGGCGAGGAATGAATGGGATCGGATTGGATCAATAGCTTTGTGCTGATCTACGAACG
ACCCTTCTATTTTATTTGATTTCTACTTCTTCAAGTCTCCATCATCCCGATCTCTCTTTCCGGGT
TTGCCTGTCCAAAGAAAACAGAACCTCTTCGGCCTCAAACCAATC
Found at i:1110318 original size:38 final size:38
Alignment explanation
Indices: 1110267--1110341 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
1110257 GCTTGTTGCA
1110267 CAACGGCAGCAAGAAAACGGATGCGCGTGACTAACGCG
1 CAACGGCAGCAAGAAAACGGATGCGCGTGACTAACGCG
*
1110305 CAACGGCAGCAAGAAAACGTATGCGCGTGACTAACGC
1 CAACGGCAGCAAGAAAACGGATGCGCGTGACTAACGC
1110342 TTAGGCTTTC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.35, C:0.27, G:0.29, T:0.09
Consensus pattern (38 bp):
CAACGGCAGCAAGAAAACGGATGCGCGTGACTAACGCG
Left flanking sequence: Indices 1109767 -- 1110266
CAAAACTTCATTTTGTCTTTCCCTTTGCTTCCTTAGGCCCCTCAAGAGATTGAACAAAGAAGCCC
CATTGATTGGATATGGTTCCATCTCCCAGTGGTGAGCAAACAACAGCCCCCGATCCGCTAAGGTA
TAAAAATAGAGGCAAGCCGAATCTTTCTCCTAAAGAGTTTCTCTGAGTAGTCTATCAAAGCACAA
CGAGAATGGCTCTGACTAAGTATCTGGTGGCTGTGAAGCTAGAAAAAAGCCAGACCAGATAAGGC
AGGTTTTATGTTATTAACAACCAGAAGGTAGCGATTTGAGACTTGGAGCATTAGATATCAAGAAC
AAGGAAAGATATGGGCATAAATCACGAAAGAAAGCTGGGTTGTACCAACTCGATTATCAGCCCTC
CTTCTCATTTAGGAGTCAGCAAGAAAGGCGGTGTGCGTGAGCAAGAAAACGGGTGTGCGTGACTA
ACGCTTAGGCTTTCGCGCGTTAGCACTCAGCCCTTGCTTGTTGCA
Right flanking sequence: Indices 1110342 -- 1110841
TTAGGCTTTCGCGCTAGTGCACTCAGCCGTTGCTTGTTGCTAGCGCTTATCCGTTGTTTGTTGGC
TTATAGTTAGCAGTTTAGGGCAGGTCTTACATGCGAGTAGTGAACAGTCAGCTTCACGCCTTAGC
TACCCGCATAGTCAACCAGTTCCTTCGATTGCTATTCTCTCCCAAGGTATGCCCTCTTTTTGAAC
CTTGAGCACGTCGTTAGAGCTTCTTTAGCTATCTGGCTCTTTAGAGATTGAGGGCTGCTCCATCC
CATTCTTTCATGCATGTGTTAAGCATTGAAGAGAGTTCGCTTAGTCATCAGCTCTATCAGGAAAA
GCAAAGTCAGTAAGATCAGGATTCACACGCCATCATGGCATGCGGTAAATCAATCCTGTGACTGG
CGCTCTCTGAAGATCTTATTAGCGAGATGGTCCTCCAAGCAAGAGAGATTAGGGCTTACCTTGAC
TAGCAGTGGGTCCTCGAAGCTGCAATCGGGTAGTGAAAGGTCTCC
Found at i:1115051 original size:19 final size:19
Alignment explanation
Indices: 1115027--1115066 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
1115017 GACAAACCAG
1115027 CTATTT-CTGACAAGTCTTT
1 CTATTTCCT-ACAAGTCTTT
1115046 CTATTTCCTACAAGTCTTT
1 CTATTTCCTACAAGTCTTT
1115065 CT
1 CT
1115067 TCATTTTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 18 0.90
20 2 0.10
ACGTcount: A:0.20, C:0.25, G:0.07, T:0.47
Consensus pattern (19 bp):
CTATTTCCTACAAGTCTTT
Left flanking sequence: Indices 1114527 -- 1115026
GTCATTACCTGTAAGGCAAGCCCCCCCTCATACTAGGAGATGCATCTTACTACTTTCTAAGCTTT
CTCTCTTGTCTCGCCAATCGTTTATTTCCGTATAAGAGAACTGTCTTGCTGGGTGGAATATATGC
AGATGATATCTTTCCCCACAAACTCTCTTTCGCTACGCCCCTTAACTCTTGAACTACTTGAACAA
GGAAGGCAGGGGGCGTATATAAGATCGCGGCTGCTTTTAGGAGTGATCTTTCCCTCTGTGCGTAG
AAAAGAAAGGTTTTGTTTCGAGCGAGGAGCTATGACAATTGCCCTCGTGGATGGGGATGGAAGAG
AGAGCGTCACCCAAATTATCATATAATAAATAAAGAGAGGAATGACTTCTCTCTTTTCTAACTGA
GTCCCGCACCCGGACTCAAACCTCGAGGAGAGGGTAGCTGAAAGAGCGCTTCTCCGAGAGACATG
ATTCGAAAGGGTGCATCCCATGTCTTTCTTGGTTGGACAAACCAG
Right flanking sequence: Indices 1115067 -- 1115566
TCATTTTTAGAGCAAGAAGCGGAACTCATTCTTGTCTTGAACTCATTTATGTCATTACTACTTTT
CCTACGAGAGAATCTTCCAAAGATTAAGTGCTATCTTGAGAAAAAGAGTCCCTTAATGATAGCTG
TAGTAGTCTACGTGTTCTGGGTTACTTATATGATTTTCGAAAACATAAAACAATCGGTCGAAATG
GCAAAAGAATGCCTTCAACATAACGTGGACTTAGGAGTCCCCGTAGAGCATACGGGTAGCGGGGG
GTTTTCGGTCAGACCCTTTTTCCCCAGTAATGGGTGGACCCCTGCCCCTACTACTGCTGCTGATA
TAGCAGCCTCTACTAATGATGCTCTTTTTATGAATGATGCTCTTAATTCTCTAGCGGAAATACAG
TCGAACAACCCAAGCCCACTTGATCAATTTGCCATTATCCCATTGATTCCTATAAAGATAGGAGA
CTTGTATTTCTCATTCACAAATCCATCTCTGTCTATGCTGCTCAC
Done.