Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_060804
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: 813731
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Found at i:26014 original size:24 final size:24
Alignment explanation
Indices: 25982--26028 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
25972 AAGCAGCGCG
* *
25982 TCGTGCTATAATCGGACACTTCCA
1 TCGTGCTATAAGCGGACAATTCCA
*
26006 TCGTGCTATGAGCGGACAATTCC
1 TCGTGCTATAAGCGGACAATTCC
26029 GAAGAAATGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (24 bp):
TCGTGCTATAAGCGGACAATTCCA
Left flanking sequence: Indices 25482 -- 25981
TTGAATCAGTAAAGATCCAATCTGTTTATCAAAGTGCTTCTCCGATTGCTCAAGACATCTCTTTT
CAACCGAGGAACAAAACAAGATCATTTCGTTCCATTTTTAGTCAAATAGTGAAGGATATTCCATT
AGTAATGAAAAAGGGGGTGGAGGGGATCCGTATATGTTGTTCAGGTCGATTAAAAGGTCTAGAAA
TAGCTAGAACTGAATGCGGAAAGTATGGAAAAACATCTCGTAATGTATTTCACCAGAAAATAGAT
TATGCTCCTGCGGAAGTATCTACTCGTTACGGAATCTCAGGTGTCAAAGTGTGGATTTCATATAG
TAAAAAAAAAAAGGGGGGACGTGCTATATCCGAAACGTACGAAATATAGTAAATATCGTAAAGGC
AGATGTAGTAGGGGTTGCAAACCGGACGGTACACAACTTGGTTTTGGAAGATATGGCACTAAAAG
TTGTAGAGCTGGTCGTCTTTCATATCGAGCCATTGAAGCAGCGCG
Right flanking sequence: Indices 26029 -- 26528
GAAGAAATGGTAAGATATGGGTAAGAGTTTTCGCAGATATCCCTATTACCGGGAAACCTACAGAA
GTCAGAATGGGAAGAGGAAAAGGAAATCCTACGGGTTGGATTGCTCGTGTGTCCACGGGACAAAT
CCTATTTGAAATGGATGGTGTGAGTTTGTCAAATGCTCGACAAGCCGCTAGATTAGCGGCGCATA
AACTATGTTCGTCAACCAAGTTTGTTCAGTGGTCGTAAGCTTGGGGAAATTCAAAAGAATTAGGC
GAAGTGTTTGTTCCTGAACGAGGGAAGTGGAAAGACACTAAGGGAGAGGGATATACTCCTTTTTA
GAATCGCCGAAATTGTACGAAGGCGTACGACCCGGATACGTGAAGGTTTCTTTATTGGTTTCTTA
GTAAGAATAAATAAGAAAGAGAAGAGCTAAGATTCAGGAAAGGAAGTTGTTTCAGTCAAACTAAA
GTAAGTGGGCTACTCAAACTCTTGAACAAGCGGGGCATCTCCTCG
Found at i:87335 original size:22 final size:22
Alignment explanation
Indices: 87310--87351 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
87300 ACTTACTTCT
87310 TAGTGAAAGTTCCATCTCCCTG
1 TAGTGAAAGTTCCATCTCCCTG
* *
87332 TAGTGCAAGTTCCTTCTCCC
1 TAGTGAAAGTTCCATCTCCC
87352 GGAAGCCTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.31, G:0.17, T:0.33
Consensus pattern (22 bp):
TAGTGAAAGTTCCATCTCCCTG
Left flanking sequence: Indices 86810 -- 87309
ATACGATACGGGAAGGCTTCCAGCGAGGCCTTATGGGCCCTTGCTAATGTATGAATAGAAAGATA
GAAAGACTGTTTTACCCGCTTCCATAGCCTTATAGATGACTGGTCGGTCGAAAAGCCCGAAATCA
CTCTCTTGCTTAGGACAGGAAGCAATGGGGGTTTCATCACAGGCTTCCCATTGGAAAGACTGAAA
AGCAAAGAGATGGCGACTAGCTTACCGAAGTGGCTTAACGAAGTGTGGATGTTGATGCTCCGCTT
GCTACTGGAGCAGCTTCTCCAGTCGACTATTCACGTCCGGTCGTGCGTCAAACTTTTCACACTTC
CCCGCTGCTAGCTTGAGTGGGATTGTAAAATCAAGTCTTTTCCTACTCACCGAGATGTAGATGTG
GAAGCTAATGGATAAAGTTAGGATCCTGCCCTGGGGACTGGACCTCAATCGGACCATTCAAACCT
TCTACTCATAGAAAGATTCAAACCACTGAAAAAGTACTTACTTCT
Right flanking sequence: Indices 87352 -- 87851
GGAAGCCTAGATAAGCAAAGGAAGAAAGAGCCTTATCAGTTCAGTAAAGCTGAGTAAAGCTCGAT
CACCGAGTCAAAGTGGAAGTTCATCCGCGCATGGATGTGGACGTTGATCTAAGACCCTCTCCCGT
TGGTCGAGTGACGCAAGGTTCTTTGATTCGGATTGGTTGGGACTATCAAGTCGATCATCGATTCC
TGTTGATGTTCCAGACTCTGAAACGCTTCCCGTCGCTACTTCTTTTGATTTGAATCGCTTAACCT
TTGTGGAAGCTGCCCCTATCTAATCAGGCTCCTTGCCTCGAGACCATAGGATAGGACAAGCGGTG
CTGCTCCGTATTAGGTAGGGCTAGGCTGACTTTGTTTTGCTCAAGCCCACCAAGAAAGCCTTGAT
AAGTAGGTCCGTGTAGGGGTTCCCTATTCAGTTGCCCAAGGAGGCTAAATCCACTTTGATGTAGC
AAAAGCTCGAGACTTGGTACCTCGACGATGATACAAATCGAAAGC
Found at i:103150 original size:24 final size:24
Alignment explanation
Indices: 103123--103171 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
103113 CCTCACTTAT
* * *
103123 AGGGCTGGTTTAGTTCCTACCTCA
1 AGGGCTGGTTCACTCCCTACCTCA
103147 AGGGCTGGTTCACTCCCTACCTCA
1 AGGGCTGGTTCACTCCCTACCTCA
103171 A
1 A
103172 TGGGTGGCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.18, C:0.31, G:0.22, T:0.29
Consensus pattern (24 bp):
AGGGCTGGTTCACTCCCTACCTCA
Left flanking sequence: Indices 102623 -- 103122
TGGTAGAGCTCCTATCTGTGCTTTGACAAATCCCTCTCTGGCGTCATCTACTGGCTGACTGCACA
CTGCCTTCTGCCTGACTATGGCTTTTATTAGAAAGCAAGATCCCTCCGTTTATCACTCTATAGAA
AGAACATCCCATACAGAGTCTTTCAACTAAGCTATTCGAGCCTTCACCTAAGCTCTCATCGATAG
ACCCCCTTTCTCCTTACCTTACTAATGTGAAAAAAGAGTACCCACCATTGTGCAGACCTTTAGGG
TAATGAAATCAGAACATTCATTTACCCAGGGGCGCACATATGACCCCGGAGACCTAGTCATTAAT
GCCTTTACTCCTTCAAGAAGACTCTCCATTGATAGTGAGAATCCTTCTTAGGAGTGTTCGGGTTT
GGCACAGCAATGAAAAAATCCCATATTGACTAGGATCTCTTTTACCTTTAAAACACATAAAGTCA
ATCATGAAAAAAGTTCTCACAAGAGAGAGTGCGGTCCTCACTTAT
Right flanking sequence: Indices 103172 -- 103671
TGGGTGGCATTCCTTTTTGGTTACCGAAACCAATTCTTTTACCTCGTTTTCATTCTCATAGAACA
TTCAATTCAATTCAAACTTCACATCATTCCTCTCATTATGCTTTCTATGGATCTGTTATGCACAT
GCACACCTTGTTGAATCCAAACAAATTGATGAAGGGCGCTTAGATGTATTCAAAATCACAAATCA
AATGAAAAGATCATATCCAATTCCTATTATGAATGAATCTTGTCTAGATCCCTATAAAGGACTGA
TAATAGTTAGATTGAATCTACCAAAACCTTATTTAATATGTGGTGATATATATGACATAGTATCA
AAAATTATGTATATGCTAATCAAGTACGCATACCCTATCAATGCAGATTTTGGGAAGTTTACAAT
CAATTATGTCATGAAAATACCTGGCGGAGAAGTACCTTTTGCCATATGTAAAGCCATCATATTTA
GAGAGGCTGGTGAAGATATACATGTCTATAGTTTAGTGGAGCGCT
Found at i:122914 original size:22 final size:22
Alignment explanation
Indices: 122886--122931 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
122876 TTTTTGCTTG
122886 TTCATGTTGTGATCGCAACTTC
1 TTCATGTTGTGATCGCAACTTC
*
122908 TTCATGTTGTGATCGCAGCTTC
1 TTCATGTTGTGATCGCAACTTC
122930 TT
1 TT
122932 TGTCTTGCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.15, C:0.22, G:0.20, T:0.43
Consensus pattern (22 bp):
TTCATGTTGTGATCGCAACTTC
Left flanking sequence: Indices 122386 -- 122885
GCTTGGAATCTTGCTGAAGTGAGCTCTTTAGAAGGTATTTTTTGTTCGAAAATGAGAACCTATAA
CATTGCCCGAGATGATCCATTGAGTGGGTCGCACTTAATACTTGGATTATCAATGCCTTAAGCGC
ATTACGGATTTTAGTTCTTGACTAGTTCACTCGCTCTTACCGTTGGTCGTTCACGTCTTTATGTT
TGCTGAGGAGGGCCTACGGTTTCTTCAATTCCAATTTGACAGGTTCGCTACTACAGGAGAGGGGG
AACCCTTTCTGTCCCCATCCCGCTCTCATTACAGACAGCGCTACGTCTTCAAATCTCTTTCCTTG
CCCACTACAAAACCTGAAGTGAAGCTTTAAGTGAACACAGCTCGCTCGCCTTCTGATTATAATCC
GTGCTCGCAGTTCCTATCTGCGCCTTCTAGCGTTCAATCGCCACTTTCATTTGACTAGTCCCGGC
GAAATATGAGAAAAGTGATGAAAGACCCTTTCTTTTTTTTGCTTG
Right flanking sequence: Indices 122932 -- 123431
TGTCTTGCGATCGCATTAACATGGCGCTGTCTTCTGTTTGATCCTCTCGAGTCGAGCCCAAAAGA
TCTCATTCAGGATTGGACTGCTTCATCTTGATTTTGAACATGGAATTTCCTCTTCTGAGGTAGCA
GAAAGGCGAGAAAGACTCATCTTCGAATTCAAGTCCCGTCCTTGCTTTTCTAAGAAGTTACTATC
CCCTCGGGCAAGCATAAGATAAGATTCGTATGAAAGAGATTTCGTTTCACCGTTTGACTCTGAAG
CTTGATTTCACACTGACAGGTTTGAAGGAAATTTCATTCACTAACCCTTTCTTACTCCCACTACT
TCATCACCTGCGACAGCAGGGACGGATACAGGTACTCGCTTACTTGATTGGCTCAAAACCTTACC
TTCTAATCCGCCTGCTTGGGAATTTTATTAAATAAAGAGAACTTACAGGCTTTCCTCAAAGCTAA
CCATCATTTTGATCCTCAAAAGCATGTTGAATTCTCCGCAGAGAA
Found at i:151322 original size:21 final size:21
Alignment explanation
Indices: 151274--151327 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 21
151264 CACAGGACCT
*
151274 CTTGCTGAGGAATTCTTATCG
1 CTTGCTAAGGAATTCTTATCG
*
151295 -ATGCTAAGGAATTCTTATCG
1 CTTGCTAAGGAATTCTTATCG
151315 CTTGCTAAGGAAT
1 CTTGCTAAGGAAT
151328 GTTCCGGATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 18 0.62
21 11 0.38
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (21 bp):
CTTGCTAAGGAATTCTTATCG
Left flanking sequence: Indices 150774 -- 151273
AAAAGGAGCAGCATATGCTTCAAACATGCAATTTGAAAGAACTGACTGACCCAACCCGAATCCAC
TAATCCAATAGGTAATGTTGGTGAATCTTCCTAAAAAGAAGAAACGAATGAACCAATGCCGGAAA
CTTAGCTAGCTTCCTTTCCCCTATTAAGCTATAAAGCCCTATCCGTTGAGGGCTTTACCTGCCTA
GGAGCTTATGAGTCAATCTTTCGACCAGTTTCCCTATAAGAGGAAGGTGTCACCGATTTTTCTTT
CTATGGAGGGGCTTAGCTTCAGAGCTTCCCTTAAAGAAATGGGTCTCCCCTATGACTAACTATCG
GAGGAAGGCGGAACTGATAGATAGGCTCGCTGCTTAGTCGGCTCCCGCTGCCTCATCAGATGATA
GAATTGCCAAGTAGGGCCTTTTTGGACAGAGGTCGCACAGGACATAGTTGGACAGTCCCTTTGAC
TAAGTACCTTATAACCGGATACGCCCAAAAACACACACAGGACCT
Right flanking sequence: Indices 151328 -- 151827
GTTCCGGATTTTCCAGTTGACCAGTTTCGGGAGACTATCCAGTTGCAAAACAAAAGGAATGGTTT
GGTTGATAACTGATTGCGCCGGACTGGTAGACTTCTCCTCTTGGCTTTGCTTTCATAGAAAATAT
TCGATTGGAAGAGAAGCGCACCTTGACTCATGCACTCATGAACTCATATGCACTCCTCAAACTCC
TTAAATCAGGAACTGGTTTGAAAGCTTCATTCATGAGCTATCTTACTAAAGGAATTCCAGTTCCG
TCGGGAACAGGCGAGAAAATAGAAGTGTGCCTTTGAATAAAAGAAAAGTCATCCCTCTCATTTTC
TGCTTTTCTTCTTACGCTTGTTCGAAAGTCCCTCTTTGAATCTCCAGTTCTGCATTCCAAGGTGA
AAATAATCTAAAAAGTGAGGAAAGATATTTAATTTCCCTAGATAGAAGAAATTAGAGTGAGATTT
GACCGCGATTTACCCTTCTTATCGAAGATAATTGCGTATTAGTCA
Found at i:257707 original size:20 final size:21
Alignment explanation
Indices: 257670--257716 Score: 78
Period size: 20 Copynumber: 2.3 Consensus size: 21
257660 CAGGACGATC
257670 TTCCTTAGCAAGCGATAAGAA
1 TTCCTTAGCAAGCGATAAGAA
*
257691 TTCCTTAGC-ATCGATAAGAA
1 TTCCTTAGCAAGCGATAAGAA
257711 TTCCTT
1 TTCCTT
257717 GAACTGGCGA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (21 bp):
TTCCTTAGCAAGCGATAAGAA
Left flanking sequence: Indices 257170 -- 257669
TAGTTGAATTGAGTGATAGAGTGCCTACACTACCTTCCTTCTACGCTTTCGATCCTCCTTGAGTC
TTCATTTATCTTAGTTAGGCCTAAGAGCTTCCGTTCCCTTCTACCCAGACAAGAAGGAGAAAGCC
AAGGCGAACTTAGAAGGATGCTCAGTAAGCGATCTATTTGGGTATTCCATTGGCTTAGAAGACTA
AGGTTTAGTAAAAATGCTCTATACCCTTCCTCGCTTAAGCCGTTGAAGGTAAGGCAAGTAAGGGT
ATAGCAGAGATTCATTCAGTGAACGTGAACAAGTTGGACAGGCCAACGTAGGCTCTTTATTTGTC
CAGCCTGGTTGATTTGTTCTAACCTCCCGGCTCATATGTATCGCTTGCTCTTTATCGACTGGAGA
AAGTAATAACCCTAATAGTTTGGCTTGGACGCGTCTTAACATACTCTCCTCTAGCACCATTCACA
GTTGACTCTAAACTTCATCTCTGAGGGAAGCATTTCAGGACGATC
Right flanking sequence: Indices 257717 -- 258216
GAACTGGCGAATGCAATGGAAACCTTCTTTCTTCGATTGGAATACGGATGAGATCAGAAAGGGGG
GGAGACGGGTGTTCACCCAGCTTAAAGGTGAACCGGGTAACCAAAGTCACGATCAGAATGGTACT
GAGATCCTGATCCTGCATCCGGGGAATCCTATTCTGTCACCCAAAACGACCACTCCTTCTGTCGG
AAAAAAGACTTGCCCTATATTGAAATGAAATCGAAACGAATGGAACGAACCTATCATCAGGTAGT
GCGCGCCATTCAGAACTATGATATCGTCTTCTAGTCTCTTCGGCAGGTCCAAGTTGTTTTGGTCT
TCTAAGCTCAGGTTCTTTAGTTTCATTCAGGTAGGAAGTCAAGTTTTTGATTCGATATCACAGAA
TAGGTTGTAGTCTTCTTGATCTATCAAGTCAAGAGGGTTCTTAGCTTAGGATGAGGGGGGACGGG
AATGTGGGTCTTCGCATCTATTGAGCTAACTGGTAAATGAGAGCC
Found at i:275566 original size:20 final size:21
Alignment explanation
Indices: 275523--275570 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
275513 CTATCGTATA
*
275523 TAAGGAATTCTTATCGCTTGC
1 TAAGGAATTCTTATCGCATGC
275544 TAAGGAATTCTTATCG-ATGC
1 TAAGGAATTCTTATCGCATGC
275564 TAAGGAA
1 TAAGGAA
275571 AGTATAGCAG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 10 0.38
21 16 0.62
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (21 bp):
TAAGGAATTCTTATCGCATGC
Left flanking sequence: Indices 275023 -- 275522
ATTACGCTACCGAGGAATTCATGACATAGTTTCTCTAAGAGGAGTCTAGAGTTAGTTGATATAAG
TCACAAGTCGTAGCGTAGCCAAATCCTCATTTTCCCTAAACAGTCGTAAGCCCGTATCTAGCTTT
TCGCTGATAAAGAGACTAGGAGCCTTTTTATTTAGTAGTAAATGCCTAAGTTTTGTTTTTCCCCT
CTCTGGTTGGTTGAATGTGTTCACAAGCTTCTTGGCTTCTAGTAGACCTACCTACTCTCATGGAA
TAAGGGCGTAGGTCTCGCAATTCCCTCTGACCCGGAGGAATGATAAAGTCTGACGAACCTTATCT
TGTATTGCTTCCGAGGTTCCCTAAAACTGGCACCGGTGGTTGCATATATAAGAAAAGGGTAGATC
TAATTTTCACTCAATCTTTTCTACACATCATCGGACGGAAGTCAACGCAAAATAAGCGGCTTCAT
CCACATTGAGGGTCGGCTTGGTGAAAGGCGTGATGCTATCGTATA
Right flanking sequence: Indices 275571 -- 276070
AGTATAGCAGCTTGGCTCTTTTCCGGGTTCCTCTTTGAGTTTAGGTTCGGGCCGTGGACTTCCCC
TTCCCTTTATCCGACTGTTTTGTTTTAGCTGTTCTATCCCGAGATCTTCCCCTACCTTTGCTAGA
ATCCCCATCCCTGGGTTCTCTTGGCTTCTGTTTCCAGCAAGTAGCTGACGAATGCCCAATGATGT
TGCACTGAGGGAGGTAAACTTTCATATGATATCGACACAAACGTACAGTGTCCCGTACGTTCCAC
CATAACTTGATCCTGAAGCGGCATGGATAGGGCCACTTCCACCAGTACTCTTTCATAGTGGCCGT
AGATGCCACTGAGAGATCGGTCATCGATTTTGAGGGGTTCCCTGGCGATACCCAAAATAATGGAT
GGAATTAGAAGCTCAACTCGTAAATACGAATCTCCACAGAAGTACGAATCCTATAGGGATTCAAA
TCCGGAGTCCATCGCTGTAGCCGGATGATGCCTGGTTTGATGTTC
Found at i:277273 original size:20 final size:20
Alignment explanation
Indices: 277239--277276 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
277229 CTCATAGCTG
277239 CTAGCAACTCCTAGCTACAA
1 CTAGCAACTCCTAGCTACAA
277259 CTAG-AACTCCTTAGCTAC
1 CTAGCAACTCC-TAGCTAC
277277 TAAAACAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.32, C:0.34, G:0.11, T:0.24
Consensus pattern (20 bp):
CTAGCAACTCCTAGCTACAA
Left flanking sequence: Indices 276739 -- 277238
TACTCCACCCCAAGTCGGGATGGGTGCCACAAACACAGCTTGTACTGGCTAAACATCTCCTATCT
TTCCATTTGAAGGAGTCTATCCCACTGCTTAAGTATGACAAATGTCTGACACTACTATATCGGAC
GTAAAGTCTTGCCCGGCCTCACTGAGTGGATCTGGTGCCCACACCGTAGCTAGTCCTCTTAGCTT
TATTGGAGCAGGTGCCCAAGCTTCTTTGGCTAAAGCACATCTCCTGTCTGAACCCTTGACCTATT
TGAAAGACAAATGCACAAACCCAAATTGAAGAAAGAGATGCTCGAGTCTCTTACGCCATCCTAGG
CGGTTCTCCCGTAGCGTCTCCGCCGGCTACTTTCTAAGGTTCAGGGTTGTCTGCCTATCCTAGGT
GACCATCTTCGTCTACTACAACGAGGGGTGTGTGCCATAGAGTGTGGTACAGGTGTCACCAGTCC
CAGACAGATTTGTTTATGATCTCGTCAACTCGGAACTCATAGCTG
Right flanking sequence: Indices 277277 -- 277776
TAAAACAAGAGCTCTTTCACTCGGGCTACTTTTATTTCTTATTGGGCAAGTTGCCACCCGTTGTT
CGATACCCTAACTATAGTAAGTAGCTTAATCTGTCGAGAAGAACCATCCCTACCGGATCGGACAT
GTAACCAGTCTTCTCCGCTTGAGAGGGAAAGACGGCTGCTCTGTGAACAAAACAACCCTAGATAT
CTATTAAAAAAGGGCAGGCTAGGAGGTTCTGTTACTGAACTCGAACCCACTAAGCGGGATCCCTT
GCCTGGTCTTACAGCTCAAAAAGGAGGATGAAGAATTGGGAGCCCAGTTCCTCATGCCAATAAGG
GGTATTAGACCTTCCCCTCTCCATTCTTTGACTTAAATTCCTTTCTTTCTTCGTCTTCTGATTTC
TACCTCGAGTACCTTCCCTTGGCTGCCCCTTGACTACCATAAAGATAAAGCATTGGGACGAATAT
AGGTGGGCTACTTACGTACTATGTTGAACTTGACTCACTTTTATC
Found at i:302499 original size:20 final size:21
Alignment explanation
Indices: 302474--302520 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
302464 GCTTACCTAT
*
302474 TTCCTTAGC-ATCGATAAGAA
1 TTCCTTAGCAAGCGATAAGAA
302494 TTCCTTAGCAAGCGATAAGAA
1 TTCCTTAGCAAGCGATAAGAA
302515 TTCCTT
1 TTCCTT
302521 TCTATATGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (21 bp):
TTCCTTAGCAAGCGATAAGAA
Left flanking sequence: Indices 301974 -- 302473
TCGCAGATAAGAAGTTTTCAGCAAAGCGGGTTCAAGCAGACGAAGAAAGCTCTGTAGATAGATCT
TTCTTGTCTAAGGGAAGGATGAAATCGTCCAGTCCGTAATGAGAGATTCAGGTGGTTTTAGTATC
TACATCTACGCCTGATGTGAACCCAATAGGAATCCATCCTAGCTTTCTCTAAACCGACAGGAGCT
ACTATCAAGCAATGAGGGAGGGCAAAATCAAGTGATATATCCTTGGTTAACCGACATGTGAGATT
GTATTTGAGTTCGGAAGAAATGAGAGCATTGACATTCAATCTGGCATAGTCTCTTACGAAATTGA
GTTCTTAGGTCTCAAAGCCTTATTTCCATCCAAGAACTACCCTTTGGTAAATAAATCCTAAATAA
ATTCCAGGTAAAGTCCTTTTATGTTCAAATTAGTGGCTGCTTCCTCTACAACTAAAGAAGGCAAA
AGGGGAAGGACCTGGCTGACTTGATTGTTTGTTGAGCTTACCTAT
Right flanking sequence: Indices 302521 -- 303020
TCTATATGCAAATTCCCCTTCACTAATAGTGCTCTTCATTCAAGTGAGGATTGGCTTGTTCCAGT
CTGTACTTTCTTCTTTATACGGACACAGGGCTTCCATCGGAACTAGACCTGAGGCAAGGAAAGCA
ACTGAGGATTAGCCTCACTAGCCTATTTCTTTTTTACTTCTATACGTCAACTCGGAAGATCCTAA
ATCGGAATAGGAAGGTTATTGCCTAAATAGTAGTATCTTCGGATCTACAACAGGATAGCTAAAAA
AGAAGAAGGCTGGCTGCAGGGAAATAGGCTCTTCGGTTGATGGAAACGTCAATAGAGAAGTTGAT
GCTGGCTTGGGGCTGAGGCATTTTCTTTCGGATTAGTTGACCCTAACCGCCTGAAAGTCCTAAGG
CGCAGGTAGTACTTGGGCTATCGGCTGTAGTAGGGAGCTTCCCTATCTATTCCAATTCGTGTAAA
CCGAACAAGCTTTCAAGACAAGCAAGTACGGCTTTGAGCTACATC
Found at i:304061 original size:29 final size:29
Alignment explanation
Indices: 304019--304122 Score: 208
Period size: 29 Copynumber: 3.6 Consensus size: 29
304009 ATTTGAACAA
304019 GAGGAATGAAGTAGCTCATATAGCTAGAT
1 GAGGAATGAAGTAGCTCATATAGCTAGAT
304048 GAGGAATGAAGTAGCTCATATAGCTAGAT
1 GAGGAATGAAGTAGCTCATATAGCTAGAT
304077 GAGGAATGAAGTAGCTCATATAGCTAGAT
1 GAGGAATGAAGTAGCTCATATAGCTAGAT
304106 GAGGAATGAAGTAGCTC
1 GAGGAATGAAGTAGCTC
304123 TACCATCGGT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 75 1.00
ACGTcount: A:0.38, C:0.11, G:0.29, T:0.23
Consensus pattern (29 bp):
GAGGAATGAAGTAGCTCATATAGCTAGAT
Left flanking sequence: Indices 303519 -- 304018
CGAAATCCTTTCATTATCGAGGTAATAAAGAAGAATCAACTACGAGACTGATCGTAGATCAGTAG
ATCGGGTAGAATTTGGCCTTACCCGCTTCCGGGCGCAACTAAAGACCGCTGGAGCTTCGTCAAAG
CATCTTTTGCGCTTGAGAGTCAAAAGTTGAAGCCAAAACATACCTCCTTGAATCCTCTGGGTAGT
GAGGCCGATTTCAGAGCTTCAAGGATGCGCTAACTAACGTCGGGGACGTCTCCAAAACAATTGCT
ATTGCATCTCCTGTTGTTGAATCAGTCTTTCTCCCTTTCGAATCTTAGTTCTTTAGAATAATGCT
ATTACTCGCTAATTCCCCTTTCGAGGGAAAAAACATTCTGAATAGGCCGAAACCTACTTATAAAC
GATTATCTATGTCCTGATTCAAATCTAATACGAGGGAAGAACCCCATCCATCAATAAGGGTGAAG
ACCAGTCCTAGCTGGCACCGAAGCCAAGGTCAAGCATTTGAACAA
Right flanking sequence: Indices 304123 -- 304622
TACCATCGGTAGAGGAATAAAGGACGAAGCCTTCATTTATTATAACCTACCCGGATAAAAGCCGG
CAGCTAACTCATACTTAGCAGGGAATGCCTGTTTTAGAATTCCTACCCTACCTATATTACGAAAA
GCAATGAATTCCGGAAGCTACATTCAATAAAAGATGCTAACAAAGCTTTCCCATTTTGATACCTT
TCCTAAGGATAAGGCGGAATAAAGGGAATTAGGTAAATCCCCAACCGAGAATAAAGAGATGTTGT
TGAAGCTCACTCTTCTTATCAAAATCAACAACCATAAATCCATTCTTATGAATTATCAATCATAG
GCTGATAGTGGGATTATTGGAATATTCATACCCTGCTCTATATGAGAAGGGAATTATTCATACCT
CGTCATTCACAGCCGGAAGAATCCCACAAAGCATTATGAAAATGGAAAATCCCCTAAATAACGAT
ACCCGTGAACTCATCCACTTAGCTTCTTTCAGGATTACTACCGGA
Found at i:323321 original size:20 final size:21
Alignment explanation
Indices: 323278--323321 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
323268 GCAACATGAA
*
323278 GTCAGGGATGAAGCCTTTCAG
1 GTCAGGGATGAAGCCTTACAG
323299 GTCAGGGCATGAAG-C-TACAG
1 GTCAGGG-ATGAAGCCTTACAG
323319 GTC
1 GTC
323322 GGTCGTGAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 7 0.33
21 8 0.38
22 6 0.29
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.20
Consensus pattern (21 bp):
GTCAGGGATGAAGCCTTACAG
Left flanking sequence: Indices 322778 -- 323277
AGAGGAATCTCGCCATGCAGTACGAATTGCATGGCTGGCACAATTCTGACTACTATAACCACGCT
GCCTGTATGAACAAACAAACTTTGCAGAACCGTTTCACCTTGGTGAAGTCAGCAATGGATTCGGC
GGATCATCCACGTCACGAATTGGATGGATTCTGACTAGTTCTCCGCACTACTTTTCTGCAGTTAA
AATACTCTTATGCCTATTTAGTGAAAAACTGGCTGGCTCTGGCTACCAAACAAAAGATCCCCAAA
TCACACTGCCTATATGAACAAACAAGCTTTGTACAACCAGCTTACGTGGAAAAGATTCCATATTC
TATGCCAATGGACTCGTGACTTTCAAAAAGAAAGAAGAGAAGGAACTTGGAGTTGGCGCCTACAT
AACGGATTGCTTGCTTACCAAGCCATCCTGGCTTTTCGCTCCTCTCTTGGAATGAGGAAGAAGTC
CGAAAAGTACTCACCACCATTGGTGCAGTATGGTAGCAACATGAA
Right flanking sequence: Indices 323322 -- 323821
GGTCGTGAGACAGAGGTCAGAGGAGAAGGCAATCCAACAAAGTCCTATAGACGGGAATACGGAAT
TCGGCGTGCTATTCTTAGTCTTGAGGGCTGGCTTATGAGGATTAGGACATTCGAGTTCCGCTTTC
CTCAGGGCATAGCAAAAAAGGTAGGACTAGTTCTTGCTGATTCGAGAACAATTTCATTGCCTTGG
CACAGCTACCTACCAGTCAAATAAATCGATCAGGCCCATCGGTTGATCCGAGACAACTGCGTCAT
ACTATGCCAAATCTTGATGTTCCTCTACTTGCTAACCCCTTTATGAGATACTATGTGCGGACTGT
TGCGGATGCTGTGAACCCTTCGGCAATACCATAGGTTTCCGGTGGAACTGCCATTTATGGCACAG
CACCGGTCAAGTAGCGCCCAGTAAGAAATACAATGTTACTTCATGGTTAGTGGCGATTAATAGAA
GAGTCCTATACAACGAGTGGCTATTGCACCTCTCACATACTAAGA
Found at i:348993 original size:16 final size:16
Alignment explanation
Indices: 348968--349007 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
348958 TCCATCGTAG
348968 CGCA-AAAGAGCATCC
1 CGCAGAAAGAGCATCC
*
348983 CGCAGAAAGAGGATCC
1 CGCAGAAAGAGCATCC
*
348999 CGCGGAAAG
1 CGCAGAAAG
349008 TTTCCACTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 4 0.18
16 18 0.82
ACGTcount: A:0.38, C:0.28, G:0.30, T:0.05
Consensus pattern (16 bp):
CGCAGAAAGAGCATCC
Left flanking sequence: Indices 348468 -- 348967
GTAGTTTGGCCTGTGTTCCAAATTCAATGCTCAAATTCCAGCTTCAAGCGTTCTGCAGCTCATAA
TCATATTATGGAAAATGAGGCGTGGGAAAACGGCACCAATTCTGTCCAATAACACCAAAAACCTC
ATTTTTAAGTCCTTCGGCCTTCGCAAACAAACAGTCCGGCCAACCCAAGTAATCCCCCATAACAT
CAATCAGTACCGCAAAAGGCTCAAAATATGACTAAGTCTCCAGCAGCTGCGGAGCGGGGGATAAA
GGAACAGCAGGATTACAACATTGCACAGGATCAATCAGAATGCGGGAGCATAATACTTAATACTA
ATGATTCCCCGCGGTTTTTCATGCAGATTTGACCACGGTGTGCACCCCCCTTAACTGAACCCCTA
TTACGTAAGGGGGACCTTCGGCGGGATAAAAGAGAGTGCGGGAAAAGCAGCTACAGATACAGGAC
AAAAGAAGGAGTGGCGCACTTAAAGAGTAAAAAAGTCCATCGTAG
Right flanking sequence: Indices 349008 -- 349507
TTTCCACTTTTCTGTCCAGCTTCAAAATGGAATGGAATAGTCTAAGATGCTTAATAGCTCCAACA
AGCGCGAAAGCCATTGCTTCTTGCTTTCGAGCCCAAGCCTACGTTTGCTTAGTAAGGTTGCTTCT
TTTTATATCTCCTCAAAAAAAGAAAGGCTAGTTTCCAGATCAGGATATCCACTTCGATGCAAGTC
AAGAAGAACGAGACTTTCGAACCTCAGATGTCCAATCGTTGGATCTAATCTAACTTATATATCTC
GTACACGGAACATTTCTTTGTCTATTTTGGTGAGAAACAACTATGAAGCACCCATAAACGGGCTG
AACAGCTTTGTAAGGTTATGAATACGCTACAAAAGCAGCCTTTTATTATTAATGAGGGATATCTC
AATTTTCTCTTGACTCATAATGATTATTTGGTTAGAACAGGCTTTCTCATGCCTGCTTTTCTGAA
CCATATCGATTTGAAGGTTGCAATATACATAATCCGCGATTTGCG
Found at i:402831 original size:25 final size:25
Alignment explanation
Indices: 402799--402846 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
402789 TTTGAGGCCA
*
402799 GAGAGCCGATG-CATTGAACTAGAT
1 GAGAGCCGATGCCATTCAACTAGAT
*
402823 GAGATGCCGGTGCCATTCAACTAG
1 GAGA-GCCGATGCCATTCAACTAG
402847 CTGCCAGAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 6 0.30
26 10 0.50
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (25 bp):
GAGAGCCGATGCCATTCAACTAGAT
Left flanking sequence: Indices 402299 -- 402798
GGGAAAGAGACGAAGAGATGGCGGTATCCTTCTTTAGAAAATATCTTTCATGACTTCGTAATGGT
GAACCTCCCGACGGAGTAAACTAGGGATAGTGATCACTGGCCCAAGCAGAGTCGTAAATACAGTA
CAGACTTCAAAGATTCACGCATGCGGGCGGTACAGGGTACAGACAGCTATGGATAGAGGATATAA
TTACGTCTGCTTCGTCGGGTGCTGAATCGGATGCTTGCGCGAAACTCTTTGGAAAAGAAAATGCT
TTGCCCAGGAATTATAGGTTGAAAGCCCTCCCTGACCAAAACCAGGAACGAAAGTCTTGATCCGA
ATCAATCAAAAGAGCCAAGGATACAACGCATCCGTAGAAGCTGCTACAGCATCAGGCAGGGAGAC
CTGAATCTACAAAAGATATAACCTAAATAGTATCCTGCAAGAGGGAAATGTCACAACATTTTTAT
AGTTTCTTTTTGGCTGGCCTTCCTTCGGGTGTGGTTTTGAGGCCA
Right flanking sequence: Indices 402847 -- 403346
CTGCCAGAACGAGTTCAAGAGATGAGGATCCAGGTAGTTCAGTCACCCTCGGGGGAAAAATAATT
CCATTCACTTGTTTAACTGCAAAGAAGAATAGCTTTTCTCTTTCGACTGGGAACTGCTTACCTTT
GGTGCCTTATATTTAGATAAGTAGTAGTTGATCCCGTAGAGGCAAGGGCGAATCGAGTTAGCATC
CCGCCATTCAAAGAAGATAATAAGGAGTTCTCGCTTTGCTTGCTTTATCCGCCAGAGGGTATTCA
AAATGACTTACGATCTTTATCGATGAACTATGGGTAAGAGGCTATTGCATTCCCGGAACTATCTT
GCTGCTACTATGGCCTCAAATGCCCTACCTAGTCAAATGGGCAAAGGTAAACGAATCCGGATACG
CTAGGACTCTGATTGATATCTTCCTCTCCTTTCTCTTTTCCCACGCTAGATAGTCTTTATCTCTT
AGTAATAGATGTATTCCTATTCTATTCTAGTTCTCGGGAAAGGGG
Found at i:437701 original size:21 final size:21
Alignment explanation
Indices: 437642--437701 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 21
437632 GACGAGAAAA
*
437642 CTAAGAAAGACCAAAAGATAC
1 CTAAGAAAGACGAAAAGATAC
* *
437663 CTAAGACAGACGAGAAGATAC
1 CTAAGAAAGACGAAAAGATAC
*
437684 CTAAGAAAGAAGAAAAGA
1 CTAAGAAAGACGAAAAGA
437702 AACCACCTTG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.57, C:0.15, G:0.20, T:0.08
Consensus pattern (21 bp):
CTAAGAAAGACGAAAAGATAC
Left flanking sequence: Indices 437142 -- 437641
CCAGGTCAATCAAGAATGGTTTGAGTCACAGTACGCGGACCCATCTCGTACAAAACAGGTACCGG
TGGAAGCCAACTTCCGGATTGATTGGCACACTCTTAACATCATCAAGAAAGACACAATGGTCAGG
GTTGGGCTTCAGCTGGGGACCAAGAGGATACCAGTATATCACAGAGATGTCTGGGTGGATACTGA
TCCAATTGATATCCAAGACTTGTCTAGCCTAGATCACAAAGGAAAACAAAAAAGAAAATCACTAG
GGAATGCTTTAATACAACTACAGACTGAAAATGAAATTCTAAATGAGAAATTATCTAAGAAGGAA
AGAGAGTTTGCCGAGAGATACAAAGAGATGATATCACAGTTTGATGCTAAGAAGAATACAGATAA
AAGGATGCACACTCAATACACTACAGAGAGACAGAAAAGTCTTACTGAAGAAAGAACGCTATTAG
ATAAAGAAGAACAAGAACAAACAGAGGTGACTAACGACGAGAAAA
Right flanking sequence: Indices 437702 -- 438201
AACCACCTTGAAAGACAATTGATAACTGACGAAAGAACTGATGAAGAAGCGCATCAAAGACCTCA
GCCTTAGGGGGGAATAGTTGATCGAACTTCCGTGAGTTCGTTTTTGGTCATCCTGCATTTCTGCA
TTTCACCGACCTTCGCAGATTAGGCTAATCGTATTATGAAATGAAAGGGAGGAAAAATGGATACG
CAGTATTCTATAATGAACATTGTAAGGTTAGAGTTTCTTTAGTAGGCCACAGCAGATCGAAAAGT
CGCTAATTTCGCTCAGTCAAGTTCTCGTATGGGTAAGGATTTGGCCATTGGCAGTTGAGGGGGGT
GTTGATTCCCCCCGCCTACGTAGGGTGCTAAGTGAGTAAAGTAGCCGCCGGATCTAAGAACCCAA
AGAGCACCCATCAAACCACCTCTAGTTCGGGACCCATTTCTACAGTTCGGGTGCCAGAGTCCTAC
GGGAGGCTCATACGCAACCTACGTCTGTTGGGGGGGGCTGCCCCC
Found at i:588246 original size:15 final size:15
Alignment explanation
Indices: 588226--588259 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
588216 CATCGTCAGG
*
588226 TTCTGTAGCATCATC
1 TTCTGTACCATCATC
*
588241 TTCTGTACCCTCATC
1 TTCTGTACCATCATC
588256 TTCT
1 TTCT
588260 TCTGCCCTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.32, G:0.09, T:0.44
Consensus pattern (15 bp):
TTCTGTACCATCATC
Left flanking sequence: Indices 587726 -- 588225
AGAAAGCAGCGACACTCATTCTCCTTACTTCTTATCTCATTCCAATTGCATATAATCTGTCAAAG
ACTGACTGACTTATCCTTCCTTACTCAGCTTTCAGTAATGCTAAGTTCAGATTCACTCTCGGCAG
AGAAAGATGCCAAGCATAGAAGGGAGGTAAGCCAATACTATCTCATTCAGAAAGAGGGACATCGC
TTCACTTGTTTATGAATAGTTTATATGAAATGACAACCTCACCTAGATCTGATAAAAGAGAAGTC
ACTCACGGCCTGGTCCAAGCTCTTGTTTCCCCATGTCATTTGAGGTTAACAACCTACAAAAATCT
GATACTAGTTTATGTAATATTCTAGAATCCTACAATAGCTTTACTCTAATATTGATGAGTTTCTC
GCAATTCAAAATCATGTTATGCCTTTCAATTATGATGCGTATTTTACCCAGGTTCAAGACTTTGG
TGTTGATAGTTTCACAAATCACGACTCGGAGGCATCATCGTCAGG
Right flanking sequence: Indices 588260 -- 588759
TCTGCCCTAAATAAGGATCACTGGAATACTCCTCCTATCCCATCCCACAGGGAGATCAGACCTGA
TGTAGGCTTGGAGATAGCATACCGGGCTCACCCCTGGGTGCCTAGGTACCAGTTCAAGGATCTGG
TATTTACCCCAAATCAGCTGGATCAATTCACTCGGAATTGTGAGAGGCTGGGGTTGTCCCGCATA
AGGTCTGATTTACCAATCGACACGGTGTGTGAAGCGTGTACTAGCGGAAGAGGCCTCCGTGTAAT
CCTATCTGATTACATTCAAAATCTAGATGTGACTAAGGTACTAGTGGAGGTTCTCACAGAAGGCC
CTGTCTATTATGGGCGATACTTAGCACTAGTCATTCTGGGGGTGGGTTGTACCGTTTGGTACTTG
TTTGAGCCAGTCTCTACTGTTCGGGAAACATTTCTAGCAACTGGTGGGGATGTGCTCATGGGCCC
GATAGCGCGGGAGAACTTCACACACTTGGATTACCAACCCCCCGG
Found at i:591839 original size:17 final size:17
Alignment explanation
Indices: 591817--591851 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
591807 AAGAGGAACC
591817 TGAAGTGACTAGTCCTA
1 TGAAGTGACTAGTCCTA
*
591834 TGAAGTGACTCGTCCTA
1 TGAAGTGACTAGTCCTA
591851 T
1 T
591852 ATAGTTGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (17 bp):
TGAAGTGACTAGTCCTA
Left flanking sequence: Indices 591317 -- 591816
CTTGTATACAAATTTCTCACATACCAGATTCCCGAGGAAGAAAGAGAGCTTCTTGCTTTCATGCA
TAGCAGACTAACAGAAAAGTGATCTCGCTGTACCCGATCTCCCAGCACTGACATTGAGAGAAGAG
TGGAACGGGACTTGCTTTATATTATAGGGGACTTCCCTGGATACTTTTCAACTCATATCGGAGCA
AGGAAGCAAGTGGCTAAAATGGTGGAAGTTACTTCAGCGCTTGGGGGAAGAGGACTCTCTACCAC
TGCTGATTGGATCCGGGGATGCTCAAACGGATAACAACAAAAAGAAGAGTGAGGGTTCTATGGTA
TGGATGGCTTTGGTGAGCATAGCAGGAAAGACCGACGAGAAATTGATGTCTGTAGAAGAAGGAAT
TGAAAGCTAGGATAGACCTTCAAATCAGCGAGCTAGGAAGGCCAAGGAAAGTATCCAGAACCCAG
TTGTGAAGGAAAGGCAGGAATTAGTAAGAAATCTCAAGAGGAACC
Right flanking sequence: Indices 591852 -- 592351
ATAGTTGGAAGTGGGCATGACGAACCACAAAACATGAGGAAAGATCCTTAGCTTTCTCCCAGGAG
TGATACAATGGCAATAGGAGAAATCCCACTATTACGGGCTCTAGGTGGAAAACTTCTTACCCAGA
GACTGGAAAACCCTTATGAAAGCCCTTTTTGTTCGCGAAAGAAATGAAAGAATGCGGGAAAGAAA
ATAGTAGTAAAATCAACTTAAAGGAGGGTAATGCGCCAGGCAAGAAGCCGCTTACCAAACAAGAA
GAAGATCGATAAGGGTTCACCCAACGGAAACCCGCTTAGACGGGCATACGGAAAAAACTACCATA
CATACGTAATGGACTACTTTTCAGACAACAATCTTTCCTAATTTGACTGATAGCCCTCAAGGATT
AGGCCAGGACTCATACGATTACAAGGAGTAGGATGCTTGAAAGGCTGGCTGATGTGCTGTGCTTT
TCCCCAAAGCCTGCTCCTCATCTGTTCTGTATAGGAGACCATGCT
Found at i:647281 original size:18 final size:18
Alignment explanation
Indices: 647258--647293 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
647248 CAGGTCCACT
647258 AAAAAGACAGAAAGAAGA
1 AAAAAGACAGAAAGAAGA
* *
647276 AAAAAGAGAGACAGAAGA
1 AAAAAGACAGAAAGAAGA
647294 GAGGCGTCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.69, C:0.06, G:0.25, T:0.00
Consensus pattern (18 bp):
AAAAAGACAGAAAGAAGA
Left flanking sequence: Indices 646758 -- 647257
TCCAGAAGCAAGCAACCGGGCGGAAGGGGGCTGGGACTACTCCCTTTGCGAAAGCTTCGACACAA
GACTCTTATCCTTGTTCGATTGAATCCTCTAAATGATAAAACCATATAAGACCTTACCCCCTAGA
ATTCGTAAAAGCTTTCCTAACCGGACTAGAATAATGGCCTCGCAAGAACGAAAAGAAAGAAGACT
AGGAATTATCCTTCGCCTGATTGATTGCTCCAGCTAGATGGCTTTAGGTGGTAAGGGATCGGATC
CTTTCTCGCGCGAGATAAAAAGCTTTACTTGACCTGACTATCACTATTTGTTTTGCTAGGGATAT
GCTGGGAGGGCGATTGAAAAGTGGGATGACCTATCTAGAATAAAGTCCGCCACGCTAACGACCGG
GTGTTTTCTTTCGGCCTTCACCCGCCACTCGTACACACAGCTGCAAACCCTACTTAGTTAGTAGA
TTGTCCAGTGGCATCAAGATCACGTCGCGGAGATGCAGGTCCACT
Right flanking sequence: Indices 647294 -- 647793
GAGGCGTCGAAGGCAAAGGGGGGATCATAGATCGAATCAGCACGATGGAAGGAGGTAGGATCTCT
CTCACTCGATCGGACATGCCAAAGAATTATAGATTTGAAAACCTATAATCGGAGTCCATATTCGG
AAAGAAGAGACGCTGCCTAGTGAAAGACTAGGCTATGATACCAGTTATGAGCGGGAAGATGCTCT
AGATGGGCTCAATTCGTCGCTCTAACAAGACATCCTACCCATGAGGATCGATTCTTCCATAGAAG
ATAGGCCGATGTTTATAAATTCTTGAATCAAAGGAAGCCCCTACTACAAAGAAGGAAAATGCCCT
CCCCAGGTAGTACAGAAAGAAGGGCTCTCTTTACTACCTGGAAGTAGGCATACCTAAGATTCTCC
CATAGATGCTTGATCCCACTCTCATTATTAGCTGAAATAAAATGCATATACAAATAGAGTAGGAT
GAGGCCTCCCCCGGCGCTAAGTACACATTCTATCTATCTTTCCCC
Found at i:703286 original size:21 final size:19
Alignment explanation
Indices: 703257--703299 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
703247 ATTCAGAGGG
703257 TGAAAGCCATGGATGAAGAGA
1 TGAAAGCCATGGA-GAAGA-A
* *
703278 TGAAGGCCATTGAGAAGAA
1 TGAAAGCCATGGAGAAGAA
703297 TGA
1 TGA
703300 GACATGAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 4 0.20
20 5 0.25
21 11 0.55
ACGTcount: A:0.42, C:0.09, G:0.33, T:0.16
Consensus pattern (19 bp):
TGAAAGCCATGGAGAAGAA
Left flanking sequence: Indices 702757 -- 703256
GGGTGCATACTTTTTCAAAGAAAGAATAGGTTGCCTGGATTCGAAATCTTCGACGATTGCGGATG
GGAGATAGATGGGCATCTTGAAATGAGCCACCTATGACGGTGAGTTTAAAAAGGATTGGATAGAA
GATTTAGATGCGGAAGCTATGGTTCAGTTATTCGGAGATTTGTCAGTCTGTGTGATCGGGGATGC
TGGTGTGGAGAACCCGACAGATTGGATAGAGGCCGCGACATTTGAGTTGCAGAATTGGTCTGCTT
ATACAGGTCTGATTGCTACCACCTAAGAGACCAAGATAGGTTGAAAGTCTTTCTCAGTCTGGAGG
AAGCATACTAGAAAGAGAAGGGTCCTCTTACTCGTGGAAAGTTCAAAGAGATAGATGAAAGCCCT
CAGAGAGAATAGGTAAACTTTGCTCTTATGACTCAGGTTGTTATTCATACACCGGAACCTGAAAC
TGTGTTTGAAGCTTTCACGAAGCCCTATGAAAGGTATTCAGAGGG
Right flanking sequence: Indices 703300 -- 703799
GACATGAACTCTAGTCAAGCCACCACCTGATGTGAGCATCATTGGTTGGTTGATCTTCTAAGTCT
AAGTTCAGACCTAAAGGCATAGGCCGGAGGCTACGGACACAGAGACAGAGGCAGCATCCTCTTAC
TAGCACCATCATTTTGCATCAAAAAGCCAGCACATTAAGCTAATGGTGGTAGCATAGCTTGTTCC
AGCACAGGTAGGTTAGGTAAAGAGCGCCCTCAGGCAATTAGAGTAGGCCGCCTCTTATTAGGTAG
GTACCTGCAAAGGCAAAAGAAAAGAGTTCCAATCTTGTGAGATATCTTCTTGAAAGCTGAACAAG
TCAAAGTTCGCTCTCAGTCAGATAGGTTTAGCCATTTGTATCTTGTCCATTAGAACCCAAACCTT
GAATCTGAATCTCCTGTTGGTCAACCATTCCTATTTGAGTCTTTTGTTCCCCTGCCTGCCCTGGA
CCAAAAAAGTAACAGATGCTCGTTCTACTGAGAACCTGCTCCAGT
Found at i:748885 original size:15 final size:15
Alignment explanation
Indices: 748867--748898 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
748857 GAAATTGCAT
748867 AAGAAGAAATCGAAG
1 AAGAAGAAATCGAAG
*
748882 AAGAAGATATCGAAG
1 AAGAAGAAATCGAAG
748897 AA
1 AA
748899 CCTAAATAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.59, C:0.06, G:0.25, T:0.09
Consensus pattern (15 bp):
AAGAAGAAATCGAAG
Left flanking sequence: Indices 748367 -- 748866
CATGGAAAAGGGTTTAGAGATAATAGTACGATAGGGAATTAGTCTTTTTCTCAGAGAGTCAGATA
GGCGGGGGAAGAAAGGACAGAGAAGGCGCTTTCGATCGGGTAACTATGGGTAAAGGAGAAGCATT
TCAAGTAAGTAAAATTCTTAGACGGTACACAGAACACCAAGGAAATCGAGATAATAGAAAACTTG
AAACACATGTAGCAAAGGCAGGGGGATTCAATCCTTTTACCCGATTGGAAGAAAACCCGTATCTT
TTTCGTCTGTGCTTACCTTATTCCTAGCTATCAATTATGATAATAGTACGCCTAGGGACTTCATC
AATCCAATCCCTTAAGTGCGAACGGAAGCTTTGCGCATTCTTCTTCTATCAATTGGTCTCTTCAG
CGATTGATATGGTATAAATCAAAAAGTCTTTTTTTACTACTATCTCTATCTATACTTAGAACAAA
GACTTCGAAATATGAAACTCATATATGATGACTTGGAAATTGCAT
Right flanking sequence: Indices 748899 -- 749398
CCTAAATAGAATTCCAACATTTGAATTAGCCTTACTTATTATCTTTCAGCTTAGTGAGGGAGCTA
CTGGCCGTAGCGCCCGAACGAGAAGGGGAATGGTACGGTCGGACTAAGCAGACTTCAATTCATGC
TTTTTTTTTCCCTGCCTCCCTTTACTTACTAGCCCTTGTTGCTGTTTAATCAAAGCAGGTCTCTT
GGGCAAGTGCTATCGAATCGGAGTTTCCTGTTGATGCAGAGAGGAGTAGGTGCATTGATGCTGCA
AATCCGATGTTAGCAAGAACTGGTACGAATGGCATTGATGCATCTCATGCCCTCTTTGAATGGCT
TGTTCAAGAAGGGATTGCTTTTCTTAGCGCACAAAGCAAGCAGCGAAGGAACGGCTTCTTTTCTG
TCAATACTAGCTACTAGTGAACACTCTTCTTGTTCACCTTTCAGGCATAGTTTCCATCATGTAAG
TTAGTTAGCCTTAGCCTCTCTGTTATCCTTTTTCTTTACAGAAGT
Found at i:773818 original size:16 final size:16
Alignment explanation
Indices: 773793--773823 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
773783 TGTCTTCTCT
*
773793 GCCTAGGAGGAATATC
1 GCCTAAGAGGAATATC
773809 GCCTAAGAGGAATAT
1 GCCTAAGAGGAATAT
773824 TTTATCCCTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.19
Consensus pattern (16 bp):
GCCTAAGAGGAATATC
Left flanking sequence: Indices 773293 -- 773792
ATCAACCGGGTTTCACATTTTACATCTGCTACTGCTGGAGTGGATAATGCCTCCACTACCTGTGC
TAGCAAACAAACAAATACTATAATAAAAGGCTAGGTGTCCAACCAAAAGTACTCTTTCGGAATCA
GGTGAGTCGGGAAAGAAAAGGCCCTTTCGGACGGCTTTGTAGCTGCTGTAGTAGATACGGGGTTT
CCACAGTAGGTTATAAGGGCTGGTTTGAGGACTGGCTTTAGTCTCGAGACGGAAGCAGTCTTCAA
TAGAGCAGCTGGTATACCGATTTTCCCAACAAGAGGAAAGGCTTTTAGTTAGCTGCTTCAGTCTG
GATCGATGTTAGCCTGTTCTGGAAAGATCGAAGTTAGCCGAAGTTTTGTTTTCCCAAAGAGGGAA
GGGACTGAGTTCCTGTCCTGCAATCACTAGCTATAAAACCAAAGAAGGAATACCAACTAGTAGTC
TCGCAGTCTTCGACGTAACCTTTCACCAAGGGAATTGTCTTCTCT
Right flanking sequence: Indices 773824 -- 774323
TTTATCCCTATTGGATTGGAAGCTTCCCTTATTGGAGGGGTATTCTTCAAGGAAGAACCGTGGCG
AGCGGCTCAGAACAGAACCATCAAGCTTCTCGGAGGCCTTTACTTTCCCTTCGCCAAAGAATTCT
TTATCAAATGTCAGAAATACAACTTGACTATCTCCAGACTGAAGGAGAGGACCTAGCCAGCGCGC
ATTTCGCTAACGGCAGAGGCATATGCCACTTTCTTTTATTTCAACCGATTCCGCGACATCTTATC
TTTCCTGCCTACGCCGCTTCAACGACTGCTGCTCCTTATCCTTCTCGTGCTACTGGATTCACGTT
TCAACGTGTTTTAGGGAGGGTCTTTTGATCTGCCGCTCGCTCTAACGGTATCTGAATCTCCGTGA
AAGGTAGAAAAAAAGGTATGGTATGACTAAAGTAGCCACCTAAGGTTTATGGGCATCCTAAGGCA
TATAGTCGTTCTTACCAAAATAGGTCTTATGTTGGGTCTGAATCA
Done.