Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NC_034354
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: 277718
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Found at i:12835 original size:27 final size:28
Alignment explanation
Indices: 12800--12853 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
12790 GATCCCCCCG
*
12800 GGTTCCTG-TCTCTGGTTTCTCGATCCC
1 GGTTCCTGTTCTCCGGTTTCTCGATCCC
12827 GGTTCCTGTTCTCCGGTTTCTCGATCC
1 GGTTCCTGTTCTCCGGTTTCTCGATCC
12854 AGTTCCTCCC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 8 0.32
28 17 0.68
ACGTcount: A:0.04, C:0.33, G:0.22, T:0.41
Consensus pattern (28 bp):
GGTTCCTGTTCTCCGGTTTCTCGATCCC
Left flanking sequence: Indices 12300 -- 12799
CAATTGGTCTTTTCGAGACGAGACTTCTTCCTCTTACTCTTAGGGGAGAAGAAAAAGAAAAAGAA
AGAGGAGATCAACAACAGGCCAGCAGTTGGGATGGTTCACACGCGCCTTTATTGTGAATTACCCT
ACGAGCCCGCCTCTGAGAGCGAAGTAGTTGAATGAATCTCCGCTGTCTTATCCGATCACGCTAGC
AATCCAGAAAAGAACTGGAGGCTCAAAAGGTTAGGTCAAGTGGATTGATCCGTTGTTTAGTCTTC
GCCGAATCCCGAAATCCATCTGCACATAGAAGTGTTGGAAAAGTGTCAAAGCCATCCGAGGTTGA
GTATCAACTTCATCTCTCTCTGGACCTAAGGGAGTTCTGCCAGAGCATAATCACGCGTGCACTTG
GTGTATGACCTCAGCACACCAGAATCCGGAATCGACAGGCGCATTCTCTCTAGAGACAATGCTAA
TGATTCTGTCCTACTAGAGTTTCTTTATGTTGATTGATCCCCCCG
Right flanking sequence: Indices 12854 -- 13353
AGTTCCTCCCTTCGGCCGTGGAGTAGATAACTCTTAGTTTAGGGAACAGCGTTTTTTTAAACCTT
TAAAACGCTATTCATGGGAAGTTTTCTATTTGTGCCTTTACCCAGTCTAACCATAAACTTATATT
CCCTCTAGTATGAAACTAGAGACAGACTTTTCTTGTATATACCGTTGGGGGCACGGGGTTTGAGT
AATCACTTTTTGCCCTTATCTACGATATTATCCAGCTGAATGTGAACACTTGCTTAAAGGCAACC
AGCTTGACCAACGGGTGCACACTTCTCGACTAAGGCAATCTCATCTGAAAGCTCAACTTGCCGGT
CTGAAAAGAGGCTCAACATTCGGACATATCTTTTCGATTGTTAGCAGGAAGAGAAAGTAGACTAG
ATTGAAAGAGGAGAAAGGTAAGCGGAAAGCTGCAACTTCCTTGCTAGAAGTACGATTGGAAGGCA
AGGTAAAGCGGTAGCAAGCGAGGGCTTTCGTGGATCCTTCCGCGG
Found at i:12858 original size:27 final size:27
Alignment explanation
Indices: 12801--12860 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
12791 ATCCCCCCGG
* *
12801 GTTCCTGTCTCTGGTTTCTCGATCCCG
1 GTTCCTGTCTCCGGTTTCTCGATCCCA
12828 GTTCCTGTTCTCCGGTTTCTCGAT-CCA
1 GTTCCTG-TCTCCGGTTTCTCGATCCCA
12855 GTTCCT
1 GTTCCT
12861 CCCTTCGGCC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 15 0.50
28 15 0.50
ACGTcount: A:0.05, C:0.33, G:0.20, T:0.42
Consensus pattern (27 bp):
GTTCCTGTCTCCGGTTTCTCGATCCCA
Left flanking sequence: Indices 12301 -- 12800
AATTGGTCTTTTCGAGACGAGACTTCTTCCTCTTACTCTTAGGGGAGAAGAAAAAGAAAAAGAAA
GAGGAGATCAACAACAGGCCAGCAGTTGGGATGGTTCACACGCGCCTTTATTGTGAATTACCCTA
CGAGCCCGCCTCTGAGAGCGAAGTAGTTGAATGAATCTCCGCTGTCTTATCCGATCACGCTAGCA
ATCCAGAAAAGAACTGGAGGCTCAAAAGGTTAGGTCAAGTGGATTGATCCGTTGTTTAGTCTTCG
CCGAATCCCGAAATCCATCTGCACATAGAAGTGTTGGAAAAGTGTCAAAGCCATCCGAGGTTGAG
TATCAACTTCATCTCTCTCTGGACCTAAGGGAGTTCTGCCAGAGCATAATCACGCGTGCACTTGG
TGTATGACCTCAGCACACCAGAATCCGGAATCGACAGGCGCATTCTCTCTAGAGACAATGCTAAT
GATTCTGTCCTACTAGAGTTTCTTTATGTTGATTGATCCCCCCGG
Right flanking sequence: Indices 12861 -- 13360
CCCTTCGGCCGTGGAGTAGATAACTCTTAGTTTAGGGAACAGCGTTTTTTTAAACCTTTAAAACG
CTATTCATGGGAAGTTTTCTATTTGTGCCTTTACCCAGTCTAACCATAAACTTATATTCCCTCTA
GTATGAAACTAGAGACAGACTTTTCTTGTATATACCGTTGGGGGCACGGGGTTTGAGTAATCACT
TTTTGCCCTTATCTACGATATTATCCAGCTGAATGTGAACACTTGCTTAAAGGCAACCAGCTTGA
CCAACGGGTGCACACTTCTCGACTAAGGCAATCTCATCTGAAAGCTCAACTTGCCGGTCTGAAAA
GAGGCTCAACATTCGGACATATCTTTTCGATTGTTAGCAGGAAGAGAAAGTAGACTAGATTGAAA
GAGGAGAAAGGTAAGCGGAAAGCTGCAACTTCCTTGCTAGAAGTACGATTGGAAGGCAAGGTAAA
GCGGTAGCAAGCGAGGGCTTTCGTGGATCCTTCCGCGGTGGAATT
Found at i:47482 original size:16 final size:15
Alignment explanation
Indices: 47461--47494 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
47451 GGAAACTTCC
47461 GCGGGATCCTCTTTCT
1 GCGGGATCCTCTTT-T
*
47477 GCGGGATGCTCTTTT
1 GCGGGATCCTCTTTT
47492 GCG
1 GCG
47495 CTACGATGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.06, C:0.26, G:0.32, T:0.35
Consensus pattern (15 bp):
GCGGGATCCTCTTTT
Left flanking sequence: Indices 46961 -- 47460
GGCGGGCACTACTAACCAAGCCAAGCCCAGTTCCCGCCGATAGGCGCAGGTAGCTTGCTTCCAAG
CCTTGCCTTATATGATAGTTGTGGCCATGGCCCGAAGGAGCCTTAAGCACTTGTACAATGCTTCA
AGTCAAGGCTCCCTCCCACTCGTTGCCCAGAGCCTTGACTTTCCATGTTTTTAGTAAAATGCGCG
CTACAACTAGCACTTTTTTCTCTGATAGGCTCGCTTCTTCAAGCTCCGCCCCTTATTGAAAAAAA
AAGCGCTAACGCGCCTTTACTTTTTTATATAATACCTTCTTTCTACTTCTTTCTCAAAGTAAAGC
AAGCAACCTTTCGCCTTTATTTTTTTGAGGAGATATAAAAAGAAGCAACCTTACTAAGCAAACGT
AGGCTTGGCCTCGAAAGCAAGAAGCAACGGCTTTCGCGCTTGTTGGAGCTATTAAGCATCTTAGA
CTATTCCATTCCATTTTTCAGCTGGACAGAAAAGTGGAAACTTCC
Right flanking sequence: Indices 47495 -- 47994
CTACGATGGAGTTTTTTACTCTTTAAGTGCGCCACTCCTTCTTTTGTCCTGTATCTGTAGCTGCT
TTTCCCGCACTCTCTTTTATCCCGCCGAAGGTCCCCCTTACGTAATAGGGGTTAAGTTAAGGGGG
GTGCACACCGTGGTCAAATCTGCATGAAAAACCGCGGGGAATCATTAGTATTAAGTATTATGCTC
CCGCACCCCCTATCTCTTAAAGGCTCTGCGCTCCCGCATTCTGATTGATCCTGTGCAATGTTGTA
ATCCTGCTGTTCCTTTATCCCCCGCTCCGCAGCTGCTGGAGACTTAGTCATATTTTGAGCCTTTT
GCGGTACTTATTGATGTTATGGGGGATTACTTGGGTTGGCCGGACTCTTTGTTTGCGAAGGCCGA
AGGACTGAAAAATGAGGTTTTTGCTGTTATTGGACAGAATTGGTGCCGTTTTCCCACGCCTCATT
TTCCATAATATGATTATGAGCTGCAGAACGCTTGAAGCTGGAATT
Found at i:61321 original size:21 final size:22
Alignment explanation
Indices: 61283--61323 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
61273 AAGACTATTA
61283 GCCGATAGGAGAAATAGTCTTT
1 GCCGATAGGAGAAATAGTCTTT
61305 GCCGATAGGAG-AATAGTCT
1 GCCGATAGGAGAAATAGTCT
61324 CTTCTTTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (22 bp):
GCCGATAGGAGAAATAGTCTTT
Left flanking sequence: Indices 60783 -- 61282
AAAACTACCCGAGGGTTCGAAGTGAATGAAGAATGATTGAGATGATAGCTAGGATGAACTTAAAA
GATCACAGCGCATTCTTTCAAAGAGAAGAAAGTTTCAAAGAAGCCATTCGTAAACCTACAACTGA
CTTACTACTATCTTCTTATAAGACAGACTGGGAGACAGAGGGGAGGCTCTATTCAACCATTCTAA
AAAAGACTGGCTACCATATAAGATGAAAGAAGAGACTGCCTACTGCTTTTGCTTTGAAAGCGGCT
TGGAAGGAAGGAAAGACTCCATAATCAAAAGGCAAAGGCATTGGTCCTACCAAGTGTCCTACTAG
GAATATAGGAAGAAAAGCTATTCTTCTTAGCTGTTGAAGAAGTGAATTGAATCACCCCGAAAATA
CTAAGCAGACTTGAACTCCTCCCTTGGCGCTCAGATGATTCCCCGATCCGCTAAATCGTCGGATT
GTCTTCTTAGAGTTAGAGTAGAGCTATGATGCAGCAAGACTATTA
Right flanking sequence: Indices 61324 -- 61823
CTTCTTTTTGTCTGAATTCAGACCATTTTTCTAATACATACACTTGTGCTGCCCAACCGTATTTG
AAATCCCCACAGTTCTCGGGCGATAGAGGATTCCCTTGTTTTCGGGAAAGAGGGAACCCTACACT
AAATATGAACTAAATGCTGCACGGACCCATATATATAGGAACAGAAAAAGAATGACTTTTTGAGT
TCGTTGCCCTTCCCCAAACCGTACGTTCGCGCCGATTCTAGTTATTTTACGGAGGTTTCTTCTTG
ACTGTCTTAGTCAGATTGTCAGTTTGATAGGTATTCTTAGTATCCTTATCATTCATCGTTTCCTT
GTCAGTCGTTTGATTGGTGGTCAACGTATCCTTATCATTCAACGTTTCCTTGTCAGTCGTTTGAT
TGGTGGTCAACGTATCCTTATCAGTCTTGGCTTTCTGGTTAGTGAGATTGTTCATATGATTGCCT
ATCTCATCAAGCATACTTTTCATCTCGGATATCTCTCTATCCTTC
Found at i:61678 original size:51 final size:51
Alignment explanation
Indices: 61623--61736 Score: 219
Period size: 51 Copynumber: 2.2 Consensus size: 51
61613 GGTATTCTTA
*
61623 GTATCCTTATCATTCATCGTTTCCTTGTCAGTCGTTTGATTGGTGGTCAAC
1 GTATCCTTATCATTCAACGTTTCCTTGTCAGTCGTTTGATTGGTGGTCAAC
61674 GTATCCTTATCATTCAACGTTTCCTTGTCAGTCGTTTGATTGGTGGTCAAC
1 GTATCCTTATCATTCAACGTTTCCTTGTCAGTCGTTTGATTGGTGGTCAAC
61725 GTATCCTTATCA
1 GTATCCTTATCA
61737 GTCTTGGCTT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.18, C:0.22, G:0.18, T:0.42
Consensus pattern (51 bp):
GTATCCTTATCATTCAACGTTTCCTTGTCAGTCGTTTGATTGGTGGTCAAC
Left flanking sequence: Indices 61123 -- 61622
AGCTATTCTTCTTAGCTGTTGAAGAAGTGAATTGAATCACCCCGAAAATACTAAGCAGACTTGAA
CTCCTCCCTTGGCGCTCAGATGATTCCCCGATCCGCTAAATCGTCGGATTGTCTTCTTAGAGTTA
GAGTAGAGCTATGATGCAGCAAGACTATTAGCCGATAGGAGAAATAGTCTTTGCCGATAGGAGAA
TAGTCTCTTCTTTTTGTCTGAATTCAGACCATTTTTCTAATACATACACTTGTGCTGCCCAACCG
TATTTGAAATCCCCACAGTTCTCGGGCGATAGAGGATTCCCTTGTTTTCGGGAAAGAGGGAACCC
TACACTAAATATGAACTAAATGCTGCACGGACCCATATATATAGGAACAGAAAAAGAATGACTTT
TTGAGTTCGTTGCCCTTCCCCAAACCGTACGTTCGCGCCGATTCTAGTTATTTTACGGAGGTTTC
TTCTTGACTGTCTTAGTCAGATTGTCAGTTTGATAGGTATTCTTA
Right flanking sequence: Indices 61737 -- 62236
GTCTTGGCTTTCTGGTTAGTGAGATTGTTCATATGATTGCCTATCTCATCAAGCATACTTTTCAT
CTCGGATATCTCTCTATCCTTCTCACAAATTACTGTTTGAATCTCTCTATCCTTCTCACAAATGA
CTGTTTGAATCTCTCTATCCTTCTCAGATATCTGATTCCTTAGATTGAAGATGATTCTTTCCCCA
TTGTGGGGGCCAACGTTAGACAGATCCTTGATATGAATAGGTTCAGTATCAATCCATACATTCTT
GCTATATACCGGGGTCCTCTTAGACCCCATACTAAGCCTTAGTATGTAAGAACTTTCTCTCTTTA
GGATATCCAGTGATTTCCAATCAATGCTAAAGTTGGAATCTACCACTACCACCTCTTCGTGATAA
GGGTCTGCATACTGTGACTCAAACCATTCAGGTTTGATCAGGTTTTTAGCTGCTCCCTTGTACTT
GAGAACATTCTTTCCTTCCATTGTTGTGTAACAATAGGATTTTGG
Found at i:61851 original size:33 final size:33
Alignment explanation
Indices: 61809--61892 Score: 159
Period size: 33 Copynumber: 2.5 Consensus size: 33
61799 CATCTCGGAT
*
61809 ATCTCTCTATCCTTCTCACAAATTACTGTTTGA
1 ATCTCTCTATCCTTCTCACAAATGACTGTTTGA
61842 ATCTCTCTATCCTTCTCACAAATGACTGTTTGA
1 ATCTCTCTATCCTTCTCACAAATGACTGTTTGA
61875 ATCTCTCTATCCTTCTCA
1 ATCTCTCTATCCTTCTCA
61893 GATATCTGAT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 50 1.00
ACGTcount: A:0.23, C:0.30, G:0.06, T:0.42
Consensus pattern (33 bp):
ATCTCTCTATCCTTCTCACAAATGACTGTTTGA
Left flanking sequence: Indices 61309 -- 61808
ATAGGAGAATAGTCTCTTCTTTTTGTCTGAATTCAGACCATTTTTCTAATACATACACTTGTGCT
GCCCAACCGTATTTGAAATCCCCACAGTTCTCGGGCGATAGAGGATTCCCTTGTTTTCGGGAAAG
AGGGAACCCTACACTAAATATGAACTAAATGCTGCACGGACCCATATATATAGGAACAGAAAAAG
AATGACTTTTTGAGTTCGTTGCCCTTCCCCAAACCGTACGTTCGCGCCGATTCTAGTTATTTTAC
GGAGGTTTCTTCTTGACTGTCTTAGTCAGATTGTCAGTTTGATAGGTATTCTTAGTATCCTTATC
ATTCATCGTTTCCTTGTCAGTCGTTTGATTGGTGGTCAACGTATCCTTATCATTCAACGTTTCCT
TGTCAGTCGTTTGATTGGTGGTCAACGTATCCTTATCAGTCTTGGCTTTCTGGTTAGTGAGATTG
TTCATATGATTGCCTATCTCATCAAGCATACTTTTCATCTCGGAT
Right flanking sequence: Indices 61893 -- 62392
GATATCTGATTCCTTAGATTGAAGATGATTCTTTCCCCATTGTGGGGGCCAACGTTAGACAGATC
CTTGATATGAATAGGTTCAGTATCAATCCATACATTCTTGCTATATACCGGGGTCCTCTTAGACC
CCATACTAAGCCTTAGTATGTAAGAACTTTCTCTCTTTAGGATATCCAGTGATTTCCAATCAATG
CTAAAGTTGGAATCTACCACTACCACCTCTTCGTGATAAGGGTCTGCATACTGTGACTCAAACCA
TTCAGGTTTGATCAGGTTTTTAGCTGCTCCCTTGTACTTGAGAACATTCTTTCCTTCCATTGTTG
TGTAACAATAGGATTTTGGCGCTAAAAAGTACCCTTCTTTGATTCTATCTTCTAGCTTAAACATC
CCTAAGACTGAAGACGAGATCAATTCATCCGGGAGTGGTTGTCCTAGCACTACTGAGTCAGTGTC
TGTGTAGTAACTGTCATCCCTTGAGATGGTTTCATACATATAGAT
Found at i:91253 original size:39 final size:39
Alignment explanation
Indices: 91198--91276 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
91188 CCCATCCTTC
*
91198 AATATCATGATTGGGTCGACCAGGCCAGATCATGAGTGA
1 AATATCATGATCGGGTCGACCAGGCCAGATCATGAGTGA
*
91237 AATATCATGATCGGGTCGACTAGGCCAGATCATGAGTGA
1 AATATCATGATCGGGTCGACCAGGCCAGATCATGAGTGA
91276 A
1 A
91277 TAGAAAATAG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.23
Consensus pattern (39 bp):
AATATCATGATCGGGTCGACCAGGCCAGATCATGAGTGA
Left flanking sequence: Indices 90698 -- 91197
GGAAGCCGGCTTGTGCTGGATTCCTGCATACCTCTGGCAGGCATCGCAGCTCTTAGCATGTGCTA
TGTAATCTGCAAGGACCGTAGGCCAGTAGTGGCCATGTCTCCGGATCTCTCGAATTTCCCTCAGC
GCGCTCGATCTACCTATCTTTCTGAGTTTGATTGGTTTTCGCTCCAGCTGACCTTTCCATTTAAT
CACTGACAAAACCTACCTTTCAATTCTTCTTACCCTATGAGCTTTCAGCAAAGGACAGATTTCTT
GGTCCATTGACATCGATCAACGAAATAGACCTCCTTCTTTCACTTTTGTCGTTGTCTTCCAATTC
AAATAGCCCCATTAAGTGAGTGTTCCGCGAGAAAAGAGAGGCTGACATCTTTTCTTATCTATCTA
TTTTCGTAAATGAAGAAGATAAGTGAGAGCTTACTGACTGCATCTTCTAAGAAGGGCTTGGAAGA
AGAAATAGAATCTCCTTTCTTTTTCGAGAAAAGGTCCCATCCTTC
Right flanking sequence: Indices 91277 -- 91776
TAGAAAATAGAAAATGTACATAGCAGTTCCAGCTGAAATACTTGGAATAATTCTACCACTTCTAC
TAGGAGTAGCCTTTTTAGTGCTAGCTGAACGTAAAGTAATGGCTTTTGTGCAACGTCGAAAGGGT
CCTGATGTAGTGGGATCGTTTGGATTGTTACAACCTCTAGCAGATGGTTTTAAATTGATTATAAA
AGAACCTATTTCACCAAGTAGTGCAAATTTCTCCCTTTTTAGAATGGCTCCAGTGGCTACATTTA
TGTTAAGTCTGGTCGCTCGGGCCGTTGTACCTTTTGATTATGGTATGGTATTGTCAGATCCGAAC
ATAGGGCTACTTTATTTGTTTGCCATATCTTCGCTAGGTGTTTATGGAATTATTATAGCAGGTCG
GTCTAGTAATTAGGGGGCGGCCGTTCGGTCGCCTATGATACTAGGACCAATAGGTCAAAAATGGG
TTTGTGCCGCAGGTGTTGAACGATCCACTCTACACAGGTGTGGGC
Found at i:99364 original size:18 final size:18
Alignment explanation
Indices: 99324--99366 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
99314 ACCGCCCTGC
99324 CATAGTCGCGAGTCTGTTT
1 CATAGTCGCGAG-CTGTTT
99343 -ATAGTCGCGA-CTGTTGT
1 CATAGTCGCGAGCTGTT-T
99360 CATAGTC
1 CATAGTC
99367 AACAAGGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 5 0.23
17 1 0.05
18 16 0.73
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.35
Consensus pattern (18 bp):
CATAGTCGCGAGCTGTTT
Left flanking sequence: Indices 98824 -- 99323
CGTCCGATGGGTACACGAAAGTGACGAAGTTGCTTTGACTACAGAACCATGCCTGTCTGTTGGAG
CGAATTGGATGATCGGGCCGAGGGCTGCCCCCTCTTCCCCTCACTCTCCTTTCCCTAATATGAAC
CTTGAGTCATCAAAGCCTTTCTGACTCGGCCTGGCCCGGTCGCCCTACGCGACTGGCGCTTCAAA
AGGCGAAACTCTCGTCGTAGTTTGGCGACCTAAGGGGCGGACACTTTTTGTTATCTAAAGGCGAA
GACTCTGAAGTGGGCGAACACTCGGCCCAGCGGGCGAACATGCCGGGCTCCGGCTCCGCGCACCT
GCTGACACCTTTCGAAGCACTTTCTAGTGTGCGCTTTAGTTTTCGAATGTCTCGTTCAGCGTCAC
GAGTCTACAAGCCTTTCTCATTTCAGTGCTCGCCCTTTGAATCTTCAGTAGGGGCCTTTAGTCTT
TTGATTAGAGTAGGGGTCGCGAGAGAGCAGAGCGTACCGCCCTGC
Right flanking sequence: Indices 99367 -- 99866
AACAAGGTTGAAACTTCCAGGAAAAAACTTCGAATTGGGAGGGCGATCCTCCCGGTGAACTGACC
GTACCCCAAACCGACACAGGTGAACAAGTAGAGTATACTAGGGCGCTTGAGAGAACCATGTCGAA
GGAACTCGGCAAAATGACCCCGTAACTTCGGGAGAAGGGGTGCTCTCCTATCTTTTGATTAGGAA
AGCGGCACATACCAGGGGGTAGCGACTGTTTATTAAAAACACAGGACTCTGCTAAGTGGTAACAC
GATGTATAGAGTCTGACACCTGCCCGGTGCTGGAAAGTCGGAAGGAGAAGTGTTATAAGCTTTGA
ATGGAAGCCCCGGTAAACGGCGGCAGTAACTCTAACTGTCCTAAGGTAGCGAAATTCCTTGTCGC
ATAAGTAGCGACCTGCACGAATGGTGTAACGACTGCCCCGCTGTCTCCGACATGGACCCGGTGAA
ATTGAATTCTCCGTGAAGATGCGGAGTACCAACGGCTAGACGGTA
Found at i:101004 original size:21 final size:21
Alignment explanation
Indices: 100978--101021 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
100968 ATATCTAGTT
*
100978 TGAATTCTAAGACCCTCTTTA
1 TGAATTATAAGACCCTCTTTA
*
100999 TGAATTATAAGGCCCTCTTTA
1 TGAATTATAAGACCCTCTTTA
101020 TG
1 TG
101022 CTCTCAAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (21 bp):
TGAATTATAAGACCCTCTTTA
Left flanking sequence: Indices 100478 -- 100977
CCTATGGTGTACCGGTTGTTATGCCAATAGCAGCGCCGGGCAGCTAAGTTGGTATGGAAGAACTG
CTGCGCCGCGGGAAATCCTTCTCTATACAAGTTCTCGGACGAGGTTTTTGAACAGAACTTCGATA
GGCGAGAGGTGTAAGCACCGCGAGGTGTGAAGCGATCTCGTACTAAACGAAAGAACTTTCACTTT
CCATAACCAAAATGAAAGAAAGTCAACCTATTCCTGCAATTGCGGTCAGTCTCGCTACCTCTTTA
GTTGCCGCCCCCTACTTGCTCATTCGCAATGACTACCACAAGAAAGTAGCCCCTATCTCTAAAGG
GGCTTATGCACTCCACGACTTTCTTATGTTATGGCGAAGACTTAATTTAGCTTCCAACCCTAGTC
AGCAAGCTTCAAAAGTCCTTTCTCCTTTCTTTTCCGAAACTCAAATAGAAAACTCTCCCCATGGG
ACCGGGGTTTGAGGTTGTCATACCACTTTCATCCGATATCTAGTT
Right flanking sequence: Indices 101022 -- 101521
CTCTCAAAGACCGGCTTTTACAGAACTGAGATTCCATAGGCCGAAACGAAGCCCTTTAAAGGTAG
AATTAGGAGTCGAAGCCATGCATTTAGCCCGATTGCTATTCGCCCTTTTTAGCACTAGACTGACA
TTCTCATTTCGCTTGTTCAGTTCAACGAAAGCCGGTACTAATCAAGCACAGTTTAGCCCTATGAT
TGAATTGCGATAGTTGGATTCCCTCTTCCTATAGCTATGACTGGCAACCCCTATAAGTCAGTTTT
TACTCCCTCTTTTAAGGTCGAGCCTATATAAAAGTAAATATGGTCTAGCTAGTTATCACTTCTCC
CCCTATAGTTATAGCAGTACTGGGGAATTCCTCTATCTTCTTTGAATGAGGAGAGAGAGTACTCA
TTCCTCTCCCTCTGGTCGAGTGGCTTCGCTCCTATAAGCTAGTTCTCACTTCCGAGCTCTAACTC
CTTACTTTCTTTCCCACCGTAGAACTCCAATTGAAAGGGGGATCT
Found at i:102626 original size:25 final size:25
Alignment explanation
Indices: 102598--102647 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
102588 AAATTGGGGT
102598 AGCTCAGGAACTATAGAATCTCTCA
1 AGCTCAGGAACTATAGAATCTCTCA
102623 AGCTCAGGAACTATAGAATCTCTCA
1 AGCTCAGGAACTATAGAATCTCTCA
102648 GGAGTTGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (25 bp):
AGCTCAGGAACTATAGAATCTCTCA
Left flanking sequence: Indices 102098 -- 102597
GTGCCATTTCTTCTCTTGGAGGCAGCGCAATAGATTCATCTTGTCCTTGGCTTGTGAAGGGAATG
AGGTAGGGTAGCCAAAGCCCCCAACAAAGGGATAGGGCAATCCTTCCCAAGTAATGCATAAGCAA
GATCAGGACTAGAGGGGTGTGAAGAGTAGGGGGATCTCTTGTGCAAAGCAAAGACAGGTACGTGC
TAGCAAAGAAGGGAAGTGGCAAGGGATTTCAAAGAAGAAGAAAGAAGAGAAAGTTAGTACACAGA
GTCTTCCCCTGCCTAATTGATCTAATGATAAAGAAGTAGGCTAAGTAAAATAGAAAGTGTGTGTA
AACAATAAGTAATGACTTGCTTTGTGAGAGCTCAGTTTCTAAGACGAAGGCTAAGAATTCTCTAC
TAGAGGGATTGAAAAGATCGAGGGTAATTTCTGAGTCTTGATGGACCTTTCTTATTATAGGCCAA
AGGAATAGCTAAGGACTTCTTCCCTCATTCTCATCAAATTGGGGT
Right flanking sequence: Indices 102648 -- 103147
GGAGTTGAATAAACTCTTTTATGCTAGTGGAATTGGGAAGCATGAGAAGTCCGTACTCCACATTC
TAGCTTCATCCTTGGTTTTCAAAGAAAGGAAACTTCAAAGACTGACAGAAGAGAAAGGTAAGATA
ATTCTTTCTGGCCTTAACTGAAAGCGGGGGAGGCCCAGGTCTACATACAGGTCTTGGATCAATAG
AATCCTCCAATTGCTAGGGAAAGAATATCGGGATTAGTCTCCTTGCCATTGCTACTGTCTTTGAA
AGTCTAGCTATCCTCTCCTTGTCATGCTTAGTTATTCTGCATTGCTCCTTCTTCTGATCTTGCTT
TCTTGCCTTATAGAACTGACCTTTGTCCCCTCCTTCCGGTTTTAACTCACTTAAAGTCCATTCCT
TGCTCTTGCCTAGTTCTAGGCTTAGACGAAAGAGCTCATTCATAGATTCCATCTTTCTAGCATTT
CATGTCTTTCTTCCTTCAACTCTAATTCATGCCATGAATTGTTAA
Found at i:115102 original size:26 final size:26
Alignment explanation
Indices: 115060--115114 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
115050 AGGAATATTC
*
115060 ACCTGCGGGGAACGCTCTGCCCCTGA
1 ACCTGCGGGGAACGCTCTACCCCTGA
* *
115086 ACCTGCGGGTAAGGCTCTACCCCTGA
1 ACCTGCGGGGAACGCTCTACCCCTGA
115112 ACC
1 ACC
115115 AGAAAGGTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.18, C:0.38, G:0.27, T:0.16
Consensus pattern (26 bp):
ACCTGCGGGGAACGCTCTACCCCTGA
Left flanking sequence: Indices 114560 -- 115059
GTACGAAGGGGGAATTGGCCCAAAAATTGGATAGGGGTCAAGACGCTGTCGGGCGCCGGCGGCTG
ACTCAAGTGCCCCCCGAACCGCGCGAAATGGTCGCCTATTACACGGCTCACTAACTCTGCCTGGA
GTGGTGGTACCTATTATTCGTCGGCGGGGGCGGTCCGGCGATACGTAGATGACTTTTGGCTGGTA
CAACCACTCGATTGTCCACTTCTAATAAACGTAATTGTGCCAATTCCAGTTTTGAACTACCGCAG
ACTTGTTTCATAGTTTTCAACTGAGCGGCAGACCCAACACGACTGACAGATAAGCCGACGTTAAT
TAAACTAGGAGTCTAATTTGGTAATGGGCGGTTCATTTTTCTAGTTCATTTTAGGATCGCAACTT
CCTGCGCAGTCCGTGCCTGTAGTGATATCCTAATTCGGCTACCTCTCCCACTCATCAAGGCTGAA
CATTAGAAAGGTAAACTATTGCCAAGAGAGAGCGGAGGAATATTC
Right flanking sequence: Indices 115115 -- 115614
AGAAAGGTAAACTATTGCCAAGAGAGAGCGGAGGAATGGCTCGACTACTCTCTTCTGGTCCGAGC
GATGTTGGCCTTCTCTTTCTCTTTCCCCCTGAACCTGCAAAAGGATCTGTTACCGGAGTGCTTCT
CAGGGCCGTCTGAGTCAGAGCAAGCCCGCCGGGGCGATCTATTGTCTAATTCAAGCTCTGATCCC
GTTAGCCGGAATTTGAACTATTATTCTAGAAGCATTGAACCGTACTAGCTTCGTTACAGACTTGG
AAGAGTTCACCATCCGAACATTGGCTAGCTGGCAAGACAACTTTTACCACCCAAAAAAAGATCTC
AAGTGATTAGGCGGGGACAGGATTCGAACCTGTAGTCTTCAGATCATGAGTCTGATGAGTTGACC
ATTCCTCCACCCCGCTTCAGCCATTCCCATTCCAAAAAGTACTTCTTCGATCTGAAGGTGTGTTA
AGCATATAGTCATTAGGTGTGTTAAGCATATAGTCATTGTGGTTA
Found at i:115592 original size:24 final size:24
Alignment explanation
Indices: 115560--115607 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
115550 TTCGATCTGA
115560 AGGTGTGTTAAGCATATAGTCATT
1 AGGTGTGTTAAGCATATAGTCATT
115584 AGGTGTGTTAAGCATATAGTCATT
1 AGGTGTGTTAAGCATATAGTCATT
115608 GTGGTTACAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.08, G:0.25, T:0.38
Consensus pattern (24 bp):
AGGTGTGTTAAGCATATAGTCATT
Left flanking sequence: Indices 115060 -- 115559
ACCTGCGGGGAACGCTCTGCCCCTGAACCTGCGGGTAAGGCTCTACCCCTGAACCAGAAAGGTAA
ACTATTGCCAAGAGAGAGCGGAGGAATGGCTCGACTACTCTCTTCTGGTCCGAGCGATGTTGGCC
TTCTCTTTCTCTTTCCCCCTGAACCTGCAAAAGGATCTGTTACCGGAGTGCTTCTCAGGGCCGTC
TGAGTCAGAGCAAGCCCGCCGGGGCGATCTATTGTCTAATTCAAGCTCTGATCCCGTTAGCCGGA
ATTTGAACTATTATTCTAGAAGCATTGAACCGTACTAGCTTCGTTACAGACTTGGAAGAGTTCAC
CATCCGAACATTGGCTAGCTGGCAAGACAACTTTTACCACCCAAAAAAAGATCTCAAGTGATTAG
GCGGGGACAGGATTCGAACCTGTAGTCTTCAGATCATGAGTCTGATGAGTTGACCATTCCTCCAC
CCCGCTTCAGCCATTCCCATTCCAAAAAGTACTTCTTCGATCTGA
Right flanking sequence: Indices 115608 -- 116107
GTGGTTACAGACGGGTTCTGTTTCCGATTAGACTAAGAACCTTCCGTCTAAGAAAAAACCTGCTT
AACTTCTACCCCCTCTCATGTATTGGCTCTCTCTCTCTTTCCGCTGATAGAGCAGTTTGCTAGTT
TGCATTCCTCTATCTGAATAGATAAGACTAAGAGGCGACAATCACCAAATCACTGCCTTCTTGTG
ACACATCGATTGCCTTCCCACCCCAGCTCTGAGTTAACTATTTCAGAGCTCTATCCCTTTCTTTC
TACCAAACCCCTTTAGCCGGGTATAGTTTTCCTCTCACCCGGAAGGTGGATAACTCCTTGGTCTT
ACGAGCCGCTTACGCTAACTCAAGCAGGTACCGGGAGGGACATCTTAGGCAGTAGAATCGAGCGG
TGCCGTTCAGTGATTACATACGAGTTTATGAATCTTTATGATTACATACGAGTTTATGAATCAAT
GAGATTTCCTCTTCTATTGTAGCGATACGAACTCAGAAGCTATAA
Found at i:116068 original size:28 final size:28
Alignment explanation
Indices: 116008--116068 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
115998 TGCCGTTCAG
* *
116008 TGATTACATACGAGTTTATGAATCTTTA
1 TGATTACATACGAGTTTATGAATCATGA
116036 TGATTACATACGAGTTTATGAATCAATGA
1 TGATTACATACGAGTTTATGAATC-ATGA
116065 -GATT
1 TGATT
116069 TCCTCTTCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 28 0.93
29 2 0.07
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.39
Consensus pattern (28 bp):
TGATTACATACGAGTTTATGAATCATGA
Left flanking sequence: Indices 115508 -- 116007
CCTCCACCCCGCTTCAGCCATTCCCATTCCAAAAAGTACTTCTTCGATCTGAAGGTGTGTTAAGC
ATATAGTCATTAGGTGTGTTAAGCATATAGTCATTGTGGTTACAGACGGGTTCTGTTTCCGATTA
GACTAAGAACCTTCCGTCTAAGAAAAAACCTGCTTAACTTCTACCCCCTCTCATGTATTGGCTCT
CTCTCTCTTTCCGCTGATAGAGCAGTTTGCTAGTTTGCATTCCTCTATCTGAATAGATAAGACTA
AGAGGCGACAATCACCAAATCACTGCCTTCTTGTGACACATCGATTGCCTTCCCACCCCAGCTCT
GAGTTAACTATTTCAGAGCTCTATCCCTTTCTTTCTACCAAACCCCTTTAGCCGGGTATAGTTTT
CCTCTCACCCGGAAGGTGGATAACTCCTTGGTCTTACGAGCCGCTTACGCTAACTCAAGCAGGTA
CCGGGAGGGACATCTTAGGCAGTAGAATCGAGCGGTGCCGTTCAG
Right flanking sequence: Indices 116069 -- 116568
TCCTCTTCTATTGTAGCGATACGAACTCAGAAGCTATAATAAAAGAAGCTATCATCTCCGGGGAG
TCAGATGATTGTCTGGACTGCTTCTTTTGAGGGAAGGCCTACAACCGTCGGTCTAGAAAGCTAGT
AACTCGGATGCCAGGAACCGACTAGCTCCCTGGAACCAACCACCAAATACCAATGTTGTCACCGG
ACCCAGCTTGTTATGCTATCGCCAGGGAATAAAGTCCTTGCTTTCTCTACGACATTCTATTCAAA
AATGATGATTTAGAAGGCATGACGGGTTCTTGTGCCCTTCTCTTCTGTTTGAGAGTTTCCGCTAT
GAAAGGACATCTCGCGCTTTACGCTCGCCAACCAGTTCCTCTTCCAACTACATGCTCTCGAGCAC
GAATAGAGATTTGTGATAGCAGCAGCCCGGTTCGATCGATAAAGGGGCTCTTGCCCGGTGGGGTA
CTCGATGATCAGTCAAGCGTTGTACTGGTCTGCAGATATCACTTG
Found at i:116655 original size:19 final size:19
Alignment explanation
Indices: 116633--116671 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
116623 TAAAGTCCAT
116633 TCTATGAACTACTTACATG
1 TCTATGAACTACTTACATG
116652 TCTATGAACTACTTACATG
1 TCTATGAACTACTTACATG
116671 T
1 T
116672 ATCTGATGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (19 bp):
TCTATGAACTACTTACATG
Left flanking sequence: Indices 116133 -- 116632
GTCAGATGATTGTCTGGACTGCTTCTTTTGAGGGAAGGCCTACAACCGTCGGTCTAGAAAGCTAG
TAACTCGGATGCCAGGAACCGACTAGCTCCCTGGAACCAACCACCAAATACCAATGTTGTCACCG
GACCCAGCTTGTTATGCTATCGCCAGGGAATAAAGTCCTTGCTTTCTCTACGACATTCTATTCAA
AAATGATGATTTAGAAGGCATGACGGGTTCTTGTGCCCTTCTCTTCTGTTTGAGAGTTTCCGCTA
TGAAAGGACATCTCGCGCTTTACGCTCGCCAACCAGTTCCTCTTCCAACTACATGCTCTCGAGCA
CGAATAGAGATTTGTGATAGCAGCAGCCCGGTTCGATCGATAAAGGGGCTCTTGCCCGGTGGGGT
ACTCGATGATCAGTCAAGCGTTGTACTGGTCTGCAGATATCACTTGCAGATCAGGGACAACCGAT
GGTAATATATATCATATCGGGTCTATACCAGATACTAAAGTCCAT
Right flanking sequence: Indices 116672 -- 117171
ATCTGATGGCTTTCCGTATTGATTTCATATAGTGACTGACGTCGACGGGACAGGATCGGCTTCCA
AGGATGCTTTACGCTATATGATCCTTTCAATTCATAGTTTGATGGGCTTTTATTTTAAGCTGTTT
GCTATTCTTGTGCCAGCGGAGAATGCTTCCTTTTGCCCAAATGTGCTTTCCGCTGTATGCTCGTT
TGTTCTTAACTACTTGCCTTCGGACAGCTGCCAGTTAGTTATCTTATTTCGTATAATGAAGTTTT
TCCTCTTGAGCAAAGATCTTCGTCCTAACAAGGGGCTTCCGTTTAGTCGATAGCAATTCAGCAAA
GAGACAAATGTGCACATGAAGAAGGGGAGAGATTAAGTGCCTAGCCTTAGATGGAGCAAAGCAGA
CTGAGGGCATTAACTGATGAGATCCGATTCCTTCGCTTTCTGTGGCATTGTTGTTGAGCTAACTC
AGTAAGATTATCTGGTATAGGCCTATTAAGATTGTTATTTCCAAG
Found at i:140543 original size:21 final size:21
Alignment explanation
Indices: 140517--140574 Score: 98
Period size: 21 Copynumber: 2.8 Consensus size: 21
140507 AAGAACGAGT
140517 ATGCCCGGAAACAACTTGAGC
1 ATGCCCGGAAACAACTTGAGC
*
140538 ATGCCCGGAAACAACTTGAGT
1 ATGCCCGGAAACAACTTGAGC
*
140559 ATGCCCGGGAACAACT
1 ATGCCCGGAAACAACT
140575 CCTAAGAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.28, G:0.24, T:0.16
Consensus pattern (21 bp):
ATGCCCGGAAACAACTTGAGC
Left flanking sequence: Indices 140017 -- 140516
TGCCGGGCTTGTAAATGACATAGCCCTCCTAAATGACGACTCCTTCAGAAAAACGAAGTTATTCA
AGTTCTTTTTCTCAAAGAAGTCCCCCTCCGACAGCCCGACGAGTCATCCACTTAAAAGGACCCTC
CCTGCGGTGCGCCCTTCCTTGAATTATTCGGTCATGCAATACTTATTGAAGACAAAGAACCAAAT
GCATTTCGACCCCGTCGTAGTTCTCAATCATTTCGTGGAACCGGGCGTGGTTGAACCATCTACCA
TGGGGGGAGCTAATGCACAGGGAAGAAGCTTAGATAAGAGAATACGTTTCGCTTTTTTTGTCGAA
AGCTCGACCAGCGAGAAAAAGTTTTTGGCCGAAGACAAAAAGTTGACCCACTTCATTCGCTGGTC
GAATCATCCTCGCTTCGCGGGAACAACAAAAACCACCATCTCGCTCTTTCCTTTCTTCGGTGCTA
CCTTTTTCTTTCCAAGGGACGGGGTTGGGGTGTATAAGAACGAGT
Right flanking sequence: Indices 140575 -- 141074
CCTAAGAAAATTCAGGAAAAAATGTTGGAACCTCATGTGTAAGGATAAGGTAATGGAATTGATAG
ATAAATTCATCGACCTAGGTGGGATAGGAGAATTGATAAAGGGAATAGAGATGATGATAGAGATC
ATACTGAGAAACAGAAGAATTCCGTACGGATACAACTTTTATTTGAACGAAGTGAAAAAAATGCG
ATCTTTGTTGTCTAATAGAACAAAGACTAATACCTTAATTGAGTCGGTCAAGATCAAATCTGTTT
ATCAAAGTGCTTCTCCGATTGCTCAAGATATCTCTTTTCAACCGAGGAACAAAACAAGATCATTT
CGCTCCATTTTTAGTCAAATAGTGAAGGATATTCGATTAGTAATGAAAAAAGGGGTGGAGGGGAT
CCGTATATGTTGTTCAGGTCGATTAGAAGGTGCAGAAATAGCTAGAACTGAATGCGGAAAGTATG
GAAAAACATCTAGTAATGTATTTAACCAGAAAATAGATTATGCTC
Found at i:197687 original size:20 final size:21
Alignment explanation
Indices: 197649--197690 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
197639 TGATTTCTCC
197649 TTGGCAGGGGAGAAGCACTAA
1 TTGGCAGGGGAGAAGCACTAA
* *
197670 TTGGCGGGGGATAA-CACTAA
1 TTGGCAGGGGAGAAGCACTAA
197690 T
1 T
197691 CTCAGTCTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.31, C:0.14, G:0.36, T:0.19
Consensus pattern (21 bp):
TTGGCAGGGGAGAAGCACTAA
Left flanking sequence: Indices 197149 -- 197648
GGTACCTCGACCCTGTCCACGCGGCATCCTCAGCACCTACGAAATAGAAGAAATTTCCTAAGCTA
AGTATCTACACGATGCATGAGGCTAGTAAGTCTACAGAATCTTAAACCTGTGCTCTAATACCAAA
AATGGTTTGACCGGCCCTGAGCGGTCCCTACCCGAGGTGGCATTTGTCCCTTCTCCTCTTGCTAT
TGATTCAATTTTCTCAAACCTTCCATCAGGAAAGATCCAAGCAGCACCACTTCTCTTACTAAAAG
AGCGTATTCTTCTTCACTTTCAAACAACCTATTTTGATTCAATTGCAGCTCCTTCTATGCCATCA
ATCCCATTTTGTTCACAGTGTCCTCTTCTGGGAAGGAATTGATGCAAGGAATCGGAAGTATGGTA
AGGCTTGACTTTCCCCGTCCTTTGTCTTCTAGGCGTCGGAGGATCGGAGGAAGGGAATCGAATGA
CATTCCTTTCCTAAGAGGTCTCCGCCTTTGAAGCTTGATTTCTCC
Right flanking sequence: Indices 197691 -- 198190
CTCAGTCTATTTGGCCTCGAGGCGATCTAATATCGACTGGGGAACTTTCGCCGCTACTCCGTCAA
AGAGGAAGGACAATCCCTTAGGTCCCTGCCTTTTAAGGCATTCTAGCAAAGAGAACAGCTTCTTC
TTTCACAACTCATTCTGAAGAAACCTATTTTTATTAAATCAGAAGAAGCTGCACCCTATTCCGCG
ACAAGAACAACTCTCAAGGCGACATTCCTTACCTTTCCTTCCCCGGATTTGAGACTGAATCGCAT
GAAACGATCCCTTTTCTGCCTTCTTGGCTATTAGATGCTTAGCTTCTTTCCTTTGAAAGAAACTC
CTTTGTCTTGGGGGTTACCTTCATTCCATTTTTTCAATATAAAAATCGTTTTCATGAGATCTGTT
GCAGTCAAACCGTCGTTCCCATAGCCTCTTCTCGCCCATCTGCACCCCTCACTACTGAAAGCTTA
TCTTTTCGTTCTTCTGATCTGCTTCCACTCCTGGCTTCCAAGGTC
Found at i:209942 original size:36 final size:36
Alignment explanation
Indices: 209895--209966 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
209885 GGCACACGCA
209895 AAACTCTCTATTTGGCTTTTCACTGAAACCAATACG
1 AAACTCTCTATTTGGCTTTTCACTGAAACCAATACG
209931 AAACTCTCTATTTGGCTTTTCACTGAAACCAATACG
1 AAACTCTCTATTTGGCTTTTCACTGAAACCAATACG
209967 TCTAAACATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.33
Consensus pattern (36 bp):
AAACTCTCTATTTGGCTTTTCACTGAAACCAATACG
Left flanking sequence: Indices 209395 -- 209894
ATGAAAGCATGGGATTCAATCGAACCTTTTCGGACAATTCCTAACGCAGAAGAGGGATGCTAATA
AGCTGACAGCTCAGGCATGGCTTCAATAGCGAAAGAAGTTCTTTCTGATTTGAATCAAGAAAGAC
AATGAATTTACGAGATCTTGATCCGTTCAGTGCCTTCACTTGTGAACAACAGGGACCCATTCTGT
TGATTGCTTCTCTGCGCCAGCTCTAACAAACTGGTTTTTCTTTCTCACAGAATTAGGGAAATCAT
TAGATTCTTCTTCCTTCTTTCGGTAACACGAGATAGGCTGGGAAATCCCCCTTCGATAGACAGGT
GGCAACTTGACCTCTAAGTAAGGACAGGAACGCCCGTGCCCAATCAAAGACCACAATCATGAAAA
GCACCTGAACCGAGACCTAAAGCTGAACCGCTGAAGGAACCTCTTTCCGTTGTTAAAGCAAGTAC
GCTTTTCAAGCTTTTTCCTTACTCTTACTAAAGCAGGCACACGCA
Right flanking sequence: Indices 209967 -- 210466
TCTAAACATAAGGTAGGTGCTTTCACGACTCACTAAACGGGGATCAAAATCTTTGCGCAGTAGAG
GAGTCAAAAGCGGAGGACGAAGCGAATGTAGAGGACACAGCATATCCAGGGAAGGAAGATGGACT
GGACTCACTCTCATTGGGAGGCTGTTCAACCAGACTGCGAAGTTGAAAATCGAAGGGGAACCAGA
AATCTTGATCCATGGTCCCTATCCCTACCCTAGAAGGGCTTGAAGTTGAAGCAGACGTCCAGAGG
TGCCTTTCTTGATGGAATGAAAGAAATGCCGACCTATAATTCCTGGTCATGAAGTGGAAAAGAAA
GAAGTAGCATGGAAAGGAAAGCAATTCGCCAAGCTATGAAAGAAGAGTTTCATTGATGGCCTTCT
TGGGAATAGGCATGAAGCCAATCTCTCCTTTCTTCGGTGAATAATCAGTGAATAACCCTTCTTTG
TCCAGTCATTTCATCCTGGTAGGGAAATCCAGGACATACATACAA
Found at i:217030 original size:13 final size:13
Alignment explanation
Indices: 217014--217041 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
217004 GTAAACTACC
217014 TTTTTTCTTCTCT
1 TTTTTTCTTCTCT
217027 TTTTTTCTTCTCT
1 TTTTTTCTTCTCT
217040 TT
1 TT
217042 CGTCCCAGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTTTCTTCTCT
Left flanking sequence: Indices 216514 -- 217013
CATTGAATACTTATACTTTTGTTCTTCCCCCCGATTTTTGCCCTATCACCAGTGGTTACTCCCGA
TCCTAAGCACCCCTTTTCCATGAAACCTCCACGAATAAAGAAAACACTTTTCTCTTTTCTACGAT
ACTATTGCTAATGCATTCTTTTCGATCTTGTACCCACGGAGCGGTACACTGAACACCAACCCAAT
CTTTTTGAAAAAAGTAGAAGCAACTAAAGAAGGGTGACGAAGCTTCTTTGCATCCCATAGTGCTG
TCGCACTAAGCGACTACCGTTCCAGAGTCGTACAACGAAGTAATTAGCATACCAGAGTGACGCAA
GGCTCTAAGCTTGTACCTTATAAGTAAGCTCTTTATGCTCTCTCCGCTCGCTCCTTTTCGTAGCG
TAGATCTTTCTTCTCTTAAGAGATTTTGAGAAGAGTGAGTGCGCTTTCGAAAGTTTCGACTTTTC
GATCTTTCTTCCCTTAGCGCACAAGCACTAAGCAAGTAAACTACC
Right flanking sequence: Indices 217042 -- 217541
CGTCCCAGACTCTTCTTTTTTTTATTAAAAAAATAATCCAGATATCTCCGAGAAACTACACTAAA
GGGAACTGTTAAGTACAGACGATGCCTAGAAATGATAGTAACACCTGGGGCCTTCGAAATACCAA
ATCCCAGCTTAAGTCCAAAAGGCCTACACTTTAACTAGGAACAGAAAGGTCCGCGAAATAACCGC
GTTGCTCGATCAGTGAAACCAGAGTGATGGTCTTCTGGGACGATACATTCGTAATGGATCCATCA
TATACGTTATTTTAGATGGTTCTAATTGTGGGCGATAGTCTTCAACTAGGGGGATCCGGAGTTTC
CGAAATCTATACTAGTTTGCCCAGTAATGTTGTGGCTGCAATGCGTAGGCCGTCGTTCTCTGATC
CATTCTTTAGGTGAGAGGAAACCTTCTCTTTAAAAATGAATGGAAGGTAAAAAATAGGAACTGCC
TGTAGATAAGTATATAGACATGCTATTTTGATGTGATGTAAGAAT
Found at i:237983 original size:18 final size:18
Alignment explanation
Indices: 237960--238007 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
237950 ACAGTAAACG
*
237960 AGAAACCTAAGACTGATA
1 AGAAACCTAAGACTGACA
237978 AGAAACCTAAGACTGACA
1 AGAAACCTAAGACTGACA
*
237996 TGAAACCTAAGA
1 AGAAACCTAAGA
238008 AACCTAAGAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.50, C:0.19, G:0.17, T:0.15
Consensus pattern (18 bp):
AGAAACCTAAGACTGACA
Left flanking sequence: Indices 237460 -- 237959
CTCTCAGGGATTCTTTTTAGCTCCGAAGTCCTATTGCTACACGAATGATAAAGGAATTGATGTAA
TCAAGTACAAAGGGGCTGCGAAAAACCAAATCAGTCCTGAATGGTTTCAGTCACAGTACGCTGAC
CCTGCTCGTAAGCAACATGTACAGGTGGAAGCCTACTTCCGGATTGAGTGGTCCACACTTAACGT
GTACAAGAAAGACCAATTAATCCAGGTAGGGATTAATCAGGGGTCAAAAAGGAAACCTGTATTGC
ACGGTGGGGTCTGGGTTGATACAGAGCCAATAGAAGTCAATGACTTGTCTAGACTAGATAACATT
AGCAAAAAACTTGTCATGTTACTAAGGGCTGATGTAACACTTCTTAAGAATGAGAATCTCTATCT
CCATACTAAATTATCTCAGATGGAAATAGACATGAAGGAAAAAGGGATAGACGAGAGAGACAAAG
AGATGAAAGAAGAACCTACAGAGGTCACTAACCCAACAGTAAACG
Right flanking sequence: Indices 238008 -- 238507
AACCTAAGACAGACAAGAAACCTAAGAAGAAACCTCCGTGATAAAAGACCCCATTCACTACTGAC
AAAGGAACGGGATAGCTAGAGGTACATTATAACCAGAGCTTAGAGCTCGAAACATGGTAGCCACT
GGTTCTGGCTGGATTGAATCCTTCTCAGGAAGAGCTGATGCTTCTTCACTTTCTAACTTGAGCTA
GCTGATTGGTTTACTACTTCTAATAGAATCTTCTAAGGTCATCTCCTCTTCTGCTTCTGAAGTTA
CCACGGTCTGTCTGTCATCAAACCTCATAGGCAAAAGAGAAAGCTAAACAGGGGTTCAAGATTGA
GTTCACTGGACCTCGGAAGTTCGAGCGAGTTAAGCTTTCCTCCGTTTATTCCCTAATCCTCTTAA
CCGAGTAACTTCCCTCCTCTGGCTTTCTCCAGTAGGTAGCCTCTAGAGCAGTTAGTCTAGCATTT
CCGGTTGTTTATATAGGATCCTATGTTCACATAGAGAACTTCTAG
Found at i:238006 original size:27 final size:27
Alignment explanation
Indices: 237976--238035 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
237966 CTAAGACTGA
* *
237976 TAAGAAACCTAAGACTGACATGAAACC
1 TAAGAAACCTAAGACAGACAAGAAACC
238003 TAAGAAACCTAAGACAGACAAGAAACC
1 TAAGAAACCTAAGACAGACAAGAAACC
238030 TAAGAA
1 TAAGAA
238036 GAAACCTCCG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.53, C:0.20, G:0.15, T:0.12
Consensus pattern (27 bp):
TAAGAAACCTAAGACAGACAAGAAACC
Left flanking sequence: Indices 237476 -- 237975
TTAGCTCCGAAGTCCTATTGCTACACGAATGATAAAGGAATTGATGTAATCAAGTACAAAGGGGC
TGCGAAAAACCAAATCAGTCCTGAATGGTTTCAGTCACAGTACGCTGACCCTGCTCGTAAGCAAC
ATGTACAGGTGGAAGCCTACTTCCGGATTGAGTGGTCCACACTTAACGTGTACAAGAAAGACCAA
TTAATCCAGGTAGGGATTAATCAGGGGTCAAAAAGGAAACCTGTATTGCACGGTGGGGTCTGGGT
TGATACAGAGCCAATAGAAGTCAATGACTTGTCTAGACTAGATAACATTAGCAAAAAACTTGTCA
TGTTACTAAGGGCTGATGTAACACTTCTTAAGAATGAGAATCTCTATCTCCATACTAAATTATCT
CAGATGGAAATAGACATGAAGGAAAAAGGGATAGACGAGAGAGACAAAGAGATGAAAGAAGAACC
TACAGAGGTCACTAACCCAACAGTAAACGAGAAACCTAAGACTGA
Right flanking sequence: Indices 238036 -- 238535
GAAACCTCCGTGATAAAAGACCCCATTCACTACTGACAAAGGAACGGGATAGCTAGAGGTACATT
ATAACCAGAGCTTAGAGCTCGAAACATGGTAGCCACTGGTTCTGGCTGGATTGAATCCTTCTCAG
GAAGAGCTGATGCTTCTTCACTTTCTAACTTGAGCTAGCTGATTGGTTTACTACTTCTAATAGAA
TCTTCTAAGGTCATCTCCTCTTCTGCTTCTGAAGTTACCACGGTCTGTCTGTCATCAAACCTCAT
AGGCAAAAGAGAAAGCTAAACAGGGGTTCAAGATTGAGTTCACTGGACCTCGGAAGTTCGAGCGA
GTTAAGCTTTCCTCCGTTTATTCCCTAATCCTCTTAACCGAGTAACTTCCCTCCTCTGGCTTTCT
CCAGTAGGTAGCCTCTAGAGCAGTTAGTCTAGCATTTCCGGTTGTTTATATAGGATCCTATGTTC
ACATAGAGAACTTCTAGCTTGAAGTCCTTAGTTCAGGATCTATAC
Found at i:240049 original size:20 final size:20
Alignment explanation
Indices: 240012--240052 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
240002 GGTCCCCTGA
240012 TTTATTAACTGACATCTTTC
1 TTTATTAACTGACATCTTTC
*
240032 TTTACTTAACTTAC-TCTTTC
1 TTTA-TTAACTGACATCTTTC
240052 T
1 T
240053 AACACTTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.22, C:0.22, G:0.02, T:0.54
Consensus pattern (20 bp):
TTTATTAACTGACATCTTTC
Left flanking sequence: Indices 239512 -- 240011
CGGGCGTGCAGGTGGATCCTATCTCCTTCTTTTGTTCTGGTTCCCGTGCGTGTAGGAGGTCTTTT
TGCCATTTATATTTTTTATGTGTGTCCTGCTCCGGCAAAAGGGGAAGGGAATCAAATTTGACAGT
TACAGTAAGCAGCATAGCCCCTCCGAAGCTCTGTTTCGGCCATCTACGGGCAGGATTTCTGGTCC
CTTGGAATTCTAGTTATCTAGATTTAGTAGAGCTTATACTTATATATGTGTGGATTTTTAAGGCT
TCTATCTTGCTTTTGCTTATGACTCCTAGGCCCTTTATTCGACTTAAAACCATTTAGTCTCGCTG
CTATTTTATTCTTTTTTAATCTAAAAAACTATCCATCCGACTTATATCGAAGCAGATTCCAAGAT
ATTGCATGCAACATAAGCGTTGTGCCTTTCTTTGTAGGCCTCCACAGGGCTTTCCGAAGCAGAGC
GAATGGTAGACAATCCGTTAACCTTAGTGAGGCTGGGTCCCCTGA
Right flanking sequence: Indices 240053 -- 240552
AACACTTACATCTCGACGTTAGCTCAGCGGGTGACGAATCAGAGGGGTAATCTAATTTAAGACTC
AGCGCTTGCCTCTCCTTCTTTGTATAGTATGTTCGTGTGTTTGGGCGACTGAACGCCGTGTGGTT
AGCTGAAGCAGACAATTTGAGTATCCTAGCAGCTACAGCAGCAGAGAGAAGTCTCTGTTCACGTA
TTCGCCTTAGGTTTAGGTAGTTAGATGCCGTCGAATTTTCATTCCCATTCAATGAAGGTTTGACG
CAGCAGGCGTGATTAGCTTGCCTAACCTGATCATCAGGAATAGCGAGACCGCTGGCCTGGCCTTT
CCTAAAACTGTGAAAGCTTAGGAGGATTTCGATAACCATTCTGCACCCTCTCACGTTAGTTTTTA
GCTATTGCGGACATGTGTCTGTCAAGCCCCGGACTCTGATACTACAGCCGCACTAAACGAATGTA
TCCGTCGACGTATCCACTAAGGATCCGCCGCCTTATACCTAACCT
Done.