Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 173 of 182
Found at i:52738275 original size:28 final size:28
Alignment explanation
Indices: 52738216--52738276 Score: 97
Period size: 27 Copynumber: 2.2 Consensus size: 28
52738206 ATTTTTTGTT
*
52738216 TTTTTGGTAAATAAAAAAAATTATAATA
1 TTTTGGGTAAATAAAAAAAATTATAATA
*
52738244 -TTTGGGTAAATAAAAAAAGTTATAATA
1 TTTTGGGTAAATAAAAAAAATTATAATA
52738271 TTTTGG
1 TTTTGG
52738277 TTATTTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.83
28 5 0.17
ACGTcount: A:0.48, C:0.00, G:0.13, T:0.39
Consensus pattern (28 bp):
TTTTGGGTAAATAAAAAAAATTATAATA
Found at i:52740805 original size:114 final size:114
Alignment explanation
Indices: 52740605--52740829 Score: 423
Period size: 114 Copynumber: 2.0 Consensus size: 114
52740595 GAATTTTTTG
*
52740605 TATTTTTATGACTTTTAAAACTAGGCCCACTTGTTAAATTCATTAGTTTTTGATTTTATGAAAGA
1 TATTTTTATGACTTTTAAAACTAGGCCCACTTGTTAAATCCATTAGTTTTTGATTTTATGAAAGA
*
52740670 AGTTGAAAGTTGATATGAATATGTGCTGGAATTATATGATGATTTATCA
66 AGTTGAAAGTTGATATGAATATGTGCTGGAAGTATATGATGATTTATCA
*
52740719 TATTTTTATGACTTTTACAACTAGGCCCACTTGTTAAATCCATTAGTTTTTGATTTTATGAAAGA
1 TATTTTTATGACTTTTAAAACTAGGCCCACTTGTTAAATCCATTAGTTTTTGATTTTATGAAAGA
52740784 AGTTGAAAGTTGATATGAATATGTGCTGGAAGTATATGATGATTTA
66 AGTTGAAAGTTGATATGAATATGTGCTGGAAGTATATGATGATTTA
52740830 GCATGAAATT
Statistics
Matches: 108, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
114 108 1.00
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.42
Consensus pattern (114 bp):
TATTTTTATGACTTTTAAAACTAGGCCCACTTGTTAAATCCATTAGTTTTTGATTTTATGAAAGA
AGTTGAAAGTTGATATGAATATGTGCTGGAAGTATATGATGATTTATCA
Found at i:52742106 original size:52 final size:52
Alignment explanation
Indices: 52742035--52742134 Score: 173
Period size: 52 Copynumber: 1.9 Consensus size: 52
52742025 ATCAAGTGAC
* *
52742035 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGAGACAAGTGG
*
52742087 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGAGACAA
1 AAAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGAGACAA
52742135 AGTGATAAGT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (52 bp):
AAAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGAGACAAGTGG
Found at i:52742158 original size:37 final size:37
Alignment explanation
Indices: 52742108--52742217 Score: 170
Period size: 37 Copynumber: 3.0 Consensus size: 37
52742098 TAATAGCTTC
*
52742108 GGCTATACTTATCTGATCAAGAGACAAAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
* *
52742145 GGCTACACTTATCTGATCAAGAAACAAAGTGATAGGT
1 GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
*
52742182 GGCTACACTTATCTGATC-AGGGAC-AAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
52742217 G
1 G
52742218 ATCATACGTA
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
35 11 0.16
36 4 0.06
37 52 0.78
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.25
Consensus pattern (37 bp):
GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
Found at i:52743534 original size:49 final size:49
Alignment explanation
Indices: 52743473--52743714 Score: 394
Period size: 49 Copynumber: 4.9 Consensus size: 49
52743463 ATGTGAACAT
*
52743473 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATTGGTAA
1 GTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
*
52743523 GTGATATGTGATTCCGTGTAACACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
52743572 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* * *
52743621 GTGATATGTGATTTCGTGTAAGACCATAGTTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* * * *
52743670 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCG
52743715 AGAAAACGAA
Statistics
Matches: 183, Mismatches: 9, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
49 179 0.98
50 4 0.02
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.31
Consensus pattern (49 bp):
GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
Found at i:52746733 original size:36 final size:36
Alignment explanation
Indices: 52746687--52746867 Score: 344
Period size: 36 Copynumber: 5.0 Consensus size: 36
52746677 GGTAGCTTTA
*
52746687 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
52746723 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
52746759 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
52746795 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
*
52746831 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
52746867 G
1 G
52746868 TTAGCCTTAG
Statistics
Matches: 143, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
36 143 1.00
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (36 bp):
GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:52751123 original size:25 final size:25
Alignment explanation
Indices: 52751095--52751143 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
52751085 AAACTCTTCT
*
52751095 AAAAAAAACTCAAGGGAAATTATTG
1 AAAAAAAACTCAAGAGAAATTATTG
*
52751120 AAAAAAAACTCAAGAGAATTTATT
1 AAAAAAAACTCAAGAGAAATTATT
52751144 AACTCAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.57, C:0.08, G:0.12, T:0.22
Consensus pattern (25 bp):
AAAAAAAACTCAAGAGAAATTATTG
Found at i:52751719 original size:11 final size:11
Alignment explanation
Indices: 52751703--52751729 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
52751693 AGATAAATGC
52751703 TATTTAATTAA
1 TATTTAATTAA
52751714 TATTTAATTAA
1 TATTTAATTAA
52751725 TATTT
1 TATTT
52751730 TTAGTATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TATTTAATTAA
Found at i:52753471 original size:21 final size:21
Alignment explanation
Indices: 52753445--52753589 Score: 75
Period size: 21 Copynumber: 7.0 Consensus size: 21
52753435 TTTGCCGATC
52753445 AGGCACTATATGTGTCGTATT
1 AGGCACTATATGTGTCGTATT
* **
52753466 AGGCACCACGTGTGTCGT-TT
1 AGGCACTATATGTGTCGTATT
* *
52753486 CAGGTACTTTATGTGTCGTA-T
1 -AGGCACTATATGTGTCGTATT
* * * *
52753507 ACTGCTTCTAATATAT-T-G-ATC
1 A-GGC-ACT-ATATGTGTCGTATT
52753528 AGGCACTATATGTGTCGTATT
1 AGGCACTATATGTGTCGTATT
* * ** * *
52753549 AGACACAACGTGTGTCATTTT
1 AGGCACTATATGTGTCGTATT
*
52753570 AGGCACTTTATGTGTCGTAT
1 AGGCACTATATGTGTCGTAT
52753590 ACTGCTTCTG
Statistics
Matches: 84, Mismatches: 31, Indels: 18
0.63 0.23 0.14
Matches are distributed among these distances:
18 5 0.06
19 3 0.04
20 7 0.08
21 62 0.74
22 3 0.04
23 4 0.05
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.38
Consensus pattern (21 bp):
AGGCACTATATGTGTCGTATT
Found at i:52753580 original size:83 final size:83
Alignment explanation
Indices: 52753441--52753613 Score: 292
Period size: 83 Copynumber: 2.1 Consensus size: 83
52753431 CGGCTTTGCC
* * * *
52753441 GATCAGGCACTATATGTGTCGTATTAGGCACCACGTGTGTCGTTTCAGGTACTTTATGTGTCGTA
1 GATCAGGCACTATATGTGTCGTATTAGACACAACGTGTGTCATTTCAGGCACTTTATGTGTCGTA
52753506 TACTGCTTCTAATATATT
66 TACTGCTTCTAATATATT
*
52753524 GATCAGGCACTATATGTGTCGTATTAGACACAACGTGTGTCATTTTAGGCACTTTATGTGTCGTA
1 GATCAGGCACTATATGTGTCGTATTAGACACAACGTGTGTCATTTCAGGCACTTTATGTGTCGTA
*
52753589 TACTGCTTCTGATATATT
66 TACTGCTTCTAATATATT
52753607 GATCAGG
1 GATCAGG
52753614 TACTGAGTAT
Statistics
Matches: 84, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
83 84 1.00
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.38
Consensus pattern (83 bp):
GATCAGGCACTATATGTGTCGTATTAGACACAACGTGTGTCATTTCAGGCACTTTATGTGTCGTA
TACTGCTTCTAATATATT
Found at i:52756649 original size:45 final size:45
Alignment explanation
Indices: 52756522--52756657 Score: 177
Period size: 45 Copynumber: 3.1 Consensus size: 45
52756512 ACAGATACAT
* * * * *
52756522 GGTGG-ATCTGCACACAGC-ACCACCCTTATAGTCAATGATACTT
1 GGTGGAATCAGCACACAGCAACCACCTTTATAATCAATGGTACTC
*
52756565 GGTGGAATCAGCACAGAGCAACCACCTTTATAATCAATGGTACTC
1 GGTGGAATCAGCACACAGCAACCACCTTTATAATCAATGGTACTC
* * *
52756610 GGTGGAATCAGCACATAGCAACCACCTTTATAATTAATGGTACCC
1 GGTGGAATCAGCACACAGCAACCACCTTTATAATCAATGGTACTC
52756655 GGT
1 GGT
52756658 ATACGTAGTA
Statistics
Matches: 82, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
43 5 0.06
44 11 0.13
45 66 0.80
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (45 bp):
GGTGGAATCAGCACACAGCAACCACCTTTATAATCAATGGTACTC
Found at i:52758309 original size:18 final size:19
Alignment explanation
Indices: 52758268--52758310 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
52758258 TTCTTGTTAA
*
52758268 TATAAAATTCTTAAGTAAC
1 TATAAAATACTTAAGTAAC
*
52758287 T-TAAAATACTTAA-TAAT
1 TATAAAATACTTAAGTAAC
52758304 TATAAAA
1 TATAAAA
52758311 AATTCAGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 4 0.19
18 16 0.76
19 1 0.05
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.37
Consensus pattern (19 bp):
TATAAAATACTTAAGTAAC
Found at i:52767367 original size:10 final size:10
Alignment explanation
Indices: 52767354--52767378 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
52767344 GCACTTTATA
52767354 TACTTTTACC
1 TACTTTTACC
52767364 TACTTTTACC
1 TACTTTTACC
52767374 TACTT
1 TACTT
52767379 ATGATCAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.28, G:0.00, T:0.52
Consensus pattern (10 bp):
TACTTTTACC
Found at i:52768236 original size:12 final size:11
Alignment explanation
Indices: 52768219--52768244 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
52768209 TTTTATCTAC
52768219 AAAAAAAAAAG
1 AAAAAAAAAAG
52768230 AAAAAAAAAAG
1 AAAAAAAAAAG
52768241 AAAA
1 AAAA
52768245 CCTCACCTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:52770092 original size:23 final size:23
Alignment explanation
Indices: 52770066--52770112 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
52770056 GTTTTAATAT
*
52770066 AATCAAATCGTTTATTACAAACA
1 AATCAAATCGTTTATTAAAAACA
52770089 AATCAAATCGTTTATTAAAAACA
1 AATCAAATCGTTTATTAAAAACA
52770112 A
1 A
52770113 TCACTTTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.51, C:0.15, G:0.04, T:0.30
Consensus pattern (23 bp):
AATCAAATCGTTTATTAAAAACA
Found at i:52772346 original size:19 final size:19
Alignment explanation
Indices: 52772324--52772366 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
52772314 GAAAAAAAAC
52772324 AAAAACAAGAACAAAACAA
1 AAAAACAAGAACAAAACAA
* *
52772343 AAAAATAATAACAAAACAA
1 AAAAACAAGAACAAAACAA
*
52772362 GAAAA
1 AAAAA
52772367 TAAAAAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.79, C:0.12, G:0.05, T:0.05
Consensus pattern (19 bp):
AAAAACAAGAACAAAACAA
Found at i:52772367 original size:19 final size:19
Alignment explanation
Indices: 52772333--52772369 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
52772323 CAAAAACAAG
52772333 AACAAAACAAAAAAATAAT
1 AACAAAACAAAAAAATAAT
*
52772352 AACAAAACAAGAAAATAA
1 AACAAAACAAAAAAATAA
52772370 AAAATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.78, C:0.11, G:0.03, T:0.08
Consensus pattern (19 bp):
AACAAAACAAAAAAATAAT
Found at i:52772831 original size:6 final size:6
Alignment explanation
Indices: 52772815--52772860 Score: 60
Period size: 6 Copynumber: 7.8 Consensus size: 6
52772805 ATGTTTCATG
*
52772815 AAAAG- AAAAGA AAAAGA AAAA-A AAGAAGA AAAATA AAAAGA AAAAG
1 AAAAGA AAAAGA AAAAGA AAAAGA AA-AAGA AAAAGA AAAAGA AAAAG
52772861 GAAAGACCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
5 8 0.22
6 25 0.69
7 3 0.08
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (6 bp):
AAAAGA
Found at i:52773203 original size:45 final size:45
Alignment explanation
Indices: 52773140--52773226 Score: 113
Period size: 45 Copynumber: 1.9 Consensus size: 45
52773130 TTATTCATTT
* *
52773140 TTTTGTATTTTGACAAAATACACCATCTTGATTAATTTATTCTCA
1 TTTTGTATTTAGACAAAATACACCATCTTGATTAATTCATTCTCA
* * *
52773185 TTTTGTATTCTAGA-AAAATTCGCTATCTTGATTAATTCATTC
1 TTTTGTATT-TAGACAAAATACACCATCTTGATTAATTCATTC
52773227 ATTTTGAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
45 33 0.92
46 3 0.08
ACGTcount: A:0.30, C:0.15, G:0.08, T:0.47
Consensus pattern (45 bp):
TTTTGTATTTAGACAAAATACACCATCTTGATTAATTCATTCTCA
Found at i:52773724 original size:21 final size:21
Alignment explanation
Indices: 52773700--52773766 Score: 116
Period size: 21 Copynumber: 3.2 Consensus size: 21
52773690 AATGGATTCT
52773700 ACAGGTCATGTTCCCCAGAGA
1 ACAGGTCATGTTCCCCAGAGA
52773721 ACAGGTCATGTTCCCCAGAGA
1 ACAGGTCATGTTCCCCAGAGA
* *
52773742 ACAGGTCATGTTCCTCAGGGA
1 ACAGGTCATGTTCCCCAGAGA
52773763 ACAG
1 ACAG
52773767 ATCAGCGAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.28, C:0.27, G:0.25, T:0.19
Consensus pattern (21 bp):
ACAGGTCATGTTCCCCAGAGA
Found at i:52774068 original size:89 final size:89
Alignment explanation
Indices: 52773831--52774058 Score: 312
Period size: 89 Copynumber: 2.6 Consensus size: 89
52773821 TCGTTATGGT
* * * * * **
52773831 AGATCTTATATTCCTATATTGGCAGCGAAATAGATCAAAGACACCAACCTCGCCTTTCTGAGTTT
1 AGATCTTGTCTTCCTATATTGGCAGCAAAATAGATCGAAGACACCAGCCTCGCCTCCCTGAGTTT
*
52773896 GCAGCAGAGCAAGTTGAAGATAAC
66 ACAGCAGAGCAAGTTGAAGATAAC
* ** *
52773920 AGATCTTGTCTTCTTGCATTGGCAGCAAAGTAGATCGAAGACACCAGCCTCGCCTCCCTGAGTTT
1 AGATCTTGTCTTCCTATATTGGCAGCAAAATAGATCGAAGACACCAGCCTCGCCTCCCTGAGTTT
* *
52773985 ACAGCGGAGCAGGTTGAAGATAAC
66 ACAGCAGAGCAAGTTGAAGATAAC
* *
52774009 AGATTTTTTCTTCCTATATTGGCAGCAAAATAGATCGAAGACACCAGCCT
1 AGATCTTGTCTTCCTATATTGGCAGCAAAATAGATCGAAGACACCAGCCT
52774059 TATCTCCCTG
Statistics
Matches: 119, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
89 119 1.00
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.26
Consensus pattern (89 bp):
AGATCTTGTCTTCCTATATTGGCAGCAAAATAGATCGAAGACACCAGCCTCGCCTCCCTGAGTTT
ACAGCAGAGCAAGTTGAAGATAAC
Found at i:52774132 original size:88 final size:88
Alignment explanation
Indices: 52774040--52774509 Score: 568
Period size: 88 Copynumber: 5.3 Consensus size: 88
52774030 GCAGCAAAAT
* * * * *
52774040 AGATCGAAGACACCAGCCTTATCTCCCTGGGCAGTAGTGGAGTAGGTTAAAGATTGCAGATCTTG
1 AGATCGAAAACACAAACCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAGATTGCAGATCTTG
*
52774105 TTTTCCTGTACTGGCAGTGAAGC
66 TCTTCCTGTACTGGCAGTGAAGC
* * *
52774128 AGATCGAAAACACCAACCTTATCTTCCTGAGCAGCAGTGGAGTAGGTTGAAA-ATTGCAGATTTT
1 AGATCGAAAACACAAACCTTATCTCCCTGAGCAGCAGTGGAGTAGGTT-AAAGATTGCAGATCTT
*
52774192 GTCTTCCTATACTGGCAGTGAAGC
65 GTCTTCCTGTACTGGCAGTGAAGC
* * * * * * * *
52774216 AGATCGAAAACACCAACCTTATCTTCCAGAGAAGTAATGGAGTAGGTTGAAGATTGCAAATCTTG
1 AGATCGAAAACACAAACCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAGATTGCAGATCTTG
*
52774281 TCTTCCTGTATTGGCAGTGAAGC
66 TCTTCCTGTACTGGCAGTGAAGC
* * *
52774304 AGATCGAAATA-ACAAGCCTTATCTCCCTGAGCAGCAGTGAAGTAGGTTAAAGATTGCAGGTCTT
1 AGATCGAAA-ACACAAACCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAGATTGCAGATCTT
* * * *
52774368 ATCTTCCTGCACTGGTAGTGAAAC
65 GTCTTCCTGTACTGGCAGTGAAGC
* ** * * * *
52774392 AGATCGAAAACACAAGCCTTATCTTTCTGAGCAGCAGCGGAGTAAGTTGAAA-ATTACAGATATT
1 AGATCGAAAACACAAACCTTATCTCCCTGAGCAGCAGTGGAGTAGGTT-AAAGATTGCAGATCTT
*
52774456 GTCTTCCTGTACTGACAGTGAAGC
65 GTCTTCCTGTACTGGCAGTGAAGC
* *
52774480 AAATCGAAAACACAAACCTTATCTCTCTGA
1 AGATCGAAAACACAAACCTTATCTCCCTGA
52774510 AGTTGCAGAA
Statistics
Matches: 328, Mismatches: 49, Indels: 10
0.85 0.13 0.03
Matches are distributed among these distances:
87 3 0.01
88 318 0.97
89 7 0.02
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (88 bp):
AGATCGAAAACACAAACCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTAAAGATTGCAGATCTTG
TCTTCCTGTACTGGCAGTGAAGC
Found at i:52774156 original size:44 final size:44
Alignment explanation
Indices: 52774107--52774242 Score: 132
Period size: 44 Copynumber: 3.1 Consensus size: 44
52774097 AGATCTTGTT
52774107 TTCCTGTACTGGCAGTGAAGCAGATCGAAAACACCAACCTTATC
1 TTCCTGTACTGGCAGTGAAGCAGATCGAAAACACCAACCTTATC
* * * * * *** ** *
52774151 TTCCTG-AGC-AGCAGTGGAGTAGGTTGAAAATTGCAGATTTTGTC
1 TTCCTGTA-CTGGCAGTGAAGCAGATCGAAAACACCA-ACCTTATC
*
52774195 TTCCTATACTGGCAGTGAAGCAGATCGAAAACACCAACCTTATC
1 TTCCTGTACTGGCAGTGAAGCAGATCGAAAACACCAACCTTATC
52774239 TTCC
1 TTCC
52774243 AGAGAAGTAA
Statistics
Matches: 65, Mismatches: 23, Indels: 8
0.68 0.24 0.08
Matches are distributed among these distances:
43 19 0.29
44 27 0.42
45 19 0.29
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (44 bp):
TTCCTGTACTGGCAGTGAAGCAGATCGAAAACACCAACCTTATC
Found at i:52774222 original size:176 final size:176
Alignment explanation
Indices: 52773919--52774509 Score: 616
Period size: 176 Copynumber: 3.4 Consensus size: 176
52773909 TTGAAGATAA
* * * ** * * * ***
52773919 CAGATCTTGTCTTCTTGCATTGGCAGCAAAGTAGATCGAAGACACCAGCCTCGCCTCCCTGAGTT
1 CAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAAACACCAACCTTATCTCCCTGAG--
* * * * ** * * ** *
52773984 TA-CAGCGGAGCAGGTTGAAGATAACAGATTTTTTCTTCCTATATTGGCAGCAAAATAGATCGAA
64 CAGCAGTGGAGTAGGTTGAAAATTGCAGATTTTATCTTCCTATACTGGCAGTGAAACAGATCGAA
* * *
52774048 GACACCAGCCTTATCTCCCTGGGCAGTAGTGGAGTAGGTTAAAGATTG
129 AACACCAGCCTTATCTTCCTGAGCAGTAGTGGAGTAGGTTAAAGATTG
* *
52774096 CAGATCTTGTTTTCCTGTACTGGCAGTGAAGCAGATCGAAAACACCAACCTTATCTTCCTGAGCA
1 CAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAAACACCAACCTTATCTCCCTGAGCA
* *
52774161 GCAGTGGAGTAGGTTGAAAATTGCAGATTTTGTCTTCCTATACTGGCAGTGAAGCAGATCGAAAA
66 GCAGTGGAGTAGGTTGAAAATTGCAGATTTTATCTTCCTATACTGGCAGTGAAACAGATCGAAAA
* * * * *
52774226 CACCAACCTTATCTTCCAGAGAAGTAATGGAGTAGGTTGAAGATTG
131 CACCAGCCTTATCTTCCTGAGCAGTAGTGGAGTAGGTTAAAGATTG
* *
52774272 CAAATCTTGTCTTCCTGTATTGGCAGTGAAGCAGATCGAAATA-A-CAAGCCTTATCTCCCTGAG
1 CAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAA-ACACCAA-CCTTATCTCCCTGAG
* * * ** *
52774335 CAGCAGTGAAGTAGGTT-AAAGATTGCAGGTCTTATCTTCCTGCACTGGTAGTGAAACAGATCGA
64 CAGCAGTGGAGTAGGTTGAAA-ATTGCAGATTTTATCTTCCTATACTGGCAGTGAAACAGATCGA
* * * * * *
52774399 AAACACAAGCCTTATCTTTCTGAGCAGCAGCGGAGTAAGTTGAAA-ATTA
128 AAACACCAGCCTTATCTTCCTGAGCAGTAGTGGAGTAGGTT-AAAGATTG
* * * * *
52774448 CAGATATTGTCTTCCTGTACTGACAGTGAAGCAAATCGAAAACACAAACCTTATCTCTCTGA
1 CAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAAACACCAACCTTATCTCCCTGA
52774510 AGTTGCAGAA
Statistics
Matches: 344, Mismatches: 63, Indels: 15
0.82 0.15 0.04
Matches are distributed among these distances:
175 8 0.02
176 281 0.82
177 55 0.16
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (176 bp):
CAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAAACACCAACCTTATCTCCCTGAGCA
GCAGTGGAGTAGGTTGAAAATTGCAGATTTTATCTTCCTATACTGGCAGTGAAACAGATCGAAAA
CACCAGCCTTATCTTCCTGAGCAGTAGTGGAGTAGGTTAAAGATTG
Found at i:52774225 original size:45 final size:45
Alignment explanation
Indices: 52774092--52774225 Score: 112
Period size: 44 Copynumber: 3.0 Consensus size: 45
52774082 TAGGTTAAAG
* *
52774092 ATTGCAGATCTTGTTTTCCTGTACTGGCAGTGAAGCAGATCGAAA
1 ATTGCAGATCTTGTCTTCCTATACTGGCAGTGAAGCAGATCGAAA
*** * * * * * * * *
52774137 ACACCA-ACCTTATCTTCCTGA-GC-AGCAGTGGAGTAGGTTGAAA
1 ATTGCAGATCTTGTCTTCCT-ATACTGGCAGTGAAGCAGATCGAAA
*
52774180 ATTGCAGATTTTGTCTTCCTATACTGGCAGTGAAGCAGATCGAAA
1 ATTGCAGATCTTGTCTTCCTATACTGGCAGTGAAGCAGATCGAAA
52774225 A
1 A
52774226 CACCAACCTT
Statistics
Matches: 60, Mismatches: 25, Indels: 8
0.65 0.27 0.09
Matches are distributed among these distances:
43 19 0.32
44 22 0.37
45 19 0.32
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.28
Consensus pattern (45 bp):
ATTGCAGATCTTGTCTTCCTATACTGGCAGTGAAGCAGATCGAAA
Found at i:52774785 original size:44 final size:44
Alignment explanation
Indices: 52774716--52775017 Score: 168
Period size: 44 Copynumber: 6.7 Consensus size: 44
52774706 GAGAGGATAC
*
52774716 CAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCAAT
1 CAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCAAA
* * * * * *
52774760 TAATCCTATCTCCCTAAAGTTGCAGTGGAG-AGGATTAAAACGAT
1 CAATCTTATCTCCCTAAAGTTGCAGTGGAGCA-GATTGAAGCAAA
* * * * * * * *
52774804 GAATCCTATAC-CTCTGAAGTTGCAGTAGG-TCGGATTAAACCTACCGTAA
1 CAATCTTAT-CTCCCTAAAGTTGCAGT-GGAGCAGATTGAAGC-A----AA
* *
52774853 CAAGTCTTATCTCCCTAAAGTTGCTGTGGAGCAGACTGAAG-ATAA
1 CAA-TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCA-AA
* * * * * *
52774898 CAAACCTTATCTCCTTGAAGTTGCAGTGGAGTAGGTTGAAG-TAA
1 C-AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCAAA
* * * *
52774942 CAAACATTATCTCCCTGAAGTTACAGTGGAGC-GTATTGAAGC-TA
1 CAATC-TTATCTCCCTAAAGTTGCAGTGGAGCAG-ATTGAAGCAAA
* *
52774986 CTAATCTTATCTCCCTAAAGTTTCAGTAGAGC
1 C-AATCTTATCTCCCTAAAGTTGCAGTGGAGC
52775018 GAATTAAAAC
Statistics
Matches: 200, Mismatches: 41, Indels: 34
0.73 0.15 0.12
Matches are distributed among these distances:
43 5 0.03
44 123 0.62
45 40 0.20
46 2 0.01
48 1 0.00
49 6 0.03
50 23 0.12
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (44 bp):
CAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCAAA
Found at i:52775036 original size:44 final size:44
Alignment explanation
Indices: 52774948--52775039 Score: 105
Period size: 44 Copynumber: 2.1 Consensus size: 44
52774938 GTAACAAACA
* * * * * *
52774948 TTATCTCCCTGAAGTTACAGTGGAGCGTATTGAAGCTACTAATC
1 TTATCTCCCTAAAGTTACAGTAGAGCGAATTAAAACGACTAATC
*
52774992 TTATCTCCCTAAAGTTTCAGTAGAGCGAATTAAAACGA-TGAATC
1 TTATCTCCCTAAAGTTACAGTAGAGCGAATTAAAACGACT-AATC
52775036 TTAT
1 TTAT
52775040 ACCTCTGAAG
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
43 1 0.03
44 39 0.98
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (44 bp):
TTATCTCCCTAAAGTTACAGTAGAGCGAATTAAAACGACTAATC
Found at i:52776856 original size:26 final size:26
Alignment explanation
Indices: 52776807--52776856 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
52776797 AAAATGTTTG
* *
52776807 ATATTAGCTACTTTAAGTTGTTTCAT
1 ATATTACCTACTTTAAATTGTTTCAT
52776833 ATATTACCTA-TTTAAATTGCTTTC
1 ATATTACCTACTTTAAATTG-TTTC
52776857 TATGTTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.28, C:0.14, G:0.08, T:0.50
Consensus pattern (26 bp):
ATATTACCTACTTTAAATTGTTTCAT
Found at i:52777514 original size:127 final size:127
Alignment explanation
Indices: 52777271--52777514 Score: 298
Period size: 127 Copynumber: 1.9 Consensus size: 127
52777261 AAATTTTAAC
* * * * * * * *
52777271 ATAAGGTAATATTTTTGCGTTTCGGTGATTCGAGATATTGTACCCTACTTTACGAGGTTTTGGTT
1 ATAAGGCAATATTTATGCCTTTCGGTGATTCGAGAAATCGTACCCTACTTTACGAGGTCTCGATT
*
52777336 TTCTCGCTAAAACCAAATAGCAAAATATCCTTTTAAAATTTCAAAAGATAAATGAAGTCCTG
66 TTCTCGCTAAAACCAAATAGCAAAATATCCTTTTAAAACTTCAAAAGATAAATGAAGTCCTG
*
52777398 ATAAGGCAATATTTATGCACTTT-GGTGATTCGAGAAATCGTACCCTAAC-TTACGGGGTCTCGA
1 ATAAGGCAATATTTATGC-CTTTCGGTGATTCGAGAAATCGTACCCT-ACTTTACGAGGTCTCGA
* * * *
52777461 TTTTCTCG-TTAAACTCAAATGGCAAAATATCCTCTTT-AAACTTCCAAATATAAA
64 TTTTCTCGCTAAAAC-CAAATAGCAAAATATCCT-TTTAAAACTTCAAAAGATAAA
52777515 ATTTCAATAA
Statistics
Matches: 99, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
126 5 0.05
127 86 0.87
128 8 0.08
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (127 bp):
ATAAGGCAATATTTATGCCTTTCGGTGATTCGAGAAATCGTACCCTACTTTACGAGGTCTCGATT
TTCTCGCTAAAACCAAATAGCAAAATATCCTTTTAAAACTTCAAAAGATAAATGAAGTCCTG
Found at i:52785882 original size:23 final size:23
Alignment explanation
Indices: 52785842--52785886 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
52785832 AATTTCTATA
52785842 TTTTTATTTTTAGGAATTTAAATT
1 TTTTTATTTTTA-GAATTTAAATT
52785866 TTTTTATTTTTCA-AATTTAAA
1 TTTTTATTTTT-AGAATTTAAA
52785887 AATTTAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 8 0.40
24 11 0.55
25 1 0.05
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.62
Consensus pattern (23 bp):
TTTTTATTTTTAGAATTTAAATT
Found at i:52789049 original size:21 final size:21
Alignment explanation
Indices: 52789011--52789074 Score: 92
Period size: 21 Copynumber: 3.0 Consensus size: 21
52789001 TACCTACGCC
*
52789011 ATACTAGAGAGCACCGTAGTGCT
1 ATAC-AGAG-GCATCGTAGTGCT
52789034 ATACAGAGGCATCGTAGTGCT
1 ATACAGAGGCATCGTAGTGCT
*
52789055 ATACAGAGGCATCATAGTGC
1 ATACAGAGGCATCGTAGTGC
52789075 AAACAAAAGC
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
21 31 0.79
22 4 0.10
23 4 0.10
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (21 bp):
ATACAGAGGCATCGTAGTGCT
Found at i:52794980 original size:19 final size:19
Alignment explanation
Indices: 52794950--52795024 Score: 64
Period size: 19 Copynumber: 3.9 Consensus size: 19
52794940 GGATTATGTG
*
52794950 CTTGTGTGCCA-GTATGCA
1 CTTGTGTACCAGGTATGCA
**
52794968 CTTCGTGTACCAGGTATGTG
1 CTT-GTGTACCAGGTATGCA
* *
52794988 CTTATGCACCA-GTATGCA
1 CTTGTGTACCAGGTATGCA
*
52795006 CTTTGTGTGCCAGGTATGC
1 C-TTGTGTACCAGGTATGC
52795025 GTTTTATATG
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
18 9 0.21
19 20 0.47
20 14 0.33
ACGTcount: A:0.17, C:0.23, G:0.27, T:0.33
Consensus pattern (19 bp):
CTTGTGTACCAGGTATGCA
Found at i:52794986 original size:38 final size:38
Alignment explanation
Indices: 52794944--52795023 Score: 115
Period size: 38 Copynumber: 2.1 Consensus size: 38
52794934 AGTATGGGAT
* **
52794944 TATGTGCTTGTGTGCCAGTATGCACTTCGTGTACCAGG
1 TATGTGCTTATGCACCAGTATGCACTTCGTGTACCAGG
* *
52794982 TATGTGCTTATGCACCAGTATGCACTTTGTGTGCCAGG
1 TATGTGCTTATGCACCAGTATGCACTTCGTGTACCAGG
52795020 TATG
1 TATG
52795024 CGTTTTATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.17, C:0.20, G:0.28, T:0.35
Consensus pattern (38 bp):
TATGTGCTTATGCACCAGTATGCACTTCGTGTACCAGG
Found at i:52799496 original size:57 final size:58
Alignment explanation
Indices: 52799433--52799550 Score: 166
Period size: 57 Copynumber: 2.1 Consensus size: 58
52799423 CTTTTTCAAG
* * * * *
52799433 TCATTTTCATTTTGGAGAAAACTACATTCATTTCCAATTGATTCC-ATTTCTCCATTT
1 TCATTTTCATTTAGGAGAAAACCACAATAATTTCCAAATGATTCCTATTTCTCCATTT
* *
52799490 TCATTTTCATTTAGGAGAAAACCATAATAATTTCCAAATGTTTCCTATTTCTCCATTT
1 TCATTTTCATTTAGGAGAAAACCACAATAATTTCCAAATGATTCCTATTTCTCCATTT
52799548 TCA
1 TCA
52799551 CCATTTATGT
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 38 0.72
58 15 0.28
ACGTcount: A:0.29, C:0.20, G:0.07, T:0.44
Consensus pattern (58 bp):
TCATTTTCATTTAGGAGAAAACCACAATAATTTCCAAATGATTCCTATTTCTCCATTT
Found at i:52804136 original size:27 final size:27
Alignment explanation
Indices: 52804104--52804272 Score: 187
Period size: 27 Copynumber: 6.3 Consensus size: 27
52804094 CCTAAAATAG
* *
52804104 GGTAAAATAATCGAAATACCCCCATAA
1 GGTAAAATGACCGAAATACCCCCATAA
* * *
52804131 GATAAAATGACCGAAATAGCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAA
* * **
52804158 GGTAAAATAACCAAAATACCTTCAT-A
1 GGTAAAATGACCGAAATACCCCCATAA
*
52804184 GAGTAAAATGACCGAAATAACCCCATAA
1 G-GTAAAATGACCGAAATACCCCCATAA
* *
52804212 GGTAAAATGACCGGAATACCCCCATAT
1 GGTAAAATGACCGAAATACCCCCATAA
* * *
52804239 GGTAAAATGACTGAAATACCCTCATAG
1 GGTAAAATGACCGAAATACCCCCATAA
52804266 GGTAAAA
1 GGTAAAA
52804273 CGATTGTTAT
Statistics
Matches: 116, Mismatches: 24, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
26 1 0.01
27 113 0.97
28 2 0.02
ACGTcount: A:0.46, C:0.21, G:0.15, T:0.18
Consensus pattern (27 bp):
GGTAAAATGACCGAAATACCCCCATAA
Found at i:52804191 original size:54 final size:53
Alignment explanation
Indices: 52804100--52804272 Score: 215
Period size: 54 Copynumber: 3.2 Consensus size: 53
52804090 AGACCCTAAA
*
52804100 ATAGGGTAAAATAATCGAAATACCCCCATA-AGATAAAATGACCGAAATAGCCCC
1 ATAGGGTAAAATAACCGAAATACCCCCATAGAG-TAAAATGACCGAAATA-CCCC
* **
52804154 ATAGGGTAAAATAACCAAAATACCTTCATAGAGTAAAATGACCGAAATAACCCC
1 ATAGGGTAAAATAACCGAAATACCCCCATAGAGTAAAATGACCGAAAT-ACCCC
* * * *
52804208 ATAAGGTAAAATGACCGGAATACCCCCATATG-GTAAAATGACTGAAATACCCTC
1 ATAGGGTAAAATAACCGAAATACCCCCATA-GAGTAAAATGACCGAAATACCC-C
52804262 ATAGGGTAAAA
1 ATAGGGTAAAA
52804273 CGATTGTTAT
Statistics
Matches: 103, Mismatches: 12, Indels: 8
0.84 0.10 0.07
Matches are distributed among these distances:
53 4 0.04
54 95 0.92
55 4 0.04
ACGTcount: A:0.46, C:0.20, G:0.16, T:0.18
Consensus pattern (53 bp):
ATAGGGTAAAATAACCGAAATACCCCCATAGAGTAAAATGACCGAAATACCCC
Found at i:52804243 original size:81 final size:81
Alignment explanation
Indices: 52804100--52804272 Score: 238
Period size: 81 Copynumber: 2.1 Consensus size: 81
52804090 AGACCCTAAA
* * *
52804100 ATAGGGTAAAATAATCGAAATACCCCCATAAGATAAAATGACCGAAATAGCCCCATAGGGTAAAA
1 ATAGGGTAAAATAACCGAAATAACCCCATAAGATAAAATGACCGAAATACCCCCATAGGGTAAAA
*
52804165 TAACCAAAATACCTTC
66 TAACCAAAATACCCTC
* * * * *
52804181 ATAGAGTAAAATGACCGAAATAACCCCATAAGGTAAAATGACCGGAATACCCCCATATGGTAAAA
1 ATAGGGTAAAATAACCGAAATAACCCCATAAGATAAAATGACCGAAATACCCCCATAGGGTAAAA
* **
52804246 TGACTGAAATACCCTC
66 TAACCAAAATACCCTC
52804262 ATAGGGTAAAA
1 ATAGGGTAAAA
52804273 CGATTGTTAT
Statistics
Matches: 79, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.46, C:0.20, G:0.16, T:0.18
Consensus pattern (81 bp):
ATAGGGTAAAATAACCGAAATAACCCCATAAGATAAAATGACCGAAATACCCCCATAGGGTAAAA
TAACCAAAATACCCTC
Found at i:52804348 original size:25 final size:26
Alignment explanation
Indices: 52804291--52804355 Score: 71
Period size: 25 Copynumber: 2.5 Consensus size: 26
52804281 ATACTCCTAC
*
52804291 GATATGAAATGACTGTTATGGCTTTAT
1 GATATG-AATGACTGTTATGGCTCTAT
*
52804318 GTTATGAATGACTGATT-T-GCTCTAT
1 GATATGAATGACTG-TTATGGCTCTAT
*
52804343 GATATGTATGACT
1 GATATGAATGACT
52804356 ATGATTGAGC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 17 0.52
26 9 0.27
27 7 0.21
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.42
Consensus pattern (26 bp):
GATATGAATGACTGTTATGGCTCTAT
Found at i:52805714 original size:17 final size:18
Alignment explanation
Indices: 52805694--52805728 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
52805684 CTTAAATTAG
52805694 GGAAAACTG-AAACTGTA
1 GGAAAACTGAAAACTGTA
52805711 GGAAAACTGAAAACTGTA
1 GGAAAACTGAAAACTGTA
52805729 CGAAGACTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.49, C:0.11, G:0.23, T:0.17
Consensus pattern (18 bp):
GGAAAACTGAAAACTGTA
Found at i:52812341 original size:26 final size:26
Alignment explanation
Indices: 52812312--52812369 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
52812302 CTGAACAAAT
* * *
52812312 TTTTGGCGATTTTACCCCTGGTAAAA
1 TTTTGACGAATTTACCCCTAGTAAAA
* *
52812338 TTTTGACGAATTTGCCCTTAGTAAAA
1 TTTTGACGAATTTACCCCTAGTAAAA
52812364 TTTTGA
1 TTTTGA
52812370 GAAAATATGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.16, G:0.17, T:0.41
Consensus pattern (26 bp):
TTTTGACGAATTTACCCCTAGTAAAA
Found at i:52815161 original size:13 final size:13
Alignment explanation
Indices: 52815143--52815167 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52815133 AATTTAATAA
52815143 AAAAACACTAGGT
1 AAAAACACTAGGT
52815156 AAAAACACTAGG
1 AAAAACACTAGG
52815168 GGTTTGTCGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.16, G:0.16, T:0.12
Consensus pattern (13 bp):
AAAAACACTAGGT
Found at i:52819457 original size:20 final size:21
Alignment explanation
Indices: 52819424--52819467 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
52819414 GTAGACAGAA
*
52819424 AAACCTCGTTTTAATAT-ATC
1 AAACCTCGTTTTAAAATGATC
52819444 AAACCTC-TTATTAAAATGATC
1 AAACCTCGTT-TTAAAATGATC
52819465 AAA
1 AAA
52819468 TTACGAGGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 2 0.10
20 13 0.62
21 6 0.29
ACGTcount: A:0.43, C:0.18, G:0.05, T:0.34
Consensus pattern (21 bp):
AAACCTCGTTTTAAAATGATC
Found at i:52823405 original size:23 final size:23
Alignment explanation
Indices: 52823354--52823406 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
52823344 AGTGTTATTG
52823354 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
52823377 -TACAGTGGTAG-TTACGGCTACAT
1 AT-CAGTGGTAGCTT-CGGCTACAT
52823400 ATCAGTG
1 ATCAGTG
52823407 TGGCACTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
22 3 0.11
23 23 0.85
24 1 0.04
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:52826227 original size:15 final size:15
Alignment explanation
Indices: 52826207--52826236 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
52826197 ATTTTTGTAT
*
52826207 TATTTTAATATTAAA
1 TATTTTAAAATTAAA
52826222 TATTTTAAAATTAAA
1 TATTTTAAAATTAAA
52826237 AAATATATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TATTTTAAAATTAAA
Found at i:52830820 original size:57 final size:57
Alignment explanation
Indices: 52830732--52830840 Score: 200
Period size: 57 Copynumber: 1.9 Consensus size: 57
52830722 TCATTTGCCG
* *
52830732 TGTAGGGCGTGTACTGTCATTCTGGAGGATGTTGCACTGCAACTTGGGCTCCCAATC
1 TGTAGGGAGTGTACTGTCATTCTGGAGGATGTTACACTGCAACTTGGGCTCCCAATC
52830789 TGTAGGGAGTGTACTGTCATTCTGGAGGATGTTACACTGCAACTTGGGCTCC
1 TGTAGGGAGTGTACTGTCATTCTGGAGGATGTTACACTGCAACTTGGGCTCC
52830841 AAATTGACGG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.18, C:0.21, G:0.30, T:0.30
Consensus pattern (57 bp):
TGTAGGGAGTGTACTGTCATTCTGGAGGATGTTACACTGCAACTTGGGCTCCCAATC
Found at i:52834329 original size:105 final size:105
Alignment explanation
Indices: 52834087--52834352 Score: 318
Period size: 115 Copynumber: 2.4 Consensus size: 105
52834077 AACTAATAAT
* * *
52834087 TAATTTATAATAGTTACTAACAAAATAACTTTCAAATAAATTAAAAATATTAAAAGATTACATTC
1 TAATTTATAATAGTTACTAACAAAATAACTTTAAAATAAATTAAAAATAATAAAAAATTACATTC
* **
52834152 ATAATCTAACAAACCACAATAAACCTTAAACCCTAAACAAA
66 ATAACCTAACAAACCACAATAAACAGTAAA-CCTAAACAAA
* * * *
52834193 CAATTAACCTAACCACAAAACTTACTAACAAAATAACTTTAAAATAAATTAAAAATTAATAAAAA
1 TAATT----T----ATAATAGTTACTAACAAAATAACTTTAAAATAAATTAAAAA-TAATAAAAA
*
52834258 ATTACATTCATAACCTAACAAATCACAATAAACAGTAAA-CTAAACAAA
57 ATTACATTCATAACCTAACAAACCACAATAAACAGTAAACCTAAACAAA
* *
52834306 TAATTTATAATAGTAACTGACAAAATAACTTTAAAATAAATTAAAAA
1 TAATTTATAATAGTTACTAACAAAATAACTTTAAAATAAATTAAAAA
52834353 CAACATAAAA
Statistics
Matches: 134, Mismatches: 17, Indels: 19
0.79 0.10 0.11
Matches are distributed among these distances:
105 36 0.27
106 4 0.03
109 1 0.01
110 1 0.01
113 13 0.10
114 37 0.28
115 42 0.31
ACGTcount: A:0.56, C:0.15, G:0.02, T:0.27
Consensus pattern (105 bp):
TAATTTATAATAGTTACTAACAAAATAACTTTAAAATAAATTAAAAATAATAAAAAATTACATTC
ATAACCTAACAAACCACAATAAACAGTAAACCTAAACAAA
Found at i:52834503 original size:22 final size:22
Alignment explanation
Indices: 52834463--52834515 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
52834453 ATCCTTGTTT
* *
52834463 TTTCTTCTCCTTTCTTTCTTTC
1 TTTCTTCTCCTCTCTTTCTTCC
52834485 TTTCTTCTCC-CTCTCTTCTTCC
1 TTTCTTCTCCTCTCT-TTCTTCC
52834507 TTCTCTTCT
1 TT-TCTTCT
52834516 GCTATTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 3 0.11
22 18 0.67
23 6 0.22
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTCTTCTCCTCTCTTTCTTCC
Found at i:52834513 original size:12 final size:11
Alignment explanation
Indices: 52834463--52834515 Score: 54
Period size: 11 Copynumber: 4.7 Consensus size: 11
52834453 ATCCTTGTTT
52834463 TTTCTTC-TCC
1 TTTCTTCTTCC
*
52834473 TTTCTTTCTTTC
1 TTTC-TTCTTCC
*
52834485 TTTCTTCTCCC
1 TTTCTTCTTCC
*
52834496 TCTCTTCTTCC
1 TTTCTTCTTCC
52834507 TTCTCTTCT
1 TT-TCTTCT
52834516 GCTATTTTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 4 0.12
11 18 0.53
12 12 0.35
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTCTTCTTCC
Found at i:52834656 original size:27 final size:27
Alignment explanation
Indices: 52834592--52834650 Score: 109
Period size: 27 Copynumber: 2.2 Consensus size: 27
52834582 ATTGGTACCC
*
52834592 CCTATCAGATAGGGGTCACTGGTGCCA
1 CCTATAAGATAGGGGTCACTGGTGCCA
52834619 CCTATAAGATAGGGGTCACTGGTGCCA
1 CCTATAAGATAGGGGTCACTGGTGCCA
52834646 CCTAT
1 CCTAT
52834651 TGGATAAGCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.24
Consensus pattern (27 bp):
CCTATAAGATAGGGGTCACTGGTGCCA
Found at i:52834893 original size:29 final size:29
Alignment explanation
Indices: 52834851--52834907 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
52834841 GGCACCACCA
*
52834851 CTATTGACATACCATTGTCGTATTTAATC
1 CTATTGACATACCATTGTCATATTTAATC
*
52834880 CTATTGACATACCATTTTCATATTTAAT
1 CTATTGACATACCATTGTCATATTTAAT
52834908 TTTTTTTACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.30, C:0.19, G:0.07, T:0.44
Consensus pattern (29 bp):
CTATTGACATACCATTGTCATATTTAATC
Found at i:52839705 original size:31 final size:29
Alignment explanation
Indices: 52839667--52839743 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
52839657 ATTAATGCTC
*
52839667 AGTGACTAAAATGTTACAACACAATAACATA
1 AGTGACTAAAATGTAACAACAC-A-AACATA
* ***
52839698 AGTGACTAAAACGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACAACACAAACATA
52839727 AGTGACTAAAATGTAAC
1 AGTGACTAAAATGTAAC
52839744 CTGAGACAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
29 22 0.55
30 1 0.03
31 17 0.43
ACGTcount: A:0.49, C:0.16, G:0.12, T:0.23
Consensus pattern (29 bp):
AGTGACTAAAATGTAACAACACAAACATA
Found at i:52840930 original size:37 final size:37
Alignment explanation
Indices: 52840880--52840958 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
52840870 TTATTATGAA
* * *
52840880 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
* *
52840917 GTCTTACTCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
52840954 GTCTT
1 GTCTT
52840959 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:52841164 original size:47 final size:47
Alignment explanation
Indices: 52841081--52841481 Score: 550
Period size: 47 Copynumber: 8.3 Consensus size: 47
52841071 TCGGGACTTC
* * * * * * * * * *
52841081 TCACATTTATGCACTTTCACATCCATTACGTTGGCCACTCGGCCCTG
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
52841128 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
* *
52841175 TCACATATATACACTTTCACATTCATCGCATCGGCCATTAGGCCGTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
52841222 TCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
*
52841269 TCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
* *
52841316 TTACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGTCTTA
1 -T-CACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
52841367 TCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCAC--ATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
52841418 TCACATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
* *
52841467 TTACATACATACACT
1 TCACATATATACACT
52841482 CTCTTGGCTG
Statistics
Matches: 324, Mismatches: 24, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
47 178 0.55
48 1 0.00
49 58 0.18
50 1 0.00
51 86 0.27
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
Found at i:52848103 original size:18 final size:18
Alignment explanation
Indices: 52848080--52848190 Score: 132
Period size: 18 Copynumber: 6.2 Consensus size: 18
52848070 CCCAACTACT
*
52848080 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
* ***
52848098 GTATACATGAATAGTGTT
1 GTATACGTGAATAGTACC
52848116 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
* * * *
52848134 ATATATGTAAATAGTACT
1 GTATACGTGAATAGTACC
*
52848152 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
52848170 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
52848188 GTA
1 GTA
52848191 AACGGTCGTA
Statistics
Matches: 74, Mismatches: 19, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 74 1.00
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.31
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:52848126 original size:36 final size:36
Alignment explanation
Indices: 52848076--52848186 Score: 150
Period size: 36 Copynumber: 3.1 Consensus size: 36
52848066 CAATCCCAAC
* *
52848076 TACTGTATACGTGAACAGTACCGTATACATGAATAG
1 TACTGTATACGTGAATAGTACCGTATACGTGAATAG
** * * *
52848112 TGTTGTATACGTGAATAGTACCATATATGTAAATAG
1 TACTGTATACGTGAATAGTACCGTATACGTGAATAG
*
52848148 TACTGTATACGTGAATAGTGCCGTATACGTGAATAG
1 TACTGTATACGTGAATAGTACCGTATACGTGAATAG
52848184 TAC
1 TAC
52848187 CGTAAACGGT
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 62 1.00
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.32
Consensus pattern (36 bp):
TACTGTATACGTGAATAGTACCGTATACGTGAATAG
Found at i:52854423 original size:23 final size:23
Alignment explanation
Indices: 52854383--52854427 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
52854373 AATTTCTATA
52854383 TTTTTATTTTTAGGAATTTAAATT
1 TTTTTATTTTTA-GAATTTAAATT
52854407 TTTTTATTTTTCA-AATTTAAA
1 TTTTTATTTTT-AGAATTTAAA
52854428 AATTTAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 8 0.40
24 11 0.55
25 1 0.05
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.62
Consensus pattern (23 bp):
TTTTTATTTTTAGAATTTAAATT
Found at i:52857347 original size:50 final size:50
Alignment explanation
Indices: 52857223--52857464 Score: 231
Period size: 50 Copynumber: 4.7 Consensus size: 50
52857213 GATAATAACA
* * *
52857223 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTT-TCCTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATAT-CGG
* *
52857272 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
* ** *
52857322 TGCCTATGCCATGTCCCAGACATGGTCTTACA-GAGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATG-GGAGTTCTCATATCGG
* ** *
52857372 TGCCAATGCCATGTCCCAGACATAGTCTTACATGGGACCTCTCATGATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCAT-A--TC---GG
* * *
52857428 TGCCAATGTCATGTCTCATACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
52857465 TCTCTTTACC
Statistics
Matches: 163, Mismatches: 19, Indels: 15
0.83 0.10 0.08
Matches are distributed among these distances:
48 4 0.02
49 39 0.24
50 83 0.51
51 1 0.01
53 2 0.01
56 34 0.21
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.29
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
Found at i:52858454 original size:17 final size:17
Alignment explanation
Indices: 52858417--52858464 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
52858407 GAATTTAGAA
*
52858417 GAATTTT-TGAATTAGT
1 GAATTTTGTGATTTAGT
*
52858433 GAATTTTGTGATTTATT
1 GAATTTTGTGATTTAGT
52858450 GAATTTTGTGATTTA
1 GAATTTTGTGATTTA
52858465 AAAATAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 7 0.24
17 22 0.76
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (17 bp):
GAATTTTGTGATTTAGT
Found at i:52865854 original size:10 final size:10
Alignment explanation
Indices: 52865805--52865852 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
52865795 TAAATTCCCG
52865805 AAAGATAAAT
1 AAAGATAAAT
* ** *
52865815 ACATTTAATT
1 AAAGATAAAT
52865825 AAAGATAAAT
1 AAAGATAAAT
52865835 AAAGATAAAT
1 AAAGATAAAT
52865845 AAA-ATAAA
1 AAAGATAAA
52865853 ATCCTAAAAT
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
9 5 0.17
10 25 0.83
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:52871325 original size:15 final size:14
Alignment explanation
Indices: 52871304--52871339 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
52871294 GTAATTCTTA
*
52871304 ATAATTATCTTAAT
1 ATAATTATCCTAAT
52871318 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
52871333 ATAATTA
1 ATAATTA
52871340 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:52874325 original size:462 final size:459
Alignment explanation
Indices: 52873522--52874357 Score: 989
Period size: 462 Copynumber: 1.8 Consensus size: 459
52873512 ATTTTACCTA
* * * * **
52873522 GAGGGTCATAGTTATAAACAATAAAAGTTCCCCCGTTATTGCATCTCACTTTTGCACATCTGAGA
1 GAGGGTCATAGTTACAAACAACAAAAGTTCCACCGTTATTGCACCTCACTTTTGCACATCCAAGA
* * * * * *
52873587 TGAACTGAATTGTGCCAAATCACTTGAGTATAATGGCTACATATGTGGCTCGAATTACATGCACC
66 CGAACTGAATTGCGCCAAATCACTTGAGTATAATGCCTACATACGTGGCTCGAATCACATACACC
* * * * * * *
52873652 GGATTTCAAATTATAATTTCTCTTTTCATTAATCCACATTATCACAGCATCAGATCCAGAAAGGT
131 AGATTTAAAATTATAATGTCTCTTCTCATCAATCCACAATATCACAGCATCAGATCCAGAAAGAT
* * * ** ** *
52873717 CATCCTTGCTCCCCGCAAGATTCTCACCGTAAGGTTCTTTTGAAGGCATAAGCTCACAATCCGAT
196 CATCCTTACTCCACGCAAGATTCTCACCATAAGGCCCTCCTGAAGGCACAAGCTCACAATCCGAT
* * * ** * * *
52873782 ATCCTCTTATTGGCATAGTTTACTGCAAATATTGCCACCACGTTGTCCCAAGTGATGGGCCGAAC
261 ATCCTCTTATTGGCATAGTCTACCGCAAACATAACCACCACATTGTCCCAAATGATGGGCCAAAC
** * *
52873847 ACCAACTGCAGCACGAGCCATGTTGTGTACATTCAAGTAGTCTTAAGGTAACAAACCTTCTGTAG
326 ACCAACCACAGCACGAGCCACGTTGTGTACATTCAAGAAGTCTTAAGGTAACAAACCTTCTGTAG
52873912 CAGAACTAGGGTTTGGCACAGTTGCTACCATGATGTTGGATTGGTTCTTACCTATAGGATCGTTA
391 CAGAACTAGGGTTTGGCACAGTTGCTACCATGATGTTGGATTGGTTCTTACCTATAGGATCGTTA
52873977 CTTG
456 CTTG
* *
52873981 GAGGGTCATAGTTACAAATAACAAAAGTTCCACCGTTATTGGACCCAATCACTTTTGCACATCCA
1 GAGGGTCATAGTTACAAACAACAAAAGTTCCACCGTTATTGCA-CC--TCACTTTTGCACATCCA
* * * *
52874046 AGACG-ACTTGAGTTGCGCCCAATCACTTGAGTATATTGCCTACATACGTGGCTTGAATCACATA
63 AGACGAAC-TGAATTGCGCCAAATCACTTGAGTATAATGCCTACATACGTGGCTCGAATCACATA
* * * *
52874110 CACCAGATTTAAAATTATAATAGTCT-TTCTCATCAATCCACAATCTCATAGCATCGGGTCCAGA
127 CACCAGATTTAAAATTATAAT-GTCTCTTCTCATCAATCCACAATATCACAGCATCAGATCCAGA
* * * * *
52874174 AAGATCAGTGC-TACTCCATGCAAGATTCTCACCATAAGGCCCTCCTGAATGCACGAGGTCACAA
191 AAGATCA-TCCTTACTCCACGCAAGATTCTCACCATAAGGCCCTCCTGAAGGCACAAGCTCACAA
* * ** * *
52874238 TCTGATATCCTCTT-TTCGGCATAGTCTGCCGCGTACCTAACCACCACATTGTTCCAAATGATCG
255 TCCGATATCCTCTTATT-GGCATAGTCTACCGCAAACATAACCACCACATTGTCCCAAATGAT-G
* * * *
52874302 GG-CAAACACCAACCACCGCACGAGCTACGTTGTGTACATTCTAGAAGTCTTGAGGT
318 GGCCAAACACCAACCACAGCACGAGCCACGTTGTGTACATTCAAGAAGTCTTAAGGT
52874358 GACGAACCAT
Statistics
Matches: 305, Mismatches: 64, Indels: 13
0.80 0.17 0.03
Matches are distributed among these distances:
459 38 0.12
460 1 0.00
461 4 0.01
462 254 0.83
463 8 0.03
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.29
Consensus pattern (459 bp):
GAGGGTCATAGTTACAAACAACAAAAGTTCCACCGTTATTGCACCTCACTTTTGCACATCCAAGA
CGAACTGAATTGCGCCAAATCACTTGAGTATAATGCCTACATACGTGGCTCGAATCACATACACC
AGATTTAAAATTATAATGTCTCTTCTCATCAATCCACAATATCACAGCATCAGATCCAGAAAGAT
CATCCTTACTCCACGCAAGATTCTCACCATAAGGCCCTCCTGAAGGCACAAGCTCACAATCCGAT
ATCCTCTTATTGGCATAGTCTACCGCAAACATAACCACCACATTGTCCCAAATGATGGGCCAAAC
ACCAACCACAGCACGAGCCACGTTGTGTACATTCAAGAAGTCTTAAGGTAACAAACCTTCTGTAG
CAGAACTAGGGTTTGGCACAGTTGCTACCATGATGTTGGATTGGTTCTTACCTATAGGATCGTTA
CTTG
Found at i:52878271 original size:31 final size:30
Alignment explanation
Indices: 52878235--52878303 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 30
52878225 GATTAAATCA
52878235 AAATTAAAGTTTCA-A-GTATACATTTGAACT
1 AAATTAAAGTTTCACATGTATA-A-TTGAACT
* *
52878265 ACAATTAGAGTTTCACATGTATAATTGCACT
1 A-AATTAAAGTTTCACATGTATAATTGAACT
52878296 AAATTAAA
1 AAATTAAA
52878304 ATTCATATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
30 7 0.21
31 19 0.58
32 2 0.06
33 5 0.15
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (30 bp):
AAATTAAAGTTTCACATGTATAATTGAACT
Found at i:52878348 original size:29 final size:27
Alignment explanation
Indices: 52878280--52878348 Score: 75
Period size: 31 Copynumber: 2.4 Consensus size: 27
52878270 TAGAGTTTCA
*
52878280 CATGTATAATTGCACTAAATTAAAATT
1 CATGTATAATTGCACTAAATCAAAATT
* *
52878307 CATATATACAATTGCACATTAAATCAAAGTT
1 CATGTAT--AATTGCAC--TAAATCAAAATT
52878338 CATGTATAATT
1 CATGTATAATT
52878349 TTGAGATTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
27 6 0.18
29 12 0.35
31 16 0.47
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.36
Consensus pattern (27 bp):
CATGTATAATTGCACTAAATCAAAATT
Found at i:52879569 original size:26 final size:23
Alignment explanation
Indices: 52879540--52879649 Score: 66
Period size: 26 Copynumber: 4.6 Consensus size: 23
52879530 ATAATTTAAT
52879540 GAATTTGATATTAACTTGAATTGATC
1 GAATTTGA-ATTAA--TGAATTGATC
* *
52879566 GAATTTGAATTTATGATTTGATC
1 GAATTTGAATTAATGAATTGATC
*** *
52879589 --ATAAAAAATTAAT-AATTTAAT-
1 GAAT-TTGAATTAATGAA-TTGATC
52879610 GAATTTGATATTAACTTGAATTGATC
1 GAATTTGA-ATTAA--TGAATTGATC
52879636 GAATTTGAATTAAT
1 GAATTTGAATTAAT
52879650 TTAAGCCTAA
Statistics
Matches: 63, Mismatches: 12, Indels: 21
0.66 0.12 0.22
Matches are distributed among these distances:
21 3 0.05
22 11 0.17
23 17 0.27
25 14 0.22
26 18 0.29
ACGTcount: A:0.40, C:0.05, G:0.13, T:0.43
Consensus pattern (23 bp):
GAATTTGAATTAATGAATTGATC
Found at i:52879586 original size:70 final size:70
Alignment explanation
Indices: 52879508--52879646 Score: 278
Period size: 70 Copynumber: 2.0 Consensus size: 70
52879498 ATTTAACTTA
52879508 ATGATTTGATCATAAAAAATTAATAATTTAATGAATTTGATATTAACTTGAATTGATCGAATTTG
1 ATGATTTGATCATAAAAAATTAATAATTTAATGAATTTGATATTAACTTGAATTGATCGAATTTG
52879573 AATTT
66 AATTT
52879578 ATGATTTGATCATAAAAAATTAATAATTTAATGAATTTGATATTAACTTGAATTGATCGAATTTG
1 ATGATTTGATCATAAAAAATTAATAATTTAATGAATTTGATATTAACTTGAATTGATCGAATTTG
52879643 AATT
66 AATT
52879647 AATTTAAGCC
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.42, C:0.04, G:0.12, T:0.42
Consensus pattern (70 bp):
ATGATTTGATCATAAAAAATTAATAATTTAATGAATTTGATATTAACTTGAATTGATCGAATTTG
AATTT
Found at i:52885446 original size:16 final size:18
Alignment explanation
Indices: 52885426--52885465 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
52885416 ATAAATTTTT
*
52885426 TTAAAAAAT-ATAATACA
1 TTAAAAAATAATAAAACA
52885443 -TAAAAAATAATAAAACA
1 TTAAAAAATAATAAAACA
52885460 TTAAAA
1 TTAAAA
52885466 TAAATGTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 8 0.40
17 7 0.35
18 5 0.25
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (18 bp):
TTAAAAAATAATAAAACA
Found at i:52892112 original size:25 final size:27
Alignment explanation
Indices: 52892082--52892140 Score: 95
Period size: 26 Copynumber: 2.2 Consensus size: 27
52892072 TTTTTTTAAT
52892082 ATATTTGGTAAAT-AAAAAAA-TTATA
1 ATATTTGGTAAATAAAAAAAAGTTATA
52892107 ATATTTTGGTAAATAAAAAAAAGTTATA
1 ATA-TTTGGTAAATAAAAAAAAGTTATA
52892135 ATATTT
1 ATATTT
52892141 TGATTATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
25 3 0.10
26 10 0.32
27 10 0.32
28 8 0.26
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (27 bp):
ATATTTGGTAAATAAAAAAAAGTTATA
Found at i:52892116 original size:26 final size:28
Alignment explanation
Indices: 52892078--52892142 Score: 107
Period size: 27 Copynumber: 2.4 Consensus size: 28
52892068 TTATTTTTTT
52892078 TAATATATTTGGTAAAT-AAAAAAA-TTA
1 TAATAT-TTTGGTAAATAAAAAAAAGTTA
52892105 TAATATTTTGGTAAATAAAAAAAAGTTA
1 TAATATTTTGGTAAATAAAAAAAAGTTA
52892133 TAATATTTTG
1 TAATATTTTG
52892143 ATTATTTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
26 10 0.28
27 13 0.36
28 13 0.36
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (28 bp):
TAATATTTTGGTAAATAAAAAAAAGTTA
Found at i:52892645 original size:16 final size:16
Alignment explanation
Indices: 52892624--52892665 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
52892614 AATAATTTGA
*
52892624 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
52892640 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
52892656 TAGTTTTAAT
1 TAATTTTAAT
52892666 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:52892649 original size:22 final size:23
Alignment explanation
Indices: 52892639--52892700 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
52892629 TTACTAACAA
* * *
52892639 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAAATAATT
*
52892661 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTAATAAAAAAATAATT
*
52892684 TTAATTTTAATTAAAAA
1 TTAATTTTAATAAAAAA
52892701 CGGGCCGGGT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.30
23 23 0.70
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAATT
Found at i:52893069 original size:31 final size:29
Alignment explanation
Indices: 52893030--52893100 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 29
52893020 TAATGACAAC
52893030 TTTTAAAAATTATAAAGGATTTA-ATTAAAA
1 TTTTAAAAATT-TAAAGGATTTAGA-TAAAA
52893060 TTTTCAAAAAATTTAAAGGATTTAGATAAAA
1 TTTT--AAAAATTTAAAGGATTTAGATAAAA
*
52893091 TTTTGAAAAT
1 TTTTAAAAAT
52893101 ATTGAAAGCT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
29 5 0.14
30 4 0.11
31 20 0.54
32 8 0.22
ACGTcount: A:0.51, C:0.01, G:0.08, T:0.39
Consensus pattern (29 bp):
TTTTAAAAATTTAAAGGATTTAGATAAAA
Found at i:52894739 original size:17 final size:17
Alignment explanation
Indices: 52894717--52894751 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
52894707 TTTATTACTA
52894717 TTTTT-ATTATATACACT
1 TTTTTAATT-TATACACT
52894734 TTTTTAATTTATACACT
1 TTTTTAATTTATACACT
52894751 T
1 T
52894752 GTACCCATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.82
18 3 0.18
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTTTAATTTATACACT
Found at i:52895460 original size:109 final size:109
Alignment explanation
Indices: 52895268--52895571 Score: 452
Period size: 109 Copynumber: 2.8 Consensus size: 109
52895258 TTTTCGATTG
* *
52895268 AGGCAATATTTAGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTACTGGGTGTCGATTTTTCT
1 AGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTACTGGGTATCGATTTTTCT
* *
52895333 CGTTCAACCAAATGGCTAAATATCATTTTAAAAATTTCAAAATA
66 CGTTCAACCAAATAGCTAAATATCATTTCAAAAATTTCAAAATA
* * *
52895377 AGGCAATATTTTGTGTTTGGAAATTCGAGAAAACATGCCCTAAGGTACTGGGTATAGATTTTTCT
1 AGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTACTGGGTATCGATTTTTCT
* *
52895442 CATTCAACCAAATAGCTAAATATCCTTTCAAAAATTTCAAAATA
66 CGTTCAACCAAATAGCTAAATATCATTTCAAAAATTTCAAAATA
* * *
52895486 AGGCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAAGGTACTGGGTTTCGA--TTTCT
1 AGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTACTGGGTATCGATTTTTCT
* * *
52895548 CGTTTAACCAAATTGCCAAATATC
66 CGTTCAACCAAATAGCTAAATATC
52895572 CTATTGAATT
Statistics
Matches: 176, Mismatches: 19, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
106 25 0.14
108 24 0.14
109 127 0.72
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (109 bp):
AGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTACTGGGTATCGATTTTTCT
CGTTCAACCAAATAGCTAAATATCATTTCAAAAATTTCAAAATA
Found at i:52898622 original size:135 final size:136
Alignment explanation
Indices: 52898320--52898964 Score: 661
Period size: 134 Copynumber: 4.8 Consensus size: 136
52898310 CTGAATTTCG
* * * * *
52898320 GATATGATCATATGAA-TCACATGGAGTC--CTTTTATCCATTTGACTTATATGTTGCGTCTCTC
1 GATATGATCATACGAACT-GCATGGAGTCTGCTTTTTTCCATTTGGCTTATATG--GTGTCTCTC
* ** * *
52898382 TTCCCCAAATCTTTTGTCAGGAGTAGTTTACCTTTTAGATTTAGGAT---CCCAATGATCACTC-
63 TTCCCTAAATC-TTTGTCTCGAGTGGTTTATCTTTTAGATTTAGGATCCACCCAATGATCACTCT
52898443 -TGAGTTACA
127 TTGAGTTACA
* * * * * * *
52898452 GATATGATCATACAAATTGCATGGAGTTTGTTTTTTTCCTTTTGGTTTATTGTGGTGTCTCTCTT
1 GATATGATCATACGAACTGCATGGAGTCTGCTTTTTTCCATTTGGCTTA-TATGGTGTCTCTCTT
*
52898517 CCCTAAATCTTTGTCTTGAGTGGTTTATCTTTTAGATTTAGGATCCACCCAATGATCACTCTTTG
65 CCCTAAATCTTTGTCTCGAGTGGTTTATCTTTTAGATTTAGGATCCACCCAATGATCACTCTTTG
52898582 AGTTACA
130 AGTTACA
* *
52898589 GATATGA-CAGACGAACT-CATGGAGTCTGCTTTTTTCCATTTGGCTTATATGGTGTCTCTTTTC
1 GATATGATCATACGAACTGCATGGAGTCTGCTTTTTTCCATTTGGCTTATATGGTGTCTCTCTTC
* ** *
52898652 CCTAAATCTTTGTCTTGAGTGGTTTATCTTTTAGATTTAGGATCCATTC-AT--T-GCT-TTCTG
66 CCTAAATCTTTGTCTCGAGTGGTTTATCTTTTAGATTTAGGATCCACCCAATGATCACTCTT-TG
* **
52898712 AATTATG
130 AGTTACA
** * * *
52898719 GATACAATCATATGAA-TGGCATGGAGTC--CATTTTATCCATTTGACTTATATGTTGTGTCTCT
1 GATATGATCATACGAACT-GCATGGAGTCTGC-TTTTTTCCATTTGGCTTATATG--GTGTCTCT
* * * *
52898781 CTTCCCCAAATCTTTTGTCACGAGTGGTTTACCTTTTAGATTTAGGAT---CCCAATGGTCACTC
62 CTTCCCTAAATC-TTTGTCTCGAGTGGTTTATCTTTTAGATTTAGGATCCACCCAATGATCACTC
*
52898843 TCTGAGTTACA
126 TTTGAGTTACA
* *
52898854 GATATGATCATATGAA-TCGCGA-GGAGTCCGCTTTTTTCCATTTGGCTTATATGGTGTCTCTCT
1 GATATGATCATACGAACT-GC-ATGGAGTCTGCTTTTTTCCATTTGGCTTATATGGTGTCTCTCT
52898917 TCCCTAAATCTTTGTCTCGAGTGGTTTATCTTTTAGATTTAGGATCCA
64 TCCCTAAATCTTTGTCTCGAGTGGTTTATCTTTTAGATTTAGGATCCA
52898965 TTCATTACTT
Statistics
Matches: 428, Mismatches: 57, Indels: 52
0.80 0.11 0.10
Matches are distributed among these distances:
129 2 0.00
130 15 0.04
131 28 0.07
132 64 0.15
133 72 0.17
134 127 0.30
135 74 0.17
136 29 0.07
137 17 0.04
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.42
Consensus pattern (136 bp):
GATATGATCATACGAACTGCATGGAGTCTGCTTTTTTCCATTTGGCTTATATGGTGTCTCTCTTC
CCTAAATCTTTGTCTCGAGTGGTTTATCTTTTAGATTTAGGATCCACCCAATGATCACTCTTTGA
GTTACA
Found at i:52898779 original size:267 final size:265
Alignment explanation
Indices: 52898259--52899110 Score: 901
Period size: 267 Copynumber: 3.2 Consensus size: 265
52898249 AGATATCCTT
* * * * * * * * *
52898259 TCTTTGTCATGAGTGGTTCA-CTTTTGAGA-TTAGGATCCCATTCATTACTTTCTGAATTTCGGA
1 TCTTTGTCACGAGTGGTTTACCTTTT-AGATTTAGGATCCCAATGATCACTCTCTGAGTTACAGA
* * * * * *
52898322 TATGATCATATGAATCAC-ATGGAGT-C-CTTTTATCCATTTGACTTATATGTTGCGTCTCTCTT
65 TATGATCAGACGAATCGCGA-GGAGTCCGCTTTTTTCCATTTGGCTTATATG--GTGTCTCTCTT
* ** * * * * * *
52898384 CCCCAAATCTTTTGTCAGGAGTAGTTTACCTTTTAGATTTAGGATCCCAATGATCAC--TCTGAG
127 CCCTAAATC-TTTGTCTCGAGTGGTTTATCTTTTAGATTTAGGAT-CCATTCATTACTTTCTGAA
** ** * * * *** * * **
52898447 TTACAGATATGATCATACAAATTGCATGGAGTTTGTTTTTTTCCTTTTGGTTTAT-TGTGGTGTC
190 TTATGGATACAATCACACAAATAGCATAGAG-TCCATTTTATCCATTTGACTTATATGT-GTGTC
*
52898511 TCTCTTCCCTAAA
253 TCTCTTCCCCAAA
** * *
52898524 TCTTTGTCTTGAGTGGTTTATCTTTTAGATTTAGGATCCACCCAATGATCACTCTTTGAGTTACA
1 TCTTTGTCACGAGTGGTTTACCTTTTAGATTTAGGAT---CCCAATGATCACTCTCTGAGTTACA
* * *
52898589 GATATGA-CAGACGAA-CTC-ATGGAGTCTGCTTTTTTCCATTTGGCTTATATGGTGTCTCTTTT
63 GATATGATCAGACGAATCGCGA-GGAGTCCGCTTTTTTCCATTTGGCTTATATGGTGTCTCTCTT
* *
52898651 CCCTAAATCTTTGTCTTGAGTGGTTTATCTTTTAGATTTAGGATCCATTCATTGCTTTCTGAATT
127 CCCTAAATCTTTGTCTCGAGTGGTTTATCTTTTAGATTTAGGATCCATTCATTACTTTCTGAATT
* ** * *
52898716 ATGGATACAATCATATGAATGGCATGGAGTCCATTTTATCCATTTGACTTATATGTTGTGTCTCT
192 ATGGATACAATCACACAAATAGCATAGAGTCCATTTTATCCATTTGACTTATATG-TGTGTCTCT
52898781 CTTCCCCAAA
256 CTTCCCCAAA
*
52898791 TCTTTTGTCACGAGTGGTTTACCTTTTAGATTTAGGATCCCAATGGTCACTCTCTGAGTTACAGA
1 TC-TTTGTCACGAGTGGTTTACCTTTTAGATTTAGGATCCCAATGATCACTCTCTGAGTTACAGA
* *
52898856 TATGATCATATGAATCGCGAGGAGTCCGCTTTTTTCCATTTGGCTTATATGGTGTCTCTCTTCCC
65 TATGATCAGACGAATCGCGAGGAGTCCGCTTTTTTCCATTTGGCTTATATGGTGTCTCTCTTCCC
52898921 TAAATCTTTGTCTCGAGTGGTTTATCTTTTAGATTTAGGATCCATTCATTACTTTCTGAATTATG
130 TAAATCTTTGTCTCGAGTGGTTTATCTTTTAGATTTAGGATCCATTCATTACTTTCTGAATTATG
*
52898986 GATACAATCACACAAATAGCATAGAGTCCATTTTATCCATTTGACTTA-A-----ATCTCTCTTC
195 GATACAATCACACAAATAGCATAGAGTCCATTTTATCCATTTGACTTATATGTGTGTCTCTCTTC
52899045 CCCAAA
260 CCCAAA
* * ** *
52899051 TCTTTGTCACGAGTGGTTTACCTTTTAGATTTAGGATACCATTGATTGCTTTCTGAGTTA
1 TCTTTGTCACGAGTGGTTTACCTTTTAGATTTAGGATCCCAATGATCACTCTCTGAGTTA
52899111 TGGATACAAT
Statistics
Matches: 505, Mismatches: 67, Indels: 36
0.83 0.11 0.06
Matches are distributed among these distances:
259 52 0.10
260 17 0.03
265 58 0.11
266 66 0.13
267 227 0.45
268 40 0.08
269 45 0.09
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.42
Consensus pattern (265 bp):
TCTTTGTCACGAGTGGTTTACCTTTTAGATTTAGGATCCCAATGATCACTCTCTGAGTTACAGAT
ATGATCAGACGAATCGCGAGGAGTCCGCTTTTTTCCATTTGGCTTATATGGTGTCTCTCTTCCCT
AAATCTTTGTCTCGAGTGGTTTATCTTTTAGATTTAGGATCCATTCATTACTTTCTGAATTATGG
ATACAATCACACAAATAGCATAGAGTCCATTTTATCCATTTGACTTATATGTGTGTCTCTCTTCC
CCAAA
Found at i:52902575 original size:16 final size:16
Alignment explanation
Indices: 52902551--52902588 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
52902541 TGGATTACTT
*
52902551 ATTATAACTCTATTCC
1 ATTACAACTCTATTCC
*
52902567 ATTACAACTCTATTTC
1 ATTACAACTCTATTCC
52902583 ATTACA
1 ATTACA
52902589 GTCCTATTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.24, G:0.00, T:0.42
Consensus pattern (16 bp):
ATTACAACTCTATTCC
Found at i:52903222 original size:14 final size:14
Alignment explanation
Indices: 52903203--52903229 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
52903193 TAATTTCTAA
52903203 TAATTTATTATTTT
1 TAATTTATTATTTT
52903217 TAATTTATTATTT
1 TAATTTATTATTT
52903230 GCATTACATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TAATTTATTATTTT
Found at i:52905909 original size:7 final size:7
Alignment explanation
Indices: 52905884--52905932 Score: 66
Period size: 7 Copynumber: 7.0 Consensus size: 7
52905874 AGTGATGTGA
52905884 AAAAATG
1 AAAAATG
52905891 AAAAGATG
1 AAAA-ATG
52905899 -AAAATG
1 AAAAATG
52905905 AAAAATG
1 AAAAATG
52905912 AAAAATG
1 AAAAATG
52905919 AAAAA-G
1 AAAAATG
52905925 TAAAAATG
1 -AAAAATG
52905933 GAGAGGCTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
6 4 0.11
7 30 0.79
8 4 0.11
ACGTcount: A:0.69, C:0.00, G:0.16, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:52907310 original size:45 final size:44
Alignment explanation
Indices: 52907217--52907479 Score: 307
Period size: 44 Copynumber: 5.9 Consensus size: 44
52907207 AAAAGCAACA
***
52907217 GATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGATAGCA
1 GATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGATAATG
*** ***
52907261 GATCTTGTCTTCCCATATTGGTGGTGAAGTAGATCGAAGATAATG
1 GATCTTGTCTTCATGTATT-GACATGAAGTAGATCGAAGATAATG
*
52907306 GATCTTGTCTTCATGTATTGACATGAAGTAGATC-AGAGATAGTG
1 GATCTTGTCTTCATGTATTGACATGAAGTAGATCGA-AGATAATG
52907350 GATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGATAATG
1 GATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGATAATG
* * ***
52907394 GATCTTGTTTTCATGTATTGACATGAAGTATATC-AGAGATAGCA
1 GATCTTGTCTTCATGTATTGACATGAAGTAGATCGA-AGATAATG
* *
52907438 GATCTTGTCTTCCTGTATT-AGCAGTGAAATAGATCGAAGATA
1 GATCTTGTCTTCATGTATTGA-CA-TGAAGTAGATCGAAGATA
52907480 CAAGCCTTAT
Statistics
Matches: 186, Mismatches: 26, Indels: 13
0.83 0.12 0.06
Matches are distributed among these distances:
43 3 0.02
44 132 0.71
45 50 0.27
46 1 0.01
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.34
Consensus pattern (44 bp):
GATCTTGTCTTCATGTATTGACATGAAGTAGATCGAAGATAATG
Found at i:52907429 original size:88 final size:88
Alignment explanation
Indices: 52907217--52907479 Score: 377
Period size: 88 Copynumber: 3.0 Consensus size: 88
52907207 AAAAGCAACA
**
52907217 GATCTTGTCTTCATGTATTGACATGAAGTAGATC-GAAGATAGCAGATCTTGTCTTCCCATATTG
1 GATCTTGTCTTCATGTATTGACATGAAGTAGATCAG-AGATAGCAGATCTTGTCTTCCTGTATT-
***
52907281 GTGGTGAAGTAGATCGAAGATAATG
64 GACATGAAGTAGATCGAAGATAATG
** *
52907306 GATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGTGGATCTTGTCTTCATGTATTGA
1 GATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAGATCTTGTCTTCCTGTATTGA
52907371 CATGAAGTAGATCGAAGATAATG
66 CATGAAGTAGATCGAAGATAATG
* *
52907394 GATCTTGTTTTCATGTATTGACATGAAGTATATCAGAGATAGCAGATCTTGTCTTCCTGTATT-A
1 GATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAGATCTTGTCTTCCTGTATTGA
*
52907458 GCAGTGAAATAGATCGAAGATA
66 -CA-TGAAGTAGATCGAAGATA
52907480 CAAGCCTTAT
Statistics
Matches: 157, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
87 1 0.01
88 82 0.52
89 73 0.46
90 1 0.01
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.34
Consensus pattern (88 bp):
GATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAGATCTTGTCTTCCTGTATTGA
CATGAAGTAGATCGAAGATAATG
Found at i:52908839 original size:12 final size:12
Alignment explanation
Indices: 52908815--52908853 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
52908805 TTTTTTACTT
52908815 TTATCATTATTA
1 TTATCATTATTA
52908827 TTAT-ATTATTTA
1 TTATCATTA-TTA
52908839 TTATCACTTATTA
1 TTATCA-TTATTA
52908852 TT
1 TT
52908854 TCTATATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 4 0.17
12 11 0.46
13 6 0.25
14 3 0.12
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (12 bp):
TTATCATTATTA
Found at i:52908925 original size:22 final size:21
Alignment explanation
Indices: 52908900--52908950 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 21
52908890 TTTAAAAAAC
*
52908900 TTTTATAAATACATACATATAT
1 TTTTATAAATACAAACATAT-T
* *
52908922 TTTTGTACATACAAACATATT
1 TTTTATAAATACAAACATATT
52908943 TTTTATAA
1 TTTTATAA
52908951 TATAGATATG
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.47
Consensus pattern (21 bp):
TTTTATAAATACAAACATATT
Found at i:52909305 original size:40 final size:38
Alignment explanation
Indices: 52909259--52909340 Score: 101
Period size: 40 Copynumber: 2.1 Consensus size: 38
52909249 TACATATACG
* *
52909259 TATTTTCATGATTTACCAATACATACACTTATACATTTTT
1 TATTTTCACGATTTACAAATACATACAC--ATACATTTTT
* * *
52909299 TATTTTCACGATTTTCAAATACATATACATGCATTTTT
1 TATTTTCACGATTTACAAATACATACACATACATTTTT
52909337 TATT
1 TATT
52909341 AGTTTTTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 13 0.35
40 24 0.65
ACGTcount: A:0.32, C:0.16, G:0.04, T:0.49
Consensus pattern (38 bp):
TATTTTCACGATTTACAAATACATACACATACATTTTT
Found at i:52910373 original size:21 final size:20
Alignment explanation
Indices: 52910332--52910386 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
52910322 ATATACATAT
*
52910332 TAAAAATATAAAAATGAAAA
1 TAAATATATAAAAATGAAAA
**
52910352 TAAATATATAGAAAATTCAAA
1 TAAATATATA-AAAATGAAAA
*
52910373 TATATATATAAAAA
1 TAAATATATAAAAA
52910387 ATCTAGAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 13 0.43
21 17 0.57
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (20 bp):
TAAATATATAAAAATGAAAA
Found at i:52910494 original size:10 final size:10
Alignment explanation
Indices: 52910475--52910529 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 10
52910465 ATATTATTAC
52910475 AAAAAA-TGT
1 AAAAAATTGT
52910484 AAAAAATTGT
1 AAAAAATTGT
*
52910494 -AAAAATTCT
1 AAAAAATTGT
52910503 AAAAATATTTGT
1 AAAAA-A-TTGT
* *
52910515 AAAAAGTTTT
1 AAAAAATTGT
52910525 AAAAA
1 AAAAA
52910530 TAATTTTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
9 14 0.37
10 15 0.39
11 1 0.03
12 8 0.21
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (10 bp):
AAAAAATTGT
Found at i:52910551 original size:24 final size:22
Alignment explanation
Indices: 52910483--52910557 Score: 75
Period size: 24 Copynumber: 3.4 Consensus size: 22
52910473 ACAAAAAATG
52910483 TAAAAA-A-TTGTAAAAA-TTC
1 TAAAAATATTTGTAAAAAGTTC
*
52910502 TAAAAATATTTGTAAAAAGTTT
1 TAAAAATATTTGTAAAAAGTTC
* *
52910524 TAAAAATAATTTTTTATAAAGTTC
1 TAAAAAT-A-TTTGTAAAAAGTTC
52910548 TAAAATATAT
1 TAAAA-ATAT
52910558 AATTATAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
19 6 0.13
20 1 0.02
21 9 0.20
22 9 0.20
23 2 0.04
24 17 0.37
25 2 0.04
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.40
Consensus pattern (22 bp):
TAAAAATATTTGTAAAAAGTTC
Found at i:52916005 original size:26 final size:26
Alignment explanation
Indices: 52915949--52916018 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
52915939 AACACACCAA
* *
52915949 TATCGCAGTAAAGCTACCAGTAATAG
1 TATCGCAGCAAAGCTGCCAGTAATAG
* *
52915975 CATCGCAGCAGAGCTGCCAGT-ATCAG
1 TATCGCAGCAAAGCTGCCAGTAAT-AG
*
52916001 TATCGTAGCAAAGCTGCC
1 TATCGCAGCAAAGCTGCC
52916019 GGAAACAGTA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
25 2 0.06
26 34 0.94
ACGTcount: A:0.31, C:0.26, G:0.23, T:0.20
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGTAATAG
Found at i:52916318 original size:27 final size:27
Alignment explanation
Indices: 52916166--52916315 Score: 180
Period size: 27 Copynumber: 5.6 Consensus size: 27
52916156 GGGGTATAAC
* *
52916166 AGTCATTTTACCCTAC-AGGGGTATTTC
1 AGTCATTTTACCCTTCGA-GGGTATTTT
52916193 AGTCATTTTA-CCTTACGAGGGTA-TTT
1 AGTCATTTTACCCTT-CGAGGGTATTTT
*
52916219 CGATCATTTTACCCTTCGAGGGTATTTT
1 AG-TCATTTTACCCTTCGAGGGTATTTT
* * * *
52916247 AGTTATTTTACCATTCAAGGGTATTTC
1 AGTCATTTTACCCTTCGAGGGTATTTT
*
52916274 AGTCATTTTACCCTTTGAGGGTATTTT
1 AGTCATTTTACCCTTCGAGGGTATTTT
52916301 AGTCATTTTACCCTT
1 AGTCATTTTACCCTT
52916316 TGAATCTCAA
Statistics
Matches: 105, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
26 6 0.06
27 90 0.86
28 9 0.09
ACGTcount: A:0.21, C:0.19, G:0.17, T:0.43
Consensus pattern (27 bp):
AGTCATTTTACCCTTCGAGGGTATTTT
Found at i:52921781 original size:9 final size:9
Alignment explanation
Indices: 52921735--52921783 Score: 62
Period size: 9 Copynumber: 5.4 Consensus size: 9
52921725 TTTGGTTAAA
*
52921735 AATTAATCG
1 AATTAACCG
52921744 AATTAACCG
1 AATTAACCG
*
52921753 AATTAACTG
1 AATTAACCG
*
52921762 AATTAATCG
1 AATTAACCG
*
52921771 AATTACCCG
1 AATTAACCG
52921780 AATT
1 AATT
52921784 GAATCACCAC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.31
Consensus pattern (9 bp):
AATTAACCG
Found at i:52921833 original size:37 final size:37
Alignment explanation
Indices: 52921782--52921855 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
52921772 ATTACCCGAA
*
52921782 TTGAATCACCACATAATTAAAAATATTACATAAGTCT
1 TTGAATCACCACATAATTAAAAACATTACATAAGTCT
*
52921819 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACCACATAATTAAAAACATTACATAAGTCT
52921856 CGAAATTAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.46, C:0.16, G:0.05, T:0.32
Consensus pattern (37 bp):
TTGAATCACCACATAATTAAAAACATTACATAAGTCT
Found at i:52921870 original size:37 final size:36
Alignment explanation
Indices: 52921791--52921873 Score: 105
Period size: 37 Copynumber: 2.2 Consensus size: 36
52921781 ATTGAATCAC
* * *
52921791 CACATAATTAAAAATATTACATAAGTCTTTGAATCA
1 CACATAATTAAAAACATTACATAAGTCTTCGAATAA
52921827 CTACATAATTAAAAACATTACATAAGTC-TCGAAATTAA
1 C-ACATAATTAAAAACATTACATAAGTCTTCG-AA-TAA
52921865 CACATAATT
1 CACATAATT
52921874 GAAATGTAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
36 3 0.07
37 35 0.85
38 3 0.07
ACGTcount: A:0.48, C:0.16, G:0.05, T:0.31
Consensus pattern (36 bp):
CACATAATTAAAAACATTACATAAGTCTTCGAATAA
Found at i:52922074 original size:13 final size:13
Alignment explanation
Indices: 52922049--52922082 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
52922039 TTTTATTGGG
52922049 TTGGGTT-GGTAA
1 TTGGGTTGGGTAA
52922061 TTGGGTTGGGTAA
1 TTGGGTTGGGTAA
52922074 TTGGGTTGG
1 TTGGGTTGG
52922083 ATTGGATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.33
13 14 0.67
ACGTcount: A:0.12, C:0.00, G:0.47, T:0.41
Consensus pattern (13 bp):
TTGGGTTGGGTAA
Found at i:52924778 original size:44 final size:44
Alignment explanation
Indices: 52924715--52924802 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
52924705 AAAGCCCAAT
* *
52924715 CGGCCCAAAACAGTTCCTAGCCCAACATTACAAAATTAAACAGA
1 CGGCCCAAAACAGTCCCTAGCCCAACACTACAAAATTAAACAGA
* *
52924759 CGGCCCAAAACAGTCCCTAGCCCAACACTACAAAGTTAAGCAGA
1 CGGCCCAAAACAGTCCCTAGCCCAACACTACAAAATTAAACAGA
52924803 AAAACCCTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.41, C:0.32, G:0.14, T:0.14
Consensus pattern (44 bp):
CGGCCCAAAACAGTCCCTAGCCCAACACTACAAAATTAAACAGA
Found at i:52925115 original size:11 final size:11
Alignment explanation
Indices: 52925099--52925139 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
52925089 CATGACATAG
52925099 CATTCAAATGT
1 CATTCAAATGT
*
52925110 CATTCATACATGC
1 CATTCA-A-ATGT
52925123 CATTCAAATGT
1 CATTCAAATGT
52925134 CATTCA
1 CATTCA
52925140 TACATGCCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 15 0.58
12 2 0.08
13 9 0.35
ACGTcount: A:0.34, C:0.24, G:0.07, T:0.34
Consensus pattern (11 bp):
CATTCAAATGT
Found at i:52925126 original size:24 final size:24
Alignment explanation
Indices: 52925099--52925147 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
52925089 CATGACATAG
52925099 CATTCAAATGTCATTCATACATGC
1 CATTCAAATGTCATTCATACATGC
52925123 CATTCAAATGTCATTCATACATGC
1 CATTCAAATGTCATTCATACATGC
52925147 C
1 C
52925148 TAGTTAGGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.27, G:0.08, T:0.33
Consensus pattern (24 bp):
CATTCAAATGTCATTCATACATGC
Found at i:52925128 original size:13 final size:13
Alignment explanation
Indices: 52925110--52925147 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
52925100 ATTCAAATGT
52925110 CATTCATACATGC
1 CATTCATACATGC
*
52925123 CATTCA-A-ATGT
1 CATTCATACATGC
52925134 CATTCATACATGC
1 CATTCATACATGC
52925147 C
1 C
52925148 TAGTTAGGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
11 9 0.43
12 2 0.10
13 10 0.48
ACGTcount: A:0.32, C:0.29, G:0.08, T:0.32
Consensus pattern (13 bp):
CATTCATACATGC
Found at i:52925432 original size:100 final size:100
Alignment explanation
Indices: 52925304--52925804 Score: 745
Period size: 100 Copynumber: 5.0 Consensus size: 100
52925294 GGTTGAAAAG
* * *
52925304 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTACAGCGGAACAGGTTGAAGC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCGGTGCAGCGGAACAGATTGAAGC
* * *
52925369 TATGATGGCGAATCTGGTTTCCCTGATATTGCAAT
66 TACGACGGCGGATCTGGTTTCCCTGATATTGCAAT
*
52925404 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAAGCAGTGCAGCGGAACAGATTGAAG
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTT-AGCGGTGCAGCGGAACAGATTGAAG
* * *
52925469 ATACGACGGCGGATCTAGTTTCCCTGATATTGAAAT
65 CTACGACGGCGGATCTGGTTTCCCTGATATTGCAAT
52925505 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCGGTGCAGCGGAACAGATTGAAGC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCGGTGCAGCGGAACAGATTGAAGC
* *
52925570 TACGACGGCGGATTTAGTTTCCCTGATATTGCAAT
66 TACGACGGCGGATCTGGTTTCCCTGATATTGCAAT
*
52925605 T-AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCGGTGCAGCGGAACAGGTTGAAGC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCGGTGCAGCGGAACAGATTGAAGC
* * * *
52925669 TACGACGGCGAATATGGTTTCCCTGATATTTCAAC
66 TACGACGGCGGATCTGGTTTCCCTGATATTGCAAT
* * * * *
52925704 TAAAAATATTGAAGCCACAACGACGGATCTTACTTCCCT-GACGGTGCGGTGGAACAGATTGAAG
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAG-CGGTGCAGCGGAACAGATTGAAG
* * *
52925768 CTACGACGGTGGATCTGGTTTCCCCGACATTGCAAT
65 CTACGACGGCGGATCTGGTTTCCCTGATATTGCAAT
52925804 T
1 T
52925805 GAACAGATCA
Statistics
Matches: 367, Mismatches: 31, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
99 94 0.26
100 181 0.49
101 92 0.25
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (100 bp):
TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCGGTGCAGCGGAACAGATTGAAGC
TACGACGGCGGATCTGGTTTCCCTGATATTGCAAT
Found at i:52925677 original size:50 final size:50
Alignment explanation
Indices: 52925309--52925678 Score: 230
Period size: 50 Copynumber: 7.4 Consensus size: 50
52925299 AAAAGTAAAA
*
52925309 AGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTACAGCGGAAC
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGCGGAAC
* * ** * * *** * * * **** *
52925359 AGGTTGAAGCTATGATGGCGAATCTGGTTTCCCT-GATATTGCAATTAAAA
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCTTAG-CAGTGCAGCGGAAC
52925409 AGATTGAAGCCACAACGGCGGATCTTACTTCCTTAAGCAGTGCAGCGGAAC
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCTT-AGCAGTGCAGCGGAAC
** * * * * * * **** *
52925460 AGATTGAAGATACGACGGCGGATC-TAGTTTCCCT-GATATTGAAATTAAAA
1 AGATTGAAGCCACAACGGCGGATCTTA-CTTCCTTAG-CAGTGCAGCGGAAC
*
52925510 AGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCGGTGCAGCGGAAC
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGCGGAAC
* * * * * * *** *
52925560 AGATTGAAGCTACGACGGCGGAT-TTAGTTTCCCT-GATATTGCA-ATTAAA
1 AGATTGAAGCCACAACGGCGGATCTTA-CTTCCTTAG-CAGTGCAGCGGAAC
*
52925609 AGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCGGTGCAGCGGAAC
1 AGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGCGGAAC
* * *
52925659 AGGTTGAAGCTACGACGGCG
1 AGATTGAAGCCACAACGGCG
52925679 AATATGGTTT
Statistics
Matches: 221, Mismatches: 87, Indels: 24
0.67 0.26 0.07
Matches are distributed among these distances:
49 38 0.17
50 146 0.66
51 36 0.16
52 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (50 bp):
AGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGCGGAAC
Found at i:52925760 original size:199 final size:201
Alignment explanation
Indices: 52925304--52925804 Score: 747
Period size: 199 Copynumber: 2.5 Consensus size: 201
52925294 GGTTGAAAAG
* * *
52925304 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTACAGCGGAACAGGTTGAAGC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCGGTGCAGCGGAACAGATTGAAGC
* * *
52925369 TATGATGGCGAATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCT
66 TACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCT
* *
52925434 TACTTCCTTAAGCAGTGCAGCGGAACAGATTGAAGATACGACGGCGGATCTAGTTTCCCTGATAT
131 TACTTCCTTAAGCAGTGCAGCGGAACAGATTGAAGATACGACGGCGAATATAGTTTCCCTGATAT
*
52925499 TGAAAT
196 TGAAAC
52925505 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCGGTGCAGCGGAACAGATTGAAGC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCGGTGCAGCGGAACAGATTGAAGC
* *
52925570 TACGACGGCGGATTTAGTTTCCCTGATATTGCAATT-AAAAGATTGAAGCCACAACGGCGGATCT
66 TACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCT
* * * *
52925634 TACTTCCTT-AGCGGTGCAGCGGAACAGGTTGAAGCTACGACGGCGAATATGGTTTCCCTGATAT
131 TACTTCCTTAAGCAGTGCAGCGGAACAGATTGAAGATACGACGGCGAATATAGTTTCCCTGATAT
**
52925698 TTCAAC
196 TGAAAC
* * * * *
52925704 TAAAAATATTGAAGCCACAACGACGGATCTTACTTCCCT-GACGGTGCGGTGGAACAGATTGAAG
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAG-CGGTGCAGCGGAACAGATTGAAG
* * *
52925768 CTACGACGGTGGATCTGGTTTCCCCGACATTGCAATT
65 CTACGACGGCGGATCTGGTTTCCCTGATATTGCAATT
52925805 GAACAGATCA
Statistics
Matches: 272, Mismatches: 27, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
198 1 0.00
199 141 0.52
200 37 0.14
201 93 0.34
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (201 bp):
TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCGGTGCAGCGGAACAGATTGAAGC
TACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCT
TACTTCCTTAAGCAGTGCAGCGGAACAGATTGAAGATACGACGGCGAATATAGTTTCCCTGATAT
TGAAAC
Found at i:52925859 original size:45 final size:45
Alignment explanation
Indices: 52925808--52925947 Score: 149
Period size: 45 Copynumber: 3.1 Consensus size: 45
52925798 TGCAATTGAA
52925808 CAGATCAAATATATCAGATCTTGCCTTCCCATACTGGTGGCGAAG
1 CAGATCAAATATATCAGATCTTGCCTTCCCATACTGGTGGCGAAG
* * * * *** * *
52925853 CCGATCAAAGAAAGT-AGATCTTGTCTTCATGTACTGG-CGTGAAG
1 CAGATCAAATATA-TCAGATCTTGCCTTCCCATACTGGTGGCGAAG
* *
52925897 CAGATCAAATGTAACAGATCTTGCCTTCCCATACTGGTGGCGAAG
1 CAGATCAAATATATCAGATCTTGCCTTCCCATACTGGTGGCGAAG
*
52925942 TAGATC
1 CAGATC
52925948 GAGGAAAACA
Statistics
Matches: 71, Mismatches: 21, Indels: 6
0.72 0.21 0.06
Matches are distributed among these distances:
44 32 0.45
45 38 0.54
46 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (45 bp):
CAGATCAAATATATCAGATCTTGCCTTCCCATACTGGTGGCGAAG
Found at i:52925932 original size:44 final size:45
Alignment explanation
Indices: 52925804--52925934 Score: 133
Period size: 44 Copynumber: 3.0 Consensus size: 45
52925794 ACATTGCAAT
* * *
52925804 TGAA-CAGATCAAATATATCAGATCTTGCCTTCCCATACTGGTGG
1 TGAAGCAGATCAAATGTAACAGATCTTGCCTTCCCATACTGGTCG
* * * * * ***
52925848 CGAAGCCGATCAAA-GAAAGTAGATCTTGTCTTCATGTACTGG-CG
1 TGAAGCAGATCAAATGTAA-CAGATCTTGCCTTCCCATACTGGTCG
52925892 TGAAGCAGATCAAATGTAACAGATCTTGCCTTCCCATACTGGT
1 TGAAGCAGATCAAATGTAACAGATCTTGCCTTCCCATACTGGT
52925935 GGCGAAGTAG
Statistics
Matches: 64, Mismatches: 19, Indels: 7
0.71 0.21 0.08
Matches are distributed among these distances:
44 35 0.55
45 29 0.45
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (45 bp):
TGAAGCAGATCAAATGTAACAGATCTTGCCTTCCCATACTGGTCG
Found at i:52925962 original size:45 final size:45
Alignment explanation
Indices: 52925808--52925963 Score: 145
Period size: 45 Copynumber: 3.5 Consensus size: 45
52925798 TGCAATTGAA
* * *
52925808 CAGATCAAATATATCAGATCTTGCCTTCCCATACTGGTGGCGAAG
1 CAGATCAAAGAAAACAGATCTTGCCTTCCCATACTGGTGGCGAAG
* ** * *** * *
52925853 CCGATCAAAGAAAGTAGATCTTGTCTTCATGTACTGG-CGTGAAG
1 CAGATCAAAGAAAACAGATCTTGCCTTCCCATACTGGTGGCGAAG
*
52925897 CAGATCAAATG-TAACAGATCTTGCCTTCCCATACTGGTGGCGAAG
1 CAGATCAAA-GAAAACAGATCTTGCCTTCCCATACTGGTGGCGAAG
* * *
52925942 TAGATCGAGGAAAACAGATCTT
1 CAGATCAAAGAAAACAGATCTT
52925964 ATCTCCCTAA
Statistics
Matches: 83, Mismatches: 25, Indels: 6
0.73 0.22 0.05
Matches are distributed among these distances:
44 33 0.40
45 50 0.60
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (45 bp):
CAGATCAAAGAAAACAGATCTTGCCTTCCCATACTGGTGGCGAAG
Found at i:52925988 original size:89 final size:89
Alignment explanation
Indices: 52925804--52925994 Score: 215
Period size: 89 Copynumber: 2.2 Consensus size: 89
52925794 ACATTGCAAT
* * **
52925804 TGAA-CAGATCAAATATATCAGATCTTGCCTTCCCATACTGGTGGCGAAGCCGATCAAAGAAAGT
1 TGAAGCAGATCAAATATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAAC
* * * * *
52925868 AGATCTTGTCTTCATGTACTGGCG
66 AGATCTTATCTCCATGAACAGGAG
* * * *
52925892 TGAAGCAGATCAAATGTAACAGATCTTGCCTTCCCATACTGGTGGCGAAGTAGATCGAGGAAAAC
1 TGAAGCAGATCAAATATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAAC
* *
52925957 AGATCTTATCTCCCT-AAGCAGTAG
66 AGATCTTATCTCCATGAA-CAGGAG
*
52925981 TGGAGCAGATCAAA
1 TGAAGCAGATCAAA
52925995 GATGGCAGAT
Statistics
Matches: 85, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
88 5 0.06
89 80 0.94
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.25
Consensus pattern (89 bp):
TGAAGCAGATCAAATATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAAC
AGATCTTATCTCCATGAACAGGAG
Found at i:52926123 original size:44 final size:44
Alignment explanation
Indices: 52926073--52926173 Score: 175
Period size: 44 Copynumber: 2.3 Consensus size: 44
52926063 CTGGTGGTGG
*
52926073 AGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTAGCGTGA
1 AGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTACTAGCGTGA
* *
52926117 AGTAGATCAAAGAAAGCAGATCTTGTCTTCGTGTACTGGCGTGA
1 AGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTACTAGCGTGA
52926161 AGTAGATCAAAGA
1 AGTAGATCAAAGA
52926174 TATAAGTCTT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 54 1.00
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.26
Consensus pattern (44 bp):
AGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTACTAGCGTGA
Found at i:52926700 original size:44 final size:44
Alignment explanation
Indices: 52926637--52926724 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
52926627 AAGGCCCAAT
* *
52926637 CGGCCCAAAACAGTTCCTAGCCCAACATTACAAAATTAAACAGA
1 CGGCCCAAAACAGTCCCTAGCCCAACACTACAAAATTAAACAGA
* *
52926681 CGGCCCAAAACAGTCCCTAGCCCAACACTACAAAGTTAAGCAGA
1 CGGCCCAAAACAGTCCCTAGCCCAACACTACAAAATTAAACAGA
52926725 AAAACCCTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.41, C:0.32, G:0.14, T:0.14
Consensus pattern (44 bp):
CGGCCCAAAACAGTCCCTAGCCCAACACTACAAAATTAAACAGA
Found at i:52930974 original size:20 final size:20
Alignment explanation
Indices: 52930949--52930988 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
52930939 TTCACCTCAT
52930949 GCATCGCATCATATGCATTA
1 GCATCGCATCATATGCATTA
52930969 GCATCGCATCATATGCATTA
1 GCATCGCATCATATGCATTA
52930989 AAGACCTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (20 bp):
GCATCGCATCATATGCATTA
Found at i:52942916 original size:17 final size:17
Alignment explanation
Indices: 52942894--52942928 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
52942884 GAAATAAAAG
52942894 TTCAAATA-TCAACTAAA
1 TTCAAATACT-AACTAAA
52942911 TTCAAATACTAACTAAA
1 TTCAAATACTAACTAAA
52942928 T
1 T
52942929 ACTTTTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.94
18 1 0.06
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.31
Consensus pattern (17 bp):
TTCAAATACTAACTAAA
Found at i:52949186 original size:11 final size:11
Alignment explanation
Indices: 52949170--52949210 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
52949160 CATGACATAG
52949170 CATTCAAATGT
1 CATTCAAATGT
*
52949181 CATTCATACATGC
1 CATTCA-A-ATGT
52949194 CATTCAAATGT
1 CATTCAAATGT
52949205 CATTCA
1 CATTCA
52949211 TACATGCCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 15 0.58
12 2 0.08
13 9 0.35
ACGTcount: A:0.34, C:0.24, G:0.07, T:0.34
Consensus pattern (11 bp):
CATTCAAATGT
Found at i:52949197 original size:24 final size:24
Alignment explanation
Indices: 52949170--52949218 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
52949160 CATGACATAG
52949170 CATTCAAATGTCATTCATACATGC
1 CATTCAAATGTCATTCATACATGC
52949194 CATTCAAATGTCATTCATACATGC
1 CATTCAAATGTCATTCATACATGC
52949218 C
1 C
52949219 TAGTTAGGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.27, G:0.08, T:0.33
Consensus pattern (24 bp):
CATTCAAATGTCATTCATACATGC
Found at i:52949199 original size:13 final size:13
Alignment explanation
Indices: 52949181--52949218 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
52949171 ATTCAAATGT
52949181 CATTCATACATGC
1 CATTCATACATGC
*
52949194 CATTCA-A-ATGT
1 CATTCATACATGC
52949205 CATTCATACATGC
1 CATTCATACATGC
52949218 C
1 C
52949219 TAGTTAGGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
11 9 0.43
12 2 0.10
13 10 0.48
ACGTcount: A:0.32, C:0.29, G:0.08, T:0.32
Consensus pattern (13 bp):
CATTCATACATGC
Found at i:52949487 original size:50 final size:50
Alignment explanation
Indices: 52949433--52949815 Score: 218
Period size: 50 Copynumber: 7.7 Consensus size: 50
52949423 GCGGAACAGG
* * * * *
52949433 TTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGTAATTAAAAAGA
1 TTGAAGCCACAACGGCGGATCTTGTTTCCCTGATATTGCAACTAAAAAGA
* ** * * * * *
52949483 TTGAAGCCACAACGGCAGATCTTACTTCCTTAAGTAGTGCAGCGT-AACAGA
1 TTGAAGCCACAACGGCGGATCTTGTTTCCCTGA-TATTGCAAC-TAAAAAGA
* * * * * *
52949534 TTGAAGCTACGACGGCGGATCTAGTTTCCCTAATATTGCAATTAAAAATA
1 TTGAAGCCACAACGGCGGATCTTGTTTCCCTGATATTGCAACTAAAAAGA
* ** * *** * ** *
52949584 TTGAAGCCACAACGGTGGATCTTACTT-CCTTAGCGGTGCAGCGGAACAGA
1 TTGAAGCCACAACGGCGGATCTTGTTTCCCTGA-TATTGCAACTAAAAAGA
* * ** *
52949634 TTGAAGCTACGACGGTAGAT-TTAGTTTCCCTGATATTGCAA-TTAAAAGA
1 TTGAAGCCACAACGGCGGATCTT-GTTTCCCTGATATTGCAACTAAAAAGA
** * *** * ** * *
52949683 TTGAAGCCACAACGGCGGATCTTACTT-CCTTAGCGGTGCAGCGGAACAGG
1 TTGAAGCCACAACGGCGGATCTTGTTTCCCTGA-TATTGCAACTAAAAAGA
* * *
52949733 TTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAACTAAAAAGA
1 TTGAAGCCACAACGGCGGATCTTGTTTCCCTGATATTGCAACTAAAAAGA
* **
52949783 TTGAAGCCACAACGGCAGATCTTACTTCCCTGA
1 TTGAAGCCACAACGGCGGATCTTGTTTCCCTGA
52949816 CGGTGCGGTG
Statistics
Matches: 234, Mismatches: 89, Indels: 20
0.68 0.26 0.06
Matches are distributed among these distances:
48 4 0.02
49 34 0.15
50 151 0.65
51 44 0.19
52 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (50 bp):
TTGAAGCCACAACGGCGGATCTTGTTTCCCTGATATTGCAACTAAAAAGA
Found at i:52949672 original size:100 final size:100
Alignment explanation
Indices: 52949375--52949875 Score: 727
Period size: 100 Copynumber: 5.0 Consensus size: 100
52949365 GGTTGAAAAG
* ** * *
52949375 TAAAAAGATTGAAGCCACAACGACGGATCTTACTTCCTTAGCAATACAGCGGAACAGGTTGAAGC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCGGTGCAGCGGAACAGATTGAAGC
*
52949440 TACGACGGCGGATCTGGTTTCCCTGATATTGTAAT
66 TACGACGGCGGATCTGGTTTCCCTGATATTGCAAT
* ** *
52949475 TAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCTTAAGTAGTGCAGCGTAACAGATTGAAG
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTT-AGCGGTGCAGCGGAACAGATTGAAG
* *
52949540 CTACGACGGCGGATCTAGTTTCCCTAATATTGCAAT
65 CTACGACGGCGGATCTGGTTTCCCTGATATTGCAAT
* *
52949576 TAAAAATATTGAAGCCACAACGGTGGATCTTACTTCCTTAGCGGTGCAGCGGAACAGATTGAAGC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCGGTGCAGCGGAACAGATTGAAGC
** * *
52949641 TACGACGGTAGATTTAGTTTCCCTGATATTGCAAT
66 TACGACGGCGGATCTGGTTTCCCTGATATTGCAAT
*
52949676 T-AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCGGTGCAGCGGAACAGGTTGAAGC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCGGTGCAGCGGAACAGATTGAAGC
*
52949740 TACGACGGCGGATCTGGTTTCCCTGATATTGCAAC
66 TACGACGGCGGATCTGGTTTCCCTGATATTGCAAT
* * * *
52949775 TAAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCT-GACGGTGCGGTGGAACAGATTGAAG
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAG-CGGTGCAGCGGAACAGATTGAAG
* * *
52949839 CTACGACGGCAGATCTGGTTTCCCCGACATTGCAAT
65 CTACGACGGCGGATCTGGTTTCCCTGATATTGCAAT
52949875 T
1 T
52949876 GAACATATCA
Statistics
Matches: 361, Mismatches: 37, Indels: 6
0.89 0.09 0.01
Matches are distributed among these distances:
99 92 0.25
100 180 0.50
101 89 0.25
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.25
Consensus pattern (100 bp):
TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCGGTGCAGCGGAACAGATTGAAGC
TACGACGGCGGATCTGGTTTCCCTGATATTGCAAT
Found at i:52949880 original size:50 final size:50
Alignment explanation
Indices: 52949426--52949880 Score: 207
Period size: 50 Copynumber: 9.1 Consensus size: 50
52949416 CAATACAGCG
* * * *
52949426 GAACAGGTTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGTAATT
1 GAACAGATTGAAGCTACGACGGCAGATCTGGTTTCCCTGACATTGCAATT
* * * * *** * * * * **
52949476 AAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCTTAAGTAGTGC-AGC
1 GAACAGATTGAAGCTACGACGGCAGATCTGGTTTCCCTGA-CATTGCAATT
* * * *
52949526 GTAACAGATTGAAGCTACGACGGCGGATCTAGTTTCCCTAATATTGCAATT
1 G-AACAGATTGAAGCTACGACGGCAGATCTGGTTTCCCTGACATTGCAATT
* * * * * ** *** * ** ***
52949577 AAAAATATTGAAGCCACAACGGTGGATCTTACTT-CCTTAGCGGTGCAGCG
1 GAACAGATTGAAGCTACGACGGCAGATCTGGTTTCCCTGA-CATTGCAATT
* * * *
52949627 GAACAGATTGAAGCTACGACGGTAGATTTAGTTTCCCTGATATTGCAATT
1 GAACAGATTGAAGCTACGACGGCAGATCTGGTTTCCCTGACATTGCAATT
* * * * *** * ** ***
52949677 -AAAAGATTGAAGCCACAACGGCGGATCTTACTT-CCTTAGCGGTGCAGCG
1 GAACAGATTGAAGCTACGACGGCAGATCTGGTTTCCCTGA-CATTGCAATT
* * * *
52949726 GAACAGGTTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAACT
1 GAACAGATTGAAGCTACGACGGCAGATCTGGTTTCCCTGACATTGCAATT
* * * * *** ** ** *
52949776 AAAAAGATTGAAGCCACAACGGCAGATCTTACTTCCCTGACGGTGCGGTG
1 GAACAGATTGAAGCTACGACGGCAGATCTGGTTTCCCTGACATTGCAATT
*
52949826 GAACAGATTGAAGCTACGACGGCAGATCTGGTTTCCCCGACATTGCAATT
1 GAACAGATTGAAGCTACGACGGCAGATCTGGTTTCCCTGACATTGCAATT
52949876 GAACA
1 GAACA
52949881 TATCAAATAT
Statistics
Matches: 279, Mismatches: 118, Indels: 16
0.68 0.29 0.04
Matches are distributed among these distances:
48 4 0.01
49 32 0.11
50 199 0.71
51 44 0.16
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.25
Consensus pattern (50 bp):
GAACAGATTGAAGCTACGACGGCAGATCTGGTTTCCCTGACATTGCAATT
Found at i:52950033 original size:45 final size:45
Alignment explanation
Indices: 52949893--52950034 Score: 144
Period size: 45 Copynumber: 3.2 Consensus size: 45
52949883 TCAAATATAT
* *
52949893 CAGATCTTGCCTTCCCATACTGGTGGCGAAGCCGATCAAAGAAAG
1 CAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAA
* * *** * * *
52949938 TAGATCTTGTCTTCATGTACTGG-CGTGAAGCAGATCAAATG-TAA
1 CAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAA-GAAAA
* * *
52949982 CAGATCTTGCCTTCCCATACTGGTGGCGAAGTAGATCGAGGAAAA
1 CAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAA
52950027 CAGATCTT
1 CAGATCTT
52950035 ATCTCCCTAA
Statistics
Matches: 73, Mismatches: 21, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
44 33 0.45
45 40 0.55
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (45 bp):
CAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAA
Found at i:52950059 original size:89 final size:89
Alignment explanation
Indices: 52949882--52950065 Score: 208
Period size: 89 Copynumber: 2.1 Consensus size: 89
52949872 AATTGAACAT
* * ** *
52949882 ATCAAATATATCAGATCTTGCCTTCCCATACTGGTGGCGAAGCCGATCAAAGAAAGTAGATCTTG
1 ATCAAATATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAACAGATCTTA
* * * *
52949947 TCTTCATGTACTGGCGTGAAGCAG
66 TCTCCATGAACAGGAGTGAAGCAG
* * * *
52949971 ATCAAATGTAACAGATCTTGCCTTCCCATACTGGTGGCGAAGTAGATCGAGGAAAACAGATCTTA
1 ATCAAATATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAACAGATCTTA
* * *
52950036 TCTCCCT-AAGCAGTAGTGGAGCAG
66 TCTCCATGAA-CAGGAGTGAAGCAG
52950060 ATCAAA
1 ATCAAA
52950066 GATGGCAAAT
Statistics
Matches: 78, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
88 1 0.01
89 77 0.99
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (89 bp):
ATCAAATATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAACAGATCTTA
TCTCCATGAACAGGAGTGAAGCAG
Found at i:52950209 original size:44 final size:44
Alignment explanation
Indices: 52950144--52950244 Score: 139
Period size: 44 Copynumber: 2.3 Consensus size: 44
52950134 CTGGTGGTGG
* *
52950144 AGTAGATCGAAGAAAGCAGATCTTGTCTTTATGTACTAACGTGA
1 AGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTACTAACGTGA
* * ** *
52950188 AGTAGATCAAAGAAAGTAGATCTTGTCTTCGTGTACTGGCGTGG
1 AGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTACTAACGTGA
52950232 AGTAGATCAAAGA
1 AGTAGATCAAAGA
52950245 TATAAGTCTT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.28
Consensus pattern (44 bp):
AGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTACTAACGTGA
Found at i:52950771 original size:44 final size:44
Alignment explanation
Indices: 52950708--52950795 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
52950698 AAGGCCCAAT
* *
52950708 CGGCCCAAAACAGTTCCTAGCCCAACATTACAAAATTAAACAGA
1 CGGCCCAAAACAGTCCCTAGCCCAACACTACAAAATTAAACAGA
* *
52950752 CGGCCCAAAACAGTCCCTAGCCCAACACTACAAAGTTAAGCAGA
1 CGGCCCAAAACAGTCCCTAGCCCAACACTACAAAATTAAACAGA
52950796 AAAACCCTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.41, C:0.32, G:0.14, T:0.14
Consensus pattern (44 bp):
CGGCCCAAAACAGTCCCTAGCCCAACACTACAAAATTAAACAGA
Found at i:52951151 original size:10 final size:9
Alignment explanation
Indices: 52951135--52951179 Score: 54
Period size: 10 Copynumber: 4.6 Consensus size: 9
52951125 GGTTCTTGCA
52951135 TTTTTATTT
1 TTTTTATTT
52951144 TATTTTATTT
1 T-TTTTATTT
52951154 TTTTATATATT
1 TTTT-TAT-TT
52951165 TTTTTATTT
1 TTTTTATTT
52951174 TCTTTT
1 T-TTTT
52951180 GCGTTTTTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
9 7 0.22
10 19 0.59
11 6 0.19
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTTATTT
Found at i:52951421 original size:101 final size:101
Alignment explanation
Indices: 52951246--52951447 Score: 395
Period size: 101 Copynumber: 2.0 Consensus size: 101
52951236 GACGCCGGAC
52951246 ATCTCCGTCGTGGTCGGAGCACCGGCGTGGGCCGAGGGATGGCGCGATGACGCTAGGGGCGAAAC
1 ATCTCCGTCGTGGTCGGAGCACCGGCGTGGGCCGAGGGATGGCGCGATGACGCTAGGGGCGAAAC
52951311 CCTAGCAGAGCACCAGAGGACCTTTGAGTGTTTTTT
66 CCTAGCAGAGCACCAGAGGACCTTTGAGTGTTTTTT
*
52951347 ATCTCCGTCGTGGTCGGAGCGCCGGCGTGGGCCGAGGGATGGCGCGATGACGCTAGGGGCGAAAC
1 ATCTCCGTCGTGGTCGGAGCACCGGCGTGGGCCGAGGGATGGCGCGATGACGCTAGGGGCGAAAC
52951412 CCTAGCAGAGCACCAGAGGACCTTTGAGTGTTTTTT
66 CCTAGCAGAGCACCAGAGGACCTTTGAGTGTTTTTT
52951448 TTTCTTTTAC
Statistics
Matches: 100, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
101 100 1.00
ACGTcount: A:0.18, C:0.25, G:0.37, T:0.20
Consensus pattern (101 bp):
ATCTCCGTCGTGGTCGGAGCACCGGCGTGGGCCGAGGGATGGCGCGATGACGCTAGGGGCGAAAC
CCTAGCAGAGCACCAGAGGACCTTTGAGTGTTTTTT
Found at i:52957904 original size:108 final size:108
Alignment explanation
Indices: 52957692--52957910 Score: 291
Period size: 108 Copynumber: 2.0 Consensus size: 108
52957682 GTATTCATGG
* * * * * * *
52957692 TTCTCTTACTCTTTATATCGATCCGTGAAGCTGTTTCGATGCTTTGATCCGATCTCCGATTCTCA
1 TTCTCTCACTCTTCATATCGATCAGTGAAGCTGCTTCGATGCTTTGAACCGATCTCCAATTATCA
* *
52957757 TTCGATCTGCTGCTCTCGAGCTCTTCACTCCGTCAATGGATCC
66 TTCGATATGCTGCTCTCGAGATCTTCACTCCGTCAATGGATCC
* *
52957800 TTCTCTCACTCTTCGTATCGATCAGTGAAGCTGCTTCGATGCTTTGAACCGATCTCTAATTATCA
1 TTCTCTCACTCTTCATATCGATCAGTGAAGCTGCTTCGATGCTTTGAACCGATCTCCAATTATCA
52957865 TT-GATATGCTGCTCTTC-AGATCTTCACTCCCGTTC-ATGGATCC
66 TTCGATATGCTGCTC-TCGAGATCTTCACT-CCG-TCAATGGATCC
52957908 TTC
1 TTC
52957911 AAGAGGTTTT
Statistics
Matches: 97, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
107 21 0.22
108 74 0.76
109 2 0.02
ACGTcount: A:0.17, C:0.29, G:0.16, T:0.38
Consensus pattern (108 bp):
TTCTCTCACTCTTCATATCGATCAGTGAAGCTGCTTCGATGCTTTGAACCGATCTCCAATTATCA
TTCGATATGCTGCTCTCGAGATCTTCACTCCGTCAATGGATCC
Done.