Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 303 of 373
Found at i:102651236 original size:45 final size:44
Alignment explanation
Indices: 102651142--102651299 Score: 200
Period size: 45 Copynumber: 3.6 Consensus size: 44
102651132 TACAAACCTC
*
102651142 ATCTCACTGAAGTTGCAGTAGAGCAG---GA-AGTTACAAGTCTT
1 ATCTCCCTGAAGTTGCAGTAGAGCAGACTGAGA-TTACAAGTCTT
*
102651183 ATCTCCCTGAAGTTGCAGTAGAGCAGACTGAGGATTACAAGTGTT
1 ATCTCCCTGAAGTTGCAGTAGAGCAGACTGA-GATTACAAGTCTT
* *
102651228 ATCTCCCTGAAGTTGCAGTGGAGCAGACTGA-ATATAGCAAATCTT
1 ATCTCCCTGAAGTTGCAGTAGAGCAGACTGAGAT-TA-CAAGTCTT
*
102651273 ATCTCCCTGAAGTTGCAGTGGAGCAGA
1 ATCTCCCTGAAGTTGCAGTAGAGCAGA
102651300 TTAAAGCTAC
Statistics
Matches: 105, Mismatches: 5, Indels: 10
0.88 0.04 0.08
Matches are distributed among these distances:
41 25 0.24
43 2 0.02
44 4 0.04
45 73 0.70
46 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (44 bp):
ATCTCCCTGAAGTTGCAGTAGAGCAGACTGAGATTACAAGTCTT
Found at i:102651353 original size:96 final size:95
Alignment explanation
Indices: 102651226--102651408 Score: 285
Period size: 96 Copynumber: 1.9 Consensus size: 95
102651216 ATTACAAGTG
** * *
102651226 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATATAGCAAATCTTATCTCCCTGAAGTTGCAG
1 TTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAAGAAAGCAAATCTTA-CTCCCTGAAGTTGCAG
*
102651291 TGGAGCAGATTAAAGCTACAAATCACAAACC
65 TGGAACAGATTAAAGCTACAAATCACAAACC
* * *
102651322 TTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAAGAAAGCGAATCTTAGTCCCTGACGTTGCAGT
1 TTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAAGAAAGCAAATCTTACTCCCTGAAGTTGCAGT
102651387 GGAACAGATTAAAGCTACAAAT
66 GGAACAGATTAAAGCTACAAAT
102651409 TATAGAGAAT
Statistics
Matches: 79, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
95 36 0.46
96 43 0.54
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.24
Consensus pattern (95 bp):
TTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAAGAAAGCAAATCTTACTCCCTGAAGTTGCAGT
GGAACAGATTAAAGCTACAAATCACAAACC
Found at i:102653183 original size:15 final size:15
Alignment explanation
Indices: 102653163--102653191 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
102653153 TCAAATACTA
102653163 TTATTTATCTATTTT
1 TTATTTATCTATTTT
102653178 TTATTTATCTATTT
1 TTATTTATCTATTT
102653192 ATATTTCTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (15 bp):
TTATTTATCTATTTT
Found at i:102653267 original size:3 final size:3
Alignment explanation
Indices: 102653261--102653414 Score: 98
Period size: 3 Copynumber: 51.3 Consensus size: 3
102653251 TATCATTTTT
* * * * * *
102653261 TTA TTA TTA TCA TTA TTA TCA CTA TTA GTA CTA TTA TTA TTT TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
102653309 TTA TTA TTA TTA CTT- TT- TTC CTA CTA TTT TTA TT- TCGTA CTA TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA T--TA TTA TTA
* * * * * * *
102653354 TTG TTA TTA TTA CTA CTA CTA CTA CTA TTA TTA TTA TTA TTA TGA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
102653402 TTA TTA TTA TTA T
1 TTA TTA TTA TTA T
102653415 CTTTTTAACT
Statistics
Matches: 122, Mismatches: 24, Indels: 10
0.78 0.15 0.06
Matches are distributed among these distances:
2 5 0.04
3 114 0.93
4 3 0.02
ACGTcount: A:0.29, C:0.10, G:0.03, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:102653454 original size:22 final size:22
Alignment explanation
Indices: 102653429--102653497 Score: 77
Period size: 22 Copynumber: 3.1 Consensus size: 22
102653419 TTAACTTGTG
*
102653429 TTATTTAATCTTTTATTATTTT
1 TTATTTAATCTTTTATTGTTTT
*
102653451 TTA-TTAAACTTTTATTTGTTTAT
1 TTATTTAATCTTTTA-TTGTTT-T
* *
102653474 TTATTTACTCTTTTAGTGTTTT
1 TTATTTAATCTTTTATTGTTTT
102653496 TT
1 TT
102653498 TTACCAGCTT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
21 10 0.26
22 11 0.28
23 9 0.23
24 9 0.23
ACGTcount: A:0.20, C:0.06, G:0.04, T:0.70
Consensus pattern (22 bp):
TTATTTAATCTTTTATTGTTTT
Found at i:102653555 original size:15 final size:16
Alignment explanation
Indices: 102653515--102653555 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
102653505 CTTATGGGTT
*
102653515 TTATTTATTTTATACA
1 TTATTTATTTTAAACA
*
102653531 TTATTTATTTTAAACC
1 TTATTTATTTTAAACA
102653547 TTA-TTATTT
1 TTATTTATTT
102653556 GTTGTCTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.63
Consensus pattern (16 bp):
TTATTTATTTTAAACA
Found at i:102667919 original size:17 final size:17
Alignment explanation
Indices: 102667897--102667930 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
102667887 ATAGCATAAA
102667897 TGACAGAAGGATTTAGC
1 TGACAGAAGGATTTAGC
102667914 TGACAGAAGGATTTAGC
1 TGACAGAAGGATTTAGC
102667931 GGAGCTGATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.29, T:0.24
Consensus pattern (17 bp):
TGACAGAAGGATTTAGC
Found at i:102669539 original size:54 final size:54
Alignment explanation
Indices: 102669457--102669564 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
102669447 CTTAGCTCCT
*
102669457 TAGGGGAAGGACTGGAGTGCTGGTGGGTTGGTGTCTCAAGGACGGTTATAAAGC
1 TAGGGAAAGGACTGGAGTGCTGGTGGGTTGGTGTCTCAAGGACGGTTATAAAGC
102669511 TAGGGAAAGGACTGGAGTGCTGGTGGGTTGGTGTCTCAAGGACGGTTATAAAGC
1 TAGGGAAAGGACTGGAGTGCTGGTGGGTTGGTGTCTCAAGGACGGTTATAAAGC
102669565 ATAAACATGG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.23, C:0.11, G:0.42, T:0.24
Consensus pattern (54 bp):
TAGGGAAAGGACTGGAGTGCTGGTGGGTTGGTGTCTCAAGGACGGTTATAAAGC
Found at i:102675350 original size:8 final size:8
Alignment explanation
Indices: 102675332--102675380 Score: 75
Period size: 8 Copynumber: 6.2 Consensus size: 8
102675322 TTGCTTTTTG
102675332 TTTTTAGTT
1 TTTTTA-TT
102675341 TTTTTA-T
1 TTTTTATT
102675348 TTTTTATT
1 TTTTTATT
102675356 TTTTTATT
1 TTTTTATT
102675364 TTTTTA-T
1 TTTTTATT
102675371 TTTTTATT
1 TTTTTATT
102675379 TT
1 TT
102675381 GCTTTGTGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
7 14 0.37
8 18 0.47
9 6 0.16
ACGTcount: A:0.12, C:0.00, G:0.02, T:0.86
Consensus pattern (8 bp):
TTTTTATT
Found at i:102675350 original size:15 final size:14
Alignment explanation
Indices: 102675326--102675380 Score: 65
Period size: 15 Copynumber: 3.7 Consensus size: 14
102675316 TAGCTTTTGC
*
102675326 TTTTTGTTTTTAGTT
1 TTTTTATTTTTA-TT
102675341 TTTTTATTTTTTATT
1 TTTTTA-TTTTTATT
*
102675356 TTTTTATTTTTTTAT
1 TTTTTATTTTTAT-T
102675371 TTTTTATTTT
1 TTTTTATTTT
102675381 GCTTTGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
14 6 0.17
15 24 0.67
16 6 0.17
ACGTcount: A:0.11, C:0.00, G:0.04, T:0.85
Consensus pattern (14 bp):
TTTTTATTTTTATT
Found at i:102675365 original size:7 final size:7
Alignment explanation
Indices: 102675340--102675380 Score: 64
Period size: 7 Copynumber: 5.6 Consensus size: 7
102675330 TGTTTTTAGT
102675340 TTTTTTA
1 TTTTTTA
102675347 TTTTTTA
1 TTTTTTA
102675354 TTTTTTTA
1 -TTTTTTA
102675362 TTTTTTTA
1 -TTTTTTA
102675370 TTTTTTA
1 TTTTTTA
102675377 TTTT
1 TTTT
102675381 GCTTTGTGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 18 0.55
8 15 0.45
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:102677001 original size:19 final size:18
Alignment explanation
Indices: 102676977--102677027 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
102676967 AAAAAATTAT
*
102676977 ACATTTTTATTTTTTTAA
1 ACATTTTTATTTTTTCAA
*
102676995 ACAATTTTTATACTTTTCAA
1 AC-ATTTTTAT-TTTTTCAA
*
102677015 ACCTTTTTATTTT
1 ACATTTTTATTTT
102677028 AAAAAAAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 4 0.15
19 15 0.56
20 8 0.30
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.61
Consensus pattern (18 bp):
ACATTTTTATTTTTTCAA
Found at i:102681030 original size:20 final size:21
Alignment explanation
Indices: 102681005--102681048 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
102680995 TCATTGTTTA
102681005 ATTAAA-TT-TATTTTATATCT
1 ATTAAATTTATATTTTATAT-T
102681025 ATTAAATTTATATTTTATATT
1 ATTAAATTTATATTTTATATT
102681046 ATT
1 ATT
102681049 TTTATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.27
21 6 0.27
22 10 0.45
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
ATTAAATTTATATTTTATATT
Found at i:102681331 original size:19 final size:19
Alignment explanation
Indices: 102681304--102681344 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
102681294 TGTCCAAGTG
*
102681304 CATATTTAGTACTACACCA
1 CATAATTAGTACTACACCA
*
102681323 CATAATTAGTACTACATCA
1 CATAATTAGTACTACACCA
102681342 CAT
1 CAT
102681345 TAATACATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.39, C:0.24, G:0.05, T:0.32
Consensus pattern (19 bp):
CATAATTAGTACTACACCA
Found at i:102684775 original size:42 final size:42
Alignment explanation
Indices: 102684706--102684844 Score: 125
Period size: 42 Copynumber: 3.3 Consensus size: 42
102684696 TAGCTCTCAC
*** *
102684706 GAGCTTCTATTTAACTAATATGAGTTTCTGTTCAACTCTTTT
1 GAGCTTCTATTTAACCCTTATGAGTTTCTGTTCAACTCTTAT
* * * *
102684748 GAGGTTCTATTTAACCCTTATGGGTTTCTGTTTAGCTCTTAT
1 GAGCTTCTATTTAACCCTTATGAGTTTCTGTTCAACTCTTAT
** * * * * * *
102684790 GAGCTTCCGTTCAACCCTTATGTGTTTCTATTTAGCTCTCAT
1 GAGCTTCTATTTAACCCTTATGAGTTTCTGTTCAACTCTTAT
*
102684832 GAGCTTCTGTTTA
1 GAGCTTCTATTTA
102684845 GCCTTCGGGT
Statistics
Matches: 80, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 80 1.00
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.46
Consensus pattern (42 bp):
GAGCTTCTATTTAACCCTTATGAGTTTCTGTTCAACTCTTAT
Found at i:102684823 original size:63 final size:63
Alignment explanation
Indices: 102684701--102684846 Score: 148
Period size: 63 Copynumber: 2.3 Consensus size: 63
102684691 CCGTTTAGCT
* * * ** * * * *
102684701 CTCACGAGCTTCTATTTAACTAATATGAGTTTCTGTTCAACTCTTTTGAGGTTCTATTTAACC
1 CTCATGAGCTTCTGTTTAGCTCTTATGAGCTTCCGTTCAACCCTTATGAGGTTCTATTTAACC
* * * * * * *
102684764 CTTATGGGTTTCTGTTTAGCTCTTATGAGCTTCCGTTCAACCCTTATGTGTTTCTATTTAGCT
1 CTCATGAGCTTCTGTTTAGCTCTTATGAGCTTCCGTTCAACCCTTATGAGGTTCTATTTAACC
102684827 CTCATGAGCTTCTGTTTAGC
1 CTCATGAGCTTCTGTTTAGC
102684847 CTTCGGGTTT
Statistics
Matches: 64, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.18, C:0.21, G:0.16, T:0.45
Consensus pattern (63 bp):
CTCATGAGCTTCTGTTTAGCTCTTATGAGCTTCCGTTCAACCCTTATGAGGTTCTATTTAACC
Found at i:102684846 original size:21 final size:21
Alignment explanation
Indices: 102684706--102684844 Score: 98
Period size: 21 Copynumber: 6.6 Consensus size: 21
102684696 TAGCTCTCAC
* **
102684706 GAGCTTCTATTTAACTAATAT
1 GAGCTTCTGTTTAACTCTTAT
* * *
102684727 GAGTTTCTGTTCAACTCTTTT
1 GAGCTTCTGTTTAACTCTTAT
* * *
102684748 GAGGTTCTATTTAACCCTTAT
1 GAGCTTCTGTTTAACTCTTAT
* * *
102684769 GGGTTTCTGTTTAGCTCTTAT
1 GAGCTTCTGTTTAACTCTTAT
* * *
102684790 GAGCTTCCGTTCAACCCTTAT
1 GAGCTTCTGTTTAACTCTTAT
* * * * *
102684811 GTGTTTCTATTTAGCTCTCAT
1 GAGCTTCTGTTTAACTCTTAT
102684832 GAGCTTCTGTTTA
1 GAGCTTCTGTTTA
102684845 GCCTTCGGGT
Statistics
Matches: 85, Mismatches: 33, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
21 85 1.00
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.46
Consensus pattern (21 bp):
GAGCTTCTGTTTAACTCTTAT
Found at i:102689245 original size:14 final size:14
Alignment explanation
Indices: 102689226--102689269 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
102689216 AAAGTTAATA
102689226 AATATTATTTATTT
1 AATATTATTTATTT
*
102689240 AATATTA-GTA---
1 AATATTATTTATTT
102689250 AATATTATTTATTT
1 AATATTATTTATTT
102689264 AATATT
1 AATATT
102689270 TACGAGTCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 8
0.71 0.06 0.24
Matches are distributed among these distances:
10 7 0.29
11 2 0.08
13 2 0.08
14 13 0.54
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (14 bp):
AATATTATTTATTT
Found at i:102689251 original size:24 final size:24
Alignment explanation
Indices: 102689224--102689269 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
102689214 AGAAAGTTAA
102689224 TAAATATTATTTATTTAATATTAG
1 TAAATATTATTTATTTAATATTAG
102689248 TAAATATTATTTATTTAATATT
1 TAAATATTATTTATTTAATATT
102689270 TACGAGTCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (24 bp):
TAAATATTATTTATTTAATATTAG
Found at i:102701665 original size:26 final size:26
Alignment explanation
Indices: 102701635--102701742 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
102701625 TGAAATTCCC
102701635 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
102701661 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
102701687 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
102701713 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
102701739 ATCA
1 ATCA
102701743 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:102702600 original size:26 final size:26
Alignment explanation
Indices: 102702571--102702623 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
102702561 CAATTTAGTC
102702571 ATTAAATGTTAGTTTTGATAAGATGT
1 ATTAAATGTTAGTTTTGATAAGATGT
*
102702597 ATTAAATGTTAGTTTTGATAATATGT
1 ATTAAATGTTAGTTTTGATAAGATGT
102702623 A
1 A
102702624 AATCATACTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.47
Consensus pattern (26 bp):
ATTAAATGTTAGTTTTGATAAGATGT
Found at i:102703018 original size:16 final size:16
Alignment explanation
Indices: 102702997--102703034 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
102702987 ATGTAGGAGC
*
102702997 ACCTTTAGAAACAATT
1 ACCTTTAGAAACAACT
102703013 ACCTTTAGAAACAACT
1 ACCTTTAGAAACAACT
102703029 ACCTTT
1 ACCTTT
102703035 TGGGAACTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.39, C:0.24, G:0.05, T:0.32
Consensus pattern (16 bp):
ACCTTTAGAAACAACT
Found at i:102703957 original size:18 final size:17
Alignment explanation
Indices: 102703923--102703966 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
102703913 TTTATTTAGG
102703923 AATATTTTTGTTCCAAA
1 AATATTTTTGTTCCAAA
102703940 AATACTTTTTG-TCTCAAA
1 AATA-TTTTTGTTC-CAAA
*
102703958 AAGATTTTT
1 AATATTTTT
102703967 TAGAAGGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.34, C:0.11, G:0.07, T:0.48
Consensus pattern (17 bp):
AATATTTTTGTTCCAAA
Found at i:102718334 original size:5 final size:5
Alignment explanation
Indices: 102718324--102718364 Score: 64
Period size: 5 Copynumber: 8.2 Consensus size: 5
102718314 CTCGAAAATT
* *
102718324 TTCGA TTCGA TTCAA TTCAA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA T
102718365 CGAATGCTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (5 bp):
TTCGA
Found at i:102727569 original size:16 final size:16
Alignment explanation
Indices: 102727548--102727586 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
102727538 GTTTGGTTCA
102727548 CTGTAATAGAAGAGAG
1 CTGTAATAGAAGAGAG
* *
102727564 CTGTAATTGAATAGAG
1 CTGTAATAGAAGAGAG
*
102727580 CTATAAT
1 CTGTAAT
102727587 CAGTATTTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.28
Consensus pattern (16 bp):
CTGTAATAGAAGAGAG
Found at i:102727779 original size:58 final size:58
Alignment explanation
Indices: 102727717--102727842 Score: 173
Period size: 58 Copynumber: 2.2 Consensus size: 58
102727707 TTTTAATAAG
* *
102727717 ATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAACCATATT-TTAACATA
1 ATTATTATTAAAAATAATTTAAT-AAAATAATAAATAATTTAACAAAATTCTTAACATA
** * * *
102727775 ATTATTATTAAGTATAATTTAATAAAATAATATATAATTTAATAAAATTCTTAATATA
1 ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAACAAAATTCTTAACATA
102727833 ATTATTATTA
1 ATTATTATTA
102727843 TATGAATTAA
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
57 22 0.37
58 38 0.63
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (58 bp):
ATTATTATTAAAAATAATTTAATAAAATAATAAATAATTTAACAAAATTCTTAACATA
Found at i:102727867 original size:57 final size:58
Alignment explanation
Indices: 102727704--102727867 Score: 169
Period size: 58 Copynumber: 2.9 Consensus size: 58
102727694 TATTGTTATT
* ** *
102727704 AAATTTTAATA-AGATTATTATTAAAAATAATTTAATAAAAATAATAA-ATAATTTAACC
1 AAATTTTAACATA-ATTATTATTAAGTATAATTTAA-AAAAATAATAATATAATTTAACA
* * *
102727762 ATATTTTAACATAATTATTATTAAGTATAATTTAATAAAATAAT-ATATAATTTAATA
1 AAATTTTAACATAATTATTATTAAGTATAATTTAAAAAAATAATAATATAATTTAACA
* *
102727819 AAATTCTTAATATAATTATTATT-A-TATGAA-TTAAAAAAATCATAATATA
1 AAATT-TTAACATAATTATTATTAAGTAT-AATTTAAAAAAATAATAATATA
102727868 TAATACTATA
Statistics
Matches: 90, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
56 15 0.17
57 29 0.32
58 45 0.50
59 1 0.01
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (58 bp):
AAATTTTAACATAATTATTATTAAGTATAATTTAAAAAAATAATAATATAATTTAACA
Found at i:102731162 original size:50 final size:50
Alignment explanation
Indices: 102731087--102731263 Score: 257
Period size: 50 Copynumber: 3.5 Consensus size: 50
102731077 CCATGGCAAC
102731087 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATAA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATAA
* *
102731137 AAGTGATAAGT-AGTAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGA-TAGCTTCGGCTACACTTATCTGATCAAGGACAAATAA
* * *
102731187 AAGTGATAAGTGATAGCTTCGGCTACACCTATCTGATCAGGGACAAATGAC
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAAT-AA
* * *
102731238 AAGTGACAAGTGGTAGCTTCTGCTAC
1 AAGTGATAAGTGATAGCTTCGGCTAC
102731264 CTGATCAGTG
Statistics
Matches: 114, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
49 1 0.01
50 89 0.78
51 24 0.21
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATAA
Found at i:102731280 original size:31 final size:31
Alignment explanation
Indices: 102731239--102731418 Score: 270
Period size: 31 Copynumber: 5.8 Consensus size: 31
102731229 ACAAATGACA
*
102731239 AGTGACAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
*
102731270 AGTGAAAAGTGGTGGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
102731301 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
* * *
102731332 AGTGAAAAGTGATAGCTTCGGCTACTTGATC
1 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
* * *
102731363 AGTGAAAAATGGTAGCTCCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
* *
102731394 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCTGCTAC
102731419 AAGTGACAAG
Statistics
Matches: 134, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 134 1.00
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
Found at i:102733929 original size:23 final size:25
Alignment explanation
Indices: 102733884--102733938 Score: 78
Period size: 23 Copynumber: 2.2 Consensus size: 25
102733874 TATGAAACTT
102733884 TTTAATTTACCTTTTAAAAATTCGATC
1 TTTAATTTACCTTTT--AAATTCGATC
102733911 TTTAATTTACC-TTT-AATTCGATC
1 TTTAATTTACCTTTTAAATTCGATC
102733934 TTTAA
1 TTTAA
102733939 ATGTTGATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
23 14 0.50
26 3 0.11
27 11 0.39
ACGTcount: A:0.31, C:0.15, G:0.04, T:0.51
Consensus pattern (25 bp):
TTTAATTTACCTTTTAAATTCGATC
Found at i:102736752 original size:63 final size:63
Alignment explanation
Indices: 102736683--102736802 Score: 231
Period size: 63 Copynumber: 1.9 Consensus size: 63
102736673 TAAAACCTTA
102736683 AATTGTAAGTATTAAGGGTTAAAAAAGTTATTCTATCTATTTTATAATTGCCATATCTATTTT
1 AATTGTAAGTATTAAGGGTTAAAAAAGTTATTCTATCTATTTTATAATTGCCATATCTATTTT
*
102736746 AATTGTAAGTATTAAGGGTTAAAAAATTTATTCTATCTATTTTATAATTGCCATATC
1 AATTGTAAGTATTAAGGGTTAAAAAAGTTATTCTATCTATTTTATAATTGCCATATC
102736803 AACAAAATTA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 56 1.00
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (63 bp):
AATTGTAAGTATTAAGGGTTAAAAAAGTTATTCTATCTATTTTATAATTGCCATATCTATTTT
Found at i:102749909 original size:123 final size:123
Alignment explanation
Indices: 102749687--102749911 Score: 351
Period size: 123 Copynumber: 1.8 Consensus size: 123
102749677 TTAACTCTGC
* * ** *
102749687 GAGCTCTTATAATGTCAAATGGGAACATAGGTCTGCTAGCTGTTTTAGAAGTTGTGATTTTAAAC
1 GAGCTCTTATAATGTCAAATGAGAACATAGGTCTGCTAGCTATTTTAGAAGTTGCAATCTTAAAC
*
102749752 CGTCAAACCTTTATGACATCAGCTAGGAGCGTAGGTCTGCTAGCTGTGTCAGAGCTAT
66 CGTCAAACCTTTATGACATCAGCTAGGAGAGTAGGTCTGCTAGCTGTGTCAGAGCTAT
* * * *
102749810 GAGCTCTTATAATTTCAACTGAGAGCATAGGTCTGCTAGCTATTTTAGAGGTTGCAATCTTAAAC
1 GAGCTCTTATAATGTCAAATGAGAACATAGGTCTGCTAGCTATTTTAGAAGTTGCAATCTTAAAC
*
102749875 CGTCAAACCTTTGTGACATCAGCTAGGAGAGTAGGTC
66 CGTCAAACCTTTATGACATCAGCTAGGAGAGTAGGTC
102749912 CGTTAGTTAC
Statistics
Matches: 91, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
123 91 1.00
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.31
Consensus pattern (123 bp):
GAGCTCTTATAATGTCAAATGAGAACATAGGTCTGCTAGCTATTTTAGAAGTTGCAATCTTAAAC
CGTCAAACCTTTATGACATCAGCTAGGAGAGTAGGTCTGCTAGCTGTGTCAGAGCTAT
Found at i:102750104 original size:69 final size:68
Alignment explanation
Indices: 102749832--102750125 Score: 220
Period size: 69 Copynumber: 4.3 Consensus size: 68
102749822 TTTCAACTGA
* * * * *
102749832 GAGCATAGGTCTGCTAGCTATTTTAGAGGTTGCAATCTTAAACCGTCAAACCTTTGTGACATCAG
1 GAGCGTAGGTCTGCTAGCTACTTTAGAGGTTGCGATCTTAAACCGTCAAACCTTTATAACATCAG
102749897 CTAG
66 CT-G
* * * * * * * * *
102749901 GAGAGTAGGTCCGTTAGTTACTTTGGAGGTTGCGATCTTAAACCGTCAAACCTCTATGATATCAA
1 GAGCGTAGGTCTGCTAGCTACTTTAGAGGTTGCGATCTTAAACCGTCAAACCTTTATAACATCAG
*
102749966 CGGG
66 C-TG
* * * * * * * * **
102749970 GAGCGTAGGTCTGCTAGCT-GTGTCAGAGCTAT--GAGCTT-AACTTTGT-GAGCTTTTATAATG
1 GAGCGTAGGTCTGCTAGCTACT-TTAGAGGT-TGCGATCTTAAAC--CGTCAAACCTTTATAACA
*
102750030 CCAGCTG
62 TCAGCTG
* *
102750037 GAAGTGTAGGTCTGCTAGCTACTTTAGAGGTTGCGACCTTAAACCGTCAAACCTTTATAACATCA
1 G-AGCGTAGGTCTGCTAGCTACTTTAGAGGTTGCGATCTTAAACCGTCAAACCTTTATAACATCA
102750102 GCTG
65 GCTG
* *
102750106 CAGCGTAGGTCCGCTAGCTA
1 GAGCGTAGGTCTGCTAGCTA
102750126 TGCCGAAGCT
Statistics
Matches: 167, Mismatches: 47, Indels: 23
0.70 0.20 0.10
Matches are distributed among these distances:
67 6 0.04
68 59 0.35
69 98 0.59
70 4 0.02
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (68 bp):
GAGCGTAGGTCTGCTAGCTACTTTAGAGGTTGCGATCTTAAACCGTCAAACCTTTATAACATCAG
CTG
Found at i:102750165 original size:136 final size:137
Alignment explanation
Indices: 102749905--102750165 Score: 337
Period size: 137 Copynumber: 1.9 Consensus size: 137
102749895 AGCTAGGAGA
* * * * * *
102749905 GTAGGTCCGTTAGTTACTTTGGAGGTTGCGATCTTAAACCGTCAAACCTCTATGATATCAACGGG
1 GTAGGTCCGCTAGCTACTTTAGAGGTTGCGACCTTAAACCGTCAAACCTCTATAACATCAACGGG
* * * * * * * *
102749970 GAGCGTAGGTCTGCTAGCTGTGTCAGAGCTATGAGCTTAACTTTGTGAGCTTTTATAATGCCAGC
66 CAGCGTAGGTCCGCTAGCTATGCCAGAGCTACGAGCTTAACTCTGCGAGCTCTTATAATGCCAGC
102750035 TGGAAGT
131 TGGAAGT
* * * *
102750042 GTAGGTCTGCTAGCTACTTTAGAGGTTGCGACCTTAAACCGTCAAACCTTTATAACATCAGC-TG
1 GTAGGTCCGCTAGCTACTTTAGAGGTTGCGACCTTAAACCGTCAAACCTCTATAACATCAACGGG
102750106 CAGCGTAGGTCCGCTAGCTATGCC-GAAGCTACGAGCTTAACTCTGCGAGCTCTTATAATG
66 CAGCGTAGGTCCGCTAGCTATGCCAG-AGCTACGAGCTTAACTCTGCGAGCTCTTATAATG
102750166 TCAACTAAGA
Statistics
Matches: 105, Mismatches: 18, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
135 1 0.01
136 51 0.49
137 53 0.50
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (137 bp):
GTAGGTCCGCTAGCTACTTTAGAGGTTGCGACCTTAAACCGTCAAACCTCTATAACATCAACGGG
CAGCGTAGGTCCGCTAGCTATGCCAGAGCTACGAGCTTAACTCTGCGAGCTCTTATAATGCCAGC
TGGAAGT
Found at i:102750184 original size:136 final size:136
Alignment explanation
Indices: 102749902--102750176 Score: 322
Period size: 136 Copynumber: 2.0 Consensus size: 136
102749892 ATCAGCTAGG
* * * * * * *
102749902 AGAGTAGGTCCGTTAGTTACTTTGGAGGTTGCGATCTTAAACCGTCAAACCTCTATGATATCAAC
1 AGAGTAGGTCTGCTAGCTACTTTAGAGGTTGCGACCTTAAACCGTCAAACCTCTATAACATCAAC
* * * * * * * *
102749967 GGGGAGCGTAGGTCTGCTAGCTGTGTCAGAGCTATGAGCTTAACTTTGTGAGCTTTTATAATGCC
66 GGGCAGCGTAGGTCCGCTAGCTATGCCAGAGCTACGAGCTTAACTCTGCGAGCTCTTATAATGCC
*
102750032 AGCTGGA
131 AACT-GA
* * *
102750039 AGTGTAGGTCTGCTAGCTACTTTAGAGGTTGCGACCTTAAACCGTCAAACCTTTATAACATCAGC
1 AGAGTAGGTCTGCTAGCTACTTTAGAGGTTGCGACCTTAAACCGTCAAACCTCTATAACATCAAC
* *
102750104 -TGCAGCGTAGGTCCGCTAGCTATGCC-GAAGCTACGAGCTTAACTCTGCGAGCTCTTATAATGT
66 GGGCAGCGTAGGTCCGCTAGCTATGCCAG-AGCTACGAGCTTAACTCTGCGAGCTCTTATAATGC
102750167 CAACT-A
130 CAACTGA
102750173 AGAG
1 AGAG
102750177 CATAGGTCCA
Statistics
Matches: 115, Mismatches: 22, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
134 4 0.03
135 1 0.01
136 55 0.48
137 55 0.48
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (136 bp):
AGAGTAGGTCTGCTAGCTACTTTAGAGGTTGCGACCTTAAACCGTCAAACCTCTATAACATCAAC
GGGCAGCGTAGGTCCGCTAGCTATGCCAGAGCTACGAGCTTAACTCTGCGAGCTCTTATAATGCC
AACTGA
Found at i:102751189 original size:21 final size:22
Alignment explanation
Indices: 102751137--102751190 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
102751127 TGCAGGGCTC
**
102751137 ACACACCCGTGTGGTCCAAGGG
1 ACACACCCGTGTGACCCAAGGG
*
102751159 ACACGA-CCGTGTGACCCTA-GG
1 ACAC-ACCCGTGTGACCCAAGGG
102751180 ACACACCCGTG
1 ACACACCCGTG
102751191 CTAGAGGTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
20 1 0.04
21 11 0.41
22 14 0.52
23 1 0.04
ACGTcount: A:0.24, C:0.35, G:0.28, T:0.13
Consensus pattern (22 bp):
ACACACCCGTGTGACCCAAGGG
Found at i:102757265 original size:43 final size:43
Alignment explanation
Indices: 102757218--102757458 Score: 261
Period size: 43 Copynumber: 5.6 Consensus size: 43
102757208 AGAAAGTGCA
* ***
102757218 GCTAAA-AACGTGACCTTTAGTGGCTTTTTTTCACACAAACGCT
1 GCTAAAGAACGTGACCTTTAGCGGC-GCCTTTCACACAAACGCT
* * * * * * *
102757261 GCTAAACAATGTGACCTTTAGCGACGCTTTTCACAGAAATGCC
1 GCTAAAGAACGTGACCTTTAGCGGCGCCTTTCACACAAACGCT
* *
102757304 ACTAAAGAACGTGACCTTTAGCGGCGCCTTTCACACAAACGCC
1 GCTAAAGAACGTGACCTTTAGCGGCGCCTTTCACACAAACGCT
* * * *
102757347 ACTAAAGAACGTGACTTTTAACGACGCCTTTCACACAAACGCT
1 GCTAAAGAACGTGACCTTTAGCGGCGCCTTTCACACAAACGCT
* * *
102757390 GCTAAAGAACGTGACTTTTAGCGGTGCCTTTCACAAAAACG-T
1 GCTAAAGAACGTGACCTTTAGCGGCGCCTTTCACACAAACGCT
*
102757432 CGCTAAAGAACATGACCTTTAGCGGCG
1 -GCTAAAGAACGTGACCTTTAGCGGCG
102757459 TTTTTAGTAA
Statistics
Matches: 169, Mismatches: 27, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
42 1 0.01
43 153 0.91
44 15 0.09
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (43 bp):
GCTAAAGAACGTGACCTTTAGCGGCGCCTTTCACACAAACGCT
Found at i:102757473 original size:129 final size:129
Alignment explanation
Indices: 102757246--102757480 Score: 319
Period size: 129 Copynumber: 1.8 Consensus size: 129
102757236 AGTGGCTTTT
* * * *
102757246 TTTCACACAAACGCTGCTAAACAATGTGACCTTTAGCGACGCTTTTCACAGAAATGCCACTAAAG
1 TTTCACACAAACGCTGCTAAACAACGTGACCTTTAGCGACGCCTTTCACAAAAACGCCACTAAAG
* *
102757311 AACGTGACCTTTAGCGGCGCCTTTCACACAAACGCCACTAAAGAACGTGACTTTTAACGACGCC
66 AACATGACCTTTAGCGGCGCCTTTCACAAAAACGCCACTAAAGAACGTGACTTTTAACGACGCC
* * ** * *
102757375 TTTCACACAAACGCTGCTAAAGAACGTGACTTTTAGCGGTGCCTTTCACAAAAACGTCGCTAAAG
1 TTTCACACAAACGCTGCTAAACAACGTGACCTTTAGCGACGCCTTTCACAAAAACGCCACTAAAG
* * *
102757440 AACATGACCTTTAGCGGCG-TTTTTAGTAAAAACGCCACTAA
66 AACATGACCTTTAGCGGCGCCTTTCA-CAAAAACGCCACTAA
102757481 TTTTAGCAGA
Statistics
Matches: 90, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
128 4 0.04
129 86 0.96
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.24
Consensus pattern (129 bp):
TTTCACACAAACGCTGCTAAACAACGTGACCTTTAGCGACGCCTTTCACAAAAACGCCACTAAAG
AACATGACCTTTAGCGGCGCCTTTCACAAAAACGCCACTAAAGAACGTGACTTTTAACGACGCC
Found at i:102758279 original size:13 final size:14
Alignment explanation
Indices: 102758239--102758281 Score: 70
Period size: 14 Copynumber: 3.1 Consensus size: 14
102758229 ACTAACGACG
102758239 AATTAAACCATTAT
1 AATTAAACCATTAT
*
102758253 AACTAAACCATTAT
1 AATTAAACCATTAT
102758267 AATTAAA-CATTAT
1 AATTAAACCATTAT
102758280 AA
1 AA
102758282 ATATTTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
13 8 0.30
14 19 0.70
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:102759578 original size:25 final size:27
Alignment explanation
Indices: 102759545--102759601 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 27
102759535 ATAATTAAAA
*
102759545 AATTGTAAA-ATCTT-AT-TACATCAT
1 AATTGTAAATATCTTCATCCACATCAT
102759569 AATTCGTAAATATCTTCATCCACATCAT
1 AATT-GTAAATATCTTCATCCACATCAT
102759597 AATTG
1 AATTG
102759602 CTTAGTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
24 4 0.14
25 5 0.18
26 5 0.18
27 3 0.11
28 11 0.39
ACGTcount: A:0.39, C:0.18, G:0.05, T:0.39
Consensus pattern (27 bp):
AATTGTAAATATCTTCATCCACATCAT
Found at i:102765062 original size:19 final size:19
Alignment explanation
Indices: 102765038--102765074 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
102765028 GTTGCGAGCT
102765038 CCTTTGGCGAACCCTCACC
1 CCTTTGGCGAACCCTCACC
102765057 CCTTTGGCGAACCCTCAC
1 CCTTTGGCGAACCCTCAC
102765075 TATAAGGTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.16, C:0.46, G:0.16, T:0.22
Consensus pattern (19 bp):
CCTTTGGCGAACCCTCACC
Found at i:102769509 original size:18 final size:19
Alignment explanation
Indices: 102769476--102769511 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
102769466 TTAAATGAAT
102769476 TTAATTAAATAATATGATA
1 TTAATTAAATAATATGATA
*
102769495 TTAATTTAA-AATATGAT
1 TTAATTAAATAATATGAT
102769512 TTTTAGTTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (19 bp):
TTAATTAAATAATATGATA
Found at i:102788055 original size:25 final size:22
Alignment explanation
Indices: 102788019--102788066 Score: 53
Period size: 22 Copynumber: 2.0 Consensus size: 22
102788009 TAATGAATTT
102788019 TTTTAGATAGATAACTATTATTAAA
1 TTTTAGATAGAT---TATTATTAAA
102788044 TTTTA-ATAAGATTATTATTAAA
1 TTTTAGAT-AGATTATTATTAAA
102788066 T
1 T
102788067 ATAATTTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
22 11 0.50
24 2 0.09
25 9 0.41
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (22 bp):
TTTTAGATAGATTATTATTAAA
Found at i:102788114 original size:56 final size:58
Alignment explanation
Indices: 102788043--102788153 Score: 174
Period size: 56 Copynumber: 1.9 Consensus size: 58
102788033 CTATTATTAA
*
102788043 ATTTTAATAAGATTATTATTAAATATAATTTAAT-AAAA-AATAAATAATTTAATCAT
1 ATTTTAATAAGATTATCATTAAATATAATTTAATAAAAATAATAAATAATTTAATCAT
*
102788099 ATTTTAATATA-ATTATCATTAAATATAATTTAATAAAAATAATATATAATTTAAT
1 ATTTTAATA-AGATTATCATTAAATATAATTTAATAAAAATAATAAATAATTTAAT
102788154 AATTGCACAC
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
56 31 0.62
57 5 0.10
58 14 0.28
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (58 bp):
ATTTTAATAAGATTATCATTAAATATAATTTAATAAAAATAATAAATAATTTAATCAT
Found at i:102789760 original size:30 final size:31
Alignment explanation
Indices: 102789726--102789789 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
102789716 ATTTATTTTA
102789726 TTGTTAA-TTTTCTTATTATTTTA-AAGGCAT
1 TTGTTAATTTTTCTTATTATTTTAGAA-GCAT
*
102789756 TTGTTAATTTTTTTTATTATTTTAGAAGCAT
1 TTGTTAATTTTTCTTATTATTTTAGAAGCAT
102789787 TTG
1 TTG
102789790 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
30 7 0.23
31 22 0.71
32 2 0.06
ACGTcount: A:0.25, C:0.05, G:0.11, T:0.59
Consensus pattern (31 bp):
TTGTTAATTTTTCTTATTATTTTAGAAGCAT
Found at i:102789928 original size:11 final size:12
Alignment explanation
Indices: 102789912--102789944 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
102789902 ATATATATTT
102789912 AAAATAATA-AA
1 AAAATAATATAA
102789923 AAAATAATATAA
1 AAAATAATATAA
102789935 AAAATTAATA
1 AAAA-TAATA
102789945 CAGGCGGGCG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.45
12 6 0.30
13 5 0.25
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:102796888 original size:22 final size:22
Alignment explanation
Indices: 102796846--102796888 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
102796836 TATCCATATA
*
102796846 ATAATAACAAAATAACGACAAT
1 ATAATAACAAAATAACAACAAT
* *
102796868 ATAATAATAAAATGACAACAA
1 ATAATAACAAAATAACAACAA
102796889 AACAGTGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.65, C:0.12, G:0.05, T:0.19
Consensus pattern (22 bp):
ATAATAACAAAATAACAACAAT
Found at i:102796923 original size:21 final size:22
Alignment explanation
Indices: 102796887--102796927 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
102796877 AAATGACAAC
102796887 AAAACAGTGAGAAAACAACAGG
1 AAAACAGTGAGAAAACAACAGG
*
102796909 AAAATAGTG-GAAAACAACA
1 AAAACAGTGAGAAAACAACA
102796928 TTTTTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.61, C:0.12, G:0.20, T:0.07
Consensus pattern (22 bp):
AAAACAGTGAGAAAACAACAGG
Found at i:102801120 original size:16 final size:17
Alignment explanation
Indices: 102801099--102801142 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
102801089 TTAATCACTT
102801099 TAATATTAAATT-AATG
1 TAATATTAAATTAAATG
* *
102801115 TAATATTAGATTAAATT
1 TAATATTAAATTAAATG
102801132 TAATATTAAAT
1 TAATATTAAAT
102801143 CTTATTAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 11 0.46
17 13 0.54
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (17 bp):
TAATATTAAATTAAATG
Found at i:102801288 original size:36 final size:32
Alignment explanation
Indices: 102801214--102801289 Score: 84
Period size: 36 Copynumber: 2.3 Consensus size: 32
102801204 ATAATCACTT
102801214 TAATATTAAATTAATAAAAAAACTATTAAGAA
1 TAATATTAAATTAATAAAAAAACTATTAAGAA
*
102801246 -AGTATTAAATTAAATTAAATATTAAACTATTAA-AA
1 TAATATTAAATT-AA-TAAA-A--AAACTATTAAGAA
102801281 TAATATTAA
1 TAATATTAA
102801290 TTTTGGAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
31 10 0.28
32 2 0.06
33 4 0.11
34 1 0.03
35 2 0.06
36 17 0.47
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (32 bp):
TAATATTAAATTAATAAAAAAACTATTAAGAA
Found at i:102803253 original size:5 final size:5
Alignment explanation
Indices: 102803243--102803281 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
102803233 GCCTAAGATG
* *
102803243 TGAAT TGAAT TGAAT TGAAT ATGAAT TGTAT TAAAT TGA
1 TGAAT TGAAT TGAAT TGAAT -TGAAT TGAAT TGAAT TGA
102803282 GTTAAATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (5 bp):
TGAAT
Found at i:102803613 original size:23 final size:23
Alignment explanation
Indices: 102803583--102803631 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
102803573 CGAACACACC
*
102803583 ATAGCTCACAAGAGCGTCCCGAT
1 ATAGCTCACAAGAGCATCCCGAT
*
102803606 ATAGCTCACATGAGCATCCCGAT
1 ATAGCTCACAAGAGCATCCCGAT
102803629 ATA
1 ATA
102803632 AGTTCTCCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.33, C:0.29, G:0.18, T:0.20
Consensus pattern (23 bp):
ATAGCTCACAAGAGCATCCCGAT
Found at i:102805915 original size:46 final size:46
Alignment explanation
Indices: 102805865--102806079 Score: 306
Period size: 46 Copynumber: 4.7 Consensus size: 46
102805855 TGCCATATTG
* * * * *
102805865 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACA-TTTCATATCAGGCTGCCATGGTA
** ** *
102805911 TCTTTCAACCATGGTCTTATTCATTTCATGCCACGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
102805957 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
*
102806003 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
*
102806049 TCTTTCAACCATGGTCTTCCACATTTCATAT
1 TCTTTCAACCATGGTCTTACACATTTCATAT
102806080 TAGAGAGCAC
Statistics
Matches: 156, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 4 0.03
46 152 0.97
ACGTcount: A:0.21, C:0.26, G:0.14, T:0.39
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
Found at i:102810029 original size:47 final size:46
Alignment explanation
Indices: 102809975--102810105 Score: 183
Period size: 46 Copynumber: 2.8 Consensus size: 46
102809965 GGAAATTGAG
102809975 ATCCGAACTCGTTGAGTTGCGTTCCGAGTTCACTTATGGATG-CAAGC
1 ATCCGAACTCGTTGAGTTGCGTTCCGAGTTCA-TTATGGATGTCAA-C
* ** *
102810022 ATCCGAACTCATTGAGTTATGTTCCGAGTTCATTATGGATGTGAAC
1 ATCCGAACTCGTTGAGTTGCGTTCCGAGTTCATTATGGATGTCAAC
* *
102810068 ACCCGAGCTCGTTGAGTTGCGTTCCGAGTTCATTATGG
1 ATCCGAACTCGTTGAGTTGCGTTCCGAGTTCATTATGG
102810106 GTGAAATCAT
Statistics
Matches: 74, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
46 43 0.58
47 31 0.42
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.32
Consensus pattern (46 bp):
ATCCGAACTCGTTGAGTTGCGTTCCGAGTTCATTATGGATGTCAAC
Found at i:102812388 original size:16 final size:16
Alignment explanation
Indices: 102812367--102812397 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
102812357 TTATGCATGC
*
102812367 AAAATATAAAAGACAG
1 AAAATAAAAAAGACAG
102812383 AAAATAAAAAAGACA
1 AAAATAAAAAAGACA
102812398 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.06, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATAAAAAAGACAG
Found at i:102817892 original size:19 final size:19
Alignment explanation
Indices: 102817868--102817952 Score: 73
Period size: 19 Copynumber: 4.4 Consensus size: 19
102817858 TCATTGACAC
*
102817868 TAAAAATTATTTTAAATTA
1 TAAAAATTATTTAAAATTA
* *
102817887 TAAAAAATATTTAAAATGA
1 TAAAAATTATTTAAAATTA
* **
102817906 AAAAAACTTA-CAAAAATTA
1 TAAAAA-TTATTTAAAATTA
*
102817925 TAAAAACTATTTAAAAAATTA
1 TAAAAATTATTT--AAAATTA
102817946 TAAAAAT
1 TAAAAAT
102817953 ATATAATTTA
Statistics
Matches: 49, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
18 2 0.04
19 32 0.65
20 2 0.04
21 13 0.27
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.33
Consensus pattern (19 bp):
TAAAAATTATTTAAAATTA
Found at i:102817940 original size:29 final size:29
Alignment explanation
Indices: 102817906--102817988 Score: 87
Period size: 29 Copynumber: 2.8 Consensus size: 29
102817896 TTTAAAATGA
102817906 AAAAAACTTACAAAAATTATAAAAACTATTT
1 AAAAAA-TTA-AAAAATTATAAAAACTATTT
* **
102817937 AAAAAATTATAAAAA-TATATAATTTATTT
1 AAAAAATTA-AAAAATTATAAAAACTATTT
* *
102817966 AAAATATTAAAAAATTGTAAAAA
1 AAAAAATTAAAAAATTATAAAAA
102817989 ACCGTTAAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
28 5 0.12
29 24 0.56
30 8 0.19
31 6 0.14
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.33
Consensus pattern (29 bp):
AAAAAATTAAAAAATTATAAAAACTATTT
Found at i:102821510 original size:18 final size:18
Alignment explanation
Indices: 102821490--102821523 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
102821480 TTTTACTAAT
102821490 TTTTTA-ATATTTTAAAA
1 TTTTTATATATTTTAAAA
102821507 TTTTTATATATTTTAAA
1 TTTTTATATATTTTAAA
102821524 TAAATTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTTTATATATTTTAAAA
Found at i:102829332 original size:20 final size:20
Alignment explanation
Indices: 102829219--102829336 Score: 78
Period size: 20 Copynumber: 5.8 Consensus size: 20
102829209 TTAAATGTTA
*
102829219 AAAATTTAAACTC-GAATCTT
1 AAAATTTAAACTCTAAAT-TT
* * *
102829239 GAATTTTAAACTCCAAATTT
1 AAAATTTAAACTCTAAATTT
*
102829259 AAAATTCAAACTCTAAATTAT
1 AAAATTTAAACTCTAAATT-T
* *
102829280 AAATTTTGAA-TCTTAAATCTT
1 AAAATTTAAACTC-TAAAT-TT
*** * *
102829301 AACCCTTGAACTCAAAATTT
1 AAAATTTAAACTCTAAATTT
102829321 AAAATTTAAACTCTAA
1 AAAATTTAAACTCTAA
102829337 CTTTTAAACC
Statistics
Matches: 74, Mismatches: 19, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
20 43 0.58
21 28 0.38
22 3 0.04
ACGTcount: A:0.45, C:0.15, G:0.03, T:0.36
Consensus pattern (20 bp):
AAAATTTAAACTCTAAATTT
Found at i:102832111 original size:30 final size:30
Alignment explanation
Indices: 102832077--102832133 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
102832067 CTTATGACTA
102832077 TTGATGTAATGCAATTTCAGTTTAACATTG
1 TTGATGTAATGCAATTTCAGTTTAACATTG
102832107 TTGATGTAATGCAATTTCAGTTTAACA
1 TTGATGTAATGCAATTTCAGTTTAACA
102832134 ATAAAGAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.42
Consensus pattern (30 bp):
TTGATGTAATGCAATTTCAGTTTAACATTG
Found at i:102832405 original size:91 final size:89
Alignment explanation
Indices: 102832208--102832415 Score: 251
Period size: 91 Copynumber: 2.3 Consensus size: 89
102832198 CAGACACTCC
** *
102832208 AGTTTGTGGATAAACCA-CAAGTGTTGCTAGTTAATACACTGCCAATAGTTGTGAATACACAATG
1 AGTTTGTGGATAAACCACCAA-TGTTTATAGTTAATACACTGCCAATAGTTATGAATACACAATG
* *
102832272 GGTTTGCAGATAAAAGCTGTTAGTAAA
65 GGTTTGCAGAAAAAAGC--TTACTAAA
**
102832299 AG-TTGTGGATAAACCACCAATGTTTATAGGTTAATACGTTGCCAATAGGTTATGAATACACAAT
1 AGTTTGTGGATAAACCACCAATGTTTATA-GTTAATACACTGCCAATA-GTTATGAATACACAAT
*
102832363 GGGTTTGTAGAAAAAAGC-TACTAATA
64 GGGTTTGCAGAAAAAAGCTTACTAA-A
* *
102832389 AGTTTGTGGATGAACCACCAGTGTTTA
1 AGTTTGTGGATAAACCACCAATGTTTA
102832416 CAGATAAACT
Statistics
Matches: 102, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
89 5 0.05
90 23 0.23
91 43 0.42
92 31 0.30
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (89 bp):
AGTTTGTGGATAAACCACCAATGTTTATAGTTAATACACTGCCAATAGTTATGAATACACAATGG
GTTTGCAGAAAAAAGCTTACTAAA
Found at i:102833790 original size:37 final size:37
Alignment explanation
Indices: 102833712--102833790 Score: 88
Period size: 37 Copynumber: 2.1 Consensus size: 37
102833702 AAATAATAAT
** *
102833712 AAATAATATTCAAATAATTAAATATAATGATATTTGT
1 AAATAATATTCAAATAATTAAATATAATGATACATGA
* * *
102833749 AAATAATATTTAAATAGTTTAATATTAATGATACAT-A
1 AAATAATATTCAAATAATTAAATA-TAATGATACATGA
102833786 AAATA
1 AAATA
102833791 TAAATAAACC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
37 26 0.74
38 9 0.26
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.39
Consensus pattern (37 bp):
AAATAATATTCAAATAATTAAATATAATGATACATGA
Found at i:102836986 original size:3 final size:3
Alignment explanation
Indices: 102836980--102837016 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
102836970 AATATTATAA
*
102836980 AAG AAG AAG TAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
102837017 TGCTTTAGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.65, C:0.00, G:0.32, T:0.03
Consensus pattern (3 bp):
AAG
Found at i:102837160 original size:19 final size:19
Alignment explanation
Indices: 102837086--102837161 Score: 55
Period size: 19 Copynumber: 3.9 Consensus size: 19
102837076 TTTTAGAAAA
* *
102837086 TTTTTAAGTTTTTA-ACTT
1 TTTTTAAATTTTTATAATT
* *
102837104 TCTTTATATATTATTTAGAATT
1 T-TTT-TAAATT-TTTATAATT
* **
102837126 TTTTTAAAATAATATAATT
1 TTTTTAAATTTTTATAATT
102837145 TTTTTAAATTTTTATAA
1 TTTTTAAATTTTTATAA
102837162 ATATTTTGAT
Statistics
Matches: 43, Mismatches: 11, Indels: 7
0.70 0.18 0.11
Matches are distributed among these distances:
18 1 0.02
19 23 0.53
20 8 0.19
21 7 0.16
22 4 0.09
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (19 bp):
TTTTTAAATTTTTATAATT
Found at i:102837175 original size:19 final size:19
Alignment explanation
Indices: 102837153--102837206 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
102837143 TTTTTTTAAA
102837153 TTTTTATAAATATTTTGAT
1 TTTTTATAAATATTTTGAT
*
102837172 TTTTGA-AAATTATTTTGAT
1 TTTTTATAAA-TATTTTGAT
*
102837191 TTTTTTTAAA-ATTTTG
1 TTTTTATAAATATTTTG
102837207 TTGAGAGAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 9 0.30
19 18 0.60
20 3 0.10
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (19 bp):
TTTTTATAAATATTTTGAT
Found at i:102837210 original size:21 final size:21
Alignment explanation
Indices: 102837163--102837203 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
102837153 TTTTTATAAA
102837163 TATTTTGA--TTTTTGAAAAT
1 TATTTTGATTTTTTTGAAAAT
*
102837182 TATTTTGATTTTTTTTAAAAT
1 TATTTTGATTTTTTTGAAAAT
102837203 T
1 T
102837204 TTGTTGAGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
21 11 0.58
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.63
Consensus pattern (21 bp):
TATTTTGATTTTTTTGAAAAT
Found at i:102837577 original size:42 final size:43
Alignment explanation
Indices: 102837496--102837577 Score: 107
Period size: 42 Copynumber: 1.9 Consensus size: 43
102837486 TTTTACTTTA
* *
102837496 TTTTTAGTTTTTAATTTTAAAAGTTATGTAATAATATTTTATT
1 TTTTTAATTTTTAATTTTAAAAGTTATGTAATAAAATTTTATT
102837539 TTTTTAATTTTT-ATTTT-AAA-TTATGTCACATAAAATTTT
1 TTTTTAATTTTTAATTTTAAAAGTTATGT-A-ATAAAATTTT
102837578 TCGTGTTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
40 6 0.17
41 4 0.11
42 14 0.40
43 11 0.31
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (43 bp):
TTTTTAATTTTTAATTTTAAAAGTTATGTAATAAAATTTTATT
Found at i:102851213 original size:20 final size:20
Alignment explanation
Indices: 102851188--102851227 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
102851178 AATATTTTCC
*
102851188 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
102851208 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
102851228 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:102851233 original size:34 final size:34
Alignment explanation
Indices: 102851176--102851241 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 34
102851166 CAAACACCAG
*
102851176 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTAC-GAAAAGT
102851211 AAAACATTTTCCAG-AAATCATTTTACGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACGAAAA
102851242 ATATTTTACT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 5 0.17
34 12 0.40
35 13 0.43
ACGTcount: A:0.47, C:0.14, G:0.08, T:0.32
Consensus pattern (34 bp):
AAAACATTTTCCAGTAAATCATTTTACGAAAAGT
Found at i:102863995 original size:19 final size:19
Alignment explanation
Indices: 102863956--102863995 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
102863946 TTGGTTAAGC
* *
102863956 TTTATAATATTTAATTCTA
1 TTTATAATATTCAAATCTA
*
102863975 TTTATAATATTCAAATGTA
1 TTTATAATATTCAAATCTA
102863994 TT
1 TT
102863996 CGATATAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.55
Consensus pattern (19 bp):
TTTATAATATTCAAATCTA
Found at i:102864291 original size:28 final size:26
Alignment explanation
Indices: 102864250--102864305 Score: 69
Period size: 28 Copynumber: 2.1 Consensus size: 26
102864240 CTAATAATTA
*
102864250 TATATTTTTGTTATTTATTTATGTATTT
1 TATATTTTTGTTATTCATTT-T-TATTT
102864278 TATATTTATT-TTATTCATTTTTATTT
1 TATATTT-TTGTTATTCATTTTTATTT
102864304 TA
1 TA
102864306 AATTAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 7 0.27
27 1 0.04
28 16 0.62
29 2 0.08
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.71
Consensus pattern (26 bp):
TATATTTTTGTTATTCATTTTTATTT
Found at i:102864302 original size:19 final size:18
Alignment explanation
Indices: 102864260--102864303 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 18
102864250 TATATTTTTG
102864260 TTATTTATTTATGTATTT
1 TTATTTATTTATGTATTT
102864278 TATATTTATTTTAT-TCATTT
1 T-TATTTA-TTTATGT-ATTT
102864298 TTATTT
1 TTATTT
102864304 TAAATTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 1 0.04
19 12 0.52
20 10 0.43
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (18 bp):
TTATTTATTTATGTATTT
Found at i:102864498 original size:2 final size:2
Alignment explanation
Indices: 102864491--102864515 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
102864481 TCTCAATTTG
102864491 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
102864516 ATTAAACTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:102866638 original size:19 final size:19
Alignment explanation
Indices: 102866614--102866651 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
102866604 ATTTTCTATG
102866614 TTTAAAATATGTAAATTGA
1 TTTAAAATATGTAAATTGA
102866633 TTTAAAATATGTAAATTGA
1 TTTAAAATATGTAAATTGA
102866652 CATGTGTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (19 bp):
TTTAAAATATGTAAATTGA
Found at i:102867933 original size:43 final size:43
Alignment explanation
Indices: 102867763--102867934 Score: 158
Period size: 43 Copynumber: 4.0 Consensus size: 43
102867753 AATGGATTTC
* *
102867763 CGATATGTGA-TATCGTGTAAGATCACGTCTGGGACGTTGGCAT
1 CGATATTTGATTA-CGTGTAAGACCACGTCTGGGACGTTGGCAT
* *
102867806 C-A-ATTTAGTATTTACGTGTAAGACTACATCTGGGACGTTGGCAT
1 CGATATTT-G-A-TTACGTGTAAGACCACGTCTGGGACGTTGGCAT
* * ** *
102867850 CG-TATTTGATTTCGTGTAAGACTC-TGTCTAAGATAG-TGGCAT
1 CGATATTTGATTACGTGTAAGAC-CACGTCTGGGA-CGTTGGCAT
*
102867892 CGATATTTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATTTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
102867935 TGTACGAGCT
Statistics
Matches: 101, Mismatches: 17, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
41 3 0.03
42 29 0.29
43 34 0.34
44 29 0.29
45 6 0.06
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (43 bp):
CGATATTTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:102870484 original size:25 final size:25
Alignment explanation
Indices: 102870455--102870514 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
102870445 TTCAGTTGAA
* *
102870455 AGCCAAAAATGATAAGGATCCATCT
1 AGCCAAAAACGACAAGGATCCATCT
*
102870480 AGCCAAAAACGACAAGGATCTATCT
1 AGCCAAAAACGACAAGGATCCATCT
**
102870505 AATCAAAAAC
1 AGCCAAAAAC
102870515 ACATGTGTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.48, C:0.22, G:0.13, T:0.17
Consensus pattern (25 bp):
AGCCAAAAACGACAAGGATCCATCT
Found at i:102873739 original size:309 final size:309
Alignment explanation
Indices: 102873180--102873799 Score: 1186
Period size: 309 Copynumber: 2.0 Consensus size: 309
102873170 TATGTGTGCA
102873180 TAGGTGGCCAGCCGTGAGCTAAATAAAATGCATGTATGCATGTGTTTAAAATAAATATACAGATA
1 TAGGTGGCCAGCCGTGAGCTAAATAAAATGCATGTATGCATGTGTTTAAAATAAATATACAGATA
102873245 TGTTATATATGTATATTAACTTAACTTTAATGTATATATATATAATAATAATTAAAATAAATGTA
66 TGTTATATATGTATATTAACTTAACTTTAATGTATATATATATAATAATAATTAAAATAAATGTA
102873310 TAATAAAAGAAAGAAAAAGAAATGAAAGTGGAGGTACGCAAATTAAACAAAAGAAAGAAAAAAAA
131 TAATAAAAGAAAGAAAAAGAAATGAAAGTGGAGGTACGCAAATTAAACAAAAGAAAGAAAAAAAA
102873375 ATGAGAAGAGAACGTATGGCACTAGGGGTTTGGAAGTTCAAGCTTAAATTAGTTAGTGTAATTTA
196 ATGAGAAGAGAACGTATGGCACTAGGGGTTTGGAAGTTCAAGCTTAAATTAGTTAGTGTAATTTA
102873440 GTCCCTCCACTTGTAATTTTTATATTTTTAGAATCTCGGTACTTAGGGC
261 GTCCCTCCACTTGTAATTTTTATATTTTTAGAATCTCGGTACTTAGGGC
* * *
102873489 TAGGTGGTCGGCCGTGAGCTAAATAAAATGCATGTATGCATGTGTTTAAAATAAATATACATATA
1 TAGGTGGCCAGCCGTGAGCTAAATAAAATGCATGTATGCATGTGTTTAAAATAAATATACAGATA
102873554 TGTTATATATGTATATTAACTTAACTTTAATGTATATATATATAATAATAATTAAAATAAATGTA
66 TGTTATATATGTATATTAACTTAACTTTAATGTATATATATATAATAATAATTAAAATAAATGTA
* *
102873619 TAATAAAAGAAAGAAAAAGAAATGAAAGTGGAGGTACGCAAATTAAACAATAGAAAGAAAGAAAA
131 TAATAAAAGAAAGAAAAAGAAATGAAAGTGGAGGTACGCAAATTAAACAAAAGAAAGAAAAAAAA
*
102873684 ATGAGAAGAGAATGTATGGCACTAGGGGTTTGGAAGTTCAAGCTTAAATTAGTTAGTGTAATTTA
196 ATGAGAAGAGAACGTATGGCACTAGGGGTTTGGAAGTTCAAGCTTAAATTAGTTAGTGTAATTTA
102873749 GTCCCTCCACTTGTAATTTTTATATTTTTAGAATCTCGGTACTTAGGGC
261 GTCCCTCCACTTGTAATTTTTATATTTTTAGAATCTCGGTACTTAGGGC
102873798 TA
1 TA
102873800 CCCGACCCTA
Statistics
Matches: 305, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
309 305 1.00
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (309 bp):
TAGGTGGCCAGCCGTGAGCTAAATAAAATGCATGTATGCATGTGTTTAAAATAAATATACAGATA
TGTTATATATGTATATTAACTTAACTTTAATGTATATATATATAATAATAATTAAAATAAATGTA
TAATAAAAGAAAGAAAAAGAAATGAAAGTGGAGGTACGCAAATTAAACAAAAGAAAGAAAAAAAA
ATGAGAAGAGAACGTATGGCACTAGGGGTTTGGAAGTTCAAGCTTAAATTAGTTAGTGTAATTTA
GTCCCTCCACTTGTAATTTTTATATTTTTAGAATCTCGGTACTTAGGGC
Found at i:102874418 original size:25 final size:25
Alignment explanation
Indices: 102874370--102874418 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
102874360 CATAATTAAA
* * *
102874370 ATGAAATGGATTGATTTTGTATATT
1 ATGAAATAGATTGATTATGAATATT
*
102874395 ATGAAATATATTGATTATGAATAT
1 ATGAAATAGATTGATTATGAATAT
102874419 ATGTGTATTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (25 bp):
ATGAAATAGATTGATTATGAATATT
Found at i:102874428 original size:17 final size:17
Alignment explanation
Indices: 102874391--102874433 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
102874381 TGATTTTGTA
102874391 TATTATGAAATATATTG
1 TATTATGAAATATATTG
102874408 -ATTATG-AATATATGTG
1 TATTATGAAATATAT-TG
*
102874424 TATTAAGAAA
1 TATTATGAAA
102874434 AATGTGATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
15 7 0.32
16 8 0.36
17 5 0.23
18 2 0.09
ACGTcount: A:0.44, C:0.00, G:0.14, T:0.42
Consensus pattern (17 bp):
TATTATGAAATATATTG
Found at i:102877465 original size:28 final size:26
Alignment explanation
Indices: 102877443--102877498 Score: 87
Period size: 27 Copynumber: 2.2 Consensus size: 26
102877433 TTATTATGGG
*
102877443 ATAT-TATCTTTTAGGAATATATTAT
1 ATATCTATATTTTAGGAATATATTAT
102877468 ATATCTATATATTTAGGAATATATTAT
1 ATATCTATAT-TTTAGGAATATATTAT
102877495 ATAT
1 ATAT
102877499 ATATTTCATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
25 4 0.14
26 4 0.14
27 20 0.71
ACGTcount: A:0.39, C:0.04, G:0.07, T:0.50
Consensus pattern (26 bp):
ATATCTATATTTTAGGAATATATTAT
Found at i:102879242 original size:22 final size:22
Alignment explanation
Indices: 102879200--102879246 Score: 53
Period size: 24 Copynumber: 2.1 Consensus size: 22
102879190 AAAATTTGAC
*
102879200 AATTTTTTTTATATTAGAGTTTA
1 AATTTTTTTTATACTAGAG-TTA
102879223 AATTATTTTTTAT-CTA-AGTTA
1 AATT-TTTTTTATACTAGAGTTA
102879244 AAT
1 AAT
102879247 ATTAAATTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 6 0.27
22 2 0.09
23 6 0.27
24 8 0.36
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.57
Consensus pattern (22 bp):
AATTTTTTTTATACTAGAGTTA
Found at i:102881387 original size:21 final size:21
Alignment explanation
Indices: 102881362--102881402 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
102881352 AAATGGCGAG
*
102881362 GGAGATAGAGACGATGAGGAT
1 GGAGATAGAGACGAAGAGGAT
* *
102881383 GGAGATGGAGATGAAGAGGA
1 GGAGATAGAGACGAAGAGGA
102881403 CCGAGGTGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.39, C:0.02, G:0.46, T:0.12
Consensus pattern (21 bp):
GGAGATAGAGACGAAGAGGAT
Found at i:102883030 original size:16 final size:16
Alignment explanation
Indices: 102883009--102883040 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
102882999 AAGAAGCACA
102883009 ACAGATAAATTTATCT
1 ACAGATAAATTTATCT
102883025 ACAGATAAATTTATCT
1 ACAGATAAATTTATCT
102883041 TCTTTGACAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (16 bp):
ACAGATAAATTTATCT
Found at i:102884141 original size:31 final size:31
Alignment explanation
Indices: 102884106--102884167 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
102884096 AAGATTTAAA
102884106 CTTCAAAAACAAGTAACGAGAAAAAGAAACT
1 CTTCAAAAACAAGTAACGAGAAAAAGAAACT
102884137 CTTCAAAAACAAGTAACGAGAAAAAGAAACT
1 CTTCAAAAACAAGTAACGAGAAAAAGAAACT
102884168 TACTTTTTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.58, C:0.16, G:0.13, T:0.13
Consensus pattern (31 bp):
CTTCAAAAACAAGTAACGAGAAAAAGAAACT
Found at i:102894641 original size:3 final size:3
Alignment explanation
Indices: 102894596--102894621 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
102894586 TTCCACCGTT
102894596 CAC CAC CAC CAC CAC CAC CAC CAC CA
1 CAC CAC CAC CAC CAC CAC CAC CAC CA
102894622 GCATTTCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.65, G:0.00, T:0.00
Consensus pattern (3 bp):
CAC
Found at i:102901173 original size:29 final size:29
Alignment explanation
Indices: 102901141--102901261 Score: 90
Period size: 29 Copynumber: 4.2 Consensus size: 29
102901131 TATAAATAGA
102901141 AATA-AAAATATAATAAATAGAAATATAAT
1 AATAGAAAA-ATAATAAATAGAAATATAAT
*
102901170 AATAGTAGAAAT-ATAAATAGATAA-ATAAT
1 AATAG-AAAAATAATAAATAGA-AATATAAT
* * * *
102901199 AATTAGATAAATAAT-AATAGTATTAGAAT
1 AA-TAGAAAAATAATAAATAGAAATATAAT
* * *
102901228 AACAAAATAAAT-ATAAATAGAAACATAAT
1 AATAGAA-AAATAATAAATAGAAATATAAT
102901257 AATAG
1 AATAG
102901262 TAGTAATAAT
Statistics
Matches: 70, Mismatches: 14, Indels: 16
0.70 0.14 0.16
Matches are distributed among these distances:
28 5 0.07
29 53 0.76
30 9 0.13
31 3 0.04
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (29 bp):
AATAGAAAAATAATAAATAGAAATATAAT
Found at i:102901180 original size:17 final size:15
Alignment explanation
Indices: 102901140--102901185 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
102901130 ATATAAATAG
*
102901140 AAATAAAAATATAAT
1 AAATAGAAATATAAT
102901155 AAATAGAAATATAAT
1 AAATAGAAATATAAT
102901170 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
102901186 ATAGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:102901216 original size:15 final size:15
Alignment explanation
Indices: 102901150--102901215 Score: 75
Period size: 15 Copynumber: 4.5 Consensus size: 15
102901140 AAATAAAAAT
102901150 ATAATAAATAGA-AA
1 ATAATAAATAGATAA
*
102901164 TATAAT-AATAGTAGAA
1 -ATAATAAATAG-ATAA
102901180 AT-ATAAATAGATAA
1 ATAATAAATAGATAA
*
102901194 ATAATAATTAGATAA
1 ATAATAAATAGATAA
102901209 ATAATAA
1 ATAATAA
102901216 TAGTATTAGA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
14 12 0.27
15 31 0.69
16 2 0.04
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.29
Consensus pattern (15 bp):
ATAATAAATAGATAA
Found at i:102901295 original size:87 final size:84
Alignment explanation
Indices: 102901145--102901303 Score: 196
Period size: 87 Copynumber: 1.9 Consensus size: 84
102901135 AATAGAAATA
* *
102901145 AAAATATAATAAATAGAAATATAATAATAGTAGAAATATAAATAGATAAATAATAATTAGATAAA
1 AAAATAAAATAAATAGAAACATAATAATAGTAGAAATATAAATAGATAAATAATAATTAGAT-AA
102901210 TAATAATAGTATTAGAATAAC
65 TAA-AATAGTATTAGAATAAC
* * * * *
102901231 AAAATAAATATAAATAGAAACATAATAATAGTAGTAATA-ATATA-TTAAAATAGTTAATTTGAT
1 AAAATAAA-ATAAATAGAAACATAATAATAGTAGAAATATAAATAGAT-AAATA-ATAATTAGAT
102901294 AATAAAATAG
63 AATAAAATAG
102901304 CGAAAAAAGA
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
85 6 0.10
86 21 0.33
87 36 0.57
ACGTcount: A:0.60, C:0.01, G:0.08, T:0.30
Consensus pattern (84 bp):
AAAATAAAATAAATAGAAACATAATAATAGTAGAAATATAAATAGATAAATAATAATTAGATAAT
AAAATAGTATTAGAATAAC
Found at i:102901632 original size:5 final size:5
Alignment explanation
Indices: 102901627--102901667 Score: 55
Period size: 5 Copynumber: 8.0 Consensus size: 5
102901617 TTTAATCATA
* *
102901627 AAATA AAATC AAATC AAATC AAATC AAATAA AAATC AAATC
1 AAATC AAATC AAATC AAATC AAATC AAAT-C AAATC AAATC
102901668 TTCCTATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
5 28 0.88
6 4 0.12
ACGTcount: A:0.66, C:0.15, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATC
Found at i:102901645 original size:15 final size:15
Alignment explanation
Indices: 102901624--102901667 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
102901614 TAATTTAATC
*
102901624 ATAAAATAAAATCAA
1 ATAAAATCAAATCAA
*
102901639 ATCAAATCAAATCAA
1 ATAAAATCAAATCAA
102901654 ATAAAAATCAAATC
1 AT-AAAATCAAATC
102901668 TTCCTATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 15 0.60
16 10 0.40
ACGTcount: A:0.66, C:0.14, G:0.00, T:0.20
Consensus pattern (15 bp):
ATAAAATCAAATCAA
Found at i:102902423 original size:40 final size:39
Alignment explanation
Indices: 102902363--102902591 Score: 106
Period size: 40 Copynumber: 5.5 Consensus size: 39
102902353 TGTCTTCAAT
*
102902363 CTGTT-CCACTACTATTTAGGGAAGATCTGTATTTTCCAG
1 CTGTTACC-CTACTACTTAGGGAAGATCTGTATTTTCCAG
* * *
102902402 CTTGTTACCCTACTACTTAGGGGGTTAAG-GCTTGCTATTTTCGAT
1 C-TGTTACCCTACTACTTA--GGG--AAGATC-TG-TATTTTCCAG
* ** *
102902447 CTGCTT-CACTACTGTTTAGGGGAGATCTGTATTTTCCAG
1 CTG-TTACCCTACTACTTAGGGAAGATCTGTATTTTCCAG
* ** * * * *
102902486 CCTGTTACCCTACTACTTATGGGGTTAAGGCTCACTGTCTTCGAT
1 -CTGTTACCCTACTACTTA--GGG--AA-GATCTGTATTTTCCAG
* ** *
102902531 CTGCT-CCACTACTGTTTAGGGGAGATCTGTATTTTCCAG
1 CTGTTACC-CTACTACTTAGGGAAGATCTGTATTTTCCAG
102902570 CCTGTTACCCTACTACTTAGGG
1 -CTGTTACCCTACTACTTAGGG
102902592 GGTTTAAGGC
Statistics
Matches: 134, Mismatches: 36, Indels: 39
0.64 0.17 0.19
Matches are distributed among these distances:
39 20 0.15
40 45 0.34
41 5 0.04
42 12 0.09
43 3 0.02
44 29 0.22
45 20 0.15
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (39 bp):
CTGTTACCCTACTACTTAGGGAAGATCTGTATTTTCCAG
Found at i:102902466 original size:84 final size:84
Alignment explanation
Indices: 102902097--102903137 Score: 1284
Period size: 84 Copynumber: 12.2 Consensus size: 84
102902087 TTTACTATCC
* * * * * *
102902097 TCGATCTGCTCCACTACTGCTTAGGGAATAAGATCTGTAATTTCCAGCCTATTTCCCTACTACTT
1 TCGATCTGCTCCACTACTGTTTAGGG---GAGATCTGTATTTTCCAGCCTGTTACCCTACTGCTT
*
102902162 AGGGGGATAAGGCTCAC-GTCT
63 AGGGGGTTAAGGCTCACTGTCT
* * * * * * *
102902183 CCGATCCGCTCCACTACTGCTTAGAGAGATAAGATCTGTAATCTT-CAGCCTGCTACCCTACTAC
1 TCGATCTGCTCCACTACTGTTTAG-G-G--GAGATCTGT-ATTTTCCAGCCTGTTACCCTACTGC
*
102902247 TTAGGGGGTTAAGGCTCACCGTCT
61 TTAGGGGGTTAAGGCTCACTGTCT
* * *
102902271 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTT-TAGCTTGTTACCCTACTGC
1 TCGATCTGCTCCACTACTGTTTAGGG-G---AGATCTGT-ATTTTCCAGCCTGTTACCCTACTGC
**
102902335 TTA-GGGGTTAAGGCTTGCTGTCT
61 TTAGGGGGTTAAGGCTCACTGTCT
* * * * * *
102902358 TCAATCTGTTCCACTACTATTTAGGGAAGATCTGTATTTTCCAGCTTGTTACCCTACTACTTAGG
1 TCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGG
** * *
102902423 GGGTTAAGGCTTGCTATTT
66 GGGTTAAGGCTCACTGTCT
* * *
102902442 TCGATCTGCTTCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACTACTTATG
1 TCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGG
102902507 GGGTTAAGGCTCACTGTCT
66 GGGTTAAGGCTCACTGTCT
*
102902526 TCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACTACTTAGG
1 TCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGG
102902591 GGGTTTAAGGCTCACTGTCT
66 GGG-TTAAGGCTCACTGTCT
* * *
102902611 TCGATCTGCTCCACTACTATTTAGGGGAGACCTGTATTTTCCAGCCTGTTACCCTACTGCTTAAG
1 TCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGG
102902676 GGGTTAAGGCTCACTGTCT
66 GGGTTAAGGCTCACTGTCT
* *
102902695 TCGATCTACTCCACTACTGTTTAGGGGAGATCTGTACTTTT-CAGCCTGTTACCCTACTGTTTAG
1 TCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTA-TTTTCCAGCCTGTTACCCTACTGCTTAG
*
102902759 GGGTTTAAGGCTCACTGTCT
65 GGGGTTAAGGCTCACTGTCT
*
102902779 TCGATCTACTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCC-GTTACCCTACTGCTTAGG
1 TCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGG
*
102902843 GGGTTAAGACTCACTGTCT
66 GGGTTAAGGCTCACTGTCT
* * *
102902862 TTGATATGCTCCGCTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGG
1 TCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGG
*
102902927 GGTTTAAGGCTCACTGTCT
66 GGGTTAAGGCTCACTGTCT
* *
102902946 TCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTTTTACCCTACTGCTTAAG
1 TCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGG
* *
102903011 GGGTTAAGGTTCATTGTCT
66 GGGTTAAGGCTCACTGTCT
* * * * ** * *
102903030 TTGATCTACTCCCCTACTGCTTAGGGAGATAAGATCTGTAATTTTTTTAGGCTGTTACCCTATTG
1 TCGATCTGCTCCACTACTGTTTAGGG-G---AGATCTGT-A-TTTTCCAGCCTGTTACCCTACTG
* *
102903095 CCTAGGGGGTTAAGGTTCACTGTCT
60 CTTAGGGGGTTAAGGCTCACTGTCT
* * *
102903120 TTGATCTACTCCCCTACT
1 TCGATCTGCTCCACTACT
102903138 TCTTAGGAAG
Statistics
Matches: 855, Mismatches: 81, Indels: 34
0.88 0.08 0.04
Matches are distributed among these distances:
82 5 0.01
83 108 0.13
84 420 0.49
85 85 0.10
86 23 0.03
87 86 0.10
88 69 0.08
89 1 0.00
90 58 0.07
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.35
Consensus pattern (84 bp):
TCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGG
GGGTTAAGGCTCACTGTCT
Found at i:102902586 original size:43 final size:43
Alignment explanation
Indices: 102902454--102902586 Score: 107
Period size: 43 Copynumber: 3.1 Consensus size: 43
102902444 GATCTGCTTC
102902454 ACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCT
1 ACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCT
* * ** * * * * *
102902497 ACTACT-TAT-GGGGTTAAGGCTCACTGTCTTCGA-TCTGCT--CC-
1 ACTACTGTTTAGGGG---A-GATCTGTATTTTCCAGCCTGTTACCCT
102902538 ACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCT
1 ACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCT
102902581 ACTACT
1 ACTACT
102902587 TAGGGGGTTT
Statistics
Matches: 62, Mismatches: 18, Indels: 20
0.62 0.18 0.20
Matches are distributed among these distances:
39 9 0.15
40 5 0.08
41 10 0.16
42 8 0.13
43 16 0.26
44 5 0.08
45 9 0.15
ACGTcount: A:0.19, C:0.25, G:0.20, T:0.36
Consensus pattern (43 bp):
ACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCT
Found at i:102903307 original size:46 final size:45
Alignment explanation
Indices: 102903255--102903343 Score: 124
Period size: 46 Copynumber: 2.0 Consensus size: 45
102903245 GGTGGCTAAA
* *
102903255 ATCTGCTCCATAGCCGATAAATGGAGATAAAATCTCGTCATTTTTG
1 ATCTGCTCCATAGCCGATAAATAGAGATAAAATCT-GTAATTTTTG
* * *
102903301 ATCTGCTCCGTAGCCGATACATAGAGATAAGATCTGTAATTTT
1 ATCTGCTCCATAGCCGATAAATAGAGATAAAATCTGTAATTTT
102903344 CAGCCTGCTT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
45 7 0.18
46 31 0.82
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (45 bp):
ATCTGCTCCATAGCCGATAAATAGAGATAAAATCTGTAATTTTTG
Found at i:102903388 original size:179 final size:177
Alignment explanation
Indices: 102903146--102903738 Score: 799
Period size: 178 Copynumber: 3.3 Consensus size: 177
102903136 CTTCTTAGGA
* * *
102903146 AGATAAGATCTGTAATTTTTAGCCTACTTTCTTGTTACCTCAGGAAGATAAGACTTGTATCTTCA
1 AGATAAGATCTGTAATTTTCAGCCTACTTCCTTGCTACCTCAGGAAGATAAGACTTGTATCTTCA
*
102903211 ACCTGCTCTCCTGCTACCTCAGAGAGATAAGGCCGGTGGCTAAAATCTGCTCCATAGCCGATAAA
66 ACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCCGGTGGCTAAAATCTGCTCCATAGCCGATAAA
* *
102903276 TGGAGATAAAATCTCGTCATTTTTGATCTGCTCCGTAGCCGATACATAG
131 TGGAGATAAAA-CTCG-CATTTTCGATCTGCTCCATAGCCGATACATAG
* * * *
102903325 AGATAAGATCTGTAATTTTCAGCCTGCTTCCTTGCTACCTTAGGAAGATAAGATTTATATCTTCA
1 AGATAAGATCTGTAATTTTCAGCCTACTTCCTTGCTACCTCAGGAAGATAAGACTTGTATCTTCA
** * * *
102903390 ACCTGCTCTCTTAATACCTCAGAGAGATAAGGCCGATGGCTAAAATCTACTCCATAGCCGATATA
66 ACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCCGGTGGCTAAAATCTGCTCCATAGCCGATAAA
* * * *
102903455 TGGAGATAAGACTCACCATTTTCGATCTGCTCCATAGCCGATACGTGG
131 TGGAGATAAAACTC-GCATTTTCGATCTGCTCCATAGCCGATACATAG
* * * * *
102903503 AGATAAGATCTATAATTTTCAGTCTGCTTCATTGCTACCTCAGGAAGATAAGACTTGTATTTTCA
1 AGATAAGATCTGTAATTTTCAGCCTACTTCCTTGCTACCTCAGGAAGATAAGACTTGTATCTTCA
** * * * *
102903568 ACCTATTCTTTTGCTACCTAAGAGAGATAAGGCCGGTGGCTAAAATCTGCTCCATAGTCGATACA
66 ACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCCGGTGGCTAAAATCTGCTCCATAGCCGATAAA
* * * * *
102903633 TGGAAATAATACTCGAAGTTTTCGATCTGCTCCATAGCTGATACATTG
131 TGGAGATAAAACTCGCA-TTTTCGATCTGCTCCATAGCCGATACATAG
* * * *
102903681 AGATAAGATCTGTAATTTTTAGTCTACTTCTTTGCTACCTCAGGAAGATAAAACTTGT
1 AGATAAGATCTGTAATTTTCAGCCTACTTCCTTGCTACCTCAGGAAGATAAGACTTGT
102903739 GAATTCACCG
Statistics
Matches: 364, Mismatches: 48, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
177 1 0.00
178 236 0.65
179 127 0.35
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (177 bp):
AGATAAGATCTGTAATTTTCAGCCTACTTCCTTGCTACCTCAGGAAGATAAGACTTGTATCTTCA
ACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCCGGTGGCTAAAATCTGCTCCATAGCCGATAAA
TGGAGATAAAACTCGCATTTTCGATCTGCTCCATAGCCGATACATAG
Found at i:102903521 original size:45 final size:44
Alignment explanation
Indices: 102903434--102903530 Score: 115
Period size: 45 Copynumber: 2.2 Consensus size: 44
102903424 GATGGCTAAA
* * *
102903434 ATCTACTCCATAGCCGATATATGGAGATAAGACTCACCATTTTC
1 ATCTGCTCCATAGCCGATACATGGAGATAAGACTCACAATTTTC
* *
102903478 GATCTGCTCCATAGCCGATACGTGGAGATAAGA-TCTATAATTTTC
1 -ATCTGCTCCATAGCCGATACATGGAGATAAGACTC-ACAATTTTC
102903523 AGTCTGCT
1 A-TCTGCT
102903531 TCATTGCTAC
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
44 3 0.07
45 42 0.93
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.31
Consensus pattern (44 bp):
ATCTGCTCCATAGCCGATACATGGAGATAAGACTCACAATTTTC
Found at i:102904948 original size:26 final size:26
Alignment explanation
Indices: 102904919--102904972 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
102904909 TTGGCCGCTC
102904919 TTGTTTCCTTTTCTTTTCTTTTGTGT
1 TTGTTTCCTTTTCTTTTCTTTTGTGT
*
102904945 TTGTTTCTTTTTCTTTTCTTTTGTGT
1 TTGTTTCCTTTTCTTTTCTTTTGTGT
102904971 TT
1 TT
102904973 TTTTTAAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.00, C:0.13, G:0.11, T:0.76
Consensus pattern (26 bp):
TTGTTTCCTTTTCTTTTCTTTTGTGT
Found at i:102906270 original size:20 final size:22
Alignment explanation
Indices: 102906242--102906282 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
102906232 TTATAATGAT
*
102906242 AAAATAAATT-GTT-AATTGAG
1 AAAAAAAATTAGTTCAATTGAG
102906262 AAAAAAAATTAGTTCAATTGA
1 AAAAAAAATTAGTTCAATTGA
102906283 TGGGTGAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 3 0.17
22 6 0.33
ACGTcount: A:0.54, C:0.02, G:0.12, T:0.32
Consensus pattern (22 bp):
AAAAAAAATTAGTTCAATTGAG
Found at i:102906812 original size:52 final size:48
Alignment explanation
Indices: 102906750--102906942 Score: 196
Period size: 47 Copynumber: 4.0 Consensus size: 48
102906740 GAAATGTGAT
* * *
102906750 TTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATGTGATTTGTGC
1 TTCCGTATAAGACCATAGCTGGGATATGGCATC-GAG---TGTGATATGTGC
* *
102906802 TTCCGTATAAGACCATATCCGGGATATGGCATCG-GTGTGATATGTGC
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
* * *
102906849 TACTGTATAAGACCATATCTGGGATATGGCATC-AGTGTGATATGTG-
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
* * * *
102906895 ATCCGTATAAGACCATGGCTGGGCTATGGCCTCG-GTATGTGATATGTG
1 TTCCGTATAAGACCATAGCTGGGATATGGCATCGAG--TGTGATATGTG
102906943 ACTATGTGCA
Statistics
Matches: 122, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
46 27 0.22
47 53 0.43
48 11 0.09
50 1 0.01
51 1 0.01
52 29 0.24
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (48 bp):
TTCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGC
Found at i:102913748 original size:21 final size:23
Alignment explanation
Indices: 102913701--102913754 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
102913691 CATTCAAGAT
**
102913701 AAAATAATATATAAAACTCTTTA
1 AAAATAATATATAAAACTAATTA
*
102913724 AAAATAATATAT-AAAC-AATTC
1 AAAATAATATATAAAACTAATTA
102913745 AAAAT-ATATA
1 AAAATAATATA
102913755 ATGTGTGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 7 0.25
22 4 0.14
23 12 0.43
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAATAATATATAAAACTAATTA
Found at i:102914014 original size:29 final size:28
Alignment explanation
Indices: 102913970--102914078 Score: 66
Period size: 29 Copynumber: 3.8 Consensus size: 28
102913960 TAAAAATATA
*
102913970 ATAAATAGAAATATAACAATAGTAGAAAT
1 ATAAATAGAAACATAACAATAG-AGAAAT
* *
102913999 ATAAATAGATAA-ATAAAAATTAGATAAAT
1 ATAAATAGA-AACATAACAA-TAGAGAAAT
*
102914028 A-ATAATAGTATTAGA-ATAACAA-A-ATAAAT
1 ATA-AATAG-A--A-ACATAACAATAGAGAAAT
*
102914057 ATAAATAGAAACATAATAATAG
1 ATAAATAGAAACATAACAATAG
102914079 TAGCAATAGT
Statistics
Matches: 66, Mismatches: 4, Indels: 21
0.73 0.04 0.23
Matches are distributed among these distances:
25 1 0.02
26 7 0.11
27 1 0.02
28 2 0.03
29 38 0.58
30 8 0.12
31 2 0.03
32 7 0.11
ACGTcount: A:0.63, C:0.03, G:0.08, T:0.26
Consensus pattern (28 bp):
ATAAATAGAAACATAACAATAGAGAAAT
Found at i:102914022 original size:15 final size:14
Alignment explanation
Indices: 102913949--102914078 Score: 63
Period size: 15 Copynumber: 9.0 Consensus size: 14
102913939 ATATTACTAT
*
102913949 ATAAATAGAAATA-
1 ATAAATAAAAATAG
*
102913962 AAAATATAATAAATAG
1 ATAA-ATAA-AAATAG
*
102913978 A-AATATAACAATAG
1 ATAA-ATAAAAATAG
* *
102913992 TAGAAATATAAATAG
1 -ATAAATAAAAATAG
102914007 ATAAATAAAAATTAG
1 ATAAATAAAAA-TAG
*
102914022 ATAAATAATAATAG
1 ATAAATAAAAATAG
*
102914036 TATTAGAATAACAA-A-
1 -A-TA-AATAAAAATAG
*
102914051 ATAAATATAAATAG
1 ATAAATAAAAATAG
*
102914065 A-AACATAATAATAG
1 ATAA-ATAAAAATAG
102914079 TAGCAATAGT
Statistics
Matches: 92, Mismatches: 13, Indels: 23
0.72 0.10 0.18
Matches are distributed among these distances:
12 6 0.07
13 8 0.09
14 30 0.33
15 35 0.38
16 6 0.07
17 7 0.08
ACGTcount: A:0.65, C:0.02, G:0.08, T:0.25
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:102914476 original size:5 final size:5
Alignment explanation
Indices: 102914468--102914499 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
102914458 ATAATTTAAT
102914468 AATAA AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AATAA AA
102914500 ATCAAATCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:102915641 original size:3 final size:3
Alignment explanation
Indices: 102915633--102915664 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
102915623 CCTCCTTATT
*
102915633 TTC TTC TTC TTC TTC TTC TTC TTC TTC ATC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
102915665 TAGAAAATCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.03, C:0.31, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:102925292 original size:3 final size:3
Alignment explanation
Indices: 102925286--102925315 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
102925276 CATCACCACG
102925286 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
102925316 AAGAATCATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:102925710 original size:14 final size:14
Alignment explanation
Indices: 102925691--102925743 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 14
102925681 CAATAGAGAA
102925691 ATATATATATATAC
1 ATATATATATATAC
*
102925705 ATATATGTATATGA-
1 ATATATATATAT-AC
102925719 ATATAT-TCATATAC
1 ATATATAT-ATATAC
*
102925733 ATATACATATA
1 ATATATATATA
102925744 ACACTCATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
13 2 0.06
14 29 0.88
15 2 0.06
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.42
Consensus pattern (14 bp):
ATATATATATATAC
Found at i:102929589 original size:17 final size:17
Alignment explanation
Indices: 102929569--102929603 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
102929559 TTAAGCTTTT
102929569 AAAAGTTAAAACT-AAAA
1 AAAAG-TAAAACTGAAAA
102929586 AAAAGTAAAACTGAAAA
1 AAAAGTAAAACTGAAAA
102929603 A
1 A
102929604 GGGAAGGTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.71, C:0.06, G:0.09, T:0.14
Consensus pattern (17 bp):
AAAAGTAAAACTGAAAA
Found at i:102935292 original size:26 final size:26
Alignment explanation
Indices: 102935262--102935313 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
102935252 GTTAGAAAAA
102935262 AATATTAGAAACAGGGGACACACAAC
1 AATATTAGAAACAGGGGACACACAAC
*
102935288 AATATTAGAAATAGGGGACACACAAC
1 AATATTAGAAACAGGGGACACACAAC
102935314 CATGTCCCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.50, C:0.17, G:0.19, T:0.13
Consensus pattern (26 bp):
AATATTAGAAACAGGGGACACACAAC
Found at i:102936298 original size:71 final size:71
Alignment explanation
Indices: 102936180--102936527 Score: 315
Period size: 71 Copynumber: 4.9 Consensus size: 71
102936170 TGCTTAGCAT
* * * * * * * *
102936180 TGGTCGGTAAAACTGACAAATAAGTGTTCCCAACACTAGTCGATATAACTGGCAATAAATGCGCC
1 TGGTCGGTAGAACAGAAAAATAAGTGTACCCAGCACTAGTTGGTATAACTGACAATAAATGCGCC
* *
102936245 TTGTGT
66 TTGCGC
* * * ** * **
102936251 TGGTCGGTAGAACAAAAAAAAAAGTGTACTCAGCACTAGTTGGTATAACCAACAATAAATGTGTT
1 TGGTCGGTAGAACAGAAAAATAAGTGTACCCAGCACTAGTTGGTATAACTGACAATAAATGCGCC
102936316 TTGCGC
66 TTGCGC
* ** * * * * * **
102936322 TGGTCGATAGAATC-GCCAAATAAGTGTGCCCAACATTGGTTGGTATAACCGACAATAAATAAGC
1 TGGTCGGTAGAA-CAGAAAAATAAGTGTACCCAGCACTAGTTGGTATAACTGACAATAAATGCGC
**
102936386 CTTGCAT
65 CTTGCGC
* * * * *
102936393 TGGTCGGTAGAATAGATAAATAAGTGTACCCAGCACTGGTTGGTATAA-TCGACAACAAATGCAC
1 TGGTCGGTAGAACAGAAAAATAAGTGTACCCAGCACTAGTTGGTATAACT-GACAATAAATGCGC
102936457 CTTGCGC
65 CTTGCGC
* * *
102936464 TGGTCGGTAGAACCGAAAAATAAGT-TGCCCAGCACTAGTCGGTATAACTGACAATAAATGCGCC
1 TGGTCGGTAGAACAGAAAAATAAGTGTACCCAGCACTAGTTGGTATAACTGACAATAAATGCGCC
102936528 CTGTACTGGT
Statistics
Matches: 216, Mismatches: 57, Indels: 9
0.77 0.20 0.03
Matches are distributed among these distances:
70 32 0.15
71 183 0.85
72 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.24
Consensus pattern (71 bp):
TGGTCGGTAGAACAGAAAAATAAGTGTACCCAGCACTAGTTGGTATAACTGACAATAAATGCGCC
TTGCGC
Found at i:102936436 original size:142 final size:142
Alignment explanation
Indices: 102936180--102936522 Score: 391
Period size: 142 Copynumber: 2.4 Consensus size: 142
102936170 TGCTTAGCAT
* * * * * * **
102936180 TGGTCGGTAAAACTGACAAATAAGTGTTCCCAACACTAGTCGATATAACTGGCAATAAATGCGCC
1 TGGTCGATAGAACCGACAAATAAGTGTGCCCAACACTAGTCGGTATAACTGACAATAAATAAGCC
** * *
102936245 TTGTGTTGGTCGGTAGAACAAAAAAAAAAGTGTACTCAGCACTAGTTGGTATAACCAACAATAAA
66 TTGCATTGGTCGGTAGAACAAAAAAAAAAGTGTACCCAGCACTAGTTGGTATAACCAACAACAAA
****
102936310 TGTGTTTTGCGC
131 TGCACCTTGCGC
* * * * * *
102936322 TGGTCGATAGAATCGCCAAATAAGTGTGCCCAACATTGGTTGGTATAACCGACAATAAATAAGCC
1 TGGTCGATAGAACCGACAAATAAGTGTGCCCAACACTAGTCGGTATAACTGACAATAAATAAGCC
* * * * * * *
102936387 TTGCATTGGTCGGTAGAATAGATAAATAAGTGTACCCAGCACTGGTTGGTATAATCGACAACAAA
66 TTGCATTGGTCGGTAGAACAAAAAAAAAAGTGTACCCAGCACTAGTTGGTATAACCAACAACAAA
102936452 TGCACCTTGCGC
131 TGCACCTTGCGC
* * *
102936464 TGGTCGGTAGAACCGAAAAATAAGT-TGCCCAGCACTAGTCGGTATAACTGACAATAAAT
1 TGGTCGATAGAACCGACAAATAAGTGTGCCCAACACTAGTCGGTATAACTGACAATAAAT
102936523 GCGCCCTGTA
Statistics
Matches: 163, Mismatches: 38, Indels: 1
0.81 0.19 0.00
Matches are distributed among these distances:
141 29 0.18
142 134 0.82
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.25
Consensus pattern (142 bp):
TGGTCGATAGAACCGACAAATAAGTGTGCCCAACACTAGTCGGTATAACTGACAATAAATAAGCC
TTGCATTGGTCGGTAGAACAAAAAAAAAAGTGTACCCAGCACTAGTTGGTATAACCAACAACAAA
TGCACCTTGCGC
Found at i:102936561 original size:142 final size:142
Alignment explanation
Indices: 102936180--102936561 Score: 387
Period size: 142 Copynumber: 2.7 Consensus size: 142
102936170 TGCTTAGCAT
* * * * *
102936180 TGGTCGGTAAAACTGACAAATAAGTGTTCCCAACACTAGTCGATATAACTGGCAATAAATGCGCC
1 TGGTCGGTAGAACCGACAAATAAGTGTGCCCAACACTAGTCGGTATAACTGACAATAAATGCGCC
* * *
102936245 TTGTGTTGGTCGGTAGAACAAA--AAAAA-AAGTGTACTCAGCACTAGTTGGTATAACCAACAAT
66 TTGTATTGGTCGG-A-AA-AAACGAAAAATAAGTGTACCCAGCACTAGTTGGTATAACCAACAAC
****
102936307 AAATGTGTTTTGCGC
128 AAATGCACCTTGCGC
* * * * * * * **
102936322 TGGTCGATAGAATCGCCAAATAAGTGTGCCCAACATTGGTTGGTATAACCGACAATAAATAAGCC
1 TGGTCGGTAGAACCGACAAATAAGTGTGCCCAACACTAGTCGGTATAACTGACAATAAATGCGCC
* * * * * * *
102936387 TTGCATTGGTCGGTAGAATA-GATAAATAAGTGTACCCAGCACTGGTTGGTATAATCGACAACAA
66 TTGTATTGGTCGG-AAAAAACGAAAAATAAGTGTACCCAGCACTAGTTGGTATAACCAACAACAA
102936451 ATGCACCTTGCGC
130 ATGCACCTTGCGC
* *
102936464 TGGTCGGTAGAACCGAAAAATAAGT-TGCCCAGCACTAGTCGGTATAACTGACAATAAATGCGCC
1 TGGTCGGTAGAACCGACAAATAAGTGTGCCCAACACTAGTCGGTATAACTGACAATAAATGCGCC
* * *
102936528 CTGTACTGGTCGGAAAAAACCGAAAAATTAGTGT
66 TTGTATTGGTCGGAAAAAA-CGAAAAATAAGTGT
102936562 TCATTCATTT
Statistics
Matches: 190, Mismatches: 46, Indels: 8
0.78 0.19 0.03
Matches are distributed among these distances:
140 6 0.03
141 47 0.25
142 137 0.72
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (142 bp):
TGGTCGGTAGAACCGACAAATAAGTGTGCCCAACACTAGTCGGTATAACTGACAATAAATGCGCC
TTGTATTGGTCGGAAAAAACGAAAAATAAGTGTACCCAGCACTAGTTGGTATAACCAACAACAAA
TGCACCTTGCGC
Found at i:102939685 original size:79 final size:82
Alignment explanation
Indices: 102939574--102939758 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
102939564 GCTACTCGTT
* * *
102939574 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
102939637 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
102939654 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
102939717 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
102939734 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
102939759 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:102939758 original size:40 final size:40
Alignment explanation
Indices: 102939555--102939758 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
102939545 CGGAATTTAA
** *
102939555 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
102939595 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
102939635 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
102939674 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
102939714 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
102939754 CCGGA
1 CCGGA
102939759 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:102941457 original size:13 final size:13
Alignment explanation
Indices: 102941439--102941470 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
102941429 TTTCCAGCAA
102941439 TTATGAATTTATT
1 TTATGAATTTATT
102941452 TTATGAATTTATT
1 TTATGAATTTATT
*
102941465 TGATGA
1 TTATGA
102941471 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:102941678 original size:50 final size:50
Alignment explanation
Indices: 102941565--102941806 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
102941555 ATTTGGGTAA
* * *
102941565 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
102941621 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
102941671 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
102941721 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
102941771 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
102941807 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:102941754 original size:100 final size:103
Alignment explanation
Indices: 102941565--102941814 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
102941555 ATTTGGGTAA
102941565 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
102941630 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
102941671 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
102941733 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
102941771 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
102941815 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:102948567 original size:71 final size:71
Alignment explanation
Indices: 102948492--102948639 Score: 163
Period size: 71 Copynumber: 2.1 Consensus size: 71
102948482 GGACTTCGAT
* ** * * * * *
102948492 CGATACCTTAAAGACTTCTACTGAAACAAGTCAAGTC-AGTAGCCAAAGTTCAACATCTCCTACT
1 CGATACCTTAAAGAATTCTACCAAAAAAAGTAAAGCCAAG-AGCCAAAGTTCAACATCCCCTACA
102948556 CTTCTAC
65 CTTCTAC
* * * *
102948563 CGATACCTTGAGGAATTCTACCAAAAAAAGTAAAGCCAAGCGCCAAAGTTCAGCATCCCCTACAC
1 CGATACCTTAAAGAATTCTACCAAAAAAAGTAAAGCCAAGAGCCAAAGTTCAACATCCCCTACAC
102948628 TTCTAC
66 TTCTAC
*
102948634 TGATAC
1 CGATAC
102948640 TCTGATGGGT
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
71 61 0.97
72 2 0.03
ACGTcount: A:0.35, C:0.28, G:0.13, T:0.24
Consensus pattern (71 bp):
CGATACCTTAAAGAATTCTACCAAAAAAAGTAAAGCCAAGAGCCAAAGTTCAACATCCCCTACAC
TTCTAC
Found at i:102950672 original size:26 final size:26
Alignment explanation
Indices: 102950636--102950745 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
102950626 TGATACAGAT
102950636 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
102950662 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
102950688 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
102950714 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
102950740 TGATAA
1 TGATAA
102950746 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:102952395 original size:27 final size:27
Alignment explanation
Indices: 102952365--102952477 Score: 111
Period size: 27 Copynumber: 4.2 Consensus size: 27
102952355 GAGGAAGCGT
* *
102952365 TCTGATGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
102952392 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
***
102952419 TCTGGTGGCTCTGCCACGGTTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
102952447 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
102952473 TCTGG
1 TCTGG
102952478 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
26 5 0.07
27 53 0.73
28 15 0.21
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Done.