Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 29 of 207
Found at i:8506306 original size:10 final size:10
Alignment explanation
Indices: 8506291--8506324 Score: 68
Period size: 10 Copynumber: 3.4 Consensus size: 10
8506281 CCTTCATAGT
8506291 AACCTTAAGC
1 AACCTTAAGC
8506301 AACCTTAAGC
1 AACCTTAAGC
8506311 AACCTTAAGC
1 AACCTTAAGC
8506321 AACC
1 AACC
8506325 ACTCCCTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.41, C:0.32, G:0.09, T:0.18
Consensus pattern (10 bp):
AACCTTAAGC
Found at i:8509793 original size:21 final size:22
Alignment explanation
Indices: 8509750--8509795 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
8509740 CTGAAATTTA
8509750 TAAAATGTAACTAACCTAAATAC
1 TAAAATGTAACT-ACCTAAATAC
8509773 TAAAAT-TAACT-CCTAAAATAC
1 TAAAATGTAACTACCT-AAATAC
8509794 TA
1 TA
8509796 TAAAAACTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 3 0.14
21 8 0.36
22 5 0.23
23 6 0.27
ACGTcount: A:0.52, C:0.17, G:0.02, T:0.28
Consensus pattern (22 bp):
TAAAATGTAACTACCTAAATAC
Found at i:8510413 original size:27 final size:27
Alignment explanation
Indices: 8510383--8510434 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
8510373 CAGCTAACTT
*
8510383 CTTAACTGCTAACTA-ACTTAGTAACCA
1 CTTAACTACTAAC-AGACTTAGTAACCA
8510410 CTTAACTACTAACAGACTTAGTAAC
1 CTTAACTACTAACAGACTTAGTAAC
8510435 GGCTTTTAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 1 0.04
27 22 0.96
ACGTcount: A:0.38, C:0.25, G:0.08, T:0.29
Consensus pattern (27 bp):
CTTAACTACTAACAGACTTAGTAACCA
Found at i:8511546 original size:209 final size:209
Alignment explanation
Indices: 8511186--8511590 Score: 801
Period size: 209 Copynumber: 1.9 Consensus size: 209
8511176 TATTATTAGA
*
8511186 AAATAGTCATTGGCTTCATTGTATCCTCGAGGTTAATTTGCTTGGAACTCATTTGCACACTGAAG
1 AAATAGTCATTGGCTTCATTGTATCCTCGAGGTTAATTTACTTGGAACTCATTTGCACACTGAAG
8511251 ATGTACTACCAATACATGGGTTAGACCAGACAGGTGGGGAAGGAAAGCACCAACCTGGAGAACAC
66 ATGTACTACCAATACATGGGTTAGACCAGACAGGTGGGGAAGGAAAGCACCAACCTGGAGAACAC
8511316 CACTGAGGATTTTGCGGAGGAGAGGGAAACCAAGATGCAGAAGAACCGGAACCAACCAGGCACAT
131 CACTGAGGATTTTGCGGAGGAGAGGGAAACCAAGATGCAGAAGAACCGGAACCAACCAGGCACAT
8511381 ACACAGCAAAACGC
196 ACACAGCAAAACGC
8511395 AAATAGTCATTGGCTTCATTGTATCCTCGAGGTTAATTTACTTGGAACTCATTTGCACACTGAAG
1 AAATAGTCATTGGCTTCATTGTATCCTCGAGGTTAATTTACTTGGAACTCATTTGCACACTGAAG
8511460 ATGTACTACCAATACATGGGTTAGACCAGACAGGTGGGGAAGGAAAGCACCAACCTGGAGAACAC
66 ATGTACTACCAATACATGGGTTAGACCAGACAGGTGGGGAAGGAAAGCACCAACCTGGAGAACAC
8511525 CACTGAGGATTTTGCGGAGGAGAGGGAAACCAAGATGCAGAAGAACCGGAACCAACCAGGCACAT
131 CACTGAGGATTTTGCGGAGGAGAGGGAAACCAAGATGCAGAAGAACCGGAACCAACCAGGCACAT
8511590 A
196 A
8511591 TTTGCTTGAG
Statistics
Matches: 195, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
209 195 1.00
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.19
Consensus pattern (209 bp):
AAATAGTCATTGGCTTCATTGTATCCTCGAGGTTAATTTACTTGGAACTCATTTGCACACTGAAG
ATGTACTACCAATACATGGGTTAGACCAGACAGGTGGGGAAGGAAAGCACCAACCTGGAGAACAC
CACTGAGGATTTTGCGGAGGAGAGGGAAACCAAGATGCAGAAGAACCGGAACCAACCAGGCACAT
ACACAGCAAAACGC
Found at i:8513471 original size:23 final size:24
Alignment explanation
Indices: 8513432--8513480 Score: 82
Period size: 23 Copynumber: 2.1 Consensus size: 24
8513422 GTTAATAATT
8513432 AATTAATTTTTTAAAAAAATTAAA
1 AATTAATTTTTTAAAAAAATTAAA
*
8513456 AATT-ATTTTTTTAAAAAATTAAA
1 AATTAATTTTTTAAAAAAATTAAA
8513479 AA
1 AA
8513481 GTGTAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
AATTAATTTTTTAAAAAAATTAAA
Found at i:8514845 original size:21 final size:21
Alignment explanation
Indices: 8514821--8514872 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
8514811 GCGGTTGCCT
* **
8514821 TGAGATTAGTTACTGTAGTAG
1 TGAGATTAGATACTGTAACAG
* *
8514842 TGAGATTGGATGCTGTAACAG
1 TGAGATTAGATACTGTAACAG
8514863 TGAGATTAGA
1 TGAGATTAGA
8514873 AACAGCGGTG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.31, C:0.06, G:0.31, T:0.33
Consensus pattern (21 bp):
TGAGATTAGATACTGTAACAG
Found at i:8516107 original size:10 final size:10
Alignment explanation
Indices: 8516092--8516117 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
8516082 TTTTTTAAAA
8516092 AAATATTTAC
1 AAATATTTAC
8516102 AAATATTTAC
1 AAATATTTAC
8516112 AAATAT
1 AAATAT
8516118 CAAATAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (10 bp):
AAATATTTAC
Found at i:8520669 original size:2 final size:2
Alignment explanation
Indices: 8520658--8520692 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
8520648 GAGTTACCAA
8520658 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8520693 TAAGTATACA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:8522213 original size:26 final size:28
Alignment explanation
Indices: 8522162--8522213 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 28
8522152 TTTTATTGTG
*
8522162 AATAGTTTTAGATAAAAATTAAAAATTT
1 AATAGTTTTAGATAAAAATAAAAAATTT
8522190 AATA-TTTTA-AT-AAAATAAAGAAAT
1 AATAGTTTTAGATAAAAATAAA-AAAT
8522214 AAATTATTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 7 0.32
26 6 0.27
27 5 0.23
28 4 0.18
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.37
Consensus pattern (28 bp):
AATAGTTTTAGATAAAAATAAAAAATTT
Found at i:8526514 original size:443 final size:443
Alignment explanation
Indices: 8525681--8526563 Score: 1694
Period size: 443 Copynumber: 2.0 Consensus size: 443
8525671 GTATAGAGTG
8525681 TTGACAACATTTTTTGATGAAAAACGGGGTCGACTTGGGTTTTGAAAAATGAAACGGGAGTCGCC
1 TTGACAACATTTTTTGATGAAAAACGGGGTCGACTTGGGTTTTGAAAAATGAAACGGGAGTCGCC
*
8525746 ACCAATTCTTTTTTATGAGGTGTGATTGGATCACCTTGAAAAGTGATTGTTTTTAATAAACGGTT
66 ACCAATCCTTTTTTATGAGGTGTGATTGGATCACCTTGAAAAGTGATTGTTTTTAATAAACGGTT
8525811 TGATTTTATTAAAACAACAGGTTTGGTCCACGAAATTCAGAAAAACGGGTTCGGGAGTCGGTTAC
131 TGATTTTATTAAAACAACAGGTTTGGTCCACGAAATTCAGAAAAACGGGTTCGGGAGTCGGTTAC
8525876 GCACGAGGAAGGATTAGCACCCTCGATACGCCCAAAATCGGTACCTTAGTTGATTACTTAATGTC
196 GCACGAGGAAGGATTAGCACCCTCGATACGCCCAAAATCGGTACCTTAGTTGATTACTTAATGTC
8525941 TTAATGTCGAAAAGCTGAAAACTTTAAAGAAATTTAAAAAATACGATCCTTGTATTAAAAAGTTG
261 TTAATGTCGAAAAGCTGAAAACTTTAAAGAAATTTAAAAAATACGATCCTTGTATTAAAAAGTTG
8526006 AAAATTTTGGAAAAAATGACATATTTCACGTTAATCGAGAAAAGACATCATATCCAGCAAGTTAG
326 AAAATTTTGGAAAAAATGACATATTTCACGTTAATCGAGAAAAGACATCATATCCAGCAAGTTAG
8526071 GATACAACGTCTCGAATTCTCGATACTAGAGTGAATGCTAAAATGTTACCAAC
391 GATACAACGTCTCGAATTCTCGATACTAGAGTGAATGCTAAAATGTTACCAAC
*
8526124 TTGACACCATTTTTTGATGAAAAACGGGGTCGACTTGGGTTTTGAAAAATGAAACGGGAGTCGCC
1 TTGACAACATTTTTTGATGAAAAACGGGGTCGACTTGGGTTTTGAAAAATGAAACGGGAGTCGCC
*
8526189 ACCAATCCTTTTTTATGAGGTGTGATTGGATCACCTTGAAAAGTGGTTGTTTTTAATAAACGGTT
66 ACCAATCCTTTTTTATGAGGTGTGATTGGATCACCTTGAAAAGTGATTGTTTTTAATAAACGGTT
8526254 TGATTTTATTAAAACAACAGGTTTGGTCCACGAAATTCAGAAAAACGGGTTCGGGAGTCGGTTAC
131 TGATTTTATTAAAACAACAGGTTTGGTCCACGAAATTCAGAAAAACGGGTTCGGGAGTCGGTTAC
*
8526319 GCACGAGGAAGGATTAGCACCCTCGATACGCCCAAAATTGGTACCTTAGTTGATTACTTAATGTC
196 GCACGAGGAAGGATTAGCACCCTCGATACGCCCAAAATCGGTACCTTAGTTGATTACTTAATGTC
*
8526384 TTAATGTCGAAAAGTTGAAAACTTTAAAGAAATTTAAAAAATACGATCCTTGTATTAAAAAGTTG
261 TTAATGTCGAAAAGCTGAAAACTTTAAAGAAATTTAAAAAATACGATCCTTGTATTAAAAAGTTG
* * *
8526449 AAAATTTTGGAAAAAGTGGCATTTTTCACGTTAATCGAGAAAAGACATCATATCCAGCAAGTTAG
326 AAAATTTTGGAAAAAATGACATATTTCACGTTAATCGAGAAAAGACATCATATCCAGCAAGTTAG
8526514 GATACAACGTCTCGAATTCTCGATACTAGAGTGAATGCTAAAATGTTACC
391 GATACAACGTCTCGAATTCTCGATACTAGAGTGAATGCTAAAATGTTACC
8526564 CCTTTTCAAA
Statistics
Matches: 432, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
443 432 1.00
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (443 bp):
TTGACAACATTTTTTGATGAAAAACGGGGTCGACTTGGGTTTTGAAAAATGAAACGGGAGTCGCC
ACCAATCCTTTTTTATGAGGTGTGATTGGATCACCTTGAAAAGTGATTGTTTTTAATAAACGGTT
TGATTTTATTAAAACAACAGGTTTGGTCCACGAAATTCAGAAAAACGGGTTCGGGAGTCGGTTAC
GCACGAGGAAGGATTAGCACCCTCGATACGCCCAAAATCGGTACCTTAGTTGATTACTTAATGTC
TTAATGTCGAAAAGCTGAAAACTTTAAAGAAATTTAAAAAATACGATCCTTGTATTAAAAAGTTG
AAAATTTTGGAAAAAATGACATATTTCACGTTAATCGAGAAAAGACATCATATCCAGCAAGTTAG
GATACAACGTCTCGAATTCTCGATACTAGAGTGAATGCTAAAATGTTACCAAC
Found at i:8527433 original size:3 final size:3
Alignment explanation
Indices: 8527418--8527486 Score: 61
Period size: 3 Copynumber: 23.3 Consensus size: 3
8527408 AATACTAACG
* ** * *
8527418 ATA ATA GTA ATA ATA ATA ACC ATA ATA ATA GTA A-A CTA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
8527465 TTTA A-A ATA ATA ATA ATA ATA A
1 -ATA ATA ATA ATA ATA ATA ATA A
8527487 CATAAAATTG
Statistics
Matches: 51, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
2 3 0.06
3 46 0.90
4 2 0.04
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:8527543 original size:29 final size:28
Alignment explanation
Indices: 8527499--8527589 Score: 94
Period size: 29 Copynumber: 3.1 Consensus size: 28
8527489 TAAAATTGCT
8527499 AAAATAT-GGGCTAAATCGAAATAAAACA
1 AAAATATAGGGCTAAATCGAAATAAAA-A
* * *
8527527 AAAATATAGGGCGAAATTGAAAGAAAAA
1 AAAATATAGGGCTAAATCGAAATAAAAA
* *
8527555 TAAAATAAAAGGGACTAAATCAAAATAAAAA
1 -AAAAT-ATAGGG-CTAAATCGAAATAAAAA
8527586 AAAA
1 AAAA
8527590 GAAACTGGGC
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
28 8 0.16
29 21 0.41
30 9 0.18
31 13 0.25
ACGTcount: A:0.64, C:0.07, G:0.14, T:0.15
Consensus pattern (28 bp):
AAAATATAGGGCTAAATCGAAATAAAAA
Found at i:8529112 original size:44 final size:43
Alignment explanation
Indices: 8529021--8529433 Score: 271
Period size: 44 Copynumber: 9.6 Consensus size: 43
8529011 GGTCTATTCC
* * * *
8529021 ACTGTAATCTCAGGGAAATAAGACCTGACA---CGATCTACTCT
1 ACTGTAATCTCAGGGAGATAAGATCT-ACATTTCAATCTGCTCT
* * * * * *
8529062 GCTGTAA-CTTCAGAGAGATAAGATCCTTCATTTTAATCCGCTCC
1 ACTGTAATC-TCAGGGAGATAAGAT-CTACATTTCAATCTGCTCT
* *
8529106 ACTGTAATCTCAGGGAGATAGGAT-TACTAGCTTCAATCTGCTCT
1 ACTGTAATCTCAGGGAGATAAGATCTAC-A-TTTCAATCTGCTCT
* *
8529150 TCTGTAATCTCAGGGAGATAAGATCTGACA---CAATCTACTCT
1 ACTGTAATCTCAGGGAGATAAGATCT-ACATTTCAATCTGCTCT
* * * * * *
8529191 ACTGTAA-CTTCAGAGAGATAAGATCCTTCGTTTTAATCCGCTCC
1 ACTGTAATC-TCAGGGAGATAAGAT-CTACATTTCAATCTGCTCT
* *
8529235 ACTGTAATCTCAGGGAGATAGGAT-TACTAGCTTCAATCTGCTCT
1 ACTGTAATCTCAGGGAGATAAGATCTAC-A-TTTCAATCTGCTCT
* * *
8529279 TCTGTAATCTCAGGGAGATAAGATCTGACA---CGATCTACTCT
1 ACTGTAATCTCAGGGAGATAAGATCT-ACATTTCAATCTGCTCT
* * * * * *
8529320 ACTGTAA-CTTCAGAGAGATAAGATCATTCGTTTTAATCCGCTCC
1 ACTGTAATC-TCAGGGAGATAAGATC-TACATTTCAATCTGCTCT
* * *
8529364 ACTGTAATATCAGGGAGATAGGAT-TACTATCTTCAATCTGCTCC
1 ACTGTAATCTCAGGGAGATAAGATCTAC-AT-TTCAATCTGCTCT
*
8529408 GCTGTAATCTCAGGGAGATAAGATCT
1 ACTGTAATCTCAGGGAGATAAGATCT
8529434 GAAATTCTTC
Statistics
Matches: 283, Mismatches: 60, Indels: 54
0.71 0.15 0.14
Matches are distributed among these distances:
40 3 0.01
41 82 0.29
42 11 0.04
43 2 0.01
44 174 0.61
45 7 0.02
46 4 0.01
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.30
Consensus pattern (43 bp):
ACTGTAATCTCAGGGAGATAAGATCTACATTTCAATCTGCTCT
Found at i:8529186 original size:129 final size:129
Alignment explanation
Indices: 8529022--8529435 Score: 738
Period size: 129 Copynumber: 3.2 Consensus size: 129
8529012 GTCTATTCCA
* * *
8529022 CTGTAATCTCAGGGAAATAAGACCTGACACGATCTACTCTGCTGTAACTTCAGAGAGATAAGATC
1 CTGTAATCTCAGGGAGATAAGATCTGACACGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
*
8529087 CTTCATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCTT
66 CTTCGTTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCTT
*
8529151 CTGTAATCTCAGGGAGATAAGATCTGACACAATCTACTCTACTGTAACTTCAGAGAGATAAGATC
1 CTGTAATCTCAGGGAGATAAGATCTGACACGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
8529216 CTTCGTTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCTT
66 CTTCGTTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCTT
8529280 CTGTAATCTCAGGGAGATAAGATCTGACACGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
1 CTGTAATCTCAGGGAGATAAGATCTGACACGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
* * * **
8529345 ATTCGTTTTAATCCGCTCCACTGTAATATCAGGGAGATAGGATTACTATCTTCAATCTGCTCCG
66 CTTCGTTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCTT
8529409 CTGTAATCTCAGGGAGATAAGATCTGA
1 CTGTAATCTCAGGGAGATAAGATCTGA
8529436 AATTCTTCGG
Statistics
Matches: 274, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
129 274 1.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (129 bp):
CTGTAATCTCAGGGAGATAAGATCTGACACGATCTACTCTACTGTAACTTCAGAGAGATAAGATC
CTTCGTTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCTT
Found at i:8529195 original size:85 final size:84
Alignment explanation
Indices: 8529096--8529435 Score: 260
Period size: 85 Copynumber: 4.0 Consensus size: 84
8529086 CCTTCATTTT
* * * **
8529096 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCTTCTGTAATCTC
1 AATCTGCTCTACTGTAATCTCAGGGAGATAAGA-TACTAGCTTCAATCTGCTCCACTGTAATCTC
*
8529161 AGGGAGATAAGATCTGACAC
65 AGGGAGATAAGATCTGACTC
* * * * * * *
8529181 AATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTCGTTTTAATCCGCTCCACTGTAATCT
1 AATCTGCTCTACTGTAATC-TCAGGGAGATAAGATAC-TAGCTTCAATCTGCTCCACTGTAATCT
*
8529245 CAGGGAGATAGGATTACT-AGCTTC
64 CAGGGAGATAAGA-T-CTGA-C-TC
* * * * *
8529269 AATCTGCTCTTCTGTAATCTCAGGGAGATAAGAT-CT-GAC-ACGATCTACTCTACTGTAA-CTT
1 AATCTGCTCTACTGTAATCTCAGGGAGATAAGATACTAG-CTTCAATCTGCTCCACTGTAATC-T
* ** *
8529330 CAGAGAGATAAGATCATTCGTTTT
64 CAGGGAGATAAGATC--T-GACTC
* * * * * *
8529354 AATCCGCTCCACTGTAATATCAGGGAGATAGGATTACTATCTTCAATCTGCTCCGCTGTAATCTC
1 AATCTGCTCTACTGTAATCTCAGGGAGATAAGA-TACTAGCTTCAATCTGCTCCACTGTAATCTC
8529419 AGGGAGATAAGATCTGA
65 AGGGAGATAAGATCTGA
8529436 AATTCTTCGG
Statistics
Matches: 195, Mismatches: 42, Indels: 36
0.71 0.15 0.13
Matches are distributed among these distances:
83 1 0.01
84 5 0.03
85 116 0.59
86 5 0.03
87 7 0.04
88 59 0.30
89 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (84 bp):
AATCTGCTCTACTGTAATCTCAGGGAGATAAGATACTAGCTTCAATCTGCTCCACTGTAATCTCA
GGGAGATAAGATCTGACTC
Found at i:8543207 original size:25 final size:25
Alignment explanation
Indices: 8543131--8543209 Score: 68
Period size: 25 Copynumber: 3.0 Consensus size: 25
8543121 AATACTAACG
*
8543131 ATAATAGTAATATATAACCATAATAATA
1 ATAATAATAATA-ATAA-CATAA-AATA
* ***
8543159 ATAGTAAACTAATAATATTTTAAAATA
1 ATAAT-AA-TAATAATAACATAAAATA
8543186 ATAATAATAATAATAACATAAAAT
1 ATAATAATAATAATAACATAAAAT
8543210 TGCTAAAATA
Statistics
Matches: 40, Mismatches: 9, Indels: 7
0.71 0.16 0.12
Matches are distributed among these distances:
25 14 0.35
26 2 0.05
27 8 0.20
28 7 0.17
29 4 0.10
30 5 0.12
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (25 bp):
ATAATAATAATAATAACATAAAATA
Found at i:8543258 original size:29 final size:28
Alignment explanation
Indices: 8543214--8543303 Score: 92
Period size: 29 Copynumber: 3.1 Consensus size: 28
8543204 TAAAATTGCT
8543214 AAAATAT-GGGCTAAATCGAAATAAAACA
1 AAAATATAGGGCTAAATCGAAATAAAA-A
* * *
8543242 AAAATATAGGGCGAAATTGAAAGAAAAA
1 AAAATATAGGGCTAAATCGAAATAAAAA
* *
8543270 TAAAATAAAAGGGACTAAATCAAAATAAAAA
1 -AAAAT-ATAGGG-CTAAATCGAAATAAAAA
8543301 AAA
1 AAA
8543304 GAAACTGGGC
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
28 8 0.16
29 21 0.42
30 8 0.16
31 13 0.26
ACGTcount: A:0.63, C:0.07, G:0.14, T:0.16
Consensus pattern (28 bp):
AAAATATAGGGCTAAATCGAAATAAAAA
Found at i:8553531 original size:20 final size:20
Alignment explanation
Indices: 8553469--8553532 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
8553459 TACTAGAAGA
* *
8553469 TTTAAAGATTTATCAACA-C
1 TTTAAGGATTTATCAAAATC
* * * * *
8553488 TTTATGAATTTACCAATATT
1 TTTAAGGATTTATCAAAATC
8553508 TTTAAGGATTTATCAAAATC
1 TTTAAGGATTTATCAAAATC
8553528 TTTAA
1 TTTAA
8553533 ATATTTGAGT
Statistics
Matches: 33, Mismatches: 11, Indels: 1
0.73 0.24 0.02
Matches are distributed among these distances:
19 13 0.39
20 20 0.61
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (20 bp):
TTTAAGGATTTATCAAAATC
Found at i:8555050 original size:15 final size:15
Alignment explanation
Indices: 8555030--8555083 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
8555020 ATACTAAAAA
8555030 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
8555045 ATATTTATAATTTTAAT
1 ATATTTAT--TATTAAT
*
8555062 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
8555079 ATATT
1 ATATT
8555084 AATATTGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 13 0.41
17 11 0.34
19 8 0.25
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:8555081 original size:19 final size:17
Alignment explanation
Indices: 8555028--8555077 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
8555018 TTATACTAAA
8555028 AAATATTTATTATTAAT
1 AAATATTTATTATTAAT
*
8555045 --ATATTTATAATTTTAAT
1 AAATATTTAT--TATTAAT
8555062 AAATATTTATTATTAA
1 AAATATTTATTATTAA
8555078 AATATTAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
15 8 0.30
17 11 0.41
19 8 0.30
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
AAATATTTATTATTAAT
Found at i:8556162 original size:13 final size:13
Alignment explanation
Indices: 8556146--8556172 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8556136 TATCAAATAA
8556146 AAAATTTACATTT
1 AAAATTTACATTT
8556159 AAAATTTACATTT
1 AAAATTTACATTT
8556172 A
1 A
8556173 TCAAACAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (13 bp):
AAAATTTACATTT
Found at i:8556738 original size:28 final size:28
Alignment explanation
Indices: 8556702--8556764 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 28
8556692 TTTAAATTTT
*
8556702 CAACA-CTTAAAT-TTTCAATTGATCAAA
1 CAACACCTT-AATCTTTCAATTGATAAAA
* * *
8556729 CAACACCTTATTCTTTCAGTTTATAAAA
1 CAACACCTTAATCTTTCAATTGATAAAA
8556757 CAACACCT
1 CAACACCT
8556765 AAGTGTTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 7 0.23
28 23 0.77
ACGTcount: A:0.40, C:0.24, G:0.03, T:0.33
Consensus pattern (28 bp):
CAACACCTTAATCTTTCAATTGATAAAA
Found at i:8557118 original size:18 final size:17
Alignment explanation
Indices: 8557081--8557113 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
8557071 GTGTATAAAA
8557081 CAATTAATATTAATTTT
1 CAATTAATATTAATTTT
8557098 CAATTAA-ATTAATTTT
1 CAATTAATATTAATTTT
8557114 TTCAACAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (17 bp):
CAATTAATATTAATTTT
Found at i:8563240 original size:30 final size:29
Alignment explanation
Indices: 8563173--8563240 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
8563163 GATTTCGCGG
*
8563173 AAAATGGCCCATTCCGGTAAATAATTAAA
1 AAAACGGCCCATTCCGGTAAATAATTAAA
* * *
8563202 AAACCGGCCCATTTCGGTAAAT-TTTGAAAA
1 AAAACGGCCCATTCCGGTAAATAATT--AAA
8563232 AAAACGGCC
1 AAAACGGCC
8563241 TTTTTTGGTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
28 2 0.06
29 19 0.59
30 11 0.34
ACGTcount: A:0.41, C:0.21, G:0.16, T:0.22
Consensus pattern (29 bp):
AAAACGGCCCATTCCGGTAAATAATTAAA
Found at i:8563413 original size:29 final size:30
Alignment explanation
Indices: 8563380--8563443 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 30
8563370 GTATATTTGG
*
8563380 AATTTAAT-CTCCATA-TTTCAATTTTCAAA
1 AATTTAATCCTCC-TACTTTCAATTTTAAAA
*
8563409 AATTTAATCCTTCTACTTTTCAATTTTAAAA
1 AATTTAATCCTCCTAC-TTTCAATTTTAAAA
8563440 AATT
1 AATT
8563444 AGGTTCATCT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 10 0.33
30 3 0.10
31 17 0.57
ACGTcount: A:0.38, C:0.16, G:0.00, T:0.47
Consensus pattern (30 bp):
AATTTAATCCTCCTACTTTCAATTTTAAAA
Found at i:8567080 original size:44 final size:44
Alignment explanation
Indices: 8567049--8567398 Score: 330
Period size: 44 Copynumber: 7.8 Consensus size: 44
8567039 TTGTCGTTTT
* *
8567049 AATCTGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTC
* * *
8567093 AATCTGCTCCACTGCAACTTTAGGGAGATAAGATTGGTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTC
* * *
8567137 AACCTGCTCCACTACAACTTCAAGGAGATAAGATTTG-A--TAT-
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCT-TC
* * * * *
8567178 GATCTTCTCTACTGCAACTTCAGAGAGATAAGATCTGCAATTTATAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGAT-A-A---G--ATTTGTAGCTTC
* * * * * *
8567229 AATCTGTTCCACTGCAACTTTAAGGAAATAAGATTCGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTC
* * *
8567274 AGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTC
* * * * * *
8567318 AATCTGCCCCACTGCAACTTCAGGGGGATAAAATTAGTGGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTC
*
8567362 AATCTGCTCCACTGCGACTTCAGGGAGATAAGATTTG
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
8567399 CCATAATGAC
Statistics
Matches: 242, Mismatches: 51, Indels: 26
0.76 0.16 0.08
Matches are distributed among these distances:
41 23 0.10
42 2 0.01
43 2 0.01
44 148 0.61
45 35 0.14
46 2 0.01
48 4 0.02
49 2 0.01
50 2 0.01
51 22 0.09
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.29
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTC
Found at i:8569382 original size:31 final size:31
Alignment explanation
Indices: 8569324--8569385 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
8569314 TAAAGAATGA
*
8569324 AATAAAAGAATATTTTGGCTAGAAATGAAAT
1 AATAAAAGAATATTTTAGCTAGAAATGAAAT
*
8569355 AATAAAAGAATATTTTAGTTATG-AATGAAAT
1 AATAAAAGAATATTTTAGCTA-GAAATGAAAT
8569386 GAAAAGGAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 27 0.96
32 1 0.04
ACGTcount: A:0.52, C:0.02, G:0.15, T:0.32
Consensus pattern (31 bp):
AATAAAAGAATATTTTAGCTAGAAATGAAAT
Found at i:8573715 original size:15 final size:15
Alignment explanation
Indices: 8573678--8573717 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 15
8573668 GGGTTATACT
8573678 AATATAAATAATAATG
1 AATAT-AATAATAATG
8573694 -ATAATAATAATAATG
1 AAT-ATAATAATAATG
8573709 AATATAATA
1 AATATAATA
8573718 TAGAAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 18 0.82
16 4 0.18
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (15 bp):
AATATAATAATAATG
Found at i:8573837 original size:23 final size:24
Alignment explanation
Indices: 8573811--8573869 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 24
8573801 GACTATACTG
*
8573811 AAATCAAAATAAAATTTGAAG-CA
1 AAATCAAAATAAAATTTAAAGACA
** *
8573834 AAATTCGTAAT-AAATTTAAAGATA
1 AAA-TCAAAATAAAATTTAAAGACA
8573858 AAATCAAAATAA
1 AAATCAAAATAA
8573870 GATTAAAATG
Statistics
Matches: 27, Mismatches: 6, Indels: 5
0.71 0.16 0.13
Matches are distributed among these distances:
23 17 0.63
24 10 0.37
ACGTcount: A:0.61, C:0.07, G:0.07, T:0.25
Consensus pattern (24 bp):
AAATCAAAATAAAATTTAAAGACA
Found at i:8575829 original size:13 final size:13
Alignment explanation
Indices: 8575811--8575840 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
8575801 CCTAATGGGA
8575811 TATTATAGGATAT
1 TATTATAGGATAT
*
8575824 TATTATGGGATAT
1 TATTATAGGATAT
8575837 TATT
1 TATT
8575841 TCTTAGCAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (13 bp):
TATTATAGGATAT
Found at i:8575847 original size:56 final size:56
Alignment explanation
Indices: 8575760--8575865 Score: 178
Period size: 56 Copynumber: 1.9 Consensus size: 56
8575750 AGGGTGTTGT
8575760 TAGGATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTAATGGGATATTA
1 TAGGATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTAATGGGATATTA
**
8575816 TAGGATATTATTATGGGATATTAT-TTCTTAGCAATTTGATTTGTAATGGG
1 TAGGATATTATTATGGGATATTATCTT-TTAGCAATTTGATTCCTAATGGG
8575866 GTTAAAGTGT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
55 2 0.04
56 45 0.96
ACGTcount: A:0.29, C:0.06, G:0.20, T:0.45
Consensus pattern (56 bp):
TAGGATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTAATGGGATATTA
Found at i:8579700 original size:16 final size:16
Alignment explanation
Indices: 8579681--8579728 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
8579671 TCTAAATTAC
8579681 AACTGAAGTAAAAAC-A
1 AACTGAA-TAAAAACTA
*
8579697 AACTTAATAAAAACTA
1 AACTGAATAAAAACTA
8579713 AACTGAA-AAACAACTA
1 AACTGAATAAA-AACTA
8579729 TTCATAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 10 0.36
16 18 0.64
ACGTcount: A:0.62, C:0.15, G:0.06, T:0.17
Consensus pattern (16 bp):
AACTGAATAAAAACTA
Found at i:8580849 original size:6 final size:6
Alignment explanation
Indices: 8580838--8580926 Score: 178
Period size: 6 Copynumber: 14.8 Consensus size: 6
8580828 TAGAAATTAA
8580838 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
8580886 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATA
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATA
8580927 ATCATTGAAA
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 83 1.00
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.34
Consensus pattern (6 bp):
ATATAC
Found at i:8582622 original size:20 final size:20
Alignment explanation
Indices: 8582583--8582622 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
8582573 CTTATTCTTG
**
8582583 AGTAATTTTCATGTCTTTTT
1 AGTAATTTTCATGTAATTTT
*
8582603 AGTAGTTTTCATGTAATTTT
1 AGTAATTTTCATGTAATTTT
8582623 TATTCTTTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.07, G:0.12, T:0.57
Consensus pattern (20 bp):
AGTAATTTTCATGTAATTTT
Found at i:8582996 original size:22 final size:22
Alignment explanation
Indices: 8582941--8582998 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
8582931 CTGATAAGGA
*
8582941 TATCACGATACCCTCCCATGGG
1 TATCACGATACCCTCCCATGAG
** * *
8582963 TATTGCGGTACCCTCCCCTGAG
1 TATCACGATACCCTCCCATGAG
8582985 TATCACGATACCCT
1 TATCACGATACCCT
8582999 TGTTGTATAA
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.21, C:0.36, G:0.17, T:0.26
Consensus pattern (22 bp):
TATCACGATACCCTCCCATGAG
Found at i:8583254 original size:25 final size:24
Alignment explanation
Indices: 8583220--8583272 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
8583210 TTTCTTTTCT
* *
8583220 TTTTCTTTTCATTTTTAGTTTAGG
1 TTTTCTTTTCATTTTTAGATTAGA
*
8583244 TTTTCTCTTTCCTTTTTAGATTAGA
1 TTTTCT-TTTCATTTTTAGATTAGA
8583269 TTTT
1 TTTT
8583273 ATTATTGTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.13, C:0.11, G:0.09, T:0.66
Consensus pattern (24 bp):
TTTTCTTTTCATTTTTAGATTAGA
Found at i:8591005 original size:17 final size:17
Alignment explanation
Indices: 8590983--8591016 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
8590973 GCATAATTTT
8590983 TTTTAAA-AAAAATCATA
1 TTTTAAACAAAAA-CATA
8591000 TTTTAAACAAAAACATA
1 TTTTAAACAAAAACATA
8591017 AAAATTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (17 bp):
TTTTAAACAAAAACATA
Found at i:8591074 original size:29 final size:26
Alignment explanation
Indices: 8591040--8591102 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 26
8591030 TATTATTGTT
*
8591040 TTTAAAATTCAAAAATCATGAAAAAACTC-
1 TTTAAAATT-AAAAA-AAT-AAAAAA-TCA
8591069 TTTAAAATTAAAAAAATAAAAAATCA
1 TTTAAAATTAAAAAAATAAAAAATCA
8591095 TTTAAAAT
1 TTTAAAAT
8591103 AATTTAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
25 2 0.06
26 14 0.44
27 2 0.06
28 5 0.16
29 9 0.28
ACGTcount: A:0.60, C:0.08, G:0.02, T:0.30
Consensus pattern (26 bp):
TTTAAAATTAAAAAAATAAAAAATCA
Found at i:8591787 original size:35 final size:37
Alignment explanation
Indices: 8591734--8591813 Score: 85
Period size: 36 Copynumber: 2.2 Consensus size: 37
8591724 TATGCTAAAA
** *
8591734 TTTTATATATTTTATAATTAAATTT-ACATA-AAATAT
1 TTTTATATATAATATAATTAAATTTAAAATAGAAAT-T
**
8591770 TTTTATATATAAT-TAATTTGATTTAAAATAGAAATT
1 TTTTATATATAATATAATTAAATTTAAAATAGAAATT
8591806 TTTTATAT
1 TTTTATAT
8591814 TTTTTAGAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
35 9 0.24
36 24 0.65
37 4 0.11
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (37 bp):
TTTTATATATAATATAATTAAATTTAAAATAGAAATT
Found at i:8596394 original size:44 final size:46
Alignment explanation
Indices: 8596299--8596394 Score: 117
Period size: 44 Copynumber: 2.2 Consensus size: 46
8596289 AAGACTCGTA
* **
8596299 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCATT
1 TCTTCGATCTACTTCACCACCAATACAGGAAGACAAGATCTGCATT
* * *
8596345 T-TTCGATCTACTTCA-CGCCAATACATGAAGACAATATCTGC-TT
1 TCTTCGATCTACTTCACCACCAATACAGGAAGACAAGATCTGCATT
8596388 TCTTCGA
1 TCTTCGA
8596395 CCGATTCCAC
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
43 3 0.07
44 25 0.58
45 14 0.33
46 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (46 bp):
TCTTCGATCTACTTCACCACCAATACAGGAAGACAAGATCTGCATT
Found at i:8597538 original size:662 final size:659
Alignment explanation
Indices: 8596415--8597981 Score: 2353
Period size: 662 Copynumber: 2.4 Consensus size: 659
8596405 TGCCGACCGG
* * *
8596415 GGGAA-TAGAATTACTGGCTTCAATATACTCCACTGCAACCTCAGGGAGGTAAAATTTGCCATCT
1 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCA-GGAGGTAAAATCTGCCATCT
* * * *
8596479 TTGATCTGTTCCACTACTGCTTAGGGAGACAAGATCTGTAATCTCCAATCTATTCCACTGTCGCC
65 TTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGTTGCC
* * *
8596544 TAGGG-AGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGTCA
130 CAGGGAAG-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCA
* * * *
8596608 TATTTGATCTGCTCCT-CTACTGCTTAGGGAGATAAGACCTGTAATCTTCAATCTATTCCACTGC
194 TCTTTGATCTGCT-CTACTACTGCTTGGGGAGACAAGATCTGTAATCTTCAATCTATTCCACTGC
* * *
8596672 TACCCAGGGAAGTAGAATTTCTGGCTTCAATATACTCCACTGTAACCTCAGGGAGGTAAAATTCA
258 TACCCAGGGAAGTAAAATTACTGGCTTCAATATACTCCACTGTAACCACAGGGAGGTAAAATTCA
* * *
8596737 CCACCTTTGATCTGCTCCACTACTGCTTGAGGAGACAAGATCTGAAATCTTCAATCTATTCCACT
323 CCACCTTTGATCTGCCCCACTACTGCTTGAGGAGACAAGATCTAAAATCCTCAATCTATTCCACT
* * *
8596802 GCTGTCCAGGGAAGTAAAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATC
388 ACTGTCCAAGGAAGTAAAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGAAGGTAAAATC
* * *
8596867 CGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAATATCTGAAATCTTTAATCTATTCCA
453 CGCCATCTTTGATCTGCCCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCA
*
8596932 CTGCTGTCCAGGGAAGTAGAATTATTGGCTTCAATGTACTCCACTGTAACCAC-AGGGAGGTAAA
518 CTGCTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACGA-GGAGGTAAA
* * * *
8596996 ATCCGCCATCTTTGATCTGC-TC-C-ACTACTGCCTAGGGAGACAATATCTGAAATCTCCAATCT
582 ATCCGCCATCTTCGATCTGCTTCGCGACTA-TG-C-AGGAAGACAAGATCTAAAATCTCCAATCT
* *
8597058 ATTCCACTGTTGCCCCA
644 ATTCCACTGCT-ACCCA
8597075 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGAGAGGTAAAATCTGCCATCT
1 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAG-GAGGTAAAATCTGCCATCT
* * *
8597140 TCGATCTGCTCCACTACTGCTTAGGGAGAGAAGATCTGAAATCTTTAATCTATTCCACTGTTGCC
65 TTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGTTG-C
*
8597205 CCAGGGAAGTAGAATTACTGGCTTCAATATACTCCACTGTAACCACAGGGAGGTAAAATCTGCCA
129 CCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCA
* *
8597270 TCTTTGATCTGCTCTACTACTGCTTGGGGAGACAAGATCTG-AAGTCTTCAATCTATTTCGCTGC
194 TCTTTGATCTGCTCTACTACTGCTTGGGGAGACAAGATCTGTAA-TCTTCAATCTATTCCACTGC
* *
8597334 TGCCCAGGGAAGTAAAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTCA
258 TACCCAGGGAAGTAAAATTACTGGCTTCAATATACTCCACTGTAACCACAGGGAGGTAAAATTCA
* *
8597399 CCATCTTTGATCTGCCCCACTACTGCTTGGGGAGACAAGATCTAAAATCCTCAATCTATTCCACT
323 CCACCTTTGATCTGCCCCACTACTGCTTGAGGAGACAAGATCTAAAATCCTCAATCTATTCCACT
* *
8597464 ACTGTCCAAGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCATAGGAAGGTAAAATC
388 ACTGTCCAAGGAAGTAAAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGAAGGTAAAATC
* * *
8597529 TGTCATCTTTGATCTGCCCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCG
453 CGCCATCTTTGATCTGCCCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCA
8597594 CTGCTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACGAGGAGGTAAAA
518 CTGCTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACGAGGAGGTAAAA
* * ** *
8597659 TTCGCCATCTTCGATCTGCTTCGCTGTCTATGCAGGAAGGTAAGATCTAAAATCTTCAATCTATT
583 TCCGCCATCTTCGATCTGCTTCGC-GACTATGCAGGAAGACAAGATCTAAAATCTCCAATCTATT
8597724 CCACTGCTACCCA
647 CCACTGCTACCCA
* * *
8597737 GGGAAGTAGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGGAAGGTAAAATCTGTCATCT
1 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGG-AGGTAAAATCTGCCATCT
* * * *
8597802 TTGATCTGCCCCACTACTGCTTAGGAAGATAAGATCTAAAATCTTCAATCTATTCCACTGTTGCC
65 TTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGTTGCC
*
8597867 CAGGGAAGTAGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCAT
130 CAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCAT
* * *
8597932 CTTTGATCTGCCCCACTACTGCTCAGGGG-GACAAGATCTGCT-ATCTTCAA
195 CTTTGATCTGCTCTACTACTGCT-TGGGGAGACAAGATCTG-TAATCTTCAA
8597982 CCTGCTCTAC
Statistics
Matches: 825, Mismatches: 67, Indels: 29
0.90 0.07 0.03
Matches are distributed among these distances:
660 6 0.01
661 219 0.27
662 555 0.67
663 38 0.05
664 2 0.00
665 2 0.00
666 3 0.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.28
Consensus pattern (659 bp):
GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGAGGTAAAATCTGCCATCTT
TGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCC
AGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATC
TTTGATCTGCTCTACTACTGCTTGGGGAGACAAGATCTGTAATCTTCAATCTATTCCACTGCTAC
CCAGGGAAGTAAAATTACTGGCTTCAATATACTCCACTGTAACCACAGGGAGGTAAAATTCACCA
CCTTTGATCTGCCCCACTACTGCTTGAGGAGACAAGATCTAAAATCCTCAATCTATTCCACTACT
GTCCAAGGAAGTAAAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGAAGGTAAAATCCGC
CATCTTTGATCTGCCCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTG
CTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACGAGGAGGTAAAATCC
GCCATCTTCGATCTGCTTCGCGACTATGCAGGAAGACAAGATCTAAAATCTCCAATCTATTCCAC
TGCTACCCA
Found at i:8597994 original size:132 final size:132
Alignment explanation
Indices: 8596415--8597981 Score: 2211
Period size: 132 Copynumber: 11.9 Consensus size: 132
8596405 TGCCGACCGG
* * * *
8596415 GGGAA-TAGAATTACTGGCTTCAATATACTCCACTGCAACCTCAGGGAGGTAAAATTTGCCATCT
1 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCT
* * *
8596479 TTGATCTGTTCCACTACTGCTTAGGGAGACAAGATCTGTAATCTCCAATCTATTCCACTG-TCGC
66 TTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCT-GC
*
8596543 CTA
130 CCA
* * *
8596546 GGG-AGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGTCATA
1 GGGAAG-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATC
* * * * *
8596610 TTTGATCTGCTCCTCTACTGCTTAGGGAGATAAGACCTGTAATCTTCAATCTATTCCACTGCTAC
65 TTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGC
8596675 CCA
130 CCA
* * * * *
8596678 GGGAAGTAGAATTTCTGGCTTCAATATACTCCACTGTAACCTCAGGGAGGTAAAAT-TCACCACC
1 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCT-GCCATC
8596742 TTTGATCTGCTCCACTACTGCTT-GAGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTG
65 TTTGATCTGCTCCACTACTGCTTAG-GGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTG
*
8596806 TCCA
129 CCCA
* *
8596810 GGGAAGTAAAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCT
1 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCT
* * *
8596875 TTGATCTGCTCCACTACTGCTTAGGGAGACAATATCTGAAATCTTTAATCTATTCCACTGCTGTC
66 TTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCC
8596940 CA
131 CA
* *
8596942 GGGAAGTAGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCT
1 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCT
* * * *
8597007 TTGATCTGCTCCACTACTGCCTAGGGAGACAATATCTGAAATCTCCAATCTATTCCACTGTTGCC
66 TTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTG-C
8597072 CCA
130 CCA
* *
8597075 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGAGAGGTAAAATCTGCCATCT
1 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCT
* * * *
8597140 TCGATCTGCTCCACTACTGCTTAGGGAGAGAAGATCTGAAATCTTTAATCTATTCCACTGTTGCC
66 TTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTG-C
8597205 CCA
130 CCA
*
8597208 GGGAAGTAGAATTACTGGCTTCAATATACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCT
1 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCT
* * * * *
8597273 TTGATCTGCTCTACTACTGCTTGGGGAGACAAGATCTGAAGTCTTCAATCTATTTCGCTGCTGCC
66 TTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCC
8597338 CA
131 CA
* *
8597340 GGGAAGTAAAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAAT-TCACCATC
1 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCT-GCCATC
* * * * * *
8597404 TTTGATCTGCCCCACTACTGCTTGGGGAGACAAGATCTAAAATCCTCAATCTATTCCACTACTGT
65 TTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGC
8597469 CCA
130 CCA
* * * *
8597472 AGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCATAGGAAGGTAAAATCTGTCATCT
1 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCT
* * *
8597537 TTGATCTGCCCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGTC
66 TTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCC
8597602 CA
131 CA
8597604 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCAC-GAGGAGGTAAAAT-TCGCCAT
1 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAG-GGAGGTAAAATCT-GCCAT
* * * ** *
8597667 CTTCGATCTGCTTCGCTGTCTA-TGC--AGGAAGGTAAGATCTAAAATCTTCAATCTATTCCACT
64 CTTTGATCTGC-TC-C--ACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACT
*
8597729 GCTACCCA
125 GCTGCCCA
* * *
8597737 GGGAAGTAGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGGAAGGTAAAATCTGTCATCT
1 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCT
* * * * *
8597802 TTGATCTGCCCCACTACTGCTTAGGAAGATAAGATCTAAAATCTTCAATCTATTCCACTGTTGCC
66 TTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCC
8597867 CA
131 CA
*
8597869 GGGAAGTAGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCT
1 GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCT
* * * **
8597934 TTGATCTGCCCCACTACTGCTCAGGGGGACAAGATCTGCTATCTTCAA
66 TTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAA
8597982 CCTGCTCTAC
Statistics
Matches: 1297, Mismatches: 117, Indels: 43
0.89 0.08 0.03
Matches are distributed among these distances:
129 3 0.00
130 4 0.00
131 9 0.01
132 920 0.71
133 352 0.27
134 3 0.00
135 3 0.00
136 3 0.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.28
Consensus pattern (132 bp):
GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCT
TTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCC
CA
Found at i:8599279 original size:13 final size:14
Alignment explanation
Indices: 8599251--8599297 Score: 60
Period size: 14 Copynumber: 3.3 Consensus size: 14
8599241 CCTTAGCCTC
8599251 TTCATTTTTACTTT
1 TTCATTTTTACTTT
8599265 TTCATTTTTAC-TT
1 TTCATTTTTACTTT
*
8599278 TTCATCTTTTCATTTT
1 TTCAT-TTTT-ACTTT
8599294 TTCA
1 TTCA
8599298 CATCACTTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 7 0.24
14 15 0.52
15 1 0.03
16 6 0.21
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (14 bp):
TTCATTTTTACTTT
Found at i:8607957 original size:16 final size:18
Alignment explanation
Indices: 8607924--8607959 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
8607914 TGAATTTGGG
8607924 TATTATTTAAATATTAAA
1 TATTATTTAAATATTAAA
8607942 TATT-TTTAAA-ATTAAA
1 TATTATTTAAATATTAAA
8607958 TA
1 TA
8607960 ACATAATAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
17 6 0.33
18 4 0.22
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TATTATTTAAATATTAAA
Found at i:8608559 original size:16 final size:16
Alignment explanation
Indices: 8608538--8608586 Score: 89
Period size: 16 Copynumber: 3.1 Consensus size: 16
8608528 TTCGTTGTAT
8608538 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
*
8608554 TGGAATAGAGACGTAA
1 TGGAATAGAGGCGTAA
8608570 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
8608586 T
1 T
8608587 AGCAATTCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.39, C:0.06, G:0.35, T:0.20
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:8608840 original size:18 final size:17
Alignment explanation
Indices: 8608819--8608853 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
8608809 TTATTATTAA
*
8608819 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
8608837 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
8608854 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:8608971 original size:59 final size:57
Alignment explanation
Indices: 8608799--8609214 Score: 204
Period size: 59 Copynumber: 7.0 Consensus size: 57
8608789 TTAATCATAT
* *
8608799 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTC
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAAATTAATAAAATTA
* * * * ** * * * *
8608856 TTAATAATCA-ATATTCTTATATGAATTTACTAAAATCATAATATATGATACT-ATAAAATATAA
1 TT--TAA-CATA-ATTATTAT-TAAATATATTTTAATTAAAATATAT-AAATTAATAAAAT-T-A
*
8608919 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAAATTAATAAAATTC
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAAATTAATAAAATTA
* * * * ** * * * *
8608976 TTAATAATCA-ATATTCTTATATGAATTTACTAAAATCATAATATATGATACT-ATAAAATATAA
1 TT--TAA-CATA-ATTATTAT-TAAATATATTTTAATTAAAATATAT-AAATTAATAAAAT-T-A
* * *
8609039 TTTGAA-ATAATAATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTA
1 TTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAAATTAATAAAATTA
* * * * *
8609096 -TTAATAATCAA-TATTCTT--ATATGAATTT-ACTAAAATCATAGTATATGATACTATAAAATA
1 TTTAA-CAT-AATTATTATTAAATAT-ATTTTAATTAAAAT-ATA-TAAAT--TA--ATAAAAT-
8609156 TAA
56 T-A
* * *
8609159 TTTAAAATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAAATTAATAAAATT
8609215 TAAAATAATT
Statistics
Matches: 261, Mismatches: 60, Indels: 75
0.66 0.15 0.19
Matches are distributed among these distances:
55 13 0.05
56 9 0.03
57 14 0.05
58 9 0.03
59 67 0.26
60 34 0.13
61 65 0.25
62 12 0.05
63 16 0.06
64 11 0.04
65 11 0.04
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.44
Consensus pattern (57 bp):
TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAAATTAATAAAATTA
Found at i:8609012 original size:120 final size:120
Alignment explanation
Indices: 8608799--8609214 Score: 753
Period size: 120 Copynumber: 3.5 Consensus size: 120
8608789 TTAATCATAT
8608799 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
8608864 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
66 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
*
8608919 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAAATTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
8608984 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
66 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
* * *
8609039 TTTGAA-ATAATAATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTATTAATAA
1 TTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
*
8609103 TCAATATTCTTATATGAATTTACTAAAATCATAGTATATGATACTATAAAATATAA
65 TCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
* *
8609159 TTTAAAATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
8609215 TAAAATAATT
Statistics
Matches: 287, Mismatches: 7, Indels: 4
0.96 0.02 0.01
Matches are distributed among these distances:
119 2 0.01
120 283 0.99
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
Found at i:8609093 original size:17 final size:16
Alignment explanation
Indices: 8609057--8609097 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
8609047 AATAATTATT
8609057 AAATATATTTTAATTA
1 AAATATATTTTAATTA
8609073 AAATATATGATTTAA-TA
1 AAATATAT--TTTAATTA
8609090 AAAT-TATT
1 AAATATATT
8609098 AATAATCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
14 1 0.04
16 11 0.48
17 6 0.26
18 5 0.22
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (16 bp):
AAATATATTTTAATTA
Found at i:8609154 original size:61 final size:61
Alignment explanation
Indices: 8608847--8609154 Score: 257
Period size: 61 Copynumber: 5.1 Consensus size: 61
8608837 ATATAATTTA
*
8608847 ATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
1 ATAAAATTATTAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
* * * * ** * * * *
8608908 ATAAAA-TA-TAATTTAA-C-ATAATTATTAT-TAAATATATTTTAATTAAAATATAT-AAATT
1 ATAAAATTATTAA--TAATCAAT-ATTCTTATATGAATTTACTAAAATCATAATATATGATACT
*
8608966 AATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
1 -ATAAAATTATTAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
* * * * * *
8609028 ATAAAATATAATTTGA-AAT-AATAATTATTAAAT-ATATTT--T--AATTAAAATATATGAT-T
1 ATAAAAT-T-A-TTAATAATCAAT-ATTCTTATATGA-ATTTACTAAAATCATAATATATGATAC
8609085 T
61 T
*
8609086 AATAAAATTATTAATAATCAATATTCTTATATGAATTTACTAAAATCATAGTATATGATACT
1 -ATAAAATTATTAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
8609148 ATAAAAT
1 ATAAAAT
8609155 ATAATTTAAA
Statistics
Matches: 187, Mismatches: 36, Indels: 48
0.69 0.13 0.18
Matches are distributed among these distances:
56 3 0.02
57 16 0.09
58 9 0.05
59 54 0.29
60 18 0.10
61 60 0.32
62 9 0.05
63 15 0.08
64 3 0.02
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.42
Consensus pattern (61 bp):
ATAAAATTATTAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
Found at i:8609200 original size:18 final size:17
Alignment explanation
Indices: 8609177--8609213 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
8609167 AATTATTATT
8609177 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
8609193 AAATATATGATTTAATA
1 AAATATATGATTTAATA
8609210 AAAT
1 AAAT
8609214 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:8609213 original size:17 final size:16
Alignment explanation
Indices: 8609160--8609213 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
8609150 AAAATATAAT
8609160 TTAAAATA-ATTATT-A
1 TTAAAATATATT-TTAA
8609175 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
8609190 TTAAAATATATGATTTAA
1 TTAAAATATAT--TTTAA
8609208 -TAAAAT
1 TTAAAAT
8609214 TTAAAATAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
14 7 0.21
15 8 0.24
16 8 0.24
17 6 0.18
18 5 0.15
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:8609216 original size:28 final size:31
Alignment explanation
Indices: 8609148--8609217 Score: 74
Period size: 28 Copynumber: 2.4 Consensus size: 31
8609138 ATATGATACT
* *
8609148 ATAAAATATAATTTAAAATAATTATTATTAA
1 ATAAAATTTAATTTAAAATAATTATGATTAA
* * *
8609179 ATATATTTTAA-TTAAAAT-A-TATGATTTA
1 ATAAAATTTAATTTAAAATAATTATGATTAA
8609207 ATAAAATTTAA
1 ATAAAATTTAA
8609218 AATAATTATT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
28 16 0.50
29 1 0.03
30 7 0.22
31 8 0.25
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (31 bp):
ATAAAATTTAATTTAAAATAATTATGATTAA
Found at i:8609301 original size:54 final size:55
Alignment explanation
Indices: 8609032--8609315 Score: 186
Period size: 54 Copynumber: 5.2 Consensus size: 55
8609022 GATACTATAA
* * * *
8609032 AATATAATTTGAAATAATAATTATTAAATATATTTTAATTAA-AATATATG-ATTT
1 AATAAAATTTAAAATAATTATTATTAAATATAATTTAA-TAATAATATATGAATTT
* *
8609086 AATAAAATTATTAATAATCAA-TATTCTT--ATATGAATTTACTAAAATCATAGTATATGATACT
1 AATAAAA-T-TTAA-AAT-AATTATTATTAAATAT-AATTTA--ATAAT-A-A-TATATGA-A-T
*
8609148 ATAA
54 -T-T
* *
8609152 AATATAATTTAAAATAATTATTATTAAATATATTTTAATTAA-AATATATG-ATTT
1 AATAAAATTTAAAATAATTATTATTAAATATAATTTAA-TAATAATATATGAATTT
* *
8609206 AATAAAATTTAAAATAATTATTACT-AATA-AATTT--T-CT--TATATGAATTT
1 AATAAAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATGAATTT
* *
8609254 -GTACAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATG-ATTT
1 AATAAAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATGAATTT
*
8609307 CATAAAATT
1 AATAAAATT
8609316 CTTGATAATA
Statistics
Matches: 178, Mismatches: 22, Indels: 60
0.68 0.08 0.23
Matches are distributed among these distances:
47 27 0.15
48 8 0.04
49 6 0.03
51 1 0.01
52 5 0.03
53 8 0.04
54 41 0.23
55 6 0.03
56 9 0.05
57 11 0.06
58 3 0.02
59 7 0.04
60 2 0.01
61 7 0.04
62 3 0.02
63 12 0.07
64 10 0.06
65 6 0.03
66 6 0.03
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (55 bp):
AATAAAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATGAATTT
Found at i:8613062 original size:13 final size:13
Alignment explanation
Indices: 8613044--8613120 Score: 109
Period size: 13 Copynumber: 5.9 Consensus size: 13
8613034 AGTTCTTCAT
*
8613044 TGCTTTTGAGGAG
1 TGCTTTTGAGAAG
8613057 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
* *
8613070 TGCTTTTTAAAAG
1 TGCTTTTGAGAAG
8613083 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
* *
8613096 TGCTTTTCAGGAG
1 TGCTTTTGAGAAG
8613109 TGCTTTTGAGAA
1 TGCTTTTGAGAA
8613121 ATTTGAGTGT
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 55 1.00
ACGTcount: A:0.22, C:0.09, G:0.29, T:0.40
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:8613382 original size:20 final size:19
Alignment explanation
Indices: 8613347--8613396 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
8613337 ATTAATTATT
*
8613347 TATAAAATTTAATTAAAATA
1 TATAAAATATAATT-AAATA
*
8613367 TATAAAATATATTTAAATA
1 TATAAAATATAATTAAATA
*
8613386 T-TTAAATATAA
1 TATAAAATATAA
8613397 AAATTAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 8 0.31
19 6 0.23
20 12 0.46
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TATAAAATATAATTAAATA
Found at i:8618301 original size:17 final size:18
Alignment explanation
Indices: 8618279--8618315 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
8618269 ATTATTTTTT
*
8618279 TGAAATT-TTAAAAATAA
1 TGAAATTATTAAAAAAAA
8618296 TGAAATTATTAAAAAAAA
1 TGAAATTATTAAAAAAAA
8618314 TG
1 TG
8618316 CACGTTTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.32
Consensus pattern (18 bp):
TGAAATTATTAAAAAAAA
Found at i:8618483 original size:16 final size:17
Alignment explanation
Indices: 8618459--8618491 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
8618449 CTATCTATCT
*
8618459 ATACGAAATTA-TAAAA
1 ATACAAAATTACTAAAA
8618475 ATACAAAATTACTAAAA
1 ATACAAAATTACTAAAA
8618492 TTCACAACTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.64, C:0.09, G:0.03, T:0.24
Consensus pattern (17 bp):
ATACAAAATTACTAAAA
Found at i:8628932 original size:20 final size:21
Alignment explanation
Indices: 8628894--8628933 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
8628884 CAATTTGTTA
**
8628894 TGAACTAAGAGAATTATAAAT
1 TGAACTAAGAGAAGAATAAAT
8628915 TGAAC-AAGAGAAGAATAAA
1 TGAACTAAGAGAAGAATAAA
8628934 AAAAATAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.57, C:0.05, G:0.17, T:0.20
Consensus pattern (21 bp):
TGAACTAAGAGAAGAATAAAT
Found at i:8631758 original size:13 final size:14
Alignment explanation
Indices: 8631740--8631770 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
8631730 GTTAGTGAAA
8631740 AAAATTCAATA-TT
1 AAAATTCAATATTT
8631753 AAAATTCAATATTT
1 AAAATTCAATATTT
8631767 AAAA
1 AAAA
8631771 GAGATCCTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (14 bp):
AAAATTCAATATTT
Found at i:8637593 original size:41 final size:41
Alignment explanation
Indices: 8637546--8637659 Score: 178
Period size: 41 Copynumber: 2.8 Consensus size: 41
8637536 CCAAAACAGG
8637546 CTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCAGAGA
1 CTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCAGA-A
*
8637588 -TTTAGCGGTGTTTTTGGA-AATGCGCCGCTAATGCTCAGAA
1 CTTTAGCGGCGTTTTTGGAGAA-GCGCCGCTAATGCTCAGAA
*
8637628 CTTTAGCGTCGTTTTTGGAGAAGCGCCGCTAA
1 CTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAA
8637660 AACATTTTAT
Statistics
Matches: 66, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
40 3 0.05
41 61 0.92
42 2 0.03
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGCTCAGAA
Found at i:8637840 original size:25 final size:25
Alignment explanation
Indices: 8637787--8637854 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 25
8637777 AATTTGAAAT
8637787 AAAAAATTTAGAAAAATATTTGTTAA
1 AAAAAATTTA-AAAAATATTTGTTAA
*
8637813 AAAAAATTTAAAATACTATTAT-TTAA
1 AAAAAATTTAAAA-AATATT-TGTTAA
* *
8637839 AATAATTTTAAAAAAT
1 AAAAAATTTAAAAAAT
8637855 TTTAGGTACA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
25 5 0.14
26 30 0.83
27 1 0.03
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (25 bp):
AAAAAATTTAAAAAATATTTGTTAA
Found at i:8638079 original size:14 final size:15
Alignment explanation
Indices: 8638051--8638083 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
8638041 AACGTTTATA
8638051 GATTATGGAATTAGG
1 GATTATGGAATTAGG
8638066 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
8638080 GATT
1 GATT
8638084 CTGGTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:8638324 original size:14 final size:14
Alignment explanation
Indices: 8638294--8638337 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
8638284 TAAATAATGT
*
8638294 TTAGGGGTTAGTAG
1 TTAGGGGTTAGGAG
*
8638308 TTAGGGGTTAGGGG
1 TTAGGGGTTAGGAG
* *
8638322 TTAGCGGTTAAGAG
1 TTAGGGGTTAGGAG
8638336 TT
1 TT
8638338 GTGATTTAGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.20, C:0.02, G:0.43, T:0.34
Consensus pattern (14 bp):
TTAGGGGTTAGGAG
Found at i:8638455 original size:7 final size:7
Alignment explanation
Indices: 8638443--8638492 Score: 73
Period size: 7 Copynumber: 7.1 Consensus size: 7
8638433 ATTGTAAAAG
8638443 AGGGGTT
1 AGGGGTT
8638450 AGGGGTT
1 AGGGGTT
*
8638457 AGAGGTT
1 AGGGGTT
* *
8638464 AAGGATT
1 AGGGGTT
8638471 AGGGGTT
1 AGGGGTT
8638478 AGGGGTT
1 AGGGGTT
8638485 AGGGGTT
1 AGGGGTT
8638492 A
1 A
8638493 TGGATAGGTA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.22, C:0.00, G:0.50, T:0.28
Consensus pattern (7 bp):
AGGGGTT
Found at i:8638483 original size:28 final size:28
Alignment explanation
Indices: 8638443--8638497 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
8638433 ATTGTAAAAG
8638443 AGGGGTTAGGGGTTAGAGGTTAAGGATT
1 AGGGGTTAGGGGTTAGAGGTTAAGGATT
* *
8638471 AGGGGTTAGGGGTTAGGGGTTATGGAT
1 AGGGGTTAGGGGTTAGAGGTTAAGGAT
8638498 AGGTAACTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.22, C:0.00, G:0.49, T:0.29
Consensus pattern (28 bp):
AGGGGTTAGGGGTTAGAGGTTAAGGATT
Found at i:8642712 original size:26 final size:27
Alignment explanation
Indices: 8642662--8642731 Score: 108
Period size: 26 Copynumber: 2.6 Consensus size: 27
8642652 AAAAATAAAA
*
8642662 ATTTACCAAAATGT-TATAACTTTTTTT
1 ATTTACCAAAATATATATAAC-TTTTTT
8642689 ATTTACCAAAATATATATAA-TTTTTT
1 ATTTACCAAAATATATATAACTTTTTT
8642715 ATTTACCAAAATATATA
1 ATTTACCAAAATATATA
8642732 AAAAAACAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
26 23 0.56
27 13 0.32
28 5 0.12
ACGTcount: A:0.41, C:0.10, G:0.01, T:0.47
Consensus pattern (27 bp):
ATTTACCAAAATATATATAACTTTTTT
Found at i:8642830 original size:27 final size:27
Alignment explanation
Indices: 8642800--8642866 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
8642790 CGCCAATGGT
*
8642800 ATTGGCGGCACTAAAGGTGCCAAAACC
1 ATTGGCGGCACCAAAGGTGCCAAAACC
* *
8642827 ATTGGCGGCACCAATGGTGCCAATACC
1 ATTGGCGGCACCAAAGGTGCCAAAACC
8642854 ATTGGCGGCACCA
1 ATTGGCGGCACCA
8642867 GTTAATAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.28, C:0.28, G:0.27, T:0.16
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTGCCAAAACC
Found at i:8642920 original size:4 final size:4
Alignment explanation
Indices: 8642906--8643068 Score: 112
Period size: 4 Copynumber: 41.2 Consensus size: 4
8642896 GAGCAGAAGG
* *
8642906 AGAA GGAA AGAA AGAA AGAA AGGAGA GGAA AGAA AG-A A-AA AGAA AGAA
1 AGAA AGAA AGAA AGAA AGAA A-GA-A AGAA AGAA AGAA AGAA AGAA AGAA
* * *
8642954 AGGAGA GGAA AGAA AG-A A-AA AGAA AGAA AGGAGA GGAA AG-G AGAA
1 A-GA-A AGAA AGAA AGAA AGAA AGAA AGAA A-GA-A AGAA AGAA AGAA
* *
8642999 GAGAA AAAA AGAA AGAA AG-A AG-A AGAA AAAA AG-A A-AA AGAGA AGAA
1 -AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGA-A AGAA
*
8643045 A-AA AGAA AGAA AGAA GGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA A
8643069 AGGAAAGGAA
Statistics
Matches: 126, Mismatches: 16, Indels: 34
0.72 0.09 0.19
Matches are distributed among these distances:
3 23 0.18
4 80 0.63
5 20 0.16
6 3 0.02
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:8642936 original size:14 final size:14
Alignment explanation
Indices: 8642919--8642993 Score: 96
Period size: 14 Copynumber: 5.4 Consensus size: 14
8642909 AGGAAAGAAA
8642919 GAAAGAAAGGAGAG
1 GAAAGAAAGGAGAG
* * *
8642933 GAAAGAAAGAAAAA
1 GAAAGAAAGGAGAG
8642947 GAAAGAAAGGAGAG
1 GAAAGAAAGGAGAG
* * *
8642961 GAAAGAAAGAAAAA
1 GAAAGAAAGGAGAG
8642975 GAAAGAAAGGAGAG
1 GAAAGAAAGGAGAG
8642989 GAAAG
1 GAAAG
8642994 GAGAAGAGAA
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 49 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (14 bp):
GAAAGAAAGGAGAG
Found at i:8642936 original size:18 final size:18
Alignment explanation
Indices: 8642915--8643088 Score: 72
Period size: 18 Copynumber: 9.4 Consensus size: 18
8642905 GAGAAGGAAA
8642915 GAAAGAAAGAAAGGAGAG
1 GAAAGAAAGAAAGGAGAG
* *
8642933 GAAAGAAAGAAA-AAGAAA
1 GAAAGAAAGAAAGGAG-AG
* *
8642951 GAAAGGAGAGGAAA-GAAAG
1 GAAA-GA-AAGAAAGGAGAG
*
8642970 AAAAAGAAAGAAAGGAGAG
1 -GAAAGAAAGAAAGGAGAG
* *
8642989 GAAAG-GAG-AA-GAGAAA
1 GAAAGAAAGAAAGGAG-AG
* * *
8643005 AAAAGAAAGAAAGAAGAA
1 GAAAGAAAGAAAGGAGAG
* * *
8643023 GAAAAAAAGAAAAAGAGAA
1 GAAAGAAAG-AAAGGAGAG
*
8643042 GAAA-AAAGAAAGAAAGAAG
1 GAAAGAAAGAAAG-GAG-AG
*
8643061 GAAAGAAAAGGAAAGGAAAG
1 GAAAG-AAA-GAAAGGAGAG
8643081 GAGAAGAA
1 GA-AAGAA
8643089 GAGGGAAGGA
Statistics
Matches: 116, Mismatches: 24, Indels: 30
0.68 0.14 0.18
Matches are distributed among these distances:
15 3 0.03
16 7 0.06
17 9 0.08
18 43 0.37
19 27 0.23
20 15 0.13
21 7 0.06
22 5 0.04
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (18 bp):
GAAAGAAAGAAAGGAGAG
Found at i:8642947 original size:10 final size:10
Alignment explanation
Indices: 8642934--8643075 Score: 98
Period size: 10 Copynumber: 13.8 Consensus size: 10
8642924 AAAGGAGAGG
8642934 AAAGAAAGAA
1 AAAGAAAGAA
8642944 AAAGAAAG-A
1 AAAGAAAGAA
* * *
8642953 AAGGAGAG-G
1 AAAGAAAGAA
8642962 AAAGAAAGAA
1 AAAGAAAGAA
8642972 AAAGAAAGAA
1 AAAGAAAGAA
*
8642982 AGGAGAGGAAAGGA
1 A--A-A-GAAAGAA
*
8642996 GAAGAGAA-AA
1 AAAGA-AAGAA
8643006 AAAGAAAGAA
1 AAAGAAAGAA
8643016 AGAAG-AAG-A
1 A-AAGAAAGAA
8643025 AAA-AAAGAA
1 AAAGAAAGAA
8643034 AAAGAGAAGAAA
1 AAAGA-AAG-AA
8643046 AAAGAAAGAA
1 AAAGAAAGAA
8643056 AGAAGGAAAGAA
1 A-AA-GAAAGAA
*
8643068 AAGGAAAG
1 AAAGAAAG
8643076 GAAAGGAGAA
Statistics
Matches: 106, Mismatches: 11, Indels: 30
0.72 0.07 0.20
Matches are distributed among these distances:
8 5 0.05
9 21 0.20
10 41 0.39
11 15 0.14
12 17 0.16
13 1 0.01
14 6 0.06
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (10 bp):
AAAGAAAGAA
Found at i:8642947 original size:28 final size:28
Alignment explanation
Indices: 8642916--8643088 Score: 172
Period size: 28 Copynumber: 5.9 Consensus size: 28
8642906 AGAAGGAAAG
8642916 AAAGAAAGAAAGGAGAGGAAAGAAAGAA
1 AAAGAAAGAAAGGAGAGGAAAGAAAGAA
8642944 AAAGAAAGAAAGGAGAGGAAAGAAAGAA
1 AAAGAAAGAAAGGAGAGGAAAGAAAGAA
8642972 AAAGAAAGAAAGGAGAGGAAAGGAGAAGAGAAAA
1 AAAGAAAGAAAGGAGAGG-AA--AGAA-AG--AA
* * *
8643006 AAAGAAAGAAAGAAGAAGAAAAAAAGAA
1 AAAGAAAGAAAGGAGAGGAAAGAAAGAA
*
8643034 AAAGAGAAGAAA--A-AAGAAAGAAAGAA
1 AAAGA-AAGAAAGGAGAGGAAAGAAAGAA
*
8643060 GGAAAGAAAAGGAAAGGAAAGGAGAAGAA
1 --AAAG-AAA-GAAAGGAGAGGA-AAGAA
8643089 GAGGGAAGGA
Statistics
Matches: 125, Mismatches: 5, Indels: 25
0.81 0.03 0.16
Matches are distributed among these distances:
26 12 0.10
27 1 0.01
28 59 0.47
29 13 0.10
30 2 0.02
31 8 0.06
32 5 0.04
33 7 0.06
34 18 0.14
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (28 bp):
AAAGAAAGAAAGGAGAGGAAAGAAAGAA
Found at i:8642976 original size:38 final size:38
Alignment explanation
Indices: 8642934--8643080 Score: 119
Period size: 38 Copynumber: 3.8 Consensus size: 38
8642924 AAAGGAGAGG
8642934 AAAGAAAGAAAAAGAAAGAAAGGAGAGGAAAGAAAGAA
1 AAAGAAAGAAAAAGAAAGAAAGGAGAGGAAAGAAAGAA
* * *
8642972 AAAGAAAG-AAAGGAGAGGAAAGGAGAAGAGAAA-AAA-AG
1 AAAGAAAGAAAAAGA-AAGAAAGGAG-AG-GAAAGAAAGAA
* *
8643010 AAAGAAAGAAGAAGAAA-AAA--AGA-AAAAGAGAAGAAA
1 AAAGAAAGAAAAAGAAAGAAAGGAGAGGAAAGA-AAG-AA
*
8643046 AAAGAAAGAAAGAAGGAAAGAAAAGGAAAGGAAAG
1 AAAGAAAGAAA-AA-GAAAG-AAAGGAGAGGAAAG
8643081 GAGAAGAAGA
Statistics
Matches: 83, Mismatches: 11, Indels: 25
0.70 0.09 0.21
Matches are distributed among these distances:
32 3 0.04
33 1 0.01
34 3 0.04
35 2 0.02
36 11 0.13
37 10 0.12
38 31 0.37
39 9 0.11
40 7 0.08
42 2 0.02
43 4 0.05
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (38 bp):
AAAGAAAGAAAAAGAAAGAAAGGAGAGGAAAGAAAGAA
Found at i:8643047 original size:40 final size:43
Alignment explanation
Indices: 8642912--8643088 Score: 146
Period size: 44 Copynumber: 4.0 Consensus size: 43
8642902 AAGGAGAAGG
* *
8642912 AAAGAAAGAAAGAAAGGAGAGGAAAGAAAGAAAAAGA-AAGAAA
1 AAAGAAAGAAAG-AAGGAAAGAAAAGAAAGAAAAAGAGAAGAAA
* * * * * *
8642955 GGAGAGGAAAGAAAGAAAAAGAAAGAAAGGAGAGGAAAGGAGAAGAGAAAA
1 --A-AAGAAAGAAAG--AAGGAAAGAAAAGAAAGAAAAAGAG-A-AG-AAA
8643006 AAAGAAAGAAAGAA-G-AAGAAAA-AAAGAAAAAGAGAAGAAA
1 AAAGAAAGAAAGAAGGAAAGAAAAGAAAGAAAAAGAGAAGAAA
* *
8643046 AAAGAAAGAAAGAAGGAAAGAAAAGGAAAGGAAAGGAGAAGAA
1 AAAGAAAGAAAGAAGGAAAGAAAA-GAAAGAAAAAGAGAAGAA
8643089 GAGGGAAGGA
Statistics
Matches: 107, Mismatches: 15, Indels: 21
0.75 0.10 0.15
Matches are distributed among these distances:
40 17 0.16
41 3 0.03
42 8 0.07
43 9 0.08
44 21 0.20
45 2 0.02
46 12 0.11
47 18 0.17
48 10 0.09
49 2 0.02
50 2 0.02
51 3 0.03
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (43 bp):
AAAGAAAGAAAGAAGGAAAGAAAAGAAAGAAAAAGAGAAGAAA
Found at i:8644677 original size:318 final size:319
Alignment explanation
Indices: 8643911--8644678 Score: 1252
Period size: 318 Copynumber: 2.4 Consensus size: 319
8643901 TATTCTCCCT
* * * * *
8643911 TAACACACTAAATTAATAAATTTCAAACATGATGCACTGAAATAATGTAAAAATATAAAAGACTA
1 TAACACACTAGAGTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATTAT-AAA-ATTA
** *
8643976 -AGTTTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATATTAACAAATGGCAGAAGTA
64 GAAATTATGATATTTTTTAAAGTAATAAAATGCGGAG-AAAAAATATGAACAAATGGCAGAAGTA
* * **
8644040 AAAGTGTATTACTAACTTTTATAAAATTCAAAAATAATTAATATAAAATATTTCAAAGAAAATGT
128 AGAGTGTATTACTAACTTTTATAAAATTCAAAAATAATTAATACAAAATATTTCAAAGAAAATAC
8644105 ACTGAAATAATATAAAACAATAAAATACGAGAATAATATATTTTTATTTAAAGTAATAAAAATCG
193 ACTGAAATAATATAAAACAATAAAATACGAGAATAATATATTTTTATTTAAAGTAATAAAAATCG
* *
8644170 AGAAAATAATACGAGTAAAGGGCAGGGGTAAGGGTTATTTTTTTACACCAAATTAATTTAAA
258 AGAAAATAATACGAGCAAAGGGCAGGGGTAAGGGTTATTTCTTTACACCAAATTAATTTAAA
*
8644232 TAACACACTAGAGTAATAAATTTCAAACATTATGCATTGAAATAATGTAAAATTATAAAATTAGA
1 TAACACACTAGAGTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAATTAGA
* * *
8644297 AATTATAATATTTTTTAAAATAATAAAATGCGGAGAAAAAATTTGAACAAATGGCAGAAGTAAGA
66 AATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAATATGAACAAATGGCAGAAGTAAGA
* * *
8644362 GTGTATTATTAACTTTTATAAAATTCAGAAATAATTAATACAAAATATTTTAAAGAAAATACACT
131 GTGTATTACTAACTTTTATAAAATTCAAAAATAATTAATACAAAATATTTCAAAGAAAATACACT
*
8644427 GAAATAATATAAAACAATAAAATACGAGAATAATATATTTTTATTTAAAGTAATAAAAATCGATA
196 GAAATAATATAAAACAATAAAATACGAGAATAATATATTTTTATTTAAAGTAATAAAAATCGAGA
*
8644492 AAATAATA-GAGCAAATGGCAGGGGTAAGGGTTATTTCTTTACACCAAATTAATTTAAA
261 AAATAATACGAGCAAAGGGCAGGGGTAAGGGTTATTTCTTTACACCAAATTAATTTAAA
*
8644550 TAACACACTAGAGTAATAAATTTCAAACATTATGCACTGGAATAATGTAAAATTATAAAATTAGA
1 TAACACACTAGAGTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAATTAGA
* * *
8644615 AATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAATACGAATAAATGGCCGAAGTAAG
66 AATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAATATGAACAAATGGCAGAAGTAAG
8644679 TTTTTTTACG
Statistics
Matches: 415, Mismatches: 31, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
318 168 0.40
319 161 0.39
320 35 0.08
321 51 0.12
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.30
Consensus pattern (319 bp):
TAACACACTAGAGTAATAAATTTCAAACATTATGCACTGAAATAATGTAAAATTATAAAATTAGA
AATTATGATATTTTTTAAAGTAATAAAATGCGGAGAAAAAATATGAACAAATGGCAGAAGTAAGA
GTGTATTACTAACTTTTATAAAATTCAAAAATAATTAATACAAAATATTTCAAAGAAAATACACT
GAAATAATATAAAACAATAAAATACGAGAATAATATATTTTTATTTAAAGTAATAAAAATCGAGA
AAATAATACGAGCAAAGGGCAGGGGTAAGGGTTATTTCTTTACACCAAATTAATTTAAA
Found at i:8647791 original size:27 final size:28
Alignment explanation
Indices: 8647731--8647810 Score: 110
Period size: 27 Copynumber: 2.8 Consensus size: 28
8647721 AAGATATGGT
8647731 GGAATCAGCACTTAGCAACCACCAGTGGTAG
1 GGAATCAGCACTTAGCAACC-CCA-TGG-AG
8647762 GGAATCAGCACTTAGCAACCCC-TCGG-G
1 GGAATCAGCACTTAGCAACCCCAT-GGAG
8647789 GGAATCAGCACTTAGCAACCCC
1 GGAATCAGCACTTAGCAACCCC
8647811 CTTTCACATT
Statistics
Matches: 48, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
27 23 0.48
28 1 0.02
29 2 0.04
30 2 0.04
31 20 0.42
ACGTcount: A:0.30, C:0.31, G:0.24, T:0.15
Consensus pattern (28 bp):
GGAATCAGCACTTAGCAACCCCATGGAG
Found at i:8647904 original size:104 final size:104
Alignment explanation
Indices: 8647634--8647992 Score: 512
Period size: 104 Copynumber: 3.5 Consensus size: 104
8647624 GGTGGATCCC
* * *
8647634 GCACTTAGC-ACCACCACTGAA-TTGGGGAATCAGCACACAGCAACCCCTTGGGGGAATCAGCAC
1 GCACTTAGCAACCACCAAT-AAGTAGGGGAATCAGCACACAGCAACCCCTCGGGGGAATCAGCAC
** * *
8647697 TTAGCAACCCCCTTTTTCATTTCAAAGATATGGTGGAATCA
65 TTAGCAACCCCCTTTCACATTT-AAAAATACGGTGGAATCA
* * **
8647738 GCACTTAGCAACCACCAGT-GGTA-GGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACT
1 GCACTTAGCAACCACCAATAAGTAGGGGAATCAGCACACAGCAACCCCTCGGGGGAATCAGCACT
*
8647801 TAGCAACCCCCTTTCACATTTAAAAATACGGTGGACTCA
66 TAGCAACCCCCTTTCACATTTAAAAATACGGTGGAATCA
* **
8647840 GCACATAGCAACCACCAATAAGTAGGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACT
1 GCACTTAGCAACCACCAATAAGTAGGGGAATCAGCACACAGCAACCCCTCGGGGGAATCAGCACT
8647905 TAGCAACCCCCTTTCACATTTAAAAATACGGTGGAATCA
66 TAGCAACCCCCTTTCACATTTAAAAATACGGTGGAATCA
*
8647944 GCACTTAGCAACCACCAATGAA-TCGGGGAATCAGCACACAGCAACCCCT
1 GCACTTAGCAACCACCAAT-AAGTAGGGGAATCAGCACACAGCAACCCCT
8647993 TTATATGTAA
Statistics
Matches: 231, Mismatches: 19, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
102 32 0.14
103 59 0.26
104 130 0.56
105 10 0.04
ACGTcount: A:0.32, C:0.29, G:0.20, T:0.19
Consensus pattern (104 bp):
GCACTTAGCAACCACCAATAAGTAGGGGAATCAGCACACAGCAACCCCTCGGGGGAATCAGCACT
TAGCAACCCCCTTTCACATTTAAAAATACGGTGGAATCA
Found at i:8648352 original size:30 final size:29
Alignment explanation
Indices: 8648318--8648382 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
8648308 TAATCCACCA
8648318 CCCAACTATTTGAAAAATTACAATTTTGCC
1 CCCAACT-TTTGAAAAATTACAATTTTGCC
* * * *
8648348 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
8648378 CCCAA
1 CCCAA
8648383 GCTTGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 24 0.80
31 4 0.13
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.34
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:8655469 original size:104 final size:104
Alignment explanation
Indices: 8655221--8655581 Score: 494
Period size: 104 Copynumber: 3.5 Consensus size: 104
8655211 GGTGGATCCC
* * * *
8655221 GCACTTAGC-ACCACCACTGAA-TTGGGGAATCAGCACACAGCAACCCCTTGAGGGAATCAGCAC
1 GCACTTAGCAACCACCAAT-AAGTAGGGGAATCAGCACACAGCAACCCCTCGGGGGAATCAGCAC
** * *
8655284 TTAGCAACCCCCTTTTTCATTTCAAAGATATGGTGGAATCA
65 TTAGCAACCCCCTTTCACATTT-AAAAATACGGTGGAATCA
* * ** * **
8655325 GCACTTAGCAACCACTAGTGGGTAGGGGAATCAACACTTAGCAACCCCTCGGGGGAATCAGCACT
1 GCACTTAGCAACCACCAATAAGTAGGGGAATCAGCACACAGCAACCCCTCGGGGGAATCAGCACT
*
8655390 TAGCAACCCCCTTTCACATTTAAAAATACGGTGGACTCA
66 TAGCAACCCCCTTTCACATTTAAAAATACGGTGGAATCA
* **
8655429 GCACATAGCAACCACCAATAAGTAGGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACT
1 GCACTTAGCAACCACCAATAAGTAGGGGAATCAGCACACAGCAACCCCTCGGGGGAATCAGCACT
8655494 TAGCAACCCCCTTTCACATTTAAAAATACGGTGGAATCA
66 TAGCAACCCCCTTTCACATTTAAAAATACGGTGGAATCA
*
8655533 GCACTTAGCAACCACCAATGAA-TCGGGGAATCAGCACACAGCAACCCCT
1 GCACTTAGCAACCACCAAT-AAGTAGGGGAATCAGCACACAGCAACCCCT
8655582 TTATATGTAA
Statistics
Matches: 228, Mismatches: 26, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
104 163 0.71
105 65 0.29
ACGTcount: A:0.32, C:0.29, G:0.20, T:0.19
Consensus pattern (104 bp):
GCACTTAGCAACCACCAATAAGTAGGGGAATCAGCACACAGCAACCCCTCGGGGGAATCAGCACT
TAGCAACCCCCTTTCACATTTAAAAATACGGTGGAATCA
Found at i:8658520 original size:3 final size:3
Alignment explanation
Indices: 8658512--8658549 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
8658502 TCTTAATACT
8658512 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
8658550 TAATAATAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:8658640 original size:19 final size:21
Alignment explanation
Indices: 8658616--8658654 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
8658606 ACTAAAACAA
*
8658616 AAAAT-ATTACAA-AATATAC
1 AAAATAATAACAACAATATAC
8658635 AAAATAATAACAACAATATA
1 AAAATAATAACAACAATATA
8658655 ATCAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAATAATAACAACAATATAC
Found at i:8658828 original size:27 final size:27
Alignment explanation
Indices: 8658798--8658879 Score: 128
Period size: 27 Copynumber: 3.0 Consensus size: 27
8658788 ATCAATATGA
8658798 CACCATTGGTGCCGCCAATGGCATTGG
1 CACCATTGGTGCCGCCAATGGCATTGG
**
8658825 CACCATTGGTGCCGCCAATGGTTTTGG
1 CACCATTGGTGCCGCCAATGGCATTGG
* *
8658852 CACCTTTGGTGCCGCCAATGCCATTGG
1 CACCATTGGTGCCGCCAATGGCATTGG
8658879 C
1 C
8658880 GTGACCAATG
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.16, C:0.30, G:0.28, T:0.26
Consensus pattern (27 bp):
CACCATTGGTGCCGCCAATGGCATTGG
Found at i:8658997 original size:26 final size:26
Alignment explanation
Indices: 8658936--8659006 Score: 108
Period size: 27 Copynumber: 2.7 Consensus size: 26
8658926 TTTTTGTTTT
8658936 TTAT-ATATTTTGGTAAATAAAAAAA
1 TTATAATATTTTGGTAAATAAAAAAA
*
8658961 TTATATGTATTTTGGTAAATAAAAAAA
1 TTATA-ATATTTTGGTAAATAAAAAAA
*
8658988 TTATAATATTTTGATAAAT
1 TTATAATATTTTGGTAAAT
8659007 TTTTATTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
25 4 0.10
26 12 0.29
27 25 0.61
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (26 bp):
TTATAATATTTTGGTAAATAAAAAAA
Found at i:8659029 original size:11 final size:11
Alignment explanation
Indices: 8658988--8659034 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
8658978 AATAAAAAAA
8658988 TTATAATATTT
1 TTATAATATTT
*
8658999 TGATAA-ATTT
1 TTATAATATTT
*
8659009 TTAT--TTTTT
1 TTATAATATTT
8659018 TTATAATATTT
1 TTATAATATTT
8659029 TTATAA
1 TTATAA
8659035 AAAACCCTCC
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
9 7 0.24
10 7 0.24
11 15 0.52
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (11 bp):
TTATAATATTT
Found at i:8660234 original size:85 final size:85
Alignment explanation
Indices: 8660133--8660315 Score: 242
Period size: 85 Copynumber: 2.1 Consensus size: 85
8660123 GATATGTTTT
* * * * *
8660133 TAACGGCGTTTGTGTGAA-AAGCGCCGCTAAAGATCTTTATCTATAGCAGTGTTTGTGGAACAAG
1 TAACGGCGTTT-TGTGAAGAAGCGCCGCTAAAGATCCTAATCTATAGCAGCGTTTGT-AAAAAAG
8660197 CGCCGCTAAAAGTCCTGATCTA
64 CGCCGCTAAAAGTCCTGATCTA
* * * *
8660219 TAGCGGCGTTTTGTGAAGAAGCGTCGCTAAAGGTCCTAATCTATAGCGGCGTTTGTAAAAAAGCG
1 TAACGGCGTTTTGTGAAGAAGCGCCGCTAAAGATCCTAATCTATAGCAGCGTTTGTAAAAAAGCG
* *
8660284 TCGCTAAAGGTCCTGATCTA
66 CCGCTAAAAGTCCTGATCTA
8660304 TAACGGCGTTTT
1 TAACGGCGTTTT
8660316 TTGCGGCGCT
Statistics
Matches: 84, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
85 42 0.50
86 42 0.50
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (85 bp):
TAACGGCGTTTTGTGAAGAAGCGCCGCTAAAGATCCTAATCTATAGCAGCGTTTGTAAAAAAGCG
CCGCTAAAAGTCCTGATCTA
Found at i:8660287 original size:42 final size:42
Alignment explanation
Indices: 8660136--8660314 Score: 205
Period size: 43 Copynumber: 4.2 Consensus size: 42
8660126 ATGTTTTTAA
* * * *
8660136 CGGCGTTTGTGTGAAAAGCGCCGCTAAAGATCTTTATCTATAG
1 CGGCGTTTGTG-AAAAAGCGCCGCTAAAGGTCCTGATCTATAG
* * * *
8660179 CAGTGTTTGTGGAACAAGCGCCGCTAAAAGTCCTGATCTATAG
1 CGGCGTTTGT-GAAAAAGCGCCGCTAAAGGTCCTGATCTATAG
* * *
8660222 CGGCGTTTTGTGAAGAAGCGTCGCTAAAGGTCCTAATCTATAG
1 CGGCG-TTTGTGAAAAAGCGCCGCTAAAGGTCCTGATCTATAG
* * *
8660265 CGGCGTTTGTAAAAAAGCGTCGCTAAAGGTCCTGATCTATAA
1 CGGCGTTTGTGAAAAAGCGCCGCTAAAGGTCCTGATCTATAG
8660307 CGGCGTTT
1 CGGCGTTT
8660315 TTTGCGGCGC
Statistics
Matches: 116, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
42 41 0.35
43 69 0.59
44 6 0.05
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (42 bp):
CGGCGTTTGTGAAAAAGCGCCGCTAAAGGTCCTGATCTATAG
Found at i:8662261 original size:33 final size:33
Alignment explanation
Indices: 8662221--8662287 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
8662211 GAGTTCAATG
8662221 ATGGCATGTGTGTTGTCTAATAAAATTGGTTCA
1 ATGGCATGTGTGTTGTCTAATAAAATTGGTTCA
8662254 ATGGCATGTGTGTTGTCTAATAAAATTGGTTCA
1 ATGGCATGTGTGTTGTCTAATAAAATTGGTTCA
8662287 A
1 A
8662288 CGTTAATGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.28, C:0.09, G:0.24, T:0.39
Consensus pattern (33 bp):
ATGGCATGTGTGTTGTCTAATAAAATTGGTTCA
Found at i:8683670 original size:17 final size:18
Alignment explanation
Indices: 8683640--8683673 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
8683630 ATTTTGCCGA
*
8683640 GGCATTATTGTTAGTAAG
1 GGCATTATTCTTAGTAAG
8683658 GGCA-TATTCTTAGTAA
1 GGCATTATTCTTAGTAA
8683674 TCCCGACCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (18 bp):
GGCATTATTCTTAGTAAG
Found at i:8688337 original size:9 final size:9
Alignment explanation
Indices: 8688320--8688350 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
8688310 GAGATTAAAT
*
8688320 TAATATTAA
1 TAATTTTAA
8688329 TAATTTTAA
1 TAATTTTAA
8688338 TAATTTTAA
1 TAATTTTAA
8688347 TAAT
1 TAAT
8688351 ACGATAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (9 bp):
TAATTTTAA
Found at i:8706433 original size:30 final size:31
Alignment explanation
Indices: 8706391--8706457 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
8706381 ATTTTTTAGC
*
8706391 AAATTTTAATT-AACCTCCT-AAAATTTTTAA
1 AAATTTTAATTAAACCT-CTGAAAAATTTTAA
*
8706421 AAATTATT-ATTAAACCTTTGAAAAATTTTAA
1 AAATT-TTAATTAAACCTCTGAAAAATTTTAA
8706452 AAATTT
1 AAATTT
8706458 CTATTAGGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
30 10 0.31
31 22 0.69
ACGTcount: A:0.46, C:0.09, G:0.01, T:0.43
Consensus pattern (31 bp):
AAATTTTAATTAAACCTCTGAAAAATTTTAA
Found at i:8706757 original size:21 final size:22
Alignment explanation
Indices: 8706728--8706768 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
8706718 TCTATTTAAA
* *
8706728 AATATAAATAT-TTATATATCT
1 AATAAAAATATATAATATATCT
8706749 AATAAAAATATATAATATAT
1 AATAAAAATATATAATATAT
8706769 TGTATGTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
AATAAAAATATATAATATATCT
Found at i:8718184 original size:5 final size:5
Alignment explanation
Indices: 8717965--8718158 Score: 372
Period size: 5 Copynumber: 38.8 Consensus size: 5
8717955 TAATAACTAT
8717965 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
8718015 TATAA TATAA TATAA TATAA -ATAA TATATA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATA-A TATAA TATAA TATAA TATAA
8718065 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
8718115 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
8718159 TATTATAAGC
Statistics
Matches: 187, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
4 4 0.02
5 178 0.95
6 5 0.03
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:8733942 original size:22 final size:22
Alignment explanation
Indices: 8733916--8733984 Score: 102
Period size: 22 Copynumber: 3.1 Consensus size: 22
8733906 TCTTCAATTA
*
8733916 TTAGCACATTAGTGCTCTCCGT
1 TTAGCACATTAGTGCTCTCTGT
*
8733938 TTAGCACATTTGTGCTCTCTGT
1 TTAGCACATTAGTGCTCTCTGT
* *
8733960 ATAGCACTTTAGTGCTCTCTGT
1 TTAGCACATTAGTGCTCTCTGT
8733982 TTA
1 TTA
8733985 ATAGTGCATA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.42
Consensus pattern (22 bp):
TTAGCACATTAGTGCTCTCTGT
Found at i:8735487 original size:25 final size:26
Alignment explanation
Indices: 8735432--8735487 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
8735422 AGTATCTATT
*
8735432 TTTTTGTCACAAGTGGTACCTAAATC
1 TTTTTGTCACAAGTGGCACCTAAATC
* *
8735458 ATTTT-TCCCAAGTTGGCACCTAAA-C
1 TTTTTGTCACAAG-TGGCACCTAAATC
8735483 TTTTT
1 TTTTT
8735488 AATTTTTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
25 11 0.44
26 14 0.56
ACGTcount: A:0.25, C:0.21, G:0.12, T:0.41
Consensus pattern (26 bp):
TTTTTGTCACAAGTGGCACCTAAATC
Found at i:8741306 original size:21 final size:21
Alignment explanation
Indices: 8741280--8741321 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
8741270 GATACCTAGT
8741280 AAAAGGTATCGATACTTTTTG
1 AAAAGGTATCGATACTTTTTG
*
8741301 AAAAGGTATCGGTACTTTTTG
1 AAAAGGTATCGATACTTTTTG
8741322 TAATTGATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (21 bp):
AAAAGGTATCGATACTTTTTG
Found at i:8742785 original size:31 final size:32
Alignment explanation
Indices: 8742730--8742800 Score: 85
Period size: 31 Copynumber: 2.3 Consensus size: 32
8742720 ATTTTGATGA
*
8742730 TATTTTA-TAATTATTTAATTAGATA-AATAT
1 TATTTTATTAATTATTTAATGAGATATAATAT
**
8742760 TATTTTATTAA-TATTTTAATGAGATATTTTAT
1 TATTTTATTAATTA-TTTAATGAGATATAATAT
8742792 TATTTTATT
1 TATTTTATT
8742801 TAGTATATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 9 0.26
31 14 0.40
32 12 0.34
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (32 bp):
TATTTTATTAATTATTTAATGAGATATAATAT
Found at i:8744873 original size:21 final size:21
Alignment explanation
Indices: 8744849--8744963 Score: 81
Period size: 21 Copynumber: 5.5 Consensus size: 21
8744839 TATTAACTCA
8744849 TATGAGTTTCAGTTTAACCCT
1 TATGAGTTTCAGTTTAACCCT
* * * *
8744870 TATGGATTTTC-GTTCAGCTCT
1 TAT-GAGTTTCAGTTTAACCCT
* *
8744891 TTTGATTTTCAGTTTAACCCT
1 TATGAGTTTCAGTTTAACCCT
* * * *
8744912 AATGGGTTTTC-GTTTAGCTCT
1 TATGAG-TTTCAGTTTAACCCT
* *
8744933 TTTGAGCTTCAGTTTAACCCT
1 TATGAGTTTCAGTTTAACCCT
*
8744954 TATGGGTTTC
1 TATGAGTTTC
8744964 CATTCCGCTC
Statistics
Matches: 67, Mismatches: 23, Indels: 8
0.68 0.23 0.08
Matches are distributed among these distances:
20 10 0.15
21 47 0.70
22 10 0.15
ACGTcount: A:0.17, C:0.18, G:0.17, T:0.47
Consensus pattern (21 bp):
TATGAGTTTCAGTTTAACCCT
Found at i:8744959 original size:42 final size:42
Alignment explanation
Indices: 8744851--8744962 Score: 179
Period size: 42 Copynumber: 2.7 Consensus size: 42
8744841 TTAACTCATA
*
8744851 TGAGTTTCAGTTTAACCCTTATGGATTTTCGTTCAGCTCTTT
1 TGAGTTTCAGTTTAACCCTTATGGGTTTTCGTTCAGCTCTTT
* * *
8744893 TGATTTTCAGTTTAACCCTAATGGGTTTTCGTTTAGCTCTTT
1 TGAGTTTCAGTTTAACCCTTATGGGTTTTCGTTCAGCTCTTT
*
8744935 TGAGCTTCAGTTTAACCCTTATGGGTTT
1 TGAGTTTCAGTTTAACCCTTATGGGTTT
8744963 CCATTCCGCT
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.17, C:0.18, G:0.18, T:0.47
Consensus pattern (42 bp):
TGAGTTTCAGTTTAACCCTTATGGGTTTTCGTTCAGCTCTTT
Found at i:8744974 original size:42 final size:42
Alignment explanation
Indices: 8744851--8745005 Score: 166
Period size: 42 Copynumber: 3.7 Consensus size: 42
8744841 TTAACTCATA
* * *
8744851 TGAGTTTCAGTTTAACCCTTATGGATTTTCGTTCAGCTCTTT
1 TGAGCTTCAGTTTAACCCTTATGGGTTTCCGTTCAGCTCTTT
** * * *
8744893 TGATTTTCAGTTTAACCCTAATGGGTTTTCGTTTAGCTCTTT
1 TGAGCTTCAGTTTAACCCTTATGGGTTTCCGTTCAGCTCTTT
* * *
8744935 TGAGCTTCAGTTTAACCCTTATGGGTTTCCATTCCGCTCTTA
1 TGAGCTTCAGTTTAACCCTTATGGGTTTCCGTTCAGCTCTTT
* * * * *
8744977 CGAGCTTCCGCTCAACCCTTATAGGTTTC
1 TGAGCTTCAGTTTAACCCTTATGGGTTTC
8745006 TGTTTAGCAG
Statistics
Matches: 96, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 96 1.00
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.43
Consensus pattern (42 bp):
TGAGCTTCAGTTTAACCCTTATGGGTTTCCGTTCAGCTCTTT
Found at i:8745004 original size:84 final size:84
Alignment explanation
Indices: 8744851--8745013 Score: 184
Period size: 84 Copynumber: 1.9 Consensus size: 84
8744841 TTAACTCATA
* * * ** ** * * *
8744851 TGAGTTTCAGTTTAACCCTTATGGATTTTCGTTCAGCTCTTTTGATTTTCAGTTTAACCCTAATG
1 TGAGCTTCAGTTTAACCCTTATGGATTTCCATTCAGCTCTTACGAGCTTCAGCTCAACCCTAATA
8744916 GGTTT-TCGTTTAGCTCTTT
66 GGTTTCT-GTTTAGCTCTTT
* * * *
8744935 TGAGCTTCAGTTTAACCCTTATGGGTTTCCATTCCGCTCTTACGAGCTTCCGCTCAACCCTTATA
1 TGAGCTTCAGTTTAACCCTTATGGATTTCCATTCAGCTCTTACGAGCTTCAGCTCAACCCTAATA
8745000 GGTTTCTGTTTAGC
66 GGTTTCTGTTTAGC
8745014 AGTTATGTGC
Statistics
Matches: 64, Mismatches: 14, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
84 63 0.98
85 1 0.02
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.44
Consensus pattern (84 bp):
TGAGCTTCAGTTTAACCCTTATGGATTTCCATTCAGCTCTTACGAGCTTCAGCTCAACCCTAATA
GGTTTCTGTTTAGCTCTTT
Found at i:8748230 original size:6 final size:6
Alignment explanation
Indices: 8748209--8748242 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
8748199 AAAAAAATTA
8748209 ATTTA- ATTTCAG ATTTAG ATTTAG ATTTAG ATTT
1 ATTTAG ATTT-AG ATTTAG ATTTAG ATTTAG ATTT
8748243 TTCTTATATC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 4 0.15
6 19 0.70
7 4 0.15
ACGTcount: A:0.32, C:0.03, G:0.12, T:0.53
Consensus pattern (6 bp):
ATTTAG
Found at i:8757279 original size:21 final size:20
Alignment explanation
Indices: 8757238--8757274 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
8757228 TTTATTGATG
8757238 AATATTTTATATAATTAATT
1 AATATTTTATATAATTAATT
*
8757258 AATATTTT-TATATTTAA
1 AATATTTTATATAATTAA
8757275 AATTATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
AATATTTTATATAATTAATT
Found at i:8757325 original size:16 final size:17
Alignment explanation
Indices: 8757238--8757335 Score: 71
Period size: 16 Copynumber: 5.8 Consensus size: 17
8757228 TTTATTGATG
*
8757238 AATATTTTATATAATTAATT
1 AATATTTTATAT-ATT--TA
8757258 AATATTTT-TATATTTA
1 AATATTTTATATATTTA
8757274 AA-ATTATT-TA-ATTTGA
1 AATATT-TTATATATTT-A
** *
8757290 TTTATTTAATATATTTA
1 AATATTTTATATATTTA
8757307 AATATTTTATATA-TTA
1 AATATTTTATATATTTA
*
8757323 AATATTTTTTATA
1 AATATTTTATATA
8757336 AACGTTGATA
Statistics
Matches: 65, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
15 7 0.11
16 24 0.37
17 16 0.25
18 7 0.11
19 3 0.05
20 8 0.12
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (17 bp):
AATATTTTATATATTTA
Found at i:8760819 original size:3 final size:3
Alignment explanation
Indices: 8760811--8760849 Score: 53
Period size: 3 Copynumber: 12.7 Consensus size: 3
8760801 AATTGATGCG
8760811 TTA TTA TTA TTA TTA TTA TTA TT- TTA TATA TTA GTTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA -TTA TT
8760850 TTTCATGCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 2 0.06
3 25 0.76
4 6 0.18
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:8763556 original size:5 final size:5
Alignment explanation
Indices: 8763541--8763576 Score: 63
Period size: 5 Copynumber: 7.0 Consensus size: 5
8763531 ATTTTTCATC
8763541 TTTTCA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTT-A TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
8763577 ATACTTATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 26 0.87
6 4 0.13
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:8771432 original size:18 final size:18
Alignment explanation
Indices: 8771411--8771473 Score: 84
Period size: 18 Copynumber: 3.8 Consensus size: 18
8771401 ATAATAATTA
8771411 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
8771429 TTTTATTAAA-T-TATA-
1 TTTTATTAAATTATATAT
8771444 --TT-TTAAATTATATAT
1 TTTTATTAAATTATATAT
8771459 TTTTATTAAATTATA
1 TTTTATTAAATTATA
8771474 CATATACCTA
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
12 5 0.13
13 3 0.08
14 4 0.10
16 4 0.10
17 3 0.08
18 20 0.51
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTTATTAAATTATATAT
Found at i:8771452 original size:30 final size:31
Alignment explanation
Indices: 8771406--8771473 Score: 120
Period size: 30 Copynumber: 2.2 Consensus size: 31
8771396 TTTTAATAAT
*
8771406 AATTATTTTATTAAATTATATATTTTTATTA
1 AATTATATTATTAAATTATATATTTTTATTA
8771437 AATTATATT-TTAAATTATATATTTTTATTA
1 AATTATATTATTAAATTATATATTTTTATTA
8771467 AATTATA
1 AATTATA
8771474 CATATACCTA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
30 28 0.78
31 8 0.22
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (31 bp):
AATTATATTATTAAATTATATATTTTTATTA
Found at i:8771462 original size:15 final size:15
Alignment explanation
Indices: 8771416--8771463 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
8771406 AATTATTTTA
8771416 TTAAATTATATATTT
1 TTAAATTATATATTT
*
8771431 TT--ATTAAATTATATT
1 TTAAATTATA-TAT-TT
8771446 TTAAATTATATATTT
1 TTAAATTATATATTT
8771461 TTA
1 TTA
8771464 TTAAATTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
13 5 0.19
14 3 0.11
15 11 0.41
16 3 0.11
17 5 0.19
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTAAATTATATATTT
Found at i:8773285 original size:49 final size:49
Alignment explanation
Indices: 8773229--8773424 Score: 269
Period size: 49 Copynumber: 4.1 Consensus size: 49
8773219 TCATGTGTTA
* * * *
8773229 TAATTTTATAAAGTGTTGAGCTTATGATTCATTATATTGAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTGAACTTAATTT
*
8773278 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATT--A---AA-CT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTGAACTTAATTT
* *
8773321 TAATTTTATAAAGTGTTGAGCTTTTGATTCATGATATTGAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTGAACTTAATTT
* *
8773370 TAATTTTATAAAGTGTACACCTTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTGAACTTAATTT
8773419 TAATTT
1 TAATTT
8773425 GTTTTTTTTT
Statistics
Matches: 129, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
43 37 0.29
44 2 0.02
45 1 0.01
47 1 0.01
48 2 0.02
49 86 0.67
ACGTcount: A:0.33, C:0.08, G:0.11, T:0.48
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTGAACTTAATTT
Found at i:8773336 original size:92 final size:92
Alignment explanation
Indices: 8773229--8773420 Score: 357
Period size: 92 Copynumber: 2.1 Consensus size: 92
8773219 TCATGTGTTA
*
8773229 TAATTTTATAAAGTGTTGAGCTTATGATTCATTATATTGAACTTAATTTTAATTTTATAAAGTGT
1 TAATTTTATAAAGTGTTGAGCTTATGATTCATGATATTGAACTTAATTTTAATTTTATAAAGTGT
*
8773294 TCACCTTTTGATTCATGATATTAAACT
66 ACACCTTTTGATTCATGATATTAAACT
*
8773321 TAATTTTATAAAGTGTTGAGCTTTTGATTCATGATATTGAACTTAATTTTAATTTTATAAAGTGT
1 TAATTTTATAAAGTGTTGAGCTTATGATTCATGATATTGAACTTAATTTTAATTTTATAAAGTGT
8773386 ACACCTTTTGATTCATGATATTAAACT
66 ACACCTTTTGATTCATGATATTAAACT
8773413 TAATTTTA
1 TAATTTTA
8773421 ATTTGTTTTT
Statistics
Matches: 97, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 97 1.00
ACGTcount: A:0.33, C:0.08, G:0.11, T:0.48
Consensus pattern (92 bp):
TAATTTTATAAAGTGTTGAGCTTATGATTCATGATATTGAACTTAATTTTAATTTTATAAAGTGT
ACACCTTTTGATTCATGATATTAAACT
Found at i:8775649 original size:3 final size:3
Alignment explanation
Indices: 8775641--8775666 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
8775631 GTGAGGTAAG
8775641 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
8775667 GTGGGAATTA
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:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:8783153 original size:3 final size:3
Alignment explanation
Indices: 8783145--8783180 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
8783135 GTGAGGTAAG
8783145 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8783181 GAGTGGGAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:8785078 original size:21 final size:21
Alignment explanation
Indices: 8785037--8785079 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
8785027 AATAAAGTAG
*
8785037 ATTATATATTATTTTTATAGT
1 ATTATATATTATATTTATAGT
8785058 ATTATATATTATGATTT-TAGT
1 ATTATATATTAT-ATTTATAGT
8785079 A
1 A
8785080 AATTCATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
ATTATATATTATATTTATAGT
Found at i:8785130 original size:18 final size:18
Alignment explanation
Indices: 8785107--8785142 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
8785097 TTATATTGAA
8785107 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
8785125 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
8785143 AATAATAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTTATTAAATTATATAT
Found at i:8785189 original size:117 final size:118
Alignment explanation
Indices: 8785044--8785280 Score: 388
Period size: 120 Copynumber: 2.0 Consensus size: 118
8785034 TAGATTATAT
*
8785044 ATTATTTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAATT-ATATT-GAA
1 ATTATTTTTATAGTATTATATATAATGATTTTAGTAAATTCATATAAGAATAATTAATATTAGAA
* * *
8785107 TTTTATTAAATTATATATTTTTATTAAATTATATATAATAATAATTATTTTAA
66 TTTTATTAAATTATATATTTTAATTAAATTATATATAATAACAATTATGTTAA
*
8785160 ATTATATTTTATAGTATTATATATAATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
1 ATTAT-TTTTATAGTATTATATATAATGATTTTAGTAAATTCATATAAGAATAATTAATATT-AG
*
8785225 AATTTTATTAAATTATATATTTTAATTAAATTATATTTAATAACAATTATGTTAA
64 AATTTTATTAAATTATATATTTTAATTAAATTATATATAATAACAATTATGTTAA
8785280 A
1 A
8785281 ATATGATTAA
Statistics
Matches: 111, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
116 5 0.05
117 48 0.43
118 5 0.05
120 53 0.48
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (118 bp):
ATTATTTTTATAGTATTATATATAATGATTTTAGTAAATTCATATAAGAATAATTAATATTAGAA
TTTTATTAAATTATATATTTTAATTAAATTATATATAATAACAATTATGTTAA
Found at i:8785252 original size:18 final size:17
Alignment explanation
Indices: 8785226--8785260 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
8785216 AATATTAAGA
8785226 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
8785243 ATTTTAATTAAATTATAT
1 ATTTT-ATTAAATTATAT
8785261 TTAATAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:8785509 original size:45 final size:44
Alignment explanation
Indices: 8785420--8785512 Score: 118
Period size: 44 Copynumber: 2.1 Consensus size: 44
8785410 ATTACAACAT
*
8785420 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAAGAATACTATTACAGCTCTATTC
* *
8785464 CATTCCATTCAACCAAACA-ATTGAATTACTATTA-TGCCTCTATTC
1 CATTCCATTCAACCAAACACA-AGAA-TACTATTACAG-CTCTATTC
8785509 CATT
1 CATT
8785513 ACAGCGAACC
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
43 1 0.02
44 23 0.53
45 19 0.44
ACGTcount: A:0.35, C:0.27, G:0.04, T:0.33
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAGAATACTATTACAGCTCTATTC
Found at i:8787906 original size:16 final size:16
Alignment explanation
Indices: 8787885--8787916 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
8787875 GGTTGGGACG
*
8787885 TTAGTTCCGTGTTTAC
1 TTAGTTCCATGTTTAC
8787901 TTAGTTCCATGTTTAC
1 TTAGTTCCATGTTTAC
8787917 ATTCTAGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.19, G:0.16, T:0.50
Consensus pattern (16 bp):
TTAGTTCCATGTTTAC
Found at i:8788765 original size:9 final size:9
Alignment explanation
Indices: 8788751--8788799 Score: 80
Period size: 9 Copynumber: 5.4 Consensus size: 9
8788741 TTTGGTTAAA
8788751 AATTAACCG
1 AATTAACCG
8788760 AATTAACCG
1 AATTAACCG
8788769 AATTAACCG
1 AATTAACCG
*
8788778 AATTACCCG
1 AATTAACCG
*
8788787 GATTAACCG
1 AATTAACCG
8788796 AATT
1 AATT
8788800 GAATCACTAC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.41, C:0.22, G:0.12, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Done.