Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 340 of 373
Found at i:113755494 original size:24 final size:25
Alignment explanation
Indices: 113755458--113755505 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
113755448 TTTAAAGACT
* *
113755458 TTTTATTTATTATTTATATTTTTAC
1 TTTTATCTATTATTTATATATTTAC
113755483 TTTTATCT-TTATTTATATATTTA
1 TTTTATCTATTATTTATATATTTA
113755506 AAGTACTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (25 bp):
TTTTATCTATTATTTATATATTTAC
Found at i:113757655 original size:61 final size:61
Alignment explanation
Indices: 113757500--113757634 Score: 243
Period size: 61 Copynumber: 2.2 Consensus size: 61
113757490 ATGGGTAGTT
* *
113757500 CACACGCCCGTGTAGTTTTAGCAAACTCTAACACGGCCTAGACTTCCTTACACGAGTAGAC
1 CACACGCCCGTGTAGTTTTAGCAGACTCTAACACAGCCTAGACTTCCTTACACGAGTAGAC
*
113757561 CACACGCCCGTGTAGTTTTAGCAGACTCTAACACAGCCTAGACTTCCTTACACGGGTAGAC
1 CACACGCCCGTGTAGTTTTAGCAGACTCTAACACAGCCTAGACTTCCTTACACGAGTAGAC
113757622 CACACGCCCGTGT
1 CACACGCCCGTGT
113757635 CTATTTAACA
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
61 71 1.00
ACGTcount: A:0.26, C:0.33, G:0.19, T:0.22
Consensus pattern (61 bp):
CACACGCCCGTGTAGTTTTAGCAGACTCTAACACAGCCTAGACTTCCTTACACGAGTAGAC
Found at i:113759189 original size:45 final size:45
Alignment explanation
Indices: 113759125--113759214 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
113759115 CAACTTTTAT
113759125 TTCCTATGCTTCCAAGAAATATTTTTAAGATAAAAAACATTTGTA
1 TTCCTATGCTTCCAAGAAATATTTTTAAGATAAAAAACATTTGTA
113759170 TTCCTATGCTTCCAAGAAATATTTTTAAGATAAAAAACATTTGTA
1 TTCCTATGCTTCCAAGAAATATTTTTAAGATAAAAAACATTTGTA
113759215 AAAAAAGAGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (45 bp):
TTCCTATGCTTCCAAGAAATATTTTTAAGATAAAAAACATTTGTA
Found at i:113769537 original size:15 final size:16
Alignment explanation
Indices: 113769519--113769548 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
113769509 TTTTTAAGAT
113769519 AAAATTT-TTTTTTAC
1 AAAATTTCTTTTTTAC
113769534 AAAATTTCTTTTTTA
1 AAAATTTCTTTTTTA
113769549 ACTAAAAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (16 bp):
AAAATTTCTTTTTTAC
Found at i:113780451 original size:24 final size:24
Alignment explanation
Indices: 113780392--113780453 Score: 88
Period size: 27 Copynumber: 2.5 Consensus size: 24
113780382 ACCTATTAAA
113780392 AATATTATTTTTTTCTCCACCTTG
1 AATATTATTTTTTTCTCCACCTTG
*
113780416 AATATCTGTATTTTTTTCTCCACTTTG
1 AATA--T-TATTTTTTTCTCCACCTTG
113780443 AATATTATTTT
1 AATATTATTTT
113780454 AAAAAATACA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
24 10 0.29
25 1 0.03
26 1 0.03
27 22 0.65
ACGTcount: A:0.23, C:0.16, G:0.05, T:0.56
Consensus pattern (24 bp):
AATATTATTTTTTTCTCCACCTTG
Found at i:113785426 original size:26 final size:26
Alignment explanation
Indices: 113785397--113785504 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
113785387 TGGTACAAAT
*
113785397 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
113785423 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
113785449 TGATAATGGGTTATGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
113785475 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
113785501 TGAT
1 TGAT
113785505 GGGCATTTCA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.39
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:113792480 original size:26 final size:26
Alignment explanation
Indices: 113792451--113792558 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
113792441 TGGTACAAAT
*
113792451 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
** *
113792477 TGATAATGTATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
113792503 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
113792529 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
113792555 TGAT
1 TGAT
113792559 GGGCATTTCA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.39
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:113801177 original size:15 final size:15
Alignment explanation
Indices: 113801157--113801264 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
113801147 TTTATGGAAA
113801157 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
113801172 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
113801186 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
113801202 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
113801216 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
113801232 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
113801246 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
113801262 ATC
1 ATC
113801265 GAGATATTGG
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:113801194 original size:30 final size:30
Alignment explanation
Indices: 113801151--113801274 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
113801141 TCCATATTTA
* *
113801151 TGGAAAATCAAAGATATGGGTATCAAATAA
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
113801181 TAGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
113801211 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
113801241 TGGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
113801272 TGG
1 TGG
113801275 CATAATAAAA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 80 0.91
31 8 0.09
ACGTcount: A:0.44, C:0.06, G:0.24, T:0.26
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:113805869 original size:15 final size:15
Alignment explanation
Indices: 113805849--113805956 Score: 69
Period size: 15 Copynumber: 7.2 Consensus size: 15
113805839 TTTATGGAAA
113805849 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
113805864 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
113805878 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
113805894 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
113805908 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* * **
113805924 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
113805938 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
113805954 ATC
1 ATC
113805957 GAGATATTGG
Statistics
Matches: 65, Mismatches: 22, Indels: 12
0.66 0.22 0.12
Matches are distributed among these distances:
14 12 0.18
15 41 0.63
16 12 0.18
ACGTcount: A:0.46, C:0.07, G:0.21, T:0.25
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:113805886 original size:30 final size:30
Alignment explanation
Indices: 113805845--113805956 Score: 197
Period size: 30 Copynumber: 3.7 Consensus size: 30
113805835 CATATTTATG
*
113805845 GAAAATCAAAGATATGGGTATCAAATAATA
1 GAAAGTCAAAGATATGGGTATCAAATAATA
* *
113805875 GAAAGTCAAAGATATGGGTATCAAATATTG
1 GAAAGTCAAAGATATGGGTATCAAATAATA
113805905 GAAAGTCAAAGATATGGGTATCAAATAATA
1 GAAAGTCAAAGATATGGGTATCAAATAATA
113805935 GAAAGTCAAAGATATGGGTATC
1 GAAAGTCAAAGATATGGGTATC
113805957 GAGATATTGG
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 77 1.00
ACGTcount: A:0.47, C:0.07, G:0.21, T:0.24
Consensus pattern (30 bp):
GAAAGTCAAAGATATGGGTATCAAATAATA
Found at i:113805914 original size:60 final size:61
Alignment explanation
Indices: 113805843--113805966 Score: 223
Period size: 60 Copynumber: 2.0 Consensus size: 61
113805833 TCCATATTTA
113805843 TGGAAAATCAAAGATATGGGTATCAAATAATAGAAAGTCAAAGATATGGGTATC-AAATAT
1 TGGAAAATCAAAGATATGGGTATCAAATAATAGAAAGTCAAAGATATGGGTATCGAAATAT
* *
113805903 TGGAAAGTCAAAGATATGGGTATCAAATAATAGAAAGTCAAAGATATGGGTATCGAGATAT
1 TGGAAAATCAAAGATATGGGTATCAAATAATAGAAAGTCAAAGATATGGGTATCGAAATAT
113805964 TGG
1 TGG
113805967 CATAATAAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
60 53 0.87
61 8 0.13
ACGTcount: A:0.45, C:0.06, G:0.23, T:0.25
Consensus pattern (61 bp):
TGGAAAATCAAAGATATGGGTATCAAATAATAGAAAGTCAAAGATATGGGTATCGAAATAT
Found at i:113810285 original size:7 final size:7
Alignment explanation
Indices: 113810273--113810303 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
113810263 GTCTTGAGTT
*
113810273 GGATCTA
1 GGATCTC
113810280 GGATCTC
1 GGATCTC
113810287 GGATCTC
1 GGATCTC
113810294 GGATCTC
1 GGATCTC
113810301 GGA
1 GGA
113810304 ATTAGGTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.19, C:0.23, G:0.32, T:0.26
Consensus pattern (7 bp):
GGATCTC
Found at i:113810945 original size:5 final size:5
Alignment explanation
Indices: 113810934--113810973 Score: 62
Period size: 5 Copynumber: 8.0 Consensus size: 5
113810924 AAACTCCAAT
* *
113810934 CAAAC TAAAC TAAAC CAAAC CAAAC CAAAC CAAAC CAAAC
1 CAAAC CAAAC CAAAC CAAAC CAAAC CAAAC CAAAC CAAAC
113810974 TTGGCACTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.60, C:0.35, G:0.00, T:0.05
Consensus pattern (5 bp):
CAAAC
Found at i:113812062 original size:6 final size:6
Alignment explanation
Indices: 113812040--113812072 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
113812030 CCAGATCATG
113812040 TTTG-T TTTGTCT TTTGTT TTTGTT TTTGTT TTT
1 TTTGTT TTTGT-T TTTGTT TTTGTT TTTGTT TTT
113812073 CGAAATGGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 4 0.15
6 16 0.62
7 6 0.23
ACGTcount: A:0.00, C:0.03, G:0.15, T:0.82
Consensus pattern (6 bp):
TTTGTT
Found at i:113819759 original size:18 final size:18
Alignment explanation
Indices: 113819736--113819770 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
113819726 GATAAATAGC
113819736 TATAAAATAATACATAAA
1 TATAAAATAATACATAAA
*
113819754 TATAAAATAATATATAA
1 TATAAAATAATACATAA
113819771 TTTCTCAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (18 bp):
TATAAAATAATACATAAA
Found at i:113826484 original size:30 final size:30
Alignment explanation
Indices: 113826448--113826507 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
113826438 ACTTAACAAG
113826448 CAAATGCCTCTAAAATAATAAAAAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAAATTAA
* *
113826478 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAAATTAA
113826508 TAATAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.58, C:0.13, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAAAAAAATTAA
Found at i:113831662 original size:13 final size:14
Alignment explanation
Indices: 113831646--113831687 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
113831636 TCTCAATTTT
113831646 ATTTTAATAAT-TA
1 ATTTTAATAATATA
*
113831659 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
113831674 ATTTTAAATAATAT
1 ATTTT-AATAATAT
113831688 TCTCTATACA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
15 9 0.38
16 5 0.21
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:113831677 original size:15 final size:17
Alignment explanation
Indices: 113831650--113831686 Score: 60
Period size: 15 Copynumber: 2.3 Consensus size: 17
113831640 AATTTTATTT
113831650 TAATAATTAATTTTAAA
1 TAATAATTAATTTTAAA
113831667 -AATAA-TAATTTTAAA
1 TAATAATTAATTTTAAA
113831682 TAATA
1 TAATA
113831687 TTCTCTATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAATAATTAATTTTAAA
Found at i:113833711 original size:24 final size:24
Alignment explanation
Indices: 113833624--113833800 Score: 230
Period size: 24 Copynumber: 7.2 Consensus size: 24
113833614 CAACTCTTAT
* *
113833624 GAGCGTCCTGTTATATGGCTCTTCG
1 GAGCTTCCCGTTA-ATGGCTCTTCG
* *
113833649 TGAGCTTCCCGATTAAAGGCTCTTTG
1 -GAGCTTCCCG-TTAATGGCTCTTCG
*
113833675 TGAGCTTCCCGTTAATAGCTCTTCG
1 -GAGCTTCCCGTTAATGGCTCTTCG
*
113833700 GAGCTTCTCGTTAATGGCTAC-TCG
1 GAGCTTCCCGTTAATGGCT-CTTCG
**
113833724 GAGCTTCTAGTTAATGGCTCTTCG
1 GAGCTTCCCGTTAATGGCTCTTCG
113833748 GAGCTTCCCGTTAATGGCTCTTCG
1 GAGCTTCCCGTTAATGGCTCTTCG
113833772 GAGCTTCCCGTTAATGGCTCTTCG
1 GAGCTTCCCGTTAATGGCTCTTCG
113833796 GAGCT
1 GAGCT
113833801 ACTGTTATTG
Statistics
Matches: 136, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
23 1 0.01
24 92 0.68
25 12 0.09
26 28 0.21
27 3 0.02
ACGTcount: A:0.15, C:0.25, G:0.25, T:0.34
Consensus pattern (24 bp):
GAGCTTCCCGTTAATGGCTCTTCG
Found at i:113833754 original size:72 final size:72
Alignment explanation
Indices: 113833624--113833837 Score: 227
Period size: 72 Copynumber: 2.9 Consensus size: 72
113833614 CAACTCTTAT
* * * * * *
113833624 GAGCGTCCTGTTATATGGCTCTTCGTGAGCTTCCCGATTAAAGGCTCTTTGTGAGCTTCCCGTTA
1 GAGCTTCCCGTTA-ATGGCTCTTCG-GAGC-TACTG-TTAATGGCTCTTCGTGAGCTTCCCGTTA
113833689 ATAGCTCTTCG
62 ATAGCTCTTCG
* *
113833700 GAGCTTCTCGTTAATGGCTAC-TCGGAGCTTCTAGTTAATGGCTCTTCG-GAGCTTCCCGTTAAT
1 GAGCTTCCCGTTAATGGCT-CTTCGGAGCTACT-GTTAATGGCTCTTCGTGAGCTTCCCGTTAAT
*
113833763 GGCTCTTCG
64 AGCTCTTCG
* * * *
113833772 GAGCTTCCCGTTAATGGCTCTTCGGAGCTACTGTTATTGGCTC-GCATGAGCTTCCTGTTATATA
1 GAGCTTCCCGTTAATGGCTCTTCGGAGCTACTGTTAATGGCTCTTCGTGAGCTTCCCGTTA-ATA
113833836 GC
65 GC
113833838 CCGGATAAGC
Statistics
Matches: 118, Mismatches: 15, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
70 1 0.01
71 23 0.19
72 55 0.47
73 14 0.12
74 5 0.04
75 9 0.08
76 11 0.09
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (72 bp):
GAGCTTCCCGTTAATGGCTCTTCGGAGCTACTGTTAATGGCTCTTCGTGAGCTTCCCGTTAATAG
CTCTTCG
Found at i:113836738 original size:114 final size:113
Alignment explanation
Indices: 113836526--113836743 Score: 346
Period size: 114 Copynumber: 1.9 Consensus size: 113
113836516 TAAATAAATA
* * *
113836526 TGATTTGATGTAGTTGCTCCGGCAACGAATGTGCCACCTTATAACTCGGACCCAGCGATCAGGTT
1 TGATTTGATATAGTTGCTCCGGCAACGAATGTGCCACCTTATAACTCGAACCCAGCGATCAAGTT
113836591 GGGTAACGAGGTGTTACAATATTAATATGTATTGAATGGGTAACGAGG
66 GGGTAACGAGGTGTTACAATATTAATATGTATTGAATGGGTAACGAGG
* * * *
113836639 TGATTTGACTATAGTTGCTTCGGCAACGAATGTGCTACCTTGTAACTCGAACCTAGCGATCAAGT
1 TGATTTGA-TATAGTTGCTCCGGCAACGAATGTGCCACCTTATAACTCGAACCCAGCGATCAAGT
* *
113836704 TGGGTAATGAGGTGTTACAATATTAATATTTATTGAATGG
65 TGGGTAACGAGGTGTTACAATATTAATATGTATTGAATGG
113836744 TTCAAAATTT
Statistics
Matches: 95, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
113 8 0.08
114 87 0.92
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (113 bp):
TGATTTGATATAGTTGCTCCGGCAACGAATGTGCCACCTTATAACTCGAACCCAGCGATCAAGTT
GGGTAACGAGGTGTTACAATATTAATATGTATTGAATGGGTAACGAGG
Found at i:113841648 original size:89 final size:89
Alignment explanation
Indices: 113841379--113841822 Score: 244
Period size: 87 Copynumber: 5.1 Consensus size: 89
113841369 CGATACATGG
*
113841379 AGATAAGATTCACCATCTTCGATCTGCTCCGCTACTGTTTAGGGAGATAAGATCTTCAAT-TCTC
1 AGATAAGATTCACCATCTTCGATCTGCTCCGCTACTGTTTAGGGAGATAAGATCTTCAATCT-TA
* * *
113841443 AGTCTGATTCCTTGCTACCTTAGGA
65 AGTCTGCTTCATTGCTACCTCAGGA
* * * * * * * * ****
113841468 AGATAAGACTCA--ATCTTCAACCCGCTCTCTTGCTAC--CTCAGAGAGATAAG-GCTTGGGGCT
1 AGATAAGATTCACCATCTTCGATCTGCTC-C--GCTACTGTTTAGGGAGATAAGATCTTCAATCT
* * *
113841528 TAAATTTGCTCCATTGCTGA--TACATGG-
63 TAAGTCTGCTTCATTGCT-ACCT-CA-GGA
113841555 AGATAAGATTCACCATCTTCGATCTGCTCCGCTACTGTTTAGGGAGATAAGATCTTCAATCTTAA
1 AGATAAGATTCACCATCTTCGATCTGCTCCGCTACTGTTTAGGGAGATAAGATCTTCAATCTTAA
*
113841620 GTCTGCTTCTTTGCTACCTCAGGA
66 GTCTGCTTCATTGCTACCTCAGGA
* * * * * * * * * ****
113841644 AGATAAAACTCA--ATCTTCAACCTGCTCTTTTGCTAC--CTCAGAGAGATAAG-GCTTGGGGCT
1 AGATAAGATTCACCATCTTCGATCTGCTC---CGCTACTGTTTAGGGAGATAAGATCTTCAATCT
* *
113841704 TAAATCTGCTCCA-T--TACCGATACATGG-
63 TAAGTCTGCTTCATTGCTACC--T-CA-GGA
* * * * * *
113841731 AGATAAGATTCGCCATCTTCGATCTACTCTGCTATTGTTTA-AG-GATAAGATCTTCAATCTTCA
1 AGATAAGATTCACCATCTTCGATCTGCTCCGCTACTGTTTAGGGAGATAAGATCTTCAATCTTAA
*
113841794 GTCTGCTTCCTTGCTACCTCAGGA
66 GTCTGCTTCATTGCTACCTCAGGA
113841818 AGATA
1 AGATA
113841823 TGACTCAATT
Statistics
Matches: 255, Mismatches: 69, Indels: 64
0.66 0.18 0.16
Matches are distributed among these distances:
84 4 0.02
86 21 0.08
87 101 0.40
88 48 0.19
89 66 0.26
90 15 0.06
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (89 bp):
AGATAAGATTCACCATCTTCGATCTGCTCCGCTACTGTTTAGGGAGATAAGATCTTCAATCTTAA
GTCTGCTTCATTGCTACCTCAGGA
Found at i:113841875 original size:174 final size:176
Alignment explanation
Indices: 113841265--113841934 Score: 925
Period size: 176 Copynumber: 3.8 Consensus size: 176
113841255 CTACAATCAA
* * ** * * *
113841265 TCTGTTTCCTTGTTACCTTGGGAAGATAAGACTACAAT-TGCCAATCTGCTCTCTTGCTTCCTCA
1 TCTGCTTCCTTGCTACCTCAGGAAGATAAGACT-CAATCT-TCAACCTGCTCTCTTGCTACCTCA
* * * ** *
113841329 AAAAGATAAGGCCAGTGGTACTTTAAATCTGCTCTATTGCCGATACATGGAGATAAGATTCACCA
64 GAGAGATAAGG-C-TTGGGGC-TTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCA
*
113841394 TCTTCGATCTGCTCCGCTACTGTTTAGGGAGATAAGATCTTCAAT-TCTCAG
126 TCTTCGATCTACTCCGCTACTGTTTAGGGAGATAAGATCTTCAATCT-TCAG
* * *
113841445 TCTGATTCCTTGCTACCTTAGGAAGATAAGACTCAATCTTCAACCCGCTCTCTTGCTACCTCAGA
1 TCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGA
* *
113841510 GAGATAAGGCTTGGGGCTTAAATTTGCTCCATTGCTGATACATGGAGATAAGATTCACCATCTTC
66 GAGATAAGGCTTGGGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTTC
* *
113841575 GATCTGCTCCGCTACTGTTTAGGGAGATAAGATCTTCAATCTTAAG
131 GATCTACTCCGCTACTGTTTAGGGAGATAAGATCTTCAATCTTCAG
* * *
113841621 TCTGCTTCTTTGCTACCTCAGGAAGATAAAACTCAATCTTCAACCTGCTCTTTTGCTACCTCAGA
1 TCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGA
* *
113841686 GAGATAAGGCTTGGGGCTTAAATCTGCTCCATTACCGATACATGGAGATAAGATTCGCCATCTTC
66 GAGATAAGGCTTGGGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTTC
* * *
113841751 GATCTACTCTGCTATTGTTTA-AG-GATAAGATCTTCAATCTTCAG
131 GATCTACTCCGCTACTGTTTAGGGAGATAAGATCTTCAATCTTCAG
* * * * *
113841795 TCTGCTTCCTTGCTACCTCAGGAAGATATGACTCAATTTTCAACCTACTCTCTTACTACCCCAGA
1 TCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGA
* * *
113841860 GAGATAAGACTTGGGGCTTAAATCTGCTCTATTGCCGATACATGGAGATAAGATTCGCCATCTTC
66 GAGATAAGGCTTGGGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTTC
113841925 GATCTACTCC
131 GATCTACTCC
113841935 ACTGCAACTT
Statistics
Matches: 445, Mismatches: 43, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
174 148 0.33
175 1 0.00
176 226 0.51
177 5 0.01
178 1 0.00
179 33 0.07
180 31 0.07
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (176 bp):
TCTGCTTCCTTGCTACCTCAGGAAGATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGA
GAGATAAGGCTTGGGGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCATCTTC
GATCTACTCCGCTACTGTTTAGGGAGATAAGATCTTCAATCTTCAG
Found at i:113867063 original size:24 final size:24
Alignment explanation
Indices: 113867016--113867065 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
113867006 CCGTTTCTCG
**
113867016 CTCTTTTTACTCTCTTATGTTCAC
1 CTCTTTTTACTCTCTTATCCTCAC
113867040 CTCTTTTTACTCTCTTATCCTCAC
1 CTCTTTTTACTCTCTTATCCTCAC
113867064 CT
1 CT
113867066 AAGTATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.12, C:0.34, G:0.02, T:0.52
Consensus pattern (24 bp):
CTCTTTTTACTCTCTTATCCTCAC
Found at i:113867944 original size:18 final size:18
Alignment explanation
Indices: 113867907--113867945 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
113867897 CTCAAAAGAC
* *
113867907 TTTATATCTTTTTGGAAT
1 TTTAAATCTTTTAGGAAT
*
113867925 TTTAAATCTTTTAGGGAT
1 TTTAAATCTTTTAGGAAT
113867943 TTT
1 TTT
113867946 CATATAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.23, C:0.05, G:0.13, T:0.59
Consensus pattern (18 bp):
TTTAAATCTTTTAGGAAT
Found at i:113873278 original size:46 final size:46
Alignment explanation
Indices: 113873228--113873490 Score: 422
Period size: 46 Copynumber: 5.7 Consensus size: 46
113873218 GTGTGCTCTC
*
113873228 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATC-
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAA-CG
* *
113873274 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACG
*
113873320 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACG
*
113873366 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACG
* *
113873412 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACG
*
113873458 TGATA-GAAAATGAGTAAGACCATAGTTGAAAGA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGA
113873491 CACTATGACA
Statistics
Matches: 209, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
45 2 0.01
46 207 0.99
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.23
Consensus pattern (46 bp):
TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACG
Found at i:113873806 original size:16 final size:17
Alignment explanation
Indices: 113873785--113873817 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
113873775 ATGATGGAGC
113873785 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
113873801 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
113873818 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:113875604 original size:13 final size:13
Alignment explanation
Indices: 113875586--113875651 Score: 80
Period size: 13 Copynumber: 5.1 Consensus size: 13
113875576 AGTTTGGCAA
*
113875586 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
*
113875599 TGCTTTTGAAAAA
1 TGCTTTTGAAAAG
*
113875612 TG-TTGTGGAAAAG
1 TGCTT-TTGAAAAG
*
113875625 TACTTTTGAAAAG
1 TGCTTTTGAAAAG
113875638 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
113875651 T
1 T
113875652 TTAATTTAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
12 2 0.05
13 40 0.91
14 2 0.05
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:113884243 original size:50 final size:50
Alignment explanation
Indices: 113884163--113884257 Score: 115
Period size: 50 Copynumber: 1.9 Consensus size: 50
113884153 ATACCCATAC
*
113884163 GAGCACATAATCGGGAAGCTCTTCTAAGCC-ATGTAACAGAAAGCTTATGT
1 GAGCACATAATCGGGAAACTCTTCTAAGCCAAT-TAACAGAAAGCTTATGT
* *
113884213 GAGCTACATAA-CGGGAAACTCTTAC-GAGCCAATTATCAGAAAGCT
1 GAGC-ACATAATCGGGAAACTCTT-CTAAGCCAATTAACAGAAAGCT
113884258 CATACGAGCC
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
50 30 0.77
51 9 0.23
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (50 bp):
GAGCACATAATCGGGAAACTCTTCTAAGCCAATTAACAGAAAGCTTATGT
Found at i:113884320 original size:24 final size:24
Alignment explanation
Indices: 113884277--113884331 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
113884267 CATAAACGAG
113884277 AAGCTCAAGAGAGCCAAATTCAAA
1 AAGCTCAAGAGAGCCAAATTCAAA
* * *
113884301 AAGCTCAAGAGAGCTAAATTTAGA
1 AAGCTCAAGAGAGCCAAATTCAAA
113884325 AAGCTCA
1 AAGCTCA
113884332 TACAGGCCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.47, C:0.18, G:0.18, T:0.16
Consensus pattern (24 bp):
AAGCTCAAGAGAGCCAAATTCAAA
Found at i:113884371 original size:25 final size:23
Alignment explanation
Indices: 113884337--113884449 Score: 66
Period size: 25 Copynumber: 4.6 Consensus size: 23
113884327 GCTCATACAG
113884337 GCCATTATCGAGAAGCTCTGGAGA
1 GCCATTATCGAGAAGCT-TGGAGA
* * *
113884361 GCCATTAATCGGGAAACTCAT-GAAA
1 GCCATT-ATCGAGAAGCT--TGGAGA
* *
113884386 GTCAATTATCGGGAAGCTTCGGAGA
1 G-CCATTATCGAGAAGCTT-GGAGA
* *
113884411 GCCATTAACTAGGAAGCTTGTGAGA
1 GCCATTATCGA-GAAGCTTG-GAGA
*
113884436 GCCAAGTATCGAGA
1 GCC-ATTATCGAGA
113884450 CGCTCATAAG
Statistics
Matches: 67, Mismatches: 14, Indels: 15
0.70 0.15 0.16
Matches are distributed among these distances:
23 1 0.01
24 13 0.19
25 43 0.64
26 10 0.15
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (23 bp):
GCCATTATCGAGAAGCTTGGAGA
Found at i:113887441 original size:14 final size:14
Alignment explanation
Indices: 113887419--113887460 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
113887409 AGTCTTCAAT
113887419 TATAGTAAATATAA
1 TATAGTAAATATAA
* *
113887433 TATAATAAATAAAA
1 TATAGTAAATATAA
113887447 TATAGTAAAATATA
1 TATAGT-AAATATA
113887461 CCTGAAGATC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 17 0.74
15 6 0.26
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (14 bp):
TATAGTAAATATAA
Found at i:113893619 original size:40 final size:40
Alignment explanation
Indices: 113893564--113893644 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
113893554 TCATTCCCGC
113893564 TAGGAAATCCCATTCAACTCGATCGTATGCCTTACTCATA
1 TAGGAAATCCCATTCAACTCGATCGTATGCCTTACTCATA
113893604 TAGGAAATCCCATTCAACTCGATCGTATGCCTTACTCATA
1 TAGGAAATCCCATTCAACTCGATCGTATGCCTTACTCATA
113893644 T
1 T
113893645 CGAGTTTTAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (40 bp):
TAGGAAATCCCATTCAACTCGATCGTATGCCTTACTCATA
Found at i:113898768 original size:33 final size:33
Alignment explanation
Indices: 113898730--113898797 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
113898720 AAGAAGTATG
113898730 AAACAAAGAATTTCAACCATCTATCTATCATGA
1 AAACAAAGAATTTCAACCATCTATCTATCATGA
113898763 AAACAAAGAATTTCAACCATCTATCTATCATGA
1 AAACAAAGAATTTCAACCATCTATCTATCATGA
113898796 AA
1 AA
113898798 GTCTGCACTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.47, C:0.21, G:0.06, T:0.26
Consensus pattern (33 bp):
AAACAAAGAATTTCAACCATCTATCTATCATGA
Found at i:113904652 original size:25 final size:22
Alignment explanation
Indices: 113904621--113904678 Score: 71
Period size: 24 Copynumber: 2.5 Consensus size: 22
113904611 ATTATATGTG
113904621 TATATATTATGTAAAATGTTTTAA
1 TATATATTATGT-AAATGTTTT-A
* *
113904645 TATTATATTATATATATGTTTTA
1 TA-TATATTATGTAAATGTTTTA
113904668 TATATATTATG
1 TATATATTATG
113904679 AACATGTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 8 0.27
23 3 0.10
24 10 0.33
25 9 0.30
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (22 bp):
TATATATTATGTAAATGTTTTA
Found at i:113904685 original size:22 final size:23
Alignment explanation
Indices: 113904621--113904685 Score: 71
Period size: 22 Copynumber: 2.8 Consensus size: 23
113904611 ATTATATGTG
113904621 TATATATTATGTAAAATGTTTTAA
1 TATATATTATG-AAAATGTTTTAA
*
113904645 TATTATATTAT-ATATATGTTTT-A
1 TA-TATATTATGA-AAATGTTTTAA
*
113904668 TATATATTATGAACATGT
1 TATATATTATGAAAATGT
113904686 ATTTTCAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
22 13 0.36
23 5 0.14
24 10 0.28
25 8 0.22
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (23 bp):
TATATATTATGAAAATGTTTTAA
Found at i:113908372 original size:24 final size:25
Alignment explanation
Indices: 113908333--113908383 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
113908323 CAAACCTGCA
*
113908333 AAAATTGAATACAACTAAGTTAAAT
1 AAAATTGAATACAACTAAGTAAAAT
*
113908358 AAAATT-AATAGAACTAAGTAAAAT
1 AAAATTGAATACAACTAAGTAAAAT
113908382 AA
1 AA
113908384 CAAAACCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 18 0.75
25 6 0.25
ACGTcount: A:0.61, C:0.06, G:0.08, T:0.25
Consensus pattern (25 bp):
AAAATTGAATACAACTAAGTAAAAT
Found at i:113909635 original size:42 final size:43
Alignment explanation
Indices: 113909565--113909659 Score: 149
Period size: 43 Copynumber: 2.2 Consensus size: 43
113909555 AAACTGAAGT
*
113909565 TTATCTTC-TCATTTTTTAAATTCTTTTTTCAACAACCCAATA
1 TTATCTTCTTCATTTTTTAAATTCTTTTTTCAACAACCCAAGA
*
113909607 TTATCTTCTTC-TATTTTTAAATTCTTTTTTCAACAACTCAAGA
1 TTATCTTCTTCAT-TTTTTAAATTCTTTTTTCAACAACCCAAGA
113909650 TTATCTTCTT
1 TTATCTTCTT
113909660 TTTAAATTAT
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
42 9 0.18
43 40 0.82
ACGTcount: A:0.26, C:0.20, G:0.01, T:0.53
Consensus pattern (43 bp):
TTATCTTCTTCATTTTTTAAATTCTTTTTTCAACAACCCAAGA
Found at i:113909663 original size:38 final size:40
Alignment explanation
Indices: 113909577--113909675 Score: 130
Period size: 43 Copynumber: 2.5 Consensus size: 40
113909567 ATCTTCTCAT
*
113909577 TTTTTAAATTCTTTTTTCAACAACCCAATATTATCTTCTTCTA
1 TTTTTAAATTCTTTTTTCAACAACCCAAGATTA--TTCTTC-A
*
113909620 TTTTTAAATTCTTTTTTCAACAACTCAAGATTA-TCTTC-
1 TTTTTAAATTCTTTTTTCAACAACCCAAGATTATTCTTCA
*
113909658 TTTTTAAATTATTTTTTC
1 TTTTTAAATTCTTTTTTC
113909676 TAGGATAAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
38 17 0.32
40 5 0.09
43 31 0.58
ACGTcount: A:0.27, C:0.17, G:0.01, T:0.55
Consensus pattern (40 bp):
TTTTTAAATTCTTTTTTCAACAACCCAAGATTATTCTTCA
Found at i:113913122 original size:29 final size:29
Alignment explanation
Indices: 113913089--113913145 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
113913079 CTTATCGATT
113913089 AATGCAATTGGATGATTTAATGGCCTAAA
1 AATGCAATTGGATGATTTAATGGCCTAAA
113913118 AATGCAATTGGATGATTTAATGGCCTAA
1 AATGCAATTGGATGATTTAATGGCCTAA
113913146 GTAGAAAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.32
Consensus pattern (29 bp):
AATGCAATTGGATGATTTAATGGCCTAAA
Found at i:113922282 original size:12 final size:12
Alignment explanation
Indices: 113922267--113922318 Score: 77
Period size: 12 Copynumber: 4.3 Consensus size: 12
113922257 CCCAGAGTCA
* *
113922267 GAGCCAAAGTCG
1 GAGCCAGAGCCG
113922279 GAGCCAGAGCCG
1 GAGCCAGAGCCG
*
113922291 GAGCCGGAGCCG
1 GAGCCAGAGCCG
113922303 GAGCCAGAGCCG
1 GAGCCAGAGCCG
113922315 GAGC
1 GAGC
113922319 TACACTCCGG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 36 1.00
ACGTcount: A:0.25, C:0.31, G:0.42, T:0.02
Consensus pattern (12 bp):
GAGCCAGAGCCG
Found at i:113922288 original size:6 final size:6
Alignment explanation
Indices: 113922258--113922318 Score: 50
Period size: 6 Copynumber: 10.2 Consensus size: 6
113922248 GGAGGTAGAC
* * * * * * *
113922258 CCAGAG TCAGAG CCAAAG TCGGAG CCAGAG CCGGAG CCGGAG CCGGAG
1 CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG
*
113922306 CCAGAG CCGGAG C
1 CCAGAG CCAGAG C
113922319 TACACTCCGG
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.26, C:0.31, G:0.39, T:0.03
Consensus pattern (6 bp):
CCAGAG
Found at i:113922288 original size:18 final size:18
Alignment explanation
Indices: 113922265--113922318 Score: 72
Period size: 18 Copynumber: 3.0 Consensus size: 18
113922255 GACCCAGAGT
* *
113922265 CAGAGCCAAAGTCGGAGC
1 CAGAGCCAGAGCCGGAGC
*
113922283 CAGAGCCGGAGCCGGAGC
1 CAGAGCCAGAGCCGGAGC
*
113922301 CGGAGCCAGAGCCGGAGC
1 CAGAGCCAGAGCCGGAGC
113922319 TACACTCCGG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.26, C:0.31, G:0.41, T:0.02
Consensus pattern (18 bp):
CAGAGCCAGAGCCGGAGC
Found at i:113922669 original size:27 final size:27
Alignment explanation
Indices: 113922623--113922676 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
113922613 ATGTAAATTA
113922623 TTTTTTTGCATTATATTTATC-GATTT
1 TTTTTTTGCATTATATTTATCGGATTT
*
113922649 TTTTATTTGGCATTTTA-TTATCGGATTT
1 TTTT-TTT-GCATTATATTTATCGGATTT
113922677 GAGTGTGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 4 0.17
27 8 0.33
28 12 0.50
ACGTcount: A:0.19, C:0.07, G:0.11, T:0.63
Consensus pattern (27 bp):
TTTTTTTGCATTATATTTATCGGATTT
Found at i:113925579 original size:14 final size:14
Alignment explanation
Indices: 113925559--113925596 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
113925549 TTACAATTTT
113925559 CAAAATTTTTGATG
1 CAAAATTTTTGATG
* *
113925573 TAAAATTTTTTATG
1 CAAAATTTTTGATG
113925587 CAAAATTTTT
1 CAAAATTTTT
113925597 CATTCAGAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.37, C:0.05, G:0.08, T:0.50
Consensus pattern (14 bp):
CAAAATTTTTGATG
Found at i:113925926 original size:27 final size:27
Alignment explanation
Indices: 113925869--113925926 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
113925859 CCTACCTGAC
* *
113925869 AGGCGCGACATGTTGAGCTTGTCAGGT
1 AGGCGCGACATGTGGAGCTTCTCAGGT
*
113925896 AGGCGCGACATGTGGTGCCTTCTCAGG-
1 AGGCGCGACATGTGGAG-CTTCTCAGGT
113925923 AGGC
1 AGGC
113925927 TCAACCCGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 19 0.70
28 8 0.30
ACGTcount: A:0.17, C:0.22, G:0.38, T:0.22
Consensus pattern (27 bp):
AGGCGCGACATGTGGAGCTTCTCAGGT
Found at i:113927163 original size:19 final size:21
Alignment explanation
Indices: 113927141--113927185 Score: 53
Period size: 19 Copynumber: 2.3 Consensus size: 21
113927131 AATATATAAA
113927141 TATAAAATAATATT-AT-ATT
1 TATAAAATAATATTAATAATT
*
113927160 TAT--AATTATATTAATAATT
1 TATAAAATAATATTAATAATT
113927179 TATAAAA
1 TATAAAA
113927186 ATTTAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 6
0.75 0.04 0.21
Matches are distributed among these distances:
17 8 0.38
18 2 0.10
19 9 0.43
21 2 0.10
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TATAAAATAATATTAATAATT
Found at i:113927169 original size:25 final size:25
Alignment explanation
Indices: 113927135--113927182 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
113927125 GTATATAATA
113927135 TATAAATATA-AAATAATATTATATT
1 TATAAATATATAAATAAT-TTATATT
* *
113927160 TATAATTATATTAATAATTTATA
1 TATAAATATATAAATAATTTATA
113927183 AAAATTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 14 0.70
26 6 0.30
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
TATAAATATATAAATAATTTATATT
Found at i:113932447 original size:14 final size:14
Alignment explanation
Indices: 113932428--113932454 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
113932418 ATGTATTTTG
113932428 TTTATATTACAAAA
1 TTTATATTACAAAA
113932442 TTTATATTACAAA
1 TTTATATTACAAA
113932455 GTTTGTTCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (14 bp):
TTTATATTACAAAA
Found at i:113944702 original size:113 final size:113
Alignment explanation
Indices: 113944504--113944731 Score: 447
Period size: 113 Copynumber: 2.0 Consensus size: 113
113944494 TTTCCTTTCT
113944504 CCATAAGAGATTATAAACTTCACGAAGTATATAACTAGATTCCAATAGGTTCGTGGTACCAATGT
1 CCATAAGAGATTATAAACTTCACGAAGTATATAACTAGATTCCAATAGGTTCGTGGTACCAATGT
*
113944569 CTTCCAAAGTTAGTCTAAAATGATTTGATGCTCCCGTTCTATTAATTC
66 CTTCCAAAGTTAGTCTAAAATAATTTGATGCTCCCGTTCTATTAATTC
113944617 CCATAAGAGATTATAAACTTCACGAAGTATATAACTAGATTCCAATAGGTTCGTGGTACCAATGT
1 CCATAAGAGATTATAAACTTCACGAAGTATATAACTAGATTCCAATAGGTTCGTGGTACCAATGT
113944682 CTTCCAAAGTTAGTCTAAAATAATTTGATGCTCCCGTTCTATTAATTC
66 CTTCCAAAGTTAGTCTAAAATAATTTGATGCTCCCGTTCTATTAATTC
113944730 CC
1 CC
113944732 TCTAAGGGTT
Statistics
Matches: 114, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
113 114 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (113 bp):
CCATAAGAGATTATAAACTTCACGAAGTATATAACTAGATTCCAATAGGTTCGTGGTACCAATGT
CTTCCAAAGTTAGTCTAAAATAATTTGATGCTCCCGTTCTATTAATTC
Found at i:113945285 original size:12 final size:12
Alignment explanation
Indices: 113945265--113945296 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
113945255 CTAGGCACAC
*
113945265 GTCCATGTGCCA
1 GTCCGTGTGCCA
113945277 GTCCGTGTGCCA
1 GTCCGTGTGCCA
113945289 GTCCGTGT
1 GTCCGTGT
113945297 TGATATCGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.09, C:0.31, G:0.31, T:0.28
Consensus pattern (12 bp):
GTCCGTGTGCCA
Found at i:113952308 original size:21 final size:20
Alignment explanation
Indices: 113952264--113952310 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
113952254 GACTTAAAAT
*
113952264 AAATAACATATAACAATTTA
1 AAATAACATATAACAATCTA
113952284 AAATAACATATAA-AAGGTCTA
1 AAATAACATATAACAA--TCTA
113952305 AAATAA
1 AAATAA
113952311 ATAATATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 2 0.08
20 13 0.54
21 9 0.38
ACGTcount: A:0.62, C:0.09, G:0.04, T:0.26
Consensus pattern (20 bp):
AAATAACATATAACAATCTA
Found at i:113952329 original size:23 final size:22
Alignment explanation
Indices: 113952257--113952341 Score: 75
Period size: 23 Copynumber: 3.8 Consensus size: 22
113952247 ATAAAGCGAC
*
113952257 TTAAAATAAATAACATATAACAAT
1 TTAAAATAAAT-A-ATATAAAAAT
**
113952281 TTAAAATAACAT-ATA-AAAGGT
1 TTAAAATAA-ATAATATAAAAAT
*
113952302 CTAAAATAAATAATATAAAAAT
1 TTAAAATAAATAATATAAAAAT
*
113952324 ATTAAAGTAAATAATATA
1 -TTAAAATAAATAATATA
113952342 CATAAAATAA
Statistics
Matches: 49, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
20 2 0.04
21 14 0.29
22 7 0.14
23 15 0.31
24 9 0.18
25 2 0.04
ACGTcount: A:0.62, C:0.05, G:0.04, T:0.29
Consensus pattern (22 bp):
TTAAAATAAATAATATAAAAAT
Found at i:113952374 original size:34 final size:32
Alignment explanation
Indices: 113952311--113952387 Score: 93
Period size: 34 Copynumber: 2.3 Consensus size: 32
113952301 TCTAAAATAA
*
113952311 ATAATATAAAAATATTAAAGTAAATAATATAC
1 ATAAAATAAAAATATTAAAGTAAATAATATAC
*
113952343 ATAAAATAAAAATATTTTAATA-TAAATAATATAT
1 ATAAAATAAAAATA--TTAA-AGTAAATAATATAC
113952377 ATATAAATAAA
1 ATA-AAATAAA
113952388 TAATGTATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
32 13 0.33
34 18 0.46
35 8 0.21
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (32 bp):
ATAAAATAAAAATATTAAAGTAAATAATATAC
Found at i:113955304 original size:3 final size:3
Alignment explanation
Indices: 113955296--113955359 Score: 110
Period size: 3 Copynumber: 21.3 Consensus size: 3
113955286 TTCTTTCCCC
*
113955296 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
113955344 TAA TAA TAT TAA TAA T
1 TAA TAA TAA TAA TAA T
113955360 GCTACAACAC
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:113957267 original size:26 final size:24
Alignment explanation
Indices: 113957234--113957281 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
113957224 AATTAACCAA
113957234 ATTATATTATCTAAATATGTAATTTT
1 ATTATATTATCTAAA-AT-TAATTTT
*
113957260 ATTATATTATTTAAAATTAATT
1 ATTATATTATCTAAAATTAATT
113957282 AATATTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.24
25 2 0.10
26 14 0.67
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (24 bp):
ATTATATTATCTAAAATTAATTTT
Found at i:113958617 original size:18 final size:18
Alignment explanation
Indices: 113958594--113958628 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
113958584 AATGTTTAAA
113958594 ATTTTATT-TTCTATTATT
1 ATTTTATTATT-TATTATT
113958612 ATTTTATTATTTATTAT
1 ATTTTATTATTTATTAT
113958629 ATTCCTACAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTTTATTATTTATTATT
Found at i:113964193 original size:26 final size:28
Alignment explanation
Indices: 113964164--113964228 Score: 71
Period size: 26 Copynumber: 2.4 Consensus size: 28
113964154 GGCACTCACA
113964164 TTTTATAAATAAA-TAAAAATTATT-TT
1 TTTTATAAATAAATTAAAAATTATTATT
* * * *
113964190 TTTTAAAAAAAAATTTAAAATTTTTATT
1 TTTTATAAATAAATTAAAAATTATTATT
113964218 TTTTATCAAAT
1 TTTTAT-AAAT
113964229 CACTTCATAA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
26 11 0.37
27 9 0.30
28 7 0.23
29 3 0.10
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (28 bp):
TTTTATAAATAAATTAAAAATTATTATT
Found at i:113966707 original size:14 final size:15
Alignment explanation
Indices: 113966697--113966725 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
113966687 TTTAAAAATT
113966697 AAAA-AAAAAAAAAG
1 AAAAGAAAAAAAAAG
113966711 AAAAGAAAAAAAAAG
1 AAAAGAAAAAAAAAG
113966726 TCAACAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAAAAAAG
Found at i:113971360 original size:6 final size:6
Alignment explanation
Indices: 113971317--113971358 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
113971307 CATCAGGGAT
* * *
113971317 GGGAGG GGGAGG GGGAGG GGGAGA GGGAGG AGGAGG TGGAGG
1 GGGAGG GGGAGG GGGAGG GGGAGG GGGAGG GGGAGG GGGAGG
113971359 TGAGGAGATA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.21, C:0.00, G:0.76, T:0.02
Consensus pattern (6 bp):
GGGAGG
Found at i:113974441 original size:19 final size:19
Alignment explanation
Indices: 113974419--113974457 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
113974409 CAAAATAAAG
113974419 TAGGAAATGAAAAAAATAT
1 TAGGAAATGAAAAAAATAT
113974438 TAGGAAATGAAAAAAATAT
1 TAGGAAATGAAAAAAATAT
113974457 T
1 T
113974458 CACTGCAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.23
Consensus pattern (19 bp):
TAGGAAATGAAAAAAATAT
Found at i:113976165 original size:28 final size:28
Alignment explanation
Indices: 113976134--113976190 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
113976124 AAATAAACAA
113976134 AGAGATAAAACAGTACTGAAATATACTT
1 AGAGATAAAACAGTACTGAAATATACTT
113976162 AGAGATAAAACAGTACTGAAATATACTT
1 AGAGATAAAACAGTACTGAAATATACTT
113976190 A
1 A
113976191 CATTATCAGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.51, C:0.11, G:0.14, T:0.25
Consensus pattern (28 bp):
AGAGATAAAACAGTACTGAAATATACTT
Found at i:113984432 original size:13 final size:13
Alignment explanation
Indices: 113984416--113984448 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
113984406 TTTAATTAAA
*
113984416 TTAGTTAATTAGT
1 TTAGATAATTAGT
113984429 TTAGATAATTAGT
1 TTAGATAATTAGT
113984442 TTA-ATAA
1 TTAGATAA
113984449 ACAAACCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:113989822 original size:6 final size:6
Alignment explanation
Indices: 113989804--113989865 Score: 67
Period size: 6 Copynumber: 10.5 Consensus size: 6
113989794 CCTCCTATCT
*
113989804 TTTTTA TTCTTA TTTTTA -TTTTA -TTTTA TTATTT- TATTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TT-TTTA T-TTTTA TTTTTA
*
113989851 TTTTTA TTTTCA TTT
1 TTTTTA TTTTTA TTT
113989866 CAATTTTATT
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
5 10 0.20
6 34 0.69
7 5 0.10
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:113989827 original size:5 final size:5
Alignment explanation
Indices: 113989805--113989885 Score: 71
Period size: 5 Copynumber: 15.8 Consensus size: 5
113989795 CTCCTATCTT
113989805 TTTTA TTCTTA TTTTTA TTTTA TTTTA --TTA TTTTA TTTTA TTTTTA
1 TTTTA TT-TTA -TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA
*
113989851 TTTTTA TTTTCA TTTCAA TTTTA --TTA TTTTA TTTT
1 -TTTTA TTTT-A TTT-TA TTTTA TTTTA TTTTA TTTT
113989886 GAAAGACATA
Statistics
Matches: 65, Mismatches: 2, Indels: 18
0.76 0.02 0.21
Matches are distributed among these distances:
3 6 0.09
5 32 0.49
6 25 0.38
7 2 0.03
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:113989871 original size:29 final size:30
Alignment explanation
Indices: 113989813--113989885 Score: 80
Period size: 29 Copynumber: 2.4 Consensus size: 30
113989803 TTTTTTATTC
**
113989813 TTATTTTTA-TTTTATTTTATTATTTTATT
1 TTATTTTTATTTTTATTTTATTATTCAATT
113989842 TTATTTTTATTTTTATTTTCA-T-TTCAATT
1 TTATTTTTATTTTTATTTT-ATTATTCAATT
113989871 TTATTATTTTATTTT
1 TTA-T-TTTTATTTT
113989886 GAAAGACATA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
29 17 0.45
30 11 0.29
31 10 0.26
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.77
Consensus pattern (30 bp):
TTATTTTTATTTTTATTTTATTATTCAATT
Found at i:113989872 original size:17 final size:17
Alignment explanation
Indices: 113989817--113989875 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
113989807 TTATTCTTAT
113989817 TTTTATTTTATTTT-ATTA
1 TTTTATTTTATTTTCA--A
* *
113989835 TTTTATTTTATTTTTAT
1 TTTTATTTTATTTTCAA
113989852 TTTTATTTTCA-TTTCAA
1 TTTTATTTT-ATTTTCAA
113989869 TTTTATT
1 TTTTATT
113989876 ATTTTATTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
17 20 0.56
18 15 0.42
19 1 0.03
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTATTTTATTTTCAA
Found at i:113992685 original size:13 final size:13
Alignment explanation
Indices: 113992669--113992701 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
113992659 TTTAATTAAA
*
113992669 TTAGTTAATTAGT
1 TTAGATAATTAGT
113992682 TTAGATAATTAGT
1 TTAGATAATTAGT
113992695 TTA-ATAA
1 TTAGATAA
113992702 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:113994683 original size:43 final size:39
Alignment explanation
Indices: 113994572--113994685 Score: 146
Period size: 35 Copynumber: 2.9 Consensus size: 39
113994562 TCGATTAACG
113994572 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCATAAT
1 ATGCCAATGT-CCAGACATGGTCTTACACGTAATCATAAT
113994612 AT---AATG-CCAGACATGGTCTTACACGTAATCATAAT
1 ATGCCAATGTCCAGACATGGTCTTACACGTAATCATAAT
*
113994647 ACAATGCCAATGTCCTAGACATGGTCTTACATGTAATCA
1 ---ATGCCAATGTCC-AGACATGGTCTTACACGTAATCA
113994686 CATCTCAGTA
Statistics
Matches: 65, Mismatches: 1, Indels: 13
0.82 0.01 0.16
Matches are distributed among these distances:
35 29 0.45
37 4 0.06
38 2 0.03
40 2 0.03
41 4 0.06
42 2 0.03
43 22 0.34
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (39 bp):
ATGCCAATGTCCAGACATGGTCTTACACGTAATCATAAT
Found at i:113994709 original size:16 final size:16
Alignment explanation
Indices: 113994688--113994721 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
113994678 TGTAATCACA
113994688 TCTCAGTAACCTAATG
1 TCTCAGTAACCTAATG
113994704 TCTCAGTAACCTAATG
1 TCTCAGTAACCTAATG
113994720 TC
1 TC
113994722 ATGACATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (16 bp):
TCTCAGTAACCTAATG
Found at i:114002965 original size:45 final size:45
Alignment explanation
Indices: 114002833--114002966 Score: 162
Period size: 45 Copynumber: 3.0 Consensus size: 45
114002823 GCTATATGCC
* * * **
114002833 AGAAATTAGTAAGACCATAGTTTGAAAGATGCTATGACATCACAAT
1 AGAAATGAGTAAGACCATAG-TTGAAAGATGTTATGGCATCATGAT
* *
114002879 A-AAGATGACTAAGATCATAGTTGAAAGATGTTATGGCATCATGAT
1 AGAA-ATGAGTAAGACCATAGTTGAAAGATGTTATGGCATCATGAT
* *
114002924 AGAAATGAGTAAGACCATAGCTAAAAGATGTTATGGCATCATG
1 AGAAATGAGTAAGACCATAGTTGAAAGATGTTATGGCATCATG
114002967 TAAAAGTACA
Statistics
Matches: 75, Mismatches: 11, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
45 59 0.79
46 16 0.21
ACGTcount: A:0.42, C:0.11, G:0.21, T:0.26
Consensus pattern (45 bp):
AGAAATGAGTAAGACCATAGTTGAAAGATGTTATGGCATCATGAT
Found at i:114004434 original size:23 final size:25
Alignment explanation
Indices: 114004403--114004450 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
114004393 ACAAAGTCCA
*
114004403 TACATAATA-CCACAAAGG-TAACT
1 TACAAAATACCCACAAAGGCTAACT
114004426 TACAAAATACGCCACAAAGGCTAAC
1 TACAAAATAC-CCACAAAGGCTAAC
114004451 AGAATGCACC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 8 0.38
25 9 0.43
26 4 0.19
ACGTcount: A:0.48, C:0.25, G:0.10, T:0.17
Consensus pattern (25 bp):
TACAAAATACCCACAAAGGCTAACT
Found at i:114004470 original size:66 final size:67
Alignment explanation
Indices: 114004364--114004523 Score: 148
Period size: 66 Copynumber: 2.4 Consensus size: 67
114004354 GCAACATACG
* ** * * * **
114004364 AAATACGCCACAAATGCTATTAGAGTG-CCACAAAGTCCATA-CATAATACCACAAAGGTAACTT
1 AAATACGCCACAAAGGCTAACAGAATGCCCACAAAGTCCATATCAGAATACCACAAAGGCAAAAT
114004427 ACA
66 -CA
* *
114004430 AAATACGCCACAAAGGCTAACAGAATGCACCA-AAAG-CCATATCAGAATGCCATAAAGGCAAAA
1 AAATACGCCACAAAGGCTAACAGAATGC-CCACAAAGTCCATATCAGAATACCACAAAGGCAAAA
114004493 TCA
65 TCA
* * * *
114004496 GATTACACTACAAAGGCTAACAGAATGC
1 AAATACGCCACAAAGGCTAACAGAATGC
114004524 TACTCAGGCT
Statistics
Matches: 77, Mismatches: 14, Indels: 6
0.79 0.14 0.06
Matches are distributed among these distances:
66 54 0.70
67 20 0.26
68 3 0.04
ACGTcount: A:0.46, C:0.24, G:0.14, T:0.16
Consensus pattern (67 bp):
AAATACGCCACAAAGGCTAACAGAATGCCCACAAAGTCCATATCAGAATACCACAAAGGCAAAAT
CA
Found at i:114015709 original size:22 final size:22
Alignment explanation
Indices: 114015659--114015709 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
114015649 CAATATTCAA
* * *
114015659 AGCAATATAATAACGAAATAGT
1 AGCAAAATAATAACGAAACAAT
*
114015681 AGCAAAATAATAGCGAAACAAT
1 AGCAAAATAATAACGAAACAAT
*
114015703 AGTAAAA
1 AGCAAAA
114015710 CAACTTATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.59, C:0.10, G:0.14, T:0.18
Consensus pattern (22 bp):
AGCAAAATAATAACGAAACAAT
Found at i:114016870 original size:21 final size:22
Alignment explanation
Indices: 114016838--114016891 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
114016828 CTACATTATT
*
114016838 TATATATTTTT-AATTTAGTCTC
1 TATAT-TTTTTAAATTTAATCTC
*
114016860 TTTATTTTTTAAAATTTAATCTC
1 TATATTTTTT-AAATTTAATCTC
114016883 TATATTTTT
1 TATATTTTT
114016892 CGGATTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 5 0.19
22 4 0.15
23 18 0.67
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.63
Consensus pattern (22 bp):
TATATTTTTTAAATTTAATCTC
Found at i:114018669 original size:19 final size:19
Alignment explanation
Indices: 114018634--114018674 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
114018624 AAAAATACAA
* *
114018634 AAAAATAATTTTTTAATAT
1 AAAAATAATTATATAATAT
*
114018653 AAAAATAATTATATAATTT
1 AAAAATAATTATATAATAT
114018672 AAA
1 AAA
114018675 CATTTTATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAAATAATTATATAATAT
Found at i:114019784 original size:31 final size:31
Alignment explanation
Indices: 114019746--114019820 Score: 141
Period size: 31 Copynumber: 2.4 Consensus size: 31
114019736 ACGGTTACTG
114019746 GGCCGAAGCCTTTTCATAAATCATATCACTA
1 GGCCGAAGCCTTTTCATAAATCATATCACTA
*
114019777 GGCCGAAGCCTTTTCATAAATCATATCACTG
1 GGCCGAAGCCTTTTCATAAATCATATCACTA
114019808 GGCCGAAGCCTTT
1 GGCCGAAGCCTTT
114019821 ACTATAAACG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (31 bp):
GGCCGAAGCCTTTTCATAAATCATATCACTA
Found at i:114020055 original size:24 final size:26
Alignment explanation
Indices: 114020028--114020086 Score: 88
Period size: 25 Copynumber: 2.3 Consensus size: 26
114020018 CTGGAGGCCT
114020028 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
114020052 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
114020078 AGCCCTTTT
1 AGCCCTTTT
114020087 GCACTTCCTC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
23 5 0.16
24 7 0.22
25 10 0.31
26 10 0.31
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.31
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:114020221 original size:9 final size:11
Alignment explanation
Indices: 114020136--114020222 Score: 55
Period size: 9 Copynumber: 8.6 Consensus size: 11
114020126 TTATGAATAC
114020136 ATCATGTGCAT
1 ATCATGTGCAT
* *
114020147 TTCA--TACAT
1 ATCATGTGCAT
114020156 ATCATGTGCAT
1 ATCATGTGCAT
* *
114020167 TTCA--TACAT
1 ATCATGTGCAT
114020176 ATCATGTGCAT
1 ATCATGTGCAT
* * *
114020187 -T-TTATACAT
1 ATCATGTGCAT
114020196 ATCATGTGCAT
1 ATCATGTGCAT
114020207 ATCATGT-CA-
1 ATCATGTGCAT
114020216 ATCATGT
1 ATCATGT
114020223 ATATCATATC
Statistics
Matches: 56, Mismatches: 14, Indels: 14
0.67 0.17 0.17
Matches are distributed among these distances:
9 26 0.46
10 4 0.07
11 26 0.46
ACGTcount: A:0.30, C:0.18, G:0.11, T:0.40
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:114020222 original size:20 final size:20
Alignment explanation
Indices: 114020136--114020211 Score: 134
Period size: 20 Copynumber: 3.8 Consensus size: 20
114020126 TTATGAATAC
114020136 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
114020156 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
*
114020176 ATCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
*
114020196 ATCATGTGCATATCAT
1 ATCATGTGCATTTCAT
114020212 GTCAATCATG
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 53 1.00
ACGTcount: A:0.30, C:0.18, G:0.11, T:0.41
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:114021084 original size:27 final size:28
Alignment explanation
Indices: 114021050--114021143 Score: 106
Period size: 27 Copynumber: 3.4 Consensus size: 28
114021040 ATCTACAAAC
114021050 CAAGGGTATTTC-AGTAATTTTGTAAAG-
1 CAAGGGTATTTCTA-TAATTTTGTAAAGT
* *
114021077 GAATGGTATTTCTATAATTTT-TAGAAAGT
1 CAAGGGTATTTCTATAATTTTGT--AAAGT
114021106 CAAGGGTATTTCTATAATTTTGTAAA-T
1 CAAGGGTATTTCTATAATTTTGTAAAGT
*
114021133 CAGGGGTATTT
1 CAAGGGTATTT
114021144 TGGTAATTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
26 1 0.02
27 28 0.49
28 8 0.14
29 19 0.33
30 1 0.02
ACGTcount: A:0.32, C:0.06, G:0.20, T:0.41
Consensus pattern (28 bp):
CAAGGGTATTTCTATAATTTTGTAAAGT
Found at i:114021159 original size:27 final size:27
Alignment explanation
Indices: 114021120--114021232 Score: 95
Period size: 27 Copynumber: 4.2 Consensus size: 27
114021110 GGTATTTCTA
**
114021120 TAATTTTGTAAATCAGGGGTATTTTGG
1 TAATTTTACAAATCAGGGGTATTTTGG
* * *
114021147 TAATTTTACAAAT-TGAAGGTATTTCGG
1 TAATTTTACAAATCAG-GGGTATTTTGG
* * ***
114021174 TAATTTCACAAACCAATAGTATTTTGG
1 TAATTTTACAAATCAGGGGTATTTTGG
*
114021201 TAATTTTACAAA-CTAGGGGTGTTTTGG
1 TAATTTTACAAATC-AGGGGTATTTTGG
114021228 TAATT
1 TAATT
114021233 CTACCCTATA
Statistics
Matches: 66, Mismatches: 17, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
26 2 0.03
27 64 0.97
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (27 bp):
TAATTTTACAAATCAGGGGTATTTTGG
Found at i:114021302 original size:27 final size:27
Alignment explanation
Indices: 114021264--114021393 Score: 170
Period size: 27 Copynumber: 4.8 Consensus size: 27
114021254 GTAATTTCAC
* *
114021264 AATCGAAGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* **
114021291 AATCAAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
114021318 AATCGAGTGTCAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
114021345 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
114021372 AATCGAGGGTAAAACGGTAATT
1 AATCGAGGGTAAAACGGTAATT
114021394 TTTACAAGTC
Statistics
Matches: 88, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 88 1.00
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:114021339 original size:54 final size:54
Alignment explanation
Indices: 114021264--114021395 Score: 192
Period size: 54 Copynumber: 2.4 Consensus size: 54
114021254 GTAATTTCAC
* *
114021264 AATCGAAGGTAAAACGGTAATTTTGTAAATCAAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTAAATCAAGGGTAAAATAGTAATTCTATA
* * * * * *
114021318 AATCGAGTGTCAAACAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTAAATCAAGGGTAAAATAGTAATTCTATA
114021372 AATCGAGGGTAAAACGGTAATTTT
1 AATCGAGGGTAAAACGGTAATTTT
114021396 TACAAGTCGA
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 66 1.00
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.30
Consensus pattern (54 bp):
AATCGAGGGTAAAACGGTAATTTTGTAAATCAAGGGTAAAATAGTAATTCTATA
Found at i:114023244 original size:49 final size:49
Alignment explanation
Indices: 114023187--114023336 Score: 142
Period size: 49 Copynumber: 3.2 Consensus size: 49
114023177 TTAATGCTAG
114023187 TTTAAATATTTAATTTTGTTGCTATAATTTATAAAATGAATGTTTATAT
1 TTTAAATATTTAATTTTGTTGCTATAATTTATAAAATGAATGTTTATAT
* * * * *
114023236 TTTAAATATTT--TTAT-TTG---T--GTT-TAAAATG--GGTTAATGCTAG
1 TTTAAATATTTAATTTTGTTGCTATAATTTATAAAATGAATGTT--T-ATAT
114023277 TTTAAATATTTAATTTTGTTGCTATAATTTATAAAATGAATGTTTATAT
1 TTTAAATATTTAATTTTGTTGCTATAATTTATAAAATGAATGTTTATAT
*
114023326 TTTTAATATTT
1 TTTAAATATTT
114023337 TTATTTGTGT
Statistics
Matches: 76, Mismatches: 11, Indels: 28
0.66 0.10 0.24
Matches are distributed among these distances:
38 3 0.04
40 8 0.11
41 15 0.20
43 4 0.05
44 3 0.04
46 3 0.04
47 4 0.05
49 25 0.33
50 8 0.11
52 3 0.04
ACGTcount: A:0.34, C:0.02, G:0.10, T:0.54
Consensus pattern (49 bp):
TTTAAATATTTAATTTTGTTGCTATAATTTATAAAATGAATGTTTATAT
Found at i:114023320 original size:90 final size:90
Alignment explanation
Indices: 114023167--114023348 Score: 346
Period size: 90 Copynumber: 2.0 Consensus size: 90
114023157 TAAAAACTAG
114023167 TTAAAAGGGGTTAATGCTAGTTTAAATATTTAATTTTGTTGCTATAATTTATAAAATGAATGTTT
1 TTAAAAGGGGTTAATGCTAGTTTAAATATTTAATTTTGTTGCTATAATTTATAAAATGAATGTTT
114023232 ATATTTTAAATATTTTTATTTGTGT
66 ATATTTTAAATATTTTTATTTGTGT
*
114023257 TTAAAATGGGTTAATGCTAGTTTAAATATTTAATTTTGTTGCTATAATTTATAAAATGAATGTTT
1 TTAAAAGGGGTTAATGCTAGTTTAAATATTTAATTTTGTTGCTATAATTTATAAAATGAATGTTT
*
114023322 ATATTTTTAATATTTTTATTTGTGT
66 ATATTTTAAATATTTTTATTTGTGT
114023347 TT
1 TT
114023349 GTTAATTTTC
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
90 90 1.00
ACGTcount: A:0.32, C:0.02, G:0.13, T:0.53
Consensus pattern (90 bp):
TTAAAAGGGGTTAATGCTAGTTTAAATATTTAATTTTGTTGCTATAATTTATAAAATGAATGTTT
ATATTTTAAATATTTTTATTTGTGT
Found at i:114030308 original size:20 final size:20
Alignment explanation
Indices: 114030245--114030372 Score: 69
Period size: 20 Copynumber: 6.3 Consensus size: 20
114030235 GCATTATAAA
* *
114030245 TGCATAACAAGGGCACCAAAG
1 TGCA-AACAGGGGCACCGAAG
* * * *
114030266 TGTAGACAGGTGCA-CAAATG
1 TGCAAACAGGGGCACCGAA-G
*
114030286 TGCAAATAGGGGCACCGAAG
1 TGCAAACAGGGGCACCGAAG
* * * ***
114030306 TGCGAATATGAATACCGAAG
1 TGCAAACAGGGGCACCGAAG
* * * *
114030326 TGTATACAGGGGCACCAAAC
1 TGCAAACAGGGGCACCGAAG
114030346 TGCAAACAGGGGCACCGAAG
1 TGCAAACAGGGGCACCGAAG
*
114030366 TGTAAAC
1 TGCAAAC
114030373 CCCGTACAAG
Statistics
Matches: 76, Mismatches: 29, Indels: 5
0.69 0.26 0.05
Matches are distributed among these distances:
19 4 0.05
20 66 0.87
21 6 0.08
ACGTcount: A:0.38, C:0.20, G:0.28, T:0.14
Consensus pattern (20 bp):
TGCAAACAGGGGCACCGAAG
Found at i:114032255 original size:18 final size:19
Alignment explanation
Indices: 114032232--114032268 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
114032222 GGTTTGCTTG
114032232 TTAAAG-ATTGCTTT-AATC
1 TTAAAGCATT-CTTTCAATC
114032250 TTAAAGCATTCTTTCAATC
1 TTAAAGCATTCTTTCAATC
114032269 CTTGTCCTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.43
Consensus pattern (19 bp):
TTAAAGCATTCTTTCAATC
Found at i:114038914 original size:26 final size:26
Alignment explanation
Indices: 114038892--114038946 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
114038882 TTTTTATGTG
114038892 TTAAAATATA-TATATTAAATTATTA
1 TTAAAATATAGTATATTAAATTATTA
* * *
114038917 TTATATTATAGTATATTATATTATATA
1 TTAAAATATAGTATATTAAATTAT-TA
114038944 TTA
1 TTA
114038947 TATTATATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 8 0.32
26 12 0.48
27 5 0.20
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
TTAAAATATAGTATATTAAATTATTA
Found at i:114038923 original size:5 final size:5
Alignment explanation
Indices: 114038897--114038954 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
114038887 ATGTGTTAAA
* *
114038897 ATATAT ATATT AAATT ATTATT ATATT ATAGT ATATT ATATTAT ATATT
1 ATAT-T ATATT ATATT A-TATT ATATT ATATT ATATT ATA-T-T ATATT
114038946 ATATT ATAT
1 ATATT ATAT
114038955 AAATAAGTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
5 31 0.69
6 10 0.22
7 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (5 bp):
ATATT
Found at i:114038933 original size:10 final size:9
Alignment explanation
Indices: 114038898--114038955 Score: 61
Period size: 8 Copynumber: 6.7 Consensus size: 9
114038888 TGTGTTAAAA
114038898 TATATATAT
1 TATATATAT
*
114038907 TAAAT-TAT
1 TATATATAT
114038915 TAT-TATAT
1 TATATATAT
114038923 TATAGTATAT
1 TATA-TATAT
114038933 TATAT-TA-
1 TATATATAT
114038940 TATATTATAT
1 TATA-TATAT
114038950 TATATA
1 TATATA
114038956 AATAAGTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
7 5 0.12
8 14 0.34
9 9 0.22
10 13 0.32
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (9 bp):
TATATATAT
Found at i:114038945 original size:12 final size:12
Alignment explanation
Indices: 114038900--114038955 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
114038890 TGTTAAAATA
*
114038900 TATATATTAAAT
1 TATATATTATAT
114038912 TAT-TATTATATT
1 TATATATTATA-T
114038924 ATAGTATATTATAT
1 -TA-TATATTATAT
114038938 TATATATTATAT
1 TATATATTATAT
114038950 TATATA
1 TATATA
114038956 AATAAGTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 6 0.15
12 20 0.51
13 4 0.10
14 2 0.05
15 7 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TATATATTATAT
Found at i:114040293 original size:18 final size:19
Alignment explanation
Indices: 114040272--114040310 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
114040262 ATATAGATAT
114040272 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
114040290 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
114040309 AT
1 AT
114040311 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:114040828 original size:18 final size:19
Alignment explanation
Indices: 114040807--114040847 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
114040797 AATGAAATGA
114040807 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
114040825 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
114040844 GAAA
1 GAAA
114040848 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:114045355 original size:5 final size:5
Alignment explanation
Indices: 114045334--114045386 Score: 52
Period size: 5 Copynumber: 10.0 Consensus size: 5
114045324 TGTTAAAATA
* * *
114045334 TATAT TAAAT TATTAT TATAT TATAG TATAT TATGTT ATATAT TATAT
1 TATAT TATAT TA-TAT TATAT TATAT TATAT TAT-AT -TATAT TATAT
114045382 TATAT
1 TATAT
114045387 AAATAAGTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
5 30 0.77
6 6 0.15
7 3 0.08
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.57
Consensus pattern (5 bp):
TATAT
Found at i:114045377 original size:12 final size:12
Alignment explanation
Indices: 114045332--114045387 Score: 60
Period size: 12 Copynumber: 4.5 Consensus size: 12
114045322 TGTGTTAAAA
*
114045332 TATATATTAAAT
1 TATATATTATAT
114045344 TAT-TATTATATT
1 TATATATTATA-T
*
114045356 ATAGTATATTATGT
1 -TA-TATATTATAT
114045370 TATATATTATAT
1 TATATATTATAT
114045382 TATATA
1 TATATA
114045388 AATAAGTAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
11 6 0.16
12 19 0.51
13 4 0.11
14 2 0.05
15 6 0.16
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (12 bp):
TATATATTATAT
Found at i:114046725 original size:18 final size:19
Alignment explanation
Indices: 114046704--114046742 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
114046694 ATATAGATAT
114046704 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
114046722 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
114046741 AT
1 AT
114046743 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:114047278 original size:19 final size:18
Alignment explanation
Indices: 114047240--114047279 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
114047230 ATGAAATGAA
114047240 AAATTGAATTGAGAATTG
1 AAATTGAATTGAGAATTG
114047258 AAATTGAGATATGAG-ATTG
1 AAATTGA-AT-TGAGAATTG
114047277 AAA
1 AAA
114047280 ACATGAACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 9 0.45
20 4 0.20
ACGTcount: A:0.47, C:0.00, G:0.23, T:0.30
Consensus pattern (18 bp):
AAATTGAATTGAGAATTG
Found at i:114048982 original size:21 final size:21
Alignment explanation
Indices: 114048956--114049003 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
114048946 TATGCATTTC
*
114048956 TTCATCAGTATCGTTTATTCT
1 TTCATCAGTATCATTTATTCT
114048977 TTCATCAGTATCATTTATTCT
1 TTCATCAGTATCATTTATTCT
114048998 TTCATC
1 TTCATC
114049004 CGACATCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.21, C:0.21, G:0.06, T:0.52
Consensus pattern (21 bp):
TTCATCAGTATCATTTATTCT
Found at i:114053359 original size:89 final size:87
Alignment explanation
Indices: 114053230--114053718 Score: 417
Period size: 89 Copynumber: 5.5 Consensus size: 87
114053220 TCGAACAAAT
* * * *
114053230 AATAATACGCAAC-AAAATAAATTTATAGATACAAGAAAATACGAAAATTCTAGAAAACTATTTT
1 AATAATACG-AACAAAAAT-TATTTACAGATACAAAAAAATACGAAAATTCTAGAAAACTA-TAT
114053294 ACGAAAATATAAAATTTGACCAACA
63 ACGAAAATATAAAATTTGACCAACA
* *
114053319 AATAATACGAACAAAAATTGATTTGCAGATACAAAAAAATAC-AAACATTTTAGAAAACTGATAT
1 AATAATACGAACAAAAATT-ATTTACAGATACAAAAAAATACGAAA-ATTCTAGAAAACT-ATAT
*
114053383 ACAAAAATATAAAATTTGACCAACA
63 ACGAAAATATAAAATTTGACCAACA
* * * * *
114053408 AATAATA-TAGGCTAAAATTGATTTACAGAT---AAAAAATACGAACATTCTTGAAAACTGATAT
1 AATAATACGA-ACAAAAATT-ATTTACAGATACAAAAAAATACGAAAATTCTAGAAAACT-ATAT
114053469 ACGAAAATATAAAATTTGACCAACA
63 ACGAAAATATAAAATTTGACCAACA
* * * *
114053494 AATAATACGGACTAAAATATT-TTTACATAT-CTAAAATTATTAC-AGAAATTCTAGAAAACTAA
1 AATAATACGAAC-AAAA-ATTATTTACAGATAC-AAAA-AAATACGA-AAATTCTAGAAAACT-A
* * * *
114053556 TATACAAAAATATAAAAGTCGA-AAACA
60 TATACGAAAATATAAAATTTGACCAACA
* ** * * * * * *
114053583 AATAATACTAACTAAAATATT-TTTATTGATCCAAAAATAATTCGAACATTTTACAAAATTAATA
1 AATAATACGAAC-AAAA-ATTATTTACAGATACAAAAA-AATACGAAAATTCTAGAAAACT-ATA
*
114053647 TATGAAAATATAAAATTTGACCAACA
62 TACGAAAATATAAAATTTGACCAACA
*
114053673 AATAATAC-ATACTAAAATTTATTTACAGATACAAAAATAATACGAA
1 AATAATACGA-AC-AAAAATTATTTACAGATACAAAAA-AATACGAA
114053719 CATTGTGAAT
Statistics
Matches: 329, Mismatches: 51, Indels: 39
0.79 0.12 0.09
Matches are distributed among these distances:
86 65 0.20
87 5 0.02
88 10 0.03
89 169 0.51
90 80 0.24
ACGTcount: A:0.54, C:0.12, G:0.07, T:0.27
Consensus pattern (87 bp):
AATAATACGAACAAAAATTATTTACAGATACAAAAAAATACGAAAATTCTAGAAAACTATATACG
AAAATATAAAATTTGACCAACA
Found at i:114053585 original size:175 final size:176
Alignment explanation
Indices: 114053230--114053722 Score: 508
Period size: 175 Copynumber: 2.8 Consensus size: 176
114053220 TCGAACAAAT
* * * * * *
114053230 AATAATACGCAAC-AAAATAAATTTATAGATACAAGAAAATACGAAAATTCTAGAAAACTATTTT
1 AATAATAC-TAACTAAAATATATTTACAGAT-CAA-AAAATACGAACATTCTTGAAAACTA-TAT
*
114053294 ACGAAAATATAAAATTTGACCAACAAATAATACGAAC-AAAA-ATTGATTTGCAGATACAAAAAA
62 ACGAAAATATAAAATTTGACCAACAAATAATACGAACTAAAATATT-ATTTACAGATACAAAAAA
* * * * *
114053357 ATACAAACATTTTAGAAAACTGATATACAAAAATATAAAATTTGACCAACA
126 ATACAAACATTCTAGAAAACTAATATACAAAAATATAAAAGTCGACAAACA
*
114053408 AATAATA-TAGGCTAAAAT-TGATTTACAGAT-AAAAAATACGAACATTCTTGAAAACTGATATA
1 AATAATACTA-ACTAAAATAT-ATTTACAGATCAAAAAATACGAACATTCTTGAAAACT-ATATA
* * *
114053470 CGAAAATATAAAATTTGACCAACAAATAATACGGACTAAAATATT-TTTACATAT-CTAAAATTA
63 CGAAAATATAAAATTTGACCAACAAATAATACGAACTAAAATATTATTTACAGATAC-AAAA-AA
*
114053533 TTACAGAA-ATTCTAGAAAACTAATATACAAAAATATAAAAGTCGA-AAACA
126 ATACA-AACATTCTAGAAAACTAATATACAAAAATATAAAAGTCGACAAACA
* ** * * *
114053583 AATAATACTAACTAAAATATTTTTATTGATCCAAAAATAATTCGAACATT-TTACAAAATTAATA
1 AATAATACTAACTAAAATATATTTACAGAT-C-AAAA-AATACGAACATTCTT-GAAAACT-ATA
*
114053647 TATGAAAATATAAAATTTGACCAACAAATAATAC-ATACTAAAAT-TTATTTACAGATACAAAAA
61 TACGAAAATATAAAATTTGACCAACAAATAATACGA-ACTAAAATATTATTTACAGATACAAAAA
*
114053710 TAATACGAACATT
125 -AATACAAACATT
114053723 GTGAATAGTA
Statistics
Matches: 263, Mismatches: 31, Indels: 41
0.79 0.09 0.12
Matches are distributed among these distances:
174 1 0.00
175 96 0.37
176 49 0.19
177 6 0.02
178 31 0.12
179 79 0.30
180 1 0.00
ACGTcount: A:0.54, C:0.12, G:0.07, T:0.28
Consensus pattern (176 bp):
AATAATACTAACTAAAATATATTTACAGATCAAAAAATACGAACATTCTTGAAAACTATATACGA
AAATATAAAATTTGACCAACAAATAATACGAACTAAAATATTATTTACAGATACAAAAAAATACA
AACATTCTAGAAAACTAATATACAAAAATATAAAAGTCGACAAACA
Found at i:114054047 original size:33 final size:33
Alignment explanation
Indices: 114054003--114054079 Score: 129
Period size: 33 Copynumber: 2.3 Consensus size: 33
114053993 CCACTACATC
*
114054003 ACACTCATAAATGCAGTATTCCT-ATTTGATGGT
1 ACACTCCTAAATGCAGTA-TCCTCATTTGATGGT
114054036 ACACTCCTAAATGCAGTATCCTCATTTGATGGT
1 ACACTCCTAAATGCAGTATCCTCATTTGATGGT
114054069 ACACTCCTAAA
1 ACACTCCTAAA
114054080 CATTCCAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
32 4 0.10
33 38 0.90
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.32
Consensus pattern (33 bp):
ACACTCCTAAATGCAGTATCCTCATTTGATGGT
Found at i:114055865 original size:3 final size:3
Alignment explanation
Indices: 114055852--114055934 Score: 59
Period size: 3 Copynumber: 27.3 Consensus size: 3
114055842 GAGGGTATAT
114055852 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* *
114055896 ATA ATA ATA A-A ATAA ATA ATA GTA AAA ATA ATA A-A ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA A
114055935 AAAAAATAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
2 9 0.14
3 44 0.68
4 10 0.15
5 2 0.03
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:114055877 original size:15 final size:15
Alignment explanation
Indices: 114055850--114055943 Score: 66
Period size: 15 Copynumber: 5.9 Consensus size: 15
114055840 GAGAGGGTAT
114055850 ATATAATATAATAATA
1 ATATAA-ATAATAATA
114055866 ATATAAATAATAATA
1 ATATAAATAATAATA
114055881 TATACATGAGAAATAATAATA
1 -AT--AT---AAATAATAATA
114055902 ATA-AAATAAATAATA
1 ATATAAAT-AATAATA
* *
114055917 GTAAAAATAATAA-A
1 ATATAAATAATAATA
* *
114055931 ATAAAAAAAATAA
1 ATATAAATAATAA
114055944 AACAAAGCTC
Statistics
Matches: 67, Mismatches: 3, Indels: 18
0.76 0.03 0.20
Matches are distributed among these distances:
14 16 0.24
15 23 0.34
16 12 0.18
18 3 0.04
20 2 0.03
21 11 0.16
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.28
Consensus pattern (15 bp):
ATATAAATAATAATA
Found at i:114055882 original size:30 final size:30
Alignment explanation
Indices: 114055848--114055943 Score: 79
Period size: 33 Copynumber: 3.0 Consensus size: 30
114055838 CGGAGAGGGT
114055848 ATATATAATATAATAATAATATAAATAATA
1 ATATATAATATAATAATAATATAAATAATA
*
114055878 ATATATACATGAGAAATAATAATAATAAAATAAATA
1 ATATATA-AT-A-TAATAATAAT-AT-AAAT-AATA
* * *
114055914 ATAGTA-AAAATAATAA-AATAAAAAAAATA
1 ATA-TATAATATAATAATAATATAAATAATA
114055943 A
1 A
114055944 AACAAAGCTC
Statistics
Matches: 54, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
29 5 0.09
30 10 0.19
31 3 0.06
32 4 0.07
33 14 0.26
34 3 0.06
35 5 0.09
36 8 0.15
37 2 0.04
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.28
Consensus pattern (30 bp):
ATATATAATATAATAATAATATAAATAATA
Found at i:114056470 original size:30 final size:30
Alignment explanation
Indices: 114056430--114056515 Score: 154
Period size: 30 Copynumber: 2.9 Consensus size: 30
114056420 ATTTGATAGT
*
114056430 GTAGGTGCAAGTGGGAGACAAGGTGGTGGA
1 GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
*
114056460 GTATGTGCAAGTGGGAGGCAAGGTGGTGGA
1 GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
114056490 GTAGGTGCAAGTGGGAGGCAAGGTGG
1 GTAGGTGCAAGTGGGAGGCAAGGTGG
114056516 CTAGGGTTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.24, C:0.07, G:0.51, T:0.17
Consensus pattern (30 bp):
GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
Found at i:114056513 original size:18 final size:18
Alignment explanation
Indices: 114056464--114056514 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 18
114056454 GGTGGAGTAT
114056464 GTGCAAGTGGGAGGCAAG
1 GTGCAAGTGGGAGGCAAG
*
114056482 GTG---GT-GGA-G-TAG
1 GTGCAAGTGGGAGGCAAG
114056494 GTGCAAGTGGGAGGCAAG
1 GTGCAAGTGGGAGGCAAG
114056512 GTG
1 GTG
114056515 GCTAGGGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 12
0.64 0.05 0.31
Matches are distributed among these distances:
12 5 0.20
13 1 0.04
14 3 0.12
15 4 0.16
16 3 0.12
17 1 0.04
18 8 0.32
ACGTcount: A:0.24, C:0.08, G:0.53, T:0.16
Consensus pattern (18 bp):
GTGCAAGTGGGAGGCAAG
Found at i:114057165 original size:35 final size:35
Alignment explanation
Indices: 114057105--114057173 Score: 93
Period size: 35 Copynumber: 2.0 Consensus size: 35
114057095 GTGTTAAGAC
* * *
114057105 CTGTAAATTTAGCCTATCACTCTACTGTTTAGGGT
1 CTGTAAATTTAACCTATCACCCTACTGCTTAGGGT
* *
114057140 CTGTAAATTTAACCTGTTACCCTACTGCTTAGGG
1 CTGTAAATTTAACCTATCACCCTACTGCTTAGGG
114057174 GTTAAAGGCT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (35 bp):
CTGTAAATTTAACCTATCACCCTACTGCTTAGGGT
Found at i:114057216 original size:44 final size:42
Alignment explanation
Indices: 114057153--114057484 Score: 230
Period size: 44 Copynumber: 7.7 Consensus size: 42
114057143 TAAATTTAAC
*
114057153 CTGTTACCCTACTGCTTA-GGGGTTAAAGGCTTATCGTCTTTGAT
1 CTGTTACCCTACTGCTTAGGGGGTT-AAGG--TATCGTCTTCGAT
* * * * *
114057197 CTGTTTCCCTACTGCTTAGGGGGTTAA-G-ATTGTAAATTCAAC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGTATCGT--CTTCGAT
* * * *
114057239 CTGTTACCCTACTGATTAGGGGTTTAAGGCCCATCGCCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGG--TATCGTCTTCGAT
* * *
114057283 TTGTTTCCCTACTGCTTAGGGGGTTAA-G-ATCTGTAAATTC-AGT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGTATC-GT--CTTCGA-T
*
114057326 CTGTTACCCTACTGCTTAGGGGGTTAAGGTCAATCGCCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGT--ATCGTCTTCGAT
* * * * *
114057370 CTGTTTCCCTACTACTTAGGGGGTTAA-G-ATCTGTAAATTCAAC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGTATC-GT--CTTCGAT
* * * *
114057413 CTGTTACCCTACTACTTAGGGGTTTAAGGCCCATCATCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGG--TATCGTCTTCGAT
*
114057457 CTGTTTCCCTACTGCTTAGGGGGTTAAG
1 CTGTTACCCTACTGCTTAGGGGGTTAAG
114057485 ATCTGTAAAT
Statistics
Matches: 226, Mismatches: 39, Indels: 46
0.73 0.13 0.15
Matches are distributed among these distances:
40 10 0.04
41 2 0.01
42 28 0.12
43 62 0.27
44 106 0.47
45 7 0.03
46 5 0.02
47 6 0.03
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.35
Consensus pattern (42 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAGGTATCGTCTTCGAT
Found at i:114057343 original size:43 final size:43
Alignment explanation
Indices: 114057196--114057569 Score: 315
Period size: 43 Copynumber: 8.7 Consensus size: 43
114057186 TCGTCTTTGA
* *
114057196 TCTGTTTCCCTACTGCTTAGGGGGTTAAGAT-TGTAAATTCAA
1 TCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAG
* * * ** ** ***
114057238 CCTGTTACCCTACTGATTAGGGGTTTAAGGCCCATCGCCTTC-G
1 TCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGT-AAATTCAG
* *
114057281 ATTTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAG
1 -TCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAG
* ** ***
114057325 TCTGTTACCCTACTGCTTAGGGGGTTAAGGTCAATCGCCTTC-G
1 TCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGT-AAATTCAG
* * *
114057368 ATCTGTTTCCCTACTACTTAGGGGGTTAAGATCTGTAAATTCAA
1 -TCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAG
* * * ** ** **
114057412 CCTGTTACCCTACTACTTAGGGGTTTAAGGCCCATCATCTTC-G
1 TCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGT-AAATTCAG
* *
114057455 ATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAG
1 -TCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAG
* *
114057499 CCTGCTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAG
1 TCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAG
* * *
114057542 CCTGTTACCCTACTACTTAGGGGTTTAA
1 TCTGTTACCCTACTGCTTAGGGGGTTAA
114057570 AACCCTTCTT
Statistics
Matches: 253, Mismatches: 69, Indels: 19
0.74 0.20 0.06
Matches are distributed among these distances:
42 25 0.10
43 133 0.53
44 95 0.38
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.35
Consensus pattern (43 bp):
TCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAG
Found at i:114057353 original size:87 final size:87
Alignment explanation
Indices: 114057139--114057527 Score: 575
Period size: 87 Copynumber: 4.5 Consensus size: 87
114057129 CTGTTTAGGG
* ** * *
114057139 TCTGTAAATTTAACCTGTTACCCTACTGCTTA-GGGGTTAAAGGCTTATCGTCTTTGATCTGTTT
1 TCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGGTT-AAGGCCCATCGCCTTCGATCTGTTT
114057203 CCCTACTGCTTAGGGGGTTAAGA
65 CCCTACTGCTTAGGGGGTTAAGA
* * *
114057226 T-TGTAAATTCAACCTGTTACCCTACTGATTAGGGGTTTAAGGCCCATCGCCTTCGATTTGTTTC
1 TCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCGCCTTCGATCTGTTTC
114057290 CCTACTGCTTAGGGGGTTAAGA
66 CCTACTGCTTAGGGGGTTAAGA
** * *
114057312 TCTGTAAATTCAGTCTGTTACCCTACTGCTTAGGGGGTTAAGGTCAATCGCCTTCGATCTGTTTC
1 TCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCGCCTTCGATCTGTTTC
*
114057377 CCTACTACTTAGGGGGTTAAGA
66 CCTACTGCTTAGGGGGTTAAGA
* * **
114057399 TCTGTAAATTCAACCTGTTACCCTACTACTTAGGGGTTTAAGGCCCATCATCTTCGATCTGTTTC
1 TCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCGCCTTCGATCTGTTTC
114057464 CCTACTGCTTAGGGGGTTAAGA
66 CCTACTGCTTAGGGGGTTAAGA
* * *
114057486 TCTGTAAATTTAGCCTGCTACCCTACTGCTTAGGGGGTTAAG
1 TCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGGTTAAG
114057528 ATCTGTAAAT
Statistics
Matches: 270, Mismatches: 30, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
86 72 0.27
87 198 0.73
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.35
Consensus pattern (87 bp):
TCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCATCGCCTTCGATCTGTTTC
CCTACTGCTTAGGGGGTTAAGA
Found at i:114057522 original size:130 final size:130
Alignment explanation
Indices: 114057035--114057657 Score: 534
Period size: 130 Copynumber: 4.9 Consensus size: 130
114057025 TTCAGCTTGG
* *
114057035 TACCCTACTGCTTAGGGGTTTAAGGCCCATCGTCTTCGATCTGTTTCCCTACTGCTTAGGGTGTT
1 TACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
* * * * * *
114057100 AAGACCTGTAAATTTAGCCTATCACTCTACTGTTTA---GG----G-TCTGTAAATTTAACCTGT
66 AAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTGT
* ** * *
114057157 TACCCTACTGCTTAGGGGTTAAAGGCTTATCGTCTTTGATCTGTTTCCCTACTGCTTAGGGGGTT
1 TACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
* * * * ** ** *** * **
114057222 AAGAT-TGTAAATTCAACCTGTTACCCTACTGATTAGGGGTTTAAGGCCCATCGCCTTCGATTTG
66 AAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGT-AAATTCAACCTG
114057286 T
130 T
* * ** ** ** *
114057287 TTCCCTACTGCTTAGGGGGTTAAGATCTGT-AAATTC-AGTCTGTTACCCTACTGCTTAGGGGGT
1 TACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGA-TCTGTTTCCCTACTGCTTAGGGGGT
* ** **** * * * *
114057350 TAAGGTCAATCGCCTTCGATCTGTTTCCCTACTACTTAGGGGGTTAAGATCTGTAAATTCAACCT
65 TAAGATCTGTAAATTTAG-CCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCT
114057415 GT
129 GT
*
114057417 TACCCTACTACTTAGGGGTTTAAGGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
1 TACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
* *
114057482 AAGATCTGTAAATTTAGCCTGCTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGT
66 AAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTGT
* ** * * * * * *
114057547 TACCCTACTACTTAGGGGTTTAAAACCCTTCTTCTTCGATCTG-CTCAACTACTGCTTAGGGAGA
1 TACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTGTTTC-CCTACTGCTTAGGGGGT
* * * * * *
114057611 TAAGGTCTG-CAATTTGGTCTGTTACACTACTGCTTAGGGGTTTAAGA
65 TAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGA
114057658 CCCTTCGTCT
Statistics
Matches: 388, Mismatches: 98, Indels: 23
0.76 0.19 0.05
Matches are distributed among these distances:
121 24 0.06
122 64 0.16
124 1 0.00
128 2 0.01
129 67 0.17
130 165 0.43
131 64 0.16
132 1 0.00
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.35
Consensus pattern (130 bp):
TACCCTACTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
AAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTGT
Found at i:114057633 original size:86 final size:86
Alignment explanation
Indices: 114057500--114057880 Score: 514
Period size: 86 Copynumber: 4.4 Consensus size: 86
114057490 TAAATTTAGC
* * * ** * *
114057500 CTGCTACC-CTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTACTTAGGG
1 CTGCT-CCACTACTGCTTAGGGAGATAAGATCTG-CAATTTGGTCTGTTACCCTACTGCTTAGGG
* *
114057564 GTTTAAAACCCTTCTTCTTCGAT
64 GTTTAAGACCCTTCGTCTTCGAT
* * *
114057587 CTGCTCAACTACTGCTTAGGGAGATAAGGTCTGCAATTTGGTCTGTTACACTACTGCTTAGGGGT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTGGTCTGTTACCCTACTGCTTAGGGGT
114057652 TTAAGACCCTTCGTCTTCGAT
66 TTAAGACCCTTCGTCTTCGAT
*
114057673 CTGCTCCACTACTGCTTAGGGAGATAAGATTTGCAATTTGGTCTGTTACCCTACTGCTTAGGGGT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTGGTCTGTTACCCTACTGCTTAGGGGT
114057738 TTAAGACCCTTCGTCTTCGAT
66 TTAAGACCCTTCGTCTTCGAT
* *
114057759 CTGCTCCACTACTGCTTAGGGAAATAAGATCTGCAATTCGGTCTGTTACCCTACTGCTTAGGGGT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTGGTCTGTTACCCTACTGCTTAGGGGT
* * ** *
114057824 TTAAGGCCCATCAACCTCGAT
66 TTAAGACCCTTCGTCTTCGAT
* * *
114057845 TTGTTTCC-CTACTACTTAGGGAGATAAGATCTGCAA
1 CTG-CTCCACTACTGCTTAGGGAGATAAGATCTGCAA
114057881 ATTCACTGAT
Statistics
Matches: 264, Mismatches: 28, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
86 234 0.89
87 30 0.11
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (86 bp):
CTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTGGTCTGTTACCCTACTGCTTAGGGGT
TTAAGACCCTTCGTCTTCGAT
Found at i:114057643 original size:42 final size:42
Alignment explanation
Indices: 114057594--114057821 Score: 176
Period size: 42 Copynumber: 5.3 Consensus size: 42
114057584 GATCTGCTCA
*
114057594 ACTACTGCTTAGGGAGATAAGGTCTGCAATTTGGTCTGTTAC
1 ACTACTGCTTAGGGAGATAAGATCTGCAATTTGGTCTGTTAC
* * * * * * *
114057636 ACTACTGCTTAGGG-GTTTAAGACCCTTC-GTCTTCGATCTGCTCC
1 ACTACTGCTTAGGGAG-ATAAGA-TCTGCAAT-TT-GGTCTGTTAC
*
114057680 ACTACTGCTTAGGGAGATAAGATTTGCAATTTGGTCTGTTAC
1 ACTACTGCTTAGGGAGATAAGATCTGCAATTTGGTCTGTTAC
* * * * * * * *
114057722 CCTACTGCTTAGGG-GTTTAAGACCCTTC-GTCTTCGATCTGCTCC
1 ACTACTGCTTAGGGAG-ATAAGA-TCTGCAAT-TT-GGTCTGTTAC
* *
114057766 ACTACTGCTTAGGGAAATAAGATCTGCAATTCGGTCTGTTAC
1 ACTACTGCTTAGGGAGATAAGATCTGCAATTTGGTCTGTTAC
*
114057808 CCTACTGCTTAGGG
1 ACTACTGCTTAGGG
114057822 GTTTAAGGCC
Statistics
Matches: 138, Mismatches: 36, Indels: 24
0.70 0.18 0.12
Matches are distributed among these distances:
41 2 0.01
42 65 0.47
43 17 0.12
44 53 0.38
45 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (42 bp):
ACTACTGCTTAGGGAGATAAGATCTGCAATTTGGTCTGTTAC
Found at i:114057787 original size:44 final size:44
Alignment explanation
Indices: 114057571--114057787 Score: 166
Period size: 44 Copynumber: 5.0 Consensus size: 44
114057561 GGGGTTTAAA
* *
114057571 ACCCTTCTTCTTCGATCTGCTCAACTACTGCTTAGGGAGATAAG
1 ACCCTTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAG
** * * * * * *
114057615 -GTCTGCAAT-TT-GGTCTGTTACACTACTGCTTAGGG-GTTTAAG
1 ACCCTTC-GTCTTCGATCTGCTCCACTACTGCTTAGGGAG-ATAAG
114057657 ACCCTTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAG
1 ACCCTTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAG
* * * * *
114057701 A---TTTG-CAATTTGGTCTGTTACC-CTACTGCTTAGGG-GTTTAAG
1 ACCCTTCGTC--TTCGATCTGCT-CCACTACTGCTTAGGGAG-ATAAG
*
114057743 ACCCTTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAAATAAG
1 ACCCTTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAG
114057787 A
1 A
114057788 TCTGCAATTC
Statistics
Matches: 129, Mismatches: 28, Indels: 32
0.68 0.15 0.17
Matches are distributed among these distances:
40 1 0.01
41 5 0.04
42 51 0.40
43 14 0.11
44 53 0.41
45 4 0.03
46 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (44 bp):
ACCCTTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAG
Found at i:114059384 original size:51 final size:51
Alignment explanation
Indices: 114059268--114059394 Score: 146
Period size: 51 Copynumber: 2.5 Consensus size: 51
114059258 CTACCATCAA
* * *
114059268 ATCTCTAAGAATATAATATCATATCTTCTAAGATTCCATATCTTAGATAAG
1 ATCTCTAAGATTATAATATCATATCTTATAAGATTCCATATCATAGATAAG
* * *** * * **
114059319 ATATGTATTCTTATAAAATAATATCTTATAAGATTCCATATCATATCTAAG
1 ATCTCTAAGATTATAATATCATATCTTATAAGATTCCATATCATAGATAAG
114059370 ATCTCTAAGATTATAATATCATATC
1 ATCTCTAAGATTATAATATCATATC
114059395 CTCCATATTT
Statistics
Matches: 57, Mismatches: 19, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.40, C:0.14, G:0.06, T:0.39
Consensus pattern (51 bp):
ATCTCTAAGATTATAATATCATATCTTATAAGATTCCATATCATAGATAAG
Found at i:114062392 original size:51 final size:51
Alignment explanation
Indices: 114062276--114062402 Score: 137
Period size: 51 Copynumber: 2.5 Consensus size: 51
114062266 CTACCATCAA
* * *
114062276 ATCTCTAAGAATATAATATCATATCTTCTAAGATTCCATATCTTAGATAAG
1 ATCTCTAAGATTATAATATCATATCTTATAAGATTCCATATCATAGATAAG
* * * *** * * **
114062327 GTATGTATTCTTATAAAATAATATCTTATAAGATTCCATATCATATCTAAG
1 ATCTCTAAGATTATAATATCATATCTTATAAGATTCCATATCATAGATAAG
114062378 ATCTCTAAGATTATAATATCATATC
1 ATCTCTAAGATTATAATATCATATC
114062403 CTCCATATTT
Statistics
Matches: 55, Mismatches: 21, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.39, C:0.14, G:0.07, T:0.39
Consensus pattern (51 bp):
ATCTCTAAGATTATAATATCATATCTTATAAGATTCCATATCATAGATAAG
Found at i:114069574 original size:9 final size:10
Alignment explanation
Indices: 114069561--114069606 Score: 53
Period size: 9 Copynumber: 4.8 Consensus size: 10
114069551 GGGAAAGCCT
114069561 AATGCAAAT-
1 AATGCAAATG
114069570 AATGC-AATG
1 AATGCAAATG
114069579 CAATGCAAATG
1 -AATGCAAATG
*
114069590 CATG-AAATG
1 AATGCAAATG
114069599 AATGCAAA
1 AATGCAAA
114069607 AGGAAGGAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
8 3 0.10
9 13 0.42
10 11 0.35
11 4 0.13
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.20
Consensus pattern (10 bp):
AATGCAAATG
Found at i:114069585 original size:19 final size:19
Alignment explanation
Indices: 114069561--114069606 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
114069551 GGGAAAGCCT
*
114069561 AATGCAAAT-AATGCAATG
1 AATGCAAATGAATGAAATG
*
114069579 CAATGCAAATGCATGAAATG
1 -AATGCAAATGAATGAAATG
114069599 AATGCAAA
1 AATGCAAA
114069607 AGGAAGGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.20
Consensus pattern (19 bp):
AATGCAAATGAATGAAATG
Done.