Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 350 of 438
Found at i:109138605 original size:80 final size:80
Alignment explanation
Indices: 109138472--109138758 Score: 389
Period size: 80 Copynumber: 3.6 Consensus size: 80
109138462 CGGAATACAA
* *
109138472 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAATG
109138537 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAGC
*
109138552 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAATG
*
109138617 CCTTTGGGTATTAGC
66 CCTTCGGGTATTAGC
* * * *
109138632 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GTCACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACG--ACTTGCACAAA
* *
109138695 TGCCTTCGGGTCTTAAC
64 TGCCTTCGGGTATTAGC
** * ** * *
109138712 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
109138759 TCATTCAATT
Statistics
Matches: 186, Mismatches: 18, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
78 1 0.01
79 2 0.01
80 183 0.98
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAATG
CCTTCGGGTATTAGC
Found at i:109141530 original size:2 final size:2
Alignment explanation
Indices: 109141523--109141550 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
109141513 ATCTCACATA
109141523 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
109141551 CACATACCTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:109143028 original size:68 final size:68
Alignment explanation
Indices: 109142891--109143046 Score: 174
Period size: 68 Copynumber: 2.3 Consensus size: 68
109142881 TTAACTGTGA
* * * * * *
109142891 AATC-AACAGATTCGGACAGCTACATTTACTAAATAAAACAGCATATATGGTAGTTCATCGAACA
1 AATCTAACACATTCGGACAGCTACATTTACCAAATAAAACAACATAAATGATAGTGCATCGAACA
109142955 ATG
66 ATG
* * * *
109142958 AATTTAACACATTCGGACAGCTACATTTACCAAATAAAACAACATAAATGAT-GATGCTTTGAAT
1 AATCTAACACATTCGGACAGCTACATTTACCAAATAAAACAACATAAATGATAG-TGCATCGAAC
*
109143022 AGTG
65 AATG
*
109143026 AATCT-ACACATTCGAACAGCT
1 AATCTAACACATTCGGACAGCT
109143047 TAATTTTAAG
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
67 19 0.26
68 55 0.74
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.26
Consensus pattern (68 bp):
AATCTAACACATTCGGACAGCTACATTTACCAAATAAAACAACATAAATGATAGTGCATCGAACA
ATG
Found at i:109145425 original size:29 final size:30
Alignment explanation
Indices: 109145354--109145490 Score: 135
Period size: 29 Copynumber: 4.7 Consensus size: 30
109145344 GTGCCCACTG
**
109145354 ACCGATCTCGCACACATAGTG-CTCGGTTGA
1 ACCGATCTCGCACACATAGTGCCTCAATT-A
* *
109145384 A--GAACTCGCACACACAGTGCCTCAATT-
1 ACCGATCTCGCACACATAGTGCCTCAATTA
*
109145411 ACCGATCTCGCACACATAGTG-CTCGATTA
1 ACCGATCTCGCACACATAGTGCCTCAATTA
** *
109145440 AAGGAAT-TCGCACACACAGTGCCTCAATT-
1 ACCG-ATCTCGCACACATAGTGCCTCAATTA
109145469 ACCGATCTCGCACACATAGTGC
1 ACCGATCTCGCACACATAGTGC
109145491 TCGGTTAAAG
Statistics
Matches: 86, Mismatches: 14, Indels: 15
0.75 0.12 0.13
Matches are distributed among these distances:
27 1 0.01
28 24 0.28
29 52 0.60
30 9 0.10
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.21
Consensus pattern (30 bp):
ACCGATCTCGCACACATAGTGCCTCAATTA
Found at i:109145471 original size:58 final size:57
Alignment explanation
Indices: 109145354--109145521 Score: 291
Period size: 58 Copynumber: 2.9 Consensus size: 57
109145344 GTGCCCACTG
* *
109145354 ACCGATCTCGCACACATAGTGCTCGGTTGAAGAACTCGCACACACAGTGCCTCAATT
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAGAATTCGCACACACAGTGCCTCAATT
*
109145411 ACCGATCTCGCACACATAGTGCTCGATTAAAGGAATTCGCACACACAGTGCCTCAATT
1 ACCGATCTCGCACACATAGTGCTCGGTTAAA-GAATTCGCACACACAGTGCCTCAATT
*
109145469 ACCGATCTCGCACACATAGTGCTCGGTTAAAGAATTTGCACACACAGTGCCTC
1 ACCGATCTCGCACACATAGTGCTCGGTTAAAGAATTCGCACACACAGTGCCTC
109145522 TAATCATTCG
Statistics
Matches: 105, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
57 50 0.48
58 55 0.52
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.22
Consensus pattern (57 bp):
ACCGATCTCGCACACATAGTGCTCGGTTAAAGAATTCGCACACACAGTGCCTCAATT
Found at i:109145738 original size:43 final size:43
Alignment explanation
Indices: 109145690--109145806 Score: 198
Period size: 43 Copynumber: 2.7 Consensus size: 43
109145680 CGGCATTATG
* *
109145690 CTAGGCACGAAGACCCGAATACACATCACTGGCACGAAGCCTA
1 CTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTA
*
109145733 CTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTG
1 CTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTA
*
109145776 CTAGGCACAAAGGCCCGAATACACATCACCG
1 CTAGGCACGAAGGCCCGAATACACATCACCG
109145807 AGTTTCATGC
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 70 1.00
ACGTcount: A:0.33, C:0.34, G:0.22, T:0.10
Consensus pattern (43 bp):
CTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTA
Found at i:109153130 original size:48 final size:48
Alignment explanation
Indices: 109153053--109153189 Score: 163
Period size: 48 Copynumber: 2.9 Consensus size: 48
109153043 TAAGAGCCAA
**
109153053 TGTAAGACCATGTCTGGGACATGGAGTCGGTGTTGATATGTGA-CCTAG
1 TGTAAGACCATGTCTGGGACATGGAGTCGGCATTGATATGT-ATCCTAG
* *
109153101 TGTAAGACCATGTTTGGGACAT-GACGTCGGCATTGATATGTATGCTAG
1 TGTAAGACCATGTCTGGGACATGGA-GTCGGCATTGATATGTATCCTAG
* * *
109153149 TGTAAGACCATATCTGGGATATGGCA-TCGGCATCGATATGT
1 TGTAAGACCATGTCTGGGACATGG-AGTCGGCATTGATATGT
109153190 GATTTCATGT
Statistics
Matches: 77, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
47 3 0.04
48 72 0.94
49 1 0.01
50 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.30, T:0.30
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGAGTCGGCATTGATATGTATCCTAG
Found at i:109153201 original size:48 final size:48
Alignment explanation
Indices: 109153053--109153267 Score: 162
Period size: 48 Copynumber: 4.6 Consensus size: 48
109153043 TAAGAGCCAA
* ** *
109153053 TGTAAGACCATGTCTGGGACATGG-AGTCGGTGTTGATATGTGA-CCTAG
1 TGTAAGACCATATCTGGGACATGGCA-TCGGCATTGATATGTGATTC-AG
* * * * *
109153101 TGTAAGACCATGTTTGGGACATGACGTCGGCATTGATATGT-ATGCTAG
1 TGTAAGACCATATCTGGGACATGGCATCGGCATTGATATGTGATTC-AG
* *
109153149 TGTAAGACCATATCTGGGATATGGCATCGGCATCGATATGTGATTTCA-
1 TGTAAGACCATATCTGGGACATGGCATCGGCATTGATATGTGA-TTCAG
* * * * **
109153197 TGTAAGACCATATCTAGG--AT---AT-GGTATTGGTATGAGATTTTG
1 TGTAAGACCATATCTGGGACATGGCATCGGCATTGATATGTGATTCAG
*
109153239 TGTAAGACCATCTCTGGGACATGGCATCG
1 TGTAAGACCATATCTGGGACATGGCATCG
109153268 ATATGAGGTC
Statistics
Matches: 134, Mismatches: 22, Indels: 22
0.75 0.12 0.12
Matches are distributed among these distances:
41 2 0.01
42 27 0.20
43 2 0.01
44 2 0.01
46 2 0.01
47 3 0.02
48 92 0.69
49 2 0.01
50 2 0.01
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (48 bp):
TGTAAGACCATATCTGGGACATGGCATCGGCATTGATATGTGATTCAG
Found at i:109153273 original size:42 final size:42
Alignment explanation
Indices: 109153148--109153306 Score: 138
Period size: 42 Copynumber: 3.6 Consensus size: 42
109153138 ATGTATGCTA
*
109153148 GTGTAAGACCATATCTGGGATATGGCATCGGCATCGATATGTGATTTC
1 GTGTAAGACCATATCTGGG--A---CAT-GGCATCGATATGAGATTTC
* * * * * * *
109153196 ATGTAAGACCATATCTAGGATATGGTATTGGTATGAGATTTT
1 GTGTAAGACCATATCTGGGACATGGCATCGATATGAGATTTC
* * **
109153238 GTGTAAGACCATCTCTGGGACATGGCATCGATATGAGGTCCC
1 GTGTAAGACCATATCTGGGACATGGCATCGATATGAGATTTC
* *
109153280 GTATAAGACCATGTCTGGGACATGGCA
1 GTGTAAGACCATATCTGGGACATGGCA
109153307 CCGACACCGA
Statistics
Matches: 90, Mismatches: 21, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
42 70 0.78
43 2 0.02
46 1 0.01
48 17 0.19
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGACATGGCATCGATATGAGATTTC
Found at i:109159472 original size:43 final size:43
Alignment explanation
Indices: 109159425--109159537 Score: 129
Period size: 43 Copynumber: 2.6 Consensus size: 43
109159415 TATAACAGCA
*
109159425 TTAGCTGAGTAAATGGCACTAAGTGTGAGATACAATTATAGCT
1 TTAGCTAAGTAAATGGCACTAAGTGTGAGATACAATTATAGCT
* ** *
109159468 TTAGCTAATTATTTGGCACTAAGTGTGCGATACAATTATAGC-
1 TTAGCTAAGTAAATGGCACTAAGTGTGAGATACAATTATAGCT
* * * *
109159510 TTCGACTAATTAATTAGCACTAAGTGTG
1 TTAG-CTAAGTAAATGGCACTAAGTGTG
109159538 TGAGTTCGTT
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
42 3 0.05
43 58 0.95
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.34
Consensus pattern (43 bp):
TTAGCTAAGTAAATGGCACTAAGTGTGAGATACAATTATAGCT
Found at i:109160517 original size:139 final size:139
Alignment explanation
Indices: 109160343--109160622 Score: 497
Period size: 139 Copynumber: 2.0 Consensus size: 139
109160333 ATGTTTATAG
* *
109160343 ATTTTTTGGAGATTTGCTCTGGTTGGAAGTCGATGGAGACGTCATCACACTATCCAGTTATCATT
1 ATTTTTTGGAGATCTGCTCTAGTTGGAAGTCGATGGAGACGTCATCACACTATCCAGTTATCATT
* *
109160408 TCGGTAATTAATGTTTTGGGAGTTGGTTATGTGGCATGTATAGGCTAGAAGTATATGAATATGTT
66 TCGGTAATTAATATTTTGGGAGTTGGTTATATGGCATGTATAGGCTAGAAGTATATGAATATGTT
109160473 TGGTGATGT
131 TGGTGATGT
* *
109160482 ATTTTTTGGAGATCTGCTCTAGTTGGAAGTTGATGGAGATGTCATCACACTATCCAGTTATCATT
1 ATTTTTTGGAGATCTGCTCTAGTTGGAAGTCGATGGAGACGTCATCACACTATCCAGTTATCATT
*
109160547 TCGGTAATTAATATTTTGGGATTTGGTTATATGGCATGTATAGGCTAGAAGTATATGAATATGTT
66 TCGGTAATTAATATTTTGGGAGTTGGTTATATGGCATGTATAGGCTAGAAGTATATGAATATGTT
109160612 TGGTGATGT
131 TGGTGATGT
109160621 AT
1 AT
109160623 ATATCTAGCC
Statistics
Matches: 134, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
139 134 1.00
ACGTcount: A:0.25, C:0.10, G:0.26, T:0.40
Consensus pattern (139 bp):
ATTTTTTGGAGATCTGCTCTAGTTGGAAGTCGATGGAGACGTCATCACACTATCCAGTTATCATT
TCGGTAATTAATATTTTGGGAGTTGGTTATATGGCATGTATAGGCTAGAAGTATATGAATATGTT
TGGTGATGT
Found at i:109160760 original size:15 final size:15
Alignment explanation
Indices: 109160740--109160770 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
109160730 AGAAATTGGT
109160740 ATATGTTTATTTGAG
1 ATATGTTTATTTGAG
109160755 ATATGTTTATTTGAG
1 ATATGTTTATTTGAG
109160770 A
1 A
109160771 AAGTGGTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.19, T:0.52
Consensus pattern (15 bp):
ATATGTTTATTTGAG
Found at i:109165382 original size:42 final size:42
Alignment explanation
Indices: 109165335--109165441 Score: 205
Period size: 42 Copynumber: 2.5 Consensus size: 42
109165325 GTATTGTCTC
109165335 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
109165377 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
*
109165419 GGCACTAAGTGTGCGGGTTTAAA
1 GGCACTAAGTGTGCGGGTATAAA
109165442 ATTTACAGCA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.30, C:0.14, G:0.34, T:0.22
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
Found at i:109165468 original size:29 final size:28
Alignment explanation
Indices: 109165420--109165516 Score: 83
Period size: 26 Copynumber: 3.5 Consensus size: 28
109165410 GACAAGATTG
**
109165420 GCACTAAGTGTGCGGGTTTAAAATT-TACA
1 GCACTAAGTGTGCGAATTT--AATTATACA
*
109165449 GCACTAAGTGTGCGAATTTAATTATATA
1 GCACTAAGTGTGCGAATTTAATTATACA
* ** * *
109165477 GCACTATGTGTGCG-AGCTGATT-TATA
1 GCACTAAGTGTGCGAATTTAATTATACA
109165503 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
109165517 GACTCACTAT
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
26 17 0.29
27 9 0.15
28 16 0.27
29 17 0.29
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAATTTAATTATACA
Found at i:109165488 original size:28 final size:26
Alignment explanation
Indices: 109165441--109165516 Score: 89
Period size: 26 Copynumber: 2.8 Consensus size: 26
109165431 GCGGGTTTAA
* **
109165441 AATTTACAGCACTAAGTGTGCGAATTT
1 AATTTATAGCACTAAGTGTGCG-AGCT
*
109165468 AATTATATAGCACTATGTGTGCGAGCT
1 AATT-TATAGCACTAAGTGTGCGAGCT
*
109165495 GATTTATAGCACTAAGTGTGCG
1 AATTTATAGCACTAAGTGTGCG
109165517 GACTCACTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
26 17 0.40
27 9 0.21
28 16 0.38
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.33
Consensus pattern (26 bp):
AATTTATAGCACTAAGTGTGCGAGCT
Found at i:109173453 original size:42 final size:42
Alignment explanation
Indices: 109173406--109173511 Score: 194
Period size: 42 Copynumber: 2.5 Consensus size: 42
109173396 ATTGGTCTCA
109173406 GCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATTG
1 GCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATTG
*
109173448 GCACTAAGTGTGCAGGTATAAATGGACACGGTGACAAGATTG
1 GCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATTG
*
109173490 GCACTAAGTGTGCGGGTTTAAA
1 GCACTAAGTGTGCGGGTATAAA
109173512 ATTTGTACAG
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.31, C:0.14, G:0.32, T:0.23
Consensus pattern (42 bp):
GCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATTG
Found at i:109173562 original size:28 final size:27
Alignment explanation
Indices: 109173520--109173589 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 27
109173510 AAATTTGTAC
* **
109173520 AGCACTAAGTATGCGAATTTAATTATAT
1 AGCACTAAGTGTGCG-AGCTAATTATAT
* * *
109173548 AGCACTATGTGTGCGAGCTGATTTTAT
1 AGCACTAAGTGTGCGAGCTAATTATAT
109173575 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
109173590 GACTCACTAT
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
27 22 0.63
28 13 0.37
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTAATTATAT
Found at i:109175317 original size:23 final size:23
Alignment explanation
Indices: 109175288--109175371 Score: 141
Period size: 23 Copynumber: 3.7 Consensus size: 23
109175278 GAAATTAATT
* *
109175288 CCACACGGGTGTGTGCCCTATAC
1 CCACACGGGCGTGTGCCCTATTC
*
109175311 ACACACGGGCGTGTGCCCTATTC
1 CCACACGGGCGTGTGCCCTATTC
109175334 CCACACGGGCGTGTGCCCTATTC
1 CCACACGGGCGTGTGCCCTATTC
109175357 CCACACGGGCGTGTG
1 CCACACGGGCGTGTG
109175372 GTGTCTTAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 57 1.00
ACGTcount: A:0.15, C:0.36, G:0.29, T:0.20
Consensus pattern (23 bp):
CCACACGGGCGTGTGCCCTATTC
Found at i:109187336 original size:31 final size:31
Alignment explanation
Indices: 109187298--109187363 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
109187288 TACATGGGCG
*
109187298 TGTGAGTCCACACGGCCCACGTACACAGGCA
1 TGTGAGTCCACACGGCCCACCTACACAGGCA
* * * *
109187329 TGTGAGTCCATACGGCCTACCTACACGGGCG
1 TGTGAGTCCACACGGCCCACCTACACAGGCA
109187360 TGTG
1 TGTG
109187364 TCCCTTTATG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.21, C:0.32, G:0.29, T:0.18
Consensus pattern (31 bp):
TGTGAGTCCACACGGCCCACCTACACAGGCA
Found at i:109200279 original size:37 final size:37
Alignment explanation
Indices: 109200229--109200303 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
109200219 TACTTGGTAA
109200229 TTTTCACTTTCTAGCGATCATCCACATGTTCTCAATC
1 TTTTCACTTTCTAGCGATCATCCACATGTTCTCAATC
109200266 TTTTCACTTTCTAGCGATCATCCACATGTTCTCAATC
1 TTTTCACTTTCTAGCGATCATCCACATGTTCTCAATC
109200303 T
1 T
109200304 AACACAATAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.21, C:0.29, G:0.08, T:0.41
Consensus pattern (37 bp):
TTTTCACTTTCTAGCGATCATCCACATGTTCTCAATC
Found at i:109209690 original size:39 final size:40
Alignment explanation
Indices: 109209589--109209768 Score: 267
Period size: 40 Copynumber: 4.5 Consensus size: 40
109209579 CATTTGAATG
109209589 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
109209629 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
*
109209669 ATATCC-GGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* * * * * *
109209708 ATGTCCGGGTTAAGACCCGAAGGCAATTGGGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
109209748 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
109209769 AAACTTGGGT
Statistics
Matches: 128, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
38 1 0.01
39 49 0.38
40 78 0.61
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
Found at i:109209727 original size:79 final size:79
Alignment explanation
Indices: 109209589--109209768 Score: 272
Period size: 79 Copynumber: 2.3 Consensus size: 79
109209579 CATTTGAATG
*
109209589 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCC-GGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCA
* * *
109209654 TTTGTGCGAGTTGTT
65 ATTGGGCGAGTGGTT
* *
109209669 ATATCCGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATCCGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCAA
*
109209734 TTGGGCGTGTGGTT
66 TTGGGCGAGTGGTT
109209748 ATATCCGGCTAA-ATCCCGAAG
1 ATATCCGGCTAAGA-CCCGAAG
109209769 AAACTTGGGT
Statistics
Matches: 92, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
78 1 0.01
79 85 0.92
80 6 0.07
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (79 bp):
ATATCCGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCAA
TTGGGCGAGTGGTT
Found at i:109217670 original size:40 final size:40
Alignment explanation
Indices: 109217557--109217735 Score: 240
Period size: 40 Copynumber: 4.5 Consensus size: 40
109217547 CATTTGAATG
*
109217557 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
109217597 ATAT-CGGGCTAAGA-CCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* *
109217635 ATATCCGGGCTAAGACCCGAAGGCATTTGTACGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* * * * * *
109217675 ATGTCCGGGTTAAGACCCGAAGGCAATTGGGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
109217715 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
109217736 AAACTTGGGT
Statistics
Matches: 123, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
38 29 0.24
39 31 0.25
40 63 0.51
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
Found at i:109223857 original size:138 final size:138
Alignment explanation
Indices: 109223653--109223952 Score: 315
Period size: 138 Copynumber: 2.2 Consensus size: 138
109223643 GTCGATGCCG
109223653 TGTCCCAGACA-GGTCTTACACTAACACATATCAAGCCGATGCCATGTCCCAGACATGGTCTTAC
1 TGTCCCAGACATGGTCTTACACTAACACATATCAAGCCGATGCCATGTCCCAGACATGGTCTTAC
* * * *
109223717 ACTAGCTTTCACGAT-GC-GGCTGATGCATGTCCCAAACATGTCTTACATTAGCA-TACATATCC
66 ACTAGC-TT-ACG-TCCCAGGCCGATGCATGTCCCAAACATGTCTTACACTAGCACT-CATATCA
109223779 ATGCCAACGCCA
127 ATGCCAACGCCA
* * * * * * * * *
109223791 TGTCCCAAACATGGTCTTACACTGACACATCTCGTAGTCGATG-TATGTGCCATATAT-GTCTTA
1 TGTCCCAGACATGGTCTTACACTAACACATATC-AAGCCGATGCCATGTCCCAGACATGGTCTTA
* * * * *
109223854 CACTGGCTTACGTCCCAAGGCCGATTCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAAT
65 CACTAGCTTACGTCCC-AGGCCGATGCATGTCCCAAACATGTCTTACACTAGCACTCATATCAAT
* *
109223919 GCCGATGCCA
129 GCCAACGCCA
*
109223929 TGTTCCAGACATGGTCTTACACTA
1 TGTCCCAGACATGGTCTTACACTA
109223953 GCTCTCATAA
Statistics
Matches: 133, Mismatches: 23, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
135 1 0.01
136 4 0.03
137 2 0.02
138 89 0.67
139 30 0.23
140 7 0.05
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (138 bp):
TGTCCCAGACATGGTCTTACACTAACACATATCAAGCCGATGCCATGTCCCAGACATGGTCTTAC
ACTAGCTTACGTCCCAGGCCGATGCATGTCCCAAACATGTCTTACACTAGCACTCATATCAATGC
CAACGCCA
Found at i:109223923 original size:46 final size:47
Alignment explanation
Indices: 109223645--109223954 Score: 144
Period size: 46 Copynumber: 6.7 Consensus size: 47
109223635 CCAACTGTGT
* * * * **
109223645 CGATGCCGTGTCCCAGACAGGTCTTACACTA-AC-ACATATCAA-GC
1 CGATGCCATGTCCCAGACATGTCTTACACTAGCCTACGTCCCAAGGC
* *
109223689 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTTTCACGAT-GC--GGC
1 CGATGCCATGTCCCAGACAT-GTCTTACACTAGC-CT-ACG-TCCCAAGGC
* * * * * * *
109223737 TGATG-CATGTCCCAAACATGTCTTACATTAGCATACATATCC-ATGC
1 CGATGCCATGTCCCAGACATGTCTTACACTAGCCTACGT-CCCAAGGC
* * * * * ** *
109223783 CAACGCCATGTCCCAAACATGGTCTTACACT-GAC-ACATCTCGTA-GT
1 CGATGCCATGTCCCAGACAT-GTCTTACACTAGCCTACGTC-CCAAGGC
* * * * * *
109223829 CGATG-TATGTGCCATATATGTCTTACACTGGCTTACGTCCCAAGGC
1 CGATGCCATGTCCCAGACATGTCTTACACTAGCCTACGTCCCAAGGC
* * *
109223875 CGAT-TCATGTCCCAGACATGTCTTACACTAGCACT-CGTCTCAATGC
1 CGATGCCATGTCCCAGACATGTCTTACACTAGC-CTACGTCCCAAGGC
*
109223921 CGATGCCATGTTCCAGACATGGTCTTACACTAGC
1 CGATGCCATGTCCCAGACAT-GTCTTACACTAGC
109223955 TCTCATAATG
Statistics
Matches: 201, Mismatches: 44, Indels: 38
0.71 0.16 0.13
Matches are distributed among these distances:
43 1 0.00
44 30 0.15
45 26 0.13
46 69 0.34
47 43 0.21
48 28 0.14
49 3 0.01
50 1 0.00
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.26
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGTCTTACACTAGCCTACGTCCCAAGGC
Found at i:109230802 original size:40 final size:40
Alignment explanation
Indices: 109230721--109230816 Score: 124
Period size: 40 Copynumber: 2.4 Consensus size: 40
109230711 GATGATAACG
* * *
109230721 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGAGCGAGTAACTAATTCC
109230761 GGGCTAAGTCCCGAAGGCATTTGAGCGAGTAACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGAGCGAGTAACTAAT-TCC
* *
109230801 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
109230817 TACTTGGTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
39 16 0.32
40 34 0.68
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGAGCGAGTAACTAATTCC
Found at i:109232237 original size:17 final size:17
Alignment explanation
Indices: 109232197--109232237 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
109232187 ATATTACTTG
*
109232197 TGATTATGGAATTGAAT
1 TGATTATGGAATTAAAT
109232214 TGATTATGGAATATAAAT
1 TGATTATGGAAT-TAAAT
109232232 TG-TTAT
1 TGATTAT
109232238 TAACTGTTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.73
18 6 0.27
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.44
Consensus pattern (17 bp):
TGATTATGGAATTAAAT
Found at i:109232669 original size:24 final size:24
Alignment explanation
Indices: 109232642--109232694 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
109232632 ACAACCACTG
* *
109232642 CCTCCTACTTTACCACCTGTTATA
1 CCTCCTACTATACCACCTGTGATA
* *
109232666 CCTCCTACTATACCCCCTGTGATG
1 CCTCCTACTATACCACCTGTGATA
109232690 CCTCC
1 CCTCC
109232695 ACCTCCTCCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.17, C:0.43, G:0.08, T:0.32
Consensus pattern (24 bp):
CCTCCTACTATACCACCTGTGATA
Found at i:109237388 original size:10 final size:10
Alignment explanation
Indices: 109237373--109237397 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
109237363 GAACTCATAT
109237373 TAGCTTAATC
1 TAGCTTAATC
109237383 TAGCTTAATC
1 TAGCTTAATC
109237393 TAGCT
1 TAGCT
109237398 ATTCCGAGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (10 bp):
TAGCTTAATC
Found at i:109241659 original size:46 final size:43
Alignment explanation
Indices: 109241561--109241782 Score: 151
Period size: 46 Copynumber: 4.8 Consensus size: 43
109241551 GGGGTCAGGT
* * **
109241561 GCCGATGCCATGTCCCAGACATGGTCTTACATTGACAGATCTCATA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGC-TCTCTCA-AG
* *
109241607 GTCGATGCATGTCCCAGACATGTCCTACACTGGCTTACGTCTCAAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC-T-C-TCTCAAG
* * * *
109241653 GCCGATGCATGTCCCAGATATGTCTTGCACTAGCACTCATCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACT-G-GCTC-TCTCAAG
* * *
109241699 GCTGATGCCATATCCCAAACATGGTCTTACACTGGCTCTCAT-AATGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTC-TCAA---G
* *
109241747 GCCGATGCATGTCCCAGACATGTCTTGCACTAGCTC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTC
109241783 ACACGAGTGA
Statistics
Matches: 139, Mismatches: 26, Indels: 22
0.74 0.14 0.12
Matches are distributed among these distances:
44 10 0.07
45 19 0.14
46 68 0.49
47 26 0.19
48 16 0.12
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (43 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCTCAAG
Found at i:109242327 original size:33 final size:33
Alignment explanation
Indices: 109242285--109242353 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
109242275 CATTTATCAT
109242285 CTATGCAAAATAGTCCTTTTAGGTGTTTCCATG
1 CTATGCAAAATAGTCCTTTTAGGTGTTTCCATG
109242318 CTATGCAAAATAGTCCTTTTAGGTGTTTCCATG
1 CTATGCAAAATAGTCCTTTTAGGTGTTTCCATG
109242351 CTA
1 CTA
109242354 ACACCTTTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.39
Consensus pattern (33 bp):
CTATGCAAAATAGTCCTTTTAGGTGTTTCCATG
Found at i:109243857 original size:24 final size:24
Alignment explanation
Indices: 109243830--109243916 Score: 156
Period size: 24 Copynumber: 3.6 Consensus size: 24
109243820 CTTATTTTGT
109243830 TCGCACACATAGTGCCATGGTAAA
1 TCGCACACATAGTGCCATGGTAAA
109243854 TCGCACACATAGTGCCATGGTAAA
1 TCGCACACATAGTGCCATGGTAAA
*
109243878 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATGGTAAA
*
109243902 TCGCACACTTAGTGC
1 TCGCACACATAGTGC
109243917 AATAGAGAAT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (24 bp):
TCGCACACATAGTGCCATGGTAAA
Found at i:109247233 original size:18 final size:18
Alignment explanation
Indices: 109247210--109247244 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
109247200 AAACTTGCAT
*
109247210 ACTGTTTACTGTTACTGC
1 ACTGTTTACTATTACTGC
109247228 ACTGTTTACTATTACTG
1 ACTGTTTACTATTACTG
109247245 TAATGGCCAA
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:0.20, C:0.20, G:0.14, T:0.46
Consensus pattern (18 bp):
ACTGTTTACTATTACTGC
Found at i:109251160 original size:40 final size:40
Alignment explanation
Indices: 109251079--109251299 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
109251069 AAACCAAGTA
** * *
109251079 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
109251118 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
109251158 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
109251198 CCTTCGGGACTTGGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
109251238 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
109251278 CCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
109251300 CAATCCGAAT
Statistics
Matches: 170, Mismatches: 10, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
39 26 0.15
40 144 0.85
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:109259269 original size:40 final size:40
Alignment explanation
Indices: 109259189--109259408 Score: 304
Period size: 40 Copynumber: 5.6 Consensus size: 40
109259179 AAACCAAGTA
* * *
109259189 CCTTCGGG-TTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*** * *
109259227 CCTTCGGGACTTAAAACGGTTATAGTAACTCACACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
109259267 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
109259307 CCTTCGGGACTTGGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
109259347 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
109259387 CCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
109259409 CAATCCGAAT
Statistics
Matches: 163, Mismatches: 16, Indels: 5
0.89 0.09 0.03
Matches are distributed among these distances:
38 8 0.05
39 17 0.10
40 138 0.85
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:109260007 original size:2 final size:2
Alignment explanation
Indices: 109260000--109260033 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
109259990 TTAAAATACC
109260000 AT AT 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
109260034 TCATAAGTGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:109262399 original size:46 final size:45
Alignment explanation
Indices: 109262315--109262448 Score: 155
Period size: 46 Copynumber: 2.9 Consensus size: 45
109262305 CATTGGGTGG
* *
109262315 TATGTGAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACAT
1 TATGAGAGCAAGTGTAAGACATGTCTGGGACATGCATCAGCC-CAT
* * *
109262361 TATGAGAGCAAGTTTAAGACATGTCTGGGAAATACATCAG--CAT
1 TATGAGAGCAAGTGTAAGACATGTCTGGGACATGCATCAGCCCAT
* *
109262404 TGAGACGAGAGCAAGTGTAAGACATGTCTAGGACATGCATCAGCC
1 T---ATGAGAGCAAGTGTAAGACATGTCTGGGACATGCATCAGCC
109262449 TCAAGATATA
Statistics
Matches: 73, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
43 4 0.05
46 69 0.95
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.22
Consensus pattern (45 bp):
TATGAGAGCAAGTGTAAGACATGTCTGGGACATGCATCAGCCCAT
Found at i:109262562 original size:49 final size:49
Alignment explanation
Indices: 109262500--109262620 Score: 172
Period size: 49 Copynumber: 2.5 Consensus size: 49
109262490 TGTTGCATGT
*
109262500 CAGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGATGAAAGC
* * * * *
109262549 CAGTGTAAAACCTGTCTGGGACATGGCATTGGCCTCGATATATGAAAGT
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGC
109262598 CAGTGTAAGACCTGTCTGGGACA
1 CAGTGTAAGACCTGTCTGGGACA
109262621 CAGCATCAAC
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
48 1 0.02
49 63 0.98
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGC
Found at i:109273610 original size:42 final size:41
Alignment explanation
Indices: 109273495--109273611 Score: 110
Period size: 43 Copynumber: 2.8 Consensus size: 41
109273485 ATCTGAGATA
* * * *
109273495 TCGTGTAAGACCGTCTCTAGGACACAGGCCTCGATTGAGTTT
1 TCGTGTAAGACCATGTCTAGGACAAAGGCATCGATTGAG-TT
* * **
109273537 TACGTATAAGACCATGTCTGGGACATCGGCATCGTATCTGA-TT
1 T-CGTGTAAGACCATGTCTAGGACAAAGGCATCG-AT-TGAGTT
*
109273580 TCGTGTAAGACCTTGTCTAGGACAAAGGCATC
1 TCGTGTAAGACCATGTCTAGGACAAAGGCATC
109273612 AATATTGAAT
Statistics
Matches: 60, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
42 27 0.45
43 28 0.47
44 2 0.03
45 3 0.05
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (41 bp):
TCGTGTAAGACCATGTCTAGGACAAAGGCATCGATTGAGTT
Found at i:109279812 original size:46 final size:46
Alignment explanation
Indices: 109279760--109279887 Score: 159
Period size: 46 Copynumber: 2.8 Consensus size: 46
109279750 AGTGGCATGT
* * * *
109279760 GAGCCAGTGTAAGATATGTCAGGGACATGCATCGGC-TACATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATACA-GACGA
* * **
109279806 GAGCCAGTGCAAGACATGTCTGGGACATGTATCGGCATTGAGACGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATACAGACGA
*
109279852 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGC
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGC
109279888 CTCGAGATAT
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
46 68 0.97
47 2 0.03
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATACAGACGA
Found at i:109280016 original size:93 final size:92
Alignment explanation
Indices: 109279856--109280023 Score: 232
Period size: 93 Copynumber: 1.8 Consensus size: 92
109279846 AGACGAGAGC
* * *
109279856 TAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAAGCTAGTGTAAGACCTGTCT
1 TAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGAGATACAAGCCAGTGTAAGACCTGTCT
109279921 GGGACATGGCGTCAGCTTATTGTGTGT
66 GGGACATGGCGTCAGCTTATTGTGTGT
* * * *
109279948 TAGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATGA-GAGCCAGTGTAAGACCTT
1 TAGTGTAAGACATGTCTGGGACAT-GCATCGAC-CTCGAGAGAT-ACAAGCCAGTGTAAGACCTG
109280011 TCTGGGACATGGC
63 TCTGGGACATGGC
109280024 ATTGGCCTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
92 23 0.35
93 41 0.62
94 2 0.03
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.26
Consensus pattern (92 bp):
TAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGAGATACAAGCCAGTGTAAGACCTGTCT
GGGACATGGCGTCAGCTTATTGTGTGT
Found at i:109280021 original size:49 final size:49
Alignment explanation
Indices: 109279857--109280124 Score: 189
Period size: 49 Copynumber: 5.6 Consensus size: 49
109279847 GACGAGAGCT
* * * * * *
109279857 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGATAT-ACAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGA-AAGCC
* * * * * **
109279905 AGTGTAAGACCTGTCTGGGACATGGCGTC-AGCT-TATTG-TG--TGTT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGAAAGCC
* *
109279949 AGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCAATAGATGAAAGCC
* * * * *
109279998 AGTGTAAGACCTTTCTGGGACATGGCATTGGCCTCAATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGAAAGCC
* ** * *
109280047 AGTGTAAGACCTGTCTGGGACACGGCATCGAATTTAAT-G-T-ACTAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGA-AAGCC
*
109280094 AGTGTAAGACCATGTTTGGGACATGGCATCG
1 AGTGTAAGACC-TGTCTGGGACATGGCATCG
109280125 GCATCTTATC
Statistics
Matches: 173, Mismatches: 36, Indels: 22
0.75 0.16 0.10
Matches are distributed among these distances:
44 30 0.17
45 1 0.01
46 6 0.03
47 18 0.10
48 42 0.24
49 76 0.44
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGAAAGCC
Found at i:109283636 original size:18 final size:19
Alignment explanation
Indices: 109283592--109283629 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
109283582 CAAAAATAAA
109283592 TAAATATTTGTATTATATT
1 TAAATATTTGTATTATATT
*
109283611 TAAATATTT-TATTTTATT
1 TAAATATTTGTATTATATT
109283629 T
1 T
109283630 TCATATTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (19 bp):
TAAATATTTGTATTATATT
Found at i:109283758 original size:50 final size:50
Alignment explanation
Indices: 109283704--109283813 Score: 193
Period size: 50 Copynumber: 2.2 Consensus size: 50
109283694 ACTTCAAATT
*
109283704 TCAATAATTGAGCTTTTCTTATTGGCACCTCAAATTTCAATAAGAAAAGC
1 TCAATTATTGAGCTTTTCTTATTGGCACCTCAAATTTCAATAAGAAAAGC
* *
109283754 TCAATTATTGTGGTTTTCTTATTGGCACCTCAAATTTCAATAAGAAAAGC
1 TCAATTATTGAGCTTTTCTTATTGGCACCTCAAATTTCAATAAGAAAAGC
109283804 TCAATTATTG
1 TCAATTATTG
109283814 TGGTGACCCA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
50 57 1.00
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (50 bp):
TCAATTATTGAGCTTTTCTTATTGGCACCTCAAATTTCAATAAGAAAAGC
Found at i:109283814 original size:50 final size:50
Alignment explanation
Indices: 109283717--109283817 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
109283707 ATAATTGAGC
109283717 TTTTCTTATTGGCACCTCAAATTTCAATAAGAAAAGCTCAATTATTGTGG
1 TTTTCTTATTGGCACCTCAAATTTCAATAAGAAAAGCTCAATTATTGTGG
109283767 TTTTCTTATTGGCACCTCAAATTTCAATAAGAAAAGCTCAATTATTGTGG
1 TTTTCTTATTGGCACCTCAAATTTCAATAAGAAAAGCTCAATTATTGTGG
109283817 T
1 T
109283818 GACCCAACTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.39
Consensus pattern (50 bp):
TTTTCTTATTGGCACCTCAAATTTCAATAAGAAAAGCTCAATTATTGTGG
Found at i:109286487 original size:30 final size:28
Alignment explanation
Indices: 109286451--109286551 Score: 107
Period size: 28 Copynumber: 3.5 Consensus size: 28
109286441 GATAAGATTG
109286451 GCACTAAGTGTGCGAGTTTAAAATTGTTCA
1 GCACTAAGTGTGCGAGTTTAAAATT-TT-A
*
109286481 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATT-T-TA
* * *
109286509 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGTTTAAAAT-TTTA
109286538 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
109286552 GATTCACTAT
Statistics
Matches: 61, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
28 22 0.36
29 17 0.28
30 21 0.34
31 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAAAATTTTA
Found at i:109286563 original size:29 final size:28
Alignment explanation
Indices: 109286480--109286555 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
109286470 AAAATTGTTC
* *
109286480 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
109286508 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
109286537 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
109286556 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:109294924 original size:71 final size:71
Alignment explanation
Indices: 109294836--109294999 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
109294826 GAGATGTATC
109294836 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
109294901 AGGACA
66 AGGACA
*
109294907 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
109294972 CGGACA
66 AGGACA
109294978 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
109295000 AGACAAATCG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:109297087 original size:30 final size:28
Alignment explanation
Indices: 109297051--109297151 Score: 107
Period size: 28 Copynumber: 3.5 Consensus size: 28
109297041 GACAAGATTG
109297051 GCACTAAGTGTGCGAGTTTAAAATTGTTCA
1 GCACTAAGTGTGCGAGTTTAAAATT-TT-A
*
109297081 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATT-T-TA
* * *
109297109 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGTTTAAAAT-TTTA
109297138 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
109297152 GATTCACTAT
Statistics
Matches: 61, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
28 22 0.36
29 17 0.28
30 21 0.34
31 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAAAATTTTA
Found at i:109297163 original size:29 final size:28
Alignment explanation
Indices: 109297080--109297155 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
109297070 AAAATTGTTC
* *
109297080 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
109297108 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
109297137 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
109297156 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:109311417 original size:24 final size:24
Alignment explanation
Indices: 109311357--109311419 Score: 99
Period size: 24 Copynumber: 2.6 Consensus size: 24
109311347 AATCTCAATT
*
109311357 GCACTATGTGTGCAATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
109311381 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
* *
109311405 GCACTAGGCGTGCGA
1 GCACTATGTGTGCGA
109311420 ACATAATAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:109319442 original size:26 final size:24
Alignment explanation
Indices: 109319383--109319445 Score: 108
Period size: 24 Copynumber: 2.6 Consensus size: 24
109319373 AATCTCAATT
*
109319383 GCACTATGTGTTCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
109319407 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
109319431 GCACTAGGTGTGCGA
1 GCACTATGTGTGCGA
109319446 ACATAATAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:109321304 original size:48 final size:48
Alignment explanation
Indices: 109321251--109321351 Score: 184
Period size: 48 Copynumber: 2.1 Consensus size: 48
109321241 TTTATATGAA
109321251 TTGAAATAATTTGAACATATGTGGTAAATTTGACTGAGTGAATAGTAG
1 TTGAAATAATTTGAACATATGTGGTAAATTTGACTGAGTGAATAGTAG
* *
109321299 TTGAAATAATTTGAATATATGTGGTAAATTTGACTGGGTGAATAGTAG
1 TTGAAATAATTTGAACATATGTGGTAAATTTGACTGAGTGAATAGTAG
109321347 TTGAA
1 TTGAA
109321352 GTAGGGTTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.37, C:0.03, G:0.24, T:0.37
Consensus pattern (48 bp):
TTGAAATAATTTGAACATATGTGGTAAATTTGACTGAGTGAATAGTAG
Found at i:109321607 original size:24 final size:25
Alignment explanation
Indices: 109321579--109321662 Score: 107
Period size: 31 Copynumber: 3.2 Consensus size: 25
109321569 AATATGAGAA
109321579 AGTATGTGATATTTTCATGAG-GGG
1 AGTATGTGATATTTTCATGAGAGGG
109321603 AGTATGTGATATTTTCATGAGAGGG
1 AGTATGTGATATTTTCATGAGAGGG
109321628 AGTAAATACGTGTGATATTTTCATGAGAGGG
1 AG----TA--TGTGATATTTTCATGAGAGGG
109321659 AGTA
1 AGTA
109321663 AATACGCGCT
Statistics
Matches: 53, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
24 21 0.40
25 5 0.09
27 2 0.04
29 2 0.04
31 23 0.43
ACGTcount: A:0.30, C:0.05, G:0.31, T:0.35
Consensus pattern (25 bp):
AGTATGTGATATTTTCATGAGAGGG
Found at i:109321645 original size:31 final size:31
Alignment explanation
Indices: 109321607--109321668 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
109321597 GAGGGGAGTA
109321607 TGTGATATTTTCATGAGAGGGAGTAAATACG
1 TGTGATATTTTCATGAGAGGGAGTAAATACG
109321638 TGTGATATTTTCATGAGAGGGAGTAAATACG
1 TGTGATATTTTCATGAGAGGGAGTAAATACG
109321669 CGCTGTACTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.06, G:0.29, T:0.32
Consensus pattern (31 bp):
TGTGATATTTTCATGAGAGGGAGTAAATACG
Found at i:109328256 original size:20 final size:19
Alignment explanation
Indices: 109328228--109328267 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
109328218 AACGATAATA
109328228 AATTATAAAAATTATAAAT
1 AATTATAAAAATTATAAAT
*
109328247 AATTATTAAAAATTCTAAAT
1 AATTA-TAAAAATTATAAAT
109328267 A
1 A
109328268 TATATAATGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
AATTATAAAAATTATAAAT
Found at i:109330031 original size:2 final size:2
Alignment explanation
Indices: 109330024--109330050 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
109330014 ACGATCACAA
109330024 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
109330051 AGCAAGGTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:109331450 original size:16 final size:19
Alignment explanation
Indices: 109331402--109331443 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
109331392 TAAGTAATAT
* *
109331402 ATAATATAA-TATAATATA
1 ATAATATAACTAAAACATA
109331420 ATAATATAACTAAAACATA
1 ATAATATAACTAAAACATA
109331439 A-AATA
1 ATAATA
109331444 AACAAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (19 bp):
ATAATATAACTAAAACATA
Found at i:109334183 original size:2 final size:2
Alignment explanation
Indices: 109334176--109334200 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
109334166 AGATTTCCAG
109334176 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
109334201 CTTTCCATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:109337809 original size:26 final size:26
Alignment explanation
Indices: 109337772--109337821 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
109337762 CCGAAGCTAG
109337772 TTAAATCACACACTTAGTGCCAAAGT
1 TTAAATCACACACTTAGTGCCAAAGT
*
109337798 TTAAATCGCACACTTAGTGCCAAA
1 TTAAATCACACACTTAGTGCCAAA
109337822 ACTTCATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.26
Consensus pattern (26 bp):
TTAAATCACACACTTAGTGCCAAAGT
Found at i:109344733 original size:5 final size:5
Alignment explanation
Indices: 109344650--109344727 Score: 129
Period size: 5 Copynumber: 15.6 Consensus size: 5
109344640 TTTAAATAAT
*
109344650 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATC ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
* *
109344700 ATATC ATATA ATATA ATATC ATATA ATA
1 ATATA ATATA ATATA ATATA ATATA ATA
109344728 ATATAACTAA
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 67 1.00
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:109344813 original size:13 final size:14
Alignment explanation
Indices: 109344791--109344840 Score: 54
Period size: 13 Copynumber: 3.8 Consensus size: 14
109344781 ACAGAAGGTT
*
109344791 GAAACGAAAAAGGGA
1 GAAA-GAAAAAGGAA
109344806 GAAA-AAAAAGGAA
1 GAAAGAAAAAGGAA
109344819 GAAAG-AAAA--AA
1 GAAAGAAAAAGGAA
109344830 GAAAGAAAAAG
1 GAAAGAAAAAG
109344841 AAAGGGGAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
11 7 0.23
12 4 0.13
13 16 0.52
15 4 0.13
ACGTcount: A:0.72, C:0.02, G:0.26, T:0.00
Consensus pattern (14 bp):
GAAAGAAAAAGGAA
Found at i:109344827 original size:17 final size:17
Alignment explanation
Indices: 109344805--109344843 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
109344795 CGAAAAAGGG
*
109344805 AGAAAAAA-AAGGAAGAA
1 AGAAAAAAGAAAGAA-AA
109344822 AGAAAAAAGAAAGAAAA
1 AGAAAAAAGAAAGAAAA
109344839 AGAAA
1 AGAAA
109344844 GGGGAGAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (17 bp):
AGAAAAAAGAAAGAAAA
Found at i:109344829 original size:15 final size:14
Alignment explanation
Indices: 109344797--109344845 Score: 55
Period size: 15 Copynumber: 3.5 Consensus size: 14
109344787 GGTTGAAACG
*
109344797 AAAAAGGGAG-AAA
1 AAAAAGGAAGAAAA
109344810 AAAAAGGAAGAAAGA
1 AAAAAGGAAGAAA-A
*
109344825 AAAAAGAAAGAAAA
1 AAAAAGGAAGAAAA
*
109344839 AGAAAGG
1 AAAAAGG
109344846 GGAGAGTTAG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
13 9 0.30
14 8 0.27
15 13 0.43
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (14 bp):
AAAAAGGAAGAAAA
Found at i:109345555 original size:16 final size:17
Alignment explanation
Indices: 109345517--109345555 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
109345507 TAAGTAAATA
109345517 ATATT-ATATTATAATT
1 ATATTAATATTATAATT
109345533 ATATTAATATTATAA-T
1 ATATTAATATTATAATT
109345549 ATATTAA
1 ATATTAA
109345556 ATGAATAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATTAATATTATAATT
Found at i:109355747 original size:92 final size:92
Alignment explanation
Indices: 109355587--109355974 Score: 551
Period size: 92 Copynumber: 4.2 Consensus size: 92
109355577 ATGTACATGT
* * * *
109355587 GGTAATCCGTTATACCGATATGTTGTAGTAAAACTGCCAGTTCAGTCAAAGGTACGTAGCGTAAC
1 GGTAATCCGCTATACCGATAGGTTGCAGTAAAACTGCCAGTTCAGTCAAAGGTACGTAGCGTAGC
*
109355652 TAACGTACATACGGTACAGTGCAGTGC
66 TAACGTACATACGGTACAGTGCAATGC
* * * * * * *
109355679 GGTAATTCGTTATACCGATAGCTTACAGTAAAATTGCTAGTTCAGTCAAAGGTATGTAGCGTAGC
1 GGTAATCCGCTATACCGATAGGTTGCAGTAAAACTGCCAGTTCAGTCAAAGGTACGTAGCGTAGC
*
109355744 TAACGTACATGCGGTACAGTGCAATGC
66 TAACGTACATACGGTACAGTGCAATGC
* * *
109355771 GGTAATCCGCTATATCGATAGGTTGCAGTAAAATTGCCAGTTCAGTCAAAGGTACGTAGTGTAGC
1 GGTAATCCGCTATACCGATAGGTTGCAGTAAAACTGCCAGTTCAGTCAAAGGTACGTAGCGTAGC
* ** *
109355836 TAACGAACATACGACACAGTACAATGC
66 TAACGTACATACGGTACAGTGCAATGC
*
109355863 GGTAATCCGCTATACCGATAGGTTGCAGTAAAACTGCCAGTTCAGTCAAAGGTATGTAGCGTAGC
1 GGTAATCCGCTATACCGATAGGTTGCAGTAAAACTGCCAGTTCAGTCAAAGGTACGTAGCGTAGC
* *
109355928 TAACGTACATATGGTACAGTCCAATGC
66 TAACGTACATACGGTACAGTGCAATGC
* *
109355955 AGTAATTCGCTATACCGATA
1 GGTAATCCGCTATACCGATA
109355975 TCGATAAAGT
Statistics
Matches: 261, Mismatches: 35, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
92 261 1.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.26
Consensus pattern (92 bp):
GGTAATCCGCTATACCGATAGGTTGCAGTAAAACTGCCAGTTCAGTCAAAGGTACGTAGCGTAGC
TAACGTACATACGGTACAGTGCAATGC
Found at i:109356501 original size:21 final size:20
Alignment explanation
Indices: 109356434--109356511 Score: 66
Period size: 21 Copynumber: 3.7 Consensus size: 20
109356424 GTCCAAACGC
*
109356434 CCGTGTGAAGGGTAGCACACGG
1 CCGTGTGAAGAG--GCACACGG
* *
109356456 CCGTGTGACAGAGGCACATGC
1 CCGTGTGA-AGAGGCACACGG
*
109356477 CCGTGTGAAGTAGGGACACGG
1 CCGTGTGAAG-AGGCACACGG
* *
109356498 CCGTATGAACAGGC
1 CCGTGTGAAGAGGC
109356512 CGTGTAACTC
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
20 5 0.11
21 29 0.64
22 8 0.18
23 3 0.07
ACGTcount: A:0.24, C:0.24, G:0.37, T:0.14
Consensus pattern (20 bp):
CCGTGTGAAGAGGCACACGG
Found at i:109357320 original size:26 final size:26
Alignment explanation
Indices: 109357277--109357326 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
109357267 TAAAATGAAA
* * * *
109357277 TAAAAATAAGTAGTAGAATAAAAACT
1 TAAAAAGAAGAAGAAGAAGAAAAACT
109357303 TAAAAAGAAGAAGAAGAAGAAAAA
1 TAAAAAGAAGAAGAAGAAGAAAAA
109357327 AATTCATCCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.68, C:0.02, G:0.16, T:0.14
Consensus pattern (26 bp):
TAAAAAGAAGAAGAAGAAGAAAAACT
Found at i:109357962 original size:17 final size:18
Alignment explanation
Indices: 109357940--109357975 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
109357930 TGTCACGAAA
*
109357940 TCCCTC-TCATGACGTTG
1 TCCCTCGTCACGACGTTG
109357957 TCCCTCGTCACGACGTTG
1 TCCCTCGTCACGACGTTG
109357975 T
1 T
109357976 GCCTATTTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.11, C:0.36, G:0.19, T:0.33
Consensus pattern (18 bp):
TCCCTCGTCACGACGTTG
Found at i:109358680 original size:30 final size:31
Alignment explanation
Indices: 109358620--109358681 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 31
109358610 AATAAACCTT
109358620 TTATATTTTATAATGTTATTAATAATTTTCTA
1 TTATATTTTATAA-GTTATTAATAATTTTCTA
* *
109358652 TTATTTTTTATAA-TT-TTAATATTCTTTCTA
1 TTATATTTTATAAGTTATTAATAAT-TTTCTA
109358682 AATTTTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 7 0.26
30 8 0.30
32 12 0.44
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.63
Consensus pattern (31 bp):
TTATATTTTATAAGTTATTAATAATTTTCTA
Found at i:109361264 original size:14 final size:14
Alignment explanation
Indices: 109361233--109361274 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
109361223 ACACTTCTTT
*
109361233 TAAATCTATA-ATA
1 TAAATATATATATA
109361246 T-AATATATATATA
1 TAAATATATATATA
109361259 TAAATATATATATA
1 TAAATATATATATA
109361273 TA
1 TA
109361275 CTGGCAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 7 0.27
13 5 0.19
14 14 0.54
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (14 bp):
TAAATATATATATA
Found at i:109361265 original size:12 final size:12
Alignment explanation
Indices: 109361233--109361272 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
109361223 ACACTTCTTT
*
109361233 TAAATCTATAATA
1 TAAATATAT-ATA
109361246 TAATATATATATA
1 TAA-ATATATATA
109361259 TAAATATATATA
1 TAAATATATATA
109361271 TA
1 TA
109361273 TACTGGCAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 11 0.44
13 9 0.36
14 5 0.20
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (12 bp):
TAAATATATATA
Found at i:109361712 original size:6 final size:6
Alignment explanation
Indices: 109361701--109361729 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
109361691 AGATAAGAGT
109361701 TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
109361730 AATAATTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTC
Found at i:109361939 original size:20 final size:20
Alignment explanation
Indices: 109361914--109361956 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
109361904 TAGAAAATGA
109361914 TTTTTA-AAAAATGAATTTAT
1 TTTTTAGAAAAATGAATTT-T
*
109361934 TTTTTAGAAAAATTAATTTT
1 TTTTTAGAAAAATGAATTTT
109361954 TTT
1 TTT
109361957 AGTGTTTGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTTTAGAAAAATGAATTTT
Found at i:109372913 original size:15 final size:15
Alignment explanation
Indices: 109372895--109372926 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
109372885 ACTAGAAGTG
109372895 CTCTCAACAGAAACC
1 CTCTCAACAGAAACC
109372910 CTCTCAACAGAAACC
1 CTCTCAACAGAAACC
109372925 CT
1 CT
109372927 TAAGTTATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.41, G:0.06, T:0.16
Consensus pattern (15 bp):
CTCTCAACAGAAACC
Found at i:109374283 original size:19 final size:19
Alignment explanation
Indices: 109374259--109374306 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
109374249 AGTGTAATTC
* *
109374259 GAATTTTATGTACATTACA
1 GAATTTTATGTACAGTAAA
109374278 GAATTTTATGTACAGTAAA
1 GAATTTTATGTACAGTAAA
109374297 GAATTTTATG
1 GAATTTTATG
109374307 CATCAGTTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.38, C:0.06, G:0.15, T:0.42
Consensus pattern (19 bp):
GAATTTTATGTACAGTAAA
Found at i:109379667 original size:26 final size:26
Alignment explanation
Indices: 109379608--109379717 Score: 165
Period size: 26 Copynumber: 4.3 Consensus size: 26
109379598 CTGGAGGCCT
109379608 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
*
109379632 AGCCCTTTTCAATAAACTAGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
109379658 GGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
109379684 AGCCCTTTTCAATAAACTGGGGCAT-
1 AGCCCTTTTCAATAAACTGGGGCATA
109379709 AGCCCTTTT
1 AGCCCTTTT
109379718 GCACTTCCTC
Statistics
Matches: 79, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
23 5 0.06
24 7 0.09
25 18 0.23
26 49 0.62
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:109379792 original size:20 final size:20
Alignment explanation
Indices: 109379767--109379841 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
109379757 TTATGATTAC
*
109379767 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
*
109379787 ATCATGTCCATATCATACAT
1 ATCATGTGCATATCATACAT
109379807 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
109379827 ATCATGT--ATATCATA
1 ATCATGTGCATATCATA
109379842 TCTCACATAT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
18 8 0.16
20 41 0.80
21 2 0.04
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:109379798 original size:11 final size:11
Alignment explanation
Indices: 109379782--109379834 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 11
109379772 GTGCATTTCA
109379782 TACATATCATG
1 TACATATCATG
*
109379793 TCCATATCA--
1 TACATATCATG
109379802 TACATATCATG
1 TACATATCATG
* *
109379813 TGCATATCATA
1 TACATATCATG
109379824 T-CA-ATCATG
1 TACATATCATG
109379833 TA
1 TA
109379835 TATCATATCT
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
9 14 0.41
10 2 0.06
11 18 0.53
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.36
Consensus pattern (11 bp):
TACATATCATG
Found at i:109379839 original size:9 final size:10
Alignment explanation
Indices: 109379784--109379840 Score: 57
Period size: 9 Copynumber: 5.8 Consensus size: 10
109379774 GCATTTCATA
109379784 CATATCATGT
1 CATATCATGT
*
109379794 CCATATCAT-A
1 -CATATCATGT
109379804 CATATCATGT
1 CATATCATGT
*
109379814 GCATATCATAT
1 -CATATCATGT
109379825 CA-ATCATGT
1 CATATCATGT
109379834 -ATATCAT
1 CATATCAT
109379841 ATCTCACATA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 1 0.03
9 19 0.49
10 2 0.05
11 17 0.44
ACGTcount: A:0.35, C:0.21, G:0.07, T:0.37
Consensus pattern (10 bp):
CATATCATGT
Found at i:109389115 original size:16 final size:16
Alignment explanation
Indices: 109389094--109389126 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
109389084 AAGGATGTAT
*
109389094 TAAAAATAAAATTAAA
1 TAAAAATAAAATAAAA
109389110 TAAAAATAAAATAAAA
1 TAAAAATAAAATAAAA
109389126 T
1 T
109389127 TTAAGTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
TAAAAATAAAATAAAA
Found at i:109394373 original size:47 final size:47
Alignment explanation
Indices: 109394260--109394546 Score: 414
Period size: 47 Copynumber: 6.1 Consensus size: 47
109394250 TTAGGATTTT
** *
109394260 ATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGG-CA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
109394306 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
109394353 ATGTGGTGAATATGAACATGCATATATGTGATACGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
109394400 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
109394447 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
109394494 ATGTGGTGAATATGAACATGCGTATATGTGGTAAAGCCGAATGGTCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
109394541 ATGTGA
1 ATGTGA
109394547 AATATATATA
Statistics
Matches: 214, Mismatches: 26, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
46 39 0.18
47 175 0.82
ACGTcount: A:0.31, C:0.11, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:109394502 original size:25 final size:25
Alignment explanation
Indices: 109394427--109394502 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
109394417 ATGCATATAT
109394427 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
109394452 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
109394474 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
109394499 GTGA
1 GTGA
109394503 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:109394512 original size:141 final size:140
Alignment explanation
Indices: 109394259--109394546 Score: 486
Period size: 141 Copynumber: 2.0 Consensus size: 140
109394249 TTTAGGATTT
** *
109394259 TATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCAATGTGATGAATGTGAGCA
1 TATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCAATGTGATGAATGTGAGCA
**
109394324 TGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATACGG
66 TGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAAG
109394389 CCGAATGGCC
131 CCGAATGGCC
109394399 TATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGC
1 TATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGG-CAATGTGATGAATGTGAGC
* *
109394464 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCGTATATGTGGTAAA
65 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAA
*
109394529 GCCGAATGGTC
130 GCCGAATGGCC
*
109394540 AATGTGA
1 TATGTGA
109394547 AATATATATA
Statistics
Matches: 138, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
140 42 0.30
141 96 0.70
ACGTcount: A:0.31, C:0.11, G:0.30, T:0.27
Consensus pattern (140 bp):
TATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCAATGTGATGAATGTGAGCA
TGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAAG
CCGAATGGCC
Found at i:109394597 original size:94 final size:93
Alignment explanation
Indices: 109394281--109394602 Score: 321
Period size: 94 Copynumber: 3.4 Consensus size: 93
109394271 GTGAATGTGT
* * * * * * *
109394281 ATATATGTGATAAGGCCGAATGG-CAATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCG
1 ATATGTGTGATAAAGCCGAATGGCCTATGTG-TGAATATGAACATGCATATATGTGATAAAGCCG
* *
109394345 AATGGCCAATGTGGTGAATATGAACATGC
65 AATGGCCAATGTGATGAATATGAGCATGC
* ** * *
109394374 ATATATGTGATACGGCCGAATGGCCTATGTGATGAATGTGAACATGCATATATGTGATAAGGCCG
1 ATATGTGTGATAAAGCCGAATGGCCTATGTG-TGAATATGAACATGCATATATGTGATAAAGCCG
*
109394439 AATGGCCAATGTGATGAATGTGAGCATGC
65 AATGGCCAATGTGATGAATATGAGCATGC
* * * *
109394468 ATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCGTATATGTGGTAAAGCCG
1 ATATGTGTGATAAAGCCGAATGGCCTATGT-GTGAATATGAACATGCATATATGTGATAAAGCCG
* * * *
109394533 AATGGTCAATGTGAAATATATATATGAGATATGT
65 AATGGCCAATGTG--AT-GA-ATATGAG-CATGC
109394567 ATATGTG-G-TAAAGCCGAATGG-CTA-GTGTGAAATATG
1 ATATGTGTGATAAAGCCGAATGGCCTATGTGTG-AATATG
109394603 TAGGCGATGT
Statistics
Matches: 200, Mismatches: 21, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
93 22 0.11
94 135 0.68
95 9 0.05
96 4 0.02
97 13 0.06
98 7 0.04
99 10 0.05
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (93 bp):
ATATGTGTGATAAAGCCGAATGGCCTATGTGTGAATATGAACATGCATATATGTGATAAAGCCGA
ATGGCCAATGTGATGAATATGAGCATGC
Found at i:109394807 original size:37 final size:37
Alignment explanation
Indices: 109394751--109394859 Score: 137
Period size: 37 Copynumber: 2.9 Consensus size: 37
109394741 GGAAATATAT
* *
109394751 TCCGGGTGAGACCCAATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * * *
109394788 TCCGGGTAAGACCTGATGACTACGTGTGAAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
109394825 TCTGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
109394860 CGTCTGAGCT
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:109397548 original size:13 final size:13
Alignment explanation
Indices: 109397527--109397566 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
109397517 GAAGTAATTG
109397527 CACACGGGCGTGT
1 CACACGGGCGTGT
*
109397540 CACATGGGCGTGT
1 CACACGGGCGTGT
109397553 CACACGGGCGTGT
1 CACACGGGCGTGT
109397566 C
1 C
109397567 TTTGCCGAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.15, C:0.30, G:0.38, T:0.17
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:109407946 original size:40 final size:40
Alignment explanation
Indices: 109407901--109408064 Score: 231
Period size: 40 Copynumber: 4.1 Consensus size: 40
109407891 CGGAATATAA
* * *
109407901 CCGGATATAACCACAAGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGC
*
109407941 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGC
*
109407981 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
109408021 CCAGATATAATC-ACTAGCATAATTGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTAGCACAAATGCCTTCGGGTCTTAGC
109408061 CCGG
1 CCGG
109408065 GTACCATTCA
Statistics
Matches: 113, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
40 112 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
CCGGATATAACAACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:109408275 original size:163 final size:163
Alignment explanation
Indices: 109408004--109408315 Score: 552
Period size: 163 Copynumber: 1.9 Consensus size: 163
109407994 CTCGCACAAA
* *
109408004 TGCCTTCGGGTCTTAGCCCAGATATAATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTAC
1 TGCCTTCGGGACTTAGCCCAGATATAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGGTAC
*
109408069 CATTCAAATGCTCATGCACACATATATCAATAATCATGACACATCCATATTTCATTTTCGTTACT
66 CATTCAAATGCTCATGCACACATATATCAATAATCACGACACATCCATATTTCATTTTCGTTACT
*
109408134 AAGGGTCAAACACAAACATATCACTAGCATAAT
131 AAGGCTCAAACACAAACATATCACTAGCATAAT
* * *
109408167 TGCCTTCGGGACTTAGCCCGGATATAATCACTAGCATAAATGTCTTCGGGACTTAGCCCGGGTAT
1 TGCCTTCGGGACTTAGCCCAGATATAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGGTAC
*
109408232 CATTCAATTGCTCATGCACACATATATCAATAATCACGACACATCCATATTTCATTTTCGTTACT
66 CATTCAAATGCTCATGCACACATATATCAATAATCACGACACATCCATATTTCATTTTCGTTACT
109408297 AAGGCTCAAACACAAACAT
131 AAGGCTCAAACACAAACAT
109408316 TTATCAAACC
Statistics
Matches: 141, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
163 141 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.29
Consensus pattern (163 bp):
TGCCTTCGGGACTTAGCCCAGATATAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGGTAC
CATTCAAATGCTCATGCACACATATATCAATAATCACGACACATCCATATTTCATTTTCGTTACT
AAGGCTCAAACACAAACATATCACTAGCATAAT
Found at i:109417085 original size:29 final size:30
Alignment explanation
Indices: 109417051--109417111 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
109417041 CAAGTAGTCG
109417051 AAGCTAG-TTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTTAAATCGCACACTTAGTGCCA
109417080 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTTAAATCGCACACTTAGTGCCA
109417110 AA
1 AA
109417112 ACTTCCTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 7 0.23
30 24 0.77
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (30 bp):
AAGCTAGTTTAAATCGCACACTTAGTGCCA
Found at i:109418297 original size:24 final size:25
Alignment explanation
Indices: 109418270--109418319 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
109418260 AGAATAAAAC
109418270 AATT-AAAAT-ACATTAATATTTCAA
1 AATTCAAAATCACATTAAT-TTTCAA
**
109418294 AATTCAATTTCACATTAATTTTCAA
1 AATTCAAAATCACATTAATTTTCAA
109418319 A
1 A
109418320 TTTTACATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 4 0.18
25 10 0.45
26 8 0.36
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (25 bp):
AATTCAAAATCACATTAATTTTCAA
Found at i:109422276 original size:24 final size:24
Alignment explanation
Indices: 109422228--109422276 Score: 57
Period size: 24 Copynumber: 2.0 Consensus size: 24
109422218 TATATATGCT
*
109422228 TTATGATTTTTTATCATATTTATA
1 TTATGATTTTTTATAATATTTATA
109422252 TTATG-TTATTTTATAAT-TTTGATA
1 TTATGATT-TTTTATAATATTT-ATA
109422276 T
1 T
109422277 ATATATATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.63
Consensus pattern (24 bp):
TTATGATTTTTTATAATATTTATA
Found at i:109428314 original size:48 final size:49
Alignment explanation
Indices: 109428248--109428465 Score: 166
Period size: 48 Copynumber: 4.6 Consensus size: 49
109428238 ATCAAAGTCA
* * * *
109428248 ATGCCATGTCCTAAACAGGTCTTATACTGACTATCATATATCGAGGCCG
1 ATGCCGTGTCCCAGACAGGTCTTACACTGACTATCATATATCGAGGCCG
* * * *
109428297 AT-CCGTGTCCCAGACAGGTTTTACACTTACTTTCATATATCGAGGCTG
1 ATGCCGTGTCCCAGACAGGTCTTACACTGACTATCATATATCGAGGCCG
** * * *
109428345 ATGTTGTGTCCCAGACAGGTCTTACACTGAC-A-CACA-A-C-AAGCTG
1 ATGCCGTGTCCCAGACAGGTCTTACACTGACTATCATATATCGAGGCCG
* * * * * *
109428389 ACGCCATGTCCTAGACAAGTCTTACACT-AGCT-TGTATATCTCGAGGCCG
1 ATGCCGTGTCCCAGACAGGTCTTACACTGA-CTAT-CATATATCGAGGCCG
* *
109428438 ATG-CATGTCCCAGACATGTCTTACACTG
1 ATGCCGTGTCCCAGACAGGTCTTACACTG
109428466 GCTCTCAATA
Statistics
Matches: 131, Mismatches: 29, Indels: 18
0.74 0.16 0.10
Matches are distributed among these distances:
43 1 0.01
44 28 0.21
45 1 0.01
46 3 0.02
47 3 0.02
48 63 0.48
49 32 0.24
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (49 bp):
ATGCCGTGTCCCAGACAGGTCTTACACTGACTATCATATATCGAGGCCG
Found at i:109431319 original size:18 final size:18
Alignment explanation
Indices: 109431296--109431331 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
109431286 TTCCCGGGTG
109431296 GTAGTCGATTATCAACTC
1 GTAGTCGATTATCAACTC
**
109431314 GTAGTCTTTTATCAACTC
1 GTAGTCGATTATCAACTC
109431332 CAACCATCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (18 bp):
GTAGTCGATTATCAACTC
Found at i:109435189 original size:40 final size:40
Alignment explanation
Indices: 109435129--109435302 Score: 194
Period size: 40 Copynumber: 4.4 Consensus size: 40
109435119 TATTCGAATG
*
109435129 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * * *
109435169 ATATCTGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * * * *
109435209 ATATCTGGGCTAA-AACCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
109435248 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
109435288 ATATCCGGGCTAAGA
1 ATATCCGGGCTAAGA
109435303 CCATAAGGCC
Statistics
Matches: 112, Mismatches: 16, Indels: 11
0.81 0.12 0.08
Matches are distributed among these distances:
38 1 0.01
39 32 0.29
40 76 0.68
41 3 0.03
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:109435233 original size:39 final size:40
Alignment explanation
Indices: 109435145--109435323 Score: 141
Period size: 40 Copynumber: 4.5 Consensus size: 40
109435135 GGGCTAAGTC
* * * *
109435145 CCGAAGGCTTTTATGCTAGTGACTATATCTGGACTAAGAT
1 CCGAAGGCATTTGTGCGAGTGACTATATCTGGACTAAGAA
*
109435185 CCGAAGGCATTTGTGCGAGTTG-CTATATCTGGGCTAA-AA
1 CCGAAGGCATTTGTGCGAG-TGACTATATCTGGACTAAGAA
* * * * * **
109435224 CCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTGACTATATCTGGACTAAGAA
* * * * *
109435264 CCGAAGGCATTTATGCTAGTGACCATATCCGGGCTAAG-A
1 CCGAAGGCATTTGTGCGAGTGACTATATCTGGACTAAGAA
* *
109435303 CCATAAGGC-CTTGTGCGAGTG
1 CC-GAAGGCATTTGTGCGAGTG
109435324 GTTATATCCG
Statistics
Matches: 115, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
38 1 0.01
39 43 0.37
40 69 0.60
41 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTGACTATATCTGGACTAAGAA
Found at i:109435317 original size:79 final size:79
Alignment explanation
Indices: 109435129--109435347 Score: 212
Period size: 79 Copynumber: 2.8 Consensus size: 79
109435119 TATTCGAATG
* * * * * *
109435129 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCTGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAG-ACCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAG-TCCCGAAGGC
* *
109435193 ATTTGTGCGAGTTGCT
64 ATTTATGCGAGTTGCC
* * *
109435209 ATATCTGGGCTAAAACCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAGTCCCGAAGGCAT
1 ATATCCGGGCTAAGACCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTCCCGAAGGCAT
*
109435274 TTATGCTAG-TGACC
66 TTATGCGAGTTG-CC
* * * * * *
109435288 ATATCCGGGCTAAGACCATAAGGC-CTTGTGCGAGTGGTTATATCC-GGCTAAATCTCGAAG
1 ATATCCGGGCTAAGACC-GAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTCCCGAAG
109435348 ATACTTGGGT
Statistics
Matches: 115, Mismatches: 21, Indels: 8
0.80 0.15 0.06
Matches are distributed among these distances:
78 16 0.14
79 82 0.71
80 17 0.15
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTCCCGAAGGCAT
TTATGCGAGTTGCC
Found at i:109447499 original size:21 final size:20
Alignment explanation
Indices: 109447462--109447501 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
109447452 CCCTTGAAAT
* *
109447462 AGGGCACACGTCTGTGTGGA
1 AGGGCACACGCCCGTGTGGA
109447482 AGGGCAACACGCCCGTGTGG
1 AGGGC-ACACGCCCGTGTGG
109447502 TCATTATAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.20, C:0.25, G:0.40, T:0.15
Consensus pattern (20 bp):
AGGGCACACGCCCGTGTGGA
Found at i:109448812 original size:92 final size:95
Alignment explanation
Indices: 109448641--109448864 Score: 233
Period size: 94 Copynumber: 2.4 Consensus size: 95
109448631 AAGGTGTAAT
* * *
109448641 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCATGCCGATACCATGTCT
1 GCCGATG-CATGCCCCAGACAT-GTCTTACACTAGCTCTCACATATCAATGCCGATACCATGTCC
* *
109448706 TAGACATGGTCTTACACTGACACATC-T-CGTA
64 CAGACATGGCCTTACACTGACAC-TCATACGTA
* * * * * *
109448737 GCCGATGCATGCCCCAGACATATCTTACACTAG-T-TCTCGTCTCAATGCTGATGCCATGTCCCA
1 GCCGATGCATGCCCCAGACATGTCTTACACTAGCTCTCACATATCAATGCCGATACCATGTCCCA
* * * *
109448800 GATATGGCCTTACACTGACTCTCATAATGTG
66 GACATGGCCTTACACTGACACTCAT-ACGTA
109448831 GCCGATGCAT-CTCCCAGACATGTCTTACACTAGC
1 GCCGATGCATGC-CCCAGACATGTCTTACACTAGC
109448865 GCACAAATGA
Statistics
Matches: 107, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
91 2 0.02
92 40 0.37
93 2 0.02
94 43 0.40
95 13 0.12
96 7 0.07
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.27
Consensus pattern (95 bp):
GCCGATGCATGCCCCAGACATGTCTTACACTAGCTCTCACATATCAATGCCGATACCATGTCCCA
GACATGGCCTTACACTGACACTCATACGTA
Found at i:109451812 original size:40 final size:40
Alignment explanation
Indices: 109451685--109451814 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
109451675 ATGCTGGAAA
* *
109451685 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
109451725 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
109451765 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
109451805 TTATATCCGG
1 TTATATCCGG
109451815 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:109454233 original size:20 final size:20
Alignment explanation
Indices: 109454208--109454248 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
109454198 ATCTTCCGTT
109454208 GAACCATTTAGAATACTACA
1 GAACCATTTAGAATACTACA
109454228 GAACCATTTAGAATACTACA
1 GAACCATTTAGAATACTACA
109454248 G
1 G
109454249 GATATTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.20, G:0.12, T:0.24
Consensus pattern (20 bp):
GAACCATTTAGAATACTACA
Found at i:109454432 original size:49 final size:49
Alignment explanation
Indices: 109454291--109454459 Score: 196
Period size: 49 Copynumber: 3.4 Consensus size: 49
109454281 GTTGACGCTA
* *
109454291 TGTCCCAGACAGGCCTTACACTGACTTTCATATATCGAGGCCGATACTG
1 TGTCCCAGACAGGCCTTACACTGACTTTCATATATCGAGGTCGATGCTG
* *
109454340 TGTCCCAGATAGGCCTTACACTGACTTTCATATATCGAGGTCGATGTTG
1 TGTCCCAGACAGGCCTTACACTGACTTTCATATATCGAGGTCGATGCTG
* * * * * **
109454389 TGTCCCAAACAGGTCTTACACTGGCTCTCATCTATCG-GTGTCGATGCCA
1 TGTCCCAGACAGGCCTTACACTGACTTTCATATATCGAG-GTCGATGCTG
* * *
109454438 TGTCCTAGATAGGTCTTACACT
1 TGTCCCAGACAGGCCTTACACT
109454460 AGCTTGTATA
Statistics
Matches: 103, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
48 1 0.01
49 102 0.99
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (49 bp):
TGTCCCAGACAGGCCTTACACTGACTTTCATATATCGAGGTCGATGCTG
Found at i:109454507 original size:48 final size:48
Alignment explanation
Indices: 109454430--109454790 Score: 253
Period size: 48 Copynumber: 7.7 Consensus size: 48
109454420 CTATCGGTGT
* * * *
109454430 CGATGCCATGTCCTAGATAGGTCTTACACTAGCTTGTATATCTTGAAAC
1 CGATG-CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTTGAAGC
* *
109454479 CGATGCATGTCCCAGACATGTCTTACACTAG-TTGGTATATCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTT-GTATATCTTGAAGC
* * * *
109454527 CGATACATGTCCTAGACATGTCTTACACTGGCTCT-TAATAT-ATG--GC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCT-TGT-ATATCTTGAAGC
* * * * * *** *
109454573 CGGTGCATGTCCTAGACAGGTCTTACACT-G---ATACA-CAACAAGT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTTGTATATCTTGAAGC
* * * * *
109454616 TGACGCCAAGTCCCAGACAAGTCTTACACTAGCTTGTATATC-TCAAGGC
1 CGATG-CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTTGAA-GC
* ** ** *
109454665 CGATGCATGTCCCAGACATGTCTTACACTAGC-TCT-CGTCTCAAAGT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTTGTATATCTTGAAGC
* * *
109454711 CGATGCATGTCCCAGACATGTCTTACACTAGCTAGTATATCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTTGTATATCTTGAAGC
* * *
109454759 CTATGCACGTCCAAGACATGTCTTACACTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC
109454791 ACACATATCA
Statistics
Matches: 246, Mismatches: 48, Indels: 37
0.74 0.15 0.11
Matches are distributed among these distances:
41 3 0.01
42 1 0.00
43 3 0.01
44 21 0.09
45 2 0.01
46 63 0.26
47 7 0.03
48 130 0.53
49 15 0.06
50 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (48 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTTGTATATCTTGAAGC
Found at i:109454718 original size:138 final size:138
Alignment explanation
Indices: 109454487--109454739 Score: 348
Period size: 138 Copynumber: 1.8 Consensus size: 138
109454477 ACCGATGCAT
* * *
109454487 GTCCCAGACATGTCTTACACTAGTTGGTATATCTCGAGGCCGATACATGTCCTAGACATGTCTTA
1 GTCCCAGACAAGTCTTACACTAGTTGGTATATCTCAAGGCCGATACATGTCCCAGACATGTCTTA
* ** * *
109454552 CACTGGCTCTTAATATATGGCCGGTGCATGTCCTAGACAGGTCTTACACTGATACACAACAAGTT
66 CACTAGCTCTTAATATAAAGCCGATGCATGTCCCAGACAGGTCTTACACTGATACACAACAAGTT
109454617 GACGCCAA
131 GACGCCAA
*
109454625 GTCCCAGACAAGTCTTACACTAGCTT-GTATATCTCAAGGCCGATGCATGTCCCAGACATGTCTT
1 GTCCCAGACAAGTCTTACACTAG-TTGGTATATCTCAAGGCCGATACATGTCCCAGACATGTCTT
** * * *
109454689 ACACTAGCTC-TCGTCTCAAAGTCGATGCATGTCCCAGACATGTCTTACACT
65 ACACTAGCTCTTAATAT-AAAGCCGATGCATGTCCCAGACAGGTCTTACACT
109454740 AGCTAGTATA
Statistics
Matches: 99, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
137 3 0.03
138 94 0.95
139 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (138 bp):
GTCCCAGACAAGTCTTACACTAGTTGGTATATCTCAAGGCCGATACATGTCCCAGACATGTCTTA
CACTAGCTCTTAATATAAAGCCGATGCATGTCCCAGACAGGTCTTACACTGATACACAACAAGTT
GACGCCAA
Found at i:109458681 original size:11 final size:11
Alignment explanation
Indices: 109458665--109458716 Score: 50
Period size: 11 Copynumber: 4.4 Consensus size: 11
109458655 ATAGTATTTT
109458665 TATTAATTTAA
1 TATTAATTTAA
**
109458676 TATTAAAGTAA
1 TATTAATTTAA
109458687 TTATCTTAATATTAA
1 -TA--TTAAT-TTAA
109458702 TATTAATTTAA
1 TATTAATTTAA
109458713 TATT
1 TATT
109458717 TATCTTATAG
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
11 17 0.52
12 7 0.21
14 6 0.18
15 3 0.09
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (11 bp):
TATTAATTTAA
Found at i:109461219 original size:17 final size:18
Alignment explanation
Indices: 109461197--109461242 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 18
109461187 TATCAAGATA
109461197 AATATTAGACTAA-A-TTT
1 AATATTAGAC-AACACTTT
109461214 AATATTAAGACAATCACTTT
1 AATATT-AGACAA-CACTTT
109461234 AATATTAGA
1 AATATTAGA
109461243 TTTATTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 8 0.32
18 4 0.16
19 4 0.16
20 9 0.36
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.37
Consensus pattern (18 bp):
AATATTAGACAACACTTT
Found at i:109463322 original size:44 final size:42
Alignment explanation
Indices: 109463223--109463355 Score: 115
Period size: 44 Copynumber: 3.1 Consensus size: 42
109463213 ACGTGGTCTT
* * * * * * *
109463223 ATCGATGCCACTATCCCAGACAGGGTCTTTACACGAA-CTCAT
1 ATCGATGCCAATGTCCCAGACATGGTC-GTAAACGAATCACAA
*
109463265 ATACGATGCCAATGTCCTAGACATGGTCGTAAACGTAAATCACAA
1 AT-CGATGCCAATGTCCCAGACATGGTCGTAAACG--AATCACAA
* * * *
109463310 ATCGATGTCAATGTCCCAGACGTGGTCTTAAACGAATCACAT
1 ATCGATGCCAATGTCCCAGACATGGTCGTAAACGAATCACAA
109463352 ATCG
1 ATCG
109463356 GAATCTTATG
Statistics
Matches: 74, Mismatches: 13, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
42 18 0.24
43 21 0.28
44 30 0.41
45 5 0.07
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (42 bp):
ATCGATGCCAATGTCCCAGACATGGTCGTAAACGAATCACAA
Found at i:109464477 original size:13 final size:13
Alignment explanation
Indices: 109464459--109464483 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
109464449 TCAAACGATA
109464459 AAATTTTCACACG
1 AAATTTTCACACG
109464472 AAATTTTCACAC
1 AAATTTTCACAC
109464484 ATATAAATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:109465199 original size:6 final size:6
Alignment explanation
Indices: 109465190--109465226 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
109465180 GAATCATAAT
109465190 CAAAAC CAAAAC CAAAAC CAAAAC CAACAA- CAAAAC C
1 CAAAAC CAAAAC CAAAAC CAAAAC CAA-AAC CAAAAC C
109465227 CAAAGAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 2 0.07
6 25 0.86
7 2 0.07
ACGTcount: A:0.65, C:0.35, G:0.00, T:0.00
Consensus pattern (6 bp):
CAAAAC
Found at i:109490679 original size:39 final size:39
Alignment explanation
Indices: 109490625--109490704 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
109490615 ACAAGGGGAA
*
109490625 ACAAAGATTTTTGAGATTTAGAGTCAAAGTTGATGGTTG
1 ACAAAGATTTTTGAGATATAGAGTCAAAGTTGATGGTTG
109490664 ACAAAGATTTTTGAGATATAGAGTCAAAGTTGATGGTTG
1 ACAAAGATTTTTGAGATATAGAGTCAAAGTTGATGGTTG
109490703 AC
1 AC
109490705 TTGCTTTGAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.35, C:0.06, G:0.25, T:0.34
Consensus pattern (39 bp):
ACAAAGATTTTTGAGATATAGAGTCAAAGTTGATGGTTG
Found at i:109492443 original size:21 final size:21
Alignment explanation
Indices: 109492419--109492463 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
109492409 AGAATTTATT
*
109492419 CACAGCATCAAATACGAAGAA
1 CACAACATCAAATACGAAGAA
109492440 CACAACATCAAATACGAAGAA
1 CACAACATCAAATACGAAGAA
109492461 CAC
1 CAC
109492464 TGATAGAGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.53, C:0.27, G:0.11, T:0.09
Consensus pattern (21 bp):
CACAACATCAAATACGAAGAA
Found at i:109494933 original size:14 final size:15
Alignment explanation
Indices: 109494909--109494938 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
109494899 GGATATCAAA
109494909 ACAAGAATTAAGAAC
1 ACAAGAATTAAGAAC
109494924 ACAA-AATTAAGAAC
1 ACAAGAATTAAGAAC
109494938 A
1 A
109494939 AGTTAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.63, C:0.13, G:0.10, T:0.13
Consensus pattern (15 bp):
ACAAGAATTAAGAAC
Found at i:109499226 original size:25 final size:25
Alignment explanation
Indices: 109499197--109499244 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
109499187 TTATAATATG
* * *
109499197 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
109499222 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
109499245 GTTTATACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:109499294 original size:9 final size:9
Alignment explanation
Indices: 109499282--109499338 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
109499272 TTTGATAAAC
109499282 ATGATATGT
1 ATGATATGT
*
109499291 ATGATATGCAC
1 ATGATATG--T
*
109499302 ATGACATGT
1 ATGATATGT
*
109499311 ATGATATGCAC
1 ATGATATG--T
109499322 ATGATATGT
1 ATGATATGT
109499331 ATGATATG
1 ATGATATG
109499339 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:109499305 original size:20 final size:20
Alignment explanation
Indices: 109499280--109499350 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
109499270 ATTTTGATAA
109499280 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
109499300 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
109499320 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
109499340 ACATGAGATGT
1 ACATGATATGT
109499351 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:109499327 original size:11 final size:11
Alignment explanation
Indices: 109499291--109499345 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
109499281 CATGATATGT
109499291 ATGATATGCAC
1 ATGATATGCAC
* *
109499302 ATGACATG--T
1 ATGATATGCAC
109499311 ATGATATGCAC
1 ATGATATGCAC
*
109499322 ATGATATG--T
1 ATGATATGCAC
109499331 ATGATATGCAC
1 ATGATATGCAC
109499342 ATGA
1 ATGA
109499346 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:109499427 original size:23 final size:23
Alignment explanation
Indices: 109499397--109499560 Score: 260
Period size: 23 Copynumber: 7.1 Consensus size: 23
109499387 AGGAAGTGCA
109499397 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
109499420 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
109499443 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
109499467 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
109499490 AAAGGGCTTATGCCCCAG-TATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
109499513 AAAGGGCTTATGCCCCAGTTA-A
1 AAAGGGCTTATGCCCCAGTTATT
*
109499535 AAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
109499558 AAA
1 AAA
109499561 AGAGGCTAGG
Statistics
Matches: 132, Mismatches: 5, Indels: 8
0.91 0.03 0.06
Matches are distributed among these distances:
22 24 0.18
23 84 0.64
24 24 0.18
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:109499508 original size:70 final size:69
Alignment explanation
Indices: 109499395--109499560 Score: 282
Period size: 70 Copynumber: 2.4 Consensus size: 69
109499385 GGAGGAAGTG
*
109499395 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCC
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAG-TATCAAAAGGGCTTATGCCCC
109499459 AGTTA
65 AGTTA
109499464 TCAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTATCAAAAGGGCTTATGCCCC
1 -CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTATCAAAAGGGCTTATGCCCC
109499529 AGTTA
65 AGTTA
*
109499534 -AAAAGGGCTTTTGCCCCAGTTATTAAA
1 CAAAAGGGCTTATGCCCCAGTTATTAAA
109499561 AGAGGCTAGG
Statistics
Matches: 93, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
68 26 0.28
69 3 0.03
70 64 0.69
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (69 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTATCAAAAGGGCTTATGCCCCA
GTTA
Found at i:109507364 original size:25 final size:25
Alignment explanation
Indices: 109507335--109507382 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
109507325 TTATAATATG
* *
109507335 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATGCCCCTAGGTA
109507360 AAAATGACCATTATGCCCCTAGG
1 AAAATGACCATTATGCCCCTAGG
109507383 GTTTATACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATGCCCCTAGGTA
Found at i:109507433 original size:9 final size:9
Alignment explanation
Indices: 109507421--109507477 Score: 60
Period size: 9 Copynumber: 5.9 Consensus size: 9
109507411 TTTGATAAAC
109507421 ATGATATGT
1 ATGATATGT
109507430 ATGATATGT
1 ATGATATGT
*
109507439 ACATGACATGT
1 --ATGATATGT
*
109507450 ATGATATGCAC
1 ATGATATG--T
109507461 ATGATATGT
1 ATGATATGT
109507470 ATGATATG
1 ATGATATG
109507478 CACATGAGAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
9 24 0.60
11 16 0.40
ACGTcount: A:0.35, C:0.07, G:0.21, T:0.37
Consensus pattern (9 bp):
ATGATATGT
Done.