Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 370 of 410
Found at i:113279164 original size:15 final size:15
Alignment explanation
Indices: 113279146--113279180 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
113279136 AAAGAAAAAG
*
113279146 AAAAACTACCCCAAA
1 AAAAACTAACCCAAA
*
113279161 AAAACCTAACCCAAA
1 AAAAACTAACCCAAA
113279176 AAAAA
1 AAAAA
113279181 GAAGAAAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.66, C:0.29, G:0.00, T:0.06
Consensus pattern (15 bp):
AAAAACTAACCCAAA
Found at i:113281481 original size:20 final size:17
Alignment explanation
Indices: 113281432--113281484 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 17
113281422 ACTTTTATGC
113281432 TTTTTCTATTTTTAATA
1 TTTTTCTATTTTTAATA
*
113281449 TTTTTGTAGTTTTTAATA
1 TTTTTCTA-TTTTTAATA
113281467 TATATTTCTCATTTTTAA
1 T-T-TTTCT-ATTTTTAA
113281485 AGATTTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
17 7 0.23
18 10 0.33
19 1 0.03
20 11 0.37
21 1 0.03
ACGTcount: A:0.25, C:0.06, G:0.04, T:0.66
Consensus pattern (17 bp):
TTTTTCTATTTTTAATA
Found at i:113281572 original size:12 final size:12
Alignment explanation
Indices: 113281555--113281580 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
113281545 ATTGGCGGGA
113281555 TATCTTCATTGT
1 TATCTTCATTGT
113281567 TATCTTCATTGT
1 TATCTTCATTGT
113281579 TA
1 TA
113281581 GTTTTTAACG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.19, C:0.15, G:0.08, T:0.58
Consensus pattern (12 bp):
TATCTTCATTGT
Found at i:113284586 original size:11 final size:11
Alignment explanation
Indices: 113284570--113284611 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
113284560 ATTTGCATTG
113284570 CTAAAAAAAAA
1 CTAAAAAAAAA
*
113284581 CTAAAATAAAA
1 CTAAAAAAAAA
*
113284592 TTGAAAAAAAAA
1 CT-AAAAAAAAA
113284604 -TAAAAAAA
1 CTAAAAAAA
113284612 GTTGAGCCTG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 7 0.26
11 12 0.44
12 8 0.30
ACGTcount: A:0.79, C:0.05, G:0.02, T:0.14
Consensus pattern (11 bp):
CTAAAAAAAAA
Found at i:113284616 original size:21 final size:23
Alignment explanation
Indices: 113284572--113284616 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
113284562 TTGCATTGCT
113284572 AAAAAAAAACTAAAATAAAATTG
1 AAAAAAAAACTAAAATAAAATTG
*
113284595 AAAAAAAAA-TAAAA-AAAGTTG
1 AAAAAAAAACTAAAATAAAATTG
113284616 A
1 A
113284617 GCCTGTATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.33
22 5 0.24
23 9 0.43
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.16
Consensus pattern (23 bp):
AAAAAAAAACTAAAATAAAATTG
Found at i:113285307 original size:22 final size:22
Alignment explanation
Indices: 113285265--113285316 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
113285255 TTAAAATAAT
*
113285265 TGTTTTATTTATTTGTCTTTAG
1 TGTTTTATTTATTTATCTTTAG
*
113285287 TGTTATTA-TTATTTATTTTTA-
1 TGTT-TTATTTATTTATCTTTAG
113285308 T-TTTTATTT
1 TGTTTTATTT
113285317 GCTTTTTCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 3 0.12
20 4 0.15
21 1 0.04
22 15 0.58
23 3 0.12
ACGTcount: A:0.17, C:0.02, G:0.08, T:0.73
Consensus pattern (22 bp):
TGTTTTATTTATTTATCTTTAG
Found at i:113285376 original size:24 final size:22
Alignment explanation
Indices: 113285337--113285380 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
113285327 GGCACGTTAT
113285337 TTTTTGTTTTATTTCTTCTTGG
1 TTTTTGTTTTATTTCTTCTTGG
*
113285359 TTTTTGTTCTTGTGTTCTTCTT
1 TTTTTGTT-TTAT-TTCTTCTT
113285381 TTTGCTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
23 3 0.16
24 8 0.42
ACGTcount: A:0.02, C:0.11, G:0.14, T:0.73
Consensus pattern (22 bp):
TTTTTGTTTTATTTCTTCTTGG
Found at i:113286541 original size:136 final size:136
Alignment explanation
Indices: 113286297--113286718 Score: 781
Period size: 136 Copynumber: 3.1 Consensus size: 136
113286287 TATTGGGCCT
** * *
113286297 AAGCCCATTCAGGTAACAGTGGTACTAGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
113286362 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
113286427 ATATGC
131 ATATGC
113286433 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
113286498 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
113286563 ATATGC
131 ATATGC
113286569 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
* *
113286634 AGACCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
113286699 CATATGC
130 CATATGC
113286706 AAGCCCATTTGGG
1 AAGCCCATTTGGG
113286719 GAGACTACTC
Statistics
Matches: 279, Mismatches: 6, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
136 257 0.92
137 22 0.08
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:113287003 original size:25 final size:26
Alignment explanation
Indices: 113286966--113287017 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
113286956 TCAAACATGC
113286966 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* * *
113286992 ATTTCGGT-AATTTATCTCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
113287017 A
1 A
113287018 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:113288533 original size:26 final size:26
Alignment explanation
Indices: 113288497--113288632 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
113288487 ACATGAATTC
113288497 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
113288523 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
113288549 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
113288575 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
113288601 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
113288627 TTATCA
1 TTATCA
113288633 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:113292673 original size:136 final size:136
Alignment explanation
Indices: 113292378--113292798 Score: 754
Period size: 136 Copynumber: 3.1 Consensus size: 136
113292368 TATTGGGCCT
** * *
113292378 AAGCCCATTCAGGTAACAGTGGTACTAGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
113292443 AGCCCCTTATTCAGATAATAGTATGG-CCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
113292507 ATATGC
131 ATATGC
*
113292513 AAGCCTATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
113292578 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
113292643 ATATGC
131 ATATGC
113292649 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
* *
113292714 AGACCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
113292779 CATATGC
130 CATATGC
113292786 AAGCCCATTTGGG
1 AAGCCCATTTGGG
113292799 GAGACTACTC
Statistics
Matches: 275, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
135 85 0.31
136 168 0.61
137 22 0.08
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:113294610 original size:26 final size:26
Alignment explanation
Indices: 113294574--113294709 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
113294564 CATGATATTC
113294574 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
113294600 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
113294626 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
113294652 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
113294678 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
113294704 TTATCA
1 TTATCA
113294710 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:113301454 original size:40 final size:40
Alignment explanation
Indices: 113301399--113301478 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
113301389 CGATATTGGT
113301399 GTGGCAATCTATATGGCAATCTACATGTATTCCATGCTAA
1 GTGGCAATCTATATGGCAATCTACATGTATTCCATGCTAA
*
113301439 GTGGCAATCTATATGGCAATCTACATGTATTTCATGCTAA
1 GTGGCAATCTATATGGCAATCTACATGTATTCCATGCTAA
113301479 CATAACACTG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (40 bp):
GTGGCAATCTATATGGCAATCTACATGTATTCCATGCTAA
Found at i:113302809 original size:6 final size:6
Alignment explanation
Indices: 113302798--113302823 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
113302788 AAATATTTTT
113302798 AAATAA AAATAA AAATAA AAATAA AA
1 AAATAA AAATAA AAATAA AAATAA AA
113302824 CTAATATCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:113303091 original size:18 final size:17
Alignment explanation
Indices: 113303048--113303095 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
113303038 AAATATATAT
113303048 ATAC-AATATATATTAAAA
1 ATACTAATA-ATA-TAAAA
*
113303066 ATAGTAATAATATAAAA
1 ATACTAATAATATAAAA
113303083 ATAACTAATAATA
1 AT-ACTAATAATA
113303096 ACGATATACA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 7 0.27
18 15 0.58
19 4 0.15
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.31
Consensus pattern (17 bp):
ATACTAATAATATAAAA
Found at i:113303279 original size:23 final size:22
Alignment explanation
Indices: 113303247--113303444 Score: 148
Period size: 23 Copynumber: 8.3 Consensus size: 22
113303237 ATATGTAAAT
*
113303247 ATATATTAAAAATAAATACATA
1 ATATATTAAAAATATATACATA
*
113303269 ATACTATTAAAAATATGTACATA
1 ATA-TATTAAAAATATATACATA
*
113303292 ATATAGTGTTAAAAATACATACATAA
1 ATATA---TTAAAAATATATACAT-A
113303318 TATAGTTATTAAAAAATATATACATA
1 -ATA--TATT-AAAAATATATACATA
** * *
113303344 AGGTAATATAAAATATACACATGA
1 ATATATTA-AAAATATATACAT-A
113303368 A-ATAGTATAAAAATATATA-ACTA
1 ATATA-T-TAAAAATATATACA-TA
113303391 ATAATATTAAAAATATATACATA
1 AT-ATATTAAAAATATATACATA
*
113303414 ATATATATAAAAACATATACAATA
1 ATATAT-TAAAAATATATAC-ATA
113303438 TATATAT
1 -ATATAT
113303445 ATTAGAAATG
Statistics
Matches: 143, Mismatches: 13, Indels: 37
0.74 0.07 0.19
Matches are distributed among these distances:
22 10 0.07
23 68 0.48
24 17 0.12
25 26 0.18
26 4 0.03
27 16 0.11
29 2 0.01
ACGTcount: A:0.57, C:0.06, G:0.04, T:0.33
Consensus pattern (22 bp):
ATATATTAAAAATATATACATA
Found at i:113303386 original size:47 final size:47
Alignment explanation
Indices: 113303244--113303453 Score: 155
Period size: 47 Copynumber: 4.3 Consensus size: 47
113303234 TAAATATGTA
* * *
113303244 AATATATATTAAAAATAAATACATAATACTAT-TAAAAATATGTACA-T
1 AATA-ATATTAAAAATATACACATAATA-TATATAAAAATATATACACT
* * *
113303291 AATATAGTGTTAAAAATACATACATAATATAGTTATTAAAAAATATATACA-T
1 AATA-A-TATTAAAAATATACACATAATATA--TA-T-AAAAATATATACACT
113303343 AAGGTAATA-T-AAAATATACACATGAA-ATAGTATAAAAATATATA-ACT
1 AA--TAATATTAAAAATATACACAT-AATATA-TATAAAAATATATACACT
* * *
113303390 AATAATATTAAAAATATATACATAATATATATAAAAACATATACAAT
1 AATAATATTAAAAATATACACATAATATATATAAAAATATATACACT
*
113303437 ATATATATATTAGAAAT
1 A-ATA-ATATTAAAAAT
113303454 GATAATAATA
Statistics
Matches: 136, Mismatches: 11, Indels: 30
0.77 0.06 0.17
Matches are distributed among these distances:
45 5 0.04
46 17 0.12
47 40 0.29
48 24 0.18
49 13 0.10
50 14 0.10
51 4 0.03
52 16 0.12
53 1 0.01
54 2 0.01
ACGTcount: A:0.57, C:0.06, G:0.04, T:0.33
Consensus pattern (47 bp):
AATAATATTAAAAATATACACATAATATATATAAAAATATATACACT
Found at i:113303491 original size:12 final size:12
Alignment explanation
Indices: 113303474--113303564 Score: 61
Period size: 12 Copynumber: 7.8 Consensus size: 12
113303464 TAAAAAATTA
113303474 ATAATAATAAAT
1 ATAATAATAAAT
113303486 ATAATAATAAAT
1 ATAATAATAAAT
* *
113303498 CTAGTATATAAAT
1 ATAATA-ATAAAT
113303511 AT--TAATGAAA-
1 ATAATAAT-AAAT
* *
113303521 ATCAATACT-AGT
1 AT-AATAATAAAT
113303533 ACTAATAAT--AT
1 A-TAATAATAAAT
113303544 -TAATAATAAAT
1 ATAATAATAAAT
113303555 ATAATAATAA
1 ATAATAATAA
113303565 TAATAAATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
9 7 0.11
10 4 0.06
11 9 0.15
12 31 0.50
13 11 0.18
ACGTcount: A:0.58, C:0.04, G:0.03, T:0.34
Consensus pattern (12 bp):
ATAATAATAAAT
Found at i:113303588 original size:22 final size:18
Alignment explanation
Indices: 113303537--113303575 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
113303527 ACTAGTACTA
*
113303537 ATAATATTAATAATAAAT
1 ATAATAATAATAATAAAT
113303555 ATAATAATAATAATAAAT
1 ATAATAATAATAATAAAT
113303573 ATA
1 ATA
113303576 TATGCATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
ATAATAATAATAATAAAT
Found at i:113305544 original size:14 final size:14
Alignment explanation
Indices: 113305521--113305550 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
113305511 GATTTTTTTG
*
113305521 AAACATAAATTGAA
1 AAACAGAAATTGAA
113305535 AAACAGAAATTGAA
1 AAACAGAAATTGAA
113305549 AA
1 AA
113305551 TACCTCGGCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.67, C:0.07, G:0.10, T:0.17
Consensus pattern (14 bp):
AAACAGAAATTGAA
Found at i:113305646 original size:72 final size:72
Alignment explanation
Indices: 113305529--113305675 Score: 267
Period size: 72 Copynumber: 2.0 Consensus size: 72
113305519 TGAAACATAA
* *
113305529 ATTGAAAAACAGAAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATA
1 ATTGAAAAAAAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATA
113305594 TGAGTTG
66 TGAGTTG
*
113305601 ATTGAAAAAAAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTTTCGCAATA
1 ATTGAAAAAAAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATA
113305666 TGAGTTG
66 TGAGTTG
113305673 ATT
1 ATT
113305676 TTTTCGAAAC
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (72 bp):
ATTGAAAAAAAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATA
TGAGTTG
Found at i:113305658 original size:161 final size:162
Alignment explanation
Indices: 113305405--113305932 Score: 743
Period size: 161 Copynumber: 3.2 Consensus size: 162
113305395 CGTCTGATCT
* * * * *
113305405 GAGGCTTAACTCGCCTCTCGCAATACGAGTTGACTTTTAAAAAATAGGAATTGAAAATACCTCAA
1 GAGGCTCAACTCACCTCTCGCAATACAAGTTGA-TTTTAAAAAA-AGAAATTGAAAATACCTCAG
*
113305470 CGTGTGACCTGAGGCTCAACCCACCTTTCGCAATATGAGTTGATTTTTTTGAAACATAAATTGAA
64 CGTGTGACCTGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTGAAACATAAATTGAA
* * * * *
113305535 AAACAGAAATTGAAAATACCTCGGCGTGTGATCT
129 AAACAGAAATTGAAAATACCTCGACATGTAACCC
** * *
113305569 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTGAAAAAAAGAAATTGAAAATACCTCGGCG
1 GAGGCTCAACTCACCTCTCGCAATACAAGTTGATTTTAAAAAAAGAAATTGAAAATACCTCAGCG
* *
113305633 TGTGACCTGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTCGAAACATGAATTGAAAA
66 TGTGACCTGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTGAAACATAAATTGAAAA
* *
113305698 ATAGAAATTGAAAATACCTCGACATATAACCC
131 ACAGAAATTGAAAATACCTCGACATGTAACCC
* *
113305730 GAGGCTCAACTCGCCTCTCGCAATACAAGTTGACTTTTTAAAAAAATAAGAATTGAAAATACCTC
1 GAGGCTCAACTCACCTCTCGCAATACAAGTTGA--TTTTAAAAAAA-GA-AATTGAAAATACCTC
* * * * *
113305795 AGTGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACACAAAAATTG
62 AGCGTGTGACCTGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTGAAACATAAATTG
113305860 AAAAACAGAAATTGAAAATACCTCGACATGTAACCC
127 AAAAACAGAAATTGAAAATACCTCGACATGTAACCC
* *
113305896 GAGGCTCAACTCACCTCTCGCAATATAAGTTAATTTT
1 GAGGCTCAACTCACCTCTCGCAATACAAGTTGATTTT
113305933 TATGAAAAAC
Statistics
Matches: 324, Mismatches: 35, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
161 136 0.42
162 8 0.02
164 43 0.13
165 1 0.00
166 136 0.42
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.27
Consensus pattern (162 bp):
GAGGCTCAACTCACCTCTCGCAATACAAGTTGATTTTAAAAAAAGAAATTGAAAATACCTCAGCG
TGTGACCTGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTGAAACATAAATTGAAAA
ACAGAAATTGAAAATACCTCGACATGTAACCC
Found at i:113305704 original size:89 final size:89
Alignment explanation
Indices: 113305601--113305768 Score: 237
Period size: 89 Copynumber: 1.9 Consensus size: 89
113305591 ATATGAGTTG
* * * * * *
113305601 ATTGAAAAAAAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTTTCGCAATA
1 ATTGAAAAAAAGAAATTGAAAATACCTCGACATATAACCCGAGGCTCAACTCACCTCTCGCAATA
** *
113305666 TGAGTTGATTTTTTCGAAACATGA
66 CAAGTTGACTTTTTCGAAACATGA
* *
113305690 ATTGAAAAATAGAAATTGAAAATACCTCGACATATAACCCGAGGCTCAACTCGCCTCTCGCAATA
1 ATTGAAAAAAAGAAATTGAAAATACCTCGACATATAACCCGAGGCTCAACTCACCTCTCGCAATA
113305755 CAAGTTGACTTTTT
66 CAAGTTGACTTTTT
113305769 AAAAAAATAA
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
89 68 1.00
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (89 bp):
ATTGAAAAAAAGAAATTGAAAATACCTCGACATATAACCCGAGGCTCAACTCACCTCTCGCAATA
CAAGTTGACTTTTTCGAAACATGA
Found at i:113305861 original size:166 final size:165
Alignment explanation
Indices: 113305405--113305926 Score: 757
Period size: 166 Copynumber: 3.2 Consensus size: 165
113305395 CGTCTGATCT
* * * *
113305405 GAGGCTTAACTCGCCTCTCGCAATACGAGTTGACTTTT-AAAAAATAGGAATTGAAAATACCTCA
1 GAGGCTCAACTCACCTCTCGCAATACAAGTTGACTTTTAAAAAAATAAGAATTGAAAATACCTCA
* *
113305469 ACGTGTGACCTGAGGCTCAACCCACCTTTCGCAATATGAGTTGATTTTTTTGAAACATAAATTGA
66 GCGTGTGACCTGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTGAAACATAAATTGA
* * * * *
113305534 AAAACAGAAATTGAAAATACCTCGGCGTGTGATCT
131 AAAACAGAAATTGAAAATACCTCGACATGTAACCC
** * * *
113305569 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTGAAAAAAA-GA-AATTGAAAATACCTCG
1 GAGGCTCAACTCACCTCTCGCAATACAAGTTGACTTTTAAAAAAATAAGAATTGAAAATACCTCA
* *
113305630 GCGTGTGACCTGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTCGAAACATGAATTGA
66 GCGTGTGACCTGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTGAAACATAAATTGA
* *
113305695 AAAATAGAAATTGAAAATACCTCGACATATAACCC
131 AAAACAGAAATTGAAAATACCTCGACATGTAACCC
*
113305730 GAGGCTCAACTCGCCTCTCGCAATACAAGTTGACTTTTTAAAAAAATAAGAATTGAAAATACCTC
1 GAGGCTCAACTCACCTCTCGCAATACAAGTTGAC-TTTTAAAAAAATAAGAATTGAAAATACCTC
* * * * *
113305795 AGTGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACACAAAAATTG
65 AGCGTGTGACCTGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTGAAACATAAATTG
113305860 AAAAACAGAAATTGAAAATACCTCGACATGTAACCC
130 AAAAACAGAAATTGAAAATACCTCGACATGTAACCC
*
113305896 GAGGCTCAACTCACCTCTCGCAATATAAGTT
1 GAGGCTCAACTCACCTCTCGCAATACAAGTT
113305927 AATTTTTATG
Statistics
Matches: 317, Mismatches: 35, Indels: 10
0.88 0.10 0.03
Matches are distributed among these distances:
161 134 0.42
162 2 0.01
163 6 0.02
164 39 0.12
165 1 0.00
166 135 0.43
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (165 bp):
GAGGCTCAACTCACCTCTCGCAATACAAGTTGACTTTTAAAAAAATAAGAATTGAAAATACCTCA
GCGTGTGACCTGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTGAAACATAAATTGA
AAAACAGAAATTGAAAATACCTCGACATGTAACCC
Found at i:113305878 original size:89 final size:89
Alignment explanation
Indices: 113305778--113305997 Score: 277
Period size: 89 Copynumber: 2.5 Consensus size: 89
113305768 TAAAAAAATA
* * *
113305778 AGAATTGAAAATACCTCAGTGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 AGAATTGAAAATACCTCAG-GTGTATCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTAATTT
* *
113305843 TTTTGACACAA-A-AA-TTGAAAAAC
65 TTATGA-AAAACAGAATTTGAAAAAC
** * *
113305866 AGAAATTGAAAATACCTCGACATGTAACCCGAGGCTCAACTCACCTCTCGCAATATAAGTTAATT
1 AG-AATTGAAAATACCTC-AGGTGTATCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTAATT
113305931 TTTATGAAAAACAGAATTTGAAAAAC
64 TTTATGAAAAACAGAATTTGAAAAAC
* *
113305957 AGAATTGAAAATACCTCA-GTGTCTCTTGAGGCTCAACTCAC
1 AGAATTGAAAATACCTCAGGTGTATCCTGAGGCTCAACTCAC
113305998 TTTTCGTGTT
Statistics
Matches: 113, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
88 23 0.20
89 61 0.54
90 18 0.16
91 11 0.10
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.27
Consensus pattern (89 bp):
AGAATTGAAAATACCTCAGGTGTATCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTAATTTT
TATGAAAAACAGAATTTGAAAAAC
Found at i:113305964 original size:13 final size:14
Alignment explanation
Indices: 113305935--113305967 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
113305925 TTAATTTTTA
113305935 TGAAAAACAGAATT
1 TGAAAAACAGAATT
113305949 TGAAAAACAGAA-T
1 TGAAAAACAGAATT
113305962 TGAAAA
1 TGAAAA
113305968 TACCTCAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.61, C:0.06, G:0.15, T:0.18
Consensus pattern (14 bp):
TGAAAAACAGAATT
Found at i:113306380 original size:17 final size:19
Alignment explanation
Indices: 113306338--113306381 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
113306328 ATGAAATTTT
*
113306338 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
113306357 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
113306375 AA-TATTA
1 AATTATTA
113306382 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:113307840 original size:8 final size:8
Alignment explanation
Indices: 113307827--113307858 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
113307817 CTAGATCGGC
113307827 AAAAGCCG
1 AAAAGCCG
113307835 AAAAGCCG
1 AAAAGCCG
113307843 AAAAGCCG
1 AAAAGCCG
113307851 AAAAGCCG
1 AAAAGCCG
113307859 GCATTTGTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.50, C:0.25, G:0.25, T:0.00
Consensus pattern (8 bp):
AAAAGCCG
Found at i:113308499 original size:20 final size:20
Alignment explanation
Indices: 113308469--113308513 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
113308459 CTGTTTTATT
113308469 ATGGG-CCAACTGTATTAAA
1 ATGGGCCCAACTGTATTAAA
* *
113308488 ATGGGCCCAACTGTGTTAAT
1 ATGGGCCCAACTGTATTAAA
113308508 ATGGGC
1 ATGGGC
113308514 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (20 bp):
ATGGGCCCAACTGTATTAAA
Found at i:113314281 original size:40 final size:39
Alignment explanation
Indices: 113314121--113314283 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
113314111 TGTGTATGAA
*
113314121 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
113314160 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
113314199 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
113314238 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
113314278 TGTGCG
1 TGTGCG
113314284 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:113314299 original size:40 final size:39
Alignment explanation
Indices: 113314121--113314314 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
113314111 TGTGTATGAA
* *
113314121 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
113314160 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
113314199 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
113314238 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
113314278 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
113314315 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.70
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:113317351 original size:12 final size:12
Alignment explanation
Indices: 113317334--113317368 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
113317324 TATATGCATA
113317334 TATATTTATTAT
1 TATATTTATTAT
113317346 TATATTTATTAT
1 TATATTTATTAT
113317358 TA-ATATTATTA
1 TATAT-TTATTA
113317369 GTACTAGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 2 0.09
12 20 0.91
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
TATATTTATTAT
Found at i:113317505 original size:23 final size:24
Alignment explanation
Indices: 113317470--113317670 Score: 157
Period size: 23 Copynumber: 8.2 Consensus size: 24
113317460 TCATTTCTAA
*
113317470 TATATATATTGTATATGTTTTTAT-T
1 TATAT-TA-TGTATATATTTTTATAT
113317495 TATATTATGTATATATTTTTA-A-
1 TATATTATGTATATATTTTTATAT
*
113317517 TATTATTA-GTTATATATTTTTTATAC
1 TA-TATTATG-TATATA-TTTTTATAT
113317543 TAT-TTCATGTATATATTTTTATAT
1 TATATT-ATGTATATATTTTTATAT
* *
113317567 TATCTTATGTATATATTTTTAATAAC
1 TATATTATGTATATATTTTT-AT-AT
* * *
113317593 TATATTATGTATGTATTTTTAACAC
1 TATATTATGTATATATTTTT-ATAT
* *
113317618 TATATTATGTACATACTTTTA-A-
1 TATATTATGTATATATTTTTATAT
*
113317640 TATTATTATGTATTTATTTTTA-AT
1 TA-TATTATGTATATATTTTTATAT
113317664 ATATATT
1 -TATATT
113317671 TACATATTTA
Statistics
Matches: 150, Mismatches: 12, Indels: 29
0.79 0.06 0.15
Matches are distributed among these distances:
22 5 0.03
23 42 0.28
24 40 0.27
25 39 0.26
26 24 0.16
ACGTcount: A:0.32, C:0.04, G:0.05, T:0.59
Consensus pattern (24 bp):
TATATTATGTATATATTTTTATAT
Found at i:113317557 original size:48 final size:48
Alignment explanation
Indices: 113317462--113317670 Score: 198
Period size: 48 Copynumber: 4.3 Consensus size: 48
113317452 TATTATTATC
* * *
113317462 ATTTCTAATATATA-TATTGTATATGTTTTT-AT-TTATATTATGTATAT
1 ATTTTTAATATATATTA-TGTATATATTTTTAATACTAT-TTATGTATAT
*
113317509 ATTTTTAATAT-TATTA-GTTATATATTTTTTATACTATTTCATGTATAT
1 ATTTTTAATATATATTATG-TATATATTTTTAATACTATTT-ATGTATAT
* *
113317557 ATTTTT-ATATTATCTTATGTATATATTTTTAATAACTATATTATGTATGT
1 ATTTTTAATA-TATATTATGTATATATTTTTAAT-ACTAT-TTATGTATAT
* * * * *
113317607 ATTTTTAACACTATATTATGTACATACTTTTAATATTA-TTATGTATTT
1 ATTTTTAATA-TATATTATGTATATATTTTTAATACTATTTATGTATAT
113317655 ATTTTTAATATATATT
1 ATTTTTAATATATATT
113317671 TACATATTTA
Statistics
Matches: 137, Mismatches: 14, Indels: 22
0.79 0.08 0.13
Matches are distributed among these distances:
45 1 0.01
46 12 0.09
47 25 0.18
48 36 0.26
49 17 0.12
50 22 0.16
51 24 0.18
ACGTcount: A:0.33, C:0.04, G:0.05, T:0.58
Consensus pattern (48 bp):
ATTTTTAATATATATTATGTATATATTTTTAATACTATTTATGTATAT
Found at i:113317562 original size:26 final size:25
Alignment explanation
Indices: 113317481--113317670 Score: 164
Period size: 25 Copynumber: 7.8 Consensus size: 25
113317471 ATATATATTG
*
113317481 TATATGTTTTTAT-TTATATTATGTA
1 TATAT-TTTTTATACTATATTATGTA
*
113317506 TATATTTTTAATA-T-TATTA-GTTA
1 TATATTTTTTATACTATATTATG-TA
113317529 TATATTTTTTATACTAT-TTCATGTA
1 TATATTTTTTATACTATATT-ATGTA
* *
113317554 TATA-TTTTTATATTATCTTATGTA
1 TATATTTTTTATACTATATTATGTA
*
113317578 TATATTTTTAATAACTATATTATGTA
1 TATATTTTTTAT-ACTATATTATGTA
* * *
113317604 TGTATTTTTAACACTATATTATGTA
1 TATATTTTTTATACTATATTATGTA
* * *
113317629 CATACTTTTAATA-T-TATTATGTA
1 TATATTTTTTATACTATATTATGTA
* *
113317652 TTTATTTTTAATA-TATATT
1 TATATTTTTTATACTATATT
113317671 TACATATTTA
Statistics
Matches: 140, Mismatches: 15, Indels: 21
0.80 0.09 0.12
Matches are distributed among these distances:
22 1 0.01
23 39 0.28
24 35 0.25
25 43 0.31
26 22 0.16
ACGTcount: A:0.32, C:0.04, G:0.05, T:0.59
Consensus pattern (25 bp):
TATATTTTTTATACTATATTATGTA
Found at i:113317678 original size:25 final size:23
Alignment explanation
Indices: 113317634--113317681 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 23
113317624 ATGTACATAC
**
113317634 TTTTAATATTATTATGTATTTAT
1 TTTTAATATTATTACATATTTAT
113317657 TTTTAATATATATTTACATATTTAT
1 TTTTAATAT-TA-TTACATATTTAT
113317682 ATAGTATTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 9 0.43
24 2 0.10
25 10 0.48
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (23 bp):
TTTTAATATTATTACATATTTAT
Found at i:113317856 original size:18 final size:18
Alignment explanation
Indices: 113317818--113317852 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
113317808 TGTATGTCGT
*
113317818 TATTATTAGTTATTTTTA
1 TATTATTAGCTATTTTTA
113317836 TATTATTA-CTATTTTTA
1 TATTATTAGCTATTTTTA
113317853 ATATATATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (18 bp):
TATTATTAGCTATTTTTA
Found at i:113318097 original size:6 final size:6
Alignment explanation
Indices: 113318086--113318111 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
113318076 TCGATATTAG
113318086 TTTTAT TTTTAT TTTTAT TTTTAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TT
113318112 AAAAATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:113322177 original size:85 final size:85
Alignment explanation
Indices: 113322027--113322332 Score: 332
Period size: 85 Copynumber: 3.6 Consensus size: 85
113322017 AGATAAAAAC
* **
113322027 ATTTGCAGTTACTGCCACTTGTTGTGAGTGCACAACATGGTT-GCAGATTAAACAAACTGTAATT
1 ATTTGCAGTTACTGCCACTTGTTGTGAGTGCACAACAT-ATTCGCAGATTAAACAAACTGCCATT
*
113322091 GGG-GTTGTGGACGATCCACAT
65 GGGTTTTGTGGA-GATCCACAT
** * * *
113322112 ATTTTTAGTTACTACTACTTGTTGT-ACGTGCACAACATATTCGCAGATTAAACAATCTGCCATT
1 ATTTGCAGTTACTGCCACTTGTTGTGA-GTGCACAACATATTCGCAGATTAAACAAACTGCCATT
113322176 GGGTTTTGTGGAGAGT-CACAT
65 GGGTTTTGTGGAGA-TCCACAT
* * * * * * * *
113322197 ATTTGCGGTTATTGCCACTTGTTATGAGTACACAACATGTTCGCAAATTAAACAAACTCCCACTG
1 ATTTGCAGTTACTGCCACTTGTTGTGAGTGCACAACATATTCGCAGATTAAACAAACTGCCATTG
*
113322262 GGTTTTGTGGATGAGCCACAT
66 GGTTTTGTGGA-GATCCACAT
* * *
113322283 ATTTGCAGTTATTGCCACTTGTTGTGAGTGTGTACAACATATTTGCAGAT
1 ATTTGCAGTTACTGCCACTTGTTGTGA--GTGCACAACATATTCGCAGAT
113322333 CATAAAAATA
Statistics
Matches: 182, Mismatches: 30, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
84 3 0.02
85 122 0.67
86 41 0.23
88 16 0.09
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (85 bp):
ATTTGCAGTTACTGCCACTTGTTGTGAGTGCACAACATATTCGCAGATTAAACAAACTGCCATTG
GGTTTTGTGGAGATCCACAT
Found at i:113339772 original size:13 final size:13
Alignment explanation
Indices: 113339754--113339779 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
113339744 CATTACACGG
113339754 CCGTGTCATGCGT
1 CCGTGTCATGCGT
113339767 CCGTGTCATGCGT
1 CCGTGTCATGCGT
113339780 GCATGGCCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.31, G:0.31, T:0.31
Consensus pattern (13 bp):
CCGTGTCATGCGT
Found at i:113342617 original size:19 final size:18
Alignment explanation
Indices: 113342589--113342627 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
113342579 TATTTTTTAA
*
113342589 AAATATATAAAAAATAGAT
1 AAATAAATAAAAAATA-AT
*
113342608 AAATAAATAAATAATAAT
1 AAATAAATAAAAAATAAT
113342626 AA
1 AA
113342628 TTGTAATGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.26
Consensus pattern (18 bp):
AAATAAATAAAAAATAAT
Found at i:113342840 original size:3 final size:3
Alignment explanation
Indices: 113342832--113342899 Score: 55
Period size: 3 Copynumber: 22.0 Consensus size: 3
113342822 ATGAATGGAC
* * * * * *
113342832 AAT AAT AAT GAT GAT AAT AAT ACT AAT AAT AAC AAC AAT AAT AAA ACAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
*
113342881 AGT AAT AAT AAT AAAT AAT
1 AAT AAT AAT AAT -AAT AAT
113342900 CTAATTTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
3 48 0.91
4 5 0.09
ACGTcount: A:0.62, C:0.06, G:0.04, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:113347008 original size:25 final size:25
Alignment explanation
Indices: 113346970--113347157 Score: 182
Period size: 25 Copynumber: 7.6 Consensus size: 25
113346960 TAGTAAACAC
* *
113346970 GAATTCTCTAGAAAGCCTTTATGGT
1 GAATTCTCTGGAAAGCCTTTGTGGT
* *
113346995 GAATTCTATGGAAAGCCTTTGTGAT
1 GAATTCTCTGGAAAGCCTTTGTGGT
* * * *
113347020 AAATTTTCTGAAAAGCCTTTGT-AT
1 GAATTCTCTGGAAAGCCTTTGTGGT
113347044 GAATTCTCTGGAAAGCCTTTGTGGT
1 GAATTCTCTGGAAAGCCTTTGTGGT
* * *
113347069 GAATCCTCTGGAAAGCCTTTATGGC
1 GAATTCTCTGGAAAGCCTTTGTGGT
* **
113347094 GAATTCTCTAGAAAGCCTTTGAT-AC
1 GAATTCTCTGGAAAGCCTTTG-TGGT
* * * *
113347119 AAATTCTTTGGAAAGCTTTTGTAGT
1 GAATTCTCTGGAAAGCCTTTGTGGT
*
113347144 GAATTCTTTGGAAA
1 GAATTCTCTGGAAA
113347158 ATCTATAGAG
Statistics
Matches: 134, Mismatches: 26, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
24 22 0.16
25 111 0.83
26 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (25 bp):
GAATTCTCTGGAAAGCCTTTGTGGT
Found at i:113347109 original size:74 final size:75
Alignment explanation
Indices: 113346968--113347157 Score: 222
Period size: 74 Copynumber: 2.5 Consensus size: 75
113346958 GATAGTAAAC
* * * * *
113346968 ACGAATTCTCTAGAAAGCCTTTATGGTGAATTCTATGGAAAGCCTTTGTGATAAATTTTCTGAAA
1 ACGAATTCTCTGGAAAGCCTTTGTGGTGAATTCTATGGAAAGCCTTTATGACAAATTCTCTGAAA
113347033 AGCCTTTG-T
66 AGCCTTTGAT
* * * * *
113347042 ATGAATTCTCTGGAAAGCCTTTGTGGTGAATCCTCTGGAAAGCCTTTATGGCGAATTCTCT-AGA
1 ACGAATTCTCTGGAAAGCCTTTGTGGTGAATTCTATGGAAAGCCTTTATGACAAATTCTCTGA-A
113347106 AAGCCTTTGAT
65 AAGCCTTTGAT
* * * * *
113347117 ACAAATTCTTTGGAAAGCTTTTGTAGTGAATTCTTTGGAAA
1 ACGAATTCTCTGGAAAGCCTTTGTGGTGAATTCTATGGAAA
113347158 ATCTATAGAG
Statistics
Matches: 97, Mismatches: 17, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
73 1 0.01
74 61 0.63
75 35 0.36
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (75 bp):
ACGAATTCTCTGGAAAGCCTTTGTGGTGAATTCTATGGAAAGCCTTTATGACAAATTCTCTGAAA
AGCCTTTGAT
Found at i:113347348 original size:15 final size:15
Alignment explanation
Indices: 113347328--113347358 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
113347318 GTGCTTAGCG
113347328 AACTTGAAATTTCTA
1 AACTTGAAATTTCTA
113347343 AACTTGAAATTTCTA
1 AACTTGAAATTTCTA
113347358 A
1 A
113347359 GGTTCCACAG
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:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTTGAAATTTCTA
Found at i:113351804 original size:19 final size:18
Alignment explanation
Indices: 113351782--113351819 Score: 67
Period size: 19 Copynumber: 2.1 Consensus size: 18
113351772 TAATATTTCC
113351782 TCATAAAATTATTAAAAAA
1 TCATAAAATTA-TAAAAAA
113351801 TCATAAAATTATAAAAAA
1 TCATAAAATTATAAAAAA
113351819 T
1 T
113351820 TTTAAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (18 bp):
TCATAAAATTATAAAAAA
Found at i:113351826 original size:17 final size:17
Alignment explanation
Indices: 113351785--113351843 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 17
113351775 TATTTCCTCA
*
113351785 TAAAATTATTAAAAAATCA
1 TAAAATTA-TAAAAAAT-T
113351804 TAAAATTATAAAAAATT
1 TAAAATTATAAAAAATT
* *
113351821 TTAAATTTTAAAAATATT
1 TAAAATTATAAAAA-ATT
113351839 TAAAA
1 TAAAA
113351844 AATAAATTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
17 12 0.34
18 15 0.43
19 8 0.23
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (17 bp):
TAAAATTATAAAAAATT
Found at i:113351982 original size:10 final size:9
Alignment explanation
Indices: 113351960--113352033 Score: 60
Period size: 9 Copynumber: 7.6 Consensus size: 9
113351950 AATTCTATAA
113351960 AAAAATCTA-
1 AAAAAT-TAT
113351969 AAAAACTTAT
1 AAAAA-TTAT
113351979 AAAAATTAT
1 AAAAATTAT
113351988 AAAAATATAT
1 AAAAAT-TAT
*
113351998 ATTAAAATTGGT
1 A--AAAATT-AT
*
113352010 ATAAATTTAT
1 A-AAAATTAT
113352020 AAAAATTAT
1 AAAAATTAT
113352029 AAAAA
1 AAAAA
113352034 AAATCATAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
9 29 0.53
10 12 0.22
11 7 0.13
12 7 0.13
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:113352034 original size:10 final size:10
Alignment explanation
Indices: 113351955--113352048 Score: 50
Period size: 10 Copynumber: 9.1 Consensus size: 10
113351945 CTTGAAATTC
*
113351955 TATAAAAAAA
1 TATAAAAAAT
*
113351965 TCTAAAAAACT
1 TATAAAAAA-T
113351976 TAT-AAAAAT
1 TATAAAAAAT
113351985 TAT-AAAAAT
1 TATAAAAAAT
*
113351994 ATATATTAAAAT
1 -TATA-AAAAAT
* * *
113352006 TGGTATAAATT
1 T-ATAAAAAAT
113352017 TAT-AAAAAT
1 TATAAAAAAT
113352026 TATAAAAAAAAT
1 TAT--AAAAAAT
*
113352038 CATAAAAAAT
1 TATAAAAAAT
113352048 T
1 T
113352049 GAACTAGACC
Statistics
Matches: 65, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
9 17 0.26
10 24 0.37
11 9 0.14
12 15 0.23
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (10 bp):
TATAAAAAAT
Found at i:113352828 original size:10 final size:10
Alignment explanation
Indices: 113352813--113352851 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
113352803 ATACCTCCTA
113352813 AAAAAACATT
1 AAAAAACATT
*
113352823 AAAAAAAATT
1 AAAAAACATT
**
113352833 AAAAAGGATT
1 AAAAAACATT
113352843 AAAAAACAT
1 AAAAAACAT
113352852 AACCTAATGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.72, C:0.05, G:0.05, T:0.18
Consensus pattern (10 bp):
AAAAAACATT
Found at i:113354041 original size:31 final size:31
Alignment explanation
Indices: 113354000--113354059 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
113353990 TACTCTACTA
113354000 CAACTCCAGGGAGATAAGGTTTGTGATTCTG
1 CAACTCCAGGGAGATAAGGTTTGTGATTCTG
*
113354031 CAACTTCAGGGAGATAAGGTTTGTGATTC
1 CAACTCCAGGGAGATAAGGTTTGTGATTC
113354060 ACTAATCTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (31 bp):
CAACTCCAGGGAGATAAGGTTTGTGATTCTG
Found at i:113355983 original size:19 final size:20
Alignment explanation
Indices: 113355959--113356010 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 20
113355949 TTTTTTTATA
113355959 TTTTATAATTTATTA-GA-TT
1 TTTTATAATTT-TTATGATTT
113355978 TTTTATAAGTTTTTATGATTT
1 TTTTATAA-TTTTTATGATTT
113355999 TTTTATAATTTT
1 TTTTATAATTTT
113356011 ATAAGTTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 11 0.37
20 9 0.30
21 10 0.33
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (20 bp):
TTTTATAATTTTTATGATTT
Found at i:113356011 original size:19 final size:19
Alignment explanation
Indices: 113355959--113356039 Score: 62
Period size: 19 Copynumber: 4.2 Consensus size: 19
113355949 TTTTTTTATA
113355959 TTTTATAA-TTTATTAGATT
1 TTTTATAATTTTA-TAGATT
113355978 TTTTATAAGTTTT-TATGATTT
1 TTTTATAA-TTTTATA-GA-TT
*
113355999 TTTTATAATTTTATA-AGT
1 TTTTATAATTTTATAGATT
* *
113356017 TTATATCAATTTTA-ATATT
1 TTTTAT-AATTTTATAGATT
113356036 TTTT
1 TTTT
113356040 TTTGAAATAA
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
18 7 0.14
19 23 0.45
20 6 0.12
21 15 0.29
ACGTcount: A:0.30, C:0.01, G:0.05, T:0.64
Consensus pattern (19 bp):
TTTTATAATTTTATAGATT
Found at i:113356039 original size:29 final size:28
Alignment explanation
Indices: 113355950--113356039 Score: 69
Period size: 29 Copynumber: 3.2 Consensus size: 28
113355940 TTTAAATGAT
* *
113355950 TTTTTTAT-A-TTT-TATAATTTATTAGA
1 TTTTTTATAAGTTTATATAATTT-TAATA
* * **
113355976 TTTTTTATAAGTTTTTATGATTTTTTTA
1 TTTTTTATAAGTTTATATAATTTTAATA
*
113356004 TAATTTTATAAGTTTATATCAATTTTAATA
1 T-TTTTTATAAGTTTATAT-AATTTTAATA
113356034 TTTTTT
1 TTTTTT
113356040 TTTGAAATAA
Statistics
Matches: 50, Mismatches: 9, Indels: 7
0.76 0.14 0.11
Matches are distributed among these distances:
26 8 0.16
27 1 0.02
28 7 0.14
29 26 0.52
30 8 0.16
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.66
Consensus pattern (28 bp):
TTTTTTATAAGTTTATATAATTTTAATA
Found at i:113356195 original size:10 final size:10
Alignment explanation
Indices: 113356180--113356219 Score: 71
Period size: 10 Copynumber: 4.0 Consensus size: 10
113356170 GAATACCTCC
113356180 TAAAAAACAT
1 TAAAAAACAT
113356190 TAAAAAACAT
1 TAAAAAACAT
*
113356200 TAAAAAGCAT
1 TAAAAAACAT
113356210 TAAAAAACAT
1 TAAAAAACAT
113356220 AACTTAATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.68, C:0.10, G:0.03, T:0.20
Consensus pattern (10 bp):
TAAAAAACAT
Found at i:113358163 original size:9 final size:9
Alignment explanation
Indices: 113358149--113358271 Score: 67
Period size: 8 Copynumber: 13.4 Consensus size: 9
113358139 CAGTTATCAA
113358149 TTTTAATAT
1 TTTTAATAT
113358158 TTTTAA-AT
1 TTTTAATAT
113358166 TTTTAA-AT
1 TTTTAATAT
113358174 TTTTAA-AT
1 TTTTAATAT
113358182 TTTT-ATAT
1 TTTTAATAT
*
113358190 TTTTTATAAT
1 TTTTAAT-AT
* *
113358200 TTTAAAGAAT
1 TTTTAA-TAT
*
113358210 TTTTATATGTT
1 TTTTA-AT-AT
*
113358221 TTTATAAAAT
1 TTT-TAATAT
*
113358231 TTTAAATAT
1 TTTTAATAT
**
113358240 TTCAAATAT
1 TTTTAATAT
*
113358249 GTTTTATTAAT
1 -TTTTAAT-AT
113358260 TTTT-ATAT
1 TTTTAATAT
113358268 TTTT
1 TTTT
113358272 TTATAATTTA
Statistics
Matches: 90, Mismatches: 15, Indels: 19
0.73 0.12 0.15
Matches are distributed among these distances:
7 1 0.01
8 34 0.38
9 21 0.23
10 24 0.27
11 8 0.09
12 2 0.02
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.63
Consensus pattern (9 bp):
TTTTAATAT
Found at i:113358167 original size:8 final size:8
Alignment explanation
Indices: 113358149--113358193 Score: 72
Period size: 8 Copynumber: 5.5 Consensus size: 8
113358139 CAGTTATCAA
113358149 TTTTAATAT
1 TTTTAA-AT
113358158 TTTTAAAT
1 TTTTAAAT
113358166 TTTTAAAT
1 TTTTAAAT
113358174 TTTTAAAT
1 TTTTAAAT
*
113358182 TTTTATAT
1 TTTTAAAT
113358190 TTTT
1 TTTT
113358194 TATAATTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
8 29 0.83
9 6 0.17
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (8 bp):
TTTTAAAT
Found at i:113358201 original size:10 final size:10
Alignment explanation
Indices: 113358152--113358415 Score: 79
Period size: 10 Copynumber: 28.0 Consensus size: 10
113358142 TTATCAATTT
113358152 TAATATTTTTA
1 TAAT-TTTTTA
113358163 -AA-TTTTTA
1 TAATTTTTTA
113358171 -AA-TTTTTA
1 TAATTTTTTA
113358179 -AA-TTTTTA
1 TAATTTTTTA
113358187 T-ATTTTTTA
1 TAATTTTTTA
**
113358196 TAATTTTAAA
1 TAATTTTTTA
*
113358206 GAA-TTTTTA
1 TAATTTTTTA
113358215 T-ATGTTTTTA
1 TAAT-TTTTTA
**
113358225 TAAAATTTTA
1 TAATTTTTTA
* *
113358235 -AATATTTCA
1 TAATTTTTTA
113358244 -AATATGTTTTA
1 TAAT-T-TTTTA
113358255 TTAA-TTTTTA
1 -TAATTTTTTA
*
113358265 TATTTTTTTA
1 TAATTTTTTA
*
113358275 TAATTTATTA
1 TAATTTTTTA
*
113358285 GAATTTTTTA
1 TAATTTTTTA
*
113358295 TAA-TATTTA
1 TAATTTTTTA
* *
113358304 TTAAGTTATTA
1 -TAATTTTTTA
*
113358315 TTA-TTTTT-
1 TAATTTTTTA
*
113358323 TAA-TGTTTA
1 TAATTTTTTA
*
113358332 TAATTTTATA
1 TAATTTTTTA
* *
113358342 TCCA-TTTTAA
1 T-AATTTTTTA
113358352 T-A-TTTTTA
1 TAATTTTTTA
*
113358360 -AATATTTTA
1 TAATTTTTTA
*
113358369 TAA-TTTCTA
1 TAATTTTTTA
* * *
113358378 TAAATTTCTC
1 TAATTTTTTA
*
113358388 TGATTTTTT-
1 TAATTTTTTA
*
113358397 T-ATTATTTA
1 TAATTTTTTA
113358406 TAATTTTTTA
1 TAATTTTTTA
113358416 AGATTTTTAT
Statistics
Matches: 191, Mismatches: 40, Indels: 45
0.69 0.14 0.16
Matches are distributed among these distances:
8 43 0.23
9 49 0.26
10 86 0.45
11 11 0.06
13 2 0.01
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (10 bp):
TAATTTTTTA
Found at i:113358272 original size:19 final size:19
Alignment explanation
Indices: 113358245--113358304 Score: 52
Period size: 19 Copynumber: 3.1 Consensus size: 19
113358235 AATATTTCAA
*
113358245 ATATGTTTTATTAATTTTT
1 ATATTTTTTATTAATTTTT
113358264 ATATTTTTT-TATAATTTATT
1 ATATTTTTTAT-TAATTT-TT
* *
113358284 AGAATTTTTTA-TAATATTT
1 A-TATTTTTTATTAATTTTT
113358303 AT
1 AT
113358305 TAAGTTATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
18 1 0.03
19 17 0.52
20 8 0.24
21 7 0.21
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (19 bp):
ATATTTTTTATTAATTTTT
Found at i:113358608 original size:3 final size:3
Alignment explanation
Indices: 113358600--113358653 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
113358590 AATGGGCTTA
113358600 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
113358648 ATT ATT
1 ATT ATT
113358654 TGCAATTTCA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:113361976 original size:93 final size:93
Alignment explanation
Indices: 113361861--113362032 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
113361851 GCCCATAAGT
* *
113361861 GAACTTGGACTCAAATCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTTGGACTCAAATCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
113361926 CGAGCTCGGATGCCTAGTTACATCCCTC
66 CGAGCTCGGATGCCTAGTTACATCCCTC
* * *
113361954 GAACTTGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTTGGACTCAAATCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
113362019 CGAGTTTGGATGCC
66 CGAGCTCGGATGCC
113362033 CAAATATCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (93 bp):
GAACTTGGACTCAAATCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCCCTC
Found at i:113362024 original size:46 final size:46
Alignment explanation
Indices: 113361853--113362022 Score: 184
Period size: 46 Copynumber: 3.7 Consensus size: 46
113361843 TGTAACCCGC
* * * * *
113361853 CCATAAGTGAACTTGGACTCAAATCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* *
113361899 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCAT
* * * *
113361949 CCCT---CGAACTTGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
113361992 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
113362023 TTTGGATGCC
Statistics
Matches: 101, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
43 9 0.09
44 1 0.01
46 56 0.55
47 27 0.27
49 1 0.01
50 7 0.07
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:113366005 original size:2 final size:2
Alignment explanation
Indices: 113365998--113366025 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
113365988 AGAACATGCT
113365998 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
113366026 AAGAAGACTA
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):
TA
Found at i:113369365 original size:28 final size:27
Alignment explanation
Indices: 113369317--113369422 Score: 126
Period size: 27 Copynumber: 3.9 Consensus size: 27
113369307 CTGCCAGCAT
* *
113369317 AGATAATGTGACAGAGTCACCAGATAC
1 AGATAATGTGGCAGAGCCACCAGATAC
113369344 AGATAATCGTGGCAGAGCCACCAGA-AC
1 AGATAAT-GTGGCAGAGCCACCAGATAC
113369371 AGATATATGTGGCAGAGCCACCAGAT-C
1 AGATA-ATGTGGCAGAGCCACCAGATAC
* *
113369398 AGATAATTTGTGGCATAACCACCAG
1 AGATAA--TGTGGCAGAGCCACCAG
113369423 GAAGCTTCCT
Statistics
Matches: 70, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
26 1 0.01
27 37 0.53
28 32 0.46
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
AGATAATGTGGCAGAGCCACCAGATAC
Found at i:113369411 original size:55 final size:54
Alignment explanation
Indices: 113369317--113369422 Score: 142
Period size: 55 Copynumber: 1.9 Consensus size: 54
113369307 CTGCCAGCAT
* *
113369317 AGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCACCAGAAC
1 AGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAACCACCAGAAC
* * *
113369371 AGATATATGTGGCAGAGCCACCAGAT-CAGATAATTTGTGGCATAACCACCAG
1 AGATA-ATGTGACAGAGCCACCAGATACAGATAA-TCGTGGCAGAACCACCAG
113369423 GAAGCTTCCT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
54 12 0.27
55 33 0.73
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.18
Consensus pattern (54 bp):
AGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAACCACCAGAAC
Found at i:113373006 original size:38 final size:38
Alignment explanation
Indices: 113372958--113373033 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
113372948 TTCTGTAGTA
113372958 TCCTGCCAATCCTAGAAAACTCCGTATTTCCGACACTG
1 TCCTGCCAATCCTAGAAAACTCCGTATTTCCGACACTG
*
113372996 TCCTGCCAATCCTAGAAAACTCCGTATTTCTGACACTG
1 TCCTGCCAATCCTAGAAAACTCCGTATTTCCGACACTG
113373034 ACCTAGGCGG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.26, C:0.33, G:0.13, T:0.28
Consensus pattern (38 bp):
TCCTGCCAATCCTAGAAAACTCCGTATTTCCGACACTG
Found at i:113376869 original size:27 final size:26
Alignment explanation
Indices: 113376834--113376945 Score: 118
Period size: 28 Copynumber: 4.2 Consensus size: 26
113376824 AGCATGGCTG
* *
113376834 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
113376860 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
113376888 -CAGAACAGATATATGTGGTAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
** *
113376914 CCAGATTAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATAA--TGTGGCAGAGCCA
113376942 CCAG
1 CCAG
113376946 GACGTTTCCT
Statistics
Matches: 73, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
26 24 0.33
27 24 0.33
28 25 0.34
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:113376917 original size:54 final size:53
Alignment explanation
Indices: 113376835--113376942 Score: 137
Period size: 54 Copynumber: 2.0 Consensus size: 53
113376825 GCATGGCTGC
*
113376835 CAGAACAGATAATGTGACAGAGTCACCAGATACAGATAA-TCGTGGCAGAGCCA
1 CAGAACAGATAATGTGACAGAGCCACCAGAT-CAGATAATTCGTGGCAGAGCCA
** * * *
113376888 CAGAACAGATATATGTGGTAGAGCCACCAGATTAGATAATTTGTGGCATAGCCA
1 CAGAACAGATA-ATGTGACAGAGCCACCAGATCAGATAATTCGTGGCAGAGCCA
113376942 C
1 C
113376943 CAGGACGTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
53 17 0.36
54 30 0.64
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.19
Consensus pattern (53 bp):
CAGAACAGATAATGTGACAGAGCCACCAGATCAGATAATTCGTGGCAGAGCCA
Found at i:113378951 original size:87 final size:88
Alignment explanation
Indices: 113378841--113379025 Score: 284
Period size: 88 Copynumber: 2.1 Consensus size: 88
113378831 AGGGAGATAT
* *
113378841 GATCTACAATCTTCAGCCTGTTA-CCTACTACTTAGGAGGTTAAGGCTTGCTTCTTCGATTTGCT
1 GATCTATAATCTTCAGCCCGTTACCCTACTACTTAGGAGGTTAAGGCTTGCTTCTTCGATTTGCT
* *
113378905 CCGCTGTAACTTCAAGG-AGACAA
66 CCACTGCAACTTC-AGGAAGACAA
* *
113378928 GATCTATAATCTTCAGCCCGTTACCCTACTACTTAGGGGGTTAAGGCTTGCTTCTTCTATTTGCT
1 GATCTATAATCTTCAGCCCGTTACCCTACTACTTAGGAGGTTAAGGCTTGCTTCTTCGATTTGCT
113378993 CCACTGCAACTTCAGGAAGACAA
66 CCACTGCAACTTCAGGAAGACAA
*
113379016 AATCTATAAT
1 GATCTATAAT
113379026 TTTTTAACCT
Statistics
Matches: 89, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
87 24 0.27
88 65 0.73
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.32
Consensus pattern (88 bp):
GATCTATAATCTTCAGCCCGTTACCCTACTACTTAGGAGGTTAAGGCTTGCTTCTTCGATTTGCT
CCACTGCAACTTCAGGAAGACAA
Found at i:113379323 original size:64 final size:64
Alignment explanation
Indices: 113379222--113379413 Score: 321
Period size: 64 Copynumber: 3.0 Consensus size: 64
113379212 TCATAGGCCT
* *
113379222 ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGTTCCTAACTAGATGTG
1 ATGCTTATGTCAAATAATTAGAATGCTATGATCGAAATGAATCAAATGTTCCTAACTAGATGTG
* *
113379286 ATGCTTATTTCAAATAATTAGAATGCTATGATCGAAATGTATCAAATGTTCCTAACTAGATGTG
1 ATGCTTATGTCAAATAATTAGAATGCTATGATCGAAATGAATCAAATGTTCCTAACTAGATGTG
* * *
113379350 ATGCTTATGTCAAATAATTAGAATGCTATGATCGAAATGAATCAAATGCTCTTAACTAAATGTG
1 ATGCTTATGTCAAATAATTAGAATGCTATGATCGAAATGAATCAAATGTTCCTAACTAGATGTG
113379414 TCATAAATGA
Statistics
Matches: 119, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 119 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (64 bp):
ATGCTTATGTCAAATAATTAGAATGCTATGATCGAAATGAATCAAATGTTCCTAACTAGATGTG
Found at i:113380480 original size:15 final size:14
Alignment explanation
Indices: 113380455--113380485 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
113380445 TCTCCTTTTC
113380455 TTTTCTTTTCTTCT
1 TTTTCTTTTCTTCT
113380469 TTTTCTTTTTCTTCT
1 TTTTC-TTTTCTTCT
113380484 TT
1 TT
113380486 CTTTCTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTCTTTTCTTCT
Found at i:113380489 original size:4 final size:4
Alignment explanation
Indices: 113380451--113380509 Score: 55
Period size: 4 Copynumber: 13.8 Consensus size: 4
113380441 GGCCTCTCCT
* *
113380451 TTTC TTTTC TTTTC TTCTT TTTC TTTT TCTTC TTTC TTTC TTTC TTTC
1 TTTC -TTTC -TTTC TT-TC TTTC TTTC T-TTC TTTC TTTC TTTC TTTC
*
113380499 TTTC TTCC TTT
1 TTTC TTTC TTT
113380510 TTTTTGAAGG
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
4 31 0.67
5 15 0.33
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:113383136 original size:19 final size:19
Alignment explanation
Indices: 113383090--113383137 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
113383080 GGGAAAATTT
*
113383090 AATGCAAATGATGCAGTGC
1 AATGCAAATGATGCAATGC
* *
113383109 AGTGTAAATGATGCAATGC
1 AATGCAAATGATGCAATGC
113383128 AATGCAAATG
1 AATGCAAATG
113383138 CATGGGATGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.40, C:0.12, G:0.25, T:0.23
Consensus pattern (19 bp):
AATGCAAATGATGCAATGC
Found at i:113384914 original size:131 final size:130
Alignment explanation
Indices: 113384757--113385009 Score: 319
Period size: 131 Copynumber: 1.9 Consensus size: 130
113384747 AGAACATAAG
* ** * *
113384757 TGAAATTCTAAAGGAATACTCGATTATTTGGAACAAAC-AGGAGTTCACAACCCAGCCCGATAAG
1 TGAAATTCCAAAGGAATACTCGATTATTTGGAACAAACGA-GAAATCACAACACAGCACGATAAG
* * * *
113384821 GCATGATTCCCCGAATTGCCAAACATCGAACATTACCTTCGTTTTGAAGAATTTTTAAAGGCATG
65 GCACGATT-CCCGAATTGCCAAACACCGAACATTACCTTCGTTTTAAAGAATTCTTAAAGGCATG
113384886 GA
129 GA
** * * *
113384888 TGAAATTCCAAAGGAATGTTCGATTATTTTGAACAGACGAGAAATCACAACACAGCACGATAGGG
1 TGAAATTCCAAAGGAATACTCGATTATTTGGAACAAACGAGAAATCACAACACAGCACGATAAGG
* ** *
113384953 CACGATTCTCGAATTGCCAAACACCGAGTATTGCCTTCGTTTTAAAGAATTCTTAAA
66 CACGATTCCCGAATTGCCAAACACCGAACATTACCTTCGTTTTAAAGAATTCTTAAA
113385010 TGAATAATTA
Statistics
Matches: 103, Mismatches: 18, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
130 43 0.42
131 59 0.57
132 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (130 bp):
TGAAATTCCAAAGGAATACTCGATTATTTGGAACAAACGAGAAATCACAACACAGCACGATAAGG
CACGATTCCCGAATTGCCAAACACCGAACATTACCTTCGTTTTAAAGAATTCTTAAAGGCATGGA
Found at i:113388090 original size:16 final size:14
Alignment explanation
Indices: 113388065--113388108 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
113388055 GCTAACCTAA
113388065 AAATAATTTAATTTT
1 AAATAATTT-ATTTT
113388080 AAATCAATTTATTTT
1 AAAT-AATTTATTTT
*
113388095 AAAT-ATATATTTT
1 AAATAATTTATTTT
113388108 A
1 A
113388109 TTCCTAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 9 0.33
15 13 0.48
16 5 0.19
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (14 bp):
AAATAATTTATTTT
Found at i:113397902 original size:19 final size:19
Alignment explanation
Indices: 113397878--113397915 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
113397868 TTTTAAATAC
113397878 GAAAAGAATAAAAA-GAAAA
1 GAAAAGAA-AAAAAGGAAAA
113397897 GAAAAGAAAAAAAGGAAAA
1 GAAAAGAAAAAAAGGAAAA
113397916 TATATATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (19 bp):
GAAAAGAAAAAAAGGAAAA
Found at i:113400734 original size:32 final size:30
Alignment explanation
Indices: 113400685--113400784 Score: 123
Period size: 31 Copynumber: 3.3 Consensus size: 30
113400675 GTTAGGTGGC
* *
113400685 TAGGTTTTT-TTATT-TTTTATTTTTTGGT
1 TAGGTTTTTCTTTTTCTTTTTTTTTTTGGT
*
113400713 TAGGTTTTTCTTTTTTCTTTTTTTTTTGGGT
1 TAGGTTTTTC-TTTTTCTTTTTTTTTTTGGT
*
113400744 TAGGTTTTACTTTTTCTTTTTTTTTTTTGGGT
1 TAGGTTTTTCTTTTTC-TTTTTTTTTTT-GGT
113400776 TAGGTTTTT
1 TAGGTTTTT
113400785 TTTGGGGGGG
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
28 9 0.15
30 10 0.16
31 31 0.51
32 11 0.18
ACGTcount: A:0.07, C:0.04, G:0.16, T:0.73
Consensus pattern (30 bp):
TAGGTTTTTCTTTTTCTTTTTTTTTTTGGT
Found at i:113400745 original size:31 final size:30
Alignment explanation
Indices: 113400685--113400784 Score: 132
Period size: 32 Copynumber: 3.3 Consensus size: 30
113400675 GTTAGGTGGC
* *
113400685 TAGGTTTTT-TTATTTTTTATTTTTT-GGT
1 TAGGTTTTTCTTTTTTTTTTTTTTTTGGGT
113400713 TAGGTTTTTCTTTTTTCTTTTTTTTTTGGGT
1 TAGGTTTTTCTTTTTT-TTTTTTTTTTGGGT
*
113400744 TAGGTTTTACTTTTTCTTTTTTTTTTTTGGGT
1 TAGGTTTTTC-TTTT-TTTTTTTTTTTTGGGT
113400776 TAGGTTTTT
1 TAGGTTTTT
113400785 TTTGGGGGGG
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
28 9 0.14
29 5 0.08
30 9 0.14
31 12 0.19
32 26 0.41
33 2 0.03
ACGTcount: A:0.07, C:0.04, G:0.16, T:0.73
Consensus pattern (30 bp):
TAGGTTTTTCTTTTTTTTTTTTTTTTGGGT
Found at i:113403063 original size:46 final size:44
Alignment explanation
Indices: 113403004--113403118 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
113402994 ACAGGACAGA
* *
113403004 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
113403050 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
113403094 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
113403119 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:113403099 original size:44 final size:45
Alignment explanation
Indices: 113403004--113403137 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
113402994 ACAGGACAGA
* *
113403004 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
113403050 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
113403094 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
113403138 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:113407189 original size:10 final size:10
Alignment explanation
Indices: 113407174--113407202 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
113407164 TTTGAGGAAA
113407174 GTTGTCAATT
1 GTTGTCAATT
113407184 GTTGTCAATT
1 GTTGTCAATT
113407194 GTTGTCAAT
1 GTTGTCAAT
113407203 GGGACATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.21, C:0.10, G:0.21, T:0.48
Consensus pattern (10 bp):
GTTGTCAATT
Found at i:113407718 original size:20 final size:21
Alignment explanation
Indices: 113407693--113407733 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
113407683 AAAATAATAA
113407693 AATAATAAAAATAT-TTTTAT
1 AATAATAAAAATATATTTTAT
**
113407713 AATAATATTAATATATTTTAT
1 AATAATAAAAATATATTTTAT
113407734 TATTAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATAATAAAAATATATTTTAT
Found at i:113407769 original size:25 final size:29
Alignment explanation
Indices: 113407716--113407773 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 29
113407706 TTTTTATAAT
113407716 AATATTAATATATTTTATTATTAAATTTA
1 AATATTAATATATTTTATTATTAAATTTA
113407745 AATA-TAAT-TATTTTA-T-TTAAATTTA
1 AATATTAATATATTTTATTATTAAATTTA
113407770 AATA
1 AATA
113407774 CCGAATTGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
25 13 0.45
26 1 0.03
27 7 0.24
28 4 0.14
29 4 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (29 bp):
AATATTAATATATTTTATTATTAAATTTA
Found at i:113409121 original size:18 final size:18
Alignment explanation
Indices: 113409098--113409133 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
113409088 GATATTCCCT
113409098 CAATCAAAATCTCAATTA
1 CAATCAAAATCTCAATTA
113409116 CAATCAAAATCTCAATTA
1 CAATCAAAATCTCAATTA
113409134 TTACTTGCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (18 bp):
CAATCAAAATCTCAATTA
Found at i:113410591 original size:19 final size:19
Alignment explanation
Indices: 113410567--113410604 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
113410557 AACTTAAATC
113410567 ACATCTTTTACTATTTATT
1 ACATCTTTTACTATTTATT
113410586 ACATCTTTTACTATTTATT
1 ACATCTTTTACTATTTATT
113410605 GATAGTGGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.00, T:0.58
Consensus pattern (19 bp):
ACATCTTTTACTATTTATT
Found at i:113420316 original size:33 final size:32
Alignment explanation
Indices: 113420279--113420356 Score: 84
Period size: 33 Copynumber: 2.4 Consensus size: 32
113420269 TAGCCATGCC
* *
113420279 ATGGTCTTACATTCGTAGTGCCATAACCCAGAT
1 ATGGTCTTACATTAG-AATGCCATAACCCAGAT
* * * *
113420312 ATGGTCTTATCAATAGAATGTCATAGCCCAGCT
1 ATGGTCTTA-CATTAGAATGCCATAACCCAGAT
113420345 ATGGTCTTACAT
1 ATGGTCTTACAT
113420357 AAAAGGACTG
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
32 2 0.05
33 31 0.84
34 4 0.11
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (32 bp):
ATGGTCTTACATTAGAATGCCATAACCCAGAT
Found at i:113423382 original size:2 final size:2
Alignment explanation
Indices: 113423375--113423421 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
113423365 AAATCAGAAT
* *
113423375 TA TA TA TA TA TA TA CA TA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
113423417 TA TA T
1 TA TA T
113423422 TCATTACAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:113429206 original size:5 final size:5
Alignment explanation
Indices: 113429163--113429224 Score: 54
Period size: 5 Copynumber: 11.6 Consensus size: 5
113429153 TTAAAGTAAT
* *
113429163 AAATA ATAATA AAATA ATATATA ATATA TAATA AAATA AAATAA AAATA
1 AAATA A-AATA AAATA A-A-ATA AAATA AAATA AAATA AAAT-A AAATA
113429212 AAGA-A AAATA AAA
1 AA-ATA AAATA AAA
113429225 ATTGGGTTAC
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
4 1 0.02
5 30 0.64
6 12 0.26
7 4 0.09
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (5 bp):
AAATA
Found at i:113430256 original size:5 final size:5
Alignment explanation
Indices: 113430213--113430274 Score: 54
Period size: 5 Copynumber: 11.6 Consensus size: 5
113430203 TTAAAGTAAT
* *
113430213 AAATA ATAATA AAATA ATATATA ATATA TAATA AAATA AAATAA AAATA
1 AAATA A-AATA AAATA A-A-ATA AAATA AAATA AAATA AAAT-A AAATA
113430262 AAGA-A AAATA AAA
1 AA-ATA AAATA AAA
113430275 ATTGGGTTAC
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
4 1 0.02
5 30 0.64
6 12 0.26
7 4 0.09
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (5 bp):
AAATA
Found at i:113434452 original size:68 final size:68
Alignment explanation
Indices: 113434281--113434463 Score: 222
Period size: 68 Copynumber: 2.7 Consensus size: 68
113434271 GAGTATTATC
* * * *
113434281 ATTTAATATCGCAGCCTTCAAACAGCTCGTTGATTTAACATCACAGCTGATATCACTAGGGCTCG
1 ATTTAAGATCGCAGCCTTCAAACAGCTCGCTGATTTAACATCACAGCTGATATCACTAAGACTCG
113434346 TTG
66 TTG
* * * * * * * *
113434349 ATTTAAGATCACAGCCTCCAAACAACTCTCAGATTTAATATCGCAGTTGATATCACTAAGACTCG
1 ATTTAAGATCGCAGCCTTCAAACAGCTCGCTGATTTAACATCACAGCTGATATCACTAAGACTCG
113434414 TTG
66 TTG
* * * *
113434417 ATTTAAGATCGTAGCCTTCAAATAGCTCGCTGATTTAAGACCACAGC
1 ATTTAAGATCGCAGCCTTCAAACAGCTCGCTGATTTAACATCACAGC
113434464 ATCTAAACAG
Statistics
Matches: 92, Mismatches: 23, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
68 92 1.00
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (68 bp):
ATTTAAGATCGCAGCCTTCAAACAGCTCGCTGATTTAACATCACAGCTGATATCACTAAGACTCG
TTG
Found at i:113434454 original size:100 final size:100
Alignment explanation
Indices: 113434341--113434553 Score: 237
Period size: 100 Copynumber: 2.1 Consensus size: 100
113434331 TATCACTAGG
* * * * * * *
113434341 GCTCGTTGATTTAAGATCACAGCCTCCAAACAACTCTCAGATTTAATATCGCAGTTGATATCACT
1 GCTCGCTGATTTAAGACCACAGCATCCAAACAACTCGCAGATTTAACATCGCAGCTAATATCACT
* *
113434406 AAGACTCGTTGATTTAAGATCGTAGCCTTCAAATA
66 AAGACTCGTTGATTTAAGATCGTAACCTCCAAATA
* ** * **
113434441 GCTCGCTGATTTAAGACCACAGCATCTAAACAGGTCGCTGATTTAACATCGCAGCTAATATCGTT
1 GCTCGCTGATTTAAGACCACAGCATCCAAACAACTCGCAGATTTAACATCGCAGCTAATATCACT
* * * *
113434506 AGGGCTCGTTGATTTAATATTGTAACCTCCAAATA
66 AAGACTCGTTGATTTAAGATCGTAACCTCCAAATA
* *
113434541 GCTCTCTAATTTA
1 GCTCGCTGATTTA
113434554 TTATTGCAAC
Statistics
Matches: 92, Mismatches: 21, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
100 92 1.00
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (100 bp):
GCTCGCTGATTTAAGACCACAGCATCCAAACAACTCGCAGATTTAACATCGCAGCTAATATCACT
AAGACTCGTTGATTTAAGATCGTAACCTCCAAATA
Found at i:113434591 original size:168 final size:168
Alignment explanation
Indices: 113434300--113434624 Score: 409
Period size: 168 Copynumber: 1.9 Consensus size: 168
113434290 CGCAGCCTTC
* * *
113434300 AAACAGCTCGTTGATTTAACATCACAGCTGATATCACTAGGGCTCGTTGATTTAAGATCACAGCC
1 AAACAGCTCGCTGATTTAACATCACAGCTAATATCACTAGGGCTCGTTGATTTAAGATCACAACC
** * * *
113434365 TCCAAACAACTCTCAGATTTAATATCGCAGTTGATATCACTAAGACTCGTTGATTTAAGATCGTA
66 TCCAAACAACTCTCAGATTTAATATCGCAACTGATATCACTAAGACTCGCTAATTTAAGATCGCA
113434430 GCCTTCAAATAGCTCGCTGATTTAAGACCACAGCATCT
131 GCCTTCAAATAGCTCGCTGATTTAAGACCACAGCATCT
* * ** * ***
113434468 AAACAGGTCGCTGATTTAACATCGCAGCTAATATCGTTAGGGCTCGTTGATTTAATATTGTAACC
1 AAACAGCTCGCTGATTTAACATCACAGCTAATATCACTAGGGCTCGTTGATTTAAGATCACAACC
* * * * * * * *
113434533 TCCAAATAGCTCTCTA-ATTTATTATTGCAACTGATATCATTAAGGCTCGCTAATTTAAGGTTGC
66 TCCAAACAACTCTC-AGATTTAATATCGCAACTGATATCACTAAGACTCGCTAATTTAAGATCGC
*
113434597 AGCCTTCAAATAGCTCGTTGATTTAAGA
130 AGCCTTCAAATAGCTCGCTGATTTAAGA
113434625 TCGCGACCTT
Statistics
Matches: 131, Mismatches: 25, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
168 130 0.99
169 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.32
Consensus pattern (168 bp):
AAACAGCTCGCTGATTTAACATCACAGCTAATATCACTAGGGCTCGTTGATTTAAGATCACAACC
TCCAAACAACTCTCAGATTTAATATCGCAACTGATATCACTAAGACTCGCTAATTTAAGATCGCA
GCCTTCAAATAGCTCGCTGATTTAAGACCACAGCATCT
Found at i:113442652 original size:26 final size:26
Alignment explanation
Indices: 113442616--113442725 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
113442606 TGATACAAAT
113442616 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
113442642 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
113442668 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
113442694 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
113442720 TGATAA
1 TGATAA
113442726 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:113450442 original size:28 final size:28
Alignment explanation
Indices: 113450411--113450475 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
113450401 TAGTAAAAAC
* *
113450411 ACAAATATATTAATATATCAAAATTTAT
1 ACAAATATATAAATATACCAAAATTTAT
113450439 ACAAATCAT-TAAATATACCAAAATTTAT
1 ACAAAT-ATATAAATATACCAAAATTTAT
**
113450467 GTAAATATA
1 ACAAATATA
113450476 AAGTATCGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
27 2 0.06
28 27 0.87
29 2 0.06
ACGTcount: A:0.54, C:0.09, G:0.02, T:0.35
Consensus pattern (28 bp):
ACAAATATATAAATATACCAAAATTTAT
Found at i:113456539 original size:7 final size:7
Alignment explanation
Indices: 113456529--113456553 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
113456519 AATAAAAGTA
113456529 TAAAGAC
1 TAAAGAC
113456536 TAAAGAC
1 TAAAGAC
113456543 TAAAGAC
1 TAAAGAC
113456550 TAAA
1 TAAA
113456554 TTCTAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.12, T:0.16
Consensus pattern (7 bp):
TAAAGAC
Found at i:113458046 original size:19 final size:20
Alignment explanation
Indices: 113458004--113458046 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
113457994 CCAAAAAAAA
***
113458004 AAAAAACTAGCCTTTACCTT
1 AAAAAACTAGCCTTTACAAG
113458024 AAAAAACTAGCCTTTA-AAG
1 AAAAAACTAGCCTTTACAAG
113458043 AAAA
1 AAAA
113458047 CCAAAAAGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.51, C:0.19, G:0.07, T:0.23
Consensus pattern (20 bp):
AAAAAACTAGCCTTTACAAG
Found at i:113459405 original size:27 final size:22
Alignment explanation
Indices: 113459352--113459397 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
113459342 TTCATTGTAG
113459352 TACTTAAATTATTATTTTGTTT
1 TACTTAAATTATTATTTTGTTT
113459374 TACTTAAATTATTATTTTGTTT
1 TACTTAAATTATTATTTTGTTT
113459396 TA
1 TA
113459398 ATTTACTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.63
Consensus pattern (22 bp):
TACTTAAATTATTATTTTGTTT
Found at i:113472934 original size:13 final size:13
Alignment explanation
Indices: 113472916--113472959 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
113472906 ACATTAACAT
*
113472916 TTAATTAAAATAA
1 TTAATTAAATTAA
*
113472929 TTAATTATATTAA
1 TTAATTAAATTAA
* *
113472942 TTATTTGAATTAA
1 TTAATTAAATTAA
113472955 TTAAT
1 TTAAT
113472960 AATTTTATAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (13 bp):
TTAATTAAATTAA
Found at i:113472959 original size:17 final size:18
Alignment explanation
Indices: 113472931--113472964 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
113472921 TAAAATAATT
*
113472931 AATTATATTAATTATTTG
1 AATTATATTAATAATTTG
113472949 AATTA-ATTAATAATTT
1 AATTATATTAATAATTT
113472965 TATAAAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
AATTATATTAATAATTTG
Found at i:113473206 original size:15 final size:16
Alignment explanation
Indices: 113473186--113473218 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
113473176 TATATTTATT
113473186 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
113473201 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
113473218 T
1 T
113473219 ATAACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:113473304 original size:22 final size:22
Alignment explanation
Indices: 113473265--113473323 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
113473255 GTTTTAAGAA
*
113473265 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
113473286 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
113473308 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
113473324 AATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:113473340 original size:26 final size:24
Alignment explanation
Indices: 113473294--113473343 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
113473284 ATTTGTTTTA
*
113473294 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
113473318 ATATTTAATTTATTATATTTTTAAAT
1 ATATTT-ATTT-TTATATTTTTAAAT
113473344 TTTTTTGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.26
25 4 0.17
26 13 0.57
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:113473574 original size:22 final size:22
Alignment explanation
Indices: 113473528--113473575 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
113473518 CTAATTATAC
*
113473528 TAAGTATGAAAAGAAATAAATT
1 TAAGTATGAAAAGAAATAAAAT
113473550 TAAGTAT-AATAA-AAATCAAAAT
1 TAAGTATGAA-AAGAAAT-AAAAT
113473572 TAAG
1 TAAG
113473576 GTAAAAAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.60, C:0.02, G:0.10, T:0.27
Consensus pattern (22 bp):
TAAGTATGAAAAGAAATAAAAT
Found at i:113478035 original size:43 final size:44
Alignment explanation
Indices: 113477987--113478150 Score: 165
Period size: 43 Copynumber: 3.8 Consensus size: 44
113477977 TACCGAGATG
* * *
113477987 TGATTACATGTAAGACCATGTCTGGGACATTGGTATTGTAT-TT
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATATA
** *
113478030 TGATTATGTGTAAGACCATGTTTGGGACATTGGCATCGT-TATA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATATA
*** * * *
113478073 TGATTTTGTGTAAGACCATGTCTAGGACATCGGCATCG-ATATG
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATATA
* * *
113478116 TGATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCAT
113478151 TGTACGAGCT
Statistics
Matches: 100, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
42 6 0.06
43 94 0.94
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.35
Consensus pattern (44 bp):
TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATATA
Found at i:113481064 original size:39 final size:39
Alignment explanation
Indices: 113481021--113481148 Score: 175
Period size: 39 Copynumber: 3.3 Consensus size: 39
113481011 CACAAATAAT
* * *
113481021 TAGCCTGCGGACCTTAAGTCTGGTTATAATTCCAGCACA
1 TAGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCATA
* *
113481060 TAGCCTGCGGACCTTAAGTCCGGGTATAATTCCAGTATA
1 TAGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCATA
* * *
113481099 TAGCCTGCGGGTCTTTAAGCCCGGATATAATTCCAGCATA
1 TAGCCTGC-GGACCTTAAGTCCGGATATAATTCCAGCATA
113481139 TAGCCTGCGG
1 TAGCCTGCGG
113481149 GTCTTTAAGC
Statistics
Matches: 79, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
39 45 0.57
40 34 0.43
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.27
Consensus pattern (39 bp):
TAGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCATA
Found at i:113481128 original size:40 final size:40
Alignment explanation
Indices: 113481045--113481165 Score: 181
Period size: 40 Copynumber: 3.0 Consensus size: 40
113481035 TAAGTCTGGT
* * * * *
113481045 TATAATTCCAGCACATAGCCTGC-GGACCTTAAGTCCGGG
1 TATAATTCCAGCATATAGCCTGCGGGTCTTTAAGCCCGGA
*
113481084 TATAATTCCAGTATATAGCCTGCGGGTCTTTAAGCCCGGA
1 TATAATTCCAGCATATAGCCTGCGGGTCTTTAAGCCCGGA
113481124 TATAATTCCAGCATATAGCCTGCGGGTCTTTAAGCCCGGA
1 TATAATTCCAGCATATAGCCTGCGGGTCTTTAAGCCCGGA
113481164 TA
1 TA
113481166 CACATCAAAT
Statistics
Matches: 74, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 21 0.28
40 53 0.72
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (40 bp):
TATAATTCCAGCATATAGCCTGCGGGTCTTTAAGCCCGGA
Found at i:113488964 original size:39 final size:39
Alignment explanation
Indices: 113488911--113489057 Score: 195
Period size: 39 Copynumber: 3.8 Consensus size: 39
113488901 GGACTTTTGC
* * * *
113488911 CCGGACATATTTCCAGCGCGTAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCTTAAGT
*
113488950 CCGGTTATAATTCCAGCACATAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCTTAAGT
* * * * *
113488989 CCGGGTATAATTCCAGCATATAGCCTGCGGTCTTTAAGC
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCTTAAGT
*
113489028 CCGGATATAATTCCAGCATATAGCCTGCGG
1 CCGGATATAATTCCAGCACATAGCCTGCGG
113489058 GTCTTTAAGC
Statistics
Matches: 97, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 97 1.00
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCTTAAGT
Found at i:113491755 original size:27 final size:27
Alignment explanation
Indices: 113491718--113491828 Score: 150
Period size: 27 Copynumber: 4.1 Consensus size: 27
113491708 CGAGAAAAAA
* **
113491718 AAACATTAGATAGTCCAACGAGATAAG
1 AAACATGAGATAGTCCGTCGAGATAAG
*
113491745 AAACATGAGATAGTCCGTCGAGATAGG
1 AAACATGAGATAGTCCGTCGAGATAAG
* *
113491772 AAATACGAGATAGTCCGTCGAGATAAG
1 AAACATGAGATAGTCCGTCGAGATAAG
* *
113491799 AAACATGAGATAGTCCGTCGGGATAGG
1 AAACATGAGATAGTCCGTCGAGATAAG
113491826 AAA
1 AAA
113491829 TACATGATAG
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 73 1.00
ACGTcount: A:0.41, C:0.14, G:0.26, T:0.18
Consensus pattern (27 bp):
AAACATGAGATAGTCCGTCGAGATAAG
Found at i:113491794 original size:54 final size:53
Alignment explanation
Indices: 113491725--113491840 Score: 187
Period size: 54 Copynumber: 2.2 Consensus size: 53
113491715 AAAAAACATT
113491725 AGATAGTCCAACGAGATAAGAAACATGAGATAGTCCGTCGAGATAGGAAATAC
1 AGATAGTCCAACGAGATAAGAAACATGAGATAGTCCGTCGAGATAGGAAATAC
** *
113491778 GAGATAGTCCGTCGAGATAAGAAACATGAGATAGTCCGTCGGGATAGGAAATAC
1 -AGATAGTCCAACGAGATAAGAAACATGAGATAGTCCGTCGAGATAGGAAATAC
113491832 ATGATAGTC
1 A-GATAGTC
113491841 TATCAGAATA
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
53 1 0.02
54 57 0.98
ACGTcount: A:0.40, C:0.15, G:0.27, T:0.19
Consensus pattern (53 bp):
AGATAGTCCAACGAGATAAGAAACATGAGATAGTCCGTCGAGATAGGAAATAC
Found at i:113491837 original size:27 final size:27
Alignment explanation
Indices: 113491753--113491858 Score: 112
Period size: 27 Copynumber: 3.9 Consensus size: 27
113491743 AGAAACATGA
113491753 GATAGTCCGTCGAGATAGGAAATACGA-
1 GATAGTCCGTCGAGATAGGAAATAC-AT
*
113491780 GATAGTCCGTCGAGATAAG-AA-ACAT
1 GATAGTCCGTCGAGATAGGAAATACAT
*
113491805 GAGATAGTCCGTCGGGATAGGAAATACAT
1 --GATAGTCCGTCGAGATAGGAAATACAT
**
113491834 GATAGTCTATC-AGAATAGGAAATAC
1 GATAGTCCGTCGAG-ATAGGAAATAC
113491859 GGGATAATAC
Statistics
Matches: 67, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
24 1 0.01
25 2 0.03
26 3 0.04
27 55 0.82
28 2 0.03
29 4 0.06
ACGTcount: A:0.39, C:0.14, G:0.26, T:0.21
Consensus pattern (27 bp):
GATAGTCCGTCGAGATAGGAAATACAT
Found at i:113491904 original size:27 final size:27
Alignment explanation
Indices: 113491874--113491975 Score: 80
Period size: 27 Copynumber: 3.8 Consensus size: 27
113491864 AATACGTTAG
*
113491874 GACAAAAAACATGGGATAGTCCATCAA
1 GACAAAAAACATGGGATAGTCCATCGA
** * * *
113491901 GACAAGCAATATGGGATAAAT-CGTCGA
1 GACAAAAAACATGGGAT-AGTCCATCGA
* * * *
113491928 GACAGAAAACACGAGATAGTCCACCGA
1 GACAAAAAACATGGGATAGTCCATCGA
* *
113491955 GATAGAAAACATGGGATAGTC
1 GACAAAAAACATGGGATAGTC
113491976 TGTCAGGATA
Statistics
Matches: 55, Mismatches: 18, Indels: 4
0.71 0.23 0.05
Matches are distributed among these distances:
26 2 0.04
27 51 0.93
28 2 0.04
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (27 bp):
GACAAAAAACATGGGATAGTCCATCGA
Found at i:113498515 original size:27 final size:27
Alignment explanation
Indices: 113498485--113498571 Score: 124
Period size: 27 Copynumber: 3.2 Consensus size: 27
113498475 ATGACGAAGT
*
113498485 CACCAGATATAGATATTGTGGCAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
113498512 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
113498539 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
113498566 CACCAG
1 CACCAG
113498572 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
26 7 0.13
27 46 0.84
28 2 0.04
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.18
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:113500198 original size:26 final size:26
Alignment explanation
Indices: 113500167--113500274 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
113500157 TGAAATGCCC
*
113500167 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
113500193 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
113500219 ATCATGGAATATTTACATAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
113500245 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
113500271 ATCA
1 ATCA
113500275 ATTTGTACCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:113514380 original size:29 final size:29
Alignment explanation
Indices: 113514347--113514406 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
113514337 CCCCTACCAA
113514347 GAAAGATTCCATTTAGGTTGTCATTGATT
1 GAAAGATTCCATTTAGGTTGTCATTGATT
** *
113514376 GAAAGATTTGATTTGGGTTGTCATTGATT
1 GAAAGATTCCATTTAGGTTGTCATTGATT
113514405 GA
1 GA
113514407 TTGACCAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.27, C:0.07, G:0.25, T:0.42
Consensus pattern (29 bp):
GAAAGATTCCATTTAGGTTGTCATTGATT
Found at i:113517413 original size:40 final size:40
Alignment explanation
Indices: 113517358--113517437 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
113517348 TATAGCTGGG
113517358 CTATGACATCGTAATAAAGTGAAAGACCATAGAGGGTCTA
1 CTATGACATCGTAATAAAGTGAAAGACCATAGAGGGTCTA
113517398 CTATGACATCGTAATAAAGTGAAAGACCATAGAGGGTCTA
1 CTATGACATCGTAATAAAGTGAAAGACCATAGAGGGTCTA
113517438 TGGCATTGTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.23
Consensus pattern (40 bp):
CTATGACATCGTAATAAAGTGAAAGACCATAGAGGGTCTA
Found at i:113520033 original size:35 final size:36
Alignment explanation
Indices: 113519992--113520104 Score: 131
Period size: 35 Copynumber: 3.1 Consensus size: 36
113519982 ATTACATTTT
*
113519992 ACAACTCAGTATGGGA-AATGCCATACCTACGTTTC
1 ACAACTCAGTATGGGATAATACCATACCTACGTTTC
** *
113520027 TTAACTCAGTATAGATTTGATAATACCATACCTACGTTTC
1 ACAACTCAGTAT-G---GGATAATACCATACCTACGTTTC
*
113520067 ACAACTCAGTAT-GGATGATACCATACCTACGTTTC
1 ACAACTCAGTATGGGATAATACCATACCTACGTTTC
113520102 ACA
1 ACA
113520105 CTTTGCCATG
Statistics
Matches: 65, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
35 34 0.52
36 1 0.02
39 2 0.03
40 28 0.43
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.30
Consensus pattern (36 bp):
ACAACTCAGTATGGGATAATACCATACCTACGTTTC
Found at i:113521363 original size:8 final size:9
Alignment explanation
Indices: 113521332--113521370 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
113521322 AAATTCTTTT
113521332 AATTCACCA
1 AATTCACCA
113521341 AATTCACCA
1 AATTCACCA
113521350 AATTCACC-
1 AATTCACCA
113521358 AATTCA-CA
1 AATTCACCA
113521366 AATTC
1 AATTC
113521371 TTATAAATTC
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
7 1 0.03
8 11 0.38
9 17 0.59
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.26
Consensus pattern (9 bp):
AATTCACCA
Found at i:113524645 original size:10 final size:10
Alignment explanation
Indices: 113524630--113524663 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
113524620 ACCATTTCAT
113524630 AAAAAATAAA
1 AAAAAATAAA
113524640 AAAAAATAAA
1 AAAAAATAAA
113524650 AAATAAA-AAA
1 AAA-AAATAAA
113524660 AAAA
1 AAAA
113524664 CAATCCCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 1 0.04
10 19 0.83
11 3 0.13
ACGTcount: A:0.91, C:0.00, G:0.00, T:0.09
Consensus pattern (10 bp):
AAAAAATAAA
Found at i:113524650 original size:17 final size:17
Alignment explanation
Indices: 113524628--113524662 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
113524618 CAACCATTTC
113524628 ATAAAAAATAAAAAAAA
1 ATAAAAAATAAAAAAAA
113524645 ATAAAAAATAAAAAAAA
1 ATAAAAAATAAAAAAAA
113524662 A
1 A
113524663 ACAATCCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (17 bp):
ATAAAAAATAAAAAAAA
Found at i:113525347 original size:6 final size:6
Alignment explanation
Indices: 113525336--113525370 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
113525326 GTCAATATCC
* *
113525336 ATCATA ATCATA ACCATA ATCATA ATCATT ATCAT
1 ATCATA ATCATA ATCATA ATCATA ATCATA ATCAT
113525371 CGTAATCATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (6 bp):
ATCATA
Done.