Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 13 of 318
Found at i:3351327 original size:13 final size:13
Alignment explanation
Indices: 3351309--3351359 Score: 54
Period size: 12 Copynumber: 4.1 Consensus size: 13
3351299 GTTCATCGAT
3351309 TTAAATAATTTAA
1 TTAAATAATTTAA
*
3351322 TTAAATAAATT-A
1 TTAAATAATTTAA
*
3351334 TTAAAAAATTTTAA
1 TTAAATAA-TTTAA
3351348 --AAATAATTTAA
1 TTAAATAATTTAA
3351359 T
1 T
3351360 CCAATTAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
11 5 0.16
12 13 0.42
13 12 0.39
14 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
TTAAATAATTTAA
Found at i:3359050 original size:2 final size:2
Alignment explanation
Indices: 3359043--3359077 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
3359033 ATAAACTCTT
3359043 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3359078 CAATTCTCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3368212 original size:5 final size:5
Alignment explanation
Indices: 3368202--3368226 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
3368192 TTTAAAAAAT
3368202 AATTA AATTA AATTA AATTA AATTA
1 AATTA AATTA AATTA AATTA AATTA
3368227 CTAAATATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AATTA
Found at i:3370454 original size:15 final size:15
Alignment explanation
Indices: 3370434--3370467 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
3370424 AAAATTAACA
3370434 AAATCCCATTGAAAT
1 AAATCCCATTGAAAT
3370449 AAATCCCATTGAAAT
1 AAATCCCATTGAAAT
3370464 AAAT
1 AAAT
3370468 AGAAAAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.50, C:0.18, G:0.06, T:0.26
Consensus pattern (15 bp):
AAATCCCATTGAAAT
Found at i:3389496 original size:29 final size:28
Alignment explanation
Indices: 3389438--3389516 Score: 88
Period size: 29 Copynumber: 2.8 Consensus size: 28
3389428 TACATACTTC
*
3389438 TTACATATTATATATTTTCAAAATTATTT
1 TTACATATTATTTATTTT-AAAATTATTT
* *
3389467 TTACATATTATTTATTTT-AATTTTTTT
1 TTACATATTATTTATTTTAAAATTATTT
*
3389494 TTTCATATGTGATTTATTTTAAA
1 TTACATAT-T-ATTTATTTTAAA
3389517 TCTTTGTATA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
27 14 0.33
28 1 0.02
29 26 0.60
30 2 0.05
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.61
Consensus pattern (28 bp):
TTACATATTATTTATTTTAAAATTATTT
Found at i:3389650 original size:2 final size:2
Alignment explanation
Indices: 3389645--3389693 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
3389635 ATTTTTTATG
*
3389645 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3389687 TA TA TA T
1 TA TA TA T
3389694 TTTTTTTAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:3391172 original size:33 final size:33
Alignment explanation
Indices: 3391130--3391199 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
3391120 GGCCAGGTCG
** *
3391130 TGTGATCCACATGGCCAAGGCCAATTTAGGCCA
1 TGTGATCCACACAGCCAAGGCCAATTCAGGCCA
*
3391163 TGTGATCCACACAGCCAAGGCCAATTCAGGCCG
1 TGTGATCCACACAGCCAAGGCCAATTCAGGCCA
3391196 TGTG
1 TGTG
3391200 GGCCCATACG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.26, C:0.29, G:0.26, T:0.20
Consensus pattern (33 bp):
TGTGATCCACACAGCCAAGGCCAATTCAGGCCA
Found at i:3392576 original size:22 final size:22
Alignment explanation
Indices: 3392551--3392600 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
3392541 TTTTTTTTTC
3392551 ATTATTTTGCTA-TCATTTTGTT
1 ATTATTTTGCTACT-ATTTTGTT
**
3392573 ATTACATTGCTACTATTTTGTT
1 ATTATTTTGCTACTATTTTGTT
*
3392595 GTTATT
1 ATTATT
3392601 GTTTGGATAT
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.20, C:0.10, G:0.10, T:0.60
Consensus pattern (22 bp):
ATTATTTTGCTACTATTTTGTT
Found at i:3398751 original size:1 final size:1
Alignment explanation
Indices: 3398745--3398769 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
3398735 TACTATACAC
3398745 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
3398770 CCAAACGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:3399368 original size:17 final size:17
Alignment explanation
Indices: 3399342--3399381 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
3399332 AAGGGAAATT
*
3399342 ACCACTGGACAGTTAGA
1 ACCACCGGACAGTTAGA
3399359 ACCACCGGACAGTTAGA
1 ACCACCGGACAGTTAGA
3399376 ACCACC
1 ACCACC
3399382 AAATTTTGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.35, C:0.33, G:0.20, T:0.12
Consensus pattern (17 bp):
ACCACCGGACAGTTAGA
Found at i:3408187 original size:13 final size:15
Alignment explanation
Indices: 3408169--3408201 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
3408159 AACTTATTAT
3408169 TTTATATA-T-AATA
1 TTTATATATTAAATA
3408182 TTTATATATTAAATA
1 TTTATATATTAAATA
3408197 TTTAT
1 TTTAT
3408202 TTTCTCTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.44
14 1 0.06
15 9 0.50
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTATATATTAAATA
Found at i:3409407 original size:28 final size:27
Alignment explanation
Indices: 3409370--3409423 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 27
3409360 AATTTTTAAA
3409370 TTTTAAAATTTCAATTTTTGATTCGTG
1 TTTTAAAATTTCAATTTTTGATTCGTG
* *
3409397 TTTTAATAATTTTAATTTTTTATTCGT
1 TTTTAA-AATTTCAATTTTTGATTCGT
3409424 TAAATATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 6 0.25
28 18 0.75
ACGTcount: A:0.26, C:0.06, G:0.07, T:0.61
Consensus pattern (27 bp):
TTTTAAAATTTCAATTTTTGATTCGTG
Found at i:3410039 original size:20 final size:18
Alignment explanation
Indices: 3410014--3410050 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 18
3410004 TTAAAATTCA
3410014 TTAATAAATTAATTATTTTT
1 TTAATAAA-T-ATTATTTTT
3410034 TTAATAAATATTATTTT
1 TTAATAAATATTATTTT
3410051 AACCAATACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 1 0.06
20 8 0.47
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTAATAAATATTATTTTT
Found at i:3410598 original size:26 final size:25
Alignment explanation
Indices: 3410549--3410600 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
3410539 GCCTATTCTG
* *
3410549 TAATTTAAAAAAAATAATTTTTTGA
1 TAATTTAAAAAAAACAATTATTTGA
*
3410574 TAATTTAATAAAAAACCATTATTTGA
1 TAATTTAA-AAAAAACAATTATTTGA
3410600 T
1 T
3410601 TATAAACAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (25 bp):
TAATTTAAAAAAAACAATTATTTGA
Found at i:3410821 original size:17 final size:19
Alignment explanation
Indices: 3410788--3410827 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
3410778 TTTTTAATTA
3410788 AAAAACATAATTTGAAAAT
1 AAAAACATAATTTGAAAAT
*
3410807 AAAAA-ATAA-TTGAAATT
1 AAAAACATAATTTGAAAAT
3410824 AAAA
1 AAAA
3410828 TTTTATAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 11 0.55
18 4 0.20
19 5 0.25
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.25
Consensus pattern (19 bp):
AAAAACATAATTTGAAAAT
Found at i:3416269 original size:31 final size:29
Alignment explanation
Indices: 3416234--3416300 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 29
3416224 AAAAAAATCA
*
3416234 AATATAATAATAAATACGAT-TTAAATAATTT
1 AATATAATAATAAAT--GATATTAAAT-AGTT
*
3416265 AATATAATGATAAATGATATTAAATAGTT
1 AATATAATAATAAATGATATTAAATAGTT
3416294 AATATAA
1 AATATAA
3416301 ATAAGGGTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 13 0.39
30 6 0.18
31 14 0.42
ACGTcount: A:0.55, C:0.01, G:0.06, T:0.37
Consensus pattern (29 bp):
AATATAATAATAAATGATATTAAATAGTT
Found at i:3417141 original size:25 final size:26
Alignment explanation
Indices: 3417106--3417154 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
3417096 TTGACATAAA
**
3417106 AAAATAAATTGTGTTAATTTTATTTT
1 AAAATAAATTGTACTAATTTTATTTT
3417132 AAAA-AAATTGTACTAATTTTATT
1 AAAATAAATTGTACTAATTTTATT
3417155 GATGTAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (26 bp):
AAAATAAATTGTACTAATTTTATTTT
Found at i:3422063 original size:31 final size:31
Alignment explanation
Indices: 3422028--3422086 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
3422018 ATCCTATGGT
*
3422028 TTAAATAAAAACTTTCAAATAGTTCAGTAAA
1 TTAAATAAAAACTTCCAAATAGTTCAGTAAA
* *
3422059 TTAAATGAAAACTTCCGAATAGTTCAGT
1 TTAAATAAAAACTTCCAAATAGTTCAGT
3422087 GTCCATTTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.32
Consensus pattern (31 bp):
TTAAATAAAAACTTCCAAATAGTTCAGTAAA
Found at i:3426224 original size:24 final size:24
Alignment explanation
Indices: 3426159--3426248 Score: 101
Period size: 24 Copynumber: 3.7 Consensus size: 24
3426149 AACAAATATT
3426159 TGGCTCTTATGAGCTTCCCGTTATA
1 TGGCTCTTATGAGCTTCCCGTT-TA
* ** *
3426184 TGGTTCTTGCGAACTTCCCGTTTA
1 TGGCTCTTATGAGCTTCCCGTTTA
*
3426208 TGGCTCTTATGAGCTTCCCG-ATA
1 TGGCTCTTATGAGCTTCCCGTTTA
*
3426231 CTAGCTCTTATGAGCTTC
1 -TGGCTCTTATGAGCTTC
3426249 ATGATTAATG
Statistics
Matches: 54, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
23 2 0.04
24 34 0.63
25 18 0.33
ACGTcount: A:0.16, C:0.26, G:0.20, T:0.39
Consensus pattern (24 bp):
TGGCTCTTATGAGCTTCCCGTTTA
Found at i:3432469 original size:93 final size:93
Alignment explanation
Indices: 3432357--3432528 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
3432347 GCCCATAAGT
* *
3432357 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
3432422 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
3432450 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
3432515 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
3432529 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:3432524 original size:46 final size:46
Alignment explanation
Indices: 3432349--3432524 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
3432339 TGTAACCCGC
* * *
3432349 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
3432395 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
3432445 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
3432488 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
3432525 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:3434951 original size:30 final size:30
Alignment explanation
Indices: 3434907--3434995 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
3434897 CAAAGATAAC
3434907 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
3434936 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
3434966 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
3434996 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:3434955 original size:15 final size:15
Alignment explanation
Indices: 3434907--3434986 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
3434897 CAAAGATAAC
*
3434907 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
3434921 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
3434936 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
3434951 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
3434966 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
3434981 AAGAAA
1 AAGAAA
3434987 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:3434995 original size:15 final size:15
Alignment explanation
Indices: 3434918--3434995 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
3434908 AGAAAACCGA
3434918 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
3434933 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
3434947 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
3434962 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
3434978 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
3434993 ATA
1 ATA
3434996 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:3441486 original size:25 final size:25
Alignment explanation
Indices: 3441439--3441669 Score: 142
Period size: 25 Copynumber: 9.3 Consensus size: 25
3441429 CAGCTAGAAA
* *
3441439 GAGCGTCTCGATATTTGGCTCTTAT
1 GAGCTTCTCGATATATGGCTCTTAT
* * * *
3441464 AAGCTTCTCGTTATATGGTTCTTGT
1 GAGCTTCTCGATATATGGCTCTTAT
* *
3441489 GAGCTTCTCGGT-TATGACTCTTAT
1 GAGCTTCTCGATATATGGCTCTTAT
3441513 GAGCTTCTCGATA-ATTGGCTCTT-T
1 GAGCTTCTCGATATA-TGGCTCTTAT
*
3441537 GGAGCTTC-CGATA-ACTGGCTTTTAT
1 -GAGCTTCTCGATATA-TGGCTCTTAT
*
3441562 GAGCTTC-CTGAT-TAATGGCTCTCCA-
1 GAGCTTCTC-GATAT-ATGGCTCT-TAT
* *
3441587 GAGCTTTTCGATAT-TGGCTCGCT-T
1 GAGCTTCTCGATATATGGCTC-TTAT
*
3441611 GAACTTCTCGAT-TATAGGCTCTTTCAT
1 GAGCTTCTCGATATAT-GGCTC-TT-AT
* * * *
3441638 GAGCTTCCCGTTATATGGCTCTAAA
1 GAGCTTCTCGATATATGGCTCTTAT
3441663 GAGCTTC
1 GAGCTTC
3441670 CCGTTTATGT
Statistics
Matches: 160, Mismatches: 29, Indels: 34
0.72 0.13 0.15
Matches are distributed among these distances:
23 1 0.01
24 60 0.38
25 76 0.47
26 5 0.03
27 15 0.09
28 3 0.02
ACGTcount: A:0.18, C:0.22, G:0.21, T:0.39
Consensus pattern (25 bp):
GAGCTTCTCGATATATGGCTCTTAT
Found at i:3441555 original size:24 final size:24
Alignment explanation
Indices: 3441513--3441583 Score: 74
Period size: 24 Copynumber: 2.8 Consensus size: 24
3441503 TGACTCTTAT
3441513 GAGCTTCTCGATAATTGGCTCTTT-G
1 GAGCTTC-CGATAA-TGGCTCTTTAG
*
3441538 GAGCTTCCGATAACTGGCT-TTTAT
1 GAGCTTCCGATAA-TGGCTCTTTAG
3441562 GAGCTTCCTGATTAATGGCTCT
1 GAGCTTCC-GA-TAATGGCTCT
3441584 CCAGAGCTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
23 3 0.08
24 19 0.47
25 14 0.35
26 4 0.10
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.38
Consensus pattern (24 bp):
GAGCTTCCGATAATGGCTCTTTAG
Found at i:3442470 original size:25 final size:25
Alignment explanation
Indices: 3442441--3442490 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
3442431 GTAATTAGTC
3442441 AAATTGGTAAGTAAAAATTCTTGAA
1 AAATTGGTAAGTAAAAATTCTTGAA
3442466 AAATTGGTAAGTAAAAATTCTTGAA
1 AAATTGGTAAGTAAAAATTCTTGAA
3442491 TGGTTGTGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.48, C:0.04, G:0.16, T:0.32
Consensus pattern (25 bp):
AAATTGGTAAGTAAAAATTCTTGAA
Found at i:3448488 original size:30 final size:31
Alignment explanation
Indices: 3448454--3448546 Score: 134
Period size: 32 Copynumber: 3.0 Consensus size: 31
3448444 AACCCCCCAA
**
3448454 AAAAACCTAACCCCCAAAAAAAG-AAAAAAG
1 AAAAACCTAACCCAAAAAAAAAGAAAAAAAG
3448484 AAAAACCTAACCCAAAAAAAAAAGAAAAAAAG
1 AAAAACCTAACCC-AAAAAAAAAGAAAAAAAG
*
3448516 AAAAACCTAACCCAAAAAAAAACTAAAAAAA
1 AAAAACCTAACCCAAAAAAAAA-GAAAAAAA
3448547 CCCTAGCCAC
Statistics
Matches: 57, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
30 13 0.23
31 17 0.30
32 27 0.47
ACGTcount: A:0.72, C:0.19, G:0.04, T:0.04
Consensus pattern (31 bp):
AAAAACCTAACCCAAAAAAAAAGAAAAAAAG
Found at i:3448488 original size:32 final size:30
Alignment explanation
Indices: 3448478--3448546 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 30
3448468 CAAAAAAAGA
*
3448478 AAAAAGAAAAACCTAACCCAAAAAAAAAAGA
1 AAAAAAAAAAACCTAACCC-AAAAAAAAAGA
**
3448509 AAAAAAGAAAAACCTAACCCAAAAAAAAACT
1 AAAAAA-AAAAACCTAACCCAAAAAAAAAGA
3448540 AAAAAAA
1 AAAAAAA
3448547 CCCTAGCCAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 1 0.03
31 20 0.59
32 13 0.38
ACGTcount: A:0.75, C:0.16, G:0.04, T:0.04
Consensus pattern (30 bp):
AAAAAAAAAAACCTAACCCAAAAAAAAAGA
Found at i:3449115 original size:39 final size:39
Alignment explanation
Indices: 3449043--3449153 Score: 99
Period size: 39 Copynumber: 2.9 Consensus size: 39
3449033 TTTATATATA
* * *
3449043 TTATGTATATATTTTTTAATGCCATTAGTTATATATTTC
1 TTATGTATATATTCTTAAATACCATTAGTTATATATTTC
*
3449082 TTATGTATATATTCTTAAATA-C--TA-TTATATATAT-
1 TTATGTATATATTCTTAAATACCATTAGTTATATATTTC
* * *
3449116 ATATATATATATT-TTAAATACCATATTGTGTATATATT
1 TTATGTATATATTCTTAAATACCAT-TAGT-TATATATT
3449154 ATTATTACAA
Statistics
Matches: 58, Mismatches: 8, Indels: 12
0.74 0.10 0.15
Matches are distributed among these distances:
33 7 0.12
34 12 0.21
35 9 0.16
36 2 0.03
37 1 0.02
38 2 0.03
39 25 0.43
ACGTcount: A:0.35, C:0.06, G:0.05, T:0.53
Consensus pattern (39 bp):
TTATGTATATATTCTTAAATACCATTAGTTATATATTTC
Found at i:3459798 original size:73 final size:71
Alignment explanation
Indices: 3459609--3459798 Score: 254
Period size: 72 Copynumber: 2.6 Consensus size: 71
3459599 AAGCCTTTTT
* * * *
3459609 ATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTCGAGCCTCAGGTCACGCTGAGGT
1 ATTTTTG-TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGT
*
3459674 ATTTTCA
65 AATTTCA
* **
3459681 ATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGT
1 ATTTTTGT-TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGT
3459746 AATTTCA
65 AATTTCA
* *
3459753 ATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 ATTTTTGTTT-TCAA-AATCAACTCATATTGCGAGAGGTGAGTTGA
3459799 ACTTTTAATT
Statistics
Matches: 102, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
71 3 0.03
72 72 0.71
73 27 0.26
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (71 bp):
ATTTTTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTA
ATTTCA
Found at i:3459981 original size:116 final size:116
Alignment explanation
Indices: 3459774--3459992 Score: 334
Period size: 116 Copynumber: 1.9 Consensus size: 116
3459764 TCAAGAATCA
*
3459774 ACTCATATTGCGAGAGGTGGGTTGAACTTTTAATTTTTACTTTTTCAAAATCAACTCATATTGCG
1 ACTCATATTGCGAGAGGTGAGTTGAACTTTTAATTTTTACTTTTTCAAAATCAACTCATATTGCG
* *
3459839 AGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTTTAAATTG
66 AGAAGTGAGTCGAGCCTCAGGGCACGCTGAGGTATTTTTAGTTTTAAATTG
* *
3459890 ACTCATATTGCGAGAGGTGAGTT-AAGTCTTTTTATTTTT-GTTTTTCAAAATCAACTCATATTG
1 ACTCATATTGCGAGAGGTGAGTTGAA--CTTTTAATTTTTACTTTTTCAAAATCAACTCATATTG
* * *
3459953 CTAGAGGTGAGTCGAGCCTCAGGTCACGCTGAGGTATTTT
64 CGAGAAGTGAGTCGAGCCTCAGGGCACGCTGAGGTATTTT
3459993 CAATTTTTGT
Statistics
Matches: 93, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
115 2 0.02
116 80 0.86
117 11 0.12
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (116 bp):
ACTCATATTGCGAGAGGTGAGTTGAACTTTTAATTTTTACTTTTTCAAAATCAACTCATATTGCG
AGAAGTGAGTCGAGCCTCAGGGCACGCTGAGGTATTTTTAGTTTTAAATTG
Found at i:3460042 original size:72 final size:72
Alignment explanation
Indices: 3459923--3460156 Score: 283
Period size: 72 Copynumber: 3.2 Consensus size: 72
3459913 AAGTCTTTTT
* * *
3459923 ATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTCGAGCCTCAGGTCACGCTGAGGT
1 ATTTCTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGT
3459988 ATTTTCA
66 ATTTTCA
* ** *
3459995 ATTTTTGTGTTTT-AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
1 ATTTCTGT-TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGG
*
3460059 TAATTTCA
65 TATTTTCA
* * * * * *
3460067 ATTTCTG-TTGTCAAAAAATCAACTCGTATTGTGAGCGGCGAGTTGAGCCTCAGGTCACACGCCG
1 ATTTCTGTTTTTC--AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT--CACGCTG
3460131 AGGTATTTTCA
62 AGGTATTTTCA
3460142 ATTTCTGTTTTTCAA
1 ATTTCTGTTTTTCAA
3460157 TTTCTGCCTT
Statistics
Matches: 137, Mismatches: 18, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
70 3 0.02
72 67 0.49
73 38 0.28
74 2 0.01
75 23 0.17
76 4 0.03
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (72 bp):
ATTTCTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGT
ATTTTCA
Found at i:3460070 original size:314 final size:313
Alignment explanation
Indices: 3459502--3460097 Score: 1122
Period size: 314 Copynumber: 1.9 Consensus size: 313
3459492 TTAATTGTTG
*
3459502 TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCACGCTGATGTATTTTTAGT
1 TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCACGCTGAGGTATTTTTAGT
3459567 TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTTATTTTTGTTTTTCAAAATCAACT
66 TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTTATTTTTGTTTTTCAAAATCAACT
3459632 CATATTGCTAGAGGTGAGTCGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTTTGTGTTTTAAT
131 CATATTGCTAGAGGTGAGTCGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTTTGTGTTTTAAT
3459697 TTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGTT
196 TTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTG-T
*
3459762 TGTC-AAGAATCAACTCATATTGCGAGAGGTGGGTTGAACTTTTAATTTTTACT
260 TGTCAAAAAATCAACTCATATTGCGAGAGGTGGGTTGAACTTTTAATTTTTACT
3459815 TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAG
1 TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGGCACGCTGAGGTATTTTTAG
*
3459880 TTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGTCTTTTTATTTTTGTTTTTCAAAATCAAC
65 TTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTTATTTTTGTTTTTCAAAATCAAC
3459945 TCATATTGCTAGAGGTGAGTCGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTTTGTGTTTTAA
130 TCATATTGCTAGAGGTGAGTCGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTTTGTGTTTTAA
*
3460010 TTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
195 TTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGT
*
3460075 TGTCAAAAAATCAACTCGTATTG
260 TGTCAAAAAATCAACTCATATTG
3460098 TGAGCGGCGA
Statistics
Matches: 276, Mismatches: 5, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
313 47 0.17
314 229 0.83
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (313 bp):
TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGCACGCTGAGGTATTTTTAGT
TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTTATTTTTGTTTTTCAAAATCAACT
CATATTGCTAGAGGTGAGTCGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTTTGTGTTTTAAT
TTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGTT
GTCAAAAAATCAACTCATATTGCGAGAGGTGGGTTGAACTTTTAATTTTTACT
Found at i:3460155 original size:14 final size:14
Alignment explanation
Indices: 3460136--3460162 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3460126 CGCCGAGGTA
3460136 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
3460150 TTTTCAATTTCTG
1 TTTTCAATTTCTG
3460163 CCTTTCAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.07, T:0.63
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:3460168 original size:14 final size:14
Alignment explanation
Indices: 3460137--3460170 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
3460127 GCCGAGGTAT
**
3460137 TTTCAATTTCTGTT
1 TTTCAATTTCTGCC
3460151 TTTCAATTTCTGCC
1 TTTCAATTTCTGCC
3460165 TTTCAA
1 TTTCAA
3460171 AAAAAAAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.21, G:0.06, T:0.56
Consensus pattern (14 bp):
TTTCAATTTCTGCC
Found at i:3460219 original size:94 final size:94
Alignment explanation
Indices: 3460079--3460250 Score: 247
Period size: 94 Copynumber: 1.8 Consensus size: 94
3460069 TTCTGTTGTC
* * * *
3460079 AAAAAATCAACTCGTATTGTGAGCGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGCTATTTTCAAT
*
3460144 TTCTGTTTTTCAATTTCTGCCTTTCAAAA
66 TTCTGTCTTTCAATTTCTGCCTTTCAAAA
* * * *
3460173 AAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACACGCTGAGCTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-TCACACGCCGAGCTATTTTCAA
3460237 TTTCTGTCTTTCAA
65 TTTCTGTCTTTCAA
3460251 AAAAATCAAC
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
93 2 0.03
94 66 0.97
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.33
Consensus pattern (94 bp):
AAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGCTATTTTCAAT
TTCTGTCTTTCAATTTCTGCCTTTCAAAA
Found at i:3460442 original size:167 final size:161
Alignment explanation
Indices: 3460230--3460807 Score: 502
Period size: 144 Copynumber: 3.7 Consensus size: 161
3460220 CGCTGAGCTA
*
3460230 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* **
3460295 CGCTGAGGTAATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGC
66 CGCTGAGGTAATTTCAATTTCTGTT-T-AAAAAAATCAACTCATATTGCGAGAAACGAGTTGAGC
* *
3460360 CTCAGGTCACACGCCGAGGTATTTTCAATTTCCGT
129 CTCAAG--ACACGCCGAGGTAATTTCAATTTCCGT
* *
3460395 TTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTTCGAGAGGTGAGTTGAGCCTCGGGA
1 TTTTCAATTTCTGCCTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
* ** * *
3460460 CACGCTGAGGTAATTTCGATTTCTGTTTTTAAAATTCAACTCATATTGCGAGAAATGAGTTGAGC
64 CACGCTGAGGTAATTTCAATTTCTGTTTAAAAAAATCAACTCATATTGCGAGAAACGAGTTGAGC
*
3460525 CTCAAGACACGCTGAGG-----T-AA-------
129 CTCAAGACACGCCGAGGTAATTTCAATTTCCGT
* * * ** * *
3460545 -TTTCAATTTCTG-TTTTC--AAAATTCAACTCATATTGTGAGAAATGAGTTGAACCTCAAGACA
1 TTTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
** ** * * *
3460606 CATTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCAAGAAATGAGTTGAGCCT
66 CGCTGAGGTAATTTCAATTTCTGTTTAAAAAAATCAACTCATATTGCGAGAAACGAGTTGAGCCT
* **
3460671 TAAGACACGTTGAGG-----T--A-------
131 CAAGACACGCCGAGGTAATTTCAATTTCCGT
* *
3460688 TTTTCAATTTCTG-TTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTC
1 TTTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---
* *
3460751 ACATGCTGAGGTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGA
63 ACACGCTGAGGTAATTTCAATTTCTG--TTT-AAAAAAATCAACTCATATTGCGAGA
3460808 GGTGAGTTGA
Statistics
Matches: 358, Mismatches: 44, Indels: 36
0.82 0.10 0.08
Matches are distributed among these distances:
143 1 0.00
144 127 0.35
145 1 0.00
146 32 0.09
148 26 0.07
149 12 0.03
150 3 0.01
151 21 0.06
157 2 0.01
158 1 0.00
163 10 0.03
165 53 0.15
166 1 0.00
167 68 0.19
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (161 bp):
TTTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
CGCTGAGGTAATTTCAATTTCTGTTTAAAAAAATCAACTCATATTGCGAGAAACGAGTTGAGCCT
CAAGACACGCCGAGGTAATTTCAATTTCCGT
Found at i:3460442 original size:244 final size:236
Alignment explanation
Indices: 3459936--3460831 Score: 1010
Period size: 244 Copynumber: 3.8 Consensus size: 236
3459926 TTTGTTTTTC
* * * * *
3459936 AAAATCAACTCATATTGCTAGAGGTGAGTCGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGACACGCTGAGGTATTTTCAATTTCT
* **
3460001 GTGTTT-TAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
65 GT-TTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
* * *
3460065 CAATTTCTGTTGTCAAAAAATCAACTCGTATTGTGAGCGGCGAGTTGAGCCTCAGGTCACACGCC
129 CAATTTCTGTTGTCAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCC
3460130 GAGGTATTTTCAATTTCTGTTTTTCAATTTCTGCCTTTCAAAAAA
194 GAGGTATTTTCAATTTC-GTTTTTCAATTTCTGCCTTTC-AAAAA
* *
3460175 AAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGCTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGG---ACACGCTGAGGTATTTTCAATTT
3460240 CTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
63 CTGT-TTT--AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
*
3460305 ATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCAC
125 ATTTCAATTTCTGTTGTC-AAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCAC
3460370 ACGCCGAGGTATTTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAAAA
189 ACGCCGAGGTATTTTCAATTT-CGTTTTTCAATTTCTGCCTTTCAAAAA
* * * *
3460419 AAAATCAACTCATATTTCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCGATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGACACGCTGAGGTATTTTCAATTTCT
* * ** *
3460484 GTTTTTAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTC
65 GTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
* * * *** * * ***
3460549 AATTTCTGTTTTC-AAAATTCAACTCATATTGTGAGAAATGAGTTGAACCTCAAG--ACACATTG
130 AATTTCTGTTGTCAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCG
*
3460611 AGG-----T-AA-------TTTCAATTTCTG-TTTTC----A
195 AGGTATTTTCAATTTCGTTTTTCAATTTCTGCCTTTCAAAAA
* * ** * *
3460635 AAATTCAACTCATATTGCAAGAAATGAGTTGAGCCTTAAGACACGTTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGACACGCTGAGGTATTTTCAATTTCT
* *
3460700 GTTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTA
65 GTTTT--AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTA
* * * * *
3460764 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCA
125 ATTTCAATTTCTGT-TGTC-AAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCA
3460829 CAC
188 CAC
3460832 ACTGTGGTAT
Statistics
Matches: 574, Mismatches: 63, Indels: 54
0.83 0.09 0.08
Matches are distributed among these distances:
216 60 0.10
217 1 0.00
218 34 0.06
220 29 0.05
221 16 0.03
223 33 0.06
225 4 0.01
229 2 0.00
230 1 0.00
235 8 0.01
237 33 0.06
238 2 0.00
239 100 0.17
241 30 0.05
242 24 0.04
244 108 0.19
245 88 0.15
246 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.32
Consensus pattern (236 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGACACGCTGAGGTATTTTCAATTTCTG
TTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCA
ATTTCTGTTGTCAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGA
GGTATTTTCAATTTCGTTTTTCAATTTCTGCCTTTCAAAAA
Found at i:3460844 original size:77 final size:73
Alignment explanation
Indices: 3460417--3460819 Score: 481
Period size: 72 Copynumber: 5.5 Consensus size: 73
3460407 GCCTTTCAAA
* ** ** * *
3460417 AAAAAATCAACTCATATTTCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCGATTT
1 AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTT
3460482 CTGTTTT-
66 CTGTTTTC
* * *
3460489 TAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTT
3460554 CTGTTTTC
66 CTGTTTTC
* * * ** *
3460562 -AAAATTCAACTCATATTGTGAGAAATGAGTTGAACCTCAAGACACATTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTT
3460626 CTGTTTTC
66 CTGTTTTC
* * * *
3460634 -AAAATTCAACTCATATTGCAAGAAATGAGTTGAGCCTTAAGACACGTTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTT
3460698 CTGTTTTC
66 CTGTTTTC
* ** * *
3460706 AAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCA
1 -AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG---ACACGCTGAGGTATTTTCA
3460770 ATTTCTGTCTTTC
62 ATTTCTGT-TTTC
**
3460783 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 -AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGC
3460820 TTCAGATCAC
Statistics
Matches: 296, Mismatches: 28, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
72 198 0.67
73 1 0.00
74 32 0.11
76 25 0.08
77 40 0.14
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (73 bp):
AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTT
CTGTTTTC
Found at i:3461723 original size:33 final size:32
Alignment explanation
Indices: 3461686--3461773 Score: 124
Period size: 33 Copynumber: 2.8 Consensus size: 32
3461676 TAACCCCCCC
***
3461686 AAAAAAACCTAACCC-CCCAAAAAAAGAAAAA
1 AAAAAAACCTAACCCAAAAAAAAAAAGAAAAA
*
3461717 AGAAAAACCTAACCCAAAAAAAAAAAGAAAAA
1 AAAAAAACCTAACCCAAAAAAAAAAAGAAAAA
3461749 AAGAAAAACCTAACCCAAAAAAAAA
1 AA-AAAAACCTAACCCAAAAAAAAA
3461774 CTAAAAAAAC
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
31 14 0.28
32 14 0.28
33 22 0.44
ACGTcount: A:0.72, C:0.20, G:0.05, T:0.03
Consensus pattern (32 bp):
AAAAAAACCTAACCCAAAAAAAAAAAGAAAAA
Found at i:3461737 original size:20 final size:20
Alignment explanation
Indices: 3461712--3461770 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 20
3461702 CCAAAAAAAG
3461712 AAAAAAGAAAAACCTAACCC
1 AAAAAAGAAAAACCTAACCC
*
3461732 AAAAAA-AAAAA---GA---
1 AAAAAAGAAAAACCTAACCC
3461745 AAAAAAGAAAAACCTAACCC
1 AAAAAAGAAAAACCTAACCC
3461765 AAAAAA
1 AAAAAA
3461771 AAACTAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
13 6 0.20
14 5 0.17
16 1 0.03
17 1 0.03
19 5 0.17
20 12 0.40
ACGTcount: A:0.75, C:0.17, G:0.05, T:0.03
Consensus pattern (20 bp):
AAAAAAGAAAAACCTAACCC
Found at i:3461782 original size:33 final size:33
Alignment explanation
Indices: 3461704--3461773 Score: 133
Period size: 33 Copynumber: 2.2 Consensus size: 33
3461694 CTAACCCCCC
3461704 AAAAAAAG-AAAAAAGAAAAACCTAACCCAAAA
1 AAAAAAAGAAAAAAAGAAAAACCTAACCCAAAA
3461736 AAAAAAAGAAAAAAAGAAAAACCTAACCCAAAA
1 AAAAAAAGAAAAAAAGAAAAACCTAACCCAAAA
3461769 AAAAA
1 AAAAA
3461774 CTAAAAAAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 8 0.22
33 29 0.78
ACGTcount: A:0.77, C:0.14, G:0.06, T:0.03
Consensus pattern (33 bp):
AAAAAAAGAAAAAAAGAAAAACCTAACCCAAAA
Found at i:3462341 original size:2 final size:2
Alignment explanation
Indices: 3462336--3462368 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
3462326 TCTTAAATAC
3462336 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3462369 TTTAAATACC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3468761 original size:22 final size:22
Alignment explanation
Indices: 3468733--3468778 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
3468723 CTTGAATCAT
3468733 CTGGATATACTTCCTTCTATAG
1 CTGGATATACTTCCTTCTATAG
*
3468755 CTGGATATACTTCTTTCTATAG
1 CTGGATATACTTCCTTCTATAG
3468777 CT
1 CT
3468779 TGACTGGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (22 bp):
CTGGATATACTTCCTTCTATAG
Found at i:3470147 original size:58 final size:59
Alignment explanation
Indices: 3470082--3470197 Score: 225
Period size: 59 Copynumber: 2.0 Consensus size: 59
3470072 TCAACGTAGA
3470082 GAGACTATTTATCTATTTTTCAGT-AAAAAATTAAAATACAATTTAAAATATAATACAT
1 GAGACTATTTATCTATTTTTCAGTAAAAAAATTAAAATACAATTTAAAATATAATACAT
3470140 GAGACTATTTATCTATTTTTCAGTAAAAAAATTAAAATACAATTTAAAATATAATACA
1 GAGACTATTTATCTATTTTTCAGTAAAAAAATTAAAATACAATTTAAAATATAATACA
3470198 AGAAGTTTTG
Statistics
Matches: 57, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
58 24 0.42
59 33 0.58
ACGTcount: A:0.49, C:0.09, G:0.05, T:0.37
Consensus pattern (59 bp):
GAGACTATTTATCTATTTTTCAGTAAAAAAATTAAAATACAATTTAAAATATAATACAT
Found at i:3481654 original size:21 final size:21
Alignment explanation
Indices: 3481630--3481672 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
3481620 AAGTAATATC
*
3481630 ATACATCGTAAATACAAGCAT
1 ATACATCATAAATACAAGCAT
3481651 ATACATCATAAATACAAGCAT
1 ATACATCATAAATACAAGCAT
3481672 A
1 A
3481673 GTATTTAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.51, C:0.19, G:0.07, T:0.23
Consensus pattern (21 bp):
ATACATCATAAATACAAGCAT
Found at i:3484706 original size:12 final size:12
Alignment explanation
Indices: 3484685--3484722 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
3484675 TTTAGTATAC
3484685 TTTCTCTTTCTT
1 TTTCTCTTTCTT
*
3484697 TTTCTTTTTCTT
1 TTTCTCTTTCTT
3484709 TTTC-CTTTCTT
1 TTTCTCTTTCTT
3484720 TTT
1 TTT
3484723 GCACTTATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTCTCTTTCTT
Found at i:3484711 original size:7 final size:6
Alignment explanation
Indices: 3484685--3484722 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
3484675 TTTAGTATAC
* *
3484685 TTTCTC TTTCTT TTTCTT TTTCTT TTTC-C TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTT
3484723 GCACTTATAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
5 4 0.14
6 24 0.86
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTCTT
Found at i:3484874 original size:12 final size:12
Alignment explanation
Indices: 3484853--3484882 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
3484843 ATTTTTAAAA
3484853 AATATAAATATT
1 AATATAAATATT
*
3484865 AATATTAATATT
1 AATATAAATATT
3484877 AATATA
1 AATATA
3484883 TAAAAAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
AATATAAATATT
Found at i:3490448 original size:39 final size:39
Alignment explanation
Indices: 3490400--3490486 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
3490390 GAACACTTAA
* *
3490400 ACTTACCCCATGATACTTCTTGAAGTTATATAATTAAAG
1 ACTTACCCCATGATACTTCTTGAAGTCATATAAATAAAG
*
3490439 ACTTACCCCATGATACTTCTTGAAGTCATATAAATAATG
1 ACTTACCCCATGATACTTCTTGAAGTCATATAAATAAAG
3490478 ACTTACCCC
1 ACTTACCCC
3490487 TCCTCCACAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.34, C:0.23, G:0.09, T:0.33
Consensus pattern (39 bp):
ACTTACCCCATGATACTTCTTGAAGTCATATAAATAAAG
Found at i:3496266 original size:20 final size:22
Alignment explanation
Indices: 3496241--3496281 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
3496231 GAAGATGAAA
*
3496241 AAATATT-T-AATTCACCAAAT
1 AAATATTATAAATTCAACAAAT
3496261 AAATATTATAAATTCAACAAA
1 AAATATTATAAATTCAACAAA
3496282 AATGAGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 1 0.06
22 10 0.56
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (22 bp):
AAATATTATAAATTCAACAAAT
Found at i:3496284 original size:20 final size:19
Alignment explanation
Indices: 3496238--3496283 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 19
3496228 AATGAAGATG
*
3496238 AAAAAATATTTAATTCACC
1 AAAAAATATTTAATTCAAC
3496257 AAATAAATATTATAAATTCAAC
1 AAA-AAATATT-T-AATTCAAC
3496279 AAAAA
1 AAAAA
3496284 TGAGGAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 3 0.13
20 7 0.30
21 3 0.13
22 10 0.43
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.28
Consensus pattern (19 bp):
AAAAAATATTTAATTCAAC
Found at i:3497771 original size:58 final size:59
Alignment explanation
Indices: 3497695--3497809 Score: 137
Period size: 59 Copynumber: 2.0 Consensus size: 59
3497685 GGAAATATCA
* * * * *
3497695 AGATTAACTTGGATAAAAACAATTTGAAC-CCTAAT-GTGAGAACAATTGTTAAGTTCAT
1 AGATTAACTTGGACAAAAAAAAATTCAACTCCTAATCGTG-GAACAATTGCTAAGTTCAT
*
3497753 AGATTAACTTAGG-CAAAAAAAAATTCAACTCCTAATCTTGGAACAATTGCTAAGTTC
1 AGATTAACTT-GGACAAAAAAAAATTCAACTCCTAATCGTGGAACAATTGCTAAGTTC
3497810 GGGTACTAAG
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
58 22 0.46
59 24 0.50
60 2 0.04
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.30
Consensus pattern (59 bp):
AGATTAACTTGGACAAAAAAAAATTCAACTCCTAATCGTGGAACAATTGCTAAGTTCAT
Found at i:3501273 original size:100 final size:99
Alignment explanation
Indices: 3501109--3501305 Score: 272
Period size: 100 Copynumber: 2.0 Consensus size: 99
3501099 CACACGGTTG
* * **
3501109 TGTGCTTTTAGAAATTAAGGTTTTGTGAATTTTGGTATCACACGGCCTAGCCACACGGGCATATG
1 TGTGCTTTTAGAAATTAAGGTTTGGTGAATTTTGGTACCACACGGCCTAGCCACAAAGGCATATG
*
3501174 TCCCACACAGGCGTGTGATGACTC-ACACGACTC
66 TCCCACACAGGCGTGTGACGACTCTACACGACTC
* * *
3501207 TGTGCTTTT-GAGAATTAGGGTTTCGGGTGAATTTTGGTACCACCCGGCCTGGCCACAAAGGCAT
1 TGTGCTTTTAGA-AATTAAGGTTT--GGTGAATTTTGGTACCACACGGCCTAGCCACAAAGGCAT
*
3501271 ATGTCCCACACGGGCGTGTGACGACTCTACACGAC
63 ATGTCCCACACAGGCGTGTGACGACTCTACACGAC
3501306 CGTGTCTCAT
Statistics
Matches: 86, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
97 2 0.02
98 19 0.22
100 58 0.67
101 7 0.08
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.27
Consensus pattern (99 bp):
TGTGCTTTTAGAAATTAAGGTTTGGTGAATTTTGGTACCACACGGCCTAGCCACAAAGGCATATG
TCCCACACAGGCGTGTGACGACTCTACACGACTC
Found at i:3504696 original size:100 final size:100
Alignment explanation
Indices: 3504565--3504786 Score: 284
Period size: 100 Copynumber: 2.2 Consensus size: 100
3504555 TCTCCGATGG
* ** * **
3504565 CCACACGGGCGTGTGATGACTCACATGGCCGTATCCTTTTTGG-AATTAGGGTTTTGGGTGAATT
1 CCACACGGGCGTGTGACGACTCACACAGCCGTAT-CATTTTGGAAATTAGGGTTTCAGGTGAATT
* * *
3504629 TTAGTACCACGCGGCCTGGCCACACAGGCATGTGTC
65 TTAGTACCACCCGACCTGGCCACACAAGCATGTGTC
* *
3504665 CCACACGGGCGTGTGACGACTCACACAGCCGTGTGATTTTGGAAATTAGGGTTTCAGGTGAATTT
1 CCACACGGGCGTGTGACGACTCACACAGCCGTATCATTTTGGAAATTAGGGTTTCAGGTGAATTT
* * * **
3504730 TGGTGCCACCCGACTTGGCCTTACAAGCATGTGTC
66 TAGTACCACCCGACCTGGCCACACAAGCATGTGTC
3504765 CCACACGGGCGTGTGACGACTC
1 CCACACGGGCGTGTGACGACTC
3504787 TACAATGTCA
Statistics
Matches: 105, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
99 6 0.06
100 99 0.94
ACGTcount: A:0.20, C:0.25, G:0.29, T:0.26
Consensus pattern (100 bp):
CCACACGGGCGTGTGACGACTCACACAGCCGTATCATTTTGGAAATTAGGGTTTCAGGTGAATTT
TAGTACCACCCGACCTGGCCACACAAGCATGTGTC
Found at i:3504928 original size:21 final size:21
Alignment explanation
Indices: 3504851--3504930 Score: 63
Period size: 21 Copynumber: 3.8 Consensus size: 21
3504841 ACACGGGCTA
* **
3504851 TTCACACAGGCGTGT-GCCCC
1 TTCACACGGGCGTGTAGGGCC
* * *
3504871 TTCCACACGAGTGTGTAGGGCT
1 TT-CACACGGGCGTGTAGGGCC
* *
3504893 TTCACACGGGTGTGTATGGCC
1 TTCACACGGGCGTGTAGGGCC
*
3504914 TTCACATGGGCGTGTAG
1 TTCACACGGGCGTGTAG
3504931 ACTCTCATAC
Statistics
Matches: 46, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
20 2 0.04
21 40 0.87
22 4 0.09
ACGTcount: A:0.16, C:0.26, G:0.31, T:0.26
Consensus pattern (21 bp):
TTCACACGGGCGTGTAGGGCC
Found at i:3504928 original size:23 final size:21
Alignment explanation
Indices: 3504869--3504930 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
3504859 GGCGTGTGCC
*
3504869 CCTTCCACACGAGTGTGTAGGG
1 CCTT-CACACGGGTGTGTAGGG
* *
3504891 CTTTCACACGGGTGTGTATGG
1 CCTTCACACGGGTGTGTAGGG
* *
3504912 CCTTCACATGGGCGTGTAG
1 CCTTCACACGGGTGTGTAG
3504931 ACTCTCATAC
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
21 30 0.91
22 3 0.09
ACGTcount: A:0.16, C:0.24, G:0.32, T:0.27
Consensus pattern (21 bp):
CCTTCACACGGGTGTGTAGGG
Found at i:3506907 original size:25 final size:24
Alignment explanation
Indices: 3506848--3506958 Score: 109
Period size: 25 Copynumber: 4.5 Consensus size: 24
3506838 AGCGAGCAAA
* *
3506848 TATCAGGAAGCTTCGGAGAGCTAT
1 TATCAGGAAGCTTCGAAGAGCCAT
3506872 TAATCAGGAAGCTTCGAAGAGCCAGT
1 T-ATCAGGAAGCTTCGAAGAGCCA-T
*
3506898 TATC-GAGAAGCTCCGAAGAGCCAAT
1 TATCAG-GAAGCTTCGAAGAGCC-AT
*
3506923 TATCAGGAAGC-TCATAAGAGCCAT
1 TATCAGGAAGCTTC-GAAGAGCCAT
* *
3506947 AATCGGGAAGCT
1 TATCAGGAAGCT
3506959 CGCAAGAACC
Statistics
Matches: 73, Mismatches: 7, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
24 14 0.19
25 55 0.75
26 4 0.05
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.20
Consensus pattern (24 bp):
TATCAGGAAGCTTCGAAGAGCCAT
Found at i:3507004 original size:25 final size:25
Alignment explanation
Indices: 3506878--3507017 Score: 101
Period size: 25 Copynumber: 5.6 Consensus size: 25
3506868 CTATTAATCA
**
3506878 GGAAGCTTCG-AAGAGCCAGTTATCG
1 GGAAGC-TCGTAAGAGCCAAATATCG
* * *
3506903 AGAAGCTCCG-AAGAGCCAATTATCA
1 GGAAGCT-CGTAAGAGCCAAATATCG
* *
3506928 GGAAGCTCATAAGAGCCATA-ATCG
1 GGAAGCTCGTAAGAGCCAAATATCG
* * *
3506952 GGAAGCTCGCAAGAACCATATAAT-G
1 GGAAGCTCGTAAGAGCCAAAT-ATCG
*
3506977 GGAAGCTCGTGAGAGCCAAATATCG
1 GGAAGCTCGTAAGAGCCAAATATCG
*
3507002 GGACA-TTCGTAAGAGC
1 GGA-AGCTCGTAAGAGC
3507018 TGAGGTATGT
Statistics
Matches: 92, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
24 24 0.26
25 65 0.71
26 3 0.03
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (25 bp):
GGAAGCTCGTAAGAGCCAAATATCG
Found at i:3508488 original size:25 final size:24
Alignment explanation
Indices: 3508452--3508504 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
3508442 CACAAATGTA
*
3508452 GCTCTTTATGAGCGTCCTGATATAG
1 GCTCTTTATGAGCGTCCTGAAAT-G
* *
3508477 GCTCTTTGTGAGCTTCCTGAAATG
1 GCTCTTTATGAGCGTCCTGAAATG
3508501 GCTC
1 GCTC
3508505 ACTTAAACTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.17, C:0.23, G:0.25, T:0.36
Consensus pattern (24 bp):
GCTCTTTATGAGCGTCCTGAAATG
Found at i:3510778 original size:35 final size:36
Alignment explanation
Indices: 3510650--3510781 Score: 151
Period size: 35 Copynumber: 3.6 Consensus size: 36
3510640 TCCTCATTGA
** *
3510650 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTATGGGAT
* **
3510685 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTATGG----GAT
*
3510725 AATACCATACCTACATTTCACAGCTCAGTAT-GGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGGAT
3510760 AATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
3510782 CTTTGCCATG
Statistics
Matches: 84, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
35 54 0.64
39 3 0.04
40 27 0.32
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (36 bp):
AATACCATACCTACATTTCACAACTCAGTATGGGAT
Found at i:3518121 original size:35 final size:35
Alignment explanation
Indices: 3518077--3518243 Score: 201
Period size: 35 Copynumber: 4.6 Consensus size: 35
3518067 TCCTCATTGA
** *
3518077 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
3518112 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
3518152 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
3518187 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
3518222 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
3518244 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 87 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:3518160 original size:75 final size:73
Alignment explanation
Indices: 3518072--3518243 Score: 226
Period size: 75 Copynumber: 2.4 Consensus size: 73
3518062 GGTTTTCCTC
** * * **
3518072 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
3518136 TCAGTATGG
65 TCAGTATGG
*
3518145 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
3518210 CTCAGTATGG
64 CTCAGTATGG
3518220 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
3518244 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 58 0.65
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:3521582 original size:47 final size:47
Alignment explanation
Indices: 3521518--3521628 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
3521508 GACATTGAGT
*
3521518 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
3521565 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
3521612 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
3521629 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:3528839 original size:47 final size:47
Alignment explanation
Indices: 3528775--3528885 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
3528765 GACATTGAGT
*
3528775 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
3528822 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
3528869 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
3528886 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:3530900 original size:54 final size:54
Alignment explanation
Indices: 3530728--3530911 Score: 226
Period size: 55 Copynumber: 3.4 Consensus size: 54
3530718 CATGTCTTAA
* * * *
3530728 CATGGTCTTACGTGGTATCCTTACCTTAT-GAACTCACCAATGTCATGCCTTGG
1 CATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATGTCATGCCTTGG
* ** ** * *
3530781 CATGGTTTTACATGGGATTTTTGCCTTATAGTAACTCATCAATGTCATGTCTTGA
1 CATGGTCTTACATGATATCCTTGCCTTATAG-AACTCATCAATGTCATGCCTTGG
* * *
3530836 CATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGACATGCCTTGG
1 CATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATGTCATGCCTTGG
3530890 CATGGTCTTACATGATATCCTT
1 CATGGTCTTACATGATATCCTT
3530912 ATCTTACCAA
Statistics
Matches: 109, Mismatches: 20, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
53 23 0.21
54 41 0.38
55 45 0.41
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (54 bp):
CATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATGTCATGCCTTGG
Found at i:3530967 original size:48 final size:47
Alignment explanation
Indices: 3530890--3531012 Score: 201
Period size: 48 Copynumber: 2.6 Consensus size: 47
3530880 CATGCCTTGG
* * *
3530890 CATGGTCTTACATGATATCCTTATCTTACCAAATGTCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
3530937 CATGGTCTTACATGGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACAT-GGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
*
3530985 CATGGTCTTACATAGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
3531013 GTGTCAATGC
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
47 27 0.38
48 44 0.62
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.37
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:3536939 original size:29 final size:30
Alignment explanation
Indices: 3536892--3536960 Score: 95
Period size: 29 Copynumber: 2.3 Consensus size: 30
3536882 GTAACATATT
*
3536892 TATTTATTTACTTTTTATTAAAGTAAATAGA
1 TATTTA-TTACTTTTTATTAAAGTAAAAAGA
*
3536923 TATTTATTA-TTTTTATTAAATTAAAAAGA
1 TATTTATTACTTTTTATTAAAGTAAAAAGA
*
3536952 TAGTTATTA
1 TATTTATTA
3536961 ATTAAATAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
29 26 0.74
30 3 0.09
31 6 0.17
ACGTcount: A:0.41, C:0.01, G:0.06, T:0.52
Consensus pattern (30 bp):
TATTTATTACTTTTTATTAAAGTAAAAAGA
Found at i:3539087 original size:26 final size:26
Alignment explanation
Indices: 3539025--3539080 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
3539015 CATGATATGC
3539025 ATGGTAGAATTGGTGCTAAACTTAGA
1 ATGGTAGAATTGGTGCTAAACTTAGA
*
3539051 ATGGTAGAATTGGTGCTAAATTTAGA
1 ATGGTAGAATTGGTGCTAAACTTAGA
3539077 ATGG
1 ATGG
3539081 ATGAATTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (26 bp):
ATGGTAGAATTGGTGCTAAACTTAGA
Found at i:3541001 original size:36 final size:36
Alignment explanation
Indices: 3540921--3541204 Score: 247
Period size: 36 Copynumber: 8.0 Consensus size: 36
3540911 TTAGGGCCAG
* * * * *
3540921 CAGGCCGGCCAGACCCTGCACCATTGCTTGCGCCAA
1 CAGGCCGGCCAGGCCCAGCACCATTGCTAGCACCAC
* * *
3540957 CAGGCCGGCCAGACCCTGCACCATTGCTAGCAGCAC
1 CAGGCCGGCCAGGCCCAGCACCATTGCTAGCACCAC
* ** * * *
3540993 CAGCCCGGCCAGGAACAGAACCACTGTTAGCACCAC
1 CAGGCCGGCCAGGCCCAGCACCATTGCTAGCACCAC
* *
3541029 CAGGCCGACCAGGCCCAGTACCATTGCTTA-CACCAC
1 CAGGCCGGCCAGGCCCAGCACCATTGC-TAGCACCAC
* * * * *
3541065 CAGGTCGGCTAGGCCCGGTACCATTGTTAGCACCAC
1 CAGGCCGGCCAGGCCCAGCACCATTGCTAGCACCAC
* *
3541101 CAGGCCGGCCGGGCCC--CA-TATTGCTAGCACCAC
1 CAGGCCGGCCAGGCCCAGCACCATTGCTAGCACCAC
* *
3541134 CAGGCCGGCCAGGCCCCA-TACCATTGCTAACACCAC
1 CAGGCCGGCCAGG-CCCAGCACCATTGCTAGCACCAC
* * *
3541170 CAGGCCGGCCTGGCCCCA-TACCATTGCTAACACCA
1 CAGGCCGGCCAGG-CCCAGCACCATTGCTAGCACCA
3541205 TGCTGCTTTC
Statistics
Matches: 207, Mismatches: 36, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
33 25 0.12
34 4 0.02
35 3 0.01
36 173 0.84
37 2 0.01
ACGTcount: A:0.23, C:0.41, G:0.23, T:0.13
Consensus pattern (36 bp):
CAGGCCGGCCAGGCCCAGCACCATTGCTAGCACCAC
Found at i:3541204 original size:69 final size:71
Alignment explanation
Indices: 3541023--3541204 Score: 219
Period size: 69 Copynumber: 2.6 Consensus size: 71
3541013 CCACTGTTAG
* * * **
3541023 CACCACCAGGCCGACCAGG-CCCAGTACCATTGCTTACACCACCAGGTCGGCTAGGCCCGGTACC
1 CACCACCAGGCCGGCCAGGCCCCA-TACCATTGC-TACACCACCAGGCCGGCCAGGCCCCATACC
* *
3541087 ATTGTTAG
64 ATTGCTAA
*
3541095 CACCACCAGGCCGGCCGGGCCCCAT---ATTGCTAGCACCACCAGGCCGGCCAGGCCCCATACCA
1 CACCACCAGGCCGGCCAGGCCCCATACCATTGCTA-CACCACCAGGCCGGCCAGGCCCCATACCA
3541157 TTGCTAA
65 TTGCTAA
*
3541164 CACCACCAGGCCGGCCTGGCCCCATACCATTGCTAACACCA
1 CACCACCAGGCCGGCCAGGCCCCATACCATTGCT-ACACCA
3541205 TGCTGCTTTC
Statistics
Matches: 95, Mismatches: 9, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
68 2 0.02
69 59 0.62
72 29 0.31
73 5 0.05
ACGTcount: A:0.23, C:0.42, G:0.22, T:0.14
Consensus pattern (71 bp):
CACCACCAGGCCGGCCAGGCCCCATACCATTGCTACACCACCAGGCCGGCCAGGCCCCATACCAT
TGCTAA
Found at i:3544657 original size:22 final size:21
Alignment explanation
Indices: 3544631--3544681 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
3544621 TTGATTGTAA
3544631 ATAAAAAGTTTTAGTAAAAATT
1 ATAAAAAGTTTTA-TAAAAATT
* **
3544653 TTAAAATTTTTTTATAAAAATT
1 ATAAAA-AGTTTTATAAAAATT
3544675 ATAAAAA
1 ATAAAAA
3544682 AAACTTGTAA
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (21 bp):
ATAAAAAGTTTTATAAAAATT
Found at i:3544736 original size:18 final size:17
Alignment explanation
Indices: 3544696--3544739 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
3544686 TTGTAAACTT
*
3544696 TTATAAAAATTATAAAA
1 TTATAAAAATTAAAAAA
*
3544713 TATATAAGAATATAAAAAA
1 T-TATAAAAAT-TAAAAAA
3544732 TTATAAAA
1 TTATAAAA
3544740 TTTTATAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 1 0.05
18 14 0.64
19 7 0.32
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (17 bp):
TTATAAAAATTAAAAAA
Found at i:3544747 original size:28 final size:27
Alignment explanation
Indices: 3544700--3544761 Score: 81
Period size: 28 Copynumber: 2.3 Consensus size: 27
3544690 AAACTTTTAT
3544700 AAAAATTATAAAATATATAAGAAT-ATA
1 AAAAATTATAAAATATATAA-AATCATA
* *
3544727 AAAAATTATAAAATTTTATAAAGTCATA
1 AAAAATTATAAAA-TATATAAAATCATA
3544755 AAAAATT
1 AAAAATT
3544762 TATACAACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
27 15 0.48
28 16 0.52
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (27 bp):
AAAAATTATAAAATATATAAAATCATA
Found at i:3544807 original size:47 final size:46
Alignment explanation
Indices: 3544679--3544808 Score: 115
Period size: 47 Copynumber: 2.8 Consensus size: 46
3544669 AAAATTATAA
* *
3544679 AAAAAACTTGTAAACTTTTATAAA-AATTATAAAATATATAAGAATAT
1 AAAAAA-TTATAAA-TTTTATAAATAATTATAAAATTTATAAGAATAT
* * *
3544726 AAAAAATTATAAAATTTTATAAAGTCA-TAAAAAATTTATACA-ACATGT
1 AAAAAATTAT-AAATTTTATAAA-TAATTATAAAATTTATA-AGA-ATAT
*
3544774 AAAGAAA-TATAAATTTCATAAATAATTATAAAATT
1 AAA-AAATTATAAATTTTATAAATAATTATAAAATT
3544809 ATTGTATTAA
Statistics
Matches: 68, Mismatches: 8, Indels: 14
0.76 0.09 0.16
Matches are distributed among these distances:
46 14 0.21
47 40 0.59
48 11 0.16
49 3 0.04
ACGTcount: A:0.58, C:0.05, G:0.04, T:0.34
Consensus pattern (46 bp):
AAAAAATTATAAATTTTATAAATAATTATAAAATTTATAAGAATAT
Found at i:3544950 original size:19 final size:19
Alignment explanation
Indices: 3544922--3544959 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
3544912 TCGTTAAATT
* *
3544922 TTTTATAATTTTTATAAAA
1 TTTTAAAATTTTTAGAAAA
3544941 TTTTAAAATTTTTAGAAAA
1 TTTTAAAATTTTTAGAAAA
3544960 AATTATTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (19 bp):
TTTTAAAATTTTTAGAAAA
Found at i:3545003 original size:18 final size:18
Alignment explanation
Indices: 3544960--3545007 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
3544950 TTTTAGAAAA
3544960 AATTATTTATTAAAATTT
1 AATTATTTATTAAAATTT
* *
3544978 AATAATTTTTCTAAAATTT
1 AATTATTTAT-TAAAATTT
3544997 -ATTATTTATTA
1 AATTATTTATTA
3545008 TTTTTTCTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 2 0.08
18 15 0.60
19 8 0.32
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (18 bp):
AATTATTTATTAAAATTT
Found at i:3546038 original size:19 final size:21
Alignment explanation
Indices: 3545996--3546038 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
3545986 AAAACAGCAG
* *
3545996 TAATGATGAGATTAAATATTA
1 TAATGATGAGATAAAATATAA
3546017 TAATG-TGAGATAAAATA-AA
1 TAATGATGAGATAAAATATAA
3546036 TAA
1 TAA
3546039 ATAAACGTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 4 0.20
20 11 0.55
21 5 0.25
ACGTcount: A:0.53, C:0.00, G:0.14, T:0.33
Consensus pattern (21 bp):
TAATGATGAGATAAAATATAA
Found at i:3549902 original size:14 final size:15
Alignment explanation
Indices: 3549877--3549905 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
3549867 TACTTAAGTC
3549877 CAAAGAAAAACATAA
1 CAAAGAAAAACATAA
3549892 CAAAG-AAAACATAA
1 CAAAGAAAAACATAA
3549906 TGAATGCTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.72, C:0.14, G:0.07, T:0.07
Consensus pattern (15 bp):
CAAAGAAAAACATAA
Found at i:3551574 original size:30 final size:30
Alignment explanation
Indices: 3551538--3551598 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
3551528 CACTTCTCTG
3551538 CAAATCTGTGAAAAACCATAATAGTTTCTT
1 CAAATCTGTGAAAAACCATAATAGTTTCTT
3551568 CAAATCTGTGAAAAACCATAATAGTTTCTT
1 CAAATCTGTGAAAAACCATAATAGTTTCTT
3551598 C
1 C
3551599 TTCCCTTCGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (30 bp):
CAAATCTGTGAAAAACCATAATAGTTTCTT
Found at i:3559324 original size:100 final size:99
Alignment explanation
Indices: 3559191--3559401 Score: 309
Period size: 98 Copynumber: 2.1 Consensus size: 99
3559181 AATTTAAAAT
*
3559191 AAAATATATTTAACAAAATGATAAATATAAAAAATATAATTTCATTATATAATTACATATTTATT
1 AAAATATATTTAACAAAATAATAAATATAAAAAATATAATTTCATTATATAATTACATATTTATT
*
3559256 AATTTTTATATATATAAATAAAGGAGCTATTAATTA
66 -A-TTTTATATATATAAATAAAAGAGCTATTAATTA
* * * *
3559292 AAAATAT-TTTCAACATAATAATATATAT-AAAAATATATTTTTATTATATAATTACATATTTAT
1 AAAATATATTT-AACAAAATAATAAATATAAAAAATATAATTTCATTATATAATTACATATTTAT
* *
3559355 TATTTTATTTATATAAATAAAAGAGTTATTAATTA
65 TATTTTATATATATAAATAAAAGAGCTATTAATTA
3559390 AAAATATATTTA
1 AAAATATATTTA
3559402 TTAATTATTA
Statistics
Matches: 100, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
98 38 0.38
99 4 0.04
100 37 0.37
101 21 0.21
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (99 bp):
AAAATATATTTAACAAAATAATAAATATAAAAAATATAATTTCATTATATAATTACATATTTATT
ATTTTATATATATAAATAAAAGAGCTATTAATTA
Found at i:3561911 original size:21 final size:21
Alignment explanation
Indices: 3561852--3561912 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
3561842 GATTATATGA
* * *
3561852 ATTGGATTGAATATTGATTAT
1 ATTGAATTGATTATTGAATAT
3561873 ATTGAATTGATT-TATGAATAT
1 ATTGAATTGATTAT-TGAATAT
3561894 ATGTGAATTG-TTATTGAAT
1 AT-TGAATTGATTATTGAAT
3561913 TGAAATTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 1 0.03
21 25 0.74
22 8 0.24
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.48
Consensus pattern (21 bp):
ATTGAATTGATTATTGAATAT
Found at i:3562781 original size:45 final size:45
Alignment explanation
Indices: 3562709--3562903 Score: 239
Period size: 45 Copynumber: 4.3 Consensus size: 45
3562699 CTGTTACCGC
* *
3562709 TACTGCTACTGTTACCGATTCGACACTTGGGGTGTCGAATATTGT
1 TACTGCTACTGTTACCGATTCGGCACTTGGTGTGTCGAATATTGT
* * * *
3562754 TACTGCTATTGTTACTGATTTGGCACTTTGTGTGTCGAATATTGT
1 TACTGCTACTGTTACCGATTCGGCACTTGGTGTGTCGAATATTGT
**
3562799 TACTAATACTGTTACCGATTCGGCAC-TGTGTGTGTCGAATATTGT
1 TACTGCTACTGTTACCGATTCGGCACTTG-GTGTGTCGAATATTGT
* * * * * *
3562844 TACTGTTACCGTTACCGATTCAGCACTTTGTGTGTTGAATACTGT
1 TACTGCTACTGTTACCGATTCGGCACTTGGTGTGTCGAATATTGT
*
3562889 TACTGTTACTGTTAC
1 TACTGCTACTGTTAC
3562904 TGTTCCGGAT
Statistics
Matches: 128, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
44 1 0.01
45 126 0.98
46 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.41
Consensus pattern (45 bp):
TACTGCTACTGTTACCGATTCGGCACTTGGTGTGTCGAATATTGT
Found at i:3562894 original size:6 final size:6
Alignment explanation
Indices: 3562883--3562907 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
3562873 GTGTGTTGAA
3562883 TACTGT TACTGT TACTGT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT T
3562908 CCGGATTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (6 bp):
TACTGT
Found at i:3563104 original size:18 final size:18
Alignment explanation
Indices: 3563083--3563272 Score: 142
Period size: 18 Copynumber: 10.6 Consensus size: 18
3563073 TAACTGATTA
3563083 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
* *
3563101 TTACCGGATAATTGACTG
1 TTACTGAATAATTGACTG
*
3563119 TTACTGGAT-ATTAGACTG
1 TTACTGAATAATT-GACTG
* * *
3563137 TTACTGAATAACTGAATA
1 TTACTGAATAATTGACTG
*
3563155 TTACTG-ATAATTGA-TCA
1 TTACTGAATAATTGACT-G
* *
3563172 TTACTGAATAACTGATTG
1 TTACTGAATAATTGACTG
*
3563190 TCACTGAATGAA-TGACTG
1 TTACTGAAT-AATTGACTG
* *
3563208 CTACTGAATAACTT-AATAG
1 TTACTGAATAA-TTGACT-G
* *
3563227 TTACTAAAT-ATCTGA-TT
1 TTACTGAATAAT-TGACTG
3563244 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
*
3563262 TTACTGGATAA
1 TTACTGAATAA
3563273 CCGATCAATT
Statistics
Matches: 138, Mismatches: 21, Indels: 26
0.75 0.11 0.14
Matches are distributed among these distances:
16 1 0.01
17 31 0.22
18 91 0.66
19 15 0.11
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:3563159 original size:36 final size:36
Alignment explanation
Indices: 3563071--3563352 Score: 155
Period size: 36 Copynumber: 7.6 Consensus size: 36
3563061 AAAGGTATAA
* *
3563071 AATAACTGATTATTACTGAATAATTGACTGTTACCG
1 AATAACTGAATATTACTGAATAATTGACTGTTACTG
* * * * *
3563107 GATAATTGACTGTTACTGGAT-ATTAGACTGTTACTG
1 AATAACTGAATATTACTGAATAATT-GACTGTTACTG
*
3563143 AATAACTGAATATTACTG-ATAATTGA-TCATTACTG
1 AATAACTGAATATTACTGAATAATTGACT-GTTACTG
* * * *
3563178 AATAACTGATTGTCACTGAATGAA-TGACTGCTACTG
1 AATAACTGAATATTACTGAAT-AATTGACTGTTACTG
* * *
3563214 AATAACTTAATAGTTACTAAAT-ATCTGA-TTTTACTG
1 AATAACTGAATA-TTACTGAATAAT-TGACTGTTACTG
* * * *
3563250 AATAATTGACTGTTACTGGATAACCGATCAATTGA-TCGATACTG
1 AATAACTGAATATTACT-G---A---AT-AATTGACT-GTTACTG
* ** * * *
3563294 AAGAACTGGTTATTATTGAATAATTGATTGTTACCG
1 AATAACTGAATATTACTGAATAATTGACTGTTACTG
*
3563330 AATAACTGACTATTACTGAATAA
1 AATAACTGAATATTACTGAATAA
3563353 ATAATTATTC
Statistics
Matches: 184, Mismatches: 42, Indels: 40
0.69 0.16 0.15
Matches are distributed among these distances:
34 1 0.01
35 34 0.18
36 106 0.58
37 16 0.09
39 1 0.01
40 1 0.01
42 2 0.01
43 5 0.03
44 18 0.10
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.36
Consensus pattern (36 bp):
AATAACTGAATATTACTGAATAATTGACTGTTACTG
Found at i:3563213 original size:71 final size:72
Alignment explanation
Indices: 3563071--3563272 Score: 180
Period size: 71 Copynumber: 2.8 Consensus size: 72
3563061 AAAGGTATAA
* * * * * * *
3563071 AATAACTGATTATTACTGAATAATTGACTGTTACCGGATAATTGACTGTTACTGGATATTAGACT
1 AATAACTGAATATTACTGAATAATTGACTATTACCGAATAACTGACTGTCACTGAATAATAGACT
*
3563136 GTTACTG
66 GCTACTG
* *
3563143 AATAACTGAATATTACTG-ATAATTGA-TCATTACTGAATAACTGATTGTCACTGAATGAAT-GA
1 AATAACTGAATATTACTGAATAATTGACT-ATTACCGAATAACTGACTGTCACTGAAT-AATAGA
3563205 CTGCTACTG
64 CTGCTACTG
* * * * * * *
3563214 AATAACTTAATAGTTACTAAAT-ATCTGA-TTTTACTGAATAATTGACTGTTACTGGATAA
1 AATAACTGAATA-TTACTGAATAAT-TGACTATTACCGAATAACTGACTGTCACTGAATAA
3563273 CCGATCAATT
Statistics
Matches: 108, Mismatches: 17, Indels: 11
0.79 0.12 0.08
Matches are distributed among these distances:
70 1 0.01
71 52 0.48
72 49 0.45
73 6 0.06
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (72 bp):
AATAACTGAATATTACTGAATAATTGACTATTACCGAATAACTGACTGTCACTGAATAATAGACT
GCTACTG
Found at i:3563361 original size:18 final size:18
Alignment explanation
Indices: 3563137--3563365 Score: 68
Period size: 18 Copynumber: 12.4 Consensus size: 18
3563127 TATTAGACTG
* *
3563137 TTACTGAATAACTGAATA
1 TTACTGAATAAATGATTA
* *
3563155 TTACTG-ATAATTGATCA
1 TTACTGAATAAATGATTA
* *
3563172 TTACTGAATAACTGATTG
1 TTACTGAATAAATGATTA
* * * *
3563190 TCACTGAATGAATGACTG
1 TTACTGAATAAATGATTA
* * * *
3563208 CTACTGAATAACTTAATA
1 TTACTGAATAAATGATTA
* **
3563226 GTTACTAAATATCTGATT-
1 -TTACTGAATAAATGATTA
* * *
3563244 TTACTGAATAATTGACTG
1 TTACTGAATAAATGATTA
* *
3563262 TTACTGGATAACCGATCAATTGA
1 TTACTGAATAA---AT-GATT-A
* * *
3563285 TCGATACTGAAGAACTGGTTA
1 T---TACTGAATAAATGATTA
* * *
3563306 TTATTGAATAATTGATTG
1 TTACTGAATAAATGATTA
* * *
3563324 TTACCGAATAACTGACTA
1 TTACTGAATAAATGATTA
*
3563342 TTACTGAATAAATAATTA
1 TTACTGAATAAATGATTA
3563360 TT-CTGA
1 TTACTGA
3563366 GTGTTAATGA
Statistics
Matches: 150, Mismatches: 50, Indels: 23
0.67 0.22 0.10
Matches are distributed among these distances:
17 31 0.21
18 90 0.60
19 12 0.08
21 3 0.02
22 4 0.03
23 2 0.01
26 8 0.05
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.36
Consensus pattern (18 bp):
TTACTGAATAAATGATTA
Found at i:3585646 original size:21 final size:21
Alignment explanation
Indices: 3585595--3585685 Score: 65
Period size: 21 Copynumber: 4.5 Consensus size: 21
3585585 ATCATTTACT
3585595 TATTATAATATGT-AATTTATA
1 TATTATAATAT-TAAATTTATA
3585616 TACTTA-AATATTAAGATTTA-A
1 TA-TTATAATATTAA-ATTTATA
3585637 TATTATAATATTATAA--TATA
1 TATTATAATATTA-AATTTATA
*
3585657 TATTTTAACT-TTAAATTT-TA
1 TATTATAA-TATTAAATTTATA
3585677 TA--ATAATAT
1 TATTATAATAT
3585686 ACACCTTATG
Statistics
Matches: 58, Mismatches: 2, Indels: 23
0.70 0.02 0.28
Matches are distributed among these distances:
17 1 0.02
18 4 0.07
19 4 0.07
20 19 0.33
21 21 0.36
22 9 0.16
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (21 bp):
TATTATAATATTAAATTTATA
Found at i:3588660 original size:19 final size:19
Alignment explanation
Indices: 3588636--3588673 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
3588626 TTGTATATAA
3588636 AGTATTTCTCACAATCATT
1 AGTATTTCTCACAATCATT
3588655 AGTATTTCTCACAATCATT
1 AGTATTTCTCACAATCATT
3588674 CATTTATAAT
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:0.32, C:0.21, G:0.05, T:0.42
Consensus pattern (19 bp):
AGTATTTCTCACAATCATT
Found at i:3588908 original size:24 final size:25
Alignment explanation
Indices: 3588888--3588936 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
3588878 AGCGAGCCTA
3588888 TAATGGGTA-GCTCCGAAGAGCCAT
1 TAATGGGTAGGCTCCGAAGAGCCAT
* * *
3588912 TAATTGGTAGGCTCCGGATAGCCAT
1 TAATGGGTAGGCTCCGAAGAGCCAT
3588937 ATATCGGGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (25 bp):
TAATGGGTAGGCTCCGAAGAGCCAT
Found at i:3593927 original size:26 final size:24
Alignment explanation
Indices: 3593887--3593946 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
3593877 TTATTTCATT
* * *
3593887 AAATAAAAAAATTTAAAAATATAA
1 AAATAAATATATTTAAAAACATAA
3593911 TAAATCAAATATATTTAAAAACATAA
1 -AAAT-AAATATATTTAAAAACATAA
3593937 AAATAAATAT
1 AAATAAATAT
3593947 TAAAACAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.28
Consensus pattern (24 bp):
AAATAAATATATTTAAAAACATAA
Found at i:3593958 original size:22 final size:21
Alignment explanation
Indices: 3593917--3593972 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
3593907 ATAATAAATC
* *
3593917 AAATATAT-TTAAAAACATAA
1 AAATAAATATTAAAAAAATAA
3593937 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAA-AAATAA
*
3593959 AAAT-AATACTAAAA
1 AAATAAATATTAAAA
3593973 TAATTCTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.23
21 15 0.48
22 9 0.29
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (21 bp):
AAATAAATATTAAAAAAATAA
Found at i:3598898 original size:20 final size:21
Alignment explanation
Indices: 3598873--3598913 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
3598863 AAATATTCAA
* *
3598873 TTTTAATATTTTAAA-ATATT
1 TTTTAAAATTATAAATATATT
3598893 TTTTAAAATTATAAATATATT
1 TTTTAAAATTATAAATATATT
3598914 GAAAATAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TTTTAAAATTATAAATATATT
Found at i:3599401 original size:14 final size:15
Alignment explanation
Indices: 3599374--3599406 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
3599364 ATTTTTCCAA
3599374 AAAAAATTAATTTTT
1 AAAAAATTAATTTTT
*
3599389 AAAAAA-TATTTTTT
1 AAAAAATTAATTTTT
3599403 AAAA
1 AAAA
3599407 GTTATTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AAAAAATTAATTTTT
Found at i:3605334 original size:17 final size:17
Alignment explanation
Indices: 3605312--3605354 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
3605302 ATATGGGAGT
3605312 AAAT-AGTGATACAATGA
1 AAATAAGTGATA-AATGA
3605329 AAATAGAGTGATAAATGA
1 AAATA-AGTGATAAATGA
*
3605347 AATTAAGT
1 AAATAAGT
3605355 AAGATTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 7 0.30
18 9 0.39
19 7 0.30
ACGTcount: A:0.53, C:0.02, G:0.19, T:0.26
Consensus pattern (17 bp):
AAATAAGTGATAAATGA
Found at i:3606212 original size:16 final size:15
Alignment explanation
Indices: 3606191--3606237 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
3606181 ATGTCAATGT
*
3606191 TTATAAAATAGATAGA
1 TTATAAAATAAATA-A
*
3606207 TTATAAATTAAATAA
1 TTATAAAATAAATAA
*
3606222 TTAT-AAATAAAAAA
1 TTATAAAATAAATAA
3606236 TT
1 TT
3606238 TTCCGATGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 10 0.37
15 5 0.19
16 12 0.44
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (15 bp):
TTATAAAATAAATAA
Found at i:3606224 original size:15 final size:16
Alignment explanation
Indices: 3606191--3606229 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
3606181 ATGTCAATGT
* *
3606191 TTATAAAATAGATAGA
1 TTATAAATTAAATAGA
3606207 TTATAAATTAAATA-A
1 TTATAAATTAAATAGA
3606222 TTATAAAT
1 TTATAAAT
3606230 AAAAAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (16 bp):
TTATAAATTAAATAGA
Found at i:3610724 original size:12 final size:12
Alignment explanation
Indices: 3610704--3610736 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
3610694 ATAAATTTAG
*
3610704 ATTTTTAAATCT
1 ATTTCTAAATCT
3610716 ATTTCTAAATCT
1 ATTTCTAAATCT
3610728 ATTTCTAAA
1 ATTTCTAAA
3610737 AATAAATCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (12 bp):
ATTTCTAAATCT
Found at i:3610867 original size:27 final size:27
Alignment explanation
Indices: 3610829--3610891 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
3610819 GAATTGATTT
3610829 TGTTTGTCTCTGTGACACGCTTCTCTC
1 TGTTTGTCTCTGTGACACGCTTCTCTC
*
3610856 TGTTTGTCTCTGTGACATGCTTCTCTC
1 TGTTTGTCTCTGTGACACGCTTCTCTC
*
3610883 TGTCTGTCT
1 TGTTTGTCT
3610892 TTTTTTTCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.06, C:0.27, G:0.19, T:0.48
Consensus pattern (27 bp):
TGTTTGTCTCTGTGACACGCTTCTCTC
Found at i:3619578 original size:3 final size:3
Alignment explanation
Indices: 3619572--3619641 Score: 79
Period size: 3 Copynumber: 22.0 Consensus size: 3
3619562 AATAGGGGTT
*
3619572 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA CA-A ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
3619617 ATA ATA CATA TATA TATA TATA ATA
1 ATA ATA -ATA -ATA -ATA -ATA ATA
3619642 GTAGTCAGAA
Statistics
Matches: 62, Mismatches: 2, Indels: 6
0.89 0.03 0.09
Matches are distributed among these distances:
2 1 0.02
3 46 0.74
4 15 0.24
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:3619729 original size:3 final size:3
Alignment explanation
Indices: 3619716--3619798 Score: 50
Period size: 3 Copynumber: 27.3 Consensus size: 3
3619706 AAGGGTATAT
3619716 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* * *
3619760 ATA ATA ATA AT- ATAA ATA TTA GTA AAA ATA ATA A-A ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA A
3619799 AAAAATAAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 18
0.72 0.08 0.20
Matches are distributed among these distances:
2 9 0.14
3 44 0.69
4 9 0.14
5 2 0.03
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:3619789 original size:27 final size:27
Alignment explanation
Indices: 3619735--3619797 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
3619725 TAATAATATA
*
3619735 AATAATAATATATACATGAGAAATAAT
1 AATAATAATATAAACATGAGAAATAAT
* *
3619762 AATAATAATATAAATATTAGTAAA-AAT
1 AATAATAATATAAACATGAG-AAATAAT
3619789 AATAA-AATA
1 AATAATAATA
3619798 AAAAAATAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 4 0.12
27 25 0.78
28 3 0.09
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (27 bp):
AATAATAATATAAACATGAGAAATAAT
Found at i:3620337 original size:30 final size:30
Alignment explanation
Indices: 3620303--3620388 Score: 147
Period size: 30 Copynumber: 2.9 Consensus size: 30
3620293 ATTTGATGGT
3620303 GTAGGTGCAAGTGGGAGACAAGGTGGTGGA
1 GTAGGTGCAAGTGGGAGACAAGGTGGTGGA
*
3620333 GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
1 GTAGGTGCAAGTGGGAGACAAGGTGGTGGA
3620363 GTAGGTGCAAGTGGGA-AGCAAGGTGG
1 GTAGGTGCAAGTGGGAGA-CAAGGTGG
3620389 CTAGGGTTTT
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.26, C:0.07, G:0.51, T:0.16
Consensus pattern (30 bp):
GTAGGTGCAAGTGGGAGACAAGGTGGTGGA
Found at i:3621012 original size:43 final size:42
Alignment explanation
Indices: 3620957--3621105 Score: 140
Period size: 43 Copynumber: 3.4 Consensus size: 42
3620947 GATCTGTTTC
3620957 CCTACTGCTTAGGGTGTTAAGATCTGTAAATTTAGCCTGTTAT
1 CCTACTGCTTAGGG-GTTAAGATCTGTAAATTTAGCCTGTTAT
* * * ** * *
3621000 CCTACTGTTTAGGGGTTAAG-GCTTGTCACCTTCGATCTGTT-T
1 CCTACTGCTTAGGGGTTAAGATC-TGTAAATTTAG-CCTGTTAT
*
3621042 CCCTACTGCTTAGGGGGTTTAAGATCTGTAAATCTTCAGCCTGTTAC
1 -CCTACTGCTTA-GGGG-TTAAGATCTGTAAAT-TT-AGCCTGTTAT
3621089 CCTACTGCTTAGGGGTT
1 CCTACTGCTTAGGGGTT
3621106 TAAGGCTTGT
Statistics
Matches: 82, Mismatches: 15, Indels: 17
0.72 0.13 0.15
Matches are distributed among these distances:
41 1 0.01
42 14 0.17
43 28 0.34
44 6 0.07
45 13 0.16
46 19 0.23
47 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.38
Consensus pattern (42 bp):
CCTACTGCTTAGGGGTTAAGATCTGTAAATTTAGCCTGTTAT
Found at i:3621035 original size:86 final size:86
Alignment explanation
Indices: 3620910--3621935 Score: 980
Period size: 86 Copynumber: 11.9 Consensus size: 86
3620900 TTCAGCTTGG
* * *
3620910 TACCTTACTGCTTAGGGGTTTAAGGCCCATCGTCTTCGATCTGTTTCCCTACTGCTTAGGGTGTT
1 TACCCTACTGCTTAGGGGTTTAAGG-CCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGAGTT
3620975 AAGATCTGTAAATTTAGCCTGT
65 AAGATCTGTAAATTTAGCCTGT
* * * ** *
3620997 TATCCTACTGTTTAGGGG-TTAAGGCTTGTCACCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
1 TACCCTACTGCTTAGGGGTTTAAGGCCT-TCGTCTTCGATCTGTTTCCCTACTGCTTAGGGAG-T
3621061 TAAGATCTGTAAATCTTCAGCCTGT
64 TAAGATCTGTAAAT-TT-AGCCTGT
* ** **
3621086 TACCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTGTTTCCCTACTATTTA--G-G--
1 TACCCTACTGCTTAGGGGTTTAAGGCCT-TCGTCTTCGATCTGTTTCCCTACTGCTTAGGGAGTT
* *
3621146 --G-TCTGTATATTTAACCTGT
65 AAGATCTGTAAATTTAGCCTGT
*
3621165 TACCCTACTGCTTAGGGGTTTAAGG-CTTACCGTCTTTGATCTGTTTCCCTACTGCTTAAGGG-G
1 TACCCTACTGCTTAGGGGTTTAAGGCCTT--CGTCTTCGATCTGTTTCCCTACTGCTT-AGGGAG
*
3621228 TTAAGATCTGTAAATTCAGCCTGT
63 TTAAGATCTGTAAATTTAGCCTGT
* * * * *
3621252 TACCCTATTGCTTAAGGGTTTAAGGCCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
1 TACCCTACTGCTTAGGGGTTTAAGG-CCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGAGTT
* *
3621317 AAGATCTATAAATTCAGCCTGT
65 AAGATCTGTAAATTTAGCCTGT
* * * * * *
3621339 TACCCTATTGCTTAGAGGG-TTAGGGTCCATCGCCTTTGATCTGTTTCCCTACTGCTTAGGGGGT
1 TACCCTACTGCTTAG-GGGTTTAAGG-CCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGAGT
* * *
3621403 TAAGATCTATAAATTCAACCTGT
64 TAAGATCTGTAAATTTAGCCTGT
* ** * * *
3621426 TACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTTAATCTG-CTCCATTACTGCTTAGGGAGA
1 TACCCTACTGCTTAGGGGTTTAAG-GCCTTCGTCTTCGATCTGTTTCC-CTACTGCTTAGGGAGT
* * *
3621490 TAAGATCTG-CAATTTGGTCTGT
64 TAAGATCTGTAAATTTAGCCTGT
* * *
3621512 TACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTAAGGGGGTT
1 TACCCTACTGCTTAGGGGTTTAAG-GCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGAGTT
* *
3621577 AAGGTCTAG-AAATTCAGCCTGT
65 AAGATCT-GTAAATTTAGCCTGT
* ** * *
3621599 TACCCTACTGCTTAGGGGTTTAAGGCCCTTCATCTTTAATCTG-CTCCACTACTGCTTAGGGAGA
1 TACCCTACTGCTTAGGGGTTTAAGG-CCTTCGTCTTCGATCTGTTTCC-CTACTGCTTAGGGAGT
* * *
3621663 TAAGATCTG-CAATTTGGTCTGT
64 TAAGATCTGTAAATTTAGCCTGT
** * *
3621685 TACCCTACTGCTTAGGGGTTTAAAACCCTTCGTCTTCGATCTG-CTCCACTACTGCTTAGGGAGA
1 TACCCTACTGCTTAGGGGTTT-AAGGCCTTCGTCTTCGATCTGTTTCC-CTACTGCTTAGGGAGT
* * *
3621749 TAAGATCT-TCAATTTGGTCTGT
64 TAAGATCTGTAAATTTAGCCTGT
* * **
3621771 TACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTG-CTCCACTACTGCTTAGGGAAA
1 TACCCTACTGCTTAGGGGTTTAAG-GCCTTCGTCTTCGATCTGTTTCC-CTACTGCTTAGGGAGT
** *
3621835 TAAGATC--TACAATTCGGTCTGT
64 TAAGATCTGTA-AATTTAGCCTGT
* ** * * * *
3621857 TACCCTACTGCTTAGGGGTTTAAGGCCCATCAACCTCGATTTGTTTCCCTACTACTTAGGGAGAT
1 TACCCTACTGCTTAGGGGTTTAAGG-CCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGAGTT
*
3621922 AAGATCTGCAAATT
65 AAGATCTGTAAATT
3621936 CACTGATTCT
Statistics
Matches: 811, Mismatches: 94, Indels: 68
0.83 0.10 0.07
Matches are distributed among these distances:
77 1 0.00
78 1 0.00
79 53 0.07
80 3 0.00
81 8 0.01
82 3 0.00
85 4 0.00
86 340 0.42
87 329 0.41
88 7 0.01
89 25 0.03
90 37 0.05
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (86 bp):
TACCCTACTGCTTAGGGGTTTAAGGCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGAGTTA
AGATCTGTAAATTTAGCCTGT
Found at i:3621145 original size:44 final size:44
Alignment explanation
Indices: 3620915--3621319 Score: 202
Period size: 44 Copynumber: 9.4 Consensus size: 44
3620905 CTTGGTACCT
*** **
3620915 TACTGCTTAGGGGTTTAAGGCCCATCGTCTTCGATCTGTTTCCC
1 TACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTGTTTCCC
* * ** * *
3620959 TACTGCTTA-GGGTGTTAA-GATCTGTAAATTTAG-CCTGTTAT-CC
1 TACTGCTTAGGGGT-TTAAGGCT-TGTCACCTTCGATCTGTT-TCCC
*
3621002 TACTGTTTAGGGG-TTAAGGCTTGTCACCTTCGATCTGTTTCCC
1 TACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTGTTTCCC
* * * * *
3621045 TACTGCTTAGGGGGTTTAA-GATCTGTAAATCTTC-AGCCTGTTACCC
1 TACTGCTTA-GGGGTTTAAGGCT-TGT-CACCTTCGA-TCTGTTTCCC
3621091 TACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTGTTTCCC
1 TACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTGTTTCCC
** ** ** * *
3621135 TACTATTTA-GGG--T----C-TGT-ATATTTAACCTGTTACCC
1 TACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTGTTTCCC
** ** *
3621170 TACTGCTTAGGGGTTTAAGGCTTACCGTCTTTGATCTGTTTCCC
1 TACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTGTTTCCC
* ** * *
3621214 TACTGCTTAAGGGG-TTAA-GATCTGT-AAATTC-AGCCTGTTACCC
1 TACTGCTT-AGGGGTTTAAGGCT-TGTCACCTTCGA-TCTGTTTCCC
* * *** *
3621257 TATTGCTTAAGGGTTTAAGGCCCATCGCCTTCGATCTGTTTCCC
1 TACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTGTTTCCC
*
3621301 TACTGCTTAGGGGGTTAAG
1 TACTGCTTAGGGGTTTAAG
3621320 ATCTATAAAT
Statistics
Matches: 263, Mismatches: 68, Indels: 60
0.67 0.17 0.15
Matches are distributed among these distances:
35 19 0.07
36 6 0.02
37 1 0.00
38 1 0.00
41 1 0.00
42 18 0.07
43 65 0.25
44 101 0.38
45 27 0.10
46 24 0.09
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (44 bp):
TACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTGTTTCCC
Found at i:3621266 original size:43 final size:43
Alignment explanation
Indices: 3621205--3621450 Score: 185
Period size: 43 Copynumber: 5.7 Consensus size: 43
3621195 CGTCTTTGAT
* *
3621205 CTGTTTCCCTACTGCTTAAGGGGTTAAGATCTGTAAATTCAGC
1 CTGTTACCCTACTGCTTAAGGGGTTAAGATCTATAAATTCAGC
* * ** * *** *
3621248 CTGTTACCCTATTGCTTAAGGGTTTAAGGCCCATCGCCTTC-GAT
1 CTGTTACCCTACTGCTTAAGGGGTTAAGATCTAT-AAATTCAG-C
* *
3621292 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTATAAATTCAGC
1 CTGTTACCCTACTGCTTAAGGGGTTAAGATCTATAAATTCAGC
* * * * *** * *
3621335 CTGTTACCCTATTGCTT-AGAGGGTTAGGGTCCATCGCCTT-TGAT
1 CTGTTACCCTACTGCTTAAG-GGGTTAAGATCTAT-AAATTCAG-C
* * *
3621379 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTATAAATTCAAC
1 CTGTTACCCTACTGCTTAAGGGGTTAAGATCTATAAATTCAGC
3621422 CTGTTACCCTACTGCTT-AGGGGTTTAAGA
1 CTGTTACCCTACTGCTTAAGGGG-TTAAGA
3621451 CCCTTCGTCT
Statistics
Matches: 147, Mismatches: 47, Indels: 18
0.69 0.22 0.08
Matches are distributed among these distances:
42 5 0.03
43 82 0.56
44 59 0.40
45 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.35
Consensus pattern (43 bp):
CTGTTACCCTACTGCTTAAGGGGTTAAGATCTATAAATTCAGC
Found at i:3621592 original size:173 final size:172
Alignment explanation
Indices: 3620900--3621937 Score: 955
Period size: 173 Copynumber: 6.0 Consensus size: 172
3620890 AGTTGTAATT
* * * * * * *
3620900 TTCAGCTTGGTACCTTACTGCTTAGGGGTTTAAGGCCCATCGTCTTCGATCTGTTTCC-CTACTG
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCAATCTG-CTCCACTACTG
* * * ** * * * * *
3620964 CTTAGGGTGTTAAGATCTGTAAATTTAGCCTGTTATCCTACTGTTTAGGGG-TTAAG-GCTTGTC
65 CTTAGGGAGATAAGATCTG-CAATTCGGTCTGTTACCCTACTGCTTAGGGGTTTAAGACCCT-TC
** *
3621027 ACCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTTAAGATCTGTAAA
128 GTCTTCGATCTGTTTCCCTACTGCTAAGGGGG-TTAAGATCTG-AAA
* * ** * *
3621074 TCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAG-GCTTGTCACCTTCGATCTGTTTCC-CTA
1 --TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGACCCT-TCGTCTTCAATCTG-CTCCACTA
** * * * *
3621137 CTATTTAGGGTCTG-T-ATAT-T-TAA--C---CTGTTACCCTACTGCTTAGGGGTTTAAG--GC
62 CTGCTTAGGG--AGATAAGATCTGCAATTCGGTCTGTTACCCTACTGCTTAGGGGTTTAAGACCC
*
3621191 TTACCGTCTTTGATCTGTTTCCCTACTGCTTAA-GGGGTTAAGATCTGTAAA
125 TT--CGTCTTCGATCTGTTTCCCTACTGC-TAAGGGGGTTAAGATCTG-AAA
* * * * * * *
3621242 TTCAGCCTGTTACCCTATTGCTTAAGGGTTTAAGGCCCATCGCCTTCGATCTGTTTCC-CTACTG
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCAATCTG-CTCCACTACTG
* * ** * * * * ** *
3621306 CTTAGGGGGTTAAGATCTATAAATTCAGCCTGTTACCCTATTGCTTAGAGGG-TTAGGGTCCATC
65 CTTAGGGAGATAAGATCT-GCAATTCGGTCTGTTACCCTACTGCTTAG-GGGTTTAAGACCCTTC
* * * *
3621370 GCCTTTGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTATAAA
128 GTCTTCGATCTGTTTCCCTACTGCTAAGGGGGTTAAGATCT-GAAA
* * *
3621416 TTCAACCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTTAATCTGCTCCATTACTGC
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCAATCTGCTCCACTACTGC
*
3621481 TTAGGGAGATAAGATCTGCAATTTGGTCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTC
66 TTAGGGAGATAAGATCTGCAATTCGGTCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTC
*
3621546 TTCGATCTGTTTCCCTACTGCTAAGGGGGTTAAGGTCTAGAAA
131 TTCGATCTGTTTCCCTACTGCTAAGGGGGTTAAGATCT-GAAA
* * *
3621589 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCATCTTTAATCTGCTCCACTACTGC
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCAATCTGCTCCACTACTGC
* *
3621654 TTAGGGAGATAAGATCTGCAATTTGGTCTGTTACCCTACTGCTTAGGGGTTTAAAACCCTTCGTC
66 TTAGGGAGATAAGATCTGCAATTCGGTCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTC
* * * * **
3621719 TTCGATCTG-CTCCACTACTGCTTAGGGAGATAAGATCTTCAA
131 TTCGATCTGTTTCC-CTACTGCTAAGGGGGTTAAGATCTGAAA
** * *
3621761 TTTGGTCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGCTCCACTACTGC
1 TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCAATCTGCTCCACTACTGC
* * * * **
3621826 TTAGGGAAATAAGATCTACAATTCGGTCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCAAC
66 TTAGGGAGATAAGATCTGCAATTCGGTCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTC
* * * * * *
3621891 CTCGATTTGTTTCCCTACTACTTAGGGAGATAAGATCTGCAAA
131 TTCGATCTGTTTCCCTACTGCTAAGGGGGTTAAGATCTG-AAA
3621934 TTCA
1 TTCA
3621938 CTGATTCTAG
Statistics
Matches: 733, Mismatches: 101, Indels: 59
0.82 0.11 0.07
Matches are distributed among these distances:
164 1 0.00
165 1 0.00
166 64 0.09
167 3 0.00
168 35 0.05
169 33 0.05
170 2 0.00
171 1 0.00
172 153 0.21
173 240 0.33
174 128 0.17
175 5 0.01
176 64 0.09
177 1 0.00
178 2 0.00
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (172 bp):
TTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCAATCTGCTCCACTACTGC
TTAGGGAGATAAGATCTGCAATTCGGTCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTC
TTCGATCTGTTTCCCTACTGCTAAGGGGGTTAAGATCTGAAA
Found at i:3621616 original size:43 final size:43
Alignment explanation
Indices: 3621204--3621880 Score: 237
Period size: 44 Copynumber: 15.7 Consensus size: 43
3621194 CCGTCTTTGA
* *
3621204 TCTGTTTCCCTACTGCTTAAGGGGTTAAGATCT-GTAAATTCAG
1 TCTGTTACCCTACTGCTTAGGGGGTTAAGATCTCG-AAATTCAG
* * * * ** **
3621247 CCTGTTACCCTATTGCTTAAGGGTTTAAGGCCCATCG-CCTTC-G
1 TCTGTTACCCTACTGCTTAGGGGGTTAA-GATC-TCGAAATTCAG
* **
3621290 ATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTATAAATTCAG
1 -TCTGTTACCCTACTGCTTAGGGGGTTAAGATCTCGAAATTCAG
* * * * * *** *
3621334 CCTGTTACCCTATTGCTTAGAGGGTTAGGGTCCATCGCCTTTGA-
1 TCTGTTACCCTACTGCTTAGGGGGTTAAGAT-C-TCGAAATTCAG
* ** *
3621378 TCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTATAAATTCAA
1 TCTGTTACCCTACTGCTTAGGGGGTTAAGATCTCGAAATTCAG
* * * ** * *
3621421 CCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCG-TCTTTAA
1 TCTGTTACCCTACTGCTTAGGGGGTTAAGA-TC-TCGAAATTCAG
* * * * * **
3621465 TCTGCT-CCATTACTGCTTAGGGAGATAAGATCT-GCAATTTGG
1 TCTGTTACC-CTACTGCTTAGGGGGTTAAGATCTCGAAATTCAG
* * **
3621507 TCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCG-TCTTC-G
1 TCTGTTACCCTACTGCTTAGGGGGTTAAGA-TC-TCGAAATTCAG
* * * *
3621550 ATCTGTTTCCCTACTGCTAAGGGGGTTAAGGTCTAGAAATTCAG
1 -TCTGTTACCCTACTGCTTAGGGGGTTAAGATCTCGAAATTCAG
* * ** ** * *
3621594 CCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCTTC-ATCTTTAA
1 TCTGTTACCCTACTGCTTAGGGGGTTAA-GATC-TCGAAATTCAG
* * * * **
3621638 TCTGCT-CCACTACTGCTTAGGGAGATAAGATCT-GCAATTTGG
1 TCTGTTACC-CTACTGCTTAGGGGGTTAAGATCTCGAAATTCAG
* * * **
3621680 TCTGTTACCCTACTGCTTAGGGGTTTAAAACCCTTCG-TCTTC-G
1 TCTGTTACCCTACTGCTTAGGGGGTTAAGA-TC-TCGAAATTCAG
* * * **
3621723 ATCTGCT-CCACTACTGCTTAGGGAGATAAGATCTTC--AATTTGG
1 -TCTGTTACC-CTACTGCTTAGGGGGTTAAGATC-TCGAAATTCAG
* * **
3621766 TCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCG-TCTTC-G
1 TCTGTTACCCTACTGCTTAGGGGGTTAAGA-TC-TCGAAATTCAG
* *** *
3621809 ATCTGCT-CCACTACTGCTTAGGGAAATAAGATCT--ACAATTCGG
1 -TCTGTTACC-CTACTGCTTAGGGGGTTAAGATCTCGA-AATTCAG
*
3621852 TCTGTTACCCTACTGCTTAGGGGTTTAAG
1 TCTGTTACCCTACTGCTTAGGGGGTTAAG
3621881 GCCCATCAAC
Statistics
Matches: 454, Mismatches: 140, Indels: 81
0.67 0.21 0.12
Matches are distributed among these distances:
41 1 0.00
42 110 0.24
43 146 0.32
44 187 0.41
45 9 0.02
46 1 0.00
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (43 bp):
TCTGTTACCCTACTGCTTAGGGGGTTAAGATCTCGAAATTCAG
Found at i:3633599 original size:2 final size:2
Alignment explanation
Indices: 3633587--3633622 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
3633577 AATAATACTG
* *
3633587 TA TA TA AA TA 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
3633623 ATAGAAATAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:3633987 original size:3 final size:3
Alignment explanation
Indices: 3633974--3634056 Score: 59
Period size: 3 Copynumber: 27.3 Consensus size: 3
3633964 GAGGGTATAT
3633974 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* *
3634018 ATA ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA A
3634057 AAAAATAAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
2 9 0.14
3 45 0.69
4 9 0.14
5 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:3633998 original size:12 final size:12
Alignment explanation
Indices: 3633974--3634057 Score: 75
Period size: 12 Copynumber: 6.8 Consensus size: 12
3633964 GAGGGTATAT
3633974 ATAATAT-AATA
1 ATAATATAAATA
3633985 ATAATATAAATA
1 ATAATATAAATA
3633997 ATAATATATACATGA
1 ATAATATA-A-AT-A
3634012 GA-AATA-ATAATA
1 -ATAATATA-AATA
3634024 ATAATATAAATA
1 ATAATATAAATA
* *
3634036 ATAGTAAAAATA
1 ATAATATAAATA
*
3634048 ATAAAATAAA
1 ATAATATAAA
3634058 AAAATAAAAC
Statistics
Matches: 61, Mismatches: 5, Indels: 13
0.77 0.06 0.16
Matches are distributed among these distances:
11 8 0.13
12 38 0.62
13 4 0.07
14 5 0.08
15 5 0.08
16 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:3634018 original size:21 final size:18
Alignment explanation
Indices: 3633979--3634038 Score: 75
Period size: 18 Copynumber: 3.2 Consensus size: 18
3633969 TATATATAAT
*
3633979 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
3633997 ATAATATATACATGAGAAATA
1 ATAATA-ATA-AT-AGAAATA
*
3634018 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
3634036 ATA
1 ATA
3634039 GTAAAAATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
18 15 0.41
19 5 0.14
20 5 0.14
21 12 0.32
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (18 bp):
ATAATAATAATAGAAATA
Found at i:3634321 original size:12 final size:12
Alignment explanation
Indices: 3634295--3634327 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
3634285 TTATATGTAC
3634295 AAAAAAAAAGTG
1 AAAAAAAAAGTG
3634307 AAAATAAAAAG-G
1 AAAA-AAAAAGTG
3634319 AAAAAAAAA
1 AAAAAAAAA
3634328 TAAAAACCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 5 0.25
12 9 0.45
13 6 0.30
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (12 bp):
AAAAAAAAAGTG
Found at i:3635759 original size:39 final size:39
Alignment explanation
Indices: 3635716--3635793 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
3635706 CTATAAAACC
3635716 AATGTGATTTTAGACACTTTTATAATTTTTTATAATTAA
1 AATGTGATTTTAGACACTTTTATAATTTTTTATAATTAA
3635755 AATGTGATTTTAGACACTTTTATAATTTTTTATAATTAA
1 AATGTGATTTTAGACACTTTTATAATTTTTTATAATTAA
3635794 TCTTTTAATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.36, C:0.05, G:0.08, T:0.51
Consensus pattern (39 bp):
AATGTGATTTTAGACACTTTTATAATTTTTTATAATTAA
Found at i:3637947 original size:28 final size:28
Alignment explanation
Indices: 3637876--3637959 Score: 105
Period size: 28 Copynumber: 2.9 Consensus size: 28
3637866 TAATAAGTTG
** *
3637876 TTATATTTTTGTAAATTTAAAATTTTGTTT
1 TTATATTTTT-TATTTTTAAAATTTT-ATT
* *
3637906 TTATATTTTATATTTTTAGAATTTTATT
1 TTATATTTTTTATTTTTAAAATTTTATT
3637934 TTATATTTTTTATTTTTAAAATTTTA
1 TTATATTTTTTATTTTTAAAATTTTA
3637960 AAATTTAAGT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
28 26 0.55
29 12 0.26
30 9 0.19
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.67
Consensus pattern (28 bp):
TTATATTTTTTATTTTTAAAATTTTATT
Found at i:3642755 original size:29 final size:29
Alignment explanation
Indices: 3642696--3642758 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
3642686 AGCTACTTAG
* *
3642696 AATTTAGTTTTTTTATTTTTAATTGTATA
1 AATTTAATTTTTTTATTTTAAATTGTATA
*
3642725 AATTTAATTTTTTTACTTTTCAAATTTTA-A
1 AATTTAATTTTTTTA-TTTT-AAATTGTATA
3642755 AATT
1 AATT
3642759 GAAATCTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 14 0.48
30 9 0.31
31 6 0.21
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (29 bp):
AATTTAATTTTTTTATTTTAAATTGTATA
Found at i:3643085 original size:29 final size:30
Alignment explanation
Indices: 3643048--3643128 Score: 78
Period size: 31 Copynumber: 2.7 Consensus size: 30
3643038 TTTTTATCAT
* *
3643048 TCAATTATGATTTTTTTTAATTT-AGTTAC
1 TCAACTATGATTTTTTTTAATTTAAGTCAC
3643077 TCAACTATGAATTTGTTTCTT--TTTAAGTCAC
1 TCAACTATG-ATTT-TTT-TTAATTTAAGTCAC
*
3643108 TCAACTATTAATTTTTTTTAA
1 TCAACTA-TGATTTTTTTTAA
3643129 ATTGATCATC
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
29 10 0.24
30 10 0.24
31 19 0.45
32 3 0.07
ACGTcount: A:0.28, C:0.11, G:0.06, T:0.54
Consensus pattern (30 bp):
TCAACTATGATTTTTTTTAATTTAAGTCAC
Done.