Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 62 of 228
Found at i:18709572 original size:5 final size:5
Alignment explanation
Indices: 18709564--18709638 Score: 55
Period size: 5 Copynumber: 14.6 Consensus size: 5
18709554 ACCTTTTTTT
* * *
18709564 TTTCA TTTCA TTTCA TTT-- TTTTA TTTCA TTTCA TTCTAA TTTTA TTTCCA
1 TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TT-TCA TTTCA TTT-CA
* *
18709614 TTACCA TTTCCC TTTCA TTTCA TTT
1 TT-TCA TTT-CA TTTCA TTTCA TTT
18709639 AAAATATTAT
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
3 3 0.05
5 38 0.68
6 15 0.27
ACGTcount: A:0.19, C:0.20, G:0.00, T:0.61
Consensus pattern (5 bp):
TTTCA
Found at i:18709584 original size:18 final size:18
Alignment explanation
Indices: 18709561--18709598 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
18709551 GGCACCTTTT
18709561 TTTTTTCATTTCATTTCA
1 TTTTTTCATTTCATTTCA
*
18709579 TTTTTTTATTTCATTTCA
1 TTTTTTCATTTCATTTCA
18709597 TT
1 TT
18709599 CTAATTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.13, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTTTCATTTCATTTCA
Found at i:18709606 original size:23 final size:23
Alignment explanation
Indices: 18709557--18709606 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
18709547 GCCTGGCACC
* *
18709557 TTTTTTTTTTCATTTCATTTCAT
1 TTTTTTATTTCATTTCATTTCAA
18709580 TTTTTTATTTCATTTCA-TTCTAA
1 TTTTTTATTTCATTTCATTTC-AA
18709603 TTTT
1 TTTT
18709607 ATTTCCATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 3 0.12
23 21 0.88
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (23 bp):
TTTTTTATTTCATTTCATTTCAA
Found at i:18709767 original size:53 final size:53
Alignment explanation
Indices: 18709725--18709977 Score: 470
Period size: 53 Copynumber: 4.8 Consensus size: 53
18709715 AACTTTTTTG
18709725 CATTTCATTTTATATTTAAATTTTCTATTTTCAATGCAAATTTATTTTTTTCT
1 CATTTCATTTTATATTTAAATTTTCTATTTTCAATGCAAATTTATTTTTTTCT
*
18709778 CATTTCATTTTATATTTAAATTTTCTATTTTCAATGCAAAATTATTTTTTTCT
1 CATTTCATTTTATATTTAAATTTTCTATTTTCAATGCAAATTTATTTTTTTCT
18709831 CATTTCATTTTATATTTAAATTTTCTATTTTCAATGCAAATTTATTTTTTTTCT
1 CATTTCATTTTATATTTAAATTTTCTATTTTCAATGCAAATTTA-TTTTTTTCT
*
18709885 CATTTCATTTTATATTTAAATTTTCTATTTTCAATGCATATTTATTTTTTTCT
1 CATTTCATTTTATATTTAAATTTTCTATTTTCAATGCAAATTTATTTTTTTCT
*
18709938 CATTTCATTTTATATTTAAATTTTCTATTTTCAATTCAAA
1 CATTTCATTTTATATTTAAATTTTCTATTTTCAATGCAAA
18709978 ATTTTTCTCC
Statistics
Matches: 194, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
53 142 0.73
54 52 0.27
ACGTcount: A:0.27, C:0.11, G:0.02, T:0.60
Consensus pattern (53 bp):
CATTTCATTTTATATTTAAATTTTCTATTTTCAATGCAAATTTATTTTTTTCT
Found at i:18709820 original size:107 final size:107
Alignment explanation
Indices: 18709725--18709977 Score: 472
Period size: 107 Copynumber: 2.4 Consensus size: 107
18709715 AACTTTTTTG
18709725 CATTTCATTTTATATTTAAATTTTCTATTTTCAATGCAAATTTA-TTTTTTTCTCATTTCATTTT
1 CATTTCATTTTATATTTAAATTTTCTATTTTCAATGCAAATTTATTTTTTTTCTCATTTCATTTT
*
18709789 ATATTTAAATTTTCTATTTTCAATGCAAAATTATTTTTTTCT
66 ATATTTAAATTTTCTATTTTCAATGCAAATTTATTTTTTTCT
18709831 CATTTCATTTTATATTTAAATTTTCTATTTTCAATGCAAATTTATTTTTTTTCTCATTTCATTTT
1 CATTTCATTTTATATTTAAATTTTCTATTTTCAATGCAAATTTATTTTTTTTCTCATTTCATTTT
*
18709896 ATATTTAAATTTTCTATTTTCAATGCATATTTATTTTTTTCT
66 ATATTTAAATTTTCTATTTTCAATGCAAATTTATTTTTTTCT
*
18709938 CATTTCATTTTATATTTAAATTTTCTATTTTCAATTCAAA
1 CATTTCATTTTATATTTAAATTTTCTATTTTCAATGCAAA
18709978 ATTTTTCTCC
Statistics
Matches: 143, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
106 44 0.31
107 99 0.69
ACGTcount: A:0.27, C:0.11, G:0.02, T:0.60
Consensus pattern (107 bp):
CATTTCATTTTATATTTAAATTTTCTATTTTCAATGCAAATTTATTTTTTTTCTCATTTCATTTT
ATATTTAAATTTTCTATTTTCAATGCAAATTTATTTTTTTCT
Found at i:18712493 original size:50 final size:50
Alignment explanation
Indices: 18712336--18712680 Score: 324
Period size: 51 Copynumber: 6.8 Consensus size: 50
18712326 TTGATAAATT
* * * * *
18712336 TGGTACCGGGCATTGACAAGCCAGCACCC--AATTTTTTTTGTATAAAGG
1 TGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTCGTATAGAGG
* * *
18712384 TGGTGCCGGCCATTGACAAGCCAGCACCCAAATTTTTTTTTTGTATAGAGG
1 TGGTGCCGGCCATTGACAGGCCAGCACCCAAA-ATTTTTTTCGTATAGAGG
*
18712435 TGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTCATATAGAGG
1 TGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTCGTATAGAGG
* * * * **
18712485 TGGTGCCGGCCATTGACAGACCAGCACCTAAATTTTTTTCTTTTCGTTTTCCTAGG
1 TGGTGCCGGCCATTGACAGGCCAGCACCCAAA---ATTT-TTTTCG-TAT-AGAGG
18712541 TGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTTCGTAT--AGG
1 TGGTGCCGGCCATTGACAGGCCAGCACCCAAAA---TTTTTTTCGTATAGAGG
* * * **
18712592 TGGTGCCGACCATTGACAGGCCAACACCCACAAATTTTTTTCGTTTTCCTAGG
1 TGGTGCCGGCCATTGACAGGCCAGCACCCA-AAATTTTTTTCG-TAT-AGAGG
* **
18712645 TGGTGTCGGCCATTGACAGGGTAGCA-CC-AAATTTTT
1 TGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTT
18712681 GTGTGTGTGT
Statistics
Matches: 253, Mismatches: 27, Indels: 32
0.81 0.09 0.10
Matches are distributed among these distances:
48 27 0.11
49 9 0.04
50 56 0.22
51 78 0.31
52 5 0.02
53 27 0.11
54 7 0.03
55 8 0.03
56 36 0.14
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (50 bp):
TGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTCGTATAGAGG
Found at i:18712549 original size:56 final size:55
Alignment explanation
Indices: 18712482--18712680 Score: 234
Period size: 56 Copynumber: 3.7 Consensus size: 55
18712472 TTTCATATAG
* *
18712482 AGGTGGTGCCGGCCATTGACAGACCAGCACCTAAATTTTTTTCTTTTCGTTTTCCT
1 AGGTGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTT-TTTTCGTTTTCCT
* *
18712538 AGGTGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTTCG---T-AT
1 AGGTGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTTTTCGTTTTCCT
* * *
18712589 AGGTGGTGCCGACCATTGACAGGCCAACACCCACAA---ATTTTTTTCGTTTTCCT
1 AGGTGGTGCCGGCCATTGACAGGCCAGCACCCA-AATTTTTTTTTTTCGTTTTCCT
* **
18712642 AGGTGGTGTCGGCCATTGACAGGGTAGCA-CCAAATTTTT
1 AGGTGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTT
18712681 GTGTGTGTGT
Statistics
Matches: 121, Mismatches: 14, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
49 9 0.07
51 34 0.28
52 7 0.06
53 25 0.21
54 1 0.01
55 6 0.05
56 39 0.32
ACGTcount: A:0.21, C:0.24, G:0.23, T:0.32
Consensus pattern (55 bp):
AGGTGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTTTTCGTTTTCCT
Found at i:18713349 original size:33 final size:34
Alignment explanation
Indices: 18713312--18713377 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 34
18713302 GTTCTTCAAC
* * * *
18713312 TTTTATAAATATTAAAA-ATTCAATTAATCTTAG
1 TTTTAAAAATAATAAAATATTAAAATAATCTTAG
18713345 TTTTAAAAATAATAAAATATTAAAATAATCTTA
1 TTTTAAAAATAATAAAATATTAAAATAATCTTA
18713378 TAAAATTCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 15 0.54
34 13 0.46
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.42
Consensus pattern (34 bp):
TTTTAAAAATAATAAAATATTAAAATAATCTTAG
Found at i:18717779 original size:14 final size:15
Alignment explanation
Indices: 18717760--18717792 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
18717750 ATTATGTACT
18717760 TATGTGAT-TGTGAA
1 TATGTGATATGTGAA
*
18717774 TATGTGATATGTGGA
1 TATGTGATATGTGAA
18717789 TATG
1 TATG
18717793 ATAACTATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.27, C:0.00, G:0.30, T:0.42
Consensus pattern (15 bp):
TATGTGATATGTGAA
Found at i:18723033 original size:42 final size:42
Alignment explanation
Indices: 18722971--18723068 Score: 124
Period size: 42 Copynumber: 2.3 Consensus size: 42
18722961 TTTATATGGA
* * ** **
18722971 AAACGCCGCTATAGAACATGACCTTTAGTGGTGCTTTTCCCAC
1 AAACGCCACTA-AAAACATGACCTTTAGCAGCACTTTTCCCAC
18723014 AAACGCCACTAAAAACATGACCTTTAGCAGCACTTTTCCCAC
1 AAACGCCACTAAAAACATGACCTTTAGCAGCACTTTTCCCAC
*
18723056 AAATGCCACTAAA
1 AAACGCCACTAAA
18723069 GGTCATGTTC
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 38 0.79
43 10 0.21
ACGTcount: A:0.34, C:0.30, G:0.13, T:0.23
Consensus pattern (42 bp):
AAACGCCACTAAAAACATGACCTTTAGCAGCACTTTTCCCAC
Found at i:18728454 original size:40 final size:40
Alignment explanation
Indices: 18728399--18728478 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
18728389 AATGCCGAAG
18728399 GATAGTTTTGAAAATTTCGATCCCTCATAAAGTTCTTCAT
1 GATAGTTTTGAAAATTTCGATCCCTCATAAAGTTCTTCAT
*
18728439 GATAGTTTTGAAAATTTCTATCCCTCATAAAGTTCTTCAT
1 GATAGTTTTGAAAATTTCGATCCCTCATAAAGTTCTTCAT
18728479 TCATTTCATT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.41
Consensus pattern (40 bp):
GATAGTTTTGAAAATTTCGATCCCTCATAAAGTTCTTCAT
Found at i:18729316 original size:19 final size:20
Alignment explanation
Indices: 18729288--18729331 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
18729278 TCAAGTTATC
*
18729288 TAAAATTTTAAAAT-AAAAA
1 TAAAAATTTAAAATCAAAAA
* *
18729307 TAAAAATTTAGAATCAAAAC
1 TAAAAATTTAAAATCAAAAA
18729327 TAAAA
1 TAAAA
18729332 TAAATAGTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (20 bp):
TAAAAATTTAAAATCAAAAA
Found at i:18731835 original size:21 final size:20
Alignment explanation
Indices: 18731811--18731853 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
18731801 TTTTGCTATG
*
18731811 AAACTGTTGCTGTGAAATCTA
1 AAACTGTTACTGTGAAA-CTA
* *
18731832 AAACTTTTATTGTGAAACTA
1 AAACTGTTACTGTGAAACTA
18731852 AA
1 AA
18731854 TAAAAAATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.35
Consensus pattern (20 bp):
AAACTGTTACTGTGAAACTA
Found at i:18736775 original size:752 final size:752
Alignment explanation
Indices: 18735331--18736839 Score: 3009
Period size: 752 Copynumber: 2.0 Consensus size: 752
18735321 TATGTCTGAG
18735331 TTGAGGTCGATGTTTGCTCACCTAAGTTTGTTTGAGAATGGTTGGTTATTGGTCGAGTAACAGGT
1 TTGAGGTCGATGTTTGCTCACCTAAGTTTGTTTGAGAATGGTTGGTTATTGGTCGAGTAACAGGT
18735396 TAAGTTGACTTGGGTTGATGAGATTTGAGATAAGTAGCATTTGGATGAATCTTTGGTTAGTCGAG
66 TAAGTTGACTTGGGTTGATGAGATTTGAGATAAGTAGCATTTGGATGAATCTTTGGTTAGTCGAG
18735461 TTCATCAGAGTGAAGAGAGTAAGACTTCAGATTTTAGGTTTAACAGTGAGGGCATTCTATGTTTT
131 TTCATCAGAGTGAAGAGAGTAAGACTTCAGATTTTAGGTTTAACAGTGAGGGCATTCTATGTTTT
18735526 CAGGGTTTGATTTGTGTGTCGAATGATGTGGAATTAAGGCAGACTATTCTGCGGGAAGCGCATAG
196 CAGGGTTTGATTTGTGTGTCGAATGATGTGGAATTAAGGCAGACTATTCTGCGGGAAGCGCATAG
18735591 TAGCCCTTATGCTAGGCATCCGGGTGGTAATACAATGGTCGTGATCTCCGAGAATTGTATTAGTG
261 TAGCCCTTATGCTAGGCATCCGGGTGGTAATACAATGGTCGTGATCTCCGAGAATTGTATTAGTG
18735656 GCCCAGTTTGAAATGAGGGGTAACCGATTTTGTATCTTGGTGTTTGATGTGCCAGTAGGTGAAGG
326 GCCCAGTTTGAAATGAGGGGTAACCGATTTTGTATCTTGGTGTTTGATGTGCCAGTAGGTGAAGG
18735721 CTGAGCACCAACTTCCTTCTGGTTTGCTTCAACCTATTAAGATTTCGTAGTAGAAATTTGAAGGG
391 CTGAGCACCAACTTCCTTCTGGTTTGCTTCAACCTATTAAGATTTCGTAGTAGAAATTTGAAGGG
18735786 TTAACCATGGACTTCGTTAGCAGGTTGCCCTTGACACCAATTAAGAAGGATTTGTTTGTGTCATC
456 TTAACCATGGACTTCGTTAGCAGGTTGCCCTTGACACCAATTAAGAAGGATTTGTTTGTGTCATC
18735851 GTGGATTGATTGGCCAAATTCGCTCATTTTCTTTCGGTTTGAACTGATTATTCTCTACTGAATCT
521 GTGGATTGATTGGCCAAATTCGCTCATTTTCTTTCGGTTTGAACTGATTATTCTCTACTGAATCT
18735916 TGCGAAATTATACATATCTGAGATAGTTAGACTTCATGGGGTTCCTATATTGATTATCTCAAATC
586 TGCGAAATTATACATATCTGAGATAGTTAGACTTCATGGGGTTCCTATATTGATTATCTCAAATC
18735981 GAGACATTTGTTTTACATCTCGATTTTGAAATAAACTACATGAGGCTTTGGGTACTCGGTTAGAC
651 GAGACATTTGTTTTACATCTCGATTTTGAAATAAACTACATGAGGCTTTGGGTACTCGGTTAGAC
18736046 TTCAGTACTGCATTCCATCCACAAACTGATGGATAAT
716 TTCAGTACTGCATTCCATCCACAAACTGATGGATAAT
18736083 TTGAGGTCGATGTTTGCTCACCTAAGTTTGTTTGAGAATGGTTGGTTATTGGTCGAGTAACAGGT
1 TTGAGGTCGATGTTTGCTCACCTAAGTTTGTTTGAGAATGGTTGGTTATTGGTCGAGTAACAGGT
18736148 TAAGTTGACTTGGGTTGATGAGATTTGAGATAAGTAGCATTTGGATGAATCTTTGGTTAGTCGAG
66 TAAGTTGACTTGGGTTGATGAGATTTGAGATAAGTAGCATTTGGATGAATCTTTGGTTAGTCGAG
18736213 TTCATCAGAGTGAAGAGAGTAAGACTTCAGATTTTAGGTTTAACAGTGAGGGCATTCTATGTTTT
131 TTCATCAGAGTGAAGAGAGTAAGACTTCAGATTTTAGGTTTAACAGTGAGGGCATTCTATGTTTT
18736278 CAGGGTTTGATTTGTGTGTCGAATGATGTGGAATTAAGGCAGACTATTCTGCGGGAAGCGCATAG
196 CAGGGTTTGATTTGTGTGTCGAATGATGTGGAATTAAGGCAGACTATTCTGCGGGAAGCGCATAG
*
18736343 TAGCCCTTATGCTAGGCATCCGGGTGGTAATACAATGGTCGTGATCTCTGAGAATTGTATTAGTG
261 TAGCCCTTATGCTAGGCATCCGGGTGGTAATACAATGGTCGTGATCTCCGAGAATTGTATTAGTG
18736408 GCCCAGTTTGAAATGAGGGGTAACCGATTTTGTATCTTGGTGTTTGATGTGCCAGTAGGTGAAGG
326 GCCCAGTTTGAAATGAGGGGTAACCGATTTTGTATCTTGGTGTTTGATGTGCCAGTAGGTGAAGG
18736473 CTGAGCACCAACTTCCTTCTGGTTTGCTTCAACCTATTAAGATTTCGTAGTAGAAATTTGAAGGG
391 CTGAGCACCAACTTCCTTCTGGTTTGCTTCAACCTATTAAGATTTCGTAGTAGAAATTTGAAGGG
18736538 TTAACCATGGACTTCGTTAGCAGGTTGCCCTTGACACCAATTAAGAAGGATTTGTTTGTGTCATC
456 TTAACCATGGACTTCGTTAGCAGGTTGCCCTTGACACCAATTAAGAAGGATTTGTTTGTGTCATC
18736603 GTGGATTGATTGGCCAAATTCGCTCATTTTCTTTCGGTTTGAACTGATTATTCTCTACTGAATCT
521 GTGGATTGATTGGCCAAATTCGCTCATTTTCTTTCGGTTTGAACTGATTATTCTCTACTGAATCT
18736668 TGCGAAATTATACATATCTGAGATAGTTAGACTTCATGGGGTTCCTATATTGATTATCTCAAATC
586 TGCGAAATTATACATATCTGAGATAGTTAGACTTCATGGGGTTCCTATATTGATTATCTCAAATC
18736733 GAGACATTTGTTTTACATCTCGATTTTGAAATAAACTACATGAGGCTTTGGGTACTCGGTTAGAC
651 GAGACATTTGTTTTACATCTCGATTTTGAAATAAACTACATGAGGCTTTGGGTACTCGGTTAGAC
18736798 TTCAGTACTGCATTCCATCCACAAACTGATGGATAAT
716 TTCAGTACTGCATTCCATCCACAAACTGATGGATAAT
18736835 TTGAG
1 TTGAG
18736840 AGGGTGATTC
Statistics
Matches: 756, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
752 756 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (752 bp):
TTGAGGTCGATGTTTGCTCACCTAAGTTTGTTTGAGAATGGTTGGTTATTGGTCGAGTAACAGGT
TAAGTTGACTTGGGTTGATGAGATTTGAGATAAGTAGCATTTGGATGAATCTTTGGTTAGTCGAG
TTCATCAGAGTGAAGAGAGTAAGACTTCAGATTTTAGGTTTAACAGTGAGGGCATTCTATGTTTT
CAGGGTTTGATTTGTGTGTCGAATGATGTGGAATTAAGGCAGACTATTCTGCGGGAAGCGCATAG
TAGCCCTTATGCTAGGCATCCGGGTGGTAATACAATGGTCGTGATCTCCGAGAATTGTATTAGTG
GCCCAGTTTGAAATGAGGGGTAACCGATTTTGTATCTTGGTGTTTGATGTGCCAGTAGGTGAAGG
CTGAGCACCAACTTCCTTCTGGTTTGCTTCAACCTATTAAGATTTCGTAGTAGAAATTTGAAGGG
TTAACCATGGACTTCGTTAGCAGGTTGCCCTTGACACCAATTAAGAAGGATTTGTTTGTGTCATC
GTGGATTGATTGGCCAAATTCGCTCATTTTCTTTCGGTTTGAACTGATTATTCTCTACTGAATCT
TGCGAAATTATACATATCTGAGATAGTTAGACTTCATGGGGTTCCTATATTGATTATCTCAAATC
GAGACATTTGTTTTACATCTCGATTTTGAAATAAACTACATGAGGCTTTGGGTACTCGGTTAGAC
TTCAGTACTGCATTCCATCCACAAACTGATGGATAAT
Found at i:18738127 original size:15 final size:16
Alignment explanation
Indices: 18738098--18738131 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
18738088 TCACGTTAGT
*
18738098 TTTCTCTTCTTTTTTC
1 TTTCTCTTCTCTTTTC
18738114 TTTCT-TTCTCTTTTC
1 TTTCTCTTCTCTTTTC
18738129 TTT
1 TTT
18738132 TCCCTTTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTCTCTTCTCTTTTC
Found at i:18742437 original size:23 final size:22
Alignment explanation
Indices: 18742394--18742437 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
18742384 TTCTAAGTCA
18742394 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
18742417 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
18742438 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:18742546 original size:45 final size:45
Alignment explanation
Indices: 18742482--18742570 Score: 133
Period size: 45 Copynumber: 2.0 Consensus size: 45
18742472 AACAGATACT
* * ** *
18742482 CGGTGGATTCAGCACATAGCAACCATTTTATTAATCAATGATGTC
1 CGGTGGAATCAACACATAGCAACCACCTTAGTAATCAATGATGTC
18742527 CGGTGGAATCAACACATAGCAACCACCTTAGTAATCAATGATGT
1 CGGTGGAATCAACACATAGCAACCACCTTAGTAATCAATGATGT
18742571 TCAGTTCACA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (45 bp):
CGGTGGAATCAACACATAGCAACCACCTTAGTAATCAATGATGTC
Found at i:18742606 original size:26 final size:26
Alignment explanation
Indices: 18742577--18742658 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
18742567 ATGTTCAGTT
18742577 CACATAGTAGCCTGCACATAGTACTA
1 CACATAGTAGCCTGCACATAGTACTA
* **
18742603 CACAT-GT-GACCAT-TACCATCCT-CTA
1 CACATAGTAG-CC-TGCA-CATAGTACTA
*
18742628 CACGTAGTAGCCTGCACATAGTACTA
1 CACATAGTAGCCTGCACATAGTACTA
18742654 CACAT
1 CACAT
18742659 GCGACCTATC
Statistics
Matches: 41, Mismatches: 8, Indels: 14
0.65 0.13 0.22
Matches are distributed among these distances:
24 1 0.02
25 17 0.41
26 22 0.54
27 1 0.02
ACGTcount: A:0.32, C:0.30, G:0.13, T:0.24
Consensus pattern (26 bp):
CACATAGTAGCCTGCACATAGTACTA
Found at i:18742639 original size:51 final size:52
Alignment explanation
Indices: 18742581--18742716 Score: 206
Period size: 50 Copynumber: 2.7 Consensus size: 52
18742571 TCAGTTCACA
18742581 TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCT-CTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCTGCTACACG
* * * *
18742632 TAGTAGCCTGCACATAGTACTACACATGCGACC--TATCATTCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCTGCTACACG
*
18742682 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACATGTGACCAT
18742717 CACTTTCACT
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
49 7 0.09
50 37 0.49
51 32 0.42
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.25
Consensus pattern (52 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCTGCTACACG
Found at i:18755112 original size:17 final size:16
Alignment explanation
Indices: 18755089--18755139 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 16
18755079 ATCCATCATC
18755089 CTTTCTTTTTCTTTTT
1 CTTTCTTTTTCTTTTT
* *
18755105 CTTTTCTTTTCCTTCTT
1 C-TTTCTTTTTCTTTTT
*
18755122 CCTTCTTTTTCTTCTTT
1 CTTTCTTTTTCTT-TTT
18755139 C
1 C
18755140 AAGGATTCAC
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
16 11 0.39
17 17 0.61
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (16 bp):
CTTTCTTTTTCTTTTT
Found at i:18755135 original size:16 final size:17
Alignment explanation
Indices: 18755091--18755137 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
18755081 CCATCATCCT
* *
18755091 TTCTTTTTCTTTTTCTT
1 TTCTTTTTCTTCTTCTC
*
18755108 TTCTTTTCCTTCTTC-C
1 TTCTTTTTCTTCTTCTC
18755124 TTCTTTTTCTTCTT
1 TTCTTTTTCTTCTT
18755138 TCAAGGATTC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
16 13 0.50
17 13 0.50
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (17 bp):
TTCTTTTTCTTCTTCTC
Found at i:18757812 original size:16 final size:16
Alignment explanation
Indices: 18757791--18757823 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
18757781 TGAATTATTG
*
18757791 ATTACAGCTCTATTCC
1 ATTACAGCCCTATTCC
18757807 ATTACAGCCCTATTCC
1 ATTACAGCCCTATTCC
18757823 A
1 A
18757824 GTCTAGTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.33, G:0.06, T:0.33
Consensus pattern (16 bp):
ATTACAGCCCTATTCC
Found at i:18759765 original size:18 final size:19
Alignment explanation
Indices: 18759730--18759769 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
18759720 TCTTTTACAA
*
18759730 TTTAATCCTTTTAGTTACT
1 TTTAATCCTTTTACTTACT
*
18759749 TTTAAT-CTTTTTCTTACT
1 TTTAATCCTTTTACTTACT
18759767 TTT
1 TTT
18759770 CTTTCATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.17, C:0.15, G:0.03, T:0.65
Consensus pattern (19 bp):
TTTAATCCTTTTACTTACT
Found at i:18766857 original size:27 final size:27
Alignment explanation
Indices: 18766816--18766868 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
18766806 CTAGGGAGAT
*
18766816 TTGTTAGCTTGTTAGTAAGAGTAGAAG
1 TTGTTAGCTTATTAGTAAGAGTAGAAG
18766843 TTGTTAGCTTATTAGTAAGAGTAGAA
1 TTGTTAGCTTATTAGTAAGAGTAGAA
18766869 ATTTGAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.32, C:0.04, G:0.26, T:0.38
Consensus pattern (27 bp):
TTGTTAGCTTATTAGTAAGAGTAGAAG
Found at i:18771836 original size:14 final size:14
Alignment explanation
Indices: 18771817--18771860 Score: 70
Period size: 14 Copynumber: 3.1 Consensus size: 14
18771807 CCACACATTT
*
18771817 GTTCTTCTCTACTG
1 GTTCTTCTCTGCTG
*
18771831 GTTCTTCTATGCTG
1 GTTCTTCTCTGCTG
18771845 GTTCTTCTCTGCTG
1 GTTCTTCTCTGCTG
18771859 GT
1 GT
18771861 GCTGGTGTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.05, C:0.25, G:0.20, T:0.50
Consensus pattern (14 bp):
GTTCTTCTCTGCTG
Found at i:18771959 original size:23 final size:24
Alignment explanation
Indices: 18771930--18771986 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 24
18771920 CTGGTACTGG
18771930 TGTTCCTCTGCT-TG-TTGGTTCTT
1 TGTTCCTCTGCTGTGCTT-GTTCTT
18771953 TGTTCCTCTGCTGGTGCTTGTTCTT
1 TGTTCCTCTGCT-GTGCTTGTTCTT
18771978 TGTTCCTCT
1 TGTTCCTCT
18771987 TCTCCACTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
23 12 0.39
25 17 0.55
26 2 0.06
ACGTcount: A:0.00, C:0.25, G:0.21, T:0.54
Consensus pattern (24 bp):
TGTTCCTCTGCTGTGCTTGTTCTT
Found at i:18772931 original size:77 final size:77
Alignment explanation
Indices: 18772804--18772987 Score: 361
Period size: 77 Copynumber: 2.4 Consensus size: 77
18772794 ATCCTCTAGT
18772804 AAAATATTTATACGAAAAAACTCCATTTACTATGCAATGGACAGTTTTTCTATGTTTTTGAGCAA
1 AAAATATTTATACGAAAAAACTCCATTTACTATGCAATGGACAGTTTTTCTATGTTTTTGAGCAA
18772869 GAAGTTTTACCC
66 GAAGTTTTACCC
18772881 AAAATATTTATACGAAAAAACTCCATTTACTATGCAATGGACAGTTTTTCTATGTTTTTGAGCAA
1 AAAATATTTATACGAAAAAACTCCATTTACTATGCAATGGACAGTTTTTCTATGTTTTTGAGCAA
18772946 GAAGTTTTACCC
66 GAAGTTTTACCC
18772958 AAAATATTTATACG-AAAAACTCCATTTACT
1 AAAATATTTATACGAAAAAACTCCATTTACT
18772988 TAAGCAAAAG
Statistics
Matches: 107, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
76 16 0.15
77 91 0.85
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.36
Consensus pattern (77 bp):
AAAATATTTATACGAAAAAACTCCATTTACTATGCAATGGACAGTTTTTCTATGTTTTTGAGCAA
GAAGTTTTACCC
Found at i:18773990 original size:18 final size:18
Alignment explanation
Indices: 18773967--18774032 Score: 114
Period size: 18 Copynumber: 3.7 Consensus size: 18
18773957 AAAATATGAG
*
18773967 AAATGATGTTCACATTTT
1 AAATGATGTTCACATTTC
18773985 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
*
18774003 AAATGATGTTCACATCTC
1 AAATGATGTTCACATTTC
18774021 AAATGATGTTCA
1 AAATGATGTTCA
18774033 AATGGACGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 46 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:18774578 original size:72 final size:72
Alignment explanation
Indices: 18774457--18774627 Score: 249
Period size: 72 Copynumber: 2.4 Consensus size: 72
18774447 CTGACAATGC
* *
18774457 TAAA-CTAGTTTTATCAATAGTTATTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTA
1 TAAATCTAGTTTTATCAATAGTTATTTATGTTTGGTCTTTAGATATTGAATTTATGTTCTACTTA
*
18774521 TTTATGT
66 TTTATAT
* *
18774528 GT-AATCTAGTTTTATTAATAGTTTTTTATGTTTGGTCTTTAGATATTGAATTTATGTTCTACTT
1 -TAAATCTAGTTTTATCAATAGTTATTTATGTTTGGTCTTTAGATATTGAATTTATGTTCTACTT
*
18774592 ATTTTTAT
65 ATTTATAT
*
18774600 TAAAT-TAGTTTTATCAATAGTTGTTTAT
1 TAAATCTAGTTTTATCAATAGTTATTTAT
18774628 ATATGATTTT
Statistics
Matches: 89, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
71 24 0.27
72 65 0.73
ACGTcount: A:0.26, C:0.05, G:0.13, T:0.56
Consensus pattern (72 bp):
TAAATCTAGTTTTATCAATAGTTATTTATGTTTGGTCTTTAGATATTGAATTTATGTTCTACTTA
TTTATAT
Found at i:18776032 original size:21 final size:21
Alignment explanation
Indices: 18776006--18776045 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
18775996 TCGAGAAAGT
18776006 GATGAT-GATGATGACGACGAC
1 GATGATAG-TGATGACGACGAC
*
18776027 GATGATAGTGATGATGACG
1 GATGATAGTGATGACGACG
18776046 GTGAATCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.33, C:0.10, G:0.35, T:0.23
Consensus pattern (21 bp):
GATGATAGTGATGACGACGAC
Found at i:18777081 original size:34 final size:35
Alignment explanation
Indices: 18777037--18777103 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
18777027 CAGTAAAATA
*
18777037 TTTTCCGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
18777071 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
18777104 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:18789409 original size:21 final size:21
Alignment explanation
Indices: 18789372--18789412 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
18789362 GCATATTTTA
18789372 TTTTATTTTTAATAATTGTTAT
1 TTTTATTTTT-ATAATTGTTAT
18789394 TTTTATTTTT-TGAATTGTT
1 TTTTATTTTTAT-AATTGTT
18789413 GTTGACATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 1 0.06
21 7 0.39
22 10 0.56
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.71
Consensus pattern (21 bp):
TTTTATTTTTATAATTGTTAT
Found at i:18794783 original size:30 final size:29
Alignment explanation
Indices: 18794747--18794841 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 29
18794737 TAACTTTATA
18794747 TGAGCAATTCTGTTAAAATGTCAGCTTGTG
1 TGAGCAATTCTG-TAAAATGTCAGCTTGTG
18794777 TGAGCAA-TCT-TAAAATACTGTCAGCTTGTG
1 TGAGCAATTCTGT-AAA-A-TGTCAGCTTGTG
* *
18794807 TGAGCAATCCTG-AATATTGTCAGCTTGTG
1 TGAGCAATTCTGTAA-AATGTCAGCTTGTG
18794836 TGAGCA
1 TGAGCA
18794842 TTTCATTCCC
Statistics
Matches: 57, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
27 1 0.02
28 3 0.05
29 22 0.39
30 28 0.49
31 3 0.05
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (29 bp):
TGAGCAATTCTGTAAAATGTCAGCTTGTG
Found at i:18794832 original size:29 final size:30
Alignment explanation
Indices: 18794765--18794841 Score: 120
Period size: 29 Copynumber: 2.6 Consensus size: 30
18794755 TCTGTTAAAA
*
18794765 TGTCAGCTTGTGTGAGCAATCTTAAAATAC
1 TGTCAGCTTGTGTGAGCAATCCTAAAATAC
* *
18794795 TGTCAGCTTGTGTGAGCAATCCT-GAATAT
1 TGTCAGCTTGTGTGAGCAATCCTAAAATAC
18794824 TGTCAGCTTGTGTGAGCA
1 TGTCAGCTTGTGTGAGCA
18794842 TTTCATTCCC
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 22 0.50
30 22 0.50
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.34
Consensus pattern (30 bp):
TGTCAGCTTGTGTGAGCAATCCTAAAATAC
Found at i:18796971 original size:12 final size:12
Alignment explanation
Indices: 18796956--18796980 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18796946 AATAACCCAA
18796956 ATTATAAAAAAT
1 ATTATAAAAAAT
18796968 ATTATAAAAAAT
1 ATTATAAAAAAT
18796980 A
1 A
18796981 ACTAAAGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
ATTATAAAAAAT
Found at i:18797014 original size:29 final size:28
Alignment explanation
Indices: 18796962--18797020 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
18796952 CCAAATTATA
*
18796962 AAAAATATTATAAAAAATAACTAAAGTT
1 AAAAATATTATAAAAAATAACTAAAATT
* * *
18796990 AAAAATATTTTATAAATTAAGCTAAAATT
1 AAAAATATTATAAAAAATAA-CTAAAATT
18797019 AA
1 AA
18797021 TTAGATGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 17 0.65
29 9 0.35
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.32
Consensus pattern (28 bp):
AAAAATATTATAAAAAATAACTAAAATT
Found at i:18799585 original size:27 final size:28
Alignment explanation
Indices: 18799533--18799586 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
18799523 GGACAGCCTA
* *
18799533 CTAAGGAGATAGAAGCCCAATTCATCCT
1 CTAAGGAGAGAGAAGCCCAATCCATCCT
18799561 CTAAGGAG-GAGAAGGCCCAA-CCATCC
1 CTAAGGAGAGAGAA-GCCCAATCCATCC
18799587 AAAGAGGTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.35, C:0.28, G:0.22, T:0.15
Consensus pattern (28 bp):
CTAAGGAGAGAGAAGCCCAATCCATCCT
Found at i:18801486 original size:20 final size:20
Alignment explanation
Indices: 18801461--18801510 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
18801451 ATCCCTCACG
18801461 CCCGTGTGCTACATCACACA
1 CCCGTGTGCTACATCACACA
* * *
18801481 CTCGTGTGCCACATCACACG
1 CCCGTGTGCTACATCACACA
18801501 CCCGTGTGCT
1 CCCGTGTGCT
18801511 TAGGTCGTGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.18, C:0.40, G:0.20, T:0.22
Consensus pattern (20 bp):
CCCGTGTGCTACATCACACA
Found at i:18803102 original size:14 final size:15
Alignment explanation
Indices: 18803083--18803115 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
18803073 ATTTGCAATA
18803083 TAAATTTT-AAAACT
1 TAAATTTTGAAAACT
18803097 TAAATTTTGAAAACT
1 TAAATTTTGAAAACT
18803112 TAAA
1 TAAA
18803116 AATTTGGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (15 bp):
TAAATTTTGAAAACT
Found at i:18803473 original size:54 final size:54
Alignment explanation
Indices: 18803335--18803529 Score: 229
Period size: 57 Copynumber: 3.6 Consensus size: 54
18803325 TACAAATTAC
* * *
18803335 AGAGAAGATTTCCTGTTCACTCGTTTTTTCTTGCAGGGAATTTTTACTATTTTCAT
1 AGAGAATATTTCCTGTTCACTCGTCTTTTCTTGCAGGGAATATTTACTATTTT--T
* *
18803391 CAGAGAATATTTCCTGTTCACTCGTCTTTTCTTGTAAGGAATATTTACTATTTTT
1 -AGAGAATATTTCCTGTTCACTCGTCTTTTCTTGCAGGGAATATTTACTATTTTT
** * *
18803446 AGAGAATATTTCCTGTTCACTTATCTTTTCTTGCAGGGAATATTT-C----GTC
1 AGAGAATATTTCCTGTTCACTCGTCTTTTCTTGCAGGGAATATTTACTATTTTT
* *
18803495 AAAGAATATTTCCTGTTCACTTGTCTTTTCTTGCA
1 AGAGAATATTTCCTGTTCACTCGTCTTTTCTTGCA
18803530 TCATTTTTTC
Statistics
Matches: 125, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
49 34 0.27
53 1 0.01
54 41 0.33
55 1 0.01
57 48 0.38
ACGTcount: A:0.23, C:0.17, G:0.14, T:0.46
Consensus pattern (54 bp):
AGAGAATATTTCCTGTTCACTCGTCTTTTCTTGCAGGGAATATTTACTATTTTT
Found at i:18803522 original size:49 final size:49
Alignment explanation
Indices: 18803385--18803529 Score: 182
Period size: 54 Copynumber: 2.9 Consensus size: 49
18803375 TTTTTACTAT
* *
18803385 TTTCATCAGAGAATATTTCCTGTTCACTCGTCTTTTCTTGTAAGGAATA
1 TTTCATCAGAGAATATTTCCTGTTCACTTGTCTTTTCTTGCAAGGAATA
* * *
18803434 TTTACTATTTTTAGAGAATATTTCCTGTTCACTTATCTTTTCTTGCAGGGAATA
1 TTT-C-A---TCAGAGAATATTTCCTGTTCACTTGTCTTTTCTTGCAAGGAATA
* *
18803488 TTTCGTCAAAGAATATTTCCTGTTCACTTGTCTTTTCTTGCA
1 TTTCATCAGAGAATATTTCCTGTTCACTTGTCTTTTCTTGCA
18803530 TCATTTTTTC
Statistics
Matches: 82, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
49 37 0.45
50 1 0.01
51 1 0.01
53 1 0.01
54 42 0.51
ACGTcount: A:0.23, C:0.18, G:0.13, T:0.46
Consensus pattern (49 bp):
TTTCATCAGAGAATATTTCCTGTTCACTTGTCTTTTCTTGCAAGGAATA
Found at i:18806306 original size:21 final size:23
Alignment explanation
Indices: 18806282--18806324 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
18806272 TCAATTTTTT
*
18806282 AAAACATATTT-CTTCT-TTTAG
1 AAAACAGATTTGCTTCTATTTAG
*
18806303 AAAAGAGATTTGCTTCTATTTA
1 AAAACAGATTTGCTTCTATTTA
18806325 TGATTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (23 bp):
AAAACAGATTTGCTTCTATTTAG
Found at i:18813858 original size:66 final size:66
Alignment explanation
Indices: 18813774--18814035 Score: 389
Period size: 66 Copynumber: 4.0 Consensus size: 66
18813764 TTACTAATAG
* * *
18813774 AGTTCCTGTCAATTACAGCTCACAACAGGTGAGTAATGCTCAAACAATAATACAAACCAATTTCA
1 AGTTCCTGTCAATCACAGCTCACAACAGGTGAGTAATGCTCAAACAATAGTACAAATCAATTTCA
18813839 C
66 C
* * *
18813840 AGTTCCTGTCAACCACAGCTTACAATAGGTGAGTAATGCTCAAACAATAGTACAAATCAATTTCA
1 AGTTCCTGTCAATCACAGCTCACAACAGGTGAGTAATGCTCAAACAATAGTACAAATCAATTTCA
18813905 C
66 C
* * * *
18813906 AGTTCTTGTCAATCAAAGCTCATAACAGGTGAGTAATGCTCAAAAAATAGTACAAATCAATTTCA
1 AGTTCCTGTCAATCACAGCTCACAACAGGTGAGTAATGCTCAAACAATAGTACAAATCAATTTCA
18813971 C
66 C
* * * * *
18813972 AATTCCTATCAATCACAACTCATAACAAGTGAGTAATGCTCAAACAATAGTACAAATCAATTTC
1 AGTTCCTGTCAATCACAGCTCACAACAGGTGAGTAATGCTCAAACAATAGTACAAATCAATTTC
18814036 TCACATTTCA
Statistics
Matches: 176, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 176 1.00
ACGTcount: A:0.40, C:0.22, G:0.12, T:0.26
Consensus pattern (66 bp):
AGTTCCTGTCAATCACAGCTCACAACAGGTGAGTAATGCTCAAACAATAGTACAAATCAATTTCA
C
Found at i:18818604 original size:66 final size:63
Alignment explanation
Indices: 18818510--18818647 Score: 177
Period size: 66 Copynumber: 2.1 Consensus size: 63
18818500 ATGTTTGGTG
* * *
18818510 TGTTGGAGAGTCTAGCTTTATGCTTCACTTATGGGACATGTTTGACTCTATGAGTCTATTTGCTA
1 TGTTGGAGAGTCTAGCTTTATACTTCACTTACGAGACATGTTTGACTC--TGAGTCTATTTGCTA
* * * * *
18818575 TGTTGGAGAGTGTTAGCTTTATACTTCACTTACGAGATATGTTTGACTCTGAGTTTATTTGGTG
1 TGTTGGAGAGT-CTAGCTTTATACTTCACTTACGAGACATGTTTGACTCTGAGTCTATTTGCTA
18818639 TGTTGGAGA
1 TGTTGGAGA
18818648 TTTGTGTATC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
64 21 0.33
65 11 0.17
66 32 0.50
ACGTcount: A:0.20, C:0.12, G:0.25, T:0.42
Consensus pattern (63 bp):
TGTTGGAGAGTCTAGCTTTATACTTCACTTACGAGACATGTTTGACTCTGAGTCTATTTGCTA
Found at i:18821325 original size:432 final size:431
Alignment explanation
Indices: 18820493--18821345 Score: 1411
Period size: 432 Copynumber: 2.0 Consensus size: 431
18820483 CATCTGAACC
* * *
18820493 TAAACTGTCGTAATTCGGTGTATTAGATTAAACTATTTTTCACATTTAAGGAGTTTAAATACAAG
1 TAAACTGTCGTAATTCGGTGCAGTAGATTAAACTAGTTTTCACATTTAAGGAGTTTAAATACAAG
*
18820558 CATTTTTGTTATGTTTTAATTCACTTTCTTTAGTTTTGTTTACATTCAATAAAATGTACACATTG
66 CATTTTCGTTATGTTTTAATTCACTTTCTTTAGTTTTGTTTACATTCAATAAAATGTACACATTG
* * *
18820623 AGTCTTTTATTAACATAAGGGTCGAATAAGGGGGAGCTAGTGTACATTGTGAGTGTGTAGGAGAC
131 AGTCTTTTATTAACATAAGGGTCAAATAAGGGGGAGCTAGTGTACATTGTGAGTGTGCAAGAGAC
* *
18820688 CATTGACGGCATTTCGGGGCAATACTGGACGCTATGTCACAACAAGGAGGATCCAATGTCGCAAC
196 CATTGAAGGCATTTCGGGGCAATACTGGACGCTATGTCACAACAAGGAGGATCCAATGTCACAAC
* * * *
18820753 ATAGAAATCATAATAAAGAAAGTGAGAAACTGCCTTCAATGCAGCAACACAGGCTGAGGCTGTCA
261 ATAGAAAGCAGAATAAAGAAAGTGAGAAACTGCCTGCAATGCAGCAACACAGGCTAAGGCTGTCA
* * ** *
18820818 CGACATATCCCTAAATATGGCTATAGAGGGACATGTTGGTTGCTACGTCGCGGCACAGGTCTTGG
326 CGACATATCCATAAATATGGCTATAGAGGAACATGTTGGTTGCTACGTCGCAACACAAGTCTTGG
18820883 TGTCGAGACATCGACTTTGTGACGAGAATAAACTAGTAGAT
391 TGTCGAGACATCGACTTTGTGACGAGAATAAACTAGTAGAT
* *
18820924 TAAATTGTCGTAATTTGGTGCAGTAGATTAAACTAGTTTTCACATTTAAGGAGTTTAAATACAAG
1 TAAACTGTCGTAATTCGGTGCAGTAGATTAAACTAGTTTTCACATTTAAGGAGTTTAAATACAAG
* * **
18820989 TATTTTCGTTATGTTTTAATTCAGTTTCTTTAGTTTTGTTTACATTCAATAAAATGTGTACATTG
66 CATTTTCGTTATGTTTTAATTCACTTTCTTTAGTTTTGTTTACATTCAATAAAATGTACACATTG
*
18821054 AGTCTTTTATTAATC-TAAGGGTCAAATAAGGGGGAGGTAGTGTACATTGTGAGTGTGCAAGAGA
131 AGTCTTTTATTAA-CATAAGGGTCAAATAAGGGGGAGCTAGTGTACATTGTGAGTGTGCAAGAGA
*
18821118 CCATTAGAAGGCATTTCGGGGCAATACTGGACGCTATGTCACAACAAGGGGGATCCAATGTCACA
195 CCATT-GAAGGCATTTCGGGGCAATACTGGACGCTATGTCACAACAAGGAGGATCCAATGTCACA
* * *
18821183 ACATAGAAAGCAGAATAGAGAAAGTGAGAAACTGCCTGCAATGCCGTAACACAGGCTAAGGCTGT
259 ACATAGAAAGCAGAATAAAGAAAGTGAGAAACTGCCTGCAATGCAGCAACACAGGCTAAGGCTGT
18821248 CACGACATATCCATAAATATGGCTATAGAGGAACATGTTGGTTGCTACGTCGCAACACAAGTCTT
324 CACGACATATCCATAAATATGGCTATAGAGGAACATGTTGGTTGCTACGTCGCAACACAAGTCTT
*
18821313 GGTGTCGAGACATCGAGTTTGTGACGAGAATAA
389 GGTGTCGAGACATCGACTTTGTGACGAGAATAA
18821346 GACACAAAGT
Statistics
Matches: 390, Mismatches: 30, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
431 183 0.47
432 207 0.53
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (431 bp):
TAAACTGTCGTAATTCGGTGCAGTAGATTAAACTAGTTTTCACATTTAAGGAGTTTAAATACAAG
CATTTTCGTTATGTTTTAATTCACTTTCTTTAGTTTTGTTTACATTCAATAAAATGTACACATTG
AGTCTTTTATTAACATAAGGGTCAAATAAGGGGGAGCTAGTGTACATTGTGAGTGTGCAAGAGAC
CATTGAAGGCATTTCGGGGCAATACTGGACGCTATGTCACAACAAGGAGGATCCAATGTCACAAC
ATAGAAAGCAGAATAAAGAAAGTGAGAAACTGCCTGCAATGCAGCAACACAGGCTAAGGCTGTCA
CGACATATCCATAAATATGGCTATAGAGGAACATGTTGGTTGCTACGTCGCAACACAAGTCTTGG
TGTCGAGACATCGACTTTGTGACGAGAATAAACTAGTAGAT
Found at i:18823533 original size:19 final size:19
Alignment explanation
Indices: 18823509--18823567 Score: 67
Period size: 14 Copynumber: 3.4 Consensus size: 19
18823499 AGTGTCTTTC
18823509 TTATTTTTCACTTCAACTT
1 TTATTTTTCACTTCAACTT
*
18823528 TTA-TTTT--CTT--TCTT
1 TTATTTTTCACTTCAACTT
18823542 TT-TTTTTCACTTCAACTT
1 TTATTTTTCACTTCAACTT
18823560 TTATTTTT
1 TTATTTTT
18823568 TATTTGGTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
14 9 0.28
16 6 0.19
18 9 0.28
19 8 0.25
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATTTTTCACTTCAACTT
Found at i:18823539 original size:31 final size:32
Alignment explanation
Indices: 18823503--18823566 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
18823493 CACATAAGTG
18823503 TCTTTC-TTATTTTTCACTTCAACTTTTATTT
1 TCTTTCTTTATTTTTCACTTCAACTTTTATTT
*
18823534 TCTTTCTTTTTTTTTCACTTCAACTTTTATTT
1 TCTTTCTTTATTTTTCACTTCAACTTTTATTT
18823566 T
1 T
18823567 TTATTTGGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 6 0.19
32 25 0.81
ACGTcount: A:0.14, C:0.19, G:0.00, T:0.67
Consensus pattern (32 bp):
TCTTTCTTTATTTTTCACTTCAACTTTTATTT
Found at i:18824778 original size:5 final size:6
Alignment explanation
Indices: 18824761--18824785 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
18824751 GTCCGACTGA
18824761 TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT T
18824786 GGAATTTGTA
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:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:18836154 original size:109 final size:108
Alignment explanation
Indices: 18835842--18836157 Score: 456
Period size: 108 Copynumber: 2.9 Consensus size: 108
18835832 GATTAAGATA
* *
18835842 TAAAAGGATATTTGGCTATTTGGTCCAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTC
1 TAAAAGGATATTTGGCTATTAGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTC
* *
18835907 CTCGAATTTCCAAGCGCAAAACATTACATTATTTTAAAATTTT
66 CTCGAATTTCCAAACGCAAAACATTACCTTATTTTAAAATTTT
* *
18835950 TAAAAGGATATTCGGCTATTTA-GTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACATTT
1 TAAAAGGATATTTGGCTA-TTAGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTT
* * *
18836014 CCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAATTTTT
65 CCTCGAATTTCCAAACGCAAAACATTACCTTATTTTAAAATTTT
* *
18836058 TAAAAGGATATTTGGCTATTAGGTTGAACGAGAAAAATCAAAACCCAGCACATTAGGGCACGCTT
1 TAAAAGGATATTTGGCTATTAGGTCGAACGAG-AAAATCGAAACCCAGCACATTAGGGCACG-TT
* * * *
18836123 T-CTCGAACTACCAAATGCAAAATATTACCTTATTT
64 TCCTCGAATTTCCAAACGCAAAACATTACCTTATTT
18836158 AGAAAAATTT
Statistics
Matches: 186, Mismatches: 18, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
107 3 0.02
108 122 0.66
109 58 0.31
110 3 0.02
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.29
Consensus pattern (108 bp):
TAAAAGGATATTTGGCTATTAGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTC
CTCGAATTTCCAAACGCAAAACATTACCTTATTTTAAAATTTT
Found at i:18838588 original size:44 final size:43
Alignment explanation
Indices: 18838472--18838693 Score: 152
Period size: 44 Copynumber: 5.1 Consensus size: 43
18838462 GTCTAATGCG
* * * *
18838472 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCATCATTTT-A
1 ATCTGCTCCACTGCAACTTTAGAGAGATAAGATTCGT--TTTTCA
* * * * *
18838516 ATCCGCTTCACTGTAACTTCAG-GAAGATAGGATTCGTTTCTTCA
1 ATCTGCTCCACTGCAACTTTAGAG-AGATAAGATTCGTTT-TTCA
** * *
18838560 ATCTGCTCCACTGCAACTTTAGAGAGATAAGATT-G-GATGCG
1 ATCTGCTCCACTGCAACTTTAGAGAGATAAGATTCGTTTTTCA
*
18838601 ATCTGCTCTACT-CGAACTTTAGAGAGATAAGA-TCTGTGGTTTT-A
1 ATCTGCTCCACTGC-AACTTTAGAGAGATAAGATTC-GT--TTTTCA
* * * *
18838645 ATCCGCTCCACTGCAACTTTAGGGAGATAGGATTGGTTTCTTCA
1 ATCTGCTCCACTGCAACTTTAGAGAGATAAGATTCGTTT-TTCA
18838689 ATCTG
1 ATCTG
18838694 TTTAACTGCA
Statistics
Matches: 137, Mismatches: 27, Indels: 28
0.71 0.14 0.15
Matches are distributed among these distances:
40 2 0.01
41 31 0.23
42 5 0.04
43 6 0.04
44 89 0.65
45 4 0.03
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (43 bp):
ATCTGCTCCACTGCAACTTTAGAGAGATAAGATTCGTTTTTCA
Found at i:18838702 original size:129 final size:129
Alignment explanation
Indices: 18838467--18838704 Score: 343
Period size: 129 Copynumber: 1.8 Consensus size: 129
18838457 ATAAAGTCTA
* *
18838467 ATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCATCATTTTAATCCGCTTCACTGTAA
1 ATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCATCATTTTAATCCGCTCCACTGCAA
*
18838532 CTTCAGGAAGATAGGATTCGTTTCTTCAATCTGCTCCACTGCAACTTTAGAGAGATAAGATTGG
66 CTTCAGGAAGATAGGATTCGTTTCTTCAATCTGCTCAACTGCAACTTTAGAGAGATAAGATTGG
* ** **
18838596 ATGCGATCTGCTCTACT-CGAACTTTAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCA
1 ATGCGATCTGCTCTACTGC-AACTTCAGAGAGATAAGATCCATCATTTTAATCCGCTCCACTGCA
* * * * *
18838660 ACTTTAGGGAGATAGGATTGGTTTCTTCAATCTGTTTAACTGCAA
65 ACTTCAGGAAGATAGGATTCGTTTCTTCAATCTGCTCAACTGCAA
18838705 TGTCGGGGAA
Statistics
Matches: 95, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
128 1 0.01
129 94 0.99
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (129 bp):
ATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCATCATTTTAATCCGCTCCACTGCAA
CTTCAGGAAGATAGGATTCGTTTCTTCAATCTGCTCAACTGCAACTTTAGAGAGATAAGATTGG
Found at i:18838873 original size:50 final size:49
Alignment explanation
Indices: 18838684--18839271 Score: 259
Period size: 50 Copynumber: 11.8 Consensus size: 49
18838674 GGATTGGTTT
* * * * * *
18838684 CTTCAATCTGTTTAACTGCAATGTCGGGGAAGTAAGATTCGTCGTCGTAG
1 CTTCAATCT-TTCAACTGCACTGCCTGGGAAGTAAGATTCGCCGTTGTAG
* * *** * * * * *
18838734 CTTCAATCTATTCCACTACACCATCAGGAAAAGTAAGATTCGTCATTGTGG
1 CTTCAATCT-TTCAACTGCACTGCCTGG-GAAGTAAGATTCGCCGTTGTAG
* * * * * * * **
18838785 CCTCAATCTTTTAATTGTAATGTCGGGGAAGCGAGATTCGCCGTTGTAG
1 CTTCAATCTTTCAACTGCACTGCCTGGGAAGTAAGATTCGCCGTTGTAG
* * * *
18838834 CTTCAATCTATTCCACTGCACCGCCTGGGAAGTAAGATTCACCGTTGTGG
1 CTTCAATCT-TTCAACTGCACTGCCTGGGAAGTAAGATTCGCCGTTGTAG
* * * * * * *
18838884 CTTTAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAG
1 CTTCAATC-TTTCAACTGCACTGCCTGGGAAGTAAGATTCGCCGTTGTAG
* * * * *
18838934 CTTCAATCCGTTCCACTGCACCT-CCTGGGAAAGTAACATCCGCCGTTGTGG
1 CTTCAAT-CTTTCAACTGCA-CTGCCTGGG-AAGTAAGATTCGCCGTTGTAG
* * * * *** *
18838985 CTTCAATCTTTTAATTGCAATGCCGGGGAAAG-AAGATTCGTTATTATAG
1 CTTCAATCTTTCAACTGCACTGCCTGGG-AAGTAAGATTCGCCGTTGTAG
* * * * * *
18839034 CTTCAATCTATTCCACTGTACTGCTTGGAAAGTAAGATTCACCATTGT-G
1 CTTCAATCT-TTCAACTGCACTGCCTGGGAAGTAAGATTCGCCGTTGTAG
* * * ** * * *
18839083 ACTTCAATCTTTTTAATTGCAATATCGGGGAAGCAAGATTCGCCATTGT-G
1 -CTTCAATC-TTTCAACTGCACTGCCTGGGAAGTAAGATTCGCCGTTGTAG
* * * **
18839133 CTTCAATTTGTTCTACTGCACCGCCTGGGAAGTAAGATTTACCGTTGT-G
1 CTTCAATCT-TTCAACTGCACTGCCTGGGAAGTAAGATTCGCCGTTGTAG
* * * * * * * * **
18839182 ATTTCAAACTTTTAATTGCAATGTCAGTGAAGCGAGATTCGCCGTTGTAG
1 -CTTCAATCTTTCAACTGCACTGCCTGGGAAGTAAGATTCGCCGTTGTAG
* * * * *
18839232 CTTCAATCTGTTCCACTGCACCGCTTAGGAAATAAGATTC
1 CTTCAATCT-TTCAACTGCACTGCCTGGGAAGTAAGATTC
18839272 ACTATCTTCG
Statistics
Matches: 379, Mismatches: 144, Indels: 30
0.69 0.26 0.05
Matches are distributed among these distances:
48 1 0.00
49 115 0.30
50 209 0.55
51 54 0.14
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.32
Consensus pattern (49 bp):
CTTCAATCTTTCAACTGCACTGCCTGGGAAGTAAGATTCGCCGTTGTAG
Found at i:18838897 original size:100 final size:99
Alignment explanation
Indices: 18838684--18839273 Score: 671
Period size: 100 Copynumber: 5.9 Consensus size: 99
18838674 GGATTGGTTT
* * * *
18838684 CTTCAATCTGTTTAACTGCAATGTCGGGGAAGTAAGATTCGTCGTCGTAGCTTCAATCTATTCCA
1 CTTCAATCT-TTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTATTCCA
* ** * * ** *
18838749 CTACACCATCAGGAAAAGTAAGATTCGTCATTGTGG
65 CTGCACCGCCTGG-GAAGTAAGATTCACCGTTGTGG
* * *
18838785 CCTCAATCTTTTAATTGTAATGTCGGGGAAGCGAGATTCGCCGTTGTAGCTTCAATCTATTCCAC
1 CTTCAATCTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTATTCCAC
18838850 TGCACCGCCTGGGAAGTAAGATTCACCGTTGTGG
66 TGCACCGCCTGGGAAGTAAGATTCACCGTTGTGG
* **
18838884 CTTTAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCCGTTCCA
1 CTTCAATC-TTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTATTCCA
* * * *
18838949 CTGCACCTCCTGGGAAAGTAACATCCGCCGTTGTGG
65 CTGCACCGCCTGGG-AAGTAAGATTCACCGTTGTGG
* *** *
18838985 CTTCAATCTTTTAATTGCAATGCCGGGGAAAG-AAGATTCGTTATTATAGCTTCAATCTATTCCA
1 CTTCAATCTTTTAATTGCAATGTCGGGG-AAGCAAGATTCGCCGTTGTAGCTTCAATCTATTCCA
* * * * * *
18839049 CTGTACTGCTTGGAAAGTAAGATTCACCATTGTGA
65 CTGCACCGCCTGGGAAGTAAGATTCACCGTTGTGG
* * * * *
18839084 CTTCAATCTTTTTAATTGCAATATCGGGGAAGCAAGATTCGCCATTGT-GCTTCAATTTGTTCTA
1 CTTCAATC-TTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTATTCCA
* *
18839148 CTGCACCGCCTGGGAAGTAAGATTTACCGTTGTGA
65 CTGCACCGCCTGGGAAGTAAGATTCACCGTTGTGG
* * * * * *
18839183 TTTCAAACTTTTAATTGCAATGTCAGTGAAGCGAGATTCGCCGTTGTAGCTTCAATCTGTTCCAC
1 CTTCAATCTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTATTCCAC
* * *
18839248 TGCACCGCTTAGGAAATAAGATTCAC
66 TGCACCGCCTGGGAAGTAAGATTCAC
18839274 TATCTTCGAT
Statistics
Matches: 413, Mismatches: 70, Indels: 14
0.83 0.14 0.03
Matches are distributed among these distances:
98 34 0.08
99 136 0.33
100 207 0.50
101 36 0.09
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (99 bp):
CTTCAATCTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTATTCCAC
TGCACCGCCTGGGAAGTAAGATTCACCGTTGTGG
Found at i:18839901 original size:132 final size:132
Alignment explanation
Indices: 18839259--18839894 Score: 925
Period size: 132 Copynumber: 4.8 Consensus size: 132
18839249 GCACCGCTTA
* * * * **
18839259 GGAA-ATAAGATTCACTATCTTCGATCTACTCTACTACTTCTTAGGGAGACAGAATCTACAATCT
1 GGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGTAATCT
** * *
18839323 TTGACCTACTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTC-CCTTCTACC
66 TTGACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCC-ACTATC
*
18839387 TTT
130 TTG
* * *
18839390 GGAAGATAAGATTCACCGTTTTTGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGTAATCT
1 GGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGTAATCT
** * *
18839455 TCAACCTACTCTACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATAT
66 TTGACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCT
18839520 TG
131 TG
* * *
18839522 AGAAGATAAGATTCACCATCTTCGATCTACTCCACTACTGCTTAAGGAGACAGAATCTGTAATCT
1 GGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGTAATCT
* *
18839587 TTGACCTATTCCACTACTACTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCT
66 TTGACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCT
18839652 TG
131 TG
* * * *
18839654 GGAATATAAGATTCACCATCTTCGATCTGCTCTACTACTGCTTAAGGAGACAGAATCTGTAATTT
1 GGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGTAATCT
* *
18839719 TTGACCTATTCCACTATTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCT
66 TTGACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCT
18839784 TG
131 TG
* * *
18839786 GGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGAATCTGCAATTT
1 GGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGTAATCT
* * * *
18839851 TTAACCTACTCCACTATTGTTTAAGGAGATAGGACTAATGGCTT
66 TTGACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTT
18839895 CGATCTGTTT
Statistics
Matches: 457, Mismatches: 46, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
131 4 0.01
132 451 0.99
133 2 0.00
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (132 bp):
GGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGTAATCT
TTGACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCT
TG
Found at i:18840054 original size:89 final size:89
Alignment explanation
Indices: 18839892--18840474 Score: 796
Period size: 89 Copynumber: 6.6 Consensus size: 89
18839882 GGACTAATGG
* * * * * *
18839892 CTTCGATCTGTTTCGCTGTCAGTACAGGAAGGCAAT-ATTTACTATCTTTAGTCTGCTCCGCTGT
1 CTTCGATCTGCTTCGCCGTCAGTACAGGAAGGC-ATGATCTGCTATCTTCAATCTGCTCCGCTGT
18839956 CAGTACAGGAAGGCAAGACTGGTTT
65 CAGTACAGGAAGGCAAGACTGGTTT
* * * * *
18839981 CTTCAATCTACTTCGCCGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAGTCTGCTCCGCTGTC
1 CTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCATGATCTGCTATCTTCAATCTGCTCCGCTGTC
*
18840046 AGTACAGGAAGGCAAAACTGGTTT
66 AGTACAGGAAGGCAAGACTGGTTT
* * * * *
18840070 CTTCGATCTGCTTCACCGTCAATACAGGAACGCATGATCTGCTATCTTCAATTTGCTCCGCTGTT
1 CTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCATGATCTGCTATCTTCAATCTGCTCCGCTGTC
18840135 AGTACAGGAAGGCAAGACTGGTTT
66 AGTACAGGAAGGCAAGACTGGTTT
* * * * *
18840159 CTTCAATCTGCTTCGCCGTCAGTACAGGAAGGGATTATCTGCTATCTTCAATCTCCTCCGCTGTT
1 CTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCATGATCTGCTATCTTCAATCTGCTCCGCTGTC
18840224 AGTACAGGAAGGCAAGACTGGTTT
66 AGTACAGGAAGGCAAGACTGGTTT
* * * * * *
18840248 CTTCGATCTGCTTCGCCGTTAGTACAAG-AGTGCAAGATCTGCTATCTTTAGTCTGCTCCACTGT
1 CTTCGATCTGCTTCGCCGTCAGTACAGGAAG-GCATGATCTGCTATCTTCAATCTGCTCCGCTGT
* *
18840312 CAGTATAGGAAGGTAAGACTGGTTT
65 CAGTACAGGAAGGCAAGACTGGTTT
* *
18840337 CTTCGATCTGCTTCACCGTCAGTACAGGAAGGCATGATCTGCTATCTTCAATTTGCTCCGCTGTC
1 CTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCATGATCTGCTATCTTCAATCTGCTCCGCTGTC
*
18840402 AGTACAGGAAGGCAAGGA-TGGTGT
66 AGTACAGGAAGGCAA-GACTGGTTT
* *
18840426 CTTCGATCTGCTTCGCCGTCAGTACAGGAATGCATGATCTG-TAACTTCA
1 CTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCATGATCTGCTATCTTCA
18840475 TTGATCTGTT
Statistics
Matches: 436, Mismatches: 54, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
88 10 0.02
89 422 0.97
90 4 0.01
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.30
Consensus pattern (89 bp):
CTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCATGATCTGCTATCTTCAATCTGCTCCGCTGTC
AGTACAGGAAGGCAAGACTGGTTT
Found at i:18840384 original size:267 final size:267
Alignment explanation
Indices: 18839892--18840455 Score: 889
Period size: 267 Copynumber: 2.1 Consensus size: 267
18839882 GGACTAATGG
* * * * * *
18839892 CTTCGATCTGTTTCGCTGTCAGTACAGGAAGGCAATATTTACTATCTTTAGTCTGCTCCGCTGTC
1 CTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCAATATCTACTATCTTCAATCTCCTCCGCTGTC
*
18839957 AGTACAGGAAGGCAAGACTGGTTTCTTCAATCTACTTCGCCGTCAGTACAGGAAGGCAAGATCTG
66 AGTACAGGAAGGCAAGACTGGTTTCTTCAATCTACTTCGCCGTCAGTACAAGAAGGCAAGATCTG
*
18840022 CTATCTTTAGTCTGCTCCGCTGTCAGTACAGGAAGGCAAAACTGGTTTCTTCGATCTGCTTCACC
131 CTATCTTTAGTCTGCTCCACTGTCAGTACAGGAAGGCAAAACTGGTTTCTTCGATCTGCTTCACC
*
18840087 GTCAATACAGGAACGCATGATCTGCTATCTTCAATTTGCTCCGCTGTTAGTACAGGAAGGCAA-G
196 GTCAATACAGGAACGCATGATCTGCTATCTTCAATTTGCTCCGCTGTCAGTACAGGAAGGCAAGG
*
18840151 ACTGGTTT
261 A-TGGTGT
* * * * *
18840159 CTTCAATCTGCTTCGCCGTCAGTACAGGAAGGGATTATCTGCTATCTTCAATCTCCTCCGCTGTT
1 CTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCAATATCTACTATCTTCAATCTCCTCCGCTGTC
* * *
18840224 AGTACAGGAAGGCAAGACTGGTTTCTTCGATCTGCTTCGCCGTTAGTACAAG-AGTGCAAGATCT
66 AGTACAGGAAGGCAAGACTGGTTTCTTCAATCTACTTCGCCGTCAGTACAAGAAG-GCAAGATCT
* * *
18840288 GCTATCTTTAGTCTGCTCCACTGTCAGTATAGGAAGGTAAGACTGGTTTCTTCGATCTGCTTCAC
130 GCTATCTTTAGTCTGCTCCACTGTCAGTACAGGAAGGCAAAACTGGTTTCTTCGATCTGCTTCAC
* *
18840353 CGTCAGTACAGGAAGGCATGATCTGCTATCTTCAATTTGCTCCGCTGTCAGTACAGGAAGGCAAG
195 CGTCAATACAGGAACGCATGATCTGCTATCTTCAATTTGCTCCGCTGTCAGTACAGGAAGGCAAG
18840418 GATGGTGT
260 GATGGTGT
18840426 CTTCGATCTGCTTCGCCGTCAGTACAGGAA
1 CTTCGATCTGCTTCGCCGTCAGTACAGGAA
18840456 TGCATGATCT
Statistics
Matches: 271, Mismatches: 24, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
266 2 0.01
267 267 0.99
268 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.30
Consensus pattern (267 bp):
CTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCAATATCTACTATCTTCAATCTCCTCCGCTGTC
AGTACAGGAAGGCAAGACTGGTTTCTTCAATCTACTTCGCCGTCAGTACAAGAAGGCAAGATCTG
CTATCTTTAGTCTGCTCCACTGTCAGTACAGGAAGGCAAAACTGGTTTCTTCGATCTGCTTCACC
GTCAATACAGGAACGCATGATCTGCTATCTTCAATTTGCTCCGCTGTCAGTACAGGAAGGCAAGG
ATGGTGT
Found at i:18841747 original size:11 final size:10
Alignment explanation
Indices: 18841733--18841796 Score: 57
Period size: 10 Copynumber: 6.6 Consensus size: 10
18841723 TTGGCCTCTC
18841733 CTTTTTCTTTT
1 CTTTTTC-TTT
18841744 CTTTTTC-TT
1 CTTTTTCTTT
18841753 C--TTTCTTT
1 CTTTTTCTTT
18841761 CTTTTTCTTT
1 CTTTTTCTTT
*
18841771 -TTTTCTCTCT
1 CTTTT-TCTTT
18841781 CTTTTT-TTT
1 CTTTTTCTTT
18841790 CTCTTTT
1 CT-TTTT
18841797 TTTAACAATT
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
7 4 0.09
8 3 0.07
9 11 0.24
10 16 0.36
11 11 0.24
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (10 bp):
CTTTTTCTTT
Found at i:18841749 original size:6 final size:6
Alignment explanation
Indices: 18841733--18841772 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
18841723 TTGGCCTCTC
18841733 CTTTTT C-TTTT CTTTTT CTTCTTT C--TTT CTTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTT-TTT CTTTTT CTTTTT CTTTTT
18841773 TTCTCTCTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
4 4 0.13
5 5 0.17
6 17 0.57
7 4 0.13
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
CTTTTT
Found at i:18841756 original size:14 final size:13
Alignment explanation
Indices: 18841737--18841799 Score: 60
Period size: 13 Copynumber: 4.8 Consensus size: 13
18841727 CCTCTCCTTT
18841737 TTCTTTTCTTTTTC
1 TTCTTTT-TTTTTC
18841751 TTCTTTCTTTCTTT-
1 TTCTTT-TTT-TTTC
*
18841765 TTCTTTTTTTCTC
1 TTCTTTTTTTTTC
18841778 -TCTCTTTTTTTTC
1 TTCT-TTTTTTTTC
18841791 -TCTTTTTTT
1 TTCTTTTTTT
18841800 AACAATTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
12 11 0.26
13 14 0.33
14 14 0.33
15 4 0.09
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (13 bp):
TTCTTTTTTTTTC
Found at i:18841763 original size:17 final size:18
Alignment explanation
Indices: 18841736--18841769 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
18841726 GCCTCTCCTT
18841736 TTTCTTTTCTTTTTCTTC
1 TTTCTTTTCTTTTTCTTC
18841754 TTTC-TTTCTTTTTCTT
1 TTTCTTTTCTTTTTCTT
18841770 TTTTTCTCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTCTTTTCTTTTTCTTC
Found at i:18841770 original size:23 final size:24
Alignment explanation
Indices: 18841736--18841799 Score: 80
Period size: 23 Copynumber: 2.7 Consensus size: 24
18841726 GCCTCTCCTT
18841736 TTTC-TTTTCTTTTTCTTCT-T-TC
1 TTTCTTTTTCTTTTT-TTCTCTCTC
18841758 TTTCTTTTTCTTTTTTTCTCTCTC
1 TTTCTTTTTCTTTTTTTCTCTCTC
*
18841782 TTTTTTTTCTCTTTTTTT
1 TTTCTTTT-TCTTTTTTT
18841800 AACAATTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
22 8 0.22
23 11 0.30
24 9 0.24
25 9 0.24
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (24 bp):
TTTCTTTTTCTTTTTTTCTCTCTC
Found at i:18841797 original size:11 final size:11
Alignment explanation
Indices: 18841733--18841799 Score: 57
Period size: 11 Copynumber: 5.7 Consensus size: 11
18841723 TTGGCCTCTC
18841733 CTTTTTCTTT-T
1 CTTTTT-TTTCT
*
18841744 CTTTTTCTTCTTT
1 CTTTTT-TT-TCT
18841757 CTTTCTTTTTCT
1 CTTT-TTTTTCT
18841769 -TTTTTTCTCTCT
1 CTTTTTT-T-TCT
18841781 CTTTTTTTTCT
1 CTTTTTTTTCT
18841792 CTTTTTTT
1 CTTTTTTT
18841800 AACAATTTTT
Statistics
Matches: 49, Mismatches: 1, Indels: 12
0.79 0.02 0.19
Matches are distributed among these distances:
10 3 0.06
11 24 0.49
12 7 0.14
13 13 0.27
14 2 0.04
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (11 bp):
CTTTTTTTTCT
Found at i:18842180 original size:16 final size:15
Alignment explanation
Indices: 18842159--18842213 Score: 65
Period size: 16 Copynumber: 3.5 Consensus size: 15
18842149 CGGTAGAGGT
18842159 TTTTTTTTATTTTTTA
1 TTTTTTTT-TTTTTTA
18842175 TTTTTTTTTGTTTTTA
1 TTTTTTTTT-TTTTTA
* * *
18842191 TTTGTTTTTTATTTG
1 TTTTTTTTTTTTTTA
18842206 TTTTTTTT
1 TTTTTTTT
18842214 CCTCCAATGC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
15 12 0.35
16 22 0.65
ACGTcount: A:0.07, C:0.00, G:0.05, T:0.87
Consensus pattern (15 bp):
TTTTTTTTTTTTTTA
Found at i:18842182 original size:11 final size:11
Alignment explanation
Indices: 18842158--18842212 Score: 67
Period size: 11 Copynumber: 4.8 Consensus size: 11
18842148 CCGGTAGAGG
18842158 TTTTTTTTTAT
1 TTTTTTTTTAT
18842169 TTTTTATTTT-T
1 TTTTT-TTTTAT
18842180 TTTTGTTTTTAT
1 TTTT-TTTTTAT
*
18842192 TTGTTTTTTAT
1 TTTTTTTTTAT
18842203 TTGTTTTTTT
1 TT-TTTTTTT
18842213 TCCTCCAATG
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
11 23 0.61
12 15 0.39
ACGTcount: A:0.07, C:0.00, G:0.05, T:0.87
Consensus pattern (11 bp):
TTTTTTTTTAT
Found at i:18842198 original size:27 final size:28
Alignment explanation
Indices: 18842157--18842211 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
18842147 CCCGGTAGAG
*
18842157 GTTTTTTTTTATTTTTTATTT-TTTTTT
1 GTTTTTATTTATTTTTTATTTGTTTTTT
*
18842184 GTTTTTATTTGTTTTTTATTTGTTTTTT
1 GTTTTTATTTATTTTTTATTTGTTTTTT
18842212 TTCCTCCAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 19 0.76
28 6 0.24
ACGTcount: A:0.07, C:0.00, G:0.07, T:0.85
Consensus pattern (28 bp):
GTTTTTATTTATTTTTTATTTGTTTTTT
Found at i:18845063 original size:109 final size:106
Alignment explanation
Indices: 18844752--18845072 Score: 365
Period size: 108 Copynumber: 3.0 Consensus size: 106
18844742 GATTAAGATA
* * * * * *
18844752 TAAAATGATATTTGGCTATTTGGTCCAACGAGAAAATCGAAACTCAGAACATTAGGACACGTTTC
1 TAAAAGGATATTTGGCTA-TTGGTCGAATGAGAAAATCGAAACCCAGCACATTAGGGCACGTTT-
* * * *
18844817 CTCGAATTTCTAAGCACAAAACATTACCTTATTTTGAAATTTT
64 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTT
* * * * **
18844860 TAAAAGGATATTCGGTTATCTGGTCGAATGAGAAAATCGAAATCCAGCACA-TAGGGGATTATTT
1 TAAAAGGATATTTGGCTAT-TGGTCGAATGAGAAAATCGAAACCCAGCACATTAGGGCA-CGTTT
* *
18844924 CGTCGAATTTCCAAAGGCAAAACCTTGCCTTATTTTGAAATTTT
64 C-TCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTT
18844968 TAAAAGGATATTTGGCTATTAGGTCGAATGAGAAAAATCGAAACCCAGCACATTAGGGCACGCTT
1 TAAAAGGATATTTGGCTATT-GGTCGAATGAG-AAAATCGAAACCCAGCACATTAGGGCACG-TT
* * * *
18845033 TCTCGAACTTCCAAATGCAAAATATTGCCTTATTTAGAAA
63 TCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAA
18845073 AAAATTTCTT
Statistics
Matches: 177, Mismatches: 29, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
107 8 0.05
108 108 0.61
109 51 0.29
110 10 0.06
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (106 bp):
TAAAAGGATATTTGGCTATTGGTCGAATGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTCT
CGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTT
Found at i:18853652 original size:33 final size:33
Alignment explanation
Indices: 18853607--18853684 Score: 106
Period size: 33 Copynumber: 2.4 Consensus size: 33
18853597 CAGTGTTTAT
*
18853607 ATGTAAGACCATAGCTGGGCTATGGCA-T-TCAG
1 ATGTAAGACCATAACTGGGCTATGGCACTAT-AG
*
18853639 ATGATAAGACCATAACTGGGTTATGGCACTATAG
1 ATG-TAAGACCATAACTGGGCTATGGCACTATAG
18853673 ATGTAAGACCAT
1 ATGTAAGACCAT
18853685 GGTATGTCCA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
32 3 0.07
33 31 0.76
34 6 0.15
35 1 0.02
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (33 bp):
ATGTAAGACCATAACTGGGCTATGGCACTATAG
Found at i:18853699 original size:101 final size:101
Alignment explanation
Indices: 18853471--18853687 Score: 317
Period size: 101 Copynumber: 2.1 Consensus size: 101
18853461 AATTATTCAA
* *
18853471 ACGTAACACCATGGTTGGACCATGACAGTGTTTATATGTAAGACTACAACTAGGCTATGACATTC
1 ACGTAACACCATGGTTGGACCATGGCAGTGTTTATATGTAAGACCACAACTAGGCTATGACATTC
* *
18853536 TGATGATAAGACCATAACTGGGTTATGGCACTATGG
66 AGATGATAAGACCATAACTGGGTTATGGCACTATAG
* * * * * * *
18853572 ACGGAATACCATGGTTGGACAATGGCAGTGTTTATATGTAAGACCATAGCTGGGCTATGGCATTC
1 ACGTAACACCATGGTTGGACCATGGCAGTGTTTATATGTAAGACCACAACTAGGCTATGACATTC
18853637 AGATGATAAGACCATAACTGGGTTATGGCACTATAG
66 AGATGATAAGACCATAACTGGGTTATGGCACTATAG
* *
18853673 ATGTAAGACCATGGT
1 ACGTAACACCATGGT
18853688 ATGTCCATGG
Statistics
Matches: 102, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
101 102 1.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (101 bp):
ACGTAACACCATGGTTGGACCATGGCAGTGTTTATATGTAAGACCACAACTAGGCTATGACATTC
AGATGATAAGACCATAACTGGGTTATGGCACTATAG
Found at i:18853709 original size:101 final size:101
Alignment explanation
Indices: 18853503--18853730 Score: 264
Period size: 101 Copynumber: 2.3 Consensus size: 101
18853493 TGACAGTGTT
* * * * *
18853503 TATATGTAAGACTACAACTAGGCTATGACATTCTGATGATAAGACCATAACTGGGTTATGGCACT
1 TATATGTAAGACCATAGCTGGGCTATGACATTCAGATGATAAGACCATAACTGGGTTATGGCACT
* * * ***
18853568 ATGGACGGAATACCATGGTTGGACAATGGCAGTGTT
66 ATAGACGGAAGACCATGGTTGGACAATGGCAATACA
*
18853604 TATATGTAAGACCATAGCTGGGCTATGGCATTCAGATGATAAGACCATAACTGGGTTATGGCACT
1 TATATGTAAGACCATAGCTGGGCTATGACATTCAGATGATAAGACCATAACTGGGTTATGGCACT
* * * *
18853669 ATAGATGTAAGACCATGGTAT-GTCCATGGCAATACA
66 ATAGACGGAAGACCATGGT-TGGACAATGGCAATACA
* *
18853705 TATA--TAAGACCATAGTTGGACTATGA
1 TATATGTAAGACCATAGCTGGGCTATGA
18853731 TACAATAAGA
Statistics
Matches: 107, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
99 19 0.18
101 87 0.81
102 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.28
Consensus pattern (101 bp):
TATATGTAAGACCATAGCTGGGCTATGACATTCAGATGATAAGACCATAACTGGGTTATGGCACT
ATAGACGGAAGACCATGGTTGGACAATGGCAATACA
Found at i:18857059 original size:41 final size:41
Alignment explanation
Indices: 18856992--18857097 Score: 133
Period size: 42 Copynumber: 2.6 Consensus size: 41
18856982 AAATGATTCT
*
18856992 CGAGCTTAAATTGTTTATCCAGAATATGA-CCTCAGAAGCA
1 CGAGCTTAAATTGTTTATCCAAAATATGATCCTCAGAAGCA
* * * **
18857032 CGAGTTTAAATTGTTAAATCCAAAATATGATGCTCCTAAGCA
1 CGAGCTTAAATTGTT-TATCCAAAATATGATCCTCAGAAGCA
*
18857074 CAAGCTTAAATTGTTTATCCAAAA
1 CGAGCTTAAATTGTTTATCCAAAA
18857098 AAACAATGCT
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
40 14 0.25
41 20 0.36
42 21 0.38
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (41 bp):
CGAGCTTAAATTGTTTATCCAAAATATGATCCTCAGAAGCA
Found at i:18857519 original size:32 final size:32
Alignment explanation
Indices: 18857465--18857527 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 32
18857455 AGGAAAAATC
*
18857465 AAGAAATCAAATAATTTTAAAAT-ACTTTTATA
1 AAGAAATCAAATAATTTAAAAATGA-TTTTATA
* **
18857497 AAGAAATCATATTCTTTAAAAATGATTTTAT
1 AAGAAATCAAATAATTTAAAAATGATTTTAT
18857528 TTCTAATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
32 25 0.96
33 1 0.04
ACGTcount: A:0.49, C:0.06, G:0.05, T:0.40
Consensus pattern (32 bp):
AAGAAATCAAATAATTTAAAAATGATTTTATA
Found at i:18866517 original size:15 final size:15
Alignment explanation
Indices: 18866497--18866526 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
18866487 ATTATACTTC
18866497 CTTTTTCTTTTTGGG
1 CTTTTTCTTTTTGGG
18866512 CTTTTTCTTTTTGGG
1 CTTTTTCTTTTTGGG
18866527 AAAGAAGGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.13, G:0.20, T:0.67
Consensus pattern (15 bp):
CTTTTTCTTTTTGGG
Found at i:18877929 original size:152 final size:152
Alignment explanation
Indices: 18877665--18877949 Score: 401
Period size: 152 Copynumber: 1.9 Consensus size: 152
18877655 TCGAATAAGG
* * * *
18877665 GACGATATGCATGTATTTTAATGGATTTTTCTATGATTATGAAATGTTTGGATATTGATGATTTT
1 GACGATATGCACGTATTTGAATGGATTTTGCTATGATTATGAAATGTTTGGAAATTGATGATTTT
* * * * ** *
18877730 AAGTTATGTTTTTATGGTAATGCTCTATAACCCTAATTCGACGACGGATATGGGTTAAGGGTGTT
66 AAGTTACGTTTTTACGATAATGCTCTATAACCCTAATTCGACCACGGATACAGATTAAGGGTGTT
18877795 ACATTTAGTGGCTCAAATGAGA
131 ACATTTAGTGGCTCAAATGAGA
* * *
18877817 GACGATATGCACGTGTTTGAATGGATTTTGCTATGGTTATTAAATGTTTGGAAATTGATGATTTT
1 GACGATATGCACGTATTTGAATGGATTTTGCTATGATTATGAAATGTTTGGAAATTGATGATTTT
* * *
18877882 AAGTTACGTTTTTACGATAATGCTCTGTAACCCT-ATTCCGGCCACGGATACAGATTAGGGGTGT
66 AAGTTACGTTTTTACGATAATGCTCTATAACCCTAATT-CGACCACGGATACAGATTAAGGGTGT
18877946 TACA
130 TACA
18877950 CGACCATATA
Statistics
Matches: 115, Mismatches: 17, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
151 3 0.03
152 112 0.97
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.39
Consensus pattern (152 bp):
GACGATATGCACGTATTTGAATGGATTTTGCTATGATTATGAAATGTTTGGAAATTGATGATTTT
AAGTTACGTTTTTACGATAATGCTCTATAACCCTAATTCGACCACGGATACAGATTAAGGGTGTT
ACATTTAGTGGCTCAAATGAGA
Found at i:18879903 original size:15 final size:14
Alignment explanation
Indices: 18879883--18879922 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
18879873 AATTTGACCC
18879883 AATATAATATTACA
1 AATATAATATTACA
*
18879897 TAATATAATAATACA
1 -AATATAATATTACA
18879912 AATTATAATAT
1 AA-TATAATAT
18879923 CAATGGTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 2 0.09
15 20 0.91
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (14 bp):
AATATAATATTACA
Found at i:18880021 original size:18 final size:18
Alignment explanation
Indices: 18879990--18880042 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
18879980 TAATATGTAA
18879990 AATATTAT-TAAAATTTT
1 AATATTATATAAAATTTT
*
18880007 AATATTATATAAAATATT
1 AATATTATATAAAATTTT
18880025 AATTATGTATATAAAATT
1 AA-TAT-TATATAAAATT
18880043 AACACATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
17 8 0.26
18 10 0.32
19 3 0.10
20 10 0.32
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
AATATTATATAAAATTTT
Found at i:18880108 original size:17 final size:16
Alignment explanation
Indices: 18880083--18880132 Score: 59
Period size: 17 Copynumber: 3.2 Consensus size: 16
18880073 TTAGTTATGA
18880083 TATATAAAATATCTAT
1 TATATAAAATATCTAT
*
18880099 TATGATAAAACATCT-T
1 TAT-ATAAAATATCTAT
*
18880115 TATA-AAAATTTCTAT
1 TATATAAAATATCTAT
18880130 TAT
1 TAT
18880133 TTAGGAAGCG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 7 0.24
15 5 0.17
16 7 0.24
17 10 0.34
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (16 bp):
TATATAAAATATCTAT
Found at i:18894278 original size:43 final size:43
Alignment explanation
Indices: 18894184--18894271 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
18894174 TTACTAAAAG
*
18894184 AATGATTTTTTGGAAAATTGCTTAAATTCTTGAACTTGGGATT
1 AATGATTTTGTGGAAAATTGCTTAAATTCTTGAACTTGGGATT
18894227 AATGATTTTGTGGAAAATTGCTTAAATTCTTGAACTTGGGATT
1 AATGATTTTGTGGAAAATTGCTTAAATTCTTGAACTTGGGATT
18894270 AA
1 AA
18894272 GCATTTTAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.42
Consensus pattern (43 bp):
AATGATTTTGTGGAAAATTGCTTAAATTCTTGAACTTGGGATT
Found at i:18900762 original size:23 final size:23
Alignment explanation
Indices: 18900705--18900762 Score: 55
Period size: 23 Copynumber: 2.5 Consensus size: 23
18900695 GACTATATTG
* *
18900705 AAATCAGAAAAAAATTTGAAGAAA
1 AAATC-GAAATAAATTTGAAAAAA
* *
18900729 AATTCGTAATAAATTT-AAAAATA
1 AAATCGAAATAAATTTGAAAAA-A
18900752 AAATCGAAATA
1 AAATCGAAATA
18900763 GGACTGAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
22 4 0.15
23 19 0.70
24 4 0.15
ACGTcount: A:0.62, C:0.05, G:0.09, T:0.24
Consensus pattern (23 bp):
AAATCGAAATAAATTTGAAAAAA
Found at i:18902205 original size:25 final size:25
Alignment explanation
Indices: 18902176--18902226 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
18902166 AATTCTGGGC
* *
18902176 TTTGGTTTTTTATATTT-TTTTTGTA
1 TTTGGTTTATTAT-TTTCTTTGTGTA
18902201 TTTGGTTTATTATTTTCTTTGTGTA
1 TTTGGTTTATTATTTTCTTTGTGTA
18902226 T
1 T
18902227 GCGAGCCCGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 3 0.13
25 20 0.87
ACGTcount: A:0.12, C:0.02, G:0.14, T:0.73
Consensus pattern (25 bp):
TTTGGTTTATTATTTTCTTTGTGTA
Found at i:18902538 original size:44 final size:44
Alignment explanation
Indices: 18902467--18903015 Score: 239
Period size: 44 Copynumber: 12.6 Consensus size: 44
18902457 TTCTTCTGTT
* *
18902467 TACTCCACTGCAACTTCAGCGG-TATAAGATCTGCTTGCTTAGTC
1 TACTCCACTGCAACTTCAG-GGAGATAAGATCTGCTTGCTTAATC
* * *
18902511 TACTCCGCTGCAACTTCAGGGAGATAAGA-CTAG-ATGC--GATC
1 TACTCCACTGCAACTTCAGGGAGATAAGATCT-GCTTGCTTAATC
* * *
18902552 TACT-CTCTGTAACTTCAGAGAGATAAGATCTGTCATT--TTAATC
1 TACTCCACTGCAACTTCAGGGAGATAAGATCTG-C-TTGCTTAATC
* ** * * * *
18902595 CACTCGGCTACAACTTTAGGGAGATAGGAT-T-ATTGGCTTTAATC
1 TACTCCACTGCAACTTCAGGGAGATAAGATCTGCTT-GC-TTAATC
* * * *
18902639 TGCTCCACTACAACTTTAGGGAGATAAGAT-TCGTCAT-CTTCAATC
1 TACTCCACTGCAACTTCAGGGAGATAAGATCT-G-CTTGCTT-AATC
* * * * *
18902684 TGCCCCACTACAACTTCAGGGGGATAAGATCTGCTTGCTTAGTC
1 TACTCCACTGCAACTTCAGGGAGATAAGATCTGCTTGCTTAATC
* * * *
18902728 TGCTCCGCTGCAACTTTAGGGAGATAAGA-CTAG-ATGC--AATC
1 TACTCCACTGCAACTTCAGGGAGATAAGATCT-GCTTGCTTAATC
* ** ** *
18902769 TGCT-CTTTGCAACTTCAGACAAATAAGATCTGTCATT--TTAATC
1 TACTCCACTGCAACTTCAGGGAGATAAGATCTG-C-TTGCTTAATC
* * * * *
18902812 TGCTCCACTACAACTTCAGAGAGATAGGAT-T-ATTGGCTTTAATC
1 TACTCCACTGCAACTTCAGGGAGATAAGATCTGCTT-GC-TTAATC
* * *
18902856 TGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTAT-CTTCAATC
1 TACTCCACTGCAACTTCAGGGAGATAAGATCTGCT-TGCTT-AATC
** * * * * *
18902901 CGCTCCACTACAACTTCAGGGATATAGGATTTACTAT-CTTCAATC
1 TACTCCACTGCAACTTCAGGGAGATAAGATCTGCT-TGCTT-AATC
** * * *
18902946 CGCTCCATTGCAACTTCAGGGAGATAGGATTTG-TAT-CTTCAATC
1 TACTCCACTGCAACTTCAGGGAGATAAGATCTGCT-TGCTT-AATC
**
18902990 CGCTCCACTGCAACTTCAGGGAGATA
1 TACTCCACTGCAACTTCAGGGAGATA
18903016 GGATTTGTAT
Statistics
Matches: 404, Mismatches: 66, Indels: 70
0.75 0.12 0.13
Matches are distributed among these distances:
40 45 0.11
41 17 0.04
43 30 0.07
44 198 0.49
45 110 0.27
46 2 0.00
47 2 0.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (44 bp):
TACTCCACTGCAACTTCAGGGAGATAAGATCTGCTTGCTTAATC
Found at i:18902852 original size:217 final size:217
Alignment explanation
Indices: 18902471--18902921 Score: 679
Period size: 217 Copynumber: 2.1 Consensus size: 217
18902461 TCTGTTTACT
* * *
18902471 CCACTGCAACTTCAGCGGTATAAGATCTGCTTGCTTAGTCTACTCCGCTGCAACTTCAGGGAGAT
1 CCACTACAACTTCAGGGGGATAAGATCTGCTTGCTTAGTCTACTCCGCTGCAACTTCAGGGAGAT
* * * * *
18902536 AAGACTAGATGCGATCTACTCTCTGTAACTTCAGAGAGATAAGATCTGTCATTTTAATCCACTCG
66 AAGACTAGATGCAATCTACTCTCTGCAACTTCAGACAAATAAGATCTGTCATTTTAATCCACTCC
* * * * *
18902601 GCTACAACTTTAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTACAACTTTAGGGAGATAA
131 ACTACAACTTCAGAGAGATAGGATTATTGGCTTTAATCTGCTCCACTACAACTTCAGAGAGATAA
*
18902666 GATTCG-TCATCTTCAATCTGCC
196 GATTCGCT-ATCTTCAATCCGCC
* *
18902688 CCACTACAACTTCAGGGGGATAAGATCTGCTTGCTTAGTCTGCTCCGCTGCAACTTTAGGGAGAT
1 CCACTACAACTTCAGGGGGATAAGATCTGCTTGCTTAGTCTACTCCGCTGCAACTTCAGGGAGAT
* * **
18902753 AAGACTAGATGCAATCTGCTCTTTGCAACTTCAGACAAATAAGATCTGTCATTTTAATCTGCTCC
66 AAGACTAGATGCAATCTACTCTCTGCAACTTCAGACAAATAAGATCTGTCATTTTAATCCACTCC
*
18902818 ACTACAACTTCAGAGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAA
131 ACTACAACTTCAGAGAGATAGGATTATTGGCTTTAATCTGCTCCACTACAACTTCAGAGAGATAA
* *
18902883 GATTTGCTATCTTCAATCCGCT
196 GATTCGCTATCTTCAATCCGCC
18902905 CCACTACAACTTCAGGG
1 CCACTACAACTTCAGGG
18902922 ATATAGGATT
Statistics
Matches: 210, Mismatches: 23, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
217 209 1.00
218 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (217 bp):
CCACTACAACTTCAGGGGGATAAGATCTGCTTGCTTAGTCTACTCCGCTGCAACTTCAGGGAGAT
AAGACTAGATGCAATCTACTCTCTGCAACTTCAGACAAATAAGATCTGTCATTTTAATCCACTCC
ACTACAACTTCAGAGAGATAGGATTATTGGCTTTAATCTGCTCCACTACAACTTCAGAGAGATAA
GATTCGCTATCTTCAATCCGCC
Found at i:18902928 original size:89 final size:88
Alignment explanation
Indices: 18902635--18903067 Score: 362
Period size: 89 Copynumber: 4.9 Consensus size: 88
18902625 TATTGGCTTT
* * * * * * * *
18902635 AATCTGCTCCACTACAACTTTAGGGAGATAAGATTCGTCATCTTCAATCTGCCCCACTACAACTT
1 AATCCGCTCCACTACAACTTCAGGGAGATAGGATT-ATTATCTTCAATCCGCTCCACTGCAACTT
* * *
18902700 CAGGGGGATAAGATCTGCT-TGCTT-
65 CAGAGAGATAAGATTTG-TAT-CTTC
* * * * * * * * * * **
18902724 AGTCTGCTCCGCTGCAACTTTAGGGAGATAAGACTA-GA--TGCAATCTGCT-CTTTGCAACTTC
1 AATCCGCTCCACTACAACTTCAGGGAGATAGGATTATTATCTTCAATCCGCTCCACTGCAACTTC
* * * *
18902785 AGACAAATAAGATCTGTCAT-TTT
66 AGAGAGATAAGATTTGT-ATCTTC
* * ** * *
18902808 AATCTGCTCCACTACAACTTCAGAGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTC
1 AATCCGCTCCACTACAACTTCAGGGAGATAGGATTATTATCTTCAATCCGCTCCACTGCAACTTC
18902873 AGAGAGATAAGATTTGCTATCTTC
66 AGAGAGATAAGATTTG-TATCTTC
* * *
18902897 AATCCGCTCCACTACAACTTCAGGGATATAGGATTTACTATCTTCAATCCGCTCCATTGCAACTT
1 AATCCGCTCCACTACAACTTCAGGGAGATAGGA-TTATTATCTTCAATCCGCTCCACTGCAACTT
* *
18902962 CAGGGAGATAGGATTTGTATCTTC
65 CAGAGAGATAAGATTTGTATCTTC
* *
18902986 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATT-TGTATCTTCAATCCGCTCCACTGTAACTT
1 AATCCGCTCCACTACAACTTCAGGGAGATAGGATTAT-TATCTTCAATCCGCTCCACTGCAACTT
*
18903050 CA-AGAAGATAGGATTTGT
65 CAGAG-AGATAAGATTTGT
18903068 GGTTTCACCG
Statistics
Matches: 283, Mismatches: 49, Indels: 25
0.79 0.14 0.07
Matches are distributed among these distances:
83 3 0.01
84 50 0.18
85 10 0.04
87 11 0.04
88 67 0.24
89 102 0.36
90 40 0.14
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (88 bp):
AATCCGCTCCACTACAACTTCAGGGAGATAGGATTATTATCTTCAATCCGCTCCACTGCAACTTC
AGAGAGATAAGATTTGTATCTTC
Found at i:18903016 original size:44 final size:44
Alignment explanation
Indices: 18902605--18903067 Score: 377
Period size: 44 Copynumber: 10.5 Consensus size: 44
18902595 CACTCGGCTA
* ** * *
18902605 CAACTTTAGGGAGATAGGATTAT-TGGCTTTAATCTGCTCCACTA
1 CAACTTCAGGGAGATAGGATT-TGTATCTTCAATCTGCTCCACTG
* * * * *
18902649 CAACTTTAGGGAGATAAGATTCGTCATCTTCAATCTGCCCCACTA
1 CAACTTCAGGGAGATAGGATTTGT-ATCTTCAATCTGCTCCACTG
* * * * *
18902694 CAACTTCAGGGGGATAAGATCTGCT-TGCTT-AGTCTGCTCCGCTG
1 CAACTTCAGGGAGATAGGATTTG-TAT-CTTCAATCTGCTCCACTG
* * * * * **
18902738 CAACTTTAGGGAGATAAGACTAG-A--TGCAATCTGCT-CTTTG
1 CAACTTCAGGGAGATAGGATTTGTATCTTCAATCTGCTCCACTG
** * * * * *
18902778 CAACTTCAGACAAATAAGATCTGTCAT-TTTAATCTGCTCCACTA
1 CAACTTCAGGGAGATAGGATTTGT-ATCTTCAATCTGCTCCACTG
* ** *
18902822 CAACTTCAGAGAGATAGGATTAT-TGGCTTTAATCTGCTCCACTG
1 CAACTTCAGGGAGATAGGATT-TGTATCTTCAATCTGCTCCACTG
* * * *
18902866 CAACTTCAGAGAGATAAGATTTGCTATCTTCAATCCGCTCCACTA
1 CAACTTCAGGGAGATAGGATTTG-TATCTTCAATCTGCTCCACTG
* * * *
18902911 CAACTTCAGGGATATAGGATTTACTATCTTCAATCCGCTCCATTG
1 CAACTTCAGGGAGATAGGATTT-GTATCTTCAATCTGCTCCACTG
*
18902956 CAACTTCAGGGAGATAGGATTTGTATCTTCAATCCGCTCCACTG
1 CAACTTCAGGGAGATAGGATTTGTATCTTCAATCTGCTCCACTG
*
18903000 CAACTTCAGGGAGATAGGATTTGTATCTTCAATCCGCTCCACTG
1 CAACTTCAGGGAGATAGGATTTGTATCTTCAATCTGCTCCACTG
* * *
18903044 TAACTTCAAGAAGATAGGATTTGT
1 CAACTTCAGGGAGATAGGATTTGT
18903068 GGTTTCACCG
Statistics
Matches: 344, Mismatches: 60, Indels: 30
0.79 0.14 0.07
Matches are distributed among these distances:
40 20 0.06
41 7 0.02
42 1 0.00
43 10 0.03
44 191 0.56
45 114 0.33
46 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (44 bp):
CAACTTCAGGGAGATAGGATTTGTATCTTCAATCTGCTCCACTG
Found at i:18911473 original size:82 final size:82
Alignment explanation
Indices: 18911336--18911495 Score: 302
Period size: 82 Copynumber: 2.0 Consensus size: 82
18911326 AAAATAAATT
*
18911336 TCTTTACATAAAATGAACTACAAATAAGGCTTTGCCTTAATACTCAAGACCTTAATCCTCCTAAG
1 TCTTTACATAAAATGAACTACAAATAAGGCTTTGCCCTAATACTCAAGACCTTAATCCTCCTAAG
*
18911401 TAACGAGGTCAACAGAA
66 TAACGAGGCCAACAGAA
18911418 TCTTTACATAAAATGAACTACAAATAAGGCTTTGCCCTAATACTCAAGACCTTAATCCTCCTAAG
1 TCTTTACATAAAATGAACTACAAATAAGGCTTTGCCCTAATACTCAAGACCTTAATCCTCCTAAG
18911483 TAACGAGGCCAAC
66 TAACGAGGCCAAC
18911496 TTTTGTCCCC
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
82 76 1.00
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.26
Consensus pattern (82 bp):
TCTTTACATAAAATGAACTACAAATAAGGCTTTGCCCTAATACTCAAGACCTTAATCCTCCTAAG
TAACGAGGCCAACAGAA
Found at i:18915082 original size:25 final size:27
Alignment explanation
Indices: 18915046--18915095 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
18915036 AATTTGGCAT
18915046 AAAACATAT-AAATAAATAA-AATAAAG
1 AAAACATATAAAAT-AATAATAATAAAG
18915072 AAAAC-TATAAAATAATAATAATAA
1 AAAACATATAAAATAATAATAATAA
18915096 TAATAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.22
Consensus pattern (27 bp):
AAAACATATAAAATAATAATAATAAAG
Found at i:18915090 original size:3 final size:3
Alignment explanation
Indices: 18915078--18915106 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
18915068 AAAGAAAACT
18915078 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
18915107 GTAACGAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:18915403 original size:23 final size:23
Alignment explanation
Indices: 18915354--18915412 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 23
18915344 GACTATATTG
* *
18915354 AAATCAGAATAAAATTTGAGAAAA
1 AAATCAAAAT-AAATTTGAAAAAA
*
18915378 AAATCATAATAAATTT-AAAAATA
1 AAATCAAAATAAATTTGAAAAA-A
18915401 AAATCAAAATAA
1 AAATCAAAATAA
18915413 GACTGAAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 4 0.13
23 18 0.58
24 9 0.29
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.24
Consensus pattern (23 bp):
AAATCAAAATAAATTTGAAAAAA
Found at i:18916417 original size:23 final size:23
Alignment explanation
Indices: 18916391--18916435 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
18916381 AATTCTGGGC
*
18916391 TTTGGTTTTTTATATTT-TTTGTA
1 TTTGGTTTATTAT-TTTCTTTGTA
18916414 TTTGGTTTATTATTTTCTTTGT
1 TTTGGTTTATTATTTTCTTTGT
18916436 GTATGTGGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.11, C:0.02, G:0.13, T:0.73
Consensus pattern (23 bp):
TTTGGTTTATTATTTTCTTTGTA
Found at i:18930736 original size:16 final size:18
Alignment explanation
Indices: 18930700--18930737 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
18930690 TTTTTTTTGT
18930700 TTTTCATTCTTTAATAAG
1 TTTTCATTCTTTAATAAG
18930718 TTTTCATT-TTTAA-AAG
1 TTTTCATTCTTTAATAAG
18930734 TTTT
1 TTTT
18930738 GTATGCTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 7 0.35
17 5 0.25
18 8 0.40
ACGTcount: A:0.26, C:0.08, G:0.05, T:0.61
Consensus pattern (18 bp):
TTTTCATTCTTTAATAAG
Found at i:18931249 original size:21 final size:21
Alignment explanation
Indices: 18931225--18931266 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
18931215 ATTTCCATAC
*
18931225 ATTATCTTTAAATTTACATTT
1 ATTATCTTCAAATTTACATTT
*
18931246 ATTATCTTCAAATTTTCATTT
1 ATTATCTTCAAATTTACATTT
18931267 TCATGCATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.31, C:0.12, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTATCTTCAAATTTACATTT
Found at i:18931638 original size:10 final size:10
Alignment explanation
Indices: 18931623--18931648 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
18931613 GTATAAACAA
18931623 TTTTTTTTAT
1 TTTTTTTTAT
18931633 TTTTTTTTAT
1 TTTTTTTTAT
18931643 TTTTTT
1 TTTTTT
18931649 ATCATTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTTAT
Found at i:18933710 original size:6 final size:6
Alignment explanation
Indices: 18933699--18933733 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
18933689 GTTCTCCCCA
18933699 CCCTCT CCCTCT CCCTCT CCCTCT CCCTCT CCCTC
1 CCCTCT CCCTCT CCCTCT CCCTCT CCCTCT CCCTC
18933734 CCAACATCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.69, G:0.00, T:0.31
Consensus pattern (6 bp):
CCCTCT
Found at i:18937382 original size:120 final size:120
Alignment explanation
Indices: 18937244--18937536 Score: 500
Period size: 120 Copynumber: 2.4 Consensus size: 120
18937234 AATTATTTTA
* * * *
18937244 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTATATT
*
18937307 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
64 TTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
18937364 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTACTTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
18937429 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
18937484 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
18937537 TAAATATGAT
Statistics
Matches: 165, Mismatches: 6, Indels: 4
0.94 0.03 0.02
Matches are distributed among these distances:
119 4 0.02
120 159 0.96
121 2 0.01
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:18937404 original size:15 final size:15
Alignment explanation
Indices: 18937369--18937410 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
18937359 TTAAGAATTT
*
18937369 TATTAAATTAT-ATA
1 TATTTAATTATAATA
18937383 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
18937397 TATTTAATAATAAT
1 TATTTAATTATAAT
18937411 TATGTTACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:18937519 original size:16 final size:16
Alignment explanation
Indices: 18937498--18937539 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
18937488 TTATTAAATT
*
18937498 ATATATTTTAATTATA
1 ATATATTTTAATAATA
18937514 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
18937529 AT-TATGTTTAA
1 ATATAT-TTTAA
18937540 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:18937524 original size:15 final size:15
Alignment explanation
Indices: 18937489--18937530 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
18937479 TTAAGAATTT
*
18937489 TATTAAATTAT-ATA
1 TATTTAATTATAATA
18937503 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
18937517 TATTTAATAATAAT
1 TATTTAATTATAAT
18937531 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:18937680 original size:157 final size:157
Alignment explanation
Indices: 18937473--18937789 Score: 555
Period size: 157 Copynumber: 2.0 Consensus size: 157
18937463 ATAAGAATAT
*
18937473 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
* * *
18937538 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
18937603 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
18937630 TAATTA-TAAGAATTTTATTAAATTATATATTATTAATTAAAATATATTTAATAATAATTATGTT
1 TAATTATTAAGAATTTTATTAAATTATATATT-TTAATTAAAATATATTTAATAATAATTATGTT
18937694 TAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACA
65 TAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACA
* *
18937759 ATAATCATTTACCAAAACAATTTTATGC
130 ATAATAATTTACCAAAACAAATTTATGC
18937787 TAA
1 TAA
18937790 GGGTATTCTA
Statistics
Matches: 152, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
156 25 0.16
157 127 0.84
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:18937906 original size:44 final size:45
Alignment explanation
Indices: 18937841--18937931 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
18937831 ACCTCTATTC
* * *
18937841 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
18937885 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
18937930 CA
1 CA
18937932 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:18937933 original size:16 final size:16
Alignment explanation
Indices: 18937912--18937980 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
18937902 GATTAGCTAT
18937912 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
18937928 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
18937945 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
18937961 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
18937977 TACA
1 TACA
18937981 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:18937954 original size:33 final size:32
Alignment explanation
Indices: 18937912--18937980 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
18937902 GATTAGCTAT
18937912 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
18937945 TACACCTCTAATCCAATACACCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
18937977 TACA
1 TACA
18937981 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 8 0.22
33 28 0.78
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:18938514 original size:5 final size:5
Alignment explanation
Indices: 18938504--18938535 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
18938494 ACAATTTAAA
18938504 TTATT TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TTATT TT
18938536 CGTAAATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:18940434 original size:114 final size:113
Alignment explanation
Indices: 18940135--18940797 Score: 891
Period size: 115 Copynumber: 5.8 Consensus size: 113
18940125 AAAAAATACA
18940135 AAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGTACAGTACCAAAAAAA--
1 AAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGTACAGTACCAAAAAAATT
18940198 ---TT-TTTTTTTTCGTGTCAGAATCAGATAAAAAAATACGAAAAAAAAT
66 TTTTTATTTTTTTTCGTGTCAGAATCAGAT-AAAAAATACG-AAAAAAAT
***
18940244 AATAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGTACAGTACCAAAATTTT
1 AA-AAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGTACAGTACCAAAAAAAT
*
18940309 TTTTTTGTTTTTTTTCGTGTCAGAATCAGATAAAAAATACGAAAAAAAAT
65 TTTTTTATTTTTTTTCGTGTCAGAATCAGATAAAAAATACG-AAAAAAAT
*
18940359 AAAAAAAAGTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGTACAGTA-CAAAAAAAT
1 AAAAAAAA-ATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGTACAGTACCAAAAAAAT
18940423 TTTTTTATTTTTTTTTCGTGTCAGAATCAGATAAAAAATACGAAAAAAAT
65 TTTTTTA-TTTTTTTTCGTGTCAGAATCAGATAAAAAATACGAAAAAAAT
* * *
18940473 AAAAAAAAA-ATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTCTACAGTACCAAAAAATTT
1 AAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGTACAGTACCAAAAAAATT
* * *
18940537 TTTTTTTGTTTTTTTTGTATCAGAATCAGATAAAAAAATACGAAAAAAAT
66 TTTTTAT-TTTTTTTCGTGTCAGAATCAGAT-AAAAAATACGAAAAAAAT
* ** *
18940587 AATAATAAAATTTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACGAAAAA
1 AA-AA-AAAA--ATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGTACAGTACCAAAAA
*
18940652 AATAATTTTTTA-TTTTTTTCGTGTCAGAATCAAATAAAAAATACGAAAAAAAT
62 AAT--TTTTTTATTTTTTTTCGTGTCAGAATCAGATAAAAAATACGAAAAAAAT
* *** * * **
18940705 AAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGAACAAATTATTAAAAAAA--
1 AAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGTACAGTACCAAAAAAATT
*
18940768 -TTTTATTTTTTTTCGTGTCAGAGTCAGATA
66 TTTTTATTTTTTTTCGTGTCAGAATCAGATA
18940798 TAAATTTACA
Statistics
Matches: 500, Mismatches: 34, Indels: 39
0.87 0.06 0.07
Matches are distributed among these distances:
109 7 0.01
110 80 0.16
112 43 0.09
113 35 0.07
114 102 0.20
115 104 0.21
116 32 0.06
117 2 0.00
118 20 0.04
119 69 0.14
121 6 0.01
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.31
Consensus pattern (113 bp):
AAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGTACAGTACCAAAAAAATT
TTTTTATTTTTTTTCGTGTCAGAATCAGATAAAAAATACGAAAAAAAT
Found at i:18942819 original size:119 final size:116
Alignment explanation
Indices: 18942696--18943916 Score: 1233
Period size: 115 Copynumber: 10.5 Consensus size: 116
18942686 TATGATTCTT
18942696 CTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATTTTTTTTTTTATTTTTTTTCGTATTTT
1 CTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATTTTTTTTTTTATTTTTTTTCGTATTTT
18942761 TTATCTGATTCTGACACAAAAAAAAATAAAATTTTTTTTCTTTCGTACTGTGTA
66 TTATCTGATTCTGACACAAAAAAAAATAAAA--TTTTTT-TTTCGTACTGTGTA
18942815 CTGGGTGCCGGCCATTGACAGGCCAGCA-CCAAAAAATTTTGTTTTTTTTTATTATTTTTTTCGT
1 CTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAA--TT-TTTTTTTTTA-T-TTTTTTTCGT
*
18942879 ATTTTTTATCTGATTCTGACACGAAAAAAAAT--AATTTTTTTTT-GTACTGTGTA
61 ATTTTTTATCTGATTCTGACACAAAAAAAAATAAAATTTTTTTTTCGTACTGTGTA
* *
18942932 CTAGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTGTTTTTTATTTATTTATTTTTTTTC
1 CTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAA-----ATTTTT-TTT-TTTATTTTTTTTC
*
18942997 GTATTTTTTATCTGATTCTAACACGAAAAAAAAATAAAAAATAAAATTTTTTTTCGTACTGTGTA
59 GTATTTTTTATCTGATTCTGACAC-AAAAAAAAAT--AAAAT----TTTTTTTTCGTACTGTGTA
* *
18943062 CTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAA---ATTTTTTTATTTTTTTTCTTATTTT
1 CTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATTTTTTTTTTTATTTTTTTTCGTATTTT
* *** ****
18943124 TTATCTGATTCTGACAC---GAATTTTTTTTTTTTTTTTTCGTACTGTGTA
66 TTATCTGATTCTGACACAAAAAAAAATAAAATTTTTTTTTCGTACTGTGTA
* * * ***
18943172 CTGAGTGCCGGCCATTGACAGGCCAACACTCAAAAAA-----AAATTTA-TTTTTTTCGTATTTT
1 CTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATTTTTTTTTTTATTTTTTTTCGTA-TTT
* * ** *
18943231 TTTATCTAATTCTGACACGAAAAAAAAACAAAAAAAAATTTTTTTGGTACTGTAG-A
65 TTTATCTGATTCTGACAC---AAAAAAA-AATAAAATTTTTTTTTCGTACTGT-GTA
* *
18943287 CTGGGTGCCGGCCATTGACAGGCCAGCAGCGAAAAAA-TTTTTTTTTTATTTTTTTTTCGTATTT
1 CTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATTTTTTTTTTTA-TTTTTTTTCGTA-TT
*** * **
18943351 TTTTATCTGATTCTGACA-AAAAAAATAA-AAAA--AAATTTTGGTACTGTACA
64 TTTTATCTGATTCTGACACAAAAAAA-AATAAAATTTTTTTTTCGTACTGTGTA
* *
18943401 TTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATTTTTTTATTTATTTTTTTTCGTATTTT
1 CTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATTTTTTTTTTTATTTTTTTTCGTA-TTT
* * * **
18943466 TTTATTTGATTCTGACACGAAAAAAAAAACAAAAAATTTTTTTTTTAGTACTGTACA
65 TTTATCTGATTCTGACAC---AAAAAAAA-ATAAAA-TTTTTTTTTCGTACTGTGTA
18943523 CTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAA---TTTTTTTTATTTTTTTTCGTATTTT
1 CTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATTTTTTTTTTTATTTTTTTTCGTATTTT
* * * **
18943585 TTATCTGATTCTGACACGAAAAAAAAT-AAATTTTTTTTTGGTATTGTACA
66 TTATCTGATTCTGACACAAAAAAAAATAAAATTTTTTTTTCGTACTGTGTA
* * **
18943635 CTGGGTGCCGGCCATTGACAGGCCGGCATCCCCAAAAATTTTTTTTAAT-TTTTTTTTCGTATTT
1 CTGGGTGCCGGCCATTGACAGGCCAGCA-CCCAAAAAATTTTTTTTTTTATTTTTTTTCGTATTT
*** *
18943699 TTTATCTGATTCTGACACAAAAAAAAATCAAAAAAAAATTTCTTCGTACTGTGTA
65 TTTATCTGATTCTGACACAAAAAAAAAT---AAAATTTTTTTTTCGTACTGTGTA
18943754 CTGGGTGCCGGCCATTGACAGGCCAGCACCC--AAAA-TTTTTTTTTTATTTTTTTTCGTATTTT
1 CTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATTTTTTTTTTTATTTTTTTTCGTATTTT
* * * * **
18943816 TAAATCTGACTCTGACAC-------AA-AACA-TTTTTTTTAGTACTGTACA
66 T-TATCTGATTCTGACACAAAAAAAAATAAAATTTTTTTTTCGTACTGTGTA
* * *
18943859 CTGGGTGCTGGCCATTGACAGGCTAGCACCCAAAAAATTTTTTTTTTTGTTTTTTTTC
1 CTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATTTTTTTTTTTATTTTTTTTC
18943917 TTTCGTATAT
Statistics
Matches: 944, Mismatches: 96, Indels: 135
0.80 0.08 0.11
Matches are distributed among these distances:
105 42 0.04
106 3 0.00
107 14 0.01
108 43 0.05
110 55 0.06
112 45 0.05
113 11 0.01
114 83 0.09
115 114 0.12
116 35 0.04
117 61 0.06
118 49 0.05
119 104 0.11
120 71 0.08
121 61 0.06
122 56 0.06
123 41 0.04
125 3 0.00
129 8 0.01
130 45 0.05
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.41
Consensus pattern (116 bp):
CTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATTTTTTTTTTTATTTTTTTTCGTATTTT
TTATCTGATTCTGACACAAAAAAAAATAAAATTTTTTTTTCGTACTGTGTA
Found at i:18943247 original size:108 final size:109
Alignment explanation
Indices: 18943043--18943251 Score: 323
Period size: 110 Copynumber: 1.9 Consensus size: 109
18943033 AAAAATAAAA
* * **
18943043 TTTTTTTTCGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAATTTTTTTA
1 TTTTTTTTCGTACTGTGTACTGAGTGCCGGCCATTGACAGGCCAACACCCAAAAAAA-TAATTTA
* *
18943108 TTTTTTTTCTTATTTTTTATCTGATTCTGACACGAATTTTTTTTT
65 TTTTTTTTCGTATTTTTTATCTAATTCTGACACGAATTTTTTTTT
*
18943153 TTTTTTTTCGTACTGTGTACTGAGTGCCGGCCATTGACAGGCCAACACTCAAAAAAA-AATTTA-
1 TTTTTTTTCGTACTGTGTACTGAGTGCCGGCCATTGACAGGCCAACACCCAAAAAAATAATTTAT
18943216 TTTTTTTCGTATTTTTTTATCTAATTCTGACACGAA
66 TTTTTTTCGTA-TTTTTTATCTAATTCTGACACGAA
18943252 AAAAAAACAA
Statistics
Matches: 91, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
107 10 0.11
108 27 0.30
110 54 0.59
ACGTcount: A:0.23, C:0.18, G:0.14, T:0.44
Consensus pattern (109 bp):
TTTTTTTTCGTACTGTGTACTGAGTGCCGGCCATTGACAGGCCAACACCCAAAAAAATAATTTAT
TTTTTTTCGTATTTTTTATCTAATTCTGACACGAATTTTTTTTT
Found at i:18943322 original size:115 final size:116
Alignment explanation
Indices: 18942979--18943912 Score: 866
Period size: 114 Copynumber: 8.1 Consensus size: 116
18942969 TTTGTTTTTT
* * *
18942979 ATTTATTTATTTTTTTTCGTATTTTTTATCTGATTCTAACACGAAAAAAAAATAAAAAATAAAAT
1 ATTTTTTTATTTTTTTTCGTATTTTTTATCTGATTCTGACACGAAAAAAAAA-CAAAAA-AAAA-
18943044 TTTTTTTCGTACTGT-GTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAA
63 TTTTTTTCGTACTGTAG-ACTGGGTGCCGGCCATTGACAGGCCAGCACCC-AAAAA
* **********
18943099 ATTTTTTTATTTTTTTTCTTATTTTTTATCTGATTCTGACACG-------AATTTTTTTTTTTTT
1 ATTTTTTTATTTTTTTTCGTATTTTTTATCTGATTCTGACACGAAAAAAAAACAAAAAAAAATTT
* * *
18943157 TTTTCGTACTGT-GTACTGAGTGCCGGCCATTGACAGGCCAACACTCAAAAA
66 TTTTCGTACTGTAG-ACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAA
*** *
18943208 A-AAATTTA-TTTTTTTCGTATTTTTTTATCTAATTCTGACACGAAAAAAAAACAAAAAAAAATT
1 ATTTTTTTATTTTTTTTCGTA-TTTTTTATCTGATTCTGACACGAAAAAAAAACAAAAAAAAATT
* * *
18943271 TTTTTGGTACTGTAGACTGGGTGCCGGCCATTGACAGGCCAGCAGCGAAAAA
65 TTTTTCGTACTGTAGACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAA
*
18943323 ATTTTTTTTTTATTTTTTTTTCGTATTTTTTTATCTGATTCTG--AC--AAAAAAAATAAAAAAA
1 A---TTTTTTTA-TTTTTTTTCGTA-TTTTTTATCTGATTCTGACACGAAAAAAAAACAAAAAAA
* * *
18943384 AA---TTTTGGTACTGTACATTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAA
61 AATTTTTTTCGTACTGTAGACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAA
*
18943437 ATTTTTTTATTTATTTTTTTTCGTATTTTTTTATTTGATTCTGACACGAAAAAAAAAACAAAAAA
1 A---TTTT-TTTATTTTTTTTCGTA-TTTTTTATCTGATTCTGACACG-AAAAAAAAACAAAAAA
*** * *
18943502 TTTTTTTTTTAGTACTGTACACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAA
60 AAATTTTTTTCGTACTGTAGACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAA
* **
18943559 ATTTTTTTTATTTTTTTTCGTATTTTTTATCTGATTCTGACACG----AAAAA-AAATAAATTTT
1 A-TTTTTTTATTTTTTTTCGTATTTTTTATCTGATTCTGACACGAAAAAAAAACAAAAAAAAATT
* * * *
18943619 TTTTTGGTATTGTACACTGGGTGCCGGCCATTGACAGGCCGGCATCCCCAAAAA
65 TTTTTCGTACTGTAGACTGGGTGCCGGCCATTGACAGGCCAGCA--CCCAAAAA
*
18943673 TTTTTTTTAATTTTTTTTTCGTATTTTTTATCTGATTCTGACAC-AAAAAAAAATCAAAAAAAAA
1 ATTTTTTT-A-TTTTTTTTCGTATTTTTTATCTGATTCTGACACGAAAAAAAAA-CAAAAAAAAA
* *
18943737 -TTTCTTCGTACTGT-GTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATT
63 TTTTTTTCGTACTGTAG-ACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA-A
* * * *
18943791 TTTTTTTTATTTTTTTTCGTATTTTTAAATCTGACTCTGACAC------AAAAC-------ATTT
1 ATTTTTTTATTTTTTTTCGTATTTTT-TATCTGATTCTGACACGAAAAAAAAACAAAAAAAAATT
* * * *
18943843 TTTTTAGTACTGTACACTGGGTGCTGGCCATTGACAGGCTAGCACCCAAAAA
65 TTTTTCGTACTGTAGACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAA
*
18943895 ATTTTTTTTTTTGTTTTT
1 ATTTTTTTATTT-TTTTT
18943913 TTTCTTTCGT
Statistics
Matches: 694, Mismatches: 80, Indels: 95
0.80 0.09 0.11
Matches are distributed among these distances:
104 11 0.02
105 51 0.07
107 10 0.01
108 25 0.04
109 6 0.01
110 46 0.07
111 1 0.00
112 54 0.08
113 14 0.02
114 93 0.13
115 86 0.12
116 20 0.03
117 39 0.06
118 34 0.05
119 75 0.11
120 51 0.07
121 28 0.04
122 50 0.07
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (116 bp):
ATTTTTTTATTTTTTTTCGTATTTTTTATCTGATTCTGACACGAAAAAAAAACAAAAAAAAATTT
TTTTCGTACTGTAGACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAA
Found at i:18943342 original size:13 final size:13
Alignment explanation
Indices: 18943323--18943354 Score: 50
Period size: 11 Copynumber: 2.6 Consensus size: 13
18943313 CAGCGAAAAA
18943323 ATTTTTTTTT--T
1 ATTTTTTTTTCGT
18943334 ATTTTTTTTTCGT
1 ATTTTTTTTTCGT
18943347 ATTTTTTT
1 ATTTTTTT
18943355 ATCTGATTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 10 0.53
13 9 0.47
ACGTcount: A:0.09, C:0.03, G:0.03, T:0.84
Consensus pattern (13 bp):
ATTTTTTTTTCGT
Found at i:18946066 original size:21 final size:21
Alignment explanation
Indices: 18946040--18946089 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
18946030 GGTGACGGTG
* *
18946040 AGATTAGTTACTGTAGCGATA
1 AGATTAGATACTGTAGCAATA
*
18946061 AGATTAGATACTGTAGCAATG
1 AGATTAGATACTGTAGCAATA
18946082 AGATTAGA
1 AGATTAGA
18946090 AACAATGGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.30
Consensus pattern (21 bp):
AGATTAGATACTGTAGCAATA
Found at i:18947899 original size:21 final size:22
Alignment explanation
Indices: 18947819--18947894 Score: 93
Period size: 21 Copynumber: 3.5 Consensus size: 22
18947809 CAAAACAGCA
* *
18947819 GTTTCTCCCCTCGTTCCTGCTG
1 GTTTCTCCCCTCGTTCTTACTG
*
18947841 GTTTCT-CCCTTGTTCTTACTG
1 GTTTCTCCCCTCGTTCTTACTG
* *
18947862 GTTTGT-CCCTCGTTTTTACTG
1 GTTTCTCCCCTCGTTCTTACTG
18947883 GTTTCTCCCCTC
1 GTTTCTCCCCTC
18947895 TTTTTTGCTT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
21 35 0.76
22 11 0.24
ACGTcount: A:0.03, C:0.34, G:0.16, T:0.47
Consensus pattern (22 bp):
GTTTCTCCCCTCGTTCTTACTG
Found at i:18949968 original size:13 final size:13
Alignment explanation
Indices: 18949950--18950026 Score: 75
Period size: 13 Copynumber: 5.6 Consensus size: 13
18949940 AAGCAACCGT
18949950 AAATGGGAATGGG
1 AAATGGGAATGGG
18949963 AAATGGGAATGGG
1 AAATGGGAATGGG
18949976 AAATGGGAGGA-GGG
1 AAATGGGA--ATGGG
* **
18949990 CACGGTGGAATAGGG
1 AAATG-GGAAT-GGG
18950005 AAAATGGGAATGGG
1 -AAATGGGAATGGG
18950019 AAATGGGA
1 AAATGGGA
18950027 GGAGGGCACA
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
13 30 0.58
14 8 0.15
15 12 0.23
16 2 0.04
ACGTcount: A:0.38, C:0.03, G:0.47, T:0.13
Consensus pattern (13 bp):
AAATGGGAATGGG
Found at i:18949969 original size:7 final size:7
Alignment explanation
Indices: 18949950--18949983 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
18949940 AAGCAACCGT
18949950 AAATGGG
1 AAATGGG
18949957 -AATGGG
1 AAATGGG
18949963 AAATGGG
1 AAATGGG
18949970 -AATGGG
1 AAATGGG
18949976 AAATGGG
1 AAATGGG
18949983 A
1 A
18949984 GGAGGGCACG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 12 0.48
7 13 0.52
ACGTcount: A:0.41, C:0.00, G:0.44, T:0.15
Consensus pattern (7 bp):
AAATGGG
Found at i:18950014 original size:43 final size:41
Alignment explanation
Indices: 18949955--18950042 Score: 149
Period size: 43 Copynumber: 2.1 Consensus size: 41
18949945 ACCGTAAATG
*
18949955 GGAATGGGAAATGGGAATGGGAAATGGGAGGAGGGCACGGT
1 GGAATGGGAAATGGGAATGGGAAATGGGAGGAGGGCACAGT
18949996 GGAATAGGGAAAATGGGAATGGGAAATGGGAGGAGGGCACAGT
1 GGAAT-GGG-AAATGGGAATGGGAAATGGGAGGAGGGCACAGT
18950039 GGAA
1 GGAA
18950043 GGGGGAATCG
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
41 5 0.11
42 3 0.07
43 36 0.82
ACGTcount: A:0.35, C:0.05, G:0.49, T:0.11
Consensus pattern (41 bp):
GGAATGGGAAATGGGAATGGGAAATGGGAGGAGGGCACAGT
Found at i:18950130 original size:30 final size:30
Alignment explanation
Indices: 18950095--18950677 Score: 1005
Period size: 30 Copynumber: 19.5 Consensus size: 30
18950085 CATTGTATTT
*
18950095 GTGTATTTTAAAAATAAAAATATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
* *
18950125 ATGTATTTTAAAAATAAAGAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
18950155 GTGTATTTTAAAAATAAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
18950185 GTGTATTTTAAAAAT--AAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
* *
18950213 GTGTATTTTAAAAATAAAAATATATATATA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
*
18950243 GTGTATTTTAAAAATAAAGAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
18950273 GTGTATTTTAAAAATAAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
* *
18950303 GTGTATTTTAAAAATAAAAAAATACATGTG
1 GTGTATTTTAAAAATAAAAAAATATATGTA
*
18950333 GTGTATTTAAAAAATAAAAAAA-ATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
18950362 GTGTATTTTAAAAATAAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
18950392 GTGTATTTTAAAAAT-AAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
18950421 GTGTATTTTAAAAATAAAAAAATATATATGTA
1 GTGTATTTTAAAAAT-AAAAAA-ATATATGTA
18950453 GTGTATTTTAAAAATGAAAAAAATATATGTA
1 GTGTATTTTAAAAAT-AAAAAAATATATGTA
18950484 GTGTATTTTAAAAATAAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
18950514 GTGTATTTTAAAAATAAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
18950544 GTGTATTTTAAAAATAAAAAATATATATGTA
1 GTGTATTTTAAAAATAAAAAA-ATATATGTA
18950575 GTGTATTTTAAAAAT-AAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
*
18950604 GTGTATTTTAAAATTAAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
18950634 GTGTATTTTAAAAATAAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
18950664 GTGTATTTTAAAAA
1 GTGTATTTTAAAAA
18950678 CAAATCGATT
Statistics
Matches: 525, Mismatches: 20, Indels: 16
0.94 0.04 0.03
Matches are distributed among these distances:
28 28 0.05
29 78 0.15
30 336 0.64
31 53 0.10
32 30 0.06
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.37
Consensus pattern (30 bp):
GTGTATTTTAAAAATAAAAAAATATATGTA
Found at i:18954261 original size:21 final size:21
Alignment explanation
Indices: 18954237--18954285 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
18954227 CATTGTTTCT
*
18954237 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
18954258 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
18954279 AATCTCA
1 AATCTCA
18954286 TTGCCACCGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.33, C:0.35, G:0.08, T:0.24
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:18958374 original size:10 final size:10
Alignment explanation
Indices: 18958359--18958421 Score: 60
Period size: 10 Copynumber: 6.3 Consensus size: 10
18958349 AATCACGTTC
18958359 AAAATTA-TA
1 AAAATTATTA
18958368 GAAAATTATTA
1 -AAAATTATTA
18958379 AAATATTATTA
1 AAA-ATTATTA
18958390 AAAATTA-TA
1 AAAATTATTA
18958399 AAAATATATT-
1 AAAAT-TATTA
**
18958409 GGAATTATTA
1 AAAATTATTA
18958419 AAA
1 AAA
18958422 CCGTCCATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
9 11 0.25
10 20 0.45
11 13 0.30
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.37
Consensus pattern (10 bp):
AAAATTATTA
Found at i:18958388 original size:11 final size:11
Alignment explanation
Indices: 18958372--18958405 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
18958362 ATTATAGAAA
18958372 ATTATTAAAAT
1 ATTATTAAAAT
18958383 ATTATTAAAA-
1 ATTATTAAAAT
*
18958393 ATTATAAAAAT
1 ATTATTAAAAT
18958404 AT
1 AT
18958406 ATTGGAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
ATTATTAAAAT
Found at i:18958393 original size:21 final size:19
Alignment explanation
Indices: 18958369--18958421 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 19
18958359 AAAATTATAG
18958369 AAAATTATTAAAATATTATT
1 AAAATTATTAAAATA-TATT
*
18958389 AAAAATTATAAAAATATATT
1 -AAAATTATTAAAATATATT
**
18958409 GGAATTATTAAAA
1 AAAATTATTAAAA
18958422 CCGTCCATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 10 0.36
20 4 0.14
21 14 0.50
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (19 bp):
AAAATTATTAAAATATATT
Found at i:18959534 original size:16 final size:16
Alignment explanation
Indices: 18959512--18959548 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
18959502 GGGCCTTAAG
*
18959512 ATTTGTTTAGGGTTTT
1 ATTTGTTTAAGGTTTT
*
18959528 GTTTGTTTAAGGTTTT
1 ATTTGTTTAAGGTTTT
18959544 ATTTG
1 ATTTG
18959549 AGGGTTTTAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.14, C:0.00, G:0.24, T:0.62
Consensus pattern (16 bp):
ATTTGTTTAAGGTTTT
Found at i:18963632 original size:4 final size:4
Alignment explanation
Indices: 18963625--18963649 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
18963615 TATTTGAACG
18963625 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
18963650 GTTAATTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:18965136 original size:15 final size:15
Alignment explanation
Indices: 18965098--18965137 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
18965088 TTGACCTGAA
*
18965098 TCGAACCGACCGCAG
1 TCGAACCGGCCGCAG
*
18965113 TTGAACCGGCCGCAG
1 TCGAACCGGCCGCAG
18965128 TCGAACCGGC
1 TCGAACCGGC
18965138 TTGGGGTACT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.23, C:0.38, G:0.30, T:0.10
Consensus pattern (15 bp):
TCGAACCGGCCGCAG
Found at i:18970405 original size:6 final size:6
Alignment explanation
Indices: 18970352--18970398 Score: 58
Period size: 6 Copynumber: 7.3 Consensus size: 6
18970342 TCTCGGACAC
*
18970352 TTAATT TTAATT TCTAAACTT ATAATT TTAATT TTAATT TTAATT TT
1 TTAATT TTAATT T-T-AA-TT TTAATT TTAATT TTAATT TTAATT TT
18970399 TTATTTTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
6 28 0.78
7 3 0.08
8 3 0.08
9 2 0.06
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (6 bp):
TTAATT
Done.