Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 59 of 343
Found at i:18980763 original size:22 final size:22
Alignment explanation
Indices: 18980735--18980787 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
18980725 CATTAAAAAC
18980735 GGGGCTTGGTATCACTTACTAT
1 GGGGCTTGGTATCACTTACTAT
18980757 GGGGCTTGGTATCACTTACTAT
1 GGGGCTTGGTATCACTTACTAT
*
18980779 GGAGCTTGG
1 GGGGCTTGG
18980788 AAGCTTGGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.17, C:0.17, G:0.32, T:0.34
Consensus pattern (22 bp):
GGGGCTTGGTATCACTTACTAT
Found at i:18983327 original size:30 final size:30
Alignment explanation
Indices: 18983293--18983355 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
18983283 ATTTATTTTA
18983293 TTGTTAATTTTCTTATTATTTTA-AAGGCAT
1 TTGTTAATTTTCTTATTATTTTAGAA-GCAT
*
18983323 TTGTTAATTTTTTTATTATTTTAGAAGCAT
1 TTGTTAATTTTCTTATTATTTTAGAAGCAT
18983353 TTG
1 TTG
18983356 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.94
31 2 0.06
ACGTcount: A:0.25, C:0.05, G:0.11, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAGAAGCAT
Found at i:18984499 original size:6 final size:6
Alignment explanation
Indices: 18984463--18984495 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
18984453 ATACACAATT
*
18984463 AGATTC AGATTC AGATTC AGATTC AGACTC AGA
1 AGATTC AGATTC AGATTC AGATTC AGATTC AGA
18984496 CTCATGTCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.27
Consensus pattern (6 bp):
AGATTC
Found at i:18984768 original size:6 final size:6
Alignment explanation
Indices: 18984757--18984785 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
18984747 TACAAAATAT
18984757 AGATAC AGATAC AGATAC AGATAC AGATA
1 AGATAC AGATAC AGATAC AGATAC AGATA
18984786 TAACATGCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.14, G:0.17, T:0.17
Consensus pattern (6 bp):
AGATAC
Found at i:18987058 original size:16 final size:16
Alignment explanation
Indices: 18987037--18987071 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
18987027 CCCTTGTTCT
18987037 TTCTAACAAA-TTTATG
1 TTCTAACAAAGTTT-TG
18987053 TTCTAACAAAGTTTTG
1 TTCTAACAAAGTTTTG
18987069 TTC
1 TTC
18987072 ATCTGCTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 15 0.83
17 3 0.17
ACGTcount: A:0.31, C:0.14, G:0.09, T:0.46
Consensus pattern (16 bp):
TTCTAACAAAGTTTTG
Found at i:18990087 original size:19 final size:19
Alignment explanation
Indices: 18990043--18990088 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
18990033 AGTTTATAAA
* *
18990043 ATAAAAAATTTTAAAATTT
1 ATAAAAAATTATAAAAATT
* *
18990062 ATTAAAACTTATAAAAATT
1 ATAAAAAATTATAAAAATT
18990081 ATAAAAAA
1 ATAAAAAA
18990089 AAATTGTTAT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (19 bp):
ATAAAAAATTATAAAAATT
Found at i:18990592 original size:20 final size:21
Alignment explanation
Indices: 18990567--18990607 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
18990557 GTCCAGTAAA
18990567 TTTTAATTT-TTATAATATTT
1 TTTTAATTTATTATAATATTT
18990587 TTTTAATTTATTATAATATTT
1 TTTTAATTTATTATAATATTT
18990608 GAATTATTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTTAATTTATTATAATATTT
Found at i:18990672 original size:11 final size:11
Alignment explanation
Indices: 18990656--18990699 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
18990646 ATGAAATTTA
*
18990656 AATTTTTCTAT
1 AATTTTTATAT
18990667 AATTTTTATAAT
1 AATTTTTAT-AT
*
18990679 AATTTTTTTAT
1 AATTTTTATAT
*
18990690 GATTTTTATA
1 AATTTTTATA
18990700 ATTTATATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 18 0.64
12 10 0.36
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (11 bp):
AATTTTTATAT
Found at i:18990694 original size:23 final size:23
Alignment explanation
Indices: 18990656--18990701 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
18990646 ATGAAATTTA
18990656 AATTTTTCTATAATTTTTATAAT
1 AATTTTTCTATAATTTTTATAAT
* *
18990679 AATTTTTTTATGATTTTTATAAT
1 AATTTTTCTATAATTTTTATAAT
18990702 TTATATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (23 bp):
AATTTTTCTATAATTTTTATAAT
Found at i:18997905 original size:68 final size:67
Alignment explanation
Indices: 18997792--18997917 Score: 153
Period size: 68 Copynumber: 1.9 Consensus size: 67
18997782 GCTACATACG
* * * *
18997792 TTCAACTTCTCACACATGATATTCATGTGTGATATGTAATGGGACATAGGTATGAAGTTGATTTC
1 TTCAACTTCTCACACATGATATTCATGAGTGATATATAATCGGACATAAGTA-GAAGTTGATTTC
18997857 TCT
65 TCT
* * * * **
18997860 TTCAAGTTCTCATATATGCTATTCATGAGTGATATATTGTCGGACATAAGTAGAAGTT
1 TTCAACTTCTCACACATGATATTCATGAGTGATATATAATCGGACATAAGTAGAAGTT
18997918 CCAATCGTCA
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
67 6 0.12
68 42 0.88
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.38
Consensus pattern (67 bp):
TTCAACTTCTCACACATGATATTCATGAGTGATATATAATCGGACATAAGTAGAAGTTGATTTCT
CT
Found at i:19009801 original size:13 final size:13
Alignment explanation
Indices: 19009766--19009804 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
19009756 TGTTATGTGA
*
19009766 TGAATTGATGATT
1 TGAATTGATGAAT
*
19009779 TGAACT-ATGAAT
1 TGAATTGATGAAT
19009791 TGAATTGATGAAT
1 TGAATTGATGAAT
19009804 T
1 T
19009805 ATGAATTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.36, C:0.03, G:0.21, T:0.41
Consensus pattern (13 bp):
TGAATTGATGAAT
Found at i:19010614 original size:153 final size:153
Alignment explanation
Indices: 19010331--19010639 Score: 415
Period size: 153 Copynumber: 2.0 Consensus size: 153
19010321 GGAATGATAT
* * *
19010331 GAATTGATAGTGAATTTGTCATACCCCAAATTTAGCAGATCGAAAAGAAGGCATGTAGATGTTAA
1 GAATTGATAGTGAATTTGTCACACCCCAAATTTAACAGATCGAAAAGAAGGCATGTAAATGTTAA
* * * * ** *
19010396 AGTTATCTGTTTGGCGTACTATAGTAGCATAGTCTGCCAAATTACAAACTTCTGGCGAACTAAAG
66 AGTTATCTATTTGGCATACTATAGCAGCATAATCTGCCAAATTACAAACTTCTAACGAAATAAAG
*
19010461 TTTGACGTAAAGTATCTACTGTA
131 TTTGACGTAAAGTATCCACTGTA
** * *
19010484 GAATATGATAGTGAATTTGTCACA-CCCAATATTTAATGGATCGAGAAGAAGGCGTGTAAATG-T
1 GAAT-TGATAGTGAATTTGTCACACCCCAA-ATTTAACAGATCGAAAAGAAGGCATGTAAATGTT
* **
19010547 GAAGTTATCTATTTGGCATACTATAGCAGCATAATCTGCCAAATTACAGGCTTCTAACGAAATAA
64 AAAGTTATCTATTTGGCATACTATAGCAGCATAATCTGCCAAATTACAAACTTCTAACGAAATAA
*
19010612 AGTTTGGCGTAAAGTATCCACTGTA
129 AGTTTGACGTAAAGTATCCACTGTA
19010637 GAA
1 GAA
19010640 GTATCTAAGG
Statistics
Matches: 135, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
153 91 0.67
154 44 0.33
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (153 bp):
GAATTGATAGTGAATTTGTCACACCCCAAATTTAACAGATCGAAAAGAAGGCATGTAAATGTTAA
AGTTATCTATTTGGCATACTATAGCAGCATAATCTGCCAAATTACAAACTTCTAACGAAATAAAG
TTTGACGTAAAGTATCCACTGTA
Found at i:19012053 original size:25 final size:24
Alignment explanation
Indices: 19011987--19012108 Score: 101
Period size: 23 Copynumber: 5.1 Consensus size: 24
19011977 TCACATTCTG
* *
19011987 TAACGCCTT-TGTGACGTAT-TTA
1 TAACGCCTTGTGTGGCATATATTA
* * *
19012009 GTAACACCTT-TATGGCATATATTG
1 -TAACGCCTTGTGTGGCATATATTA
*
19012033 TAACGCCTTCGTGTGGTATAT-TCTA
1 TAACGCCTT-GTGTGGCATATAT-TA
*
19012058 TAACGCCTT-TGTGGCATTTATTA
1 TAACGCCTTGTGTGGCATATATTA
*
19012081 TAACGCCTTTGTGTGGCATATTTTA
1 TAACGCC-TTGTGTGGCATATATTA
19012106 TAA
1 TAA
19012109 TGCTTGGCAT
Statistics
Matches: 79, Mismatches: 13, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
23 40 0.51
24 6 0.08
25 33 0.42
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.41
Consensus pattern (24 bp):
TAACGCCTTGTGTGGCATATATTA
Found at i:19012074 original size:48 final size:48
Alignment explanation
Indices: 19012010--19012108 Score: 135
Period size: 48 Copynumber: 2.1 Consensus size: 48
19012000 ACGTATTTAG
* *
19012010 TAACACCTTTATGGCATATATTGTAACGCCTTCGTGTGGTATATTCTA
1 TAACACCTTTATGGCATATATTATAACGCCTTCGTGTGGCATATTCTA
* * * * *
19012058 TAACGCCTTTGTGGCATTTATTATAACGCCTTTGTGTGGCATATTTTA
1 TAACACCTTTATGGCATATATTATAACGCCTTCGTGTGGCATATTCTA
19012106 TAA
1 TAA
19012109 TGCTTGGCAT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.41
Consensus pattern (48 bp):
TAACACCTTTATGGCATATATTATAACGCCTTCGTGTGGCATATTCTA
Found at i:19012128 original size:19 final size:19
Alignment explanation
Indices: 19012094--19012130 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
19012084 CGCCTTTGTG
*
19012094 TGGCATATTTTATAATGCT
1 TGGCATATTCTATAATGCT
*
19012113 TGGCATATTCTGTAATGC
1 TGGCATATTCTATAATGC
19012131 CTTTGAGGCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.14, G:0.19, T:0.43
Consensus pattern (19 bp):
TGGCATATTCTATAATGCT
Found at i:19017377 original size:25 final size:25
Alignment explanation
Indices: 19017337--19017399 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 25
19017327 AAACACTTTA
*
19017337 ATATTTTTTAA-CTTTAAAATACAT
1 ATATTTTTTAATTTTTAAAATACAT
** *
19017361 ATATTTTTTAATTTTTATTATATAT
1 ATATTTTTTAATTTTTAAAATACAT
19017386 AT-TTATTTTAATTT
1 ATATT-TTTTAATTT
19017400 ATTATTCTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 13 0.39
25 20 0.61
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (25 bp):
ATATTTTTTAATTTTTAAAATACAT
Found at i:19017385 original size:23 final size:26
Alignment explanation
Indices: 19017359--19017405 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
19017349 TTTAAAATAC
19017359 ATATA-TT-TTTTAATTT-TTATTAT
1 ATATATTTATTTTAATTTATTATTAT
19017382 ATATATTTATTTTAATTTATTATT
1 ATATATTTATTTTAATTTATTATT
19017406 CTTTATAGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 5 0.24
24 2 0.10
25 9 0.43
26 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (26 bp):
ATATATTTATTTTAATTTATTATTAT
Found at i:19017419 original size:26 final size:25
Alignment explanation
Indices: 19017366--19017419 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
19017356 TACATATATT
* *
19017366 TTTTAATTTTTATTATATATATTTA
1 TTTTAATTTTTATTATATATAGTCA
* *
19017391 TTTTAATTTATTATTCTTTATAGTCA
1 TTTTAATTT-TTATTATATATAGTCA
19017417 TTT
1 TTT
19017420 ATTACTACCA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 9 0.38
26 15 0.62
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.67
Consensus pattern (25 bp):
TTTTAATTTTTATTATATATAGTCA
Found at i:19026827 original size:27 final size:27
Alignment explanation
Indices: 19026789--19026847 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
19026779 CATCATGTTA
19026789 ACCTTTGTGGCGTACTCTAAATGGATT
1 ACCTTTGTGGCGTACTCTAAATGGATT
*
19026816 ACCTTTGTGGCGTACTCTGAATGGATT
1 ACCTTTGTGGCGTACTCTAAATGGATT
*
19026843 GCCTT
1 ACCTT
19026848 ATGGCAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.19, C:0.20, G:0.24, T:0.37
Consensus pattern (27 bp):
ACCTTTGTGGCGTACTCTAAATGGATT
Found at i:19026884 original size:26 final size:25
Alignment explanation
Indices: 19026840--19026915 Score: 73
Period size: 25 Copynumber: 3.0 Consensus size: 25
19026830 CTCTGAATGG
**
19026840 ATTGCCTTATGGCAAATTCTGTATA
1 ATTGCCTTATGGCGTATTCTGTATA
* *
19026865 ATTGCCCTTGTGGCGTATTCTATAATA
1 ATTG-CCTTATGGCGTATTCTGT-ATA
* *
19026892 A-GGCCTTATGGCGTATTTTGTATA
1 ATTGCCTTATGGCGTATTCTGTATA
19026916 TCGTTTGTTT
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
24 3 0.07
25 19 0.46
26 15 0.37
27 4 0.10
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.41
Consensus pattern (25 bp):
ATTGCCTTATGGCGTATTCTGTATA
Found at i:19033603 original size:20 final size:21
Alignment explanation
Indices: 19033563--19033603 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
19033553 AATATGTTAC
**
19033563 ATAATTTTTTTTAGATTTTAT
1 ATAATTTTTTTTAGAAATTAT
19033584 ATAA-TTTTTTTAGAAATTAT
1 ATAATTTTTTTTAGAAATTAT
19033604 GTATAAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (21 bp):
ATAATTTTTTTTAGAAATTAT
Found at i:19034361 original size:15 final size:15
Alignment explanation
Indices: 19034343--19034372 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
19034333 TTAATGATTA
*
19034343 TCCTTTAAATATTTT
1 TCCTTTAAAAATTTT
19034358 TCCTTTAAAAATTTT
1 TCCTTTAAAAATTTT
19034373 AAAATTATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.13, G:0.00, T:0.57
Consensus pattern (15 bp):
TCCTTTAAAAATTTT
Found at i:19038371 original size:15 final size:15
Alignment explanation
Indices: 19038313--19038369 Score: 62
Period size: 16 Copynumber: 3.8 Consensus size: 15
19038303 TGTTTATATA
*
19038313 TTTTATTAAATTATT
1 TTTTATTAAATTAGT
19038328 TTTTAGTTAAATTAGT
1 TTTTA-TTAAATTAGT
* *
19038344 TTTTATTTATTTA-T
1 TTTTATTAAATTAGT
*
19038358 TTTTGTTAAATT
1 TTTTATTAAATT
19038370 TAGCTATCCA
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
14 10 0.29
15 11 0.31
16 14 0.40
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (15 bp):
TTTTATTAAATTAGT
Found at i:19038547 original size:12 final size:10
Alignment explanation
Indices: 19038508--19038558 Score: 68
Period size: 10 Copynumber: 5.1 Consensus size: 10
19038498 ACATGTCATA
19038508 TTAACAAATA-
1 TTAA-AAATAT
19038518 TTAAAAATAT
1 TTAAAAATAT
19038528 TTAAAAATAT
1 TTAAAAATAT
*
19038538 TTAAAAAAAT
1 TTAAAAATAT
*
19038548 TAAAAAATAT
1 TTAAAAATAT
19038558 T
1 T
19038559 CTATAACGTT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
9 5 0.14
10 32 0.86
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (10 bp):
TTAAAAATAT
Found at i:19048095 original size:61 final size:61
Alignment explanation
Indices: 19047995--19048135 Score: 169
Period size: 61 Copynumber: 2.3 Consensus size: 61
19047985 ACATACCATT
* * *
19047995 CTTAACCTTAAAATCAAACTCTAAACCCCCAAATCATTAAACCT-TAAACTTTATTATCATC
1 CTTATCCTTAAAATCAAACTCTAAACCCCCAAACCATTAAA-CTATAAACCTTATTATCATC
* * * *
19048056 TTTATCCTTAAAATCAATC-CTTAAACCCCTAAACCATTAAACTATAAACCTTCTTATCATC
1 CTTATCCTTAAAATCAAACTC-TAAACCCCCAAACCATTAAACTATAAACCTTATTATCATC
**
19048117 CTTATCCTCGAAATCAAAC
1 CTTATCCTTAAAATCAAAC
19048136 CCCAAACCTC
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
60 3 0.04
61 64 0.96
ACGTcount: A:0.39, C:0.28, G:0.01, T:0.32
Consensus pattern (61 bp):
CTTATCCTTAAAATCAAACTCTAAACCCCCAAACCATTAAACTATAAACCTTATTATCATC
Found at i:19048143 original size:61 final size:61
Alignment explanation
Indices: 19047995--19048166 Score: 168
Period size: 61 Copynumber: 2.8 Consensus size: 61
19047985 ACATACCATT
* * * * *
19047995 CTTAACCTTAAAATCAAACTCTAAACCCCCAAATCATTAAACCTTAAACTTTATTATCATC
1 CTTATCCTCAAAATCAAACCCTAAACCCCCAAACCATTAAACCTTAAACCTTATTATCATC
* * * * * *
19048056 TTTATCCTTAAAATCAATCCTTAAACCCCTAAACCATTAAA-CTATAAACCTTCTTATCATC
1 CTTATCCTCAAAATCAAACCCTAAACCCCCAAACCATTAAACCT-TAAACCTTATTATCATC
* * * **
19048117 CTTATCCTCGAAATCAAACCCCAAA-CCTCAAATTTATTAAACCTTAAACC
1 CTTATCCTCAAAATCAAACCCTAAACCCCCAAA-CCATTAAACCTTAAACC
19048167 CTCTTTATCA
Statistics
Matches: 89, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
60 7 0.08
61 80 0.90
62 2 0.02
ACGTcount: A:0.40, C:0.29, G:0.01, T:0.31
Consensus pattern (61 bp):
CTTATCCTCAAAATCAAACCCTAAACCCCCAAACCATTAAACCTTAAACCTTATTATCATC
Found at i:19051326 original size:61 final size:61
Alignment explanation
Indices: 19051195--19051356 Score: 159
Period size: 61 Copynumber: 2.6 Consensus size: 61
19051185 TTAGAATTTA
* * ** * *
19051195 AGGTTTGATTTTGGGGTTAGGAATCATAATAGGGATTT-AAGATTCAATGA-TTTTGGGATTT
1 AGGTTTGATTTTGAGGTTAGGGATGGTAATAGGGGTTTAAAG-TTTAATGATTTTTGGG-TTT
* *
19051256 AGATGTTGATTTTGAGTTTAGGGATGGTAAT-GGGGTTTAAAGTTTAATGATTTTTGGGTTT
1 AGGT-TTGATTTTGAGGTTAGGGATGGTAATAGGGGTTTAAAGTTTAATGATTTTTGGGTTT
* ** *
19051317 AGGGTTTGATTTTAAGGTTAAAGATGGTAATAAGGGTTTA
1 A-GGTTTGATTTTGAGGTTAGGGATGGTAATAGGGGTTTA
19051357 TAATTATTTT
Statistics
Matches: 82, Mismatches: 14, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
61 42 0.51
62 40 0.49
ACGTcount: A:0.27, C:0.01, G:0.30, T:0.42
Consensus pattern (61 bp):
AGGTTTGATTTTGAGGTTAGGGATGGTAATAGGGGTTTAAAGTTTAATGATTTTTGGGTTT
Found at i:19053018 original size:22 final size:23
Alignment explanation
Indices: 19052984--19053033 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
19052974 TGGTGTAAAA
19052984 TTTTCATTTT-AAATAATTACAT
1 TTTTCATTTTAAAATAATTACAT
**
19053006 TTTTC-TTTATAAAATAATTTTAT
1 TTTTCATTT-TAAAATAATTACAT
19053029 TTTTC
1 TTTTC
19053034 CGTCATTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 3 0.12
22 6 0.25
23 15 0.62
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (23 bp):
TTTTCATTTTAAAATAATTACAT
Found at i:19053253 original size:31 final size:32
Alignment explanation
Indices: 19053210--19053269 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
19053200 TTTTTTAGCG
* *
19053210 AAAAGATTAATTTATTTTTTAATTTAATATAT
1 AAAAGATTAATTTATATATTAATTTAATATAT
*
19053242 AAAA-ATTAATTTATATATTATTTTAATA
1 AAAAGATTAATTTATATATTAATTTAATA
19053270 AAAAATAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 21 0.84
32 4 0.16
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (32 bp):
AAAAGATTAATTTATATATTAATTTAATATAT
Found at i:19053823 original size:25 final size:25
Alignment explanation
Indices: 19053779--19053847 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 25
19053769 TTTTAAAAAT
19053779 ATATTTA-TAATTATT-T-TATTTTA
1 ATATTTATTAATT-TTATATATTTTA
*
19053802 ATATTTATTAATTTTATATATTTTT
1 ATATTTATTAATTTTATATATTTTA
*
19053827 AT-TTTTTATAATTTTATATAT
1 ATATTTAT-TAATTTTATATAT
19053848 AGCGATATTA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
23 9 0.22
24 10 0.25
25 21 0.52
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (25 bp):
ATATTTATTAATTTTATATATTTTA
Found at i:19053830 original size:15 final size:15
Alignment explanation
Indices: 19053792--19053843 Score: 61
Period size: 15 Copynumber: 3.4 Consensus size: 15
19053782 TTTATAATTA
19053792 TTTTATTTTA-ATAT
1 TTTTATTTTATATAT
19053806 TTATTAATTTTATATAT
1 TT-TT-ATTTTATATAT
* *
19053823 TTTTATTTTTTATAA
1 TTTTATTTTATATAT
19053838 TTTTAT
1 TTTTAT
19053844 ATATAGCGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
14 2 0.06
15 17 0.52
16 8 0.24
17 6 0.18
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTATTTTATATAT
Found at i:19053914 original size:15 final size:16
Alignment explanation
Indices: 19053887--19053934 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
19053877 TCATAGTAGT
*
19053887 ATTATATATTTTATAA
1 ATTATAAATTTTATAA
**
19053903 ATT-TAAATTTTATGT
1 ATTATAAATTTTATAA
*
19053918 ATTATAAATTATATAA
1 ATTATAAATTTTATAA
19053934 A
1 A
19053935 ATAAAACATT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATTATAAATTTTATAA
Found at i:19055547 original size:14 final size:14
Alignment explanation
Indices: 19055528--19055558 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
19055518 TACATAACCA
19055528 ATTGGCCCTTTTTT
1 ATTGGCCCTTTTTT
19055542 ATTGGCCCTTTTTT
1 ATTGGCCCTTTTTT
19055556 ATT
1 ATT
19055559 TTTTTACATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.10, C:0.19, G:0.13, T:0.58
Consensus pattern (14 bp):
ATTGGCCCTTTTTT
Found at i:19055885 original size:27 final size:27
Alignment explanation
Indices: 19055848--19055900 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
19055838 AGTGTGAAGA
*
19055848 AAACTTGTACTATTGACTCTACTATGG
1 AAACTTATACTATTGACTCTACTATGG
*
19055875 AAACTTATACTGTTGACTCTACTATG
1 AAACTTATACTATTGACTCTACTATG
19055901 AAGGTTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (27 bp):
AAACTTATACTATTGACTCTACTATGG
Found at i:19058943 original size:33 final size:31
Alignment explanation
Indices: 19058898--19058983 Score: 84
Period size: 33 Copynumber: 2.6 Consensus size: 31
19058888 ATTATTGAAG
*
19058898 AAAATCAAAAGAAAAGGAA-AAGAAAAACAA
1 AAAATAAAAAGAAAAGGAATAAGAAAAACAA
* *
19058928 AGAAATTGAAAAAGAAAGGAGAAATAAGAAAAAGAA
1 A-AAA-T-AAAAAGAAA--AGGAATAAGAAAAACAA
19058964 AAAATAAAAAGAAGAAGGAA
1 AAAATAAAAAGAA-AAGGAA
19058984 CGTTAACTAG
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
30 1 0.02
31 3 0.07
32 5 0.11
33 16 0.36
34 2 0.04
35 7 0.16
36 11 0.24
ACGTcount: A:0.73, C:0.02, G:0.19, T:0.06
Consensus pattern (31 bp):
AAAATAAAAAGAAAAGGAATAAGAAAAACAA
Found at i:19061778 original size:22 final size:22
Alignment explanation
Indices: 19061751--19061802 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
19061741 GTCATAATAG
*
19061751 TTTTATATATTATAT--TATATA
1 TTTT-TATATTATATAATTTATA
19061772 TTTTTATATTATATAATTTATA
1 TTTTTATATTATATAATTTATA
*
19061794 TTATTATAT
1 TTTTTATAT
19061803 GTTTTTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 10 0.37
21 4 0.15
22 13 0.48
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
TTTTTATATTATATAATTTATA
Found at i:19061780 original size:15 final size:15
Alignment explanation
Indices: 19061760--19061810 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
19061750 GTTTTATATA
19061760 TTATATTATATATTT
1 TTATATTATATATTT
19061775 TTATATTATATAATTT
1 TTATATTATAT-ATTT
* *
19061791 ATATTATTATATGTTT
1 TTA-TATTATATATTT
19061807 TTAT
1 TTAT
19061811 TTGTAAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
15 12 0.39
16 11 0.35
17 8 0.26
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (15 bp):
TTATATTATATATTT
Found at i:19061821 original size:29 final size:30
Alignment explanation
Indices: 19061754--19061826 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 30
19061744 ATAATAGTTT
*
19061754 TATATATTATATTA-TATATTTTTATATTA
1 TATAAATTATATTATTATATTTTTATATTA
*
19061783 TATAATTTATATTATTATATGTTTT-TATT-
1 TATAAATTATATTATTATAT-TTTTATATTA
* *
19061812 TGTAAATTATGTTAT
1 TATAAATTATATTAT
19061827 ACACTACATA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 24 0.65
30 9 0.24
31 4 0.11
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (30 bp):
TATAAATTATATTATTATATTTTTATATTA
Found at i:19066182 original size:39 final size:39
Alignment explanation
Indices: 19066122--19066227 Score: 196
Period size: 39 Copynumber: 2.7 Consensus size: 39
19066112 TTCAGTGATG
19066122 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
19066161 TATATCCGGACTT-AGGATCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGG-TCCGCAGGCTATGTGCTGGAAT
19066200 TATATCCGGACTTAAGGTCCGCAGGCTA
1 TATATCCGGACTTAAGGTCCGCAGGCTA
19066228 CATGCCAGAA
Statistics
Matches: 65, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
38 3 0.05
39 59 0.91
40 3 0.05
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAAT
Found at i:19069244 original size:14 final size:16
Alignment explanation
Indices: 19069225--19069261 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
19069215 CGATGTCCTT
19069225 TTTGCAT-TCAT-GCA
1 TTTGCATCTCATAGCA
19069239 TTTGCATCTCATAGCA
1 TTTGCATCTCATAGCA
19069255 TTT-CATC
1 TTTGCATC
19069262 GCATCGTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 8 0.38
16 6 0.29
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.43
Consensus pattern (16 bp):
TTTGCATCTCATAGCA
Found at i:19069261 original size:15 final size:15
Alignment explanation
Indices: 19069225--19069274 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
19069215 CGATGTCCTT
19069225 TTTGCAT-TCATGCA
1 TTTGCATCTCATGCA
19069239 TTTGCATCTCATAGCA
1 TTTGCATCTCAT-GCA
* *
19069255 TTT-CATCGCAT-CG
1 TTTGCATCTCATGCA
19069268 TTTGCAT
1 TTTGCAT
19069275 TCAAAGTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 4 0.13
14 10 0.32
15 11 0.35
16 6 0.19
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.42
Consensus pattern (15 bp):
TTTGCATCTCATGCA
Found at i:19077544 original size:175 final size:175
Alignment explanation
Indices: 19077348--19077669 Score: 572
Period size: 175 Copynumber: 1.8 Consensus size: 175
19077338 ACTGAAGCAG
19077348 ATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTT
1 ATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTT
* * * *
19077413 TAGATGATTTCACTGGAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCG
66 AAGATGATTTCACTGAAGCAAATCCAAGATGATTTGGCATCCTTGTGTTCACAAGGAACAAATCG
*
19077478 AAGACATAGCAGATTTGACTTTCGGATGTTCCCACACCAACGCAC
131 AAGACACAGCAGATTTGACTTTCGGATGTTCCCACACCAACGCAC
19077523 ATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTT
1 ATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTT
* * *
19077588 AAGATGATTTCATTGAAGCAAATCCAAGATGATTTGGCATCCTTGTGTTCACAAGGAGCAAATCT
66 AAGATGATTTCACTGAAGCAAATCCAAGATGATTTGGCATCCTTGTGTTCACAAGGAACAAATCG
19077653 AAGACACAGCAGATTTG
131 AAGACACAGCAGATTTG
19077670 GATTTCACGT
Statistics
Matches: 139, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
175 139 1.00
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (175 bp):
ATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTT
AAGATGATTTCACTGAAGCAAATCCAAGATGATTTGGCATCCTTGTGTTCACAAGGAACAAATCG
AAGACACAGCAGATTTGACTTTCGGATGTTCCCACACCAACGCAC
Found at i:19079625 original size:22 final size:22
Alignment explanation
Indices: 19079598--19079649 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
19079588 GTCATAATAG
*
19079598 TTTTATATATTATAT--TATATA
1 TTTT-TATATTATATAATTTATA
19079619 TTTTTATATTATATAATTTATA
1 TTTTTATATTATATAATTTATA
*
19079641 TTATTATAT
1 TTTTTATAT
19079650 GTTTTTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 10 0.37
21 4 0.15
22 13 0.48
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
TTTTTATATTATATAATTTATA
Found at i:19079627 original size:15 final size:15
Alignment explanation
Indices: 19079607--19079657 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
19079597 GTTTTATATA
19079607 TTATATTATATATTT
1 TTATATTATATATTT
19079622 TTATATTATATAATTT
1 TTATATTATAT-ATTT
* *
19079638 ATATTATTATATGTTT
1 TTA-TATTATATATTT
19079654 TTAT
1 TTAT
19079658 TTGTAAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
15 12 0.39
16 11 0.35
17 8 0.26
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (15 bp):
TTATATTATATATTT
Found at i:19079668 original size:29 final size:30
Alignment explanation
Indices: 19079601--19079673 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 30
19079591 ATAATAGTTT
*
19079601 TATATATTATATTA-TATATTTTTATATTA
1 TATAAATTATATTATTATATTTTTATATTA
*
19079630 TATAATTTATATTATTATATGTTTT-TATT-
1 TATAAATTATATTATTATAT-TTTTATATTA
* *
19079659 TGTAAATTATGTTAT
1 TATAAATTATATTAT
19079674 ACACTACATA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 24 0.65
30 9 0.24
31 4 0.11
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (30 bp):
TATAAATTATATTATTATATTTTTATATTA
Found at i:19084520 original size:20 final size:20
Alignment explanation
Indices: 19084472--19084520 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
19084462 TAAATTATTC
19084472 TATTTATATTTTATTATATA
1 TATTTATATTTTATTATATA
** *
19084492 TATAAATATTTGT-TTATTTA
1 TATTTATATTT-TATTATATA
19084512 TATTTATAT
1 TATTTATAT
19084521 ATTTTGTTCG
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
20 22 0.96
21 1 0.04
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (20 bp):
TATTTATATTTTATTATATA
Found at i:19084522 original size:22 final size:23
Alignment explanation
Indices: 19084481--19084524 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
19084471 CTATTTATAT
19084481 TTTATTATATATATAAATATTTG
1 TTTATTATATATATAAATATTTG
* *
19084504 TTTATT-TATATTTATATATTT
1 TTTATTATATATATAAATATTT
19084525 TGTTCGCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (23 bp):
TTTATTATATATATAAATATTTG
Found at i:19085334 original size:17 final size:18
Alignment explanation
Indices: 19085292--19085341 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
19085282 TAGCGTGTTA
19085292 ATAATATTTTATAATATT
1 ATAATATTTTATAATATT
*
19085310 -TAATATTTTAT-ATTTT
1 ATAATATTTTATAATATT
*
19085326 ATAAAATTTTTATAAT
1 ATAATA-TTTTATAAT
19085342 TTGAAGTGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 4 0.15
17 15 0.56
18 6 0.22
19 2 0.07
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
ATAATATTTTATAATATT
Found at i:19085960 original size:12 final size:12
Alignment explanation
Indices: 19085929--19085965 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
19085919 TTTTGATATG
*
19085929 ATACAATTCTT-
1 ATACAATTATTA
19085940 ATA-AATTATTA
1 ATACAATTATTA
19085951 ATACAATTATTA
1 ATACAATTATTA
19085963 ATA
1 ATA
19085966 TAATATCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
10 6 0.26
11 6 0.26
12 11 0.48
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (12 bp):
ATACAATTATTA
Found at i:19100121 original size:24 final size:24
Alignment explanation
Indices: 19100092--19100160 Score: 111
Period size: 24 Copynumber: 2.9 Consensus size: 24
19100082 ACTTAAGATT
19100092 TTATGCTAATAAATGCTAAATATA
1 TTATGCTAATAAATGCTAAATATA
*
19100116 TTATGCTAATAAATGATAAATATA
1 TTATGCTAATAAATGCTAAATATA
* *
19100140 TTATACTAATAAATACTAAAT
1 TTATGCTAATAAATGCTAAAT
19100161 CTTCTAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.49, C:0.07, G:0.06, T:0.38
Consensus pattern (24 bp):
TTATGCTAATAAATGCTAAATATA
Found at i:19106263 original size:20 final size:20
Alignment explanation
Indices: 19106201--19106263 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
19106191 GAAAATTTTT
* * *
19106201 AATTTTTTAACTTTCTTATA
1 AATTTTTTAATTTTTTTAAA
* **
19106221 TA-TTTTTAATTTGTTTTTGA
1 AATTTTTTAATTT-TTTTAAA
19106241 AATTTTTTAATTTTTTTAAA
1 AATTTTTTAATTTTTTTAAA
19106261 AAT
1 AAT
19106264 ATAAATTTTG
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
19 9 0.27
20 14 0.42
21 10 0.30
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.63
Consensus pattern (20 bp):
AATTTTTTAATTTTTTTAAA
Found at i:19106319 original size:20 final size:19
Alignment explanation
Indices: 19106278--19106338 Score: 70
Period size: 20 Copynumber: 3.2 Consensus size: 19
19106268 ATTTTGAGAT
* *
19106278 TTTTATAAA-TATTTTTAA
1 TTTTAAAAATTATTTTAAA
19106296 TTTTAAAAATTATTTTGAAA
1 TTTTAAAAATTATTTT-AAA
* *
19106316 TTTTGATAATTATTTTAAA
1 TTTTAAAAATTATTTTAAA
19106335 TTTT
1 TTTT
19106339 TTTCTGTAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
18 8 0.22
19 13 0.35
20 16 0.43
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (19 bp):
TTTTAAAAATTATTTTAAA
Found at i:19106319 original size:39 final size:41
Alignment explanation
Indices: 19106254--19106338 Score: 111
Period size: 39 Copynumber: 2.1 Consensus size: 41
19106244 TTTTTAATTT
* * *
19106254 TTTTAAAAATATAAATTTTGAGATTTTTATAAATATTTTTAA
1 TTTTAAAAATAT-AATTTTGAAATTTTGATAAATATTTTAAA
*
19106296 TTTTAAAAAT-T-ATTTTGAAATTTTGATAATTATTTTAAA
1 TTTTAAAAATATAATTTTGAAATTTTGATAAATATTTTAAA
19106335 TTTT
1 TTTT
19106339 TTTCTGTAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
39 28 0.72
41 1 0.03
42 10 0.26
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (41 bp):
TTTTAAAAATATAATTTTGAAATTTTGATAAATATTTTAAA
Found at i:19106339 original size:20 final size:18
Alignment explanation
Indices: 19106278--19106338 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 18
19106268 ATTTTGAGAT
* *
19106278 TTTTATAAATATTTTTAA
1 TTTTATAATTATTTTAAA
*
19106296 TTTTAAAAATTATTTTGAAA
1 TTTT-ATAATTATTTT-AAA
19106316 TTTTGATAATTATTTTAAA
1 TTTT-ATAATTATTTTAAA
19106335 TTTT
1 TTTT
19106339 TTTCTGTAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
18 4 0.11
19 16 0.44
20 16 0.44
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (18 bp):
TTTTATAATTATTTTAAA
Found at i:19120877 original size:7 final size:7
Alignment explanation
Indices: 19120876--19120908 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
19120866 AATAAAAAAT
19120876 AATTAAA
1 AATTAAA
19120883 AATTAAA
1 AATTAAA
19120890 AATTAAA
1 AATTAAA
19120897 AATTAAA
1 AATTAAA
19120904 AATTA
1 AATTA
19120909 TGAATTATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
AATTAAA
Found at i:19121722 original size:418 final size:419
Alignment explanation
Indices: 19120912--19121747 Score: 1250
Period size: 418 Copynumber: 2.0 Consensus size: 419
19120902 AAAATTATGA
*
19120912 ATTATGAATTTTTTTAAATATTTTTTATTTTAAAAAAATTAATTAATTTTTAACATGACATACAC
1 ATTATGAATTTTTTTAAATACTTTTTATTTTAAAAAAATTAATTAATTTTTAACATGACATACAC
* *
19120977 ATGGACTTCCAAGCTGGTTGCCTTGTCAAAAAAGTTAATCAACTTTTAACTTTTTCATCTATTTT
66 ATGGACTTCCAAGCTGGTTGCCATGTCAAAAAAGTTAATCAACTTTTAACATTTTCATCTATTTT
* *
19121042 AGGCTGATTTCATAAACAATACAAGTTTAAAAACTACAGATGTAAAAAATTAAATGAAGGGATAA
131 AGGCTGATTTCATAAACAATACAAGTTTAAAAACTACAGATGTAAAAAATTAAATAAAAGGATAA
* * *
19121107 AATAATTTTTTTATAATGTTAGATAGCCAAATAAGTTATTATGACATTTATTTTCGATTTGTCTA
196 AATAATTTTTTTATAACGTTAAAGAGCCAAATAAGTTATTATGACATTTATTTTCGATTTGTCTA
* * * * *
19121172 TAATACTTATGTGAAAATAAAAGAGAGACTAAAAAATCAGTTGCATCTAAATTTCTTAGTTGTTA
261 TAATACTTAGGCGAAAATAAAAGAGAGACTAAAAAATCAGTTACATCTAAAGTTCTTAATTGTTA
* *
19121237 CTGGGTTTTTGTTGTACTTAATTGAAGTTTGAAACATAATAAATACAACAAAAGTGATGGAGTTT
326 CAGGGTTTTTGTTGTACTTAATTGAAGTTTGAAACATAATAAATACAACAAAACTGATGGAGTTT
*
19121302 AAATTCAAGTTTAATGTAATATATCTAAC
391 AAAATCAAGTTTAATGTAATATATCTAAC
* *
19121331 ATTATGAA-TTTTTT-AATACTTTTTATTTTTAAAAAATTAATTAATTTTTAACATGATATACAC
1 ATTATGAATTTTTTTAAATACTTTTTATTTTAAAAAAATTAATTAATTTTTAACATGACATACAC
* * * * *
19121394 GTGGACTTCTAAG-TCGGTTGTCATGT-AGAAAAGTTAATTAACTTTTAACATTTTCATCTATTT
66 ATGGACTTCCAAGCT-GGTTGCCATGTCAAAAAAGTTAATCAACTTTTAACATTTTCATCTATTT
* * * *
19121457 TAGGTTGATTTTATAAACAATACAAGTTTAAGAACTACATATGTAAAAAATTAAATAAAAGGATA
130 TAGGCTGATTTCATAAACAATACAAGTTTAAAAACTACAGATGTAAAAAATTAAATAAAAGGATA
* * * *
19121522 AAATGATTTTTTTATAACGTTTAAAGAGTCAAATAAGTTATTATGTCATTTCTTTTCGATTTGTC
195 AAATAATTTTTTTATAACG-TTAAAGAGCCAAATAAGTTATTATGACATTTATTTTCGATTTGTC
* *
19121587 TATAATACTTGAGGCGAAAATAAAAGAGAGACTAAAATATCAGTTACATCT-AAGTTGTTACATT
259 TATAATACTT-AGGCGAAAATAAAAGAGAGACTAAAAAATCAGTTACATCTAAAGTTCTTA-ATT
* * * * * *
19121651 GTTACAGGGTTTTTGTTTTACTTGATTGAAGTTTGAAACTTAATAACTATAACAAAACTGATGGG
322 GTTACAGGGTTTTTGTTGTACTTAATTGAAGTTTGAAACATAATAAATACAACAAAACTGATGGA
19121716 GTTTAAAATCAAGTTTAATGTAATATATCTAA
387 GTTTAAAATCAAGTTTAATGTAATATATCTAA
19121748 TATGATACCA
Statistics
Matches: 374, Mismatches: 39, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
416 111 0.30
417 123 0.33
418 132 0.35
419 8 0.02
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (419 bp):
ATTATGAATTTTTTTAAATACTTTTTATTTTAAAAAAATTAATTAATTTTTAACATGACATACAC
ATGGACTTCCAAGCTGGTTGCCATGTCAAAAAAGTTAATCAACTTTTAACATTTTCATCTATTTT
AGGCTGATTTCATAAACAATACAAGTTTAAAAACTACAGATGTAAAAAATTAAATAAAAGGATAA
AATAATTTTTTTATAACGTTAAAGAGCCAAATAAGTTATTATGACATTTATTTTCGATTTGTCTA
TAATACTTAGGCGAAAATAAAAGAGAGACTAAAAAATCAGTTACATCTAAAGTTCTTAATTGTTA
CAGGGTTTTTGTTGTACTTAATTGAAGTTTGAAACATAATAAATACAACAAAACTGATGGAGTTT
AAAATCAAGTTTAATGTAATATATCTAAC
Found at i:19129587 original size:46 final size:46
Alignment explanation
Indices: 19129534--19129796 Score: 323
Period size: 46 Copynumber: 5.7 Consensus size: 46
19129524 TGATGCCATA
* * * *
19129534 GTATCTTTCAACTATGATTTTACTCGTTTTC-TGTCATGTTGTCATG
1 GTATCTTTCAACCATGGTCTTACTC-ATTTCATGTCATGTTGTCATG
* ** *
19129580 GTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCATGTCATGTTGTCATG
* *
19129627 GTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGTCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGTCATG
* * *
19129673 GTATCTTTCAACCATGGTTTTACACATTTCATATCATGTT-TCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGT-CATG
* * * *
19129719 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGTCATG
*
19129765 GTATCTTTCAACCATGGTCTTACACATTTCAT
1 GTATCTTTCAACCATGGTCTTACTCATTTCAT
19129797 TTCAAAGAGC
Statistics
Matches: 194, Mismatches: 19, Indels: 8
0.88 0.09 0.04
Matches are distributed among these distances:
45 1 0.01
46 154 0.79
47 39 0.20
ACGTcount: A:0.21, C:0.22, G:0.14, T:0.43
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACTCATTTCATGTCATGTTGTCATG
Found at i:19130844 original size:17 final size:17
Alignment explanation
Indices: 19130819--19130855 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
19130809 TTTCTCTTGA
*
19130819 AAATGGACTCATTCAGG
1 AAATAGACTCATTCAGG
19130836 AAATAGACTCATTCAGG
1 AAATAGACTCATTCAGG
19130853 AAA
1 AAA
19130856 CTTTCTCCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.43, C:0.16, G:0.19, T:0.22
Consensus pattern (17 bp):
AAATAGACTCATTCAGG
Found at i:19132163 original size:16 final size:17
Alignment explanation
Indices: 19132131--19132163 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
19132121 TTTATAAGTA
*
19132131 TATATCAATCGTTTCAT
1 TATATCAATCATTTCAT
19132148 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
19132164 GTTTCATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.33, C:0.15, G:0.03, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:19132610 original size:92 final size:92
Alignment explanation
Indices: 19132459--19132669 Score: 341
Period size: 92 Copynumber: 2.3 Consensus size: 92
19132449 TGCCATAGTG
* * * *
19132459 TCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAATCATGGTCTTA
1 TCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
* *
19132524 TTCTTTTCATGTCACGTTGCCACGGTA
66 TTCGTTTCATATCACGTTGCCACGGTA
*
19132551 TCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
*
19132616 TTCGTTTCATATCACGTTGCCATGGTA
66 TTCGTTTCATATCACGTTGCCACGGTA
*
19132643 TCTTTCAACCATGGTCTTACACATTTC
1 TCTTTCAACCATGGTCTTACTCATTTC
19132670 ATATCAGAGA
Statistics
Matches: 109, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
92 109 1.00
ACGTcount: A:0.18, C:0.25, G:0.14, T:0.43
Consensus pattern (92 bp):
TCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
TTCGTTTCATATCACGTTGCCACGGTA
Found at i:19132675 original size:46 final size:46
Alignment explanation
Indices: 19132449--19132671 Score: 295
Period size: 46 Copynumber: 4.8 Consensus size: 46
19132439 TTTGACATGA
* * * * *
19132449 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGTCACGT
* *
19132495 TGCCATGGTATCTTTCAATCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
* ** *
19132541 TGCCACGGTATCTTTCAACCATGGTCTTATTCATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
* *
19132587 TGCCATGGTATCTTTCAACCATGGTCTTATTCGTTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
**
19132633 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCAT
19132672 ATCAGAGAGC
Statistics
Matches: 154, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
45 4 0.03
46 150 0.97
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.42
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
Found at i:19136896 original size:20 final size:20
Alignment explanation
Indices: 19136871--19136910 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
19136861 GCTGGGATCA
19136871 CTAACTAATACTAATCTAAT
1 CTAACTAATACTAATCTAAT
* *
19136891 CTAACTAGTACTAATTTAAT
1 CTAACTAATACTAATCTAAT
19136911 ACTATGTATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.17, G:0.03, T:0.38
Consensus pattern (20 bp):
CTAACTAATACTAATCTAAT
Found at i:19137045 original size:15 final size:15
Alignment explanation
Indices: 19137025--19137055 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
19137015 GACGGTTCTA
19137025 TGTGCTCTGATTCAT
1 TGTGCTCTGATTCAT
19137040 TGTGCTCTGATTCAT
1 TGTGCTCTGATTCAT
19137055 T
1 T
19137056 ACTGATACAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.19, G:0.19, T:0.48
Consensus pattern (15 bp):
TGTGCTCTGATTCAT
Found at i:19140436 original size:15 final size:16
Alignment explanation
Indices: 19140418--19140486 Score: 54
Period size: 17 Copynumber: 4.2 Consensus size: 16
19140408 TATATTTCTA
*
19140418 TATTATTTATT-TTAT
1 TATTATCTATTATTAT
19140433 TATTCTATCTATTATTA-
1 TA-T-TATCTATTATTAT
19140450 TATTATCTATTTATATAT
1 TATTATCTA-TTAT-TAT
*
19140468 TATT-TTTATATATTAT
1 TATTATCTAT-TATTAT
19140484 TAT
1 TAT
19140487 ATATATTTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
15 8 0.18
16 13 0.29
17 17 0.38
18 7 0.16
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.65
Consensus pattern (16 bp):
TATTATCTATTATTAT
Found at i:19140450 original size:23 final size:22
Alignment explanation
Indices: 19140410--19140498 Score: 79
Period size: 23 Copynumber: 3.8 Consensus size: 22
19140400 TATAAATCTA
*
19140410 TATTTCTATATTATTTATTTTAT
1 TATTTATATATTA-TTATTTTAT
* *
19140433 TATTCTATCTATTATTATATTAT
1 TATT-TATATATTATTATTTTAT
*
19140456 CTATTTATATATTATTTTTATATAT
1 -TATTTATATATTATTATT-T-TAT
*
19140481 TATTATATATATTTTTAT
1 TATT-TATATATTATTAT
19140499 CCAATTTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
23 23 0.43
24 16 0.30
25 14 0.26
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.65
Consensus pattern (22 bp):
TATTTATATATTATTATTTTAT
Found at i:19140491 original size:12 final size:12
Alignment explanation
Indices: 19140416--19140498 Score: 73
Period size: 12 Copynumber: 6.9 Consensus size: 12
19140406 TCTATATTTC
19140416 TATATTATT-TA
1 TATATTATTATA
* *
19140427 TTTTATTATTCTA
1 -TATATTATTATA
*
19140440 TCTATTATTATA
1 TATATTATTATA
19140452 T-TATCTATT-TA
1 TATAT-TATTATA
*
19140463 TATATTATTTTTA
1 TATATTA-TTATA
19140476 TATATTATTATA
1 TATATTATTATA
*
19140488 TATATTTTTAT
1 TATATTATTAT
19140499 CCAATTTTTG
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
11 8 0.13
12 42 0.69
13 11 0.18
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (12 bp):
TATATTATTATA
Found at i:19142063 original size:21 final size:20
Alignment explanation
Indices: 19142039--19142094 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
19142029 AAAATCTTAT
19142039 AATATAATTATTTAATTAATA
1 AATAT-ATTATTTAATTAATA
*
19142060 AATATATT-TTATAAAATAATA
1 AATATATTATT-T-AATTAATA
19142081 AATAT-TTATTTAAT
1 AATATATTATTTAAT
19142095 ATCTAATACA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
19 4 0.13
20 7 0.23
21 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
AATATATTATTTAATTAATA
Found at i:19144105 original size:49 final size:49
Alignment explanation
Indices: 19144032--19144157 Score: 155
Period size: 49 Copynumber: 2.6 Consensus size: 49
19144022 AGATGTTGAC
* * *
19144032 ACCATGTCCCAAACATGGTCTTACACTGGCTTTCATATAGCGAG-GCCGAT
1 ACCATGTCCCAGACA-GGTCTTACACTGGCTCTAATATAGCG-GTGCCGAT
* * * *
19144082 ACCATGTCCTAGACAGGTCTTACACTGGCTCTAATTTATCGGTGTCGAT
1 ACCATGTCCCAGACAGGTCTTACACTGGCTCTAATATAGCGGTGCCGAT
*
19144131 GCCATGTCCCAGACAGGTCTTACACTG
1 ACCATGTCCCAGACAGGTCTTACACTG
19144158 ACACACCACA
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
48 1 0.02
49 52 0.79
50 13 0.20
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (49 bp):
ACCATGTCCCAGACAGGTCTTACACTGGCTCTAATATAGCGGTGCCGAT
Found at i:19145119 original size:13 final size:13
Alignment explanation
Indices: 19145101--19145125 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19145091 CTAAAAGTGC
19145101 AAAAATCATCAAG
1 AAAAATCATCAAG
19145114 AAAAATCATCAA
1 AAAAATCATCAA
19145126 AATCACTTAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.16, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAAATCATCAAG
Found at i:19149846 original size:36 final size:37
Alignment explanation
Indices: 19149782--19149851 Score: 90
Period size: 38 Copynumber: 1.9 Consensus size: 37
19149772 AATATGGTAT
* * *
19149782 TTTAAAATATATATATATGTATGTATATATAATAGTA
1 TTTAAAATATATACATAAGTATGTATATAAAATAGTA
19149819 TTTAAGAATATATACATAAG-ATG-ATATAAAATA
1 TTTAA-AATATATACATAAGTATGTATATAAAATA
19149852 CATACATGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
36 9 0.31
37 8 0.28
38 12 0.41
ACGTcount: A:0.50, C:0.01, G:0.09, T:0.40
Consensus pattern (37 bp):
TTTAAAATATATACATAAGTATGTATATAAAATAGTA
Found at i:19149922 original size:20 final size:20
Alignment explanation
Indices: 19149897--19149937 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
19149887 GGCATTAAAA
*
19149897 AAAATATACATAATATATAT
1 AAAATACACATAATATATAT
*
19149917 AAAATACATATAATATATAT
1 AAAATACACATAATATATAT
19149937 A
1 A
19149938 CGTATTAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAATACACATAATATATAT
Found at i:19150602 original size:13 final size:13
Alignment explanation
Indices: 19150556--19150608 Score: 54
Period size: 13 Copynumber: 4.0 Consensus size: 13
19150546 GAAAAGGTAA
*
19150556 ATTTTTTT-TAAT
1 ATTTTTTTATTAT
*
19150568 ATTTGTTTTGTATAT
1 ATTT-TTTTAT-TAT
*
19150583 ATATTTTTATTAT
1 ATTTTTTTATTAT
19150596 ATTTTTTTATTAT
1 ATTTTTTTATTAT
19150609 GATGTATATA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
12 4 0.12
13 19 0.56
14 6 0.18
15 5 0.15
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.72
Consensus pattern (13 bp):
ATTTTTTTATTAT
Found at i:19150679 original size:17 final size:17
Alignment explanation
Indices: 19150659--19150697 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
19150649 AAATAAAATA
*
19150659 AAAATAA-AAATAAGAGT
1 AAAATAATAAAGAAGA-T
19150676 AAAATAATAAAGAAGAT
1 AAAATAATAAAGAAGAT
19150693 AAAAT
1 AAAAT
19150698 CACCTTTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.18
Consensus pattern (17 bp):
AAAATAATAAAGAAGAT
Found at i:19151020 original size:19 final size:18
Alignment explanation
Indices: 19150994--19151038 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
19150984 AGGGTTTCTT
*
19150994 GGTTTTTTTTTGGGGTTA
1 GGTTTTTTTTTTGGGTTA
19151012 GGTTTTTTTTTTGGGTTA
1 GGTTTTTTTTTTGGGTTA
19151030 GGTTTTTTT
1 GGTTTTTTT
19151039 GGGGGGGGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.04, C:0.00, G:0.29, T:0.67
Consensus pattern (18 bp):
GGTTTTTTTTTTGGGTTA
Found at i:19152923 original size:7 final size:7
Alignment explanation
Indices: 19152911--19152938 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
19152901 AGATTTTGAT
19152911 ATATGAA
1 ATATGAA
19152918 ATATGAA
1 ATATGAA
19152925 ATATGAA
1 ATATGAA
19152932 ATATGAA
1 ATATGAA
19152939 TTTTAAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.29
Consensus pattern (7 bp):
ATATGAA
Found at i:19157686 original size:40 final size:40
Alignment explanation
Indices: 19157630--19157788 Score: 210
Period size: 40 Copynumber: 4.0 Consensus size: 40
19157620 GAGGAAGTAC
* *
19157630 TGACAGTTTATTTGCAATACTAGTGGCTTGTCCACAATAT
1 TGACAGTTTATCTGCAATACTGGTGGCTTGTCCACAATAT
* *
19157670 TGACAGTTTATCTGCAATACGGGTGGCTTGTCCACAATAC
1 TGACAGTTTATCTGCAATACTGGTGGCTTGTCCACAATAT
* * * *
19157710 TGGCAATTTATCTGCAATACTGGTGGCTAGTCCATAATAT
1 TGACAGTTTATCTGCAATACTGGTGGCTTGTCCACAATAT
* * * *
19157750 TGGCAGTTTATATGCAATACTGGTGGTTTGACCACAATA
1 TGACAGTTTATCTGCAATACTGGTGGCTTGTCCACAATA
19157789 CTGGTAGATT
Statistics
Matches: 103, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 103 1.00
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (40 bp):
TGACAGTTTATCTGCAATACTGGTGGCTTGTCCACAATAT
Found at i:19157803 original size:80 final size:80
Alignment explanation
Indices: 19157627--19157792 Score: 233
Period size: 80 Copynumber: 2.1 Consensus size: 80
19157617 AAGGAGGAAG
* * * * *
19157627 TACTGACAGTTTATTTGCAATACTAGTGGCTTGTCCACAATATTGACAGTTTATCTGCAATACGG
1 TACTGGCAATTTATCTGCAATACTAGTGGCTAGTCCACAATATTGACAGTTTATATGCAATACGG
*
19157692 GTGGCTTGTCCACAA
66 GTGGCTTGACCACAA
* * * *
19157707 TACTGGCAATTTATCTGCAATACTGGTGGCTAGTCCATAATATTGGCAGTTTATATGCAATACTG
1 TACTGGCAATTTATCTGCAATACTAGTGGCTAGTCCACAATATTGACAGTTTATATGCAATACGG
*
19157772 GTGGTTTGACCACAA
66 GTGGCTTGACCACAA
19157787 TACTGG
1 TACTGG
19157793 TAGATTATCT
Statistics
Matches: 75, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
80 75 1.00
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.34
Consensus pattern (80 bp):
TACTGGCAATTTATCTGCAATACTAGTGGCTAGTCCACAATATTGACAGTTTATATGCAATACGG
GTGGCTTGACCACAA
Found at i:19160587 original size:73 final size:73
Alignment explanation
Indices: 19160420--19160591 Score: 184
Period size: 73 Copynumber: 2.4 Consensus size: 73
19160410 AAGGCCAAGT
* * * * **
19160420 CACACGCCCGTGTGCTTAGGCCGTGTGGTGAGTTAAATTCCAAAAATCAGGTGCAAACTTCACAC
1 CACACGCCCATGTCCTGAGGCCGTGTGGTGAATTAAATTCCAAAAATCAACTGCAAACTTCACAC
* *
19160485 GGCTGGAG
66 AGATGGAG
* * * * * * *
19160493 TATACGCCCGTGTGCTTAGGCCGTGTGGTGAATTAAATTCCAAAAATCAACTGCAGACTTTACAC
1 CACACGCCCATGTCCTGAGGCCGTGTGGTGAATTAAATTCCAAAAATCAACTGCAAACTTCACAC
19160558 AGATAGG-G
66 AGAT-GGAG
*
19160566 CACATGCCCATGTCCTGAGGCCGTGT
1 CACACGCCCATGTCCTGAGGCCGTGT
19160592 CCTTCACACG
Statistics
Matches: 83, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
73 81 0.98
74 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (73 bp):
CACACGCCCATGTCCTGAGGCCGTGTGGTGAATTAAATTCCAAAAATCAACTGCAAACTTCACAC
AGATGGAG
Found at i:19161988 original size:21 final size:21
Alignment explanation
Indices: 19161964--19162004 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
19161954 TTCTGCTCTG
*
19161964 CCTCCCTCGCTGTTGCCTCCA
1 CCTCCCTCGCTGCTGCCTCCA
19161985 CCTCCCTCGCTGCTGCCTCC
1 CCTCCCTCGCTGCTGCCTCC
19162005 GTTCTAAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.02, C:0.56, G:0.15, T:0.27
Consensus pattern (21 bp):
CCTCCCTCGCTGCTGCCTCCA
Found at i:19165547 original size:19 final size:19
Alignment explanation
Indices: 19165523--19165560 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
19165513 AGTCGTCCAC
*
19165523 TCAGAGTCTTCAATGGCAG
1 TCAGAGTCTTCAACGGCAG
19165542 TCAGAGTCTTCAACGGCAG
1 TCAGAGTCTTCAACGGCAG
19165561 AAGGATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (19 bp):
TCAGAGTCTTCAACGGCAG
Found at i:19165626 original size:19 final size:20
Alignment explanation
Indices: 19165578--19165629 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
19165568 TTTTGATTTT
*
19165578 GATTTGGGGAAATATTTAGG
1 GATTTGGGGAAATAGTTAGG
**
19165598 GATTACGGGAAA-AGTTAGG
1 GATTTGGGGAAATAGTTAGG
19165617 GATTTGGGGAAAT
1 GATTTGGGGAAAT
19165630 TTGGGTGGGG
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.33, C:0.02, G:0.37, T:0.29
Consensus pattern (20 bp):
GATTTGGGGAAATAGTTAGG
Found at i:19167581 original size:10 final size:10
Alignment explanation
Indices: 19167566--19167590 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
19167556 TATCTCAGTT
19167566 TTTTGCGGCG
1 TTTTGCGGCG
19167576 TTTTGCGGCG
1 TTTTGCGGCG
19167586 TTTTG
1 TTTTG
19167591 AATAAAACGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.16, G:0.36, T:0.48
Consensus pattern (10 bp):
TTTTGCGGCG
Found at i:19167612 original size:50 final size:51
Alignment explanation
Indices: 19167525--19167630 Score: 169
Period size: 50 Copynumber: 2.1 Consensus size: 51
19167515 TAGCTCAACC
* *
19167525 TTTTGTGGCGTTTGGAACTAAAGCGCCACTATATCTCAGTTTTTTGCGGCG
1 TTTTGCGGCGTTTGGAACTAAAACGCCACTATATCTCAGTTTTTTGCGGCG
* *
19167576 TTTTGCGGCGTTTTGAA-TAAAACGCCACTATTTCTCAGTTTTTTGCGGCG
1 TTTTGCGGCGTTTGGAACTAAAACGCCACTATATCTCAGTTTTTTGCGGCG
19167626 TTTTG
1 TTTTG
19167631 GATGAAAATG
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
50 36 0.71
51 15 0.29
ACGTcount: A:0.17, C:0.19, G:0.24, T:0.41
Consensus pattern (51 bp):
TTTTGCGGCGTTTGGAACTAAAACGCCACTATATCTCAGTTTTTTGCGGCG
Found at i:19167628 original size:40 final size:41
Alignment explanation
Indices: 19167583--19167712 Score: 190
Period size: 41 Copynumber: 3.2 Consensus size: 41
19167573 GCGTTTTGCG
* * * * *
19167583 GCGTTTTGAAT-AAAACGCCACTATTTCTCAGTTTTTTGCG
1 GCGTTTTGGATAAAAATGCCACTATTACTCAGTTTTTAGCA
*
19167623 GCGTTTTGGATGAAAATGCCACTATTACTCAGTTTTTAGCA
1 GCGTTTTGGATAAAAATGCCACTATTACTCAGTTTTTAGCA
*
19167664 GCGTTTTGGATAAAAATGCCACTATTGCTCAGTTTTTAGCA
1 GCGTTTTGGATAAAAATGCCACTATTACTCAGTTTTTAGCA
19167705 GCGTTTTG
1 GCGTTTTG
19167713 TTTCAAACGC
Statistics
Matches: 82, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
40 10 0.12
41 72 0.88
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (41 bp):
GCGTTTTGGATAAAAATGCCACTATTACTCAGTTTTTAGCA
Found at i:19180413 original size:28 final size:28
Alignment explanation
Indices: 19180356--19180410 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
19180346 TGATGTAACA
*
19180356 AATATATAAAAATTATAGAGAAATAAAT
1 AATATATAAAAATTATAGACAAATAAAT
*
19180384 AATATAATAAAAA-TATATGACACATAA
1 AATAT-ATAAAAATTATA-GACAAATAA
19180411 TAAAATTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 9 0.39
29 14 0.61
ACGTcount: A:0.64, C:0.04, G:0.05, T:0.27
Consensus pattern (28 bp):
AATATATAAAAATTATAGACAAATAAAT
Found at i:19191076 original size:19 final size:19
Alignment explanation
Indices: 19191052--19191089 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
19191042 TTGCAACTTA
19191052 AATTTTT-ATTTTATTTTCT
1 AATTTTTCA-TTTATTTTCT
19191071 AATTTTTCATTTATTTTCT
1 AATTTTTCATTTATTTTCT
19191090 TCTGATAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (19 bp):
AATTTTTCATTTATTTTCT
Found at i:19198491 original size:14 final size:13
Alignment explanation
Indices: 19198471--19198502 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
19198461 AATATTTGAC
19198471 TTGTTCTTAATTA
1 TTGTTCTTAATTA
19198484 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
19198498 TTGTT
1 TTGTT
19198503 TTGATATTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:19199247 original size:25 final size:27
Alignment explanation
Indices: 19199207--19199262 Score: 89
Period size: 26 Copynumber: 2.1 Consensus size: 27
19199197 TCCTCTTTCA
19199207 AGCCATATAATAGG-AAGCTCACAAAG
1 AGCCATATAATAGGAAAGCTCACAAAG
*
19199233 AGCCAT-TAATCGGAAAGCTCACAAAG
1 AGCCATATAATAGGAAAGCTCACAAAG
19199259 AGCC
1 AGCC
19199263 TATCAAGAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
25 6 0.21
26 22 0.79
ACGTcount: A:0.43, C:0.23, G:0.20, T:0.14
Consensus pattern (27 bp):
AGCCATATAATAGGAAAGCTCACAAAG
Found at i:19204640 original size:52 final size:52
Alignment explanation
Indices: 19204583--19204684 Score: 177
Period size: 52 Copynumber: 2.0 Consensus size: 52
19204573 TCTAAGTTAG
* * *
19204583 CCAAGCCTAGTCGAGTATTTTTCTTGCTTATAGCAGTCCACATTTTCTTTAC
1 CCAAGCCTACTCAAATATTTTTCTTGCTTATAGCAGTCCACATTTTCTTTAC
19204635 CCAAGCCTACTCAAATATTTTTCTTGCTTATAGCAGTCCACATTTTCTTT
1 CCAAGCCTACTCAAATATTTTTCTTGCTTATAGCAGTCCACATTTTCTTT
19204685 CATTTCACAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.23, C:0.25, G:0.11, T:0.41
Consensus pattern (52 bp):
CCAAGCCTACTCAAATATTTTTCTTGCTTATAGCAGTCCACATTTTCTTTAC
Found at i:19228189 original size:10 final size:10
Alignment explanation
Indices: 19228174--19228201 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
19228164 GTAAAAGTGG
19228174 AATCCAAACT
1 AATCCAAACT
19228184 AATCCAAACT
1 AATCCAAACT
19228194 AATCCAAA
1 AATCCAAA
19228202 GCTTTAGCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.54, C:0.29, G:0.00, T:0.18
Consensus pattern (10 bp):
AATCCAAACT
Found at i:19241684 original size:17 final size:17
Alignment explanation
Indices: 19241638--19241684 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
19241628 TTAATATTAA
19241638 ATTATACATATATATAACT
1 ATTATA-ATATAT-TAACT
*
19241657 -TT-TAATTTATTAACT
1 ATTATAATATATTAACT
19241672 ATTATAATATATT
1 ATTATAATATATT
19241685 TAATAAGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
15 5 0.21
16 7 0.29
17 10 0.42
18 2 0.08
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTATAATATATTAACT
Found at i:19243398 original size:96 final size:96
Alignment explanation
Indices: 19243248--19243427 Score: 281
Period size: 96 Copynumber: 1.9 Consensus size: 96
19243238 AAGATCTCTA
* * *
19243248 ATTTACGATCATAACTTCAGTTTATTGTTTACGATCATGAGCAATTCATTAAGATTTCGTCAATT
1 ATTTACGATCACAACTTCAG-TTATTGTTTACGATCATGAACAATTCATTAAGATTTCGTCAATC
19243313 TACAATTGCGACTCCACTTTAACAGTTTGTTG
65 TACAATTGCGACTCCACTTTAACAGTTTGTTG
* *
19243345 ATTTACGATCACAACTTCAG-TATTGATTTACGATTATGAACAATTCATTAAGATTTCGTCGATC
1 ATTTACGATCACAACTTCAGTTATTG-TTTACGATCATGAACAATTCATTAAGATTTCGTCAATC
*
19243409 TACGATTGCGACTCCACTT
65 TACAATTGCGACTCCACTT
19243428 AAATAGTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
95 5 0.07
96 52 0.68
97 19 0.25
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.38
Consensus pattern (96 bp):
ATTTACGATCACAACTTCAGTTATTGTTTACGATCATGAACAATTCATTAAGATTTCGTCAATCT
ACAATTGCGACTCCACTTTAACAGTTTGTTG
Found at i:19243443 original size:96 final size:96
Alignment explanation
Indices: 19243248--19243457 Score: 278
Period size: 96 Copynumber: 2.2 Consensus size: 96
19243238 AAGATCTCTA
* *
19243248 ATTTACGATCATAACTTCAGTTTATTGTTTACGATCATGAGCAATTCATTAAGATTTCGTCAATT
1 ATTTACGATCATAACTTCAG-TTATTGTTTACGATCATGAACAATTCATTAAGATTTCGTCAATC
* ***
19243313 TACAATTGCGACTCCACTTTAACAGTTTGTTG
65 TACAATTGCGACTCCACTTAAACAGTTCACTG
* * *
19243345 ATTTACGATCACAACTTCAG-TATTGATTTACGATTATGAACAATTCATTAAGATTTCGTCGATC
1 ATTTACGATCATAACTTCAGTTATTG-TTTACGATCATGAACAATTCATTAAGATTTCGTCAATC
* *
19243409 TACGATTGCGACTCCACTTAAATAGTTCACTG
65 TACAATTGCGACTCCACTTAAACAGTTCACTG
* *
19243441 ATTCACTATCATAACTT
1 ATTTACGATCATAACTT
19243458 TCATTTTTAA
Statistics
Matches: 98, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
95 5 0.05
96 74 0.76
97 19 0.19
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.38
Consensus pattern (96 bp):
ATTTACGATCATAACTTCAGTTATTGTTTACGATCATGAACAATTCATTAAGATTTCGTCAATCT
ACAATTGCGACTCCACTTAAACAGTTCACTG
Found at i:19243711 original size:134 final size:135
Alignment explanation
Indices: 19243345--19243824 Score: 510
Period size: 135 Copynumber: 3.6 Consensus size: 135
19243335 CAGTTTGTTG
*
19243345 ATTTACGATCACAACTTCAG-T-ATTGATTTACGATTATGAACAATTCATTAAGA-TTTCGTC-G
1 ATTTACGATCACAACTTCAGTTCATTGATTTACGATCATGAACAATTCATTAAGAGTTT-GTCTG
* ** * * * * * *
19243406 ATCTACGATTGCGACTCCACTTAAATAGTTCACTGATTCACTATCATAACTTTCATTTTTAAAGC
65 ATTTACGATTGTAACTCCACTTAAACAGTTCATTGATTTACGATCACAACTGTCATTTTTAAAGC
19243471 TCGCTA
130 TCGCTA
* * ** *
19243477 ATTTACGACCACAACTTCAGTTCATTGATTTACGAATGATGAACAATTCATTAAGAG-TTCACTA
1 ATTTACGATCACAACTTCAGTTCATTGATTTACG-ATCATGAACAATTCATTAAGAGTTTGTCTG
* * * * * * *
19243541 ATTTATGACTGCT-ACTCCACTTAAACAGTTCGTTGATTTACGATTACAAATGTCATTTTTTATG
65 ATTTACGATTG-TAACTCCACTTAAACAGTTCATTGATTTACGATCACAACTGTCATTTTTAAAG
* *
19243605 CTTGGTA
129 CTCGCTA
* **
19243612 ATTTATGATCACAGTTTCAGTTCATTGATTTACGATCATGAACAATTCATTAAGAGTTTGTC-GA
1 ATTTACGATCACAACTTCAGTTCATTGATTTACGATCATGAACAATTCATTAAGAGTTTGTCTGA
* * *
19243676 TTTACAATTGTAACTCCACCTAAACAGTCCATTGATTTACGATCACAACTGTCA-TTTTAAAGCT
66 TTTACGATTGTAACTCCACTTAAACAGTTCATTGATTTACGATCACAACTGTCATTTTTAAAGCT
** *
19243740 CATTG
131 CGCTA
* * *** * *
19243745 ATTTATGATCACAATTTCAGTTCATTGATTTGTTATCATGAACAGTTCATTAAGAGTTCG-CTGA
1 ATTTACGATCACAACTTCAGTTCATTGATTTACGATCATGAACAATTCATTAAGAGTTTGTCTGA
19243809 TTTACGATTGTAACTC
66 TTTACGATTGTAACTC
19243825 TATTCTCACG
Statistics
Matches: 288, Mismatches: 51, Indels: 17
0.81 0.14 0.05
Matches are distributed among these distances:
132 20 0.07
133 82 0.28
134 78 0.27
135 108 0.38
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (135 bp):
ATTTACGATCACAACTTCAGTTCATTGATTTACGATCATGAACAATTCATTAAGAGTTTGTCTGA
TTTACGATTGTAACTCCACTTAAACAGTTCATTGATTTACGATCACAACTGTCATTTTTAAAGCT
CGCTA
Found at i:19243844 original size:133 final size:133
Alignment explanation
Indices: 19243342--19243861 Score: 431
Period size: 133 Copynumber: 3.9 Consensus size: 133
19243332 TAACAGTTTG
* * * *
19243342 TTGATTTACGATCACAACTTCAG-T-ATTGATTTACGATTATGAACAATTCATTAAGATTTCGTC
1 TTGATTTATGATCACAATTTCAGTTCATTGATTTACGATCATGAACAATTCATTAAGAGTTCGTC
* * ** * * * * * * * * *
19243405 GATCTACGATTGCGACTCCACTTAAATAGTTCACTGATTCACTATCATAACTTTCATTTTTAAAG
66 GATTTACAATTGTAACTCCACCTAAACAGTCCATTGATTTACAACCACAACTGTCA-TTTTAAAG
*
19243470 CTCG
130 CTCA
* * * * * * *
19243474 CTAATTTACGACCACAACTTCAGTTCATTGATTTACGAATGATGAACAATTCATTAAGAGTTC-A
1 TTGATTTATGATCACAATTTCAGTTCATTGATTTACG-ATCATGAACAATTCATTAAGAGTTCGT
* ** * * * * * ** * *
19243538 CTAATTTATGACTGCT-ACTCCACTTAAACAGTTCGTTGATTTACGATTACAAATGTCATTTTTT
65 C-GATTTACAATTG-TAACTCCACCTAAACAGTCCATTGATTTACAACCACAACTGTCA-TTTTA
* **
19243602 ATGCTTG
127 AAGCTCA
* * * *
19243609 GTAATTTATGATCACAGTTTCAGTTCATTGATTTACGATCATGAACAATTCATTAAGAGTTTGTC
1 TTGATTTATGATCACAATTTCAGTTCATTGATTTACGATCATGAACAATTCATTAAGAGTTCGTC
* *
19243674 GATTTACAATTGTAACTCCACCTAAACAGTCCATTGATTTACGATCACAACTGTCATTTTAAAGC
66 GATTTACAATTGTAACTCCACCTAAACAGTCCATTGATTTACAACCACAACTGTCATTTTAAAGC
19243739 TCA
131 TCA
*** *
19243742 TTGATTTATGATCACAATTTCAGTTCATTGATTTGTTATCATGAACAGTTCATTAAGAGTTCG-C
1 TTGATTTATGATCACAATTTCAGTTCATTGATTTACGATCATGAACAATTCATTAAGAGTTCGTC
* * * * * *
19243806 TGATTTACGATTGTAACTCTATTCT-CACGGTCCCTTGATTTACAACCACAACTGTC
66 -GATTTACAATTGTAACTCCA-CCTAAACAGTCCATTGATTTACAACCACAACTGTC
19243862 TGCTTACGAA
Statistics
Matches: 319, Mismatches: 60, Indels: 17
0.81 0.15 0.04
Matches are distributed among these distances:
132 21 0.07
133 109 0.34
134 82 0.26
135 107 0.34
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (133 bp):
TTGATTTATGATCACAATTTCAGTTCATTGATTTACGATCATGAACAATTCATTAAGAGTTCGTC
GATTTACAATTGTAACTCCACCTAAACAGTCCATTGATTTACAACCACAACTGTCATTTTAAAGC
TCA
Found at i:19245225 original size:58 final size:58
Alignment explanation
Indices: 19245161--19245274 Score: 174
Period size: 58 Copynumber: 2.0 Consensus size: 58
19245151 CACAAGGAAG
* * *
19245161 AAAAAGCTCCATCATTCTAGTTTGGGGCAAACAAATCTCCTTGAAAAGGAAACCTTCT
1 AAAAAGCTCCATCATTCTAGTTTGGGGCAAACAAAGCTCCTTAAAAAAGAAACCTTCT
** *
19245219 AAAAAGCTTTATCATTCTAGTTTGGGGCAAACAAAGCTCTTTAAAAAAGAAACCTT
1 AAAAAGCTCCATCATTCTAGTTTGGGGCAAACAAAGCTCCTTAAAAAAGAAACCTT
19245275 TTAGAAGATC
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
58 50 1.00
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.27
Consensus pattern (58 bp):
AAAAAGCTCCATCATTCTAGTTTGGGGCAAACAAAGCTCCTTAAAAAAGAAACCTTCT
Found at i:19256950 original size:20 final size:20
Alignment explanation
Indices: 19256925--19256975 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
19256915 AATAAAGATG
19256925 AGGTTTTGTGTTTCTGGGGT
1 AGGTTTTGTGTTTCTGGGGT
19256945 AGGTTTTGTGTTTCTGGGGT
1 AGGTTTTGTGTTTCTGGGGT
* *
19256965 CGGGTTTGTGT
1 AGGTTTTGTGT
19256976 ACCGAATGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.04, C:0.06, G:0.41, T:0.49
Consensus pattern (20 bp):
AGGTTTTGTGTTTCTGGGGT
Found at i:19260600 original size:63 final size:63
Alignment explanation
Indices: 19260484--19260628 Score: 197
Period size: 63 Copynumber: 2.3 Consensus size: 63
19260474 ATATGCCAAA
19260484 AGAAGCTCG-AA-AGCTGAACAAAAACTCATAAGAGCTGAACAGAATCTTATAAGAGTTAAAC
1 AGAAGCTCGTAAGAGCTGAACAAAAACTCATAAGAGCTGAACAGAATCTTATAAGAGTTAAAC
* * * * * * *
19260545 AGAAGCTCGTAAGAGCTTAACAGAATCTCATAAGAGTTGAATAG-ATGCTTGTAAGAGTTGAAC
1 AGAAGCTCGTAAGAGCTGAACAAAAACTCATAAGAGCTGAACAGAAT-CTTATAAGAGTTAAAC
19260608 AGAAGCTCGTAAGAGCTGAAC
1 AGAAGCTCGTAAGAGCTGAAC
19260629 TAAAGCTCGA
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
61 9 0.12
62 4 0.05
63 60 0.82
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.21
Consensus pattern (63 bp):
AGAAGCTCGTAAGAGCTGAACAAAAACTCATAAGAGCTGAACAGAATCTTATAAGAGTTAAAC
Found at i:19260634 original size:21 final size:21
Alignment explanation
Indices: 19260484--19260653 Score: 139
Period size: 21 Copynumber: 8.2 Consensus size: 21
19260474 ATATGCCAAA
19260484 AGAAGCTCG-AA-AGCTGAAC
1 AGAAGCTCGTAAGAGCTGAAC
* * *
19260503 AAAAACTCATAAGAGCTGAAC
1 AGAAGCTCGTAAGAGCTGAAC
* ** * *
19260524 AGAATCTTATAAGAGTTAAAC
1 AGAAGCTCGTAAGAGCTGAAC
*
19260545 AGAAGCTCGTAAGAGCTTAAC
1 AGAAGCTCGTAAGAGCTGAAC
* * * *
19260566 AGAATCTCATAAGAGTTGAAT
1 AGAAGCTCGTAAGAGCTGAAC
* * *
19260587 AGATGCTTGTAAGAGTTGAAC
1 AGAAGCTCGTAAGAGCTGAAC
19260608 AGAAGCTCGTAAGAGCTGAAC
1 AGAAGCTCGTAAGAGCTGAAC
* * *
19260629 TA-AAGCTCGAAAAAGCTAAAC
1 -AGAAGCTCGTAAGAGCTGAAC
19260650 AGAA
1 AGAA
19260654 AGTAAAACAC
Statistics
Matches: 118, Mismatches: 29, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
19 6 0.05
20 3 0.03
21 108 0.92
22 1 0.01
ACGTcount: A:0.44, C:0.15, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAAGCTCGTAAGAGCTGAAC
Found at i:19267255 original size:27 final size:28
Alignment explanation
Indices: 19267171--19267268 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
19267161 CATGAGATTG
* * * *
19267171 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
19267200 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
19267228 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
19267255 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
19267269 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:19267279 original size:27 final size:27
Alignment explanation
Indices: 19267199--19267281 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
19267189 TAAATTGTAC
* *
19267199 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
19267227 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
19267254 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
19267281 A
1 A
19267282 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:19267282 original size:29 final size:27
Alignment explanation
Indices: 19267171--19267282 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
19267161 CATGAGATTG
** * *
19267171 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
19267200 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
19267228 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
19267255 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
19267283 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:19274153 original size:27 final size:27
Alignment explanation
Indices: 19274123--19274337 Score: 245
Period size: 27 Copynumber: 8.0 Consensus size: 27
19274113 ACAGTCATTT
* * *
19274123 TACCCCACAAGGGTATCTCGGTAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
*
19274150 TACCCTACAGGGGT-TATTCGGTATTTC
1 TACCCTACAGGGGTAT-TTCGGTAATTC
* * *
19274177 TACCTTACAAGGGTATTTTGGTAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
*
19274204 TACCCTACAGGGGTATTTCGGTATTTC
1 TACCCTACAGGGGTATTTCGGTAATTC
* *
19274231 TACCCTACAAGGGTATTTCGGTAACTC
1 TACCCTACAGGGGTATTTCGGTAATTC
*
19274258 TACCCTACAGGGGTATTTCAGTAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
* * *
19274285 TACCCTACAGGGGTATTTTGATAATTT
1 TACCCTACAGGGGTATTTCGGTAATTC
** *
19274312 TA-CAAACTAGGGGTATTTTGGTAATT
1 TACCCTAC-AGGGGTATTTCGGTAATT
19274338 TTACAAGTCG
Statistics
Matches: 160, Mismatches: 25, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
26 4 0.03
27 155 0.97
28 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
TACCCTACAGGGGTATTTCGGTAATTC
Found at i:19274211 original size:54 final size:54
Alignment explanation
Indices: 19274119--19274302 Score: 273
Period size: 54 Copynumber: 3.4 Consensus size: 54
19274109 CAAAACAGTC
* *
19274119 ATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGT-TATTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTAT-TTCGGT
* *
19274172 ATTTCTACCTTACAAGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGT
* *
19274226 ATTTCTACCCTACAAGGGTATTTCGGTAACTCTACCCTACAGGGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGT
* *
19274280 AATTCTACCCTACAGGGGTATTT
1 ATTTCTACCCTACAAGGGTATTT
19274303 TGATAATTTT
Statistics
Matches: 119, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
53 4 0.03
54 114 0.96
55 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (54 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGT
Found at i:19274352 original size:27 final size:27
Alignment explanation
Indices: 19274293--19274385 Score: 91
Period size: 27 Copynumber: 3.4 Consensus size: 27
19274283 TCTACCCTAC
* *
19274293 AGGGGTATTTTGATAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACG
*
19274320 AGGGGTATTTTGGTAATTTTACAAGTCG
1 AGGGGTATTTTGGTAATTTTACAA-ACG
** *
19274348 A-GGGTATTTCAGTAATTTCACAAATC-
1 AGGGGTATTTTGGTAATTTTACAAA-CG
*
19274374 AGGGGCATTTTG
1 AGGGGTATTTTG
19274386 ATAAACTAAA
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
26 1 0.02
27 50 0.94
28 2 0.04
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.38
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACG
Found at i:19275704 original size:27 final size:27
Alignment explanation
Indices: 19275674--19275744 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
19275664 TTGTCCCAGC
* *
19275674 GGACTATTTTGTGTTTAATGTCTCGTT
1 GGACTATCTTGTGTTTAATGTCTCATT
* * *
19275701 GGACCATCCTATGTTTAATGTCTCATT
1 GGACTATCTTGTGTTTAATGTCTCATT
*
19275728 AGACTATCTTGTGTTTA
1 GGACTATCTTGTGTTTA
19275745 GTGCCCTGAC
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.20, C:0.15, G:0.18, T:0.46
Consensus pattern (27 bp):
GGACTATCTTGTGTTTAATGTCTCATT
Found at i:19275864 original size:74 final size:74
Alignment explanation
Indices: 19275773--19275965 Score: 251
Period size: 74 Copynumber: 2.6 Consensus size: 74
19275763 TATGATGTTG
* * * *
19275773 TAACATCTTTCAGCTATGGTCTTACACAATATAACCCCGTGTTTTCTGTTTCAATGAACTATCAA
1 TAACGTCTTTCAGCTATGGTCTTACACAATATAACCCAGTGTTTACTGTTCCAATGAACTATCAA
*
19275838 AGGATGCCA
66 AGAATGCCA
* * * ** *
19275847 TAACGTCTTTCAACTATGGTCTTACATAATATAACCTAGTGTTTACTGTTCCGGTGGACTATCAA
1 TAACGTCTTTCAGCTATGGTCTTACACAATATAACCCAGTGTTTACTGTTCCAATGAACTATCAA
19275912 AGAATGCCA
66 AGAATGCCA
* ** *
19275921 TAGCGTCTTTTTGCTATGGTCTTACACAATATAACCCTGTGTTTA
1 TAACGTCTTTCAGCTATGGTCTTACACAATATAACCCAGTGTTTA
19275966 TTGTCTCGGC
Statistics
Matches: 101, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
74 101 1.00
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (74 bp):
TAACGTCTTTCAGCTATGGTCTTACACAATATAACCCAGTGTTTACTGTTCCAATGAACTATCAA
AGAATGCCA
Found at i:19275981 original size:74 final size:73
Alignment explanation
Indices: 19275778--19275997 Score: 241
Period size: 74 Copynumber: 3.0 Consensus size: 73
19275768 TGTTGTAACA
*
19275778 TCTTTCAGCTATGGTCTTACACAATATAACCCCGTGTTT-TCTGTTTC--AATGAACTATCAAAG
1 TCTTTCAGCTATGGTCTTACACAATATAACCCTGTGTTTAT-TG-TTCGGAA-G-ACTATCAAAG
*
19275840 GATGCCATAACG
62 GATGCCATAGCG
* * * ** *
19275852 TCTTTCAACTATGGTCTTACATAATATAA-CCTAGTGTTTACTGTTCCGGTGGACTATCAAAGAA
1 TCTTTCAGCTATGGTCTTACACAATATAACCCT-GTGTTTATTGTT-CGGAAGACTATCAAAGGA
19275916 TGCCATAGCG
64 TGCCATAGCG
** *
19275926 TCTTTTTGCTATGGTCTTACACAATATAACCCTGTGTTTATTGTCTCGGCAGACTATCAAAGGAT
1 TCTTTCAGCTATGGTCTTACACAATATAACCCTGTGTTTATTGT-TCGGAAGACTATCAAAGGAT
*
19275991 GTCATAG
65 GCCATAG
19275998 TACCTTTCAG
Statistics
Matches: 122, Mismatches: 17, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
73 4 0.03
74 113 0.93
75 5 0.04
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (73 bp):
TCTTTCAGCTATGGTCTTACACAATATAACCCTGTGTTTATTGTTCGGAAGACTATCAAAGGATG
CCATAGCG
Found at i:19283481 original size:4 final size:4
Alignment explanation
Indices: 19283472--19283514 Score: 68
Period size: 4 Copynumber: 10.8 Consensus size: 4
19283462 CTTTTCCTAT
* *
19283472 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC GTAC GTAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
19283515 TACGTATGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.47, C:0.23, G:0.05, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:19283537 original size:4 final size:4
Alignment explanation
Indices: 19283518--19283569 Score: 77
Period size: 4 Copynumber: 13.0 Consensus size: 4
19283508 GTACATATAC
* * *
19283518 GTAT GTAC GTAC GTAT GTAT GTAT GTAT TTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
19283566 GTAT
1 GTAT
19283570 ATGTAGATGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 44 1.00
ACGTcount: A:0.25, C:0.04, G:0.23, T:0.48
Consensus pattern (4 bp):
GTAT
Found at i:19287237 original size:17 final size:17
Alignment explanation
Indices: 19287217--19287299 Score: 69
Period size: 17 Copynumber: 4.8 Consensus size: 17
19287207 CTACGCAGCT
19287217 TTGGTGAGCTCGCACTA
1 TTGGTGAGCTCGCACTA
* * *
19287234 TTGGAGAGCTCGCAGTC
1 TTGGTGAGCTCGCACTA
* * * *
19287251 TTGATGAGCTCGTAGTT
1 TTGGTGAGCTCGCACTA
19287268 TTGGGTGAGCTCGCAC-A
1 TT-GGTGAGCTCGCACTA
*
19287285 TTTGGTGAGTTCGCA
1 -TTGGTGAGCTCGCA
19287300 ATCTTGCGAT
Statistics
Matches: 52, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
17 40 0.77
18 12 0.23
ACGTcount: A:0.17, C:0.19, G:0.33, T:0.31
Consensus pattern (17 bp):
TTGGTGAGCTCGCACTA
Found at i:19290394 original size:45 final size:45
Alignment explanation
Indices: 19290345--19290513 Score: 212
Period size: 45 Copynumber: 3.8 Consensus size: 45
19290335 CATTGATTCG
* *
19290345 TGATGCCATAACATCTTTTAGCTATGGTCTTTCTTGATAGAATCA
1 TGATGCCATAACATCTTTCAGCTATGGTCTTACTTGATAGAATCA
* * * * * *
19290390 TGATGCCGTAACGTCTTTCAGCTATCGTCTTACTTAATAAAATCG
1 TGATGCCATAACATCTTTCAGCTATGGTCTTACTTGATAGAATCA
* * * **
19290435 TGATGTCATAACGTCTTTCAGCTATGGTCTTACTCGATAGAATTT
1 TGATGCCATAACATCTTTCAGCTATGGTCTTACTTGATAGAATCA
*
19290480 TGATGCCATAACATTTTTCAGCTATGGTCTTACT
1 TGATGCCATAACATCTTTCAGCTATGGTCTTACT
19290514 CATTTCTGGT
Statistics
Matches: 105, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 105 1.00
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (45 bp):
TGATGCCATAACATCTTTCAGCTATGGTCTTACTTGATAGAATCA
Found at i:19290534 original size:90 final size:90
Alignment explanation
Indices: 19290342--19290513 Score: 245
Period size: 90 Copynumber: 1.9 Consensus size: 90
19290332 TTTCATTGAT
* * * * * * *
19290342 TCGTGATGCCATAACATCTTTTAGCTATGGTCTTTCTTGATAGAATCATGATGCCGTAACGTCTT
1 TCGTGATGTCATAACGTCTTTCAGCTATGGTCTTACTCGATAGAATCATGATGCCATAACATCTT
19290407 TCAGCTATCGTCTTACTTAATAAAA
66 TCAGCTATCGTCTTACTTAATAAAA
** *
19290432 TCGTGATGTCATAACGTCTTTCAGCTATGGTCTTACTCGATAGAATTTTGATGCCATAACATTTT
1 TCGTGATGTCATAACGTCTTTCAGCTATGGTCTTACTCGATAGAATCATGATGCCATAACATCTT
*
19290497 TCAGCTATGGTCTTACT
66 TCAGCTATCGTCTTACT
19290514 CATTTCTGGT
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
90 71 1.00
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (90 bp):
TCGTGATGTCATAACGTCTTTCAGCTATGGTCTTACTCGATAGAATCATGATGCCATAACATCTT
TCAGCTATCGTCTTACTTAATAAAA
Found at i:19290544 original size:45 final size:46
Alignment explanation
Indices: 19290495--19290609 Score: 128
Period size: 45 Copynumber: 2.5 Consensus size: 46
19290485 CCATAACATT
* * *
19290495 TTTCAGCTATGGTCTTACTCATTTCT-GGTACGA-TGTCATAGTGTC
1 TTTCAACTATGGTCTTAATCATTTCTCGGTA-GAGTGCCATAGTGTC
* * * *
19290540 TTTCAACTATAGTCTTATTTATTT-TCGGTATAGTGCCATAGTGTC
1 TTTCAACTATGGTCTTAATCATTTCTCGGTAGAGTGCCATAGTGTC
*
19290585 TTTCAACTACGGTCTTAATCATTTC
1 TTTCAACTATGGTCTTAATCATTTC
19290610 CTTCAAGCCA
Statistics
Matches: 57, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
44 2 0.04
45 55 0.96
ACGTcount: A:0.21, C:0.19, G:0.16, T:0.44
Consensus pattern (46 bp):
TTTCAACTATGGTCTTAATCATTTCTCGGTAGAGTGCCATAGTGTC
Found at i:19293097 original size:18 final size:18
Alignment explanation
Indices: 19293060--19293099 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
19293050 TCTATTGTCC
* *
19293060 CTTCTTTCTCGACTGCAT
1 CTTCTTTCTCAACTACAT
*
19293078 CTTCTTTCTCAACTATAT
1 CTTCTTTCTCAACTACAT
19293096 CTTC
1 CTTC
19293100 ATTGTCATCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.15, C:0.33, G:0.05, T:0.47
Consensus pattern (18 bp):
CTTCTTTCTCAACTACAT
Found at i:19296858 original size:30 final size:30
Alignment explanation
Indices: 19296798--19296859 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 30
19296788 AGTCTATATA
** *
19296798 TTTATAATTTTTAAAGGATTAAATTGAATT
1 TTTATAATTTTTAAAGGACCAAAATGAATT
*
19296828 TTTATAA-TTTTAAAGGGCCAAAATGTAATT
1 TTTATAATTTTTAAAGGACCAAAATG-AATT
19296858 TT
1 TT
19296860 ACCTTTACTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 14 0.52
30 13 0.48
ACGTcount: A:0.39, C:0.03, G:0.11, T:0.47
Consensus pattern (30 bp):
TTTATAATTTTTAAAGGACCAAAATGAATT
Found at i:19303634 original size:24 final size:24
Alignment explanation
Indices: 19303607--19303658 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
19303597 TTAGTAAGTC
*
19303607 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
19303631 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
19303655 AAAT
1 AAAT
19303659 CATCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:19305604 original size:24 final size:24
Alignment explanation
Indices: 19305577--19305628 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
19305567 TTAGTAAGTC
*
19305577 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
***
19305601 AAATATGTTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
19305625 AAAT
1 AAAT
19305629 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:19312266 original size:49 final size:49
Alignment explanation
Indices: 19312197--19312778 Score: 918
Period size: 49 Copynumber: 12.1 Consensus size: 49
19312187 GAAATGATAG
*
19312197 TAAGGCCTAATGGCCGATGTGATGAATGTAAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
19312246 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
19312295 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* *
19312342 TAGGGCCTAATGGCCGATGTGATGAATATGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
19312391 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATATGTGA
19312442 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
19312489 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
19312538 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
19312587 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* *
19312634 TAGGGCCCAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
19312681 TAAGGCCTAATGGCCGATGTGAGGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * * *
19312728 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
19312775 TAAG
1 TAAG
19312779 TCCCGAAGGG
Statistics
Matches: 499, Mismatches: 26, Indels: 18
0.92 0.05 0.03
Matches are distributed among these distances:
47 224 0.45
48 1 0.00
49 225 0.45
51 49 0.10
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (49 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:19312353 original size:47 final size:48
Alignment explanation
Indices: 19312197--19312778 Score: 897
Period size: 47 Copynumber: 12.1 Consensus size: 48
19312187 GAAATGATAG
*
19312197 TAAGGCCTAATGGCCGATGTGATGAATGTAAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGA
19312246 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGA
*
19312295 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGA
* *
19312342 TAGGGCCTAATGGCCGATGTGATGAATATGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGA
19312391 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG---ATATATATGTGA
19312442 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGA
*
19312489 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGA
19312538 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGA
*
19312587 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGA
* *
19312634 TAGGGCCCAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGA
*
19312681 TAAGGCCTAATGGCCGATGTGAGGAATGTGAAAGTG-TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGA
* * * * * * * *
19312728 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG-TATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGA
19312775 TAAG
1 TAAG
19312779 TCCCGAAGGG
Statistics
Matches: 500, Mismatches: 27, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
47 228 0.46
49 223 0.45
51 49 0.10
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (48 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGA
Done.