Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 3 of 427
Found at i:751393 original size:21 final size:21
Alignment explanation
Indices: 751361--751411 Score: 86
Period size: 21 Copynumber: 2.4 Consensus size: 21
751351 GTTGATGCAA
751361 ATGG-TATATGACCTTGTTCTG
1 ATGGTTAT-TGACCTTGTTCTG
751382 ATGGTTATTGACCTTGTTCTG
1 ATGGTTATTGACCTTGTTCTG
751403 ATGGTTATT
1 ATGGTTATT
751412 CTCCTCCTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 26 0.90
22 3 0.10
ACGTcount: A:0.18, C:0.12, G:0.24, T:0.47
Consensus pattern (21 bp):
ATGGTTATTGACCTTGTTCTG
Found at i:754897 original size:35 final size:35
Alignment explanation
Indices: 754858--755020 Score: 163
Period size: 35 Copynumber: 4.6 Consensus size: 35
754848 CCATGGAAAG
754858 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
* *
754893 TGTGAAATGTAGGTA---TATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
754925 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGT
** * * *
754965 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGT
**
755000 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
755021 TTCAATGAGG
Statistics
Matches: 107, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
32 30 0.28
34 1 0.01
35 43 0.40
37 2 0.02
38 3 0.03
40 28 0.26
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
Found at i:754921 original size:32 final size:32
Alignment explanation
Indices: 754858--754940 Score: 121
Period size: 32 Copynumber: 2.5 Consensus size: 32
754848 CCATGGAAAG
*
754858 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTA---TATCATCCATACTGAGC
*
754893 TGTGAAATGTAGGTATATTATCCATACTGAGC
1 TGTGAAATGTAGGTATATCATCCATACTGAGC
754925 TGTGAAATGTAGGTAT
1 TGTGAAATGTAGGTAT
754941 GGTATTATCA
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
32 31 0.67
35 15 0.33
ACGTcount: A:0.30, C:0.10, G:0.25, T:0.35
Consensus pattern (32 bp):
TGTGAAATGTAGGTATATCATCCATACTGAGC
Found at i:761895 original size:35 final size:35
Alignment explanation
Indices: 761856--762021 Score: 163
Period size: 35 Copynumber: 4.6 Consensus size: 35
761846 CATGGAAAAG
761856 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
* * * *
761891 TGTGAAATGTAGATATGATATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
*
761926 TGTGAAATATAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGT
** * * *
761966 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGT
**
762001 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
762022 TTCAATGAGG
Statistics
Matches: 107, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
34 1 0.01
35 74 0.69
37 2 0.02
38 3 0.03
40 27 0.25
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
Found at i:761974 original size:75 final size:75
Alignment explanation
Indices: 761856--762026 Score: 194
Period size: 75 Copynumber: 2.4 Consensus size: 75
761846 CATGGAAAAG
** *
761856 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGATATGATATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGATATGACATT-TC
*
761915 CCATACTGAGC
65 CCATACCGAGC
* * *
761926 TGTGAAATATAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGATATGACATTTCC
*
761991 CATACCGAGT
66 CATACCGAGC
**
762001 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
762027 TGAGGAAAAC
Statistics
Matches: 84, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
70 17 0.20
73 4 0.05
74 5 0.06
75 58 0.69
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGATATGACATTTCC
CATACCGAGC
Found at i:763296 original size:33 final size:33
Alignment explanation
Indices: 763259--763323 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
763249 ACAAATTTTT
*
763259 GCATAGGTGAGAACTCCTTGATACCGAGTGCAG
1 GCATAGGTGAAAACTCCTTGATACCGAGTGCAG
*
763292 GCATAGGTGAAAACTCCTTGATGCCGAGTGCA
1 GCATAGGTGAAAACTCCTTGATACCGAGTGCA
763324 AGCGTGAGCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.22
Consensus pattern (33 bp):
GCATAGGTGAAAACTCCTTGATACCGAGTGCAG
Found at i:769383 original size:12 final size:12
Alignment explanation
Indices: 769366--769390 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
769356 AGGAATCCTG
769366 ATGAAACTTACT
1 ATGAAACTTACT
769378 ATGAAACTTACT
1 ATGAAACTTACT
769390 A
1 A
769391 AGGGCCTACA
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:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (12 bp):
ATGAAACTTACT
Found at i:773623 original size:52 final size:52
Alignment explanation
Indices: 773561--773663 Score: 197
Period size: 52 Copynumber: 2.0 Consensus size: 52
773551 TTAATCAAAA
*
773561 ATTATATTAATCATTACTAGCTTAATAATTGAAATTTCTTTCTAAAATTTGG
1 ATTATATTAATCATTACTAGCTTAATAATTAAAATTTCTTTCTAAAATTTGG
773613 ATTATATTAATCATTACTAGCTTAATAATTAAAATTTCTTTCTAAAATTTG
1 ATTATATTAATCATTACTAGCTTAATAATTAAAATTTCTTTCTAAAATTTG
773664 TTCACTTGTG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.47
Consensus pattern (52 bp):
ATTATATTAATCATTACTAGCTTAATAATTAAAATTTCTTTCTAAAATTTGG
Found at i:773883 original size:174 final size:173
Alignment explanation
Indices: 773630--774008 Score: 478
Period size: 174 Copynumber: 2.2 Consensus size: 173
773620 TAATCATTAC
* * * * *
773630 TAGCTTAATAATTAAAATTTCTTTCTAAAATTTGTTCACTTGTGAACGAACTCAAATTCATAATA
1 TAGCTTAACAATTAAAATTTCTTTCTAAAATCTATTCACTTGTGAACAAACTCAAATTCATAAGA
* * *
773695 AGGTCATTAAGCATTAATTCCATCACTCAATCAAAAACATTTTACAGCTAAATAATACAT-CGCA
66 AGCTCATTAAGCATTAATTCCATCACCCAATCAAAAACATTTTACAGCTAAACAATACATCCGCA
* *
773759 AATTAAATTTCAGAGGATTAATCTAGAGTTATACTAATCA-AA
131 AATTAAATTTCAGAGGATTAATCAAGAATTATACTAATCACAA
*
773801 TAGCTTAA-AATTAAACTTTCTTTCTAAAATCTATTCACCGTTTTGTGAACAAA-TCCAAATTCA
1 TAGCTTAACAATTAAAATTTCTTTCTAAAATCTATTCA-C---TTGTGAACAAACT-CAAATTCA
* * * * * *
773864 TACGAAGCTCATTAAGCATTACTTCCATTACCCGATCAAAAACTTTTTACAGCTAAACAATACTT
61 TAAGAAGCTCATTAAGCATTAATTCCATCACCCAATCAAAAACATTTTACAGCTAAACAATACAT
* * * *
773929 CCGCAAGTTACATTTCAGAGGATTAATCAAGAATTATACTAATTAGCAC
126 CCGCAAATTAAATTTCAGAGGATTAATCAAGAATTATACTAATCA-CAA
*
773978 TAGCTTAACAATTAAAATTTATTTCTAAAAT
1 TAGCTTAACAATTAAAATTTCTTTCTAAAAT
774009 AAAAACCTGA
Statistics
Matches: 177, Mismatches: 22, Indels: 11
0.84 0.10 0.05
Matches are distributed among these distances:
170 26 0.15
171 9 0.05
173 1 0.01
174 73 0.41
175 39 0.22
177 9 0.05
178 20 0.11
ACGTcount: A:0.40, C:0.18, G:0.08, T:0.34
Consensus pattern (173 bp):
TAGCTTAACAATTAAAATTTCTTTCTAAAATCTATTCACTTGTGAACAAACTCAAATTCATAAGA
AGCTCATTAAGCATTAATTCCATCACCCAATCAAAAACATTTTACAGCTAAACAATACATCCGCA
AATTAAATTTCAGAGGATTAATCAAGAATTATACTAATCACAA
Found at i:775005 original size:18 final size:18
Alignment explanation
Indices: 774982--775019 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
774972 AACAATCCAA
774982 CTCTTAATACAAATAACT
1 CTCTTAATACAAATAACT
775000 CTCTTAATACAAATAACT
1 CTCTTAATACAAATAACT
775018 CT
1 CT
775020 GTTGTGTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.24, G:0.00, T:0.34
Consensus pattern (18 bp):
CTCTTAATACAAATAACT
Found at i:781347 original size:2 final size:2
Alignment explanation
Indices: 781342--781367 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
781332 TTCTTTTTTA
781342 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
781368 TGATTAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:783810 original size:21 final size:25
Alignment explanation
Indices: 783777--783828 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 25
783767 AAAATTATTG
783777 AAAT-ATCATTAAATAAT-TG-T-A
1 AAATGATCATTAAATAATATGATAA
783798 AAATGATCA-TAAATAATATGATAA
1 AAATGATCATTAAATAATATGATAA
783822 AAATGAT
1 AAATGAT
783829 TTATAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 12 0.44
22 6 0.22
23 1 0.04
24 8 0.30
ACGTcount: A:0.56, C:0.04, G:0.08, T:0.33
Consensus pattern (25 bp):
AAATGATCATTAAATAATATGATAA
Found at i:784894 original size:15 final size:15
Alignment explanation
Indices: 784853--784894 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 15
784843 AATGTCAAAT
784853 TAAATATTAAAAAAA
1 TAAATATTAAAAAAA
784868 TAAA-ATCATAAAAAAA
1 TAAATAT--TAAAAAAA
784884 TAAATATTAAA
1 TAAATATTAAA
784895 TTACACGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
14 2 0.08
15 8 0.33
16 12 0.50
17 2 0.08
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAATATTAAAAAAA
Found at i:785462 original size:15 final size:16
Alignment explanation
Indices: 785436--785465 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
785426 TTTTTTTCAT
785436 CCTTCAAGTTTTCCAC
1 CCTTCAAGTTTTCCAC
785452 CCTTCAA-TTTTCCA
1 CCTTCAAGTTTTCCA
785466 TCGTCCTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.20, C:0.37, G:0.03, T:0.40
Consensus pattern (16 bp):
CCTTCAAGTTTTCCAC
Found at i:786057 original size:104 final size:103
Alignment explanation
Indices: 785845--786056 Score: 275
Period size: 104 Copynumber: 2.1 Consensus size: 103
785835 TCACTTCCAA
785845 ATTTTTATTATTTTTCTTGAATTTGTTTCGAGTTTTACGTTGTTTATCAATGCCTTTGTCGCTGA
1 ATTTTTATTATTTTTCTTGAATTTGTTTCGAGTTTTACGTTGTTTATCAATGCCTTTGTCGCTGA
* *
785910 TCTAAGCTCCCTCAATCACTTTTTCGCTAATCAATTCC
66 TCTAAGCTCCATCAATCACATTTTCGCTAATCAATTCC
* * * *
785948 ATTTTTAATTTTTTTTCTTGTATTTGTTTTTGAG-TTTACGTTGTTTATCGATGCCTTTGTCGCT
1 ATTTTT-ATTATTTTTCTTGAATTTG-TTTCGAGTTTTACGTTGTTTATCAATGCCTTTGTCGCT
* * ** * * *
786012 GCTCTAAGGTCCATTGATCGCATTTT-GCTCATCGATTCC
64 GATCTAAGCTCCATCAATCACATTTTCGCTAATCAATTCC
786051 ATTTTT
1 ATTTTT
786057 TTTGTGAATT
Statistics
Matches: 94, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
103 23 0.24
104 65 0.69
105 6 0.06
ACGTcount: A:0.17, C:0.18, G:0.14, T:0.51
Consensus pattern (103 bp):
ATTTTTATTATTTTTCTTGAATTTGTTTCGAGTTTTACGTTGTTTATCAATGCCTTTGTCGCTGA
TCTAAGCTCCATCAATCACATTTTCGCTAATCAATTCC
Found at i:787304 original size:3 final size:3
Alignment explanation
Indices: 787296--787329 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
787286 GCTCAAATGC
787296 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
787330 GATTTCTGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:787948 original size:32 final size:32
Alignment explanation
Indices: 787907--787969 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
787897 CCATGTTGTC
787907 GAGTATCAGTTTGTCACCATAAGCAACTATGA
1 GAGTATCAGTTTGTCACCATAAGCAACTATGA
787939 GAGTATCAGTTTGTCACCATAAGCAACTATG
1 GAGTATCAGTTTGTCACCATAAGCAACTATG
787970 TTAATTAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (32 bp):
GAGTATCAGTTTGTCACCATAAGCAACTATGA
Found at i:792493 original size:16 final size:16
Alignment explanation
Indices: 792472--792502 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
792462 GGTTGGAATC
*
792472 GATAAAAAATGAAAAT
1 GATAAAAAAAGAAAAT
792488 GATAAAAAAAGAAAA
1 GATAAAAAAAGAAAA
792503 CGTAATTATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (16 bp):
GATAAAAAAAGAAAAT
Found at i:794466 original size:25 final size:25
Alignment explanation
Indices: 794429--794488 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
794419 GATTGGTTAG
*
794429 ATAATAATT-AAATAAATCATT-AAAC
1 ATAA-AATTAAAATAAAT-ATTAAAAA
*
794454 ATAAAATTAAAATATATATTAAAAA
1 ATAAAATTAAAATAAATATTAAAAA
794479 ATAAAATTAA
1 ATAAAATTAA
794489 TTCAACTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 7 0.23
25 24 0.77
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (25 bp):
ATAAAATTAAAATAAATATTAAAAA
Found at i:796503 original size:12 final size:13
Alignment explanation
Indices: 796475--796508 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
796465 TTTAACTCTC
796475 AATAAAATCAAAA
1 AATAAAATCAAAA
*
796488 AATAAAATC-CAA
1 AATAAAATCAAAA
796500 AATAAAATC
1 AATAAAATC
796509 GAACACGAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.71, C:0.12, G:0.00, T:0.18
Consensus pattern (13 bp):
AATAAAATCAAAA
Found at i:805476 original size:14 final size:15
Alignment explanation
Indices: 805446--805479 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
805436 ATGGTGTGGC
805446 ATAATTTTACGACGAA
1 ATAATTTTAC-ACGAA
805462 ATAATTTTA-ACGAA
1 ATAATTTTACACGAA
805476 ATAA
1 ATAA
805480 AACCATTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.50
16 9 0.50
ACGTcount: A:0.50, C:0.09, G:0.09, T:0.32
Consensus pattern (15 bp):
ATAATTTTACACGAA
Found at i:809486 original size:15 final size:16
Alignment explanation
Indices: 809466--809498 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
809456 TATATATTTT
809466 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
809481 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
809498 T
1 T
809499 ATAACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:809583 original size:22 final size:22
Alignment explanation
Indices: 809544--809602 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
809534 GTTTTAAGAA
*
809544 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
809565 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
809587 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
809603 AATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:809619 original size:26 final size:24
Alignment explanation
Indices: 809573--809632 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
809563 ATTTGTTTTA
*
809573 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
809597 ATATTTAATTTATTATATTTTTAAAT
1 ATATTT-ATTT-TTATATTTTTAAAT
* *
809623 TTTTTTATTT
1 ATATTTATTT
809633 AATGAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:809632 original size:25 final size:26
Alignment explanation
Indices: 809576--809633 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 26
809566 TGTTTTAATA
*
809576 TTTATTT-TTATGTTTTTAAATATAT
1 TTTATTTATTATATTTTTAAATATAT
* *
809601 TTAATTTATTATATTTTTAAAT-TTT
1 TTTATTTATTATATTTTTAAATATAT
809626 TTTATTTA
1 TTTATTTA
809634 ATGAAATAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 15 0.54
26 13 0.46
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (26 bp):
TTTATTTATTATATTTTTAAATATAT
Found at i:812207 original size:2 final size:2
Alignment explanation
Indices: 812200--812243 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
812190 TAATAATGAG
812200 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
812242 AT
1 AT
812244 CAATTTCTTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:816918 original size:256 final size:253
Alignment explanation
Indices: 816453--816950 Score: 780
Period size: 256 Copynumber: 2.0 Consensus size: 253
816443 TCGAATATCG
* * *
816453 GATCAGCGATATTGAGACTCCAATCTTCGTGATTCCAAAAAGTGTAACCGTTGCTCATCTTGCAC
1 GATCACCGATATTGAGACTCCAATCTTCGTCATTCCAAAAACTGTAACCGTTGCTCATCTTGCAC
* *
816518 TGATCTGGGAGAATTTTAACTTGGATCAGAAGAAATCGTAGAATAAAAAAACAATAAAATCGAAA
66 AGATCTGGGAAAATTTTAACTTGGATCAGAAGAAATCGTAGAATAAAAAAACAATAAAATCGAAA
** * *
816583 ATTGAGATATAAATTAAGAAGAAGCAAATCATTGAAGCAAGATTATATGAAACAGAATTTTCTTA
131 ATCCAGATATAAATTAAGAAGAAGCAAATCATTGAAGCAAAATTATATGAAACAGAATTTTCTCA
*
816648 AGTAATTCAGGAAAATCAAAGCAAGAGATAATAATGAATAAGTAAACTCAGGAAAATCA
196 AGAAATTCAGGAAAATCAAAGCAAGAGA-AATAATGAATAAGTAAACTCAGGAAAATCA
* ** * *
816707 GATCACCGATATTGAGTCTCCAATCTTCGTCATTCCAATGACTGTCACCGTTGCTCATCTTGCGC
1 GATCACCGATATTGAGACTCCAATCTTCGTCATTCCAAAAACTGTAACCGTTGCTCATCTTGCAC
* * *
816772 AGATCTGTGAAAATTTTAACTTGGATCAGAAGAAATCGTTGAATAAAAAAAAACAATACAATCGA
66 AGATCTGGGAAAATTTTAACTTGGATCAGAAGAAATCGTAGAAT--AAAAAAACAATAAAATCGA
* *
816837 ACATCCAGATATAAATTAAGAAGAAGCAAATCATTGAAGGAAAATTATATGAAACAGAATTTTCT
129 AAATCCAGATATAAATTAAGAAGAAGCAAATCATTGAAGCAAAATTATATGAAACAGAATTTTCT
*
816902 CAAGAAATTCAGGAAAATCAAAGCAAGAGAGATAATGAATAAGTAAACT
194 CAAGAAATTCAGGAAAATCAAAGCAAGAGAAATAATGAATAAGTAAACT
816951 TAGTAGTACC
Statistics
Matches: 221, Mismatches: 21, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
254 97 0.44
255 18 0.08
256 106 0.48
ACGTcount: A:0.44, C:0.14, G:0.17, T:0.25
Consensus pattern (253 bp):
GATCACCGATATTGAGACTCCAATCTTCGTCATTCCAAAAACTGTAACCGTTGCTCATCTTGCAC
AGATCTGGGAAAATTTTAACTTGGATCAGAAGAAATCGTAGAATAAAAAAACAATAAAATCGAAA
ATCCAGATATAAATTAAGAAGAAGCAAATCATTGAAGCAAAATTATATGAAACAGAATTTTCTCA
AGAAATTCAGGAAAATCAAAGCAAGAGAAATAATGAATAAGTAAACTCAGGAAAATCA
Found at i:821935 original size:15 final size:15
Alignment explanation
Indices: 821887--821937 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
821877 GGCTTGATTG
**
821887 AAAGATTGAAGATTT
1 AAAGATTGAAGGGTT
** *
821902 AAAGA-TGATTGGAT
1 AAAGATTGAAGGGTT
821916 AAAGATTGAAGGGTT
1 AAAGATTGAAGGGTT
821931 AAAGATT
1 AAAGATT
821938 TTTTTTAAAA
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
14 9 0.33
15 18 0.67
ACGTcount: A:0.45, C:0.00, G:0.25, T:0.29
Consensus pattern (15 bp):
AAAGATTGAAGGGTT
Found at i:827675 original size:8 final size:7
Alignment explanation
Indices: 827644--827673 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
827634 AAACAACATT
827644 AAAT-AA
1 AAATAAA
827650 AAATAAA
1 AAATAAA
827657 AAATAAA
1 AAATAAA
827664 AAATAAA
1 AAATAAA
827671 AAA
1 AAA
827674 ATTAAACCCG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 19 0.83
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (7 bp):
AAATAAA
Found at i:829878 original size:35 final size:35
Alignment explanation
Indices: 829834--829904 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
829824 TAATAGTTGA
*
829834 GTGATATTAATGTAATTTACCCTTATTCTCTTTAT
1 GTGACATTAATGTAATTTACCCTTATTCTCTTTAT
829869 GTGACATTAATGTAATTTACCCTTATTCTCTTTAT
1 GTGACATTAATGTAATTTACCCTTATTCTCTTTAT
829904 G
1 G
829905 GTATCCTCTC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.25, C:0.15, G:0.10, T:0.49
Consensus pattern (35 bp):
GTGACATTAATGTAATTTACCCTTATTCTCTTTAT
Found at i:831557 original size:4 final size:4
Alignment explanation
Indices: 831540--831582 Score: 68
Period size: 4 Copynumber: 10.8 Consensus size: 4
831530 CTACCAATAT
* *
831540 TGTA TGTT TGTA TGTA TGTA TGTA TGTA TGTA TATA TGTA TGT
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGT
831583 GTACTAGAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.53
Consensus pattern (4 bp):
TGTA
Found at i:834221 original size:11 final size:10
Alignment explanation
Indices: 834204--834232 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
834194 CAAAACCATA
834204 GTTTTTTTTT
1 GTTTTTTTTT
834214 GTTTTTTTTT
1 GTTTTTTTTT
834224 GTTTTTTTT
1 GTTTTTTTT
834233 AACCCAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (10 bp):
GTTTTTTTTT
Found at i:835345 original size:6 final size:6
Alignment explanation
Indices: 835291--835332 Score: 68
Period size: 6 Copynumber: 7.2 Consensus size: 6
835281 ATGAGACATC
*
835291 AAGATA AAGAAA AAGAAA AAGAAA AAGAAA AAG-AA AAGAAA A
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA A
835333 CTTAAAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
5 5 0.15
6 29 0.85
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (6 bp):
AAGAAA
Found at i:835345 original size:18 final size:17
Alignment explanation
Indices: 835291--835346 Score: 58
Period size: 18 Copynumber: 3.2 Consensus size: 17
835281 ATGAGACATC
*
835291 AAGATAAAGAAAAAGAAA
1 AAGAAAAAGAAAAA-AAA
*
835309 AAGAAAAAGAAAAAGAA
1 AAGAAAAAGAAAAAAAA
**
835326 AAGAAAACTTAAAAAAAA
1 AAGAAAA-AGAAAAAAAA
835344 AAG
1 AAG
835347 GATAAACATA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
17 9 0.28
18 23 0.72
ACGTcount: A:0.79, C:0.02, G:0.14, T:0.05
Consensus pattern (17 bp):
AAGAAAAAGAAAAAAAA
Found at i:845557 original size:94 final size:94
Alignment explanation
Indices: 845306--845580 Score: 437
Period size: 94 Copynumber: 2.9 Consensus size: 94
845296 GAGACGATTG
* * *
845306 AAAAACTTGATCCACAACGATCAAAGGTAGGTAAATTATTAGAATTTATTTACTAAGTTTACTTT
1 AAAAACTTGATCCACAACGATCAGAGGTACGTAAATTATTAGAATTTATTTACTAAGTTTAATTT
* **
845371 CATGATCTAAGTCTCTAATTTAATTTTTT
66 CATGATCTAAATCTCTAATTTAAGATTTT
* * *
845400 AAAAACTTGATCCACAATGATCAGTGGTAC-TAAATTATTAGAATTTATTTATTAAGTTTAATTT
1 AAAAACTTGATCCACAACGATCAGAGGTACGTAAATTATTAGAATTTATTTACTAAGTTTAATTT
845464 CATGATCTAAATCTCTAATTTAAGGATTTT
66 CATGATCTAAATCTCTAATTTAA-GATTTT
845494 -AAAACTTGATCCACAACGATCAGAGGTACGTAAATTATTAGAATTTATTTACTAAGTTTAATTT
1 AAAAACTTGATCCACAACGATCAGAGGTACGTAAATTATTAGAATTTATTTACTAAGTTTAATTT
*
845558 CATAATCTAAATCTCTAATTTAA
66 CATGATCTAAATCTCTAATTTAA
845581 TTTTTTTTAA
Statistics
Matches: 166, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
93 81 0.49
94 85 0.51
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (94 bp):
AAAAACTTGATCCACAACGATCAGAGGTACGTAAATTATTAGAATTTATTTACTAAGTTTAATTT
CATGATCTAAATCTCTAATTTAAGATTTT
Found at i:845596 original size:93 final size:93
Alignment explanation
Indices: 845307--845596 Score: 447
Period size: 93 Copynumber: 3.1 Consensus size: 93
845297 AGACGATTGA
* * *
845307 AAAACTTGATCCACAACGATCAAAGGTAGGTAAATTATTAGAATTTATTTACTAAGTTTACTTTC
1 AAAACTTGATCCACAACGATCAGAGGTACGTAAATTATTAGAATTTATTTACTAAGTTTAATTTC
*
845372 ATGATCTAAGTCTCTAATTTAATTTTTT
66 ATGATCTAAATCTCTAATTTAATTTTTT
* * *
845400 AAAAACTTGATCCACAATGATCAGTGGTAC-TAAATTATTAGAATTTATTTATTAAGTTTAATTT
1 -AAAACTTGATCCACAACGATCAGAGGTACGTAAATTATTAGAATTTATTTACTAAGTTTAATTT
**
845464 CATGATCTAAATCTCTAATTTAAGGATTTT
65 CATGATCTAAATCTCTAATTTAA-TTTTTT
845494 AAAACTTGATCCACAACGATCAGAGGTACGTAAATTATTAGAATTTATTTACTAAGTTTAATTTC
1 AAAACTTGATCCACAACGATCAGAGGTACGTAAATTATTAGAATTTATTTACTAAGTTTAATTTC
*
845559 ATAATCTAAATCTCTAATTTAATTTTTT
66 ATGATCTAAATCTCTAATTTAATTTTTT
**
845587 TTAACTTGAT
1 AAAACTTGAT
845597 TTTTCAGAAC
Statistics
Matches: 177, Mismatches: 17, Indels: 5
0.89 0.09 0.03
Matches are distributed among these distances:
93 93 0.53
94 84 0.47
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (93 bp):
AAAACTTGATCCACAACGATCAGAGGTACGTAAATTATTAGAATTTATTTACTAAGTTTAATTTC
ATGATCTAAATCTCTAATTTAATTTTTT
Found at i:845975 original size:29 final size:29
Alignment explanation
Indices: 845943--845999 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
845933 TTTATGACTT
*
845943 GTTTTTCATGTTTGTTTGTTTTAATTTTA
1 GTTTATCATGTTTGTTTGTTTTAATTTTA
845972 GTTTATCATGTTTGTTTGTTTTAATTTT
1 GTTTATCATGTTTGTTTGTTTTAATTTT
846000 TTCTCCCACC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.14, C:0.04, G:0.14, T:0.68
Consensus pattern (29 bp):
GTTTATCATGTTTGTTTGTTTTAATTTTA
Found at i:849057 original size:19 final size:19
Alignment explanation
Indices: 849033--849070 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
849023 ATAATTTACA
849033 GAAAATGATTTACTTTTCT
1 GAAAATGATTTACTTTTCT
849052 GAAAATGATTTACTTTTCT
1 GAAAATGATTTACTTTTCT
849071 AGTGTTTGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.47
Consensus pattern (19 bp):
GAAAATGATTTACTTTTCT
Found at i:849445 original size:2 final size:2
Alignment explanation
Indices: 849438--849467 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
849428 AATTACATGC
849438 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
849468 TTCAAATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:861333 original size:22 final size:19
Alignment explanation
Indices: 861303--861350 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
861293 TTTTTTCTCT
*
861303 AAAATT-ATTATTTA-TAA
1 AAAATTAATTATTAATTAA
861320 AAACATTAATTATTAATTAA
1 AAA-ATTAATTATTAATTAA
861340 AAAATTAATTA
1 AAAATTAATTA
861351 AAATCTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 3 0.11
18 3 0.11
19 15 0.56
20 6 0.22
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAATTAATTATTAATTAA
Found at i:861715 original size:31 final size:30
Alignment explanation
Indices: 861680--861747 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 30
861670 TTACAAAATG
* *
861680 GTCACTAAA-TCATTCAAAAGTTTTCATTTAA
1 GTCACTAAACT-ATTCAAAAATTGT-ATTTAA
*
861711 GTCACTGAACTATTCAAAAATTGTATTTAA
1 GTCACTAAACTATTCAAAAATTGTATTTAA
*
861741 GTTACTA
1 GTCACTA
861748 GGATTTAAGT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
30 11 0.35
31 19 0.61
32 1 0.03
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (30 bp):
GTCACTAAACTATTCAAAAATTGTATTTAA
Found at i:863813 original size:3 final size:3
Alignment explanation
Indices: 863807--864082 Score: 186
Period size: 3 Copynumber: 89.0 Consensus size: 3
863797 CAACAACAAC
*
863807 AAT AAT AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
863855 AAT AAT AAT AAT AAT AAT -AT ATT TAT AAGT AAA AACCT AAAT AAT -CT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AA--T -AAT AAT AAT
* ** * * **
863902 GATT TTT AA- AGGT ATGT AA- AA- AAT GGGT AAT AAAT AAAT AGAT GAAT
1 -AAT AAT AAT A-AT A-AT AAT AAT AAT -AAT AAT -AAT -AAT A-AT -AAT
**
863949 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AAT TGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
863996 AAT GAT AAT AAT GAT AAT AAAT AAT AAT AGT AAAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT -AAT AAT AAT AAT AAT
* * * *
864043 AAT AGT AAT GAT AAT AAAT AAT AGT AGT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT
864083 GAAACAATGA
Statistics
Matches: 219, Mismatches: 36, Indels: 36
0.75 0.12 0.12
Matches are distributed among these distances:
2 10 0.05
3 177 0.81
4 29 0.13
5 1 0.00
6 2 0.01
ACGTcount: A:0.59, C:0.01, G:0.07, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:864180 original size:15 final size:15
Alignment explanation
Indices: 864131--864180 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 15
864121 ATGGAAATAT
864131 AATAATAA-TAG--A
1 AATAATAATTAGATA
*
864143 AAT-ATAAATAGATA
1 AATAATAATTAGATA
864157 AATAATAATTAGATA
1 AATAATAATTAGATA
864172 AATAATAAT
1 AATAATAAT
864181 AGTACTTGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
11 4 0.12
12 6 0.18
14 4 0.12
15 19 0.58
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (15 bp):
AATAATAATTAGATA
Found at i:865266 original size:26 final size:27
Alignment explanation
Indices: 865234--865284 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
865224 TTGGGCCATT
865234 TGGAC-TTATT-TTTTTGTAATTTGGAC
1 TGGACTTTATTATTTTT-TAATTTGGAC
*
865260 TGGACTTTATTATTTTTTGATTTGG
1 TGGACTTTATTATTTTTTAATTTGG
865285 GCTATTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 5 0.23
27 12 0.55
28 5 0.23
ACGTcount: A:0.18, C:0.06, G:0.20, T:0.57
Consensus pattern (27 bp):
TGGACTTTATTATTTTTTAATTTGGAC
Found at i:870132 original size:25 final size:23
Alignment explanation
Indices: 870087--870132 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
870077 AGGTTTAACT
*
870087 ATTTAAAAATCTATTTTCATCCC
1 ATTTAAAAATCTATTTGCATCCC
*
870110 ATTTATAAATCTAATTTGGCATC
1 ATTTAAAAATCT-ATTT-GCATC
870133 TAAAATTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 11 0.58
24 4 0.21
25 4 0.21
ACGTcount: A:0.35, C:0.17, G:0.04, T:0.43
Consensus pattern (23 bp):
ATTTAAAAATCTATTTGCATCCC
Found at i:871371 original size:60 final size:59
Alignment explanation
Indices: 871307--871438 Score: 183
Period size: 60 Copynumber: 2.2 Consensus size: 59
871297 GAAGAAATTG
* *
871307 AATAGTTGGGTGTCAATTTTATAACTTTTCATAGTTAAGTGACCAAAAAATAAATTTACT
1 AATAGTTGGGTGACAATTTTATAACTTTTCATAATTAAGTGACC-AAAAATAAATTTACT
* * * * * *
871367 AATAGTTGAGAGACCATTTTGTAACTTTTCATAATTGAGTGACCAAAAATAAATTTATT
1 AATAGTTGGGTGACAATTTTATAACTTTTCATAATTAAGTGACCAAAAATAAATTTACT
871426 AATAGTTGGGTGA
1 AATAGTTGGGTGA
871439 GTATTAATGA
Statistics
Matches: 62, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
59 25 0.40
60 37 0.60
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.37
Consensus pattern (59 bp):
AATAGTTGGGTGACAATTTTATAACTTTTCATAATTAAGTGACCAAAAATAAATTTACT
Found at i:871497 original size:26 final size:26
Alignment explanation
Indices: 871468--871526 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
871458 TTACTTTTTA
* *
871468 ATAATTTCATAAATATGAAAAACTTT
1 ATAACTTCAGAAATATGAAAAACTTT
*
871494 ATAACTTCAGAAATATGAAATACTTT
1 ATAACTTCAGAAATATGAAAAACTTT
*
871520 AAAACTT
1 ATAACTT
871527 TTATTTTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.36
Consensus pattern (26 bp):
ATAACTTCAGAAATATGAAAAACTTT
Found at i:873009 original size:34 final size:34
Alignment explanation
Indices: 872937--873009 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 34
872927 CCCTAAACTT
* * * *
872937 TGAACCTCGAACCTCAAATCTCAAACCCGAATCT
1 TGAACCACGAACCTCAAATCTCAAACACGAAACA
*
872971 TGAACCACGAACACT-AAATCTCAAACACTAAACA
1 TGAACCACGAAC-CTCAAATCTCAAACACGAAACA
873005 TGAAC
1 TGAAC
873010 TCCAAACCTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
34 31 0.94
35 2 0.06
ACGTcount: A:0.42, C:0.32, G:0.08, T:0.18
Consensus pattern (34 bp):
TGAACCACGAACCTCAAATCTCAAACACGAAACA
Found at i:875266 original size:30 final size:30
Alignment explanation
Indices: 875220--875282 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
875210 ATTTAACAAG
* *
875220 CAAATGCCTCTAAAATATTAAAAAAATTAA
1 CAAACGCCTCTAAAATAATAAAAAAATTAA
* *
875250 CAAACGCCTTTAAAATAATAAGAAAATTAA
1 CAAACGCCTCTAAAATAATAAAAAAATTAA
875280 CAA
1 CAA
875283 TAAAATAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.57, C:0.14, G:0.05, T:0.24
Consensus pattern (30 bp):
CAAACGCCTCTAAAATAATAAAAAAATTAA
Found at i:876131 original size:90 final size:90
Alignment explanation
Indices: 875978--876283 Score: 468
Period size: 90 Copynumber: 3.4 Consensus size: 90
875968 CAAACTTGTT
** * * * *
875978 TGAGAACTCTCCCTGTTGAAAGTTCATGCCTCCACTCTGCATCAAGTGGTTGTCATCTATGCCTG
1 TGAGAACTCTTTCTCTTGAGAGTTCATGCCTCCACTCCGCATCAAGTAGTTGTCATCTATGCCTG
876043 CATTTGGCATCAAGGGGTTCTCACA
66 CATTTGGCATCAAGGGGTTCTCACA
* *
876068 TGAGAACTCTTTCTCTTGAGAGTTCATGCCTTCACTCCGCGTCAAGTAGTTGTCATCTATGCCTG
1 TGAGAACTCTTTCTCTTGAGAGTTCATGCCTCCACTCCGCATCAAGTAGTTGTCATCTATGCCTG
** * *
876133 CATTTGAAACCAAGGGGTTCTCACC
66 CATTTGGCATCAAGGGGTTCTCACA
*
876158 TGAGAACTCTTTCTCTTGAGAGTTCATGCCTCCACTCCGCATCAAGTAGTTGTTATCTATGCCTG
1 TGAGAACTCTTTCTCTTGAGAGTTCATGCCTCCACTCCGCATCAAGTAGTTGTCATCTATGCCTG
* * *
876223 CATTTTGCATCAAGGGATTCTCACT
66 CATTTGGCATCAAGGGGTTCTCACA
876248 TGAGAACTCTTTCTCTTGAGAGTTCATGCCTCCACT
1 TGAGAACTCTTTCTCTTGAGAGTTCATGCCTCCACT
876284 AGAGAAAAAG
Statistics
Matches: 195, Mismatches: 21, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
90 195 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.33
Consensus pattern (90 bp):
TGAGAACTCTTTCTCTTGAGAGTTCATGCCTCCACTCCGCATCAAGTAGTTGTCATCTATGCCTG
CATTTGGCATCAAGGGGTTCTCACA
Found at i:876307 original size:180 final size:180
Alignment explanation
Indices: 875978--876326 Score: 513
Period size: 180 Copynumber: 1.9 Consensus size: 180
875968 CAAACTTGTT
* * *
875978 TGAGAACTCTCCCTGTTGAAAGTTCATGCCTCCACTCTGCATCAAGTGGTTGTCATCTATGCCTG
1 TGAGAACTCTCCCTCTTGAAAGTTCATGCCTCCACTCCGCATCAAGTAGTTGTCATCTATGCCTG
* * * *
876043 CATTTGGCATCAAGGGGTTCTCACATGAGAACTCTTTCTCTTGAGAGTTCATGCCTTCACTCCGC
66 CATTTGGCATCAAGGGATTCTCACATGAGAACTCTTTCTCTTGAGAGTTCATGCCTCCACTCAGA
** *
876108 GTCAAGTAGTTGTCATCTATGCCTGCATTTGAAACCAAGGGGTTCTCACC
131 GAAAAGTAGTTGCCATCTATGCCTGCATTTGAAACCAAGGGGTTCTCACC
** * *
876158 TGAGAACTCTTTCTCTTGAGAGTTCATGCCTCCACTCCGCATCAAGTAGTTGTTATCTATGCCTG
1 TGAGAACTCTCCCTCTTGAAAGTTCATGCCTCCACTCCGCATCAAGTAGTTGTCATCTATGCCTG
* *
876223 CATTTTGCATCAAGGGATTCTCACTTGAGAACTCTTTCTCTTGAGAGTTCATGCCTCCACT-AGA
66 CATTTGGCATCAAGGGATTCTCACATGAGAACTCTTTCTCTTGAGAGTTCATGCCTCCACTCAGA
*
876287 GAAAAAGTAGCTT-CCATCTATGCCTGCATTTGAAGCCAAG
131 G-AAAAGTAG-TTGCCATCTATGCCTGCATTTGAAACCAAG
876327 CTTCCATCTA
Statistics
Matches: 150, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
179 2 0.01
180 146 0.97
181 2 0.01
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (180 bp):
TGAGAACTCTCCCTCTTGAAAGTTCATGCCTCCACTCCGCATCAAGTAGTTGTCATCTATGCCTG
CATTTGGCATCAAGGGATTCTCACATGAGAACTCTTTCTCTTGAGAGTTCATGCCTCCACTCAGA
GAAAAGTAGTTGCCATCTATGCCTGCATTTGAAACCAAGGGGTTCTCACC
Found at i:877204 original size:41 final size:41
Alignment explanation
Indices: 877149--877296 Score: 215
Period size: 41 Copynumber: 3.6 Consensus size: 41
877139 GAGTATGCTC
* *
877149 GCTCGCGCCCATCGCGAGAAAGTTACATTGAAGTTGAATAT
1 GCTCGCGCCAATCGCGAGAAAGTTACGTTGAAGTTGAATAT
* *
877190 GCTCGAGCCAATCGCGACAAAGTTACGTTGAAGTTGAATAT
1 GCTCGCGCCAATCGCGAGAAAGTTACGTTGAAGTTGAATAT
* *
877231 GCTCGCTCCAATCGCGAGAAATTTACGTTGAAGTTGAATAT
1 GCTCGCGCCAATCGCGAGAAAGTTACGTTGAAGTTGAATAT
* * *
877272 GCTCGCTCCCATAGCGAGAAAGTTA
1 GCTCGCGCCAATCGCGAGAAAGTTA
877297 TGTCGAATGC
Statistics
Matches: 96, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 96 1.00
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.25
Consensus pattern (41 bp):
GCTCGCGCCAATCGCGAGAAAGTTACGTTGAAGTTGAATAT
Found at i:877353 original size:17 final size:17
Alignment explanation
Indices: 877331--877363 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
877321 AAAAACTGCC
877331 AACATTTCTCATCCATA
1 AACATTTCTCATCCATA
*
877348 AACATTTCTTATCCAT
1 AACATTTCTCATCCAT
877364 TTCACTTTCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.27, G:0.00, T:0.39
Consensus pattern (17 bp):
AACATTTCTCATCCATA
Found at i:879899 original size:14 final size:14
Alignment explanation
Indices: 879863--879901 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
879853 CCAGAAAAGT
879863 AAATCATTTTCTAG
1 AAATCATTTTCTAG
* *
879877 AAATTATTTTCTGG
1 AAATCATTTTCTAG
*
879891 AAGTCATTTTC
1 AAATCATTTTC
879902 AGTGAAACAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.46
Consensus pattern (14 bp):
AAATCATTTTCTAG
Found at i:880281 original size:29 final size:29
Alignment explanation
Indices: 880239--880297 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
880229 ACACCTCATG
*
880239 AGCCGTTTGAGTTAAGTATTACTTACCTT
1 AGCCGTTTGAGTTAAGTATTACTAACCTT
880268 AGCCGTTTGAGTTAAGTATTACTAACCTT
1 AGCCGTTTGAGTTAAGTATTACTAACCTT
880297 A
1 A
880298 CTTTTTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (29 bp):
AGCCGTTTGAGTTAAGTATTACTAACCTT
Found at i:882148 original size:44 final size:44
Alignment explanation
Indices: 882092--882299 Score: 249
Period size: 44 Copynumber: 4.7 Consensus size: 44
882082 TTGGCGAGAG
* *
882092 ATTGTCAGAGGGCAGATCGAAGATAGCAGATTTGGCGTCTCTGT
1 ATTGACAGAGGGCAGATCGAAGATAGCAGATTTGGCATCTCTGT
* * * *
882136 ATTGTCAAAGGGCAGATCGAAGATAGCAGATTTGGCGTCTCTTT
1 ATTGACAGAGGGCAGATCGAAGATAGCAGATTTGGCATCTCTGT
* *
882180 GTTGACAGAGGGCAGATCGAAGA-AGACAGATTTGGCATCTCTTT
1 ATTGACAGAGGGCAGATCGAAGATAG-CAGATTTGGCATCTCTGT
* *
882224 GTTGACAGAGAGCAGATCGAAGA-AGACAGATTTGGCATCTCTGT
1 ATTGACAGAGGGCAGATCGAAGATAG-CAGATTTGGCATCTCTGT
* * * * *
882268 ATTGGCAAAGAGCAGATCGAAAATAACAGATT
1 ATTGACAGAGGGCAGATCGAAGATAGCAGATT
882300 GGTGTTCCCG
Statistics
Matches: 149, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
43 2 0.01
44 146 0.98
45 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.25
Consensus pattern (44 bp):
ATTGACAGAGGGCAGATCGAAGATAGCAGATTTGGCATCTCTGT
Found at i:882534 original size:17 final size:17
Alignment explanation
Indices: 882512--882547 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
882502 CCGAGCCCGT
882512 ATGAAAATA-AAAACAAA
1 ATGAAAATACAAAA-AAA
882529 ATGAAAATACAAAAAAA
1 ATGAAAATACAAAAAAA
882546 AT
1 AT
882548 AAGCCACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.75, C:0.06, G:0.06, T:0.14
Consensus pattern (17 bp):
ATGAAAATACAAAAAAA
Found at i:884175 original size:16 final size:15
Alignment explanation
Indices: 884150--884179 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
884140 TCGTTTAAAT
884150 TATTGTACATATATA
1 TATTGTACATATATA
884165 TATTGGTACATATAT
1 TATT-GTACATATAT
884180 TTAATCTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.47
Consensus pattern (15 bp):
TATTGTACATATATA
Found at i:884305 original size:2 final size:2
Alignment explanation
Indices: 884298--884322 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
884288 TTAAATTTTC
884298 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
884323 TTGTACATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:885684 original size:131 final size:133
Alignment explanation
Indices: 885490--885810 Score: 335
Period size: 133 Copynumber: 2.4 Consensus size: 133
885480 TCTAACGTGT
* * * * * *
885490 TGGGTTACAATTTCTCGTTTGCTCAAAATAATCAAATATCCCTTCGGGATTCCATTCAGGTCTTC
1 TGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAATATCCCTTCAGGATTCCACTCAGGTCTTC
* * *
885555 T-A-AAAATCCTCTAAAACGA-AGG-TAATACTCGGTGTTTGACAATTCGGGAATCATGCCCTAT
66 TAAGAAAACCCTCTAAAAC-ATAGGCT-ATACTCGATGTTTGACAATTCGAGAATCATGCCCTAT
* *
885616 TGTGC
129 CGCGC
** * * * * * * *
885621 TGGGTTGTGATTTCTCGTTTGTTCAAAACGATCGAATATTCCTTTAGGTTTTCACTCATGTCTTT
1 TGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAATATCCCTTCAGGATTCCACTCAGGTCTTC
* ** * *
885686 TAAGAAAACCCTTTAAAACATAGGCTATGTTCGATGTTTGGCAATTCGAGAATCGTGCCCTATCG
66 TAAGAAAACCCTCTAAAACATAGGCTATACTCGATGTTTGACAATTCGAGAATCATGCCCTATCG
885751 CGC
131 CGC
* * * *
885754 TGGGTTGCAATCTCTCGTTTGTTCAAAACAATCGAATATCTCTTCAGAATTTCACTC
1 TGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAATATCCCTTCAGGATTCCACTC
885811 GTATTTTCTA
Statistics
Matches: 152, Mismatches: 34, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
131 51 0.34
132 2 0.01
133 98 0.64
134 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (133 bp):
TGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAATATCCCTTCAGGATTCCACTCAGGTCTTC
TAAGAAAACCCTCTAAAACATAGGCTATACTCGATGTTTGACAATTCGAGAATCATGCCCTATCG
CGC
Found at i:885807 original size:133 final size:131
Alignment explanation
Indices: 885289--885810 Score: 458
Period size: 132 Copynumber: 4.0 Consensus size: 131
885279 TGATTATACA
* * * * * *
885289 TTTAAAAATTCTTTAAAACGAAGACGA-GATTCGATATTTGGCAATTTGCGGAATAGTGCCCTAA
1 TTTAAAAATCCTCTAAAACGAAGGCTATG-TTCGATATTTGGCAATTCG-GGAATCGTGCCCTAA
* * * *
885353 CGTGTTGGGTTGCAATTTCGCGTTTGCTCGAAATAATCGAATATCCCTTCA-AACTTTCACTCAT
64 CGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAACAATCGAATATCCCTTCAGAA-TTTCACTCAT
* *
885417 GCCG
128 GTCT
* * * * * * *
885421 TTTAAAAATTCTGTAAAACGAAGGCAAAGTTTGATATTTGGCAATTCGCGGAATCGTACTCTAAC
1 TTTAAAAATCCTCTAAAACGAAGGCTATGTTCGATATTTGGCAATTCG-GGAATCGTGCCCTAAC
* * * * * * * * *
885486 GTGTTGGGTTACAATTTCTCGTTTGCTCAAAATAATCAAATATCCCTTCGGGATTCCATTCAGGT
65 GTGCTGGGTTGCAATTTCTCGTTTGCTCAAAACAATCGAATATCCCTTCAGAATTTCACTCATGT
885551 CT
130 CT
* ** * * * * **
885553 TCTAAAAATCCTCTAAAACGAAGG-TAATACTCGGTGTTTGACAATTCGGGAATCATGCCCTATT
1 TTTAAAAATCCTCTAAAACGAAGGCT-ATGTTCGATATTTGGCAATTCGGGAATCGTGCCCTAAC
** * * * * **
885617 GTGCTGGGTTGTGATTTCTCGTTTGTTCAAAACGATCGAATATTCCTTTAGGTTTTCACTCATGT
65 GTGCTGGGTTGCAATTTCTCGTTTGCTCAAAACAATCGAATATCCCTTCAGAATTTCACTCATGT
885682 CT
130 CT
* * * *
885684 TTTAAGAAAACCCTTTAAAAC-ATAGGCTATGTTCGATGTTTGGCAATTCGAGAATCGTGCCCTA
1 TTT-A-AAAATCCTCTAAAACGA-AGGCTATGTTCGATATTTGGCAATTCGGGAATCGTGCCCTA
* * * * *
885748 TCGCGCTGGGTTGCAATCTCTCGTTTGTTCAAAACAATCGAATATCTCTTCAGAATTTCACTC
63 ACGTGCTGGGTTGCAATTTCTCGTTTGCTCAAAACAATCGAATATCCCTTCAGAATTTCACTC
885811 GTATTTTCTA
Statistics
Matches: 313, Mismatches: 70, Indels: 13
0.79 0.18 0.03
Matches are distributed among these distances:
131 65 0.21
132 147 0.47
133 100 0.32
134 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (131 bp):
TTTAAAAATCCTCTAAAACGAAGGCTATGTTCGATATTTGGCAATTCGGGAATCGTGCCCTAACG
TGCTGGGTTGCAATTTCTCGTTTGCTCAAAACAATCGAATATCCCTTCAGAATTTCACTCATGTC
T
Found at i:892129 original size:33 final size:33
Alignment explanation
Indices: 892093--892207 Score: 158
Period size: 33 Copynumber: 3.3 Consensus size: 33
892083 CTTGCATTTG
*
892093 GCATCAAGGAGTTTTCACCTATGCCTGCACTCGGCATCA
1 GCATCAAGGAGTTCTCACCTATGCCTGCA-----C-TCA
892132 GCATCAAGGAGTTCTCACCTATGCCTGCACTCA
1 GCATCAAGGAGTTCTCACCTATGCCTGCACTCA
*
892165 GCATTAAGGAGTTCTCACCTATGCCTGCACTCA
1 GCATCAAGGAGTTCTCACCTATGCCTGCACTCA
892198 GCATCAAGGA
1 GCATCAAGGA
892208 TCTCGGCATA
Statistics
Matches: 73, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
33 44 0.60
34 1 0.01
39 28 0.38
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.24
Consensus pattern (33 bp):
GCATCAAGGAGTTCTCACCTATGCCTGCACTCA
Found at i:892948 original size:42 final size:41
Alignment explanation
Indices: 892872--893017 Score: 211
Period size: 41 Copynumber: 3.5 Consensus size: 41
892862 GAGTATGCTC
*
892872 GCTCGCGCCCATCGCGAGAAAGTTACGTTGAAGTTGAATAT
1 GCTCGCGCCCATAGCGAGAAAGTTACGTTGAAGTTGAATAT
* *
892913 GCTCGCGCCCATCGCGAAAAAAGTTACGTTGAAGTTGAATAT
1 GCTCGCGCCCATAGCG-AGAAAGTTACGTTGAAGTTGAATAT
* * ** *
892955 GCCCGCTCTGATAGCGAGAAATTTACGTTGAAGTTGAATAT
1 GCTCGCGCCCATAGCGAGAAAGTTACGTTGAAGTTGAATAT
892996 GCTCGCGCCCATAGCGAGAAAG
1 GCTCGCGCCCATAGCGAGAAAG
893018 CTATGTCGAA
Statistics
Matches: 91, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
41 56 0.62
42 35 0.38
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (41 bp):
GCTCGCGCCCATAGCGAGAAAGTTACGTTGAAGTTGAATAT
Found at i:900746 original size:38 final size:39
Alignment explanation
Indices: 900662--900794 Score: 112
Period size: 39 Copynumber: 3.4 Consensus size: 39
900652 ACCAATATGG
*
900662 CACCCAGTGCCTCATCGGATAGTTCGAAGTAATAGTTGA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
* * *
900701 CACCCAGTGTCTCATCGGCCTAG-CCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGTAATAGTTGA
* * * *
900739 TACCCAGTACCTCATCGAATCTA-TCCGAAGAAATA-TAGTGA
1 CACCCAGTGCCTCATCGGA--TAGTCCGAAGTAATAGT--TGA
*
900780 CACCCAGTGTCTCAT
1 CACCCAGTGCCTCAT
900795 TGACTCGAGG
Statistics
Matches: 73, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
38 19 0.26
39 36 0.49
40 4 0.05
41 14 0.19
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
Found at i:903450 original size:40 final size:39
Alignment explanation
Indices: 903406--903539 Score: 135
Period size: 40 Copynumber: 3.3 Consensus size: 39
903396 CAGTGCCTCA
903406 TATAGCCGAAGCTTTCTCAATTTGTACACTTAATGCTATC
1 TATAGCCGAAGCTTTCTC-ATTTGTACACTTAATGCTATC
* * * * * * *
903446 TATAGCCGAAGCTATCTCGGTATCGCACACTCAGTGC-CTC
1 TATAGCCGAAGCTTTCTC-AT-TTGTACACTTAATGCTATC
*
903486 ATATAGCCGAAGCTTTCTCATTTTTCACACTTAATGCTATC
1 -TATAGCCGAAGCTTTCTCATTTGT-ACACTTAATGCTATC
*
903527 TATAGTCGAAGCT
1 TATAGCCGAAGCT
903540 ATTTTGAAAC
Statistics
Matches: 73, Mismatches: 17, Indels: 8
0.74 0.17 0.08
Matches are distributed among these distances:
39 1 0.01
40 42 0.58
41 30 0.41
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (39 bp):
TATAGCCGAAGCTTTCTCATTTGTACACTTAATGCTATC
Found at i:903491 original size:41 final size:41
Alignment explanation
Indices: 903372--903504 Score: 162
Period size: 41 Copynumber: 3.3 Consensus size: 41
903362 TCAATAAACT
903372 GAAGCTATCTCGGTATCGCACACTCAGTGCCTCATATAGCC
1 GAAGCTATCTCGGTATCGCACACTCAGTGCCTCATATAGCC
* ** * * * * *
903413 GAAGCTTTCTCAAT-TTGTACACTTAATGCTATC-TATAGCC
1 GAAGCTATCTCGGTATCGCACACTCAGTGC-CTCATATAGCC
903453 GAAGCTATCTCGGTATCGCACACTCAGTGCCTCATATAGCC
1 GAAGCTATCTCGGTATCGCACACTCAGTGCCTCATATAGCC
*
903494 GAAGCTTTCTC
1 GAAGCTATCTC
903505 ATTTTTCACA
Statistics
Matches: 72, Mismatches: 17, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
40 31 0.43
41 41 0.57
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (41 bp):
GAAGCTATCTCGGTATCGCACACTCAGTGCCTCATATAGCC
Found at i:903516 original size:81 final size:81
Alignment explanation
Indices: 903372--903541 Score: 306
Period size: 81 Copynumber: 2.1 Consensus size: 81
903362 TCAATAAACT
903372 GAAGCTATCTCGGTATCGCACACTCAGTGCCTCATATAGCCGAAGCTTTCTCAATTTGTACACTT
1 GAAGCTATCTCGGTATCGCACACTCAGTGCCTCATATAGCCGAAGCTTTCTCAATTTGTACACTT
903437 AATGCTATCTATAGCC
66 AATGCTATCTATAGCC
*
903453 GAAGCTATCTCGGTATCGCACACTCAGTGCCTCATATAGCCGAAGCTTTCTC-ATTTTTCACACT
1 GAAGCTATCTCGGTATCGCACACTCAGTGCCTCATATAGCCGAAGCTTTCTCAATTTGT-ACACT
*
903517 TAATGCTATCTATAGTC
65 TAATGCTATCTATAGCC
903534 GAAGCTAT
1 GAAGCTAT
903542 TTTGAAACGC
Statistics
Matches: 86, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
80 5 0.06
81 81 0.94
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (81 bp):
GAAGCTATCTCGGTATCGCACACTCAGTGCCTCATATAGCCGAAGCTTTCTCAATTTGTACACTT
AATGCTATCTATAGCC
Found at i:906031 original size:13 final size:13
Alignment explanation
Indices: 906015--906052 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
906005 TGGGGTTCAA
906015 GTTTGAGGTTTGG
1 GTTTGAGGTTTGG
906028 GTTTGA-GTTTGG
1 GTTTGAGGTTTGG
906040 GATTTGAGGTTTG
1 G-TTTGAGGTTTG
906053 AAATTAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.30
13 11 0.48
14 5 0.22
ACGTcount: A:0.11, C:0.00, G:0.42, T:0.47
Consensus pattern (13 bp):
GTTTGAGGTTTGG
Found at i:906052 original size:20 final size:18
Alignment explanation
Indices: 905991--906053 Score: 63
Period size: 20 Copynumber: 3.2 Consensus size: 18
905981 AACCCAAACC
905991 TTGAGTTTAGGGTTTGGGGT
1 TTGAGTTT-GGGTTT-GGGT
**
906011 TCAAGTTTGAGGTTTGGGT
1 TTGAGTTTG-GGTTTGGGT
906030 TTGAGTTTGGGATTTGAGGT
1 TTGAGTTTGGG-TTTG-GGT
906050 TTGA
1 TTGA
906054 AATTAAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
18 2 0.06
19 16 0.44
20 18 0.50
ACGTcount: A:0.14, C:0.02, G:0.40, T:0.44
Consensus pattern (18 bp):
TTGAGTTTGGGTTTGGGT
Found at i:911857 original size:90 final size:90
Alignment explanation
Indices: 911711--912054 Score: 521
Period size: 90 Copynumber: 3.8 Consensus size: 90
911701 TTGCTTGACC
911711 ACTCTCCCCCTTGAAAGTTCATGTCTCCACTTA-GGAACAAGTAGTTCTCATCTATGCTTGCATT
1 ACTCTCCCCCTTGAAAGTTCATGTCTCCAC-TAGGGAACAAGTAGTTCTCATCTATGCTTGCATT
*
911775 TGACATCAAGCGGTTCTCACTTGAGA
65 TGACATCAAGAGGTTCTCACTTGAGA
*
911801 ACTCTCCCCCTTGAAAGTTCATGTCTCCACTAGGGAACAAGTAGTTCTCATTTATGCTTGCATTT
1 ACTCTCCCCCTTGAAAGTTCATGTCTCCACTAGGGAACAAGTAGTTCTCATCTATGCTTGCATTT
911866 GACATCAAGAGGTTCTCACTTGAGA
66 GACATCAAGAGGTTCTCACTTGAGA
*
911891 ACTCTCCCCCTTGAAAGTTCATGTCTCCACTCGGGAACAAGTAGTTCTCATCTATG-TCTGCATT
1 ACTCTCCCCCTTGAAAGTTCATGTCTCCACTAGGGAACAAGTAGTTCTCATCTATGCT-TGCATT
* * * *
911955 TAAGATCAAGGGGTTATCACTTGAGA
65 TGACATCAAGAGGTTCTCACTTGAGA
** * * ** * *
911981 ACTCTTTCTCTTGAGAGTTCATACCTCCACTTGGTAACAAGTAGTTCTCATCTATGCTTGCATTT
1 ACTCTCCCCCTTGAAAGTTCATGTCTCCACTAGGGAACAAGTAGTTCTCATCTATGCTTGCATTT
912046 GACATCAAG
66 GACATCAAG
912055 TAGCTCTTGA
Statistics
Matches: 233, Mismatches: 18, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
89 3 0.01
90 229 0.98
91 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (90 bp):
ACTCTCCCCCTTGAAAGTTCATGTCTCCACTAGGGAACAAGTAGTTCTCATCTATGCTTGCATTT
GACATCAAGAGGTTCTCACTTGAGA
Found at i:912559 original size:25 final size:25
Alignment explanation
Indices: 912525--912574 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
912515 GCGATAAGAC
*
912525 TACTAGAAAGTTAGCTGGAAAACTT
1 TACTAGAAAGTTAGCTAGAAAACTT
* *
912550 TACTGGAAAGTTAGCTAGCAAACTT
1 TACTAGAAAGTTAGCTAGAAAACTT
912575 GGTACTATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (25 bp):
TACTAGAAAGTTAGCTAGAAAACTT
Found at i:913116 original size:2 final size:2
Alignment explanation
Indices: 913111--913141 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
913101 GAAAAACAGC
*
913111 AT AT AT AT AG AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
913142 CATAAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:913934 original size:3 final size:3
Alignment explanation
Indices: 913926--914012 Score: 59
Period size: 3 Copynumber: 28.7 Consensus size: 3
913916 TTGTTATCAG
* ** * * * *
913926 TAT TAT TAT TAT CAT TGC TAT TTT TAT TTT TAT TAC TAT TAT TAT TCT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
913974 T-T TAC TAG TAT TATT TAT TATT TAT TAT TAT TAC TAT TA
1 TAT TAT TAT TAT TA-T TAT TA-T TAT TAT TAT TAT TAT TA
914013 CTGTCATTAT
Statistics
Matches: 63, Mismatches: 18, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
2 2 0.03
3 55 0.87
4 6 0.10
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:913980 original size:17 final size:18
Alignment explanation
Indices: 913926--914014 Score: 69
Period size: 18 Copynumber: 5.1 Consensus size: 18
913916 TTGTTATCAG
* * *
913926 TATTATTATTATCATTGC
1 TATTATTATTCTTATTAC
* *
913944 TATTTTTATTTTTATTAC
1 TATTATTATTCTTATTAC
913962 TATTATTATTCTT-TTAC
1 TATTATTATTCTTATTAC
* *
913979 TAGTATTA-T-TTATTATT
1 TATTATTATTCTTATTA-C
913996 TATTATTATTAC-TATTAC
1 TATTATTATT-CTTATTAC
914014 T
1 T
914015 GTCATTATCA
Statistics
Matches: 56, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
15 2 0.04
16 4 0.07
17 18 0.32
18 27 0.48
19 5 0.09
ACGTcount: A:0.27, C:0.08, G:0.02, T:0.63
Consensus pattern (18 bp):
TATTATTATTCTTATTAC
Found at i:913997 original size:20 final size:19
Alignment explanation
Indices: 913943--913997 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 19
913933 ATTATCATTG
*
913943 CTATT-TTTATTTTTATTA
1 CTATTATTTATTTTTACTA
913961 CTATTA-TTATTCTTTTACTA
1 CTATTATTTA-T-TTTTACTA
*
913981 GTATTATTTATTATTTA
1 CTATTATTTATT-TTTA
913998 TTATTATTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
18 8 0.27
19 2 0.07
20 17 0.57
21 3 0.10
ACGTcount: A:0.25, C:0.07, G:0.02, T:0.65
Consensus pattern (19 bp):
CTATTATTTATTTTTACTA
Found at i:914268 original size:3 final size:3
Alignment explanation
Indices: 914260--914433 Score: 115
Period size: 3 Copynumber: 56.7 Consensus size: 3
914250 CAAAGTTTAG
** * *
914260 ATT ATT ATT ATT ATT ATT ATT ACC ATT A-T ATTT ATT ACT ATT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT
* * * * * * *
914305 AAT ATT ATT ATT -TT CTTT AGT ACT ATC ACT GTT ATT A-T ATT ATT
1 ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
914349 -TGT CTT GTT AATGT ATT ATT ATT -TCCT ACTT AATT ATT ATT ATT ATT
1 AT-T ATT ATT -AT-T ATT ATT ATT AT--T A-TT -ATT ATT ATT ATT ATT
914396 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
914434 AATATTTAGT
Statistics
Matches: 136, Mismatches: 21, Indels: 28
0.74 0.11 0.15
Matches are distributed among these distances:
2 8 0.06
3 113 0.83
4 12 0.09
5 2 0.01
6 1 0.01
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:918163 original size:3 final size:3
Alignment explanation
Indices: 918157--918195 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
918147 TGTTGGCGTT
*
918157 GGC GGC GGC GGC GGC GGC GGC GGC GGC GGC GGC GTC GGC
1 GGC GGC GGC GGC GGC GGC GGC GGC GGC GGC GGC GGC GGC
918196 TAGCTGCAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.00, C:0.33, G:0.64, T:0.03
Consensus pattern (3 bp):
GGC
Found at i:918639 original size:27 final size:28
Alignment explanation
Indices: 918600--918654 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
918590 TATTTTAATA
918600 AAAATTGTAAAAATTATTAT-AATTTTT
1 AAAATTGTAAAAATTATTATAAATTTTT
* * *
918627 AAAATTTTCAAAATTCTTATAAATTTTT
1 AAAATTGTAAAAATTATTATAAATTTTT
918655 CAATAATTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 17 0.71
28 7 0.29
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (28 bp):
AAAATTGTAAAAATTATTATAAATTTTT
Found at i:918641 original size:18 final size:19
Alignment explanation
Indices: 918618--918694 Score: 59
Period size: 20 Copynumber: 3.9 Consensus size: 19
918608 AAAAATTATT
918618 ATAATTTTTAAAATTTTCA
1 ATAATTTTTAAAATTTTCA
*
918637 A-AATTCTTATAAATTTTTCA
1 ATAATT-TT-TAAAATTTTCA
* *
918657 ATAATTATTACAA-TTTCTA
1 ATAATTTTTAAAATTTTC-A
*
918676 ATCATTATTTAACAATTTT
1 ATAATT-TTTAA-AATTTT
918695 AATGATACTC
Statistics
Matches: 44, Mismatches: 7, Indels: 11
0.71 0.11 0.18
Matches are distributed among these distances:
18 8 0.18
19 12 0.27
20 15 0.34
21 6 0.14
22 3 0.07
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (19 bp):
ATAATTTTTAAAATTTTCA
Found at i:923754 original size:21 final size:21
Alignment explanation
Indices: 923728--923768 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
923718 AGACGAGCGA
*
923728 TACTCCACAACAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
923749 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
923769 TTGAGCAGAT
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:0.32, C:0.22, G:0.27, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:935465 original size:18 final size:18
Alignment explanation
Indices: 935442--935476 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
935432 AAGATAACAG
*
935442 ATTGGGAAAGGAAGTTGA
1 ATTGGGAAAGAAAGTTGA
935460 ATTGGGAAAGAAAGTTG
1 ATTGGGAAAGAAAGTTG
935477 GAAGGCATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.37, T:0.23
Consensus pattern (18 bp):
ATTGGGAAAGAAAGTTGA
Found at i:938294 original size:14 final size:15
Alignment explanation
Indices: 938257--938297 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
938247 TTAATTCAAT
938257 ATTGAATTTTTTATA
1 ATTGAATTTTTTATA
*
938272 ATT-ATATTTTTTA-G
1 ATTGA-ATTTTTTATA
938286 ATTGAATTTTTT
1 ATTGAATTTTTT
938298 TCATCAACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.63
Consensus pattern (15 bp):
ATTGAATTTTTTATA
Found at i:939666 original size:45 final size:45
Alignment explanation
Indices: 939594--939680 Score: 156
Period size: 45 Copynumber: 1.9 Consensus size: 45
939584 CCCCGAGATC
*
939594 CTTTTAAGAGTAGCTTGATATGAAGCCTTTTAAGAGCAGGCTAGA
1 CTTTCAAGAGTAGCTTGATATGAAGCCTTTTAAGAGCAGGCTAGA
*
939639 CTTTCAAGAGTAGCTTGATATGGAGCCTTTTAAGAGCAGGCT
1 CTTTCAAGAGTAGCTTGATATGAAGCCTTTTAAGAGCAGGCT
939681 TTTGATATGG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (45 bp):
CTTTCAAGAGTAGCTTGATATGAAGCCTTTTAAGAGCAGGCTAGA
Found at i:939708 original size:55 final size:55
Alignment explanation
Indices: 939636--939775 Score: 217
Period size: 55 Copynumber: 2.5 Consensus size: 55
939626 AGAGCAGGCT
* * *
939636 AGACTTTCAAGAGTAGCTTGATATGGAGCCTTTTAAGAGCAGGCTTTTGATATGG
1 AGACTTTCAAGAGTAGCTTGATATGGAGCCTTTCAAGAGCAGGCTCTTGACATGG
* * *
939691 AGACTTTCAAGAGTAGCTTGATATGGAGCCTTTCAAGCGTATGCTCTTGACATGG
1 AGACTTTCAAGAGTAGCTTGATATGGAGCCTTTCAAGAGCAGGCTCTTGACATGG
*
939746 AAACTTTCAAGAGTAGCTTGATATGGAGCC
1 AGACTTTCAAGAGTAGCTTGATATGGAGCC
939776 AACTAATTGT
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 78 1.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.31
Consensus pattern (55 bp):
AGACTTTCAAGAGTAGCTTGATATGGAGCCTTTCAAGAGCAGGCTCTTGACATGG
Found at i:939718 original size:26 final size:26
Alignment explanation
Indices: 939636--939773 Score: 159
Period size: 26 Copynumber: 5.1 Consensus size: 26
939626 AGAGCAGGCT
939636 AGACTTTCAAGAGTAGCTTGATATGG
1 AGACTTTCAAGAGTAGCTTGATATGG
* * *
939662 AGCCTTTTAAGAGCAGGCTTTTGATATGG
1 AGACTTTCAAGAGTA-GC--TTGATATGG
939691 AGACTTTCAAGAGTAGCTTGATATGG
1 AGACTTTCAAGAGTAGCTTGATATGG
* * *
939717 AGCCTTTCAAGCGTATGCTCTTGACATGG
1 AGACTTTCAAGAGTA-G--CTTGATATGG
*
939746 AAACTTTCAAGAGTAGCTTGATATGG
1 AGACTTTCAAGAGTAGCTTGATATGG
939772 AG
1 AG
939774 CCAACTAATT
Statistics
Matches: 92, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
26 44 0.48
27 3 0.03
28 3 0.03
29 42 0.46
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.31
Consensus pattern (26 bp):
AGACTTTCAAGAGTAGCTTGATATGG
Found at i:939890 original size:29 final size:29
Alignment explanation
Indices: 939848--939906 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
939838 CGAACGAGGG
939848 TTTAAATGAAGGGTTCGGATTGGTTAGGA
1 TTTAAATGAAGGGTTCGGATTGGTTAGGA
*
939877 TTTAAATGAAGGGTTCGGATTGTTTAGGA
1 TTTAAATGAAGGGTTCGGATTGGTTAGGA
939906 T
1 T
939907 ACTTTTCATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.27, C:0.03, G:0.32, T:0.37
Consensus pattern (29 bp):
TTTAAATGAAGGGTTCGGATTGGTTAGGA
Found at i:942069 original size:18 final size:19
Alignment explanation
Indices: 942046--942095 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
942036 ATAATATTTT
942046 ATCATAAAACA-T-TAAAAA
1 ATCATAAAA-ATTATAAAAA
942064 ATCATAATAAATTATAAAAA
1 ATCATAA-AAATTATAAAAA
*
942084 ATCATTAAAATT
1 ATCATAAAAATT
942096 TATTTTTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 8 0.29
19 8 0.29
20 12 0.43
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.30
Consensus pattern (19 bp):
ATCATAAAAATTATAAAAA
Found at i:942144 original size:17 final size:16
Alignment explanation
Indices: 942122--942155 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
942112 AAAAAATAGC
942122 AAAAATATTAAATATTT
1 AAAAATATTAAA-ATTT
942139 AAAAATATTAAAATTT
1 AAAAATATTAAAATTT
942155 A
1 A
942156 TATAAACGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAAAATATTAAAATTT
Found at i:942235 original size:9 final size:9
Alignment explanation
Indices: 942175--942494 Score: 58
Period size: 9 Copynumber: 34.7 Consensus size: 9
942165 ATAATTTTTT
*
942175 TAAAAATAA
1 TAAAAATTA
*
942184 TAAAACTTA
1 TAAAAATTA
*
942193 TAAATATTA
1 TAAAAATTA
* *
942202 TCAAAA-CA
1 TAAAAATTA
942210 TAATAAATCTA
1 TAA-AAAT-TA
*
942221 -ATAAATTA
1 TAAAAATTA
942229 TAAAAA-TA
1 TAAAAATTA
***
942237 T-ATTTTTA
1 TAAAAATTA
942245 T-AAAATTAA
1 TAAAAATT-A
942254 TAAAATATT-
1 TAAAA-ATTA
*
942263 TAAAATTTTA
1 TAAAA-ATTA
*
942273 TAAAAACATA
1 TAAAAA-TTA
*
942283 TAGATATTATTA
1 TA-A-A-AATTA
* *
942295 AAAAAATCA
1 TAAAAATTA
942304 TAAAAA-TA
1 TAAAAATTA
*
942312 TTAAATATTA
1 -TAAAAATTA
942322 -AAAAA--A
1 TAAAAATTA
* *
942328 TAAAACTAA
1 TAAAAATTA
*
942337 TATAAACTTA
1 TA-AAAATTA
*
942347 TAAAAATTG
1 TAAAAATTA
*
942356 GAAAAATGTA
1 TAAAAAT-TA
942366 T-AAAATCT-
1 TAAAAAT-TA
942374 TAAAAACTTA
1 TAAAAA-TTA
*
942384 TAAATATTA
1 TAAAAATTA
*
942393 TAAAAACTA
1 TAAAAATTA
942402 TAAACAATCTAA
1 TAAA-AAT-T-A
* *
942414 TAAAACTAA
1 TAAAAATTA
942423 T-AAAATTA
1 TAAAAATTA
** *
942431 TTTAAATTTTG
1 --TAAAAATTA
942442 TAAAAAACTTA
1 T-AAAAA-TTA
* *
942453 CAAAAATTC
1 TAAAAATTA
942462 TAATAAATTA
1 TAA-AAATTA
*
942472 T-AAAACT-
1 TAAAAATTA
942479 TAAAAATTA
1 TAAAAATTA
942488 TTAAAAA
1 -TAAAAA
942495 ATCATTTAAA
Statistics
Matches: 219, Mismatches: 57, Indels: 69
0.63 0.17 0.20
Matches are distributed among these distances:
6 1 0.00
7 6 0.03
8 34 0.16
9 99 0.45
10 54 0.25
11 15 0.07
12 9 0.04
13 1 0.00
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.33
Consensus pattern (9 bp):
TAAAAATTA
Found at i:942385 original size:18 final size:18
Alignment explanation
Indices: 942364--942428 Score: 53
Period size: 19 Copynumber: 3.4 Consensus size: 18
942354 TGGAAAAATG
942364 TATAAAATCTTAAAAACT
1 TATAAAATCTTAAAAACT
942382 TATAAATAT-TATAAAAAC-
1 TATAAA-ATCT-TAAAAACT
*
942400 TATAAACAATCTAATAAAACT
1 TAT-AA-AATCTTA-AAAACT
*
942421 AATAAAAT
1 TATAAAAT
942429 TATTTAAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 13
0.72 0.04 0.25
Matches are distributed among these distances:
18 10 0.26
19 17 0.45
20 9 0.24
21 2 0.05
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.31
Consensus pattern (18 bp):
TATAAAATCTTAAAAACT
Found at i:943246 original size:34 final size:34
Alignment explanation
Indices: 943200--943275 Score: 127
Period size: 34 Copynumber: 2.2 Consensus size: 34
943190 AACAGTCAAA
943200 AGCAGTAT-GGGCCTAAGCCCATTTCAGTTTCAGT
1 AGCAGT-TCGGGCCTAAGCCCATTTCAGTTTCAGT
*
943234 AGCAGTTCGGGCCTTAGCCCATTTCAGTTTCAGT
1 AGCAGTTCGGGCCTAAGCCCATTTCAGTTTCAGT
943268 AGCAGTTC
1 AGCAGTTC
943276 ATATAGTCAT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
33 1 0.03
34 39 0.98
ACGTcount: A:0.21, C:0.25, G:0.24, T:0.30
Consensus pattern (34 bp):
AGCAGTTCGGGCCTAAGCCCATTTCAGTTTCAGT
Found at i:944205 original size:37 final size:38
Alignment explanation
Indices: 944162--944254 Score: 136
Period size: 37 Copynumber: 2.5 Consensus size: 38
944152 TATGCTCGTG
944162 TGGGGCCCATATGCTCGTGTGGGGCCCATATGATCA-T-
1 TGGGGCCCATATGCTCGTGTGGGGCCCATATGAT-AGTA
* *
944199 TGGGGCCTATATGCTCGTGTGGGGCCCATATGCTAGTA
1 TGGGGCCCATATGCTCGTGTGGGGCCCATATGATAGTA
*
944237 TAGGGCCCATATGCTCGT
1 TGGGGCCCATATGCTCGT
944255 ATGGCCCACT
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
36 1 0.02
37 33 0.66
38 16 0.32
ACGTcount: A:0.16, C:0.24, G:0.32, T:0.28
Consensus pattern (38 bp):
TGGGGCCCATATGCTCGTGTGGGGCCCATATGATAGTA
Found at i:944256 original size:19 final size:19
Alignment explanation
Indices: 944149--944254 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
944139 CGCGTAGAGG
944149 CCATATGCTCGTGTGGGGC
1 CCATATGCTCGTGTGGGGC
944168 CCATATGCTCGTGTGGGGC
1 CCATATGCTCGTGTGGGGC
* *
944187 CCATATGATCAT-TGGGGC
1 CCATATGCTCGTGTGGGGC
*
944205 CTATATGCTCGTGTGGGGC
1 CCATATGCTCGTGTGGGGC
* * *
944224 CCATATGCTAGTATAGGGC
1 CCATATGCTCGTGTGGGGC
944243 CCATATGCTCGT
1 CCATATGCTCGT
944255 ATGGCCCACT
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
18 15 0.20
19 61 0.80
ACGTcount: A:0.16, C:0.25, G:0.31, T:0.28
Consensus pattern (19 bp):
CCATATGCTCGTGTGGGGC
Found at i:945610 original size:6 final size:7
Alignment explanation
Indices: 945576--945615 Score: 71
Period size: 7 Copynumber: 5.7 Consensus size: 7
945566 ATAAGTTTTT
945576 ATTTTAA
1 ATTTTAA
945583 ATTTTAA
1 ATTTTAA
945590 ATTTTAA
1 ATTTTAA
945597 ATTTTAA
1 ATTTTAA
*
945604 ATTTAAA
1 ATTTTAA
945611 ATTTT
1 ATTTT
945616 TTATGTCCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
ATTTTAA
Found at i:946095 original size:20 final size:21
Alignment explanation
Indices: 946057--946096 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
946047 TGATGCATTA
*
946057 TTTAAATATATATGCTTAAATT
1 TTTAAATATACAT-CTTAAATT
946079 TTTAAATATACAT-TTAAA
1 TTTAAATATACATCTTAAA
946097 CCACAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
22 12 0.71
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (21 bp):
TTTAAATATACATCTTAAATT
Found at i:946137 original size:30 final size:31
Alignment explanation
Indices: 946072--946140 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
946062 ATATATATGC
* *
946072 TTAAATTTTTAAATATACATTTAAACCACAA
1 TTAAAGTTTTAAATATACAATTAAACCACAA
* * *
946103 TTAAAGTTTTATATATACAATTACACTA-AA
1 TTAAAGTTTTAAATATACAATTAAACCACAA
946133 TTAAAGTT
1 TTAAAGTT
946141 CATTTATATA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
30 10 0.30
31 23 0.70
ACGTcount: A:0.46, C:0.10, G:0.03, T:0.41
Consensus pattern (31 bp):
TTAAAGTTTTAAATATACAATTAAACCACAA
Found at i:954975 original size:5 final size:5
Alignment explanation
Indices: 954955--954997 Score: 52
Period size: 5 Copynumber: 8.6 Consensus size: 5
954945 TTATGTGTTC
* *
954955 TTTAT TTT-T ATTTAT TTTAT TCTAT TTTAT TCTAT TTTAT TTT
1 TTTAT TTTAT -TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
954998 TCACACGAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
4 1 0.03
5 30 0.94
6 1 0.03
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:956302 original size:5 final size:5
Alignment explanation
Indices: 956292--956321 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
956282 AACCAAAACT
956292 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA
956322 ATGAGGCCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTTAA
Found at i:958752 original size:33 final size:32
Alignment explanation
Indices: 958715--958824 Score: 78
Period size: 33 Copynumber: 3.2 Consensus size: 32
958705 GGGAAACATT
958715 TATTTTAATATTTTTAGTGTATATGATGTATTA
1 TATTTTAATATTTTTAGTGTAT-TGATGTATTA
* * * **
958748 TATTTTTAAATTTATTTTTAATTTGTTGAAAAATATT-
1 TA-TTTT-AA--TATTTTTAGTGTATTG--ATGTATTA
*
958785 TATTTTAATATTTTTAAGTGAATTTGATGTATTA
1 TATTTTAATATTTTT-AGTGTA-TTGATGTATTA
958819 TATTTT
1 TATTTT
958825 TAACTTATTT
Statistics
Matches: 57, Mismatches: 11, Indels: 17
0.67 0.13 0.20
Matches are distributed among these distances:
33 14 0.25
34 12 0.21
35 7 0.12
36 6 0.11
37 13 0.23
38 5 0.09
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.59
Consensus pattern (32 bp):
TATTTTAATATTTTTAGTGTATTGATGTATTA
Found at i:958761 original size:70 final size:71
Alignment explanation
Indices: 958679--958837 Score: 223
Period size: 70 Copynumber: 2.3 Consensus size: 71
958669 TTATAAAATT
** *
958679 TTTTTAAAATTTATTTTTAATCCGTTGGGAAACATTTATTTTAATATTTTT-AGTGTATATGATG
1 TTTTT-AAATTTATTTTTAATCCGTTGAAAAACATTTATTTTAATATTTTTAAGTGAATATGATG
958743 TATTATA
65 TATTATA
** * *
958750 TTTTTAAATTTATTTTTAATTTGTTGAAAAATATTTATTTTAATATTTTTAAGTGAATTTGATGT
1 TTTTTAAATTTATTTTTAATCCGTTGAAAAACATTTATTTTAATATTTTTAAGTGAATATGATGT
958815 ATTATA
66 ATTATA
*
958821 TTTTT-AACTTATTTTTA
1 TTTTTAAATTTATTTTTA
958838 TATAAAAAAT
Statistics
Matches: 79, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
70 51 0.65
71 28 0.35
ACGTcount: A:0.31, C:0.03, G:0.09, T:0.57
Consensus pattern (71 bp):
TTTTTAAATTTATTTTTAATCCGTTGAAAAACATTTATTTTAATATTTTTAAGTGAATATGATGT
ATTATA
Found at i:960670 original size:79 final size:79
Alignment explanation
Indices: 960531--960677 Score: 219
Period size: 79 Copynumber: 1.9 Consensus size: 79
960521 GATACATTTA
*
960531 TGTGTTCTATCATATAGCCTATACCATCCATGCTCTCAAATGCTAGTTAGACCGAGTGATGTTCA
1 TGTGTTCTATCAGATAGCCTATACCATCCATGCTCTCAAATGCTAGTTAGACCGAGTGATGTTCA
960596 ATGTAGTGTATGTG
66 ATGTAGTGTATGTG
* *
960610 TGTGTTCTCTCAGATA-CCTTATACCATCCATGTTCTCAAATGCTAGTTA-AGCC-AGCTGATGT
1 TGTGTTCTATCAGATAGCC-TATACCATCCATGCTCTCAAATGCTAGTTAGA-CCGAG-TGATGT
960672 TCAATG
63 TCAATG
960678 CAGTATGTAT
Statistics
Matches: 62, Mismatches: 3, Indels: 6
0.87 0.04 0.08
Matches are distributed among these distances:
78 5 0.08
79 57 0.92
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.35
Consensus pattern (79 bp):
TGTGTTCTATCAGATAGCCTATACCATCCATGCTCTCAAATGCTAGTTAGACCGAGTGATGTTCA
ATGTAGTGTATGTG
Found at i:963497 original size:6 final size:6
Alignment explanation
Indices: 963486--963514 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
963476 GAAGTTTGAA
963486 GATTTT GATTTT GATTTT GATTTT GATTT
1 GATTTT GATTTT GATTTT GATTTT GATTT
963515 CATTTACAAC
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:0.17, C:0.00, G:0.17, T:0.66
Consensus pattern (6 bp):
GATTTT
Found at i:964756 original size:15 final size:15
Alignment explanation
Indices: 964736--964775 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
964726 TATATACACA
964736 AAACAAGTGTTAAAG
1 AAACAAGTGTTAAAG
*
964751 AAACAAGTATTAAAG
1 AAACAAGTGTTAAAG
*
964766 AAACTAGTGT
1 AAACAAGTGT
964776 CAGATTTTTA
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:0.53, C:0.07, G:0.17, T:0.23
Consensus pattern (15 bp):
AAACAAGTGTTAAAG
Found at i:967466 original size:40 final size:40
Alignment explanation
Indices: 967411--967490 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
967401 ATTCGGGTTT
967411 AGGTAAGACTTGAGTGATGGTCCTCGGATGTTTAATTTCA
1 AGGTAAGACTTGAGTGATGGTCCTCGGATGTTTAATTTCA
967451 AGGTAAGACTTGAGTGATGGTCCTCGGATGTTTAATTTCA
1 AGGTAAGACTTGAGTGATGGTCCTCGGATGTTTAATTTCA
967491 GCTTGAATTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.25, C:0.12, G:0.28, T:0.35
Consensus pattern (40 bp):
AGGTAAGACTTGAGTGATGGTCCTCGGATGTTTAATTTCA
Found at i:968891 original size:6 final size:6
Alignment explanation
Indices: 968876--969126 Score: 306
Period size: 6 Copynumber: 41.8 Consensus size: 6
968866 AACAAATTTT
* *
968876 CTTGAA CTTGAT CTTGAA CTTGAA CTTGAA CTTGAT CTTGAA CTTGAA
1 CTTGAA CTTGAA CTTGAA CTTGAA CTTGAA CTTGAA CTTGAA CTTGAA
* * *
968924 CTTGAT CTTGAA CTTGAA CTTGAT CTTGAA CTTGAA CTTGAA CTTGAT
1 CTTGAA CTTGAA CTTGAA CTTGAA CTTGAA CTTGAA CTTGAA CTTGAA
* * ** * *
968972 CTTGAT CTTGAT CTTGAA CTTGATA -TTCTA CTTGAT CTTGAA CTTGAT
1 CTTGAA CTTGAA CTTGAA CTTGA-A CTTGAA CTTGAA CTTGAA CTTGAA
* * * * *
969020 CTTGAT CTTGAA CTTGAT CTTGAT CTTCAA CTTGAT CTTGAA CTTGAA
1 CTTGAA CTTGAA CTTGAA CTTGAA CTTGAA CTTGAA CTTGAA CTTGAA
* * * *
969068 CTTGAA CTTGAA CTTGAA CTTGAT CTTGAT CTTCAA CTTGAT CTTGAA
1 CTTGAA CTTGAA CTTGAA CTTGAA CTTGAA CTTGAA CTTGAA CTTGAA
969116 CTTGAA CTTGA
1 CTTGAA CTTGA
969127 GGAAGAAGCC
Statistics
Matches: 213, Mismatches: 30, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
5 1 0.00
6 211 0.99
7 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.41
Consensus pattern (6 bp):
CTTGAA
Found at i:968899 original size:18 final size:18
Alignment explanation
Indices: 968875--969126 Score: 355
Period size: 18 Copynumber: 14.0 Consensus size: 18
968865 GAACAAATTT
*
968875 TCTTGAACTTGATCTTGA
1 TCTTGAACTTGAACTTGA
*
968893 ACTTGAACTTGAACTTGA
1 TCTTGAACTTGAACTTGA
968911 TCTTGAACTTGAACTTGA
1 TCTTGAACTTGAACTTGA
968929 TCTTGAACTTGAACTTGA
1 TCTTGAACTTGAACTTGA
968947 TCTTGAACTTGAACTTGA
1 TCTTGAACTTGAACTTGA
* * *
968965 ACTTGATCTTGATCTTGA
1 TCTTGAACTTGAACTTGA
*
968983 TCTTGAACTTGATA-TT-C
1 TCTTGAACTTGA-ACTTGA
*
969000 TACTTGATCTTGAACTTGA
1 T-CTTGAACTTGAACTTGA
*
969019 TCTTGATCTTGAACTTGA
1 TCTTGAACTTGAACTTGA
* *
969037 TCTTGATCTTCAACTTGA
1 TCTTGAACTTGAACTTGA
969055 TCTTGAACTTGAACTTGA
1 TCTTGAACTTGAACTTGA
*
969073 ACTTGAACTTGAACTTGA
1 TCTTGAACTTGAACTTGA
* *
969091 TCTTGATCTTCAACTTGA
1 TCTTGAACTTGAACTTGA
969109 TCTTGAACTTGAACTTGA
1 TCTTGAACTTGAACTTGA
969127 GGAAGAAGCC
Statistics
Matches: 209, Mismatches: 21, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
17 2 0.01
18 206 0.99
19 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.41
Consensus pattern (18 bp):
TCTTGAACTTGAACTTGA
Found at i:972132 original size:15 final size:13
Alignment explanation
Indices: 972103--972141 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
972093 GGCTCGACCG
972103 TATTATTTTTTTA
1 TATTATTTTTTTA
*
972116 TATTACTTTTTTA
1 TATTATTTTTTTA
*
972129 TATAATTTTTTTA
1 TATTATTTTTTTA
972142 AAAAATATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (13 bp):
TATTATTTTTTTA
Found at i:973247 original size:30 final size:30
Alignment explanation
Indices: 973181--973253 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 30
973171 TTTGAATCAG
*
973181 GACTAAAATTTTAAAATTAAAAAAGTACAGA
1 GACTAAAA-TTTAAAATTAAAAAAATACAGA
*
973212 GACTAAAATTTACAATTCAAAAAATATACA-A
1 GACTAAAATTTAAAATT-AAAAAA-ATACAGA
973243 -ACT-AAATTTAA
1 GACTAAAATTTAA
973254 TCAAATTAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
29 7 0.19
30 11 0.30
31 15 0.41
32 4 0.11
ACGTcount: A:0.58, C:0.10, G:0.05, T:0.27
Consensus pattern (30 bp):
GACTAAAATTTAAAATTAAAAAAATACAGA
Found at i:973664 original size:18 final size:17
Alignment explanation
Indices: 973643--973702 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
973633 TAATATTTTA
973643 TTATAAAATAATTAAAAT
1 TTATAAAA-AATTAAAAT
* ** *
973661 TTATAAGAAAGGAAAAA
1 TTATAAAAAATTAAAAT
*
973678 TTATAAAAATATCAAAAT
1 TTATAAAAA-ATTAAAAT
973696 TTA-AAAA
1 TTATAAAA
973703 TATTTAAAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
17 18 0.55
18 15 0.45
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (17 bp):
TTATAAAAAATTAAAAT
Found at i:973687 original size:9 final size:9
Alignment explanation
Indices: 973673--973786 Score: 81
Period size: 9 Copynumber: 12.4 Consensus size: 9
973663 ATAAGAAAGG
973673 AAAAATTAT
1 AAAAATTAT
973682 AAAAA-TAT
1 AAAAATTAT
*
973690 CAAAATT-T
1 AAAAATTAT
*
973698 AAAAATATTT
1 AAAAAT-TAT
*
973708 AAAAAATAT
1 AAAAATTAT
*
973717 TAAAATTGAT
1 AAAAATT-AT
* *
973727 ATATACTTAT
1 A-AAAATTAT
973737 AAAAATTAT
1 AAAAATTAT
973746 AAAAATATAAT
1 AAAAAT-T-AT
*
973757 AAAACTTAT
1 AAAAATTAT
* *
973766 AAATATAAT
1 AAAAATTAT
973775 AAAAA-TAT
1 AAAAATTAT
973783 AAAA
1 AAAA
973787 TATAATTTTT
Statistics
Matches: 81, Mismatches: 17, Indels: 15
0.72 0.15 0.13
Matches are distributed among these distances:
8 19 0.23
9 38 0.47
10 13 0.16
11 11 0.14
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:973694 original size:8 final size:8
Alignment explanation
Indices: 973673--973791 Score: 51
Period size: 8 Copynumber: 13.2 Consensus size: 8
973663 ATAAGAAAGG
973673 AAAAATTAT
1 AAAAA-TAT
973682 AAAAATAT
1 AAAAATAT
* *
973690 CAAAATTT
1 AAAAATAT
973698 AAAAATATTT
1 AAAAATA--T
973708 AAAAAATATT
1 -AAAAATA-T
973718 AAAATTGATAT
1 AAAA---ATAT
* **
973729 ATACTTAT
1 AAAAATAT
973737 AAAAATTAT
1 AAAAA-TAT
973746 AAAAATAT
1 AAAAATAT
973754 AATAAAACTTAT
1 -A-AAAA--TAT
*
973766 AAATATAAT
1 AAAAAT-AT
973775 AAAAATAT
1 AAAAATAT
973783 -AAAATAT
1 AAAAATAT
973790 AA
1 AA
973792 TTTTTTTTAA
Statistics
Matches: 85, Mismatches: 12, Indels: 27
0.69 0.10 0.22
Matches are distributed among these distances:
7 7 0.08
8 26 0.31
9 25 0.29
10 10 0.12
11 11 0.13
12 6 0.07
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.33
Consensus pattern (8 bp):
AAAAATAT
Found at i:973702 original size:16 final size:17
Alignment explanation
Indices: 973674--973705 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
973664 TAAGAAAGGA
973674 AAAATTATAAAAATATC
1 AAAATTATAAAAATATC
973691 AAAATT-TAAAAATAT
1 AAAATTATAAAAATAT
973706 TTAAAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAATTATAAAAATATC
Found at i:973750 original size:29 final size:27
Alignment explanation
Indices: 973678--973788 Score: 91
Period size: 29 Copynumber: 4.0 Consensus size: 27
973668 AAAGGAAAAA
* * *
973678 TTATAAAAATATCAAAATTTAAAAATAT
1 TTATAAAAATAT-AAAAATTAATAATAC
* *
973706 TTA-AAAAATATTAAAATTGATATATAC
1 TTATAAAAATATAAAAATTAATA-ATAC
*
973733 TTATAAAAATTATAAAAATATAATAAAAC
1 TTATAAAAA-TATAAAAAT-TAATAATAC
*
973762 TTATAAATATAATAAAAATATAA-AATA
1 TTATAAAAAT-ATAAAAAT-TAATAATA
973789 TAATTTTTTT
Statistics
Matches: 68, Mismatches: 10, Indels: 10
0.77 0.11 0.11
Matches are distributed among these distances:
26 7 0.10
27 14 0.21
28 12 0.18
29 31 0.46
30 4 0.06
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (27 bp):
TTATAAAAATATAAAAATTAATAATAC
Found at i:973752 original size:37 final size:36
Alignment explanation
Indices: 973709--973790 Score: 89
Period size: 37 Copynumber: 2.2 Consensus size: 36
973699 AAAATATTTA
* *
973709 AAAAATAT-TAAAA-TTGATATATACTTATAAAAATTAT
1 AAAAATATATAAAACTT-ATAAATA-TAATAAAAA-TAT
973746 AAAAATATAATAAAACTTATAAATATAATAAAAATAT
1 AAAAATAT-ATAAAACTTATAAATATAATAAAAATAT
973783 -AAAATATA
1 AAAAATATA
973791 ATTTTTTTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
35 1 0.03
36 7 0.17
37 11 0.28
38 8 0.20
39 11 0.28
40 2 0.05
ACGTcount: A:0.63, C:0.02, G:0.01, T:0.33
Consensus pattern (36 bp):
AAAAATATATAAAACTTATAAATATAATAAAAATAT
Found at i:973771 original size:18 final size:18
Alignment explanation
Indices: 973735--973792 Score: 73
Period size: 18 Copynumber: 3.1 Consensus size: 18
973725 ATATATACTT
973735 ATAAAAATTATAAAAATATA
1 ATAAAAA-TAT-AAAATATA
*
973755 ATAAAACT-TATAAATATA
1 ATAAAAATATA-AAATATA
973773 ATAAAAATATAAAATATA
1 ATAAAAATATAAAATATA
973791 AT
1 AT
973793 TTTTTTTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
17 1 0.03
18 24 0.71
19 3 0.09
20 6 0.18
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (18 bp):
ATAAAAATATAAAATATA
Found at i:974717 original size:3 final size:3
Alignment explanation
Indices: 974709--975226 Score: 230
Period size: 3 Copynumber: 173.0 Consensus size: 3
974699 AGGATGAAAC
* * * * *
974709 AAT AAT AAT -AG AAT AA- AAT AAA AAT AAC AAT ACATT AAT AAG AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-A-T AAT AAT AAT
* *
974754 AAT AAT -AT ATT AAT -AT AAAT AGT AAT -AT AA- AGAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT A-AT AAT AAT AAT
* * * *
974797 AAT AAT AAT AAT AAT AAT AAT AAT -TT AAT AAT AAT GAT GAT -GT AAGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
*
974844 AA- AAT -AT AAGT AAAT GCAA- AAGG AA- ACAT -AT AAT GAAGT AAT AAT
1 AAT AAT AAT AA-T -AAT --AAT AA-T AAT A-AT AAT AAT -AA-T AAT AAT
* * ** * * * *
974889 -AT AA- AATT AAT TAG CCT AAT AAT -AT GAT AAT AAT ATT AGT AAC
1 AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
974932 AAT -AC AAT AAT AGT AAT AA- AGT AGA- AA- AGAT AAT AAT AAT -GT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT A-AT AAT AAT AAT AAT
* * * *
974974 ATT AAT AAG AAT AAT AAT -AT ATT AAT AAT AAT AAT CAT GGAA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT --AAT AAT
* ** *
975019 AAT AAT AAT ACT AAT -AT TTT AAAT AA- GAT AAT AAT AAT AGAT AGA-
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT A-AT A-AT
* * * * *
975064 AAGT AGT AGT AAT AAT ACGTT AAT AA- AAGT AAT AGT AAT AAT AAT AAC
1 AA-T AAT AAT AAT AAT A--AT AAT AAT AA-T AAT AAT AAT AAT AAT AAT
975112 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
975160 AAT AAT AGT AGAT -AT AAT AAT AAT ACT AAT AAT AAT AA- ATAT AAT
1 AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT
975205 AAT AAAT AAT AAT AAT AAT AAT
1 AAT -AAT AAT AAT AAT AAT AAT
975227 TAAATTGAAA
Statistics
Matches: 394, Mismatches: 67, Indels: 108
0.69 0.12 0.19
Matches are distributed among these distances:
2 45 0.11
3 306 0.78
4 33 0.08
5 10 0.03
ACGTcount: A:0.59, C:0.03, G:0.07, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:975839 original size:2 final size:2
Alignment explanation
Indices: 975826--975856 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
975816 ATCTTCTTGC
*
975826 TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
975857 GTATTATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:976466 original size:34 final size:36
Alignment explanation
Indices: 976428--976548 Score: 113
Period size: 34 Copynumber: 3.4 Consensus size: 36
976418 AAATTGATAT
* * *
976428 AAACTTATAAAAATTGTAAAAGAA-AAAATA-ATAA
1 AAACTTATAAAAATTATAAAACAATAAAAAATATAA
*
976462 AAACTTATAAATATTATAAAACAATAAAAAATATAA
1 AAACTTATAAAAATTATAAAACAATAAAAAATATAA
* * ** *
976498 AAAATTAT-AAAATTAATAAAATCATTTAAAATTTATGA
1 AAACTTATAAAAATT-ATAAAA-CA-ATAAAAAATATAA
976536 AAACTTATAAAAA
1 AAACTTATAAAAA
976549 AATATAATAA
Statistics
Matches: 70, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
34 21 0.30
35 10 0.14
36 17 0.24
37 2 0.03
38 16 0.23
39 4 0.06
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.29
Consensus pattern (36 bp):
AAACTTATAAAAATTATAAAACAATAAAAAATATAA
Found at i:976471 original size:10 final size:9
Alignment explanation
Indices: 976388--976588 Score: 86
Period size: 10 Copynumber: 22.3 Consensus size: 9
976378 AATTTGGGCT
*
976388 TTATAAATA
1 TTATAAAAA
*
976397 TTATTAAATA
1 TTA-TAAAAA
976407 TTA-AAAAA
1 TTATAAAAA
976415 -T-T-AAAA
1 TTATAAAAA
*
976421 TTGATATAAAC
1 TT-ATA-AAAA
976432 TTATAAAAA
1 TTATAAAAA
*
976441 TTGT-AAAA
1 TTATAAAAA
*
976449 -GA-AAAAA
1 TTATAAAAA
*
976456 TAATAAAAA
1 TTATAAAAA
*
976465 CTTATAAATA
1 -TTATAAAAA
976475 TTATAAAACA
1 TTATAAAA-A
976485 --ATAAAAA
1 TTATAAAAA
*
976492 ATATAAAAAA
1 TTAT-AAAAA
976502 TTAT-AAAA
1 TTATAAAAA
976510 TTAATAAAATCA
1 TT-ATAAAA--A
*
976522 TT-TAAAAT
1 TTATAAAAA
*
976530 TTATGAAAAC
1 TTAT-AAAAA
976540 TTATAAAAAA
1 TTAT-AAAAA
*
976550 ATATAATAAA
1 TTATAA-AAA
*
976560 TTCTAATAAA
1 TTATAA-AAA
976570 TTATAAAAA
1 TTATAAAAA
976579 -TA-AAAAA
1 TTATAAAAA
976586 TTA
1 TTA
976589 ATTTAAACCC
Statistics
Matches: 150, Mismatches: 19, Indels: 47
0.69 0.09 0.22
Matches are distributed among these distances:
6 4 0.03
7 12 0.08
8 27 0.18
9 32 0.21
10 67 0.45
11 5 0.03
12 3 0.02
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (9 bp):
TTATAAAAA
Found at i:976482 original size:19 final size:18
Alignment explanation
Indices: 976452--976547 Score: 72
Period size: 19 Copynumber: 5.2 Consensus size: 18
976442 TGTAAAAGAA
*
976452 AAAATAATAAAAACTTAT
1 AAAATTATAAAAACTTAT
*
976470 AAATATTAT-AAAAC-AAT
1 AAA-ATTATAAAAACTTAT
* *
976487 AAAAAATATAAAAAATTAT
1 -AAAATTATAAAAACTTAT
*
976506 AAAATTAATAAAATCATT-T
1 AAAATT-ATAAAAAC-TTAT
*
976525 AAAATTTATGAAAACTTAT
1 AAAA-TTATAAAAACTTAT
976544 AAAA
1 AAAA
976548 AAATATAATA
Statistics
Matches: 60, Mismatches: 10, Indels: 15
0.71 0.12 0.18
Matches are distributed among these distances:
17 6 0.10
18 22 0.37
19 28 0.47
20 4 0.07
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.30
Consensus pattern (18 bp):
AAAATTATAAAAACTTAT
Done.