Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 9 of 182
Found at i:2775437 original size:6 final size:6
Alignment explanation
Indices: 2775428--2775453 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
2775418 ATTATTGTTA
2775428 TTATTT TTATTT TTATTT TTATTT TT
1 TTATTT TTATTT TTATTT TTATTT TT
2775454 CCCAAAATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTATTT
Found at i:2780607 original size:31 final size:32
Alignment explanation
Indices: 2780571--2780633 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
2780561 ACTTAGATAA
2780571 TTTTAAAGAG-TTTTATTAGGATTCAATTACT
1 TTTTAAAGAGTTTTTATTAGGATTCAATTACT
2780602 TTTTAAAGAGTTTTTATTAGGATTCAATTACT
1 TTTTAAAGAGTTTTTATTAGGATTCAATTACT
2780634 ATTGTAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 10 0.32
32 21 0.68
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.49
Consensus pattern (32 bp):
TTTTAAAGAGTTTTTATTAGGATTCAATTACT
Found at i:2788612 original size:50 final size:50
Alignment explanation
Indices: 2788488--2788831 Score: 384
Period size: 50 Copynumber: 6.9 Consensus size: 50
2788478 GAATATAACA
* * * ** * * * *
2788488 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTCTTGTA-C
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
* * * * * ** *
2788537 TGCCAATGTCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
* * ** *
2788587 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
* * *
2788637 TGCTAACGCCATGTCCCAGACATGGTATTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
* * *
2788687 TGCCAACACCATGTCCCAGACATGGTCTTACATAGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
* * * *
2788737 TGCCAACGCCATGTCCCAAATATGGTCTTACATGGGACCTCTCATCTTGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
*
2788787 TGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCAT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
2788832 AATGTCAATG
Statistics
Matches: 250, Mismatches: 44, Indels: 1
0.85 0.15 0.00
Matches are distributed among these distances:
49 36 0.14
50 214 0.86
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
Found at i:2788870 original size:56 final size:50
Alignment explanation
Indices: 2788487--2788884 Score: 333
Period size: 50 Copynumber: 7.9 Consensus size: 50
2788477 TGAATATAAC
* * * ** * *
2788487 ATGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTC-TTGT-
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATTCTG
* * * * * ** *
2788535 ACTGCCAATGTCATATCCCAGATATGGTCTTACATGAGAGTTCTCATAT-AG
1 A-TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-TCTG
* * * **
2788586 GTGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCA-TCTTG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATTC-TG
* * *
2788636 GTGCTAACGCCATGTCCCAGACATGGTATTACATGGGACCTCTCA-TCTCG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATTCT-G
* * *
2788686 GTGCCAACACCATGTCCCAGACATGGTCTTACATAGGACCTCTCA-TCTCG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATTCT-G
* * *
2788736 GTGCCAACGCCATGTCCCAAATATGGTCTTACATGGGACCTCTCA-TCTTG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATTC-TG
*
2788786 ATGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATAATGTCAATG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---AT-TC--TG
* * * *
2788842 ATGCCAATGACATGTCCCTGACATGGTCTTACATGGGATCTCT
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
2788885 TTACCCAAAT
Statistics
Matches: 290, Mismatches: 46, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
48 2 0.01
49 34 0.12
50 209 0.72
51 2 0.01
53 1 0.00
55 2 0.01
56 40 0.14
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATTCTG
Found at i:2790297 original size:27 final size:27
Alignment explanation
Indices: 2790254--2790560 Score: 391
Period size: 27 Copynumber: 11.4 Consensus size: 27
2790244 CCTCAAACTA
* *
2790254 GGTAAAATGACCGAAATACCCCTATAG
1 GGTAGAATGACCGAAATACCCCCATAG
* * * * *
2790281 GATAAAATAACCAAAATACCCTCATAG
1 GGTAGAATGACCGAAATACCCCCATAG
* *
2790308 GGTAAAATGACCGAAATACCCCCATAA
1 GGTAGAATGACCGAAATACCCCCATAG
* * * *
2790335 GTTAAAATAACCAAAATA-CCCCATAG
1 GGTAGAATGACCGAAATACCCCCATAG
*
2790361 GGTAGAATGATCGAAATACCCCCATAG
1 GGTAGAATGACCGAAATACCCCCATAG
* *
2790388 GGTAGAATGACCGAAATACTCCAATAG
1 GGTAGAATGACCGAAATACCCCCATAG
* *
2790415 GGTAGAATGATCGAAATACACCCATAG
1 GGTAGAATGACCGAAATACCCCCATAG
2790442 GGTAGAATGACCGAAATACCCCCATAG
1 GGTAGAATGACCGAAATACCCCCATAG
*
2790469 GGTAGAATGACTGAAATACCCCCATAG
1 GGTAGAATGACCGAAATACCCCCATAG
* *
2790496 GGTAGAATGATCAAAATACCCCCATAG
1 GGTAGAATGACCGAAATACCCCCATAG
* *
2790523 GGTAGAATGATCGAAATACCCCGATAG
1 GGTAGAATGACCGAAATACCCCCATAG
*
2790550 GGTAAAATGAC
1 GGTAGAATGAC
2790561 TGTTATACCC
Statistics
Matches: 244, Mismatches: 35, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
26 20 0.08
27 224 0.92
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.18
Consensus pattern (27 bp):
GGTAGAATGACCGAAATACCCCCATAG
Found at i:2795171 original size:21 final size:19
Alignment explanation
Indices: 2795147--2795198 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 19
2795137 CATTAATATT
2795147 TTTTTATAATTGTTGTTATCA
1 TTTTTA-AATTGTT-TTATCA
2795168 TTTTTCAAAGTTGTTTTATCA
1 TTTTT-AAA-TTGTTTTATCA
*
2795189 TATTTAAATT
1 TTTTTAAATT
2795199 TGTCTTCAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
19 2 0.07
20 3 0.11
21 17 0.61
22 6 0.21
ACGTcount: A:0.27, C:0.06, G:0.08, T:0.60
Consensus pattern (19 bp):
TTTTTAAATTGTTTTATCA
Found at i:2800011 original size:21 final size:21
Alignment explanation
Indices: 2799987--2800026 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2799977 AGAATTGCCA
* *
2799987 AAATAGTTTGAGGAGAAATGG
1 AAATAGATTGAAGAGAAATGG
*
2800008 AAATGGATTGAAGAGAAAT
1 AAATAGATTGAAGAGAAAT
2800027 TTAGGGCAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.30, T:0.23
Consensus pattern (21 bp):
AAATAGATTGAAGAGAAATGG
Found at i:2808308 original size:218 final size:219
Alignment explanation
Indices: 2807918--2808428 Score: 658
Period size: 218 Copynumber: 2.3 Consensus size: 219
2807908 TAATGAAATT
* *
2807918 ACAGATCGTATCTCCCTAAGCAGTAGT-AGAGTAGATTGAAGCCAGTAATCCTATCTCCTTGAAG
1 ACAGATCTTATCTCCCTAAGCAGTAGTGA-AGCAGATTGAAGCCAGTAATCCTATCTCCTTGAAG
* *
2807982 TTGAAGTGGAGCAGATTAAAATAAAAGATCTTTTCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
65 TTGCAGTGGAGCAGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
* * * * *
2808047 TAGGTCTTATCTCCCTGAAGTTGAAATGGAGTAGACTGAAGAATTAC-AAATCTTATCTTCCTAA
130 CAAGTCTTATCTCCCTGAAGTTGAAACGGAGGAGACCGAAGAATTACGAAA-CTTATCTTCCTAA
*
2808111 GC-AGTAGT-GGAGCAGATCGAAGAT-G
194 -CTAATAGTAGG-GCAGATCGAAGATGG
* *
2808136 ACAGATCTTATCTCCCTGAGCAGTAGTGAAGCAGATTGAAGCCAATAATCCTATCTCCTTGAAGT
1 ACAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGATTGAAGCCAGTAATCCTATCTCCTTGAAGT
* * * * * *
2808201 TGCATTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGTTTGTATC
66 TGCAGTGGAGCAGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATC
* * * *
2808266 AAGTCTTATCTCCCTGAAGTTGCAGCGGAGGAGGCCGAAGAATTACGGAACTTATCTTCCTAACT
131 AAGTCTTATCTCCCTGAAGTTGAAACGGAGGAGACCGAAGAATTACGAAACTTATCTTCCTAACT
* *
2808331 AATAGTAGGGCATATCGAGGATGG
196 AATAGTAGGGCAGATCGAAGATGG
* * * * * *
2808355 A-AGATCTTATCTCTCTAAGTAGTAGTGGAGCAGATTGAAGCCGGTAATCTTATCTCCCTT-AGG
1 ACAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGATTGAAGCCAGTAATCCTATCT-CCTTGAAG
2808418 TTGCAGTGGAG
65 TTGCAGTGGAG
2808429 TAGGTTGAAG
Statistics
Matches: 254, Mismatches: 33, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
217 1 0.00
218 242 0.95
219 11 0.04
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (219 bp):
ACAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGATTGAAGCCAGTAATCCTATCTCCTTGAAGT
TGCAGTGGAGCAGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATC
AAGTCTTATCTCCCTGAAGTTGAAACGGAGGAGACCGAAGAATTACGAAACTTATCTTCCTAACT
AATAGTAGGGCAGATCGAAGATGG
Found at i:2809472 original size:17 final size:17
Alignment explanation
Indices: 2809439--2809472 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
2809429 TTCTTTTGGG
2809439 AAATTCAAAAATAAAAT
1 AAATTCAAAAATAAAAT
2809456 AAATT-AAAAATACAAAT
1 AAATTCAAAAATA-AAAT
2809473 CTTATCTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.24
Consensus pattern (17 bp):
AAATTCAAAAATAAAAT
Found at i:2811922 original size:125 final size:125
Alignment explanation
Indices: 2811700--2811950 Score: 457
Period size: 125 Copynumber: 2.0 Consensus size: 125
2811690 TGTATTTTGT
*
2811700 GTTAATGCCATTGCATGCTAAATATGAAGCTTGTTAATGATGGATGTGATGGTGGATTGATGATT
1 GTTAATGCCATTGCATGCTAAATATGAAGCTTGTTAATGATGCATGTGATGGTGGATTGATGATT
* *
2811765 CTTGAATCTTCTTTTTAGCATTTTTGAGTGAGCACATATGTGCATTAGTTGCTAGATGGA
66 CTTGAACCTCCTTTTTAGCATTTTTGAGTGAGCACATATGTGCATTAGTTGCTAGATGGA
*
2811825 GTTAATGCCATTGCATGCTAAATATGAAGCTTGTTAATGATGCATGTGATGGTGGCTTGATGATT
1 GTTAATGCCATTGCATGCTAAATATGAAGCTTGTTAATGATGCATGTGATGGTGGATTGATGATT
*
2811890 CTTGAACCTCCTTTTTAGCATTTTTGAGTGAGCACATATGTGCATTGGTTGCTAGATGGA
66 CTTGAACCTCCTTTTTAGCATTTTTGAGTGAGCACATATGTGCATTAGTTGCTAGATGGA
2811950 G
1 G
2811951 AAGAATCGGC
Statistics
Matches: 121, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
125 121 1.00
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.38
Consensus pattern (125 bp):
GTTAATGCCATTGCATGCTAAATATGAAGCTTGTTAATGATGCATGTGATGGTGGATTGATGATT
CTTGAACCTCCTTTTTAGCATTTTTGAGTGAGCACATATGTGCATTAGTTGCTAGATGGA
Found at i:2812838 original size:98 final size:98
Alignment explanation
Indices: 2812668--2812864 Score: 333
Period size: 98 Copynumber: 2.0 Consensus size: 98
2812658 ATGATTTATT
2812668 GTTAAATGTGCATGGTTATTTGAATGATGTCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAC
1 GTTAAATGTGCATGGTTATTTGAATGATGTCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAC
*
2812733 CATATCCGGACTAAGAT-CCGAAGGCATTTGTGC
66 CAAATCCGGACTAAG-TCCCGAAGGCATTTGTGC
*
2812766 GTTAAATGTGCATGGTTATTTGAATGATGTCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTTAC
1 GTTAAATGTGCATGGTTATTTGAATGATGTCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAC
* **
2812831 TAAATCCGGGTTAAGTCCCGAAGGCATTTGTGC
66 CAAATCCGGACTAAGTCCCGAAGGCATTTGTGC
2812864 G
1 G
2812865 AGTTACTATA
Statistics
Matches: 93, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
97 1 0.01
98 92 0.99
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (98 bp):
GTTAAATGTGCATGGTTATTTGAATGATGTCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAC
CAAATCCGGACTAAGTCCCGAAGGCATTTGTGC
Found at i:2812850 original size:40 final size:41
Alignment explanation
Indices: 2812795--2812900 Score: 155
Period size: 40 Copynumber: 2.6 Consensus size: 41
2812785 TTGAATGATG
2812795 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTTACTA-AA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTTACTATAA
* *
2812835 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAA
*
2812876 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
2812901 AACGAGTAGC
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
40 51 0.85
41 9 0.15
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAA
Found at i:2818873 original size:39 final size:39
Alignment explanation
Indices: 2818833--2818957 Score: 133
Period size: 39 Copynumber: 3.2 Consensus size: 39
2818823 ATTCACTTTT
* * * * *
2818833 AAGCATATATCATATTACACATATAATCACAAAACATTT
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* * * **
2818872 AACCATGTATCACAATACTCATATAATTACATAATGTTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* *
2818911 AAGCACATATCGCAATACTCATATAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
*
2818950 AAGAATAT
1 AAGCATAT
2818958 TTCGTAATAC
Statistics
Matches: 67, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
39 67 1.00
ACGTcount: A:0.46, C:0.20, G:0.05, T:0.30
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAATCACATAACATTC
Found at i:2827957 original size:11 final size:11
Alignment explanation
Indices: 2827936--2827966 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
2827926 TTAATTAAAT
2827936 AAATAATCACCA
1 AAAT-ATCACCA
2827948 AAATATCACCA
1 AAATATCACCA
2827959 AAATATCA
1 AAATATCA
2827967 TCAACATCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.79
12 4 0.21
ACGTcount: A:0.58, C:0.23, G:0.00, T:0.19
Consensus pattern (11 bp):
AAATATCACCA
Found at i:2831275 original size:114 final size:114
Alignment explanation
Indices: 2831125--2831454 Score: 518
Period size: 114 Copynumber: 2.9 Consensus size: 114
2831115 ATTGGAACCA
* * * *
2831125 TTCATGGTGTAGCCTCTAGTAAGCTAAAACTGGAATGGCAAAACACGATACATGAATATGTGTAA
1 TTCATGGTGTAGCCTCTAGTAAGATGAAACTGGAATGGCAAAACACAATACATGAATGTGTGTAA
* *
2831190 GACCATGTGGTTAATACCCATGACATGATATGATATGGCTGTATGAATG
66 GACCATGTGGTTAAGACCCATGGCATGATATGATATGGCTGTATGAATG
* ** *
2831239 TTCATGGTGTAGCCTCTAGTAAGATGAAACTAGAATGAAAAAACA-ATATACATGAATGTGTATA
1 TTCATGGTGTAGCCTCTAGTAAGATGAAACTGGAATGGCAAAACACA-ATACATGAATGTGTGTA
*
2831303 AGACCATGTGGTTAAGACCCTTGGCATGATATGATATGGCTGTATGAATG
65 AGACCATGTGGTTAAGACCCATGGCATGATATGATATGGCTGTATGAATG
* * *
2831353 TTCATAGTGTAGCCTCCAGTAAGATGAAACTGGAATGGCAGAACACAATACATGAATGTGTGTAA
1 TTCATGGTGTAGCCTCTAGTAAGATGAAACTGGAATGGCAAAACACAATACATGAATGTGTGTAA
2831418 GACCATGTGGTTAAGACCCATGGCATGATATGATATG
66 GACCATGTGGTTAAGACCCATGGCATGATATGATATG
2831455 ATTATGATTG
Statistics
Matches: 195, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
114 194 0.99
115 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (114 bp):
TTCATGGTGTAGCCTCTAGTAAGATGAAACTGGAATGGCAAAACACAATACATGAATGTGTGTAA
GACCATGTGGTTAAGACCCATGGCATGATATGATATGGCTGTATGAATG
Found at i:2838075 original size:16 final size:17
Alignment explanation
Indices: 2838046--2838079 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
2838036 CAATTTAGTC
2838046 CAAAATTCATACTTTTG
1 CAAAATTCATACTTTTG
2838063 CAAAATT-ATACTTTTG
1 CAAAATTCATACTTTTG
2838079 C
1 C
2838080 CCCTAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.35, C:0.18, G:0.06, T:0.41
Consensus pattern (17 bp):
CAAAATTCATACTTTTG
Found at i:2846927 original size:19 final size:19
Alignment explanation
Indices: 2846892--2846929 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
2846882 AAAACATAAT
**
2846892 CAAAACCAAAATTAATCCA
1 CAAAACCAAAAGAAATCCA
2846911 CAAAACCAAAAGAAATCCA
1 CAAAACCAAAAGAAATCCA
2846930 AAAGTTCGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.61, C:0.26, G:0.03, T:0.11
Consensus pattern (19 bp):
CAAAACCAAAAGAAATCCA
Found at i:2856601 original size:39 final size:39
Alignment explanation
Indices: 2856561--2856685 Score: 133
Period size: 39 Copynumber: 3.2 Consensus size: 39
2856551 ATTCACTTTT
* * * * *
2856561 AAGCATATATCATATTACACATATAATCACAAAACATTT
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* * * **
2856600 AACCATGTATCACAATACTCATATAATTACATAATGTTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* *
2856639 AAGCACATATCGCAATACTCATATAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
*
2856678 AAGAATAT
1 AAGCATAT
2856686 TTCGTAATAC
Statistics
Matches: 67, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
39 67 1.00
ACGTcount: A:0.46, C:0.20, G:0.05, T:0.30
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAATCACATAACATTC
Found at i:2865685 original size:11 final size:11
Alignment explanation
Indices: 2865664--2865694 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
2865654 TTAATTAAAT
2865664 AAATAATCACCA
1 AAAT-ATCACCA
2865676 AAATATCACCA
1 AAATATCACCA
2865687 AAATATCA
1 AAATATCA
2865695 TCAACATCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.79
12 4 0.21
ACGTcount: A:0.58, C:0.23, G:0.00, T:0.19
Consensus pattern (11 bp):
AAATATCACCA
Found at i:2869003 original size:114 final size:114
Alignment explanation
Indices: 2868853--2869182 Score: 518
Period size: 114 Copynumber: 2.9 Consensus size: 114
2868843 ATTGGAACCA
* * * *
2868853 TTCATGGTGTAGCCTCTAGTAAGCTAAAACTGGAATGGCAAAACACGATACATGAATATGTGTAA
1 TTCATGGTGTAGCCTCTAGTAAGATGAAACTGGAATGGCAAAACACAATACATGAATGTGTGTAA
* *
2868918 GACCATGTGGTTAATACCCATGACATGATATGATATGGCTGTATGAATG
66 GACCATGTGGTTAAGACCCATGGCATGATATGATATGGCTGTATGAATG
* ** *
2868967 TTCATGGTGTAGCCTCTAGTAAGATGAAACTAGAATGAAAAAACA-ATATACATGAATGTGTATA
1 TTCATGGTGTAGCCTCTAGTAAGATGAAACTGGAATGGCAAAACACA-ATACATGAATGTGTGTA
*
2869031 AGACCATGTGGTTAAGACCCTTGGCATGATATGATATGGCTGTATGAATG
65 AGACCATGTGGTTAAGACCCATGGCATGATATGATATGGCTGTATGAATG
* * *
2869081 TTCATAGTGTAGCCTCCAGTAAGATGAAACTGGAATGGCAGAACACAATACATGAATGTGTGTAA
1 TTCATGGTGTAGCCTCTAGTAAGATGAAACTGGAATGGCAAAACACAATACATGAATGTGTGTAA
2869146 GACCATGTGGTTAAGACCCATGGCATGATATGATATG
66 GACCATGTGGTTAAGACCCATGGCATGATATGATATG
2869183 ATTATGATTG
Statistics
Matches: 195, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
114 194 0.99
115 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (114 bp):
TTCATGGTGTAGCCTCTAGTAAGATGAAACTGGAATGGCAAAACACAATACATGAATGTGTGTAA
GACCATGTGGTTAAGACCCATGGCATGATATGATATGGCTGTATGAATG
Found at i:2875803 original size:16 final size:17
Alignment explanation
Indices: 2875774--2875807 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
2875764 CAATTTAGTC
2875774 CAAAATTCATACTTTTG
1 CAAAATTCATACTTTTG
2875791 CAAAATT-ATACTTTTG
1 CAAAATTCATACTTTTG
2875807 C
1 C
2875808 CCCTAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.35, C:0.18, G:0.06, T:0.41
Consensus pattern (17 bp):
CAAAATTCATACTTTTG
Found at i:2884655 original size:19 final size:19
Alignment explanation
Indices: 2884620--2884657 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
2884610 AAAACATAAT
**
2884620 CAAAACCAAAATTAATCCA
1 CAAAACCAAAAGAAATCCA
2884639 CAAAACCAAAAGAAATCCA
1 CAAAACCAAAAGAAATCCA
2884658 AAAGTTCGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.61, C:0.26, G:0.03, T:0.11
Consensus pattern (19 bp):
CAAAACCAAAAGAAATCCA
Found at i:2893095 original size:17 final size:17
Alignment explanation
Indices: 2893073--2893105 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2893063 TACACTAATG
*
2893073 AATACAAACAATCAATT
1 AATACAAACAAACAATT
2893090 AATACAAACAAACAAT
1 AATACAAACAAACAAT
2893106 ACCGTATACA
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:0.64, C:0.18, G:0.00, T:0.18
Consensus pattern (17 bp):
AATACAAACAAACAATT
Found at i:2895517 original size:13 final size:13
Alignment explanation
Indices: 2895487--2895511 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2895477 TCTAAACCTT
2895487 TTCTCTCCAAAAA
1 TTCTCTCCAAAAA
2895500 TTCTCTCCAAAA
1 TTCTCTCCAAAA
2895512 TCTCTCGAAT
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:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (13 bp):
TTCTCTCCAAAAA
Found at i:2897057 original size:13 final size:13
Alignment explanation
Indices: 2897039--2897074 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
2897029 CATTGGACAC
2897039 ATGGCCATGTCGA
1 ATGGCCATGTCGA
2897052 ATGGCCATGTCGA
1 ATGGCCATGTCGA
2897065 ATGGCCATGT
1 ATGGCCATGT
2897075 GTCACACACG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.22, C:0.22, G:0.31, T:0.25
Consensus pattern (13 bp):
ATGGCCATGTCGA
Found at i:2905525 original size:57 final size:56
Alignment explanation
Indices: 2905452--2905712 Score: 229
Period size: 57 Copynumber: 4.5 Consensus size: 56
2905442 TTGGCTGTCA
* * * * *
2905452 AACTATGAAAAAGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTGA-GACCATC
1 AACTATGAAAAGGGATAG-TT-GACCATCAACTATGAAAAGGGATGGTGACGACCATC
*
2905509 AACTATGAAAAGGGATAGTGATGACCATCAACTATAAAAAGGGATGGTGACGACCATC
1 AACTATGAAAAGGGATAGT--TGACCATCAACTATGAAAAGGGATGGTGACGACCATC
* * * *
2905567 AACTATGAAAAGGGATGGTGAGACCATCAACTATGAAAAGGGATAGTGATGACCATC
1 AACTATGAAAAGGGATAGT-TGACCATCAACTATGAAAAGGGATGGTGACGACCATC
* * * ** * **
2905624 AACTATAAAAAGGGATGGTGACGACCATTGATTAATGAAAAGGGATGGTTTCGACCATC
1 AACTATGAAAAGGGATAGT--TGACCATCAACT-ATGAAAAGGGATGGTGACGACCATC
* *
2905683 GAA-TATGAAAATGGATGGTTACGACCATCA
1 -AACTATGAAAAGGGATAGTT--GACCATCA
2905713 TTTAACACAC
Statistics
Matches: 169, Mismatches: 27, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
56 1 0.01
57 91 0.54
58 34 0.20
59 41 0.24
60 2 0.01
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.21
Consensus pattern (56 bp):
AACTATGAAAAGGGATAGTTGACCATCAACTATGAAAAGGGATGGTGACGACCATC
Found at i:2905548 original size:29 final size:28
Alignment explanation
Indices: 2905484--2905712 Score: 280
Period size: 29 Copynumber: 7.9 Consensus size: 28
2905474 GGCTATCGAT
2905484 TATGAAAAGGGATGGTGAGACCATCAAC
1 TATGAAAAGGGATGGTGAGACCATCAAC
*
2905512 TATGAAAAGGGATAGTGATGACCATCAAC
1 TATGAAAAGGGATGGTGA-GACCATCAAC
*
2905541 TATAAAAAGGGATGGTGACGACCATCAAC
1 TATGAAAAGGGATGGTGA-GACCATCAAC
2905570 TATGAAAAGGGATGGTGAGACCATCAAC
1 TATGAAAAGGGATGGTGAGACCATCAAC
*
2905598 TATGAAAAGGGATAGTGATGACCATCAAC
1 TATGAAAAGGGATGGTGA-GACCATCAAC
* ** *
2905627 TATAAAAAGGGATGGTGACGACCATTGAT
1 TATGAAAAGGGATGGTGA-GACCATCAAC
**
2905656 TAATGAAAAGGGATGGTTTCGACCATCGAA-
1 T-ATGAAAAGGGATGG-TGAGACCATC-AAC
* *
2905686 TATGAAAATGGATGGTTACGACCATCA
1 TATGAAAAGGGATGGTGA-GACCATCA
2905713 TTTAACACAC
Statistics
Matches: 176, Mismatches: 19, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
28 47 0.27
29 107 0.61
30 20 0.11
31 2 0.01
ACGTcount: A:0.39, C:0.14, G:0.26, T:0.21
Consensus pattern (28 bp):
TATGAAAAGGGATGGTGAGACCATCAAC
Found at i:2905574 original size:86 final size:86
Alignment explanation
Indices: 2905484--2905712 Score: 343
Period size: 86 Copynumber: 2.6 Consensus size: 86
2905474 GGCTATCGAT
2905484 TATGAAAAGGGATGGTGAGACCATCAACTATGAAAAGGGATAGTGATGACCATCAACTATAAAAA
1 TATGAAAAGGGATGGTGAGACCATCAACTATGAAAAGGGATAGTGATGACCATCAACTATAAAAA
2905549 GGGATGGTGACGACCATCAAC
66 GGGATGGTGACGACCATCAAC
2905570 TATGAAAAGGGATGGTGAGACCATCAACTATGAAAAGGGATAGTGATGACCATCAACTATAAAAA
1 TATGAAAAGGGATGGTGAGACCATCAACTATGAAAAGGGATAGTGATGACCATCAACTATAAAAA
** *
2905635 GGGATGGTGACGACCATTGAT
66 GGGATGGTGACGACCATCAAC
** * * * *
2905656 TAATGAAAAGGGATGGTTTCGACCATCGAA-TATGAAAATGGATGGTTACGACCATCA
1 T-ATGAAAAGGGATGG-TGAGACCATC-AACTATGAAAAGGGATAGTGATGACCATCA
2905713 TTTAACACAC
Statistics
Matches: 131, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
86 84 0.64
87 14 0.11
88 31 0.24
89 2 0.02
ACGTcount: A:0.39, C:0.14, G:0.26, T:0.21
Consensus pattern (86 bp):
TATGAAAAGGGATGGTGAGACCATCAACTATGAAAAGGGATAGTGATGACCATCAACTATAAAAA
GGGATGGTGACGACCATCAAC
Found at i:2909820 original size:50 final size:50
Alignment explanation
Indices: 2909745--2909979 Score: 380
Period size: 50 Copynumber: 4.7 Consensus size: 50
2909735 ATTTGGGTAA
2909745 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
2909795 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
*
2909845 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** * * *
2909895 AGAGGTCCCCCGTAAGACCATGTTTGGGACATGGCATTGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** *
2909945 AGAACATCCCATGTAAGACCATGTCTGTGACATGG
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGG
2909980 ATTTGGCATG
Statistics
Matches: 171, Mismatches: 13, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
50 145 0.85
51 26 0.15
ACGTcount: A:0.26, C:0.23, G:0.31, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:2913365 original size:51 final size:51
Alignment explanation
Indices: 2913243--2913419 Score: 180
Period size: 51 Copynumber: 3.5 Consensus size: 51
2913233 GGTCATGTGC
* * * * * *
2913243 GTAGTACTATGTGCAGGCTACTACGTGTACC-GA-AATGATAGGTCGCATGT
1 GTAGTACTATGTGCAGGCTACTATGCGTACCAGATAGTAAT-GATCACATGT
* * *
2913293 GTAGTACTATGTGCAGACTACTATGCGTACCAGATAGT-TTCGATCACGTGT
1 GTAGTACTATGTGCAGGCTACTATGCGTACCAGATAGTAAT-GATCACATGT
* * * * * *
2913344 GTAGTACTATGTACAGGCTACTACGTGTATCAGATGGTAATGGTCACATGT
1 GTAGTACTATGTGCAGGCTACTATGCGTACCAGATAGTAATGATCACATGT
2913395 GTAGTACTATGTGCAGGCTACTATG
1 GTAGTACTATGTGCAGGCTACTATG
2913420 TGAACTGAAC
Statistics
Matches: 104, Mismatches: 20, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
50 28 0.27
51 73 0.70
52 3 0.03
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (51 bp):
GTAGTACTATGTGCAGGCTACTATGCGTACCAGATAGTAATGATCACATGT
Found at i:2913479 original size:45 final size:45
Alignment explanation
Indices: 2913428--2913516 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
2913418 TGTGAACTGA
* *
2913428 ACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCACGGG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACGGG
2913473 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACGG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACGG
2913517 AGTATCTGTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.33
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACGGG
Found at i:2918117 original size:30 final size:30
Alignment explanation
Indices: 2918083--2918147 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
2918073 ATTTATTTTA
2918083 TTGTTAATTTTGTTATTATTGTAGAGACAT
1 TTGTTAATTTTGTTATTATTGTAGAGACAT
*
2918113 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTGTAGAGACAT
2918143 TTGTT
1 TTGTT
2918148 TGTTAAGTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.25, C:0.03, G:0.15, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTGTAGAGACAT
Found at i:2921291 original size:43 final size:43
Alignment explanation
Indices: 2921037--2921312 Score: 179
Period size: 43 Copynumber: 6.4 Consensus size: 43
2921027 TAAACTTGTG
** ** * **
2921037 TCTTTAGCGGCGCTTACAAAACAAACGCCGCTGAAGGTCATGGA
1 TCTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCAT-GA
* * *
2921081 -ATTTAGCGGCGC--TTACCAAACAAACGCCGCTAAAGACAACGA
1 TCTTTAGCGGCGCTTTTACC--ACAAACGCCGCTAAAGACCATGA
* * * *
2921123 CCTTTAGCGGCGC--TTCCCTTACAAACGCCGCTAAATACCCTGA
1 TCTTTAGCGGCGCTTTTACC--ACAAACGCCGCTAAAGACCATGA
** * * * * *
2921166 TCCATAGCGGTGCTTCT-GCATAAAACGCCGCTAAAGACCCTGA
1 TCTTTAGCGGCGCTTTTACCA-CAAACGCCGCTAAAGACCATGA
* * * *
2921209 TCTTTAGCGGTGTTTTTCTCCA-AAACGCCGCTGAAGACCATGA
1 TCTTTAGCGGCGCTTTT-ACCACAAACGCCGCTAAAGACCATGA
*
2921252 TCTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCATTA
1 TCTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCATGA
* * *
2921295 CCTTTAGTGGCGTTTTTA
1 TCTTTAGCGGCGCTTTTA
2921313 AAAAAACGCC
Statistics
Matches: 182, Mismatches: 41, Indels: 19
0.75 0.17 0.08
Matches are distributed among these distances:
41 1 0.01
42 6 0.03
43 171 0.94
44 1 0.01
45 3 0.02
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (43 bp):
TCTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCATGA
Found at i:2921685 original size:21 final size:21
Alignment explanation
Indices: 2921638--2921686 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
2921628 TTTACACTGC
*
2921638 TCTGCTTCCCTCGCTGCACCC
1 TCTGCTTCCCTCGCTGCACCA
* *
2921659 TGTGCTTCTCTCGCTGC-CACA
1 TCTGCTTCCCTCGCTGCAC-CA
2921680 TCTGCTT
1 TCTGCTT
2921687 TAAGCTGCTG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 1 0.04
21 22 0.96
ACGTcount: A:0.06, C:0.43, G:0.16, T:0.35
Consensus pattern (21 bp):
TCTGCTTCCCTCGCTGCACCA
Found at i:2921768 original size:66 final size:66
Alignment explanation
Indices: 2921662--2921824 Score: 204
Period size: 66 Copynumber: 2.5 Consensus size: 66
2921652 TGCACCCTGT
** *
2921662 GCTTCTCTCGCTGCCACATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATA-CTTTCGTTGAACCT
1 GCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGCTGCTGGAGTTCTTCATATCTTT-GTTGAACCT
2921726 CA
65 CA
* *
2921728 GCTTCTCTTGCTGCTGCATCTGCTTTAAGTTG-TAGCTGGAGTTCTTCATATCTTTTTTGAACCT
1 GCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGCT-GCTGGAGTTCTTCATATCTTTGTTGAACCT
*
2921792 GA
65 CA
* * * *
2921794 GCTTCTCTCGATGTTGCCTCCGCTTTAAGTT
1 GCTTCTCTCGCTGCTGCATCTGCTTTAAGTT
2921825 TTGTAATTTG
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
65 1 0.01
66 79 0.94
67 4 0.05
ACGTcount: A:0.14, C:0.26, G:0.19, T:0.40
Consensus pattern (66 bp):
GCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGCTGCTGGAGTTCTTCATATCTTTGTTGAACCTC
A
Found at i:2927027 original size:42 final size:41
Alignment explanation
Indices: 2926980--2927069 Score: 101
Period size: 42 Copynumber: 2.1 Consensus size: 41
2926970 TAACTTATAA
* *
2926980 GTATTATTTC-ACTATGTAAGTTATCATATGATATATATTTAT
1 GTATTATGTCGACTATGTAAGTTAT-ATATGATATA-AGTTAT
* * *
2927022 GTATTATGTCGTATTATGTAAGTTATGTATTATATAAGTTAT
1 GTATTATGTCG-ACTATGTAAGTTATATATGATATAAGTTAT
2927064 GTATTA
1 GTATTA
2927070 ATAAGTTATG
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
42 20 0.49
43 8 0.20
44 13 0.32
ACGTcount: A:0.32, C:0.04, G:0.13, T:0.50
Consensus pattern (41 bp):
GTATTATGTCGACTATGTAAGTTATATATGATATAAGTTAT
Found at i:2927049 original size:9 final size:9
Alignment explanation
Indices: 2927035--2927090 Score: 59
Period size: 9 Copynumber: 6.8 Consensus size: 9
2927025 TTATGTCGTA
2927035 TTATGTAAG
1 TTATGTAAG
2927044 TTATGT-A-
1 TTATGTAAG
*
2927051 TTATATAAG
1 TTATGTAAG
2927060 TTATGT-A-
1 TTATGTAAG
*
2927067 TTA-ATAAG
1 TTATGTAAG
2927075 TTATGTAAG
1 TTATGTAAG
2927084 TTATGTA
1 TTATGTA
2927091 TCATTTTAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
6 1 0.03
7 9 0.24
8 6 0.16
9 22 0.58
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:2927075 original size:15 final size:16
Alignment explanation
Indices: 2927032--2927081 Score: 84
Period size: 16 Copynumber: 3.2 Consensus size: 16
2927022 GTATTATGTC
*
2927032 GTATTATGTAAGTTAT
1 GTATTATATAAGTTAT
2927048 GTATTATATAAGTTAT
1 GTATTATATAAGTTAT
2927064 GTATTA-ATAAGTTAT
1 GTATTATATAAGTTAT
2927079 GTA
1 GTA
2927082 AGTTATGTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
15 12 0.36
16 21 0.64
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (16 bp):
GTATTATATAAGTTAT
Found at i:2927124 original size:43 final size:40
Alignment explanation
Indices: 2927035--2927141 Score: 121
Period size: 43 Copynumber: 2.6 Consensus size: 40
2927025 TTATGTCGTA
* * *
2927035 TTATGTAAGTTATGTATTATATAAGTTATGTATTAATAAG
1 TTATGTAAGTTATGTATCATATAAATTATATATTAATAAG
*
2927075 TTATGTAAGTTATGTATCATTTTAAAATATATATATTAATAAG
1 TTATGTAAGTTATGTATCA-TAT-AAAT-TATATATTAATAAG
2927118 TTATGTAA-TGTATGTAT--TATAAAT
1 TTATGTAAGT-TATGTATCATATAAAT
2927142 GGGTAATTCA
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
39 4 0.07
40 20 0.34
41 2 0.03
42 4 0.07
43 28 0.48
ACGTcount: A:0.39, C:0.01, G:0.12, T:0.48
Consensus pattern (40 bp):
TTATGTAAGTTATGTATCATATAAATTATATATTAATAAG
Found at i:2927765 original size:15 final size:15
Alignment explanation
Indices: 2927737--2927772 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
2927727 TTAATAAAAG
*
2927737 GAAAA-AGTAGAAAT
1 GAAAACAGTACAAAT
2927751 GAAAACAGTACAAAT
1 GAAAACAGTACAAAT
2927766 GAAAACA
1 GAAAACA
2927773 AGTTGGTGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 5 0.25
15 15 0.75
ACGTcount: A:0.64, C:0.08, G:0.17, T:0.11
Consensus pattern (15 bp):
GAAAACAGTACAAAT
Found at i:2945048 original size:41 final size:41
Alignment explanation
Indices: 2944999--2945212 Score: 209
Period size: 41 Copynumber: 5.2 Consensus size: 41
2944989 GCTCAGGTAT
*
2944999 TTAGCGGCGCTTTTTAAGAAACGCCGCTAAAGACCGGAGTA
1 TTAGCGGCGCTTTTTAAGAAACGCCGCTAAAGACCGGAGCA
* * * * *
2945040 TTACCGGCGCTTTCTGAGAAACGCCGCTGAAGACCGTAGCA
1 TTAGCGGCGCTTTTTAAGAAACGCCGCTAAAGACCGGAGCA
* * * * * *
2945081 TTAGCGGCGCCTCTTACA-AAGCGTCGCTAAAAACCTGAGCA
1 TTAGCGGCGCTTTTTA-AGAAACGCCGCTAAAGACCGGAGCA
* * *
2945122 TTAGCGGCGCATCTT-AGAAAACGCCGCTAAAGACCGCAGCA
1 TTAGCGGCGCTTTTTAAG-AAACGCCGCTAAAGACCGGAGCA
* * * *
2945163 TTAGCGGCGATTATTCAA-AAACGCCACTAAAGACAGGAGCA
1 TTAGCGGCGCTT-TTTAAGAAACGCCGCTAAAGACCGGAGCA
2945204 TTAGCGGCG
1 TTAGCGGCG
2945213 TGGTTTGCAA
Statistics
Matches: 138, Mismatches: 30, Indels: 10
0.78 0.17 0.06
Matches are distributed among these distances:
39 1 0.01
41 134 0.97
42 2 0.01
43 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.25, T:0.19
Consensus pattern (41 bp):
TTAGCGGCGCTTTTTAAGAAACGCCGCTAAAGACCGGAGCA
Found at i:2945193 original size:82 final size:80
Alignment explanation
Indices: 2944999--2945212 Score: 232
Period size: 82 Copynumber: 2.6 Consensus size: 80
2944989 GCTCAGGTAT
* * *
2944999 TTAGCGGCGCTTTTTAAGAAACGCCGCTAAAGACCGGAGTATTACCGGCGCTTTCTGAGAAACGC
1 TTAGCGGCGC-TTTTAA-AAACGCCGCTAAAGACCGGAGCATTAGCGGCGCTATCTGAGAAACGC
* *
2945064 CGCTGAAGACCGTAGCA
64 CGCTAAAGACCGCAGCA
* * * * * *
2945081 TTAGCGGCGCCTCTTACAAAGCGTCGCTAAAAACCTGAGCATTAGCGGCGC-ATCTTAGAAAACG
1 TTAGCGGCG-CTTTTA-AAAACGCCGCTAAAGACCGGAGCATTAGCGGCGCTATCTGAG-AAACG
2945145 CCGCTAAAGACCGCAGCA
63 CCGCTAAAGACCGCAGCA
* * *
2945163 TTAGCGGCGATTATTCAAAAACGCCACTAAAGACAGGAGCATTAGCGGCG
1 TTAGCGGCGCTT-TT-AAAAACGCCGCTAAAGACCGGAGCATTAGCGGCG
2945213 TGGTTTGCAA
Statistics
Matches: 108, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
81 6 0.06
82 99 0.92
83 3 0.03
ACGTcount: A:0.30, C:0.26, G:0.25, T:0.19
Consensus pattern (80 bp):
TTAGCGGCGCTTTTAAAAACGCCGCTAAAGACCGGAGCATTAGCGGCGCTATCTGAGAAACGCCG
CTAAAGACCGCAGCA
Found at i:2951218 original size:91 final size:91
Alignment explanation
Indices: 2951106--2951287 Score: 328
Period size: 91 Copynumber: 2.0 Consensus size: 91
2951096 GCAATTTCTT
* *
2951106 CCAAAATCGTGAGGTGAATCTCGGATCTCTATCCGACATGATAGAAATAGGTACCCCGTGTAATC
1 CCAAAATCGTGAGGTGAATCTCGGATCTCTATCCGACACGATAGAAACAGGTACCCCGTGTAATC
2951171 TCACAATCTGAGAAACGTACAATTCA
66 TCACAATCTGAGAAACGTACAATTCA
2951197 CCAAAATCGTGAGGTGAATCTCGGATCTCTATCCGACACGATAGAAACAGGTACCCCGTGTAATC
1 CCAAAATCGTGAGGTGAATCTCGGATCTCTATCCGACACGATAGAAACAGGTACCCCGTGTAATC
* *
2951262 TCACAATTTGATAAACGTACAATTCA
66 TCACAATCTGAGAAACGTACAATTCA
2951288 GCTAGTTTAT
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
91 87 1.00
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (91 bp):
CCAAAATCGTGAGGTGAATCTCGGATCTCTATCCGACACGATAGAAACAGGTACCCCGTGTAATC
TCACAATCTGAGAAACGTACAATTCA
Found at i:2960767 original size:35 final size:35
Alignment explanation
Indices: 2960716--2960785 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
2960706 ACACTCTCGG
*
2960716 GCATATTTGTTTAGTATAACAAATTCCTGCTCATA
1 GCATATTTGTTCAGTATAACAAATTCCTGCTCATA
2960751 GCATATTTGTTCAGTATAACAAATTCCTGCTCATA
1 GCATATTTGTTCAGTATAACAAATTCCTGCTCATA
2960786 CTCTACACAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.39
Consensus pattern (35 bp):
GCATATTTGTTCAGTATAACAAATTCCTGCTCATA
Found at i:2973145 original size:28 final size:28
Alignment explanation
Indices: 2973082--2973347 Score: 453
Period size: 28 Copynumber: 9.5 Consensus size: 28
2973072 ATATTAAGTC
*
2973082 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
2973109 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
2973137 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
2973165 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
2973193 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
2973221 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
2973249 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
2973277 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
2973305 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
2973334 CGCACACTTAGTGC
1 CGCACACTTAGTGC
2973348 CAATCTCATG
Statistics
Matches: 228, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
27 22 0.10
28 187 0.82
29 19 0.08
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:2977829 original size:20 final size:20
Alignment explanation
Indices: 2977793--2977842 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
2977783 ATCATGATCT
* *
2977793 TTACTTTCTTCTTTACTTAC
1 TTACTTACTTGTTTACTTAC
2977813 TCT-CTTACTTGTTTACTTAC
1 T-TACTTACTTGTTTACTTAC
2977833 TTACTTACTT
1 TTACTTACTT
2977843 AAATAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 1 0.04
20 24 0.92
21 1 0.04
ACGTcount: A:0.16, C:0.24, G:0.02, T:0.58
Consensus pattern (20 bp):
TTACTTACTTGTTTACTTAC
Found at i:2988742 original size:21 final size:20
Alignment explanation
Indices: 2988697--2988742 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
2988687 TTGTTGGAAT
2988697 GGTT-AATTTAATCAATTTA
1 GGTTGAATTTAATCAATTTA
*
2988716 GCTTGAATTTAATTC-ATGTTA
1 GGTTGAATTTAA-TCAAT-TTA
2988737 GGTTGA
1 GGTTGA
2988743 TTGCATTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.46
Consensus pattern (20 bp):
GGTTGAATTTAATCAATTTA
Found at i:3011061 original size:25 final size:25
Alignment explanation
Indices: 3011001--3011061 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
3010991 AGCTCGTATG
* * *
3011001 AGCATACCAATTTATAGCTCATGAA
1 AGCATACCGATCTATAGCTCAAGAA
*
3011026 AGCATATCGATCTATAGCTCAAGAA
1 AGCATACCGATCTATAGCTCAAGAA
*
3011051 AGTATACCGAT
1 AGCATACCGAT
3011062 TAACAGCTCG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (25 bp):
AGCATACCGATCTATAGCTCAAGAA
Found at i:3020811 original size:25 final size:25
Alignment explanation
Indices: 3020777--3020872 Score: 72
Period size: 25 Copynumber: 3.8 Consensus size: 25
3020767 TTCATGTACA
3020777 TGTATGCTCATACGAGCTGTGAATC
1 TGTATGCTCATACGAGCTGTGAATC
* *
3020802 TGTATGCTCACT-TGAGCT-TTAGATC
1 TGTATGCTCA-TACGAGCTGTGA-ATC
* * * *
3020827 GGTATGCTC-TCATGAGCTATAAATC
1 TGTATGCTCAT-ACGAGCTGTGAATC
* *
3020852 AGTATGCTCACACGAGCTGTG
1 TGTATGCTCATACGAGCTGTG
3020873 GGTTGGAACG
Statistics
Matches: 56, Mismatches: 9, Indels: 12
0.73 0.12 0.16
Matches are distributed among these distances:
23 1 0.02
24 2 0.04
25 50 0.89
26 3 0.05
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (25 bp):
TGTATGCTCATACGAGCTGTGAATC
Found at i:3025941 original size:28 final size:28
Alignment explanation
Indices: 3025901--3026017 Score: 173
Period size: 28 Copynumber: 4.2 Consensus size: 28
3025891 TATGCAAATA
*
3025901 ACAGT-ACAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
*
3025928 ACAGTAACAATGTGGGCCTTATCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
* *
3025956 ACAATAACAATGTGGGCCTTATCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
* *
3025984 ACAATAACAATGTGAGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
3026012 ACAGTA
1 ACAGTA
3026018 TCGGTACAGT
Statistics
Matches: 83, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
27 5 0.06
28 78 0.94
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (28 bp):
ACAGTAACAATGTGGGCCTTAGCCCAAT
Found at i:3026403 original size:27 final size:27
Alignment explanation
Indices: 3026373--3026550 Score: 123
Period size: 27 Copynumber: 6.6 Consensus size: 27
3026363 ATCTCCTAGC
3026373 GGTATAAT-AGTCATTTTACCCTATGAG
1 GGTAT-ATCAGTCATTTTACCCTATGAG
*
3026400 GGTATTTCAGTCATTTTACCCTATGAG
1 GGTATATCAGTCATTTTACCCTATGAG
* * *
3026427 GGTATTTC-GATTATTTTACCGTATTG-G
1 GGTATATCAG-TCATTTTACCCTA-TGAG
* * * *
3026454 TGTATTTTAGTTATTTTACCCTATG-G
1 GGTATATCAGTCATTTTACCCTATGAG
* * * *
3026480 AGGTATTTCAGTTATTTTATCCTATAAG
1 -GGTATATCAGTCATTTTACCCTATGAG
* ** *
3026508 GGTATTTTGGTTATTTTACCCTAT-AG
1 GGTATATCAGTCATTTTACCCTATGAG
*
3026534 AGGTATTTCAGTCATTT
1 -GGTATATCAGTCATTT
3026551 ATTGACCTCT
Statistics
Matches: 128, Mismatches: 16, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
26 7 0.05
27 117 0.91
28 4 0.03
ACGTcount: A:0.23, C:0.13, G:0.18, T:0.46
Consensus pattern (27 bp):
GGTATATCAGTCATTTTACCCTATGAG
Found at i:3026431 original size:54 final size:53
Alignment explanation
Indices: 3026380--3026550 Score: 177
Period size: 54 Copynumber: 3.2 Consensus size: 53
3026370 AGCGGTATAA
* * *
3026380 TAGTCATTTTACCCTATGAGGGTATTTCAGTCATTTTACCCTATGAGGGTATT
1 TAGTTATTTTACCCTATGAGGGTATTTTAGTTATTTTACCCTATGAGGGTATT
* * *
3026433 TCGATTATTTTACCGTATTG-GTGTATTTTAGTTATTTTACCCTATG-GAGGTATT
1 TAG-TTATTTTACCCTA-TGAGGGTATTTTAGTTATTTTACCCTATGAG-GGTATT
* * *
3026487 TCAGTTATTTTATCCTATAAGGGTATTTTGGTTATTTTACCCTAT-AGAGGTATT
1 T-AGTTATTTTACCCTATGAGGGTATTTTAGTTATTTTACCCTATGAG-GGTATT
*
3026541 TCAGTCATTT
1 T-AGTTATTT
3026551 ATTGACCTCT
Statistics
Matches: 99, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
53 4 0.04
54 92 0.93
55 3 0.03
ACGTcount: A:0.22, C:0.13, G:0.18, T:0.47
Consensus pattern (53 bp):
TAGTTATTTTACCCTATGAGGGTATTTTAGTTATTTTACCCTATGAGGGTATT
Found at i:3026540 original size:81 final size:81
Alignment explanation
Indices: 3026380--3026550 Score: 229
Period size: 81 Copynumber: 2.1 Consensus size: 81
3026370 AGCGGTATAA
*
3026380 TAGTCATTTTACCCTATGAGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGATTATTTTA
1 TAGTCATTTTACCCTATGAGGGTATTTCAGTCATTTTACCCTATAAGGGTATTTCGATTATTTTA
* *
3026445 CCGTATTGGTGTATTT
66 CCCTATAGGTGTATTT
* * * * *
3026461 TAGTTATTTTACCCTATG-GAGGTATTTCAGTTATTTTATCCTATAAGGGTATTTTGGTTATTTT
1 TAGTCATTTTACCCTATGAG-GGTATTTCAGTCATTTTACCCTATAAGGGTATTTCGATTATTTT
3026525 ACCCTATAGAG-GTATTT
65 ACCCTATAG-GTGTATTT
*
3026542 CAGTCATTT
1 TAGTCATTT
3026551 ATTGACCTCT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
80 1 0.01
81 76 0.97
82 1 0.01
ACGTcount: A:0.22, C:0.13, G:0.18, T:0.47
Consensus pattern (81 bp):
TAGTCATTTTACCCTATGAGGGTATTTCAGTCATTTTACCCTATAAGGGTATTTCGATTATTTTA
CCCTATAGGTGTATTT
Found at i:3027979 original size:14 final size:14
Alignment explanation
Indices: 3027960--3027986 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3027950 GTCTCCCTAC
3027960 AGTTTCCAGTTTCT
1 AGTTTCCAGTTTCT
3027974 AGTTTCCAGTTTC
1 AGTTTCCAGTTTC
3027987 CTACAGTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.22, G:0.15, T:0.48
Consensus pattern (14 bp):
AGTTTCCAGTTTCT
Found at i:3044394 original size:14 final size:14
Alignment explanation
Indices: 3044375--3044401 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3044365 GTAGTCTAGT
3044375 TGAACTGAACCGAG
1 TGAACTGAACCGAG
3044389 TGAACTGAACCGA
1 TGAACTGAACCGA
3044402 CCAAGAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.22, G:0.26, T:0.15
Consensus pattern (14 bp):
TGAACTGAACCGAG
Found at i:3056706 original size:40 final size:41
Alignment explanation
Indices: 3056622--3056905 Score: 345
Period size: 40 Copynumber: 7.1 Consensus size: 41
3056612 TCGAATGATG
* * *
3056622 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAATA
* *
3056662 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAATA
*
3056702 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
* *
3056741 TCCGAGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
*
3056781 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
*
3056821 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
* * ** *
3056861 ACCGGGCTATGTCCCGAAGGCATTTGAACGAGTAACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
3056901 TCCGG
1 TCCGG
3056906 TTAAATTCCG
Statistics
Matches: 218, Mismatches: 19, Indels: 14
0.87 0.08 0.06
Matches are distributed among these distances:
39 34 0.16
40 174 0.80
41 10 0.05
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
Found at i:3056917 original size:159 final size:159
Alignment explanation
Indices: 3056623--3056919 Score: 395
Period size: 159 Copynumber: 1.9 Consensus size: 159
3056613 CGAATGATGT
*
3056623 CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTTG
* ** * *
3056688 TGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGAGTTAAGT
66 TGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTAACTAAATCCGAGTTAAAT
3056753 CCCGAAGGCATTTGTGCGAGTTACTATAA
131 CCCGAAGGCATTTGTGCGAGTTACTATAA
* * * *
3056782 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCATT
* * * *
3056845 TGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGTAACTATATCCG-GTT
64 TGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTAACTAAATCCGAGTT
*
3056908 AAATTCCGAAGG
127 AAATCCCGAAGG
3056920 TACGTGATTT
Statistics
Matches: 119, Mismatches: 15, Indels: 8
0.84 0.11 0.06
Matches are distributed among these distances:
158 3 0.03
159 82 0.69
160 34 0.29
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (159 bp):
CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTTG
TGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTAACTAAATCCGAGTTAAAT
CCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:3060898 original size:21 final size:20
Alignment explanation
Indices: 3060853--3060898 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
3060843 TTGTTGGAAT
3060853 GGTT-AATTTAATCAATTTA
1 GGTTGAATTTAATCAATTTA
*
3060872 GCTTGAATTTAATTC-ATGTTA
1 GGTTGAATTTAA-TCAAT-TTA
3060893 GGTTGA
1 GGTTGA
3060899 TTTCATTTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.46
Consensus pattern (20 bp):
GGTTGAATTTAATCAATTTA
Found at i:3063872 original size:50 final size:50
Alignment explanation
Indices: 3063759--3063930 Score: 161
Period size: 50 Copynumber: 3.5 Consensus size: 50
3063749 GAAAGAGATG
* * * *
3063759 CCATGTAAGACCATGTCTGGGAAATGGCGTTGGCACCGAGATGAGAGGC-C
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATGAGA-ACTC
** * * *
3063809 CCCCGTAAAACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATGAGAACTC
* * * ** *
3063859 CCATGTAAGACCATATCTGGCATATGGCATTGGCA-TTACAAG-GAACATC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATGAGAAC-TC
*
3063908 CCATGTAAGACCATGTCTAGGAC
1 CCATGTAAGACCATGTCTGGGAC
3063931 TTCGCTATGG
Statistics
Matches: 97, Mismatches: 23, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
48 4 0.04
49 25 0.26
50 68 0.70
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.20
Consensus pattern (50 bp):
CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATGAGAACTC
Found at i:3071143 original size:50 final size:50
Alignment explanation
Indices: 3071079--3071200 Score: 145
Period size: 50 Copynumber: 2.4 Consensus size: 50
3071069 AGGTCCCATA
* * * * ** *
3071079 TAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCTCCG
1 TAAGACCATATCTGGGACATGGCATGGGCACCGAGATAAGAACTCCTACG
* * *
3071129 TAAGACCATATCTGGGACATAGCATGGGCACCGATATAAGAACTCCTATG
1 TAAGACCATATCTGGGACATGGCATGGGCACCGAGATAAGAACTCCTACG
*
3071179 TAAGACCATATCTGGGATATGG
1 TAAGACCATATCTGGGACATGG
3071201 TATTGGCAGT
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 60 1.00
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (50 bp):
TAAGACCATATCTGGGACATGGCATGGGCACCGAGATAAGAACTCCTACG
Found at i:3081968 original size:22 final size:22
Alignment explanation
Indices: 3081925--3081968 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
3081915 TTCTACTATC
* * *
3081925 AAACATAACTCAACTTTTACCA
1 AAACATAACTCAAATATGACCA
*
3081947 AAACATACCTCAAATATGACCA
1 AAACATAACTCAAATATGACCA
3081969 TTAACTCTTC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.48, C:0.27, G:0.02, T:0.23
Consensus pattern (22 bp):
AAACATAACTCAAATATGACCA
Found at i:3082535 original size:48 final size:49
Alignment explanation
Indices: 3082483--3082586 Score: 115
Period size: 50 Copynumber: 2.1 Consensus size: 49
3082473 AATTCATCAC
* *
3082483 TTTCATAA-ACATAAGTATACTTCCA-TTG-AAGCTTACCATTTCAATCCT
1 TTTCATAATACATAA-TATACTT-CATTTGAAAACTTACCATTCCAATCCT
* **
3082531 TTTCATAATTACATAATATAGTTCATTTGAAAACTTACCATTCCTTTCCT
1 TTTCATAA-TACATAATATACTTCATTTGAAAACTTACCATTCCAATCCT
3082581 TTTCAT
1 TTTCAT
3082587 GCCCATTGAA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
48 10 0.21
49 9 0.19
50 28 0.60
ACGTcount: A:0.32, C:0.21, G:0.05, T:0.42
Consensus pattern (49 bp):
TTTCATAATACATAATATACTTCATTTGAAAACTTACCATTCCAATCCT
Found at i:3089862 original size:41 final size:41
Alignment explanation
Indices: 3089797--3089914 Score: 127
Period size: 41 Copynumber: 2.9 Consensus size: 41
3089787 GCATTGAGGA
***
3089797 GTATCGAAGTACAAACAAAAGCACGTATGTGCAATTTAGGG-
1 GTATCGAAGTACAAACAGGGGCACGTATGTGCAATTT-GGGT
3089838 GTATCGAAGTACAAACAGGGGCACGT-TAGTGCAA-TTGGGT
1 GTATCGAAGTACAAACAGGGGCACGTAT-GTGCAATTTGGGT
* *
3089878 GT-TACCACAGTACAAACAGGGGCACGTATGTGAAATT
1 GTAT-CGA-AGTACAAACAGGGGCACGTATGTGCAATT
3089915 CAACAATATT
Statistics
Matches: 66, Mismatches: 5, Indels: 11
0.80 0.06 0.13
Matches are distributed among these distances:
39 4 0.06
40 7 0.11
41 53 0.80
42 2 0.03
ACGTcount: A:0.35, C:0.16, G:0.27, T:0.22
Consensus pattern (41 bp):
GTATCGAAGTACAAACAGGGGCACGTATGTGCAATTTGGGT
Found at i:3091146 original size:132 final size:133
Alignment explanation
Indices: 3090908--3091178 Score: 535
Period size: 132 Copynumber: 2.0 Consensus size: 133
3090898 TTAACGAAAT
3090908 TGTAATACAACCTTACTAACATCCTATAGACATTAAAATAATAAAATAATAAGAATTTACTCATT
1 TGTAATACAACCTTACTAACATCCTATAGACATTAAAATAATAAAATAATAAGAATTTACTCATT
3090973 GAATTTGTGGGCTTAAAACCACTATTCTAATTTCACTGAAAACGGGGTTGTTATAACTCTCCCCC
66 GAATTTGTGGGCTTAAAACCACTATTCTAATTTCACTGAAAACGGGGTTGTTATAACTCTCCCCC
3091038 TAA
131 TAA
3091041 -GTAATACAACCTTACTAACATCCTATAGACATTAAAATAATAAAATAATAAGAATTTACTCATT
1 TGTAATACAACCTTACTAACATCCTATAGACATTAAAATAATAAAATAATAAGAATTTACTCATT
3091105 GAATTTGTGGGCTTAAAACCACTATTCTAATTTCACTGAAAACGGGGTTGTTATAACTCTCCCCC
66 GAATTTGTGGGCTTAAAACCACTATTCTAATTTCACTGAAAACGGGGTTGTTATAACTCTCCCCC
3091170 TAA
131 TAA
3091173 TGTAAT
1 TGTAAT
3091179 TTTCGTCCCC
Statistics
Matches: 137, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
132 132 0.96
133 5 0.04
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.32
Consensus pattern (133 bp):
TGTAATACAACCTTACTAACATCCTATAGACATTAAAATAATAAAATAATAAGAATTTACTCATT
GAATTTGTGGGCTTAAAACCACTATTCTAATTTCACTGAAAACGGGGTTGTTATAACTCTCCCCC
TAA
Found at i:3100123 original size:145 final size:145
Alignment explanation
Indices: 3099924--3100199 Score: 507
Period size: 145 Copynumber: 1.9 Consensus size: 145
3099914 AACTCAAGGT
* **
3099924 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCTTGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
3099989 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCTTGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
3100054 ATTTCAAGTTCGCAC
131 ATTTCAAGTTCGCAC
*
3100069 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
3100134 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
3100199 A
131 A
3100200 CTTTAAACTC
Statistics
Matches: 126, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
145 126 1.00
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (145 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ATTTCAAGTTCGCAC
Found at i:3100243 original size:29 final size:29
Alignment explanation
Indices: 3100180--3100247 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
3100170 TAATCAACCG
3100180 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
3100209 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
3100238 CGCACACTTA
1 CGCACACTTA
3100248 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:3100327 original size:174 final size:174
Alignment explanation
Indices: 3100037--3100396 Score: 684
Period size: 174 Copynumber: 2.1 Consensus size: 174
3100027 ATCAACCGCG
*
3100037 CACACTTAGTGCCTTGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAAATCGACTCGG
1 CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAAATCGACTCGG
3100102 TAAGGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGCT
66 TAAGGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGCT
*
3100167 TAATAATCAACCGCGCACACTTAGTGCCATGCACTTTAAACTCA
131 TAATAATCAACCACGCACACTTAGTGCCATGCACTTTAAACTCA
3100211 CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAAATCGACTCGG
1 CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAAATCGACTCGG
3100276 TAAGGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGCT
66 TAAGGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGCT
* *
3100341 TAATAATCAACCACGCACACTTAGTGCCATGTACTTTAAACTCG
131 TAATAATCAACCACGCACACTTAGTGCCATGCACTTTAAACTCA
3100385 CACACTTAGTGC
1 CACACTTAGTGC
3100397 TGTACAATTT
Statistics
Matches: 182, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 182 1.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
CACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCCGCTGTCCAAAATCGACTCGG
TAAGGTCGCACCCTTAATGTAAATAATTTATAGAAAATATATATTGGGTTCGCACACATAGTGCT
TAATAATCAACCACGCACACTTAGTGCCATGCACTTTAAACTCA
Found at i:3100388 original size:29 final size:30
Alignment explanation
Indices: 3100349--3100427 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
3100339 CTTAATAATC
3100349 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
3100379 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
3100408 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
3100428 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:3103202 original size:40 final size:40
Alignment explanation
Indices: 3103151--3103373 Score: 281
Period size: 40 Copynumber: 5.6 Consensus size: 40
3103141 TTGAATGCTG
* * * * *
3103151 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAA
* *
3103191 TCCGGATTAAGTTCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
3103231 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
*
3103271 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
* * **
3103311 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
* *
3103350 TCCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
3103374 TGAACGAGGA
Statistics
Matches: 166, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.21
40 123 0.74
41 8 0.05
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.29
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
Found at i:3103393 original size:79 final size:80
Alignment explanation
Indices: 3103151--3103408 Score: 234
Period size: 80 Copynumber: 3.2 Consensus size: 80
3103141 TTGAATGCTG
* * * * * * ** *
3103151 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGTTCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATT
* ** ** *
3103215 CGTGCGAGTTGTTAAA
65 TGAACGAGGAGCTAAA
** *
3103231 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
** ** *
3103296 GTGCGAGTTGTTAAA
66 GAACGAGGAGCTAAA
* * *
3103311 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAATCCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
*
3103375 GAACGAGGAGCTATA
66 GAACGAGGAGCTAAA
*
3103390 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
3103409 TACGTGATTT
Statistics
Matches: 153, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
78 14 0.09
79 47 0.31
80 86 0.56
81 6 0.04
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.28
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GAACGAGGAGCTAAA
Found at i:3109898 original size:24 final size:25
Alignment explanation
Indices: 3109856--3109914 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 25
3109846 TATGCTCCTC
*
3109856 TTGAGCTGATAAACAGTAAGCTCTA
1 TTGAGCTGAAAAACAGTAAGCTCTA
* *
3109881 TTGAGCT-AAAAACGGTAAGCTTTA
1 TTGAGCTGAAAAACAGTAAGCTCTA
*
3109905 CTGAGCTGAA
1 TTGAGCTGAA
3109915 TAATAAGAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 20 0.69
25 9 0.31
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (25 bp):
TTGAGCTGAAAAACAGTAAGCTCTA
Found at i:3112904 original size:30 final size:30
Alignment explanation
Indices: 3112870--3112930 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
3112860 TTCCCGAGCC
3112870 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
3112900 TAGGGGCAAAATTGTAATTTTTCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
3112930 T
1 T
3112931 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:3113324 original size:15 final size:15
Alignment explanation
Indices: 3113304--3113334 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
3113294 GTACATGAAG
3113304 TGCATTGAATTATCA
1 TGCATTGAATTATCA
3113319 TGCATTGAATTATCA
1 TGCATTGAATTATCA
3113334 T
1 T
3113335 ACATAAATGT
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:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (15 bp):
TGCATTGAATTATCA
Found at i:3115212 original size:51 final size:51
Alignment explanation
Indices: 3115136--3115236 Score: 184
Period size: 51 Copynumber: 2.0 Consensus size: 51
3115126 CAAGATTTTC
*
3115136 GTAAGTTCTCAGTTTAGTCTCGAACCCTTTCTAAAGTATGTTTTGGGCTTT
1 GTAAGTTCTCAGTTTAGTCCCGAACCCTTTCTAAAGTATGTTTTGGGCTTT
*
3115187 GTAAGTTCTCGGTTTAGTCCCGAACCCTTTCTAAAGTATGTTTTGGGCTT
1 GTAAGTTCTCAGTTTAGTCCCGAACCCTTTCTAAAGTATGTTTTGGGCTT
3115237 CGTAGACTCA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.42
Consensus pattern (51 bp):
GTAAGTTCTCAGTTTAGTCCCGAACCCTTTCTAAAGTATGTTTTGGGCTTT
Found at i:3123122 original size:28 final size:28
Alignment explanation
Indices: 3123059--3123212 Score: 274
Period size: 28 Copynumber: 5.5 Consensus size: 28
3123049 ATATTAAGTC
* *
3123059 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
3123086 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
3123114 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
3123142 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
3123170 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
3123198 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
3123213 GTACAATTTA
Statistics
Matches: 124, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
27 22 0.18
28 102 0.82
ACGTcount: A:0.34, C:0.29, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:3123149 original size:56 final size:56
Alignment explanation
Indices: 3123059--3123237 Score: 279
Period size: 56 Copynumber: 3.2 Consensus size: 56
3123049 ATATTAAGTC
* *
3123059 CGCACACTCAGTGCTATATAATC-AACTCGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTATATAATCAAACT
*
3123114 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTATATAATCAAACT
* * * *
3123170 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTATATAA-TCAAACT
3123227 CGCACACTTAG
1 CGCACACTTAG
3123238 CACCGATCTC
Statistics
Matches: 114, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
55 21 0.18
56 77 0.68
57 16 0.14
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (56 bp):
CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTATATAATCAAACT
Found at i:3126520 original size:25 final size:25
Alignment explanation
Indices: 3126464--3126520 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
3126454 CTCCTAAATT
*
3126464 TTAATTTAATTATCTAATTTTTCAA
1 TTAATTAAATTATCTAATTTTTCAA
*
3126489 TTTATTAAATTAT-TAATATTTT-ATA
1 TTAATTAAATTATCTAAT-TTTTCA-A
3126514 TTAATTA
1 TTAATTA
3126521 GATTTTTGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 5 0.19
25 22 0.81
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.58
Consensus pattern (25 bp):
TTAATTAAATTATCTAATTTTTCAA
Found at i:3129466 original size:21 final size:20
Alignment explanation
Indices: 3129421--3129466 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
3129411 TTGTTGGAAT
3129421 GGTT-AATTTAATCAGTTTA
1 GGTTGAATTTAATCAGTTTA
*
3129440 GCTTGAATTTAATTC-GTCTTA
1 GGTTGAATTTAA-TCAGT-TTA
3129461 GGTTGA
1 GGTTGA
3129467 TTGCATTTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.26, C:0.09, G:0.20, T:0.46
Consensus pattern (20 bp):
GGTTGAATTTAATCAGTTTA
Found at i:3131272 original size:24 final size:24
Alignment explanation
Indices: 3131244--3131298 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
3131234 GGGTTCACAG
*
3131244 TCGTGTCCTAGCCTGTGTCCTCAC
1 TCGTGTACTAGCCTGTGTCCTCAC
3131268 TCGTGTACTAGCCTGTGTCCTCAC
1 TCGTGTACTAGCCTGTGTCCTCAC
3131292 TCGTGTA
1 TCGTGTA
3131299 ACTCTCAAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.11, C:0.33, G:0.22, T:0.35
Consensus pattern (24 bp):
TCGTGTACTAGCCTGTGTCCTCAC
Found at i:3137570 original size:21 final size:22
Alignment explanation
Indices: 3137541--3137597 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
3137531 ATTCGTGGAC
* *
3137541 AATGAGCCACATAATTGTTGAT-
1 AATG-GCCACATAATCGTAGATA
3137563 AATGGCCACATAATCGTAGATA
1 AATGGCCACATAATCGTAGATA
*
3137585 AATTGCCACATAA
1 AATGGCCACATAA
3137598 CTTCCACCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
21 15 0.48
22 16 0.52
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.26
Consensus pattern (22 bp):
AATGGCCACATAATCGTAGATA
Found at i:3140897 original size:40 final size:40
Alignment explanation
Indices: 3140853--3141062 Score: 253
Period size: 40 Copynumber: 5.2 Consensus size: 40
3140843 TCTTCGAGGT
* * *
3140853 TTAGCACGGATATATTACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGAAC
* * *
3140893 TTAGCCCGGATACATCACTAGCACAAATGCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGAAC
* *
3140933 TTAGCCCGGATATATCACTAGCATGAATGCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGAAC
* *
3140973 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGAAC
* * * * *
3141013 TTAGTCCGGATATGGTCACTTAGCAC-AAAGC-CTTCGGGAC
1 TTAGCCCGGATAT-ATCAC-TAGCACGAATGCTCCTCGGAAC
3141053 TTAGCCCGGA
1 TTAGCCCGGA
3141063 CATCATTCAA
Statistics
Matches: 149, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
40 135 0.91
41 8 0.05
42 6 0.04
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGAAC
Found at i:3140945 original size:80 final size:80
Alignment explanation
Indices: 3140853--3141062 Score: 289
Period size: 80 Copynumber: 2.6 Consensus size: 80
3140843 TCTTCGAGGT
* * *
3140853 TTAGCACGGATATATTACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACA
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACA
*
3140918 AATGCTCCTCGGGAC
66 AATGCTCCTCGGAAC
* * *
3140933 TTAGCCCGGATATATCACTAGCATGAATGCTCCTCGGGACTTAGCCCGGATACATCACTAGCACG
1 TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACA
*
3140998 AATGCTCTTCGGAAC
66 AATGCTCCTCGGAAC
* * *
3141013 TTAGTCCGGATATGGTCACTTAGCAC-AAAGC-CTTCGGGACTTAGCCCGGA
1 TTAGCCCGGATAT-ATCAC-TAGCACGAATGCTCTTCGGGACTTAGCCCGGA
3141063 CATCATTCAA
Statistics
Matches: 115, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
80 102 0.89
81 8 0.07
82 5 0.04
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACA
AATGCTCCTCGGAAC
Found at i:3141407 original size:29 final size:29
Alignment explanation
Indices: 3141368--3141446 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
3141358 CTTAATAATC
*
3141368 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
3141398 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
3141427 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
3141447 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:3156246 original size:23 final size:24
Alignment explanation
Indices: 3156218--3156308 Score: 103
Period size: 24 Copynumber: 3.8 Consensus size: 24
3156208 CTCGAATACT
*
3156218 CCACAAAGGCACTTACAGAA-ATG
1 CCACAAAGGCACTTACAGAAGAAG
* * *
3156241 CAACAAAGGCACTAACAGAATAAG
1 CCACAAAGGCACTTACAGAAGAAG
* *
3156265 CCACAAAGGCACTTATAGAAGACG
1 CCACAAAGGCACTTACAGAAGAAG
* *
3156289 CCATAAGGGCACTTACAGAA
1 CCACAAAGGCACTTACAGAA
3156309 CATGTGTTTA
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
23 18 0.32
24 38 0.68
ACGTcount: A:0.45, C:0.24, G:0.19, T:0.12
Consensus pattern (24 bp):
CCACAAAGGCACTTACAGAAGAAG
Found at i:3156275 original size:24 final size:23
Alignment explanation
Indices: 3156218--3156277 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
3156208 CTCGAATACT
* *
3156218 CCACAAAGGCACTTACAGAAATG
1 CCACAAAGGCACTAACAGAAAAG
*
3156241 CAACAAAGGCACTAACAGAATAAG
1 CCACAAAGGCACTAACAGAA-AAG
3156265 CCACAAAGGCACT
1 CCACAAAGGCACT
3156278 TATAGAAGAC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 18 0.56
24 14 0.44
ACGTcount: A:0.47, C:0.27, G:0.17, T:0.10
Consensus pattern (23 bp):
CCACAAAGGCACTAACAGAAAAG
Found at i:3157528 original size:22 final size:22
Alignment explanation
Indices: 3157500--3157568 Score: 93
Period size: 22 Copynumber: 3.1 Consensus size: 22
3157490 GCACTAATAT
*
3157500 AACAATAGGCACCGAAGTGCAA
1 AACAATAGGCACCGAAGTGCGA
* *
3157522 AACAATAGGCACTGAAGTGCGG
1 AACAATAGGCACCGAAGTGCGA
* *
3157544 AACGATAAGCACCGAAGTGCGA
1 AACAATAGGCACCGAAGTGCGA
3157566 AAC
1 AAC
3157569 GATAAGCGCT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.42, C:0.22, G:0.26, T:0.10
Consensus pattern (22 bp):
AACAATAGGCACCGAAGTGCGA
Found at i:3157569 original size:22 final size:22
Alignment explanation
Indices: 3157508--3157575 Score: 91
Period size: 22 Copynumber: 3.1 Consensus size: 22
3157498 ATAACAATAG
* * *
3157508 GCACCGAAGTGCAAAACAATAG
1 GCACCGAAGTGCGAAACGATAA
* *
3157530 GCACTGAAGTGCGGAACGATAA
1 GCACCGAAGTGCGAAACGATAA
3157552 GCACCGAAGTGCGAAACGATAA
1 GCACCGAAGTGCGAAACGATAA
3157574 GC
1 GC
3157576 GCTAAAGTGC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.40, C:0.22, G:0.28, T:0.10
Consensus pattern (22 bp):
GCACCGAAGTGCGAAACGATAA
Found at i:3157583 original size:22 final size:22
Alignment explanation
Indices: 3157536--3157605 Score: 70
Period size: 22 Copynumber: 3.1 Consensus size: 22
3157526 ATAGGCACTG
* * **
3157536 AAGTGCGGAACGATAAGCACCG
1 AAGTGCGAAACGATAAGCGCTA
3157558 AAGTGCGAAACGATAAGCGCTA
1 AAGTGCGAAACGATAAGCGCTA
3157580 AAGTGC-AAGACGATAAACGCGCTA
1 AAGTGCGAA-ACGAT-AA-GCGCTA
3157604 AA
1 AA
3157606 ATTTCCTTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
21 2 0.05
22 29 0.71
23 2 0.05
24 8 0.20
ACGTcount: A:0.41, C:0.20, G:0.27, T:0.11
Consensus pattern (22 bp):
AAGTGCGAAACGATAAGCGCTA
Found at i:3157593 original size:44 final size:44
Alignment explanation
Indices: 3157508--3157595 Score: 106
Period size: 44 Copynumber: 2.0 Consensus size: 44
3157498 ATAACAATAG
* * *
3157508 GCACCGAAGTGCAAAACAATAGGCACTGAAGTGCGGAACGATAA
1 GCACCGAAGTGCAAAACAATAAGCACTAAAGTGCAGAACGATAA
* * *
3157552 GCACCGAAGTGCGAAACGATAAGCGCTAAAGTGCA-AGACGATAA
1 GCACCGAAGTGCAAAACAATAAGCACTAAAGTGCAGA-ACGATAA
3157596 ACGCGCTAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
43 1 0.03
44 36 0.97
ACGTcount: A:0.41, C:0.20, G:0.27, T:0.11
Consensus pattern (44 bp):
GCACCGAAGTGCAAAACAATAAGCACTAAAGTGCAGAACGATAA
Found at i:3159296 original size:19 final size:19
Alignment explanation
Indices: 3159269--3159311 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
3159259 TCATCCATTT
*
3159269 TTCCTTAGTTTCTAGATCC
1 TTCCATAGTTTCTAGATCC
3159288 TTCCATAGTTTCTAGATCC
1 TTCCATAGTTTCTAGATCC
3159307 TTCCA
1 TTCCA
3159312 CCCTTAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (19 bp):
TTCCATAGTTTCTAGATCC
Found at i:3159769 original size:33 final size:33
Alignment explanation
Indices: 3159732--3159801 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
3159722 CAGATCCAAC
* *
3159732 ATTTTAAACACACATCTGTGTTATAAATACGTG
1 ATTTTAAACACACATCTATGTTATAAATACATG
*
3159765 ATTTTTAACACACATCTATGTTATAAATACATG
1 ATTTTAAACACACATCTATGTTATAAATACATG
3159798 ATTT
1 ATTT
3159802 CCACACACAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (33 bp):
ATTTTAAACACACATCTATGTTATAAATACATG
Found at i:3160695 original size:3 final size:3
Alignment explanation
Indices: 3160687--3160713 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
3160677 AAAATGTATG
3160687 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
3160714 TGAGATGCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:3160765 original size:25 final size:24
Alignment explanation
Indices: 3160729--3160788 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
3160719 TGCTTAGTTA
*
3160729 TTAC-TATGTGATATTCAATAAT-T
1 TTACATATTTGAT-TTCAATAATAT
*
3160752 TTACATTATTTGATTTTAATAATAT
1 TTACA-TATTTGATTTCAATAATAT
*
3160777 TTATATATTTGA
1 TTACATATTTGA
3160789 GAATGTCGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 4 0.13
24 15 0.48
25 12 0.39
ACGTcount: A:0.35, C:0.05, G:0.07, T:0.53
Consensus pattern (24 bp):
TTACATATTTGATTTCAATAATAT
Found at i:3160967 original size:49 final size:49
Alignment explanation
Indices: 3160895--3160998 Score: 201
Period size: 49 Copynumber: 2.1 Consensus size: 49
3160885 ATTACGAATT
3160895 GTTTTATCTAATTAATTAATATTTTGCTATTGGTTGTTTTGAAATGTTA
1 GTTTTATCTAATTAATTAATATTTTGCTATTGGTTGTTTTGAAATGTTA
3160944 GTTTTATCTAATTAATTAATATTTTGCTATTGGTTGTTTTGAAATGTTA
1 GTTTTATCTAATTAATTAATATTTTGCTATTGGTTGTTTTGAAATGTTA
3160993 -TTTTAT
1 GTTTTAT
3160999 TATCTAAATT
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
48 6 0.11
49 49 0.89
ACGTcount: A:0.26, C:0.04, G:0.13, T:0.57
Consensus pattern (49 bp):
GTTTTATCTAATTAATTAATATTTTGCTATTGGTTGTTTTGAAATGTTA
Found at i:3164584 original size:23 final size:23
Alignment explanation
Indices: 3164556--3164605 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
3164546 TATATTTTTG
*
3164556 ATATATTATAT-ATATTAAAAAAT
1 ATATATTAAATAATA-TAAAAAAT
3164579 ATATA-TAAATAATATAAAAAAT
1 ATATATTAAATAATATAAAAAAT
3164601 A-ATAT
1 ATATAT
3164606 GGGTCGAGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
21 3 0.12
22 13 0.54
23 8 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
ATATATTAAATAATATAAAAAAT
Found at i:3185593 original size:70 final size:71
Alignment explanation
Indices: 3185507--3185769 Score: 187
Period size: 71 Copynumber: 3.7 Consensus size: 71
3185497 CTTTTGATTC
* *
3185507 GCTAACTGTGTTGTGGCTACGGTTTTGCACTTGTGAGCCTTAATATGACA-ACTAGGAGTTTTTA
1 GCTAACTGTGTCGTGGCTACGGTTTTGCACCTGTGAGCCTTAATATGACAGA-TAGGAGTTTTTA
*
3185571 ATTCT-T
65 ACTCTCT
** * * * * *
3185577 GCTAACTGTGTCGTGGCTGTGGTTTTTCTCCTGTGAGCCTTAGTATGATAGATGGGAGTTTTTAA
1 GCTAACTGTGTCGTGGCTACGGTTTTGCACCTGTGAGCCTTAATATGACAGATAGGAGTTTTTAA
3185642 CTCTCT
66 CTCTCT
* * * ** * ** ** * * **
3185648 -CTAACTGTGTTGGAGGTTGTGATTTTTAACCTACGAGCATTAATATTACACCT-GAGAGTTTTT
1 GCTAACTGTG-TCGTGGCTACGGTTTTGCACCTGTGAGCCTTAATATGACAGATAG-GAGTTTTT
3185711 AACTCTC-
64 AACTCTCT
* * * *
3185718 GCTAACTGTGCTGGAGGCTGCGAATTTT-CACCTGTGAGCCTTAATATGACAG
1 GCTAACTGTG-TCGTGGCTACG-GTTTTGCACCTGTGAGCCTTAATATGACAG
3185770 CTAATAGCTT
Statistics
Matches: 154, Mismatches: 33, Indels: 11
0.78 0.17 0.06
Matches are distributed among these distances:
70 67 0.44
71 82 0.53
72 5 0.03
ACGTcount: A:0.21, C:0.17, G:0.24, T:0.38
Consensus pattern (71 bp):
GCTAACTGTGTCGTGGCTACGGTTTTGCACCTGTGAGCCTTAATATGACAGATAGGAGTTTTTAA
CTCTCT
Found at i:3185711 original size:71 final size:71
Alignment explanation
Indices: 3185541--3186094 Score: 365
Period size: 71 Copynumber: 7.9 Consensus size: 71
3185531 TTGCACTTGT
* * * * * *
3185541 GAGCCTTAATATGACAACT-AGGAGTTTTTAATTCT-TGCTAACTGTG-TCGTGGCTGTGGTTTT
1 GAGCCTTAATATGACAGCTGA-GAGTTTTTAACTCTCT-CTAACTGTGTTGGAGGCTGCGATTTT
* **
3185603 TCTCCTGT
64 TCACCTAC
* * * * * * *
3185611 GAGCCTTAGTATGATAGATGGGAGTTTTTAACTCTCTCTAACTGTGTTGGAGGTTGTGATTTTTA
1 GAGCCTTAATATGACAGCTGAGAGTTTTTAACTCTCTCTAACTGTGTTGGAGGCTGCGATTTTTC
3185676 ACCTAC
66 ACCTAC
* * * * * *
3185682 GAGCATTAATATTACACCTGAGAGTTTTTAACTCTCGCTAACTGTGCTGGAGGCTGCGAATTTTC
1 GAGCCTTAATATGACAGCTGAGAGTTTTTAACTCTCTCTAACTGTGTTGGAGGCTGCGATTTTTC
**
3185747 ACCTGT
66 ACCTAC
* * * * **
3185753 GAGCCTTAATATGACAGCTAATAG-CTTT-GCTCT-TGCTAACTGTGTTGGAGGCTATGATTTTT
1 GAGCCTTAATATGACAGCTGAGAGTTTTTAACTCTCT-CTAACTGTGTTGGAGGCTGCGA-TTTT
*
3185815 TCACCTGC
64 TCACCTAC
** * * * * ** *
3185823 GAGCC-T--TATGACATTTGGGAGTTTGTAACTCTCGCTAACTATGTTAAAGGCTACGATTTTTC
1 GAGCCTTAATATGACAGCTGAGAGTTTTTAACTCTCTCTAACTGTGTTGGAGGCTGCGATTTTTC
3185885 ACCTAC
66 ACCTAC
* * * * * * * *
3185891 GAGCCCT-GTGATGGCAGCTGGGAGCTTTGT---TCTCTCTAACTGTGTTGGAGGTTGTGGTTTT
1 GAGCCTTAAT-ATGACAGCTGAGAG-TTTTTAACTCTCTCTAACTGTGTTGGAGGCTGCGATTTT
3185952 TCACCTAC
64 TCACCTAC
* * * * * *
3185960 AAGCCTTAATATGACATCTGA-ATGTTTTTAACTCT-TGCTAGCTGTG-TCGTGGCTACGATTTT
1 GAGCCTTAATATGACAGCTGAGA-GTTTTTAACTCTCT-CTAACTGTGTTGGAGGCTGCGATTTT
3186022 TCACCTAC
64 TCACCTAC
* * *
3186030 GAGCCTTAATATGACAGTTGAGAGCTTTGT---TCTCTCTAACTGTGTTGGAGGTTGC-AGTTTT
1 GAGCCTTAATATGACAGCTGAGAG-TTTTTAACTCTCTCTAACTGTGTTGGAGGCTGCGA-TTTT
3186091 TCAC
64 TCAC
3186095 TTGTGAGCCT
Statistics
Matches: 371, Mismatches: 90, Indels: 47
0.73 0.18 0.09
Matches are distributed among these distances:
67 10 0.03
68 35 0.09
69 107 0.29
70 95 0.26
71 119 0.32
72 5 0.01
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.38
Consensus pattern (71 bp):
GAGCCTTAATATGACAGCTGAGAGTTTTTAACTCTCTCTAACTGTGTTGGAGGCTGCGATTTTTC
ACCTAC
Found at i:3185884 original size:138 final size:134
Alignment explanation
Indices: 3185643--3186106 Score: 446
Period size: 138 Copynumber: 3.3 Consensus size: 134
3185633 AGTTTTTAAC
* * * * * *
3185643 TCTCTCTAACTGTGTTGGAGGTTGTGATTTTTAACCTACGAGCATTAATATTACACCTGAGAGTT
1 TCTCTCTAACTGTGTTGGAGGTTGAG-TTTTTCACCTGCGAGC-CT--TATGACATCTG-GAGTT
* * * ** *
3185708 TTTAACTCTCGCTAACTGTGCTGGAGGCTGCGAATTTTCACCTGTGAGCCTTAATATGACAGCTA
61 TTTAACTCTCGCTAACTGTG-TAGAGGCTACGATTTTTCACCTACGAGCCTTAATATGACAGCTG
* *
3185773 ATAGCTTTGC
125 AGAGCTTTGT
* *
3185783 TCT-TGCTAACTGTGTTGGAGGCTATGATTTTTTCACCTGCGAGCCTTATGACATTTGGGAGTTT
1 TCTCT-CTAACTGTGTTGGAGG-T-TGAGTTTTTCACCTGCGAGCCTTATGACATCT-GGAGTTT
* * * * * *
3185847 GTAACTCTCGCTAACTATGTTAAAGGCTACGATTTTTCACCTACGAGCCCT-GTGATGGCAGCTG
62 TTAACTCTCGCTAACTGTG-TAGAGGCTACGATTTTTCACCTACGAGCCTTAAT-ATGACAGCTG
*
3185911 GGAGCTTTGT
125 AGAGCTTTGT
* * * *
3185921 TCTCTCTAACTGTGTTGGAGGTTGTGGTTTTTCACCTACAAGCCTTAATATGACATCTGAATGTT
1 TCTCTCTAACTGTGTTGGAGGTTG-AGTTTTTCACCTGCGAGCC-T--TATGACATCTGGA-GTT
* * * * *
3185986 TTTAACTCTTGCTAGCTGTGTCGTGGCTACGATTTTTCACCTACGAGCCTTAATATGACAGTTGA
61 TTTAACTCTCGCTAACTGTGTAGAGGCTACGATTTTTCACCTACGAGCCTTAATATGACAGCTGA
3186051 GAGCTTTGT
126 GAGCTTTGT
* *
3186060 TCTCTCTAACTGTGTTGGAGGTTGCAGTTTTTCACTTGTGAGCCTTA
1 TCTCTCTAACTGTGTTGGAGGTTG-AGTTTTTCACCTGCGAGCCTTA
3186107 GTGTGACAGT
Statistics
Matches: 264, Mismatches: 48, Indels: 28
0.78 0.14 0.08
Matches are distributed among these distances:
136 4 0.02
137 17 0.06
138 90 0.34
139 87 0.33
140 49 0.19
141 15 0.06
142 2 0.01
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (134 bp):
TCTCTCTAACTGTGTTGGAGGTTGAGTTTTTCACCTGCGAGCCTTATGACATCTGGAGTTTTTAA
CTCTCGCTAACTGTGTAGAGGCTACGATTTTTCACCTACGAGCCTTAATATGACAGCTGAGAGCT
TTGT
Found at i:3186105 original size:69 final size:69
Alignment explanation
Indices: 3185643--3186138 Score: 300
Period size: 69 Copynumber: 7.1 Consensus size: 69
3185633 AGTTTTTAAC
* * * * **
3185643 TCTCTCTAACTGTGTTGGAGGTTGTGATTTTTAACCTACGAGCATTAATATTACACCTGAGAG-T
1 TCTCTCTAACTGTGTTGGAGGTTGCGATTTTTCACCTACGAGCCTTAATATGACAGTTGAGAGCT
3185707 TT-T
66 TTGT
* * * ** * * *
3185710 TAACTCTCGCTAACTGTGCTGGAGGCTGCGAATTTTCACCTGTGAGCCTTAATATGACAGCTAAT
1 T--CTCT--CTAACTGTGTTGGAGGTTGCGATTTTTCACCTACGAGCCTTAATATGACAGTTGAG
*
3185775 AGCTTTGC
62 AGCTTTGT
* ** * * *
3185783 TCT-TGCTAACTGTGTTGGAGGCTATGATTTTTTCACCTGCGAGCC-T--TATGACATTTGGGAG
1 TCTCT-CTAACTGTGTTGGAGGTTGCGA-TTTTTCACCTACGAGCCTTAATATGACAGTTGAGAG
3185844 -TTTGT
64 CTTTGT
* * ** * * * * * * *
3185849 AACTCTCGCTAACTATGTTAAAGGCTACGATTTTTCACCTACGAGCCCT-GTGATGGCAGCTGGG
1 ---TCTCTCTAACTGTGTTGGAGGTTGCGATTTTTCACCTACGAGCCTTAAT-ATGACAGTTGAG
3185913 AGCTTTGT
62 AGCTTTGT
* * *
3185921 TCTCTCTAACTGTGTTGGAGGTTGTGGTTTTTCACCTACAAGCCTTAATATGACA-TCTGA-ATG
1 TCTCTCTAACTGTGTTGGAGGTTGCGATTTTTCACCTACGAGCCTTAATATGACAGT-TGAGA-G
3185984 -TTT-T
64 CTTTGT
* * * * *
3185988 TAACTCTTGCTAGCTGTG-TCGTGGCTACGATTTTTCACCTACGAGCCTTAATATGACAGTTGAG
1 T--CTC-T-CTAACTGTGTTGGAGGTTGCGATTTTTCACCTACGAGCCTTAATATGACAGTTGAG
3186052 AGCTTTGT
62 AGCTTTGT
* ** * * ** *
3186060 TCTCTCTAACTGTGTTGGAGGTTGC-AGTTTTTCACTTGTGAGCCTTAGTGTGACAGTAAATAGC
1 TCTCTCTAACTGTGTTGGAGGTTGCGA-TTTTTCACCTACGAGCCTTAATATGACAGTTGAGAGC
*
3186124 TTTGC
65 TTTGT
3186129 TCTCTCTAAC
1 TCTCTCTAAC
3186139 AGTATAAAGA
Statistics
Matches: 332, Mismatches: 69, Indels: 54
0.73 0.15 0.12
Matches are distributed among these distances:
66 4 0.01
67 13 0.04
68 29 0.09
69 144 0.43
70 59 0.18
71 72 0.22
72 10 0.03
73 1 0.00
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (69 bp):
TCTCTCTAACTGTGTTGGAGGTTGCGATTTTTCACCTACGAGCCTTAATATGACAGTTGAGAGCT
TTGT
Found at i:3188510 original size:45 final size:45
Alignment explanation
Indices: 3188430--3188600 Score: 206
Period size: 45 Copynumber: 3.8 Consensus size: 45
3188420 ACAGATACAT
* * *
3188430 AGTGG-ATCATCACATAGC-ACCACCCTTATAGTCAATGATACTC
1 AGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACTC
* *
3188473 AGTGGAATCAGCACATAGCAACCACCTTCATAATCAATAATAC-C
1 AGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACTC
* *
3188517 TGGTGGAATCAGTACATAGCAACCACCTTTATAATCAATGATACAT-
1 -AGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATAC-TC
* * *
3188563 AGTGGAATCAGCACACAACAATCACCTTTATAATCAAT
1 AGTGGAATCAGCACATAGCAACCACCTTTATAATCAAT
3188601 TGTACCCGAT
Statistics
Matches: 109, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
43 5 0.05
44 13 0.12
45 91 0.83
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.25
Consensus pattern (45 bp):
AGTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACTC
Found at i:3191371 original size:18 final size:18
Alignment explanation
Indices: 3191346--3191386 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
3191336 TAATCAAATT
3191346 TTTA-ACAACCAT-CAATG
1 TTTATACAA-CATACAATG
*
3191363 TTTATACAACATACAATT
1 TTTATACAACATACAATG
3191381 TTTATA
1 TTTATA
3191387 GGATATTTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.41, C:0.17, G:0.02, T:0.39
Consensus pattern (18 bp):
TTTATACAACATACAATG
Found at i:3196732 original size:6 final size:6
Alignment explanation
Indices: 3196721--3196759 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
3196711 GAGCAATAAT
*
3196721 GAAAAG GAAAAG GAAAAA GAAAAG GAAAAG GAAAAG GAA
1 GAAAAG GAAAAG GAAAAG GAAAAG GAAAAG GAAAAG GAA
3196760 TGTGTTAGCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (6 bp):
GAAAAG
Found at i:3205091 original size:137 final size:137
Alignment explanation
Indices: 3204845--3205118 Score: 336
Period size: 137 Copynumber: 2.0 Consensus size: 137
3204835 AGATGTAAAA
* * * * * * *
3204845 TGGGTCTGCTCACCCAAGTTTTTGGTCAAAATGTAAGCTACATAATGTTGCTCACACAAGCTGTC
1 TGGGTCTGCTCACACAACTTGTCGGTCAAAACGTAAGCTACACAATGTTGCTCACACAAGCTATC
* * * * *
3204910 AAGTATCACAACTAATGTTGGACCTCAGCCATTGGTAAGACATTCAAGACCAGCACCTGAACCAT
66 AAGTATCACAACTAATGCTGGAACTCAGCCACTAGTAAGACATTCAAGACCAGCACCTGAAACAT
3204975 AGTAACC
131 AGTAACC
* **
3204982 TGGGTCTTCTCACACAACTTGTCGGTCAAAACGT-AGCTACACGGTGTTGCTCACACAAGCTATC
1 TGGGTCTGCTCACACAACTTGTCGGTCAAAACGTAAGCTACACAATGTTGCTCACACAAGCTATC
* * * *
3205046 AAGTATCCGCAAC-ACATGCTGGAACTCAGCCACTAGTAGGACATTCAGGACTAGCACCTGAAAC
66 AAGTAT-CACAACTA-ATGCTGGAACTCAGCCACTAGTAAGACATTCAAGACCAGCACCTGAAAC
*
3205110 ATGGTAACC
129 ATAGTAACC
3205119 CTAATGACAT
Statistics
Matches: 115, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
136 33 0.29
137 82 0.71
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (137 bp):
TGGGTCTGCTCACACAACTTGTCGGTCAAAACGTAAGCTACACAATGTTGCTCACACAAGCTATC
AAGTATCACAACTAATGCTGGAACTCAGCCACTAGTAAGACATTCAAGACCAGCACCTGAAACAT
AGTAACC
Found at i:3207415 original size:35 final size:34
Alignment explanation
Indices: 3207328--3207601 Score: 326
Period size: 35 Copynumber: 8.1 Consensus size: 34
3207318 GTCCAAAAAG
* *
3207328 AAATAATACATGAACAGGAGAGATTCCCTGCAA-G
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAACA
* *
3207362 AAATGAT-GTGAACAGGAGAGATTCCCTACAACA
1 AAATAATCGTGAACAGGAGAGATTCCCTGCAACA
*
3207395 AAATAATCCGTGAACAGGAGAGATTCCCTGCAA-G
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAACA
* *
3207429 AAATGAT-GTGAACAGGAAAGATTCCCTGCAACA
1 AAATAATCGTGAACAGGAGAGATTCCCTGCAACA
*
3207462 AAATAATGTGTGAACAGGAGAGATTCCCTGCAACA
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAACA
*
3207497 AAATAATGCGTGAACAGGAGAGATTCCCTGCAA-G
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAACA
* *
3207531 AAATGAT-GTGAACAGGAAAGATTCCCTGCAACA
1 AAATAATCGTGAACAGGAGAGATTCCCTGCAACA
* * * *
3207564 GAATAATGCGTGAACAGGAAATATTCCCTGCAAGA
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAACA
3207599 AAA
1 AAA
3207602 GACAAGTGAA
Statistics
Matches: 209, Mismatches: 22, Indels: 17
0.84 0.09 0.07
Matches are distributed among these distances:
32 68 0.33
33 17 0.08
34 18 0.09
35 106 0.51
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (34 bp):
AAATAATCGTGAACAGGAGAGATTCCCTGCAACA
Found at i:3207436 original size:67 final size:66
Alignment explanation
Indices: 3207328--3207601 Score: 327
Period size: 67 Copynumber: 4.0 Consensus size: 66
3207318 GTCCAAAAAG
* *
3207328 AAATAATACATGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAGAGATTCCCTACAA
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAGAGATTCCCTGCAA
3207393 CA
65 CA
*
3207395 AAATAATCCGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAAAGATTCCCTGCAA
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAGAGATTCCCTGCAA
3207460 CA
65 CA
* * *
3207462 AAATAATGTGTGAACAGGAGAGATTCCCTGCAACAAAATAATGCGTGAACAGGAGAGATTCCCTG
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAA-GAAATGAT--GTGAACAGGAGAGATTCCCTG
*
3207527 CAA-G
62 CAACA
* * * * * *
3207531 AAATGAT-GTGAACAGGAAAGATTCCCTGCAACAGAATAATGCGTGAACAGGAAATATTCCCTGC
1 AAATAATCGTGAACAGGAGAGATTCCCTGCAAGA-AATGAT--GTGAACAGGAGAGATTCCCTGC
*
3207595 AAGA
63 AACA
3207599 AAA
1 AAA
3207602 GACAAGTGAA
Statistics
Matches: 186, Mismatches: 16, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
66 1 0.01
67 147 0.79
68 9 0.05
69 6 0.03
70 23 0.12
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (66 bp):
AAATAATCGTGAACAGGAGAGATTCCCTGCAAGAAATGATGTGAACAGGAGAGATTCCCTGCAAC
A
Found at i:3207511 original size:102 final size:102
Alignment explanation
Indices: 3207338--3207601 Score: 417
Period size: 102 Copynumber: 2.6 Consensus size: 102
3207328 AAATAATACA
* * * *
3207338 TGAACAGGAGAGATTCCCTGCAA-GAAATGA--TGTGAACAGGAGAGATTCCCTACAACAAAATA
1 TGAACAGGAAAGATTCCCTGCAACAAAATAATGTGTGAACAGGAGAGATTCCCTGCAACAAAATA
3207400 ATCCGTGAACAGGAGAGATTCCCTGCAAGAAATGATG
66 ATCCGTGAACAGGAGAGATTCCCTGCAAGAAATGATG
3207437 TGAACAGGAAAGATTCCCTGCAACAAAATAATGTGTGAACAGGAGAGATTCCCTGCAACAAAATA
1 TGAACAGGAAAGATTCCCTGCAACAAAATAATGTGTGAACAGGAGAGATTCCCTGCAACAAAATA
*
3207502 ATGCGTGAACAGGAGAGATTCCCTGCAAGAAATGATG
66 ATCCGTGAACAGGAGAGATTCCCTGCAAGAAATGATG
* * * * *
3207539 TGAACAGGAAAGATTCCCTGCAACAGAATAATGCGTGAACAGGAAATATTCCCTGCAAGAAAA
1 TGAACAGGAAAGATTCCCTGCAACAAAATAATGTGTGAACAGGAGAGATTCCCTGCAACAAAA
3207602 GACAAGTGAA
Statistics
Matches: 152, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
99 22 0.14
100 5 0.03
102 125 0.82
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.18
Consensus pattern (102 bp):
TGAACAGGAAAGATTCCCTGCAACAAAATAATGTGTGAACAGGAGAGATTCCCTGCAACAAAATA
ATCCGTGAACAGGAGAGATTCCCTGCAAGAAATGATG
Found at i:3212907 original size:469 final size:469
Alignment explanation
Indices: 3212029--3212940 Score: 1393
Period size: 469 Copynumber: 1.9 Consensus size: 469
3212019 ACAGACATGG
*
3212029 GGTGGGACACGACTGTGTGTCCCTATTTCGAATGTTACTCGGCCTGAGACACGGGCATGTGTCTC
1 GGTGGGACACGACTGCGTGTCCCTATTTCGAATGTTACTCGGCCTGAGACACGGGCATGTGTCTC
* * **
3212094 AGCTGTGTGAGTCACACAATCGTGTGACCCCTGTAGTGTGAATTTTTCTAACTTTTTCCTCAATG
66 AGCCGTGTGAGTCACACAATCATGTGACCCCTGTAGTGAAAATTTTTCTAACTTTTTCCTCAATG
*
3212159 TTTCAAATGTTCCTGATTTAGTCCTGAATCGTTTCTAAAGTGTTTCTAAGACCTCGAGGGCTCGA
131 GTTCAAATGTTCCTGATTTAGTCCTGAATCGTTTCTAAAGTGTTTCTAAGACCTCGAGGGCTCGA
** * * *
3212224 ATAAGGGATGATTTGCATGTGTATGAATGAATTATTCCATGATTAATGAAATGTTTGGAAATGAA
196 ATAAGGGACAATATGCATGTGTATGAATGAATTATACCATGATTAATGAAATGTTTGAAAATGAA
* * *
3212289 TGCTTTAAGTTATGTTTTTACGGTAATGCTCCGTAACCCTATTCTGACAAATGATATGAGTTAAG
261 TGCTTTAAGTTACGATTTTACGGTAATGCTCCGTAACCCTATTCTGACAAATGATAGGAGTTAAG
* * * * *
3212354 GGTGTTACACATGTGTCTGGGTGACTACGCGCTTCGTGGGTATAGGCGAATTAAAACTGTGGCGA
326 GGTGGTACACATGTGTCTGGGTGACTACACGCTTCGTGGGTATAGACGAACTAAAACTGTAGCGA
*
3212419 GCTGGCTCCGTGAGCTTGTCCTTCTTGCGAGCTATTGGGTATATATGAATTGATACTATGGCAGG
391 GCTGGATCCGTGAGCTTGTCCTTCTTGCGAGCTATTGGGTATATATGAATTGATACTATGGCAGG
3212484 TTGAAGGGACACGA
456 TTGAAGGGACACGA
* * *
3212498 GGTGGGACACGGCTGCGTGTCCCTATTTCGAATGTTACAT-GGCTTGAGACATGGGCATGTGTCT
1 GGTGGGACACGACTGCGTGTCCCTATTTCGAATGTTAC-TCGGCCTGAGACACGGGCATGTGTCT
* * *
3212562 CGGCCGTGTGAGTCACACAGTCATGTGACTCCTGCT-GTGAAAATTTTTCTAACTTTGTT-CTCA
65 CAGCCGTGTGAGTCACACAATCATGTGACCCCTG-TAGTGAAAATTTTTCTAACTTT-TTCCTCA
*
3212625 ATGGTTCAAATGTTCCTGATTTAGTCCTGAATCGTTTCTAAAGTGTTTCTAAGGCCTCGAGGGCT
128 ATGGTTCAAATGTTCCTGATTTAGTCCTGAATCGTTTCTAAAGTGTTTCTAAGACCTCGAGGGCT
* * *
3212690 TGAATAAGGGACAATATGCATGTGTATGAATGAATTATACTATGATTAATGAACTGTTTGAAAAT
193 CGAATAAGGGACAATATGCATGTGTATGAATGAATTATACCATGATTAATGAAATGTTTGAAAAT
* * *
3212755 GAATGTTTTAAGTTACGATTTTACGGTAATGCTCCGTAACTCTATT-TCGACGAATGATACGGA-
258 GAATGCTTTAAGTTACGATTTTACGGTAATGCTCCGTAACCCTATTCT-GACAAATGATA-GGAG
* * * *
3212818 TTAGGGGTGGTACACATGTGTCTGGGTGACTGCACGCTTCGTGGGTATAGACGAACTGAAACTTT
321 TTAAGGGTGGTACACATGTGTCTGGGTGACTACACGCTTCGTGGGTATAGACGAACTAAAACTGT
* *
3212883 AGCGAGCTGGATCCGTGAGCTTGTCCTTCTTGTGAGCTATTGGGTATATGTGAATTGA
386 AGCGAGCTGGATCCGTGAGCTTGTCCTTCTTGCGAGCTATTGGGTATATATGAATTGA
3212941 GATTGTGGCG
Statistics
Matches: 399, Mismatches: 39, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
468 1 0.00
469 392 0.98
470 6 0.02
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (469 bp):
GGTGGGACACGACTGCGTGTCCCTATTTCGAATGTTACTCGGCCTGAGACACGGGCATGTGTCTC
AGCCGTGTGAGTCACACAATCATGTGACCCCTGTAGTGAAAATTTTTCTAACTTTTTCCTCAATG
GTTCAAATGTTCCTGATTTAGTCCTGAATCGTTTCTAAAGTGTTTCTAAGACCTCGAGGGCTCGA
ATAAGGGACAATATGCATGTGTATGAATGAATTATACCATGATTAATGAAATGTTTGAAAATGAA
TGCTTTAAGTTACGATTTTACGGTAATGCTCCGTAACCCTATTCTGACAAATGATAGGAGTTAAG
GGTGGTACACATGTGTCTGGGTGACTACACGCTTCGTGGGTATAGACGAACTAAAACTGTAGCGA
GCTGGATCCGTGAGCTTGTCCTTCTTGCGAGCTATTGGGTATATATGAATTGATACTATGGCAGG
TTGAAGGGACACGA
Found at i:3214960 original size:22 final size:22
Alignment explanation
Indices: 3214934--3214979 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
3214924 CATTACTTTT
3214934 AGGTCTGTATTTTTTTAAGTAA
1 AGGTCTGTATTTTTTTAAGTAA
3214956 AGGTCTGTATTTTTTTAAGTAA
1 AGGTCTGTATTTTTTTAAGTAA
3214978 AG
1 AG
3214980 TTGGGATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.28, C:0.04, G:0.20, T:0.48
Consensus pattern (22 bp):
AGGTCTGTATTTTTTTAAGTAA
Found at i:3226329 original size:4 final size:4
Alignment explanation
Indices: 3226322--3226379 Score: 55
Period size: 4 Copynumber: 14.5 Consensus size: 4
3226312 TAAATAAACA
* * * *
3226322 AATG AATG AAT- AAGTT AATA AATG GATG AATG AATG AACG AATG AATG
1 AATG AATG AATG AA-TG AATG AATG AATG AATG AATG AATG AATG AATG
*
3226370 AATG ATTG AA
1 AATG AATG AA
3226380 ATTGGGGCAC
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
3 2 0.05
4 40 0.91
5 2 0.05
ACGTcount: A:0.50, C:0.02, G:0.22, T:0.26
Consensus pattern (4 bp):
AATG
Found at i:3237326 original size:153 final size:148
Alignment explanation
Indices: 3237123--3237542 Score: 519
Period size: 149 Copynumber: 2.8 Consensus size: 148
3237113 AAAGTTTTGA
* * * *
3237123 TTTTTTTTAAAA-GAGAAAGTTTTGATTTT-AAGGAAA-AAAAATCTATTTTTTTAGTTATTTTA
1 TTTTTTTTAAAAGGAGAAAATTTAGATTTTGAA--AAATAAAAAT-AATTTTTTTAGTCATTTTA
* *
3237185 AAGGAAAGTTTAAAATTTTAAAACAAAGCTTTT-ATTTTTTTTCAACTATTTCAAAGTAAAAATT
63 AAGGAAAGTTTAAAATTTTAAAACAAAG-TTTTGATTTTTTTTCAACTATTTCAAAATAAAAACT
3237249 TTAATCTGTAAGAAAAATAGTG
127 TTAATCTGTAAGAAAAATAGTG
* * * *
3237271 TTCTTTCTTTAAAAAATGAGTAAGTTTAGATTTTGAAAAATAAAAATATTTTTTTTAGTCATTTT
1 TT-TTT-TTT--AAAAGGAGAAAATTTAGATTTTGAAAAATAAAAATAATTTTTTTAGTCATTTT
* * *
3237336 AAAGGAAATTTTAAAATTTTAAAACAAAGTTTTGATTTTTTTTTCAACTACTTCAAAATAAAAGC
62 AAAGGAAAGTTTAAAATTTTAAAACAAAGTTTTGA-TTTTTTTTCAACTATTTCAAAATAAAAAC
*
3237401 TTTAATCTTTAAGAAAAATAGTG
126 TTTAATCTGTAAGAAAAATAGTG
* * ** *
3237424 TTTTTTTTTAAAGGAGAAAATTTAGATTTTGAAAAATAAAAAGAAAATTTTAAGTCATTTTAAAG
1 TTTTTTTTAAAAGGAGAAAATTTAGATTTTGAAAAATAAAAATAATTTTTTTAGTCATTTTAAAG
* * *
3237489 GAAAGTTTAAAATTTTAAAATAAATTTTTGA-TTTTTTT-AACTATTTCGAAATAA
66 GAAAGTTTAAAATTTTAAAACAAAGTTTTGATTTTTTTTCAACTATTTCAAAATAA
3237543 GATAAATAAT
Statistics
Matches: 238, Mismatches: 25, Indels: 20
0.84 0.09 0.07
Matches are distributed among these distances:
146 14 0.06
147 7 0.03
148 2 0.01
149 79 0.33
150 3 0.01
151 7 0.03
152 54 0.23
153 70 0.29
154 2 0.01
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.43
Consensus pattern (148 bp):
TTTTTTTTAAAAGGAGAAAATTTAGATTTTGAAAAATAAAAATAATTTTTTTAGTCATTTTAAAG
GAAAGTTTAAAATTTTAAAACAAAGTTTTGATTTTTTTTCAACTATTTCAAAATAAAAACTTTAA
TCTGTAAGAAAAATAGTG
Found at i:3238143 original size:10 final size:10
Alignment explanation
Indices: 3238130--3238163 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
3238120 CACTTATATA
3238130 ATTTTTATTT
1 ATTTTTATTT
*
3238140 ATTTTT-TTC
1 ATTTTTATTT
3238149 ATTTTTATTT
1 ATTTTTATTT
3238159 ATTTT
1 ATTTT
3238164 CATGTCTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (10 bp):
ATTTTTATTT
Found at i:3238165 original size:16 final size:16
Alignment explanation
Indices: 3238137--3238176 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
3238127 ATAATTTTTA
*
3238137 TTTATTT-TTTTCATT
1 TTTATTTATTTTCATG
3238152 TTTATTTATTTTCATG
1 TTTATTTATTTTCATG
*
3238168 TCTATTTAT
1 TTTATTTAT
3238177 ATTTTTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.17, C:0.07, G:0.03, T:0.72
Consensus pattern (16 bp):
TTTATTTATTTTCATG
Found at i:3238913 original size:3 final size:3
Alignment explanation
Indices: 3238905--3238934 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
3238895 TTAAATCTTT
3238905 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3238935 AAGATCGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:3239613 original size:23 final size:20
Alignment explanation
Indices: 3239587--3239636 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
3239577 GGTTTTTTAG
3239587 TATTTGTGCATATTAGATTTATT
1 TATTTGTGC--ATTA-ATTTATT
*
3239610 TATTGGTGCATTAATTTATT
1 TATTTGTGCATTAATTTATT
*
3239630 TAATTGT
1 TATTTGT
3239637 CTAATGTCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 12 0.50
21 4 0.17
23 8 0.33
ACGTcount: A:0.26, C:0.04, G:0.14, T:0.56
Consensus pattern (20 bp):
TATTTGTGCATTAATTTATT
Found at i:3240234 original size:21 final size:19
Alignment explanation
Indices: 3240210--3240248 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
3240200 ATGCTTTATG
3240210 ATTTAACTTCTCATTTTTTTC
1 ATTTAACTT-T-ATTTTTTTC
*
3240231 ATTTGACTTTATTTTTTT
1 ATTTAACTTTATTTTTTT
3240249 ACTGACTTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 1 0.06
21 8 0.47
ACGTcount: A:0.18, C:0.13, G:0.03, T:0.67
Consensus pattern (19 bp):
ATTTAACTTTATTTTTTTC
Found at i:3251458 original size:91 final size:90
Alignment explanation
Indices: 3251303--3251469 Score: 203
Period size: 91 Copynumber: 1.8 Consensus size: 90
3251293 TTTGAAAGAT
* * * ** * *
3251303 TTTTATAAAATGTTGAGTATTGTACTTGTATTTTGAAAATATTTATTGTGATATCTGAACTATCA
1 TTTTATAAAATGTTGAGTATGGTACTTATACTTTGAAAATATCGAATGTGATATCTAAACTATCA
3251368 ATTTGTGTATTACTTAATACTTGTAC
66 ATTT-TGTATTACTTAATACTTGTAC
* *
3251394 TTTTATAAAATGATTGA-TGTGGTACTTATACTTTGAAAATATCGAATGTGGTA-CTTAAACTAT
1 TTTTATAAAATG-TTGAGTATGGTACTTATACTTTGAAAATATCGAATGTGATATC-TAAACTAT
*
3251457 CAGTTTTGTATTA
64 CAATTTTGTATTA
3251470 TTATGATATT
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
90 8 0.12
91 52 0.81
92 4 0.06
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.46
Consensus pattern (90 bp):
TTTTATAAAATGTTGAGTATGGTACTTATACTTTGAAAATATCGAATGTGATATCTAAACTATCA
ATTTTGTATTACTTAATACTTGTAC
Found at i:3256635 original size:42 final size:42
Alignment explanation
Indices: 3256588--3256672 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
3256578 ATACAAAGAT
*
3256588 AAATTTCAATATTTTATGATAACTAATTATAATTACTGACGA
1 AAATTTCAATATTCTATGATAACTAATTATAATTACTGACGA
*
3256630 AAATTTCAATATTCTATGATAACTGATTATAATTACTGACGA
1 AAATTTCAATATTCTATGATAACTAATTATAATTACTGACGA
3256672 A
1 A
3256673 GTCTAGTAAC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.39
Consensus pattern (42 bp):
AAATTTCAATATTCTATGATAACTAATTATAATTACTGACGA
Found at i:3258265 original size:23 final size:22
Alignment explanation
Indices: 3258230--3258275 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
3258220 TTTGATAATA
*
3258230 TGTTTTGATATAACAAATTAAAG
1 TGTTTTGAAATAA-AAATTAAAG
* *
3258253 TGTTTTTAAATAAAAGTTAAAG
1 TGTTTTGAAATAAAAATTAAAG
3258275 T
1 T
3258276 TGAACAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.43, C:0.02, G:0.13, T:0.41
Consensus pattern (22 bp):
TGTTTTGAAATAAAAATTAAAG
Found at i:3266994 original size:49 final size:49
Alignment explanation
Indices: 3266922--3267021 Score: 200
Period size: 49 Copynumber: 2.0 Consensus size: 49
3266912 GGGGGAGTTT
3266922 GATCTGCTGTAATTTGGTGAAGCAAATTAAACTAATTTTTGCACTTTAG
1 GATCTGCTGTAATTTGGTGAAGCAAATTAAACTAATTTTTGCACTTTAG
3266971 GATCTGCTGTAATTTGGTGAAGCAAATTAAACTAATTTTTGCACTTTAG
1 GATCTGCTGTAATTTGGTGAAGCAAATTAAACTAATTTTTGCACTTTAG
3267020 GA
1 GA
3267022 GCTTGAAAAC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (49 bp):
GATCTGCTGTAATTTGGTGAAGCAAATTAAACTAATTTTTGCACTTTAG
Found at i:3269339 original size:25 final size:26
Alignment explanation
Indices: 3269291--3269339 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
3269281 TAGATTAAAT
*
3269291 TTAATATTAATATAATCACTTTAATA
1 TTAATATTAATAAAATCACTTTAATA
3269317 TTAA-ATTAATAAAAT-ACTATTAA
1 TTAATATTAATAAAATCACT-TTAA
3269340 CATAAGTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 3 0.14
25 14 0.67
26 4 0.19
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (26 bp):
TTAATATTAATAAAATCACTTTAATA
Done.