Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 163 of 173
Found at i:48784593 original size:21 final size:21
Alignment explanation
Indices: 48784567--48784607 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
48784557 CAAAACTTGG
48784567 GGTTCGAGGTTCAGGGTCTAA
1 GGTTCGAGGTTCAGGGTCTAA
* **
48784588 GGTTCGGGGTTTTGGGTCTA
1 GGTTCGAGGTTCAGGGTCTA
48784608 GGATTCAAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.12, C:0.12, G:0.41, T:0.34
Consensus pattern (21 bp):
GGTTCGAGGTTCAGGGTCTAA
Found at i:48784964 original size:18 final size:17
Alignment explanation
Indices: 48784932--48784970 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
48784922 TTTATATAAG
48784932 TTAA-AATTTTATTATT
1 TTAATAATTTTATTATT
48784948 TTAATAATTTATATTATT
1 TTAATAATTT-TATTATT
48784966 TTAAT
1 TTAAT
48784971 TTTTAAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 4 0.19
17 5 0.24
18 12 0.57
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTAATAATTTTATTATT
Found at i:48789211 original size:15 final size:15
Alignment explanation
Indices: 48789191--48789228 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
48789181 TTGTATTAAT
*
48789191 TTTTTTATA-AATATA
1 TTTTTTATATAAT-GA
48789206 TTTTTTATATAATGA
1 TTTTTTATATAATGA
48789221 TTTTTTAT
1 TTTTTTAT
48789229 TTACATTGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 18 0.86
16 3 0.14
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (15 bp):
TTTTTTATATAATGA
Found at i:48790927 original size:20 final size:20
Alignment explanation
Indices: 48790902--48790939 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
48790892 AGACTTTTAA
*
48790902 AATTTTAATATTTTAAAAAT
1 AATTTTAATAATTTAAAAAT
*
48790922 AATTTTGATAATTTAAAA
1 AATTTTAATAATTTAAAA
48790940 TTTTTCTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (20 bp):
AATTTTAATAATTTAAAAAT
Found at i:48791466 original size:16 final size:16
Alignment explanation
Indices: 48791445--48791478 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
48791435 TAATCATTAT
*
48791445 AAAAAAATAATAGAGA
1 AAAAAAATAATAAAGA
48791461 AAAAAAATAATAAAGA
1 AAAAAAATAATAAAGA
48791477 AA
1 AA
48791479 GGGGCAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (16 bp):
AAAAAAATAATAAAGA
Found at i:48791490 original size:22 final size:22
Alignment explanation
Indices: 48791461--48791507 Score: 76
Period size: 23 Copynumber: 2.1 Consensus size: 22
48791451 ATAATAGAGA
*
48791461 AAAAAAATAATAAAGAAAGGGGC
1 AAAAAATTAATAAAG-AAGGGGC
48791484 AAAAAATTAATAAAGAAGGGGC
1 AAAAAATTAATAAAGAAGGGGC
48791506 AA
1 AA
48791508 GAGAAAAGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.64, C:0.04, G:0.21, T:0.11
Consensus pattern (22 bp):
AAAAAATTAATAAAGAAGGGGC
Found at i:48792733 original size:21 final size:22
Alignment explanation
Indices: 48792685--48792731 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
48792675 ATGTATTTAT
*
48792685 TAAAATTTTATATTAAAATTAA
1 TAAAATTTTATATTAAAATGAA
*
48792707 TAAAATTTTA-ATTGAAATG-A
1 TAAAATTTTATATTAAAATGAA
48792727 TAAAA
1 TAAAA
48792732 ATATTTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 6 0.26
21 7 0.30
22 10 0.43
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.40
Consensus pattern (22 bp):
TAAAATTTTATATTAAAATGAA
Found at i:48793928 original size:8 final size:8
Alignment explanation
Indices: 48793915--48793939 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
48793905 ATTAGCGTAC
48793915 TGATGTAT
1 TGATGTAT
48793923 TGATGTAT
1 TGATGTAT
48793931 TGATGTAT
1 TGATGTAT
48793939 T
1 T
48793940 TGAGGCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (8 bp):
TGATGTAT
Found at i:48798493 original size:8 final size:8
Alignment explanation
Indices: 48798482--48798507 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
48798472 AATATAGAAA
48798482 TATATTTT
1 TATATTTT
48798490 TATATTTT
1 TATATTTT
48798498 TATATTTT
1 TATATTTT
48798506 TA
1 TA
48798508 ACAATAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (8 bp):
TATATTTT
Found at i:48798824 original size:17 final size:17
Alignment explanation
Indices: 48798790--48798823 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
48798780 TTATTAATTA
48798790 TCTTTCTTCTTTTTTTT
1 TCTTTCTTCTTTTTTTT
48798807 TCTTT-TTCTTTTTTTT
1 TCTTTCTTCTTTTTTTT
48798823 T
1 T
48798824 TTTGCAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (17 bp):
TCTTTCTTCTTTTTTTT
Found at i:48801194 original size:41 final size:41
Alignment explanation
Indices: 48801149--48801231 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
48801139 AAAAGCCCTA
* *
48801149 ACACATATTCTCATCAACCATGTTAGTATGGATTTTATATG
1 ACACATATTCTCATCAACCATGTTAGTATGAATTTCATATG
48801190 ACACATATTCTCATCAACCATGTTAGTATGAATTTCATATG
1 ACACATATTCTCATCAACCATGTTAGTATGAATTTCATATG
48801231 A
1 A
48801232 ATATCAAGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (41 bp):
ACACATATTCTCATCAACCATGTTAGTATGAATTTCATATG
Found at i:48801540 original size:25 final size:25
Alignment explanation
Indices: 48801521--48801569 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
48801511 TAGCTCTTTC
48801521 GAGCCATATAACAGG-AAGCTCATGT
1 GAGCCATATAAC-GGAAAGCTCATGT
*
48801546 GAGCCATGTAACGGAAAGCTCATG
1 GAGCCATATAACGGAAAGCTCATG
48801570 AGAACTGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 2 0.09
25 20 0.91
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.18
Consensus pattern (25 bp):
GAGCCATATAACGGAAAGCTCATGT
Found at i:48801649 original size:50 final size:50
Alignment explanation
Indices: 48801577--48801680 Score: 138
Period size: 50 Copynumber: 2.1 Consensus size: 50
48801567 ATGAGAACTG
* * *
48801577 TAATTAGGAAACTCATGCGAGCCA-ATATCAGGGAAGCTCTAGAGAGCCAT
1 TAATTAGGAAACTCAAGAGAGCCATATATC-GGGAAGCTCCAGAGAGCCAT
* * *
48801627 TAATTGGGAAGCTCAAGAGAGCCATATATCGGGTAGCTCCAGAGAGCCAT
1 TAATTAGGAAACTCAAGAGAGCCATATATCGGGAAGCTCCAGAGAGCCAT
48801677 TAAT
1 TAAT
48801681 CAAGAAGCTC
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
50 42 0.89
51 5 0.11
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (50 bp):
TAATTAGGAAACTCAAGAGAGCCATATATCGGGAAGCTCCAGAGAGCCAT
Found at i:48801672 original size:27 final size:25
Alignment explanation
Indices: 48801607--48801764 Score: 126
Period size: 25 Copynumber: 6.3 Consensus size: 25
48801597 GCCAATATCA
* *
48801607 GGGAAGCTCTAGAGAGCCATTAATT
1 GGGAAGCTCAAGAGAGCCATTAATC
48801632 GGGAAGCTCAAGAGAGCCA-TATATC
1 GGGAAGCTCAAGAGAGCCATTA-ATC
* *
48801657 GGGTAGCTCCAGAGAGCCATTAATC
1 GGGAAGCTCAAGAGAGCCATTAATC
** * *
48801682 AAGAAGCTCATGAAAGAGCCTTTAATC
1 GGGAAGCTCA--AGAGAGCCATTAATC
* * *
48801709 AGGAAGCTCCAGAGAACCAATT-ATC
1 GGGAAGCTCAAGAGAGCC-ATTAATC
* *
48801734 GGGAAGCTCATA-CGAGCCATAAAT-
1 GGGAAGCTCA-AGAGAGCCATTAATC
48801758 GGGAAGC
1 GGGAAGC
48801765 CCATGAGAAC
Statistics
Matches: 106, Mismatches: 20, Indels: 15
0.75 0.14 0.11
Matches are distributed among these distances:
24 11 0.10
25 69 0.65
26 5 0.05
27 21 0.20
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.18
Consensus pattern (25 bp):
GGGAAGCTCAAGAGAGCCATTAATC
Found at i:48803502 original size:17 final size:18
Alignment explanation
Indices: 48803479--48803534 Score: 60
Period size: 19 Copynumber: 3.1 Consensus size: 18
48803469 TAATTATAAA
* *
48803479 AAAAATTAAAATATTTTT
1 AAAATTTAAAATATTTAT
48803497 AAAATTTTAAAATATTTAT
1 AAAA-TTTAAAATATTTAT
*
48803516 AAAAATTTCAAA-ATTTAT
1 -AAAATTTAAAATATTTAT
48803534 A
1 A
48803535 TTTTTAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
17 1 0.03
18 10 0.30
19 18 0.55
20 4 0.12
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (18 bp):
AAAATTTAAAATATTTAT
Found at i:48803506 original size:19 final size:20
Alignment explanation
Indices: 48803484--48803529 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
48803474 ATAAAAAAAA
*
48803484 TTAAAATATTT-TTAAAATT
1 TTAAAATATTTATAAAAATT
48803503 TTAAAATATTTATAAAAATT
1 TTAAAATATTTATAAAAATT
*
48803523 TCAAAAT
1 TTAAAAT
48803530 TTATATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (20 bp):
TTAAAATATTTATAAAAATT
Found at i:48803730 original size:16 final size:16
Alignment explanation
Indices: 48803709--48803739 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48803699 TTGAATTATT
48803709 TTTCAAATATATATGG
1 TTTCAAATATATATGG
*
48803725 TTTCAAATTTATATG
1 TTTCAAATATATATG
48803740 ATCTAACATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.48
Consensus pattern (16 bp):
TTTCAAATATATATGG
Found at i:48808580 original size:31 final size:31
Alignment explanation
Indices: 48808545--48808606 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
48808535 GACCCGTAGT
* *
48808545 CACATTGGATCCTGATTAAATTCTGAGTTGA
1 CACATCGGATCCCGATTAAATTCTGAGTTGA
*
48808576 CACATCGTATCCCGATTAAATTCTGAGTTGA
1 CACATCGGATCCCGATTAAATTCTGAGTTGA
48808607 GTCAAGTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (31 bp):
CACATCGGATCCCGATTAAATTCTGAGTTGA
Found at i:48817737 original size:90 final size:90
Alignment explanation
Indices: 48817584--48817762 Score: 358
Period size: 90 Copynumber: 2.0 Consensus size: 90
48817574 ATACTATCAT
48817584 CATCAAGATAAATTCATGCCATTTCATGTTAACAAGTCACCAAACCAATTCCAACTAAATCCAAT
1 CATCAAGATAAATTCATGCCATTTCATGTTAACAAGTCACCAAACCAATTCCAACTAAATCCAAT
48817649 TCTATCATGATCTCAATCTATTCAC
66 TCTATCATGATCTCAATCTATTCAC
48817674 CATCAAGATAAATTCATGCCATTTCATGTTAACAAGTCACCAAACCAATTCCAACTAAATCCAAT
1 CATCAAGATAAATTCATGCCATTTCATGTTAACAAGTCACCAAACCAATTCCAACTAAATCCAAT
48817739 TCTATCATGATCTCAATCTATTCA
66 TCTATCATGATCTCAATCTATTCA
48817763 AAACCAAACA
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 89 1.00
ACGTcount: A:0.38, C:0.26, G:0.06, T:0.30
Consensus pattern (90 bp):
CATCAAGATAAATTCATGCCATTTCATGTTAACAAGTCACCAAACCAATTCCAACTAAATCCAAT
TCTATCATGATCTCAATCTATTCAC
Found at i:48827364 original size:9 final size:9
Alignment explanation
Indices: 48827350--48827376 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
48827340 CCCGAAATTC
48827350 TTGATAAAT
1 TTGATAAAT
48827359 TTGATAAAT
1 TTGATAAAT
48827368 TTGATAAAT
1 TTGATAAAT
48827377 CTTAAACATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (9 bp):
TTGATAAAT
Found at i:48842626 original size:44 final size:44
Alignment explanation
Indices: 48842519--48842808 Score: 218
Period size: 44 Copynumber: 6.6 Consensus size: 44
48842509 AATATTAGAG
* * *
48842519 ATCTTATCTCCCTG-AGATTACGGTGGAGCAGATCG--TA-TCAA
1 ATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATCGAAGACACAA
* * * * *
48842560 GTCTTATCTCCCTG-AGACTACAGAGGAGCAGATCGGAGCCACAA
1 ATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATCGAAGACACAA
* * * * * *
48842604 ACCTTATCTCCCTGAAGTTACAGTGGGGCAGGTTGAATATACAA
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACACAA
* * * * *
48842648 GTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGA-ATTTCAG
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACA---CAA
* * * * *
48842694 GTCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAA
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACACAA
* * *
48842738 ATCTTATCTTCCTG-AGTTCACAGCGGAGCAGATCGAAGACAC-T
1 ATCTTATCTCCCTGAAGTT-ACAGTGGAGCAGATCGAAGACACAA
*
48842781 ATCCTATCTCCCTGAAGTTACAGTGGAG
1 ATCTTATCTCCCTGAAGTTACAGTGGAG
48842809 TGGATCTTAT
Statistics
Matches: 194, Mismatches: 45, Indels: 18
0.75 0.18 0.07
Matches are distributed among these distances:
41 31 0.16
43 24 0.12
44 99 0.51
45 2 0.01
46 37 0.19
47 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.26
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACACAA
Found at i:48842743 original size:90 final size:87
Alignment explanation
Indices: 48842519--48842808 Score: 225
Period size: 90 Copynumber: 3.3 Consensus size: 87
48842509 AATATTAGAG
* * * * * *
48842519 ATCTTATCTCCCTG-AGATTACGGTGGAGCAGATCG--TA-TCAAGTCTTATCTCCCTGAG-ACT
1 ATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATTGAAGACACAAATCTTATCTCCCTGAGTTC-
* * * * *
48842579 ACAGAGGAGCAGATCGGAGCCACAA
64 ACAGCGGAGCAGACCGAAGACAC-T
* * * * * *
48842604 ACCTTATCTCCCTGAAGTTACAGTGGGGCAGGTTGAATATACAAGTCTTATCTCCCTGAGGTT-A
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGACACAAATCTTATCTCCCTGA-GTTCA
* * *
48842668 CAGTGGAGTAGACCGAAGA-ATTT
65 CAGCGGAGCAGACCGAAGACA-CT
* * * *
48842691 CAGGTCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAAATCTTATCTTCCTGAGTT
1 -A--TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGACACAAATCTTATCTCCCTGAGTT
*
48842756 CACAGCGGAGCAGATCGAAGACACT
63 CACAGCGGAGCAGACCGAAGACACT
*
48842781 ATCCTATCTCCCTGAAGTTACAGTGGAG
1 ATCTTATCTCCCTGAAGTTACAGTGGAG
48842809 TGGATCTTAT
Statistics
Matches: 163, Mismatches: 30, Indels: 22
0.76 0.14 0.10
Matches are distributed among these distances:
85 27 0.17
86 2 0.01
87 28 0.17
88 34 0.21
89 5 0.03
90 66 0.40
91 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.26
Consensus pattern (87 bp):
ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGACACAAATCTTATCTCCCTGAGTTCAC
AGCGGAGCAGACCGAAGACACT
Found at i:48842873 original size:41 final size:42
Alignment explanation
Indices: 48842813--48842979 Score: 129
Period size: 44 Copynumber: 3.9 Consensus size: 42
48842803 GTGGAGTGGA
* * *
48842813 TCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCA-TCAGG
1 TCTTATCTCCCTGAGGTTACAGCAGAGTAGATCGAATTCAGG
* ** * *
48842854 TCTTATCTCCCTGAGGTTACGGTGGAGTAGACCGAAGAATTTCAGA
1 TCTTATCTCCCTGAGGTTACAGCAGAGTAGATC---GAA-TTCAGG
* ** * * **
48842900 TCTTATCTCCCTGAGGTTATAGTGGAGCAGATTGAAGCCAGGG
1 TCTTATCTCCCTGAGGTTACAGCAGAGTAGATCGAATTCA-GG
*
48842943 ATCTTATCTCCCTGAGATTACAGCAGAGTAGATCGAA
1 -TCTTATCTCCCTGAGGTTACAGCAGAGTAGATCGAA
48842980 GACACTATCC
Statistics
Matches: 97, Mismatches: 22, Indels: 11
0.75 0.17 0.08
Matches are distributed among these distances:
41 27 0.28
42 2 0.02
43 4 0.04
44 32 0.33
46 32 0.33
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (42 bp):
TCTTATCTCCCTGAGGTTACAGCAGAGTAGATCGAATTCAGG
Found at i:48842978 original size:205 final size:205
Alignment explanation
Indices: 48842648--48843018 Score: 645
Period size: 205 Copynumber: 1.8 Consensus size: 205
48842638 GAATATACAA
*
48842648 GTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGGTCTTATCTCCCTGAGGTT
1 GTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTT
* *
48842713 ACAGTGGAGCAGATTGAAGCCAGAAATCTTATCTTCCTGAGTTCACAGCGGAGCAGATCGAAGAC
66 ACAGTGGAGCAGATTGAAGCCAGAAATCTTATCTCCCTGAGTTCACAGCAGAGCAGATCGAAGAC
*
48842778 ACTATCCTATCTCCCTGAAGTTACAGTGGAGTGGATCTTATCTCTCTGAAGTTACAGCAGAGTAG
131 ACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATCTTATCTCTCTGAAGTTACAGCAGAGTAG
48842843 ATCGCATCAG
196 ATCGCATCAG
*
48842853 GTCTTATCTCCCTGAGGTTACGGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTT
1 GTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTT
* ** *
48842918 ATAGTGGAGCAGATTGAAGCCAGGGATCTTATCTCCCTGAGATT-ACAGCAGAGTAGATCGAAGA
66 ACAGTGGAGCAGATTGAAGCCAGAAATCTTATCTCCCTGAG-TTCACAGCAGAGCAGATCGAAGA
48842982 CACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGAT
130 CACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGAT
48843019 TAAAACAAAG
Statistics
Matches: 156, Mismatches: 9, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
205 154 0.99
206 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.27
Consensus pattern (205 bp):
GTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTT
ACAGTGGAGCAGATTGAAGCCAGAAATCTTATCTCCCTGAGTTCACAGCAGAGCAGATCGAAGAC
ACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATCTTATCTCTCTGAAGTTACAGCAGAGTAG
ATCGCATCAG
Found at i:48844689 original size:17 final size:17
Alignment explanation
Indices: 48844667--48844699 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
48844657 TATTTAATTC
48844667 TTTTAATAT-ATTATATA
1 TTTTAA-ATCATTATATA
48844684 TTTTAAATCATTATAT
1 TTTTAAATCATTATAT
48844700 GTATAAACTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTTAAATCATTATATA
Found at i:48844724 original size:26 final size:25
Alignment explanation
Indices: 48844695--48844755 Score: 61
Period size: 26 Copynumber: 2.4 Consensus size: 25
48844685 TTTAAATCAT
*
48844695 TATATGTATAAAC-TCTTTTAGATTCC
1 TATATGTATAAACAT-TTTTAGAAT-C
* * *
48844721 TATATATATATACATTTTTATAATC
1 TATATGTATAAACATTTTTAGAATC
48844746 TATATGTATA
1 TATATGTATA
48844756 CACGCATATA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
25 10 0.34
26 18 0.62
27 1 0.03
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.49
Consensus pattern (25 bp):
TATATGTATAAACATTTTTAGAATC
Found at i:48844851 original size:16 final size:16
Alignment explanation
Indices: 48844832--48844886 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
48844822 TATACATATC
48844832 TATACATATATATCTA
1 TATACATATATATCTA
* * *
48844848 TATACATTTTTTTCTA
1 TATACATATATATCTA
*
48844864 TATAGATATATATCTA
1 TATACATATATATCTA
48844880 TATACAT
1 TATACAT
48844887 TTTTTTCTTC
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.38, C:0.11, G:0.02, T:0.49
Consensus pattern (16 bp):
TATACATATATATCTA
Found at i:48844878 original size:32 final size:32
Alignment explanation
Indices: 48844832--48844894 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
48844822 TATACATATC
48844832 TATACATATATATCTATATACATTTTTTTCTA
1 TATACATATATATCTATATACATTTTTTTCTA
*
48844864 TATAGATATATATCTATATACATTTTTTTCT
1 TATACATATATATCTATATACATTTTTTTCT
48844895 TCCTGTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.33, C:0.11, G:0.02, T:0.54
Consensus pattern (32 bp):
TATACATATATATCTATATACATTTTTTTCTA
Found at i:48848097 original size:16 final size:16
Alignment explanation
Indices: 48848060--48848099 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
48848050 TTAATAAAAT
* *
48848060 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
48848076 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
48848092 TAAAATTA
1 TAAAATTA
48848100 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:48848169 original size:66 final size:59
Alignment explanation
Indices: 48848102--48848221 Score: 197
Period size: 59 Copynumber: 2.1 Consensus size: 59
48848092 TAAAATTATC
* * *
48848102 AAATTAT-TAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTA
1 AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
*
48848160 AATTTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
1 AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
48848219 AAA
1 AAA
48848222 CAAACTTGAT
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
58 6 0.11
59 50 0.89
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (59 bp):
AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
Found at i:48848327 original size:22 final size:24
Alignment explanation
Indices: 48848287--48848330 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
48848277 AAATAAACTT
48848287 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
48848311 AAAATAAAAAA-TA-TATATTT
1 AAAATAAAAAACTATTATATTT
48848331 AATATTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 2 0.10
24 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAATAAAAAACTATTATATTTTA
Found at i:48851259 original size:32 final size:32
Alignment explanation
Indices: 48851199--48851259 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
48851189 TTTTTTGAAA
48851199 AATAATTATAACTATTTAAATAATATTATTTG
1 AATAATTATAACTATTTAAATAATATTATTTG
*
48851231 AATAGTTATAA-TA-TTAAATGAATGATTAT
1 AATAATTATAACTATTTAAAT-AAT-ATTAT
48851260 GTGTTTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 6 0.23
31 5 0.19
32 15 0.58
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.44
Consensus pattern (32 bp):
AATAATTATAACTATTTAAATAATATTATTTG
Found at i:48866739 original size:5 final size:5
Alignment explanation
Indices: 48866722--48866760 Score: 51
Period size: 5 Copynumber: 7.4 Consensus size: 5
48866712 AGATACCATA
*
48866722 AAACT AAATT AAACT AAAACT AAACTT AAACT AAACT AA
1 AAACT AAACT AAACT -AAACT AAAC-T AAACT AAACT AA
48866761 CTTCCTATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 20 0.67
6 10 0.33
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (5 bp):
AAACT
Found at i:48866741 original size:16 final size:17
Alignment explanation
Indices: 48866720--48866760 Score: 68
Period size: 16 Copynumber: 2.5 Consensus size: 17
48866710 TAAGATACCA
48866720 TAAAACTAAA-TTAAAC
1 TAAAACTAAACTTAAAC
48866736 TAAAACTAAACTTAAAC
1 TAAAACTAAACTTAAAC
48866753 T-AAACTAA
1 TAAAACTAA
48866761 CTTCCTATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 17 0.71
17 7 0.29
ACGTcount: A:0.61, C:0.15, G:0.00, T:0.24
Consensus pattern (17 bp):
TAAAACTAAACTTAAAC
Found at i:48866745 original size:11 final size:11
Alignment explanation
Indices: 48866722--48866760 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
48866712 AGATACCATA
*
48866722 AAACT-AAATT
1 AAACTAAAACT
48866732 AAACTAAAACT
1 AAACTAAAACT
*
48866743 AAACTTAAACT
1 AAACTAAAACT
48866754 AAACTAA
1 AAACTAA
48866761 CTTCCTATTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
10 5 0.20
11 20 0.80
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (11 bp):
AAACTAAAACT
Found at i:48867620 original size:40 final size:40
Alignment explanation
Indices: 48867545--48867622 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
48867535 CACGCAGAAA
* *
48867545 CGATGCCTCAACATTCAAATCCAATGTTGCAACATTCAAG
1 CGATGCCACAACATTCAAATCCAATGTCGCAACATTCAAG
* * **
48867585 CGATGCCACGACATTCAATTCCAATGTCGTGACATTCA
1 CGATGCCACAACATTCAAATCCAATGTCGCAACATTCA
48867623 TGAAAGTTTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (40 bp):
CGATGCCACAACATTCAAATCCAATGTCGCAACATTCAAG
Found at i:48874146 original size:19 final size:18
Alignment explanation
Indices: 48874099--48874148 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
48874089 ATTATTTTAA
48874099 TATTTATTAATATAATAT
1 TATTTATTAATATAATAT
*
48874117 TATATATTTAATATAAGT-T
1 TATTTA-TTAATATAA-TAT
48874136 TATTTTATTAATA
1 TA-TTTATTAATA
48874149 GGTTTTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 5 0.19
19 18 0.67
20 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (18 bp):
TATTTATTAATATAATAT
Found at i:48876086 original size:30 final size:31
Alignment explanation
Indices: 48876045--48876118 Score: 96
Period size: 30 Copynumber: 2.4 Consensus size: 31
48876035 TGCACAAATA
** *
48876045 GTCACCCAACTATTAGTAAATTTCTTTTTT-
1 GTCACCCAACTATTAACAAATTCCTTTTTTC
*
48876075 GTCACCTAACTATTAACAAATTCCTTTTTTC
1 GTCACCCAACTATTAACAAATTCCTTTTTTC
*
48876106 GTTACCCAACTAT
1 GTCACCCAACTAT
48876119 GAAAAGTTAC
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
30 26 0.70
31 11 0.30
ACGTcount: A:0.28, C:0.24, G:0.05, T:0.42
Consensus pattern (31 bp):
GTCACCCAACTATTAACAAATTCCTTTTTTC
Found at i:48877043 original size:18 final size:19
Alignment explanation
Indices: 48877019--48877070 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
48877009 ATTACAAAAA
48877019 AAAAATTCAAAATAATTT-T
1 AAAAATTCAAAAT-ATTTAT
* *
48877038 AAAATTTTAAAATATTTAT
1 AAAAATTCAAAATATTTAT
48877057 AAAAATTACAAAAT
1 AAAAATT-CAAAAT
48877071 TTATATTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 4 0.15
19 18 0.67
20 5 0.19
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:48877104 original size:9 final size:9
Alignment explanation
Indices: 48877032--48877105 Score: 50
Period size: 10 Copynumber: 8.2 Consensus size: 9
48877022 AATTCAAAAT
48877032 AATTTT-AA
1 AATTTTAAA
48877040 AATTTTAAA
1 AATTTTAAA
48877049 ATATTTATAAA
1 A-ATTT-TAAA
48877060 AA--TTACAA
1 AATTTTA-AA
*
48877068 AA-TTT-AT
1 AATTTTAAA
*
48877075 ATTTTTAGAA
1 AATTTTA-AA
48877085 AATTTTAAAA
1 AATTTT-AAA
48877095 AATTTTAAA
1 AATTTTAAA
48877104 AA
1 AA
48877106 GATTCTACAG
Statistics
Matches: 53, Mismatches: 4, Indels: 17
0.72 0.05 0.23
Matches are distributed among these distances:
7 4 0.08
8 14 0.26
9 10 0.19
10 19 0.36
11 6 0.11
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (9 bp):
AATTTTAAA
Found at i:48885383 original size:22 final size:22
Alignment explanation
Indices: 48885329--48885384 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
48885319 TCTAAACATT
* * *
48885329 AACAACAAAATAGTAGCAAAAT
1 AACAATAAAATGGTAGCAAAAC
* * *
48885351 AATAGTGAAATGGTAGCAAAAC
1 AACAATAAAATGGTAGCAAAAC
48885373 AACAATAAAATG
1 AACAATAAAATG
48885385 TGAAAAAGCA
Statistics
Matches: 25, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.59, C:0.11, G:0.14, T:0.16
Consensus pattern (22 bp):
AACAATAAAATGGTAGCAAAAC
Found at i:48888473 original size:19 final size:19
Alignment explanation
Indices: 48888446--48888518 Score: 119
Period size: 19 Copynumber: 3.8 Consensus size: 19
48888436 AATTTCTGAG
*
48888446 GATACGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
48888465 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
48888484 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
48888503 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
48888519 AGATATGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.34
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:48888544 original size:22 final size:22
Alignment explanation
Indices: 48888478--48888541 Score: 80
Period size: 19 Copynumber: 3.0 Consensus size: 22
48888468 ATGCAATCCT
*
48888478 AGATATGATATGCAATCTT---
1 AGATATGATATGTAATCTTAGA
48888497 AGATATGATATGTAATCTTAGA
1 AGATATGATATGTAATCTTAGA
*
48888519 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGTAATCTTAGA
48888542 GATTTAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
19 18 0.46
22 8 0.21
23 13 0.33
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.39
Consensus pattern (22 bp):
AGATATGATATGTAATCTTAGA
Found at i:48888551 original size:22 final size:23
Alignment explanation
Indices: 48888507--48888551 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
48888497 AGATATGATA
*
48888507 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
48888530 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
48888552 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:48889958 original size:98 final size:98
Alignment explanation
Indices: 48889844--48890038 Score: 354
Period size: 98 Copynumber: 2.0 Consensus size: 98
48889834 TTAAAATAAT
* * *
48889844 AAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCT
1 AAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTACTGGGTGTGATTTCT
48889909 TAAATCTTGGATAAGTGGATGTTCTTTTAAAGA
66 TAAATCTTGGATAAGTGGATGTTCTTTTAAAGA
*
48889942 AAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTACTGGGTGTGATTTCT
1 AAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTACTGGGTGTGATTTCT
48890007 TAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TAAATCTTGGATAAGTGGATGTTCTTTTAAAG
48890039 TTTTATTGTA
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.29, C:0.11, G:0.25, T:0.35
Consensus pattern (98 bp):
AAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTACTGGGTGTGATTTCT
TAAATCTTGGATAAGTGGATGTTCTTTTAAAGA
Found at i:48895565 original size:132 final size:131
Alignment explanation
Indices: 48895413--48896460 Score: 1688
Period size: 132 Copynumber: 7.9 Consensus size: 131
48895403 CTGCATTGAC
48895413 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
48895478 GTAATTCTACTTCCCTAGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCT-GGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
48895543 GT
130 GT
*
48895545 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTAAAGCCA
1 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
*
48895610 GTAATTCTACTTCCCTGTGCAACAGTGGAATAGGTTGAAGATTTCAGATCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCTG-GCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
48895675 GT
130 GT
* * ** * *
48895677 AGTGGAGCAAATCAAAGATAACGGATTTTACCTCCCAGTGGTTATAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
* *
48895742 GTAATTCTACTTCCCTGGGCAACAGTGGAATAAATTGAAGATTTTAGATCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCT-GGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
48895807 GT
130 GT
*
48895809 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
* *
48895874 GTAATTCTACTTCCTTGGACAACGGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCTGG-CAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
48895939 GT
130 GT
* * * *
48895941 AGTGGAGCATATCGGAGAT-GCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
*
48896005 GTAATTCTACTTCCTTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCTGG-CAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
48896070 GT
130 GT
*
48896072 AGTGGAGCAGATCGGAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
*
48896137 CTAATTCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCTGG-CAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
48896202 GT
130 GT
*
48896204 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
48896269 GTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCT-GGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
48896334 GT
130 GT
* * *** * *
48896336 AGTGGAGTAGATCGAATATGATGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGTCA
1 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
* * * * *
48896401 GTAATCCTA-TCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATTGT-AAATCTTATCTCCCT
66 GTAATTCTACT-TCCCT-GGCAACAGTGGAATAGATTGAAGATT-TCAGATCTTATCTCCCT
48896461 GCAGTTGCAG
Statistics
Matches: 862, Mismatches: 47, Indels: 14
0.93 0.05 0.02
Matches are distributed among these distances:
131 132 0.15
132 726 0.84
133 4 0.00
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.29
Consensus pattern (131 bp):
AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
GTAATTCTACTTCCCTGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAG
T
Found at i:48896208 original size:44 final size:44
Alignment explanation
Indices: 48896028--48896347 Score: 126
Period size: 44 Copynumber: 7.3 Consensus size: 44
48896018 CTTGGACAAC
*
48896028 AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
1 AGTGGAGTAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
* * * ** * * ** *
48896072 AGTGGAGCAGATCGGAGATGGCAGATTTTACCTCCCTGTGGTTA-T
1 AGTGGAGTAGATTGAAGATTTCAGATCTTATCTCCCT-AAG-CAGT
* * * **
48896117 AGTGGAGTACATTGAAGCCA-CT-A-AT-TCTA-CTTCCCT-GGACAAC
1 AGTGGAGTAGATTGAAG--ATTTCAGATCT-TATC-TCCCTAAG-CAGT
*
48896160 AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
1 AGTGGAGTAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
* * ** * * * ** *
48896204 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTA-T
1 AGTGGAGTAGATTGAAGATTTCAGATCTTATCTCCCT-AAG-CAGT
* * ** **
48896249 AGTGGAGTACATTGAAG---CCAGTAAT-TCTA-CTTCCCTGGGCAAC
1 AGTGGAGTAGATTGAAGATTTCAG--ATCT-TATC-TCCCTAAGCAGT
*
48896292 AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
1 AGTGGAGTAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
48896336 AGTGGAGTAGAT
1 AGTGGAGTAGAT
48896348 CGAATATGAT
Statistics
Matches: 198, Mismatches: 53, Indels: 50
0.66 0.18 0.17
Matches are distributed among these distances:
41 1 0.01
42 7 0.04
43 37 0.19
44 110 0.56
45 37 0.19
46 5 0.03
47 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.29
Consensus pattern (44 bp):
AGTGGAGTAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGT
Found at i:48896431 original size:527 final size:528
Alignment explanation
Indices: 48895413--48896460 Score: 1755
Period size: 527 Copynumber: 2.0 Consensus size: 528
48895403 CTGCATTGAC
*
48895413 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
48895478 GTAATTCTACTTCCCTAGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
66 GTAATTCTACTTCCCTAGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
48895543 GTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTAAAGC
131 GTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTAAAGC
* *
48895608 CAGTAATTCTACTTCCCTGTGCAACAGTGGAATAGGTTGAAGATTTCAGATCTTATCTCCCTAAG
196 CACTAATTCTACTTCCCTGTGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
48895673 CAGTAGTGGAGCAAATCAAAGATAACGGATTTTACCTCCCAGTGGTTATAGTGGAGTACATTGAA
261 CAGTAGTGGAGCAAATCAAAGATAACGGATTTTACCTCCCAGTGGTTATAGTGGAGTACATTGAA
*
48895738 GCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAAATTGAAGATTTTAGATCTTATCTCCCTA
326 GCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAAATTGAAGATTTCAGATCTTATCTCCCTA
*
48895803 AGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTG
391 AGCAGTAGTGGAGCAGATCGAAGATGACAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTG
* * * * *
48895868 AAGCCAGTAATTCTACTTCCTTGGACAACGGTGGAATAGATTGAAGATT-TCAGATCTTATCTCC
456 AAGCCAGTAATCCTACTTCCCTAGACAACAGTGGAATAGATTGAAGATTGT-AAATCTTATCTCC
48895932 CTAAGCAGT
520 CTAAGCAGT
* * *
48895941 AGTGGAGCATATCGGAGAT-GCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
1 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
*
48896005 GTAATTCTACTT-CCTTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGC
66 GTAATTCTACTTCCCTAGG-CAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGC
* *
48896069 AGTAGTGGAGCAGATCGGAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAG
130 AGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTAAAG
48896134 CCACTAATTCTACTTCCCTG-GACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTA
195 CCACTAATTCTACTTCCCTGTG-CAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTA
* * ** *
48896198 AGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTG
259 AGCAGTAGTGGAGCAAATCAAAGATAACGGATTTTACCTCCCAGTGGTTATAGTGGAGTACATTG
*
48896263 AAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCC
324 AAGCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAAATTGAAGATTTCAGATCTTATCTCCC
* * **
48896328 TAAGCAGTAGTGGAGTAGATCGAATATGATGGATTTTACCTCCCTGTGGTTACAGTGGAGTACAT
389 TAAGCAGTAGTGGAGCAGATCGAAGATGACAGATTTTACCTCCCTGTGGTTACAGTGGAGTACAT
* * * *
48896393 TGAAGTCAGTAATCCTA-TCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATTGTAAATCTTATCT
454 TGAAGCCAGTAATCCTACT-TCCCTAGACAACAGTGGAATAGATTGAAGATTGTAAATCTTATCT
48896457 CCCT
518 CCCT
48896461 GCAGTTGCAG
Statistics
Matches: 486, Mismatches: 30, Indels: 9
0.93 0.06 0.02
Matches are distributed among these distances:
526 7 0.01
527 461 0.95
528 18 0.04
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.29
Consensus pattern (528 bp):
AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
GTAATTCTACTTCCCTAGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
GTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTAAAGC
CACTAATTCTACTTCCCTGTGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
CAGTAGTGGAGCAAATCAAAGATAACGGATTTTACCTCCCAGTGGTTATAGTGGAGTACATTGAA
GCCAGTAATTCTACTTCCCTGGGCAACAGTGGAATAAATTGAAGATTTCAGATCTTATCTCCCTA
AGCAGTAGTGGAGCAGATCGAAGATGACAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTG
AAGCCAGTAATCCTACTTCCCTAGACAACAGTGGAATAGATTGAAGATTGTAAATCTTATCTCCC
TAAGCAGT
Found at i:48896716 original size:19 final size:19
Alignment explanation
Indices: 48896689--48896761 Score: 119
Period size: 19 Copynumber: 3.8 Consensus size: 19
48896679 AATTTCCGAG
*
48896689 GATACGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
48896708 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
48896727 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
48896746 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
48896762 AGATATGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.34
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:48896787 original size:22 final size:22
Alignment explanation
Indices: 48896721--48896784 Score: 80
Period size: 19 Copynumber: 3.0 Consensus size: 22
48896711 ATGCAATCCT
*
48896721 AGATATGATATGCAATCTT---
1 AGATATGATATGTAATCTTAGA
48896740 AGATATGATATGTAATCTTAGA
1 AGATATGATATGTAATCTTAGA
*
48896762 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGTAATCTTAGA
48896785 GATTTAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
19 18 0.46
22 8 0.21
23 13 0.33
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.39
Consensus pattern (22 bp):
AGATATGATATGTAATCTTAGA
Found at i:48896794 original size:22 final size:23
Alignment explanation
Indices: 48896750--48896794 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
48896740 AGATATGATA
*
48896750 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
48896773 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
48896795 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:48898142 original size:5 final size:5
Alignment explanation
Indices: 48898132--48898160 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
48898122 TTCTTCATTT
48898132 TTTCC TTTCC TTTCC TTTCC TTT-C TTTCC
1 TTTCC TTTCC TTTCC TTTCC TTTCC TTTCC
48898161 CATTTATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (5 bp):
TTTCC
Found at i:48907798 original size:64 final size:64
Alignment explanation
Indices: 48907660--48907853 Score: 212
Period size: 64 Copynumber: 3.0 Consensus size: 64
48907650 AGCTATACGT
* * * *
48907660 ACAATAATGTGATTGGCACAAAGCCATCAGTAGCAGTGATATGATCGGCATACAACCATCAGTA
1 ACAATAATATGATTGGCACAAAGCCATCAGTAACAGTAATATGATCGGCACACAACCATCAGTA
* * * * * *
48907724 ACAATGATATGATTGGCACACAGCCATCAGTAACAGTAAAATGATCGGCACAGAATCATCTGTA
1 ACAATAATATGATTGGCACAAAGCCATCAGTAACAGTAATATGATCGGCACACAACCATCAGTA
* * * * * *
48907788 A-AGGTAATATGATCGGCACAAAGCTATCAGTAACGGTACTATGATCGGCACA-AAGCCGTCAGT
1 ACA-ATAATATGATTGGCACAAAGCCATCAGTAACAGTAATATGATCGGCACACAA-CCATCAGT
48907851 A
64 A
48907852 AC
1 AC
48907854 GGTACTATGG
Statistics
Matches: 106, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
63 3 0.03
64 103 0.97
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.21
Consensus pattern (64 bp):
ACAATAATATGATTGGCACAAAGCCATCAGTAACAGTAATATGATCGGCACACAACCATCAGTA
Found at i:48907854 original size:32 final size:31
Alignment explanation
Indices: 48907669--48907883 Score: 184
Period size: 32 Copynumber: 6.7 Consensus size: 31
48907659 TACAATAATG
* *
48907669 TGATTGGCACAAAGCCATCAGTAGCAGTGATA
1 TGATCGGCACAAAGCCATCAGTAACAGT-ATA
* *
48907701 TGATCGGCATACAA-CCATCAGTAACAATGATA
1 TGATCGGCACA-AAGCCATCAGTAACAGT-ATA
* * *
48907733 TGATTGGCACACAGCCATCAGTAACAGTAAAA
1 TGATCGGCACAAAGCCATCAGTAACAGT-ATA
* *
48907765 TGATCGGCACAGAA-TCATCTGTAA-AGGTAATA
1 TGATCGGCACA-AAGCCATCAGTAACA-GT-ATA
* *
48907797 TGATCGGCACAAAGCTATCAGTAACGGTACTA
1 TGATCGGCACAAAGCCATCAGTAACAGTA-TA
* *
48907829 TGATCGGCACAAAGCCGTCAGTAACGGTACTA
1 TGATCGGCACAAAGCCATCAGTAACAGTA-TA
* * *
48907861 TGGTCGGTACAAAGTCATCAGTA
1 TGATCGGCACAAAGCCATCAGTA
48907884 GCATCGTAGC
Statistics
Matches: 151, Mismatches: 25, Indels: 14
0.79 0.13 0.07
Matches are distributed among these distances:
31 5 0.03
32 143 0.95
33 3 0.02
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (31 bp):
TGATCGGCACAAAGCCATCAGTAACAGTATA
Found at i:48907971 original size:27 final size:27
Alignment explanation
Indices: 48907927--48907986 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
48907917 AACAAAGCTG
* *
48907927 CCAGTAATAGTATATGTGGCCA-CGCCA
1 CCAGTAACAGTATATGTGG-CAGAGCCA
48907954 CCAGTAACAGTGAT-TGTGGCAGAGCCA
1 CCAGTAACAGT-ATATGTGGCAGAGCCA
48907981 CCAGTA
1 CCAGTA
48907987 TAATGCTTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 2 0.07
27 25 0.86
28 2 0.07
ACGTcount: A:0.30, C:0.25, G:0.25, T:0.20
Consensus pattern (27 bp):
CCAGTAACAGTATATGTGGCAGAGCCA
Found at i:48908086 original size:24 final size:23
Alignment explanation
Indices: 48908054--48908135 Score: 83
Period size: 24 Copynumber: 3.5 Consensus size: 23
48908044 GCATGCTCAG
*
48908054 AATCAGTCATTCAAATTACAAACA
1 AATCAGTCATTCAAA-CACAAACA
*
48908078 AATCAGTCATACCAAACACAAACA
1 AATCAGTCAT-TCAAACACAAACA
* * *
48908102 AATCAGTCATTTAACCACAGACA
1 AATCAGTCATTCAAACACAAACA
* *
48908125 AAACAATCATT
1 AATCAGTCATT
48908136 TGACCTCGAT
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
23 18 0.37
24 27 0.55
25 4 0.08
ACGTcount: A:0.50, C:0.24, G:0.05, T:0.21
Consensus pattern (23 bp):
AATCAGTCATTCAAACACAAACA
Found at i:48911953 original size:83 final size:83
Alignment explanation
Indices: 48911800--48912053 Score: 483
Period size: 83 Copynumber: 3.1 Consensus size: 83
48911790 TTACAGTTTG
* *
48911800 GCCCCTTAAAAATTATAAAAATTTGATTCAATATTTTAAAATTTAT-AAAAAATAAGCTATTAAA
1 GCCCCCTAAAAATTATAAAAATTTGATTTAATATTTTAAAATTTATAAAAAAATAAGCTATTAAA
48911864 AATTAAAATTTAATTTCT
66 AATTAAAATTTAATTTCT
48911882 GCCCCCTAAAAATTATAAAAATTTGATTTAATATTTTAAAATTTATAAAAAAATAAGCTATTAAA
1 GCCCCCTAAAAATTATAAAAATTTGATTTAATATTTTAAAATTTATAAAAAAATAAGCTATTAAA
48911947 AATTAAAATTTAATTTCT
66 AATTAAAATTTAATTTCT
48911965 GCCCCCTAAAAATTATAAAAATTTGATTTAATATTTTAAAATTTATAAAAAAATAAGCTATTAAA
1 GCCCCCTAAAAATTATAAAAATTTGATTTAATATTTTAAAATTTATAAAAAAATAAGCTATTAAA
48912030 AATTAAAATTTAATTTCT
66 AATTAAAATTTAATTTCT
48912048 GCCCCC
1 GCCCCC
48912054 CACAAAAATT
Statistics
Matches: 169, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
82 44 0.26
83 125 0.74
ACGTcount: A:0.48, C:0.10, G:0.04, T:0.38
Consensus pattern (83 bp):
GCCCCCTAAAAATTATAAAAATTTGATTTAATATTTTAAAATTTATAAAAAAATAAGCTATTAAA
AATTAAAATTTAATTTCT
Found at i:48925865 original size:5 final size:5
Alignment explanation
Indices: 48925855--48925880 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
48925845 TGAGAAATAT
48925855 AGAGC AGAGC AGAGC AGAGC AGAGC A
1 AGAGC AGAGC AGAGC AGAGC AGAGC A
48925881 ATGAAGAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.38, T:0.00
Consensus pattern (5 bp):
AGAGC
Found at i:48929087 original size:23 final size:23
Alignment explanation
Indices: 48929067--48929112 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
48929057 TTAAATTTTG
*
48929067 AATTATTTAGTAATAATATTTAA
1 AATTATTTAATAATAATATTTAA
*
48929090 AATTATTTAATGATAATATTTAA
1 AATTATTTAATAATAATATTTAA
48929113 GAAAAATCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (23 bp):
AATTATTTAATAATAATATTTAA
Found at i:48930194 original size:10 final size:10
Alignment explanation
Indices: 48930179--48930203 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
48930169 GATTCGACCC
48930179 TACTGCTCTA
1 TACTGCTCTA
48930189 TACTGCTCTA
1 TACTGCTCTA
48930199 TACTG
1 TACTG
48930204 TTATTTTGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.28, G:0.12, T:0.40
Consensus pattern (10 bp):
TACTGCTCTA
Found at i:48930346 original size:18 final size:20
Alignment explanation
Indices: 48930306--48930357 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
48930296 AAAATTACAA
*
48930306 AAATATTCAAAATAATTTTT
1 AAATATTCAAAATAATTTAT
48930326 AAAT-TTCAAAAT-ATTTAT
1 AAATATTCAAAATAATTTAT
*
48930344 AAAAATTCCAAAAT
1 AAATATT-CAAAAT
48930358 TTATTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 8 0.29
19 10 0.36
20 10 0.36
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (20 bp):
AAATATTCAAAATAATTTAT
Found at i:48931062 original size:23 final size:23
Alignment explanation
Indices: 48931036--48931082 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
48931026 AAAAACATAA
* *
48931036 TAAAAATTTTATTTAAATTAATT
1 TAAAAATTTAATTTAAAATAATT
*
48931059 TAAATATTTAATTTAAAATAATT
1 TAAAAATTTAATTTAAAATAATT
48931082 T
1 T
48931083 TTTATTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TAAAAATTTAATTTAAAATAATT
Found at i:48933049 original size:36 final size:36
Alignment explanation
Indices: 48932985--48933069 Score: 95
Period size: 36 Copynumber: 2.4 Consensus size: 36
48932975 ATATAAAATT
48932985 TTAATAAATAA-AAAATTATAATTATTAAACAT-TAAA
1 TTAA-AAATAATAAAATTATAATTATTAAA-ATATAAA
* *
48933021 TTAAAAATAATATAAA-TATAATTTTTAAAATATATA
1 TTAAAAATAATA-AAATTATAATTATTAAAATATAAA
*
48933057 TTAAAATTAATAA
1 TTAAAAATAATAA
48933070 CTCTAAAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
35 9 0.21
36 31 0.72
37 3 0.07
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (36 bp):
TTAAAAATAATAAAATTATAATTATTAAAATATAAA
Found at i:48934128 original size:40 final size:41
Alignment explanation
Indices: 48934065--48934144 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 41
48934055 GAATAAAATG
*
48934065 TTTTATAATTTTTTAATAATTTTT-AATTTTTAA-AAATAGT
1 TTTTATAATTTTTTAAT-ATTTTTAAAATTTTAACAAATAGT
48934105 TTTTATAATTTTTTTGAAT-TTTTTAAAATTTTAACAAATA
1 TTTTATAA-TTTTTT-AATATTTTTAAAATTTTAACAAATA
48934145 ATTAAATACT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
40 13 0.37
41 14 0.40
42 8 0.23
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.59
Consensus pattern (41 bp):
TTTTATAATTTTTTAATATTTTTAAAATTTTAACAAATAGT
Found at i:48934134 original size:10 final size:10
Alignment explanation
Indices: 48934058--48934136 Score: 56
Period size: 10 Copynumber: 7.9 Consensus size: 10
48934048 TTTTAAAGAA
*
48934058 TAAAATGTTT
1 TAAAATTTTT
*
48934068 TATAATTTTT
1 TAAAATTTTT
48934078 TAATAA-TTTT
1 TAA-AATTTTT
48934088 T--AATTTTT
1 TAAAATTTTT
*
48934096 AAAAATAGTTTT
1 TAAAAT--TTTT
*
48934108 TATAATTTTT
1 TAAAATTTTT
**
48934118 TTGAATTTTT
1 TAAAATTTTT
48934128 TAAAATTTT
1 TAAAATTTT
48934137 AACAAATAAT
Statistics
Matches: 53, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
7 2 0.04
8 4 0.08
10 37 0.70
11 2 0.04
12 8 0.15
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (10 bp):
TAAAATTTTT
Found at i:48937155 original size:33 final size:35
Alignment explanation
Indices: 48937117--48937213 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 35
48937107 ATGGTTATAT
48937117 TTAAATATTTAAAATATATTTTATATATT-C-TAA
1 TTAAATATTTAAAATATATTTTATATATTGCTTAA
* *
48937150 TTAAAT-TTTATAAATA-ATTAATATTTATTGCTTAA
1 TTAAATATTTA-AAATATATT-TTATATATTGCTTAA
*
48937185 --AAATATTTAAAATTTATATTTCATATATT
1 TTAAATATTTAAAA--TATATTTTATATATT
48937214 AAAAATATCA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
32 7 0.14
33 25 0.49
34 5 0.10
35 11 0.22
36 3 0.06
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (35 bp):
TTAAATATTTAAAATATATTTTATATATTGCTTAA
Found at i:48940906 original size:20 final size:20
Alignment explanation
Indices: 48940881--48940920 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
48940871 ACACAAATCC
*
48940881 TTACCA-CTTTCTATTCTCTA
1 TTACCACCTTCCT-TTCTCTA
48940901 TTACCACCTTCCTTTCTCTA
1 TTACCACCTTCCTTTCTCTA
48940921 AAAAAATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.17, C:0.35, G:0.00, T:0.47
Consensus pattern (20 bp):
TTACCACCTTCCTTTCTCTA
Found at i:48943721 original size:16 final size:16
Alignment explanation
Indices: 48943700--48943731 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
48943690 TAGGCGATTT
48943700 CGAAAGATCTCAATTC
1 CGAAAGATCTCAATTC
48943716 CGAAAGATCTCAATTC
1 CGAAAGATCTCAATTC
48943732 AAATGGACAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.25
Consensus pattern (16 bp):
CGAAAGATCTCAATTC
Found at i:48948064 original size:29 final size:28
Alignment explanation
Indices: 48948032--48948099 Score: 64
Period size: 29 Copynumber: 2.4 Consensus size: 28
48948022 ATTAAATTTG
* *
48948032 AATTTTAAATCTAAAAGTTAAAAGGACTT
1 AATTTTAAATATAAAAG-TAAAAGGACTA
* * **
48948061 AATTCCTAAAAATAAAAGTATGAGGACTA
1 AATT-TTAAATATAAAAGTAAAAGGACTA
48948090 AATTTTAAAT
1 AATTTTAAAT
48948100 TTACAAAGAG
Statistics
Matches: 30, Mismatches: 8, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
28 4 0.13
29 16 0.53
30 10 0.33
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.32
Consensus pattern (28 bp):
AATTTTAAATATAAAAGTAAAAGGACTA
Found at i:48948514 original size:37 final size:38
Alignment explanation
Indices: 48948463--48948545 Score: 150
Period size: 37 Copynumber: 2.2 Consensus size: 38
48948453 GTATTATTTT
48948463 AATTTCAATATGTCACAGCAGATAATTTAACC-AAAAAA
1 AATTT-AATATGTCACAGCAGATAATTTAACCAAAAAAA
48948501 AATTTAATATGTCACAGCAGATAATTTAACCAAAAAAA
1 AATTTAATATGTCACAGCAGATAATTTAACCAAAAAAA
48948539 AATTTAA
1 AATTTAA
48948546 CGGTGCTAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
37 26 0.59
38 18 0.41
ACGTcount: A:0.52, C:0.13, G:0.07, T:0.28
Consensus pattern (38 bp):
AATTTAATATGTCACAGCAGATAATTTAACCAAAAAAA
Found at i:48949485 original size:29 final size:30
Alignment explanation
Indices: 48949424--48949487 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 30
48949414 TTATATCAAT
* *
48949424 AATTGGATCAAATCAAAATTTCATGTATAA
1 AATTGGATAAAATCAAAAGTTCATGTATAA
* *
48949454 AATTGTATAAAATC-AAAGTTCATTTATAA
1 AATTGGATAAAATCAAAAGTTCATGTATAA
48949483 AATTG
1 AATTG
48949488 CACATTAAGC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 18 0.60
30 12 0.40
ACGTcount: A:0.47, C:0.08, G:0.09, T:0.36
Consensus pattern (30 bp):
AATTGGATAAAATCAAAAGTTCATGTATAA
Found at i:48952413 original size:316 final size:316
Alignment explanation
Indices: 48951804--48952448 Score: 1057
Period size: 315 Copynumber: 2.0 Consensus size: 316
48951794 ATCTCAATAA
* * * * *
48951804 ATTTTTGAATTGTCCGACTCCTTCAACAATGAAAGGAAAAGTAAATTACATCGGATTAAATTGTA
1 ATTTCTGAATTGTCCGACTCCTTCAACAATCAAAGAAAAAGCAAATTACATCGGATCAAATTGTA
*
48951869 TACCTCGTGCCAACATACAAAATTTAATTTATAGTAACTAGGGTTAAATCTAGTATCTATGGGTA
66 TACCTCGTGCCAACATACAAAATTTAATTTATAATAACTAGGGTTAAATCTAGTATCTATGGGTA
48951934 TCAAAATCATTGATCATATTTCTATCAACATTACCAAGACTAGATTAAGTGCAAATTAAATCCAC
131 TCAAAATCATTGATCATATTTCTATCAACATTACCAAGACTAGATTAAGTGCAAATTAAATCCAC
* * * * *
48951999 TTGATCATGACATAGAATATACTTAAATCTATCTTTAAAAGTATAAAATTTTAAGTTTATTTCAA
196 ATGATCATAACATAGAAGATACTTAAATCTATCCTTAAAAGTATAAAATTTTAAATTTATTTCAA
*
48952064 GTTTTATGTTTAAGATTTGATTCTATCCTAAATGGATTGAG-ATATGAGTGTTAAT
261 GTTTTATGTTTAAGATTCGATTCTATCCTAAATGGATTGAGAATATGAGTGTTAAT
48952119 ATTTCTGAATTGTCCGACTCCTTCAACAATCAAAGAAAAAGCAAATTACATCGGATCAAATCT-T
1 ATTTCTGAATTGTCCGACTCCTTCAACAATCAAAGAAAAAGCAAATTACATCGGATCAAAT-TGT
* *
48952183 ATACCTCGTGCCAACATACAAAATTTAATTTGTAATAACTAGGGTTAGATCTTA-TATCTATGGG
65 ATACCTCGTGCCAACATACAAAATTTAATTTATAATAACTAGGGTTAAATC-TAGTATCTATGGG
*
48952247 TATCAAAATCATTGATCATATTTCTATCAAACATTACTAAGACTAGATTAAGTGCAAATTAAATC
129 TATCAAAATCATTGATCATATTTCTATC-AACATTACCAAGACTAGATTAAGTGCAAATTAAATC
48952312 CACATGATCATAACATTA-AAGATACTTAAATCTATCCTTAAAAGTATAAAATTTTAAATTTATT
193 CACATGATCATAACA-TAGAAGATACTTAAATCTATCCTTAAAAGTATAAAATTTTAAATTTATT
48952376 TCAAGTTTTATGTTTAAGATTCGATTCTATCCTAAATGGATTGAGATATATATGAGTGTTAAT
257 TCAAGTTTTATGTTTAAGATTCGATTCTATCCTAAATGGATTGAG--A-ATATGAGTGTTAAT
48952439 ATTTC-GAATT
1 ATTTCTGAATT
48952449 AAGATTTAGT
Statistics
Matches: 307, Mismatches: 15, Indels: 12
0.92 0.04 0.04
Matches are distributed among these distances:
315 143 0.47
316 138 0.45
317 2 0.01
319 5 0.02
320 19 0.06
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (316 bp):
ATTTCTGAATTGTCCGACTCCTTCAACAATCAAAGAAAAAGCAAATTACATCGGATCAAATTGTA
TACCTCGTGCCAACATACAAAATTTAATTTATAATAACTAGGGTTAAATCTAGTATCTATGGGTA
TCAAAATCATTGATCATATTTCTATCAACATTACCAAGACTAGATTAAGTGCAAATTAAATCCAC
ATGATCATAACATAGAAGATACTTAAATCTATCCTTAAAAGTATAAAATTTTAAATTTATTTCAA
GTTTTATGTTTAAGATTCGATTCTATCCTAAATGGATTGAGAATATGAGTGTTAAT
Found at i:48952538 original size:2 final size:2
Alignment explanation
Indices: 48952531--48952558 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
48952521 CCCAAAACTA
48952531 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
48952559 TCTTACCCGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:48958447 original size:27 final size:27
Alignment explanation
Indices: 48958406--48958730 Score: 533
Period size: 27 Copynumber: 12.0 Consensus size: 27
48958396 AAATCACAAG
** *
48958406 AGAAATCTAAAGCTACTGAGTTGAGCA
1 AGAAATCTACTGCTACTGAGTCGAGCA
*
48958433 AGAAATCTACTGCTACTGAGTTGAGCA
1 AGAAATCTACTGCTACTGAGTCGAGCA
48958460 AGAAATCTACTGCTACTGAGTCGAGCA
1 AGAAATCTACTGCTACTGAGTCGAGCA
48958487 AGAAATCTACTGCTACTGAGTCGAGCA
1 AGAAATCTACTGCTACTGAGTCGAGCA
* *
48958514 AGAAATCTACTGTTACTGATTCGAGCA
1 AGAAATCTACTGCTACTGAGTCGAGCA
48958541 AGAAATCTACTGCTACTGAGTCGAGCA
1 AGAAATCTACTGCTACTGAGTCGAGCA
*
48958568 AGAAACCTACTGCTACTGAGTCGAGCA
1 AGAAATCTACTGCTACTGAGTCGAGCA
*
48958595 AGAAATCTACTGCTACCGAGTCGAGCA
1 AGAAATCTACTGCTACTGAGTCGAGCA
* * *
48958622 AGAAACCTACTGCTACCGAGTCAAGCA
1 AGAAATCTACTGCTACTGAGTCGAGCA
*
48958649 AGAAATCTACTGCTACTGAGTCAAGCA
1 AGAAATCTACTGCTACTGAGTCGAGCA
*
48958676 AGAAATCTACTGCTACTGAGTCAAGCA
1 AGAAATCTACTGCTACTGAGTCGAGCA
48958703 AGAAATCTACTGCTACTGAGTCGAGCA
1 AGAAATCTACTGCTACTGAGTCGAGCA
48958730 A
1 A
48958731 TAATTTGACC
Statistics
Matches: 283, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 283 1.00
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (27 bp):
AGAAATCTACTGCTACTGAGTCGAGCA
Found at i:48964872 original size:24 final size:24
Alignment explanation
Indices: 48964834--48964880 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
48964824 CTCTTGCATC
* * *
48964834 GCCGCTGGTGTAAGCGCCGCCGTT
1 GCCGCTAGTGCAAGCGCCACCGTT
48964858 GCCGCTAGTGCAAGCGCCACCGT
1 GCCGCTAGTGCAAGCGCCACCGT
48964881 CGTCATATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.13, C:0.36, G:0.34, T:0.17
Consensus pattern (24 bp):
GCCGCTAGTGCAAGCGCCACCGTT
Found at i:48970027 original size:43 final size:43
Alignment explanation
Indices: 48969953--48970035 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
48969943 AATATATTAT
** *
48969953 TAAAACTAGATCAATGGATTAATTGTCTAAATATTTTTTTTAG
1 TAAAACTAGATCAATGGATTAACCGTCTAAATATATTTTTTAG
* * *
48969996 TAAAACTAGATTAATGGATTAGCCGTGTAAATATATTTTT
1 TAAAACTAGATCAATGGATTAACCGTCTAAATATATTTTT
48970036 GGTATGTCAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.42
Consensus pattern (43 bp):
TAAAACTAGATCAATGGATTAACCGTCTAAATATATTTTTTAG
Found at i:48975735 original size:21 final size:21
Alignment explanation
Indices: 48975709--48975749 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
48975699 ATCTGCTCAA
* *
48975709 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
48975730 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
48975750 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:48982782 original size:29 final size:29
Alignment explanation
Indices: 48982739--48982794 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
48982729 TTTGTTTCTT
* * *
48982739 TTTAATAGTATAGGGGCTAAATTGATCCA
1 TTTAATAATAGAGGGACTAAATTGATCCA
*
48982768 TTTAATAATAGAGGGACTAATTTGATC
1 TTTAATAATAGAGGGACTAAATTGATC
48982795 TGGTCACTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.36
Consensus pattern (29 bp):
TTTAATAATAGAGGGACTAAATTGATCCA
Found at i:48986659 original size:13 final size:13
Alignment explanation
Indices: 48986641--48986677 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
48986631 AAGGTCACTC
48986641 TTTTTTATTTCGT
1 TTTTTTATTTCGT
*
48986654 TTTTTTATTT-AT
1 TTTTTTATTTCGT
48986666 TTTTTTATTTCG
1 TTTTTTATTTCG
48986678 AAATACAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.11, C:0.05, G:0.05, T:0.78
Consensus pattern (13 bp):
TTTTTTATTTCGT
Found at i:48987354 original size:3 final size:3
Alignment explanation
Indices: 48987348--48987384 Score: 56
Period size: 3 Copynumber: 12.0 Consensus size: 3
48987338 TTATTTAACC
*
48987348 TTA TTA TTA TTA TTA TTA CTA TTA TTAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
48987385 GTTTTATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:48988506 original size:111 final size:116
Alignment explanation
Indices: 48988308--48988520 Score: 267
Period size: 121 Copynumber: 1.8 Consensus size: 116
48988298 ATAATTTTAA
*
48988308 AAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGTTGTGTCGATTT
1 AAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTG-TCTG-CGA--T
* *
48988373 TTTCGATTTTTCTCGTTCAACCAAATGGCTAAATATCATTTTTTAAAAAAAATTCG
62 TTTCGA-TTTTCTCGTTAAACCAAATGGCCAAATATCATTTTTTAAAAAAAATTCG
** *
48988429 AAATAAGGCAATGTTTTGCGTTT-GGAAATTCGAG-GGACGTGTCCTAAGGTG-CTG-GA-TTTC
1 AAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGTCTGCGATTTTC
*
48988489 GA-TTTCTCGTTTAAACCAAATTGCCAAATATC
66 GATTTTCTCG-TTAAACCAAATGGCCAAATATC
48988521 CTCTTGAATT
Statistics
Matches: 84, Mismatches: 7, Indels: 12
0.82 0.07 0.12
Matches are distributed among these distances:
110 7 0.08
111 19 0.23
112 6 0.07
115 2 0.02
117 2 0.02
119 14 0.17
120 11 0.13
121 23 0.27
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.35
Consensus pattern (116 bp):
AAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGTCTGCGATTTTC
GATTTTCTCGTTAAACCAAATGGCCAAATATCATTTTTTAAAAAAAATTCG
Found at i:48989214 original size:2 final size:2
Alignment explanation
Indices: 48989207--48989233 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
48989197 AAATATCTTT
48989207 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
48989234 TATCGATACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:48991006 original size:6 final size:6
Alignment explanation
Indices: 48990995--48991021 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
48990985 ATTATTTTTA
48990995 AAAAAT AAAAAT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAA
48991022 CCTGTGTTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:48992376 original size:5 final size:5
Alignment explanation
Indices: 48992366--48992401 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
48992356 TTTCCCTTTC
48992366 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT A
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT A
48992402 CTCGGAGTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTAT
Found at i:48992674 original size:16 final size:17
Alignment explanation
Indices: 48992642--48992681 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
48992632 AAGTTTTATC
48992642 ATAAATATTTAAAATAA
1 ATAAATATTTAAAATAA
*
48992659 ATAAAT-TTTCAAATAA
1 ATAAATATTTAAAATAA
48992675 ATAAATA
1 ATAAATA
48992682 AAACAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (17 bp):
ATAAATATTTAAAATAA
Found at i:49024618 original size:17 final size:17
Alignment explanation
Indices: 49024596--49024630 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
49024586 CCTATAAAAC
49024596 GAACATAAAAAGAATTT
1 GAACATAAAAAGAATTT
*
49024613 GAACATAAAAAGTATTT
1 GAACATAAAAAGAATTT
49024630 G
1 G
49024631 TGTGTATACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.54, C:0.06, G:0.14, T:0.26
Consensus pattern (17 bp):
GAACATAAAAAGAATTT
Found at i:49026247 original size:15 final size:16
Alignment explanation
Indices: 49026229--49026258 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
49026219 TTTTTTTTTC
49026229 TTCTTTTT-TTCTCCT
1 TTCTTTTTCTTCTCCT
49026244 TTCTTTTTCTTCTCC
1 TTCTTTTTCTTCTCC
49026259 ACAAAAACCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (16 bp):
TTCTTTTTCTTCTCCT
Found at i:49029885 original size:12 final size:12
Alignment explanation
Indices: 49029868--49029892 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
49029858 GGTGTGCATT
49029868 CGGTTAACCGAC
1 CGGTTAACCGAC
49029880 CGGTTAACCGAC
1 CGGTTAACCGAC
49029892 C
1 C
49029893 CGAATTAGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:49030066 original size:9 final size:9
Alignment explanation
Indices: 49030052--49030135 Score: 134
Period size: 9 Copynumber: 9.4 Consensus size: 9
49030042 TGGTTAAAAA
49030052 TTAACCGAT
1 TTAACCGAT
*
49030061 TTAACCTAT
1 TTAACCGAT
49030070 TTAACCGA-
1 TTAACCGAT
49030078 TTAACCGAT
1 TTAACCGAT
49030087 TTAACCGAT
1 TTAACCGAT
*
49030096 TTAACCGAC
1 TTAACCGAT
49030105 TTAACCGAT
1 TTAACCGAT
*
49030114 TTAACCGAC
1 TTAACCGAT
49030123 TTAACCGAT
1 TTAACCGAT
49030132 TTAA
1 TTAA
49030136 ATCACTATAT
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
8 8 0.12
9 60 0.88
ACGTcount: A:0.35, C:0.24, G:0.10, T:0.32
Consensus pattern (9 bp):
TTAACCGAT
Found at i:49030116 original size:27 final size:26
Alignment explanation
Indices: 49030051--49030132 Score: 137
Period size: 26 Copynumber: 3.1 Consensus size: 26
49030041 TTGGTTAAAA
*
49030051 ATTAACCGATTTAACCTATTTAACCG
1 ATTAACCGATTTAACCGATTTAACCG
49030077 ATTAACCGATTTAACCGATTTAACCG
1 ATTAACCGATTTAACCGATTTAACCG
*
49030103 ACTTAACCGATTTAACCGACTTAACCG
1 A-TTAACCGATTTAACCGATTTAACCG
49030130 ATT
1 ATT
49030133 TAAATCACTA
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
26 28 0.53
27 25 0.47
ACGTcount: A:0.34, C:0.24, G:0.10, T:0.32
Consensus pattern (26 bp):
ATTAACCGATTTAACCGATTTAACCG
Found at i:49030190 original size:37 final size:37
Alignment explanation
Indices: 49030135--49030244 Score: 175
Period size: 37 Copynumber: 3.0 Consensus size: 37
49030125 AACCGATTTA
* * *
49030135 AATCACTATATAATTAAAAAAATTACACAAGTCTTTG
1 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
*
49030172 AATCACTACATAACTAAAAATATTACATAAGTCTTTG
1 AATCACTACATAATTAAAAATATTACATAAGTCTTTG
*
49030209 AATCACTACATAATTAAAAATATTACATAGGTCTTT
1 AATCACTACATAATTAAAAATATTACATAAGTCTTT
49030245 AACACATAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.46, C:0.15, G:0.05, T:0.34
Consensus pattern (37 bp):
AATCACTACATAATTAAAAATATTACATAAGTCTTTG
Found at i:49030220 original size:20 final size:20
Alignment explanation
Indices: 49030158--49030221 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 20
49030148 TTAAAAAAAT
*
49030158 TACACAAGTCTTTGAATCAC
1 TACATAAGTCTTTGAATCAC
*** *
49030178 TACATAA--CTAAAAAT-AT
1 TACATAAGTCTTTGAATCAC
49030195 TACATAAGTCTTTGAATCAC
1 TACATAAGTCTTTGAATCAC
49030215 TACATAA
1 TACATAA
49030222 TTAAAAATAT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
17 8 0.25
18 5 0.16
19 5 0.16
20 14 0.44
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (20 bp):
TACATAAGTCTTTGAATCAC
Found at i:49030619 original size:16 final size:16
Alignment explanation
Indices: 49030594--49030624 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49030584 ATCTCCCAAT
*
49030594 GTATTGATACTTTAAG
1 GTATTAATACTTTAAG
49030610 GTATTAATACTTTAA
1 GTATTAATACTTTAA
49030625 TGGTGATATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.13, T:0.45
Consensus pattern (16 bp):
GTATTAATACTTTAAG
Found at i:49044374 original size:48 final size:51
Alignment explanation
Indices: 49044315--49044410 Score: 126
Period size: 49 Copynumber: 1.9 Consensus size: 51
49044305 AAATAACTTC
** *
49044315 AAAAATGGTGTT-AAAATATTTTTAAAA-TGATCAAAAT-TAAAAAAATAT
1 AAAAATGGTGTTAAAAATAACTTTAAAATTGATAAAAATATAAAAAAATAT
* *
49044363 AAAAATTGTGTTAAAAATAACTTTAAAATTTATAAAAATATAAAAAAA
1 AAAAATGGTGTTAAAAATAACTTTAAAATTGATAAAAATATAAAAAAA
49044411 CAAAATAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
48 11 0.28
49 13 0.32
50 8 0.20
51 8 0.20
ACGTcount: A:0.59, C:0.02, G:0.06, T:0.32
Consensus pattern (51 bp):
AAAAATGGTGTTAAAAATAACTTTAAAATTGATAAAAATATAAAAAAATAT
Found at i:49046609 original size:3 final size:3
Alignment explanation
Indices: 49046601--49046655 Score: 69
Period size: 3 Copynumber: 18.3 Consensus size: 3
49046591 ATAGGATACA
*
49046601 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAGG GA- GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA-T GAT GAT GAT GAT
49046646 -ATT GAT GAT G
1 GA-T GAT GAT G
49046656 CCCAAGTTTC
Statistics
Matches: 47, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
2 3 0.06
3 41 0.87
4 3 0.06
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:49050398 original size:13 final size:13
Alignment explanation
Indices: 49050380--49050408 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
49050370 AATCTCTTTG
49050380 ATGAGATTTCTGA
1 ATGAGATTTCTGA
49050393 ATGAGATTTCTGA
1 ATGAGATTTCTGA
49050406 ATG
1 ATG
49050409 TACTTGGAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.38
Consensus pattern (13 bp):
ATGAGATTTCTGA
Found at i:49053586 original size:4 final size:4
Alignment explanation
Indices: 49053577--49053604 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
49053567 TTATTATTCT
49053577 CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA
49053605 ACTAGATGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:49055961 original size:31 final size:31
Alignment explanation
Indices: 49055926--49055993 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
49055916 AATCAGATTA
* *
49055926 ATTTATATTTTATATATCATTATATTAAATT
1 ATTTAAATCTTATATATCATTATATTAAATT
* * *
49055957 ATTTAAATCTTATTTATTATTATATTTAATT
1 ATTTAAATCTTATATATCATTATATTAAATT
49055988 -TTTAAA
1 ATTTAAA
49055994 ATTATTTTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 6 0.19
31 26 0.81
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (31 bp):
ATTTAAATCTTATATATCATTATATTAAATT
Found at i:49055971 original size:36 final size:33
Alignment explanation
Indices: 49055931--49056006 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 33
49055921 GATTAATTTA
49055931 TATTTTATATATCATTATATTAAATTATTT-AAAT
1 TATTTTATATAT-ATTATATTAAATT-TTTAAAAT
* *
49055965 CT-TATT-TAT-TATTATATTTAATTTTTAAAAT
1 -TATTTTATATATATTATATTAAATTTTTAAAAT
49055996 TATTTTATATA
1 TATTTTATATA
49056007 CTATCAAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
30 4 0.12
31 19 0.56
32 4 0.12
33 3 0.09
34 3 0.09
35 1 0.03
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (33 bp):
TATTTTATATATATTATATTAAATTTTTAAAAT
Found at i:49067517 original size:16 final size:16
Alignment explanation
Indices: 49067488--49067526 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
49067478 CCACCATTGA
*
49067488 ATTTTCTTTCTTTATT
1 ATTTTTTTTCTTTATT
49067504 -TTTTTTTTCATTTATT
1 ATTTTTTTTC-TTTATT
49067520 ATTTTTT
1 ATTTTTT
49067527 AACTCAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 8 0.40
16 6 0.30
17 6 0.30
ACGTcount: A:0.13, C:0.08, G:0.00, T:0.79
Consensus pattern (16 bp):
ATTTTTTTTCTTTATT
Found at i:49067858 original size:16 final size:16
Alignment explanation
Indices: 49067837--49067871 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
49067827 TTCGTTGTAT
49067837 TAGAATAGAGGCGTAA
1 TAGAATAGAGGCGTAA
*
49067853 TAGAATAGAGGTGTAA
1 TAGAATAGAGGCGTAA
49067869 TAG
1 TAG
49067872 CAATTCAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.43, C:0.03, G:0.31, T:0.23
Consensus pattern (16 bp):
TAGAATAGAGGCGTAA
Found at i:49067944 original size:44 final size:45
Alignment explanation
Indices: 49067849--49067945 Score: 119
Period size: 44 Copynumber: 2.2 Consensus size: 45
49067839 GAATAGAGGC
* *
49067849 GTAATAGAATAGAGGTGTAATAGCAATTCAATTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGCAATTCAATTGTTTGGTTGAAT
* *
49067894 GTAATGGAATAGAGGCGTAATAG-TATTC-TTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGCAATTCAAT-TGTTTGGTTGAAT
49067938 -TGAATGGA
1 GT-AATGGA
49067946 GGTGTAATAG
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
43 2 0.04
44 23 0.50
45 21 0.46
ACGTcount: A:0.32, C:0.04, G:0.28, T:0.36
Consensus pattern (45 bp):
GTAATGGAATAGAGGCGTAATAGCAATTCAATTGTTTGGTTGAAT
Found at i:49068123 original size:18 final size:17
Alignment explanation
Indices: 49068102--49068136 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
49068092 TTATTATTAA
*
49068102 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
49068120 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
49068137 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:49068242 original size:18 final size:17
Alignment explanation
Indices: 49068221--49068255 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
49068211 TTATTATTAA
*
49068221 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
49068239 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
49068256 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:49068362 original size:18 final size:17
Alignment explanation
Indices: 49068341--49068375 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
49068331 TTATTATTAA
*
49068341 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
49068359 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
49068376 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:49068410 original size:120 final size:120
Alignment explanation
Indices: 49068082--49068685 Score: 1183
Period size: 120 Copynumber: 5.0 Consensus size: 120
49068072 TTAATCATAT
49068082 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
49068147 CAATATTCTTATATAAATTTACTAAAATCATAATATATGATACTATAAAA-ATAA
66 CAATATTCTTATATAAATTTACTAAAATCATAATATATGATACTATAAAATATAA
49068201 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
*
49068266 CAATATTCTTATATAAATTTACTAAAATCATAATATATGACACTATAAAATATAA
66 CAATATTCTTATATAAATTTACTAAAATCATAATATATGATACTATAAAATATAA
49068321 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
49068386 CAATATTCTTATATAAATTTACTAAAATCATAATATATGATACTATAAAATATAA
66 CAATATTCTTATATAAATTTACTAAAATCATAATATATGATACTATAAAATATAA
49068441 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
*
49068506 CAATATTCTTATATAAATTTACTAAAATCATAATATATGATACTATATAATATAA
66 CAATATTCTTATATAAATTTACTAAAATCATAATATATGATACTATAAAATATAA
49068561 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
49068626 CAATATTCTTATATAAATTTACTAAAATCATAATATATGATACTATAAAATATAA
66 CAATATTCTTATATAAATTTACTAAAATCATAATATATGATACTATAAAATATAA
49068681 TTTAA
1 TTTAA
49068686 TAAAATTCTT
Statistics
Matches: 480, Mismatches: 4, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
119 114 0.24
120 366 0.76
ACGTcount: A:0.50, C:0.06, G:0.01, T:0.43
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
CAATATTCTTATATAAATTTACTAAAATCATAATATATGATACTATAAAATATAA
Found at i:49068482 original size:18 final size:17
Alignment explanation
Indices: 49068461--49068495 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
49068451 TTATTATTAA
*
49068461 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
49068479 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
49068496 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:49068602 original size:18 final size:17
Alignment explanation
Indices: 49068581--49068615 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
49068571 TTATTATTAA
*
49068581 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
49068599 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
49068616 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:49068711 original size:16 final size:16
Alignment explanation
Indices: 49068690--49068732 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
49068680 ATTTAATAAA
*
49068690 ATTCTTAATAATCAAT
1 ATTCTTAATAACCAAT
49068706 ATTCTTAATAACCAAT
1 ATTCTTAATAACCAAT
49068722 ATTCTT-ATAAC
1 ATTCTTAATAAC
49068733 AAAAATTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 5 0.19
16 21 0.81
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (16 bp):
ATTCTTAATAACCAAT
Found at i:49072802 original size:19 final size:19
Alignment explanation
Indices: 49072778--49072815 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
49072768 CCCAAATCAG
* *
49072778 AAAACAATAACAGAAAAAA
1 AAAACAACAAAAGAAAAAA
49072797 AAAACAACAAAAGAAAAAA
1 AAAACAACAAAAGAAAAAA
49072816 CCCTAGCCCC
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:0.82, C:0.11, G:0.05, T:0.03
Consensus pattern (19 bp):
AAAACAACAAAAGAAAAAA
Found at i:49073994 original size:27 final size:27
Alignment explanation
Indices: 49073954--49074015 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
49073944 ATTAGTAATA
*
49073954 TTTA-TTTTATTTATGT-TTTCTTTCATT
1 TTTATTTTTATTTATGTGTTTATTT-A-T
*
49073981 TTTATTTTTA-TTATTTGTTTATTTAT
1 TTTATTTTTATTTATGTGTTTATTTAT
49074007 TTTATTTTT
1 TTTATTTTT
49074016 TTCTTTCTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
26 10 0.32
27 10 0.32
28 11 0.35
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.77
Consensus pattern (27 bp):
TTTATTTTTATTTATGTGTTTATTTAT
Found at i:49074001 original size:17 final size:17
Alignment explanation
Indices: 49073981--49074013 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
49073971 TTCTTTCATT
49073981 TTTATTT-TTATTATTTG
1 TTTATTTATT-TTATTTG
49073998 TTTATTTATTTTATTT
1 TTTATTTATTTTATTT
49074014 TTTTCTTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (17 bp):
TTTATTTATTTTATTTG
Found at i:49074017 original size:8 final size:8
Alignment explanation
Indices: 49073979--49074017 Score: 51
Period size: 9 Copynumber: 4.6 Consensus size: 8
49073969 TTTTCTTTCA
49073979 TTTTTATT
1 TTTTTATT
49073987 TTTATTATT
1 TTT-TTATT
*
49073996 TGTTTATT
1 TTTTTATT
49074004 TATTTTATT
1 T-TTTTATT
49074013 TTTTT
1 TTTTT
49074018 CTTTCTTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 13 0.48
9 14 0.52
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (8 bp):
TTTTTATT
Found at i:49074026 original size:17 final size:16
Alignment explanation
Indices: 49073958--49074026 Score: 50
Period size: 16 Copynumber: 4.2 Consensus size: 16
49073948 GTAATATTTA
* *
49073958 TTTTATTTATGTTTTC
1 TTTTATTTTTTTTTTC
* *
49073974 TTTCATTTTTATTTT-
1 TTTTATTTTTTTTTTC
* * *
49073989 TATTATTTGTTTATTTA
1 TTTTATTT-TTTTTTTC
49074006 TTTTATTTTTTTCTTTC
1 TTTTATTTTTTT-TTTC
49074023 TTTT
1 TTTT
49074027 CTAAAAGTTT
Statistics
Matches: 40, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
15 6 0.15
16 20 0.50
17 14 0.35
ACGTcount: A:0.13, C:0.06, G:0.03, T:0.78
Consensus pattern (16 bp):
TTTTATTTTTTTTTTC
Found at i:49083205 original size:2 final size:2
Alignment explanation
Indices: 49083198--49083231 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
49083188 GAAGGAATCT
49083198 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
49083232 ATGTTTTTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:49083619 original size:26 final size:26
Alignment explanation
Indices: 49083590--49083641 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
49083580 TTTTGGAAAA
*
49083590 ATTATTTTATGGAC-CATTTTTATTAT
1 ATTA-TTTATGGACTCATTTTAATTAT
*
49083616 ATTATTTATGGTCTCATTTTAATTAT
1 ATTATTTATGGACTCATTTTAATTAT
49083642 TTAATGACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.58
Consensus pattern (26 bp):
ATTATTTATGGACTCATTTTAATTAT
Found at i:49083635 original size:25 final size:27
Alignment explanation
Indices: 49083590--49083641 Score: 65
Period size: 25 Copynumber: 2.0 Consensus size: 27
49083580 TTTTGGAAAA
49083590 ATTATTTTATGGACCATTTTT-ATTAT
1 ATTATTTTATGGACCATTTTTAATTAT
*
49083616 ATTA-TTTATGGTCTCA-TTTTAATTAT
1 ATTATTTTATGGAC-CATTTTTAATTAT
49083642 TTAATGACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 12 0.52
26 11 0.48
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.58
Consensus pattern (27 bp):
ATTATTTTATGGACCATTTTTAATTAT
Found at i:49085518 original size:4 final size:4
Alignment explanation
Indices: 49085509--49085535 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
49085499 ATCAAAGATT
49085509 ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATA
49085536 TATCTCTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:49095386 original size:21 final size:20
Alignment explanation
Indices: 49095324--49095382 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 20
49095314 ATATGTATAC
49095324 TAAAATAAATATATACATATAAA
1 TAAAAT-AATA-ATA-ATATAAA
*
49095347 TAAAA-AATAATTACGTATAAA
1 TAAAATAATAA-TA-ATATAAA
49095368 TAAAATAATAATAAT
1 TAAAATAATAATAAT
49095383 TATATTATAC
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
20 2 0.06
21 20 0.62
22 5 0.16
23 5 0.16
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (20 bp):
TAAAATAATAATAATATAAA
Found at i:49095436 original size:21 final size:21
Alignment explanation
Indices: 49095397--49095437 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
49095387 TTATACTACA
* *
49095397 AAAAATAAATATGCGTATATG
1 AAAAATAAATATACATATATG
*
49095418 AAAAATATATATACATATAT
1 AAAAATAAATATACATATAT
49095438 ATATTTTTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (21 bp):
AAAAATAAATATACATATATG
Done.