Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032246.1 Gossypioides kirkii chromosome KI_03
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: 42061019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2000 characters in sequence are not A, C, G, or T
File 34 of 135
Found at i:8838276 original size:29 final size:28
Alignment explanation
Indices: 8838204--8838279 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 28
8838194 GGTGAAATCG
* *
8838204 GGGTCAATAATGGAATTTTGGGAAGTTTG
1 GGGTCAA-AATGTAATTTTGGGAAGTTTA
*
8838233 GGGT-AAAATAGGTAATTTTTGGAAGTTTAA
1 GGGTCAAAAT--GTAATTTTGGGAAGTTT-A
8838263 GGGTCAAAATGTAATTT
1 GGGTCAAAATGTAATTT
8838280 CTAGACTGTT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
27 3 0.08
28 2 0.05
29 26 0.65
30 4 0.10
31 5 0.12
ACGTcount: A:0.33, C:0.03, G:0.29, T:0.36
Consensus pattern (28 bp):
GGGTCAAAATGTAATTTTGGGAAGTTTA
Found at i:8840134 original size:17 final size:17
Alignment explanation
Indices: 8840108--8840164 Score: 71
Period size: 17 Copynumber: 3.4 Consensus size: 17
8840098 AATTTAATTT
8840108 ATAAATTTAAATTTATA
1 ATAAATTTAAATTTATA
*
8840125 ATAAACTTAAATTT-TA
1 ATAAATTTAAATTTATA
* *
8840141 TGTAAATTTAAATTTAAA
1 -ATAAATTTAAATTTATA
8840159 ATAAAT
1 ATAAAT
8840165 CTAATTTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
16 2 0.06
17 30 0.91
18 1 0.03
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (17 bp):
ATAAATTTAAATTTATA
Found at i:8840751 original size:38 final size:38
Alignment explanation
Indices: 8840709--8841211 Score: 173
Period size: 38 Copynumber: 13.3 Consensus size: 38
8840699 TCTTTATTCT
* *
8840709 TACTTCAATTTCAGAGATGAAAACTTGTTACCCAACTC
1 TACTTCAATTTCAGAGATGAAAACTTGTTATCCATCTC
** * *
8840747 TACTTCAATTTCAAGAGGATAGGAAAAGAT-CT-TGC-TCT-
1 TACTTCAATTTC-AGA-GAT--GAAAACTTGTTATCCATCTC
8840785 TACTTCAATTTCAGAGAT-AAAGACTTGTTATCCATCTC
1 TACTTCAATTTCAGAGATGAAA-ACTTGTTATCCATCTC
*
8840823 TACTTCAATTTCAAGAGGATAGGAAAA---G--AT-CTTGCTC
1 TACTTCAATTTC-AGA-GAT--GAAAACTTGTTATCCAT-CTC
* *
8840860 TGACTTCAATTTCAGAGAT-AAAGACTTGTTATCCAGCTT
1 T-ACTTCAATTTCAGAGATGAAA-ACTTGTTATCCATCTC
** * *
8840899 TACTTCAATTTCAAGAGGATAGGAAAAGAT-CT-TGC-TCT-
1 TACTTCAATTTC-AGA-GAT--GAAAACTTGTTATCCATCTC
*
8840937 TACTTCAATTTCAGAGAT-AAATACTTGTTATCCAACTC
1 TACTTCAATTTCAGAGATGAAA-ACTTGTTATCCATCTC
* ** * *
8840975 TACTTCAATTTCAAGCGGATAGGAAAAGAT-CT-TGC-TCT-
1 TACTTCAATTTC-AG-AGAT--GAAAACTTGTTATCCATCTC
*
8841013 TACTTTAATTTCAGAGAT-AAAGACTTGTTATCCA-CTC
1 TACTTCAATTTCAGAGATGAAA-ACTTGTTATCCATCTC
* * **
8841050 TACTTCAATTTCAAGCGGATAGGAAA--TGACATTGCC--CT-
1 TACTTCAATTTC-AG-AGAT-GAAAACTTGTTA-T-CCATCTC
*
8841088 TACTTCAATTTCAGAGAT-AAAGAC--GTTATCCAACTC
1 TACTTCAATTTCAGAGATGAAA-ACTTGTTATCCATCTC
* * *
8841124 TACTTCAATTTCAAGTGGATAGGAAA--TGATGT-TGC-TCT-
1 TACTTCAATTTC-AG-AGAT-GAAAACTTG-T-TATCCATCTC
*
8841162 TACTTCAATTTCAGAGAT-AAAGACGTGTTATCCA-CTC
1 TACTTCAATTTCAGAGATGAAA-ACTTGTTATCCATCTC
8841199 TACTTCAATTTCA
1 TACTTCAATTTCA
8841212 AGAGGATAGG
Statistics
Matches: 346, Mismatches: 52, Indels: 135
0.65 0.10 0.25
Matches are distributed among these distances:
33 14 0.04
34 12 0.03
35 10 0.03
36 45 0.13
37 55 0.16
38 125 0.36
39 33 0.10
40 26 0.08
41 6 0.02
42 11 0.03
43 9 0.03
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.34
Consensus pattern (38 bp):
TACTTCAATTTCAGAGATGAAAACTTGTTATCCATCTC
Found at i:8840811 original size:76 final size:76
Alignment explanation
Indices: 8840678--8841232 Score: 879
Period size: 76 Copynumber: 7.3 Consensus size: 76
8840668 GCCTCGCTTG
* ** *
8840678 TTTCAAGAGGATAGGAAATGATCTTTATTCTTACTTCAATTTCAGAGATGAAA-ACTTGTTACCC
1 TTTCAAGAGGATAGGAAAAGATC-TTGCTCTTACTTCAATTTCAGAGAT-AAAGACTTGTTATCC
8840742 AACTCTACTTCAA
64 AACTCTACTTCAA
*
8840755 TTTCAAGAGGATAGGAAAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAT
1 TTTCAAGAGGATAGGAAAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAA
8840820 CTCTACTTCAA
66 CTCTACTTCAA
* *
8840831 TTTCAAGAGGATAGGAAAAGATCTTGCTCTGACTTCAATTTCAGAGATAAAGACTTGTTATCCAG
1 TTTCAAGAGGATAGGAAAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAA
*
8840896 CTTTACTTCAA
66 CTCTACTTCAA
*
8840907 TTTCAAGAGGATAGGAAAAGATCTTGCTCTTACTTCAATTTCAGAGATAAATACTTGTTATCCAA
1 TTTCAAGAGGATAGGAAAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAA
8840972 CTCTACTTCAA
66 CTCTACTTCAA
* *
8840983 TTTCAAGCGGATAGGAAAAGATCTTGCTCTTACTTTAATTTCAGAGATAAAGACTTGTTATCC-A
1 TTTCAAGAGGATAGGAAAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAA
8841047 CTCTACTTCAA
66 CTCTACTTCAA
* * *
8841058 TTTCAAGCGGATAGGAAATGA-CATTGCCCTTACTTCAATTTCAGAGATAAAGAC--GTTATCCA
1 TTTCAAGAGGATAGGAAAAGATC-TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCA
8841120 ACTCTACTTCAA
65 ACTCTACTTCAA
* * * *
8841132 TTTCAAGTGGATAGGAAATGATGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCC-A
1 TTTCAAGAGGATAGGAAAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAA
8841196 CTCTACTTCAA
66 CTCTACTTCAA
8841207 TTTCAAGAGGATAGGAAAAGATCTTG
1 TTTCAAGAGGATAGGAAAAGATCTTG
8841233 GTGCGATCTG
Statistics
Matches: 448, Mismatches: 24, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
73 7 0.02
74 63 0.14
75 99 0.22
76 257 0.57
77 22 0.05
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Consensus pattern (76 bp):
TTTCAAGAGGATAGGAAAAGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAA
CTCTACTTCAA
Found at i:8846098 original size:14 final size:15
Alignment explanation
Indices: 8846068--8846101 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
8846058 TGTCGTGCTC
*
8846068 TTCTTGTCTCTTTCT
1 TTCTTGTCTATTTCT
8846083 TTCTT-TCTATTTCT
1 TTCTTGTCTATTTCT
8846097 TTCTT
1 TTCTT
8846102 CCTTTCTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.03, C:0.24, G:0.03, T:0.71
Consensus pattern (15 bp):
TTCTTGTCTATTTCT
Found at i:8853367 original size:59 final size:59
Alignment explanation
Indices: 8853300--8853825 Score: 605
Period size: 58 Copynumber: 9.0 Consensus size: 59
8853290 AAGAAATGAC
* * * * **
8853300 GAAATCGGGGTTAAAAATGGGACTTTTGGATACTT-GGAGCCAAAATGGTAATTTTTGGT
1 GAAATCGGGGTTAAAAAT-GGAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGGT
* * * * **
8853359 AAAATCGGGGTCAAAAATGGAATTTTAGAAAATTTAGGGGTAAAATGGTAA-TTTTGGT
1 GAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGGT
* ** * * *
8853417 GAAATAGGGGTTAAAAATAAAATTGTGAAAAGTTCGGGGGTGAAATGGTAA-TTTTGGT
1 GAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGGT
* * * * * *
8853475 GAAATCGAGATTAAAAATGAAATTTTGGAGAGCTCGGGGATAAAATGGTAATTTTTGGT
1 GAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGGT
* * * *
8853534 GAAATCGAGGTT-AAAATGGAATTTTGGAAATTTCAGGGGTAAAATGGTCATTTTTGGT
1 GAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGGT
* * **
8853592 GAAATCGGGGTTAAAAATAGAATTTTAGAAAGTT-TAGGGTAAAATGGTAATTTTTGGT
1 GAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGGT
*
8853650 GAAATCGGGGTT-AAAATAGAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGGT
1 GAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGGT
* * * * *
8853708 AAAATCAGGGTTAAAAATAGAATTTTGGAAAGTTCGGGGATAAAATGGTCATTTTTGGT
1 GAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGGT
* * * * *
8853767 GAAATCGAGGTCAAAAATGGAATTTTGGGAAGTTTGAGGGTAAAATAGGTAATTTTTGG
1 GAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAAT-GGTAATTTTTGG
8853826 AAGTTTCGGG
Statistics
Matches: 397, Mismatches: 64, Indels: 11
0.84 0.14 0.02
Matches are distributed among these distances:
57 20 0.05
58 221 0.56
59 145 0.37
60 11 0.03
ACGTcount: A:0.36, C:0.04, G:0.28, T:0.32
Consensus pattern (59 bp):
GAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGGT
Found at i:8853591 original size:175 final size:174
Alignment explanation
Indices: 8853341--8853825 Score: 590
Period size: 175 Copynumber: 2.8 Consensus size: 174
8853331 ACTTGGAGCC
* * *
8853341 AAAATGGTAATTTTTGGTAAAATCGGGGTCAAAAATGGAATTTTAGAAAATTT-AGGGGTAAAAT
1 AAAATGGTAATTTTTGGTAAAATCGAGGT-TAAAATGGAATTTT-GGAAATTTCAGGGGTAAAAT
* * *
8853405 GGT-AATTTTGGTGAAATAGGGGTTAAAAATAAAATTGTGA-AAAGTTCGGGGGTGAAATGGTAA
64 GGTCATTTTTGGTGAAATAGGGGTTAAAAATAAAATT-TGAGAAAGTT-GAGGGTAAAATGGTAA
*
8853468 -TTTTGGTGAAATCGAGATTAAAA-ATGAAATTTTGGAGAGCTCGGGGAT
127 TTTTTGGTGAAATCGAGATTAAAATA-G-AATTTTGGAAAGCTCGGGGAT
*
8853516 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAATGGAATTTTGGAAATTTCAGGGGTAAAATGG
1 AAAATGGTAATTTTTGGTAAAATCGAGGTTAAAATGGAATTTTGGAAATTTCAGGGGTAAAATGG
* * * *
8853581 TCATTTTTGGTGAAATCGGGGTTAAAAATAGAATTTTAGAAAGTTTAGGGTAAAATGGTAATTTT
66 TCATTTTTGGTGAAATAGGGGTTAAAAATAAAATTTGAGAAAGTTGAGGGTAAAATGGTAATTTT
* * * *
8853646 TGGTGAAATCGGGGTTAAAATAGAATTTTGGAAAGTTCGGGGGT
131 TGGTGAAATCGAGATTAAAATAGAATTTTGGAAAGCTCGGGGAT
* *
8853690 AAAATGGTAATTTTTGGTAAAATC-AGGGTTAAAAATAGAATTTTGGAAAGTTC-GGGGATAAAA
1 AAAATGGTAATTTTTGGTAAAATCGA-GGTT-AAAATGGAATTTTGGAAATTTCAGGGG-TAAAA
* * * * * *
8853753 TGGTCATTTTTGGTGAAATCGAGGTCAAAAATGGAATTTTG-GGAAGTTTGAGGGTAAAATAGGT
63 TGGTCATTTTTGGTGAAATAGGGGTTAAAAAT-AAAATTTGAGAAAG-TTGAGGGTAAAAT-GGT
8853817 AATTTTTGG
125 AATTTTTGG
8853826 AAGTTTCGGG
Statistics
Matches: 272, Mismatches: 27, Indels: 20
0.85 0.08 0.06
Matches are distributed among these distances:
173 8 0.03
174 91 0.33
175 144 0.53
176 17 0.06
177 12 0.04
ACGTcount: A:0.36, C:0.04, G:0.28, T:0.32
Consensus pattern (174 bp):
AAAATGGTAATTTTTGGTAAAATCGAGGTTAAAATGGAATTTTGGAAATTTCAGGGGTAAAATGG
TCATTTTTGGTGAAATAGGGGTTAAAAATAAAATTTGAGAAAGTTGAGGGTAAAATGGTAATTTT
TGGTGAAATCGAGATTAAAATAGAATTTTGGAAAGCTCGGGGAT
Found at i:8853821 original size:30 final size:30
Alignment explanation
Indices: 8853775--8853865 Score: 100
Period size: 30 Copynumber: 3.0 Consensus size: 30
8853765 GTGAAATCGA
*
8853775 GGTCAAAAATGG-AATTTTGGGAAGTTTGAG
1 GGTC-AAAATGGTAATTTTTGGAAGTTTGAG
8853805 GGT-AAAATAGGTAATTTTTGGAAGTTTCG-G
1 GGTCAAAAT-GGTAATTTTTGGAAGTTT-GAG
*
8853835 GGTCAAAAT-GTAATTTTTGGACTGTTTGAG
1 GGTCAAAATGGTAATTTTTGGA-AGTTTGAG
8853865 G
1 G
8853866 ACCTATAGAC
Statistics
Matches: 53, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
28 5 0.09
29 15 0.28
30 27 0.51
31 6 0.11
ACGTcount: A:0.30, C:0.04, G:0.31, T:0.35
Consensus pattern (30 bp):
GGTCAAAATGGTAATTTTTGGAAGTTTGAG
Found at i:8855686 original size:13 final size:14
Alignment explanation
Indices: 8855670--8855731 Score: 56
Period size: 16 Copynumber: 4.2 Consensus size: 14
8855660 CTCTTTTTTT
8855670 AATTT-AATTTATA
1 AATTTAAATTTATA
8855683 AATTTAAATTTATAATA
1 AATTTAAA-TT-T-ATA
*
8855700 AACTTAAATTTATGTA
1 AATTTAAATTTA--TA
8855716 AATTTAAATTTA-A
1 AATTTAAATTTATA
8855729 AAT
1 AAT
8855732 AAATCTAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
13 9 0.22
14 3 0.07
15 3 0.07
16 16 0.39
17 10 0.24
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (14 bp):
AATTTAAATTTATA
Found at i:8855706 original size:17 final size:17
Alignment explanation
Indices: 8855680--8855735 Score: 78
Period size: 17 Copynumber: 3.4 Consensus size: 17
8855670 AATTTAATTT
8855680 ATAAATTTAAATTTATA
1 ATAAATTTAAATTTATA
*
8855697 ATAAACTTAAATTTAT-
1 ATAAATTTAAATTTATA
* *
8855713 GTAAATTTAAATTTAAA
1 ATAAATTTAAATTTATA
8855730 ATAAAT
1 ATAAAT
8855736 CTAATTTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
16 13 0.39
17 20 0.61
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (17 bp):
ATAAATTTAAATTTATA
Found at i:8857064 original size:48 final size:48
Alignment explanation
Indices: 8857009--8857101 Score: 168
Period size: 48 Copynumber: 1.9 Consensus size: 48
8856999 GCAAAAATGT
8857009 AAAAATCAAAATTTTTTGCATAAAGCGTTTTCTTGTGCCAATAGACGA
1 AAAAATCAAAATTTTTTGCATAAAGCGTTTTCTTGTGCCAATAGACGA
* *
8857057 AAAAATCAGAATTTTTTGCATAAAGCGTTTTCTTTTGCCAATAGA
1 AAAAATCAAAATTTTTTGCATAAAGCGTTTTCTTGTGCCAATAGA
8857102 AGAAGATGGT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (48 bp):
AAAAATCAAAATTTTTTGCATAAAGCGTTTTCTTGTGCCAATAGACGA
Found at i:8857566 original size:21 final size:21
Alignment explanation
Indices: 8857508--8857569 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 21
8857498 CTACTTTACG
8857508 TTTAAATGTCAA-TTAATAAT
1 TTTAAATGTCAATTTAATAAT
8857528 TTTAAAT-T-AACTTATAATAAT
1 TTTAAATGTCAA-TT-TAATAAT
*
8857549 TTTAGATGTCAATTTAATAAT
1 TTTAAATGTCAATTTAATAAT
8857570 ACTTGGATGC
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
18 2 0.06
19 1 0.03
20 8 0.22
21 20 0.56
22 3 0.08
23 2 0.06
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.47
Consensus pattern (21 bp):
TTTAAATGTCAATTTAATAAT
Found at i:8862265 original size:35 final size:34
Alignment explanation
Indices: 8862226--8862355 Score: 145
Period size: 35 Copynumber: 3.7 Consensus size: 34
8862216 CCAAACCCAT
*
8862226 TTTAAATTTATCTTAAGATTAAATTTGTTTTAAAA
1 TTTAAATTTAT-TTAAGATTAAATTTATTTTAAAA
*
8862261 TTTAAATTTATTTTAA-ATTTAAATTTATTTTTAAA
1 TTTAAATTTA-TTTAAGA-TTAAATTTATTTTAAAA
* * *
8862296 TTTAATTTTAATTTAAGTTTAAATTTATTTTCAAA
1 TTTAAATTT-ATTTAAGATTAAATTTATTTTAAAA
* *
8862331 TTTAAAATTATTATAAGTTTAAATT
1 TTTAAATTTATT-TAAGATTAAATT
8862356 CAAATGTCCA
Statistics
Matches: 83, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
34 4 0.05
35 77 0.93
36 2 0.02
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (34 bp):
TTTAAATTTATTTAAGATTAAATTTATTTTAAAA
Found at i:8862269 original size:6 final size:6
Alignment explanation
Indices: 8862258--8862336 Score: 74
Period size: 6 Copynumber: 13.5 Consensus size: 6
8862248 ATTTGTTTTA
* **
8862258 AAATTT AAATTT -ATTTT AAATTT AAATTT ATTTTT AAATTT -AATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
* * *
8862304 TAATTT AAGTTT AAATTT -ATTTT CAAATTT AAA
1 AAATTT AAATTT AAATTT AAATTT -AAATTT AAA
8862337 ATTATTATAA
Statistics
Matches: 58, Mismatches: 11, Indels: 8
0.75 0.14 0.10
Matches are distributed among these distances:
5 13 0.22
6 41 0.71
7 4 0.07
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (6 bp):
AAATTT
Found at i:8862293 original size:12 final size:12
Alignment explanation
Indices: 8862253--8862335 Score: 82
Period size: 12 Copynumber: 7.0 Consensus size: 12
8862243 ATTAAATTTG
8862253 TTTTAAAATTTAA
1 TTTT-AAATTTAA
* *
8862266 ATTT-ATTTTAA
1 TTTTAAATTTAA
* *
8862277 ATTTAAATTTAT
1 TTTTAAATTTAA
8862289 TTTTAAATTTAA
1 TTTTAAATTTAA
8862301 TTTT-AATTTAA
1 TTTTAAATTTAA
*
8862312 GTTTAAATTT-A
1 TTTTAAATTTAA
8862323 TTTTCAAATTTAA
1 TTTT-AAATTTAA
8862336 AATTATTATA
Statistics
Matches: 58, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
11 24 0.41
12 30 0.52
13 4 0.07
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (12 bp):
TTTTAAATTTAA
Found at i:8862293 original size:23 final size:23
Alignment explanation
Indices: 8862259--8862336 Score: 77
Period size: 23 Copynumber: 3.3 Consensus size: 23
8862249 TTTGTTTTAA
*
8862259 AATTTAAATTT-ATTTTAAATTTA
1 AATTTAAATTTAAATTT-AATTTA
** *
8862282 AATTTATTTTTAAATTTAATTTT
1 AATTTAAATTTAAATTTAATTTA
* *
8862305 AATTTAAGTTTAAATTTATTTTCA
1 AATTTAAATTTAAATTTAATTT-A
8862329 AATTTAAA
1 AATTTAAA
8862337 ATTATTATAA
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
23 33 0.75
24 11 0.25
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (23 bp):
AATTTAAATTTAAATTTAATTTA
Found at i:8862341 original size:18 final size:17
Alignment explanation
Indices: 8862226--8862355 Score: 145
Period size: 17 Copynumber: 7.5 Consensus size: 17
8862216 CCAAACCCAT
*
8862226 TTTAAATTTATCTTAAGA
1 TTTAAATTTATTTTAA-A
*
8862244 -TTAAATTTGTTTTAAAA
1 TTTAAATTTATTTT-AAA
8862261 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
8862278 TTTAAATTTATTTTTAAA
1 TTTAAATTTA-TTTTAAA
* * *
8862296 TTTAATTTTAATTTAAG
1 TTTAAATTTATTTTAAA
8862313 TTTAAATTTATTTTCAAA
1 TTTAAATTTATTTT-AAA
* * *
8862331 TTTAAAATTATTATAAG
1 TTTAAATTTATTTTAAA
8862348 TTTAAATT
1 TTTAAATT
8862356 CAAATGTCCA
Statistics
Matches: 95, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
17 51 0.54
18 44 0.46
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:8862975 original size:12 final size:12
Alignment explanation
Indices: 8862958--8863022 Score: 73
Period size: 12 Copynumber: 5.5 Consensus size: 12
8862948 AACATGTATC
*
8862958 TAATAAATATAG
1 TAATAAATATAA
8862970 TAATAAATAT-A
1 TAATAAATATAA
8862981 TAAT-AATAATAA
1 TAATAAAT-ATAA
8862993 TAAT-AATAATAA
1 TAATAAAT-ATAA
*
8863005 TAATAAATATAG
1 TAATAAATATAA
8863017 TAATAA
1 TAATAA
8863023 TTGTAGTATT
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
10 3 0.06
11 6 0.12
12 36 0.75
13 3 0.06
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (12 bp):
TAATAAATATAA
Found at i:8863041 original size:3 final size:3
Alignment explanation
Indices: 8862970--8863023 Score: 65
Period size: 3 Copynumber: 17.3 Consensus size: 3
8862960 ATAAATATAG
*
8862970 TAA TAAA TATA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -ATA TAG
1 TAA T-AA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
8863017 TAA TAA T
1 TAA TAA T
8863024 TGTAGTATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
2 1 0.02
3 37 0.82
4 7 0.16
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:8864236 original size:30 final size:29
Alignment explanation
Indices: 8864201--8864531 Score: 302
Period size: 30 Copynumber: 11.2 Consensus size: 29
8864191 GGACTGTTCA
*
8864201 AAAATTACATTTTGACTCCTAAACTTTTCC
1 AAAATTACATTTTGAC-CCCAAACTTTTCC
*
8864231 AAAATTATATTTTGACCCCAAAACTTCTT--
1 AAAATTACATTTTGACCCC-AAACTT-TTCC
8864260 AAAATTACATTTTGACCACCAAACTTTTCC
1 AAAATTACATTTTGACC-CCAAACTTTTCC
* * * *
8864290 AAAATTATATTTTAACCCCAAAATTTTCTA
1 AAAATTACATTTTGACCCCAAACTTTTC-C
*
8864320 AAAATTATATTTTGACCCCTAAACTTTTCC
1 AAAATTACATTTTGACCCC-AAACTTTTCC
* * **
8864350 AAAATTATATTTTAACCCCAAAACTTTTTG
1 AAAATTACATTTTGACCCC-AAACTTTTCC
*
8864380 AAGATTACATTTTGACCCCCAAACTTTTTCC
1 AAAATTACATTTTGA-CCCCAAAC-TTTTCC
*
8864411 AAAATTAGATTTTGACCCCAAAAC-TTTCC
1 AAAATTACATTTTGACCCC-AAACTTTTCC
*
8864440 AAAATTACCATTTT-ACCCCAAAC-TTCCC
1 AAAATTA-CATTTTGACCCCAAACTTTTCC
* *
8864468 AAAATTCCACTTTTGA-CCCTAA-TTTTACCC
1 AAAATTACA-TTTTGACCCCAAACTTTT--CC
*
8864498 AAAATTACCATTTT-ACCCTCGAAC-TTTCC
1 AAAATTA-CATTTTGACCC-CAAACTTTTCC
8864527 AAAAT
1 AAAAT
8864532 CCCATTTTTA
Statistics
Matches: 253, Mismatches: 28, Indels: 41
0.79 0.09 0.13
Matches are distributed among these distances:
27 2 0.01
28 27 0.11
29 60 0.24
30 121 0.48
31 43 0.17
ACGTcount: A:0.36, C:0.25, G:0.03, T:0.36
Consensus pattern (29 bp):
AAAATTACATTTTGACCCCAAACTTTTCC
Found at i:8864272 original size:59 final size:58
Alignment explanation
Indices: 8864201--8864473 Score: 345
Period size: 60 Copynumber: 4.6 Consensus size: 58
8864191 GGACTGTTCA
* *
8864201 AAAATTACATTTTGACTCCTAAACTTTTCCAAAATTATATTTTGACCCCAAAACTTCTT
1 AAAATTACATTTTGAC-CCCAAACTTTTCCAAAATTATATTTTAACCCCAAAACTTCTT
* *
8864260 AAAATTACATTTTGACCACCAAACTTTTCCAAAATTATATTTTAACCCCAAAATTTTCTA
1 AAAATTACATTTTGACC-CCAAACTTTTCCAAAATTATATTTTAACCCCAAAA-CTTCTT
* *
8864320 AAAATTATATTTTGACCCCTAAACTTTTCCAAAATTATATTTTAACCCCAAAACTTTTT
1 AAAATTACATTTTGACCCC-AAACTTTTCCAAAATTATATTTTAACCCCAAAACTTCTT
* * * *
8864379 GAAGATTACATTTTGACCCCCAAACTTTTTCCAAAATTAGATTTTGACCCCAAAACTT-TCC
1 -AAAATTACATTTTGA-CCCCAAAC-TTTTCCAAAATTATATTTTAACCCCAAAACTTCT-T
*
8864440 AAAATTACCATTTT-ACCCCAAAC-TTCCCAAAATT
1 AAAATTA-CATTTTGACCCCAAACTTTTCCAAAATT
8864474 CCACTTTTGA
Statistics
Matches: 191, Mismatches: 15, Indels: 18
0.85 0.07 0.08
Matches are distributed among these distances:
57 10 0.05
58 1 0.01
59 62 0.32
60 78 0.41
61 40 0.21
ACGTcount: A:0.37, C:0.23, G:0.03, T:0.36
Consensus pattern (58 bp):
AAAATTACATTTTGACCCCAAACTTTTCCAAAATTATATTTTAACCCCAAAACTTCTT
Found at i:8864528 original size:29 final size:29
Alignment explanation
Indices: 8864406--8864647 Score: 143
Period size: 28 Copynumber: 8.3 Consensus size: 29
8864396 CCCCAAACTT
* *
8864406 TTTCCAAAATTA-GATTTTGACCC-CAAAAC
1 TTTCCAAAATTACCATTTT-ACCCTC-GAAC
*
8864435 TTTCCAAAATTACCATTTTACCC-CAAAC
1 TTTCCAAAATTACCATTTTACCCTCGAAC
* *
8864463 TTCCCAAAATT-CCACTTTTGACCCT--AAT
1 TTTCCAAAATTACCA-TTTT-ACCCTCGAAC
8864491 TTTACCCAAAATTACCATTTTACCCTCGAAC
1 TTT--CCAAAATTACCATTTTACCCTCGAAC
*
8864522 TTTCCAAAA-TCCCATTTTTAACCCT-G-A-
1 TTTCCAAAATTACCA-TTTT-ACCCTCGAAC
* *
8864549 TTTCACCAAAAATTACCATTTCACCCCCGAA-
1 TTT--CC-AAAATTACCATTTTACCCTCGAAC
* * *
8864580 TTTTCAAAATT-CCATTTTTAACCTCG-AT
1 TTTCCAAAATTACCA-TTTTACCCTCGAAC
* *
8864608 TTTACCCAAAATTATCATTTTACCCTCAAAC
1 TTT--CCAAAATTACCATTTTACCCTCGAAC
8864639 -TTCCAAAAT
1 TTTCCAAAAT
8864648 CCCCGTTTTG
Statistics
Matches: 172, Mismatches: 18, Indels: 47
0.73 0.08 0.20
Matches are distributed among these distances:
27 10 0.06
28 51 0.30
29 44 0.26
30 48 0.28
31 19 0.11
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.34
Consensus pattern (29 bp):
TTTCCAAAATTACCATTTTACCCTCGAAC
Found at i:8864529 original size:87 final size:85
Alignment explanation
Indices: 8864432--8864692 Score: 216
Period size: 87 Copynumber: 3.0 Consensus size: 85
8864422 TTGACCCCAA
8864432 AACTTTCCAAAATTACCATTTTACCCCAAACTTCCCAAAATTCCACTTTTGACCCTAATTTTACC
1 AACTTTCCAAAATTACCATTTTACCCCAAACTTCCCAAAATTCCACTTTTGACCC-AATTTTA-C
8864497 CAAAATTACCATTTTACCCTCG
64 CAAAATTACCATTTTACCCTCG
* * ** * *
8864519 AACTTTCCAAAA-TCCCATTTTTAACCCTGATTTCACCAAAAATTACCA--TTTCACCCCCGAAT
1 AACTTTCCAAAATTACCA-TTTTACCCCAAACTTC-CC-AAAATT-CCACTTTTGA--CCC-AAT
*
8864581 TTT--CAAAATT-CCATTTTTAACCTCG
59 TTTACCAAAATTACCA-TTTTACCCTCG
* * *
8864606 -ATTTTACCCAAAATTATCATTTTACCCTCAAACTT-CCAAAA-TCCCCGTTTTGACCCAATTTC
1 AACTTT--CCAAAATTACCATTTTACCC-CAAACTTCCCAAAATTCCAC-TTTTGACCCAATTT-
* *
8864668 AACCAAAATTACCGTTTTACCCTCG
61 TACCAAAATTACCATTTTACCCTCG
8864693 GGTATCCAAA
Statistics
Matches: 136, Mismatches: 20, Indels: 36
0.71 0.10 0.19
Matches are distributed among these distances:
84 7 0.05
85 4 0.03
86 15 0.11
87 64 0.47
88 21 0.15
89 13 0.10
90 12 0.09
ACGTcount: A:0.32, C:0.31, G:0.03, T:0.34
Consensus pattern (85 bp):
AACTTTCCAAAATTACCATTTTACCCCAAACTTCCCAAAATTCCACTTTTGACCCAATTTTACCA
AAATTACCATTTTACCCTCG
Found at i:8864561 original size:59 final size:59
Alignment explanation
Indices: 8864438--8864692 Score: 277
Period size: 58 Copynumber: 4.4 Consensus size: 59
8864428 CCAAAACTTT
* * * * * *
8864438 CCAAAATTACCATTTTACCC-CAAACTTCCCAAAATTCCACTTTTGACCCTAATTTTAC
1 CCAAAATTACCATTTTACCCTCGAACTTTCCAAAATCCCATTTTTAACCCTAATTTCAC
*
8864496 CCAAAATTACCATTTTACCCTCGAACTTTCCAAAATCCCATTTTTAACCCTGATTTCAC
1 CCAAAATTACCATTTTACCCTCGAACTTTCCAAAATCCCATTTTTAACCCTAATTTCAC
* * * * * * *
8864555 CAAAAATTACCATTTCACCCCCGAA-TTTTCAAAATTCCATTTTTAA-CCTCGATTTTAC
1 CCAAAATTACCATTTTACCCTCGAACTTTCCAAAATCCCATTTTTAACCCT-AATTTCAC
* * ** * *
8864613 CCAAAATTATCATTTTACCCTCAAAC-TTCCAAAATCCCCGTTTTGACCC-AATTTCAA
1 CCAAAATTACCATTTTACCCTCGAACTTTCCAAAATCCCATTTTTAACCCTAATTTCAC
*
8864670 CCAAAATTACCGTTTTACCCTCG
1 CCAAAATTACCATTTTACCCTCG
8864693 GGTATCCAAA
Statistics
Matches: 164, Mismatches: 29, Indels: 9
0.81 0.14 0.04
Matches are distributed among these distances:
57 28 0.17
58 81 0.49
59 55 0.34
ACGTcount: A:0.32, C:0.31, G:0.04, T:0.33
Consensus pattern (59 bp):
CCAAAATTACCATTTTACCCTCGAACTTTCCAAAATCCCATTTTTAACCCTAATTTCAC
Found at i:8864588 original size:117 final size:116
Alignment explanation
Indices: 8864438--8864689 Score: 314
Period size: 117 Copynumber: 2.2 Consensus size: 116
8864428 CCAAAACTTT
*
8864438 CCAAAATTACCATTTTA-CCCCAAACTTCCCAAAATTCCACTTTTGACCCT-AATTTTACCCAAA
1 CCAAAATTACCATTTTACCCCCAAACTTCCCAAAATTCCA-TTTTGAACCTCAATTTTACCCAAA
* * *
8864501 ATTACCATTTTACCCTCGAACTTTCCAAAATCCCATTTTTAACCCTGATTTC-A
65 ATTACCATTTTACCCTCAAAC-TTCCAAAATCCCAGTTTTAACCC-AATTTCAA
* * ** * *
8864554 CCAAAAATTACCATTTCACCCCCGAA-TTTTCAAAATTCCATTTTTAACCTCGATTTTACCCAAA
1 CC-AAAATTACCATTTTACCCCCAAACTTCCCAAAATTCCATTTTGAACCTCAATTTTACCCAAA
* * *
8864618 ATTATCATTTTACCCTCAAACTTCCAAAATCCCCGTTTTGACCCAATTTCAA
65 ATTACCATTTTACCCTCAAACTTCCAAAATCCCAGTTTTAACCCAATTTCAA
*
8864670 CCAAAATTACCGTTTTACCC
1 CCAAAATTACCATTTTACCC
8864690 TCGGGTATCC
Statistics
Matches: 117, Mismatches: 15, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
115 21 0.18
116 33 0.28
117 57 0.49
118 6 0.05
ACGTcount: A:0.32, C:0.31, G:0.03, T:0.33
Consensus pattern (116 bp):
CCAAAATTACCATTTTACCCCCAAACTTCCCAAAATTCCATTTTGAACCTCAATTTTACCCAAAA
TTACCATTTTACCCTCAAACTTCCAAAATCCCAGTTTTAACCCAATTTCAA
Found at i:8865480 original size:29 final size:29
Alignment explanation
Indices: 8865447--8865506 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
8865437 GATCCAGTCA
8865447 CACCCAAATAAAAGATTGGTGGCGACTCC
1 CACCCAAATAAAAGATTGGTGGCGACTCC
8865476 CACCCAAATAAAAGATTGGTGGCGACTCC
1 CACCCAAATAAAAGATTGGTGGCGACTCC
8865505 CA
1 CA
8865507 TTTTCAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.35, C:0.28, G:0.20, T:0.17
Consensus pattern (29 bp):
CACCCAAATAAAAGATTGGTGGCGACTCC
Found at i:8875901 original size:23 final size:24
Alignment explanation
Indices: 8875873--8875921 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
8875863 ATGGCTTTTG
*
8875873 AATATTATTTGAT-AATATTT-TAA
1 AATATT-TTTCATAAATATTTCTAA
8875896 AATATTTTTCATAAATATTTCTAA
1 AATATTTTTCATAAATATTTCTAA
8875920 AA
1 AA
8875922 AATAATAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 5 0.22
23 13 0.57
24 5 0.22
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (24 bp):
AATATTTTTCATAAATATTTCTAA
Found at i:8877493 original size:18 final size:18
Alignment explanation
Indices: 8877470--8877507 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
8877460 TAATATAATT
8877470 TTATTCG-GTTTATTCAAA
1 TTATTCGAG-TTATTCAAA
*
8877488 TTATTCGAGTTATTCGAA
1 TTATTCGAGTTATTCAAA
8877506 TT
1 TT
8877508 CAAAAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 17 0.94
19 1 0.06
ACGTcount: A:0.26, C:0.11, G:0.13, T:0.50
Consensus pattern (18 bp):
TTATTCGAGTTATTCAAA
Found at i:8877571 original size:32 final size:34
Alignment explanation
Indices: 8877509--8877575 Score: 93
Period size: 36 Copynumber: 2.0 Consensus size: 34
8877499 ATTCGAATTC
*
8877509 AAAAATTTAACTCGATTCGAACTCGAAATTCGAAAA
1 AAAAATTCAACTCGATTCGAACT--AAATTCGAAAA
8877545 AAAAATTCAACTCGATTCGAA-T-AATTCGAAA
1 AAAAATTCAACTCGATTCGAACTAAATTCGAAA
8877576 TTCGAAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
32 9 0.30
35 1 0.03
36 20 0.67
ACGTcount: A:0.48, C:0.16, G:0.10, T:0.25
Consensus pattern (34 bp):
AAAAATTCAACTCGATTCGAACTAAATTCGAAAA
Found at i:8883910 original size:31 final size:31
Alignment explanation
Indices: 8883875--8884002 Score: 106
Period size: 31 Copynumber: 4.2 Consensus size: 31
8883865 TTAATATAAC
* *
8883875 ATTTGGTATCTAAACTTGACGCTTTTTTTTA
1 ATTTGGTATCTAAACTTGACACTTTTTTCTA
* * *
8883906 ATTTGGTATCTAAATTTG----TTTTGGTCCA
1 ATTTGGTATCTAAACTTGACACTTTT-TTCTA
* *
8883934 ATTTGATA-CTCAAACTTGACACTTTTTCCTA
1 ATTTGGTATCT-AAACTTGACACTTTTTTCTA
*
8883965 ATTTGATATCTAAACTTGACACCTTTTTT-TA
1 ATTTGGTATCTAAACTTGACA-CTTTTTTCTA
*
8883996 AGTTGGT
1 ATTTGGT
8884003 GCGTAGACTT
Statistics
Matches: 77, Mismatches: 12, Indels: 16
0.73 0.11 0.15
Matches are distributed among these distances:
27 6 0.08
28 15 0.19
31 44 0.57
32 12 0.16
ACGTcount: A:0.25, C:0.15, G:0.12, T:0.48
Consensus pattern (31 bp):
ATTTGGTATCTAAACTTGACACTTTTTTCTA
Found at i:8884284 original size:31 final size:32
Alignment explanation
Indices: 8884248--8884327 Score: 108
Period size: 32 Copynumber: 2.5 Consensus size: 32
8884238 AAGCCTTGGA
* * * **
8884248 ACCAAATTAGGAAAAAA-TGTTAAGTTTATGT
1 ACCAAATTAAGAAAAAAGTGTCAAGTTCAAAT
8884279 ACCAAATTAAGAAAAAAGTGTCAAGTTCAAAT
1 ACCAAATTAAGAAAAAAGTGTCAAGTTCAAAT
8884311 ACCAAATTAAGAAAAAA
1 ACCAAATTAAGAAAAAA
8884328 CATATCAGCC
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
31 16 0.37
32 27 0.63
ACGTcount: A:0.54, C:0.10, G:0.12, T:0.24
Consensus pattern (32 bp):
ACCAAATTAAGAAAAAAGTGTCAAGTTCAAAT
Found at i:8886470 original size:12 final size:12
Alignment explanation
Indices: 8886453--8886485 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
8886443 GAAACGACGC
8886453 CACCCTCTGGTT
1 CACCCTCTGGTT
8886465 CACCCTCTGGTT
1 CACCCTCTGGTT
8886477 CACCCTCTG
1 CACCCTCTG
8886486 CCAGCGCCGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.09, C:0.45, G:0.15, T:0.30
Consensus pattern (12 bp):
CACCCTCTGGTT
Found at i:8890006 original size:22 final size:20
Alignment explanation
Indices: 8889967--8890040 Score: 75
Period size: 22 Copynumber: 3.8 Consensus size: 20
8889957 TATTTTTTAA
*
8889967 TATTTTTT-CAATTTT-TA-
1 TATTTTTTGTAATTTTATAT
*
8889984 TACTTTTTGTAATTTTATAT
1 TATTTTTTGTAATTTTATAT
*
8890004 TATTTGTTTTGCAATTTTATAT
1 TA-TT-TTTTGTAATTTTATAT
8890026 TATTTTTT-TAATTTT
1 TATTTTTTGTAATTTT
8890041 TTCCATTTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
17 7 0.15
18 6 0.13
19 8 0.17
20 6 0.13
21 3 0.06
22 17 0.36
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.69
Consensus pattern (20 bp):
TATTTTTTGTAATTTTATAT
Found at i:8890041 original size:9 final size:9
Alignment explanation
Indices: 8889959--8890068 Score: 55
Period size: 10 Copynumber: 11.4 Consensus size: 9
8889949 ATGCAAACTA
8889959 TTTTTTAAT
1 TTTTTTAAT
8889968 ATTTTTTCAAT
1 -TTTTTT-AAT
* *
8889979 TTTTATACT
1 TTTTTTAAT
*
8889988 TTTTGTAAT
1 TTTTTTAAT
8889997 TTTATATT-AT
1 TTT-T-TTAAT
8890007 TTGTTTTGCAAT
1 TT-TTTT--AAT
8890019 TTTATATT-AT
1 TTT-T-TTAAT
8890029 TTTTTTAAT
1 TTTTTTAAT
**
8890038 TTTTTCCA-
1 TTTTTTAAT
*
8890046 TTTTATAAT
1 TTTTTTAAT
8890055 TTTTTATAAT
1 TTTTT-TAAT
8890065 TTTT
1 TTTT
8890069 GAAAATTCTA
Statistics
Matches: 77, Mismatches: 11, Indels: 24
0.69 0.10 0.21
Matches are distributed among these distances:
8 7 0.09
9 27 0.35
10 30 0.39
11 6 0.08
12 5 0.06
13 2 0.03
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.69
Consensus pattern (9 bp):
TTTTTTAAT
Found at i:8890059 original size:10 final size:10
Alignment explanation
Indices: 8890046--8890101 Score: 51
Period size: 10 Copynumber: 5.3 Consensus size: 10
8890036 ATTTTTTCCA
8890046 TTTTATAATT
1 TTTTATAATT
8890056 TTTTATAATT
1 TTTTATAATT
* *
8890066 TTTGAAAATTCTAT
1 TTTTATAA---T-T
8890080 TTTTATAATT
1 TTTTATAATT
8890090 TTTTA-AATT
1 TTTTATAATT
8890099 TTT
1 TTT
8890102 AAAATCTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
9 7 0.18
10 22 0.58
11 1 0.03
13 1 0.03
14 7 0.18
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (10 bp):
TTTTATAATT
Found at i:8890160 original size:28 final size:29
Alignment explanation
Indices: 8890129--8890206 Score: 70
Period size: 28 Copynumber: 2.7 Consensus size: 29
8890119 TCTAAAATAA
8890129 TTTTTTATTATTTTAATATTTTTTAT-TT
1 TTTTTTATTATTTTAATATTTTTTATATT
* ** *
8890157 TTTTTGAAAATTCTAAT-TTTTTTATATT
1 TTTTTTATTATTTTAATATTTTTTATATT
** *
8890185 TTAGTTATTATTCTTATTATTT
1 TTTTTTATTATT-TTAATATTT
8890207 GAACAATTTT
Statistics
Matches: 36, Mismatches: 11, Indels: 4
0.71 0.22 0.08
Matches are distributed among these distances:
27 8 0.22
28 22 0.61
29 3 0.08
30 3 0.08
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (29 bp):
TTTTTTATTATTTTAATATTTTTTATATT
Found at i:8891805 original size:17 final size:19
Alignment explanation
Indices: 8891778--8891812 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
8891768 CTTTTGCTTA
8891778 TACAATACTC-ACTTTTAT
1 TACAATACTCAACTTTTAT
8891796 TACAAT-CTCAACTTTTA
1 TACAATACTCAACTTTTA
8891813 AATAGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.34, C:0.23, G:0.00, T:0.43
Consensus pattern (19 bp):
TACAATACTCAACTTTTAT
Found at i:8894190 original size:20 final size:18
Alignment explanation
Indices: 8894154--8894220 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 18
8894144 TTATTCAAAT
8894154 AATTA-TAAATATATATAGAA
1 AATTATTAAA-AT-TATA-AA
8894174 AATTATTAAGAATTATAAGA
1 AATTATTAA-AATTATAA-A
*
8894194 AATTGTTTAAAATTATTAAA
1 AATT-ATTAAAATTA-TAAA
8894214 AATTATT
1 AATTATT
8894221 TCAAAATTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
19 3 0.08
20 24 0.60
21 12 0.30
22 1 0.03
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (18 bp):
AATTATTAAAATTATAAA
Found at i:8894815 original size:33 final size:34
Alignment explanation
Indices: 8894745--8894808 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
8894735 ATTTAAATCA
8894745 AAATTAAAATTATATATATATATATAATTACACT
1 AAATTAAAATTATATATATATATATAATTACACT
*
8894779 AAATTAAAATT-TTTATATAT-TA-AATTACAC
1 AAATTAAAATTATATATATATATATAATTACAC
8894809 ATTAAATCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 8 0.28
32 2 0.07
33 8 0.28
34 11 0.38
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (34 bp):
AAATTAAAATTATATATATATATATAATTACACT
Found at i:8895519 original size:28 final size:26
Alignment explanation
Indices: 8895487--8895550 Score: 74
Period size: 28 Copynumber: 2.4 Consensus size: 26
8895477 ACTTTTTCTT
*
8895487 AATTTGATACCTATACTTTTTTTGACCC
1 AATTTGATACCTA-AATTTTTTT-ACCC
* *
8895515 AATTTGATATCTAAATTTTTTTATCC
1 AATTTGATACCTAAATTTTTTTACCC
*
8895541 AATCTGATAC
1 AATTTGATAC
8895551 TTGAACTTGG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 11 0.35
27 8 0.26
28 12 0.39
ACGTcount: A:0.30, C:0.17, G:0.06, T:0.47
Consensus pattern (26 bp):
AATTTGATACCTAAATTTTTTTACCC
Found at i:8895843 original size:30 final size:32
Alignment explanation
Indices: 8895808--8895886 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 32
8895798 GAATCTCAAA
*
8895808 AAGTTTAAGTACCAACTT-A-AAAAAAATATC
1 AAGTTTAAGTACCAAATTAAGAAAAAAATATC
* *
8895838 GAGTTT-AGATATCAAATTAAGAAAAAAATATC
1 AAGTTTAAG-TACCAAATTAAGAAAAAAATATC
*
8895870 AAGTTCAAGTACCAAAT
1 AAGTTTAAGTACCAAAT
8895887 GTTATATTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
29 2 0.05
30 12 0.31
31 1 0.03
32 22 0.56
33 2 0.05
ACGTcount: A:0.52, C:0.11, G:0.10, T:0.27
Consensus pattern (32 bp):
AAGTTTAAGTACCAAATTAAGAAAAAAATATC
Found at i:8901325 original size:7 final size:7
Alignment explanation
Indices: 8901313--8901337 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
8901303 ACTAGTGAAT
8901313 GTGCACA
1 GTGCACA
8901320 GTGCACA
1 GTGCACA
8901327 GTGCACA
1 GTGCACA
8901334 GTGC
1 GTGC
8901338 CCAACAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.28, G:0.32, T:0.16
Consensus pattern (7 bp):
GTGCACA
Found at i:8914566 original size:19 final size:19
Alignment explanation
Indices: 8914542--8914580 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
8914532 TAGAGTTGAC
8914542 CTTGTGACTCAAACAAACA
1 CTTGTGACTCAAACAAACA
8914561 CTTGTGACTCAAACAAACA
1 CTTGTGACTCAAACAAACA
8914580 C
1 C
8914581 AAAACTCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.28, G:0.10, T:0.21
Consensus pattern (19 bp):
CTTGTGACTCAAACAAACA
Found at i:8922112 original size:23 final size:24
Alignment explanation
Indices: 8922071--8922115 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
8922061 TGGAGATTCG
*
8922071 GGAATTTTGAGGGGGCGGAGGGAT
1 GGAATTGTGAGGGGGCGGAGGGAT
*
8922095 GGAATTGTG-GGGGTCGGAGGG
1 GGAATTGTGAGGGGGCGGAGGG
8922116 CAACAAAGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.18, C:0.04, G:0.58, T:0.20
Consensus pattern (24 bp):
GGAATTGTGAGGGGGCGGAGGGAT
Found at i:8922827 original size:26 final size:27
Alignment explanation
Indices: 8922790--8922844 Score: 69
Period size: 26 Copynumber: 2.0 Consensus size: 27
8922780 TAATATTTCA
8922790 ACTTAACATTTTTTTCAT-AATTTGAT
1 ACTTAACATTTTTTTCATCAATTTGAT
*
8922816 ACTTAAGC-TTTTTTTGATCCAATTTGAT
1 ACTTAA-CATTTTTTTCAT-CAATTTGAT
8922844 A
1 A
8922845 TCTGAACTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 15 0.60
27 1 0.04
28 9 0.36
ACGTcount: A:0.29, C:0.13, G:0.07, T:0.51
Consensus pattern (27 bp):
ACTTAACATTTTTTTCATCAATTTGAT
Found at i:8922830 original size:59 final size:58
Alignment explanation
Indices: 8922739--8922902 Score: 152
Period size: 59 Copynumber: 2.8 Consensus size: 58
8922729 TTAAATTTGT
* * * *
8922739 CATTTTTTAT-TAATTTGGTATCTAA-ATTTTTTTATTTAATTTAATATTTCAACTTAA
1 CATTTTTT-TCTAATTTGATACCTAAGCTTTTTTTATTTAATTTAATATCTCAACTTAA
* ** * * *
8922796 CATTTTTTTCATAATTTGATACTTAAGCTTTTTTTGATCCAATTTGATATCTGAACTTGA
1 CATTTTTTTC-TAATTTGATACCTAAGCTTTTTTT-ATTTAATTTAATATCTCAACTTAA
* * * *
8922856 CATTTTTTTCTTATTTGGTGCCTAAGCTTTTTTTTTTTAGATTTAAT
1 CATTTTTTTCTAATTTGATACCTAAGCTTTTTTTATTTA-ATTTAAT
8922903 TTGGTACATA
Statistics
Matches: 84, Mismatches: 18, Indels: 8
0.76 0.16 0.07
Matches are distributed among these distances:
56 1 0.01
57 8 0.10
58 14 0.17
59 33 0.39
60 28 0.33
ACGTcount: A:0.26, C:0.10, G:0.08, T:0.56
Consensus pattern (58 bp):
CATTTTTTTCTAATTTGATACCTAAGCTTTTTTTATTTAATTTAATATCTCAACTTAA
Found at i:8923112 original size:31 final size:31
Alignment explanation
Indices: 8923065--8923124 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
8923055 AAAAGATTAA
8923065 GTACCAAATTAAAAAAAAGA-GTCAAGTTTAG
1 GTACCAAATTAAAAAAAA-ATGTCAAGTTTAG
* *
8923096 GTACTAAATTAGAAAAAAATGTCAAGTTT
1 GTACCAAATTAAAAAAAAATGTCAAGTTT
8923125 GAGTATCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 1 0.04
31 25 0.96
ACGTcount: A:0.50, C:0.08, G:0.15, T:0.27
Consensus pattern (31 bp):
GTACCAAATTAAAAAAAAATGTCAAGTTTAG
Found at i:8923136 original size:31 final size:29
Alignment explanation
Indices: 8923064--8923136 Score: 76
Period size: 31 Copynumber: 2.3 Consensus size: 29
8923054 AAAAAGATTA
8923064 AGTACCAAATTAAAAAAAAGAGTCAAGTTT
1 AGTA-CAAATTAAAAAAAAGAGTCAAGTTT
*
8923094 AGGTACTAAATTAGAAAAAAA-TGTCAAGTTT
1 A-GTAC-AAATTA-AAAAAAAGAGTCAAGTTT
8923125 GAGTATCAAATT
1 -AGTA-CAAATT
8923137 GGACCAAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
30 2 0.05
31 26 0.70
32 9 0.24
ACGTcount: A:0.49, C:0.08, G:0.15, T:0.27
Consensus pattern (29 bp):
AGTACAAATTAAAAAAAAGAGTCAAGTTT
Found at i:8924712 original size:39 final size:39
Alignment explanation
Indices: 8924658--8924734 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
8924648 TCGAATGTCA
*
8924658 TGTTGGAATATTGCTTCTTTTGAATCGATTGCTATGATT
1 TGTTGGAATACTGCTTCTTTTGAATCGATTGCTATGATT
*
8924697 TGTTGGAATACTGCTTCTTTTGAATCGATTGTTATGAT
1 TGTTGGAATACTGCTTCTTTTGAATCGATTGCTATGAT
8924735 GGAATAATGC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.21, C:0.10, G:0.21, T:0.48
Consensus pattern (39 bp):
TGTTGGAATACTGCTTCTTTTGAATCGATTGCTATGATT
Found at i:8924746 original size:34 final size:34
Alignment explanation
Indices: 8924646--8924749 Score: 118
Period size: 39 Copynumber: 2.9 Consensus size: 34
8924636 TATATGTTTA
* * *
8924646 AATCGAATGTCATGTTGGAATATTGCTTCTTTTG
1 AATCGATTGTTATGTTGGAATAATGCTTCTTTTG
*
8924680 AATCGATTGCTATGATTTGTTGGAATACTGCTTCTTTTG
1 AATCGATTG-T-T-A--TGTTGGAATAATGCTTCTTTTG
*
8924719 AATCGATTGTTATGATGGAATAATGCTTCTT
1 AATCGATTGTTATGTTGGAATAATGCTTCTT
8924750 CTTCTTTTGA
Statistics
Matches: 60, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
34 25 0.42
35 1 0.02
36 1 0.02
37 2 0.03
38 1 0.02
39 30 0.50
ACGTcount: A:0.24, C:0.12, G:0.20, T:0.44
Consensus pattern (34 bp):
AATCGATTGTTATGTTGGAATAATGCTTCTTTTG
Found at i:8926322 original size:66 final size:66
Alignment explanation
Indices: 8926236--8926382 Score: 161
Period size: 66 Copynumber: 2.2 Consensus size: 66
8926226 TATCTTGTTA
* * * * *
8926236 AGGAGCTTAGGAAGAGTTGATATCTCATTCAGGATCTAGGAATTGAGAAGAAC-TGATATCTCAT
1 AGGAGCTTGGGAAGACTTGATATATCATTCAAGAGCTAGGAATTGAGAA-AACTTGATATCTCAT
8926300 CT
65 CT
** * * * * *
8926302 AGGAGCTTGGGAAGACTTGATATATTGTTCAAGAGCTTGGGATTGAGAATACTTGATATCTCGTT
1 AGGAGCTTGGGAAGACTTGATATATCATTCAAGAGCTAGGAATTGAGAAAACTTGATATCTCATC
8926367 T
66 T
*
8926368 AGGAGCTTGGAAAGA
1 AGGAGCTTGGGAAGA
8926383 TCCGATATTT
Statistics
Matches: 67, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
65 2 0.03
66 65 0.97
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.30
Consensus pattern (66 bp):
AGGAGCTTGGGAAGACTTGATATATCATTCAAGAGCTAGGAATTGAGAAAACTTGATATCTCATC
T
Found at i:8937051 original size:18 final size:18
Alignment explanation
Indices: 8937028--8937065 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
8937018 TAATATAATT
8937028 TTATTCG-GTTTATTCGAA
1 TTATTCGAG-TTATTCGAA
8937046 TTATTCGAGTTATTCGAA
1 TTATTCGAGTTATTCGAA
8937064 TT
1 TT
8937066 CGAAAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 18 0.95
19 1 0.05
ACGTcount: A:0.24, C:0.11, G:0.16, T:0.50
Consensus pattern (18 bp):
TTATTCGAGTTATTCGAA
Found at i:8937214 original size:14 final size:14
Alignment explanation
Indices: 8937183--8937217 Score: 56
Period size: 12 Copynumber: 2.6 Consensus size: 14
8937173 AATAATTCAA
8937183 AATTCGAATTTTTT
1 AATTCGAATTTTTT
8937197 --TTCGAATTTTTT
1 AATTCGAATTTTTT
8937209 AATTCGAAT
1 AATTCGAAT
8937218 CGAGTTATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 12 0.63
14 7 0.37
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.54
Consensus pattern (14 bp):
AATTCGAATTTTTT
Found at i:8937356 original size:13 final size:13
Alignment explanation
Indices: 8937335--8937364 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
8937325 TTATTTTGAT
*
8937335 TTTTTAATTTAAA
1 TTTTGAATTTAAA
8937348 TTTTGAATTTAAA
1 TTTTGAATTTAAA
8937361 TTTT
1 TTTT
8937365 TTTAGTCTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (13 bp):
TTTTGAATTTAAA
Found at i:8944161 original size:19 final size:19
Alignment explanation
Indices: 8944137--8944173 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
8944127 GCATAAATGT
*
8944137 CGCAAAAGGTAAAGCAATC
1 CGCAAAAGCTAAAGCAATC
8944156 CGCAAAAGCTAAAGCAAT
1 CGCAAAAGCTAAAGCAAT
8944174 AGCGGCATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.49, C:0.22, G:0.19, T:0.11
Consensus pattern (19 bp):
CGCAAAAGCTAAAGCAATC
Found at i:8944227 original size:42 final size:39
Alignment explanation
Indices: 8944166--8944389 Score: 133
Period size: 41 Copynumber: 5.5 Consensus size: 39
8944156 CGCAAAAGCT
* * *
8944166 AAAGCAATAGCGGCATTTATAGGAAAAATGACTCTAAAGGTC
1 AAAGCATTAGCGGCGTTTATAGG--AAA-GACGCTAAAGGTC
* * * *
8944208 AAAGCATTAGTGGCGTTTATGAGGAAGCGCCGCTAAAAGTC
1 AAAGCATTAGCGGCGTTTAT-AGGAA-AGACGCTAAAGGTC
* * *
8944249 AGAGCATTAGTGGCGTTTATAGGCAAGCACCGCTAAAGGTC
1 AAAGCATTAGCGGCGTTTATAGGAAAG-A-CGCTAAAGGTC
* * * * *
8944290 AGAGCATTAGCGGCGTTTATGGGGAAGCGCTGCTAAAGGTT
1 AAAGCATTAGCGGCGTTTATAGGAAAG-AC-GCTAAAGGTC
* ** * * * *
8944331 AGAGCATTAGCAACGTTTATGGGGAAGCGCCGCTAAAGATC
1 AAAGCATTAGCGGCGTTTAT-AGGAA-AGACGCTAAAGGTC
* *
8944372 AGAGCAATAGCGGCGTTT
1 AAAGCATTAGCGGCGTTT
8944390 TCCCATAAAC
Statistics
Matches: 148, Mismatches: 27, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
39 1 0.01
40 5 0.03
41 116 0.78
42 22 0.15
43 4 0.03
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (39 bp):
AAAGCATTAGCGGCGTTTATAGGAAAGACGCTAAAGGTC
Found at i:8944255 original size:41 final size:41
Alignment explanation
Indices: 8944199--8944389 Score: 249
Period size: 41 Copynumber: 4.7 Consensus size: 41
8944189 AAAAATGACT
* *
8944199 CTAAAGGTCAAAGCATTAGTGGCGTTTATGAGGAAGCGCCG
1 CTAAAGGTCAGAGCATTAGCGGCGTTTATGAGGAAGCGCCG
* * *
8944240 CTAAAAGTCAGAGCATTAGTGGCGTTTAT-AGGCAAGCACCG
1 CTAAAGGTCAGAGCATTAGCGGCGTTTATGAGG-AAGCGCCG
* *
8944281 CTAAAGGTCAGAGCATTAGCGGCGTTTATGGGGAAGCGCTG
1 CTAAAGGTCAGAGCATTAGCGGCGTTTATGAGGAAGCGCCG
* ** *
8944322 CTAAAGGTTAGAGCATTAGCAACGTTTATGGGGAAGCGCCG
1 CTAAAGGTCAGAGCATTAGCGGCGTTTATGAGGAAGCGCCG
* *
8944363 CTAAAGATCAGAGCAATAGCGGCGTTT
1 CTAAAGGTCAGAGCATTAGCGGCGTTT
8944390 TCCCATAAAC
Statistics
Matches: 131, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
40 3 0.02
41 126 0.96
42 2 0.02
ACGTcount: A:0.29, C:0.18, G:0.31, T:0.22
Consensus pattern (41 bp):
CTAAAGGTCAGAGCATTAGCGGCGTTTATGAGGAAGCGCCG
Found at i:8946368 original size:41 final size:40
Alignment explanation
Indices: 8946323--8946450 Score: 148
Period size: 41 Copynumber: 3.1 Consensus size: 40
8946313 AAAAAATTAG
* * *
8946323 AGGTCAAGCAACAGCGACGTTTGTGGGAAAAACGTCGCTAA
1 AGGTCAAGCAATAGCGA-GTTTATGGGAAAAACGCCGCTAA
* * *
8946364 AGGTCAAGCAATAACGGAGTTTATGGGGAAAACGCCACTAA
1 AGGTCAAGCAATAGC-GAGTTTATGGGAAAAACGCCGCTAA
* * *
8946405 AGGTCAAGCAATAGCAATGTTTATGGGAAAAATGCCGCAAA
1 AGGTCAAGCAATAGCGA-GTTTATGGGAAAAACGCCGCTAA
8946446 AGGTC
1 AGGTC
8946451 CAGAGCATTA
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
40 1 0.01
41 70 0.96
42 2 0.03
ACGTcount: A:0.38, C:0.17, G:0.27, T:0.18
Consensus pattern (40 bp):
AGGTCAAGCAATAGCGAGTTTATGGGAAAAACGCCGCTAA
Found at i:8949615 original size:30 final size:29
Alignment explanation
Indices: 8949575--8949632 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
8949565 CGGAGGCAGC
* * *
8949575 AGCGAGGGAAGCAGAGGCAGCAATGAAAGA
1 AGCGAAGGAAGCAGAAGCAACAA-GAAAGA
8949605 AGCGAAGGAAGCAGAAGCAACAAGAAAG
1 AGCGAAGGAAGCAGAAGCAACAAGAAAG
8949633 TATGACGAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.48, C:0.14, G:0.36, T:0.02
Consensus pattern (29 bp):
AGCGAAGGAAGCAGAAGCAACAAGAAAGA
Found at i:8949997 original size:43 final size:42
Alignment explanation
Indices: 8949931--8950143 Score: 277
Period size: 43 Copynumber: 5.0 Consensus size: 42
8949921 ATCTGTTAAT
*
8949931 TTTAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGACCATGTTC
1 TTTAGCAGCGTTTGTGGG-AAAGTGCCGCTAAAGACCATGTTC
*
8949974 TTTAGCAGCGTTTGTGAGGAAAGTGCTGCTAAAGACCATGTTC
1 TTTAGCAGCGTTTGTG-GGAAAGTGCCGCTAAAGACCATGTTC
* * * *
8950017 TTTAGCAACATTTGTGGGAAA-AGCACTGCTAAAGACTATGTTC
1 TTTAGCAGCGTTTGTGGGAAAGTGC-C-GCTAAAGACCATGTTC
8950060 TTTAGCAGCGTTTGTGAGGAAAGTGCCGCTAAAGACCATGTTC
1 TTTAGCAGCGTTTGTG-GGAAAGTGCCGCTAAAGACCATGTTC
* *
8950103 TTTAGC-GACGTTTGTGTGTAAAGCGCCGCTAAAGACCATGT
1 TTTAGCAG-CGTTTGTG-GGAAAGTGCCGCTAAAGACCATGT
8950144 ACTATAGAGA
Statistics
Matches: 150, Mismatches: 14, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
41 2 0.01
42 6 0.04
43 132 0.88
44 8 0.05
45 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (42 bp):
TTTAGCAGCGTTTGTGGGAAAGTGCCGCTAAAGACCATGTTC
Found at i:8950158 original size:86 final size:86
Alignment explanation
Indices: 8949931--8950143 Score: 336
Period size: 86 Copynumber: 2.5 Consensus size: 86
8949921 ATCTGTTAAT
* *
8949931 TTTAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGACCATGTTCTTTAGCAGCGTTTGTGAGGAAA
1 TTTAGCGACGTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTCTTTAGCAGCGTTTGTGAGGAAA
*
8949996 GTGCTGCTAAAGACCATGTTC
66 GTGCCGCTAAAGACCATGTTC
* * * * *
8950017 TTTAGCAACATTTGTGGGAAAAGCACTGCTAAAGACTATGTTCTTTAGCAGCGTTTGTGAGGAAA
1 TTTAGCGACGTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTCTTTAGCAGCGTTTGTGAGGAAA
8950082 GTGCCGCTAAAGACCATGTTC
66 GTGCCGCTAAAGACCATGTTC
* *
8950103 TTTAGCGACGTTTGTGTGTAAAGCGCCGCTAAAGACCATGT
1 TTTAGCGACGTTTGTGGGAAAAGCGCCGCTAAAGACCATGT
8950144 ACTATAGAGA
Statistics
Matches: 112, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
86 112 1.00
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (86 bp):
TTTAGCGACGTTTGTGGGAAAAGCGCCGCTAAAGACCATGTTCTTTAGCAGCGTTTGTGAGGAAA
GTGCCGCTAAAGACCATGTTC
Found at i:8950992 original size:16 final size:16
Alignment explanation
Indices: 8950971--8951007 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
8950961 AACCGAGCAT
*
8950971 AAAATTGATTAAACAA
1 AAAATTGAATAAACAA
*
8950987 AAAATTGAATAAACTA
1 AAAATTGAATAAACAA
8951003 AAAAT
1 AAAAT
8951008 ATCGAGTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.24
Consensus pattern (16 bp):
AAAATTGAATAAACAA
Found at i:8953882 original size:17 final size:17
Alignment explanation
Indices: 8953860--8953892 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8953850 ATAATTTTAC
*
8953860 TTTTAATAATTTAAAAT
1 TTTTAAAAATTTAAAAT
8953877 TTTTAAAAATTTAAAA
1 TTTTAAAAATTTAAAA
8953893 AACTAAAATG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTTAAAAATTTAAAAT
Found at i:8954549 original size:18 final size:18
Alignment explanation
Indices: 8954526--8954568 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
8954516 GAATAGGCTT
8954526 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
*
8954544 TTAATTAAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
8954562 TTAATTA
1 TTAATTA
8954569 CACCTTGAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:8961786 original size:2 final size:2
Alignment explanation
Indices: 8961779--8961815 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
8961769 ATTCTTCTTT
8961779 TA TA TA TA TA 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 TA TA TA TA TA T
8961816 TCTTTCTTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8970581 original size:6 final size:6
Alignment explanation
Indices: 8970570--8970625 Score: 69
Period size: 6 Copynumber: 9.3 Consensus size: 6
8970560 AATTTGATTG
* **
8970570 AATTTA AATTTA AA-GTA AATTTA AATTTAA AAGATA AATTTA AATTTA
1 AATTTA AATTTA AATTTA AATTTA AATTT-A AATTTA AATTTA AATTTA
8970618 AATTTA AA
1 AATTTA AA
8970626 AATAAATTTG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
5 4 0.10
6 34 0.81
7 4 0.10
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (6 bp):
AATTTA
Found at i:8970609 original size:19 final size:18
Alignment explanation
Indices: 8970570--8970619 Score: 84
Period size: 19 Copynumber: 2.8 Consensus size: 18
8970560 AATTTGATTG
8970570 AATTTAAATTT-AAAGTA
1 AATTTAAATTTAAAAGTA
8970587 AATTTAAATTTAAAAGATA
1 AATTTAAATTTAAAAG-TA
8970606 AATTTAAATTTAAA
1 AATTTAAATTTAAA
8970620 TTTAAAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.35
18 4 0.13
19 16 0.52
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (18 bp):
AATTTAAATTTAAAAGTA
Found at i:8970617 original size:25 final size:24
Alignment explanation
Indices: 8970585--8970634 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 24
8970575 AAATTTAAAG
8970585 TAAATTTAAATTTAAAAGATAAATT
1 TAAATTTAAATTTAAAA-ATAAATT
8970610 TAAATTTAAATTTAAAAATAAATT
1 TAAATTTAAATTTAAAAATAAATT
8970634 T
1 T
8970635 GAATCAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (24 bp):
TAAATTTAAATTTAAAAATAAATT
Found at i:8970631 original size:12 final size:12
Alignment explanation
Indices: 8970591--8970634 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
8970581 AAAGTAAATT
8970591 TAAATTTAAAAGA
1 TAAATTTAAAA-A
**
8970604 TAAATTTAAATT
1 TAAATTTAAAAA
8970616 TAAATTTAAAAA
1 TAAATTTAAAAA
8970628 TAAATTT
1 TAAATTT
8970635 GAATCAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
12 17 0.63
13 10 0.37
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (12 bp):
TAAATTTAAAAA
Found at i:8971025 original size:92 final size:92
Alignment explanation
Indices: 8970905--8972607 Score: 1758
Period size: 92 Copynumber: 18.4 Consensus size: 92
8970895 TGATGTCGAG
* * * *
8970905 GCTTTATCTTA-CTCTTACTACAACTTCAGAGAGATAAAGGCTTGCTATCCAACTTTACTTCAAT
1 GCTTTATC-TAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGTTATCCAACTTTACTTCAAT
* *
8970969 TTCAAGATGATAGAAAATGATATTTAAT
65 TTCAAGAGGATAGAAAATGATATTTGAT
* *
8970997 GCTTTTTCTAGCTCTTACTTCAATTTCAGAGAGATAAAGATTTGTTATCCAACTTTACTTCAATT
1 GCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGTTATCCAACTTTACTTCAATT
* *
8971062 TCAAGAGGATAGGAAATGATAATTGAT
66 TCAAGAGGATAGAAAATGATATTTGAT
* * *
8971089 GCTTTATCTAGCTATTACTTCAATTTCAGAGAGATAAAGATTTGTTATCCTACTTTACTTCAATT
1 GCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGTTATCCAACTTTACTTCAATT
*
8971154 TCAAGAGGATAGGAAATGATGA-TTGAT
66 TCAAGAGGATAGAAAATGAT-ATTTGAT
*
8971181 GCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGTTATCCAACTTTACTTCGATT
1 GCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGTTATCCAACTTTACTTCAATT
* *
8971246 TCAAGAGGATAGGAAATGATATTTAAT
66 TCAAGAGGATAGAAAATGATATTTGAT
* * *
8971273 GCTTCATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGTTATCCAGCTCTACTTCAATT
1 GCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGTTATCCAACTTTACTTCAATT
* * *
8971338 TTAAGAGGATAAAAAATGATGTTTGAT
66 TCAAGAGGATAGAAAATGATATTTGAT
* **
8971365 GCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGATTTGTTATCTTACTTTACTTCAATT
1 GCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGTTATCCAACTTTACTTCAATT
8971430 TCAAGAGGATA-AGAAATGATGA-TTGAT
66 TCAAGAGGATAGA-AAATGAT-ATTTGAT
* * *
8971457 GCTTTATTTAGCTCTTACTTCAATTTCAGAGAGATAAAGATTTGTTATCCTACTTTACTTCAATT
1 GCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGTTATCCAACTTTACTTCAATT
* *
8971522 TCAAGAGGATAGGAAATGATAATTGAT
66 TCAAGAGGATAGAAAATGATATTTGAT
* * *
8971549 GTTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGATTTGTTATCCTACTTTACTTCAATT
1 GCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGTTATCCAACTTTACTTCAATT
8971614 TCAAGAGGATAGAAAATGATGA-TTGAT
66 TCAAGAGGATAGAAAATGAT-ATTTGAT
* *
8971641 GCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGATTTGTTATCCTACTTTACTTCAATT
1 GCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGTTATCCAACTTTACTTCAATT
* *
8971706 TCAAGAGGATAGGAAATGATGTTTTGAT
66 TCAAGAGGATAGAAAATGAT-ATTTGAT
* *
8971734 GCTTTATCTAGCTCTTACTTAAATTTCAGAGAGATAAAGACTTGTTATCCAACTTTACTTCGATT
1 GCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGTTATCCAACTTTACTTCAATT
* *
8971799 TCAAGAGGATAGGAAATGATATTTAAT
66 TCAAGAGGATAGAAAATGATATTTGAT
* * * *
8971826 GCTTCATCTAACTCTTACTTCAATTTCAGAGAGATAAAGACTTGTTATCCAGCTCTACTTCAATT
1 GCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGTTATCCAACTTTACTTCAATT
* * *
8971891 TCAAGAGAATAAAAAATGATGTTTGAT
66 TCAAGAGGATAGAAAATGATATTTGAT
*
8971918 GCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGTTATCCATCTTTACTTCAATT
1 GCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGTTATCCAACTTTACTTCAATT
* * *
8971983 TCAAGAGGATAAAAAATTGACATTTGAA
66 TCAAGAGGATAGAAAA-TGATATTTGAT
** * * * * * *
8972011 AATTCATCTTGCTCTTACTAT-AACTTCAGAGTGATGAAGA-TTCGTTATCCATCTTTACTAT-A
1 GCTTTATCTAGCTCTTACT-TCAATTTCAGAGAGATAAAGACTT-GTTATCCAACTTTACT-TCA
* * *
8972073 ACTTCAAGAGGATA-AAAATTTGACATTTGAA
63 ATTTCAAGAGGATAGAAAA--TGATATTTGAT
** * * * * * * *
8972104 AATTCATCTTGCTCTTACTAT-AACTTCAGAGAGGTGAATA-TTCATTATCCAACTTTACTAT-A
1 GCTTTATCTAGCTCTTACT-TCAATTTCAGAGAGATAAAGACTT-GTTATCCAACTTTACT-TCA
* ** *
8972166 ACTTCAAGAGGATA-AAAATTTGGCATTTGAA
63 ATTTCAAGAGGATAGAAAA--TGATATTTGAT
** * * * * * * *
8972197 AATTCATCTTGGTCTTACTAT-AATTTCAAAGAGATGAAGA-TTCATTATCTAACTTTACTAT-A
1 GCTTTATCTAGCTCTTACT-TCAATTTCAGAGAGATAAAGACTT-GTTATCCAACTTTACT-TCA
* * * *
8972259 ACTCCAAGAGGATA-AAAATTTGACATTTGAA
63 ATTTCAAGAGGATAGAAAA--TGATATTTGAT
** * * * * *
8972290 AATTCATCTTGCTCTTACTAT-AACTTCAGAGAGATGAAGA-TTCATTATCCAACTTTACTAT-A
1 GCTTTATCTAGCTCTTACT-TCAATTTCAGAGAGATAAAGACTT-GTTATCCAACTTTACT-TCA
* * *
8972352 ACTTCAAGAGGAT-GAAAATTTGACATTTGAA
63 ATTTCAAGAGGATAGAAAA--TGATATTTGAT
** * * * * *
8972383 AATTCATCTTGCTCTTACTAT-AACTTCAGAGAGATGAAGA-TTCATTATCCAACTTTACTAT-A
1 GCTTTATCTAGCTCTTACT-TCAATTTCAGAGAGATAAAGACTT-GTTATCCAACTTTACT-TCA
* * * *
8972445 ACTTCAAGAGGATAAAAAATTGACATTTGAA
63 ATTTCAAGAGGATAGAAAA-TGATATTTGAT
* * *
8972476 GCTTTATCTTA-CTCTTACTAT-AACTTCAGAGAGATAAAGA-TTCATTATCCATCTTTACTAT-
1 GCTTTATC-TAGCTCTTACT-TCAATTTCAGAGAGATAAAGACTT-GTTATCCAACTTTACT-TC
* * *
8972537 AACTTCAAGAGGATA-AAAATTGACATTTGAA
62 AATTTCAAGAGGATAGAAAA-TGATATTTGAT
* * * *
8972568 ACTTCATCTTGCTTTTACTAT-AACTTT-AGAGAGATAAAGA
1 GCTTTATCTAGCTCTTACT-TCAA-TTTCAGAGAGATAAAGA
8972608 TTTTTCCCTT
Statistics
Matches: 1484, Mismatches: 108, Indels: 38
0.91 0.07 0.02
Matches are distributed among these distances:
91 6 0.00
92 886 0.60
93 585 0.39
94 7 0.00
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (92 bp):
GCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGTTATCCAACTTTACTTCAATT
TCAAGAGGATAGAAAATGATATTTGAT
Found at i:8971903 original size:40 final size:40
Alignment explanation
Indices: 8971841--8971995 Score: 134
Period size: 40 Copynumber: 3.6 Consensus size: 40
8971831 ATCTAACTCT
8971841 TACTTCAATTTCAGAGAGATAAAGACTTGTTATCCAGCTC
1 TACTTCAATTTCAGAGAGATAAAGACTTGTTATCCAGCTC
* *
8971881 TACTTCAATTTCA-AGAGAATAAAAAATGATGTTTGATGCTTTATCTAGCTC
1 TACTTCAATTTCAGAGAG-AT---AAA-GA---CT--TG--TTATCCAGCTC
* *
8971932 TTACTTCAATTTCAGAGAGATAAAGACTTGTTATCCATCTT
1 -TACTTCAATTTCAGAGAGATAAAGACTTGTTATCCAGCTC
8971973 TACTTCAATTTCA-AGAGGATAAA
1 TACTTCAATTTCAGAGA-GATAAA
8971996 AAATTGACAT
Statistics
Matches: 94, Mismatches: 6, Indels: 30
0.72 0.05 0.23
Matches are distributed among these distances:
39 7 0.07
40 34 0.36
41 8 0.09
43 5 0.05
44 2 0.02
45 1 0.01
47 1 0.01
48 2 0.02
49 5 0.05
51 10 0.11
52 15 0.16
53 4 0.04
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (40 bp):
TACTTCAATTTCAGAGAGATAAAGACTTGTTATCCAGCTC
Found at i:8972349 original size:40 final size:39
Alignment explanation
Indices: 8972304--8972454 Score: 131
Period size: 40 Copynumber: 3.5 Consensus size: 39
8972294 CATCTTGCTC
8972304 TTACTATAACTTCAGAGAGATGAAGATTCATTATCCAACT
1 TTACTATAACTTCA-AGAGATGAAGATTCATTATCCAACT
* **
8972344 TTACTATAACTTCAAGAGGATGAAAATTTGACATTTGAAAATTCATCTTGCT
1 TTACTATAACTTCAAGA-GATGAAGA-TT--CA-TT----A-TC--C-AACT
8972396 CTTACTATAACTTCAGAGAGATGAAGATTCATTATCCAACT
1 -TTACTATAACTTCA-AGAGATGAAGATTCATTATCCAACT
8972437 TTACTATAACTTCAAGAG
1 TTACTATAACTTCAAGAG
8972455 GATAAAAAAT
Statistics
Matches: 90, Mismatches: 6, Indels: 31
0.71 0.05 0.24
Matches are distributed among these distances:
39 7 0.08
40 35 0.39
41 4 0.04
42 1 0.01
43 2 0.02
44 4 0.04
45 1 0.01
48 1 0.01
49 4 0.04
50 2 0.02
51 1 0.01
52 4 0.04
53 21 0.23
54 3 0.03
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.34
Consensus pattern (39 bp):
TTACTATAACTTCAAGAGATGAAGATTCATTATCCAACT
Found at i:8972455 original size:279 final size:278
Alignment explanation
Indices: 8971929--8972609 Score: 1035
Period size: 279 Copynumber: 2.4 Consensus size: 278
8971919 CTTTATCTAG
* * * * * *
8971929 CTCTTACT-TCAATTTCAGAGAGATAAAGACTT-GTTATCCATCTTTACT-TCAATTTCAAGAGG
1 CTCTTACTAT-AACTTCAAAGAGATAAAGA-TTCATTATCCAACTTTACTAT-AACTCCAAGAGG
* *
8971991 ATAAAAAATTGACATTTGAAAATTCATCTTGCTCTTACTATAACTTCAGAGTGATGAAGATTCGT
63 AT-AAAAATTGACATTTGAAAATTCATCTTGCTCTTACTATAACTTCAGAGAGATGAAGATTCAT
*
8972056 TATCCATCTTTACTATAACTTCAAGAGGATAAAAATTTGACATTTGAAAATTCATCTTGCTCTTA
127 TATCCAACTTTACTATAACTTCAAGAGGATAAAAATTTGACATTTGAAAATTCATCTTGCTCTTA
* * *
8972121 CTATAACTTCAGAGAGGTGAATATTCATTATCCAACTTTACTATAACTTCAAGAGGATAAAAATT
192 CTATAACTTCAGAGAGATGAAGATTCATTATCCAACTTTACTATAACTTCAAGAGGATAAAAAAT
* *
8972186 TGGCATTTGAAAATTCATCTTG
257 TGACATTTGAAAATTCATCTTA
* * * *
8972208 GTCTTACTATAATTTCAAAGAGATGAAGATTCATTATCTAACTTTACTATAACTCCAAGAGGATA
1 CTCTTACTATAACTTCAAAGAGATAAAGATTCATTATCCAACTTTACTATAACTCCAAGAGGATA
8972273 AAAATTTGACATTTGAAAATTCATCTTGCTCTTACTATAACTTCAGAGAGATGAAGATTCATTAT
66 AAAA-TTGACATTTGAAAATTCATCTTGCTCTTACTATAACTTCAGAGAGATGAAGATTCATTAT
*
8972338 CCAACTTTACTATAACTTCAAGAGGATGAAAATTTGACATTTGAAAATTCATCTTGCTCTTACTA
130 CCAACTTTACTATAACTTCAAGAGGATAAAAATTTGACATTTGAAAATTCATCTTGCTCTTACTA
8972403 TAACTTCAGAGAGATGAAGATTCATTATCCAACTTTACTATAACTTCAAGAGGATAAAAAATTGA
195 TAACTTCAGAGAGATGAAGATTCATTATCCAACTTTACTATAACTTCAAGAGGATAAAAAATTGA
** *
8972468 CATTTGAAGCTTTATCTTA
260 CATTTGAAAATTCATCTTA
* * *
8972487 CTCTTACTATAACTTCAGAGAGATAAAGATTCATTATCCATCTTTACTATAACTTCAAGAGGATA
1 CTCTTACTATAACTTCAAAGAGATAAAGATTCATTATCCAACTTTACTATAACTCCAAGAGGATA
* * * *
8972552 AAAATTGACATTTGAAACTTCATCTTGCTTTTACTATAACTTTAGAGAGATAAAGATT
66 AAAATTGACATTTGAAAATTCATCTTGCTCTTACTATAACTTCAGAGAGATGAAGATT
8972610 TTTCCCTTTT
Statistics
Matches: 367, Mismatches: 31, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
278 57 0.16
279 308 0.84
280 2 0.01
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.36
Consensus pattern (278 bp):
CTCTTACTATAACTTCAAAGAGATAAAGATTCATTATCCAACTTTACTATAACTCCAAGAGGATA
AAAATTGACATTTGAAAATTCATCTTGCTCTTACTATAACTTCAGAGAGATGAAGATTCATTATC
CAACTTTACTATAACTTCAAGAGGATAAAAATTTGACATTTGAAAATTCATCTTGCTCTTACTAT
AACTTCAGAGAGATGAAGATTCATTATCCAACTTTACTATAACTTCAAGAGGATAAAAAATTGAC
ATTTGAAAATTCATCTTA
Found at i:8972698 original size:50 final size:48
Alignment explanation
Indices: 8972642--8972790 Score: 113
Period size: 50 Copynumber: 3.0 Consensus size: 48
8972632 TACTGGATCT
8972642 GCCGTTGCGGTCTTAGATCTTTCCCGTCGTGTCTTTGAGGTACACGGTCC
1 GCCGTTGCGGTCTTAGATCTTTCCCGTC-TGTCTTTGAGGTACA-GGTCC
** * * * * *
8972692 GCCGTTGC-AACTTAGACCTTTCCCTTTTCTGTTTTTGTGGTACTAGATCC
1 GCCGTTGCGGTCTTAGATCTTTCCC--GTCTGTCTTTGAGGTAC-AGGTCC
* * * *
8972742 ACCATTGTGGTCTTAGATCTTTCCCGT-TATGCTTCTGAGGTACATGGTC
1 GCCGTTGCGGTCTTAGATCTTTCCCGTCTGT-CTT-TGAGGTACA-GGTC
8972791 TGCCATTGTG
Statistics
Matches: 74, Mismatches: 18, Indels: 14
0.70 0.17 0.13
Matches are distributed among these distances:
48 2 0.03
49 17 0.23
50 39 0.53
51 16 0.22
ACGTcount: A:0.13, C:0.26, G:0.23, T:0.38
Consensus pattern (48 bp):
GCCGTTGCGGTCTTAGATCTTTCCCGTCTGTCTTTGAGGTACAGGTCC
Found at i:8972783 original size:100 final size:99
Alignment explanation
Indices: 8972650--8972831 Score: 251
Period size: 100 Copynumber: 1.8 Consensus size: 99
8972640 CTGCCGTTGC
* *
8972650 GGTCTTAGATCTTTCCCGTCGTGTCTTTGAGGTACACGGTCCGCCGTTGCAACTTAGACCTTTCC
1 GGTCTTAGATCTTTCCCGTCATGTCTTTGAGGTACACGGTCCGCCATTGCAACTTAGACCTTT-C
*
8972715 CTT-TTCTGTTTTTGTGGTACTAGATCCACCATTGT
65 CTTGTTGTG-TTTTGTGGTACTAGATCCACCATTGT
* * * **
8972750 GGTCTTAGATCTTTCCCGTTATG-CTTCTGAGGTACATGGTCTGCCATTGTGACTTAGACCTTTC
1 GGTCTTAGATCTTTCCCGTCATGTCTT-TGAGGTACACGGTCCGCCATTGCAACTTAGACCTTTC
8972814 CTTGTTGTGTTTTGTGGT
65 CTTGTTGTGTTTTGTGGT
8972832 GCTGAGACCT
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
99 16 0.22
100 56 0.78
ACGTcount: A:0.13, C:0.23, G:0.23, T:0.41
Consensus pattern (99 bp):
GGTCTTAGATCTTTCCCGTCATGTCTTTGAGGTACACGGTCCGCCATTGCAACTTAGACCTTTCC
TTGTTGTGTTTTGTGGTACTAGATCCACCATTGT
Found at i:8974111 original size:21 final size:17
Alignment explanation
Indices: 8974074--8974129 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
8974064 CGACCTCTCC
*
8974074 TTTCTATTTTGTT-TTTT
1 TTTCT-TTTTCTTCTTTT
*
8974091 TCTTGTTTTTGCTTCTTTT
1 T-TTCTTTTT-CTTCTTTT
8974110 TTTCTTTTTCTTCTTTT
1 TTTCTTTTTCTTCTTTT
8974127 TTT
1 TTT
8974130 ATTTATTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
17 16 0.48
18 12 0.36
19 5 0.15
ACGTcount: A:0.02, C:0.12, G:0.05, T:0.80
Consensus pattern (17 bp):
TTTCTTTTTCTTCTTTT
Found at i:8974111 original size:28 final size:27
Alignment explanation
Indices: 8974075--8974127 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
8974065 GACCTCTCCT
* *
8974075 TTCTATTTTGTTTTTTTCTTGTTTTTGC
1 TTCTATTTT-TCTTTTTCTTCTTTTTGC
*
8974103 TTCTTTTTTTCTTTTTCTTCTTTTT
1 TTCTATTTTTCTTTTTCTTCTTTTT
8974128 TTATTTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 14 0.64
28 8 0.36
ACGTcount: A:0.02, C:0.13, G:0.06, T:0.79
Consensus pattern (27 bp):
TTCTATTTTTCTTTTTCTTCTTTTTGC
Found at i:8974127 original size:9 final size:9
Alignment explanation
Indices: 8974087--8974127 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
8974077 CTATTTTGTT
*
8974087 TTTTTCTTG
1 TTTTTCTTC
8974096 TTTTTGCTTC
1 TTTTT-CTTC
8974106 TTTTT-TTC
1 TTTTTCTTC
8974114 TTTTTCTTC
1 TTTTTCTTC
8974123 TTTTT
1 TTTTT
8974128 TTATTTATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
8 8 0.28
9 13 0.45
10 8 0.28
ACGTcount: A:0.00, C:0.15, G:0.05, T:0.80
Consensus pattern (9 bp):
TTTTTCTTC
Found at i:8974965 original size:15 final size:18
Alignment explanation
Indices: 8974932--8974969 Score: 55
Period size: 15 Copynumber: 2.3 Consensus size: 18
8974922 TCATCTTGAC
8974932 TTTTTCTTCTTCTTCCCT
1 TTTTTCTTCTTCTTCCCT
8974950 TTTTTCTT-TT-TT-CCT
1 TTTTTCTTCTTCTTCCCT
8974965 TTTTT
1 TTTTT
8974970 ATTTGGGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 8 0.40
16 2 0.10
17 2 0.10
18 8 0.40
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTTCTTCTTCTTCCCT
Found at i:8975037 original size:20 final size:19
Alignment explanation
Indices: 8975012--8975069 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 19
8975002 GACCCATATC
8975012 TTTTTTGATTTTTTTTAAAT
1 TTTTTTGATTTTTTTT-AAT
8975032 TTTTTTGACTCTTTTTTT-AT
1 TTTTTTGA-T-TTTTTTTAAT
*
8975052 TTGATTTGATTTTTTTTA
1 TT-TTTTGATTTTTTTTA
8975070 CACGTCGAGC
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
19 7 0.21
20 13 0.39
21 6 0.18
22 7 0.21
ACGTcount: A:0.16, C:0.03, G:0.07, T:0.74
Consensus pattern (19 bp):
TTTTTTGATTTTTTTTAAT
Found at i:8978849 original size:6 final size:6
Alignment explanation
Indices: 8978838--8978893 Score: 69
Period size: 6 Copynumber: 9.3 Consensus size: 6
8978828 AATTTGATTG
* **
8978838 AATTTA AATTTA AA-GTA AATTTA AATTTAA AAGATA AATTTA AATTTA
1 AATTTA AATTTA AATTTA AATTTA AATTT-A AATTTA AATTTA AATTTA
8978886 AATTTA AA
1 AATTTA AA
8978894 AATAAATTTG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
5 4 0.10
6 34 0.81
7 4 0.10
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (6 bp):
AATTTA
Found at i:8978877 original size:19 final size:18
Alignment explanation
Indices: 8978838--8978887 Score: 84
Period size: 19 Copynumber: 2.8 Consensus size: 18
8978828 AATTTGATTG
8978838 AATTTAAATTT-AAAGTA
1 AATTTAAATTTAAAAGTA
8978855 AATTTAAATTTAAAAGATA
1 AATTTAAATTTAAAAG-TA
8978874 AATTTAAATTTAAA
1 AATTTAAATTTAAA
8978888 TTTAAAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.35
18 4 0.13
19 16 0.52
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (18 bp):
AATTTAAATTTAAAAGTA
Found at i:8978885 original size:25 final size:24
Alignment explanation
Indices: 8978853--8978902 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 24
8978843 AAATTTAAAG
8978853 TAAATTTAAATTTAAAAGATAAATT
1 TAAATTTAAATTTAAAA-ATAAATT
8978878 TAAATTTAAATTTAAAAATAAATT
1 TAAATTTAAATTTAAAAATAAATT
8978902 T
1 T
8978903 GAATCAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (24 bp):
TAAATTTAAATTTAAAAATAAATT
Found at i:8978899 original size:12 final size:12
Alignment explanation
Indices: 8978859--8978902 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
8978849 AAAGTAAATT
8978859 TAAATTTAAAAGA
1 TAAATTTAAAA-A
**
8978872 TAAATTTAAATT
1 TAAATTTAAAAA
8978884 TAAATTTAAAAA
1 TAAATTTAAAAA
8978896 TAAATTT
1 TAAATTT
8978903 GAATCAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
12 17 0.63
13 10 0.37
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (12 bp):
TAAATTTAAAAA
Found at i:8983822 original size:16 final size:15
Alignment explanation
Indices: 8983797--8983852 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 15
8983787 TAAAAAGGGA
*
8983797 AAAATTAAATATGATT
1 AAAATAAAATAT-ATT
8983813 AAAATAAAAT-TATT
1 AAAATAAAATATATT
*
8983827 AAAATAGAAATAACTATA
1 AAAATA-AAAT-A-TATT
8983845 AAAATAAA
1 AAAATAAA
8983853 TAGAAATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
14 9 0.26
15 5 0.15
16 9 0.26
17 2 0.06
18 9 0.26
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.29
Consensus pattern (15 bp):
AAAATAAAATATATT
Found at i:8985055 original size:17 final size:17
Alignment explanation
Indices: 8985033--8985115 Score: 51
Period size: 17 Copynumber: 4.5 Consensus size: 17
8985023 AAATTTTAAT
*
8985033 TTTTAAATTTTAATTTA
1 TTTTAAATTTGAATTTA
*
8985050 TTTTAAGTTTGAATTTAAA
1 TTTTAAATTTGAATTT--A
*
8985069 CTCATATTGAATTTGAATTTA
1 -T--T-TTAAATTTGAATTTA
* *
8985090 ATTTAGATTT-AGATTTA
1 TTTTAAATTTGA-ATTTA
8985107 TTTTAAATT
1 TTTTAAATT
8985116 GAAATTAATT
Statistics
Matches: 50, Mismatches: 9, Indels: 14
0.68 0.12 0.19
Matches are distributed among these distances:
16 1 0.02
17 32 0.64
18 1 0.02
19 1 0.02
20 1 0.02
21 1 0.02
22 1 0.02
23 12 0.24
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.55
Consensus pattern (17 bp):
TTTTAAATTTGAATTTA
Found at i:8985830 original size:15 final size:16
Alignment explanation
Indices: 8985805--8985838 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
8985795 AAATATATAT
8985805 TAATAAATTTTAATAA
1 TAATAAATTTTAATAA
8985821 TAAT-AATTTTAATAA
1 TAATAAATTTTAATAA
8985836 TAA
1 TAA
8985839 AATAAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TAATAAATTTTAATAA
Found at i:8987045 original size:59 final size:59
Alignment explanation
Indices: 8986881--8987232 Score: 183
Period size: 59 Copynumber: 5.9 Consensus size: 59
8986871 TAAAAGGTCC
* * * *
8986881 CTAAACTTT-TCAAAAATCACATTTTGACCCCCCAAACTTCTCAAAAAT---TATTTTTGACCC
1 CTAAACTTTCT-AAAAATTACATTTT-A-CCCTCAAACTT-TCAAAAATCACCATTTTTG-CCT
* * * * *
8986941 CCAAATTTTCCAAAAATTACCATCTTACCC-CTAAACTTCCAAAAAATCA-CATTTTTGCCT
1 CTAAACTTTCTAAAAATTA-CATTTTACCCTC-AAACTTTC-AAAAATCACCATTTTTGCCT
* * * * * * **
8987001 CTGAACTTTCTAAAGATTATATTTTTACCCTTAAATTTTCAAAAATTACCATTTTACCCT
1 CTAAACTTTCTAAAAATTACA-TTTTACCCTCAAACTTTCAAAAATCACCATTTTTGCCT
* * * * * * *
8987061 C-GAACTTCCAAAAAATCACATTTTTGCTCC-CGAACTTTCAAAAAATCA-CATTTTTGCCC
1 CTAAACTTTCTAAAAATTACA-TTTTAC-CCTCAAACTTTC-AAAAATCACCATTTTTGCCT
* * * *
8987120 CTAAAGTTT-TAAAAATTATCATTTTACCCTCAAACTTCCAAAAAT-ATCATTTTTAACC-
1 CTAAACTTTCTAAAAATTA-CATTTTACCCTCAAACTTTCAAAAATCACCATTTTT-GCCT
* *
8987178 CTAAATTTTCTAAAAATTACCATTTTACCC-CTAAA-TTTCAAAAAATTACCATTTT
1 CTAAACTTTCTAAAAATTA-CATTTTACCCTC-AAACTTTC-AAAAATCACCATTTT
8987233 ACCCCGAACT
Statistics
Matches: 225, Mismatches: 47, Indels: 40
0.72 0.15 0.13
Matches are distributed among these distances:
57 1 0.00
58 29 0.13
59 107 0.48
60 76 0.34
61 12 0.05
ACGTcount: A:0.36, C:0.25, G:0.03, T:0.36
Consensus pattern (59 bp):
CTAAACTTTCTAAAAATTACATTTTACCCTCAAACTTTCAAAAATCACCATTTTTGCCT
Found at i:8987048 original size:29 final size:30
Alignment explanation
Indices: 8986882--8987236 Score: 159
Period size: 30 Copynumber: 12.0 Consensus size: 30
8986872 AAAAGGTCCC
* * *
8986882 TAAACTTTTC-AAAAATCACATTTTGACCCCC
1 TAAAC-TTTCAAAAAATTACATTTTTA-CCCT
* *
8986913 CAAACTTCTC-AAAAATT--ATTTTTGACCCC
1 TAAACTT-TCAAAAAATTACATTTTT-ACCCT
* * * * *
8986942 CAAATTTTCCAAAAATTACCA-TCTTACCCC
1 TAAACTTTCAAAAAATTA-CATTTTTACCCT
* * *
8986972 TAAACTTCCAAAAAATCACATTTTT-GCCT
1 TAAACTTTCAAAAAATTACATTTTTACCCT
* * * *
8987001 CTGAACTTTCTAAAGATTATATTTTTACCCT
1 -TAAACTTTCAAAAAATTACATTTTTACCCT
*
8987032 TAAATTTTC-AAAAATTACCA-TTTTACCCT
1 TAAACTTTCAAAAAATTA-CATTTTTACCCT
** * * *
8987061 CGAACTTCCAAAAAATCACATTTTTGCTCC-
1 TAAACTTTCAAAAAATTACATTTTTAC-CCT
** * * *
8987091 CGAACTTTCAAAAAATCACATTTTTGCCCC
1 TAAACTTTCAAAAAATTACATTTTTACCCT
* *
8987121 TAAAGTTT-TAAAAATTATCA-TTTTACCCT
1 TAAACTTTCAAAAAATTA-CATTTTTACCCT
* *
8987150 CAAAC-TTCCAAAAA-TATCATTTTTAACCC-
1 TAAACTTTCAAAAAATTA-CATTTTT-ACCCT
* * *
8987179 TAAATTTTCTAAAAATTACCA-TTTTACCCC
1 TAAACTTTCAAAAAATTA-CATTTTTACCCT
8987209 TAAA-TTTCAAAAAATTACCA-TTTTACCC
1 TAAACTTTCAAAAAATTA-CATTTTTACCC
8987237 CGAACTTCCA
Statistics
Matches: 257, Mismatches: 46, Indels: 44
0.74 0.13 0.13
Matches are distributed among these distances:
28 9 0.04
29 107 0.42
30 116 0.45
31 24 0.09
32 1 0.00
ACGTcount: A:0.36, C:0.25, G:0.03, T:0.36
Consensus pattern (30 bp):
TAAACTTTCAAAAAATTACATTTTTACCCT
Found at i:8987058 original size:89 final size:89
Alignment explanation
Indices: 8986918--8987323 Score: 381
Period size: 89 Copynumber: 4.6 Consensus size: 89
8986908 CCCCCCAAAC
* *
8986918 TTCTCAAAAATT--ATTTTTGACCCCCAAATTTTCCAAAAATTACCATCTTACCC-CTAAACTTC
1 TTCT-AAAAATTACATTTTT-ACCCCTAAATTTT-CAAAAATTACCATTTTACCCTC-AAACTTC
8986980 CAAAAAATCACATTTTTGCCTCTGAACT
62 CAAAAAATCACATTTTTGCCTCTGAACT
* * * *
8987008 TTCTAAAGATTATATTTTTACCCTTAAATTTTCAAAAATTACCATTTTACCCTCGAACTTCCAAA
1 TTCTAAAAATTACATTTTTACCCCTAAATTTTCAAAAATTACCATTTTACCCTCAAACTTCCAAA
*
8987073 AAATCACATTTTTG-CTCCCGAACT
66 AAATCACATTTTTGCCT-CTGAACT
* * * *
8987097 TTCAAAAAATCACATTTTTGCCCCTAAAGTTTT-AAAAATTATCATTTTACCCTCAAACTTCC-A
1 TTCTAAAAATTACATTTTTACCCCTAAA-TTTTCAAAAATTACCATTTTACCCTCAAACTTCCAA
* * *
8987160 AAAAT-ATCATTTTTAACC-CTAAATT
65 AAAATCA-CATTTTT-GCCTCTGAACT
*
8987185 TTCTAAAAATTACCA-TTTTACCCCTAAA-TTTCAAAAAATTACCATTTTACCC-CGAACTTCC-
1 TTCTAAAAATTA-CATTTTTACCCCTAAATTTTC-AAAAATTACCATTTTACCCTCAAACTTCCA
** * *
8987246 AAAAATTGCATTTTTG-CTCTCAAGT
64 AAAAATCACATTTTTGCCTCTGAACT
* * * * * * *
8987271 ATCCAAAAATTACCA-TTTTACCCCTGAAGTGTCTAAAATTATCATTTTACCCT
1 TTCTAAAAATTA-CATTTTTACCCCTAAATTTTCAAAAATTACCATTTTACCCT
8987324 TGTACATTCA
Statistics
Matches: 268, Mismatches: 33, Indels: 33
0.80 0.10 0.10
Matches are distributed among these distances:
85 1 0.00
86 50 0.19
87 25 0.09
88 59 0.22
89 106 0.40
90 21 0.08
91 6 0.02
ACGTcount: A:0.35, C:0.24, G:0.04, T:0.36
Consensus pattern (89 bp):
TTCTAAAAATTACATTTTTACCCCTAAATTTTCAAAAATTACCATTTTACCCTCAAACTTCCAAA
AAATCACATTTTTGCCTCTGAACT
Found at i:8987237 original size:29 final size:29
Alignment explanation
Indices: 8986879--8987470 Score: 284
Period size: 29 Copynumber: 20.1 Consensus size: 29
8986869 CCTAAAAGGT
* *
8986879 CCCTAAACTTTTCAAAAATCA-CATTTTGACC
1 CCCTAAA-TTTCCAAAAATTACCATTTT-A-C
* * *
8986910 CCCCAAACTTCTCAAAAATTA--TTTTTGAC
1 CCCTAAATTTC-CAAAAATTACCATTTT-AC
* *
8986939 CCCCAAATTTTCCAAAAATTACCATCTTAC
1 CCCTAAA-TTTCCAAAAATTACCATTTTAC
* * *
8986969 CCCTAAACTTCCAAAAAAT-CACATTTTTGC
1 CCCTAAATTTCCAAAAATTAC-CA-TTTTAC
* * * * *
8986999 CTCTGAACTTTCTAAAGATTA-TATTTTTAC
1 CCCT-AAATTTCCAAAAATTACCA-TTTTAC
* *
8987029 CCTTAAATTTTCAAAAATTACCATTTTA-
1 CCCTAAATTTCCAAAAATTACCATTTTAC
* * * *
8987057 CCCTCGAACTTCCAAAAAAT-CACATTTTTGC
1 CCCT-AAATTTCCAAAAATTAC-CA-TTTTAC
* * * * *
8987088 TCCCGAACTTTCAAAAAATCA-CATTTTTGC
1 -CCCTAAATTTCCAAAAATTACCA-TTTTAC
* *
8987118 CCCTAAAGTTT-TAAAAATTATCATTTTA-
1 CCCTAAA-TTTCCAAAAATTACCATTTTAC
* * *
8987146 CCCTCAAACTTCCAAAAA-TATCATTTTTAA
1 CCCT-AAATTTCCAAAAATTACCA-TTTTAC
*
8987176 CCCTAAATTTTCTAAAAATTACCATTTTAC
1 CCCTAAA-TTTCCAAAAATTACCATTTTAC
*
8987206 CCCTAAATTTCAAAAAATTACCATTTTAC
1 CCCTAAATTTCCAAAAATTACCATTTTAC
* * * **
8987235 CCC-GAACTTCCAAAAATT-GCATTTTTG
1 CCCTAAATTTCCAAAAATTACCATTTTAC
* * *
8987262 CTCTCAAGTATCCAAAAATTACCATTTTAC
1 CCCT-AAATTTCCAAAAATTACCATTTTAC
* * * *
8987292 CCCTGAAGTGT-CTAAAATTATCATTTTAC
1 CCCT-AAATTTCCAAAAATTACCATTTTAC
* *
8987321 CCTTGTACA-TT-CAAAAATTACCATTTTA-
1 CC--CTAAATTTCCAAAAATTACCATTTTAC
* * *
8987349 CCCTCGAGTGTCCAAAAATTACCATTTTCAC
1 CCCT-AAATTTCCAAAAATTACCATTTT-AC
* * * *
8987380 CCCCAAGTGTCCAAAAATTACCATTTTGC
1 CCCTAAATTTCCAAAAATTACCATTTTAC
**
8987409 CCCTCGATTATCCAAAAATTACCATTTTATC
1 CCCTAAATT-TCCAAAAATTACCATTTTA-C
** *
8987440 CCC-AAACCTCCAAAAATTATCATTTTAC
1 CCCTAAATTTCCAAAAATTACCATTTTAC
8987468 CCC
1 CCC
8987471 CAAGCATCCA
Statistics
Matches: 429, Mismatches: 97, Indels: 73
0.72 0.16 0.12
Matches are distributed among these distances:
26 1 0.00
27 8 0.02
28 35 0.08
29 199 0.46
30 135 0.31
31 48 0.11
32 3 0.01
ACGTcount: A:0.35, C:0.27, G:0.04, T:0.34
Consensus pattern (29 bp):
CCCTAAATTTCCAAAAATTACCATTTTAC
Found at i:8987815 original size:97 final size:97
Alignment explanation
Indices: 8987706--8987899 Score: 293
Period size: 97 Copynumber: 2.0 Consensus size: 97
8987696 TAAACCTTTA
* *
8987706 AAATCGAGGCAATA-TTCTTTTATTTC-GAGTTTTGAAAATTTGTGCCTTAACTTACTAGGCACG
1 AAATCGAGGCAATATTTC-TTTATCTCTG-GTTTTGAAAACTTGTGCCTTAACTTACTAGGCACG
*
8987769 ATTTTTCTTCAAATCAGGATAATCAAATACCCTT
64 ACTTTTCTTCAAATCAGGATAATCAAATACCCTT
* *
8987803 AAATCGAGGCAATGTTTCTTTATCTCTGGTTTTGAAAACTTGTGCCTTAACTTACTAGGCGCGAC
1 AAATCGAGGCAATATTTCTTTATCTCTGGTTTTGAAAACTTGTGCCTTAACTTACTAGGCACGAC
* *
8987868 TTTTCTTCAAATCGGGATAATCGAATACCCTT
66 TTTTCTTCAAATCAGGATAATCAAATACCCTT
8987900 TTTCAAGGTT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
97 84 0.95
98 4 0.05
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.37
Consensus pattern (97 bp):
AAATCGAGGCAATATTTCTTTATCTCTGGTTTTGAAAACTTGTGCCTTAACTTACTAGGCACGAC
TTTTCTTCAAATCAGGATAATCAAATACCCTT
Found at i:8989385 original size:30 final size:31
Alignment explanation
Indices: 8989335--8989435 Score: 102
Period size: 30 Copynumber: 3.4 Consensus size: 31
8989325 CTCAAAACGG
*
8989335 CCCCGAAACTTTTTTAAAAATTATATTTTAAA
1 CCCCTAAAC-TTTTTAAAAATTATATTTTAAA
* * * *
8989367 CCTC-AAACTTTTTCAAAATCATATTTT-GA
1 CCCCTAAACTTTTTAAAAATTATATTTTAAA
**
8989396 CCCCTAAACTTCATAAAAATTATATTTT--A
1 CCCCTAAACTTTTTAAAAATTATATTTTAAA
8989425 CCCCTAAACTT
1 CCCCTAAACTT
8989436 CCAAAAATTA
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
29 16 0.27
30 36 0.61
31 4 0.07
32 3 0.05
ACGTcount: A:0.38, C:0.22, G:0.02, T:0.39
Consensus pattern (31 bp):
CCCCTAAACTTTTTAAAAATTATATTTTAAA
Found at i:8989428 original size:29 final size:28
Alignment explanation
Indices: 8989349--8989590 Score: 130
Period size: 29 Copynumber: 8.3 Consensus size: 28
8989339 GAAACTTTTT
** *
8989349 TAAAAATTATATTTTAAACCTCAAACTTTT
1 TAAAAATTATATTTTACCCCT-AAAC-TTC
* *
8989379 TCAAAATCATATTTTGACCCCTAAACTTC
1 TAAAAATTATATTTT-ACCCCTAAACTTC
8989408 ATAAAAATTATATTTTACCCCTAAACTTC
1 -TAAAAATTATATTTTACCCCTAAACTTC
* * * *
8989437 CAAAAATTACCATTTTACCCTTAAATTTC
1 TAAAAATTA-TATTTTACCCCTAAACTTC
* * * **
8989466 TAAAAAATCACATTTTGCCCCCGAACTT-
1 T-AAAAATTATATTTTACCCCTAAACTTC
* * * *
8989494 TCCAAAATTACATTTTTA-CCCGAAATTTC
1 T-AAAAATTATA-TTTTACCCCTAAACTTC
* * *
8989523 CAAAAATTACCATTTTACCCCTGAACTTC
1 TAAAAATTA-TATTTTACCCCTAAACTTC
* * * *
8989552 CAAAAA-TATCATTTTTAACTCTAAATTTTC
1 TAAAAATTAT-A-TTTTACCCCTAAA-CTTC
8989582 TAAAAATTA
1 TAAAAATTA
8989591 CCGTTTTATC
Statistics
Matches: 164, Mismatches: 36, Indels: 23
0.74 0.16 0.10
Matches are distributed among these distances:
28 39 0.24
29 74 0.45
30 45 0.27
31 6 0.04
ACGTcount: A:0.39, C:0.22, G:0.02, T:0.37
Consensus pattern (28 bp):
TAAAAATTATATTTTACCCCTAAACTTC
Found at i:8989626 original size:29 final size:32
Alignment explanation
Indices: 8989553--8989627 Score: 77
Period size: 31 Copynumber: 2.5 Consensus size: 32
8989543 CTGAACTTCC
8989553 AAAAATATCATTTT-TAACTCTAAATTTTCTA
1 AAAAATATCATTTTATAACTCTAAATTTTCTA
* * * * *
8989584 AAAATTACCGTTTTAT-CCTC-GAATTTTC-A
1 AAAAATATCATTTTATAACTCTAAATTTTCTA
8989613 AAAAATATCATTTTA
1 AAAAATATCATTTTA
8989628 CCCTAAACTT
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
29 13 0.37
30 7 0.20
31 14 0.40
32 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.03, T:0.43
Consensus pattern (32 bp):
AAAAATATCATTTTATAACTCTAAATTTTCTA
Found at i:8989644 original size:29 final size:28
Alignment explanation
Indices: 8989397--8989829 Score: 200
Period size: 29 Copynumber: 14.9 Consensus size: 28
8989387 ATATTTTGAC
* *
8989397 CCCTAAACTTCATAAAAATTA-TATTTTA
1 CCCTAAACTTC-CAAAAATTACCATTTTA
8989425 CCCCTAAACTTCCAAAAATTACCATTTTA
1 -CCCTAAACTTCCAAAAATTACCATTTTA
* * * *
8989454 CCCTTAAATTTCTAAAAAAT-CACATTTTGC
1 CCC-TAAACTTCCAAAAATTAC-CATTTT-A
**
8989484 CCCCGAACTTTCC-AAAATTA-CATTTTTA
1 CCCTAAAC-TTCCAAAAATTACCA-TTTTA
* *
8989512 CCCGAAATTTCCAAAAATTACCATTTTA
1 CCCTAAACTTCCAAAAATTACCATTTTA
* *
8989540 CCCCTGAACTTCCAAAAA-TATCATTTTTAA
1 -CCCTAAACTTCCAAAAATTACCA-TTTT-A
* * * *
8989570 CTCTAAATTTTCTAAAAATTACCGTTTTA
1 CCCTAAA-CTTCCAAAAATTACCATTTTA
* * * * * *
8989599 TCCTCGAATTTTCAAAAAATATCATTTTA
1 CCCT-AAACTTCCAAAAATTACCATTTTA
*
8989628 CCCTAAACTTCCAAAAATT-GCATTTTTA
1 CCCTAAACTTCCAAAAATTACCA-TTTTA
* ** *
8989656 CTCTCGAGTATCCAAAAATTACCATTTTA
1 CCCTAAACT-TCCAAAAATTACCATTTTA
* *
8989685 CCCCCAAAGTGTCC-AAAATTACCATTTTA
1 -CCCTAAACT-TCCAAAAATTACCATTTTA
** * *
8989714 CCCCTGTACATCCAAAAATTACCATTTTG
1 -CCCTAAACTTCCAAAAATTACCATTTTA
** * *
8989743 CTCCCGAA-TGTCCAAATATTATCATTTTCA
1 C-CCTAAACT-TCCAAAAATTACCATTTT-A
** * * *
8989773 CCCTTCGATTGTCCAAAAATTATCGTTTTA
1 CCC-TAAACT-TCCAAAAATTACCATTTTA
*
8989803 TCCCCAAACCTT-CAAAAATTACCATTT
1 -CCCTAAA-CTTCCAAAAATTACCATTT
8989830 ACCTCCAAGC
Statistics
Matches: 305, Mismatches: 72, Indels: 54
0.71 0.17 0.13
Matches are distributed among these distances:
27 6 0.02
28 60 0.20
29 178 0.58
30 36 0.12
31 25 0.08
ACGTcount: A:0.35, C:0.25, G:0.04, T:0.35
Consensus pattern (28 bp):
CCCTAAACTTCCAAAAATTACCATTTTA
Found at i:8989684 original size:116 final size:116
Alignment explanation
Indices: 8989401--8989684 Score: 271
Period size: 116 Copynumber: 2.5 Consensus size: 116
8989391 TTTGACCCCT
* * *
8989401 AAACTTCATAAAAATTA-TATTTTACCCCTAAACTTCCAAAAATTACCATTTT-ACCCTTAAATT
1 AAACTTC-CAAAAATTACCATTTTACCCCTGAACTTCCAAAAATTACCATTTTAACCCTTAAATT
* * *
8989464 TCTAAAAAATCACATTTTGCCCCCGAACTTTCCAAAATTACATTTTTACCCG
65 TCTAAAAAATCACATTTTACCCCCGAACTTTCAAAAAATACATTTTTACCCG
* * *
8989516 AAATTTCCAAAAATTACCATTTTACCCCTGAACTTCCAAAAA-TATCATTTTTAACTC-TAAATT
1 AAACTTCCAAAAATTACCATTTTACCCCTGAACTTCCAAAAATTACCA-TTTTAACCCTTAAA-T
* * * * * *
8989579 TTCT-AAAAATTACCGTTTTATCCTCGAATTTTCAAAAAATATCA-TTTTACCCT
64 TTCTAAAAAATCA-CATTTTACCCCCGAACTTTCAAAAAATA-CATTTTTACCCG
* * *
8989632 AAACTTCCAAAAATT-GCATTTTTA-CTCTCG-AGTATCCAAAAATTACCATTTTA
1 AAACTTCCAAAAATTACCA-TTTTACCCCT-GAACT-TCCAAAAATTACCATTTTA
8989685 CCCCCAAAGT
Statistics
Matches: 139, Mismatches: 20, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
114 12 0.09
115 51 0.37
116 70 0.50
117 6 0.04
ACGTcount: A:0.37, C:0.23, G:0.03, T:0.37
Consensus pattern (116 bp):
AAACTTCCAAAAATTACCATTTTACCCCTGAACTTCCAAAAATTACCATTTTAACCCTTAAATTT
CTAAAAAATCACATTTTACCCCCGAACTTTCAAAAAATACATTTTTACCCG
Found at i:8989728 original size:87 final size:87
Alignment explanation
Indices: 8989523--8989733 Score: 237
Period size: 86 Copynumber: 2.4 Consensus size: 87
8989513 CCGAAATTTC
* * *
8989523 CAAAAATTACCATTTTACCCCTGAACTTCCAAAAATATCATTTTTAACTCTAAATTTTCTAAAAA
1 CAAAAATTACCATTTTACCCCTGAACTTCCAAAAAT-TCATTTTTAACTCTAAAGTATCCAAAAA
* * * * * *
8989588 TTACCGTTTTATCCTCGAATTTT
65 TTACCATTTTACCCCCAAAGTGT
* * * **
8989611 CAAAAAATATCATTTTA-CCCTAAACTTCCAAAAATTGCATTTTT-ACTCTCGAGTATCCAAAAA
1 CAAAAATTACCATTTTACCCCTGAACTTCCAAAAATT-CATTTTTAACTCTAAAGTATCCAAAAA
8989674 TTACCATTTTACCCCCAAAGTGT
65 TTACCATTTTACCCCCAAAGTGT
* * *
8989697 CCAAAATTACCATTTTACCCCTGTACATCCAAAAATT
1 CAAAAATTACCATTTTACCCCTGAACTTCCAAAAATT
8989734 ACCATTTTGC
Statistics
Matches: 101, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
86 46 0.46
87 40 0.40
88 15 0.15
ACGTcount: A:0.36, C:0.24, G:0.04, T:0.35
Consensus pattern (87 bp):
CAAAAATTACCATTTTACCCCTGAACTTCCAAAAATTCATTTTTAACTCTAAAGTATCCAAAAAT
TACCATTTTACCCCCAAAGTGT
Found at i:8990229 original size:94 final size:97
Alignment explanation
Indices: 8990058--8990255 Score: 296
Period size: 94 Copynumber: 2.1 Consensus size: 97
8990048 GTTTTCATAA
*
8990058 ACCTTTAAAATCGAGGCAATATTCCTTTATTTTGAGTTTTGAAAATTTGTGCCTTAACTTACTAG
1 ACCTTTAAAATCGAGGCAATATTCCTTTATTCTGAG-TTTGAAAATTTGTGCCTTAACTTACTAG
* *
8990123 GCGCGATTTTTCTTCAAATCGGGATAATCGAAT
65 GCGCGACTTTTCTTCAAATCAGGATAATCGAAT
* * *
8990156 ACCTTT-AAATCGAGGCAATATTTCTTTATCTCTG-G-TT-AAAATTTGTTCCTTAACTTATTAG
1 ACCTTTAAAATCGAGGCAATATTCCTTTAT-TCTGAGTTTGAAAATTTGTGCCTTAACTTACTAG
8990217 GCGCGACTTTTCTTCAAATCAGGATAATCGAAT
65 GCGCGACTTTTCTTCAAATCAGGATAATCGAAT
8990250 ACCTTT
1 ACCTTT
8990256 TTCCAAAGTT
Statistics
Matches: 93, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
94 59 0.63
95 2 0.02
97 23 0.25
98 9 0.10
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (97 bp):
ACCTTTAAAATCGAGGCAATATTCCTTTATTCTGAGTTTGAAAATTTGTGCCTTAACTTACTAGG
CGCGACTTTTCTTCAAATCAGGATAATCGAAT
Found at i:8994773 original size:8 final size:8
Alignment explanation
Indices: 8994762--8994792 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
8994752 TATTTATTAA
8994762 TTTAAAAT
1 TTTAAAAT
8994770 TTTAAAAT
1 TTTAAAAT
8994778 TTTAAAAAT
1 TTT-AAAAT
8994787 TTTAAA
1 TTTAAA
8994793 TAAAAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
TTTAAAAT
Found at i:8995054 original size:17 final size:17
Alignment explanation
Indices: 8995012--8995055 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
8995002 TAATTTTAAA
*
8995012 ATTATTAATTAATTATT
1 ATTATTAATTAATTATC
*
8995029 AATATTAATTAAATTATC
1 ATTATTAATT-AATTATC
8995047 ATTA-TAATT
1 ATTATTAATT
8995056 TGAATTAAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
ATTATTAATTAATTATC
Found at i:8995495 original size:22 final size:21
Alignment explanation
Indices: 8995446--8995501 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 21
8995436 GAATTTAAAA
8995446 ATTTT-AATTTAATTGTTAAT
1 ATTTTAAATTTAATTGTTAAT
*
8995466 ACTATTAAATTT-ATTGGTGTAAT
1 A-TTTTAAATTTAATT-GT-TAAT
*
8995489 ATTTTAAAATTAA
1 ATTTTAAATTTAA
8995502 AAAAATATTC
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
20 1 0.04
21 6 0.21
22 15 0.54
23 6 0.21
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (21 bp):
ATTTTAAATTTAATTGTTAAT
Found at i:8995983 original size:8 final size:8
Alignment explanation
Indices: 8995970--8995994 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
8995960 TTATAATTCG
8995970 TTAAATAA
1 TTAAATAA
8995978 TTAAATAA
1 TTAAATAA
8995986 TTAAATAA
1 TTAAATAA
8995994 T
1 T
8995995 ACATACTATT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TTAAATAA
Found at i:8998829 original size:24 final size:24
Alignment explanation
Indices: 8998802--8998853 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
8998792 TTTTTAAAAG
*
8998802 ATTTAGTATTGATTAGTATAATAT
1 ATTTAGTATTGATTAGCATAATAT
* * *
8998826 ATTTTGTATTTATTAGCATAATTT
1 ATTTAGTATTGATTAGCATAATAT
8998850 ATTT
1 ATTT
8998854 GACTTACAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.56
Consensus pattern (24 bp):
ATTTAGTATTGATTAGCATAATAT
Found at i:8999278 original size:18 final size:17
Alignment explanation
Indices: 8999235--8999291 Score: 53
Period size: 18 Copynumber: 3.4 Consensus size: 17
8999225 TTCCAAGTGT
*
8999235 AAATATTTTAAAA-AAA
1 AAATATTTAAAAATAAA
** * *
8999251 ATTTACTTAAAATTGAAA
1 AAATATTTAAAAAT-AAA
8999269 AAATATTTAAAAATAAA
1 AAATATTTAAAAATAAA
8999286 AAATAT
1 AAATAT
8999292 AAAAAATCTC
Statistics
Matches: 30, Mismatches: 9, Indels: 3
0.71 0.21 0.07
Matches are distributed among these distances:
16 8 0.27
17 9 0.30
18 13 0.43
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (17 bp):
AAATATTTAAAAATAAA
Found at i:8999293 original size:9 final size:9
Alignment explanation
Indices: 8999266--8999333 Score: 50
Period size: 9 Copynumber: 7.7 Consensus size: 9
8999256 CTTAAAATTG
8999266 AAAAAATAT
1 AAAAAATAT
**
8999275 TTAAAA-AT
1 AAAAAATAT
8999283 AAAAAATAT
1 AAAAAATAT
*
8999292 AAAAAATCT
1 AAAAAATAT
*
8999301 CAAAATATAT
1 -AAAAAATAT
* *
8999311 TAAAACT-T
1 AAAAAATAT
*
8999319 AAAAATTAT
1 AAAAAATAT
8999328 AAAAAA
1 AAAAAA
8999334 AAACATATCT
Statistics
Matches: 43, Mismatches: 13, Indels: 6
0.69 0.21 0.10
Matches are distributed among these distances:
8 12 0.28
9 24 0.56
10 7 0.16
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.26
Consensus pattern (9 bp):
AAAAAATAT
Found at i:8999305 original size:19 final size:18
Alignment explanation
Indices: 8999266--8999333 Score: 52
Period size: 17 Copynumber: 3.8 Consensus size: 18
8999256 CTTAAAATTG
*
8999266 AAAAAATATTTAAAAA-T-
1 AAAAAATA-TAAAAAACTC
8999283 AAAAAATATAAAAAATCTC
1 AAAAAATATAAAAAA-CTC
* * *
8999302 AAAATATAT-TAAAACTT
1 AAAAAATATAAAAAACTC
*
8999319 AAAAATTATAAAAAA
1 AAAAAATATAAAAAA
8999334 AAACATATCT
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
16 6 0.15
17 17 0.43
18 9 0.22
19 8 0.20
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAAAATATAAAAAACTC
Found at i:8999530 original size:20 final size:19
Alignment explanation
Indices: 8999480--8999531 Score: 50
Period size: 20 Copynumber: 2.7 Consensus size: 19
8999470 AATTTTATGG
*
8999480 TTTTTTAAATTTTAGGGAT
1 TTTTTTAAATTTTAGGAAT
* **
8999499 TTCTTTGCATTTTATGGAAT
1 TTTTTTAAATTTTA-GGAAT
*
8999519 TTTTTTATATTTT
1 TTTTTTAAATTTT
8999532 TAATGAATTT
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.21, C:0.04, G:0.12, T:0.63
Consensus pattern (19 bp):
TTTTTTAAATTTTAGGAAT
Found at i:8999784 original size:9 final size:9
Alignment explanation
Indices: 8999753--8999796 Score: 52
Period size: 9 Copynumber: 4.7 Consensus size: 9
8999743 GTTTTGGGAA
8999753 TTTTAATAAT
1 TTTTAAT-AT
* *
8999763 ATTTTAGTTT
1 -TTTTAATAT
8999773 TTTTAATAT
1 TTTTAATAT
8999782 TTTTAATAT
1 TTTTAATAT
8999791 TTTTAA
1 TTTTAA
8999797 GTGAATTTGA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
9 22 0.76
10 1 0.03
11 6 0.21
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (9 bp):
TTTTAATAT
Found at i:9002574 original size:37 final size:36
Alignment explanation
Indices: 9002504--9002591 Score: 88
Period size: 37 Copynumber: 2.4 Consensus size: 36
9002494 ATATTCTTTA
* * *
9002504 GAATTTTTTTATAATTTTTTAAAAAGTATAAATTTT
1 GAATTTTTTTAAAATATTTTAAAAAGTAAAAATTTT
**
9002540 GAATTTTTTATAAAATATTTTAAAATTTAAAAATTATTTT
1 GAATTTTTT-TAAAATATTTTAAAAAGT-AAAA--ATTTT
9002580 G-ATTTTTTTAAA
1 GAATTTTTTTAAA
9002592 TTTTTGTTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
36 9 0.21
37 14 0.33
38 7 0.16
39 7 0.16
40 6 0.14
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (36 bp):
GAATTTTTTTAAAATATTTTAAAAAGTAAAAATTTT
Found at i:9003843 original size:4 final size:4
Alignment explanation
Indices: 9003834--9003862 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
9003824 ACCTACAGAT
9003834 AACA AACA AACA AACA AACA AA-A AACA AA
1 AACA AACA AACA AACA AACA AACA AACA AA
9003863 AGCATCAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.79, C:0.21, G:0.00, T:0.00
Consensus pattern (4 bp):
AACA
Found at i:9006754 original size:22 final size:22
Alignment explanation
Indices: 9006729--9006778 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
9006719 TATTTTGTCT
* *
9006729 TTTTTTGTCCTTGTAATTTGAA
1 TTTTTTGTCCCTATAATTTGAA
* *
9006751 TTTTTGGTCCCTATAATTTTAA
1 TTTTTTGTCCCTATAATTTGAA
9006773 TTTTTT
1 TTTTTT
9006779 ATTTCAAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.18, C:0.10, G:0.10, T:0.62
Consensus pattern (22 bp):
TTTTTTGTCCCTATAATTTGAA
Found at i:9007176 original size:18 final size:19
Alignment explanation
Indices: 9007150--9007195 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
9007140 TAGCATAAAA
* *
9007150 ATTATATAAAATTAATT-T
1 ATTAAATAAAATCAATTAT
9007168 ATTAAATAAAATCAATTAT
1 ATTAAATAAAATCAATTAT
*
9007187 GTTAAATAA
1 ATTAAATAA
9007196 TTTTATTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (19 bp):
ATTAAATAAAATCAATTAT
Found at i:9009525 original size:23 final size:22
Alignment explanation
Indices: 9009495--9009616 Score: 86
Period size: 23 Copynumber: 5.2 Consensus size: 22
9009485 ACGCTAGCGC
9009495 GCTTACTG-TTCAGCACTGTGTGT
1 GCTTACTGATTC-GCACT-TGTGT
*
9009518 GCTTACTGTTTCGCACTTCGTGT
1 GCTTACTGATTCGCACTT-GTGT
* * * *
9009541 GCCTACTGATTTGCGCTATGTGC
1 GCTTACTGATTCGCACT-TGTGT
*
9009564 GCCTACTGATT-GCACTGTGTGT
1 GCTTACTGATTCGCACT-TGTGT
*
9009586 GCTTACTGTTTCCCCAGCACTTGTGT
1 GCTTACTGATT---C-GCACTTGTGT
9009612 GCTTA
1 GCTTA
9009617 TTGTTAAGTA
Statistics
Matches: 81, Mismatches: 10, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
22 18 0.22
23 44 0.54
24 4 0.05
26 10 0.12
27 5 0.06
ACGTcount: A:0.12, C:0.25, G:0.24, T:0.39
Consensus pattern (22 bp):
GCTTACTGATTCGCACTTGTGT
Found at i:9012036 original size:17 final size:17
Alignment explanation
Indices: 9011996--9012038 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
9011986 ATTCACACTC
9011996 TGATGAGCTCGCAATTA
1 TGATGAGCTCGCAATTA
* *
9012013 GGTTGAGCTCGCAACTT-
1 TGATGAGCTCGCAA-TTA
9012030 TGATGAGCT
1 TGATGAGCT
9012039 TTGTCTTTGA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
17 19 0.90
18 2 0.10
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (17 bp):
TGATGAGCTCGCAATTA
Found at i:9012176 original size:18 final size:17
Alignment explanation
Indices: 9012153--9012211 Score: 64
Period size: 18 Copynumber: 3.4 Consensus size: 17
9012143 CTACATCTGT
9012153 GAGCTCATTCAAAGTTGC
1 GAGCTCA-TCAAAGTTGC
* *
9012171 GAGCTCACTCAAGGATGC
1 GAGCTCA-TCAAAGTTGC
* *
9012189 AAGTTCATCAAAGTTGC
1 GAGCTCATCAAAGTTGC
9012206 GAGCTC
1 GAGCTC
9012212 TACATGTGAT
Statistics
Matches: 32, Mismatches: 9, Indels: 1
0.76 0.21 0.02
Matches are distributed among these distances:
17 12 0.38
18 20 0.62
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.24
Consensus pattern (17 bp):
GAGCTCATCAAAGTTGC
Found at i:9015371 original size:16 final size:17
Alignment explanation
Indices: 9015350--9015386 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
9015340 AATTTGGTTT
9015350 AAAT-AAATTATTA-AAA
1 AAATAAAATT-TTATAAA
9015366 AAATAAAATTTTATAAA
1 AAATAAAATTTTATAAA
9015383 AAAT
1 AAAT
9015387 TATAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AAATAAAATTTTATAAA
Found at i:9015384 original size:19 final size:20
Alignment explanation
Indices: 9015357--9015396 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
9015347 TTTAAATAAA
*
9015357 TTATTAAAAA-AATAAAATT
1 TTATAAAAAATAATAAAATT
*
9015376 TTATAAAAAATTATAAAATT
1 TTATAAAAAATAATAAAATT
9015396 T
1 T
9015397 GGTTCATTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
TTATAAAAAATAATAAAATT
Found at i:9015647 original size:20 final size:21
Alignment explanation
Indices: 9015624--9015668 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
9015614 TTAAAAATAA
*
9015624 AAAATGAAAAAAAACA-TTTT
1 AAAATCAAAAAAAACATTTTT
* *
9015644 AAAATCCAAAAAAATATTTTT
1 AAAATCAAAAAAAACATTTTT
9015665 AAAA
1 AAAA
9015669 AAAATTAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.27
Consensus pattern (21 bp):
AAAATCAAAAAAAACATTTTT
Found at i:9018849 original size:18 final size:18
Alignment explanation
Indices: 9018826--9018919 Score: 143
Period size: 18 Copynumber: 5.1 Consensus size: 18
9018816 ATAAAACATA
9018826 TAACTAAATTAACCAATT
1 TAACTAAATTAACCAATT
9018844 TAACTAAATTAACCAATT
1 TAACTAAATTAACCAATT
9018862 TAACTAAATTAACCAATT
1 TAACTAAATTAACCAATT
*
9018880 TAACTAAATTAACCGAAAT
1 TAACTAAATTAACC-AATT
*
9018899 TAACCGAAATTAACCGAATT
1 TAA-CTAAATTAACC-AATT
9018919 T
1 T
9018920 TAAGTATCGA
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
18 50 0.70
19 6 0.08
20 15 0.21
ACGTcount: A:0.49, C:0.17, G:0.03, T:0.31
Consensus pattern (18 bp):
TAACTAAATTAACCAATT
Done.