Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 114 of 163
Found at i:31953045 original size:5 final size:5
Alignment explanation
Indices: 31953035--31953061 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
31953025 AAAATTTTTC
31953035 ATTCG ATTCG ATTCG ATTCG ATTCG AT
1 ATTCG ATTCG ATTCG ATTCG ATTCG AT
31953062 CGAATGCTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (5 bp):
ATTCG
Found at i:31959840 original size:20 final size:20
Alignment explanation
Indices: 31959815--31959855 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
31959805 AAAGATTATT
31959815 TAATAATTATAAGATGACAA
1 TAATAATTATAAGATGACAA
*
31959835 TAATAATTATAGGATGACAA
1 TAATAATTATAAGATGACAA
31959855 T
1 T
31959856 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.51, C:0.05, G:0.12, T:0.32
Consensus pattern (20 bp):
TAATAATTATAAGATGACAA
Found at i:31965440 original size:21 final size:21
Alignment explanation
Indices: 31965400--31965440 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
31965390 GAAAGAAAAT
* * *
31965400 TAGAAAGATAGAAGTTTAAAG
1 TAGAAAGACAGAAATATAAAG
31965421 TAGAAAGACAGAAATATAAA
1 TAGAAAGACAGAAATATAAA
31965441 TTTTCTTTCC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.59, C:0.02, G:0.20, T:0.20
Consensus pattern (21 bp):
TAGAAAGACAGAAATATAAAG
Found at i:31969809 original size:7 final size:7
Alignment explanation
Indices: 31969799--31969825 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
31969789 AACAATAGAA
31969799 TGGAAAC
1 TGGAAAC
31969806 TGGAAAC
1 TGGAAAC
31969813 TGGAAAC
1 TGGAAAC
31969820 TGGAAA
1 TGGAAA
31969826 AGCAACATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.11, G:0.30, T:0.15
Consensus pattern (7 bp):
TGGAAAC
Found at i:31972249 original size:22 final size:20
Alignment explanation
Indices: 31972224--31972264 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
31972214 TTTTACAAAA
31972224 TATTATAATAATATTTATTTTT
1 TATTAT-ATAA-ATTTATTTTT
*
31972246 TATTATCTAAATTTATTTT
1 TATTATATAAATTTATTTT
31972265 ATAGTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 3 0.17
22 6 0.33
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (20 bp):
TATTATATAAATTTATTTTT
Found at i:31972485 original size:13 final size:12
Alignment explanation
Indices: 31972429--31972488 Score: 52
Period size: 12 Copynumber: 5.1 Consensus size: 12
31972419 AATATATATT
31972429 TATTATT-AAAA
1 TATTATTAAAAA
* *
31972440 TATTAATATAAA
1 TATTATTAAAAA
* *
31972452 TATTTTTCAATAA
1 TATTATT-AAAAA
31972465 TA-TATTAAAAA
1 TATTATTAAAAA
*
31972476 TATTATTTAAAA
1 TATTATTAAAAA
31972488 T
1 T
31972489 TTGTTAAATA
Statistics
Matches: 37, Mismatches: 9, Indels: 5
0.73 0.18 0.10
Matches are distributed among these distances:
11 12 0.32
12 20 0.54
13 5 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (12 bp):
TATTATTAAAAA
Found at i:31972499 original size:35 final size:35
Alignment explanation
Indices: 31972432--31972499 Score: 86
Period size: 35 Copynumber: 1.9 Consensus size: 35
31972422 ATATATTTAT
*
31972432 TATTAAAATATTAATATAAATATTTTTCAATAATA
1 TATTAAAATATTAATATAAATATTTTTAAATAATA
*
31972467 TATTAAAAATATT-ATTTAAA-ATTTGTTAAATAA
1 TATT-AAAATATTAATATAAATATTT-TTAAATAA
31972500 ACTTATAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 4 0.14
35 17 0.59
36 8 0.28
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (35 bp):
TATTAAAATATTAATATAAATATTTTTAAATAATA
Found at i:31975517 original size:6 final size:6
Alignment explanation
Indices: 31975491--31975552 Score: 58
Period size: 6 Copynumber: 10.8 Consensus size: 6
31975481 TTAAGTTTAT
* * * **
31975491 TTTAAA TTCAAA TTT-AT TTTAAA TTTAAA TTT-AT TTTTGA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
31975537 TTT-AA TTTAAA TTTAA
1 TTTAAA TTTAAA TTTAA
31975553 TATTATGGTA
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
5 13 0.30
6 31 0.70
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:31975538 original size:34 final size:34
Alignment explanation
Indices: 31975463--31975569 Score: 110
Period size: 34 Copynumber: 3.1 Consensus size: 34
31975453 CCCAAACTAT
* *
31975463 TTTAAATTTGTTTTGAAA-TTAAGTTTATTTTAAA
1 TTTAAATTTATTTT-AAATTTAAATTTATTTTAAA
* **
31975497 TTCAAATTTATTTTAAATTTAAATTTATTTTTGA
1 TTTAAATTTATTTTAAATTTAAATTTATTTTAAA
* **
31975531 TTTAAATTTAATTTAAATTT-AATATTATGGTAAA
1 TTTAAATTTATTTTAAATTTAAAT-TTATTTTAAA
31975565 TTTAA
1 TTTAA
31975570 TGTCTATTTA
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
33 6 0.10
34 54 0.90
ACGTcount: A:0.38, C:0.01, G:0.06, T:0.55
Consensus pattern (34 bp):
TTTAAATTTATTTTAAATTTAAATTTATTTTAAA
Found at i:31975550 original size:17 final size:17
Alignment explanation
Indices: 31975463--31975552 Score: 110
Period size: 17 Copynumber: 5.3 Consensus size: 17
31975453 CCCAAACTAT
*
31975463 TTTAAATTTGTTTTGAAA
1 TTTAAATTTATTTT-AAA
*
31975481 -TTAAGTTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
31975497 TTCAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
**
31975514 TTTAAATTTATTTTTGA
1 TTTAAATTTATTTTAAA
*
31975531 TTTAAATTTAATTTAAA
1 TTTAAATTTATTTTAAA
31975548 TTTAA
1 TTTAA
31975553 TATTATGGTA
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
16 3 0.05
17 58 0.95
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.57
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:31975552 original size:11 final size:11
Alignment explanation
Indices: 31975495--31975553 Score: 64
Period size: 11 Copynumber: 5.3 Consensus size: 11
31975485 GTTTATTTTA
*
31975495 AATTCAAATTT
1 AATTTAAATTT
*
31975506 ATTTTAAATTT
1 AATTTAAATTT
**
31975517 AAATTTATTTTT
1 -AATTTAAATTT
*
31975529 GATTTAAATTT
1 AATTTAAATTT
31975540 AATTTAAATTT
1 AATTTAAATTT
31975551 AAT
1 AAT
31975554 ATTATGGTAA
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
11 30 0.79
12 8 0.21
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (11 bp):
AATTTAAATTT
Found at i:31977579 original size:59 final size:59
Alignment explanation
Indices: 31977480--31977909 Score: 457
Period size: 59 Copynumber: 7.3 Consensus size: 59
31977470 AATTGTTCAT
* *
31977480 AAATCACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCTGATTTCACCAA
1 AAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCTGATTTCACCAA
* *
31977539 AAATTATCATTTTACCCCTGAACTTTCCAAAATTCTATTTTTAACACC-GATTTCACC-A
1 AAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAAC-CCTGATTTCACCAA
* * * * * * *
31977597 AAATCACCATTTTACCCTTAAACTTTCCAAAATTCTATTTTCAACCCCGATTTTACCAA
1 AAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCTGATTTCACCAA
* *
31977656 AAATTACCATTTTA-CCCTCAACCTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAA
1 AAATTACCATTTTACCCCTGAA-CTTTCCAAAATTCCATTTTTAACCCTGATTTCACCAA
* * * * *
31977715 AAAATACCATTTTA-CCCTCGAGCTTTCCAAAATTCCATTTTTAA-TCTCGGTTTCACAAA
1 AAATTACCATTTTACCCCT-GAACTTTCCAAAATTCCATTTTTAACCCT-GATTTCACCAA
** * * *
31977774 AAATTACCATTTTACCTTTGAACTTTCCAAAA-CCCTATTTTTAA-CCTCAATCTCACCAA
1 AAATTACCATTTTACCCCTGAACTTTCCAAAATTCC-ATTTTTAACCCT-GATTTCACCAA
* * * *
31977833 AAATTACCGTTTTACCCAC--AAGCTTTCCAAAATCCCATTTTTTACCCTAATTTCACCAA
1 AAATTACCATTTTACCC-CTGAA-CTTTCCAAAATTCCATTTTTAACCCTGATTTCACCAA
*
31977892 AAATCA-CATTTTTACCCC
1 AAATTACCA-TTTTACCCC
31977910 CGAAAGTTAA
Statistics
Matches: 318, Mismatches: 40, Indels: 27
0.83 0.10 0.07
Matches are distributed among these distances:
57 2 0.01
58 61 0.19
59 244 0.77
60 11 0.03
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.35
Consensus pattern (59 bp):
AAATTACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCTGATTTCACCAA
Found at i:31977745 original size:30 final size:30
Alignment explanation
Indices: 31977652--31977805 Score: 92
Period size: 30 Copynumber: 5.2 Consensus size: 30
31977642 CCCGATTTTA
* * *
31977652 CCAAAAATTACCATTTTACCCTCAACCTTT
1 CCAAAAAATACCATTTTACCCTCGAGCTTT
*
31977682 CC--AAAATTCCATTTTTAACCC-CGA--TTT
1 CCAAAAAATACCA-TTTT-ACCCTCGAGCTTT
31977709 CACCAAAAAATACCATTTTACCCTCGAGCTTT
1 --CCAAAAAATACCATTTTACCCTCGAGCTTT
* **
31977741 CC--AAAATTCCATTTTTAATCTCG-G-TTT
1 CCAAAAAATACCA-TTTTACCCTCGAGCTTT
* * *
31977768 CACAAAAAATTACCATTTTACCTTTGAACTTT
1 C-CAAAAAA-TACCATTTTACCCTCGAGCTTT
31977800 CCAAAA
1 CCAAAA
31977806 CCCTATTTTT
Statistics
Matches: 95, Mismatches: 13, Indels: 31
0.68 0.09 0.22
Matches are distributed among these distances:
27 7 0.07
28 17 0.18
29 21 0.22
30 26 0.27
31 17 0.18
32 7 0.07
ACGTcount: A:0.34, C:0.28, G:0.04, T:0.34
Consensus pattern (30 bp):
CCAAAAAATACCATTTTACCCTCGAGCTTT
Found at i:31977763 original size:29 final size:28
Alignment explanation
Indices: 31977501--31977763 Score: 114
Period size: 29 Copynumber: 9.0 Consensus size: 28
31977491 TTACCCCCGA
31977501 ACTTTCCAAAATTCCATTTTTAACC-CTG
1 ACTTTCCAAAATTCCATTTTTAACCTC-G
* *
31977529 A-TTTCACCAAAAATTATCA-TTTT-ACCCCTG
1 ACTTT--CC-AAAATT-CCATTTTTAACCTC-G
*
31977559 AACTTTCCAAAATTCTATTTTTAACAC-CG
1 -ACTTTCCAAAATTCCATTTTTAAC-CTCG
* * **
31977588 A-TTTCACCAAAATCACCA-TTTTACCCTTAA
1 ACTTT--CCAAAAT-TCCATTTTTAACC-TCG
* * *
31977618 ACTTTCCAAAATTCTATTTTCAACCCCG
1 ACTTTCCAAAATTCCATTTTTAACCTCG
* * *
31977646 ATTTTACCAAAAATTACCA-TTTTACCCTCA
1 ACTTT-CC-AAAATT-CCATTTTTAACCTCG
*
31977676 ACCTTTCCAAAATTCCATTTTTAACCCCG
1 A-CTTTCCAAAATTCCATTTTTAACCTCG
* *
31977705 A-TTTCACCAAAAAATACCA-TTTTACCCTCG
1 ACTTT--CC--AAAATTCCATTTTTAACCTCG
*
31977735 AGCTTTCCAAAATTCCATTTTTAATCTCG
1 A-CTTTCCAAAATTCCATTTTTAACCTCG
31977764 GTTTCACAAA
Statistics
Matches: 175, Mismatches: 31, Indels: 57
0.67 0.12 0.22
Matches are distributed among these distances:
27 9 0.05
28 21 0.12
29 70 0.40
30 49 0.28
31 20 0.11
32 6 0.03
ACGTcount: A:0.32, C:0.29, G:0.03, T:0.36
Consensus pattern (28 bp):
ACTTTCCAAAATTCCATTTTTAACCTCG
Found at i:31985364 original size:18 final size:18
Alignment explanation
Indices: 31985341--31985383 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
31985331 TACTGGGGGA
31985341 AGCATCATGAGAGACTTG
1 AGCATCATGAGAGACTTG
31985359 AGCATCATGAGAGACTTG
1 AGCATCATGAGAGACTTG
31985377 AGCATCA
1 AGCATCA
31985384 ATGCCATATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.21
Consensus pattern (18 bp):
AGCATCATGAGAGACTTG
Found at i:31990449 original size:86 final size:86
Alignment explanation
Indices: 31990346--31990626 Score: 499
Period size: 86 Copynumber: 3.3 Consensus size: 86
31990336 AAAAGGTTAG
* * *
31990346 CTTCCTGATGAGACACAGAGAAGTGGACCAGATTCATCTTCCTGAGGAGATCTAGAGAAGCGAAT
1 CTTCCTGATGAGACACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAAAAGCGAAT
31990411 CAAAACAAGCGAGGCGGTCAT
66 CAAAACAAGCGAGGCGGTCAT
31990432 CTTCCTGATGAGACACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAAAAGCGAAT
1 CTTCCTGATGAGACACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAAAAGCGAAT
*
31990497 CAAAACAAGCGAGGCAGTCAT
66 CAAAACAAGCGAGGCGGTCAT
*
31990518 TTTCCTGATGAGACACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAAAAGCGAAT
1 CTTCCTGATGAGACACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAAAAGCGAAT
31990583 CAAAACAAGCGAGGCGGTCAT
66 CAAAACAAGCGAGGCGGTCAT
* *
31990604 CTTCCTGATGAGATACGGAGAAG
1 CTTCCTGATGAGACACAGAGAAG
31990627 AACACCAACT
Statistics
Matches: 186, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 186 1.00
ACGTcount: A:0.34, C:0.21, G:0.27, T:0.19
Consensus pattern (86 bp):
CTTCCTGATGAGACACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAAAAGCGAAT
CAAAACAAGCGAGGCGGTCAT
Found at i:31991071 original size:17 final size:17
Alignment explanation
Indices: 31991026--31991132 Score: 101
Period size: 17 Copynumber: 6.3 Consensus size: 17
31991016 CCCAAACCAT
* *
31991026 TTTAAATTTGCTTTGAAA
1 TTTAAATTT-ATTTTAAA
*
31991044 -TTAAGTTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
31991060 TTCAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
**
31991077 TTTAAATTTATTTTTGA
1 TTTAAATTTATTTTAAA
*
31991094 TTTAAATTTAATTTT-AG
1 TTTAAATTT-ATTTTAAA
* *
31991111 TTTGAATTTAATTTAAA
1 TTTAAATTTATTTTAAA
31991128 TTTAA
1 TTTAA
31991133 TATTATGGTA
Statistics
Matches: 72, Mismatches: 14, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
16 10 0.14
17 57 0.79
18 5 0.07
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.56
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:31991077 original size:11 final size:11
Alignment explanation
Indices: 31991075--31991133 Score: 55
Period size: 11 Copynumber: 5.3 Consensus size: 11
31991065 ATTTATTTTA
31991075 AATTTAAATTT
1 AATTTAAATTT
* **
31991086 ATTTTTGATTT
1 AATTTAAATTT
*
31991097 AAATTTAATTTT
1 -AATTTAAATTT
* *
31991109 AGTTTGAATTT
1 AATTTAAATTT
31991120 AATTTAAATTT
1 AATTTAAATTT
31991131 AAT
1 AAT
31991134 ATTATGGTAA
Statistics
Matches: 35, Mismatches: 12, Indels: 2
0.71 0.24 0.04
Matches are distributed among these distances:
11 28 0.80
12 7 0.20
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (11 bp):
AATTTAAATTT
Found at i:31991080 original size:6 final size:6
Alignment explanation
Indices: 31991054--31991132 Score: 58
Period size: 6 Copynumber: 13.8 Consensus size: 6
31991044 TTAAGTTTAT
* * * **
31991054 TTTAAA TTCAAA TTT-AT TTTAAA TTTAAA TTT-AT TTTTGA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * *
31991100 TTT-AA TTTTAG TTTGAA TTT-AA TTTAAA TTTAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA
31991133 TATTATGGTA
Statistics
Matches: 57, Mismatches: 12, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
5 18 0.32
6 39 0.68
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.57
Consensus pattern (6 bp):
TTTAAA
Found at i:31991097 original size:23 final size:23
Alignment explanation
Indices: 31991071--31991131 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
31991061 TCAAATTTAT
*
31991071 TTTAAATTTAAATTTATTTTTG-A
1 TTTAAATTTAAATTTA-GTTTGAA
*
31991094 TTTAAATTTAATTTTAGTTTGAA
1 TTTAAATTTAAATTTAGTTTGAA
31991117 TTT-AATTTAAATTTA
1 TTTAAATTTAAATTTA
31991132 ATATTATGGT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
22 15 0.44
23 19 0.56
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (23 bp):
TTTAAATTTAAATTTAGTTTGAA
Found at i:31991146 original size:28 final size:28
Alignment explanation
Indices: 31991093--31991150 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
31991083 TTTATTTTTG
* * *
31991093 ATTTAAATTTAATTTTAGTTTGAATTTA
1 ATTTAAATTTAATATTAGTGTAAATTTA
31991121 ATTTAAATTTAATATTA-TGGTAAATTTA
1 ATTTAAATTTAATATTAGT-GTAAATTTA
31991149 AT
1 AT
31991151 GTCCATTTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 1 0.04
28 25 0.96
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (28 bp):
ATTTAAATTTAATATTAGTGTAAATTTA
Found at i:31991922 original size:22 final size:21
Alignment explanation
Indices: 31991897--31991950 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
31991887 AAGTACATTA
31991897 AATATATTTAATAATAATAATT
1 AATA-ATTTAATAATAATAATT
** *
31991919 AATAACACTAATAATATTAATT
1 AATAA-TTTAATAATAATAATT
31991941 AATAATTTAA
1 AATAATTTAA
31991951 AAAAAACGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 4 0.15
22 22 0.85
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.41
Consensus pattern (21 bp):
AATAATTTAATAATAATAATT
Found at i:31993113 original size:29 final size:29
Alignment explanation
Indices: 31993080--31993238 Score: 134
Period size: 29 Copynumber: 5.4 Consensus size: 29
31993070 TAAATCAGCA
31993080 TTTTACCCTCGAACTTTCCAAAATTCCAT
1 TTTTACCCTCGAACTTTCCAAAATTCCAT
*
31993109 TTTTAACCTCG-A-TTTCACCAAAATTACCA-
1 TTTTACCCTCGAACTTT--CCAAAATT-CCAT
31993138 TTTTACCC-CTGAACTTTCCAAAATTCCAT
1 TTTTACCCTC-GAACTTTCCAAAATTCCAT
* *
31993167 TTTAAACCTCG-A-TTTCACCAAAAATTACCA-
1 TTTTACCCTCGAACTTT--CC-AAAATT-CCAT
**
31993197 TTTTACCCTCGAACTTTCCAAAACCCCATT
1 TTTTACCCTCGAACTTTCCAAAATTCCA-T
*
31993227 TTTTAGCCTCGA
1 TTTTACCCTCGA
31993239 TCTCACCAAA
Statistics
Matches: 105, Mismatches: 9, Indels: 31
0.72 0.06 0.21
Matches are distributed among these distances:
27 6 0.06
28 9 0.09
29 47 0.45
30 33 0.31
31 7 0.07
32 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.04, T:0.35
Consensus pattern (29 bp):
TTTTACCCTCGAACTTTCCAAAATTCCAT
Found at i:31993226 original size:59 final size:59
Alignment explanation
Indices: 31993078--31993324 Score: 306
Period size: 58 Copynumber: 4.2 Consensus size: 59
31993068 CATAAATCAG
*
31993078 CATTTTACCCTCGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACC-AAAATTAC
1 CATTTTACCCTCGAACTTTCCAAAATCCCATTTTTAACCTCGATTTCACCAAAAATTAC
* *
31993136 CATTTTACCC-CTGAACTTTCCAAAATTCCATTTTAAACCTCGATTTCACCAAAAATTAC
1 CATTTTACCCTC-GAACTTTCCAAAATCCCATTTTTAACCTCGATTTCACCAAAAATTAC
* * * *
31993195 CATTTTACCCTCGAACTTTCCAAAACCCCATTTTTTAGCCTCGATCTCACCAAAAATTAT
1 CATTTTACCCTCGAACTTTCCAAAATCCCA-TTTTTAACCTCGATTTCACCAAAAATTAC
* * * * * *
31993255 CGTTTTACCCGC-AAGCTTTCTAAAATCCCATTTTTTACCT-AATTTCACCAAAAATCA-
1 CATTTTACCCTCGAA-CTTTCCAAAATCCCATTTTTAACCTCGATTTCACCAAAAATTAC
31993312 CATTTTTACCCTC
1 CA-TTTTACCCTC
31993325 AAAAGTCAAA
Statistics
Matches: 165, Mismatches: 18, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
57 2 0.01
58 70 0.42
59 44 0.27
60 49 0.30
ACGTcount: A:0.31, C:0.30, G:0.04, T:0.35
Consensus pattern (59 bp):
CATTTTACCCTCGAACTTTCCAAAATCCCATTTTTAACCTCGATTTCACCAAAAATTAC
Found at i:31996447 original size:48 final size:48
Alignment explanation
Indices: 31996395--31996536 Score: 230
Period size: 48 Copynumber: 3.0 Consensus size: 48
31996385 TGTGTTTTTT
* *
31996395 TTTATTTATGCTTCATTGATTGTTTTGTTGCGTTCATAAATAAAGTTG
1 TTTATTTATGCTTCATTGATTGTCTTGTTGCATTCATAAATAAAGTTG
* *
31996443 TTTATTTATGCTTTATTGATTGTCTTGTTGCATTCATAAATAAAGCTG
1 TTTATTTATGCTTCATTGATTGTCTTGTTGCATTCATAAATAAAGTTG
* *
31996491 TTTATTTATGTTTCATTGATTGTCCTGTTGCATTCATAAATAAAGT
1 TTTATTTATGCTTCATTGATTGTCTTGTTGCATTCATAAATAAAGT
31996537 GGTGTTTTTA
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 86 1.00
ACGTcount: A:0.25, C:0.10, G:0.15, T:0.51
Consensus pattern (48 bp):
TTTATTTATGCTTCATTGATTGTCTTGTTGCATTCATAAATAAAGTTG
Found at i:31996558 original size:52 final size:49
Alignment explanation
Indices: 31996395--31996575 Score: 224
Period size: 48 Copynumber: 3.7 Consensus size: 49
31996385 TGTGTTTTTT
* * *
31996395 TTTATTTATGCTTCATTGATTGTTTTGTTGCGTTCATAAATAAAGT-TG
1 TTTATTTATGTTTCATTGATTGTCTTGTTGCATTCATAAATAAAGTGTG
*
31996443 TTTATTTATGCTTT-ATTGATTGTCTTGTTGCATTCATAAATAAAG-CTG
1 TTTATTTATG-TTTCATTGATTGTCTTGTTGCATTCATAAATAAAGTGTG
*
31996491 TTTATTTATGTTTCATTGATTGTCCTGTTGCATTCATAAATAAAGTGGTG
1 TTTATTTATGTTTCATTGATTGTCTTGTTGCATTCATAAATAAAGT-GTG
* * *
31996541 TTTTTAATTATGTTTCATTGTTTGTTTTTGTTGCA
1 --TTTATTTATGTTTCATTGATTG-TCTTGTTGCA
31996576 GTTATGCATT
Statistics
Matches: 116, Mismatches: 9, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
47 3 0.03
48 81 0.70
49 2 0.02
50 2 0.02
52 20 0.17
53 8 0.07
ACGTcount: A:0.22, C:0.09, G:0.16, T:0.53
Consensus pattern (49 bp):
TTTATTTATGTTTCATTGATTGTCTTGTTGCATTCATAAATAAAGTGTG
Found at i:31998443 original size:13 final size:13
Alignment explanation
Indices: 31998427--31998468 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
31998417 ACAATTAATA
31998427 AAATCAATTGATC
1 AAATCAATTGATC
*
31998440 AAATCAATTAAT-
1 AAATCAATTGATC
*
31998452 AGAATCAATTGGTC
1 A-AATCAATTGATC
31998466 AAA
1 AAA
31998469 CCAACCATCG
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
12 1 0.04
13 22 0.92
14 1 0.04
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.29
Consensus pattern (13 bp):
AAATCAATTGATC
Found at i:31998457 original size:26 final size:26
Alignment explanation
Indices: 31998418--31998468 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
31998408 TTTTAATAAA
31998418 CAATTAATAAAATCAATTGATCAAAT
1 CAATTAATAAAATCAATTGATCAAAT
* *
31998444 CAATTAATAGAATCAATTGGTCAAA
1 CAATTAATAAAATCAATTGATCAAA
31998469 CCAACCATCG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.51, C:0.12, G:0.08, T:0.29
Consensus pattern (26 bp):
CAATTAATAAAATCAATTGATCAAAT
Found at i:31999133 original size:29 final size:29
Alignment explanation
Indices: 31999070--31999189 Score: 91
Period size: 28 Copynumber: 4.1 Consensus size: 29
31999060 ACTCTGTTTT
* * * *
31999070 ATGTTTATAATTTTGA-AGATTTTTTCATA
1 ATGTTTTTAATTTT-ATTGATTTTTTAAAA
* *
31999099 AT-TTTTTAATTTTTTTGAATTTTTAAAA
1 ATGTTTTTAATTTTATTGATTTTTTAAAA
** *
31999127 ATGTTTTTAAAATTCTTGATTTTTTAAAAA
1 ATGTTTTTAATTTTATTGATTTTTT-AAAA
* *
31999157 ATGTTTATAAAATTTTATAGATTTTTTAAAA
1 ATGTTT-T-TAATTTTATTGATTTTTTAAAA
31999188 AT
1 AT
31999190 TTATAATTTA
Statistics
Matches: 71, Mismatches: 15, Indels: 8
0.76 0.16 0.09
Matches are distributed among these distances:
28 21 0.30
29 20 0.28
30 10 0.14
31 7 0.10
32 13 0.18
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.56
Consensus pattern (29 bp):
ATGTTTTTAATTTTATTGATTTTTTAAAA
Found at i:31999157 original size:30 final size:30
Alignment explanation
Indices: 31999113--31999188 Score: 100
Period size: 30 Copynumber: 2.5 Consensus size: 30
31999103 TTTAATTTTT
* *
31999113 TTGAATTTTT-AAAAATGTTTTTAAAATTC
1 TTGATTTTTTAAAAAATGTTTATAAAATTC
*
31999142 TTGATTTTTTAAAAAATGTTTATAAAATTT
1 TTGATTTTTTAAAAAATGTTTATAAAATTC
31999172 TATAGATTTTTTAAAAA
1 T-T-GATTTTTTAAAAA
31999189 TTTATAATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
29 9 0.22
30 18 0.44
31 1 0.02
32 13 0.32
ACGTcount: A:0.41, C:0.01, G:0.07, T:0.51
Consensus pattern (30 bp):
TTGATTTTTTAAAAAATGTTTATAAAATTC
Found at i:31999916 original size:23 final size:23
Alignment explanation
Indices: 31999890--31999934 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
31999880 ATTTAAGTTT
* *
31999890 AAATATATTATAATTTTATATTC
1 AAATATATTACAATTTCATATTC
*
31999913 AAATATGTTACAATTTCATATT
1 AAATATATTACAATTTCATATT
31999935 GATTATGTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (23 bp):
AAATATATTACAATTTCATATTC
Found at i:32010295 original size:19 final size:19
Alignment explanation
Indices: 32010271--32010309 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
32010261 AGTGAAATTT
32010271 AGTTTTTGACTTTAAAGGC
1 AGTTTTTGACTTTAAAGGC
32010290 AGTTTTTGACTTTAAAGGC
1 AGTTTTTGACTTTAAAGGC
32010309 A
1 A
32010310 ATAACAAGGG
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:0.28, C:0.10, G:0.21, T:0.41
Consensus pattern (19 bp):
AGTTTTTGACTTTAAAGGC
Found at i:32019163 original size:19 final size:19
Alignment explanation
Indices: 32019139--32019183 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
32019129 TTTATTATTA
*
32019139 ATATATTTATAATTACAAT
1 ATATATTTATAATTAAAAT
*
32019158 ATATATTTATTATTAAAAT
1 ATATATTTATAATTAAAAT
32019177 ATGATAT
1 AT-ATAT
32019184 AAATATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (19 bp):
ATATATTTATAATTAAAAT
Found at i:32019254 original size:22 final size:22
Alignment explanation
Indices: 32019214--32019259 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
32019204 TGAAGAATAT
*
32019214 TATTTAAACTTTAAAATTATAA
1 TATTTAAACTTTAAAATTAAAA
* **
32019236 TATTTAAAGTTTATTATTAAAA
1 TATTTAAACTTTAAAATTAAAA
32019258 TA
1 TA
32019260 AATTGTAATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
TATTTAAACTTTAAAATTAAAA
Found at i:32019373 original size:21 final size:22
Alignment explanation
Indices: 32019336--32019377 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
32019326 ATGTTTAATA
*
32019336 ATATTGAAAATTATAATATTTG
1 ATATTAAAAATTATAATATTTG
32019358 ATATTAAAAATT-TAATATTT
1 ATATTAAAAATTATAATATTT
32019378 TAAAATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (22 bp):
ATATTAAAAATTATAATATTTG
Found at i:32019607 original size:31 final size:32
Alignment explanation
Indices: 32019572--32019631 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 32
32019562 TTTTTTGTTC
32019572 AATTTGGTACTCAAACTTGACA-TTTTTTCCT
1 AATTTGGTACTCAAACTTGACACTTTTTTCCT
* *
32019603 AATTTGGTGCTTAAACTTGACACTTTTTT
1 AATTTGGTACTCAAACTTGACACTTTTTT
32019632 TAAAAGTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 20 0.77
32 6 0.23
ACGTcount: A:0.25, C:0.17, G:0.12, T:0.47
Consensus pattern (32 bp):
AATTTGGTACTCAAACTTGACACTTTTTTCCT
Found at i:32019727 original size:98 final size:99
Alignment explanation
Indices: 32019544--32019728 Score: 246
Period size: 98 Copynumber: 1.9 Consensus size: 99
32019534 ATTTTTTCTT
* * * * *
32019544 AATTTGGTATCTAAAATTTTTTTTGTTCAATTTGGTACTCAAACTTGACATTTTTTCCTAATTTG
1 AATTTGGTACCTAAAACTTTTTTTGTCCAATTTGGTACTCAAACGTGACACTTTTTCCTAATTTG
* * *
32019609 GTGCTTAAACTTGACACTTTTTTTAAAAGTTTCC
66 GTACCTAAACTTAACACTTTTTTTAAAAGTTTCC
* *
32019643 AATTTGGTACCT-AAACTTTTTTTGTCCAATTTGTTACTCAAACGTGACACTTTTTCTTAATTTG
1 AATTTGGTACCTAAAACTTTTTTTGTCCAATTTGGTACTCAAACGTGACACTTTTTCCTAATTTG
* * *
32019707 GTACCTGAATTTAACTCTTTTT
66 GTACCTAAACTTAACACTTTTT
32019729 CCTCATTTGG
Statistics
Matches: 73, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
98 62 0.85
99 11 0.15
ACGTcount: A:0.25, C:0.16, G:0.11, T:0.48
Consensus pattern (99 bp):
AATTTGGTACCTAAAACTTTTTTTGTCCAATTTGGTACTCAAACGTGACACTTTTTCCTAATTTG
GTACCTAAACTTAACACTTTTTTTAAAAGTTTCC
Found at i:32021956 original size:25 final size:26
Alignment explanation
Indices: 32021908--32021957 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
32021898 ATTTCTTTAC
*
32021908 ATTTTTTTATAAATCTTATTTTTATA
1 ATTTTTTTATAAATCTTATATTTATA
32021934 ATTTTTTTAT-AAT-TTATAATTTAT
1 ATTTTTTTATAAATCTTAT-ATTTAT
32021958 TTTTAGATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 4 0.18
25 8 0.36
26 10 0.45
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (26 bp):
ATTTTTTTATAAATCTTATATTTATA
Found at i:32021986 original size:36 final size:36
Alignment explanation
Indices: 32021946--32022029 Score: 98
Period size: 36 Copynumber: 2.3 Consensus size: 36
32021936 TTTTTTATAA
*
32021946 TTTATA-ATTTATTTTTAGATTATATATATTTAAATT
1 TTTATATATTTATATTTA-ATTATATATATTTAAATT
* * * *
32021982 TTTATATATTTATATTTATTTTTATATTTTTAAATG
1 TTTATATATTTATATTTAATTATATATATTTAAATT
*
32022018 TGTATATATTTA
1 TTTATATATTTA
32022030 ATAAAATAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
36 31 0.76
37 10 0.24
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (36 bp):
TTTATATATTTATATTTAATTATATATATTTAAATT
Found at i:32021989 original size:16 final size:16
Alignment explanation
Indices: 32021968--32022030 Score: 63
Period size: 16 Copynumber: 3.7 Consensus size: 16
32021958 TTTTAGATTA
32021968 TATATATTTAAATTTT
1 TATATATTTAAATTTT
32021984 TATATATTTATATTTATTTT
1 TATATATTTA-A---ATTTT
* * *
32022004 TATATTTTTAAATGTG
1 TATATATTTAAATTTT
32022020 TATATATTTAA
1 TATATATTTAA
32022031 TAAAATAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
16 23 0.59
17 1 0.03
19 1 0.03
20 14 0.36
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (16 bp):
TATATATTTAAATTTT
Found at i:32022007 original size:18 final size:18
Alignment explanation
Indices: 32021923--32022010 Score: 61
Period size: 22 Copynumber: 4.4 Consensus size: 18
32021913 TTTATAAATC
* *
32021923 TTATTTTTATAATT-TTT
1 TTATATTTATATTTATTT
32021940 TTATAATTTATAATTTATTT
1 TTAT-ATTTAT-ATTTATTT
*
32021960 TTAGATTATATATATTTAAATTTT
1 TT--A-TATTTATATTT--A-TTT
32021984 TATATATTTATATTTATTT
1 T-TATATTTATATTTATTT
32022003 TTATATTT
1 TTATATTT
32022011 TTAAATGTGT
Statistics
Matches: 57, Mismatches: 4, Indels: 19
0.71 0.05 0.24
Matches are distributed among these distances:
17 4 0.07
18 12 0.21
19 7 0.12
20 6 0.11
21 4 0.07
22 16 0.28
23 3 0.05
24 4 0.07
25 1 0.02
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (18 bp):
TTATATTTATATTTATTT
Found at i:32022008 original size:20 final size:20
Alignment explanation
Indices: 32021928--32022013 Score: 86
Period size: 20 Copynumber: 4.2 Consensus size: 20
32021918 AAATCTTATT
*
32021928 TTTATAATT-TTTTTATA-A
1 TTTATATTTATTTTTATATA
*
32021946 TTTATAATTTATTTTTAGATTA
1 TTTAT-ATTTATTTTTATA-TA
*
32021968 TATATATTTAAATTTTTATATA
1 TTTATATTT--ATTTTTATATA
*
32021990 TTTATATTTATTTTTATATT
1 TTTATATTTATTTTTATATA
32022010 TTTA
1 TTTA
32022014 AATGTGTATA
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
18 5 0.09
19 3 0.05
20 21 0.38
21 4 0.07
22 15 0.27
23 8 0.14
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (20 bp):
TTTATATTTATTTTTATATA
Found at i:32026671 original size:24 final size:22
Alignment explanation
Indices: 32026628--32026672 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 22
32026618 AGACTCAAAG
*
32026628 AAATAAACAGTTTAATTGAAAC
1 AAATAAACAGTTTAACTGAAAC
32026650 AAATAAACAGAGTTTAACTGAAA
1 AAATAAAC--AGTTTAACTGAAA
32026673 GATTATTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 8 0.40
24 12 0.60
ACGTcount: A:0.56, C:0.09, G:0.11, T:0.24
Consensus pattern (22 bp):
AAATAAACAGTTTAACTGAAAC
Found at i:32028628 original size:24 final size:24
Alignment explanation
Indices: 32028600--32028650 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
32028590 AGTTTGACTC
*
32028600 AAACAAATAAACAAAATTTAATTG
1 AAACAAATAAACAAAATTTAACTG
* *
32028624 AAACAAATAAACAGAGTTTAACTG
1 AAACAAATAAACAAAATTTAACTG
32028648 AAA
1 AAA
32028651 GATTATTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.61, C:0.10, G:0.08, T:0.22
Consensus pattern (24 bp):
AAACAAATAAACAAAATTTAACTG
Found at i:32032902 original size:24 final size:24
Alignment explanation
Indices: 32032837--32032891 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
32032827 AAACTCTGTC
*
32032837 TGGGCTTGTAAGAGCTAATCATTT
1 TGGGCTCGTAAGAGCTAATCATTT
32032861 TGGGCTCGTAAGAGCTAATCATTT
1 TGGGCTCGTAAGAGCTAATCATTT
32032885 TGGGCTC
1 TGGGCTC
32032892 TTGTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.35
Consensus pattern (24 bp):
TGGGCTCGTAAGAGCTAATCATTT
Found at i:32035699 original size:16 final size:16
Alignment explanation
Indices: 32035678--32035712 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
32035668 AAAATAAAGA
32035678 TAATTTTTTTAATTTT
1 TAATTTTTTTAATTTT
*
32035694 TAATTTTTTTATTTTT
1 TAATTTTTTTAATTTT
32035710 TAA
1 TAA
32035713 AATTTTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TAATTTTTTTAATTTT
Found at i:32035943 original size:15 final size:15
Alignment explanation
Indices: 32035920--32035957 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
32035910 CTTCCATAAC
32035920 TTTTTTTTTCTGA-T
1 TTTTTTTTTCTGAGT
*
32035934 TTTTTGTTTTGTGAGT
1 TTTTT-TTTTCTGAGT
32035950 TTTTTTTT
1 TTTTTTTT
32035958 AATTTTCTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 5 0.24
15 10 0.48
16 6 0.29
ACGTcount: A:0.05, C:0.03, G:0.13, T:0.79
Consensus pattern (15 bp):
TTTTTTTTTCTGAGT
Found at i:32035987 original size:17 final size:18
Alignment explanation
Indices: 32035951--32035995 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
32035941 TTTGTGAGTT
32035951 TTTTTTTAATTTTCTCAA
1 TTTTTTTAATTTTCTCAA
* *
32035969 TTTTTTTGATTTT-TGAA
1 TTTTTTTAATTTTCTCAA
32035986 TTTGTTTTAA
1 TTT-TTTTAA
32035996 AAAATAGAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 6 0.26
18 17 0.74
ACGTcount: A:0.20, C:0.04, G:0.07, T:0.69
Consensus pattern (18 bp):
TTTTTTTAATTTTCTCAA
Found at i:32041063 original size:14 final size:15
Alignment explanation
Indices: 32041044--32041072 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
32041034 TCCACAATCC
32041044 CCCACCCC-CCCCCA
1 CCCACCCCACCCCCA
32041058 CCCACCCCACCCCCA
1 CCCACCCCACCCCCA
32041073 ATTTTTTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.17, C:0.83, G:0.00, T:0.00
Consensus pattern (15 bp):
CCCACCCCACCCCCA
Found at i:32042254 original size:105 final size:104
Alignment explanation
Indices: 32042124--32042342 Score: 296
Period size: 105 Copynumber: 2.1 Consensus size: 104
32042114 ATTATAGGTA
*
32042124 ACAACATTAGGCTCAATGCCATGCTTTACCATTGTGTCAACAATATCTTCA-GCTTCAGAAACCT
1 ACAACATTAGGCTCAATGCCATGCTTTACCATTGTGTCAACAATATC--CATGCTTCAAAAACCT
*
32042188 TCCCATCTTTGCAATGTGCATCAACCAATATACTATATGTG
64 TCCCATCCTTGCAATGTGCATCAACCAATATACTATATGTG
* * *** *
32042229 ACAACATTAGGCTCAATGCCTTGCTTTTCCATTGTGTCAAGGGTATCCATTGCTTCAAAAATCTT
1 ACAACATTAGGCTCAATGCCATGCTTTACCATTGTGTCAACAATATCCA-TGCTTCAAAAACCTT
* * *
32042294 CCCATCCTTGCAATGTGCATCGATCAATATATTATATGTG
65 CCCATCCTTGCAATGTGCATCAACCAATATACTATATGTG
*
32042334 ACAATATTA
1 ACAACATTA
32042343 AGTGAAATAT
Statistics
Matches: 100, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
103 2 0.02
105 98 0.98
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (104 bp):
ACAACATTAGGCTCAATGCCATGCTTTACCATTGTGTCAACAATATCCATGCTTCAAAAACCTTC
CCATCCTTGCAATGTGCATCAACCAATATACTATATGTG
Found at i:32045356 original size:58 final size:58
Alignment explanation
Indices: 32045176--32045349 Score: 208
Period size: 59 Copynumber: 3.0 Consensus size: 58
32045166 ACCCGAGGGC
* * * * *
32045176 AAAATGGTAATTTTTGGTAAAATCGAGGTTAAAAATGGGATTTTGGAAGGTTCGGGTGT
1 AAAATGGTAATTTTTGGTGAAATCG-GGGTCAAAATGGAATTTTGGAAGGTTAGGGTGT
* * *
32045235 AAAATAGTAATTTTTGGTGAAATCGGGGTCAAAAAATAGAA-TTTGGAAGGTTAGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTC--AAAATGGAATTTTGGAAGGTTAGGGTGT
* *
32045294 AAAATGGTAA-TTTTGGTGAAATTGGGGTCAAAATGGAATTTTGGAAAGTTTAGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTCAAAATGGAATTTTGG-AAGGTTAGGGT
32045350 CAAAAATATA
Statistics
Matches: 98, Mismatches: 13, Indels: 9
0.82 0.11 0.08
Matches are distributed among these distances:
56 8 0.08
57 5 0.05
58 30 0.31
59 48 0.49
60 7 0.07
ACGTcount: A:0.34, C:0.03, G:0.30, T:0.32
Consensus pattern (58 bp):
AAAATGGTAATTTTTGGTGAAATCGGGGTCAAAATGGAATTTTGGAAGGTTAGGGTGT
Found at i:32047283 original size:17 final size:18
Alignment explanation
Indices: 32047261--32047300 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
32047251 TATTAAGTCT
32047261 TAAATTTAA-ATTCAAAA
1 TAAATTTAATATTCAAAA
* *
32047278 TAAATTTAATCTTTAAAA
1 TAAATTTAATATTCAAAA
32047296 TAAAT
1 TAAAT
32047301 CTTTAAAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (18 bp):
TAAATTTAATATTCAAAA
Found at i:32047294 original size:13 final size:13
Alignment explanation
Indices: 32047285--32047309 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32047275 AAATAAATTT
32047285 AATCTTTAAAATA
1 AATCTTTAAAATA
32047298 AATCTTTAAAAT
1 AATCTTTAAAAT
32047310 GGGTTTAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (13 bp):
AATCTTTAAAATA
Found at i:32048339 original size:2 final size:2
Alignment explanation
Indices: 32048332--32048365 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
32048322 TGGGTAACAA
32048332 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32048366 TTGATCATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32049101 original size:45 final size:45
Alignment explanation
Indices: 32048979--32049197 Score: 259
Period size: 43 Copynumber: 4.9 Consensus size: 45
32048969 TCATTTAATT
*
32048979 TTTTA-CCCTAA-CAAGAGGGGCAGATTAAAACCACCATCCAATC
1 TTTTACCCCTAATCAAGAGGGGCAGATTGAAACCACCATCCAATC
32049022 TTTTA-CCCTAA-CAAGAGGGGCAGATT-AAAGCCACCATCCAATC
1 TTTTACCCCTAATCAAGAGGGGCAGATTGAAA-CCACCATCCAATC
**
32049065 TTTTACATCTAATCAAGAGGGGCAGATTGAAACCACCATCCAATC
1 TTTTACCCCTAATCAAGAGGGGCAGATTGAAACCACCATCCAATC
* * * * * *
32049110 TTTTACCCCTGAGTCAATAGGGGCATATTGAAGCCACCGTCCAATA
1 TTTTACCCCT-AATCAAGAGGGGCAGATTGAAACCACCATCCAATC
* * *
32049156 TTTTACCCCCTAAATCAAGAGGGGAAGATTGAAGCTACCATC
1 TTTTA-CCCCT-AATCAAGAGGGGCAGATTGAAACCACCATC
32049198 TCACAGAAGT
Statistics
Matches: 153, Mismatches: 17, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
42 3 0.02
43 44 0.29
44 4 0.03
45 36 0.24
46 37 0.24
47 29 0.19
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (45 bp):
TTTTACCCCTAATCAAGAGGGGCAGATTGAAACCACCATCCAATC
Found at i:32050956 original size:15 final size:16
Alignment explanation
Indices: 32050932--32050964 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
32050922 TTTATTTTTT
32050932 TTGTATTTATTTGATA
1 TTGTATTTATTTGATA
*
32050948 TTGTA-TTATTTGTTA
1 TTGTATTTATTTGATA
32050963 TT
1 TT
32050965 TATCTTGGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.21, C:0.00, G:0.12, T:0.67
Consensus pattern (16 bp):
TTGTATTTATTTGATA
Found at i:32051192 original size:17 final size:16
Alignment explanation
Indices: 32051166--32051212 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
32051156 AGTTTTATTC
32051166 TTTC-TTTTATTTATT-
1 TTTCATTTTATTT-TTA
32051181 TTTCTATTTTATTTTTA
1 TTTC-ATTTTATTTTTA
32051198 TTTCATGTTTATTTT
1 TTTCAT-TTTATTTT
32051213 CTTGTTTTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
15 4 0.14
16 4 0.14
17 20 0.71
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.77
Consensus pattern (16 bp):
TTTCATTTTATTTTTA
Found at i:32051648 original size:109 final size:111
Alignment explanation
Indices: 32051529--32051737 Score: 280
Period size: 111 Copynumber: 1.9 Consensus size: 111
32051519 GGTAATGCTA
* *
32051529 TTTTATTTTAGGAAATTCAAAAAATTGTGACATAATATATT-GG-AT-ATGGTTTTTCGTTGAAC
1 TTTTATTTTAGGAAACTCAAAAAATTGTGACATAACATATTGGGTATAAT-GTTTTTCGTTGAAC
* *
32051591 TTAAGTAATTGAATATTCTATTTAAAATTGATAAATGTTTAATGTTC
65 CTAAGTAATTGAATATTCTATTTAAAATCGATAAATGTTTAATGTTC
* * * * * ** *
32051638 TTTTATTTTAGGGAACTCAAAAACTTGTGCCCTAACATATTGGGTATAATTTTTTTTTTTGCACC
1 TTTTATTTTAGGAAACTCAAAAAATTGTGACATAACATATTGGGTATAATGTTTTTCGTTGAACC
32051703 TAAGTAATTGAATATTCTATTTAAAATCGATAAAT
66 TAAGTAATTGAATATTCTATTTAAAATCGATAAAT
32051738 ATTCTTTGTT
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
109 35 0.41
110 2 0.02
111 46 0.54
112 2 0.02
ACGTcount: A:0.34, C:0.09, G:0.13, T:0.44
Consensus pattern (111 bp):
TTTTATTTTAGGAAACTCAAAAAATTGTGACATAACATATTGGGTATAATGTTTTTCGTTGAACC
TAAGTAATTGAATATTCTATTTAAAATCGATAAATGTTTAATGTTC
Found at i:32056488 original size:105 final size:105
Alignment explanation
Indices: 32056368--32056573 Score: 279
Period size: 105 Copynumber: 2.0 Consensus size: 105
32056358 ACCATAGGTA
*
32056368 ACAACATTAGGCTCAATG-CTATGCTTTATCATTGTGTCAACAATATCTTCAGCTTCAGAAACCT
1 ACAACATTAGGCTCAATGCCT-TGCTTTATCATTGTGTCAACAATATCTACAGCTTCAGAAACCT
* *
32056432 TCCCCTCCTTGCAATGCGCATCAACCAATATATTATATGTG
65 TCCCATCCTTGCAATGCGCATCAACCAATATAGTATATGTG
* *** ** *
32056473 ACAACATTAGGCTCAATGCCTTGCTTTTTCATTGTGTCAATGGTATCTAGTGCTTCAGAAATCTT
1 ACAACATTAGGCTCAATGCCTTGCTTTATCATTGTGTCAACAATATCTACAGCTTCAGAAACCTT
* * *
32056538 TCCATCCTTGCAATGTGCATCAATCAATATAGTATA
66 CCCATCCTTGCAATGCGCATCAACCAATATAGTATA
32056574 CATGAAAATA
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
105 85 0.98
106 2 0.02
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (105 bp):
ACAACATTAGGCTCAATGCCTTGCTTTATCATTGTGTCAACAATATCTACAGCTTCAGAAACCTT
CCCATCCTTGCAATGCGCATCAACCAATATAGTATATGTG
Found at i:32056907 original size:107 final size:107
Alignment explanation
Indices: 32056721--32056938 Score: 436
Period size: 107 Copynumber: 2.0 Consensus size: 107
32056711 TCGCTTGGGG
32056721 GAAAAGATGGAGAGCCTGATTTAGTGATCCCTTCTTACAAAGACAGTCAATAACAGTGTTATATG
1 GAAAAGATGGAGAGCCTGATTTAGTGATCCCTTCTTACAAAGACAGTCAATAACAGTGTTATATG
32056786 CTACAATATTGGGTTCAAAACCTCTATCTTCCATTAGCCTTA
66 CTACAATATTGGGTTCAAAACCTCTATCTTCCATTAGCCTTA
32056828 GAAAAGATGGAGAGCCTGATTTAGTGATCCCTTCTTACAAAGACAGTCAATAACAGTGTTATATG
1 GAAAAGATGGAGAGCCTGATTTAGTGATCCCTTCTTACAAAGACAGTCAATAACAGTGTTATATG
32056893 CTACAATATTGGGTTCAAAACCTCTATCTTCCATTAGCCTTA
66 CTACAATATTGGGTTCAAAACCTCTATCTTCCATTAGCCTTA
32056935 GAAA
1 GAAA
32056939 CCTAACAGCT
Statistics
Matches: 111, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
107 111 1.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.30
Consensus pattern (107 bp):
GAAAAGATGGAGAGCCTGATTTAGTGATCCCTTCTTACAAAGACAGTCAATAACAGTGTTATATG
CTACAATATTGGGTTCAAAACCTCTATCTTCCATTAGCCTTA
Found at i:32058040 original size:70 final size:66
Alignment explanation
Indices: 32057914--32058045 Score: 165
Period size: 70 Copynumber: 1.9 Consensus size: 66
32057904 ATAAACAATA
* * * *
32057914 TAATGGTTTTGCCTTTTAATTTAATGGGTAAATATTTATCAAAATGACATAATTTTGACTTTTAA
1 TAATGGTTTTGACTTTTAATTTAAAGAGTAAATATTTATCAAAACGACATAATTTTG-CTTTTAA
32057979 CT
65 CT
* * *
32057981 TAATGGTTTTGACTTTTAACTTTAGAAAGAGTAAATATTTATCACAACGACGTAGTTTTGCTTTT
1 TAATGGTTTTGACTTTTAA-TTT--AAAGAGTAAATATTTATCAAAACGACATAATTTTGCTTTT
32058046 TCTTATTCGG
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
67 18 0.33
68 3 0.05
69 5 0.09
70 29 0.53
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.45
Consensus pattern (66 bp):
TAATGGTTTTGACTTTTAATTTAAAGAGTAAATATTTATCAAAACGACATAATTTTGCTTTTAAC
T
Found at i:32061041 original size:10 final size:10
Alignment explanation
Indices: 32061026--32061050 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
32061016 AAGTTTTCAA
32061026 ATATACATAT
1 ATATACATAT
32061036 ATATACATAT
1 ATATACATAT
32061046 ATATA
1 ATATA
32061051 TACATGTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (10 bp):
ATATACATAT
Found at i:32063170 original size:12 final size:12
Alignment explanation
Indices: 32063153--32063177 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
32063143 ACTGCCCAAG
32063153 ACATAATCAGCC
1 ACATAATCAGCC
32063165 ACATAATCAGCC
1 ACATAATCAGCC
32063177 A
1 A
32063178 GGAAGCAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.32, G:0.08, T:0.16
Consensus pattern (12 bp):
ACATAATCAGCC
Found at i:32068319 original size:20 final size:20
Alignment explanation
Indices: 32068290--32068329 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
32068280 AAACTAATCC
*
32068290 TTTCAGGGTATGTGATTACT
1 TTTCAAGGTATGTGATTACT
32068310 TTTCAAGGTATGTGATTACT
1 TTTCAAGGTATGTGATTACT
32068330 ACTTTCAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.23, C:0.10, G:0.23, T:0.45
Consensus pattern (20 bp):
TTTCAAGGTATGTGATTACT
Found at i:32069548 original size:10 final size:9
Alignment explanation
Indices: 32069520--32069571 Score: 77
Period size: 9 Copynumber: 5.6 Consensus size: 9
32069510 CAATCAAAAC
32069520 GAGAGACTT
1 GAGAGACTT
32069529 GAGAGACTT
1 GAGAGACTT
32069538 GAGAGGACTT
1 GAGA-GACTT
32069548 GAGAGACTT
1 GAGAGACTT
*
32069557 GAGAGGGCTT
1 GAGA-GACTT
32069567 GAGAG
1 GAGAG
32069572 GCGGATGTGA
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
9 23 0.57
10 17 0.43
ACGTcount: A:0.31, C:0.10, G:0.40, T:0.19
Consensus pattern (9 bp):
GAGAGACTT
Found at i:32069548 original size:19 final size:19
Alignment explanation
Indices: 32069520--32069571 Score: 88
Period size: 19 Copynumber: 2.8 Consensus size: 19
32069510 CAATCAAAAC
32069520 GAGA-GACTTGAGAGACTT
1 GAGAGGACTTGAGAGACTT
32069538 GAGAGGACTTGAGAGACTT
1 GAGAGGACTTGAGAGACTT
*
32069557 GAGAGGGCTTGAGAG
1 GAGAGGACTTGAGAG
32069572 GCGGATGTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 4 0.12
19 28 0.88
ACGTcount: A:0.31, C:0.10, G:0.40, T:0.19
Consensus pattern (19 bp):
GAGAGGACTTGAGAGACTT
Found at i:32069777 original size:29 final size:31
Alignment explanation
Indices: 32069745--32069803 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 31
32069735 TTTCTCTAAT
* *
32069745 TAATTTTAAAAA-CGACTTA-AAATCTTAAA
1 TAATTATAAAAATCGACTTATAAACCTTAAA
*
32069774 TAATTATAAAAATCGATTTATAAACCTTAA
1 TAATTATAAAAATCGACTTATAAACCTTAA
32069804 TTTTTTTGTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 11 0.44
30 6 0.24
31 8 0.32
ACGTcount: A:0.51, C:0.10, G:0.03, T:0.36
Consensus pattern (31 bp):
TAATTATAAAAATCGACTTATAAACCTTAAA
Found at i:32098096 original size:29 final size:29
Alignment explanation
Indices: 32098048--32098109 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
32098038 CTTTTACATT
32098048 ATAAAAAATTAAAATTAATT-ATATGTTAA
1 ATAAAAAATTAAAATTAATTCA-ATGTTAA
* *
32098077 ATAAAAAA-TAGAATTAAATTCAATTTTAA
1 ATAAAAAATTAAAATT-AATTCAATGTTAA
32098106 ATAA
1 ATAA
32098110 TCGTAAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 6 0.21
29 22 0.76
30 1 0.03
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (29 bp):
ATAAAAAATTAAAATTAATTCAATGTTAA
Found at i:32100554 original size:33 final size:35
Alignment explanation
Indices: 32100491--32100560 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 35
32100481 TTTTTTTAAA
* * *
32100491 TTATTATTTCTTAAAATGTAAAATTCATATATAAT
1 TTATTATTTCTAAAAATATAAAATTCATATACAAT
*
32100526 TTATTATTT-TAAAAATATAAACTT-ATATACAAT
1 TTATTATTTCTAAAAATATAAAATTCATATACAAT
32100559 TT
1 TT
32100561 TTTTCATCCA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 10 0.32
34 12 0.39
35 9 0.29
ACGTcount: A:0.44, C:0.06, G:0.01, T:0.49
Consensus pattern (35 bp):
TTATTATTTCTAAAAATATAAAATTCATATACAAT
Found at i:32105667 original size:16 final size:16
Alignment explanation
Indices: 32105644--32105699 Score: 71
Period size: 16 Copynumber: 3.5 Consensus size: 16
32105634 CGTTTGGTTC
32105644 GCTGTAATGGAATAGAA
1 GCTGTAATGGAATAG-A
32105661 G-TGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
32105676 GCTGTAATGAAATAG-
1 GCTGTAATGGAATAGA
32105691 GACTGTAAT
1 G-CTGTAAT
32105700 CAGTAATTCA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
15 3 0.08
16 32 0.89
17 1 0.03
ACGTcount: A:0.39, C:0.05, G:0.29, T:0.27
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:32105900 original size:26 final size:26
Alignment explanation
Indices: 32105871--32105953 Score: 69
Period size: 26 Copynumber: 3.0 Consensus size: 26
32105861 TTTTAATGAT
32105871 TATTATTAAATATAATTTAATAAAAA
1 TATTATTAAATATAATTTAATAAAAA
* * *
32105897 TATTAATT-AATTTAATTATATTTTAACATCAT
1 TATT-ATTAAATATAATT-TA--ATAA-A--AA
32105929 TATTATTAAATATAATTTAATAAAA
1 TATTATTAAATATAATTTAATAAAA
32105954 TAATATATAA
Statistics
Matches: 44, Mismatches: 5, Indels: 16
0.68 0.08 0.25
Matches are distributed among these distances:
26 13 0.30
27 5 0.11
28 1 0.02
29 6 0.14
30 1 0.02
31 5 0.11
32 13 0.30
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (26 bp):
TATTATTAAATATAATTTAATAAAAA
Found at i:32105938 original size:58 final size:59
Alignment explanation
Indices: 32105869--32106023 Score: 192
Period size: 58 Copynumber: 2.6 Consensus size: 59
32105859 AATTTTAATG
* * *
32105869 ATTATTATTAAATATAATTTAATAAAAATATTA-ATTAATTTAATTATA-TTTTAACATC
1 ATTATTATTAAATATAATTTAATAAAAATAATATA-TAATTTAATAATATTTTTAACATA
*
32105927 ATTATTATTAAATATAATTTAAT-AAAATAATATATAATTTAATAATATTTTTAATATA
1 ATTATTATTAAATATAATTTAATAAAAATAATATATAATTTAATAATATTTTTAACATA
* *
32105985 ATTATTATTAAAATATGAA-TTAGTAAAAATTATAATATA
1 ATTATTATT-AAATAT-AATTTAATAAAAATAAT-ATATA
32106024 TAATATTAGA
Statistics
Matches: 85, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
57 20 0.24
58 41 0.48
59 10 0.12
60 9 0.11
61 5 0.06
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (59 bp):
ATTATTATTAAATATAATTTAATAAAAATAATATATAATTTAATAATATTTTTAACATA
Found at i:32105945 original size:32 final size:29
Alignment explanation
Indices: 32105869--32105953 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 29
32105859 AATTTTAATG
32105869 ATTATTATTAAATATAATTTAATAAAAAT
1 ATTATTATTAAATATAATTTAATAAAAAT
* *
32105898 ATTAATTAATTTAAT-TATATTT--T-AACAT
1 ATT-ATT-ATTAAATATA-ATTTAATAAAAAT
32105926 CATTATTATTAAATATAATTTAATAAAA
1 -ATTATTATTAAATATAATTTAATAAAA
32105954 TAATATATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 15
0.70 0.06 0.24
Matches are distributed among these distances:
27 10 0.23
28 9 0.20
29 8 0.18
30 7 0.16
31 10 0.23
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (29 bp):
ATTATTATTAAATATAATTTAATAAAAAT
Found at i:32106017 original size:25 final size:24
Alignment explanation
Indices: 32105988--32106038 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
32105978 TAATATAATT
*
32105988 ATTATTAAAATATGA-ATTAGTAAAA
1 ATTA-TAAAATATAATATTAG-AAAA
*
32106013 ATTATAATATATAATATTAGAAAA
1 ATTATAAAATATAATATTAGAAAA
32106037 AT
1 AT
32106039 AATATATAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (24 bp):
ATTATAAAATATAATATTAGAAAA
Found at i:32111680 original size:30 final size:30
Alignment explanation
Indices: 32111640--32111708 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
32111630 AATTTATATA
* *
32111640 TTTATAATTTTTAAAGAATTAAA-TCAAAT
1 TTTATCATTTTTAAAGAATCAAAGTCAAAT
* * *
32111669 TTTGATCATTTTTAGAGAGTCAAAGTGAAAT
1 TTT-ATCATTTTTAAAGAATCAAAGTCAAAT
32111700 TTTATCATT
1 TTTATCATT
32111709 ACTAGTTTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 3 0.09
30 22 0.67
31 8 0.24
ACGTcount: A:0.39, C:0.06, G:0.10, T:0.45
Consensus pattern (30 bp):
TTTATCATTTTTAAAGAATCAAAGTCAAAT
Found at i:32115250 original size:16 final size:16
Alignment explanation
Indices: 32115229--32115260 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
32115219 GTTTTATTCG
32115229 CTGTAATGGAATAGAA
1 CTGTAATGGAATAGAA
32115245 CTGTAATGGAATAGAA
1 CTGTAATGGAATAGAA
32115261 TTATAATCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.25, T:0.25
Consensus pattern (16 bp):
CTGTAATGGAATAGAA
Found at i:32115267 original size:16 final size:16
Alignment explanation
Indices: 32115232--32115267 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
32115222 TTATTCGCTG
*
32115232 TAATGGAATAGAACTG
1 TAATGGAATAGAACTA
*
32115248 TAATGGAATAGAATTA
1 TAATGGAATAGAACTA
32115264 TAAT
1 TAAT
32115268 CAGTAATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.03, G:0.19, T:0.31
Consensus pattern (16 bp):
TAATGGAATAGAACTA
Found at i:32116458 original size:15 final size:15
Alignment explanation
Indices: 32116438--32116466 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
32116428 GAGATAGGTG
32116438 GTTTGGTGAATTTTA
1 GTTTGGTGAATTTTA
32116453 GTTTGGTGAATTTT
1 GTTTGGTGAATTTT
32116467 CAGATGCTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.00, G:0.28, T:0.55
Consensus pattern (15 bp):
GTTTGGTGAATTTTA
Found at i:32120372 original size:11 final size:12
Alignment explanation
Indices: 32120346--32120372 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
32120336 TTTAACATAT
32120346 AAAAATTAAACA
1 AAAAATTAAACA
32120358 AAAAATTAAACA
1 AAAAATTAAACA
32120370 AAA
1 AAA
32120373 GACGTGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.78, C:0.07, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAAATTAAACA
Found at i:32124584 original size:24 final size:22
Alignment explanation
Indices: 32124542--32124585 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
32124532 AGATAAAATA
*
32124542 CTAAAAAAATTAAAATATTACC
1 CTAAAAAAAGTAAAATATTACC
32124564 CTAATAAAAAGTAAAAGTATTA
1 CTAA-AAAAAGTAAAA-TATTA
32124586 TTTTTACAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 10 0.53
24 5 0.26
ACGTcount: A:0.59, C:0.09, G:0.05, T:0.27
Consensus pattern (22 bp):
CTAAAAAAAGTAAAATATTACC
Found at i:32125761 original size:78 final size:78
Alignment explanation
Indices: 32125673--32125865 Score: 341
Period size: 78 Copynumber: 2.5 Consensus size: 78
32125663 CTTATAATGG
32125673 TGGTGGCAACCCAAAGTCAGGATCTTGATTGAACTGATCAAGAGGTGGGAAATCAAAATCACTTG
1 TGGTGGCAACCCAAAGTCAGGATCTTGATTGAACTGATCAAGAGGTGGGAAATCAAAATCACTTG
*
32125738 GGGGGTGAACACT
66 GGAGGTGAACACT
32125751 TGGTGGCAACCCAAAGTCAGGATCTTGATTGAACTGATCAAGAGGTGGGAAATCAAAATCACTTG
1 TGGTGGCAACCCAAAGTCAGGATCTTGATTGAACTGATCAAGAGGTGGGAAATCAAAATCACTTG
*
32125816 GGAGGTGGACACT
66 GGAGGTGAACACT
* * *
32125829 TGGTGGCAACCCAGAGTCAGGATCTTGAATGACCTGA
1 TGGTGGCAACCCAAAGTCAGGATCTTGATTGAACTGA
32125866 ATTGGATTAC
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 110 1.00
ACGTcount: A:0.31, C:0.18, G:0.30, T:0.22
Consensus pattern (78 bp):
TGGTGGCAACCCAAAGTCAGGATCTTGATTGAACTGATCAAGAGGTGGGAAATCAAAATCACTTG
GGAGGTGAACACT
Found at i:32126195 original size:81 final size:81
Alignment explanation
Indices: 32126060--32126300 Score: 394
Period size: 81 Copynumber: 3.0 Consensus size: 81
32126050 TCCCATTTTC
* * * * *
32126060 AACCATTTGAGTTCCATTGTATGGTAGAATT-CGACCTGTATCAGCTTCAGCTTCACCTTCCTCT
1 AACCATTTGGGTTCCATCGTAAGGTACAATTGC-ACTTGTATCAGCTTCAGCTTCACCTTCCTCT
32126124 TGATGACCTTCTTGTTG
65 TGATGACCTTCTTGTTG
*
32126141 AACCATTTGGGTTTCATCGTAAGGTACAATTGCACTTGTATCAGCTTCAGCTTCACCTTCCTCTT
1 AACCATTTGGGTTCCATCGTAAGGTACAATTGCACTTGTATCAGCTTCAGCTTCACCTTCCTCTT
*
32126206 AATGACCTTCTTGTTG
66 GATGACCTTCTTGTTG
*
32126222 AACCATTTGGGTTCCATCGTAAGGTACAATTGCACTTGTATCAGCTTCAGCTTCAGCTTCCTCTT
1 AACCATTTGGGTTCCATCGTAAGGTACAATTGCACTTGTATCAGCTTCAGCTTCACCTTCCTCTT
32126287 GATGACCTTCTTGT
66 GATGACCTTCTTGT
32126301 AAGGTTTCAC
Statistics
Matches: 149, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
81 148 0.99
82 1 0.01
ACGTcount: A:0.20, C:0.25, G:0.17, T:0.38
Consensus pattern (81 bp):
AACCATTTGGGTTCCATCGTAAGGTACAATTGCACTTGTATCAGCTTCAGCTTCACCTTCCTCTT
GATGACCTTCTTGTTG
Found at i:32127203 original size:15 final size:16
Alignment explanation
Indices: 32127183--32127214 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
32127173 TTTATATTTA
32127183 ATTTAA-AAAATAATT
1 ATTTAATAAAATAATT
32127198 ATTTAATAAAATAATT
1 ATTTAATAAAATAATT
32127214 A
1 A
32127215 GAGTTGAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATTTAATAAAATAATT
Found at i:32133427 original size:25 final size:23
Alignment explanation
Indices: 32133386--32133431 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
32133376 CCAATTAGGG
32133386 AATTATTATTTAGATTTAATTCA
1 AATTATTATTTAGATTTAATTCA
*
32133409 AATTATCTTTTTAGAATTTAATT
1 AATTAT-TATTTAG-ATTTAATT
32133432 TGGATACAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.54
Consensus pattern (23 bp):
AATTATTATTTAGATTTAATTCA
Found at i:32139357 original size:18 final size:17
Alignment explanation
Indices: 32139332--32139365 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
32139322 TATTCCTTTT
32139332 CTAACTTTTATTGATTA
1 CTAACTTTTATTGATTA
*
32139349 CTAATCTTTTGTTGATT
1 CTAA-CTTTTATTGATT
32139366 TCCTTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.24, C:0.12, G:0.09, T:0.56
Consensus pattern (17 bp):
CTAACTTTTATTGATTA
Found at i:32140678 original size:18 final size:18
Alignment explanation
Indices: 32140655--32140700 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
32140645 GCATAGCTTG
32140655 ACCAGATGC-GATCATAAA
1 ACCAGATGCAG-TCATAAA
*
32140673 ACCAGATGCAGTCATATA
1 ACCAGATGCAGTCATAAA
*
32140691 ATCAGATGCA
1 ACCAGATGCA
32140701 ACCACATGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 24 0.96
19 1 0.04
ACGTcount: A:0.41, C:0.22, G:0.17, T:0.20
Consensus pattern (18 bp):
ACCAGATGCAGTCATAAA
Found at i:32158354 original size:27 final size:27
Alignment explanation
Indices: 32158306--32158367 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
32158296 GTATTGAAGT
*
32158306 AGAAGAAGAGAAAAGAAAAGAAAGAAGA
1 AGAAGAAGAGAAAAGAAAAG-AAGAAAA
*
32158334 AG-AGAAGAG-AAGGAAACAGAAGAAAA
1 AGAAGAAGAGAAAAGAAA-AGAAGAAAA
32158360 AGAAGAAG
1 AGAAGAAG
32158368 TTATTCCGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
26 14 0.47
27 14 0.47
28 2 0.07
ACGTcount: A:0.68, C:0.02, G:0.31, T:0.00
Consensus pattern (27 bp):
AGAAGAAGAGAAAAGAAAAGAAGAAAA
Found at i:32174199 original size:3 final size:3
Alignment explanation
Indices: 32174191--32174222 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
32174181 TGGTTATCGA
32174191 ATT ATT ATT ATT ATT ATT ATT ATT ATTT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT A
32174223 AATTTTTCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:32176202 original size:46 final size:46
Alignment explanation
Indices: 32176150--32176238 Score: 160
Period size: 46 Copynumber: 1.9 Consensus size: 46
32176140 ACTTAAACAA
*
32176150 AACATACAAACTTTTAACAAATACATATTATTTAGTAATGCTAGTC
1 AACATACAAACTTTCAACAAATACATATTATTTAGTAATGCTAGTC
*
32176196 AACATACAAACTTTCAACAAATACATCTTATTTAGTAATGCTA
1 AACATACAAACTTTCAACAAATACATATTATTTAGTAATGCTA
32176239 CCCAACTAAC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.34
Consensus pattern (46 bp):
AACATACAAACTTTCAACAAATACATATTATTTAGTAATGCTAGTC
Found at i:32181131 original size:21 final size:21
Alignment explanation
Indices: 32181090--32181165 Score: 75
Period size: 21 Copynumber: 3.6 Consensus size: 21
32181080 GGAGTTTTTG
*
32181090 GTATCGGTAGAAGCATGACTT
1 GTATCGGTAGAAGCATCACTT
*
32181111 GTTTCGGTAGAAGTC-TCACTT
1 GTATCGGTAGAAG-CATCACTT
* **
32181132 GTATCGATAGAA-CAGTCACAG
1 GTATCGGTAGAAGCA-TCACTT
32181153 GTATCGGTAGAAG
1 GTATCGGTAGAAG
32181166 TCTACACTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
19 1 0.02
21 42 0.95
22 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.28
Consensus pattern (21 bp):
GTATCGGTAGAAGCATCACTT
Found at i:32182293 original size:26 final size:26
Alignment explanation
Indices: 32182257--32182310 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
32182247 TTGAAGCCCT
32182257 AAAGAAAAATTCCAAATAACATTGAC
1 AAAGAAAAATTCCAAATAACATTGAC
32182283 AAAGAAAAATTCCAAATAACATTGAC
1 AAAGAAAAATTCCAAATAACATTGAC
32182309 AA
1 AA
32182311 TCTACCTGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.59, C:0.15, G:0.07, T:0.19
Consensus pattern (26 bp):
AAAGAAAAATTCCAAATAACATTGAC
Found at i:32182870 original size:29 final size:30
Alignment explanation
Indices: 32182815--32182872 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
32182805 AAATAAGGTA
* *
32182815 TAAAATTGAAAATTAAATTTATTGAATTTT
1 TAAAATTGAAAATTAAATTGATAGAATTTT
*
32182845 TAAAATT-AGAATTAAATTGATAGAATTT
1 TAAAATTGAAAATTAAATTGATAGAATTT
32182873 ATACTATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 18 0.72
30 7 0.28
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (30 bp):
TAAAATTGAAAATTAAATTGATAGAATTTT
Found at i:32188491 original size:28 final size:28
Alignment explanation
Indices: 32188459--32188524 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
32188449 AATATTAATA
32188459 TAAAATATTAATTTATTAT-TTTATTTT
1 TAAAATATTAATTTATTATATTTATTTT
* *
32188486 TGAAAATATTTATTTATTTTCATTTATTTT
1 T-AAAATATTAATTTATTAT-ATTTATTTT
32188516 T-AAATATTA
1 TAAAATATTA
32188525 TATATATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
27 1 0.03
28 23 0.70
30 9 0.27
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (28 bp):
TAAAATATTAATTTATTATATTTATTTT
Found at i:32188533 original size:29 final size:29
Alignment explanation
Indices: 32188478--32188534 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 29
32188468 AATTTATTAT
*
32188478 TTTATTTTTGAAAATATTTATTTATTTTCA
1 TTTATTTTT-AAAATATTTATATATTTTCA
32188508 TTTATTTTT-AAATATTATATATATTTT
1 TTTATTTTTAAAATATT-TATATATTTT
32188535 TTCTTGTCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 7 0.28
29 9 0.36
30 9 0.36
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (29 bp):
TTTATTTTTAAAATATTTATATATTTTCA
Found at i:32188609 original size:25 final size:23
Alignment explanation
Indices: 32188555--32188609 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
32188545 CAATAATTTT
*
32188555 TATTT-TTATATATTTTTTTAAA
1 TATTTATTATATATTTTTTAAAA
*
32188577 TTTGTTATTATGATATTTTTTGAAAA
1 TAT-TTATTAT-ATATTTTTT-AAAA
32188603 TATTTAT
1 TATTTAT
32188610 GTAATTTGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 2 0.08
23 2 0.08
24 4 0.15
25 13 0.50
26 5 0.19
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (23 bp):
TATTTATTATATATTTTTTAAAA
Found at i:32204987 original size:12 final size:12
Alignment explanation
Indices: 32204972--32205021 Score: 66
Period size: 12 Copynumber: 4.2 Consensus size: 12
32204962 GGAGGTGATC
*
32204972 AAGAGAAGGAAG
1 AAGAGAAAGAAG
*
32204984 AAGAAAAAGAAG
1 AAGAGAAAGAAG
32204996 AAG-GAAAGGAAG
1 AAGAGAAA-GAAG
32205008 AAGAGAAAGAAG
1 AAGAGAAAGAAG
32205020 AA
1 AA
32205022 ACAAAACCTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
11 3 0.09
12 26 0.79
13 4 0.12
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (12 bp):
AAGAGAAAGAAG
Found at i:32210947 original size:59 final size:59
Alignment explanation
Indices: 32210881--32210993 Score: 147
Period size: 59 Copynumber: 1.9 Consensus size: 59
32210871 ATTTTTAAAA
* * *
32210881 TTTTTAGAGCTAGAACTAAAATGATAGATTTTT-TAAATATTGAGGGCCAAATTTATTAT
1 TTTTTAGAACTAAAACTAAAATAAT-GATTTTTGTAAATATTGAGGGCCAAATTTATTAT
* * * *
32210940 TTTTTAGAATTAAAACTAAAATAATTATTTTTGTAAATTTTGAGGGCTAAATTT
1 TTTTTAGAACTAAAACTAAAATAATGATTTTTGTAAATATTGAGGGCCAAATTT
32210994 GTTGAATTGT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
58 6 0.13
59 40 0.87
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.43
Consensus pattern (59 bp):
TTTTTAGAACTAAAACTAAAATAATGATTTTTGTAAATATTGAGGGCCAAATTTATTAT
Found at i:32217316 original size:30 final size:30
Alignment explanation
Indices: 32217282--32217385 Score: 138
Period size: 30 Copynumber: 3.5 Consensus size: 30
32217272 AAAACTGGGA
* *
32217282 TAAATTCAAATTTTTGAAAAATTTGAGGGT
1 TAAATTCAAATTTTTGAAAAGTTCGAGGGT
** *
32217312 TAAATTGGAATTTTTGAAAAGTTCAAGGGT
1 TAAATTCAAATTTTTGAAAAGTTCGAGGGT
*
32217342 TAAATTTAAATTTTTGAAAAGTTCG-GGGT
1 TAAATTCAAATTTTTGAAAAGTTCGAGGGT
*
32217371 CAAATTCAAATTTTT
1 TAAATTCAAATTTTT
32217386 AGATAGTTTG
Statistics
Matches: 64, Mismatches: 10, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
29 17 0.27
30 47 0.73
ACGTcount: A:0.38, C:0.05, G:0.17, T:0.40
Consensus pattern (30 bp):
TAAATTCAAATTTTTGAAAAGTTCGAGGGT
Found at i:32217393 original size:29 final size:30
Alignment explanation
Indices: 32217283--32217404 Score: 108
Period size: 30 Copynumber: 4.1 Consensus size: 30
32217273 AAACTGGGAT
* *
32217283 AAATTCAAATTTTTGAAAAATTT-GAGGGTT
1 AAATTCAAATTTTTGAAAAGTTTCG-GGGTC
** * *
32217313 AAATTGGAATTTTTGAAAAG-TTCAAGGGTT
1 AAATTCAAATTTTTGAAAAGTTTC-GGGGTC
*
32217343 AAATTTAAATTTTTGAAAAG-TTCGGGGTC
1 AAATTCAAATTTTTGAAAAGTTTCGGGGTC
* *
32217372 AAATTCAAATTTTT-AGATAGTTTGGGGGTC
1 AAATTCAAATTTTTGA-AAAGTTTCGGGGTC
32217402 AAA
1 AAA
32217405 AACAAAATTT
Statistics
Matches: 77, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
28 1 0.01
29 22 0.29
30 54 0.70
ACGTcount: A:0.37, C:0.05, G:0.20, T:0.38
Consensus pattern (30 bp):
AAATTCAAATTTTTGAAAAGTTTCGGGGTC
Found at i:32218564 original size:17 final size:18
Alignment explanation
Indices: 32218533--32218579 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
32218523 ATTTGGTTTG
* *
32218533 TATTTGTTTAATTTT-AT
1 TATTTATTTATTTTTCAT
32218550 TATTTATTTATTTTTCAT
1 TATTTATTTATTTTTCAT
*
32218568 T-TGTATTTATTT
1 TATTTATTTATTT
32218580 AAATTTATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 23 0.88
18 3 0.12
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (18 bp):
TATTTATTTATTTTTCAT
Found at i:32218603 original size:4 final size:4
Alignment explanation
Indices: 32218586--32218628 Score: 63
Period size: 4 Copynumber: 11.2 Consensus size: 4
32218576 ATTTAAATTT
*
32218586 ATAA ATAG ATAA ATAA AT-A A-AA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
32218629 ATTAAAACAG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 4 0.11
4 31 0.89
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.23
Consensus pattern (4 bp):
ATAA
Found at i:32218612 original size:22 final size:22
Alignment explanation
Indices: 32218586--32218634 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
32218576 ATTTAAATTT
*
32218586 ATAAATAGATAAATAAATAAAA
1 ATAAATAAATAAATAAATAAAA
32218608 ATAAATAAATAAATAAATAAAA
1 ATAAATAAATAAATAAATAAAA
*
32218630 TTAAA
1 ATAAA
32218635 ACAGAATTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (22 bp):
ATAAATAAATAAATAAATAAAA
Found at i:32218634 original size:18 final size:18
Alignment explanation
Indices: 32218588--32218624 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
32218578 TTAAATTTAT
*
32218588 AAATAGATAAATAAATAA
1 AAATAAATAAATAAATAA
32218606 AAATAAATAAATAAATAA
1 AAATAAATAAATAAATAA
32218624 A
1 A
32218625 TAAAATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.22
Consensus pattern (18 bp):
AAATAAATAAATAAATAA
Found at i:32218939 original size:20 final size:20
Alignment explanation
Indices: 32218890--32219003 Score: 106
Period size: 20 Copynumber: 5.7 Consensus size: 20
32218880 TTATACAGTT
* *
32218890 ATGATATGATAT-ATTATGTT
1 ATGATATGATATGATT-CGTC
* *
32218910 ACGATATGATATGATTCGTT
1 ATGATATGATATGATTCGTC
* *
32218930 GTGATTTGATATGATTCGTC
1 ATGATATGATATGATTCGTC
32218950 ATGATATGATATGATTCG-C
1 ATGATATGATATGATTCGTC
* * *
32218969 TATGATAAGGTATGATTCGTT
1 -ATGATATGATATGATTCGTC
*
32218990 ATGAGATGATATGA
1 ATGATATGATATGA
32219004 CACGTTCTGA
Statistics
Matches: 77, Mismatches: 14, Indels: 6
0.79 0.14 0.06
Matches are distributed among these distances:
19 1 0.01
20 73 0.95
21 3 0.04
ACGTcount: A:0.31, C:0.06, G:0.22, T:0.41
Consensus pattern (20 bp):
ATGATATGATATGATTCGTC
Found at i:32218956 original size:40 final size:40
Alignment explanation
Indices: 32218912--32219003 Score: 121
Period size: 40 Copynumber: 2.3 Consensus size: 40
32218902 ATTATGTTAC
* * **
32218912 GATATGATATGATTCGTTGTGATTTGATATGATTCGTCAT
1 GATATGATATGATTCGCTATGATAAGATATGATTCGTCAT
* *
32218952 GATATGATATGATTCGCTATGATAAGGTATGATTCGTTAT
1 GATATGATATGATTCGCTATGATAAGATATGATTCGTCAT
*
32218992 GAGATGATATGA
1 GATATGATATGA
32219004 CACGTTCTGA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.29, C:0.07, G:0.24, T:0.40
Consensus pattern (40 bp):
GATATGATATGATTCGCTATGATAAGATATGATTCGTCAT
Found at i:32218972 original size:10 final size:10
Alignment explanation
Indices: 32218917--32218993 Score: 50
Period size: 10 Copynumber: 7.7 Consensus size: 10
32218907 GTTACGATAT
32218917 GATATGATTC
1 GATATGATTC
* * *
32218927 GTTGTGATTT
1 GATATGATTC
32218937 GATATGATTC
1 GATATGATTC
32218947 G-TCATGATAT-
1 GAT-ATGAT-TC
32218957 GATATGATTC
1 GATATGATTC
* **
32218967 GCTATGATAA
1 GATATGATTC
*
32218977 GGTATGATTC
1 GATATGATTC
*
32218987 GTTATGA
1 GATATGA
32218994 GATGATATGA
Statistics
Matches: 50, Mismatches: 13, Indels: 8
0.70 0.18 0.11
Matches are distributed among these distances:
9 2 0.04
10 46 0.92
11 2 0.04
ACGTcount: A:0.27, C:0.08, G:0.23, T:0.42
Consensus pattern (10 bp):
GATATGATTC
Found at i:32220617 original size:10 final size:10
Alignment explanation
Indices: 32220604--32220650 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
32220594 AAAAATTGTA
32220604 AAATATATAG
1 AAATATATAG
* *
32220614 AAATATAGAA
1 AAATATATAG
*
32220624 AAAAATTATA-
1 AAATA-TATAG
32220634 AAATATATAG
1 AAATATATAG
32220644 AAATATA
1 AAATATA
32220651 AAAAATATTA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
9 4 0.13
10 23 0.77
11 3 0.10
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (10 bp):
AAATATATAG
Found at i:32220627 original size:30 final size:29
Alignment explanation
Indices: 32220593--32220725 Score: 121
Period size: 30 Copynumber: 4.5 Consensus size: 29
32220583 AAAAAAACTT
*
32220593 AAAAAATTGTAAAATATATAGAAATATAGA
1 AAAAAATTATAAAATATATAGAAATATA-A
32220623 AAAAAATTATAAAATATATAGAAATATAA
1 AAAAAATTATAAAATATATAGAAATATAA
* * *
32220652 AAAATATTATAAAGTCATA-AGAAA-ATTAT
1 AAAAAATTATAAAAT-ATATAGAAATA-TAA
* *
32220681 AAAAAA-TAGAAAGAAATATA-AAATTCATAA
1 AAAAAATTATAAA-ATATATAGAAA-T-ATAA
32220711 AAAAAATTTATAAAA
1 AAAAAA-TTATAAAA
32220726 ATTATCGTAC
Statistics
Matches: 84, Mismatches: 10, Indels: 17
0.76 0.09 0.15
Matches are distributed among these distances:
28 12 0.14
29 27 0.32
30 38 0.45
31 2 0.02
32 5 0.06
ACGTcount: A:0.66, C:0.02, G:0.06, T:0.26
Consensus pattern (29 bp):
AAAAAATTATAAAATATATAGAAATATAA
Found at i:32220727 original size:40 final size:40
Alignment explanation
Indices: 32220633--32220727 Score: 97
Period size: 40 Copynumber: 2.4 Consensus size: 40
32220623 AAAAAATTAT
* * * *
32220633 AAAATATATAGAAATATAAAAAATATTATAAAGTCATAAG
1 AAAATTTATAAAAATAGAAAAAATATTATAAAGTCATAAA
*
32220673 AAAA-TTATAAAAAATAGAAAGAAATA-TA-AAATTCATAAAA
1 AAAATTTAT-AAAAATAGAAA-AAATATTATAAAGTCAT-AAA
32220713 AAAATTTATAAAAAT
1 AAAATTTATAAAAAT
32220728 TATCGTACCA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
39 10 0.22
40 27 0.59
41 9 0.20
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.26
Consensus pattern (40 bp):
AAAATTTATAAAAATAGAAAAAATATTATAAAGTCATAAA
Found at i:32220924 original size:10 final size:10
Alignment explanation
Indices: 32220911--32220961 Score: 54
Period size: 9 Copynumber: 5.4 Consensus size: 10
32220901 TTTTGATGCA
32220911 TTTTATATAT
1 TTTTATATAT
*
32220921 TTTT-TAGAT
1 TTTTATATAT
* *
32220930 TTTTATAAAA
1 TTTTATATAT
32220940 TTTTATAT-T
1 TTTTATATAT
32220949 TTTTATA-AT
1 TTTTATATAT
32220958 TTTT
1 TTTT
32220962 TTCTTCTAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
9 20 0.59
10 14 0.41
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (10 bp):
TTTTATATAT
Found at i:32220952 original size:9 final size:9
Alignment explanation
Indices: 32220910--32220998 Score: 51
Period size: 9 Copynumber: 10.0 Consensus size: 9
32220900 TTTTTGATGC
*
32220910 ATTTTATAT
1 ATTTTTTAT
*
32220919 ATTTTTTAG
1 ATTTTTTAT
32220928 A-TTTTTAT
1 ATTTTTTAT
**
32220936 AAAATTTTAT
1 -ATTTTTTAT
32220946 ATTTTTTAT
1 ATTTTTTAT
*
32220955 AATTTTT-T
1 ATTTTTTAT
* *
32220963 -TCTTCTA-
1 ATTTTTTAT
*
32220970 ATTTTTAAT
1 ATTTTTTAT
32220979 AATTTTTTAAT
1 -ATTTTTT-AT
32220990 ATTTTTTAT
1 ATTTTTTAT
32220999 TAAAATTTAA
Statistics
Matches: 59, Mismatches: 14, Indels: 14
0.68 0.16 0.16
Matches are distributed among these distances:
7 3 0.05
8 11 0.19
9 24 0.41
10 19 0.32
11 2 0.03
ACGTcount: A:0.29, C:0.02, G:0.01, T:0.67
Consensus pattern (9 bp):
ATTTTTTAT
Found at i:32220962 original size:10 final size:10
Alignment explanation
Indices: 32220911--32221025 Score: 51
Period size: 10 Copynumber: 11.2 Consensus size: 10
32220901 TTTTGATGCA
32220911 TTTTATATATT
1 TTTTATA-ATT
*
32220922 TTTTA-GA-T
1 TTTTATAATT
**
32220930 TTTTATAAAA
1 TTTTATAATT
32220940 TTTTAT-ATT
1 TTTTATAATT
32220949 TTTTATAATTTTT
1 TTTTATAA---TT
*
32220962 TTCTTCTAATT
1 TT-TTATAATT
*
32220973 TTTAATAATT
1 TTTTATAATT
32220983 TTTTA-ATATT
1 TTTTATA-ATT
**
32220993 TTTTATTAAAA
1 TTTTA-TAATT
*
32221004 TTTAATAA-T
1 TTTTATAATT
32221013 TTTTATAACTT
1 TTTTATAA-TT
32221024 TT
1 TT
32221026 ATTGATTTTT
Statistics
Matches: 78, Mismatches: 14, Indels: 24
0.67 0.12 0.21
Matches are distributed among these distances:
8 6 0.08
9 17 0.22
10 28 0.36
11 17 0.22
12 1 0.01
13 4 0.05
14 5 0.06
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (10 bp):
TTTTATAATT
Found at i:32221011 original size:31 final size:31
Alignment explanation
Indices: 32220929--32221025 Score: 99
Period size: 31 Copynumber: 3.1 Consensus size: 31
32220919 ATTTTTTAGA
* *
32220929 TTTTTA-TAAAATTTTATATTTTTTATAATT
1 TTTTTATTAAAATTTAATAATTTTTATAATT
* **
32220959 TTTTTCTTCTAATTTTTAATAATTTTT-TAATAT
1 TTTTT-AT-TAAAATTTAATAATTTTTATAAT-T
*
32220992 TTTTTATTAAAATTTAATAATTTTTATAACT
1 TTTTTATTAAAATTTAATAATTTTTATAATT
32221023 TTT
1 TTT
32221026 ATTGATTTTT
Statistics
Matches: 53, Mismatches: 9, Indels: 9
0.75 0.13 0.13
Matches are distributed among these distances:
30 5 0.09
31 20 0.38
32 8 0.15
33 20 0.38
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (31 bp):
TTTTTATTAAAATTTAATAATTTTTATAATT
Found at i:32222580 original size:49 final size:50
Alignment explanation
Indices: 32222496--32222596 Score: 118
Period size: 49 Copynumber: 2.0 Consensus size: 50
32222486 CAGATCTTGC
* *
32222496 TATTTAAATTATTCTGTTTCAGATCTAATT-TTTTTATAAAATAAATATT
1 TATTTAAATTATTCTGTTTCAGATCTAATTGTTTTAATAAAAAAAATATT
* *
32222545 TATTT-AATTGATTTTGTTT-AGATCTACTGTGTTTTAAATAAAAAAAATATT
1 TATTTAAATT-ATTCTGTTTCAGATCTAAT-TGTTTT-AATAAAAAAAATATT
32222596 T
1 T
32222597 GTTATATATA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
48 12 0.27
49 14 0.32
50 4 0.09
51 14 0.32
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (50 bp):
TATTTAAATTATTCTGTTTCAGATCTAATTGTTTTAATAAAAAAAATATT
Found at i:32222971 original size:81 final size:81
Alignment explanation
Indices: 32222776--32223084 Score: 361
Period size: 81 Copynumber: 3.8 Consensus size: 81
32222766 TAAAATTGGA
* * * * * **
32222776 AAATAAAT-TATTTCGGGATTTATTCCCGTCGTTTAATAGATTTTATTCTATATTTGGATTTTGG
1 AAATAAATCTATTTCGAGATTTATTCCCGCCGTTTAACAGATTTTATTCCA-GTTT-GATTTTAT
32222840 TTCCAAATAATAATTAAG-T
64 TTCCAAATAA-AA-TAAGTT
* *
32222859 AAATAAATCTATTTCGGGATTTATTCCCGCCGTTTAACATATTTTATTCCAGTTTGATTTTATTT
1 AAATAAATCTATTTCGAGATTTATTCCCGCCGTTTAACAGATTTTATTCCAGTTTGATTTTATTT
*
32222924 TCAAATAAAATAAGTT
66 CCAAATAAAATAAGTT
* * * * *
32222940 GAATAAATCTATTTCGAGATTTATTCCCGCCGTTTAATAAATTTTATTCCAGTTTAATTTTGTTT
1 AAATAAATCTATTTCGAGATTTATTCCCGCCGTTTAACAGATTTTATTCCAGTTTGATTTTATTT
32223005 CCAAATAAAATAAGTT
66 CCAAATAAAATAAGTT
* * * * * * *
32223021 AAATAAATATGTTTCGAGATTTATTCCCGCTGGTTAACAGATTATATTCTATTTATGATTTTAT
1 AAATAAATCTATTTCGAGATTTATTCCCGCCGTTTAACAGATTTTATTCCAGTT-TGATTTTAT
32223085 AATAATTAAT
Statistics
Matches: 196, Mismatches: 27, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
80 4 0.02
81 121 0.62
82 22 0.11
83 11 0.06
84 38 0.19
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.45
Consensus pattern (81 bp):
AAATAAATCTATTTCGAGATTTATTCCCGCCGTTTAACAGATTTTATTCCAGTTTGATTTTATTT
CCAAATAAAATAAGTT
Found at i:32223399 original size:27 final size:28
Alignment explanation
Indices: 32223360--32223419 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 28
32223350 TTGTATAAAT
* * *
32223360 TGAAAATTAAAATTTTTTGTT-AAATTG
1 TGAAAATTAAAATTGTATCTTCAAATTG
32223387 TGAAAACTT-AAATTGTATCTTCAAATTG
1 TGAAAA-TTAAAATTGTATCTTCAAATTG
32223415 TGAAA
1 TGAAA
32223420 TCAAAGAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 15 0.54
28 13 0.46
ACGTcount: A:0.42, C:0.05, G:0.12, T:0.42
Consensus pattern (28 bp):
TGAAAATTAAAATTGTATCTTCAAATTG
Found at i:32226776 original size:15 final size:16
Alignment explanation
Indices: 32226751--32226780 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
32226741 TTCTTTTCAT
32226751 ATTTGAAAAAAATTAA
1 ATTTGAAAAAAATTAA
32226767 ATTT-AAAAAAATTA
1 ATTTGAAAAAAATTA
32226781 TTGAAATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (16 bp):
ATTTGAAAAAAATTAA
Found at i:32227093 original size:9 final size:9
Alignment explanation
Indices: 32227075--32227122 Score: 64
Period size: 9 Copynumber: 5.4 Consensus size: 9
32227065 TATGTTTGTT
32227075 TTTTATATA
1 TTTTATATA
*
32227084 TTTTAAATA
1 TTTTATATA
32227093 TTTTATAT-
1 TTTTATATA
32227101 TTTTATATA
1 TTTTATATA
32227110 TTATTATA-A
1 TT-TTATATA
32227119 TTTT
1 TTTT
32227123 TTTAATTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
8 10 0.29
9 20 0.57
10 5 0.14
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TTTTATATA
Found at i:32227131 original size:26 final size:26
Alignment explanation
Indices: 32227076--32227132 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
32227066 ATGTTTGTTT
*
32227076 TTTATATATTTTAAATATTTTATATT
1 TTTATATATTTTAAATATTTTATATA
*
32227102 TTTATATATTATTATAAT-TTTTTTA-A
1 TTTATATATT-TTA-AATATTTTATATA
32227128 TTTAT
1 TTTAT
32227133 TTTTTTGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 15 0.56
27 9 0.33
28 3 0.11
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (26 bp):
TTTATATATTTTAAATATTTTATATA
Found at i:32229608 original size:109 final size:109
Alignment explanation
Indices: 32229307--32229594 Score: 355
Period size: 109 Copynumber: 2.6 Consensus size: 109
32229297 ACGGTCTATA
* * *
32229307 TCATCCGCTCACGATGCTGCTCACACAAGCTGTTAAGAATCC-ACAACATATGCAGGATCTCAAC
1 TCATCGGCTCACGATGCTGCTCACACAAGCTGTTAAGAATCCGA-AACATATGCAAGATCTCAGC
* * *
32229371 CATCGCGACAGTATATGTCTTCAAAACATAGTATCCATTCAGTAT
65 CATCGCGACAGTATGTATCATCAAAACATAGTATCCATTCAGTAT
* * ** * * *
32229416 TCACCAGG-TCACGATGTTGCTCACACAAGCTGTCCAGAAACAGCAACATATGCAAGATCTCAGC
1 TCATC-GGCTCACGATGCTGCTCACACAAGCTGTTAAGAATCCGAAACATATGCAAGATCTCAGC
* * *
32229480 CATCGCGACAGTGTGTATCATCATAACATAGTATCCATTTAGTAT
65 CATCGCGACAGTATGTATCATCAAAACATAGTATCCATTCAGTAT
* * * * *
32229525 TCATCGGCTCATGAGGCTGCTCACACAAACTGTTGAGAATCCGAAACATATACAAGATCTCAGCC
1 TCATCGGCTCACGATGCTGCTCACACAAGCTGTTAAGAATCCGAAACATATGCAAGATCTCAGCC
32229590 ATCGC
66 ATCGC
32229595 TACGCTCTGT
Statistics
Matches: 149, Mismatches: 27, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
108 2 0.01
109 146 0.98
110 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (109 bp):
TCATCGGCTCACGATGCTGCTCACACAAGCTGTTAAGAATCCGAAACATATGCAAGATCTCAGCC
ATCGCGACAGTATGTATCATCAAAACATAGTATCCATTCAGTAT
Done.