Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, whole genome shotgun sequence
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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 44 of 160
Found at i:9897007 original size:6 final size:6
Alignment explanation
Indices: 9896998--9897032 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
9896988 TTCCCTTTCG
9896998 CTTGGT CTTGGT CTTGGT CTTGGT CTTGGT CTTGG
1 CTTGGT CTTGGT CTTGGT CTTGGT CTTGGT CTTGG
9897033 GGTACGGCGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.17, G:0.34, T:0.49
Consensus pattern (6 bp):
CTTGGT
Found at i:9899314 original size:17 final size:16
Alignment explanation
Indices: 9899276--9899329 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 16
9899266 TAAAAATCCA
9899276 AAAAATTAAAAAATTTT
1 AAAAATT-AAAAATTTT
9899293 AAAAATTAAAAATTTCT
1 AAAAATTAAAAATTT-T
* * *
9899310 TAAAAGTAAAAATTTG
1 AAAAATTAAAAATTTT
9899326 AAAA
1 AAAA
9899330 TAAATTCTGC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
16 11 0.34
17 21 0.66
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (16 bp):
AAAAATTAAAAATTTT
Found at i:9899403 original size:19 final size:19
Alignment explanation
Indices: 9899379--9899440 Score: 53
Period size: 18 Copynumber: 3.4 Consensus size: 19
9899369 AAAAAGTCAA
9899379 AAAAAAATTCTTAAAAAAT
1 AAAAAAATTCTTAAAAAAT
9899398 -AAAAAATTC--AAAAAATT
1 AAAAAAATTCTTAAAAAA-T
*
9899415 ATAAACAAA-T-TTAAAAAGT
1 A-AAA-AAATTCTTAAAAAAT
9899434 AAAAAAA
1 AAAAAAA
9899441 ATAAAACAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 14
0.71 0.02 0.27
Matches are distributed among these distances:
16 6 0.17
17 4 0.11
18 12 0.33
19 6 0.17
20 8 0.22
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.23
Consensus pattern (19 bp):
AAAAAAATTCTTAAAAAAT
Found at i:9899424 original size:27 final size:27
Alignment explanation
Indices: 9899379--9899456 Score: 70
Period size: 27 Copynumber: 2.9 Consensus size: 27
9899369 AAAAAGTCAA
* *
9899379 AAAAAAATTCTTAAA-AAATAAAAAATT
1 AAAAAAATT-ATAAACAAATAAAAAAGT
* *
9899406 CAAAAAATTATAAACAAATTTAAAAAGT
1 AAAAAAATTATAAACAAA-TAAAAAAGT
*
9899434 AAAAAAAATA-AAACAAAATAAAA
1 AAAAAAATTATAAAC-AAATAAAA
9899457 CTTAAAAGAC
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
26 4 0.10
27 19 0.46
28 18 0.44
ACGTcount: A:0.73, C:0.05, G:0.01, T:0.21
Consensus pattern (27 bp):
AAAAAAATTATAAACAAATAAAAAAGT
Found at i:9899511 original size:18 final size:17
Alignment explanation
Indices: 9899488--9899565 Score: 70
Period size: 18 Copynumber: 4.5 Consensus size: 17
9899478 AAATTTTTTT
9899488 AAATTAAAAAAAACTGAA
1 AAATTAAAAAAAACT-AA
*
9899506 AAATTAAAACAATACTAA
1 AAATTAAAA-AAAACTAA
* *
9899524 AAATTCAAAAATA-TAA
1 AAATTAAAAAAAACTAA
*
9899540 AAA-CAATAAAAAAGCTAA
1 AAATTAA-AAAAAA-CTAA
9899558 AAATTAAA
1 AAATTAAA
9899566 TTTTCAAATA
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
15 1 0.02
16 11 0.22
17 4 0.08
18 26 0.53
19 7 0.14
ACGTcount: A:0.71, C:0.08, G:0.03, T:0.19
Consensus pattern (17 bp):
AAATTAAAAAAAACTAA
Found at i:9899701 original size:27 final size:26
Alignment explanation
Indices: 9899660--9899719 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 26
9899650 TTTTTAACAT
*
9899660 ATTTTTTCAATTTTTA-ATAATTTTAA
1 ATTTTTTCAACTTTTAGA-AATTTTAA
*
9899686 ATTTTTCTCAACTTTTAGAATTTTTAA
1 ATTTTT-TCAACTTTTAGAAATTTTAA
9899713 ATTTTTT
1 ATTTTTT
9899720 TCTTAGATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 7 0.23
27 22 0.73
28 1 0.03
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.62
Consensus pattern (26 bp):
ATTTTTTCAACTTTTAGAAATTTTAA
Found at i:9899827 original size:19 final size:19
Alignment explanation
Indices: 9899805--9899849 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
9899795 TAGTTAGGGT
9899805 AATTTTTAGAAATTTC-C-AA
1 AATTTTT-G-AATTTCTCTAA
9899824 AATTTTTGAATTTCTCTAA
1 AATTTTTGAATTTCTCTAA
9899843 AATTTTT
1 AATTTTT
9899850 TAAAATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.25
18 2 0.08
19 16 0.67
ACGTcount: A:0.36, C:0.09, G:0.04, T:0.51
Consensus pattern (19 bp):
AATTTTTGAATTTCTCTAA
Found at i:9899890 original size:17 final size:17
Alignment explanation
Indices: 9899870--9899944 Score: 66
Period size: 17 Copynumber: 4.4 Consensus size: 17
9899860 TTCATTTTTC
*
9899870 ATTTTTGGATTTTTTAA
1 ATTTTTAGATTTTTTAA
9899887 ATTTTTAGATGTTTTATGAA
1 ATTTTTAGAT-TTTT-T-AA
9899907 A-TTTT--ATTTTTTAA
1 ATTTTTAGATTTTTTAA
**
9899921 ATTCATAGATTTTTTAA
1 ATTTTTAGATTTTTTAA
9899938 AGTTTTT
1 A-TTTTT
9899945 GTGAATTTCT
Statistics
Matches: 46, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
14 3 0.07
15 3 0.07
16 4 0.09
17 21 0.46
18 7 0.15
19 5 0.11
20 3 0.07
ACGTcount: A:0.28, C:0.01, G:0.09, T:0.61
Consensus pattern (17 bp):
ATTTTTAGATTTTTTAA
Found at i:9902611 original size:15 final size:15
Alignment explanation
Indices: 9902587--9902616 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9902577 GAAATTGGAT
9902587 TTGAAACTGGATTTG
1 TTGAAACTGGATTTG
*
9902602 TTGAAGCTGGATTTG
1 TTGAAACTGGATTTG
9902617 AAACTGAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.07, G:0.30, T:0.40
Consensus pattern (15 bp):
TTGAAACTGGATTTG
Found at i:9902617 original size:12 final size:12
Alignment explanation
Indices: 9902513--9902629 Score: 56
Period size: 12 Copynumber: 9.5 Consensus size: 12
9902503 CATATACTAA
*
9902513 ATTTGAAATTGG
1 ATTTGAAACTGG
* *
9902525 AATAGAAACTGG
1 ATTTGAAACTGG
* * *
9902537 ATCTAAAACTAG
1 ATTTGAAACTGG
* *
9902549 ATTT-AAAGTTAG
1 ATTTGAAA-CTGG
* *
9902561 AGTTGAAATTGG
1 ATTTGAAACTGG
* * *
9902573 AATGGAAATTGG
1 ATTTGAAACTGG
9902585 ATTTGAAACTGG
1 ATTTGAAACTGG
*
9902597 ATTTGTTGAAGCTGG
1 A--T-TTGAAACTGG
*
9902612 ATTTGAAACTGA
1 ATTTGAAACTGG
9902624 ATTTGA
1 ATTTGA
9902630 GATTTGTGCA
Statistics
Matches: 80, Mismatches: 20, Indels: 10
0.73 0.18 0.09
Matches are distributed among these distances:
11 3 0.04
12 62 0.77
13 4 0.05
14 1 0.01
15 10 0.12
ACGTcount: A:0.38, C:0.05, G:0.24, T:0.33
Consensus pattern (12 bp):
ATTTGAAACTGG
Found at i:9908376 original size:30 final size:30
Alignment explanation
Indices: 9908341--9908418 Score: 81
Period size: 30 Copynumber: 2.6 Consensus size: 30
9908331 ATTGAATAGA
*
9908341 AATAAAAAATTTAAAGACTTGACTA-ATTG
1 AATAAAAAATTTAAAGACTTAACTATATTG
* *
9908370 TAATAAAATATTAAAAG-CTTAACTATTTATTG
1 -AATAAAAAATTTAAAGACTTAACTA--TATTG
9908402 AAT-AAAAATTTAAAGAC
1 AATAAAAAATTTAAAGAC
9908419 ATTTTTTACC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
29 7 0.18
30 24 0.62
31 4 0.10
32 4 0.10
ACGTcount: A:0.53, C:0.06, G:0.08, T:0.33
Consensus pattern (30 bp):
AATAAAAAATTTAAAGACTTAACTATATTG
Found at i:9911278 original size:92 final size:91
Alignment explanation
Indices: 9911121--9911306 Score: 354
Period size: 92 Copynumber: 2.0 Consensus size: 91
9911111 GAGAGTATTA
9911121 TGATAAAACAACTGAAGAAATGGTTGAGAAGATGGTAAGTTCATATATATCTTGTTGTCTACTTC
1 TGATAAAACAACTGAAGAAATGGTTGAGAAGATGGTAAGTTCATATATATCTTGTTGTCTACTTC
9911186 AATGTTGTCCATGTTGATATATCATAT
66 AATGTTGTCCATGTTGATATATCA-AT
*
9911213 TGATAAAACAACTGAAGAAATGGTTGAGAGGATGGTAAGTTCATATATATCTTGTTGTCTACTTC
1 TGATAAAACAACTGAAGAAATGGTTGAGAAGATGGTAAGTTCATATATATCTTGTTGTCTACTTC
9911278 AATGTTGTCCATGTTGATATATCAAT
66 AATGTTGTCCATGTTGATATATCAAT
9911304 TGA
1 TGA
9911307 CTTATGTAAG
Statistics
Matches: 93, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
91 5 0.05
92 88 0.95
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (91 bp):
TGATAAAACAACTGAAGAAATGGTTGAGAAGATGGTAAGTTCATATATATCTTGTTGTCTACTTC
AATGTTGTCCATGTTGATATATCAAT
Found at i:9912967 original size:18 final size:18
Alignment explanation
Indices: 9912944--9912981 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
9912934 AATCTTTCCC
* *
9912944 TTTTTATGTTGATGTAAA
1 TTTTTATATTAATGTAAA
9912962 TTTTTATATTAATGTAAA
1 TTTTTATATTAATGTAAA
9912980 TT
1 TT
9912982 CAACATATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.58
Consensus pattern (18 bp):
TTTTTATATTAATGTAAA
Found at i:9913464 original size:42 final size:41
Alignment explanation
Indices: 9913376--9913464 Score: 97
Period size: 42 Copynumber: 2.1 Consensus size: 41
9913366 TTTTTTATTA
* *
9913376 TTAAAAATGCAATCTTTGTCAACAAAGACAACATTTTGATG
1 TTAAAAATACAATCTTTGTCAACAAAGACAACATTTTAATG
* * * * **
9913417 GTAAAAATACAATTTTTGTTTAACAAAGACGATGTTTTAATG
1 TTAAAAATACAATCTTTG-TCAACAAAGACAACATTTTAATG
9913459 TTAAAA
1 TTAAAA
9913465 CATAGTTTTT
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
41 15 0.39
42 23 0.61
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (41 bp):
TTAAAAATACAATCTTTGTCAACAAAGACAACATTTTAATG
Found at i:9913693 original size:124 final size:124
Alignment explanation
Indices: 9913470--9913695 Score: 303
Period size: 126 Copynumber: 1.8 Consensus size: 124
9913460 TAAAACATAG
* * * **
9913470 TTTTTGTCAATTAATTATATTTAAACATGAATTATCAAATTTAATGTTAACTTGATGATGATTTT
1 TTTTTGTCAATTAATCATATTTAAACATGAATTATCAAATTTAATGTTAACTTAATAATGATAAT
* * *
9913535 TTTTTTTGTTAACAAACACAGTCTTTGTTTAACAAATGTTTTGATATACAAAAATGCAA
66 TTTTTTTATTAACAAACACAGTCTTTGATAAACAAATGTTTTGATATACAAAAATGCAA
* ** *
9913594 TTTTTGTCAATTTATCATATTTAAATTTGAATTTTATCAAATTTTATGTTAACTTAATAATGATA
1 TTTTTGTCAATTAATCATATTTAAACATGAA--TTATCAAATTTAATGTTAACTTAATAATGATA
*
9913659 ATTTTTTTTATTAA-AAACGCAGTCTTT-ATAAACAAAT
64 ATTTTTTTTATTAACAAACACAGTCTTTGATAAACAAAT
9913696 ATTACCTTTT
Statistics
Matches: 87, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
124 35 0.40
125 12 0.14
126 40 0.46
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.47
Consensus pattern (124 bp):
TTTTTGTCAATTAATCATATTTAAACATGAATTATCAAATTTAATGTTAACTTAATAATGATAAT
TTTTTTTATTAACAAACACAGTCTTTGATAAACAAATGTTTTGATATACAAAAATGCAA
Found at i:9913829 original size:23 final size:22
Alignment explanation
Indices: 9913776--9913830 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
9913766 TTTTTATCTC
9913776 AATTAAAAAATGTAATTATATA
1 AATTAAAAAATGTAATTATATA
* *
9913798 AATTTAAAAA-GTAATTTTATA
1 AATTAAAAAATGTAATTATATA
9913819 AATGATAAAAAA
1 AAT--TAAAAAA
9913831 AATTAATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 13 0.46
22 9 0.32
23 6 0.21
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (22 bp):
AATTAAAAAATGTAATTATATA
Found at i:9915233 original size:19 final size:17
Alignment explanation
Indices: 9915188--9915235 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 17
9915178 TAAAATTGAG
*
9915188 TAAATAACAAATTAAAA
1 TAAATAAAAAATTAAAA
9915205 TAAATTTAAAAAATTAAAAA
1 TAAA--TAAAAAATT-AAAA
9915225 TTAAATAAAAA
1 -TAAATAAAAA
9915236 CAAAAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 4 0.15
19 14 0.54
20 4 0.15
21 4 0.15
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (17 bp):
TAAATAAAAAATTAAAA
Found at i:9916076 original size:2 final size:2
Alignment explanation
Indices: 9916071--9916107 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
9916061 TGGTGTGTAG
9916071 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
9916108 GCACGCGTGT
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:9921817 original size:20 final size:20
Alignment explanation
Indices: 9921792--9921830 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
9921782 GGTGTGATTT
9921792 TGCCCAGACCTAATCGATCC
1 TGCCCAGACCTAATCGATCC
*
9921812 TGCCCAGACCTGATCGATC
1 TGCCCAGACCTAATCGATC
9921831 TCTTCCTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.38, G:0.18, T:0.21
Consensus pattern (20 bp):
TGCCCAGACCTAATCGATCC
Found at i:9923367 original size:13 final size:13
Alignment explanation
Indices: 9923341--9923374 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
9923331 TTTGAGGGAA
*
9923341 TTAAAATAATATT
1 TTAAAATAACATT
*
9923354 TTATAATAACATT
1 TTAAAATAACATT
9923367 TTAAAATA
1 TTAAAATA
9923375 TATTAAATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAAAATAACATT
Found at i:9923996 original size:23 final size:24
Alignment explanation
Indices: 9923941--9923996 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 24
9923931 TAAATACAAG
* *
9923941 TTAAATAATTGTAATTTTTTGAAA
1 TTAAATAATTGTAATATCTTGAAA
9923965 TTAAA-AATTGTAATATCTT--AA
1 TTAAATAATTGTAATATCTTGAAA
9923986 TATAAATAATT
1 T-TAAATAATT
9923997 TTTGTGACTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
21 3 0.11
22 4 0.14
23 16 0.57
24 5 0.18
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.46
Consensus pattern (24 bp):
TTAAATAATTGTAATATCTTGAAA
Found at i:9933490 original size:31 final size:31
Alignment explanation
Indices: 9933455--9933519 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
9933445 CTCTTTGATG
9933455 AAATTTAAAAAATATTTTACTTACAATAGTT
1 AAATTTAAAAAATATTTTACTTACAATAGTT
*
9933486 AAATTTAAAAAATATTTTACTTGCAATAGTT
1 AAATTTAAAAAATATTTTACTTACAATAGTT
9933517 AAA
1 AAA
9933520 GAAAATTGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.49, C:0.06, G:0.05, T:0.40
Consensus pattern (31 bp):
AAATTTAAAAAATATTTTACTTACAATAGTT
Found at i:9933967 original size:14 final size:14
Alignment explanation
Indices: 9933948--9933998 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
9933938 TTTATCATGC
*
9933948 AAATCATGTAA-AA
1 AAATCATGCAACAA
9933961 TAAATCATGCAACAA
1 -AAATCATGCAACAA
*
9933976 AAATCAT--ACCAA
1 AAATCATGCAACAA
9933988 AAATCATGCAA
1 AAATCATGCAA
9933999 AATAATGCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
12 11 0.35
14 18 0.58
15 2 0.06
ACGTcount: A:0.57, C:0.18, G:0.06, T:0.20
Consensus pattern (14 bp):
AAATCATGCAACAA
Found at i:9934112 original size:21 final size:22
Alignment explanation
Indices: 9934081--9934125 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
9934071 TAATCATGCA
*
9934081 AAAATATCATGCAGATAAATAT
1 AAAATATCATGCAAATAAATAT
*
9934103 AAAA-ATCATGTAAATAAATAT
1 AAAATATCATGCAAATAAATAT
9934124 AA
1 AA
9934126 TAAACAAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.27
Consensus pattern (22 bp):
AAAATATCATGCAAATAAATAT
Found at i:9935467 original size:59 final size:57
Alignment explanation
Indices: 9935342--9935471 Score: 179
Period size: 59 Copynumber: 2.2 Consensus size: 57
9935332 TTTTCTGTTA
*
9935342 TAAATTTGTTGAAATTTGTTTGGGTTTTGGTTACCAATATATTGAGTTTTTGTTAGT
1 TAAATTTGTTGAAATTTGTTTGGGTTTTGGTTACCAATATATTGAGTTTTTATTAGT
* * * *
9935399 TATTTATTTGTTGAAATTTGTTTGGGTTTTGGTTACCAATTTGTTGAGTTTTATATTTGT
1 TA--AATTTGTTGAAATTTGTTTGGGTTTTGGTTACCAATATATTGAGTTTT-TATTAGT
9935459 TGAAATTTGTTGA
1 T-AAATTTGTTGA
9935472 TTATATATTT
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
57 2 0.03
59 54 0.86
60 6 0.10
61 1 0.02
ACGTcount: A:0.22, C:0.03, G:0.21, T:0.55
Consensus pattern (57 bp):
TAAATTTGTTGAAATTTGTTTGGGTTTTGGTTACCAATATATTGAGTTTTTATTAGT
Found at i:9936932 original size:11 final size:11
Alignment explanation
Indices: 9936916--9937015 Score: 64
Period size: 11 Copynumber: 8.9 Consensus size: 11
9936906 GGATAAATGC
9936916 TATGGATGTTT
1 TATGGATGTTT
9936927 TATGGATGGATATT
1 TATGGAT-G-T-TT
*
9936941 T-TACGATGTTT
1 TAT-GGATGTTT
9936952 TATGGATG--T
1 TATGGATGTTT
* *
9936961 TATGGGTATTT
1 TATGGATGTTT
*
9936972 GATGGATGTTT
1 TATGGATGTTT
*
9936983 GATGGATGTTT
1 TATGGATGTTT
9936994 TAT-GATGTATT
1 TATGGATGT-TT
*
9937005 TGATGAATGTT
1 T-ATGGATGTT
9937016 ATCTAGATTT
Statistics
Matches: 70, Mismatches: 9, Indels: 19
0.71 0.09 0.19
Matches are distributed among these distances:
9 7 0.10
10 5 0.07
11 39 0.56
12 6 0.09
13 7 0.10
14 6 0.09
ACGTcount: A:0.22, C:0.01, G:0.28, T:0.49
Consensus pattern (11 bp):
TATGGATGTTT
Found at i:9936981 original size:31 final size:33
Alignment explanation
Indices: 9936891--9937015 Score: 94
Period size: 34 Copynumber: 3.7 Consensus size: 33
9936881 TTTTTATTTA
***
9936891 TATGAGGTATTTGATGGATAAATGCTATGGATGTTT
1 TATGAGGTATTTGATGGATGTTTG--ATGGATG-TT
* * *
9936927 TATGGATGGATATTTTA-CGATGTTTTATGGATG-T
1 TAT-GA-GG-TATTTGATGGATGTTTGATGGATGTT
9936961 TATG-GGTATTTGATGGATGTTTGATGGATGTTT
1 TATGAGGTATTTGATGGATGTTTGATGGATG-TT
* *
9936994 TATGATGTATTTGATGAATGTT
1 TATGAGGTATTTGATGGATGTT
9937016 ATCTAGATTT
Statistics
Matches: 71, Mismatches: 11, Indels: 16
0.72 0.11 0.16
Matches are distributed among these distances:
30 6 0.08
31 16 0.23
33 6 0.08
34 19 0.27
36 10 0.14
37 2 0.03
38 6 0.08
39 6 0.08
ACGTcount: A:0.24, C:0.02, G:0.28, T:0.46
Consensus pattern (33 bp):
TATGAGGTATTTGATGGATGTTTGATGGATGTT
Found at i:9937228 original size:53 final size:53
Alignment explanation
Indices: 9937171--9937272 Score: 177
Period size: 53 Copynumber: 1.9 Consensus size: 53
9937161 TTTATCGATG
* *
9937171 GAATTTGCTAATAGAATTTCACTATTATTGATCGAATTTTTATCATTACTGGC
1 GAATTTACTAATAGAATTTCACTATTATTGATAGAATTTTTATCATTACTGGC
*
9937224 GAATTTACTAATGGAATTTCACTATTATTGATAGAATTTTTATCATTAC
1 GAATTTACTAATAGAATTTCACTATTATTGATAGAATTTTTATCATTAC
9937273 CAGAGAATCT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 46 1.00
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (53 bp):
GAATTTACTAATAGAATTTCACTATTATTGATAGAATTTTTATCATTACTGGC
Found at i:9937291 original size:53 final size:53
Alignment explanation
Indices: 9937178--9937292 Score: 158
Period size: 53 Copynumber: 2.2 Consensus size: 53
9937168 ATGGAATTTG
* * ** * *
9937178 CTAATAGAATTTCACTATTATTGATCGAATTTTTATCATTACTGGCGAATTTA
1 CTAATGGAATTTCACTATTATTGATAGAATTTTTATCATTACCAGAGAATCTA
9937231 CTAATGGAATTTCACTATTATTGATAGAATTTTTATCATTACCAGAGAATCTA
1 CTAATGGAATTTCACTATTATTGATAGAATTTTTATCATTACCAGAGAATCTA
* *
9937284 TTGATGGAA
1 CTAATGGAA
9937293 AAAACCCATT
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.41
Consensus pattern (53 bp):
CTAATGGAATTTCACTATTATTGATAGAATTTTTATCATTACCAGAGAATCTA
Found at i:9937343 original size:26 final size:25
Alignment explanation
Indices: 9937314--9937364 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
9937304 ATAGATGGAT
*
9937314 TTACCGACAAAAAATTTCATAGGTAA
1 TTACAGAC-AAAAATTTCATAGGTAA
*
9937340 TTACAGACCAAAATTTCATAGGTAA
1 TTACAGACAAAAATTTCATAGGTAA
9937365 AATCGTTGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.45, C:0.16, G:0.12, T:0.27
Consensus pattern (25 bp):
TTACAGACAAAAATTTCATAGGTAA
Found at i:9937870 original size:22 final size:21
Alignment explanation
Indices: 9937845--9937902 Score: 75
Period size: 22 Copynumber: 2.8 Consensus size: 21
9937835 AGTTTCTAAC
*
9937845 TTGAAACTCAAAAGTTCACAA
1 TTGAAATTCAAAAGTTCACAA
9937866 TTTGAAATTCAAGAA-TTCACAA
1 -TTGAAATTCAA-AAGTTCACAA
9937888 TT-AAATTCAAAAGTT
1 TTGAAATTCAAAAGTT
9937903 TGTAAGATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 2 0.06
20 10 0.30
21 2 0.06
22 17 0.52
23 2 0.06
ACGTcount: A:0.47, C:0.14, G:0.09, T:0.31
Consensus pattern (21 bp):
TTGAAATTCAAAAGTTCACAA
Found at i:9938050 original size:18 final size:18
Alignment explanation
Indices: 9938017--9938136 Score: 97
Period size: 18 Copynumber: 6.8 Consensus size: 18
9938007 TTCATAAAAG
*
9938017 GATTC-AAGATTGGCAAA
1 GATTCAAAGATTTGCAAA
*
9938034 GATTCAAAGGTTTGCAAA
1 GATTCAAAGATTTGCAAA
*
9938052 AACTTCAAA-ATTCT-CAAA
1 GA-TTCAAAGATT-TGCAAA
* *
9938070 GAATCAAAGATTCGCAAAA
1 GATTCAAAGATTTGC-AAA
* ** *
9938089 GATTTAAA-ATTCACAAG
1 GATTCAAAGATTTGCAAA
9938106 GATTC-AAGATTTGCAAA
1 GATTCAAAGATTTGCAAA
9938123 GATTCAAAGATTTG
1 GATTCAAAGATTTG
9938137 TAAAACATAA
Statistics
Matches: 80, Mismatches: 15, Indels: 15
0.73 0.14 0.14
Matches are distributed among these distances:
16 2 0.03
17 27 0.34
18 35 0.44
19 16 0.20
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.27
Consensus pattern (18 bp):
GATTCAAAGATTTGCAAA
Found at i:9938070 original size:36 final size:35
Alignment explanation
Indices: 9937969--9938130 Score: 119
Period size: 36 Copynumber: 4.5 Consensus size: 35
9937959 GTATCAAGGG
* *
9937969 TTTGCAAAATATTCAAAATTCATAGAGAAATTCAAAGA
1 TTTGCAAAA-ATTCAAAATTCACA-A-AGATTCAAAGA
*** * ** *
9938007 TTCATAAAAGGATTCAAGATTGGCAAAGATTCAAAGG
1 TTTGCAAAA--ATTCAAAATTCACAAAGATTCAAAGA
* *
9938044 TTTGCAAAAACTTCAAAATTCTCAAAGAATCAAAGA
1 TTTGCAAAAA-TTCAAAATTCACAAAGATTCAAAGA
* * *
9938080 TTCGCAAAAGATTTAAAATTCACAAGGATTC-AAGA
1 TTTGCAAAA-ATTCAAAATTCACAAAGATTCAAAGA
*
9938115 TTTGCAAAGATTCAAA
1 TTTGCAAAAATTCAAA
9938131 GATTTGTAAA
Statistics
Matches: 95, Mismatches: 26, Indels: 10
0.73 0.20 0.08
Matches are distributed among these distances:
34 6 0.06
35 12 0.13
36 44 0.46
37 16 0.17
38 7 0.07
39 10 0.11
ACGTcount: A:0.47, C:0.13, G:0.14, T:0.27
Consensus pattern (35 bp):
TTTGCAAAAATTCAAAATTCACAAAGATTCAAAGA
Found at i:9938124 original size:53 final size:54
Alignment explanation
Indices: 9938066--9938170 Score: 131
Period size: 53 Copynumber: 2.0 Consensus size: 54
9938056 TCAAAATTCT
* ** *
9938066 CAAAGAATCAAAGATTCGCAAAAGATTTAAAATTCAC-AAGGATTCAAGATTTG
1 CAAAGAATCAAAGATTCGCAAAACATAAAAAATTCACTAAAGATTCAAGATTTG
* * * *
9938119 CAAAGATTCAAAGATTTGTAAAACATAAAAAATTTACTAAAGATTCAAGATT
1 CAAAGAATCAAAGATTCGCAAAACATAAAAAATTCACTAAAGATTCAAGATT
9938171 CACAGCAATT
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
53 30 0.70
54 13 0.30
ACGTcount: A:0.50, C:0.11, G:0.12, T:0.27
Consensus pattern (54 bp):
CAAAGAATCAAAGATTCGCAAAACATAAAAAATTCACTAAAGATTCAAGATTTG
Found at i:9938199 original size:89 final size:90
Alignment explanation
Indices: 9938003--9938200 Score: 217
Period size: 89 Copynumber: 2.2 Consensus size: 90
9937993 GAGAAATTCA
* * **
9938003 AAGATTCATAAAAGGATTCAAGATTGGCAAAGATTCAAAGGTTTGCAAAAACTTCAAAATTCTCA
1 AAGATTCACAAAA-GATTCAAGATTGGCAAAGATTCAAAGATTTGCAAAAACTAAAAAATTCTCA
*
9938068 AAGAATCAAAGATTCGCAAAAGATTT
65 AAGAATCAAAGATTCACAAAAGATTT
* * * *
9938094 AAAATTCAC-AAGGATTCAAGATTTGCAAAGATTCAAAGATTTG-TAAAACATAAAAAATT-TAC
1 AAGATTCACAAAAGATTCAAGATTGGCAAAGATTCAAAGATTTGCAAAAAC-TAAAAAATTCT-C
* **
9938156 TAAAGATTC-AAGATTCACAGCA-ATTT
64 -AAAGAATCAAAGATTCACAAAAGATTT
9938182 AAGATTCACAAAAGATTCA
1 AAGATTCACAAAAGATTCA
9938201 CAAATGATTT
Statistics
Matches: 89, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
88 18 0.20
89 55 0.62
90 9 0.10
91 7 0.08
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.26
Consensus pattern (90 bp):
AAGATTCACAAAAGATTCAAGATTGGCAAAGATTCAAAGATTTGCAAAAACTAAAAAATTCTCAA
AGAATCAAAGATTCACAAAAGATTT
Found at i:9938217 original size:21 final size:21
Alignment explanation
Indices: 9938193--9938249 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
9938183 AGATTCACAA
9938193 AAGATTCACAAATGATTTTTG
1 AAGATTCACAAATGATTTTTG
9938214 AAGATTCACAAATGATTTTTG
1 AAGATTCACAAATGATTTTTG
*
9938235 AAGATTCACAGATGA
1 AAGATTCACAAATGA
9938250 AGCTTCTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.33
Consensus pattern (21 bp):
AAGATTCACAAATGATTTTTG
Found at i:9938369 original size:37 final size:37
Alignment explanation
Indices: 9938325--9938399 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
9938315 TTCACGTTAA
* *
9938325 AAAATCTTATAAATTCACAACTAAGATTCAAAAGTTC
1 AAAATCTTAGAAATTCACAACCAAGATTCAAAAGTTC
* * * *
9938362 AAAATCTTAGAGATTCATATCCAAGATTCAAAGGTTC
1 AAAATCTTAGAAATTCACAACCAAGATTCAAAAGTTC
9938399 A
1 A
9938400 CATTTGACAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.45, C:0.16, G:0.09, T:0.29
Consensus pattern (37 bp):
AAAATCTTAGAAATTCACAACCAAGATTCAAAAGTTC
Found at i:9938484 original size:21 final size:21
Alignment explanation
Indices: 9938460--9938501 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
9938450 AAAAAAACTT
*
9938460 TTTAGAGATTCTCATATAAAA
1 TTTAAAGATTCTCATATAAAA
*
9938481 TTTAAAGATTCTCATTTAAAA
1 TTTAAAGATTCTCATATAAAA
9938502 AATTTTAAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (21 bp):
TTTAAAGATTCTCATATAAAA
Found at i:9938514 original size:24 final size:24
Alignment explanation
Indices: 9938427--9938539 Score: 92
Period size: 24 Copynumber: 4.8 Consensus size: 24
9938417 GATTCATATC
* *
9938427 AAAAAA-TTTAAAGATTCTTATTCA
1 AAAAAATTTTAAAGATTCTCATT-T
*
9938451 AAAAAACTTTTTAGAGATTCTCA--T
1 AAAAAA--TTTTAAAGATTCTCATTT
*
9938475 ATAAAA-TTTAAAGATTCTCATTT
1 AAAAAATTTTAAAGATTCTCATTT
* *
9938498 AAAAAATTTTAAGGATTCACATTT
1 AAAAAATTTTAAAGATTCTCATTT
*
9938522 AAAAACA-TTTAGAGATTC
1 AAAAA-ATTTTAAAGATTC
9938540 ATATCCAAAT
Statistics
Matches: 72, Mismatches: 10, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
21 13 0.18
23 6 0.08
24 40 0.56
25 1 0.01
27 12 0.17
ACGTcount: A:0.46, C:0.10, G:0.07, T:0.37
Consensus pattern (24 bp):
AAAAAATTTTAAAGATTCTCATTT
Found at i:9938532 original size:48 final size:48
Alignment explanation
Indices: 9938414--9938539 Score: 132
Period size: 48 Copynumber: 2.6 Consensus size: 48
9938404 TGACAATCTT
* * *
9938414 AGAGATTCATATCAAAAAATTTAAAGATTCTTATTCAAAAAAACTTTTT
1 AGAGATTCACAT-AAAAAATTTAAAGATTCTCATTCAAAAAAACTTTTA
* * *
9938463 AGAGATTCTCATATAAAATTTAAAGATTCTCATT-TAAAAAA-TTTTA
1 AGAGATTCACATAAAAAATTTAAAGATTCTCATTCAAAAAAACTTTTA
*
9938509 AG-GATTCACATTTAAAAACATTTAGAGATTC
1 AGAGATTCACA--TAAAAA-ATTTAAAGATTC
9938540 ATATCCAAAT
Statistics
Matches: 65, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
45 7 0.11
46 6 0.09
47 11 0.17
48 31 0.48
49 10 0.15
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.37
Consensus pattern (48 bp):
AGAGATTCACATAAAAAATTTAAAGATTCTCATTCAAAAAAACTTTTA
Found at i:9941822 original size:8 final size:8
Alignment explanation
Indices: 9941809--9941834 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
9941799 TATGAGAATG
9941809 AATGCAAT
1 AATGCAAT
9941817 AATGCAAT
1 AATGCAAT
9941825 AATGCAAT
1 AATGCAAT
9941833 AA
1 AA
9941835 GGAGGATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.54, C:0.12, G:0.12, T:0.23
Consensus pattern (8 bp):
AATGCAAT
Found at i:9943029 original size:44 final size:44
Alignment explanation
Indices: 9942981--9943085 Score: 117
Period size: 44 Copynumber: 2.4 Consensus size: 44
9942971 TCAGTTGGTA
9942981 CACATGAAAAATC--AAGATCTACAAAATAAACAAATAAATTAGTG
1 CACATGAAAAATCATAAG-T-TACAAAATAAACAAATAAATTAGTG
* * ***
9943025 CACAT-AAGAAATCATAAGTTGCAAAATAAAGAAATGGGTTAGTG
1 CACATGAA-AAATCATAAGTTACAAAATAAACAAATAAATTAGTG
9943069 CACATGAAAAATCATAA
1 CACATGAAAAATCATAA
9943086 ATAATTATAA
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
43 2 0.04
44 44 0.85
45 3 0.06
46 3 0.06
ACGTcount: A:0.53, C:0.12, G:0.13, T:0.21
Consensus pattern (44 bp):
CACATGAAAAATCATAAGTTACAAAATAAACAAATAAATTAGTG
Found at i:9945788 original size:11 final size:11
Alignment explanation
Indices: 9945772--9945817 Score: 56
Period size: 11 Copynumber: 3.9 Consensus size: 11
9945762 AGATTTGAAT
9945772 AGAAAAAAAAA
1 AGAAAAAAAAA
*
9945783 AGAAAAAACAA
1 AGAAAAAAAAA
9945794 AGAAGAAAAGGAAA
1 AGAA-AAAA--AAA
9945808 AGAAAAAAAA
1 AGAAAAAAAA
9945818 TGAAATTAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
11 16 0.53
12 4 0.13
13 4 0.13
14 6 0.20
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (11 bp):
AGAAAAAAAAA
Found at i:9945839 original size:3 final size:3
Alignment explanation
Indices: 9945831--9945885 Score: 85
Period size: 3 Copynumber: 18.7 Consensus size: 3
9945821 AATTAGAAAT
* *
9945831 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA ATA ACA ATG ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9945878 ATA ATA AT
1 ATA ATA AT
9945886 TTATAAAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
2 2 0.04
3 45 0.96
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:9945863 original size:26 final size:26
Alignment explanation
Indices: 9945834--9945885 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
9945824 TAGAAATATA
*
9945834 ATAATAATAATAATAATAATAATAAT
1 ATAATAATAACAATAATAATAATAAT
*
9945860 ATAATAATAACAATGATAATAATAAT
1 ATAATAATAACAATAATAATAATAAT
9945886 TTATAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (26 bp):
ATAATAATAACAATAATAATAATAAT
Found at i:9945878 original size:29 final size:29
Alignment explanation
Indices: 9945828--9945885 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
9945818 TGAAATTAGA
*
9945828 AATATAATAATAATAATAATAATAATAAT
1 AATATAATAATAACAATAATAATAATAAT
*
9945857 AATATAATAATAACAATGATAATAATAAT
1 AATATAATAATAACAATAATAATAATAAT
9945886 TTATAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (29 bp):
AATATAATAATAACAATAATAATAATAAT
Found at i:9950282 original size:17 final size:18
Alignment explanation
Indices: 9950252--9950288 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
9950242 TATTTAAATG
9950252 ATTATGATTTTTTGTATA
1 ATTATGATTTTTTGTATA
9950270 ATTATGA-TTTTTGTATA
1 ATTATGATTTTTTGTATA
9950287 AT
1 AT
9950289 AATAATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (18 bp):
ATTATGATTTTTTGTATA
Found at i:9950296 original size:17 final size:17
Alignment explanation
Indices: 9950260--9950308 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
9950250 TGATTATGAT
* *
9950260 TTTTTGTATAATTATGA
1 TTTTTGTATAATAATAA
9950277 TTTTTGTATAATAATAA
1 TTTTTGTATAATAATAA
*
9950294 TTTTATGAATAATAA
1 TTTT-TGTATAATAA
9950309 CCTATTTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 19 0.68
18 9 0.32
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (17 bp):
TTTTTGTATAATAATAA
Found at i:9952618 original size:4 final size:4
Alignment explanation
Indices: 9952611--9952670 Score: 50
Period size: 4 Copynumber: 14.8 Consensus size: 4
9952601 ACAAACAAAC
* ** * *
9952611 AAAT AAAT AAAT AAGTT AAAT ATGT ACAT AGAT AAAT AAAAT AAAT AAAT
1 AAAT AAAT AAAT AA-AT AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT
9952661 -AAT AAAT AAA
1 AAAT AAAT AAA
9952671 CAATATATAA
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
3 3 0.07
4 35 0.78
5 7 0.16
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.27
Consensus pattern (4 bp):
AAAT
Found at i:9954928 original size:44 final size:43
Alignment explanation
Indices: 9954862--9954986 Score: 155
Period size: 44 Copynumber: 2.9 Consensus size: 43
9954852 ATGCCAACTT
* *
9954862 AAATAATCAAAAAATTGGTACACATGAAAAATCA-AGATCTACA
1 AAATAATCAAAAAATTAGTACACATGAAAAATCATA-AGCTACA
* *
9954905 AAATAATCAAATAAATTAGTACACATAAAAAATCATAAGCTATA
1 AAATAATCAAA-AAATTAGTACACATGAAAAATCATAAGCTACA
*
9954949 AAATAAAT-AAAAAAGTTAGTGCACATGAAAAATCATAA
1 AAAT-AATCAAAAAA-TTAGTACACATGAAAAATCATAA
9954987 ATAATTACAA
Statistics
Matches: 72, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
43 14 0.19
44 54 0.75
45 4 0.06
ACGTcount: A:0.58, C:0.11, G:0.08, T:0.22
Consensus pattern (43 bp):
AAATAATCAAAAAATTAGTACACATGAAAAATCATAAGCTACA
Found at i:9964815 original size:7 final size:6
Alignment explanation
Indices: 9964803--9964877 Score: 57
Period size: 7 Copynumber: 11.8 Consensus size: 6
9964793 CTAAAGTAGA
*
9964803 AAAAAT CAAAAAT AAAAA- ATAAACT AGAAAAT AAGAAAT CAAAAAT CAAAAAT
1 AAAAAT -AAAAAT AAAAAT A-AAAAT A-AAAAT AA-AAAT -AAAAAT -AAAAAT
9964856 CAAAAAT -AAAAT -AAAAT AAAAA
1 -AAAAAT AAAAAT AAAAAT AAAAA
9964878 CCTGCAATCG
Statistics
Matches: 60, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
5 11 0.18
6 13 0.22
7 34 0.57
8 2 0.03
ACGTcount: A:0.76, C:0.07, G:0.03, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:9964821 original size:14 final size:14
Alignment explanation
Indices: 9964802--9964866 Score: 67
Period size: 14 Copynumber: 4.3 Consensus size: 14
9964792 ACTAAAGTAG
9964802 AAAAAATCAAAAAT
1 AAAAAATCAAAAAT
9964816 AAAAAATAAACTAGAAAAT
1 AAAAAAT---C-A-AAAAT
*
9964835 AAGAAATCAAAAAT
1 AAAAAATCAAAAAT
*
9964849 CAAAAATCAAAAAT
1 AAAAAATCAAAAAT
9964863 AAAA
1 AAAA
9964867 TAAAATAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
14 27 0.64
15 1 0.02
16 1 0.02
17 1 0.02
18 1 0.02
19 11 0.26
ACGTcount: A:0.75, C:0.08, G:0.03, T:0.14
Consensus pattern (14 bp):
AAAAAATCAAAAAT
Found at i:9964867 original size:33 final size:33
Alignment explanation
Indices: 9964805--9964869 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
9964795 AAAGTAGAAA
*
9964805 AAATCAAAAATAAAAAATAAACTAGAAAATAAG
1 AAATCAAAAATAAAAAATAAACAAGAAAATAAG
* *
9964838 AAATCAAAAATCAAAAATCAAA-AATAAAATAA
1 AAATCAAAAATAAAAAAT-AAACAAGAAAATAA
9964870 AATAAAAACC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 25 0.89
34 3 0.11
ACGTcount: A:0.74, C:0.08, G:0.03, T:0.15
Consensus pattern (33 bp):
AAATCAAAAATAAAAAATAAACAAGAAAATAAG
Found at i:9978234 original size:21 final size:21
Alignment explanation
Indices: 9978201--9978240 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
9978191 AAAAATTAAT
*
9978201 TGAAAAAAATTTTTCATATCC
1 TGAAAAAAATTTTTAATATCC
**
9978222 TGAAAAATCTTTTTAATAT
1 TGAAAAAAATTTTTAATAT
9978241 TATAAAAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.42
Consensus pattern (21 bp):
TGAAAAAAATTTTTAATATCC
Found at i:9979903 original size:182 final size:183
Alignment explanation
Indices: 9979588--9979952 Score: 509
Period size: 182 Copynumber: 2.0 Consensus size: 183
9979578 GTGTATCTAT
* * * * *
9979588 CCTTTCTCAAAGACTGTTCAAATCTCCCCTTCCCCGAATCAAAAAAAAGAAGTGCCACTGAAATT
1 CCTTGCTCAAAGACTGTTCAAATCTCACATTCCCCAAATCAAAAAAAAGAAGTGCCAATGAAATT
* ** * * *
9979653 TTCAGTGTACTTCAGGGAATTAAAGAGAATCGCAAAAACATTTAAAGAAATGTGACAGTCCCCAT
66 ATCAGAATACTTCAGGGAATTAAAGAGAATCACAAAAACATATAAAGAAATGTGACAGTCACCAT
* *
9979718 TAAACAGCAGTCAAAGATGAATCAACTCATA-CTTCGTCCAATGCCAGGACAGG
131 TAAACAGCAGTC-AAGATAAATCAACTCATATCTTCATCCAATGCCAGGACAGG
*
9979771 CCTTGCTCAAAGACTGTTCAAATCTCACATTCCCCAAATCAAAAAATA-AAGTGCCAATGAAATT
1 CCTTGCTCAAAGACTGTTCAAATCTCACATTCCCCAAATCAAAAAAAAGAAGTGCCAATGAAATT
* * *
9979835 ATCAGAATAGTTCAGGGAATTAAAGAGAATCACAAAAACATATAAAGAAATGTGAGAGTCAGCAT
66 ATCAGAATACTTCAGGGAATTAAAGAGAATCACAAAAACATATAAAGAAATGTGACAGTCACCAT
* * * * *
9979900 TAAACTGCTGTCAAGTTAAATTAACTCATATGTTCATCCAATGCCAGGACAGG
131 TAAACAGCAGTCAAGATAAATCAACTCATATCTTCATCCAATGCCAGGACAGG
9979953 AAAAGCTTAC
Statistics
Matches: 159, Mismatches: 22, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
181 15 0.09
182 101 0.64
183 43 0.27
ACGTcount: A:0.40, C:0.21, G:0.16, T:0.24
Consensus pattern (183 bp):
CCTTGCTCAAAGACTGTTCAAATCTCACATTCCCCAAATCAAAAAAAAGAAGTGCCAATGAAATT
ATCAGAATACTTCAGGGAATTAAAGAGAATCACAAAAACATATAAAGAAATGTGACAGTCACCAT
TAAACAGCAGTCAAGATAAATCAACTCATATCTTCATCCAATGCCAGGACAGG
Found at i:9984737 original size:144 final size:144
Alignment explanation
Indices: 9984545--9984982 Score: 734
Period size: 144 Copynumber: 3.0 Consensus size: 144
9984535 ATCCAAAACA
*
9984545 AAAAGGAAACTTAGTACATTGCACAATAGAACACCAAGACTAATATTCTAATTATGTAGTCTAAT
1 AAAAGGAAACTTAGTACATTGCACAATAGAACACCAAGACTAATATTCTAATTATATAGTCTAAT
* * *
9984610 GAATGATTATTCTAGCTATGTACTACAACAAGTCTAAGATGCATTATCTGTCTTTCATTCATTTC
66 GTATGATTATTCTAGCTATGTACTACAACAAGTCTAAGATGCATCATCTGTCTTTCATTCCTTTC
9984675 ATTCAAGAAAAAAG
131 ATTCAAGAAAAAAG
* *
9984689 AAAAGGAAACTTAGTATATTGCACAATAGAACACCAAGACTAATATTCTAATTATATAGTTTAAT
1 AAAAGGAAACTTAGTACATTGCACAATAGAACACCAAGACTAATATTCTAATTATATAGTCTAAT
* * *
9984754 GTATAATTATTCTAGCTATGTACTACAACAGGTCTAAGATGCATCATCTGTATTTCATTCCTTTC
66 GTATGATTATTCTAGCTATGTACTACAACAAGTCTAAGATGCATCATCTGTCTTTCATTCCTTTC
9984819 ATTCAAGAAAAAAG
131 ATTCAAGAAAAAAG
*
9984833 AAAAGGAAACTCAGTACATTGCACAATAGAACACCAAGACTAATATTCTAATTATATAGTCTAAT
1 AAAAGGAAACTTAGTACATTGCACAATAGAACACCAAGACTAATATTCTAATTATATAGTCTAAT
* * * *
9984898 GTATGATTATTCTAGCTATGCACTACCAC-AGATCTAAGATGCATCATCTGCCTTTCACTCCTTT
66 GTATGATTATTCTAGCTATGTACTACAACAAG-TCTAAGATGCATCATCTGTCTTTCATTCCTTT
9984962 CATTCAAGAAAAAAG
130 CATTCAAGAAAAAAG
9984977 AAAAGG
1 AAAAGG
9984983 GGGTGAAATT
Statistics
Matches: 274, Mismatches: 19, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
143 1 0.00
144 273 1.00
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.31
Consensus pattern (144 bp):
AAAAGGAAACTTAGTACATTGCACAATAGAACACCAAGACTAATATTCTAATTATATAGTCTAAT
GTATGATTATTCTAGCTATGTACTACAACAAGTCTAAGATGCATCATCTGTCTTTCATTCCTTTC
ATTCAAGAAAAAAG
Found at i:9987121 original size:11 final size:11
Alignment explanation
Indices: 9987105--9987135 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
9987095 TTTACATGTT
9987105 CAAAATATATG
1 CAAAATATATG
9987116 CAAAATATATG
1 CAAAATATATG
*
9987127 TAAAATATA
1 CAAAATATA
9987136 AATAATATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.29
Consensus pattern (11 bp):
CAAAATATATG
Found at i:9987142 original size:20 final size:21
Alignment explanation
Indices: 9987119--9987159 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
9987109 ATATATGCAA
9987119 AATAT-ATGTAAAATA-TAAAT
1 AATATAAT-TAAAATATTAAAT
9987139 AATATAATTAAAATATTAAAT
1 AATATAATTAAAATATTAAAT
9987160 CATAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (21 bp):
AATATAATTAAAATATTAAAT
Found at i:9987607 original size:17 final size:17
Alignment explanation
Indices: 9987585--9987618 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
9987575 ATTTTTTACA
9987585 CCTCCACTGAATCCGTT
1 CCTCCACTGAATCCGTT
9987602 CCTCCACTGAATCCGTT
1 CCTCCACTGAATCCGTT
9987619 ATCCATTACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.41, G:0.12, T:0.29
Consensus pattern (17 bp):
CCTCCACTGAATCCGTT
Found at i:9988107 original size:14 final size:15
Alignment explanation
Indices: 9988088--9988122 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
9988078 AAATCAACCT
*
9988088 TAAATGGAAGA-CCA
1 TAAATGGAAGAGCAA
9988102 TAAATGGAAGAGCAA
1 TAAATGGAAGAGCAA
9988117 TAAATG
1 TAAATG
9988123 AGTAAGACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.58
15 8 0.42
ACGTcount: A:0.51, C:0.09, G:0.23, T:0.17
Consensus pattern (15 bp):
TAAATGGAAGAGCAA
Found at i:9988998 original size:17 final size:17
Alignment explanation
Indices: 9988973--9989024 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
9988963 AGTTTATGGC
9988973 AAATATTTATTTAAATTT
1 AAAT-TTTATTTAAATTT
* *
9988991 AAATTTTATTTTAATTC
1 AAATTTTATTTAAATTT
* *
9989008 AAA-TATATCTAAATTT
1 AAATTTTATTTAAATTT
9989024 A
1 A
9989025 TTTTTTAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
16 10 0.36
17 14 0.50
18 4 0.14
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (17 bp):
AAATTTTATTTAAATTT
Found at i:9989142 original size:31 final size:33
Alignment explanation
Indices: 9989088--9989148 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 33
9989078 TATTTAAAAG
*
9989088 TTAAAGATAATGTAAAGATTATTTATAAAAATA
1 TTAAAGATAATGTAAAGAATATTTATAAAAATA
* *
9989121 TTAAAGAT-AT-TAAATAATATTTTTAAAA
1 TTAAAGATAATGTAAAGAATATTTATAAAA
9989149 GTTGTGATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 15 0.60
32 2 0.08
33 8 0.32
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (33 bp):
TTAAAGATAATGTAAAGAATATTTATAAAAATA
Found at i:9991413 original size:62 final size:62
Alignment explanation
Indices: 9991296--9991416 Score: 161
Period size: 62 Copynumber: 2.0 Consensus size: 62
9991286 ATGATGCCCT
* * * *
9991296 TCCTATCATAATTTAGTAAAATTACTATGATGCCCTTACTACCATAATTATAAAAATACCCA
1 TCCTATCATAATTTAGTAAAATTACTATAATACCCTTACTACCATAAATACAAAAATACCCA
** * * *
9991358 TCCTATCATAATTTTTTAAAATTACTATAATACCCTTCCTATCGTAAATACAAAAATAC
1 TCCTATCATAATTTAGTAAAATTACTATAATACCCTTACTACCATAAATACAAAAATAC
9991417 TCCTCATACT
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
62 50 1.00
ACGTcount: A:0.40, C:0.21, G:0.03, T:0.36
Consensus pattern (62 bp):
TCCTATCATAATTTAGTAAAATTACTATAATACCCTTACTACCATAAATACAAAAATACCCA
Found at i:9991886 original size:9 final size:9
Alignment explanation
Indices: 9991866--9991950 Score: 64
Period size: 10 Copynumber: 8.8 Consensus size: 9
9991856 AAATTTTCAA
9991866 AAAAAATCCT
1 AAAAAAT-CT
9991876 AAAAAATCT
1 AAAAAATCT
9991885 AAAAAATCT
1 AAAAAATCT
*
9991894 AAAAAATTTT
1 AAAAAA-TCT
* *
9991904 TAAAAATAAT
1 AAAAAAT-CT
9991914 AAAAAAT-T
1 AAAAAATCT
*
9991922 ATCAAAAATTT
1 A--AAAAATCT
9991933 AAAAAATTCAT
1 AAAAAA-TC-T
9991944 AAAAAAT
1 AAAAAAT
9991951 TTTAAAGATT
Statistics
Matches: 63, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
8 2 0.03
9 23 0.37
10 29 0.46
11 9 0.14
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (9 bp):
AAAAAATCT
Found at i:9991908 original size:19 final size:20
Alignment explanation
Indices: 9991866--9991950 Score: 77
Period size: 19 Copynumber: 4.3 Consensus size: 20
9991856 AAATTTTCAA
* *
9991866 AAAAAATCCTAAAAAA-TCT
1 AAAAAATACTAAAAAATTAT
*
9991885 AAAAAAT-CTAAAAAATTTT
1 AAAAAATACTAAAAAATTAT
* *
9991904 TAAAAATAATAAAAAATTAT
1 AAAAAATACTAAAAAATTAT
* *
9991924 CAAAAAT-TTAAAAAATTCAT
1 AAAAAATACTAAAAAATT-AT
9991944 AAAAAAT
1 AAAAAAT
9991951 TTTAAAGATT
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
18 8 0.14
19 24 0.43
20 24 0.43
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (20 bp):
AAAAAATACTAAAAAATTAT
Found at i:9991929 original size:30 final size:30
Alignment explanation
Indices: 9991895--9991951 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
9991885 AAAAAATCTA
*
9991895 AAAAATTTTTAAAAA-TAATAAAAAATTATC
1 AAAAA-TTTAAAAAATTAATAAAAAATTATC
*
9991925 AAAAATTTAAAAAATTCATAAAAAATT
1 AAAAATTTAAAAAATTAATAAAAAATT
9991952 TTAAAGATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 8 0.33
30 16 0.67
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.32
Consensus pattern (30 bp):
AAAAATTTAAAAAATTAATAAAAAATTATC
Found at i:9991952 original size:20 final size:20
Alignment explanation
Indices: 9991861--9991950 Score: 80
Period size: 20 Copynumber: 4.6 Consensus size: 20
9991851 GAAAGAAATT
*
9991861 TTCAAAAAAAATCCTAAAAAA
1 TTCATAAAAAAT-CTAAAAAA
9991882 -TC-TAAAAAATCTAAAAAA
1 TTCATAAAAAATCTAAAAAA
* * *
9991900 TT-TTTAAAAATAATAAAAAA
1 TTCATAAAAAAT-CTAAAAAA
* *
9991920 TT-ATCAAAAATTTAAAAAA
1 TTCATAAAAAATCTAAAAAA
9991939 TTCATAAAAAAT
1 TTCATAAAAAAT
9991951 TTTAAAGATT
Statistics
Matches: 58, Mismatches: 7, Indels: 9
0.78 0.09 0.12
Matches are distributed among these distances:
18 8 0.14
19 24 0.41
20 26 0.45
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (20 bp):
TTCATAAAAAATCTAAAAAA
Found at i:9992017 original size:10 final size:9
Alignment explanation
Indices: 9991895--9992036 Score: 77
Period size: 9 Copynumber: 14.6 Consensus size: 9
9991885 AAAAAATCTA
9991895 AAAAATTTTT
1 AAAAA-TTTT
* *
9991905 AAAAATAATA
1 AAAAAT-TTT
*
9991915 AAAAATTATC
1 AAAAATT-TT
*
9991925 AAAAATTTA
1 AAAAATTTT
*
9991934 AAAAATTCATA
1 AAAAATT--TT
9991945 AAAAATTTT
1 AAAAATTTT
*
9991954 AAAGATTTT
1 AAAAATTTT
9991963 AAAACATTTTT
1 AAAA-A-TTTT
*
9991974 AAAAAAAATTCT
1 ---AAAAATTTT
*
9991986 AAAACTTTT
1 AAAAATTTT
* *
9991995 TAAAATTAT
1 AAAAATTTT
*
9992004 AAAAGTTTT
1 AAAAATTTT
9992013 AAAAATTTCT
1 AAAAATTT-T
*
9992023 AAAAACTTT
1 AAAAATTTT
9992032 AAAAA
1 AAAAA
9992037 CAAAAAAAAA
Statistics
Matches: 103, Mismatches: 19, Indels: 21
0.72 0.13 0.15
Matches are distributed among these distances:
9 53 0.51
10 29 0.28
11 13 0.13
12 3 0.03
13 1 0.01
14 4 0.04
ACGTcount: A:0.58, C:0.05, G:0.01, T:0.36
Consensus pattern (9 bp):
AAAAATTTT
Found at i:9992107 original size:12 final size:11
Alignment explanation
Indices: 9992090--9992173 Score: 55
Period size: 11 Copynumber: 7.4 Consensus size: 11
9992080 TAAAATTTTT
9992090 AAATTTTTGAAA
1 AAATTTTT-AAA
*
9992102 AAATTTTAAGAA
1 AAATTTTTA-AA
9992114 AAATTTTT-AA
1 AAATTTTTAAA
9992124 AAATATTTT-AA
1 AAAT-TTTTAAA
**
9992135 ATTTTTTTAAA
1 AAATTTTTAAA
*
9992146 AATTTAATTTAAA
1 AAATT--TTTAAA
* *
9992159 AAAATTATAAA
1 AAATTTTTAAA
9992170 AAAT
1 AAAT
9992174 AATAAAATTT
Statistics
Matches: 58, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
10 10 0.17
11 23 0.40
12 16 0.28
13 9 0.16
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (11 bp):
AAATTTTTAAA
Found at i:9992256 original size:19 final size:19
Alignment explanation
Indices: 9992232--9992310 Score: 72
Period size: 19 Copynumber: 4.1 Consensus size: 19
9992222 TTTTTTAAAT
9992232 TTCTAAAAAATCTCAAAAA
1 TTCTAAAAAATCTCAAAAA
* *
9992251 TTCTAAACAATTCTACAAAAT
1 TTCTAAA-AAATCT-CAAAAA
*
9992272 TTC-AAAAATTCT-AAACAA
1 TTCTAAAAAATCTCAAA-AA
* *
9992290 TTCTAAAAAATTTAAAAAA
1 TTCTAAAAAATCTCAAAAA
9992309 TT
1 TT
9992311 TTCACTACAT
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
17 3 0.06
18 4 0.08
19 24 0.48
20 11 0.22
21 8 0.16
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (19 bp):
TTCTAAAAAATCTCAAAAA
Found at i:9992262 original size:10 final size:9
Alignment explanation
Indices: 9992232--9992307 Score: 75
Period size: 10 Copynumber: 8.0 Consensus size: 9
9992222 TTTTTTAAAT
9992232 TTCTAAAAA
1 TTCTAAAAA
*
9992241 ATCTCAAAAA
1 TTCT-AAAAA
9992251 TTCTAAACAA
1 TTCTAAA-AA
9992261 TTCTACAAAA
1 TTCTA-AAAA
9992271 TT-TCAAAAA
1 TTCT-AAAAA
9992280 TTCTAAACAA
1 TTCTAAA-AA
9992290 TTCTAAAAAA
1 TTCT-AAAAA
9992300 TT-TAAAAA
1 TTCTAAAAA
9992308 ATTTTCACTA
Statistics
Matches: 58, Mismatches: 2, Indels: 15
0.77 0.03 0.20
Matches are distributed among these distances:
8 5 0.09
9 17 0.29
10 31 0.53
11 5 0.09
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.30
Consensus pattern (9 bp):
TTCTAAAAA
Found at i:9992264 original size:29 final size:29
Alignment explanation
Indices: 9992232--9992310 Score: 131
Period size: 29 Copynumber: 2.7 Consensus size: 29
9992222 TTTTTTAAAT
*
9992232 TTCTAAAAAATCTCAAAAATTCTAAACAA
1 TTCTAAAAAATTTCAAAAATTCTAAACAA
*
9992261 TTCTACAAAATTTCAAAAATTCTAAACAA
1 TTCTAAAAAATTTCAAAAATTCTAAACAA
*
9992290 TTCTAAAAAATTTAAAAAATT
1 TTCTAAAAAATTTCAAAAATT
9992311 TTCACTACAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (29 bp):
TTCTAAAAAATTTCAAAAATTCTAAACAA
Found at i:9992705 original size:10 final size:10
Alignment explanation
Indices: 9992692--9992777 Score: 53
Period size: 10 Copynumber: 9.2 Consensus size: 10
9992682 ATTCTTTTTG
9992692 AATTTTTTAA
1 AATTTTTTAA
*
9992702 AATTTTATAA
1 AATTTTTTAA
9992712 AA--TTTTAA
1 AATTTTTTAA
*
9992720 AA--ATTT--
1 AATTTTTTAA
*
9992726 AATTTTTT-T
1 AATTTTTTAA
*
9992735 AATGTTTATAA
1 AAT-TTTTTAA
9992746 AATTTTTTAGA
1 AATTTTTTA-A
9992757 AA-TTTTTAA
1 AATTTTTTAA
*
9992766 AATTTTTCAA
1 AATTTTTTAA
9992776 AA
1 AA
9992778 GTTCTAATTT
Statistics
Matches: 61, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
6 2 0.03
8 13 0.21
9 6 0.10
10 34 0.56
11 6 0.10
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.53
Consensus pattern (10 bp):
AATTTTTTAA
Found at i:9992707 original size:9 final size:9
Alignment explanation
Indices: 9992695--9992777 Score: 62
Period size: 9 Copynumber: 9.0 Consensus size: 9
9992685 CTTTTTGAAT
9992695 TTTTTAAAA
1 TTTTTAAAA
9992704 TTTTATAAAA
1 TTTT-TAAAA
9992714 -TTTTAAAA
1 TTTTTAAAA
* **
9992722 -ATTTAATT
1 TTTTTAAAA
**
9992730 TTTTTAATG
1 TTTTTAAAA
*
9992739 TTTATAAAA
1 TTTTTAAAA
9992748 TTTTTTAGAAA
1 -TTTTTA-AAA
9992759 TTTTTAAAA
1 TTTTTAAAA
9992768 TTTTTCAAAA
1 TTTTT-AAAA
9992778 GTTCTAATTT
Statistics
Matches: 60, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
8 10 0.17
9 27 0.45
10 20 0.33
11 3 0.05
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.54
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:9992860 original size:21 final size:20
Alignment explanation
Indices: 9992836--9992879 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
9992826 AATTTTTAGG
*
9992836 AAAAGGAAAAAAAGGAAAAAA
1 AAAAAGAAAAAAA-GAAAAAA
**
9992857 AAAAAGAAAAGGAGAAAAAA
1 AAAAAGAAAAAAAGAAAAAA
9992877 AAA
1 AAA
9992880 TATTTGGGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (20 bp):
AAAAAGAAAAAAAGAAAAAA
Found at i:9994021 original size:61 final size:60
Alignment explanation
Indices: 9993854--9994022 Score: 178
Period size: 61 Copynumber: 2.8 Consensus size: 60
9993844 ATTCATAATC
* * * ** * * * *
9993854 CATGCATCAAAGTTTACATTTTCATTAATGATATTTTAGTAATTTTTGTTACATGCATTCT
1 CATGCATCAAAGTTTGCATTTTTATCAATGGCATTTGAGTAA-TTTTATCACAGGCATTCT
* * * *
9993915 CTATGCATCAAAATTTGTATTTTTATCAATGGCATTTTGA-AAATTTTATCACAGGCATTTTT
1 C-ATGCATCAAAGTTTGCATTTTTATCAATGGCA-TTTGAGTAATTTTATCACAGGCA-TTCT
9993977 CATGCATCAAAGTTTGCATTTTTATCAATGGCATTTGAGTAATTTT
1 CATGCATCAAAGTTTGCATTTTTATCAATGGCATTTGAGTAATTTT
9994023 TATTACACGT
Statistics
Matches: 88, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
60 5 0.06
61 48 0.55
62 31 0.35
63 4 0.05
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.46
Consensus pattern (60 bp):
CATGCATCAAAGTTTGCATTTTTATCAATGGCATTTGAGTAATTTTATCACAGGCATTCT
Found at i:9994105 original size:19 final size:20
Alignment explanation
Indices: 9994075--9994132 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
9994065 AGGCCCTAAA
9994075 TTAAATCTCCAAACCTAAACC
1 TTAAATC-CCAAACCTAAACC
* *
9994096 TT-AATCCCAAATCTTAACC
1 TTAAATCCCAAACCTAAACC
*
9994115 TTAAATCCTAAACCTAAA
1 TTAAATCCCAAACCTAAA
9994133 TCCTAAACTA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 13 0.42
20 16 0.52
21 2 0.06
ACGTcount: A:0.43, C:0.29, G:0.00, T:0.28
Consensus pattern (20 bp):
TTAAATCCCAAACCTAAACC
Found at i:9999512 original size:7 final size:7
Alignment explanation
Indices: 9999502--9999615 Score: 74
Period size: 7 Copynumber: 16.6 Consensus size: 7
9999492 CTCTAAACTC
*
9999502 TAAACCA
1 TAAACCT
9999509 TAAACCT
1 TAAACCT
*
9999516 TAAATCT
1 TAAACCT
*
9999523 T-AACCC
1 TAAACCT
* *
9999529 CAAACCA
1 TAAACCT
*
9999536 TAGACCT
1 TAAACCT
9999543 TAAACCT
1 TAAACCT
*
9999550 TAAACCC
1 TAAACCT
9999557 TAAACCT
1 TAAACCT
* *
9999564 T-GACCC
1 TAAACCT
*
9999570 TAAAACT
1 TAAACCT
*
9999577 TAAACCC
1 TAAACCT
9999584 T-AACCT
1 TAAACCT
9999590 T-AACCT
1 TAAACCT
*
9999596 TCATAACCC
1 T-A-AACCT
9999605 TAAACCT
1 TAAACCT
9999612 TAAA
1 TAAA
9999616 ACAAATCCTA
Statistics
Matches: 80, Mismatches: 22, Indels: 10
0.71 0.20 0.09
Matches are distributed among these distances:
6 18 0.22
7 56 0.70
8 1 0.01
9 5 0.06
ACGTcount: A:0.42, C:0.32, G:0.02, T:0.24
Consensus pattern (7 bp):
TAAACCT
Found at i:9999519 original size:14 final size:14
Alignment explanation
Indices: 9999469--9999562 Score: 54
Period size: 14 Copynumber: 6.9 Consensus size: 14
9999459 AGTCAAACTT
9999469 TAAACCTTAAA--A
1 TAAACCTTAAACCA
* *
9999481 AAAACTTTAAACTC-
1 TAAACCTTAAAC-CA
9999495 TAAA-CTCTAAACCA
1 TAAACCT-TAAACCA
*
9999509 TAAACCTTAAATC-
1 TAAACCTTAAACCA
* **
9999522 TTAACCCCAAACCA
1 TAAACCTTAAACCA
* *
9999536 TAGACCTTAAACCT
1 TAAACCTTAAACCA
*
9999550 TAAACCCTAAACC
1 TAAACCTTAAACC
9999563 TTGACCCTAA
Statistics
Matches: 59, Mismatches: 16, Indels: 12
0.68 0.18 0.14
Matches are distributed among these distances:
12 9 0.15
13 11 0.19
14 37 0.63
15 2 0.03
ACGTcount: A:0.47, C:0.29, G:0.01, T:0.23
Consensus pattern (14 bp):
TAAACCTTAAACCA
Found at i:9999542 original size:27 final size:27
Alignment explanation
Indices: 9999503--9999596 Score: 84
Period size: 27 Copynumber: 3.5 Consensus size: 27
9999493 TCTAAACTCT
* *
9999503 AAACCATAAACCTTAAATCTTAACCCC
1 AAACCATAGACCTTAAAACTTAACCCC
* *
9999530 AAACCATAGACCTTAAACCTTAAACCCT
1 AAACCATAGACCTTAAAACTT-AACCCC
* * *
9999558 AAACC-TTGACCCTAAAACTTAAACCC
1 AAACCATAGACCTTAAAACTTAACCCC
* *
9999584 TAACCTTA-ACCTT
1 AAACCATAGACCTT
9999597 CATAACCCTA
Statistics
Matches: 54, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
26 12 0.22
27 32 0.59
28 10 0.19
ACGTcount: A:0.41, C:0.33, G:0.02, T:0.23
Consensus pattern (27 bp):
AAACCATAGACCTTAAAACTTAACCCC
Found at i:9999592 original size:13 final size:14
Alignment explanation
Indices: 9999495--9999592 Score: 85
Period size: 14 Copynumber: 7.2 Consensus size: 14
9999485 CTTTAAACTC
* *
9999495 TAAACTCTAAACCA
1 TAAACCCTAAACCT
* *
9999509 TAAACCTTAAATCT
1 TAAACCCTAAACCT
* *
9999523 T-AACCCCAAACCA
1 TAAACCCTAAACCT
* *
9999536 TAGACCTTAAACCT
1 TAAACCCTAAACCT
9999550 TAAACCCTAAACCT
1 TAAACCCTAAACCT
* *
9999564 T-GACCCTAAAACT
1 TAAACCCTAAACCT
9999577 TAAACCCT-AACCT
1 TAAACCCTAAACCT
9999590 TAA
1 TAA
9999593 CCTTCATAAC
Statistics
Matches: 64, Mismatches: 18, Indels: 5
0.74 0.21 0.06
Matches are distributed among these distances:
13 27 0.42
14 37 0.58
ACGTcount: A:0.43, C:0.32, G:0.02, T:0.23
Consensus pattern (14 bp):
TAAACCCTAAACCT
Found at i:10001564 original size:21 final size:21
Alignment explanation
Indices: 10001540--10001579 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
10001530 ACATTATATT
10001540 AAATAACAA-AATATTATAAAC
1 AAATAA-AATAATATTATAAAC
10001561 AAATAAAATAATATTATAA
1 AAATAAAATAATATTATAA
10001580 TATTGATCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.28
Consensus pattern (21 bp):
AAATAAAATAATATTATAAAC
Found at i:10004509 original size:20 final size:21
Alignment explanation
Indices: 10004484--10004527 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
10004474 AGTTATATGA
10004484 ATTTTAATAAATTTTTACT-T
1 ATTTTAATAAATTTTTACTAT
*
10004504 ATTTTAATATATTTTTACTAT
1 ATTTTAATAAATTTTTACTAT
10004525 ATT
1 ATT
10004528 AATTTTATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (21 bp):
ATTTTAATAAATTTTTACTAT
Found at i:10005212 original size:24 final size:25
Alignment explanation
Indices: 10005159--10005215 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 25
10005149 CATCGTTTAT
* *
10005159 TGGAATATGAAATTTTGCTTTGGAA
1 TGGATTATGAAATTTTACTTTGGAA
*
10005184 T-GATTATGAAATTTTACTTT-GTA
1 TGGATTATGAAATTTTACTTTGGAA
10005207 TGGATTATG
1 TGGATTATG
10005216 TTTTGAGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 3 0.11
24 24 0.86
25 1 0.04
ACGTcount: A:0.30, C:0.04, G:0.21, T:0.46
Consensus pattern (25 bp):
TGGATTATGAAATTTTACTTTGGAA
Found at i:10005245 original size:15 final size:15
Alignment explanation
Indices: 10005225--10005255 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
10005215 GTTTTGAGAA
10005225 AATTTATAAATATTG
1 AATTTATAAATATTG
*
10005240 AATTTATATATATTG
1 AATTTATAAATATTG
10005255 A
1 A
10005256 GTAATCTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (15 bp):
AATTTATAAATATTG
Found at i:10008310 original size:15 final size:17
Alignment explanation
Indices: 10008290--10008321 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
10008280 ATCCTTAAAA
10008290 TTTATTT-T-AATTTTT
1 TTTATTTCTAAATTTTT
10008305 TTTATTTCTAAATTTTT
1 TTTATTTCTAAATTTTT
10008322 CATCATTTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTATTTCTAAATTTTT
Found at i:10010085 original size:131 final size:128
Alignment explanation
Indices: 10009923--10010316 Score: 335
Period size: 131 Copynumber: 3.0 Consensus size: 128
10009913 TAGAGGCTCC
* * *
10009923 ACGACTTTAAAAAATAAATAAGACTCCTTTAAATAGAGGTTTAACAATTTCTAAAAACTAAATAA
1 ACGACTTT-AAAAGTAAATAAGACTTCTTTAAATAGAGGTTTAACAATTT-TAAAAAGTAAATAA
* * *
10009988 AGTTTCTCTAAGCAGAGGTTCAATGACTTTTGAAAAGTAAATAAGGTTCCTCTAAGCAAAGACTT
64 AGTTACTTTAA-CAGAGGTTCAATGACTTTTGAAAAGTAAATAAGGTTCCTCTAAGCAAAGACTC
10010053 A
128 A
** * * * * * *
10010054 ACGACTTTAAAAGGTAAATAAGGTTTCTTTAAACAGAGGCTCAATGACTTTTGAAAAGTAAATAA
1 ACGACTTTAAAA-GTAAATAAGACTTCTTTAAATAGAGGTTTAA-CAATTTTAAAAAGTAAATAA
* * * * ** * * *
10010119 AG-CACATTTAACAGAAGCTCAATGATTTTTGAAAAGTCGATAAGGCTT-CTCTAAACAGAGGCT
64 AGTTAC-TTTAACAGAGGTTCAATGACTTTTGAAAAGTAAATAAGG-TTCCTCTAAGCAAAGACT
10010182 CA
127 CA
** * ** *
10010184 ACTTCTTTTGAAAAGAAAATAAGACTTCTCCAAATAGAGGTTTGACAACTTTTAAAAAGTAAATA
1 ACGAC-TTT-AAAAGTAAATAAGACTTCTTTAAATAGAGGTTTAACAA-TTTTAAAAAGTAAATA
* * ** * * *
10010249 AGGTTACTTTAAATAGAGGTTCAACAACTTTTAAAAAATAAATAAGGCTCCTCTAAGCAGAAG-C
63 AAGTTACTTT-AACAGAGGTTCAATGACTTTTGAAAAGTAAATAAGGTTCCTCTAAGCA-AAGAC
10010313 TCA
126 TCA
10010316 A
1 A
10010317 TTACTTCTGA
Statistics
Matches: 200, Mismatches: 52, Indels: 21
0.73 0.19 0.08
Matches are distributed among these distances:
130 51 0.25
131 98 0.49
132 49 0.25
133 2 0.01
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.29
Consensus pattern (128 bp):
ACGACTTTAAAAGTAAATAAGACTTCTTTAAATAGAGGTTTAACAATTTTAAAAAGTAAATAAAG
TTACTTTAACAGAGGTTCAATGACTTTTGAAAAGTAAATAAGGTTCCTCTAAGCAAAGACTCA
Found at i:10010103 original size:43 final size:44
Alignment explanation
Indices: 10009976--10010335 Score: 230
Period size: 44 Copynumber: 8.3 Consensus size: 44
10009966 ACAATTTCTA
* * * *
10009976 AAAACTAAATAAAGTTTCTCTAAGCAGAGGTTCAATGACTTTTG
1 AAAAGTAAATAAGGTTTCTCTAAACAGAGGCTCAATGACTTTTG
* * * * * *
10010020 AAAAGTAAATAAGGTTCCTCTAAGCAAAGACTTAACGAC-TTT-
1 AAAAGTAAATAAGGTTTCTCTAAACAGAGGCTCAATGACTTTTG
*
10010062 AAAAGGTAAATAAGGTTTCTTTAAACAGAGGCTCAATGACTTTTG
1 AAAA-GTAAATAAGGTTTCTCTAAACAGAGGCTCAATGACTTTTG
* ** * * *
10010107 AAAAGTAAATAAAG-CACAT-TTAACAGAAGCTCAATGATTTTTG
1 AAAAGTAAATAAGGTTTC-TCTAAACAGAGGCTCAATGACTTTTG
** * *
10010150 AAAAGTCGATAAGGCTTCTCTAAACAGAGGCTCAACT-TCTTTTG
1 AAAAGTAAATAAGGTTTCTCTAAACAGAGGCTCAA-TGACTTTTG
* ** * * * ** ** *
10010194 AAAAGAAAATAAGACTTCTCCAAATAGAGGTTTGACAACTTTTA
1 AAAAGTAAATAAGGTTTCTCTAAACAGAGGCTCAATGACTTTTG
* * * * ** *
10010238 AAAAGTAAATAAGGTTACTTTAAATAGAGGTTCAACAACTTTTA
1 AAAAGTAAATAAGGTTTCTCTAAACAGAGGCTCAATGACTTTTG
* * * * * * *
10010282 AAAAATAAATAAGGCTCCTCTAAGCAGAAGCTCAATTACTTCTG
1 AAAAGTAAATAAGGTTTCTCTAAACAGAGGCTCAATGACTTTTG
10010326 -AAA-TAAATAA
1 AAAAGTAAATAA
10010336 ATAAATAAAT
Statistics
Matches: 246, Mismatches: 62, Indels: 18
0.75 0.19 0.06
Matches are distributed among these distances:
42 11 0.04
43 68 0.28
44 162 0.66
45 5 0.02
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.29
Consensus pattern (44 bp):
AAAAGTAAATAAGGTTTCTCTAAACAGAGGCTCAATGACTTTTG
Found at i:10010162 original size:87 final size:87
Alignment explanation
Indices: 10009981--10010205 Score: 233
Period size: 87 Copynumber: 2.6 Consensus size: 87
10009971 TTCTAAAAAC
* * * * ** *
10009981 TAAATAAAGTTTCTCTAAGCAGAGGTTCAATGACTTTTGAAAAGTAAATAAGGTTCCTCTAAGCA
1 TAAATAAGGTTTCTCTAAACAGAGGCTCAATGACTTTTGAAAAGTAAATAAAGCACATCTAAGCA
*
10010046 AAGACTTAACGACTTTAAAAGG
66 AAGACTCAACGACTTTAAAAGG
* *
10010068 TAAATAAGGTTTCTTTAAACAGAGGCTCAATGACTTTTGAAAAGTAAATAAAGCACATTTAA-CA
1 TAAATAAGGTTTCTCTAAACAGAGGCTCAATGACTTTTGAAAAGTAAATAAAGCACATCTAAGCA
* *
10010132 GAAG-CTCAATGATTTTTGAAAA-G
66 -AAGACTCAACGA-CTTT-AAAAGG
** * * *
10010155 TCGATAAGGCTTCTCTAAACAGAGGCTCAACT-TCTTTTGAAAAGAAAATAA
1 TAAATAAGGTTTCTCTAAACAGAGGCTCAA-TGACTTTTGAAAAGTAAATAA
10010206 GACTTCTCCA
Statistics
Matches: 116, Mismatches: 18, Indels: 8
0.82 0.13 0.06
Matches are distributed among these distances:
86 8 0.07
87 103 0.89
88 5 0.04
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (87 bp):
TAAATAAGGTTTCTCTAAACAGAGGCTCAATGACTTTTGAAAAGTAAATAAAGCACATCTAAGCA
AAGACTCAACGACTTTAAAAGG
Found at i:10011736 original size:7 final size:7
Alignment explanation
Indices: 10011720--10011777 Score: 64
Period size: 7 Copynumber: 8.0 Consensus size: 7
10011710 ATTTTCCCTC
*
10011720 ATTTTAT
1 ATTTTTT
10011727 ATTTTTT
1 ATTTTTT
*
10011734 ATTTTAT
1 ATTTTTT
10011741 A-TTTTT
1 ATTTTTT
10011747 ATTTTTT
1 ATTTTTT
10011754 CACTTTTTT
1 -A-TTTTTT
10011763 ATTTTTTT
1 A-TTTTTT
10011771 ATTTTTT
1 ATTTTTT
10011778 TCATCCATTA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
6 5 0.11
7 24 0.55
8 9 0.20
9 6 0.14
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.79
Consensus pattern (7 bp):
ATTTTTT
Found at i:10011747 original size:13 final size:14
Alignment explanation
Indices: 10011720--10011777 Score: 64
Period size: 13 Copynumber: 4.0 Consensus size: 14
10011710 ATTTTCCCTC
10011720 ATTTTATATTTTTT
1 ATTTTATATTTTTT
10011734 ATTTTATA-TTTTT
1 ATTTTATATTTTTT
*
10011747 ATTTTTTCACTTTTTT
1 ATTTTAT-A-TTTTTT
*
10011763 ATTTTTTTATTTTTT
1 A-TTTTATATTTTTT
10011778 TCATCCATTA
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
13 11 0.28
14 9 0.23
15 6 0.15
16 7 0.18
17 6 0.15
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.79
Consensus pattern (14 bp):
ATTTTATATTTTTT
Found at i:10011777 original size:8 final size:8
Alignment explanation
Indices: 10011735--10011778 Score: 61
Period size: 8 Copynumber: 5.5 Consensus size: 8
10011725 ATATTTTTTA
*
10011735 TTTTATAT
1 TTTTATTT
10011743 TTTTATTT
1 TTTTATTT
* *
10011751 TTTCACTT
1 TTTTATTT
10011759 TTTTATTT
1 TTTTATTT
10011767 TTTTATTT
1 TTTTATTT
10011775 TTTT
1 TTTT
10011779 CATCCATTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.14, C:0.05, G:0.00, T:0.82
Consensus pattern (8 bp):
TTTTATTT
Found at i:10012946 original size:17 final size:17
Alignment explanation
Indices: 10012924--10012956 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10012914 GTTGTTATCA
*
10012924 TTTCTGTATCAAAGTAC
1 TTTCTGTATAAAAGTAC
10012941 TTTCTGTATAAAAGTA
1 TTTCTGTATAAAAGTA
10012957 TATCACTCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (17 bp):
TTTCTGTATAAAAGTAC
Found at i:10020881 original size:85 final size:85
Alignment explanation
Indices: 10020792--10020992 Score: 341
Period size: 85 Copynumber: 2.4 Consensus size: 85
10020782 ATTTAGCAAA
*
10020792 ACAATATCAGACAATAAGGTTCAGCAAACCATTCAGCATGAAATATGATTTAGACTCCCAATATC
1 ACAATATCAGACAACAAGGTTCAGCAAACCATTCAGCATGAAATATGATTTAGACTCCCAATATC
10020857 ATACAATACCATTCGACAAT
66 ATACAATACCATTCGACAAT
* * *
10020877 ACAATATTAGACAACAAGGTTTAGCAAACCATTCAGCATGAAATATGATTTAGACTCCTAATATC
1 ACAATATCAGACAACAAGGTTCAGCAAACCATTCAGCATGAAATATGATTTAGACTCCCAATATC
10020942 ATACAATACCATTCGACAAT
66 ATACAATACCATTCGACAAT
*
10020962 ACAATATCA-ATCAACAAGGTTCAACAAACCA
1 ACAATATCAGA-CAACAAGGTTCAGCAAACCA
10020993 CAATATTTAA
Statistics
Matches: 108, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
84 1 0.01
85 107 0.99
ACGTcount: A:0.44, C:0.22, G:0.10, T:0.24
Consensus pattern (85 bp):
ACAATATCAGACAACAAGGTTCAGCAAACCATTCAGCATGAAATATGATTTAGACTCCCAATATC
ATACAATACCATTCGACAAT
Found at i:10022552 original size:357 final size:357
Alignment explanation
Indices: 10021620--10023117 Score: 2021
Period size: 356 Copynumber: 4.2 Consensus size: 357
10021610 TATAACAAAC
* * * * * *
10021620 TATTAAAGGCATTTTATAAT-AAA-ATACCTTTAATAATCCAAAATTTTTTTTTTGA-AAAATTA
1 TATTGAAGGCATTTCATAATAAAAGACACCTTTAATAATCTAAAAATTTTTTTTTAAGAAAATTA
* * * * * * * *
10021682 TTGAAGGCATTGTTATCTGTAACCATCTTTACTAATTATCTACAAACTATGATAGGAATTATTAA
66 TTAAAGGCGTTGTTATCTGCAACTACCTTCACTAATTATCTACAAACTGTGATAGAAATTATTAA
* * * * *
10021747 AGGCATCTTTCTTGGATATATGCCTTCAATAATTATGTTAAAATTTGTGTGACGATATATAGAAG
131 AGGCATCTTTCTTGGATATACGCCTTCAATAACTATGTTAAAATTTATGTGACGGTATATAGAAC
* * * * * *
10021812 GTATTTTATAGTAGAAAACACCTTTAATAATTCCTAAAATTTTTAGTG-GAAAAATTTTAAGGGC
196 GCATTTTACAGTAGAAGACGCCTTTAATGATTCCTAAAATTTTTAGTGAG-AAAATTTTAAAGGC
* * * **
10021876 ATTTGTTAATT-ACAAATGCCTTCAGTAAAGGATTACTAAGTTTAAAGGTATATTGAAGGCACCT
260 ATCTGTT-ATTAACAAATACCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGTGCCT
* *
10021940 TTTTGAATAAACGTCTTCCATAACCATTGTGATA
324 TTTTGAATAAACGCCTTCCATAACCATCGTGATA
* ** *
10021974 TATTGAA-GCTATTTCATAATAAAAAATGCCTTTAATAAT-TCAAAAA-ATTTTTTTAAGAAAAT
1 TATTGAAGGC-ATTTCATAATAAAAGACACCTTTAATAATCT-AAAAATTTTTTTTTAAGAAAAT
* * * * * *
10022036 TATTGAAGGCATTGTTATCTGCAACTGCCTTCATTAATTATCTACAAACTGTGATTGGAATTATT
64 TATTAAAGGCGTTGTTATCTGCAACTACCTTCACTAATTATCTACAAACTGTGATAGAAATTATT
* * *
10022101 AAAGGCATCTTTCTTGGATATACACCTTCAATAACTGTGTTAAAATTTATGTGACGGTATATAAA
129 AAAGGCATCTTTCTTGGATATACGCCTTCAATAACTATGTTAAAATTTATGTGACGGTATATAGA
* * *
10022166 ATGCATTTTACAGTAAAAGACGCCTTTAATGATTCCTAAAACTTTTAGTGAGAAAATTTTAAAGG
194 ACGCATTTTACAGTAGAAGACGCCTTTAATGATTCCTAAAATTTTTAGTGAGAAAATTTTAAAGG
* *
10022231 CATCTGTTATTAACAAATACCTTCAGTAATGGATTACTAAGTTTAAAGGTATGTTGAAGGTGTCT
259 CATCTGTTATTAACAAATACCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGTGCCT
* *
10022296 TTTTGAATAAATGCCTTCCATAACCATCGTGGTA
324 TTTTGAATAAACGCCTTCCATAACCATCGTGATA
*
10022330 TATTGAAGGCGTTTCATAATAAAAGACACCTTTAATAATCTAAAAATTTTTTTTTAAGAAAATTA
1 TATTGAAGGCATTTCATAATAAAAGACACCTTTAATAATCTAAAAATTTTTTTTTAAGAAAATTA
* * *
10022395 TTAAAGGCGTTGTTATCTGTAATTACCTTCACTAATTATCTACAAACTGTAATAGAAATTATTAA
66 TTAAAGGCGTTGTTATCTGCAACTACCTTCACTAATTATCTACAAACTGTGATAGAAATTATTAA
** * *
10022460 AGGTGTCTTTCTTGGATATACGCCTTCAATAACTATGTTAAAATTTGTGTGGCGGTATATAGAAC
131 AGGCATCTTTCTTGGATATACGCCTTCAATAACTATGTTAAAATTTATGTGACGGTATATAGAAC
* *
10022525 GCATTTTACAGTAGAAGACGCCTTTAATGATT-CTCAAATTTTTAGTGAGAAAATTTTGAAGGCA
196 GCATTTTACAGTAGAAGACGCCTTTAATGATTCCTAAAATTTTTAGTGAGAAAATTTTAAAGGCA
*
10022589 TCTGTTATTAACAAATACCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGTGTCTTT
261 TCTGTTATTAACAAATACCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGTGCCTTT
* *
10022654 TCGAATAAATGCCTTCCATAACCATCGTGATA
326 TTGAATAAACGCCTTCCATAACCATCGTGATA
* * * *
10022686 TATTGAAGGCGTTTCATAATAAAAGACACCTTTAATAATC-CAAAATTTTCTTTTAAGGAAATTA
1 TATTGAAGGCATTTCATAATAAAAGACACCTTTAATAATCTAAAAATTTTTTTTTAAGAAAATTA
* * *
10022750 TTAAAGACGTTGTTATCTGCAACTGCCTTCACTAATTATCTACAAACTGTGATAAAAATTATTAA
66 TTAAAGGCGTTGTTATCTGCAACTACCTTCACTAATTATCTACAAACTGTGATAGAAATTATTAA
* * * *
10022815 AGGTATCTTTCTTAGATATACGCCTTCAATAACCATGTTAAAATTTATGTGGCGGTATATAGAAC
131 AGGCATCTTTCTTGGATATACGCCTTCAATAACTATGTTAAAATTTATGTGACGGTATATAGAAC
* * * *
10022880 TCATTTTACAATAGAAGATGCCTTTAATGATTCCCAAAATTTTTAGTGAGAAAATTTTGAAA-GC
196 GCATTTTACAGTAGAAGACGCCTTTAATGATTCCTAAAATTTTTAGTGAGAAAATTTT-AAAGGC
* *
10022944 ATATGTTATTAACAAATGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGTGCCTT
260 ATCTGTTATTAACAAATACCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGTGCCTT
* * *
10023009 TTTGAATAAACACCTTCCATAACCATCATGGTA
325 TTTGAATAAACGCCTTCCATAACCATCGTGATA
* * * * * * *
10023042 TATTAAAGGCATTTCATAATAAAAGACGCATTTAATAATCCGAAAAA-CTTTTGTTAAGCAAATT
1 TATTGAAGGCATTTCATAATAAAAGACACCTTTAATAAT-CTAAAAATTTTTTTTTAAGAAAATT
*
10023106 ATTAAAGTCGTT
65 ATTAAAGGCGTT
10023118 AACGTAGAAA
Statistics
Matches: 1022, Mismatches: 108, Indels: 25
0.88 0.09 0.02
Matches are distributed among these distances:
353 2 0.00
354 15 0.01
355 184 0.18
356 625 0.61
357 192 0.19
358 4 0.00
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.37
Consensus pattern (357 bp):
TATTGAAGGCATTTCATAATAAAAGACACCTTTAATAATCTAAAAATTTTTTTTTAAGAAAATTA
TTAAAGGCGTTGTTATCTGCAACTACCTTCACTAATTATCTACAAACTGTGATAGAAATTATTAA
AGGCATCTTTCTTGGATATACGCCTTCAATAACTATGTTAAAATTTATGTGACGGTATATAGAAC
GCATTTTACAGTAGAAGACGCCTTTAATGATTCCTAAAATTTTTAGTGAGAAAATTTTAAAGGCA
TCTGTTATTAACAAATACCTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGTGCCTTT
TTGAATAAACGCCTTCCATAACCATCGTGATA
Found at i:10024732 original size:257 final size:257
Alignment explanation
Indices: 10024276--10024790 Score: 967
Period size: 257 Copynumber: 2.0 Consensus size: 257
10024266 AATTTGGTGA
10024276 ACCTGGGATAGGTGTACGTGACCAACAACCTAGAGGAGAAACATCAAAGTTTTATAGGTTGCTTG
1 ACCTGGGATAGGTGTACGTGACCAACAACCTAGAGGAGAAACATCAAAGTTTTATAGGTTGCTTG
* *
10024341 AGGAGATGAATGAAAAACTTTTTGAAGGATCGAAGCATTTAATGTTATCTTTCTGTGTTCATCTT
66 AAGAGATGAATGAAAAACTTTTTGAAGGATCGAAGCATTCAATGTTATCTTTCTGTGTTCATCTT
*
10024406 TTTCACTTGAAATGCTTATGTGGAAAGACATGAAACTCTTTGACTTTATTATTACAGTTTATGAA
131 TTTCACTTGAAATGCTTATGTGGAAAGACATGAAACTCTCTGACTTTATTATTACAGTTTATGAA
* *
10024471 AGAAATGTTTCCTTTTGCAAAAATCTTTGAATCTTGTTAGAAATCAAAGAAGATGATCAAGG
196 AGAAATGTTTCCTTTTGCAAAAATCTCTGAATCTTGTAAGAAATCAAAGAAGATGATCAAGG
10024533 ACCTGGGATAGGTGTACGTGACCAACAACCTAGAGGAGAAACATCAAAGTTTTATAGGTTGCTTG
1 ACCTGGGATAGGTGTACGTGACCAACAACCTAGAGGAGAAACATCAAAGTTTTATAGGTTGCTTG
*
10024598 AAGAGATGAATGAAAAACTTTTTGAGGGATCGAAGCATTCAATGTTATCTTTCTGTGTTCATCTT
66 AAGAGATGAATGAAAAACTTTTTGAAGGATCGAAGCATTCAATGTTATCTTTCTGTGTTCATCTT
10024663 TTTCACTTGAAATGCTTATGTGGAAAGACATGAAACTCTCTGACTTTATTATTACAGTTTATGAA
131 TTTCACTTGAAATGCTTATGTGGAAAGACATGAAACTCTCTGACTTTATTATTACAGTTTATGAA
*
10024728 AGAAATGTTTCCTTTTGTAAAAATCTCTGAATCTTGTAAGAAATCAAAGAAGATGATCAAGG
196 AGAAATGTTTCCTTTTGCAAAAATCTCTGAATCTTGTAAGAAATCAAAGAAGATGATCAAGG
10024790 A
1 A
10024791 TTTAAGTCTC
Statistics
Matches: 251, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
257 251 1.00
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.33
Consensus pattern (257 bp):
ACCTGGGATAGGTGTACGTGACCAACAACCTAGAGGAGAAACATCAAAGTTTTATAGGTTGCTTG
AAGAGATGAATGAAAAACTTTTTGAAGGATCGAAGCATTCAATGTTATCTTTCTGTGTTCATCTT
TTTCACTTGAAATGCTTATGTGGAAAGACATGAAACTCTCTGACTTTATTATTACAGTTTATGAA
AGAAATGTTTCCTTTTGCAAAAATCTCTGAATCTTGTAAGAAATCAAAGAAGATGATCAAGG
Found at i:10026400 original size:99 final size:99
Alignment explanation
Indices: 10026192--10026390 Score: 335
Period size: 99 Copynumber: 2.0 Consensus size: 99
10026182 GCTATGCACC
* *
10026192 AAATATATTAAGATGTGTGAATATGAAAGAACGAAAACTTTTTTCATTGAAGTCACATGATTATC
1 AAATATATCAAGATGTGTGAATATGAAAGAACAAAAACTTTTTTCATTGAAGTCACATGATTATC
*
10026257 ATATTTTGATGCAAGACTCACTTTCAGTTACTTT
66 ATATTTTGATACAAGACTCACTTTCAGTTACTTT
* * *
10026291 AAATATATCAAGATGTGTGAATATGAAGGAATAAAAACTTTTTTCATTGAAGTCACATGCTTATC
1 AAATATATCAAGATGTGTGAATATGAAAGAACAAAAACTTTTTTCATTGAAGTCACATGATTATC
*
10026356 ATATTTTGATACAAGACTCACTTTTAGTTACTTT
66 ATATTTTGATACAAGACTCACTTTCAGTTACTTT
10026390 A
1 A
10026391 CGTTCATCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
99 93 1.00
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.38
Consensus pattern (99 bp):
AAATATATCAAGATGTGTGAATATGAAAGAACAAAAACTTTTTTCATTGAAGTCACATGATTATC
ATATTTTGATACAAGACTCACTTTCAGTTACTTT
Found at i:10033775 original size:5 final size:5
Alignment explanation
Indices: 10033757--10033789 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
10033747 AAAAATACTT
10033757 AAAT- AAAT- AAATA AAATA AAATA AAATA AAATA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA
10033790 CTAAAATAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 8 0.29
5 20 0.71
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAATA
Found at i:10034064 original size:20 final size:20
Alignment explanation
Indices: 10034039--10034078 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
10034029 TTCCTTAAAT
10034039 TTCTCCTTCCTTTTTCTCTC
1 TTCTCCTTCCTTTTTCTCTC
**
10034059 TTCTCCTTTTTTTTTCTCTC
1 TTCTCCTTCCTTTTTCTCTC
10034079 CCTCTCTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (20 bp):
TTCTCCTTCCTTTTTCTCTC
Found at i:10034076 original size:18 final size:19
Alignment explanation
Indices: 10034039--10034077 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
10034029 TTCCTTAAAT
10034039 TTCTCCTTCCTTTTTCTCTC
1 TTCTCCTT-CTTTTTCTCTC
*
10034059 TTCTCCTT-TTTTTTTCTC
1 TTCTCCTTCTTTTTCTCTC
10034077 T
1 T
10034078 CCCTCTCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 10 0.56
20 8 0.44
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (19 bp):
TTCTCCTTCTTTTTCTCTC
Found at i:10034432 original size:19 final size:19
Alignment explanation
Indices: 10034408--10034444 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
10034398 TCTCCTTCCA
10034408 TTCTCTCT-TCTCTTCTTTT
1 TTCTCTCTATCTC-TCTTTT
10034427 TTCTCTCTATCTCTCTTT
1 TTCTCTCTATCTCTCTTT
10034445 AAAAACTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.03, C:0.32, G:0.00, T:0.65
Consensus pattern (19 bp):
TTCTCTCTATCTCTCTTTT
Found at i:10035622 original size:20 final size:20
Alignment explanation
Indices: 10035597--10035643 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
10035587 ATGACTATTG
* *
10035597 TGAAATTGTTATTGAATTTA
1 TGAAATTGATATAGAATTTA
*
10035617 TGAAATTGATATAGAATTTT
1 TGAAATTGATATAGAATTTA
10035637 TGAAATT
1 TGAAATT
10035644 TGTGTGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.47
Consensus pattern (20 bp):
TGAAATTGATATAGAATTTA
Found at i:10042647 original size:20 final size:20
Alignment explanation
Indices: 10042624--10042668 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
10042614 TTATGGATGT
10042624 TTATGAATGTTTATT-AAGAG
1 TTATGAATGTTTATTGAA-AG
*
10042644 TTATTAATGTTTATTGAAAG
1 TTATGAATGTTTATTGAAAG
10042664 TTATG
1 TTATG
10042669 GATATGGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (20 bp):
TTATGAATGTTTATTGAAAG
Found at i:10042824 original size:21 final size:21
Alignment explanation
Indices: 10042800--10042841 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
10042790 TTTAAGGGAA
*
10042800 GGATCAATCCTTTATAAATAG
1 GGATCAATCCTCTATAAATAG
* *
10042821 GGATCATTCCTCTATGAATAG
1 GGATCAATCCTCTATAAATAG
10042842 ATGTCTTCTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (21 bp):
GGATCAATCCTCTATAAATAG
Found at i:10043370 original size:21 final size:21
Alignment explanation
Indices: 10043346--10043394 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
10043336 AGTAGATGTG
*
10043346 AGATTAATTATTGTAGCGATA
1 AGATTAATTATTATAGCGATA
* * *
10043367 AGATTGATTATTATAGTGATG
1 AGATTAATTATTATAGCGATA
10043388 AGATTAA
1 AGATTAA
10043395 AATAAATAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.02, G:0.20, T:0.39
Consensus pattern (21 bp):
AGATTAATTATTATAGCGATA
Found at i:10043543 original size:26 final size:27
Alignment explanation
Indices: 10043483--10043544 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 27
10043473 ATTAAAGACA
* *
10043483 TTACATTGAATTTTGAATATAATGAAT
1 TTACATTAAAATTTGAATATAATGAAT
*
10043510 TTA-TTTAAAATTTGAATATAAT-AAT
1 TTACATTAAAATTTGAATATAATGAAT
10043535 TTACATTAAA
1 TTACATTAAA
10043545 GTTAGTTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 6 0.20
26 21 0.70
27 3 0.10
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (27 bp):
TTACATTAAAATTTGAATATAATGAAT
Found at i:10043586 original size:4 final size:4
Alignment explanation
Indices: 10043577--10043648 Score: 76
Period size: 4 Copynumber: 18.0 Consensus size: 4
10043567 TAAAAAATCA
* * *
10043577 TATT TATT TACTT TA-T TATT TA-T TATT TATG TAAT TATT TATCT TAAT
1 TATT TATT TA-TT TATT TATT TATT TATT TATT TATT TATT TAT-T TATT
*
10043625 TAAT TATT TATT TATT TATT TATT
1 TATT TATT TATT TATT TATT TATT
10043649 ATAATAAAAT
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
3 6 0.10
4 45 0.78
5 7 0.12
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (4 bp):
TATT
Found at i:10047006 original size:17 final size:17
Alignment explanation
Indices: 10046974--10047007 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10046964 ATCCTCGAAA
* *
10046974 TTTATTTTTTATTTTTT
1 TTTATTTTTAAATTTTT
10046991 TTTATTTTTAAATTTTT
1 TTTATTTTTAAATTTTT
10047008 CACCATTTGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTATTTTTAAATTTTT
Found at i:10047722 original size:14 final size:13
Alignment explanation
Indices: 10047700--10047733 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
10047690 AAATACTTTA
10047700 AAAATAAATAAAT
1 AAAATAAATAAAT
10047713 AAAATCAAATAAAT
1 AAAAT-AAATAAAT
10047727 -AAATAAA
1 AAAATAAA
10047734 ATAATACCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 3 0.15
13 9 0.45
14 8 0.40
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAATAAATAAAT
Found at i:10047724 original size:18 final size:18
Alignment explanation
Indices: 10047701--10047735 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
10047691 AATACTTTAA
10047701 AAATAAATAAATAAAATC
1 AAATAAATAAATAAAATC
10047719 AAATAAATAAATAAAAT
1 AAATAAATAAATAAAAT
10047736 AATACCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (18 bp):
AAATAAATAAATAAAATC
Found at i:10048189 original size:17 final size:17
Alignment explanation
Indices: 10048157--10048190 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10048147 CGACCATTCA
*
10048157 TTTTTTTTCAATTATCC
1 TTTTTTTTCAAATATCC
*
10048174 TTTTTTTTTAAATATCC
1 TTTTTTTTCAAATATCC
10048191 AGATATATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.15, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTTTTTCAAATATCC
Found at i:10050106 original size:17 final size:18
Alignment explanation
Indices: 10050076--10050109 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10050066 AATGATATGA
*
10050076 GCATAGCATGGATAAATT
1 GCATAACATGGATAAATT
10050094 GCATAACAT-GATAAAT
1 GCATAACATGGATAAAT
10050110 AATAAGTGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.44, C:0.12, G:0.18, T:0.26
Consensus pattern (18 bp):
GCATAACATGGATAAATT
Found at i:10050722 original size:17 final size:16
Alignment explanation
Indices: 10050700--10050745 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
10050690 ATAAAAAATA
10050700 TATTTTTATTATTTATT
1 TATTTTTA-TATTTATT
*
10050717 TATTTTTATATTTATA
1 TATTTTTATATTTATT
*
10050733 TATGTATTATATT
1 TAT-TTTTATATT
10050746 AATAAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 10 0.38
17 16 0.62
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (16 bp):
TATTTTTATATTTATT
Found at i:10051168 original size:20 final size:20
Alignment explanation
Indices: 10051143--10051207 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
10051133 TTACAACCTT
10051143 AAAAAGTCCTTTTTGTGATG
1 AAAAAGTCCTTTTTGTGATG
* **
10051163 AAAAAGT--GTTTTAAGAT-
1 AAAAAGTCCTTTTTGTGATG
*
10051180 AAAAAATACCTTTTTGTGATG
1 AAAAAGT-CCTTTTTGTGATG
10051201 AAAAAGT
1 AAAAAGT
10051208 GTTTTAAGAT
Statistics
Matches: 33, Mismatches: 8, Indels: 7
0.69 0.17 0.15
Matches are distributed among these distances:
17 6 0.18
18 7 0.21
20 14 0.42
21 6 0.18
ACGTcount: A:0.42, C:0.06, G:0.17, T:0.35
Consensus pattern (20 bp):
AAAAAGTCCTTTTTGTGATG
Found at i:10051184 original size:18 final size:18
Alignment explanation
Indices: 10051163--10051223 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
10051153 TTTTGTGATG
10051163 AAAAAGTGTTTTAAGATA
1 AAAAAGTGTTTTAAGATA
* ** *
10051181 AAAAA-TACCTTTTTGTGATG
1 AAAAAGT---GTTTTAAGATA
10051201 AAAAAGTGTTTTAAGATA
1 AAAAAGTGTTTTAAGATA
10051219 AAAAA
1 AAAAA
10051224 ATACTATATT
Statistics
Matches: 31, Mismatches: 8, Indels: 8
0.66 0.17 0.17
Matches are distributed among these distances:
17 1 0.03
18 17 0.55
20 12 0.39
21 1 0.03
ACGTcount: A:0.49, C:0.03, G:0.15, T:0.33
Consensus pattern (18 bp):
AAAAAGTGTTTTAAGATA
Found at i:10051192 original size:38 final size:37
Alignment explanation
Indices: 10051142--10051223 Score: 146
Period size: 38 Copynumber: 2.2 Consensus size: 37
10051132 TTTACAACCT
*
10051142 TAAAAAGTCCTTTTTGTGATGAAAAAGTGTTTTAAGA
1 TAAAAAATCCTTTTTGTGATGAAAAAGTGTTTTAAGA
10051179 TAAAAAATACCTTTTTGTGATGAAAAAGTGTTTTAAGA
1 TAAAAAAT-CCTTTTTGTGATGAAAAAGTGTTTTAAGA
10051217 TAAAAAA
1 TAAAAAA
10051224 ATACTATATT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 7 0.16
38 36 0.84
ACGTcount: A:0.44, C:0.05, G:0.16, T:0.35
Consensus pattern (37 bp):
TAAAAAATCCTTTTTGTGATGAAAAAGTGTTTTAAGA
Found at i:10051924 original size:38 final size:39
Alignment explanation
Indices: 10051882--10051964 Score: 89
Period size: 38 Copynumber: 2.2 Consensus size: 39
10051872 TATGAAAAAA
* *
10051882 ATTTTATTTCCA-AAAATATCCTATAATATGTTAGTAAG
1 ATTTTATTACCAGAAAATATCCTATAATATATTAGTAAG
* * * * *
10051920 ATTTT-CTACTAGAAATTATCCTCTAATATATTGGTAAG
1 ATTTTATTACCAGAAAATATCCTATAATATATTAGTAAG
10051958 ATTTTAT
1 ATTTTAT
10051965 GAAAATTATT
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
37 3 0.09
38 32 0.91
ACGTcount: A:0.36, C:0.11, G:0.08, T:0.45
Consensus pattern (39 bp):
ATTTTATTACCAGAAAATATCCTATAATATATTAGTAAG
Found at i:10051989 original size:18 final size:18
Alignment explanation
Indices: 10051966--10052003 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
10051956 AGATTTTATG
10051966 AAAATT-ATTTCCTTTTTA
1 AAAATTAATTT-CTTTTTA
*
10051984 AAAATTAATTTTTTTTTA
1 AAAATTAATTTCTTTTTA
10052002 AA
1 AA
10052004 TTATAAGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (18 bp):
AAAATTAATTTCTTTTTA
Found at i:10052222 original size:115 final size:114
Alignment explanation
Indices: 10051990--10052223 Score: 269
Period size: 115 Copynumber: 2.0 Consensus size: 114
10051980 TTTAAAAATT
* *
10051990 AATTTTTTTTTAAATTATAAGGTTTTCCAAATATGTTGGTAAAACCTTATTTTAAAAATCAAATT
1 AATTTTTTTTTAAATTATAAGGTTTTCCAAATATGTTGATAAAACCTTATTTCAAAAATCAAATT
* ***
10052055 GCCTTCCAATATGTTAGTCAGGCTTTATTGAAAACTATTTTTTTCTTGA
66 GCCTTCCAATATGTTAGTAAGGCTTTATTGAAAACTATTTTTTTCAAAA
* * * ** *
10052104 AATTTTTTTTTAAAATTAATAATGTTTT-CTAATATGTTGATAAAACTTTATTTCAAAGGTCTAA
1 AATTTTTTTTT-AAATT-ATAAGGTTTTCCAAATATGTTGATAAAACCTTATTTCAAAAATCAAA
* *
10052168 TTGCCTTCCAATATGTTTGTAAGGCATTTTATT-TAAAC-ATTTATTTT-AAAA
64 TTGCCTTCCAATATGTTAGTAAGGC--TTTATTGAAAACTATTT-TTTTCAAAA
10052219 AATTT
1 AATTT
10052224 GAACTCTTCA
Statistics
Matches: 101, Mismatches: 14, Indels: 9
0.81 0.11 0.07
Matches are distributed among these distances:
114 11 0.11
115 67 0.66
116 17 0.17
117 6 0.06
ACGTcount: A:0.34, C:0.10, G:0.09, T:0.47
Consensus pattern (114 bp):
AATTTTTTTTTAAATTATAAGGTTTTCCAAATATGTTGATAAAACCTTATTTCAAAAATCAAATT
GCCTTCCAATATGTTAGTAAGGCTTTATTGAAAACTATTTTTTTCAAAA
Found at i:10053330 original size:19 final size:19
Alignment explanation
Indices: 10053303--10053373 Score: 56
Period size: 19 Copynumber: 3.7 Consensus size: 19
10053293 AAAAACTTGC
*
10053303 AAAACATTCAAAGTTTTCT
1 AAAAAATTCAAAGTTTTCT
*
10053322 AAAAAATTCAAAGATTTGC-
1 AAAAAATTCAAAG-TTTTCT
* *
10053341 AATTAAATTCAAA-ATTTCAT
1 AA-AAAATTCAAAGTTTTC-T
*
10053361 AAAAAAATCAAAG
1 AAAAAATTCAAAG
10053374 ATTCACAATG
Statistics
Matches: 40, Mismatches: 7, Indels: 9
0.71 0.12 0.16
Matches are distributed among these distances:
18 3 0.08
19 22 0.55
20 15 0.38
ACGTcount: A:0.54, C:0.11, G:0.06, T:0.30
Consensus pattern (19 bp):
AAAAAATTCAAAGTTTTCT
Done.