Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 83 of 316
Found at i:25072122 original size:46 final size:46
Alignment explanation
Indices: 25072074--25072240 Score: 255
Period size: 46 Copynumber: 3.6 Consensus size: 46
25072064 GCTCTCTGAT
** *
25072074 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
**
25072120 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGGGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
* *
25072166 ATGAAATGAATAAGACCATGGTTGAAAGATACGATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
25072212 A-GAAAATGAATAAGACCATGGTTGAAAGA
1 ATG-AAATGAATAAGACCATGGTTGAAAGA
25072241 CACTATAGCA
Statistics
Matches: 111, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
45 1 0.01
46 110 0.99
ACGTcount: A:0.42, C:0.12, G:0.26, T:0.20
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
Found at i:25072357 original size:13 final size:13
Alignment explanation
Indices: 25072339--25072368 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
25072329 TCAGATGACG
25072339 AATGGTTATATGA
1 AATGGTTATATGA
*
25072352 AATGGTTATGTGA
1 AATGGTTATATGA
25072365 AATG
1 AATG
25072369 TTTACAAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.27, T:0.37
Consensus pattern (13 bp):
AATGGTTATATGA
Found at i:25076215 original size:29 final size:30
Alignment explanation
Indices: 25076147--25076227 Score: 96
Period size: 29 Copynumber: 2.8 Consensus size: 30
25076137 TGCTTAATAA
*
25076147 TCAAGCACGCACAC-TATGTGCCATGTACTT
1 TCAAGCACGCACACTTA-GTGCCATGCACTT
* *
25076177 T-AAACTCGCACACTTAGTGCCATGCA-TT
1 TCAAGCACGCACACTTAGTGCCATGCACTT
*
25076205 TCAAGCCCGCACACTTAGTGCCA
1 TCAAGCACGCACACTTAGTGCCA
25076228 ATCTCACAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.27, C:0.32, G:0.16, T:0.25
Consensus pattern (30 bp):
TCAAGCACGCACACTTAGTGCCATGCACTT
Found at i:25084236 original size:29 final size:29
Alignment explanation
Indices: 25084202--25084275 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
25084192 ATAATCAACA
* *
25084202 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACC
*
25084231 CGCACACTTAGTGCCATGCATTTCAAGCC
1 CGCACACTTAGTGCCATGCATTTCAAACC
25084260 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
25084276 ATCTCAAACC
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 3 0.07
29 38 0.93
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACC
Found at i:25088663 original size:46 final size:46
Alignment explanation
Indices: 25088596--25088809 Score: 242
Period size: 46 Copynumber: 4.7 Consensus size: 46
25088586 GTGTGCTCTC
*
25088596 TGATATGAAATGTG-TAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATG-GATAAGACCATGGTTGAAAGATACCATGGCAACA
25088642 TGATATGAAATGGATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGGATAAGACCATGGTTGAAAGATACCATGGCAACA
*** ***
25088688 TGACGGGAAATGGATAAGACCATGGTTG---GATACCATGGCAGGG
1 TGATATGAAATGGATAAGACCATGGTTGAAAGATACCATGGCAACA
* * * *
25088731 TGACATGAAATGAATAAGACCATGGTTGAAAGATACGATGGCAGCA
1 TGATATGAAATGGATAAGACCATGGTTGAAAGATACCATGGCAACA
* *
25088777 TGATA-GAAAAT-AAGTAAGACCATAGTTGAAAGA
1 TGATATG-AAATGGA-TAAGACCATGGTTGAAAGA
25088810 CACTATGACA
Statistics
Matches: 147, Mismatches: 15, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
43 37 0.25
45 4 0.03
46 106 0.72
ACGTcount: A:0.40, C:0.12, G:0.27, T:0.21
Consensus pattern (46 bp):
TGATATGAAATGGATAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:25088756 original size:89 final size:90
Alignment explanation
Indices: 25088602--25088779 Score: 261
Period size: 89 Copynumber: 2.0 Consensus size: 90
25088592 TCTCTGATAT
* *
25088602 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGGATAAGACCATGG
1 GAAATGTGTAAGACCATGGTTG--AGATACCATGGCAACGTGACATGAAATGAATAAGACCATGG
25088667 TTGAAAGATACCATGGCAACATGACGG
64 TTGAAAGATACCATGGCAACATGACGG
**
25088694 GAAATG-GATAAGACCATGGTTG-GATACCATGGCAGGGTGACATGAAATGAATAAGACCATGGT
1 GAAATGTG-TAAGACCATGGTTGAGATACCATGGCAACGTGACATGAAATGAATAAGACCATGGT
* *
25088757 TGAAAGATACGATGGCAGCATGA
65 TGAAAGATACCATGGCAACATGA
25088780 TAGAAAATAA
Statistics
Matches: 79, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
89 58 0.73
91 1 0.01
92 20 0.25
ACGTcount: A:0.38, C:0.13, G:0.29, T:0.20
Consensus pattern (90 bp):
GAAATGTGTAAGACCATGGTTGAGATACCATGGCAACGTGACATGAAATGAATAAGACCATGGTT
GAAAGATACCATGGCAACATGACGG
Found at i:25088795 original size:89 final size:89
Alignment explanation
Indices: 25088609--25088805 Score: 252
Period size: 89 Copynumber: 2.2 Consensus size: 89
25088599 TATGAAATGT
* *
25088609 GTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGGATAAGACCATGGTTGAAAG
1 GTAAGACCATGGTTG--AGATACCATGGCAACGTGACATGAAATGAATAAGACCATGGTTGAAAG
* * *
25088674 ATACCATGGCAACATGACGGGAAATG
64 ATACCATGGCAACATGACAGAAAATA
**
25088700 GATAAGACCATGGTTG-GATACCATGGCAGGGTGACATGAAATGAATAAGACCATGGTTGAAAGA
1 G-TAAGACCATGGTTGAGATACCATGGCAACGTGACATGAAATGAATAAGACCATGGTTGAAAGA
* * *
25088764 TACGATGGCAGCATGATAGAAAATAA
65 TACCATGGCAACATGACAGAAAAT-A
*
25088790 GTAAGACCATAGTTGA
1 GTAAGACCATGGTTGA
25088806 AAGACACTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
89 76 0.83
90 1 0.01
91 1 0.01
92 14 0.15
ACGTcount: A:0.39, C:0.13, G:0.27, T:0.20
Consensus pattern (89 bp):
GTAAGACCATGGTTGAGATACCATGGCAACGTGACATGAAATGAATAAGACCATGGTTGAAAGAT
ACCATGGCAACATGACAGAAAATA
Found at i:25090060 original size:23 final size:22
Alignment explanation
Indices: 25090030--25090072 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
25090020 ATATCCCCAC
25090030 ATGGTGTG-ATGGGTTGGATGGAG
1 ATGGTGTGCA-GGGTT-GATGGAG
25090053 ATGGTGTGCAGGGTTGATGG
1 ATGGTGTGCAGGGTTGATGG
25090073 GCATTACTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.26
23 13 0.68
24 1 0.05
ACGTcount: A:0.16, C:0.02, G:0.51, T:0.30
Consensus pattern (22 bp):
ATGGTGTGCAGGGTTGATGGAG
Found at i:25115024 original size:16 final size:17
Alignment explanation
Indices: 25114993--25115025 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
25114983 TTCATAAGTA
25114993 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
25115010 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
25115026 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:25115373 original size:46 final size:46
Alignment explanation
Indices: 25115321--25115487 Score: 246
Period size: 46 Copynumber: 3.6 Consensus size: 46
25115311 TGCCATAGTG
* * * *
25115321 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCA-TTTCATGTCACGCTACCATGGTA
* *
25115367 TATTTCAACCATGGTCTTATTCATTTCATGTCACGCTACCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCACGCTACCATGGTA
*
25115413 TCTTTCAACCATGGTCTTATTCATTTCATGTCACGCTACCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCACGCTACCATGGTA
*
25115459 TCTTTCAACCATGGTCTTACACATTTCAT
1 TCTTTCAACCATGGTCTTACTCATTTCAT
25115488 ATCAGAGAAC
Statistics
Matches: 111, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
45 4 0.04
46 107 0.96
ACGTcount: A:0.22, C:0.25, G:0.13, T:0.41
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACTCATTTCATGTCACGCTACCATGGTA
Found at i:25120080 original size:53 final size:53
Alignment explanation
Indices: 25119897--25120103 Score: 200
Period size: 53 Copynumber: 3.8 Consensus size: 53
25119887 ATTAGGGTTT
* * * *
25119897 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG-TTCATAAGGC
* * * * * * * *
25119951 AAGGAAATCATATAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGTC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGT-AAGTTC-ATAAGGC
* * * *
25120006 AAAGATCCCATGTAAGACCATGCCAAGGCATGGC-TATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAT-TGGTAAGTTCATAAGGC
* * *
25120059 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT
25120104 TAAAAAGGAA
Statistics
Matches: 118, Mismatches: 31, Indels: 9
0.75 0.20 0.06
Matches are distributed among these distances:
53 43 0.36
54 38 0.32
55 37 0.31
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:25125269 original size:43 final size:43
Alignment explanation
Indices: 25125211--25125293 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
25125201 GACATGGGCA
* * * *
25125211 TGTCTCTTGATCGTGTGTGGCACACGGCCTGACCATATGGGTG
1 TGTCTCTCGACCGTGTGTGGCAAACGGCCTGACCAAATGGGTG
25125254 TGTCTCTCGACCGTGTGTGGCAAACGGCCTGACCAAATGG
1 TGTCTCTCGACCGTGTGTGGCAAACGGCCTGACCAAATGG
25125294 ACGTGTGTAC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.17, C:0.25, G:0.31, T:0.27
Consensus pattern (43 bp):
TGTCTCTCGACCGTGTGTGGCAAACGGCCTGACCAAATGGGTG
Found at i:25125603 original size:14 final size:14
Alignment explanation
Indices: 25125584--25125618 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
25125574 TCAATTAAGG
25125584 AAATTTTGAGGCCA
1 AAATTTTGAGGCCA
*
25125598 AAATTTCGAGGCCA
1 AAATTTTGAGGCCA
25125612 AAATTTT
1 AAATTTT
25125619 TTATAGGGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.31
Consensus pattern (14 bp):
AAATTTTGAGGCCA
Found at i:25127487 original size:41 final size:41
Alignment explanation
Indices: 25127371--25127636 Score: 430
Period size: 41 Copynumber: 6.6 Consensus size: 41
25127361 ATTAGCGGTA
* *
25127371 TTTTTGACAAAACGCCGCT-AAAAACAGAGCAATAGCGGCG
1 TTTTTGGCAAAGCGCCGCTAAAAAACAGAGCAATAGCGGCG
25127411 TTTTTGGCAAAGCGCCGCT-AAAAACAGAGCAATAGCGGCG
1 TTTTTGGCAAAGCGCCGCTAAAAAACAGAGCAATAGCGGCG
*
25127451 TTTTTGGCAAAGCGCCCCTAAAAAACAGAGCAATAGCGGCG
1 TTTTTGGCAAAGCGCCGCTAAAAAACAGAGCAATAGCGGCG
*
25127492 TTTTTGGCAAAGCGCCGCTAAAAAACATAGCAATAGCGGCG
1 TTTTTGGCAAAGCGCCGCTAAAAAACAGAGCAATAGCGGCG
* *
25127533 TTTTTGTCAAAGCGCCGCTAAAAAATAGAGCAATAGCGGCG
1 TTTTTGGCAAAGCGCCGCTAAAAAACAGAGCAATAGCGGCG
*
25127574 TTTTTGGCAAAGCGCCGCGAAAAAACAGAGCAATAGCGGCG
1 TTTTTGGCAAAGCGCCGCTAAAAAACAGAGCAATAGCGGCG
* *
25127615 TTTTTGGTAAAACG-CGCTAAAA
1 TTTTTGGCAAAGCGCCGCTAAAA
25127637 GTCATATAAC
Statistics
Matches: 211, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
40 63 0.30
41 148 0.70
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (41 bp):
TTTTTGGCAAAGCGCCGCTAAAAAACAGAGCAATAGCGGCG
Found at i:25127766 original size:46 final size:47
Alignment explanation
Indices: 25127638--25127768 Score: 138
Period size: 46 Copynumber: 2.7 Consensus size: 47
25127628 GCGCTAAAAG
* * * * *
25127638 TCATATAACCTCTAAAACCTTAAACCCCCAAAAGAATCATAGACACTAG
1 TCATATAACCCCTAAAACCCTAAA--CCCAAAAAAACCATAGACACTAA
* * * *
25127687 TCTATATAACCCCTAAAACCCTAGATCCAAAAAAACCCTAGATACTAA
1 TC-ATATAACCCCTAAAACCCTAAACCCAAAAAAACCATAGACACTAA
*
25127735 TC-TATAACCCCTAAAACCCTAAACCCTAAAAAAC
1 TCATATAACCCCTAAAACCCTAAACCCAAAAAAAC
25127769 ATCATATGGA
Statistics
Matches: 69, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
46 29 0.42
48 19 0.28
49 2 0.03
50 19 0.28
ACGTcount: A:0.46, C:0.31, G:0.04, T:0.20
Consensus pattern (47 bp):
TCATATAACCCCTAAAACCCTAAACCCAAAAAAACCATAGACACTAA
Found at i:25128615 original size:6 final size:6
Alignment explanation
Indices: 25128604--25128628 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
25128594 ACCCATATGA
25128604 TCCCTT TCCCTT TCCCTT TCCCTT T
1 TCCCTT TCCCTT TCCCTT TCCCTT T
25128629 GGTTTTGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (6 bp):
TCCCTT
Found at i:25129279 original size:7 final size:7
Alignment explanation
Indices: 25129267--25129319 Score: 106
Period size: 7 Copynumber: 7.6 Consensus size: 7
25129257 AATCTTTAAA
25129267 AAAATTG
1 AAAATTG
25129274 AAAATTG
1 AAAATTG
25129281 AAAATTG
1 AAAATTG
25129288 AAAATTG
1 AAAATTG
25129295 AAAATTG
1 AAAATTG
25129302 AAAATTG
1 AAAATTG
25129309 AAAATTG
1 AAAATTG
25129316 AAAA
1 AAAA
25129320 ATAAAAAAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 46 1.00
ACGTcount: A:0.60, C:0.00, G:0.13, T:0.26
Consensus pattern (7 bp):
AAAATTG
Found at i:25129326 original size:14 final size:14
Alignment explanation
Indices: 25129266--25129326 Score: 86
Period size: 14 Copynumber: 4.4 Consensus size: 14
25129256 AAATCTTTAA
25129266 AAAAATTGAAAATT
1 AAAAATTGAAAATT
*
25129280 GAAAATTGAAAATT
1 AAAAATTGAAAATT
*
25129294 GAAAATTGAAAATT
1 AAAAATTGAAAATT
* *
25129308 GAAAATTGAAAAAT
1 AAAAATTGAAAATT
25129322 AAAAA
1 AAAAA
25129327 AATAAAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 44 1.00
ACGTcount: A:0.64, C:0.00, G:0.11, T:0.25
Consensus pattern (14 bp):
AAAAATTGAAAATT
Found at i:25129499 original size:30 final size:26
Alignment explanation
Indices: 25129448--25129502 Score: 74
Period size: 30 Copynumber: 2.0 Consensus size: 26
25129438 TAATCTCAGC
25129448 AAAAAAATTTTAAAAGAAAAAAATAG
1 AAAAAAATTTTAAAAGAAAAAAATAG
25129474 AAAAAAATATGTTAAAAATGAAAAAAATA
1 AAAAAAAT-T-TT-AAAA-GAAAAAAATA
25129503 ATAAAATTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 8 0.32
27 1 0.04
28 2 0.08
29 4 0.16
30 10 0.40
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (26 bp):
AAAAAAATTTTAAAAGAAAAAAATAG
Found at i:25129561 original size:22 final size:22
Alignment explanation
Indices: 25129533--25129577 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
25129523 CGTTTTTAGT
* *
25129533 AAAAACGCCGCAAAAAGTTGAG
1 AAAAACGCCACAAAAAATTGAG
25129555 AAAAACGCCACAAAAAATTGAG
1 AAAAACGCCACAAAAAATTGAG
25129577 A
1 A
25129578 TACAGTGGCG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.56, C:0.18, G:0.18, T:0.09
Consensus pattern (22 bp):
AAAAACGCCACAAAAAATTGAG
Found at i:25145601 original size:5 final size:5
Alignment explanation
Indices: 25145591--25145644 Score: 108
Period size: 5 Copynumber: 10.8 Consensus size: 5
25145581 CATTTTTATG
25145591 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
25145641 AATA
1 AATA
25145645 GACAAATAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 49 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
AATAT
Found at i:25146755 original size:15 final size:14
Alignment explanation
Indices: 25146728--25146754 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
25146718 GGCTATAGTG
25146728 AAATATTAAAAAAT
1 AAATATTAAAAAAT
25146742 AAATATTAAAAAA
1 AAATATTAAAAAA
25146755 AGGAGACATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AAATATTAAAAAAT
Found at i:25151270 original size:47 final size:47
Alignment explanation
Indices: 25151213--25151469 Score: 365
Period size: 47 Copynumber: 5.4 Consensus size: 47
25151203 ATTGATGTAC
* * *
25151213 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
25151260 AAGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATAT--GTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
25151309 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
25151356 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
25151403 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGG
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
25151450 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
25151470 TCCCGAAGGG
Statistics
Matches: 196, Mismatches: 10, Indels: 8
0.92 0.05 0.04
Matches are distributed among these distances:
46 1 0.01
47 154 0.79
49 40 0.20
50 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:25151394 original size:22 final size:22
Alignment explanation
Indices: 25151367--25151441 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
25151357 CATGTGTATG
25151367 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
25151389 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
25151414 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
25151436 TGTGAT
1 TGTGAT
25151442 GGATGTGGAA
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 14 0.37
23 8 0.21
24 8 0.21
25 8 0.21
ACGTcount: A:0.32, C:0.11, G:0.31, T:0.27
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:25164598 original size:28 final size:28
Alignment explanation
Indices: 25164558--25164669 Score: 109
Period size: 28 Copynumber: 4.0 Consensus size: 28
25164548 GGCCAAGCAA
* * *
25164558 AATATCTCTACAGTGACCAGTGTTACTG
1 AATATCTCTACAGAGACCACTATTACTG
*
25164586 AATATCTCTACAGAGACCACTATTACTT
1 AATATCTCTACAGAGACCACTATTACTG
* ** *
25164614 AATGTCTCTAGGGAGACCACAATTACTG
1 AATATCTCTACAGAGACCACTATTACTG
* * *
25164642 AATGTCTCTTC-GAAGACCACTGTTACTG
1 AATATCTCTACAG-AGACCACTATTACTG
25164670 TATGTGTCAT
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
27 1 0.01
28 69 0.99
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.30
Consensus pattern (28 bp):
AATATCTCTACAGAGACCACTATTACTG
Found at i:25172040 original size:12 final size:12
Alignment explanation
Indices: 25172022--25172055 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
25172012 CCATGTGTAG
25172022 CACACGGCTTAC
1 CACACGGCTTAC
* *
25172034 TACACGGCCTAC
1 CACACGGCTTAC
25172046 CACACGGCTT
1 CACACGGCTT
25172056 TGTGACATTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.24, C:0.41, G:0.18, T:0.18
Consensus pattern (12 bp):
CACACGGCTTAC
Found at i:25183134 original size:40 final size:40
Alignment explanation
Indices: 25183075--25183246 Score: 229
Period size: 40 Copynumber: 4.3 Consensus size: 40
25183065 CATTTGAATG
* *
25183075 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
*
25183115 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * * * * *
25183155 TTATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
25183195 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
25183235 ATATCC-GGCTAA
1 ATATCCGGGCTAA
25183247 ATTCCGAAGA
Statistics
Matches: 114, Mismatches: 18, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
39 6 0.05
40 108 0.95
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:25187012 original size:6 final size:6
Alignment explanation
Indices: 25187001--25187025 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
25186991 GAACCAAAAT
25187001 AAATTA AAATTA AAATTA AAATTA A
1 AAATTA AAATTA AAATTA AAATTA A
25187026 GAAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AAATTA
Found at i:25190489 original size:40 final size:42
Alignment explanation
Indices: 25190377--25190512 Score: 131
Period size: 40 Copynumber: 3.4 Consensus size: 42
25190367 TATTATAATC
* *
25190377 TCGCACACTAAGTGCCT-TTCATACCCGAAGCTA-TCTCAATT
1 TCGCACACTAAGTG-CTATTTATAACCGAAGCTATTCTCAATT
** * * *
25190418 TCGCACACTAAGTTTTATATATAACCAAAGCTATTC-CGA-T
1 TCGCACACTAAGTGCTATTTATAACCGAAGCTATTCTCAATT
* **
25190458 TCGCACACTAAGTGCTATTTATAGCCGAAGCTA-TCTCAAAA
1 TCGCACACTAAGTGCTATTTATAACCGAAGCTATTCTCAATT
25190499 T-GCACACTAAGTGC
1 TCGCACACTAAGTGC
25190513 CAAACATAGT
Statistics
Matches: 77, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
39 2 0.03
40 45 0.58
41 28 0.36
42 2 0.03
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (42 bp):
TCGCACACTAAGTGCTATTTATAACCGAAGCTATTCTCAATT
Found at i:25191741 original size:11 final size:11
Alignment explanation
Indices: 25191722--25191753 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
25191712 TGATTTCATG
*
25191722 ATTTTGTGAAA
1 ATTTCGTGAAA
25191733 ATTTCGTGAAA
1 ATTTCGTGAAA
25191744 ATTTCGTGAA
1 ATTTCGTGAA
25191754 GAAATTCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.34, C:0.06, G:0.19, T:0.41
Consensus pattern (11 bp):
ATTTCGTGAAA
Found at i:25193279 original size:68 final size:63
Alignment explanation
Indices: 25193162--25193414 Score: 192
Period size: 68 Copynumber: 3.9 Consensus size: 63
25193152 ATACAGATGG
* * *
25193162 TATGTAGCTAGGTCACA-GGTGTGGTACTGAGTGCACATCATGT-GTACAAGAGAGCTACAAGAC
1 TATGTAGCTAGGTCGCATGG-GTGGTACT-AGTGAACACCATGTAG-ACAAGAGAGCTAC--GAC
25193225 ATTA
61 A-TA
* * **
25193229 TGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATA
1 T-ATGTAGCTAGGTCGCATGGGTGGTACTA-GTGAACACCATGTAGACAAGAGAGCTACGACATA
* * * *
25193294 TATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGGCACCATGTAGACAAGAGAGCTACGAGA
1 TATGTAGCTAGGTCGCATGGGTGGTACTA-GTGAA---CACCATGTAGACAAGAGAGCTACGACA
25193359 TA
62 TA
* ** **
25193361 AACTG--GCTAGGTTACATGGGTGGTACTAAGTGCTCACCATGT-GTACAAGAGAGC
1 TA-TGTAGCTAGGTCGCATGGGTGGTACT-AGTGAACACCATGTAG-ACAAGAGAGC
25193415 CGAACTATAT
Statistics
Matches: 155, Mismatches: 21, Indels: 24
0.77 0.10 0.12
Matches are distributed among these distances:
62 1 0.01
63 18 0.12
64 28 0.18
65 3 0.02
66 22 0.14
67 32 0.21
68 48 0.31
69 3 0.02
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (63 bp):
TATGTAGCTAGGTCGCATGGGTGGTACTAGTGAACACCATGTAGACAAGAGAGCTACGACATA
Found at i:25201943 original size:78 final size:78
Alignment explanation
Indices: 25201812--25201994 Score: 233
Period size: 78 Copynumber: 2.3 Consensus size: 78
25201802 CCAAGCAGAC
* * *
25201812 CCTTTGTTGAAAGTCATCTGTAAATCCCTTGGAGCAAATTATCTAAAAAGCCTATGTCACGTGTT
1 CCTTTGTTGCAAGTCATCTGTAAAGCCCTTGGAGCAAATTATCTAAAAAGCCTATGTCACATGTT
*
25201877 GTTATCTGGAAAG
66 GTTATCTAGAAAG
* * * * * * **
25201890 CCTTTGTGGCAAGTCATCTGTAAAGCCCTTGGGGCTAATTATTTGAAACGCCTATGTGGCATGTT
1 CCTTTGTTGCAAGTCATCTGTAAAGCCCTTGGAGCAAATTATCTAAAAAGCCTATGTCACATGTT
25201955 GTTATCTAGAAAG
66 GTTATCTAGAAAG
*
25201968 CCTTTGTTACAAGTCATCTAG-AAAGCC
1 CCTTTGTTGCAAGTCATCT-GTAAAGCC
25201995 TATATGGCGA
Statistics
Matches: 90, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
78 89 0.99
79 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (78 bp):
CCTTTGTTGCAAGTCATCTGTAAAGCCCTTGGAGCAAATTATCTAAAAAGCCTATGTCACATGTT
GTTATCTAGAAAG
Found at i:25205234 original size:12 final size:12
Alignment explanation
Indices: 25205217--25205242 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
25205207 GTACTACACA
25205217 GACCATTCAGAT
1 GACCATTCAGAT
25205229 GACCATTCAGAT
1 GACCATTCAGAT
25205241 GA
1 GA
25205243 ATTCCACATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (12 bp):
GACCATTCAGAT
Found at i:25233993 original size:6 final size:6
Alignment explanation
Indices: 25233982--25234057 Score: 66
Period size: 6 Copynumber: 12.3 Consensus size: 6
25233972 TATCAAAACT
* * *
25233982 AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGTATC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
*
25234031 AGGTAA-C AGAATC AAAATC AGAATC AG
1 A-G-AATC AGAATC AGAATC AGAATC AG
25234058 TATTAGGTAA
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
5 3 0.05
6 46 0.82
7 5 0.09
8 2 0.04
ACGTcount: A:0.47, C:0.14, G:0.20, T:0.18
Consensus pattern (6 bp):
AGAATC
Found at i:25234015 original size:25 final size:25
Alignment explanation
Indices: 25233987--25234057 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
25233977 AAACTAGAAT
* *
25233987 CAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGGTAA
*
25234012 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
*
25234037 CAGAATCAAAATCAGAATCAG
1 CAGAATCAGAATCAGAATCAG
25234058 TATTAGGTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.18
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:25234018 original size:31 final size:30
Alignment explanation
Indices: 25233982--25234086 Score: 112
Period size: 31 Copynumber: 3.6 Consensus size: 30
25233972 TATCAAAACT
* *
25233982 AGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAG-ATTAGGTAAC
* *
25234013 AGAATCAGAATCAG--T---ATCAGGTAAC
1 AGAATCAAAATCAGAATCAGATTAGGTAAC
25234038 AGAATCAAAATCAGAATCAGTATTAGGTAAC
1 AGAATCAAAATCAGAATCAG-ATTAGGTAAC
25234069 AGAATCAAAAATCAGAAT
1 AGAATC-AAAATCAGAAT
25234087 GTGAATGCAA
Statistics
Matches: 63, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
25 21 0.33
27 1 0.02
29 1 0.02
31 29 0.46
32 11 0.17
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.20
Consensus pattern (30 bp):
AGAATCAAAATCAGAATCAGATTAGGTAAC
Found at i:25234074 original size:25 final size:25
Alignment explanation
Indices: 25233987--25234075 Score: 97
Period size: 25 Copynumber: 3.3 Consensus size: 25
25233977 AAACTAGAAT
* *
25233987 CAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGTATTAGGTAA
*
25234012 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGTATTAGGTAA
25234037 CAGAATCAAAATCAGAATCAGTATTAGGTAA
1 CAG------AATCAGAATCAGTATTAGGTAA
25234068 CAGAATCA
1 CAGAATCA
25234076 AAAATCAGAA
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
25 30 0.56
31 24 0.44
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.20
Consensus pattern (25 bp):
CAGAATCAGAATCAGTATTAGGTAA
Found at i:25235029 original size:27 final size:27
Alignment explanation
Indices: 25234971--25235524 Score: 572
Period size: 27 Copynumber: 20.3 Consensus size: 27
25234961 AGGGGCAAAA
* * * *
25234971 TGGTAATTTTACCCCACA-AGGTATCT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * *
25234997 CGGTAATTCCACCCTATAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
25235024 TAGTAATTCTACCCTACAGGGGTATTG
1 TGGTAATTCTACCCTACAGGGGTATTT
* * * *
25235051 CGATAATTCTACCCTACAGGCGTATTG
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
25235078 CGATAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * *
25235105 TCGTAATTCTACCCTACAGGAGTATTC
1 TGGTAATTCTACCCTACAGGGGTATTT
25235132 TGGTAATTCTACCCTACTACCCTACAGGGGTATTT
1 TGGTAA---T----T-CTACCCTACAGGGGTATTT
** * *
25235167 CAGCAATTCTACCCTACAGGGGTATTC
1 TGGTAATTCTACCCTACAGGGGTATTT
25235194 TGGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
25235221 CGGTAATTCTACCCTACAGGGGTATTC
1 TGGTAATTCTACCCTACAGGGGTATTT
*
25235248 CGGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * *
25235275 CGATAATTCTACCCTACAGGGGTATTG
1 TGGTAATTCTACCCTACAGGGGTATTT
* * *
25235302 CGATAATTCTACCCTACAGGGGTATTC
1 TGGTAATTCTACCCTACAGGGGTATTT
*
25235329 CGGTAATTCTACCCTACA-GGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * *
25235355 CGATAATTCTACCCTACAGGGGTATTG
1 TGGTAATTCTACCCTACAGGGGTATTT
* * *
25235382 CGATAATTCTACCCTACAAGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * * *
25235409 TGGTAATTTTACTCTATAGGGGTATTG
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
25235436 TGATAATTCTACCTTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * *
25235463 CGGTAATTCTACCCTATAAGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
25235490 TGGTATTTCTACCCTACATGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
*
25235517 CGGTAATT
1 TGGTAATT
25235525 TTGTAAATCG
Statistics
Matches: 448, Mismatches: 70, Indels: 19
0.83 0.13 0.04
Matches are distributed among these distances:
26 37 0.08
27 387 0.86
28 1 0.00
30 1 0.00
32 1 0.00
34 1 0.00
35 20 0.04
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.34
Consensus pattern (27 bp):
TGGTAATTCTACCCTACAGGGGTATTT
Found at i:25235099 original size:81 final size:82
Alignment explanation
Indices: 25234990--25235524 Score: 638
Period size: 81 Copynumber: 6.5 Consensus size: 82
25234980 TACCCCACAA
* * * *
25234990 GGTATCTCGGTAATTCCACCCTATAGGGGTATTTTAG-TAATTCTACCCTACAGGGGTATTGCGA
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTTCGATAATTCTACCCTACAGGGGTATTGCGA
25235054 TAATTCTACCCTACAGG
66 TAATTCTACCCTACAGG
* * * *
25235071 CGTATTGCGATAATTCTACCCTACAGGGGTATTTTCG-TAATTCTACCCTACAGGAGTATT-CTG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTTCGATAATTCTACCCTACAGGGGTATTGC-G
*
25235134 GTAATTCTACCCTACTACCCTACAGG
65 ATAA---T----T-CTACCCTACAGG
* * * * * *
25235160 GGTATTTCAGCAATTCTACCCTACAGGGGTATTCT-GGTAATTCTACCCTACAGGGGTATTTCGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTTCGATAATTCTACCCTACAGGGGTATTGCGA
25235224 TAATTCTACCCTACAGG
66 TAATTCTACCCTACAGG
*
25235241 GGTATTCCGGTAATTCTACCCTACAGGGGTA-TTTCGATAATTCTACCCTACAGGGGTATTGCGA
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTTCGATAATTCTACCCTACAGGGGTATTGCGA
25235305 TAATTCTACCCTACAGG
66 TAATTCTACCCTACAGG
*
25235322 GGTATTCCGGTAATTCTACCCTACA-GGGTA-TTTCGATAATTCTACCCTACAGGGGTATTGCGA
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTTCGATAATTCTACCCTACAGGGGTATTGCGA
*
25235385 TAATTCTACCCTACAAG
66 TAATTCTACCCTACAGG
* * * * * * * *
25235402 GGTATTTTGGTAATTTTACTCTATAGGGGTATTGT-GATAATTCTACCTTACAGGGGTATTTCGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTTCGATAATTCTACCCTACAGGGGTATTGCGA
* *
25235466 TAATTCTACCCTATAAG
66 TAATTCTACCCTACAGG
* * * *
25235483 GGTATTTTGGTATTTCTACCCTACATGGGTA-TTTCGGTAATT
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTTCGATAATT
25235525 TTGTAAATCG
Statistics
Matches: 398, Mismatches: 41, Indels: 30
0.85 0.09 0.06
Matches are distributed among these distances:
80 79 0.20
81 243 0.61
82 3 0.01
84 1 0.00
86 1 0.00
88 2 0.01
89 68 0.17
90 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.34
Consensus pattern (82 bp):
GGTATTTCGGTAATTCTACCCTACAGGGGTATTTTCGATAATTCTACCCTACAGGGGTATTGCGA
TAATTCTACCCTACAGG
Found at i:25235159 original size:35 final size:35
Alignment explanation
Indices: 25235113--25235183 Score: 99
Period size: 35 Copynumber: 2.0 Consensus size: 35
25235103 TTTCGTAATT
* *
25235113 CTACCCTACAGGAGTA-TTCTGGTAATTCTACCCTA
1 CTACCCTACAGGAGTATTTC-AGCAATTCTACCCTA
*
25235148 CTACCCTACAGGGGTATTTCAGCAATTCTACCCTA
1 CTACCCTACAGGAGTATTTCAGCAATTCTACCCTA
25235183 C
1 C
25235184 AGGGGTATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
35 29 0.91
36 3 0.09
ACGTcount: A:0.25, C:0.31, G:0.14, T:0.30
Consensus pattern (35 bp):
CTACCCTACAGGAGTATTTCAGCAATTCTACCCTA
Found at i:25235575 original size:27 final size:27
Alignment explanation
Indices: 25235545--25235902 Score: 373
Period size: 27 Copynumber: 13.3 Consensus size: 27
25235535 AGGATAAAAC
* *
25235545 GGTAATTTTATAAATCAAGGGTACTTT
1 GGTAATTTTACAAATCAAGGGTATTTT
* * *
25235572 GGTAATTTTACAAGTCGAGGGTATTTC
1 GGTAATTTTACAAATCAAGGGTATTTT
** * * *
25235599 AATAATTTTACAAGTCGAGGGTATTTC
1 GGTAATTTTACAAATCAAGGGTATTTT
* * *
25235626 AGTAATTTCACAAATCAGGGGTATTTT
1 GGTAATTTTACAAATCAAGGGTATTTT
*
25235653 GGTAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATC-AAGGGTATTTT
*
25235680 GATAATTTTACAAATC-AGGGTATTTT
1 GGTAATTTTACAAATCAAGGGTATTTT
*
25235706 GGTAATTTTACAAACCAAGGGTATTTT
1 GGTAATTTTACAAATCAAGGGTATTTT
* *
25235733 GGTAATTTTATAAA-CAAATGGTATTTT
1 GGTAATTTTACAAATC-AAGGGTATTTT
* * *
25235760 AGTAATTTTACAAACCAGGGGTATTTT
1 GGTAATTTTACAAATCAAGGGTATTTT
** *
25235787 GGTAATTTTGTAAACCAAGGGTATTTT
1 GGTAATTTTACAAATCAAGGGTATTTT
* *
25235814 GGTAATTTCACAAA-CCAGAGGTATTTT
1 GGTAATTTTACAAATCAAG-GGTATTTT
* * *
25235841 GGTAATTTTTCTAATCGAGGGTATTTT
1 GGTAATTTTACAAATCAAGGGTATTTT
* * *
25235868 AGTAATTTTACAAACCAGGGGTATTTT
1 GGTAATTTTACAAATCAAGGGTATTTT
25235895 GGTAATTT
1 GGTAATTT
25235903 GGTAAACTAA
Statistics
Matches: 280, Mismatches: 44, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
26 28 0.10
27 247 0.88
28 5 0.02
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
GGTAATTTTACAAATCAAGGGTATTTT
Found at i:25235594 original size:81 final size:81
Alignment explanation
Indices: 25235455--25235902 Score: 379
Period size: 81 Copynumber: 5.5 Consensus size: 81
25235445 TACCTTACAG
* ** ** *
25235455 GGGTATTTCGGTAATTCTACCCTAT-AAGGGTATTTTGGT-ATTTCTACCCTAC-ATGGGTATTT
1 GGGTATTTCGGTAATTTTA-CAAATCAAGGGTATTTTGGTAATTT-TA-CAAACGAGGGGTATTT
* **
25235517 CGGTAATTTTGTAAATCGA
63 CGATAATTTTACAAATCGA
* *** * * * *
25235536 GGATAAAACGGTAATTTTATAAATCAAGGGTACTTTGGTAATTTTACAAGTCGA-GGGTATTTCA
1 GGGTATTTCGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAA-ACGAGGGGTATTTCG
*
25235600 ATAATTTTACAAGTCGA
65 ATAATTTTACAAATCGA
* * * * *
25235617 GGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGA
1 GGGTATTTCGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACGAGGGGTATTTCGA
25235682 TAATTTTACAAATC-A
66 TAATTTTACAAATCGA
* * * * ** *
25235697 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAACAAATGGTATTT-TA
1 GGGTATTTCGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACGAGGGGTATTTCGA
*
25235761 GTAATTTTACAAA-CCA
66 -TAATTTTACAAATCGA
* ** * * * * *
25235777 GGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTCACAAACCAGAGGTATTTTG
1 -GGGTATTTCGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACGAGGGGTATTTCG
* * *
25235842 GTAATTTTTCTAATCGA
65 ATAATTTTACAAATCGA
** * *
25235859 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTT
1 GGGTATTTCGGTAATTTTACAAATCAAGGGTATTTTGGTAATTT
25235903 GGTAAACTAA
Statistics
Matches: 300, Mismatches: 57, Indels: 20
0.80 0.15 0.05
Matches are distributed among these distances:
79 2 0.01
80 72 0.24
81 219 0.73
82 7 0.02
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (81 bp):
GGGTATTTCGGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACGAGGGGTATTTCGA
TAATTTTACAAATCGA
Found at i:25240394 original size:37 final size:37
Alignment explanation
Indices: 25240344--25240422 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
25240334 TTATTACGAA
* * *
25240344 GTCTTACCTGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
25240381 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
25240418 GTCTT
1 GTCTT
25240423 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 35 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:25240618 original size:47 final size:47
Alignment explanation
Indices: 25240540--25240939 Score: 593
Period size: 47 Copynumber: 8.5 Consensus size: 47
25240530 CCCTTCGGGA
* * * * * * *
25240540 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
25240587 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
25240634 CTTATTACATATATACAGTTTCACATTCATCACATCGACTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
25240681 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
25240728 CTTATCACACATATACACTTTCACTTTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
25240775 CTTATCACATATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
25240824 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
25240871 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25240918 CTTATCACATATATACACTTTC
1 CTTATCACATATATACACTTTC
25240940 TTGGCTGAAT
Statistics
Matches: 322, Mismatches: 29, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
47 279 0.87
49 43 0.13
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:25240868 original size:190 final size:190
Alignment explanation
Indices: 25240595--25240939 Score: 636
Period size: 190 Copynumber: 1.8 Consensus size: 190
25240585 GCCCTGTCAC
* * *
25240595 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATTACATATATACAGTTTCACAT
1 ATATATACACTTTCACATTCATCACATCGACCATTAGGCCTTATCACATATATACACTTTCACAT
*
25240660 TCATCACATCGACTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
66 TCATCACATCGACTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
25240725 GGCCTTATCACACATATACACTTTCACTTTCATCACATCGGCTATTAGGCCTTATCACAT
131 GGCCTTATCACACATATACACTTTCACTTTCATCACATCGGCTATTAGGCCTTATCACAT
25240785 ATATATACACTTTCACATTCATCACATCGACCATTAGGCCTTATCACATATATACACTTTCACAT
1 ATATATACACTTTCACATTCATCACATCGACCATTAGGCCTTATCACATATATACACTTTCACAT
*
25240850 TCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
66 TCATCACATCGACTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
*
25240915 GGCCTTATCACATATATACACTTTC
131 GGCCTTATCACACATATACACTTTC
25240940 TTGGCTGAAT
Statistics
Matches: 149, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
190 149 1.00
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.33
Consensus pattern (190 bp):
ATATATACACTTTCACATTCATCACATCGACCATTAGGCCTTATCACATATATACACTTTCACAT
TCATCACATCGACTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
GGCCTTATCACACATATACACTTTCACTTTCATCACATCGGCTATTAGGCCTTATCACAT
Found at i:25255387 original size:42 final size:42
Alignment explanation
Indices: 25255266--25255479 Score: 204
Period size: 42 Copynumber: 5.1 Consensus size: 42
25255256 ACACACGATA
* *
25255266 TCATACTAATGCCATATCCCAGATATGGTCTTACATG-GGATC
1 TCATACTAATGCCATATCCCAGATATGGTCTTACACGAAG-TC
* * * * *
25255308 TCGTA-TCGATGCCAATAGCCCAGCTAGGGTCTTACACGACA-TC
1 TCATACT-AATGCC-ATATCCCAGATATGGTCTTACACGA-AGTC
*
25255351 TCATA-TCAATGCCATATCCCAGATATGGTCTGACACGAAGTC
1 TCATACT-AATGCCATATCCCAGATATGGTCTTACACGAAGTC
* * * *
25255393 TCATACTGATGTCATATCCTAGATGTGGTCTTACACGAAGTC
1 TCATACTAATGCCATATCCCAGATATGGTCTTACACGAAGTC
* * *
25255435 TCATACTAACGTCATACCCCAGATATGGTCTTACAC-ATAGTC
1 TCATACTAATGCCATATCCCAGATATGGTCTTACACGA-AGTC
25255477 TCA
1 TCA
25255480 GTAACCCTAA
Statistics
Matches: 142, Mismatches: 23, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
41 3 0.02
42 105 0.74
43 34 0.24
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (42 bp):
TCATACTAATGCCATATCCCAGATATGGTCTTACACGAAGTC
Found at i:25258935 original size:28 final size:27
Alignment explanation
Indices: 25258890--25258956 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
25258880 AAATGTGCAA
*
25258890 AATTATTATA-AAAATAAT-TAAAATT
1 AATTATTTTATAAAATAATCTAAAATT
* *
25258915 CAATATGTTTTATAAAATAATCTTAAATT
1 -AAT-TATTTTATAAAATAATCTAAAATT
25258944 AATTATTTTATAA
1 AATTATTTTATAA
25258957 TAAAAGCATA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
26 3 0.09
27 14 0.41
28 11 0.32
29 6 0.18
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (27 bp):
AATTATTTTATAAAATAATCTAAAATT
Found at i:25266639 original size:46 final size:46
Alignment explanation
Indices: 25266589--25266714 Score: 130
Period size: 46 Copynumber: 2.7 Consensus size: 46
25266579 GACGAGTGCT
* *
25266589 AGTGTAAGACATGTTTGGGACATGCATCGGCCT-CGAGGCG-TAAGCC
1 AGTGTAAGACATGTTTGGGACATGCATC-GACTACGAGACGATAA-CC
* * * **
25266635 AGTGTAAGACATGTCTGGAACATGCGTCGACTACGAGACGATAATT
1 AGTGTAAGACATGTTTGGGACATGCATCGACTACGAGACGATAACC
*
25266681 AGTGTAAGACCATGTTTGGGACATGGCTTCGACT
1 AGTGTAAGA-CATGTTTGGGACAT-GCATCGACT
25266715 TGATATATAA
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
45 3 0.05
46 40 0.61
47 15 0.23
48 8 0.12
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTTTGGGACATGCATCGACTACGAGACGATAACC
Found at i:25274293 original size:46 final size:46
Alignment explanation
Indices: 25274198--25274312 Score: 151
Period size: 46 Copynumber: 2.5 Consensus size: 46
25274188 GTGAGCTAGC
* * * *
25274198 GTAAGACAATGTCTGGGACATGGCATCGGCATTGAGACGAGTGCTAGT
1 GTAAGAC-ATGTCTGGGACAT-GCATCGACATCGAGACGAGAGCCAGT
*
25274246 GTAAGACATGTCTGGGACATGCATCGACCTCGAGACGTA-AGCCAGT
1 GTAAGACATGTCTGGGACATGCATCGACATCGAGACG-AGAGCCAGT
25274292 GTAAGACATGTCTGGGACATG
1 GTAAGACATGTCTGGGACATG
25274313 TGTCGGCTAC
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
46 40 0.66
47 14 0.23
48 7 0.11
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (46 bp):
GTAAGACATGTCTGGGACATGCATCGACATCGAGACGAGAGCCAGT
Found at i:25275607 original size:21 final size:22
Alignment explanation
Indices: 25275567--25275610 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
25275557 GTCAAATTGA
25275567 TCACACGGGCGTGTTGCCCCTT
1 TCACACGGGCGTGTTGCCCCTT
*
25275589 TCACAGGGGCGTG-TGCCCCTT
1 TCACACGGGCGTGTTGCCCCTT
25275610 T
1 T
25275611 GTCAAATGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.09, C:0.34, G:0.30, T:0.27
Consensus pattern (22 bp):
TCACACGGGCGTGTTGCCCCTT
Found at i:25282907 original size:15 final size:13
Alignment explanation
Indices: 25282875--25282899 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25282865 TATATTAATC
25282875 TTTTATCTTATTG
1 TTTTATCTTATTG
25282888 TTTTATCTTATT
1 TTTTATCTTATT
25282900 ATGTTTTAAT
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:0.16, C:0.08, G:0.04, T:0.72
Consensus pattern (13 bp):
TTTTATCTTATTG
Found at i:25288615 original size:13 final size:13
Alignment explanation
Indices: 25288597--25288621 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25288587 CATGGGCGTG
25288597 TGGCCAACCCGTA
1 TGGCCAACCCGTA
25288610 TGGCCAACCCGT
1 TGGCCAACCCGT
25288622 GAAGGCAACG
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:0.20, C:0.40, G:0.24, T:0.16
Consensus pattern (13 bp):
TGGCCAACCCGTA
Found at i:25293065 original size:14 final size:15
Alignment explanation
Indices: 25293046--25293086 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
25293036 TCTTTCATTA
*
25293046 AAAATAACTTTC-GG
1 AAAATAACTTACTGG
25293060 AAAATAA-TTACTGG
1 AAAATAACTTACTGG
25293074 AAAATAACTTACT
1 AAAATAACTTACT
25293087 TTTCTAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 3 0.12
14 16 0.67
15 5 0.21
ACGTcount: A:0.49, C:0.12, G:0.10, T:0.29
Consensus pattern (15 bp):
AAAATAACTTACTGG
Found at i:25293711 original size:30 final size:30
Alignment explanation
Indices: 25293651--25293713 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
25293641 AAATATTAAA
*
25293651 TAATTTATTAAAATAATAAATTATATTAAT
1 TAATTTATTAAAATAATAAATTATAATAAT
* * *
25293681 TAATTTATTATATTATTAAA-TATAAATAAT
1 TAATTTATTAAAATAATAAATTAT-AATAAT
25293711 TAA
1 TAA
25293714 ATATGTATGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 3 0.11
30 25 0.89
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (30 bp):
TAATTTATTAAAATAATAAATTATAATAAT
Found at i:25301392 original size:12 final size:12
Alignment explanation
Indices: 25301377--25301434 Score: 50
Period size: 11 Copynumber: 5.0 Consensus size: 12
25301367 ATTTTTCAAA
*
25301377 ATATAATAAATT
1 ATATATTAAATT
25301389 ATAT-TTAAATT
1 ATATATTAAATT
*
25301400 -TATATTAAATA
1 ATATATTAAATT
* *
25301411 AAATAATTATATT
1 ATAT-ATTAAATT
25301424 A-ATATTAAATT
1 ATATATTAAATT
25301435 TAAAAAAAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
10 3 0.08
11 19 0.51
12 8 0.22
13 7 0.19
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
ATATATTAAATT
Found at i:25307418 original size:22 final size:22
Alignment explanation
Indices: 25307386--25307429 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
25307376 TGAGGTAGTG
*
25307386 TAAGACCATGTCTGGGACATGA
1 TAAGACAATGTCTGGGACATGA
25307408 TAAGACAATGTCTGGGACATGA
1 TAAGACAATGTCTGGGACATGA
25307430 CATCGACATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.23
Consensus pattern (22 bp):
TAAGACAATGTCTGGGACATGA
Found at i:25312342 original size:71 final size:71
Alignment explanation
Indices: 25312226--25312370 Score: 281
Period size: 71 Copynumber: 2.0 Consensus size: 71
25312216 TAGTTTCAGG
25312226 GAAAATTTACGGATCTTAATTTAAAGCTCTGTAGCTCGAATTATAAATAATTGAGTGACTATGAC
1 GAAAATTTACGGATCTTAATTTAAAGCTCTGTAGCTCGAATTATAAATAATTGAGTGACTATGAC
25312291 TCGTGT
66 TCGTGT
*
25312297 GAAAATTTACGGATCTTAATTTGAAGCTCTGTAGCTCGAATTATAAATAATTGAGTGACTATGAC
1 GAAAATTTACGGATCTTAATTTAAAGCTCTGTAGCTCGAATTATAAATAATTGAGTGACTATGAC
25312362 TCGTGT
66 TCGTGT
25312368 GAA
1 GAA
25312371 CAGCTTGATG
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 73 1.00
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.34
Consensus pattern (71 bp):
GAAAATTTACGGATCTTAATTTAAAGCTCTGTAGCTCGAATTATAAATAATTGAGTGACTATGAC
TCGTGT
Found at i:25313199 original size:490 final size:490
Alignment explanation
Indices: 25312279--25313253 Score: 1844
Period size: 490 Copynumber: 2.0 Consensus size: 490
25312269 TAAATAATTG
*
25312279 AGTGACTATGACTCGTGTGAAAATTTACGGATCTTAATTTGAAGCTCTGTAGCTCGAATTATAAA
1 AGTGACTATGACTCATGTGAAAATTTACGGATCTTAATTTGAAGCTCTGTAGCTCGAATTATAAA
*
25312344 TAATTGAGTGACTATGACTCGTGTGAACAGCTTGATGTGAGCATTAATAAGTAAATTGTGAAATA
66 TAATTGAGTGACTATGACTCGTGTGAACAACTTGATGTGAGCATTAATAAGTAAATTGTGAAATA
25312409 GTACTTACAAGAATCTTATATACATTAAGGATGTGGAATGGAAAGGAGAAGGAGAAAAATAAATG
131 GTACTTACAAGAATCTTATATACATTAAGGATGTGGAATGGAAAGGAGAAGGAGAAAAATAAATG
*
25312474 ATATATGTTTATAAGAAAACAGTATGAGAATGATGCATATCATGACATGTATATATATAACTAGT
196 ATATATGTTTATAAGAAAACAGTATGAGAATGATACATATCATGACATGTATATATATAACTAGT
25312539 TTCAATATGATGCTTGTTGGGTATGAAGTTGGATTGAAATGTCTCAAGCAAGTATTTTATTATGC
261 TTCAATATGATGCTTGTTGGGTATGAAGTTGGATTGAAATGTCTCAAGCAAGTATTTTATTATGC
25312604 TCATCTGAAATGTGGTATTTTATGAAGATATGATCTAGCTTTAAATATGAATGCTTGATGATTAA
326 TCATCTGAAATGTGGTATTTTATGAAGATATGATCTAGCTTTAAATATGAATGCTTGATGATTAA
*
25312669 GTTGAAAATATTTGGTAAGATGATAATCATGGTATAAAAGTATAAGTGGTACCATAATAGACAAG
391 GCTGAAAATATTTGGTAAGATGATAATCATGGTATAAAAGTATAAGTGGTACCATAATAGACAAG
25312734 GTAAAATGAGTATGAGAGATACATGTATGAGTATA
456 GTAAAATGAGTATGAGAGATACATGTATGAGTATA
25312769 AGTGACTATGACTCATGTGAAAATTTACGGATCTTAATTTGAAGCTCTGTAGCTCGAATTATAAA
1 AGTGACTATGACTCATGTGAAAATTTACGGATCTTAATTTGAAGCTCTGTAGCTCGAATTATAAA
25312834 TAATTGAGTGACTATGACTCGTGTGAACAACTTGATGTGAGCATTAATAAGTAAATTGTGAAATA
66 TAATTGAGTGACTATGACTCGTGTGAACAACTTGATGTGAGCATTAATAAGTAAATTGTGAAATA
* *
25312899 GTACTTACAAGAATCTTATATACATTAAGGATGTGGAATGGAGAGGAGGAGGA-AGAAAATAAAT
131 GTACTTACAAGAATCTTATATACATTAAGGATGTGGAATGGAAAGGAGAAGGAGA-AAAATAAAT
25312963 GATATATGTTTATAAGAAAACAGTATGAGAATGATACATATCATGACATGTATATATATAACTAG
195 GATATATGTTTATAAGAAAACAGTATGAGAATGATACATATCATGACATGTATATATATAACTAG
* *
25313028 TTTCAATATGATGCTTGTTGGGTATGAAGTTGGATTGAAATGTCTCAGGCAAGTATTTTATTCTG
260 TTTCAATATGATGCTTGTTGGGTATGAAGTTGGATTGAAATGTCTCAAGCAAGTATTTTATTATG
25313093 CTCATCTGAAATGTGGTATTTTATGAAGATATGATCTAGCTTTAAATATGAATGCTTGATGATTA
325 CTCATCTGAAATGTGGTATTTTATGAAGATATGATCTAGCTTTAAATATGAATGCTTGATGATTA
*
25313158 AGCTGAAAATATTTGGTAAGATGATAATCATGGTATAAAAGTATAAGTGGTACCATAATAGACAG
390 AGCTGAAAATATTTGGTAAGATGATAATCATGGTATAAAAGTATAAGTGGTACCATAATAGACAA
*
25313223 GGTAAGATGAGTATGAGAGATACATGTATGA
455 GGTAAAATGAGTATGAGAGATACATGTATGA
25313254 TGACATACAA
Statistics
Matches: 474, Mismatches: 10, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
489 1 0.00
490 473 1.00
ACGTcount: A:0.37, C:0.08, G:0.21, T:0.33
Consensus pattern (490 bp):
AGTGACTATGACTCATGTGAAAATTTACGGATCTTAATTTGAAGCTCTGTAGCTCGAATTATAAA
TAATTGAGTGACTATGACTCGTGTGAACAACTTGATGTGAGCATTAATAAGTAAATTGTGAAATA
GTACTTACAAGAATCTTATATACATTAAGGATGTGGAATGGAAAGGAGAAGGAGAAAAATAAATG
ATATATGTTTATAAGAAAACAGTATGAGAATGATACATATCATGACATGTATATATATAACTAGT
TTCAATATGATGCTTGTTGGGTATGAAGTTGGATTGAAATGTCTCAAGCAAGTATTTTATTATGC
TCATCTGAAATGTGGTATTTTATGAAGATATGATCTAGCTTTAAATATGAATGCTTGATGATTAA
GCTGAAAATATTTGGTAAGATGATAATCATGGTATAAAAGTATAAGTGGTACCATAATAGACAAG
GTAAAATGAGTATGAGAGATACATGTATGAGTATA
Found at i:25314290 original size:13 final size:13
Alignment explanation
Indices: 25314272--25314314 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
25314262 TTTAATAATA
25314272 AAATAAAGAAATG
1 AAATAAAGAAATG
25314285 AAATAAAGAAAT-
1 AAATAAAGAAATG
* *
25314297 AAATGAAATAAAAG
1 AAAT-AAAGAAATG
25314311 AAAT
1 AAAT
25314315 GAAAAAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 4 0.15
13 18 0.69
14 4 0.15
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (13 bp):
AAATAAAGAAATG
Found at i:25314302 original size:17 final size:18
Alignment explanation
Indices: 25314268--25314314 Score: 69
Period size: 17 Copynumber: 2.7 Consensus size: 18
25314258 ATAGTTTAAT
* *
25314268 AATAAAATAAAGAAATGA
1 AATAAAAGAAATAAATGA
25314286 AAT-AAAGAAATAAATGA
1 AATAAAAGAAATAAATGA
25314303 AATAAAAGAAAT
1 AATAAAAGAAAT
25314315 GAAAAAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.72, C:0.00, G:0.11, T:0.17
Consensus pattern (18 bp):
AATAAAAGAAATAAATGA
Found at i:25314306 original size:9 final size:9
Alignment explanation
Indices: 25314280--25314314 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
25314270 TAAAATAAAG
25314280 AAATGAAAT
1 AAATGAAAT
25314289 AAA-GAAAT
1 AAATGAAAT
25314297 AAATGAAAT
1 AAATGAAAT
*
25314306 AAAAGAAAT
1 AAATGAAAT
25314315 GAAAAAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.71, C:0.00, G:0.11, T:0.17
Consensus pattern (9 bp):
AAATGAAAT
Found at i:25314366 original size:4 final size:4
Alignment explanation
Indices: 25314357--25314390 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
25314347 AGAACATGGG
*
25314357 AGAA AGAA AGGAA AGAA AGAA AGAA AGAG AGAA A
1 AGAA AGAA A-GAA AGAA AGAA AGAA AGAA AGAA A
25314391 AGGGAAAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:25315937 original size:22 final size:22
Alignment explanation
Indices: 25315877--25315937 Score: 54
Period size: 22 Copynumber: 2.7 Consensus size: 22
25315867 ATTGAATTGA
*
25315877 GAAAGTGAATTATAATTGATACT
1 GAAAGTGAGTTA-AATTGATACT
*
25315900 GAAA-TGAGATAGAAATT-ATACT
1 GAAAGTGAG-T-TAAATTGATACT
25315922 GAAAAGTGAGTTAAAT
1 G-AAAGTGAGTTAAAT
25315938 ACCCTATTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 9
0.72 0.07 0.21
Matches are distributed among these distances:
22 13 0.42
23 13 0.42
24 5 0.16
ACGTcount: A:0.48, C:0.03, G:0.20, T:0.30
Consensus pattern (22 bp):
GAAAGTGAGTTAAATTGATACT
Found at i:25316125 original size:45 final size:45
Alignment explanation
Indices: 25316046--25316156 Score: 150
Period size: 45 Copynumber: 2.5 Consensus size: 45
25316036 CGACTACTGT
* * *
25316046 TACTGTTACCATTACTGTTACCGATTCGATACTTTGTGTGTCAAA
1 TACTGTTACTATTACTGTTACCGATTCAACACTTTGTGTGTCAAA
* * * **
25316091 TACTATTACTATTACCGTTATCGATTCAACACTTTGTGTGTTGAA
1 TACTGTTACTATTACTGTTACCGATTCAACACTTTGTGTGTCAAA
25316136 TACTGTTACTATTACTGTTAC
1 TACTGTTACTATTACTGTTAC
25316157 TGTTCTGGAT
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 55 1.00
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.42
Consensus pattern (45 bp):
TACTGTTACTATTACTGTTACCGATTCAACACTTTGTGTGTCAAA
Found at i:25316453 original size:18 final size:18
Alignment explanation
Indices: 25316381--25316457 Score: 66
Period size: 18 Copynumber: 4.3 Consensus size: 18
25316371 AATTGATCAA
* * *
25316381 TACTGAATAACTGGTTAT
1 TACTGAATAAATGATTGT
* *
25316399 TATTGAATAATTGATTGT
1 TACTGAATAAATGATTGT
* * *
25316417 TACCGAATAACTGACTGT
1 TACTGAATAAATGATTGT
*
25316435 TACTGAATAAATAATTGT
1 TACTGAATAAATGATTGT
25316453 T-CTGA
1 TACTGA
25316458 TTGTTAATGA
Statistics
Matches: 47, Mismatches: 12, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
17 4 0.09
18 43 0.91
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (18 bp):
TACTGAATAAATGATTGT
Found at i:25318574 original size:34 final size:34
Alignment explanation
Indices: 25318527--25318611 Score: 127
Period size: 34 Copynumber: 2.5 Consensus size: 34
25318517 ATACTACATG
25318527 ATGC-TACTGATACTGTGATAGGCTAAGGCCCTA
1 ATGCATACTGATACTGTGATAGGCTAAGGCCCTA
*
25318560 ATGCATACTGATACTGTGATGGGCTAAGGCCCTA
1 ATGCATACTGATACTGTGATAGGCTAAGGCCCTA
* *
25318594 CTGCATATTTGATACTGT
1 ATGCATA-CTGATACTGT
25318612 ACTGAGATGG
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
33 4 0.09
34 34 0.72
35 9 0.19
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.31
Consensus pattern (34 bp):
ATGCATACTGATACTGTGATAGGCTAAGGCCCTA
Found at i:25323411 original size:111 final size:111
Alignment explanation
Indices: 25323216--25323435 Score: 368
Period size: 111 Copynumber: 2.0 Consensus size: 111
25323206 TCTAATCCTA
* *
25323216 TTAAAATTATGACAATTTTACTGTAAAAGAGTCTATGAGAAAATATATTTAATAGTTATATATTC
1 TTAAAATCATGACAATTTTACTGTAAAAGAATCTATGAGAAAATATATTTAATAGTTATATATTC
* * *
25323281 AATGGGCTTATTATGACCAAATGATTTATTTCTATTTTCAAACTCG
66 AATGGGCTTACTATAACCAAATGATTTATTTCCATTTTCAAACTCG
* *
25323327 TTAAAATCATGACAATTTTACTGTAAAAGAATCTATGAGAAAATATATTTAATAGTTCTATATTT
1 TTAAAATCATGACAATTTTACTGTAAAAGAATCTATGAGAAAATATATTTAATAGTTATATATTC
*
25323392 AATGGGTTTACTATAACCAAATGATTTATTTCCATTTTCAAACT
66 AATGGGCTTACTATAACCAAATGATTTATTTCCATTTTCAAACT
25323436 TCATTTAATT
Statistics
Matches: 101, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
111 101 1.00
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.40
Consensus pattern (111 bp):
TTAAAATCATGACAATTTTACTGTAAAAGAATCTATGAGAAAATATATTTAATAGTTATATATTC
AATGGGCTTACTATAACCAAATGATTTATTTCCATTTTCAAACTCG
Found at i:25323593 original size:58 final size:58
Alignment explanation
Indices: 25323472--25323595 Score: 160
Period size: 57 Copynumber: 2.1 Consensus size: 58
25323462 ATTTCCAAGT
* * *
25323472 CATTTTCATTTTTCATTTTGAAGAAAACCACATTCATTTTCAAATGTTTTCATTTCTT
1 CATTTTCATTTTTCATTTTGAAGAAAACCACATTCATTTCCAAATATTTTCATTTCTC
* * * * *
25323530 GATTTTTA-TTTTCATTTTGGAGAAAATCATATTCATTTCCAAATATTTCTCATTTCTC
1 CATTTTCATTTTTCATTTTGAAGAAAACCACATTCATTTCCAAATATTT-TCATTTCTC
25323588 CATTTTCA
1 CATTTTCA
25323596 CAATTTGTAT
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
57 35 0.64
58 20 0.36
ACGTcount: A:0.27, C:0.17, G:0.06, T:0.50
Consensus pattern (58 bp):
CATTTTCATTTTTCATTTTGAAGAAAACCACATTCATTTCCAAATATTTTCATTTCTC
Found at i:25326236 original size:25 final size:25
Alignment explanation
Indices: 25326206--25326327 Score: 83
Period size: 25 Copynumber: 4.9 Consensus size: 25
25326196 AATAACAGGT
25326206 AGCTCTGAAGAGCCATTAATCGAGA
1 AGCTCTGAAGAGCCATTAATCGAGA
* *
25326231 AGCTCTGGATAGCCA-TATATCGAGA
1 AGCTCTGAAGAGCCATTA-ATCGAGA
* *
25326256 AG-T-TCAAGTGAGCCA-T-ATCGGGA
1 AGCTCTGAA--GAGCCATTAATCGAGA
* * *
25326279 AGCTCCGGAGAGCCATTAATCGGGA
1 AGCTCTGAAGAGCCATTAATCGAGA
** *
25326304 AGCTCACAAAGAGCCTTTAATCGA
1 AGCTC-TGAAGAGCCATTAATCGA
25326328 AAAACTCACA
Statistics
Matches: 76, Mismatches: 13, Indels: 15
0.73 0.12 0.14
Matches are distributed among these distances:
23 16 0.21
24 5 0.07
25 41 0.54
26 14 0.18
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.20
Consensus pattern (25 bp):
AGCTCTGAAGAGCCATTAATCGAGA
Found at i:25326323 original size:26 final size:26
Alignment explanation
Indices: 25326272--25326361 Score: 85
Period size: 26 Copynumber: 3.5 Consensus size: 26
25326262 AGTGAGCCAT
** *
25326272 ATCGGGAAGCTC-CGGAGAGCCATTA
1 ATCGGGAAGCTCACAAAGAGCCTTTA
25326297 ATCGGGAAGCTCACAAAGAGCCTTTA
1 ATCGGGAAGCTCACAAAGAGCCTTTA
** * *
25326323 ATCGAAAAACTCACAAAGAGCCATATA
1 ATCGGGAAGCTCACAAAGAGCC-TTTA
*
25326350 A-CGGGACGCTCA
1 ATCGGGAAGCTCA
25326362 TAATAGTTGT
Statistics
Matches: 52, Mismatches: 11, Indels: 3
0.79 0.17 0.05
Matches are distributed among these distances:
25 12 0.23
26 36 0.69
27 4 0.08
ACGTcount: A:0.37, C:0.24, G:0.23, T:0.16
Consensus pattern (26 bp):
ATCGGGAAGCTCACAAAGAGCCTTTA
Found at i:25332242 original size:17 final size:17
Alignment explanation
Indices: 25332222--25332264 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
25332212 ACATCCTGGT
25332222 TGAGCTCACATCTTTGC
1 TGAGCTCACATCTTTGC
* *
25332239 TGAGCTCACATGTTTGG
1 TGAGCTCACATCTTTGC
25332256 TGAGCTCAC
1 TGAGCTCAC
25332265 GGTTGTGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.19, C:0.26, G:0.23, T:0.33
Consensus pattern (17 bp):
TGAGCTCACATCTTTGC
Found at i:25333387 original size:23 final size:23
Alignment explanation
Indices: 25333318--25333392 Score: 64
Period size: 24 Copynumber: 3.2 Consensus size: 23
25333308 TCTTATGACA
*
25333318 TCCCGTTATTAGCCCTCTCG-AGCT
1 TCCCGTTA-TAGCTCT-TCGAAGCT
* *
25333342 TACCGTATATAGTTCTT-GCAAGCT
1 TCCCGT-TATAGCTCTTCG-AAGCT
*
25333366 TCCCGTTATAGCTCTTCGAAGCG
1 TCCCGTTATAGCTCTTCGAAGCT
25333389 TCCC
1 TCCC
25333393 ATTAGGTTGT
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
22 1 0.02
23 18 0.44
24 20 0.49
25 2 0.05
ACGTcount: A:0.17, C:0.32, G:0.17, T:0.33
Consensus pattern (23 bp):
TCCCGTTATAGCTCTTCGAAGCT
Found at i:25333579 original size:24 final size:24
Alignment explanation
Indices: 25333552--25333695 Score: 105
Period size: 24 Copynumber: 6.0 Consensus size: 24
25333542 AGCTCCCGTT
*
25333552 ATATGGCTCTTTGTGAGCTTCCCG
1 ATATGGCTCTTTATGAGCTTCCCG
* * *
25333576 ATATGGTTCTTTATGAACTTCCTG
1 ATATGGCTCTTTATGAGCTTCCCG
**
25333600 ATTATGGCTC-TTATGAGCTTCCTATT
1 A-TATGGCTCTTTATGAGCTTCC--CG
* *** *
25333626 ATATAGC-CCAGATAAGCTTCCCG
1 ATATGGCTCTTTATGAGCTTCCCG
** *
25333649 ATA-GGCTCTTTGCGGGCTTCCCG
1 ATATGGCTCTTTATGAGCTTCCCG
*
25333672 ATATGGCTCTTTATAAGCTTCCCG
1 ATATGGCTCTTTATGAGCTTCCCG
25333696 TGATAAGGCT
Statistics
Matches: 89, Mismatches: 25, Indels: 12
0.71 0.20 0.10
Matches are distributed among these distances:
22 2 0.02
23 15 0.17
24 49 0.55
25 21 0.24
26 2 0.02
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.37
Consensus pattern (24 bp):
ATATGGCTCTTTATGAGCTTCCCG
Found at i:25335604 original size:44 final size:44
Alignment explanation
Indices: 25335541--25335633 Score: 161
Period size: 44 Copynumber: 2.1 Consensus size: 44
25335531 GAGTGAGTAA
25335541 TTGTAACTATTGGGCATATTTGTT-AGAGTTAAAATTGCTTGTTG
1 TTGTAACTATTGGGCATATTTGTTGAG-GTTAAAATTGCTTGTTG
*
25335585 TTGTAACTATTGGGCATATTTGTTGAGGTTACAATTGCTTGTTG
1 TTGTAACTATTGGGCATATTTGTTGAGGTTAAAATTGCTTGTTG
25335629 TTGTA
1 TTGTA
25335634 GCGGTAAATT
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 45 0.96
45 2 0.04
ACGTcount: A:0.23, C:0.08, G:0.24, T:0.46
Consensus pattern (44 bp):
TTGTAACTATTGGGCATATTTGTTGAGGTTAAAATTGCTTGTTG
Found at i:25336315 original size:137 final size:138
Alignment explanation
Indices: 25335976--25336390 Score: 778
Period size: 138 Copynumber: 3.0 Consensus size: 138
25335966 TTGTGGTGGT
*
25335976 TAGGGTTTGTTTCTTTGGGATTGAGTTGGGCCTTGATTGCCCAAGTATTCATTGTTTGAATTTTT
1 TAGGGTTTGTTTCTTTGGGATTGAGTTGGGCCTTGATTGCTCAAGTATTCATTGTTTGAATTTTT
*
25336041 TTGGACTTTTGAGCCTCCTTATTCAGTGGCT-AAAAAATTGTAAATTAGTCCACTTCAATTTCTT
66 TTGGACTTTTGAGCCTCCTTATTCAGTGGCTAAAAAAATTGCAAATTAGTCCACTTCAATTTCTT
25336105 GAATTTTA
131 GAATTTTA
*
25336113 TAGGGTTTGTTTCTTTGGGATTCAGTTGGGCCTTGATTGCTCAAGTATTCATTGTTTGAATTTTT
1 TAGGGTTTGTTTCTTTGGGATTGAGTTGGGCCTTGATTGCTCAAGTATTCATTGTTTGAATTTTT
25336178 TTGGACTTTTGAGCCTCCTTATTCAGTGGCTAAAAAAATTGCAAATTAGTCCACTTCAATTTCTT
66 TTGGACTTTTGAGCCTCCTTATTCAGTGGCTAAAAAAATTGCAAATTAGTCCACTTCAATTTCTT
25336243 GAATTTTA
131 GAATTTTA
*
25336251 TAGGGTTTGTTTCTTTGGGATTGAGTTAGGCCTTGATTGCTCAAGTATTCATTGTTTGAATTTTT
1 TAGGGTTTGTTTCTTTGGGATTGAGTTGGGCCTTGATTGCTCAAGTATTCATTGTTTGAATTTTT
*
25336316 TTGGACTTTTGAGCCTTCTTATTCAGTGGCTAAAAAAATTGCAAATTAGTCCACTTCAATTTCTT
66 TTGGACTTTTGAGCCTCCTTATTCAGTGGCTAAAAAAATTGCAAATTAGTCCACTTCAATTTCTT
25336381 GAATTTTA
131 GAATTTTA
25336389 TA
1 TA
25336391 ATCATATTTG
Statistics
Matches: 271, Mismatches: 6, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
137 94 0.35
138 177 0.65
ACGTcount: A:0.23, C:0.14, G:0.19, T:0.45
Consensus pattern (138 bp):
TAGGGTTTGTTTCTTTGGGATTGAGTTGGGCCTTGATTGCTCAAGTATTCATTGTTTGAATTTTT
TTGGACTTTTGAGCCTCCTTATTCAGTGGCTAAAAAAATTGCAAATTAGTCCACTTCAATTTCTT
GAATTTTA
Found at i:25339002 original size:27 final size:24
Alignment explanation
Indices: 25338955--25339017 Score: 63
Period size: 27 Copynumber: 2.5 Consensus size: 24
25338945 TTTATATCTC
25338955 TTTTAAATTTTATAACAAAATTATA
1 TTTTAAATTTTATAACAAAATT-TA
***
25338980 TTTTTATAATTTTATAGTTAAATTTA
1 -TTTTA-AATTTTATAACAAAATTTA
25339006 TTTTAAAATTTT
1 TTTT-AAATTTT
25339018 GATCGATCCT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
25 10 0.31
26 8 0.25
27 14 0.44
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (24 bp):
TTTTAAATTTTATAACAAAATTTA
Found at i:25339272 original size:17 final size:17
Alignment explanation
Indices: 25339246--25339282 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
25339236 GATAAAAACC
* *
25339246 TATAATAAAATTAATGT
1 TATAAAAAAATTAATAT
25339263 TATAAAAAAATTAATAT
1 TATAAAAAAATTAATAT
25339280 TAT
1 TAT
25339283 TTTTTAGAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (17 bp):
TATAAAAAAATTAATAT
Found at i:25339696 original size:10 final size:9
Alignment explanation
Indices: 25339675--25339733 Score: 52
Period size: 10 Copynumber: 6.6 Consensus size: 9
25339665 TTTTAATTTT
25339675 AAAA-ATTA
1 AAAATATTA
25339683 AAAATATATA
1 AAAATAT-TA
* *
25339693 AAAAAATTT
1 AAAATATTA
25339702 AAAA-ATTA
1 AAAATATTA
25339710 AAAATCATTA
1 AAAAT-ATTA
25339720 AAAAGTA-TA
1 AAAA-TATTA
25339729 AAAAT
1 AAAAT
25339734 TATAAAAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
8 12 0.28
9 13 0.30
10 17 0.40
11 1 0.02
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (9 bp):
AAAATATTA
Found at i:25339699 original size:19 final size:18
Alignment explanation
Indices: 25339675--25339732 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 18
25339665 TTTTAATTTT
25339675 AAAAATTAAAAATATATAA
1 AAAAATTAAAAATATA-AA
25339694 AAAAATTTAAAAAT-TAAA
1 AAAAA-TTAAAAATATAAA
**
25339712 AATCATTAAAAAGTATAAA
1 AAAAATTAAAAA-TATAAA
25339731 AA
1 AA
25339733 TTATAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
17 7 0.21
18 6 0.18
19 13 0.38
20 8 0.24
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.26
Consensus pattern (18 bp):
AAAAATTAAAAATATAAA
Found at i:25339707 original size:27 final size:26
Alignment explanation
Indices: 25339672--25339740 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 26
25339662 TTTTTTTAAT
25339672 TTTAAAAATTAAAAAT-ATATAAAAAAA
1 TTTAAAAATTAAAAATCAT-T-AAAAAA
*
25339699 TTTAAAAATTAAAAATCATTAAAAAG
1 TTTAAAAATTAAAAATCATTAAAAAA
*
25339725 TATAAAAATTATAAAA
1 TTTAAAAATTA-AAAA
25339741 AAAATATTTC
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
26 15 0.39
27 21 0.55
28 2 0.05
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.30
Consensus pattern (26 bp):
TTTAAAAATTAAAAATCATTAAAAAA
Found at i:25339742 original size:10 final size:9
Alignment explanation
Indices: 25339669--25339741 Score: 55
Period size: 9 Copynumber: 8.2 Consensus size: 9
25339659 TTATTTTTTT
*
25339669 AATTTTAAA
1 AATTATAAA
25339678 AATTA-AAA
1 AATTATAAA
*
25339686 ATATATAAAAA
1 A-AT-TATAAA
25339697 AATT-TAAA
1 AATTATAAA
25339705 AA-T-TAAA
1 AATTATAAA
*
25339712 AATCATTAAA
1 AATTA-TAAA
*
25339722 AAGTATAAA
1 AATTATAAA
25339731 AATTATAAA
1 AATTATAAA
25339740 AA
1 AA
25339742 AAATATTTCT
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
7 7 0.13
8 9 0.17
9 21 0.40
10 11 0.21
11 4 0.08
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.30
Consensus pattern (9 bp):
AATTATAAA
Found at i:25340645 original size:23 final size:22
Alignment explanation
Indices: 25340598--25340641 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
25340588 TTCAACATGA
* *
25340598 AAAAAATGGGCTTGATTTTTAT
1 AAAAAATGGGCTTGAATTTGAT
*
25340620 AAAAAATGGGTTTGAATTTGAT
1 AAAAAATGGGCTTGAATTTGAT
25340642 TAAATCCAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.39, C:0.02, G:0.20, T:0.39
Consensus pattern (22 bp):
AAAAAATGGGCTTGAATTTGAT
Found at i:25341750 original size:19 final size:19
Alignment explanation
Indices: 25341704--25341743 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
25341694 TCCATAAGAT
25341704 ATAAATTTTGAATTTTAAA
1 ATAAATTTTGAATTTTAAA
25341723 ATAAATTTTGAATTTTAAA
1 ATAAATTTTGAATTTTAAA
25341742 AT
1 AT
25341744 TCATTTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (19 bp):
ATAAATTTTGAATTTTAAA
Found at i:25341785 original size:3 final size:3
Alignment explanation
Indices: 25341777--25341810 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
25341767 AATCCAATGT
25341777 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
25341811 TTTTTTCTCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:25344207 original size:17 final size:18
Alignment explanation
Indices: 25344185--25344223 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
25344175 ATTGAGATAC
25344185 AAATTC-TTAATATTATA
1 AAATTCATTAATATTATA
*
25344202 AAATTCATTATTATTATA
1 AAATTCATTAATATTATA
25344220 AAAT
1 AAAT
25344224 AAGTAGACAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (18 bp):
AAATTCATTAATATTATA
Found at i:25349937 original size:25 final size:25
Alignment explanation
Indices: 25349884--25349999 Score: 117
Period size: 25 Copynumber: 4.6 Consensus size: 25
25349874 GGACACACCA
* * *
25349884 CAGCTTGTATGAGCTTTCCAAT-TT
1 CAGCTTGCATGAGCTTCCCGATATT
*
25349908 ACAGCTTACATGAGCTTCCCGATATT
1 -CAGCTTGCATGAGCTTCCCGATATT
* * *
25349934 CAGCTTGCATGAACTTCCTGTTATT
1 CAGCTTGCATGAGCTTCCCGATATT
* *
25349959 CAGCTTGCATGAGCTTCCTGTTATT
1 CAGCTTGCATGAGCTTCCCGATATT
* *
25349984 CAGCTTGGAAGAGCTT
1 CAGCTTGCATGAGCTT
25350000 ACTGTTTACA
Statistics
Matches: 79, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
25 77 0.97
26 2 0.03
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (25 bp):
CAGCTTGCATGAGCTTCCCGATATT
Found at i:25350004 original size:25 final size:25
Alignment explanation
Indices: 25349909--25350005 Score: 131
Period size: 25 Copynumber: 3.9 Consensus size: 25
25349899 TTCCAATTTA
* * *
25349909 CAGCTTACATGAGCTTCCCGATATT
1 CAGCTTGCATGAGCTTCCTGTTATT
*
25349934 CAGCTTGCATGAACTTCCTGTTATT
1 CAGCTTGCATGAGCTTCCTGTTATT
25349959 CAGCTTGCATGAGCTTCCTGTTATT
1 CAGCTTGCATGAGCTTCCTGTTATT
* * *
25349984 CAGCTTGGAAGAGCTTACTGTT
1 CAGCTTGCATGAGCTTCCTGTT
25350006 TACAGCTCGT
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 64 1.00
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.36
Consensus pattern (25 bp):
CAGCTTGCATGAGCTTCCTGTTATT
Found at i:25350021 original size:24 final size:25
Alignment explanation
Indices: 25349942--25350021 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
25349932 TTCAGCTTGC
* * * * *
25349942 ATGAACTTCCTGTTATTCAGCTTGC
1 ATGAGCTTACTGTTATACAGCTCGG
* * *
25349967 ATGAGCTTCCTGTTATTCAGCTTGG
1 ATGAGCTTACTGTTATACAGCTCGG
* *
25349992 AAGAGCTTACTGTT-TACAGCTCGT
1 ATGAGCTTACTGTTATACAGCTCGG
25350016 ATGAGC
1 ATGAGC
25350022 ATACATGAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
24 12 0.26
25 35 0.74
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (25 bp):
ATGAGCTTACTGTTATACAGCTCGG
Found at i:25353174 original size:25 final size:26
Alignment explanation
Indices: 25353129--25353210 Score: 82
Period size: 25 Copynumber: 3.2 Consensus size: 26
25353119 CAACTCTTAT
* *
25353129 GAGCGTCTCGA-TATATGGCTCTTCA
1 GAGCTTCTCGATTAAATGGCTCTTCA
*
25353154 GAGCTTCTCGATTAAAT-GCTCTTTGA
1 GAGCTTCTCGATTAAATGGCTC-TTCA
*
25353180 GAGCTTCTTGATT-AATGGCTC-TCTA
1 GAGCTTCTCGATTAAATGGCTCTTC-A
25353205 GAGCTT
1 GAGCTT
25353211 GCTAATATAT
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
24 1 0.02
25 24 0.50
26 23 0.48
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.37
Consensus pattern (26 bp):
GAGCTTCTCGATTAAATGGCTCTTCA
Found at i:25353272 original size:24 final size:23
Alignment explanation
Indices: 25353244--25353307 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 23
25353234 TTCCCAATTA
25353244 ATGGCTCTC-TGGAGCTACCTATT
1 ATGGCTCTCAT-GAGCTACCTATT
* *
25353267 ATTGGCTCGCATGAGCTTCCTAGTT
1 A-TGGCTCTCATGAGCTACCTA-TT
*
25353292 ATGGCTCTTATGAGCT
1 ATGGCTCTCATGAGCT
25353308 TCCCGTTATA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
23 1 0.03
24 29 0.85
25 4 0.12
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.36
Consensus pattern (23 bp):
ATGGCTCTCATGAGCTACCTATT
Found at i:25353308 original size:24 final size:24
Alignment explanation
Indices: 25353255--25353310 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
25353245 TGGCTCTCTG
*
25353255 GAGCTACCTATTATTGGCTCGCAT
1 GAGCTTCCTATTATTGGCTCGCAT
**
25353279 GAGCTTCCTAGTTA-TGGCTCTTAT
1 GAGCTTCCTA-TTATTGGCTCGCAT
25353303 GAGCTTCC
1 GAGCTTCC
25353311 CGTTATATGG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 25 0.89
25 3 0.11
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (24 bp):
GAGCTTCCTATTATTGGCTCGCAT
Found at i:25354617 original size:12 final size:12
Alignment explanation
Indices: 25354600--25354624 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25354590 TATTTTGAGT
25354600 TAAAATGGCATG
1 TAAAATGGCATG
25354612 TAAAATGGCATG
1 TAAAATGGCATG
25354624 T
1 T
25354625 GCATAGGTAG
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:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (12 bp):
TAAAATGGCATG
Found at i:25354728 original size:20 final size:20
Alignment explanation
Indices: 25354690--25354728 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
25354680 AAACTCTATC
* *
25354690 TATTTTGGTTTTATTTGAAG
1 TATTTTGGTTCTATATGAAG
25354710 TATTTTGGTTCTATATGAA
1 TATTTTGGTTCTATATGAA
25354729 ATGAATTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.03, G:0.18, T:0.56
Consensus pattern (20 bp):
TATTTTGGTTCTATATGAAG
Found at i:25358446 original size:16 final size:15
Alignment explanation
Indices: 25358397--25358447 Score: 61
Period size: 15 Copynumber: 3.4 Consensus size: 15
25358387 AAATTACAAT
25358397 AATATTTAATAA-CA
1 AATATTTAATAATCA
25358411 AGA-ATTTAATAATCA
1 A-ATATTTAATAATCA
*
25358426 AATATTTAATTATCTA
1 AATATTTAATAATC-A
25358442 AATATT
1 AATATT
25358448 ATGCATACTA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
14 11 0.34
15 14 0.44
16 7 0.22
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.41
Consensus pattern (15 bp):
AATATTTAATAATCA
Found at i:25358855 original size:22 final size:22
Alignment explanation
Indices: 25358830--25358873 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
25358820 TAGTCATATA
25358830 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* *
25358852 ATAAATTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
25358874 TATTTAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:25358873 original size:16 final size:16
Alignment explanation
Indices: 25358852--25358902 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
25358842 TATAATAAAT
25358852 ATAAATTATTATTTTA
1 ATAAATTATTATTTTA
*
25358868 ATAAATTATTTAATATT-
1 ATAAATTA-TT-ATTTTA
25358885 -TAAATT-TTATTTTA
1 ATAAATTATTATTTTA
25358899 ATAA
1 ATAA
25358903 TAAATTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
13 4 0.14
14 2 0.07
15 3 0.10
16 14 0.48
17 2 0.07
18 4 0.14
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATAAATTATTATTTTA
Found at i:25358909 original size:13 final size:14
Alignment explanation
Indices: 25358893--25358934 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
25358883 TTTAAATTTT
25358893 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
25358906 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
25358921 ATTTTAAATAATAT
1 ATTTT-AATAATAT
25358935 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:25358919 original size:16 final size:16
Alignment explanation
Indices: 25358897--25358933 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
25358887 AATTTTATTT
25358897 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
25358914 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
25358929 TAATA
1 TAATA
25358934 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:25360318 original size:40 final size:40
Alignment explanation
Indices: 25360265--25360359 Score: 129
Period size: 40 Copynumber: 2.4 Consensus size: 40
25360255 CAGCGTTTTT
* *
25360265 AAAACACCGCTATAGATAGAGAATTAGCGGCGC-TTCATGA
1 AAAACACCGCTATAGATAGAGAATTAACGGCGCTTTC-TCA
* *
25360305 AAAACACCGCTATAGATTGAGCATTAACGGCGCTTTCTCA
1 AAAACACCGCTATAGATAGAGAATTAACGGCGCTTTCTCA
*
25360345 AAAACGCCGCTATAG
1 AAAACACCGCTATAG
25360360 GTCGACCATT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
40 46 0.94
41 3 0.06
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (40 bp):
AAAACACCGCTATAGATAGAGAATTAACGGCGCTTTCTCA
Found at i:25360370 original size:40 final size:40
Alignment explanation
Indices: 25360227--25360394 Score: 123
Period size: 40 Copynumber: 4.3 Consensus size: 40
25360217 CATTTGGACA
* * *
25360227 AAAAACCCCGCTATAGATTGGA-CATTAGCAGCG-TTT-T-
1 AAAAACGCCGCTATAGA-TCGACCATTAGCGGCGCTTTCTC
* * * ** *
25360264 TAAAACACCGCTATAGATAGAGAATTAGCGGCGC-TTCATG
1 AAAAACGCCGCTATAGATCGACCATTAGCGGCGCTTTC-TC
* * * *
25360304 AAAAACACCGCTATAGATTGAGCATTAACGGCGCTTTCTC
1 AAAAACGCCGCTATAGATCGACCATTAGCGGCGCTTTCTC
* * *
25360344 AAAAACGCCGCTATAGGTCGACCATTAGTGGCG-TTTATC
1 AAAAACGCCGCTATAGATCGACCATTAGCGGCGCTTTCTC
25360383 AAAAAACGCCGC
1 -AAAAACGCCGC
25360395 AAAAAATTTA
Statistics
Matches: 107, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
36 3 0.03
37 26 0.24
39 6 0.06
40 69 0.64
41 3 0.03
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.23
Consensus pattern (40 bp):
AAAAACGCCGCTATAGATCGACCATTAGCGGCGCTTTCTC
Found at i:25360598 original size:152 final size:153
Alignment explanation
Indices: 25360287--25360706 Score: 497
Period size: 152 Copynumber: 2.7 Consensus size: 153
25360277 TAGATAGAGA
* * *
25360287 ATTAGCGGCGC-TTCATGAAAAACACCGCTATAGATTGAGCATTAACGGCGCTTTCTCAAAAACG
1 ATTAGCGGCGCTTTC-TGAAAAACACCGCTATAGATCGAGCATTAGCGGCGCTTT-TTAAAAACG
* * * *
25360351 CCGCTATAGGTCGACCATTAGT-GGCGTTTATCAAAAAACGCCGCAAAAAATTTAAGCACAACGG
64 CCGCTATAGGTCGACCATTA-TCGGCG-TTATTAGAAAACGCCACAAAAAATTTAAGCACAACGC
*
25360415 CGTCGTTTTATGTTGAGCTTTAGTGTC
127 CCTCGTTTTATGTTGAGCTTTAGTGTC
* * * *
25360442 ATTAGCGGCGCTTTCTCAAAAACGCCGCTATAGATCGAGCATTAGTGGC-ATTTTTAAAAACGCC
1 ATTAGCGGCGCTTTCTGAAAAACACCGCTATAGATCGAGCATTAGCGGCGCTTTTTAAAAACGCC
* * *
25360506 GCTATAGGTCAACCATTATCGGCGCTTCTTGGAAAACGCCACAAAAAA-TTAAGCACAACGCCCT
66 GCTATAGGTCGACCATTATCGGCG-TTATTAGAAAACGCCACAAAAAATTTAAGCACAACGCCCT
* *
25360570 CGTTTTATGTTGGGCTTTAGTGTT
130 CGTTTTATGTTGAGCTTTAGTGTC
* * * * * *
25360594 ATTAGCGGCGCTTTTTGAAAAACACCGCTACAAATCGAGCATTAGCGGCTCTTTTTGGAAAATGC
1 ATTAGCGGCGCTTTCTGAAAAACACCGCTATAGATCGAGCATTAGCGGCGCTTTTT-AAAAACGC
* * * * *
25360659 CGTTATAGGTCGACCTTTAGCAGCGTTTTCTAGAAAACGCCACAAAAA
65 CGCTATAGGTCGACCATTATCGGCGTTAT-TAGAAAACGCCACAAAAA
25360707 TTCAGTGTCA
Statistics
Matches: 226, Mismatches: 34, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
152 80 0.35
153 57 0.25
154 46 0.20
155 40 0.18
156 3 0.01
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (153 bp):
ATTAGCGGCGCTTTCTGAAAAACACCGCTATAGATCGAGCATTAGCGGCGCTTTTTAAAAACGCC
GCTATAGGTCGACCATTATCGGCGTTATTAGAAAACGCCACAAAAAATTTAAGCACAACGCCCTC
GTTTTATGTTGAGCTTTAGTGTC
Found at i:25361056 original size:14 final size:14
Alignment explanation
Indices: 25361034--25361078 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
25361024 TTAATTATCA
*
25361034 TTATAGTTTAGAGT
1 TTATGGTTTAGAGT
25361048 TTATGGTTTA-AGGT
1 TTATGGTTTAGA-GT
*
25361062 ATATGGTTTAGAGT
1 TTATGGTTTAGAGT
25361076 TTA
1 TTA
25361079 AAGTTTATGA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 1 0.04
14 24 0.92
15 1 0.04
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (14 bp):
TTATGGTTTAGAGT
Found at i:25361204 original size:7 final size:7
Alignment explanation
Indices: 25361194--25361235 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
25361184 TAAGGGTATT
25361194 GGGTTAG
1 GGGTTAG
25361201 GGGTTAG
1 GGGTTAG
*
25361208 GTGTTA-
1 GGGTTAG
25361214 GGGTTAG
1 GGGTTAG
25361221 GGGTTTAG
1 GGG-TTAG
*
25361229 GGTTTAG
1 GGGTTAG
25361236 ATTAATTAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
6 5 0.17
7 19 0.63
8 6 0.20
ACGTcount: A:0.14, C:0.00, G:0.50, T:0.36
Consensus pattern (7 bp):
GGGTTAG
Found at i:25361213 original size:14 final size:14
Alignment explanation
Indices: 25361194--25361235 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
25361184 TAAGGGTATT
25361194 GGGTTAGGGGTTAG
1 GGGTTAGGGGTTAG
*
25361208 GTGTTA-GGGTTAG
1 GGGTTAGGGGTTAG
*
25361221 GGGTTTAGGGTTTAG
1 GGG-TTAGGGGTTAG
25361236 ATTAATTAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 9 0.39
14 8 0.35
15 6 0.26
ACGTcount: A:0.14, C:0.00, G:0.50, T:0.36
Consensus pattern (14 bp):
GGGTTAGGGGTTAG
Found at i:25361235 original size:21 final size:21
Alignment explanation
Indices: 25361146--25361235 Score: 80
Period size: 21 Copynumber: 4.3 Consensus size: 21
25361136 ATGTTTTAAT
*
25361146 GGTTTAAGGGTT-GGGGTTTAA
1 GGTTT-AGGGTTAGGGGTTTAG
* * * *
25361167 GGTCTAGGGGTAGTGGTTAAG
1 GGTTTAGGGTTAGGGGTTTAG
25361188 GGTATT-GGGTTAGGGG-TTA-
1 GGT-TTAGGGTTAGGGGTTTAG
25361207 GGTGTTAGGGTTAGGGGTTTAG
1 GGT-TTAGGGTTAGGGGTTTAG
25361229 GGTTTAG
1 GGTTTAG
25361236 ATTAATTAGT
Statistics
Matches: 54, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
19 5 0.09
20 17 0.31
21 28 0.52
22 4 0.07
ACGTcount: A:0.17, C:0.01, G:0.47, T:0.36
Consensus pattern (21 bp):
GGTTTAGGGTTAGGGGTTTAG
Found at i:25361652 original size:14 final size:15
Alignment explanation
Indices: 25361635--25361693 Score: 63
Period size: 14 Copynumber: 4.1 Consensus size: 15
25361625 TATATGATAG
25361635 GGTTT-TGAGTTTAA
1 GGTTTATGAGTTTAA
*
25361649 GGTTT-TGAGATTTAG
1 GGTTTATGAG-TTTAA
*
25361664 GGTTTAT-AGTTTGA
1 GGTTTATGAGTTTAA
25361678 GGTTTATG-GTTTAA
1 GGTTTATGAGTTTAA
25361692 GG
1 GG
25361694 GTAGAGTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
14 26 0.68
15 11 0.29
16 1 0.03
ACGTcount: A:0.20, C:0.00, G:0.32, T:0.47
Consensus pattern (15 bp):
GGTTTATGAGTTTAA
Found at i:25364706 original size:13 final size:14
Alignment explanation
Indices: 25364690--25364721 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
25364680 TTATTATAAA
25364690 TAATTATAAT-GTT
1 TAATTATAATGGTT
25364703 TAATTATAATGGTT
1 TAATTATAATGGTT
25364717 TAATT
1 TAATT
25364722 CGTCGTTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (14 bp):
TAATTATAATGGTT
Found at i:25365434 original size:32 final size:31
Alignment explanation
Indices: 25365398--25365475 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
25365388 TTCATTTAAC
* * *
25365398 ATTTTTTGTTGTATTTTTATGCTACATTTGCT
1 ATTTTTGGTTGGA-TTTCATGCTACATTTGCT
* *
25365430 ATTTTTGGTTGGATTTCATGTTATATTTGCT
1 ATTTTTGGTTGGATTTCATGCTACATTTGCT
*
25365461 GTTTTTGGTTGGATT
1 ATTTTTGGTTGGATT
25365476 AAATGCAGGA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
31 29 0.73
32 11 0.28
ACGTcount: A:0.14, C:0.06, G:0.19, T:0.60
Consensus pattern (31 bp):
ATTTTTGGTTGGATTTCATGCTACATTTGCT
Found at i:25365674 original size:44 final size:44
Alignment explanation
Indices: 25365565--25365727 Score: 190
Period size: 43 Copynumber: 3.8 Consensus size: 44
25365555 TCACTAAATT
* * * *
25365565 CCATGACTTTTAG-TAGCGCTTTTCCCTCAAATGCCGTTAAAAA-
1 CCATGACTTTTAGCGA-CGCTTTTCCCACAAACGCCGCTAAAAAG
* * *
25365608 CCAT-ACTTTCAGTGGCGCTTTTCCCACAAACGCCGCTAAAAAG
1 CCATGACTTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAAAG
*
25365651 CCATGACTTTTAGCGATGCTTTTCCCACAAACGCCGCT-AAAAG
1 CCATGACTTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAAAG
* * *
25365694 CCATGACTTTTAGCGGCACTTTTCCCACAGACGC
1 CCATGACTTTTAGCGACGCTTTTCCCACAAACGC
25365728 GCTTGTGAAA
Statistics
Matches: 103, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
42 31 0.30
43 43 0.42
44 29 0.28
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (44 bp):
CCATGACTTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAAAG
Found at i:25366309 original size:20 final size:19
Alignment explanation
Indices: 25366284--25366328 Score: 74
Period size: 18 Copynumber: 2.4 Consensus size: 19
25366274 TAATTAATGG
25366284 TAAACTACACCATTAATCAC
1 TAAACTA-ACCATTAATCAC
25366304 TAAACT-ACCATTAATCAC
1 TAAACTAACCATTAATCAC
25366322 TAAACTA
1 TAAACTA
25366329 TGTTAAGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 18 0.75
20 6 0.25
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.27
Consensus pattern (19 bp):
TAAACTAACCATTAATCAC
Found at i:25366651 original size:73 final size:73
Alignment explanation
Indices: 25366565--25366709 Score: 281
Period size: 73 Copynumber: 2.0 Consensus size: 73
25366555 AAGGGTTGTT
*
25366565 TAAATTTTGATTCGTAGATTCATGACATTCAAAGTTGTTTGATACACAAAATTAAAGTGTAAAAG
1 TAAATTTTAATTCGTAGATTCATGACATTCAAAGTTGTTTGATACACAAAATTAAAGTGTAAAAG
25366630 AAAAGAGA
66 AAAAGAGA
25366638 TAAATTTTAATTCGTAGATTCATGACATTCAAAGTTGTTTGATACACAAAATTAAAGTGTAAAAG
1 TAAATTTTAATTCGTAGATTCATGACATTCAAAGTTGTTTGATACACAAAATTAAAGTGTAAAAG
25366703 AAAAGAG
66 AAAAGAG
25366710 GAAAGAAAAC
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (73 bp):
TAAATTTTAATTCGTAGATTCATGACATTCAAAGTTGTTTGATACACAAAATTAAAGTGTAAAAG
AAAAGAGA
Found at i:25370258 original size:22 final size:20
Alignment explanation
Indices: 25370233--25370280 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 20
25370223 ATAAGAACAA
25370233 AATTAATTTAA-AATAATTTTAT
1 AATTAA-TTAAGAATAA--TTAT
*
25370255 AATTTATTAAGAATAATTAT
1 AATTAATTAAGAATAATTAT
25370275 AATTAA
1 AATTAA
25370281 CGGTTATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 9 0.39
21 4 0.17
22 10 0.43
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (20 bp):
AATTAATTAAGAATAATTAT
Found at i:25373638 original size:9 final size:9
Alignment explanation
Indices: 25373620--25373712 Score: 132
Period size: 9 Copynumber: 10.3 Consensus size: 9
25373610 TCAGTTGAAC
25373620 TAAATCGGT
1 TAAATCGGT
*
25373629 TAAGTCGGT
1 TAAATCGGT
*
25373638 TAAGTCGGT
1 TAAATCGGT
25373647 TAAATCGGT
1 TAAATCGGT
*
25373656 TAAATTGGT
1 TAAATCGGT
*
25373665 TAAGTCGGT
1 TAAATCGGT
*
25373674 TAAATCAGT
1 TAAATCGGT
25373683 TAAATCGGT
1 TAAATCGGT
*
25373692 TAAGTCGGT
1 TAAATCGGT
25373701 TAAATCGGT
1 TAAATCGGT
25373710 TAA
1 TAA
25373713 TTTTTAACCA
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 74 1.00
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.34
Consensus pattern (9 bp):
TAAATCGGT
Found at i:25373650 original size:27 final size:27
Alignment explanation
Indices: 25373620--25373712 Score: 159
Period size: 27 Copynumber: 3.4 Consensus size: 27
25373610 TCAGTTGAAC
*
25373620 TAAATCGGTTAAGTCGGTTAAGTCGGT
1 TAAATCGGTTAAATCGGTTAAGTCGGT
*
25373647 TAAATCGGTTAAATTGGTTAAGTCGGT
1 TAAATCGGTTAAATCGGTTAAGTCGGT
*
25373674 TAAATCAGTTAAATCGGTTAAGTCGGT
1 TAAATCGGTTAAATCGGTTAAGTCGGT
25373701 TAAATCGGTTAA
1 TAAATCGGTTAA
25373713 TTTTTAACCA
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.34
Consensus pattern (27 bp):
TAAATCGGTTAAATCGGTTAAGTCGGT
Found at i:25374699 original size:15 final size:15
Alignment explanation
Indices: 25374675--25374705 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
25374665 GCACTAAATT
25374675 ATATTATATATATAA
1 ATATTATATATATAA
*
25374690 ATATTTTATATATAA
1 ATATTATATATATAA
25374705 A
1 A
25374706 AAATAAGAAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATATTATATATATAA
Found at i:25374931 original size:34 final size:34
Alignment explanation
Indices: 25374893--25374960 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
25374883 ACATCACATG
*
25374893 AGTAAGAAAACTAGTAAGTATATAAATGAGATTT
1 AGTAAGAAAACTAGTAAATATATAAATGAGATTT
25374927 AGTAAGAAAACTAGTAAATATATAAATGAGATTT
1 AGTAAGAAAACTAGTAAATATATAAATGAGATTT
25374961 TTTAAAAAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.51, C:0.03, G:0.16, T:0.29
Consensus pattern (34 bp):
AGTAAGAAAACTAGTAAATATATAAATGAGATTT
Found at i:25378992 original size:20 final size:21
Alignment explanation
Indices: 25378958--25379011 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
25378948 TGATGATATT
*
25378958 TTATGATTA-TTTAATTAGATA
1 TTAT-ATTATTTTAATAAGATA
25378979 -TATATTATTTTAATAAGATA
1 TTATATTATTTTAATAAGATA
*
25378999 TTTTATTATTTTA
1 TTATATTATTTTA
25379012 TTATTATTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 4 0.14
20 14 0.48
21 11 0.38
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (21 bp):
TTATATTATTTTAATAAGATA
Found at i:25379015 original size:3 final size:3
Alignment explanation
Indices: 25378997--25379045 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
25378987 TTTAATAAGA
*
25378997 TAT T-T TAT TAT T-T TAT TAT TAT T-T CAT TAT TAT T-T TAT TAT TAAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT
25379042 TAT T
1 TAT T
25379046 TAGTATAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
2 7 0.18
3 29 0.74
4 3 0.08
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:25379017 original size:11 final size:11
Alignment explanation
Indices: 25379001--25379039 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
25378991 ATAAGATATT
25379001 TTATTATTTTA
1 TTATTATTTTA
*
25379012 TTATTATTTCA
1 TTATTATTTTA
25379023 TTATTATTTTA
1 TTATTATTTTA
25379034 TTATTA
1 TTATTA
25379040 ATTATTTAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:25379025 original size:19 final size:19
Alignment explanation
Indices: 25378997--25379038 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
25378987 TTTAATAAGA
*
25378997 TATTTTATTATT-TTATTAT
1 TATTTCATTATTATT-TTAT
25379016 TATTTCATTATTATTTTAT
1 TATTTCATTATTATTTTAT
25379035 TATT
1 TATT
25379039 AATTATTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (19 bp):
TATTTCATTATTATTTTAT
Done.