Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, 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: 17174986
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 65 of 78
Found at i:13095735 original size:15 final size:15
Alignment explanation
Indices: 13095717--13095762 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
13095707 GATTTAGTAA
13095717 TTAGAATTTTAGATT
1 TTAGAATTTTAGATT
*
13095732 TTAGAATTTAAGATT
1 TTAGAATTTTAGATT
*
13095747 TTA-AATGTTAGGATT
1 TTAGAATTTTA-GATT
13095762 T
1 T
13095763 AACTATGATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 5 0.19
15 22 0.81
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (15 bp):
TTAGAATTTTAGATT
Found at i:13095747 original size:22 final size:22
Alignment explanation
Indices: 13095722--13095764 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
13095712 AGTAATTAGA
* *
13095722 ATTTTAGATTTTAGAATTTAAG
1 ATTTTAAATGTTAGAATTTAAG
*
13095744 ATTTTAAATGTTAGGATTTAA
1 ATTTTAAATGTTAGAATTTAA
13095765 CTATGATAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (22 bp):
ATTTTAAATGTTAGAATTTAAG
Found at i:13096240 original size:20 final size:20
Alignment explanation
Indices: 13096217--13096279 Score: 108
Period size: 20 Copynumber: 3.1 Consensus size: 20
13096207 TCAATTTCGT
13096217 AACGCGAATATGTAAATCGC
1 AACGCGAATATGTAAATCGC
13096237 AACGCGAATATGTAAATCGC
1 AACGCGAATATGTAAATCGC
* *
13096257 AACGCGAATCTATAAATCGC
1 AACGCGAATATGTAAATCGC
13096277 AAC
1 AAC
13096280 ACTTTATTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.41, C:0.22, G:0.17, T:0.19
Consensus pattern (20 bp):
AACGCGAATATGTAAATCGC
Found at i:13096516 original size:14 final size:15
Alignment explanation
Indices: 13096497--13096534 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
13096487 TCCTCATCTC
13096497 TAATTTTTTT-TACA
1 TAATTTTTTTCTACA
*
13096511 TAATTTTATTTCTATA
1 TAATTTT-TTTCTACA
13096527 TAATTTTT
1 TAATTTTT
13096535 CAATGATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (15 bp):
TAATTTTTTTCTACA
Found at i:13097150 original size:12 final size:12
Alignment explanation
Indices: 13097129--13097162 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
13097119 ACCACATTTC
*
13097129 CAATACCAAACA
1 CAATATCAAACA
13097141 CAATATCAAACA
1 CAATATCAAACA
*
13097153 CAATCTCAAA
1 CAATATCAAA
13097163 ACCCATAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:13098788 original size:29 final size:29
Alignment explanation
Indices: 13098755--13098812 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
13098745 AAATTCGCAA
*
13098755 CGCAAAAATCGCAATGCGAATTTGACTTT
1 CGCAAAAATCGCAACGCGAATTTGACTTT
* *
13098784 CGCAACAATCGCAACGCGAATTTTACTTT
1 CGCAAAAATCGCAACGCGAATTTGACTTT
13098813 TGCGTTGCGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.28
Consensus pattern (29 bp):
CGCAAAAATCGCAACGCGAATTTGACTTT
Found at i:13098885 original size:20 final size:20
Alignment explanation
Indices: 13098862--13098910 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
13098852 AAATTGCAAC
*
13098862 GCGAATTTGACTTTTGCGTT
1 GCGAATTTGACTTTCGCGTT
13098882 GCGAATTTGACTTTCGCGTT
1 GCGAATTTGACTTTCGCGTT
*
13098902 ACGAATTTG
1 GCGAATTTG
13098911 TCCCTTCAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.18, C:0.16, G:0.24, T:0.41
Consensus pattern (20 bp):
GCGAATTTGACTTTCGCGTT
Found at i:13099015 original size:25 final size:25
Alignment explanation
Indices: 13098977--13099025 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
13098967 AAATCAATTA
*
13098977 AACATTGTTGTGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
13099002 AACATTGTTATGGGTACATTATTT
1 AACATTGTTATGGGTACATTATTT
13099026 AGAAAATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.08, G:0.20, T:0.45
Consensus pattern (25 bp):
AACATTGTTATGGGTACATTATTTG
Found at i:13099433 original size:18 final size:18
Alignment explanation
Indices: 13099412--13099448 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
13099402 GTAATTGGAG
13099412 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
13099430 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
13099448 T
1 T
13099449 ATAAATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:13099455 original size:24 final size:24
Alignment explanation
Indices: 13099404--13099456 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
13099394 TTTCATATGT
* * *
13099404 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
*
13099428 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
13099452 AATTT
1 AATTT
13099457 CGGTTCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:13100705 original size:20 final size:20
Alignment explanation
Indices: 13100680--13100722 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
13100670 CGATTGTTGT
13100680 GAAAGTCAAATTCGCAACGC
1 GAAAGTCAAATTCGCAACGC
*
13100700 GAAAGTCAAATTTGCAACGC
1 GAAAGTCAAATTCGCAACGC
13100720 GAA
1 GAA
13100723 TTTCGTGATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.42, C:0.21, G:0.21, T:0.16
Consensus pattern (20 bp):
GAAAGTCAAATTCGCAACGC
Found at i:13100813 original size:20 final size:20
Alignment explanation
Indices: 13100790--13100839 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
13100780 ATCGCAACGT
*
13100790 GAATTTGACTTTCGCCTTGC
1 GAATTTGACTTTCACCTTGC
* *
13100810 GAATTTTACTTTCACGTTGC
1 GAATTTGACTTTCACCTTGC
13100830 GAATTTGACT
1 GAATTTGACT
13100840 ATCGTAACGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.42
Consensus pattern (20 bp):
GAATTTGACTTTCACCTTGC
Found at i:13100888 original size:20 final size:20
Alignment explanation
Indices: 13100865--13100906 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
13100855 TCGCAATGTG
*
13100865 AATTTGACTTTCGCGTTGCA
1 AATTTGACTTTCACGTTGCA
13100885 AATTTGACTTTCACGTTGCA
1 AATTTGACTTTCACGTTGCA
13100905 AA
1 AA
13100907 AGTGTACCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (20 bp):
AATTTGACTTTCACGTTGCA
Found at i:13101026 original size:37 final size:37
Alignment explanation
Indices: 13100976--13101110 Score: 132
Period size: 37 Copynumber: 3.5 Consensus size: 37
13100966 CAAATCAACT
13100976 TTTACAAATCAATTAAACAAGGAAAAAATAATTCTTA
1 TTTACAAATCAATTAAACAAGGAAAAAATAATTCTTA
* ** *
13101013 TTTACACATCAATTAAACAAATCAACTATTACAAATAA-AC-T-
1 TTTACAAATCAATTAAAC-AA-GGA--A--A-AAATAATTCTTA
13101054 TTTACAAATCAATTAAACAAGGAAAAAATAATTCTTA
1 TTTACAAATCAATTAAACAAGGAAAAAATAATTCTTA
**
13101091 TTTACTCATCAATTAAACAA
1 TTTACAAATCAATTAAACAA
13101111 ATCAACTTTT
Statistics
Matches: 78, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
34 6 0.08
35 2 0.03
36 1 0.01
37 36 0.46
38 2 0.03
39 2 0.03
40 2 0.03
41 18 0.23
42 1 0.01
43 2 0.03
44 6 0.08
ACGTcount: A:0.52, C:0.15, G:0.03, T:0.30
Consensus pattern (37 bp):
TTTACAAATCAATTAAACAAGGAAAAAATAATTCTTA
Found at i:13101048 original size:14 final size:14
Alignment explanation
Indices: 13101029--13101065 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
13101019 CATCAATTAA
13101029 ACAAATCAACTATT
1 ACAAATCAACTATT
* *
13101043 ACAAATAAACTTTT
1 ACAAATCAACTATT
13101057 ACAAATCAA
1 ACAAATCAA
13101066 TTAAACAAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (14 bp):
ACAAATCAACTATT
Found at i:13101094 original size:78 final size:78
Alignment explanation
Indices: 13100965--13101157 Score: 311
Period size: 78 Copynumber: 2.5 Consensus size: 78
13100955 ATTTAAAACA
13100965 ACAAATCAACTTTTACAAATCAATTAAACAAGGAAAAAATAATTCTTATTTACACATCAATTAAA
1 ACAAATCAACTTTTACAAATCAATTAAACAAGGAAAAAATAATTCTTATTTACACATCAATTAAA
13101030 CAAATCAACTATT
66 CAAATCAACTATT
* *
13101043 ACAAATAAACTTTTACAAATCAATTAAACAAGGAAAAAATAATTCTTATTTACTCATCAATTAAA
1 ACAAATCAACTTTTACAAATCAATTAAACAAGGAAAAAATAATTCTTATTTACACATCAATTAAA
*
13101108 CAAATCAACTTTT
66 CAAATCAACTATT
* *
13101121 ACAAATCAA--TGTA-AAATTCAATTAAACAAGCAAAAAA
1 ACAAATCAACTTTTACAAA-TCAATTAAACAAGGAAAAAA
13101158 AGTGTACCCC
Statistics
Matches: 108, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
75 3 0.03
76 22 0.20
78 83 0.77
ACGTcount: A:0.53, C:0.16, G:0.03, T:0.28
Consensus pattern (78 bp):
ACAAATCAACTTTTACAAATCAATTAAACAAGGAAAAAATAATTCTTATTTACACATCAATTAAA
CAAATCAACTATT
Found at i:13102509 original size:21 final size:20
Alignment explanation
Indices: 13102485--13102602 Score: 130
Period size: 21 Copynumber: 5.7 Consensus size: 20
13102475 GTGAATATGG
*
13102485 CTCTTGAACGGTGAGAGGGAC
1 CTCTTGAACGATGAGAGGG-C
*
13102506 CTCTTGAACGATGACAGAGGC
1 CTCTTGAACGATGAGAG-GGC
* *
13102527 CTCTTGAACGGTGGGAGGGC
1 CTCTTGAACGATGAGAGGGC
*
13102547 CTCTTGAACGATAAGAGGGGC
1 CTCTTGAACGATGAGA-GGGC
*
13102568 CTTTTGAACGAT-AGGAGGCGC
1 CTCTTGAACGATGA-GAGG-GC
13102589 CTCTTGAACGATGA
1 CTCTTGAACGATGA
13102603 CAGGTGAATC
Statistics
Matches: 82, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
20 19 0.23
21 60 0.73
22 3 0.04
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (20 bp):
CTCTTGAACGATGAGAGGGC
Found at i:13102545 original size:42 final size:41
Alignment explanation
Indices: 13102485--13102605 Score: 161
Period size: 42 Copynumber: 2.9 Consensus size: 41
13102475 GTGAATATGG
*
13102485 CTCTTGAACGGTGAGAGGGACCTCTTGAACGATGACAGAGGC
1 CTCTTGAACGGTGGGAGGG-CCTCTTGAACGATGACAGAGGC
* * *
13102527 CTCTTGAACGGTGGGAGGGCCTCTTGAACGATAAGAGGGGC
1 CTCTTGAACGGTGGGAGGGCCTCTTGAACGATGACAGAGGC
* * *
13102568 CTTTTGAACGATAGGAGGCGCCTCTTGAACGATGACAG
1 CTCTTGAACGGTGGGAGG-GCCTCTTGAACGATGACAG
13102606 GTGAATCAGG
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
41 34 0.49
42 35 0.51
ACGTcount: A:0.25, C:0.21, G:0.34, T:0.21
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGCCTCTTGAACGATGACAGAGGC
Found at i:13104895 original size:19 final size:20
Alignment explanation
Indices: 13104824--13104898 Score: 116
Period size: 20 Copynumber: 3.8 Consensus size: 20
13104814 AGTAGTTTTT
13104824 GAAAATAAAAATCGCAACGC
1 GAAAATAAAAATCGCAACGC
13104844 GAAAATAAAAATCGCAACGC
1 GAAAATAAAAATCGCAACGC
* *
13104864 GAAAATGAAAATCGCAATGC
1 GAAAATAAAAATCGCAACGC
*
13104884 GAAACT-AAAATCGCA
1 GAAAATAAAAATCGCA
13104899 TTGAAATTTT
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
19 9 0.17
20 43 0.83
ACGTcount: A:0.53, C:0.19, G:0.16, T:0.12
Consensus pattern (20 bp):
GAAAATAAAAATCGCAACGC
Found at i:13104929 original size:14 final size:14
Alignment explanation
Indices: 13104910--13104957 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
13104900 TGAAATTTTC
*
13104910 ATTTTCGCGTTGTG
1 ATTTTCGCGTTGAG
13104924 ATTTTCGCGTTGAG
1 ATTTTCGCGTTGAG
* * *
13104938 ATTTTGGTGTTGCG
1 ATTTTCGCGTTGAG
13104952 ATTTTC
1 ATTTTC
13104958 ATTTTCGTGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.10, C:0.12, G:0.27, T:0.50
Consensus pattern (14 bp):
ATTTTCGCGTTGAG
Found at i:13104983 original size:20 final size:20
Alignment explanation
Indices: 13104944--13104983 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
13104934 TGAGATTTTG
* * *
13104944 GTGTTGCGATTTTCATTTTC
1 GTGTTGCGAATTTAAGTTTC
13104964 GTGTTGCGAATTTAAGTTTC
1 GTGTTGCGAATTTAAGTTTC
13104984 AAAAACTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.12, G:0.23, T:0.50
Consensus pattern (20 bp):
GTGTTGCGAATTTAAGTTTC
Found at i:13105500 original size:20 final size:20
Alignment explanation
Indices: 13105475--13105520 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
13105465 TAAACGCGCT
13105475 TTGCGAATTTGACTTCTGTG
1 TTGCGAATTTGACTTCTGTG
13105495 TTGCGAATTTGACTTCTGTG
1 TTGCGAATTTGACTTCTGTG
13105515 TTGCGA
1 TTGCGA
13105521 TTTACATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.15, C:0.15, G:0.26, T:0.43
Consensus pattern (20 bp):
TTGCGAATTTGACTTCTGTG
Found at i:13110899 original size:20 final size:19
Alignment explanation
Indices: 13110870--13110908 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
13110860 GACCTGCCCG
*
13110870 TTAACTTTGATTTTGACCA
1 TTAACTTTGACTTTGACCA
13110889 TTAACCTTTGACTTTGACCA
1 TTAA-CTTTGACTTTGACCA
13110909 AAAAGTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.26, C:0.21, G:0.10, T:0.44
Consensus pattern (19 bp):
TTAACTTTGACTTTGACCA
Found at i:13116795 original size:22 final size:22
Alignment explanation
Indices: 13116765--13116820 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
13116755 TATTCAAGAG
13116765 AAAA-TTTTCACA-AAAAGAGGT
1 AAAAGTTTTCA-ATAAAAGAGGT
*
13116786 AAAAGTTTTCAATAGAAGAGGT
1 AAAAGTTTTCAATAAAAGAGGT
13116808 AAAAGTTTTCAAT
1 AAAAGTTTTCAAT
13116821 CAAGTAGTCG
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
21 5 0.16
22 27 0.84
ACGTcount: A:0.48, C:0.07, G:0.16, T:0.29
Consensus pattern (22 bp):
AAAAGTTTTCAATAAAAGAGGT
Found at i:13119521 original size:64 final size:63
Alignment explanation
Indices: 13119348--13119544 Score: 243
Period size: 63 Copynumber: 3.1 Consensus size: 63
13119338 CAAAATTAAA
* * *
13119348 TATCTTTGAGTATGTTTCCCTTGAAACAAGTTTTGTCTCACTTGAGACAGTTTCTCTTGAAACAT
1 TATCTTTGAGT-CGTTTCCCTTGAAA-AAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAT
* * * * * *
13119413 CACCTTTGAGTC-TTTCCCTTGAAACAAATTTTGTCTTTCATGAGATAATTTCTCTTGAAACAT
1 TATCTTTGAGTCGTTTCCCTTGAAA-AAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAT
* *
13119476 TATCTTTGAGTCGTTTCCCTTGAAATGAATTTTGTCTCTCTTGAGACGGTTTCTCTTGAAACCAT
1 TATCTTTGAGTCGTTTCCCTTGAAA-AAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAA-CAT
13119541 TATC
1 TATC
13119545 CCTAAAGATG
Statistics
Matches: 112, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
63 55 0.49
64 41 0.37
65 16 0.14
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.42
Consensus pattern (63 bp):
TATCTTTGAGTCGTTTCCCTTGAAAAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAT
Found at i:13119906 original size:134 final size:133
Alignment explanation
Indices: 13119538--13119899 Score: 459
Period size: 131 Copynumber: 2.7 Consensus size: 133
13119528 CTCTTGAAAC
* * * *
13119538 CATTATCCCTAAAGATGGCCAGGCATCCTCATCACGTA-GAAAAGTGTCATCCACTGACCAGATC
1 CATTATCCCTAAAGATGG-CAGACATCCTCATCACGTAGGAACAGTGTCATCCACCGAACAGATC
*
13119602 TCCTCATCACGTAGGAGTCGTGTCACCCTTAGATAACCAGCCATCCTCATCACGTAGGAACCGTG
65 TCCTCATCACGTAGGAGTCGTGTCACCCTTAGATAACCAGCCATCCTCATCACGTAAGAACCGTG
13119667 CTAT
130 CTAT
* * *
13119671 C---ATCCCTAAAGATGGACTGCCATCCTCATCACGTAGGAACTGTGTCATCCACC-AACTAGAT
1 CATTATCCCTAAAGATGG-CAGACATCCTCATCACGTAGGAACAGTGTCATCCACCGAAC-AGAT
* * * * * *
13119732 CT-CTCCATCTCATAGGAGTCGTGTCACCCTTAGATAACCAGTCGTCCTCATCGCGTAAGCACCG
64 CTCCT-CATCACGTAGGAGTCGTGTCACCCTTAGATAACCAGCCATCCTCATCACGTAAGAACCG
*
13119796 TGTTAT
128 TGCTAT
* *
13119802 CATTATCCCTAAAGATGGTCAAGACGTCCTCATCATGTAGGAACAGTGTCATCC-CCGAACAGAT
1 CATTATCCCTAAAGATGG-C-AGACATCCTCATCACGTAGGAACAGTGTCATCCACCGAACAGAT
*
13119866 CTCCTCATCACGTAGGAGCCGTGTCACCCTTAGA
64 CTCCTCATCACGTAGGAGTCGTGTCACCCTTAGA
13119900 CGACCAGAAC
Statistics
Matches: 196, Mismatches: 24, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
130 35 0.18
131 78 0.40
133 1 0.01
134 49 0.25
135 33 0.17
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (133 bp):
CATTATCCCTAAAGATGGCAGACATCCTCATCACGTAGGAACAGTGTCATCCACCGAACAGATCT
CCTCATCACGTAGGAGTCGTGTCACCCTTAGATAACCAGCCATCCTCATCACGTAAGAACCGTGC
TAT
Found at i:13120092 original size:3 final size:3
Alignment explanation
Indices: 13120084--13120134 Score: 84
Period size: 3 Copynumber: 17.0 Consensus size: 3
13120074 GGGTCTTAAA
* *
13120084 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATC ATT ATT ATT GTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
13120132 ATT
1 ATT
13120135 TACATGTTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:13120919 original size:17 final size:18
Alignment explanation
Indices: 13120882--13120920 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
13120872 ATGTAAAATG
13120882 TCGATATGCAATTTATAT
1 TCGATATGCAATTTATAT
*
13120900 TCGATGTGCAATTT-TAT
1 TCGATATGCAATTTATAT
13120917 TCGA
1 TCGA
13120921 AGATAGAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (18 bp):
TCGATATGCAATTTATAT
Found at i:13124177 original size:34 final size:34
Alignment explanation
Indices: 13124095--13124177 Score: 87
Period size: 34 Copynumber: 2.4 Consensus size: 34
13124085 ACATTTAAAT
* *
13124095 CATCTAGTTCATTTAGGGAAGTAGTTCATTTATG
1 CATCTAGTTCATTTAGGGAAGTACTTCATTCATG
* * * *
13124129 CCTTTAGATCATTTA-GTAAGCTACTTCATTCATG
1 CATCTAGTTCATTTAGGGAAG-TACTTCATTCATG
*
13124163 CATCTAGTTTATTTA
1 CATCTAGTTCATTTA
13124178 ATAAAGTTAG
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
33 4 0.11
34 34 0.89
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (34 bp):
CATCTAGTTCATTTAGGGAAGTACTTCATTCATG
Found at i:13124205 original size:17 final size:17
Alignment explanation
Indices: 13124185--13124237 Score: 88
Period size: 17 Copynumber: 3.1 Consensus size: 17
13124175 TTAATAAAGT
13124185 TAGTTCATTAATTAAAC
1 TAGTTCATTAATTAAAC
*
13124202 TAGTTCATTAATCAAAC
1 TAGTTCATTAATTAAAC
*
13124219 TAGTTCATTTATTAAAC
1 TAGTTCATTAATTAAAC
13124236 TA
1 TA
13124238 ACTCTTAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 33 1.00
ACGTcount: A:0.40, C:0.13, G:0.06, T:0.42
Consensus pattern (17 bp):
TAGTTCATTAATTAAAC
Found at i:13128463 original size:3 final size:3
Alignment explanation
Indices: 13128457--13128520 Score: 96
Period size: 3 Copynumber: 22.0 Consensus size: 3
13128447 TTTTTTTATT
*
13128457 TAA TAA TAA TAA TAA -AA TAT TAA TAA TAA TAA TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
13128503 TAA TAA TAA TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA
13128521 ATTAAAAAAC
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
2 4 0.07
3 51 0.93
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:13128481 original size:20 final size:21
Alignment explanation
Indices: 13128456--13128514 Score: 95
Period size: 20 Copynumber: 2.9 Consensus size: 21
13128446 TTTTTTTTAT
13128456 TTAATAATAATAATAA-AATA
1 TTAATAATAATAATAATAATA
13128476 TTAATAATAATAATAATAATA
1 TTAATAATAATAATAATAATA
*
13128497 -AAATAATAATAATAATAA
1 TTAATAATAATAATAATAA
13128515 AAATAAATTA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
20 33 0.89
21 4 0.11
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
TTAATAATAATAATAATAATA
Found at i:13128493 original size:26 final size:26
Alignment explanation
Indices: 13128457--13128520 Score: 110
Period size: 26 Copynumber: 2.5 Consensus size: 26
13128447 TTTTTTTATT
*
13128457 TAATAATAATAATAAAATATTAATAA
1 TAATAATAATAATAAAATAATAATAA
13128483 TAATAATAATAATAAAATAATAATAA
1 TAATAATAATAATAAAATAATAATAA
*
13128509 TAATAAAAATAA
1 TAATAATAATAA
13128521 ATTAAAAAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (26 bp):
TAATAATAATAATAAAATAATAATAA
Found at i:13137568 original size:45 final size:45
Alignment explanation
Indices: 13137491--13137905 Score: 465
Period size: 45 Copynumber: 9.2 Consensus size: 45
13137481 TATACTTTAT
** * * * *
13137491 TTTCATTTATAACATCATTTTATGTTGATAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCTGTTAATGCACCGTTATGCA
* * **
13137536 TTTCATTTATAGCAACCTTTCATGCTGTTAATGCACCAATATGCA
1 TTTCATTTATGGCATCCTTTCATGCTGTTAATGCACCGTTATGCA
* * ** *
13137581 TATCATTTATGACATCCTTTCATGCCATTAATGTACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCTGTTAATGCACCGTTATGCA
* * *
13137626 TTTCATTCATGGCATCCTTTCATGTTGTTAATGCAACGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCTGTTAATGCACCGTTATGCA
* * * * * *
13137671 TTTCATTTATAGCATCATTTCATACCT-TTAATGTACCATTATACA
1 TTTCATTTATGGCATCCTTTCAT-GCTGTTAATGCACCGTTATGCA
* * ** *
13137716 TTTCATTTATGGTATCCTTTCAAGCCATTAATGCAACGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCTGTTAATGCACCGTTATGCA
* *
13137761 TTTCATTTATGGCATCCTATCATGCCTATTAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATG-CTGTTAATGCACCGTTATGCA
* *
13137807 TTTCATTTATGGCATCCTTTCATGCTGTTAATGCAACATTATGCA
1 TTTCATTTATGGCATCCTTTCATGCTGTTAATGCACCGTTATGCA
** * *
13137852 TTTCATTTATGGCATGTTTTTATGCCGTT-ATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCTGTTAATGCACCGTTATGCA
13137896 TTTCATTTAT
1 TTTCATTTAT
13137906 TCATTCATTT
Statistics
Matches: 308, Mismatches: 59, Indels: 7
0.82 0.16 0.02
Matches are distributed among these distances:
44 24 0.08
45 241 0.78
46 43 0.14
ACGTcount: A:0.26, C:0.20, G:0.12, T:0.42
Consensus pattern (45 bp):
TTTCATTTATGGCATCCTTTCATGCTGTTAATGCACCGTTATGCA
Found at i:13137679 original size:135 final size:135
Alignment explanation
Indices: 13137503--13137902 Score: 534
Period size: 135 Copynumber: 3.0 Consensus size: 135
13137493 TCATTTATAA
* * * *
13137503 CATCATTTTATGTTGATAATGCACCGTTATGCATTTCATTTATAGCAACCTTTCATGCTGTTAAT
1 CATCCTTTCATGTTGTTAATGCACCGTTATGCATTTCATTTATAGCATCCTTTCATGCTGTTAAT
* * * *
13137568 GCACCAATATGCATATCATTTATGACATCCTTTCATGCCATTAATGTACCGTTATGCATTTCATT
66 GCACCATTATGCATTTCATTTATGGCATCCTTTCATGCCATTAATGCACCGTTATGCATTTCATT
13137633 CATGG
131 CATGG
* * *
13137638 CATCCTTTCATGTTGTTAATGCAACGTTATGCATTTCATTTATAGCATCATTTCATACCT-TTAA
1 CATCCTTTCATGTTGTTAATGCACCGTTATGCATTTCATTTATAGCATCCTTTCAT-GCTGTTAA
* * * * *
13137702 TGTACCATTATACATTTCATTTATGGTATCCTTTCAAGCCATTAATGCAACGTTATGCATTTCAT
65 TGCACCATTATGCATTTCATTTATGGCATCCTTTCATGCCATTAATGCACCGTTATGCATTTCAT
*
13137767 TTATGG
130 TCATGG
* * * *
13137773 CATCCTATCATGCCTATTAATGCACCGTTATGCATTTCATTTATGGCATCCTTTCATGCTGTTAA
1 CATCCTTTCATG-TTGTTAATGCACCGTTATGCATTTCATTTATAGCATCCTTTCATGCTGTTAA
* ** * *
13137838 TGCAACATTATGCATTTCATTTATGGCATGTTTTTATGCCGTT-ATGCACCGTTATGCATTTCAT
65 TGCACCATTATGCATTTCATTTATGGCATCCTTTCATGCCATTAATGCACCGTTATGCATTTCAT
13137902 T
130 T
13137903 TATTCATTCA
Statistics
Matches: 228, Mismatches: 34, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
135 149 0.65
136 79 0.35
ACGTcount: A:0.25, C:0.20, G:0.12, T:0.42
Consensus pattern (135 bp):
CATCCTTTCATGTTGTTAATGCACCGTTATGCATTTCATTTATAGCATCCTTTCATGCTGTTAAT
GCACCATTATGCATTTCATTTATGGCATCCTTTCATGCCATTAATGCACCGTTATGCATTTCATT
CATGG
Found at i:13139422 original size:17 final size:17
Alignment explanation
Indices: 13139400--13139432 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13139390 AAAGAGCTAG
*
13139400 TTTAATTAATGAACTAT
1 TTTAATCAATGAACTAT
13139417 TTTAATCAATGAACTA
1 TTTAATCAATGAACTA
13139433 ACTTTATTTC
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:0.42, C:0.09, G:0.06, T:0.42
Consensus pattern (17 bp):
TTTAATCAATGAACTAT
Found at i:13153518 original size:44 final size:45
Alignment explanation
Indices: 13153468--13153686 Score: 277
Period size: 45 Copynumber: 4.9 Consensus size: 45
13153458 GTAAGCATTC
* * *
13153468 AAATAAGTTTACGAGCTTATGGAAT-AATGGCAAGTATATGGGTG
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATGGGTA
*
13153512 AAATAAGCTTACGAGCTTATGTGATTAAATGGTAAGTATATGGGTA
1 AAATAAGCTTACGAGCTTATG-GAATAAATGGTAAGTATATGGGTA
*
13153558 AAATAAGCTTATGCA-CTTATGGAATAAATGGTAAGTATAAT-GGTA
1 AAATAAGCTTACG-AGCTTATGGAATAAATGGTAAGTAT-ATGGGTA
* *
13153603 AAATAAGCTTAAGAGCTTATGGAAT-AATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATGGGTA
** *
13153647 AAATAAGCTTTTGAGCTTATGTG-ATAAATGGTAAATATAT
1 AAATAAGCTTACGAGCTTATG-GAATAAATGGTAAGTATAT
13153687 TGGATGTGCA
Statistics
Matches: 157, Mismatches: 10, Indels: 15
0.86 0.05 0.08
Matches are distributed among these distances:
43 2 0.01
44 58 0.37
45 59 0.38
46 37 0.24
47 1 0.01
ACGTcount: A:0.39, C:0.06, G:0.22, T:0.32
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATGGGTA
Found at i:13153603 original size:45 final size:46
Alignment explanation
Indices: 13153468--13153685 Score: 263
Period size: 44 Copynumber: 4.8 Consensus size: 46
13153458 GTAAGCATTC
* * * *
13153468 AAATAAGTTTACGAGCTTATGGAAT-AATGGCAAGTAT-ATGGGTG
1 AAATAAGCTTATGAGCTTATGGAATAAATGGTAAGTATAATGGGTA
* *
13153512 AAATAAGCTTACGAGCTTATGTGATTAAATGGTAAGTAT-ATGGGTA
1 AAATAAGCTTATGAGCTTATG-GAATAAATGGTAAGTATAATGGGTA
13153558 AAATAAGCTTATGCA-CTTATGGAATAAATGGTAAGTATAAT-GGTA
1 AAATAAGCTTATG-AGCTTATGGAATAAATGGTAAGTATAATGGGTA
* *
13153603 AAATAAGCTTAAGAGCTTATGGAAT-AATGGTAAGTAT-ATTGGTA
1 AAATAAGCTTATGAGCTTATGGAATAAATGGTAAGTATAATGGGTA
* *
13153647 AAATAAGCTTTTGAGCTTATGTG-ATAAATGGTAAATATA
1 AAATAAGCTTATGAGCTTATG-GAATAAATGGTAAGTATA
13153686 TTGGATGTGC
Statistics
Matches: 155, Mismatches: 10, Indels: 16
0.86 0.06 0.09
Matches are distributed among these distances:
43 2 0.01
44 58 0.37
45 57 0.37
46 37 0.24
47 1 0.01
ACGTcount: A:0.39, C:0.06, G:0.22, T:0.32
Consensus pattern (46 bp):
AAATAAGCTTATGAGCTTATGGAATAAATGGTAAGTATAATGGGTA
Found at i:13153666 original size:89 final size:92
Alignment explanation
Indices: 13153468--13153685 Score: 288
Period size: 89 Copynumber: 2.4 Consensus size: 92
13153458 GTAAGCATTC
* * * * *
13153468 AAATAAGTTTACGAGCTTATGGAAT-AATGGCAAGTAT-ATGGGTGAAATAAGCTTACGAGCTTA
1 AAATAAGCTTATGAGCTTATGGAATAAATGGTAAGTATAATGGGTAAAATAAGCTTAAGAGCTTA
*
13153531 TGTGATTAAATGGTAAGTATATGGGTA
66 TGTGAATAAATGGTAAGTATATGGGTA
13153558 AAATAAGCTTATGCA-CTTATGGAATAAATGGTAAGTATAAT-GGTAAAATAAGCTTAAGAGCTT
1 AAATAAGCTTATG-AGCTTATGGAATAAATGGTAAGTATAATGGGTAAAATAAGCTTAAGAGCTT
*
13153621 ATG-GAAT-AATGGTAAGTATATTGGTA
65 ATGTGAATAAATGGTAAGTATATGGGTA
* *
13153647 AAATAAGCTTTTGAGCTTATGTG-ATAAATGGTAAATATA
1 AAATAAGCTTATGAGCTTATG-GAATAAATGGTAAGTATA
13153686 TTGGATGTGC
Statistics
Matches: 114, Mismatches: 9, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
88 1 0.01
89 51 0.45
90 25 0.22
91 35 0.31
92 2 0.02
ACGTcount: A:0.39, C:0.06, G:0.22, T:0.32
Consensus pattern (92 bp):
AAATAAGCTTATGAGCTTATGGAATAAATGGTAAGTATAATGGGTAAAATAAGCTTAAGAGCTTA
TGTGAATAAATGGTAAGTATATGGGTA
Found at i:13168527 original size:2 final size:2
Alignment explanation
Indices: 13168522--13168558 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
13168512 TTGATTTTGA
13168522 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13168559 AAGTTTTGAA
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:13168615 original size:37 final size:37
Alignment explanation
Indices: 13168546--13168697 Score: 119
Period size: 37 Copynumber: 4.1 Consensus size: 37
13168536 ATATATATAT
* * * *
13168546 ATATATATATATAAAGTTTTGAAAGCACATTTTTGAAA
1 ATATATA-ATATATAGTTTTAAAAACATATTTTTGAAA
*
13168584 ATGTATAATATATAGTTTTAAAAACATATTTTTGAAAA
1 ATATATAATATATAGTTTTAAAAACATATTTTTG-AAA
* * ** *
13168622 CAAATATAATATATAGTTTTTAAAATC-GGTTTTGGAAA
1 -ATATATAATATATAG-TTTTAAAAACATATTTTTGAAA
* ** * *
13168660 ACATATAATACGTAGTTTTTAAAATATA-TTTTGAAA
1 ATATATAATATATAGTTTTAAAAACATATTTTTGAAA
13168696 AT
1 AT
13168698 GTACATATAA
Statistics
Matches: 89, Mismatches: 21, Indels: 10
0.74 0.17 0.08
Matches are distributed among these distances:
36 15 0.17
37 35 0.39
38 12 0.13
39 18 0.20
40 9 0.10
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.41
Consensus pattern (37 bp):
ATATATAATATATAGTTTTAAAAACATATTTTTGAAA
Found at i:13170027 original size:4 final size:4
Alignment explanation
Indices: 13170018--13170044 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
13170008 TCCTTTACTT
13170018 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
13170045 CCTTTGTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:13171696 original size:29 final size:29
Alignment explanation
Indices: 13171639--13171697 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
13171629 TTTAAAATAC
* * *
13171639 GACTAAAATAACAGAACATAAACTTAAGT
1 GACTAAAATAAAAGAACAGAAACTAAAGT
* *
13171668 GACTAAAATAAAATAACAGAAAGTAAAGT
1 GACTAAAATAAAAGAACAGAAACTAAAGT
13171697 G
1 G
13171698 CCAAAACTGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.58, C:0.10, G:0.14, T:0.19
Consensus pattern (29 bp):
GACTAAAATAAAAGAACAGAAACTAAAGT
Found at i:13174285 original size:45 final size:45
Alignment explanation
Indices: 13174224--13174376 Score: 243
Period size: 45 Copynumber: 3.4 Consensus size: 45
13174214 GAATAATGTC
13174224 AAGTATATTGGTAAAATAAGCTTACGAGCTTATGGATTAAATGGT
1 AAGTATATTGGTAAAATAAGCTTACGAGCTTATGGATTAAATGGT
* * * * *
13174269 AAGTATGTTGGCAAAATAAGCTTACAAGCTTTTGGATAAAATGGT
1 AAGTATATTGGTAAAATAAGCTTACGAGCTTATGGATTAAATGGT
* *
13174314 AAGTATGTTGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGT
1 AAGTATATTGGTAAAATAAGCTTACGAGCTTATGGATTAAATGGT
13174359 AAGTATATTGGTAAAATA
1 AAGTATATTGGTAAAATA
13174377 TTGGATATGT
Statistics
Matches: 97, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 97 1.00
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.32
Consensus pattern (45 bp):
AAGTATATTGGTAAAATAAGCTTACGAGCTTATGGATTAAATGGT
Found at i:13174760 original size:21 final size:21
Alignment explanation
Indices: 13174736--13174796 Score: 104
Period size: 21 Copynumber: 2.9 Consensus size: 21
13174726 TTCAGAAATT
13174736 ACTATAGCAGTGCATCGATGC
1 ACTATAGCAGTGCATCGATGC
13174757 ACTATAGCAGTGCATCGATGC
1 ACTATAGCAGTGCATCGATGC
* *
13174778 ACTGTAGCAATGCATCGAT
1 ACTATAGCAGTGCATCGAT
13174797 ACACAATTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (21 bp):
ACTATAGCAGTGCATCGATGC
Found at i:13186714 original size:45 final size:45
Alignment explanation
Indices: 13186650--13186817 Score: 250
Period size: 45 Copynumber: 3.8 Consensus size: 45
13186640 TTATGGTTTA
*
13186650 TTATGGAAT-AATGGCAAGTATATTGGTAAAATAAGCTTACGAGC
1 TTATGGAATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
* * *
13186694 TTATGGATTAAATGGTAAGTATGTTGGTAAAATAAGCTTACAAGC
1 TTATGGAATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
* *
13186739 TTATGG-ATAAAATGGTAAGTATGTTGGTAAAATAAGCATACGAGC
1 TTATGGAAT-AAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
*
13186784 TTATGGAATAAATGGTAAGCATATTGGTAAAATA
1 TTATGGAATAAATGGTAAGTATATTGGTAAAATA
13186818 TTGGATATGT
Statistics
Matches: 112, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
44 9 0.08
45 101 0.90
46 2 0.02
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.31
Consensus pattern (45 bp):
TTATGGAATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
Found at i:13189053 original size:126 final size:126
Alignment explanation
Indices: 13188805--13189450 Score: 753
Period size: 126 Copynumber: 5.1 Consensus size: 126
13188795 TGAAGAGTTA
* * *
13188805 TGGCCATCTAAAGGTTGATAACATGGTTCCTACGTGATGAGGACGGATGATTATCTTAAGTTGAC
1 TGGCCATCT-AAGGGTGATAACATGGTTCCTACGTGATGAGGACGGTTGATTATC-TGAGTTGAC
* * * * *
13188870 ACGACTTCTA-AGTGATGAGGAGATCTGGTCAGGCGATGACACTGCTCATCTGTTCATGAGTCT
64 ACAACTCCTACA-TAATGAGGAGATCTGGTCATGTGATGACACTGCTCATCTGTTCATGAGTCT
** * * * * *
13188933 TATCCATCTAAGGGAGGTAACACGGTTCCTACGTGATGAGGATGGCTGATTATCTGAGTTGACAC
1 TGGCCATCTAAGGGTGATAACATGGTTCCTACGTGATGAGGACGGTTGATTATCTGAGTTGACAC
* * * * * *
13188998 AACTCCTACACAATGAGGAGATCTGATCATGTCATGGCACTACTTATCTGTTCATGAGTCT
66 AACTCCTACATAATGAGGAGATCTGGTCATGTGATGACACTGCTCATCTGTTCATGAGTCT
* * *
13189059 TGGCCATCTAAGGGTGATAACACGGTTTCACT-C-TGATGGGGACGGTTGGTTATCTGAGTTGAC
1 TGGCCATCTAAGGGTGATAACATGG-TTC-CTACGTGATGAGGACGGTTGATTATCTGAGTTGAC
* * * * *
13189122 ATAGCTCTTACTTAATGAGGAGATCTGGTCATGTGATGACATTGCTCATCTGTTCATGAGTCT
64 ACAACTCCTACATAATGAGGAGATCTGGTCATGTGATGACACTGCTCATCTGTTCATGAGTCT
* * * * * *
13189185 TAGCCATCTAAGGGTGATAACATAGTTCC-AC-TCTACTGGGGATGGTTGCTTATCTGAGTTGAC
1 TGGCCATCTAAGGGTGATAACATGGTTCCTACGT-GA-TGAGGACGGTTGATTATCTGAGTTGAC
* * * *
13189248 ACAGCTCCTACGTAATGAGGAGATCTGGTCATGTGATGGCACTGCTCATATGTTCATGAGTCT
64 ACAACTCCTACATAATGAGGAGATCTGGTCATGTGATGACACTGCTCATCTGTTCATGAGTCT
* * * * *
13189311 TGGCCATCTAAGGGTGATAATATGGTTCCTACGGGATGAAGACAGTTGGTTATCTGAGTTGACAC
1 TGGCCATCTAAGGGTGATAACATGGTTCCTACGTGATGAGGACGGTTGATTATCTGAGTTGACAC
* * **
13189376 ATCTCCTACATAATGAGGAGATCTGGTCAGGTGATGACACCACTCATCTGTTCATGAGTCT
66 AACTCCTACATAATGAGGAGATCTGGTCATGTGATGACACTGCTCATCTGTTCATGAGTCT
*
13189437 TGGTCATCTAAGGG
1 TGGCCATCTAAGGG
13189451 ATTTTGGTTT
Statistics
Matches: 441, Mismatches: 69, Indels: 18
0.84 0.13 0.03
Matches are distributed among these distances:
124 3 0.01
125 4 0.01
126 378 0.86
127 47 0.11
128 9 0.02
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (126 bp):
TGGCCATCTAAGGGTGATAACATGGTTCCTACGTGATGAGGACGGTTGATTATCTGAGTTGACAC
AACTCCTACATAATGAGGAGATCTGGTCATGTGATGACACTGCTCATCTGTTCATGAGTCT
Found at i:13189759 original size:32 final size:32
Alignment explanation
Indices: 13189706--13189775 Score: 104
Period size: 32 Copynumber: 2.2 Consensus size: 32
13189696 TTCGCATCAG
*
13189706 GATGTTAAATACCCAAAGATGCCCCAATATTT
1 GATGTTAAATACCCAAAGATGCCCCAACATTT
* * *
13189738 GATGTTTAATATCCAAGGATGCCCCAACATTT
1 GATGTTAAATACCCAAAGATGCCCCAACATTT
13189770 GATGTT
1 GATGTT
13189776 GAATCTTCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (32 bp):
GATGTTAAATACCCAAAGATGCCCCAACATTT
Found at i:13190886 original size:12 final size:12
Alignment explanation
Indices: 13190869--13190894 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13190859 TTTGTTGCTA
13190869 TTTTTTATTCTT
1 TTTTTTATTCTT
13190881 TTTTTTATTCTT
1 TTTTTTATTCTT
13190893 TT
1 TT
13190895 CTCGTTTTGC
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:0.08, C:0.08, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTTATTCTT
Found at i:13194175 original size:23 final size:24
Alignment explanation
Indices: 13194140--13194184 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
13194130 TTATTTATTG
13194140 TTTTAAAACAGTT-ATGATTTTTA
1 TTTTAAAACAGTTGATGATTTTTA
*
13194163 TTTTGAAAA-AGTTGGTGATTTT
1 TTTT-AAAACAGTTGATGATTTT
13194185 GAATTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.31, C:0.02, G:0.16, T:0.51
Consensus pattern (24 bp):
TTTTAAAACAGTTGATGATTTTTA
Found at i:13194929 original size:29 final size:29
Alignment explanation
Indices: 13194886--13194951 Score: 107
Period size: 29 Copynumber: 2.3 Consensus size: 29
13194876 AAATAACACA
13194886 AACA-AAATCTTAAGTGACTAAAATAAAAT
1 AACAGAAA-CTTAAGTGACTAAAATAAAAT
*
13194915 AATAGAAACTTAAGTGACTAAAATAAAAT
1 AACAGAAACTTAAGTGACTAAAATAAAAT
13194944 AACAGAAA
1 AACAGAAA
13194952 GTAAAGTGTC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
29 31 0.91
30 3 0.09
ACGTcount: A:0.61, C:0.09, G:0.09, T:0.21
Consensus pattern (29 bp):
AACAGAAACTTAAGTGACTAAAATAAAAT
Found at i:13194958 original size:29 final size:29
Alignment explanation
Indices: 13194897--13194959 Score: 99
Period size: 29 Copynumber: 2.2 Consensus size: 29
13194887 ACAAAATCTT
* *
13194897 AAGTGACTAAAATAAAATAATAGAAACTT
1 AAGTGACTAAAATAAAATAACAGAAACTA
*
13194926 AAGTGACTAAAATAAAATAACAGAAAGTA
1 AAGTGACTAAAATAAAATAACAGAAACTA
13194955 AAGTG
1 AAGTG
13194960 TCAAAACCGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.59, C:0.06, G:0.14, T:0.21
Consensus pattern (29 bp):
AAGTGACTAAAATAAAATAACAGAAACTA
Found at i:13196168 original size:3 final size:3
Alignment explanation
Indices: 13196160--13196189 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
13196150 AGTTGTTAAT
13196160 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
13196190 ATTTTTTTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:13219727 original size:21 final size:21
Alignment explanation
Indices: 13219703--13219781 Score: 115
Period size: 21 Copynumber: 3.7 Consensus size: 21
13219693 TTTTTGTTAG
13219703 AGTACTTTGTGTACTTGAAGT
1 AGTACTTTGTGTACTTGAAGT
13219724 AGTACTTTGTGTACTATGACAAG-
1 AGTACTTTGTGTACT-TG--AAGT
*
13219747 AGTACTTTGTGTACTTGGAGT
1 AGTACTTTGTGTACTTGAAGT
13219768 AGTACTTTGTGTAC
1 AGTACTTTGTGTAC
13219782 CATGACACTT
Statistics
Matches: 53, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
20 2 0.04
21 29 0.55
22 4 0.08
23 15 0.28
24 3 0.06
ACGTcount: A:0.24, C:0.11, G:0.24, T:0.41
Consensus pattern (21 bp):
AGTACTTTGTGTACTTGAAGT
Found at i:13219769 original size:44 final size:44
Alignment explanation
Indices: 13219701--13219788 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
13219691 CATTTTTGTT
*
13219701 AGAGTACTTTGTGTACTTGAAGTAGTACTTTGTGTACTATGACA
1 AGAGTACTTTGTGTACTTGAAGTAGTACTTTGTGTACCATGACA
*
13219745 AGAGTACTTTGTGTACTTGGAGTAGTACTTTGTGTACCATGACA
1 AGAGTACTTTGTGTACTTGAAGTAGTACTTTGTGTACCATGACA
13219789 CTTTGTGTGC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.26, C:0.12, G:0.24, T:0.38
Consensus pattern (44 bp):
AGAGTACTTTGTGTACTTGAAGTAGTACTTTGTGTACCATGACA
Found at i:13221413 original size:17 final size:17
Alignment explanation
Indices: 13221353--13221427 Score: 53
Period size: 17 Copynumber: 4.1 Consensus size: 17
13221343 ACGTGAGAAT
*
13221353 AATAAATAAAATAAGAAA
1 AATAAA-AAAATAATAAA
* *
13221371 AA-ATAGAAAATAACAAA
1 AATA-AAAAAATAATAAA
13221388 ACACGTAAAAAAATAATAAA
1 A-A--TAAAAAAATAATAAA
13221408 AATAAAAAAAATGAATAAA
1 AAT-AAAAAAAT-AATAAA
13221427 A
1 A
13221428 TGTTAAAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
17 13 0.28
18 12 0.26
19 8 0.17
20 12 0.26
21 1 0.02
ACGTcount: A:0.76, C:0.04, G:0.05, T:0.15
Consensus pattern (17 bp):
AATAAAAAAATAATAAA
Found at i:13221817 original size:25 final size:27
Alignment explanation
Indices: 13221769--13221819 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 27
13221759 ACATCTATAC
* *
13221769 ATATATATATATATATAATGATATAAG
1 ATATATATATATATAAAATAATATAAG
13221796 ATATATATA-ATA-AAAATAATATAA
1 ATATATATATATATAAAATAATATAA
13221820 TATAAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 10 0.45
26 3 0.14
27 9 0.41
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (27 bp):
ATATATATATATATAAAATAATATAAG
Found at i:13221822 original size:23 final size:23
Alignment explanation
Indices: 13221769--13221833 Score: 51
Period size: 25 Copynumber: 2.7 Consensus size: 23
13221759 ACATCTATAC
* *
13221769 ATATATATATATATATAATGATATA
1 ATATATATA-ATA-AAAATAATATA
*
13221794 AGATATATATAATAAAAATAATATA
1 ATATAT--ATAATAAAAATAATATA
*
13221819 ATATAAATAA-AAAAA
1 ATATATATAATAAAAA
13221834 GAGGAATATA
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
22 5 0.15
23 4 0.12
25 18 0.55
26 3 0.09
27 3 0.09
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (23 bp):
ATATATATAATAAAAATAATATA
Found at i:13223519 original size:106 final size:106
Alignment explanation
Indices: 13223194--13223566 Score: 466
Period size: 106 Copynumber: 3.5 Consensus size: 106
13223184 AGTATTGTTC
* * * *
13223194 TGAGTCCAATAT-CCTCCGTTGTGAAGTTGAAATTGGCTCTGGAACTGGGAAATTGTTTGTTGAT
1 TGAGTCCAATATCCCT-CGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAAATGTTTGTTGAC
*
13223258 AGCCAGCTGCCCCTTCGA-TGTGAAGTTGAGCTTGTGTTGTCT
65 AGCCAGCCGCCCCTTC-ATTGTGAAGTTGAGCTTGTGTTGTCT
* * * *
13223300 CGAGTTCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACT--GAAAAGTTGTTTG
1 TGAGTCCAATATCCCTCGCTGTGAAGTTGAAATTGGCTC----TGAAACTGGGAAAA--TGTTTG
** * * *
13223363 TTGACAATCAGTCACCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCT
60 TTGACAGCCAGCCGCCCCTTCATTGTGAAGTTGAGCTTGTGTTGTCT
* *
13223410 TGAGTCCAATATCCCTCGCTATGAAGTTGAAATTGGCTCTGAAACTGGGAAAATATTTGTTGACA
1 TGAGTCCAATATCCCTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAAATGTTTGTTGACA
13223475 GCCAGCCGCCCCTTCATTGTGAAGTTGAGCTTGTGTTGTCT
66 GCCAGCCGCCCCTTCATTGTGAAGTTGAGCTTGTGTTGTCT
* * * *
13223516 TGAGTCCAATATCCCTCGATGTGAAGTTAAAATTGGCTTTGAAACTAGGAA
1 TGAGTCCAATATCCCTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAA
13223567 GCCCCTTCGT
Statistics
Matches: 227, Mismatches: 30, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
106 131 0.58
107 2 0.01
108 9 0.04
110 85 0.37
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (106 bp):
TGAGTCCAATATCCCTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAAATGTTTGTTGACA
GCCAGCCGCCCCTTCATTGTGAAGTTGAGCTTGTGTTGTCT
Found at i:13224391 original size:67 final size:65
Alignment explanation
Indices: 13224275--13224457 Score: 197
Period size: 65 Copynumber: 2.8 Consensus size: 65
13224265 AAGATATCTG
* * * * ** *
13224275 TTGTTTCATGA-AAACGGTCTCAAAGGAAACAAAATTTTGTTTTAAGGGAAATAAATTTGAAGAT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TTTGTTTTAAGGGAAATAAATTCAAACA-
13224339 TT
64 TT
* *
13224341 TGTGTTTTAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAACAT
1 T-TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAACAT
13224406 T
65 T
* * * * * *
13224407 TTGTTTCAAGGGAAACTATCTCAAGAGAGACGAAATTTGTTTCAAGAGAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAA
13224458 CTGTCTCAAG
Statistics
Matches: 98, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
65 42 0.43
66 4 0.04
67 32 0.33
68 20 0.20
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.32
Consensus pattern (65 bp):
TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAACATT
Found at i:13224458 original size:36 final size:36
Alignment explanation
Indices: 13224406--13224524 Score: 148
Period size: 36 Copynumber: 3.3 Consensus size: 36
13224396 ATTCAAACAT
* *
13224406 TTTGTTTCAAGGGAAACTATCTCAAGAGAGACGAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAA
*
13224442 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAA
* * * * *
13224478 CTTAGTTCCAAAAGAAACTGTCTCAAGGGAGATGAAA
1 -TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAA
*
13224515 TTTCTTTCAA
1 TTTGTTTCAA
13224525 ATAAAACATA
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
36 40 0.57
37 30 0.43
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (36 bp):
TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAA
Found at i:13224502 original size:37 final size:36
Alignment explanation
Indices: 13224418--13224509 Score: 121
Period size: 37 Copynumber: 2.5 Consensus size: 36
13224408 TGTTTCAAGG
* * * * *
13224418 GAAACTATCTCAAGAGAGACGAAATTTGTTTCAAGA
1 GAAACTGTCTCAAGAGAGACAAAATTAGTTCCAAAA
13224454 GAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAA
1 GAAACTGTCTCAAGAGAGACAAAA-TTAGTTCCAAAA
*
13224491 GAAACTGTCTCAAGGGAGA
1 GAAACTGTCTCAAGAGAGA
13224510 TGAAATTTCT
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
36 22 0.45
37 27 0.55
ACGTcount: A:0.42, C:0.16, G:0.21, T:0.21
Consensus pattern (36 bp):
GAAACTGTCTCAAGAGAGACAAAATTAGTTCCAAAA
Found at i:13225446 original size:32 final size:31
Alignment explanation
Indices: 13225392--13225496 Score: 129
Period size: 32 Copynumber: 3.3 Consensus size: 31
13225382 TTTGCATCAG
* * * *
13225392 GATGTTGAATTCCCAAAGATGCCCCAATATTC
1 GATGTTGAATT-CAAAAAATGCCCCAACATTT
*
13225424 AATGTTGAATCTCAAAAAATGCCCCAACATTT
1 GATGTTGAAT-TCAAAAAATGCCCCAACATTT
* *
13225456 GATGTTAAATTTAAAAAATGCCCCAACATTT
1 GATGTTGAATTCAAAAAATGCCCCAACATTT
13225487 GATGTTGAAT
1 GATGTTGAAT
13225497 CTTTAAAGAT
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
31 29 0.46
32 33 0.52
33 1 0.02
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.30
Consensus pattern (31 bp):
GATGTTGAATTCAAAAAATGCCCCAACATTT
Found at i:13225475 original size:31 final size:32
Alignment explanation
Indices: 13225410--13225510 Score: 132
Period size: 32 Copynumber: 3.2 Consensus size: 32
13225400 ATTCCCAAAG
* ** *
13225410 ATGCCCCAATATTCAATGTTGAATCTCAAAAA
1 ATGCCCCAACATTTGATGTTGAATCTTAAAAA
*
13225442 ATGCCCCAACATTTGATGTTAAAT-TTAAAAA
1 ATGCCCCAACATTTGATGTTGAATCTTAAAAA
* *
13225473 ATGCCCCAACATTTGATGTTGAATCTTTAAAG
1 ATGCCCCAACATTTGATGTTGAATCTTAAAAA
13225505 ATGCCC
1 ATGCCC
13225511 TCATTGTTCC
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
31 29 0.48
32 31 0.52
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.31
Consensus pattern (32 bp):
ATGCCCCAACATTTGATGTTGAATCTTAAAAA
Found at i:13226525 original size:69 final size:69
Alignment explanation
Indices: 13226409--13226546 Score: 240
Period size: 69 Copynumber: 2.0 Consensus size: 69
13226399 TGTCTCTCTC
* *
13226409 TTGATGCTCTATGATCTTCGAGTGGAGTGATTCAATGATTCGGAAATGATTGTGCTTGATCAATC
1 TTGATGCTCTATGATCTTCGAGTGAAGTGATTCAATGATTCGAAAATGATTGTGCTTGATCAATC
13226474 TCAT
66 TCAT
* *
13226478 TTGATGCTCTATGATCTTCGAGTGAAGTGGTTCAGTGATTCGAAAATGATTGTGCTTGATCAATC
1 TTGATGCTCTATGATCTTCGAGTGAAGTGATTCAATGATTCGAAAATGATTGTGCTTGATCAATC
13226543 TCAT
66 TCAT
13226547 AGTTTGAATC
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 65 1.00
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.38
Consensus pattern (69 bp):
TTGATGCTCTATGATCTTCGAGTGAAGTGATTCAATGATTCGAAAATGATTGTGCTTGATCAATC
TCAT
Found at i:13226610 original size:24 final size:26
Alignment explanation
Indices: 13226580--13226639 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
13226570 TGAATCGAGA
13226580 TTTTCTCTTCAAATTTC-CTTTG-TT
1 TTTTCTCTTCAAATTTCTCTTTGCTT
** *
13226604 TTTTCTCTTTTTATTTTCTCTTTGCTT
1 TTTTCTC-TTCAAATTTCTCTTTGCTT
13226631 TTTTCTCTT
1 TTTTCTCTT
13226640 TTTGTTCTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 7 0.23
25 7 0.23
26 7 0.23
27 9 0.30
ACGTcount: A:0.07, C:0.20, G:0.03, T:0.70
Consensus pattern (26 bp):
TTTTCTCTTCAAATTTCTCTTTGCTT
Found at i:13226634 original size:14 final size:13
Alignment explanation
Indices: 13226593--13226640 Score: 64
Period size: 13 Copynumber: 3.7 Consensus size: 13
13226583 TCTCTTCAAA
13226593 TTTC-CTTTGTTT
1 TTTCTCTTTGTTT
13226605 TTTCTCTTT-TTAT
1 TTTCTCTTTGTT-T
13226618 TTTCTCTTTGCTTT
1 TTTCTCTTTG-TTT
13226632 TTTCTCTTT
1 TTTCTCTTT
13226641 TTGTTCTGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.19
13 14 0.44
14 10 0.31
15 2 0.06
ACGTcount: A:0.02, C:0.19, G:0.04, T:0.75
Consensus pattern (13 bp):
TTTCTCTTTGTTT
Found at i:13226638 original size:27 final size:25
Alignment explanation
Indices: 13226593--13226642 Score: 82
Period size: 27 Copynumber: 1.9 Consensus size: 25
13226583 TCTCTTCAAA
13226593 TTTCCTTTGTTTTTTCTCTTTTTAT
1 TTTCCTTTGTTTTTTCTCTTTTTAT
13226618 TTTCTCTTTGCTTTTTTCTCTTTTT
1 TTTC-CTTTG-TTTTTTCTCTTTTT
13226643 GTTCTGATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 4 0.17
26 5 0.22
27 14 0.61
ACGTcount: A:0.02, C:0.18, G:0.04, T:0.76
Consensus pattern (25 bp):
TTTCCTTTGTTTTTTCTCTTTTTAT
Found at i:13229741 original size:8 final size:9
Alignment explanation
Indices: 13229728--13229770 Score: 59
Period size: 9 Copynumber: 4.6 Consensus size: 9
13229718 CAAAACAAGT
13229728 TAAAAATAA
1 TAAAAATAA
13229737 TAAAAATAA
1 TAAAAATAA
13229746 TAAAAATAA
1 TAAAAATAA
*
13229755 AACAAAATGAA
1 TA-AAAAT-AA
13229766 TAAAA
1 TAAAA
13229771 TGTTAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
9 19 0.63
10 8 0.27
11 3 0.10
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (9 bp):
TAAAAATAA
Found at i:13229986 original size:17 final size:17
Alignment explanation
Indices: 13229964--13230019 Score: 60
Period size: 16 Copynumber: 3.2 Consensus size: 17
13229954 TATTAAGGAA
13229964 AAAATAATAGAAAAAAT
1 AAAATAATAGAAAAAAT
*
13229981 AAAATAA-AGTAAAAAT
1 AAAATAATAGAAAAAAT
* *
13229997 ATAATATATATAAATAAAT
1 AAAATA-ATAGAAA-AAAT
13230016 AAAA
1 AAAA
13230020 CAAAAATAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
16 13 0.42
17 8 0.26
18 3 0.10
19 7 0.23
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (17 bp):
AAAATAATAGAAAAAAT
Found at i:13230173 original size:25 final size:27
Alignment explanation
Indices: 13230125--13230175 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 27
13230115 CTATACATAC
* *
13230125 ATATATATATATATATAATGATATAAG
1 ATATATATATATATAAAATAATATAAG
13230152 ATATATATA-ATA-AAAATAATATAA
1 ATATATATATATATAAAATAATATAA
13230176 TATAAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 10 0.45
26 3 0.14
27 9 0.41
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (27 bp):
ATATATATATATATAAAATAATATAAG
Found at i:13230178 original size:23 final size:23
Alignment explanation
Indices: 13230125--13230190 Score: 51
Period size: 25 Copynumber: 2.7 Consensus size: 23
13230115 CTATACATAC
* *
13230125 ATATATATATATATATAATGATATA
1 ATATATATA-ATA-AAAATAATATA
*
13230150 AGATATATATAATAAAAATAATATA
1 ATATAT--ATAATAAAAATAATATA
* *
13230175 ATATAAATAAAAAAAA
1 ATATATATAATAAAAA
13230191 GAGGAATATA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
23 9 0.27
25 18 0.55
26 3 0.09
27 3 0.09
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (23 bp):
ATATATATAATAAAAATAATATA
Found at i:13230227 original size:21 final size:21
Alignment explanation
Indices: 13230155--13230228 Score: 69
Period size: 24 Copynumber: 3.4 Consensus size: 21
13230145 ATATAAGATA
*
13230155 TATATAATAAAAATAATATAA-
1 TATA-AATAAAAAAAATATAAT
* *
13230176 TATAAATAAAAAAAAGAGGAAT
1 TATAAATAAAAAAAATA-TAAT
13230198 ATAGTAAATAAAAAAAATATAAT
1 -TA-TAAATAAAAAAAATATAAT
*
13230221 TAAAAATA
1 TATAAATA
13230229 TATATATAAG
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
20 11 0.26
21 11 0.26
22 2 0.05
23 5 0.12
24 14 0.33
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (21 bp):
TATAAATAAAAAAAATATAAT
Found at i:13232982 original size:17 final size:19
Alignment explanation
Indices: 13232960--13233000 Score: 68
Period size: 17 Copynumber: 2.3 Consensus size: 19
13232950 TTGACTGTAT
13232960 TTTTAGTATTT-TT-TTAA
1 TTTTAGTATTTATTATTAA
13232977 TTTTAGTATTTATTATTAA
1 TTTTAGTATTTATTATTAA
13232996 TTTTA
1 TTTTA
13233001 ATTATATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 11 0.50
18 2 0.09
19 9 0.41
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (19 bp):
TTTTAGTATTTATTATTAA
Found at i:13233013 original size:19 final size:18
Alignment explanation
Indices: 13232960--13233012 Score: 53
Period size: 17 Copynumber: 3.1 Consensus size: 18
13232950 TTGACTGTAT
13232960 TTTTAGTATTT-TT-TTAA
1 TTTTAG-ATTTATTATTAA
13232977 TTTTAGTATTTATTATTAA
1 TTTTAG-ATTTATTATTAA
13232996 TTTTA-A-TTA-TATTAA
1 TTTTAGATTTATTATTAA
13233011 TT
1 TT
13233013 AGGAATTCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
15 8 0.24
16 3 0.09
17 12 0.35
18 2 0.06
19 9 0.26
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (18 bp):
TTTTAGATTTATTATTAA
Found at i:13253154 original size:21 final size:21
Alignment explanation
Indices: 13253112--13253154 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
13253102 TTTTACATTC
* *
13253112 ACATTGGCATTGCATATTTTT
1 ACATTGGCATGGCATATATTT
* *
13253133 ACATTTGCATGGCATGTATTT
1 ACATTGGCATGGCATATATTT
13253154 A
1 A
13253155 TTAATCATTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.26, C:0.14, G:0.16, T:0.44
Consensus pattern (21 bp):
ACATTGGCATGGCATATATTT
Found at i:13256163 original size:2 final size:2
Alignment explanation
Indices: 13256156--13256197 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
13256146 AAACAAAATA
13256156 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13256198 TAAAAATATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13258939 original size:14 final size:14
Alignment explanation
Indices: 13258920--13258946 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13258910 AAACACCATT
13258920 TTTATTTTTATTTA
1 TTTATTTTTATTTA
13258934 TTTATTTTTATTT
1 TTTATTTTTATTT
13258947 TTTCTTTATC
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:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTATTTTTATTTA
Found at i:13259982 original size:27 final size:26
Alignment explanation
Indices: 13259950--13260028 Score: 65
Period size: 27 Copynumber: 2.9 Consensus size: 26
13259940 TGTCTACTAT
13259950 TATTTTATTTTATGTATTTTAGTCA-C
1 TATTTTATTTTATG-ATTTTAGTCAGC
* *
13259976 TACTTTT-TATTTATGA-TTTAGCTAATGT
1 TA-TTTTAT-TTTATGATTTTAG-TCA-GC
13260004 TATTTTATTTTATGCATTTTAGTCA
1 TATTTTATTTTATG-ATTTTAGTCA
13260029 TTTTTTATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 14
0.71 0.05 0.24
Matches are distributed among these distances:
25 5 0.12
26 6 0.14
27 20 0.48
28 6 0.14
29 5 0.12
ACGTcount: A:0.24, C:0.08, G:0.09, T:0.59
Consensus pattern (26 bp):
TATTTTATTTTATGATTTTAGTCAGC
Found at i:13260061 original size:51 final size:53
Alignment explanation
Indices: 13259938--13260063 Score: 166
Period size: 51 Copynumber: 2.4 Consensus size: 53
13259928 TTCGTTATAA
*
13259938 TTTGTCTACTATTATTTTATTTTATGTATTTTAGTCACTACTTTTTATTTATGAT
1 TTTG-CTACTATTATTTTATTTTATGCATTTTAGTCACTA-TTTTTATTTATGAT
* * * *
13259993 TTAGCTAATGTTATTTTATTTTATGCATTTTAGTCA-T-TTTTTATTTCTGAT
1 TTTGCTACTATTATTTTATTTTATGCATTTTAGTCACTATTTTTATTTATGAT
*
13260044 TTTGCTACTATTTTTTTATT
1 TTTGCTACTATTATTTTATT
13260064 ATTACATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
51 29 0.47
53 1 0.02
54 29 0.47
55 3 0.05
ACGTcount: A:0.21, C:0.09, G:0.08, T:0.63
Consensus pattern (53 bp):
TTTGCTACTATTATTTTATTTTATGCATTTTAGTCACTATTTTTATTTATGAT
Found at i:13260066 original size:54 final size:53
Alignment explanation
Indices: 13259949--13260050 Score: 154
Period size: 54 Copynumber: 1.9 Consensus size: 53
13259939 TTGTCTACTA
*
13259949 TTATTTTATTTTATGTATTTTAGTCACTACTTTTTATTTATGATTTAGCTAATG
1 TTATTTTATTTTATGCATTTTAGTCACTA-TTTTTATTTATGATTTAGCTAATG
* *
13260003 TTATTTTATTTTATGCATTTTAGTCA-T-TTTTTATTTCTGATTTTGCTA
1 TTATTTTATTTTATGCATTTTAGTCACTATTTTTATTTATGATTTAGCTA
13260051 CTATTTTTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
51 19 0.42
53 1 0.02
54 25 0.56
ACGTcount: A:0.22, C:0.08, G:0.09, T:0.62
Consensus pattern (53 bp):
TTATTTTATTTTATGCATTTTAGTCACTATTTTTATTTATGATTTAGCTAATG
Found at i:13260799 original size:59 final size:61
Alignment explanation
Indices: 13260732--13260850 Score: 215
Period size: 59 Copynumber: 2.0 Consensus size: 61
13260722 CTTATGATGA
*
13260732 CTTTATAAATAGTATTTGAGAATTTTTAGGTCAATGTGTCT-TTT-AATAAGATCAATTGG
1 CTTTATAAATAGGATTTGAGAATTTTTAGGTCAATGTGTCTCTTTCAATAAGATCAATTGG
13260791 CTTTATAAATAGGATTTGAGAATTTTTAGGTCAATGTGTCTCTTTCAATAAGATCAATTG
1 CTTTATAAATAGGATTTGAGAATTTTTAGGTCAATGTGTCTCTTTCAATAAGATCAATTG
13260851 ACTCTTAGCT
Statistics
Matches: 57, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
59 40 0.70
60 3 0.05
61 14 0.25
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.43
Consensus pattern (61 bp):
CTTTATAAATAGGATTTGAGAATTTTTAGGTCAATGTGTCTCTTTCAATAAGATCAATTGG
Found at i:13264710 original size:35 final size:35
Alignment explanation
Indices: 13264665--13264739 Score: 125
Period size: 35 Copynumber: 2.1 Consensus size: 35
13264655 AACCTTTTAG
*
13264665 ATTTAGGATTTTTAGTTTGATTATTTTATT-TTTTT
1 ATTTAAGATTTTTAGTTTGATT-TTTTATTATTTTT
13264700 ATTTAAGATTTTTAGTTTGATTTTTTATTATTTTT
1 ATTTAAGATTTTTAGTTTGATTTTTTATTATTTTT
13264735 ATTTA
1 ATTTA
13264740 GGAATTAATT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
34 7 0.18
35 31 0.82
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.68
Consensus pattern (35 bp):
ATTTAAGATTTTTAGTTTGATTTTTTATTATTTTT
Found at i:13266306 original size:35 final size:30
Alignment explanation
Indices: 13266240--13266303 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
13266230 TGCTTTCTTT
13266240 TTTTTAGCCGATTCAATGCAAGATTGGTTA
1 TTTTTAGCCGATTCAATGCAAGATTGGTTA
*
13266270 TTTTTAGCCGATTCAATGCAAGATTTGTTA
1 TTTTTAGCCGATTCAATGCAAGATTGGTTA
13266300 TTTT
1 TTTT
13266304 ATTTACCTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.45
Consensus pattern (30 bp):
TTTTTAGCCGATTCAATGCAAGATTGGTTA
Found at i:13279561 original size:18 final size:18
Alignment explanation
Indices: 13279520--13279557 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
13279510 TTATTTGTAC
* *
13279520 TTTAATTGCTTTTATTTA
1 TTTAATCGCTTTAATTTA
13279538 TTTAATCGCTTTAA-TTA
1 TTTAATCGCTTTAATTTA
13279555 TTT
1 TTT
13279558 TAATATCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.24, C:0.08, G:0.05, T:0.63
Consensus pattern (18 bp):
TTTAATCGCTTTAATTTA
Found at i:13280391 original size:41 final size:40
Alignment explanation
Indices: 13280346--13280455 Score: 123
Period size: 41 Copynumber: 2.7 Consensus size: 40
13280336 AACCTTTTAG
13280346 ATTTAAGAATTTTAGTTTAATTACTTTATTATTATTATTTT
1 ATTTAAGAATTTTAGTTTAATTACTTTATTATTATTA-TTT
* * *
13280387 ATTT-AGGATTTATAGTTTGATTATTTTATTATTATTATTT
1 ATTTAAGAATTT-TAGTTTAATTACTTTATTATTATTATTT
* * *
13280427 ATTTAGGAATTAGTTATTTTATTTACTTT
1 ATTTAAGAATT--TTAGTTTAATTACTTT
13280456 GAATTTTTGA
Statistics
Matches: 56, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
40 13 0.23
41 31 0.55
42 11 0.20
43 1 0.02
ACGTcount: A:0.29, C:0.02, G:0.08, T:0.61
Consensus pattern (40 bp):
ATTTAAGAATTTTAGTTTAATTACTTTATTATTATTATTT
Found at i:13282170 original size:29 final size:29
Alignment explanation
Indices: 13282110--13282172 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
13282100 TCTAACATTT
* *
13282110 ATTCCTTTAAAAAACACTATTATTTTCAA
1 ATTCCTTTAAAAAACAATATTATTTACAA
* *
13282139 ATTCTTTTAAAAAATAATATTATCTTAC-A
1 ATTCCTTTAAAAAACAATATTAT-TTACAA
13282168 ATTCC
1 ATTCC
13282173 AGGGTCAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
29 25 0.89
30 3 0.11
ACGTcount: A:0.41, C:0.16, G:0.00, T:0.43
Consensus pattern (29 bp):
ATTCCTTTAAAAAACAATATTATTTACAA
Found at i:13286602 original size:44 final size:45
Alignment explanation
Indices: 13286465--13286629 Score: 215
Period size: 45 Copynumber: 3.7 Consensus size: 45
13286455 GGTAAGCATG
13286465 AAAATAAGCTTACAAGCTTATGGAATAAATGGTAAGTATATTGGT
1 AAAATAAGCTTACAAGCTTATGGAATAAATGGTAAGTATATTGGT
* * * *
13286510 AAAATAAGCTTACGAGCTTATGAAACAAATGGTAAGTATATTGTT
1 AAAATAAGCTTACAAGCTTATGGAATAAATGGTAAGTATATTGGT
* * * * * * *
13286555 AAAAT-AGCTTACGAGTTTATGGATTATATGTTAAGCATTTTGGT
1 AAAATAAGCTTACAAGCTTATGGAATAAATGGTAAGTATATTGGT
*
13286599 AAAATAAGCTTACAAGCTTATGGGATAAATG
1 AAAATAAGCTTACAAGCTTATGGAATAAATG
13286630 ATGAGATATT
Statistics
Matches: 101, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
44 35 0.35
45 66 0.65
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.33
Consensus pattern (45 bp):
AAAATAAGCTTACAAGCTTATGGAATAAATGGTAAGTATATTGGT
Found at i:13289463 original size:10 final size:10
Alignment explanation
Indices: 13289448--13289494 Score: 67
Period size: 10 Copynumber: 4.7 Consensus size: 10
13289438 CATAAGAGCT
13289448 AAAAAATAGA
1 AAAAAATAGA
13289458 AAAAAATAGA
1 AAAAAATAGA
13289468 AAAAAATAGA
1 AAAAAATAGA
* *
13289478 AAATAAGAGA
1 AAAAAATAGA
*
13289488 AGAAAAT
1 AAAAAAT
13289495 GAGAGATGAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 32 1.00
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.11
Consensus pattern (10 bp):
AAAAAATAGA
Found at i:13290261 original size:24 final size:24
Alignment explanation
Indices: 13290243--13290289 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
13290233 GAATTTTTCT
13290243 ACAATGATAGTTATCAATTGAGTA
1 ACAATGATAGTTATCAATTGAGTA
*
13290267 ACAATGATAGTTATCAATCGAGT
1 ACAATGATAGTTATCAATTGAGT
13290290 TAAAAGATCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.32
Consensus pattern (24 bp):
ACAATGATAGTTATCAATTGAGTA
Found at i:13293368 original size:45 final size:45
Alignment explanation
Indices: 13293304--13293469 Score: 210
Period size: 45 Copynumber: 3.7 Consensus size: 45
13293294 GTAAGCATGC
*
13293304 AAATAAGCTTACGAGCTTATGGAATAAATGGTATGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
* * * * *
13293349 AAATAAGCTTACGAGCTTATGTAACAAACGGTAAGTATGTTGTTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
* * *
13293394 AAAT-AGCTTATC-AGTTTATGGATTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTA-CGAGCTTATGGAATAAATGGTAAGTATATTGGTA
* *
13293438 AAATAAGCTTACAAGCTTATGGGATAAATGGT
1 AAATAAGCTTACGAGCTTATGGAATAAATGGT
13293470 GAGAAATTTT
Statistics
Matches: 102, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.35
45 66 0.65
ACGTcount: A:0.37, C:0.08, G:0.21, T:0.34
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
Found at i:13300391 original size:8 final size:8
Alignment explanation
Indices: 13300378--13300423 Score: 53
Period size: 8 Copynumber: 6.0 Consensus size: 8
13300368 TTTGTCATAG
13300378 TTATTTCA
1 TTATTTCA
13300386 TTATTT-A
1 TTATTTCA
13300393 TT-TTT-A
1 TTATTTCA
*
13300399 TTATTTTA
1 TTATTTCA
13300407 TTATTTTCA
1 TTA-TTTCA
13300416 TTATTTCA
1 TTATTTCA
13300424 AAATCCTCCA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
6 6 0.18
7 6 0.18
8 15 0.44
9 7 0.21
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.70
Consensus pattern (8 bp):
TTATTTCA
Found at i:13307960 original size:12 final size:12
Alignment explanation
Indices: 13307943--13307967 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13307933 AACATAAACT
13307943 GTGTGGATAGAC
1 GTGTGGATAGAC
13307955 GTGTGGATAGAC
1 GTGTGGATAGAC
13307967 G
1 G
13307968 GGTCCTCAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.44, T:0.24
Consensus pattern (12 bp):
GTGTGGATAGAC
Found at i:13320923 original size:14 final size:14
Alignment explanation
Indices: 13320904--13320937 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
13320894 AAGAATTACT
*
13320904 GGTTAGTGGTTAGC
1 GGTTAGTGGTTAAC
13320918 GGTTAGTGGTTAAC
1 GGTTAGTGGTTAAC
13320932 GGTTAG
1 GGTTAG
13320938 AAGTTAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.06, G:0.41, T:0.35
Consensus pattern (14 bp):
GGTTAGTGGTTAAC
Found at i:13321199 original size:98 final size:99
Alignment explanation
Indices: 13320976--13321206 Score: 220
Period size: 100 Copynumber: 2.3 Consensus size: 99
13320966 TATGGGTTGT
* * * * * * * *
13320976 AATAATGCGGGTCGTACCCCAGATGGGGTCACCGCAAGGTCGTATAATAATTCAAACAAACTAAT
1 AATAATACGGGCCATACCCCGGATCGGGTCACCACAAGGTCATACAATAATT-AAACAAACTAAT
*
13321041 AAAAAAAGGTTAGGAGTTAATAGAGTTTAGACCAA
65 AAAAAAAGGTTAGGAGTTAATAAAGTTTAGACCAA
** **
13321076 AATAATGTGGTTCATACCCCGGATCGGGTCACCACAAGGTCATACAATAATT-AA-AAA-TAATA
1 AATAATACGGGCCATACCCCGGATCGGGTCACCACAAGGTCATACAATAATTAAACAAACTAATA
* *
13321138 ATAAAAAGGTTAGG-GTTAGTAATAAAGTTTGGATC-A
66 A-AAAAAGGTTAGGAG-T--TAATAAAGTTTAGACCAA
** *
13321174 AATAATACGGGCCATACCCTTGATCGGCTCACC
1 AATAATACGGGCCATACCCCGGATCGGGTCACC
13321207 GTAAGATCGT
Statistics
Matches: 109, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
96 7 0.06
97 16 0.15
98 29 0.27
99 13 0.12
100 44 0.40
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (99 bp):
AATAATACGGGCCATACCCCGGATCGGGTCACCACAAGGTCATACAATAATTAAACAAACTAATA
AAAAAAGGTTAGGAGTTAATAAAGTTTAGACCAA
Found at i:13322403 original size:29 final size:28
Alignment explanation
Indices: 13322358--13322427 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 28
13322348 AACTGAAAAT
*
13322358 ATTATCTCCCAAAATTAACCCGAAACAC
1 ATTACCTCCCAAAATTAACCCGAAACAC
* *
13322386 ATTACCTCCTCAAAATTAATCTGAAACAC
1 ATTACCTCC-CAAAATTAACCCGAAACAC
13322415 ATTACCTTCCCAA
1 ATTACC-TCCCAA
13322428 GTCTGCCTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
28 8 0.22
29 26 0.70
30 3 0.08
ACGTcount: A:0.40, C:0.31, G:0.03, T:0.26
Consensus pattern (28 bp):
ATTACCTCCCAAAATTAACCCGAAACAC
Found at i:13323831 original size:95 final size:95
Alignment explanation
Indices: 13323247--13323863 Score: 605
Period size: 95 Copynumber: 6.4 Consensus size: 95
13323237 CTTGAAATAA
* * * * *
13323247 ATTTTAAAATTATTTCACTTGAAACAAAAATTAATCTCACTTAAGATGGTTTCTCTTAAAATCAA
1 ATTTTGAAATTGTTTCACTTGAAACAAAAATT--TATCACTTGAGATGGTTTTTCTTAAAATCAA
* * * *
13323312 TTTCGTCTTTTTAAAACAGTTTCCCTT-TAAATA-A-
64 TTTCG-C---TTGAAATAGTTCCCCTTGGAAA-ACAG
** *
13323346 ATTTTGAAATTGTTTCACTCAAAACAAAAATTTATCTCACTTAAGATGGTTTTTCTTAAAATCAA
1 ATTTTGAAATTGTTTCACTTGAAACAAAAATTTA--TCACTTGAGATGGTTTTTCTTAAAATCAA
* ** * * *
13323411 TTTCGTCTTTTTTAAGGCAGTTTCCATT-GAAACACAA
64 TTTCG-C---TTGAA-ATAGTTCCCCTTGGAAA-ACAG
* * *
13323448 ATTTTGAAATTGTTTCACTTGAAATAAAAATTTATCACTTGAGATGATTTTTCTTAAAATTAATT
1 ATTTTGAAATTGTTTCACTTGAAACAAAAATTTATCACTTGAGATGGTTTTTCTTAAAATCAATT
* *
13323513 TTGCTTGAAATAGTTCCCCTTGGAACACAG
66 TCGCTTGAAATAGTTCCCCTTGGAAAACAG
* * * * *
13323543 ATTTGGAAATTCTTTTACATAAAACAAAAATTTATCACTTGAGATGGTTTTTCTTAAAATCAATT
1 ATTTTGAAATTGTTTCACTTGAAACAAAAATTTATCACTTGAGATGGTTTTTCTTAAAATCAATT
** ** *
13323608 TTTCTTGAAATAGTTCATCTTGGAACACAG
66 TCGCTTGAAATAGTTCCCCTTGGAAAACAG
* * * * * *
13323638 ATTTGGAAATTGTTTCAATTAAAACAATAATTTATGACTTGAGATGGTTTTTCCTAAAATCAATT
1 ATTTTGAAATTGTTTCACTTGAAACAAAAATTTATCACTTGAGATGGTTTTTCTTAAAATCAATT
*
13323703 TCGCTTGAAATAGTTCCCCTTGGAACACAG
66 TCGCTTGAAATAGTTCCCCTTGGAAAACAG
* * *
13323733 ATTTTTAAATTTTTTCACTTGAAACAAAAATTTATCACTTGAGATGGTTTCTCTTAAAATCAATT
1 ATTTTGAAATTGTTTCACTTGAAACAAAAATTTATCACTTGAGATGGTTTTTCTTAAAATCAATT
* * **
13323798 TAGCTTGAGATAGTTCCCCTTGGAAAATTG
66 TCGCTTGAAATAGTTCCCCTTGGAAAACAG
* * *
13323828 ATTTTGGAATAGTTTTACTTGAAGAC-AAAATTTATC
1 ATTTTGAAATTGTTTCACTTGAA-ACAAAAATTTATC
13323864 TTTTCTTAGA
Statistics
Matches: 445, Mismatches: 66, Indels: 18
0.84 0.12 0.03
Matches are distributed among these distances:
95 288 0.65
96 9 0.02
97 1 0.00
99 71 0.16
100 44 0.10
101 1 0.00
102 31 0.07
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (95 bp):
ATTTTGAAATTGTTTCACTTGAAACAAAAATTTATCACTTGAGATGGTTTTTCTTAAAATCAATT
TCGCTTGAAATAGTTCCCCTTGGAAAACAG
Found at i:13324524 original size:139 final size:138
Alignment explanation
Indices: 13324220--13324914 Score: 698
Period size: 139 Copynumber: 5.0 Consensus size: 138
13324210 AAGAACTTGT
* ** * *
13324220 TCAGCGACACCTCACTCGAAAGATCAACGTTTCTAGTGGAAGGGTTCATAATGAGAATAACTCAT
1 TCAGCAACACCTCACTCGAGGGATCAACATTTCCAGTGG-AGGGTTCATAATGAGAATAACTCAT
* * * * * * * * *
13324285 CTGATGAAGGAGAAAAAGTTCAAAATGATAATAACGTGTTCAACCTGAGCTTGATTCAACACATA
65 CTGATG-AGGAGAAGAAGTTTATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCACATA
13324350 TGGAGTTGAA
129 TGGAGTTGAA
*** ** *
13324360 TCAATGACACCTCACTATAGGGATCAACATTTCCAGTGGAAGGGTTCATAATGAGAAGAACTCAT
1 TCAGCAACACCTCACTCGAGGGATCAACATTTCCAGTGG-AGGGTTCATAATGAGAATAACTCAT
13324425 CTGATGTAGGAGAAGAA-TTTATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCACATA
65 CTGATG-AGGAGAAGAAGTTTATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCACATA
*
13324489 TGGAGTTTAA
129 TGGAGTTGAA
** * * * * *
13324499 -CTAGTGATACCTCACTCGAGGGATCAACATTTACAGTAGAGTGTTCATAATGAGAATAACTCAC
1 TC-AGCAACACCTCACTCGAGGGATCAACATTTCCAGTGGAGGGTTCATAATGAGAATAACTCAT
** * * *
13324563 CCCATCTG-GGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTAACTTGATTCATCACAT
65 CTGA--TGAGGAGAAGAAGTTTATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCACAT
*
13324627 TTGGAGTTGAA
128 ATGGAGTTGAA
* * * * * * *
13324638 TCAGCAACACCTTACTCGAGGGATCAATAATTCCAGTTGAGTGTTCATAATGAGAAGATCTCATC
1 TCAGCAACACCTCACTCGAGGGATCAACATTTCCAGTGGAGGGTTCATAATGAGAATAACTCATC
* * * * * * *
13324703 TGATGAGAGAGAAGAAGTTTGTAATAAAAAGAACTTGTTCAACCTTAGTTCAATTCATCAAATAC
66 TGATGAG-GAGAAGAAGTTTATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCACATAT
*
13324768 GGAGTTTAA
130 GGAGTTGAA
* * * *
13324777 TCAGCAACACCTCACTCGAGGGATCAACATTTCTAGTGGAGAGTTTATAATGAGAATAACCCATC
1 TCAGCAACACCTCACTCGAGGGATCAACATTTCCAGTGGAGGGTTCATAATGAGAATAACTCATC
* * * *** *
13324842 CGACGAGGGAGAAGAA-TTTCATAATGAGAAGAAATCAATCAACCTTAG-TTGATTTCCATCACA
66 TGATGA-GGAGAAGAAGTTT-ATAATGAGAAGAACTTGTTCAACCTTAGCTCGA-TT-CATCACA
*
13324905 TAAGGAGTTG
127 TATGGAGTTG
13324915 GAACAACACT
Statistics
Matches: 459, Mismatches: 85, Indels: 22
0.81 0.15 0.04
Matches are distributed among these distances:
137 2 0.00
138 40 0.09
139 328 0.71
140 89 0.19
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (138 bp):
TCAGCAACACCTCACTCGAGGGATCAACATTTCCAGTGGAGGGTTCATAATGAGAATAACTCATC
TGATGAGGAGAAGAAGTTTATAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATCACATATG
GAGTTGAA
Found at i:13324634 original size:278 final size:278
Alignment explanation
Indices: 13324220--13324874 Score: 807
Period size: 278 Copynumber: 2.4 Consensus size: 278
13324210 AAGAACTTGT
* ** * *
13324220 TCAGCGACACCTCACTCGAAAGATCAACGTTTCTAGTGGAAGGGTTCATAATGAGAATAACTCAT
1 TCAGCAACACCTCACTCGAGGGATCAACATTTCTAGTGG-AGAGTTCATAATGAGAATAACTCAT
* * * * * * * *
13324285 CTGATGAAGGAGAAAAAGTTCAAAATGATAATAACGTGTTCAACCTGAGCTTGATTCAACACATA
65 CCGATCAGGGAGAAGAAGTTCATAATGAGAAGAACGTGTTCAACCTGAACTTGATTCAACACATA
** * *
13324350 TGGAGTTGAATCAATGACACCTCACTATAGGGATCAACATTTCCAGTGGAAGGGTTCATAATGAG
130 TGGAGTTGAATCAACAACACCTCACTAGAGGGATCAACAATTCCAGTGG-AGGGTTCATAATGAG
* * *
13324415 AAGAACTCATCTGATGTAG-GAGAAGAA-TTTATAATGAGAAGAACTTGTTCAACCTTAGCTCGA
194 AAGAACTCATCTGATG-AGAGAGAAGAAGTTTATAATAAAAAGAACTTGTTCAACCTTAGCTCAA
* *
13324478 TTCATCACATATGGAGTTTAA
258 TTCATCAAATACGGAGTTTAA
** * * *
13324499 -CTAGTGATACCTCACTCGAGGGATCAACATTTAC-AGTAGAGTGTTCATAATGAGAATAACTCA
1 TC-AGCAACACCTCACTCGAGGGATCAACATTT-CTAGTGGAGAGTTCATAATGAGAATAACTCA
* * * * * *
13324562 CCCCATCTGGGAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTAACTTGATTCATCACAT
64 TCCGATCAGGGAGAAGAAGTTCATAATGAGAAGAACGTGTTCAACCTGAACTTGATTCAACACAT
* * * * * * *
13324627 TTGGAGTTGAATCAGCAACACCTTACTCGAGGGATCAATAATTCCAGTTGAGTGTTCATAATGAG
129 ATGGAGTTGAATCAACAACACCTCACTAGAGGGATCAACAATTCCAGTGGAGGGTTCATAATGAG
* * *
13324692 AAGATCTCATCTGATGAGAGAGAAGAAGTTTGTAATAAAAAGAACTTGTTCAACCTTAGTTCAAT
194 AAGAACTCATCTGATGAGAGAGAAGAAGTTTATAATAAAAAGAACTTGTTCAACCTTAGCTCAAT
13324757 TCATCAAATACGGAGTTTAA
259 TCATCAAATACGGAGTTTAA
* *
13324777 TCAGCAACACCTCACTCGAGGGATCAACATTTCTAGTGGAGAGTTTATAATGAGAATAACCCATC
1 TCAGCAACACCTCACTCGAGGGATCAACATTTCTAGTGGAGAGTTCATAATGAGAATAACTCATC
*
13324842 CGA-CGAGGGAGAAGAATTTCATAATGAGAAGAA
66 CGATC-AGGGAGAAGAAGTTCATAATGAGAAGAA
13324875 ATCAATCAAC
Statistics
Matches: 318, Mismatches: 51, Indels: 15
0.83 0.13 0.04
Matches are distributed among these distances:
276 2 0.01
277 39 0.12
278 246 0.77
279 30 0.09
280 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (278 bp):
TCAGCAACACCTCACTCGAGGGATCAACATTTCTAGTGGAGAGTTCATAATGAGAATAACTCATC
CGATCAGGGAGAAGAAGTTCATAATGAGAAGAACGTGTTCAACCTGAACTTGATTCAACACATAT
GGAGTTGAATCAACAACACCTCACTAGAGGGATCAACAATTCCAGTGGAGGGTTCATAATGAGAA
GAACTCATCTGATGAGAGAGAAGAAGTTTATAATAAAAAGAACTTGTTCAACCTTAGCTCAATTC
ATCAAATACGGAGTTTAA
Found at i:13325701 original size:14 final size:15
Alignment explanation
Indices: 13325661--13325701 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
13325651 AATATCATTT
13325661 AAAATAAATTTAAGA
1 AAAATAAATTTAAGA
*
13325676 AAAATAATTTTAA-A
1 AAAATAAATTTAAGA
13325690 AGAAA-AAATTTA
1 A-AAATAAATTTA
13325702 TTTGCGTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 8 0.35
15 15 0.65
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (15 bp):
AAAATAAATTTAAGA
Found at i:13328995 original size:45 final size:44
Alignment explanation
Indices: 13328944--13330331 Score: 997
Period size: 45 Copynumber: 31.0 Consensus size: 44
13328934 TTATTTCCGC
* * *
13328944 GAGAAAGTCAAGAATAACATCACTAAAAGGTTGAC-TCTTCTTCGT
1 GAGAAAGTCAAGAATGACAT-ACTAAAAGATTGACTTC-TCTTCAT
* * *
13328989 GAGAAAGTCAAGAAGGACAACACTAAAAGATCGACTTCTCTTCAT
1 GAGAAAGTCAAGAATGAC-ATACTAAAAGATTGACTTCTCTTCAT
* * * * * *
13329034 GACAAAGTCAATAATGACAACACTAAAAGATTGGA-TCCTTTTCAC
1 GAGAAAGTCAAGAATGAC-ATACTAAAAGATT-GACTTCTCTTCAT
* * * * *
13329079 AAGAAAGTCAAGAATAACATCCTAAAAGGTTGACTTCTCTTAAT
1 GAGAAAGTCAAGAATGACATACTAAAAGATTGACTTCTCTTCAT
* * * * * * * **
13329123 GAGAAAGTCAAGTAGGAAAATAATAAAAGATCGAATCCTCTTCGC
1 GAGAAAGTCAAGAATG-ACATACTAAAAGATTGACTTCTCTTCAT
* * * * * *
13329168 GAGAAAG-CGAA-TATGGAAAACACTAAAAGATCGACTTCTCTTTAC
1 GAGAAAGTC-AAGAAT-G-ACATACTAAAAGATTGACTTCTCTTCAT
* * * * *
13329213 GAGAAAGTCAAGAATGACAACACTAAAATATTGACTCCTATTCAC
1 GAGAAAGTCAAGAATGAC-ATACTAAAAGATTGACTTCTCTTCAT
* * * *
13329258 GAGAAAGTCAAGAATAACATCACTAAAAGGTTGCCTTCTCTTTAT
1 GAGAAAGTCAAGAATGACAT-ACTAAAAGATTGACTTCTCTTCAT
* * * * * * *
13329303 GAGAAAGTTAAGTAGGACAATACTAAAATATTAACTCCTCTTTA-
1 GAGAAAGTCAAGAATGAC-ATACTAAAAGATTGACTTCTCTTCAT
* * * * * * * * *
13329347 CAAAAAGTCAAAAAGGACAACACTATATGATTGACTCCTCTTCAC
1 GAGAAAGTCAAGAATGAC-ATACTAAAAGATTGACTTCTCTTCAT
* * * *
13329392 GAGAAAGTCAAGGAA-GATA-ACATTGAAAGATTGACTTCTCTTTAC
1 GAGAAAGTCAA-GAATGACATAC--TAAAAGATTGACTTCTCTTCAT
* * *
13329437 GATAAAGTCAAGAATGACAATATTGAAAGATTGACTTCTCTTCAT
1 GAGAAAGTCAAGAATGAC-ATACTAAAAGATTGACTTCTCTTCAT
* * * *
13329482 GAGAAAGTCAATAATGAAAATACTGAAAGATTGACTTCTCTTCAC
1 GAGAAAGTCAAGAATG-ACATACTAAAAGATTGACTTCTCTTCAT
* * *
13329527 GAGAAAGTCAAGAATGACAATACTGAAAGATTGATTTCTCTTCAC
1 GAGAAAGTCAAGAATGAC-ATACTAAAAGATTGACTTCTCTTCAT
* * *
13329572 GAGAAAGTCAAGAATAATAATACTGAAAGATTGACTTCTCTTCAT
1 GAGAAAGTCAAGAATGA-CATACTAAAAGATTGACTTCTCTTCAT
* * * * *
13329617 GAGAAAGTCAAGAAT-A-AAATTGAATGATTGACTTCTCTTCAC
1 GAGAAAGTCAAGAATGACATACTAAAAGATTGACTTCTCTTCAT
* * * * * * *
13329659 AAGGAAGTAAAGAATGAAAATACTGAAAGATCGACTTCTCTTCGT
1 GAGAAAGTCAAGAATG-ACATACTAAAAGATTGACTTCTCTTCAT
* * * **
13329704 GAGAAAATCAAGAATGACATCACTAAAAGGTTGATTTCTCCGCAT
1 GAGAAAGTCAAGAATGACAT-ACTAAAAGATTGACTTCTCTTCAT
* * * * ***
13329749 GAGAAAGTCAAGTAGGACATCACTAAAAGATTGACTTTTATTTGC
1 GAGAAAGTCAAGAATGACAT-ACTAAAAGATTGACTTCTCTTCAT
* * * * *
13329794 GAGAAAGTTAAGAATGATAACACTAAAATATTGA-TTCCTCTTAAT
1 GAGAAAGTCAAGAATGA-CATACTAAAAGATTGACTT-CTCTTCAT
* *
13329839 GAGAAAGT-AAAAGATGACAATACTGAAAGATTGACTTCTCTTCAT
1 GAGAAAGTCAAGA-ATGAC-ATACTAAAAGATTGACTTCTCTTCAT
* * * * * *
13329884 GAGAAAATCAAGAATAACATCCCTAAAAGGTTAACTTCTCTTAAT
1 GAGAAAGTCAAGAATGACAT-ACTAAAAGATTGACTTCTCTTCAT
* * * *
13329929 GAGAAAGTCAAGTAGGACAATACTAAAAGATTGACTCCTCTTCGT
1 GAGAAAGTCAAGAATGAC-ATACTAAAAGATTGACTTCTCTTCAT
* * * * * *
13329974 GAAAAAAAGTCAAGAATGACAACACTCAAAGATTGAATCCTCTTCAC
1 G--AGAAAGTCAAGAATGAC-ATACTAAAAGATTGACTTCTCTTCAT
* * *
13330021 GAGAAAGTCAAGGAA-GACAACACTGAAAGATTGACTTCTCATCAT
1 GAGAAAGTCAA-GAATGAC-ATACTAAAAGATTGACTTCTCTTCAT
* * * *
13330066 GAGAAAGTCAAGAATAACAATGCTAAAAGATTGAATTCTCTTCGT
1 GAGAAAGTCAAGAATGAC-ATACTAAAAGATTGACTTCTCTTCAT
* * * *
13330111 GAGAAAGTCAAGAATGGCAATACTGAAATATTGACTTCTCTTCAC
1 GAGAAAGTCAAGAATGAC-ATACTAAAAGATTGACTTCTCTTCAT
* * *
13330156 GATAAAGTCAAAAATGACAATACTTAAAGATTGACTTCTCTTCAT
1 GAGAAAGTCAAGAATGAC-ATACTAAAAGATTGACTTCTCTTCAT
* *
13330201 GAGAAAGTCAAGAATGACAATACTGAAAGATTGACTTCTCTTTAT
1 GAGAAAGTCAAGAATGAC-ATACTAAAAGATTGACTTCTCTTCAT
* * *
13330246 GAGAAAGTCAAGAATAACAT--TGAAAGATTGAC-TCATCTTAAT
1 GAGAAAGTCAAGAATGACATACTAAAAGATTGACTTC-TCTTCAT
* * * * * *
13330288 GAGGACGTCAAGAATGAAAATACTGAAAGACTGACTTCTTTTCA
1 GAGAAAGTCAAGAATG-ACATACTAAAAGATTGACTTCTCTTCA
13330332 CAAGAAATCC
Statistics
Matches: 1073, Mismatches: 227, Indels: 86
0.77 0.16 0.06
Matches are distributed among these distances:
41 2 0.00
42 65 0.06
43 7 0.01
44 88 0.08
45 846 0.79
46 27 0.03
47 38 0.04
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (44 bp):
GAGAAAGTCAAGAATGACATACTAAAAGATTGACTTCTCTTCAT
Found at i:13329058 original size:90 final size:90
Alignment explanation
Indices: 13328944--13330331 Score: 1203
Period size: 90 Copynumber: 15.5 Consensus size: 90
13328934 TTATTTCCGC
* * * * *
13328944 GAGAAAGTCAAGAATAAC-ATCACTAAAAGGTTGAC-TCTTCTTCGTGAGAAAGTCAAGAAGGAC
1 GAGAAAGTCAAGAATGACAAT-ACTGAAAGATTGACTTC-TCTTCATGAGAAAGTCAAGAATGAC
*
13329007 AACACTAAAAGATCGACTTCTCTTCAT
64 AACACTAAAAGATTGACTTCTCTTCAT
* * * * * * ** *
13329034 GACAAAGTCAATAATGACAACACTAAAAGATTGGA-TCCTTTTCACAAGAAAGTCAAGAATAACA
1 GAGAAAGTCAAGAATGACAATACTGAAAGATT-GACTTCTCTTCATGAGAAAGTCAAGAATGACA
* * *
13329098 TC-CTAAAAGGTTGACTTCTCTTAAT
65 ACACTAAAAGATTGACTTCTCTTCAT
* * * * * * * * ** * *
13329123 GAGAAAGTCAAGTAGGAAAATAATAAAAGATCGAATCCTCTTCGCGAGAAAG-CGAA-TATGGAA
1 GAGAAAGTCAAGAATGACAATACTGAAAGATTGACTTCTCTTCATGAGAAAGTC-AAGAAT-GAC
* * *
13329186 AACACTAAAAGATCGACTTCTCTTTAC
64 AACACTAAAAGATTGACTTCTCTTCAT
* * * * * * * *
13329213 GAGAAAGTCAAGAATGACAACACTAAAATATTGACTCCTATTCACGAGAAAGTCAAGAATAACAT
1 GAGAAAGTCAAGAATGACAATACTGAAAGATTGACTTCTCTTCATGAGAAAGTCAAGAATGACAA
* * *
13329278 CACTAAAAGGTTGCCTTCTCTTTAT
66 CACTAAAAGATTGACTTCTCTTCAT
* * * * * * * * * * * *
13329303 GAGAAAGTTAAGTAGGACAATACTAAAATATTAACTCCTCTTTA-CAAAAAGTCAAAAAGGACAA
1 GAGAAAGTCAAGAATGACAATACTGAAAGATTGACTTCTCTTCATGAGAAAGTCAAGAATGACAA
* * * *
13329367 CACTATATGATTGACTCCTCTTCAC
66 CACTAAAAGATTGACTTCTCTTCAT
* * * * * *
13329392 GAGAAAGTCAAGGAA-GATAACATTGAAAGATTGACTTCTCTTTACGATAAAGTCAAGAATGACA
1 GAGAAAGTCAA-GAATGACAATACTGAAAGATTGACTTCTCTTCATGAGAAAGTCAAGAATGACA
* * *
13329456 ATATTGAAAGATTGACTTCTCTTCAT
65 ACACTAAAAGATTGACTTCTCTTCAT
* * *
13329482 GAGAAAGTCAATAATGAAAATACTGAAAGATTGACTTCTCTTCACGAGAAAGTCAAGAATGACAA
1 GAGAAAGTCAAGAATGACAATACTGAAAGATTGACTTCTCTTCATGAGAAAGTCAAGAATGACAA
* * * *
13329547 TACTGAAAGATTGATTTCTCTTCAC
66 CACTAAAAGATTGACTTCTCTTCAT
* *
13329572 GAGAAAGTCAAGAATAATAATACTGAAAGATTGACTTCTCTTCATGAGAAAGTCAAGAAT-A-AA
1 GAGAAAGTCAAGAATGACAATACTGAAAGATTGACTTCTCTTCATGAGAAAGTCAAGAATGACAA
* * * *
13329635 -ATTGAATGATTGACTTCTCTTCAC
66 CACTAAAAGATTGACTTCTCTTCAT
* * * * * * * *
13329659 AAGGAAGTAAAGAATGAAAATACTGAAAGATCGACTTCTCTTCGTGAGAAAATCAAGAATGACAT
1 GAGAAAGTCAAGAATGACAATACTGAAAGATTGACTTCTCTTCATGAGAAAGTCAAGAATGACAA
* * **
13329724 CACTAAAAGGTTGATTTCTCCGCAT
66 CACTAAAAGATTGACTTCTCTTCAT
* * * * * *** * *
13329749 GAGAAAGTCAAGTAGGAC-ATCACTAAAAGATTGACTTTTATTTGCGAGAAAGTTAAGAATGATA
1 GAGAAAGTCAAGAATGACAAT-ACTGAAAGATTGACTTCTCTTCATGAGAAAGTCAAGAATGACA
* *
13329813 ACACTAAAATATTGA-TTCCTCTTAAT
65 ACACTAAAAGATTGACTT-CTCTTCAT
* * *
13329839 GAGAAAGT-AAAAGATGACAATACTGAAAGATTGACTTCTCTTCATGAGAAAATCAAGAATAACA
1 GAGAAAGTCAAGA-ATGACAATACTGAAAGATTGACTTCTCTTCATGAGAAAGTCAAGAATGACA
* * * * *
13329903 TCCCTAAAAGGTTAACTTCTCTTAAT
65 ACACTAAAAGATTGACTTCTCTTCAT
* * * * * *
13329929 GAGAAAGTCAAGTAGGACAATACTAAAAGATTGACTCCTCTTCGTGAAAAAAAGTCAAGAATGAC
1 GAGAAAGTCAAGAATGACAATACTGAAAGATTGACTTCTCTTCATG--AGAAAGTCAAGAATGAC
* * * *
13329994 AACACTCAAAGATTGAATCCTCTTCAC
64 AACACTAAAAGATTGACTTCTCTTCAT
* * *
13330021 GAGAAAGTCAAGGAA-GACAACACTGAAAGATTGACTTCTCATCATGAGAAAGTCAAGAATAACA
1 GAGAAAGTCAA-GAATGACAATACTGAAAGATTGACTTCTCTTCATGAGAAAGTCAAGAATGACA
** * *
13330085 ATGCTAAAAGATTGAATTCTCTTCGT
65 ACACTAAAAGATTGACTTCTCTTCAT
* * * * *
13330111 GAGAAAGTCAAGAATGGCAATACTGAAATATTGACTTCTCTTCACGATAAAGTCAAAAATGACAA
1 GAGAAAGTCAAGAATGACAATACTGAAAGATTGACTTCTCTTCATGAGAAAGTCAAGAATGACAA
* *
13330176 TACTTAAAGATTGACTTCTCTTCAT
66 CACTAAAAGATTGACTTCTCTTCAT
*
13330201 GAGAAAGTCAAGAATGACAATACTGAAAGATTGACTTCTCTTTATGAGAAAGTCAAGAAT---AA
1 GAGAAAGTCAAGAATGACAATACTGAAAGATTGACTTCTCTTCATGAGAAAGTCAAGAATGACAA
* * *
13330263 CATTGAAAGATTGAC-TCATCTTAAT
66 CACTAAAAGATTGACTTC-TCTTCAT
* * * * *
13330288 GAGGACGTCAAGAATGAAAATACTGAAAGACTGACTTCTTTTCA
1 GAGAAAGTCAAGAATGACAATACTGAAAGATTGACTTCTCTTCA
13330332 CAAGAAATCC
Statistics
Matches: 1047, Mismatches: 225, Indels: 55
0.79 0.17 0.04
Matches are distributed among these distances:
86 2 0.00
87 131 0.13
88 8 0.01
89 140 0.13
90 682 0.65
91 13 0.01
92 69 0.07
93 2 0.00
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (90 bp):
GAGAAAGTCAAGAATGACAATACTGAAAGATTGACTTCTCTTCATGAGAAAGTCAAGAATGACAA
CACTAAAAGATTGACTTCTCTTCAT
Found at i:13329196 original size:179 final size:180
Alignment explanation
Indices: 13329007--13329633 Score: 572
Period size: 179 Copynumber: 3.5 Consensus size: 180
13328997 CAAGAAGGAC
* *
13329007 AACACTAAAAGATCGACTTCTCTTCATGACAAAGTCAATAATGACAACACTAAAAGATTGGA-TC
1 AACACTAAAAGATCGACTTCTCTTCACGACAAAGTCAAGAATGACAACACTAAAAGATT-GACTC
*
13329071 CTTTTCACAAGAAAGTCAAGAATAACATC-CTAAAAGGTTGACTTCTCTTAATGAGAAAGTCAAG
65 CTATTCACAAGAAAGTCAAGAATAACATCACTAAAAGGTTGACTTCTCTTAATGAGAAAGTCAAG
13329135 TAGGAAAATAATAAAAGATCGAATCCTCTTCGCGAGAAAGCGAATATGGAA
130 TAGGAAAATAATAAAAGATCGAATCCTCTTCGCGAGAAAGCGAATATGGAA
* * *
13329186 AACACTAAAAGATCGACTTCTCTTTACGAGAAAGTCAAGAATGACAACACTAAAATATTGACTCC
1 AACACTAAAAGATCGACTTCTCTTCACGACAAAGTCAAGAATGACAACACTAAAAGATTGACTCC
* * * *
13329251 TATTCACGAGAAAGTCAAGAATAACATCACTAAAAGGTTGCCTTCTCTTTATGAGAAAGTTAAGT
66 TATTCACAAGAAAGTCAAGAATAACATCACTAAAAGGTTGACTTCTCTTAATGAGAAAGTCAAGT
* * * * ** * * * *
13329316 AGGACAATACTAAAATAT-TAACTCCTCTTTAC-AAAAAGTC-AAAAAGGAC
131 AGGAAAATAATAAAAGATCGAA-TCCTCTTCGCGAGAAAG-CGAATATGGAA
* * * * * * * * *
13329365 AACACTATATGATTGACTCCTCTTCACGAGAAAGTCAAGGAA-GATAACATTGAAAGATTGACTT
1 AACACTAAAAGATCGACTTCTCTTCACGACAAAGTCAA-GAATGACAACACTAAAAGATTGACTC
* * * * * * * * *
13329429 CTCTTTACGATAAAGTCAAGAATGACAAT-ATTGAAAGATTGACTTCTCTTCATGAGAAAGTCAA
65 CTATTCACAAGAAAGTCAAGAATAAC-ATCACTAAAAGGTTGACTTCTCTTAATGAGAAAGTCAA
* * * * * * * * *
13329493 -TAATGAAAATACTGAAAGATTGACTTCTCTTCACGAGAAAGTC-AAGAAT-GAC
129 GT-AGGAAAATAATAAAAGATCGAATCCTCTTCGCGAGAAAG-CGAA-TATGGAA
* * * * * * * * * *
13329545 AATACTGAAAGATTGATTTCTCTTCACGAGAAAGTCAAGAATAATAATACTGAAAGATTGACTTC
1 AACACTAAAAGATCGACTTCTCTTCACGACAAAGTCAAGAATGACAACACTAAAAGATTGACTCC
* **
13329610 TCTTCATGAGAAAGTCAAGAATAA
66 TATTCACAAGAAAGTCAAGAATAA
13329634 AATTGAATGA
Statistics
Matches: 374, Mismatches: 63, Indels: 21
0.82 0.14 0.05
Matches are distributed among these distances:
178 3 0.01
179 222 0.59
180 147 0.39
181 2 0.01
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (180 bp):
AACACTAAAAGATCGACTTCTCTTCACGACAAAGTCAAGAATGACAACACTAAAAGATTGACTCC
TATTCACAAGAAAGTCAAGAATAACATCACTAAAAGGTTGACTTCTCTTAATGAGAAAGTCAAGT
AGGAAAATAATAAAAGATCGAATCCTCTTCGCGAGAAAGCGAATATGGAA
Found at i:13329356 original size:224 final size:224
Alignment explanation
Indices: 13328989--13330244 Score: 659
Period size: 224 Copynumber: 5.6 Consensus size: 224
13328979 TCTTCTTCGT
* * * * * * * *
13328989 GAGAAAGTCAAGAAGGACAACACTAAAAGATCGACTTCTCTTCATGACAAAGTCAATAATGACAA
1 GAGAAAGTCAAGAATGACAACACTAAAAGATTGACTCCTATTCACGAGAAAGTCAAGAATGAAAA
* * * * ** * ** * *
13329054 CACTAAAAGATTGGA-TCCTTTTCACAAGAAAGTCAAGAATAAC-ATCCTAAAAGGTTGACTTCT
66 TACTAAAAGATT-GACTTCTCTTCACGAGAAAGTCAAGAAGGACAATACTAAAATATTAACTCCT
* * * ** * * *
13329117 CTTAATGAGAAAGTCAAGTAGGAAAATAATAAAAGATCGAATCCTCTTCGCGAGAAAG-CGAA-T
130 CTTTA-CAAAAAGTCAAAAAGGAAAACAATAAAAGATCGAATCCTCTTCACGAGAAAGTC-AAGG
*
13329180 ATGGAAAACACTAAAAGATCGACTTCTCTTTAC
193 A-AGAAAACACTAAAAGATCGACTTCTCTTTAC
* *
13329213 GAGAAAGTCAAGAATGACAACACTAAAATATTGACTCCTATTCACGAGAAAGTCAAGAAT-AACA
1 GAGAAAGTCAAGAATGACAACACTAAAAGATTGACTCCTATTCACGAGAAAGTCAAGAATGAAAA
* * * * * *
13329277 TCACTAAAAGGTTGCCTTCTCTTTATGAGAAAGTTAAGTAGGACAATACTAAAATATTAACTCCT
66 T-ACTAAAAGATTGACTTCTCTTCACGAGAAAGTCAAGAAGGACAATACTAAAATATTAACTCCT
* * * * * *
13329342 CTTTACAAAAAGTCAAAAAGGACAACACTATATGATTGACTCCTCTTCACGAGAAAGTCAAGGAA
130 CTTTACAAAAAGTCAAAAAGGAAAACAATAAAAGATCGAATCCTCTTCACGAGAAAGTCAAGGAA
* * * *
13329407 GATAACATTGAAAGATTGACTTCTCTTTAC
195 GAAAACACTAAAAGATCGACTTCTCTTTAC
* * * * * * * *
13329437 GATAAAGTCAAGAATGACAATATTGAAAGATTGACTTCTCTTCATGAGAAAGTCAATAATGAAAA
1 GAGAAAGTCAAGAATGACAACACTAAAAGATTGACTCCTATTCACGAGAAAGTCAAGAATGAAAA
* * * * * * *
13329502 TACTGAAAGATTGACTTCTCTTCACGAGAAAGTCAAGAATGACAATACTGAAAGATTGATTTCTC
66 TACTAAAAGATTGACTTCTCTTCACGAGAAAGTCAAGAAGGACAATACTAAAATATTAACTCCTC
* * * * * * * * * * *
13329567 TTCACGAGAAAGTCAAGAA-TAATAATACTGAAAGATTGACTTCTCTTCATGAGAAAGTCAA-GA
131 TTTAC-AAAAAGTCAAAAAGGAA-AACAATAAAAGATCGAATCCTCTTCACGAGAAAGTCAAGGA
* * * * * *
13329630 A-TAAA-ATTGAATGATTGACTTCTCTTCAC
194 AGAAAACACTAAAAGATCGACTTCTCTTTAC
* * * * * * * * * ** * *
13329659 AAGGAAGTAAAGAATGAAAATACTGAAAGATCGACTTCTCTTCGTGAGAAAATCAAGAATG-ACA
1 GAGAAAGTCAAGAATGACAACACTAAAAGATTGACTCCTATTCACGAGAAAGTCAAGAATGAAAA
* * ** * * * * **
13329723 TCACTAAAAGGTTGATTTCTCCGCATGAGAAAGTCAAGTAGGAC-ATCACTAAAAGATTGACTTT
66 T-ACTAAAAGATTGACTTCTCTTCACGAGAAAGTCAAGAAGGACAAT-ACTAAAATATTAACTCC
* * * * * * * * * * * * * * *
13329787 TATTTGCGAGAAAGTTAAGAATGATAACACTAAAATATTGATTCCTCTTAATGAGAAAGTAAAAG
129 TCTTTAC-AAAAAGTCAAAAAGGAAAACAATAAAAGATCGAATCCTCTTCACGAGAAAGTCAAGG
* * * * * * *
13329852 ATGACAATACTGAAAGATTGACTTCTCTTCAT
193 AAGAAAACACTAAAAGATCGACTTCTCTTTAC
* * * * * * * * * * * * *
13329884 GAGAAAATCAAGAATAACATCCCTAAAAGGTTAACTTCTCTTAATGAGAAAGTCAAGTAGGACAA
1 GAGAAAGTCAAGAATGACAACACTAAAAGATTGACTCCTATTCACGAGAAAGTCAAGAATGAAAA
* ** * * * * *
13329949 TACTAAAAGATTGACTCCTCTTCGTGAAAAAAAGTCAAGAATGACAACACTCAAAGATTGAA-TC
66 TACTAAAAGATTGACTTCTCTTCACG--AGAAAGTCAAGAAGGACAATACTAAAATATT-AACTC
* * * * * * * * * * *
13330013 CTCTTCACGAGAAAGTCAAGGAA-GACAACACTGAAAGATTGACTTCTCATCATGAGAAAGTCAA
128 CTCTTTAC-AAAAAGTCAA-AAAGGAAAACAATAAAAGATCGAATCCTCTTCACGAGAAAGTCAA
* ** * * ***
13330077 -GAATAACAATGCTAAAAGATTGAATTCTCTTCGT
191 GGAAGAA-AACACTAAAAGATCGACTTCTCTTTAC
* * * * * * * * *
13330111 GAGAAAGTCAAGAATGGCAATACTGAAATATTGACTTCTCTTCACGATAAAGTCAAAAATGACAA
1 GAGAAAGTCAAGAATGACAACACTAAAAGATTGACTCCTATTCACGAGAAAGTCAAGAATGAAAA
* * * * * * *
13330176 TACTTAAAGATTGACTTCTCTTCATGAGAAAGTCAAGAATGACAATACTGAAAGATTGACTTCTC
66 TACTAAAAGATTGACTTCTCTTCACGAGAAAGTCAAGAAGGACAATACTAAAATATTAACTCCTC
13330241 TTTA
131 TTTA
13330245 TGAGAAAGTC
Statistics
Matches: 807, Mismatches: 203, Indels: 43
0.77 0.19 0.04
Matches are distributed among these distances:
221 5 0.01
222 169 0.21
223 8 0.01
224 262 0.32
225 186 0.23
226 5 0.01
227 167 0.21
228 5 0.01
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (224 bp):
GAGAAAGTCAAGAATGACAACACTAAAAGATTGACTCCTATTCACGAGAAAGTCAAGAATGAAAA
TACTAAAAGATTGACTTCTCTTCACGAGAAAGTCAAGAAGGACAATACTAAAATATTAACTCCTC
TTTACAAAAAGTCAAAAAGGAAAACAATAAAAGATCGAATCCTCTTCACGAGAAAGTCAAGGAAG
AAAACACTAAAAGATCGACTTCTCTTTAC
Found at i:13339049 original size:20 final size:20
Alignment explanation
Indices: 13339021--13339063 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
13339011 TATATTGGGC
* *
13339021 TATTGTCTATTGTTTATGGT
1 TATTGTCTATGGTATATGGT
*
13339041 TATTTTCTATGGTATATGGT
1 TATTGTCTATGGTATATGGT
13339061 TAT
1 TAT
13339064 GGAATAATGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.19, C:0.05, G:0.19, T:0.58
Consensus pattern (20 bp):
TATTGTCTATGGTATATGGT
Found at i:13339126 original size:47 final size:45
Alignment explanation
Indices: 13339060--13339169 Score: 150
Period size: 47 Copynumber: 2.4 Consensus size: 45
13339050 TGGTATATGG
* *
13339060 TTATGGAAT-AATGGCAAGTATATTGATAAAATAAGCTTATGAGC
1 TTATGGAATAAATGGTAAGTATATTGATAAAATAAGCTTACGAGC
* *
13339104 TTATGGAATTTAAATGGTAAGTATTTTGGTAAAATAAGCTTACGAGC
1 TTATGGAA--TAAATGGTAAGTATATTGATAAAATAAGCTTACGAGC
*
13339151 TTATGGGATAAATGGTAAG
1 TTATGGAATAAATGGTAAG
13339170 GGATTTTATA
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
44 8 0.14
45 11 0.19
46 1 0.02
47 38 0.66
ACGTcount: A:0.38, C:0.05, G:0.23, T:0.34
Consensus pattern (45 bp):
TTATGGAATAAATGGTAAGTATATTGATAAAATAAGCTTACGAGC
Found at i:13339643 original size:20 final size:20
Alignment explanation
Indices: 13339615--13339652 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
13339605 TTGGGGTACC
*
13339615 GATTCCCCCAATAAGGAACT
1 GATTCCCCCAACAAGGAACT
*
13339635 GATTTCCCCAACAAGGAA
1 GATTCCCCCAACAAGGAA
13339653 ACGATCCCCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.29, G:0.16, T:0.18
Consensus pattern (20 bp):
GATTCCCCCAACAAGGAACT
Found at i:13346355 original size:20 final size:20
Alignment explanation
Indices: 13346327--13346369 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
13346317 TATATTGGGC
* *
13346327 TATTGTCTATTGTTTATGGT
1 TATTGTCTATGGTATATGGT
*
13346347 TATTTTCTATGGTATATGGT
1 TATTGTCTATGGTATATGGT
13346367 TAT
1 TAT
13346370 GGAATAATGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.19, C:0.05, G:0.19, T:0.58
Consensus pattern (20 bp):
TATTGTCTATGGTATATGGT
Found at i:13346432 original size:47 final size:45
Alignment explanation
Indices: 13346366--13346475 Score: 150
Period size: 47 Copynumber: 2.4 Consensus size: 45
13346356 TGGTATATGG
* * *
13346366 TTATGGAAT-AATGGCAAGTATTTTGATAAAATATGCTTATGAGC
1 TTATGGAATAAATGGTAAGTATTTTGATAAAATAAGCTTACGAGC
*
13346410 TTATGGAATTTAAATGGTAAGTATTTTGGTAAAATAAGCTTACGAGC
1 TTATGGAA--TAAATGGTAAGTATTTTGATAAAATAAGCTTACGAGC
*
13346457 TTATGGGATAAATGGTAAG
1 TTATGGAATAAATGGTAAG
13346476 GGATTTTATA
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
44 8 0.14
45 11 0.19
46 1 0.02
47 38 0.66
ACGTcount: A:0.36, C:0.05, G:0.23, T:0.35
Consensus pattern (45 bp):
TTATGGAATAAATGGTAAGTATTTTGATAAAATAAGCTTACGAGC
Found at i:13358001 original size:20 final size:21
Alignment explanation
Indices: 13357961--13358006 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
13357951 ACCGGTTCAG
13357961 ACCGG-TC-AAACCAGTCAAA
1 ACCGGTTCAAAACCAGTCAAA
13357980 ACCGGTTCAAAACCAGTC-AA
1 ACCGGTTCAAAACCAGTCAAA
13358000 ACCGGTT
1 ACCGGTT
13358007 TTCCAGCTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.20
20 11 0.44
21 9 0.36
ACGTcount: A:0.37, C:0.30, G:0.17, T:0.15
Consensus pattern (21 bp):
ACCGGTTCAAAACCAGTCAAA
Found at i:13365112 original size:7 final size:7
Alignment explanation
Indices: 13365100--13365142 Score: 63
Period size: 7 Copynumber: 6.4 Consensus size: 7
13365090 GTCAAAGAAA
13365100 GTCAACG
1 GTCAACG
13365107 GTCAACG
1 GTCAACG
13365114 GTCAACG
1 GTCAACG
13365121 GTCAACG
1 GTCAACG
*
13365128 GTC--GG
1 GTCAACG
13365133 GTCAACG
1 GTCAACG
13365140 GTC
1 GTC
13365143 GGGTCGGGTC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 4 0.12
7 28 0.88
ACGTcount: A:0.23, C:0.28, G:0.33, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:13365137 original size:12 final size:12
Alignment explanation
Indices: 13365106--13365147 Score: 57
Period size: 12 Copynumber: 3.3 Consensus size: 12
13365096 GAAAGTCAAC
*
13365106 GGTCAACGGTCAAC
1 GGTCAACGGTC--G
13365120 GGTCAACGGTCG
1 GGTCAACGGTCG
13365132 GGTCAACGGTCG
1 GGTCAACGGTCG
13365144 GGTC
1 GGTC
13365148 GGGTCGGGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 16 0.59
14 11 0.41
ACGTcount: A:0.19, C:0.26, G:0.38, T:0.17
Consensus pattern (12 bp):
GGTCAACGGTCG
Found at i:13365147 original size:5 final size:5
Alignment explanation
Indices: 13365139--13365172 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
13365129 TCGGGTCAAC
* *
13365139 GGTCG GGTCG GGTCG GGTTG GGTCG GATCG GGTC
1 GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTC
13365173 AGACCGGTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.03, C:0.18, G:0.56, T:0.24
Consensus pattern (5 bp):
GGTCG
Found at i:13367120 original size:35 final size:33
Alignment explanation
Indices: 13367058--13367122 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 33
13367048 GTATTTATTG
*
13367058 TAACAATAAAATTTTGTTACTATAATTAACTTA
1 TAACAATAAAATTTTGTTACAATAATTAACTTA
13367091 TAACAATAAAATATTT-TTCACAATCAATTAAC
1 TAACAATAAAAT-TTTGTT-ACAAT-AATTAAC
13367123 CATTACATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 14 0.50
34 7 0.25
35 7 0.25
ACGTcount: A:0.48, C:0.12, G:0.02, T:0.38
Consensus pattern (33 bp):
TAACAATAAAATTTTGTTACAATAATTAACTTA
Found at i:13367856 original size:21 final size:21
Alignment explanation
Indices: 13367827--13367869 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
13367817 TAACTTTTTA
*
13367827 TTTTGATTAAATTTGATATAT
1 TTTTGATTAAATTTAATATAT
*
13367848 TTTTTATTAAATTTAATATAT
1 TTTTGATTAAATTTAATATAT
13367869 T
1 T
13367870 ATTATGACTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (21 bp):
TTTTGATTAAATTTAATATAT
Found at i:13369806 original size:50 final size:52
Alignment explanation
Indices: 13369741--13369874 Score: 155
Period size: 59 Copynumber: 2.5 Consensus size: 52
13369731 CTCCAATTTG
* *
13369741 CCTTTTCATCGCGACTAGGAGGGTT-GG-TTAGAGCCATATTATCGAGTTTT
1 CCTTTTCATTGCGACTAGGAGGGTTAGGATTAGAGCCATATTATCGAGTTTC
*
13369791 CCTTTTCATTACGACTAGGAGGGTTCGATAGGACACTTAGAGCCATATTATCGAGTTTC
1 CCTTTTCATTGCGACTAGGAGGG-T---TAGG--A-TTAGAGCCATATTATCGAGTTTC
*
13369850 CCTTTTCATTGCGACTAGGATGGTT
1 CCTTTTCATTGCGACTAGGAGGGTT
13369875 CGATAGGACA
Statistics
Matches: 70, Mismatches: 5, Indels: 13
0.80 0.06 0.15
Matches are distributed among these distances:
50 21 0.30
51 1 0.01
54 1 0.01
55 3 0.04
58 1 0.01
59 43 0.61
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (52 bp):
CCTTTTCATTGCGACTAGGAGGGTTAGGATTAGAGCCATATTATCGAGTTTC
Found at i:13369865 original size:59 final size:59
Alignment explanation
Indices: 13369768--13369887 Score: 213
Period size: 59 Copynumber: 2.0 Consensus size: 59
13369758 GGAGGGTTGG
*
13369768 TTAGAGCCATATTATCGAGTTTTCCTTTTCATTACGACTAGGAGGGTTCGATAGGACAC
1 TTAGAGCCATATTATCGAGTTTCCCTTTTCATTACGACTAGGAGGGTTCGATAGGACAC
* *
13369827 TTAGAGCCATATTATCGAGTTTCCCTTTTCATTGCGACTAGGATGGTTCGATAGGACAC
1 TTAGAGCCATATTATCGAGTTTCCCTTTTCATTACGACTAGGAGGGTTCGATAGGACAC
13369886 TT
1 TT
13369888 GTCCATCTAT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (59 bp):
TTAGAGCCATATTATCGAGTTTCCCTTTTCATTACGACTAGGAGGGTTCGATAGGACAC
Found at i:13374529 original size:7 final size:7
Alignment explanation
Indices: 13374501--13374539 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
13374491 TGTTTGACTC
*
13374501 ATATAAT
1 ATATAAA
13374508 AT-TAAA
1 ATATAAA
13374514 ATAATAAA
1 AT-ATAAA
13374522 ATATAAA
1 ATATAAA
13374529 ATATAAA
1 ATATAAA
13374536 ATAT
1 ATAT
13374540 TGTAATAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
6 5 0.17
7 18 0.62
8 6 0.21
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (7 bp):
ATATAAA
Found at i:13375437 original size:2 final size:2
Alignment explanation
Indices: 13375430--13375459 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
13375420 TCCCAATTCA
13375430 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13375460 TTCAATTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13375630 original size:2 final size:2
Alignment explanation
Indices: 13375623--13375648 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13375613 ATTAATTAAT
13375623 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
13375649 ATCAGAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Done.