Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000635.1 Hibiscus syriacus cultivar Beakdansim tig00001231_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: 110737
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Found at i:494 original size:30 final size:30
Alignment explanation
Indices: 458--514 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
448 AGAATATGTA
*
458 AATATTAAGGACCAAATGTATAATTATTCC
1 AATATTAAGGACCAAATATATAATTATTCC
488 AATATTAAGGACCAAATATATAATTAT
1 AATATTAAGGACCAAATATATAATTAT
515 GCTATTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.47, C:0.11, G:0.09, T:0.33
Consensus pattern (30 bp):
AATATTAAGGACCAAATATATAATTATTCC
Found at i:6858 original size:25 final size:26
Alignment explanation
Indices: 6802--6859 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
6792 GTGTTAAACT
* *
6802 TTTTTGAATAATAAATATTTATTATA
1 TTTTTAAATAATAAATATTTAATATA
*
6828 TATTTAAATAA-AAATAATTTAATA-A
1 TTTTTAAATAATAAAT-ATTTAATATA
6853 TTTTTAA
1 TTTTTAA
6860 TTGAATTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 11 0.41
26 16 0.59
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (26 bp):
TTTTTAAATAATAAATATTTAATATA
Found at i:12105 original size:21 final size:20
Alignment explanation
Indices: 12079--12122 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
12069 GATTTCTGGG
* *
12079 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCC-TT
12100 CAAGGGGAACCGATACCCTT
1 CAAGGGGAACCGATACCCTT
12120 CAA
1 CAA
12123 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.32, C:0.27, G:0.25, T:0.16
Consensus pattern (20 bp):
CAAGGGGAACCGATACCCTT
Found at i:13255 original size:30 final size:30
Alignment explanation
Indices: 13221--13349 Score: 215
Period size: 30 Copynumber: 4.3 Consensus size: 30
13211 GGTTCTTCGG
*
13221 GACCTCTGGACAATTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
*
13251 GACCTCTGGACAGTTATCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
13281 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
* *
13311 GACCTCTGGACAGTTACCG-GGGTCTTTGT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
13340 GACCTCTGGA
1 GACCTCTGGA
13350 TAGGTCCTTC
Statistics
Matches: 94, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
29 18 0.19
30 76 0.81
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (30 bp):
GACCTCTGGACAGTTACCGAGGATCTTTAT
Found at i:14439 original size:36 final size:36
Alignment explanation
Indices: 14389--14520 Score: 230
Period size: 36 Copynumber: 3.7 Consensus size: 36
14379 AATTACATCC
*
14389 ACTTTAGC-TTAGGTAAAAGCTTAAATGTAATATGA
1 ACTTTAGCTTTAGGTAAAAGCTTAAACGTAATATGA
*
14424 ACTTTAGTTTTAGGTAAAAGCTTAAACGTAATATGA
1 ACTTTAGCTTTAGGTAAAAGCTTAAACGTAATATGA
14460 ACTTTAGCTTTAGGTAAAAGCTTAAACGTAATATGA
1 ACTTTAGCTTTAGGTAAAAGCTTAAACGTAATATGA
*
14496 ACTTTAGCTTTAAGTAAAAGCTTAA
1 ACTTTAGCTTTAGGTAAAAGCTTAA
14521 TACTTCATAT
Statistics
Matches: 92, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
35 7 0.08
36 85 0.92
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (36 bp):
ACTTTAGCTTTAGGTAAAAGCTTAAACGTAATATGA
Found at i:18139 original size:4 final size:4
Alignment explanation
Indices: 18130--18182 Score: 79
Period size: 4 Copynumber: 13.2 Consensus size: 4
18120 ATAATATCAT
* * *
18130 CATA CATA CATA CATA CATA TATA CATA CATA CATA CATG GATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
18178 CATA C
1 CATA C
18183 CCTATAATCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.47, C:0.23, G:0.04, T:0.26
Consensus pattern (4 bp):
CATA
Found at i:19718 original size:21 final size:21
Alignment explanation
Indices: 19685--19767 Score: 96
Period size: 21 Copynumber: 4.0 Consensus size: 21
19675 AGAAAAGGAA
* * *
19685 GGCGGCGATAAGAAGGAAGGC
1 GGCGGAGAAAAGAAGGAAGAC
19706 GGCGGAGAAAAGAAGGAAGAC
1 GGCGGAGAAAAGAAGGAAGAC
* *
19727 GTCGGAGAGAAA-AAGGAAGCC
1 GGCGGAGA-AAAGAAGGAAGAC
*
19748 GGCGGAGAGAAGAAGGAAGA
1 GGCGGAGAAAAGAAGGAAGA
19768 AGACAATAAG
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
20 2 0.04
21 47 0.90
22 3 0.06
ACGTcount: A:0.42, C:0.11, G:0.45, T:0.02
Consensus pattern (21 bp):
GGCGGAGAAAAGAAGGAAGAC
Found at i:19722 original size:39 final size:41
Alignment explanation
Indices: 19648--19767 Score: 129
Period size: 42 Copynumber: 3.0 Consensus size: 41
19638 CTGTTGTAGC
* * *
19648 CGGCGAGAAGAAGGAAGGAGGTGGTCGAGAA-AAGGAAG-G-
1 CGGCGAGAAGAAGGAAGGCGGCGG-AGAGAAGAAGGAAGAGT
* *
19687 CGGCGATAAGAAGGAAGGCGGCGGAGAAAAGAAGGAAGACGT
1 CGGCGAGAAGAAGGAAGGCGGCGGAGAGAAGAAGGAAGA-GT
* * *
19729 CGGAGAGAAAAAGGAAGCCGGCGGAGAGAAGAAGGAAGA
1 CGGCGAGAAGAAGGAAGGCGGCGGAGAGAAGAAGGAAGA
19768 AGACAATAAG
Statistics
Matches: 67, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
38 4 0.06
39 28 0.42
41 1 0.01
42 34 0.51
ACGTcount: A:0.42, C:0.10, G:0.45, T:0.03
Consensus pattern (41 bp):
CGGCGAGAAGAAGGAAGGCGGCGGAGAGAAGAAGGAAGAGT
Found at i:19780 original size:42 final size:42
Alignment explanation
Indices: 19697--19782 Score: 102
Period size: 42 Copynumber: 2.0 Consensus size: 42
19687 CGGCGATAAG
* * * * *
19697 AAGGAAGGCGGCGGAGAAAAGAAGGAAGACGTCGGAGAGAAA
1 AAGGAAGCCGGCGGAGAAAAGAAGGAAGAAGACGAAAAGAAA
*
19739 AAGGAAGCCGGCGGAGAGAAGAAGGAAGAAGAC-AATAAGAAA
1 AAGGAAGCCGGCGGAGAAAAGAAGGAAGAAGACGAA-AAGAAA
19781 AA
1 AA
19783 AGGTGACGGT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
41 1 0.03
42 36 0.97
ACGTcount: A:0.50, C:0.09, G:0.38, T:0.02
Consensus pattern (42 bp):
AAGGAAGCCGGCGGAGAAAAGAAGGAAGAAGACGAAAAGAAA
Found at i:25336 original size:16 final size:16
Alignment explanation
Indices: 25311--25341 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25301 GCTTGATTCT
25311 TATGTATAAGATAATA
1 TATGTATAAGATAATA
*
25327 TATGTTTAAGATAAT
1 TATGTATAAGATAAT
25342 TCTTAATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.42
Consensus pattern (16 bp):
TATGTATAAGATAATA
Found at i:27999 original size:13 final size:13
Alignment explanation
Indices: 27981--28028 Score: 69
Period size: 13 Copynumber: 3.6 Consensus size: 13
27971 ACCGGTCATA
27981 ACCCGACCCGTTT
1 ACCCGACCCGTTT
27994 ACCCGACCCGTTT
1 ACCCGACCCGTTT
* *
28007 ACCCGACCAGTTG
1 ACCCGACCCGTTT
28020 ACCCCGACC
1 A-CCCGACC
28029 ACCCGTTGAC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
13 25 0.78
14 7 0.22
ACGTcount: A:0.19, C:0.48, G:0.17, T:0.17
Consensus pattern (13 bp):
ACCCGACCCGTTT
Found at i:28083 original size:27 final size:26
Alignment explanation
Indices: 28031--28086 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
28021 CCCCGACCAC
28031 CCGTTGACCCGACCGTTGACCCGTTGA
1 CCGTTGACCCGA-CGTTGACCCGTTGA
*
28058 CCGTTGACCGGA-GTTGACCACTGTTGA
1 CCGTTGACCCGACGTTGACC-C-GTTGA
28085 CC
1 CC
28087 AAAACTTTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 7 0.27
26 1 0.04
27 18 0.69
ACGTcount: A:0.16, C:0.34, G:0.27, T:0.23
Consensus pattern (26 bp):
CCGTTGACCCGACGTTGACCCGTTGA
Found at i:29651 original size:18 final size:18
Alignment explanation
Indices: 29625--29660 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
29615 TCGAAATGAC
*
29625 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
29643 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
29661 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:31747 original size:17 final size:17
Alignment explanation
Indices: 31725--31761 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
31715 ACCCGTTTAC
31725 CCGACCAGTTGACCCGA
1 CCGACCAGTTGACCCGA
*
31742 CCGACCCGTTGACCCGA
1 CCGACCAGTTGACCCGA
31759 CCG
1 CCG
31762 TTGACCCGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.19, C:0.46, G:0.24, T:0.11
Consensus pattern (17 bp):
CCGACCAGTTGACCCGA
Found at i:31748 original size:30 final size:29
Alignment explanation
Indices: 31712--31769 Score: 98
Period size: 30 Copynumber: 2.0 Consensus size: 29
31702 ACCCGTTTAC
*
31712 CCGACCCGTTTACCCGACCAGTTGACCCGA
1 CCGACCCGTTGACCCGACC-GTTGACCCGA
31742 CCGACCCGTTGACCCGACCGTTGACCCG
1 CCGACCCGTTGACCCGACCGTTGACCCG
31770 TTGACTGTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 9 0.33
30 18 0.67
ACGTcount: A:0.17, C:0.45, G:0.22, T:0.16
Consensus pattern (29 bp):
CCGACCCGTTGACCCGACCGTTGACCCGA
Found at i:31755 original size:8 final size:8
Alignment explanation
Indices: 31744--31797 Score: 57
Period size: 8 Copynumber: 7.5 Consensus size: 8
31734 TGACCCGACC
31744 GACCCGTT
1 GACCCGTT
31752 GACCC---
1 GACCCGTT
31757 GA-CCGTT
1 GACCCGTT
31764 GACCCGTT
1 GACCCGTT
*
31772 GA-CTGTT
1 GACCCGTT
31779 GACCCGTT
1 GACCCGTT
31787 GA-CCGTT
1 GACCCGTT
31794 GACC
1 GACC
31798 GGAGTTGACC
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
4 2 0.05
5 2 0.05
7 15 0.39
8 19 0.50
ACGTcount: A:0.15, C:0.35, G:0.26, T:0.24
Consensus pattern (8 bp):
GACCCGTT
Found at i:31758 original size:13 final size:13
Alignment explanation
Indices: 31697--31769 Score: 76
Period size: 13 Copynumber: 5.4 Consensus size: 13
31687 ACCGGTCATA
*
31697 ACCCGACCCGTTT
1 ACCCGACCCGTTG
*
31710 ACCCGACCCGTTT
1 ACCCGACCCGTTG
*
31723 ACCCGACCAGTTG
1 ACCCGACCCGTTG
31736 ACCCGACCGACCCGTTG
1 A--C--CCGACCCGTTG
31753 ACCCGA-CCGTTG
1 ACCCGACCCGTTG
31765 ACCCG
1 ACCCG
31770 TTGACTGTTG
Statistics
Matches: 53, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
12 11 0.21
13 29 0.55
15 2 0.04
17 11 0.21
ACGTcount: A:0.18, C:0.45, G:0.21, T:0.16
Consensus pattern (13 bp):
ACCCGACCCGTTG
Found at i:31779 original size:7 final size:7
Alignment explanation
Indices: 31757--31798 Score: 57
Period size: 7 Copynumber: 5.7 Consensus size: 7
31747 CCGTTGACCC
31757 GACCGTT
1 GACCGTT
31764 GACCCGTT
1 GA-CCGTT
*
31772 GACTGTT
1 GACCGTT
31779 GACCCGTT
1 GA-CCGTT
31787 GACCGTT
1 GACCGTT
31794 GACCG
1 GACCG
31799 GAGTTGACCA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
7 18 0.58
8 13 0.42
ACGTcount: A:0.14, C:0.31, G:0.29, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:31781 original size:15 final size:15
Alignment explanation
Indices: 31757--31797 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
31747 CCGTTGACCC
31757 GACCGTTGACCCGTT
1 GACCGTTGACCCGTT
*
31772 GACTGTTGACCCGTT
1 GACCGTTGACCCGTT
31787 GACCGTTGACC
1 GACCGTTGACC
31798 GGAGTTGACC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.15, C:0.32, G:0.27, T:0.27
Consensus pattern (15 bp):
GACCGTTGACCCGTT
Found at i:33905 original size:53 final size:53
Alignment explanation
Indices: 33824--33934 Score: 170
Period size: 53 Copynumber: 2.1 Consensus size: 53
33814 TACCTAAGTA
33824 CCGAAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACACATAGTG
1 CCGAAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACACATAGTG
* * * *
33877 TCGAAATGG-ACATTCATAAACTCATTATGAATACTATGGATGCACACGTAGTG
1 CCGAAATGGTA-ATTCACAAACTCATTATGAATACCATGGATGCACACATAGTG
33930 CCGAA
1 CCGAA
33935 TGTACACATA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
52 1 0.02
53 51 0.98
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (53 bp):
CCGAAATGGTAATTCACAAACTCATTATGAATACCATGGATGCACACATAGTG
Found at i:36545 original size:2 final size:2
Alignment explanation
Indices: 36538--36565 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
36528 GTGCTATGTG
36538 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
36566 TAACATATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37730 original size:2 final size:2
Alignment explanation
Indices: 37723--37748 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
37713 ATTTTAAACG
37723 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
37749 AATGGTACTT
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
Found at i:39325 original size:2 final size:2
Alignment explanation
Indices: 39318--39380 Score: 119
Period size: 2 Copynumber: 32.0 Consensus size: 2
39308 GACTGAAATA
39318 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
39359 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
39381 GGATAGTTTG
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 59 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:41839 original size:2 final size:2
Alignment explanation
Indices: 41832--41865 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
41822 GTGTTATGTG
*
41832 AT AT AT AT AT AT AT GT 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
41866 TAACATATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43741 original size:17 final size:17
Alignment explanation
Indices: 43708--43741 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
43698 TTAAGCTTTC
* *
43708 CTTAAGCTTCTATATCA
1 CTTAAGCTTCAAAATCA
43725 CTTAAGCTTCAAAATCA
1 CTTAAGCTTCAAAATCA
43742 ACCAAAAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.24, G:0.06, T:0.35
Consensus pattern (17 bp):
CTTAAGCTTCAAAATCA
Found at i:44680 original size:60 final size:57
Alignment explanation
Indices: 44566--44740 Score: 147
Period size: 60 Copynumber: 2.9 Consensus size: 57
44556 ATATATACAT
* ** * * *
44566 ATAGTTTAGGATGAAATTGGAATGTTCAAAAAGTTTGGGGACCGATTTAGAATGAGT-GTC
1 ATAGTTTAGGATGAAATTGAAAT-TTC-AAAAGTTTGATGACAG-TTTAAAATGA-TAGAC
44626 ATAGTTTAGGAATGAAATTGAAATATTCAAAAGTTTGATGACTAGTTTAAAATGATAGAC
1 ATAGTTTAGG-ATGAAATTGAAAT-TTCAAAAGTTTGATGAC-AGTTTAAAATGATAGAC
* * * *
44686 ATAGTTTAGGTGTGAAATTAGAACATTT-AAAAATTTAATGACCAATTTAAAATGA
1 ATAGTTTAGG-ATGAAATT-GAA-ATTTCAAAAGTTTGATGA-CAGTTTAAAATGA
44741 AGATTATACT
Statistics
Matches: 97, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
59 1 0.01
60 72 0.74
61 22 0.23
62 2 0.02
ACGTcount: A:0.41, C:0.06, G:0.21, T:0.33
Consensus pattern (57 bp):
ATAGTTTAGGATGAAATTGAAATTTCAAAAGTTTGATGACAGTTTAAAATGATAGAC
Found at i:45412 original size:6 final size:6
Alignment explanation
Indices: 45401--45456 Score: 62
Period size: 6 Copynumber: 9.3 Consensus size: 6
45391 GAACATCACA
* *
45401 CAAACC CAAACC CAAACC CAAACC C-AA-C CTATCC CAAACCC CAAACCC
1 CAAACC CAAACC CAAACC CAAACC CAAACC CAAACC CAAA-CC CAAA-CC
45449 CAAACC CA
1 CAAACC CA
45457 TACCAAGAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
4 2 0.05
5 3 0.07
6 26 0.59
7 13 0.30
ACGTcount: A:0.45, C:0.52, G:0.00, T:0.04
Consensus pattern (6 bp):
CAAACC
Found at i:49488 original size:31 final size:31
Alignment explanation
Indices: 49441--49535 Score: 97
Period size: 30 Copynumber: 3.1 Consensus size: 31
49431 AAATGATACG
* * * *
49441 CTCTCAACCCGTAAACATTTATC-TAGCAATC
1 CTCTCAACCCATAAACATTCA-CACAACAATC
*
49472 CTCTCAACCCAAAAACA-TCACACAACAATC
1 CTCTCAACCCATAAACATTCACACAACAATC
* *
49502 CTCTCAACCCATAAACA-TCACCCGACAATC
1 CTCTCAACCCATAAACATTCACACAACAATC
49532 CTCT
1 CTCT
49536 TATCTTTGAT
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
29 1 0.02
30 39 0.71
31 15 0.27
ACGTcount: A:0.37, C:0.39, G:0.03, T:0.21
Consensus pattern (31 bp):
CTCTCAACCCATAAACATTCACACAACAATC
Found at i:49503 original size:30 final size:30
Alignment explanation
Indices: 49467--49535 Score: 111
Period size: 30 Copynumber: 2.3 Consensus size: 30
49457 ATTTATCTAG
49467 CAATCCTCTCAACCCAAAAACATCACACAA
1 CAATCCTCTCAACCCAAAAACATCACACAA
* * *
49497 CAATCCTCTCAACCCATAAACATCACCCGA
1 CAATCCTCTCAACCCAAAAACATCACACAA
49527 CAATCCTCT
1 CAATCCTCT
49536 TATCTTTGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.39, C:0.42, G:0.01, T:0.17
Consensus pattern (30 bp):
CAATCCTCTCAACCCAAAAACATCACACAA
Found at i:49602 original size:18 final size:18
Alignment explanation
Indices: 49579--49618 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
49569 TTGTAAGGTA
49579 ATTTTTTTAATATAT-ATT
1 ATTTTTTT-ATATATGATT
49597 ATTTTTTTATATATGATT
1 ATTTTTTTATATATGATT
49615 ATTT
1 ATTT
49619 GAAAAAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (18 bp):
ATTTTTTTATATATGATT
Found at i:50128 original size:14 final size:14
Alignment explanation
Indices: 50109--50145 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
50099 ACTATCGAAC
50109 AATGATGATGCTGA
1 AATGATGATGCTGA
50123 AATGATGATGCTGA
1 AATGATGATGCTGA
50137 AATGATGAT
1 AATGATGAT
50146 TGATTCTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.38, C:0.05, G:0.27, T:0.30
Consensus pattern (14 bp):
AATGATGATGCTGA
Found at i:52304 original size:20 final size:21
Alignment explanation
Indices: 52281--52321 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
52271 AGATGGTACG
52281 ACTGTGGG-TTTTTTCAAGCT
1 ACTGTGGGTTTTTTTCAAGCT
52301 ACTGTGGGTTTTTTTCAAGCT
1 ACTGTGGGTTTTTTTCAAGCT
52322 CTGAAGTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.15, C:0.15, G:0.24, T:0.46
Consensus pattern (21 bp):
ACTGTGGGTTTTTTTCAAGCT
Found at i:55241 original size:27 final size:29
Alignment explanation
Indices: 55211--55271 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 29
55201 AAAATAATTT
55211 ATAAACTATTAATAAAAAATTAAA-T-AA
1 ATAAACTATTAATAAAAAATTAAATTAAA
* * * *
55238 ATAAATTATTACTAATAATTTAAATTAAA
1 ATAAACTATTAATAAAAAATTAAATTAAA
55267 ATAAA
1 ATAAA
55272 ATTTAAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 20 0.71
28 1 0.04
29 7 0.25
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (29 bp):
ATAAACTATTAATAAAAAATTAAATTAAA
Found at i:57436 original size:24 final size:24
Alignment explanation
Indices: 57409--57500 Score: 123
Period size: 24 Copynumber: 3.8 Consensus size: 24
57399 CACCACTGCT
*
57409 CATAGAATTTGCATCGAAGTGCCA
1 CATAGAATTTGCACCGAAGTGCCA
*
57433 CATAGAATTTGCACCGAAGTGCTA
1 CATAGAATTTGCACCGAAGTGCCA
*
57457 CATAGAATTTGCACCGAAGTGTCA
1 CATAGAATTTGCACCGAAGTGCCA
*
57481 CGTAAGAATTTGTC-CCGAAG
1 CAT-AGAATTTG-CACCGAAG
57501 GACTGCGTAG
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
24 46 0.75
25 14 0.23
26 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.25
Consensus pattern (24 bp):
CATAGAATTTGCACCGAAGTGCCA
Found at i:57581 original size:23 final size:23
Alignment explanation
Indices: 57479--57581 Score: 89
Period size: 23 Copynumber: 4.3 Consensus size: 23
57469 ACCGAAGTGT
57479 CACGTAAGAATTTGTCCCGAAGGAC
1 CACGT-AG-ATTTGTCCCGAAGGAC
**
57504 TGCGTAGAATTTGTCCCGAAGGAC
1 CACGTAG-ATTTGTCCCGAAGGAC
* * * * *
57528 CACTTAGAGTTGTCCTGGATGAC
1 CACGTAGATTTGTCCCGAAGGAC
* *
57551 CACATAGATTTGTCCCGAATGAC
1 CACGTAGATTTGTCCCGAAGGAC
*
57574 CGCGTAGA
1 CACGTAGA
57582 ACCTTTGACT
Statistics
Matches: 63, Mismatches: 15, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
23 37 0.59
24 23 0.37
25 3 0.05
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.24
Consensus pattern (23 bp):
CACGTAGATTTGTCCCGAAGGAC
Found at i:61892 original size:2 final size:2
Alignment explanation
Indices: 61885--61953 Score: 138
Period size: 2 Copynumber: 34.5 Consensus size: 2
61875 GCAAAAGATG
61885 TA TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA TA
61927 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
61954 GTTAGGATCC
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:64521 original size:30 final size:30
Alignment explanation
Indices: 64487--64546 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
64477 AAAAGAATGT
64487 TTTTTTGTGCGAACAATCCTCGGCAATGCA
1 TTTTTTGTGCGAACAATCCTCGGCAATGCA
64517 TTTTTTGTGCGAACAATCCTCGGCAATGCA
1 TTTTTTGTGCGAACAATCCTCGGCAATGCA
64547 CTTCCTTTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.33
Consensus pattern (30 bp):
TTTTTTGTGCGAACAATCCTCGGCAATGCA
Found at i:65223 original size:15 final size:15
Alignment explanation
Indices: 65203--65243 Score: 66
Period size: 15 Copynumber: 2.7 Consensus size: 15
65193 AGAGTGGGAT
65203 AAATAAATAAAATAA-
1 AAATAAATAAAA-AAG
65218 AAATAAATAAAAAAG
1 AAATAAATAAAAAAG
65233 AAATAAATAAA
1 AAATAAATAAA
65244 TTGCATAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 2 0.08
15 23 0.92
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.17
Consensus pattern (15 bp):
AAATAAATAAAAAAG
Found at i:65477 original size:73 final size:74
Alignment explanation
Indices: 65390--65555 Score: 273
Period size: 73 Copynumber: 2.3 Consensus size: 74
65380 AATAAAATAA
* *
65390 AATGTTAGTAAGTTAGTAAGAACAATAAAAATAAAAAGGTCAGTATGTTAGTATGAACAAT-AAA
1 AATGTTAGTAAGTTAGAAAGAACAATAAAAATAAAAA-GTCAGAATGTTAGTATGAACAATAAAA
65454 T-AAAGTTAG
65 TAAAAGTTAG
* *
65463 AATGTTAATAAGTTAGAAAGAACAATAAAAATAAAAAGTTAGAATGTTAGTATGAACAATAAAAT
1 AATGTTAGTAAGTTAGAAAGAACAATAAAAATAAAAAGTCAGAATGTTAGTATGAACAATAAAAT
65528 AAAAGTTAG
66 AAAAGTTAG
65537 AATGTTAGTAAGTTAGAAA
1 AATGTTAGTAAGTTAGAAA
65556 AGTTAGCGGT
Statistics
Matches: 86, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
72 21 0.24
73 39 0.45
74 26 0.30
ACGTcount: A:0.53, C:0.03, G:0.17, T:0.27
Consensus pattern (74 bp):
AATGTTAGTAAGTTAGAAAGAACAATAAAAATAAAAAGTCAGAATGTTAGTATGAACAATAAAAT
AAAAGTTAG
Found at i:65512 original size:34 final size:34
Alignment explanation
Indices: 65379--65548 Score: 161
Period size: 34 Copynumber: 4.9 Consensus size: 34
65369 TTAGTTTGTG
*
65379 CAAT-AAAATAAAATGTTAGTAA-GTTAGTAAGAA
1 CAATAAAAATAAAAAGTTAG-AATGTTAGTAAGAA
* * *
65412 CAATAAAAATAAAAAGGTCAGTATGTTAGTATGAA
1 CAATAAAAATAAAAA-GTTAGAATGTTAGTAAGAA
* * * *
65447 CAATAAATAAAGTTAGAATGTTA-ATAAGTTAGAAAGAA
1 CAAT-AA-AAA--TAAAAAGTTAGA-ATGTTAGTAAGAA
*
65485 CAATAAAAATAAAAAGTTAGAATGTTAGTATGAA
1 CAATAAAAATAAAAAGTTAGAATGTTAGTAAGAA
65519 CAAT-AAAAT-AAAAGTTAGAATGTTAGTAAG
1 CAATAAAAATAAAAAGTTAGAATGTTAGTAAG
65549 TTAGAAAAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 19
0.76 0.12 0.13
Matches are distributed among these distances:
32 20 0.18
33 9 0.08
34 32 0.29
35 19 0.17
36 5 0.05
37 5 0.05
38 17 0.15
39 4 0.04
ACGTcount: A:0.54, C:0.04, G:0.16, T:0.26
Consensus pattern (34 bp):
CAATAAAAATAAAAAGTTAGAATGTTAGTAAGAA
Found at i:66805 original size:61 final size:61
Alignment explanation
Indices: 66740--66918 Score: 148
Period size: 61 Copynumber: 3.1 Consensus size: 61
66730 AATCTGGATA
66740 TAATTTGGTGTTAAAGACGACACTGCTCATCCATGTTGAAGAGATTTGGCTGCTTTCAGAT
1 TAATTTGGTGTTAAAGACGACACTGCTCATCCATGTTGAAGAGATTTGGCTGCTTTCAGAT
* * * ** * * * ** *
66801 TAATTAT-TTGTTGAAGATGACGTTGTTCCTTC-TCGTTG-AG-GAAAT--CAG------GAT
1 TAATT-TGGTGTTAAAGACGACACTGCTCATCCAT-GTTGAAGAGATTTGGCTGCTTTCAGAT
66852 ATAATTTGGTGTTAAAGACGACACTGCTCATCCATGTTGAAGAGATTTGGCTGCTTTCAGAT
1 -TAATTTGGTGTTAAAGACGACACTGCTCATCCATGTTGAAGAGATTTGGCTGCTTTCAGAT
66914 TAATT
1 TAATT
66919 ATTTGTTGAA
Statistics
Matches: 81, Mismatches: 22, Indels: 30
0.61 0.17 0.23
Matches are distributed among these distances:
51 4 0.05
52 26 0.32
53 3 0.04
54 3 0.04
56 2 0.02
57 2 0.02
59 3 0.04
60 3 0.04
61 31 0.38
62 4 0.05
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.36
Consensus pattern (61 bp):
TAATTTGGTGTTAAAGACGACACTGCTCATCCATGTTGAAGAGATTTGGCTGCTTTCAGAT
Found at i:66933 original size:113 final size:113
Alignment explanation
Indices: 66730--67299 Score: 640
Period size: 113 Copynumber: 4.8 Consensus size: 113
66720 ACTTCGGGTC
* * *
66730 AATCTGGATATAATTTGGTGTTAAAGACGACACTGCTCATCCATGTTGAAGAGATTTGGCTGCTT
1 AATCAGGATATAATTTGGTGTTGAAGACGACACTGCTCATCCATGTTGAAGAGATCTGGCTGCTT
*
66795 TCAGATTAATTATTTGTTGAAGATGACGTTGTTCCTTCTCGTTGAGGA
66 TCAGATAAATTATTTGTTGAAGATGACGTTGTTCCTTCTCGTTGAGGA
* *
66843 AATCAGGATATAATTTGGTGTTAAAGACGACACTGCTCATCCATGTTGAAGAGATTTGGCTGCTT
1 AATCAGGATATAATTTGGTGTTGAAGACGACACTGCTCATCCATGTTGAAGAGATCTGGCTGCTT
*
66908 TCAGATTAATTATTTGTTGAAGATGACGTTGTTCCTTCTCGTTGAGGA
66 TCAGATAAATTATTTGTTGAAGATGACGTTGTTCCTTCTCGTTGAGGA
* *
66956 AATCAGGTCAATCTGAAAATAATTTGGTATTGAAGACGACACTGTTCATCCATGTTG-AGAGATC
1 AATCAGG---A--T----ATAATTTGGTGTTGAAGACGACACTGCTCATCCATGTTGAAGAGATC
*
67020 TGG-TCGCTTTCAGATAAATTATTTGTTGAAGATGACGTTATTCCTTCTCGTTGAGGA
57 TGGCT-GCTTTCAGATAAATTATTTGTTGAAGATGACGTTGTTCCTTCTCGTTGAGGA
* * * *
67077 AATCGGGTCAATCTGGAAATAATTTGTTGTTGAAGATGACACTGTTCATCCATGTTGAAGAGATC
1 AA-----TC-A---GGATATAATTTGGTGTTGAAGACGACACTGCTCATCCATGTTGAAGAGATC
* * * *
67142 TGGCCGCTTTCAGATAAATTGTTTATTGAAGATGACGATGTTCCTTCTCGTTTGAGGA
57 TGGCTGCTTTCAGATAAATTATTTGTTGAAGATGACGTTGTTCCTTCTCG-TTGAGGA
* *
67200 AATCAGGTCATTCTGGAAATAATTTGGTATTGAAGACGACACTGCTCATCCATGTTAAAGAGATC
1 AATCAGG--A---T----ATAATTTGGTGTTGAAGACGACACTGCTCATCCATGTTGAAGAGATC
** * * *
67265 TGGCCCCTTTTAGATAAATTGTTTGCTGAAGATGA
57 TGGCTGCTTTCAGATAAATTATTTGTTGAAGATGA
67300 TGTTTGGAGA
Statistics
Matches: 400, Mismatches: 26, Indels: 52
0.84 0.05 0.11
Matches are distributed among these distances:
113 119 0.30
114 2 0.00
116 2 0.00
117 1 0.00
118 3 0.01
120 1 0.00
121 97 0.24
122 87 0.22
123 82 0.20
126 2 0.00
127 2 0.00
130 2 0.00
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (113 bp):
AATCAGGATATAATTTGGTGTTGAAGACGACACTGCTCATCCATGTTGAAGAGATCTGGCTGCTT
TCAGATAAATTATTTGTTGAAGATGACGTTGTTCCTTCTCGTTGAGGA
Found at i:66989 original size:61 final size:61
Alignment explanation
Indices: 66924--67235 Score: 206
Period size: 61 Copynumber: 5.1 Consensus size: 61
66914 TAATTATTTG
*
66924 TTGAAGATGACGTTGTTCCTTCTCGTTGAGGAAATCAGGTCAATCTGAAAATAATTTGGTA
1 TTGAAGATGACGCTGTTCCTTCTCGTTGAGGAAATCAGGTCAATCTGAAAATAATTTGGTA
* * * * * * ** * *
66985 TTGAAGACGACACTGTTCATCCAT-GTTGA-GAGATCTGGTCGCTTTCAGATAAATTATTT-G--
1 TTGAAGATGACGCTGTTCCTTC-TCGTTGAGGAAATCAGGT--CAATCTGA-AAATAATTTGGTA
* * * * * *
67045 TTGAAGATGACGTTATTCCTTCTCGTTGAGGAAATCGGGTCAATCTGGAAATAATTTGTTG
1 TTGAAGATGACGCTGTTCCTTCTCGTTGAGGAAATCAGGTCAATCTGAAAATAATTTGGTA
* * * * * * * ** ** * * *
67106 TTGAAGATGACACTGTTCATCCAT-GTTGAAGAGATCTGGCCGCT-TTCAGATAAATTGTTTA
1 TTGAAGATGACGCTGTTCCTTC-TCGTTGAGGAAATCAGGTCAATCTGAAAATAATTTG-GTA
* * *
67167 TTGAAGATGACGATGTTCCTTCTCGTTTGAGGAAATCAGGTCATTCTGGAAATAATTTGGTA
1 TTGAAGATGACGCTGTTCCTTCTCG-TTGAGGAAATCAGGTCAATCTGAAAATAATTTGGTA
67229 TTGAAGA
1 TTGAAGA
67236 CGACACTGCT
Statistics
Matches: 181, Mismatches: 56, Indels: 27
0.69 0.21 0.10
Matches are distributed among these distances:
58 8 0.04
59 5 0.03
60 39 0.22
61 82 0.45
62 30 0.17
63 17 0.09
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (61 bp):
TTGAAGATGACGCTGTTCCTTCTCGTTGAGGAAATCAGGTCAATCTGAAAATAATTTGGTA
Found at i:67249 original size:123 final size:122
Alignment explanation
Indices: 66843--67299 Score: 673
Period size: 121 Copynumber: 3.7 Consensus size: 122
66833 TCGTTGAGGA
* * * * * *
66843 AATCAGGATATAATTTGGTGTTAAAGACGACACTGCTCATCCATGTTGAAGAGATTTGGCTGCTT
1 AATCTGGAAATAATTTGGTATTGAAGACGACACTGCTCATCCATGTTGAAGAGATCTGGCCGCTT
*
66908 TCAGATTAATTATTTGTTGAAGATGACGTTGTTCCTTCTCGTTGAGGAAATCAGGTC
66 TCAGATAAATTATTTGTTGAAGATGACGTTGTTCCTTCTCGTTGAGGAAATCAGGTC
* * *
66965 AATCTGAAAATAATTTGGTATTGAAGACGACACTGTTCATCCATGTTG-AGAGATCTGGTCGCTT
1 AATCTGGAAATAATTTGGTATTGAAGACGACACTGCTCATCCATGTTGAAGAGATCTGGCCGCTT
* *
67029 TCAGATAAATTATTTGTTGAAGATGACGTTATTCCTTCTCGTTGAGGAAATCGGGTC
66 TCAGATAAATTATTTGTTGAAGATGACGTTGTTCCTTCTCGTTGAGGAAATCAGGTC
* * * *
67086 AATCTGGAAATAATTTGTTGTTGAAGATGACACTGTTCATCCATGTTGAAGAGATCTGGCCGCTT
1 AATCTGGAAATAATTTGGTATTGAAGACGACACTGCTCATCCATGTTGAAGAGATCTGGCCGCTT
* * *
67151 TCAGATAAATTGTTTATTGAAGATGACGATGTTCCTTCTCGTTTGAGGAAATCAGGTC
66 TCAGATAAATTATTTGTTGAAGATGACGTTGTTCCTTCTCG-TTGAGGAAATCAGGTC
* * *
67209 ATTCTGGAAATAATTTGGTATTGAAGACGACACTGCTCATCCATGTTAAAGAGATCTGGCCCCTT
1 AATCTGGAAATAATTTGGTATTGAAGACGACACTGCTCATCCATGTTGAAGAGATCTGGCCGCTT
* * *
67274 TTAGATAAATTGTTTGCTGAAGATGA
66 TCAGATAAATTATTTGTTGAAGATGA
67300 TGTTTGGAGA
Statistics
Matches: 301, Mismatches: 32, Indels: 3
0.90 0.10 0.01
Matches are distributed among these distances:
121 111 0.37
122 94 0.31
123 96 0.32
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (122 bp):
AATCTGGAAATAATTTGGTATTGAAGACGACACTGCTCATCCATGTTGAAGAGATCTGGCCGCTT
TCAGATAAATTATTTGTTGAAGATGACGTTGTTCCTTCTCGTTGAGGAAATCAGGTC
Found at i:67657 original size:139 final size:138
Alignment explanation
Indices: 67302--67682 Score: 442
Period size: 139 Copynumber: 2.7 Consensus size: 138
67292 GAAGATGATG
67302 TTTGGAGACAACATAGTTCCTACGTGATGAGGAAGTCTGATTTCCTGAGGATGACGCTGCTCCTA
1 TTTGGAGACAACATAGTTCCTACGTGATGAGGAAGTCTGATTT-CTGAGGATGACGCTGCTCCTA
* * * * *
67367 C-ATGTTGAGGA-ATCTGATCGGTGGACGACATTGTTCTTACATGATGAGGACACCTAGCTATCG
65 CGA-GTTGAGGAGATCTGGTCGGTGGACGACATTGTTCCTACATGATGACGACACCCAGCCATCG
67430 TTAGGGATAA
129 TTAGGGATAA
* ** * * *
67440 TTTGGAGATAACACGGTTCCTACGTGATGATGAAGTCTGATTCCCTGAGGATGACGTTGCTCCTA
1 TTTGGAGACAACATAGTTCCTACGTGATGAGGAAGTCTGATT-TCTGAGGATGACGCTGCTCCTA
* * * * * * * * *
67505 CGTGTTAAAGAGATCTGGTCGGTGGAAGAAATTGTTCCTACGTGATGACGACGCCCAGCCGTCTT
65 CGAGTTGAGGAGATCTGGTCGGTGGACGACATTGTTCCTACATGATGACGACACCCAGCCATCGT
67570 TAGGGATAA
130 TAGGGATAA
* * * * * * * *
67579 TTTGGAGACAATATAGTTCCTAAGCGTTGAGGAAATCTGATTGTCTGAGGATGACACTGCTCTTT
1 TTTGGAGACAACATAGTTCCTACGTGATGAGGAAGTCTGATT-TCTGAGGATGACGCTGCTCCTA
* *
67644 CGAATTGAGGAGATCTGGTTGGTGGACGACATTGTTCCT
65 CGAGTTGAGGAGATCTGGTCGGTGGACGACATTGTTCCT
67683 TTGTGTTGAG
Statistics
Matches: 198, Mismatches: 42, Indels: 5
0.81 0.17 0.02
Matches are distributed among these distances:
138 65 0.33
139 133 0.67
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.30
Consensus pattern (138 bp):
TTTGGAGACAACATAGTTCCTACGTGATGAGGAAGTCTGATTTCTGAGGATGACGCTGCTCCTAC
GAGTTGAGGAGATCTGGTCGGTGGACGACATTGTTCCTACATGATGACGACACCCAGCCATCGTT
AGGGATAA
Found at i:71146 original size:14 final size:13
Alignment explanation
Indices: 71129--71162 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
71119 TTGCATGTAC
71129 TTCTTTTATTCTTT
1 TTCTTTT-TTCTTT
71143 TTCTCTTTTTCTTT
1 TTCT-TTTTTCTTT
71157 TTCTTT
1 TTCTTT
71163 GTTTTTTGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 2 0.11
14 14 0.74
15 3 0.16
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (13 bp):
TTCTTTTTTCTTT
Found at i:72015 original size:22 final size:22
Alignment explanation
Indices: 71990--72046 Score: 96
Period size: 22 Copynumber: 2.6 Consensus size: 22
71980 GCAAATTTAA
*
71990 AGACAAAACAACAAACGAGTTT
1 AGACAAAACAACAAACGAGTTC
72012 AGACAAAACAACAAACGAGTTC
1 AGACAAAACAACAAACGAGTTC
*
72034 AAACAAAACAACA
1 AGACAAAACAACA
72047 CTCTTAATGC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.60, C:0.21, G:0.11, T:0.09
Consensus pattern (22 bp):
AGACAAAACAACAAACGAGTTC
Found at i:75771 original size:5 final size:5
Alignment explanation
Indices: 75761--75827 Score: 66
Period size: 5 Copynumber: 13.6 Consensus size: 5
75751 TCAAAGATGG
* * *
75761 AAATA AAATA AAATG AAATG AAATA AGATA AAATA AAATA AAAT- -AATA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA
* *
75809 AGATAA AAATA AAACA AAA
1 AAAT-A AAATA AAATA AAA
75828 AAGATTATTT
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
3 3 0.06
5 45 0.87
6 4 0.08
ACGTcount: A:0.75, C:0.01, G:0.06, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:76465 original size:34 final size:34
Alignment explanation
Indices: 76417--76573 Score: 131
Period size: 34 Copynumber: 4.5 Consensus size: 34
76407 GTTAGTTTGT
76417 ACAAT-AAAATAAAATGTTAGTAAGTTAGTAAAA
1 ACAATAAAAATAAAATGTTAGTAAGTTAGTAAAA
* * *
76450 ACAATAAAAATAAAATGGTCAGTATGTTAGTATAA
1 ACAATAAAAATAAAAT-GTTAGTAAGTTAGTAAAA
* * *
76485 ACAATAAAATAAAAGTTAGAATGTTAATAAGTTAGTAAGA
1 ACAAT---A-AAAA--TAAAATGTTAGTAAGTTAGTAAAA
** **
76525 ACAATAAAAATAAAAAATTAG-AATGTTAGTATGA
1 ACAATAAAAATAAAATGTTAGTAA-GTTAGTAAAA
76559 ACAAT-AAAATAAAAT
1 ACAATAAAAATAAAAT
76574 TTGGAATGTT
Statistics
Matches: 100, Mismatches: 15, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
33 16 0.16
34 31 0.31
35 20 0.20
36 4 0.04
37 1 0.01
38 1 0.01
39 4 0.04
40 18 0.18
41 5 0.05
ACGTcount: A:0.57, C:0.04, G:0.12, T:0.27
Consensus pattern (34 bp):
ACAATAAAAATAAAATGTTAGTAAGTTAGTAAAA
Found at i:76487 original size:35 final size:33
Alignment explanation
Indices: 76417--76498 Score: 119
Period size: 35 Copynumber: 2.4 Consensus size: 33
76407 GTTAGTTTGT
*
76417 ACAATAAAATAAAATGTTAGTAAGTTAGTAAAA
1 ACAATAAAATAAAATGTCAGTAAGTTAGTAAAA
* *
76450 ACAATAAAAATAAAATGGTCAGTATGTTAGTATAA
1 ACAAT-AAAATAAAAT-GTCAGTAAGTTAGTAAAA
76485 ACAATAAAATAAAA
1 ACAATAAAATAAAA
76499 GTTAGAATGT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
33 5 0.11
34 19 0.43
35 20 0.45
ACGTcount: A:0.59, C:0.05, G:0.11, T:0.26
Consensus pattern (33 bp):
ACAATAAAATAAAATGTCAGTAAGTTAGTAAAA
Found at i:76519 original size:40 final size:42
Alignment explanation
Indices: 76475--76552 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
76465 TGGTCAGTAT
*
76475 GTTAGTATA-AACAAT-AAAAT-AAAAGTTAGAATGTTAATAA
1 GTTAGTA-AGAACAATAAAAATAAAAAATTAGAATGTTAATAA
76515 GTTAGTAAGAACAATAAAAATAAAAAATTAGAATGTTA
1 GTTAGTAAGAACAATAAAAATAAAAAATTAGAATGTTA
76553 GTATGAACAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
39 1 0.03
40 13 0.38
41 5 0.15
42 15 0.44
ACGTcount: A:0.56, C:0.03, G:0.13, T:0.28
Consensus pattern (42 bp):
GTTAGTAAGAACAATAAAAATAAAAAATTAGAATGTTAATAA
Found at i:76583 original size:32 final size:34
Alignment explanation
Indices: 76515--76589 Score: 109
Period size: 32 Copynumber: 2.3 Consensus size: 34
76505 ATGTTAATAA
76515 GTTAGTAAGAACAATAAAAATAAAAAATTAGAAT
1 GTTAGTAAGAACAATAAAAATAAAAAATTAGAAT
* * *
76549 GTTAGTATGAACAAT-AAAAT-AAAATTTGGAAT
1 GTTAGTAAGAACAATAAAAATAAAAAATTAGAAT
76581 GTTAGTAAG
1 GTTAGTAAG
76590 TTAGAAAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
32 18 0.49
33 5 0.14
34 14 0.38
ACGTcount: A:0.53, C:0.03, G:0.16, T:0.28
Consensus pattern (34 bp):
GTTAGTAAGAACAATAAAAATAAAAAATTAGAAT
Found at i:76590 original size:74 final size:75
Alignment explanation
Indices: 76429--76598 Score: 245
Period size: 74 Copynumber: 2.3 Consensus size: 75
76419 AATAAAATAA
** *
76429 AATGTTAGTAAGTTAGTAAAAACAATAAAAATAAAATGGTCAGTATGTTAGTATAAACAATAAAA
1 AATGTTAGTAAGTTAGTAAAAACAATAAAAATAAAATAATCAGAATGTTAGTATAAACAATAAAA
76494 TAAAAGTTAG
66 TAAAAGTTAG
* * * *
76504 AATGTTAATAAGTTAGTAAGAACAATAAAAATAAAA-AATTAGAATGTTAGTATGAACAATAAAA
1 AATGTTAGTAAGTTAGTAAAAACAATAAAAATAAAATAATCAGAATGTTAGTATAAACAATAAAA
* *
76568 TAAAATTTGG
66 TAAAAGTTAG
76578 AATGTTAGTAAGTTAG-AAAAA
1 AATGTTAGTAAGTTAGTAAAAA
76599 TTAGCGGTTA
Statistics
Matches: 84, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
73 4 0.05
74 46 0.55
75 34 0.40
ACGTcount: A:0.54, C:0.03, G:0.15, T:0.28
Consensus pattern (75 bp):
AATGTTAGTAAGTTAGTAAAAACAATAAAAATAAAATAATCAGAATGTTAGTATAAACAATAAAA
TAAAAGTTAG
Found at i:76854 original size:22 final size:23
Alignment explanation
Indices: 76839--76884 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 23
76829 GTTAAAGTGT
76839 AATAAAATAAAAGTT-AGTAGTC
1 AATAAAATAAAAGTTAAGTAGTC
76861 AATAAAATAAAAGTT-AGTAGTC
1 AATAAAATAAAAGTTAAGTAGTC
76883 AA
1 AA
76885 CTTGAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.57, C:0.04, G:0.13, T:0.26
Consensus pattern (23 bp):
AATAAAATAAAAGTTAAGTAGTC
Found at i:84242 original size:3 final size:3
Alignment explanation
Indices: 84236--84275 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
84226 ATAATAATAA
84236 TAT TAT TAT TAT TAT TAT TA- TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
84276 AATAATACTA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:84258 original size:20 final size:20
Alignment explanation
Indices: 84235--84275 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
84225 AATAATAATA
84235 ATATTATTATTATTATTATT
1 ATATTATTATTATTATTATT
84255 ATATTATTATTATTATTATT
1 ATATTATTATTATTATTATT
84275 A
1 A
84276 AATAATACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
ATATTATTATTATTATTATT
Found at i:84259 original size:17 final size:17
Alignment explanation
Indices: 84239--84273 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
84229 ATAATAATAT
84239 TATTATTATTATTATTA
1 TATTATTATTATTATTA
84256 TATTATTATTATTATTA
1 TATTATTATTATTATTA
84273 T
1 T
84274 TAAATAATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TATTATTATTATTATTA
Found at i:84593 original size:33 final size:33
Alignment explanation
Indices: 84551--84619 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
84541 GTCGCTGCCA
84551 CTATAAGGTTTACGCCAGCTGCACACTTCGCCT
1 CTATAAGGTTTACGCCAGCTGCACACTTCGCCT
84584 CTATAAGGTTTACGCCAGCTGCACACTTCGCCT
1 CTATAAGGTTTACGCCAGCTGCACACTTCGCCT
84617 CTA
1 CTA
84620 GGGTGAGTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.22, C:0.33, G:0.17, T:0.28
Consensus pattern (33 bp):
CTATAAGGTTTACGCCAGCTGCACACTTCGCCT
Found at i:89031 original size:27 final size:27
Alignment explanation
Indices: 88993--89051 Score: 118
Period size: 27 Copynumber: 2.2 Consensus size: 27
88983 TTTTCTCCGC
88993 CTTTTTGTAATAAATAAATTTGTGTTG
1 CTTTTTGTAATAAATAAATTTGTGTTG
89020 CTTTTTGTAATAAATAAATTTGTGTTG
1 CTTTTTGTAATAAATAAATTTGTGTTG
89047 CTTTT
1 CTTTT
89052 AAGGTTATGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.05, G:0.14, T:0.54
Consensus pattern (27 bp):
CTTTTTGTAATAAATAAATTTGTGTTG
Found at i:89647 original size:71 final size:72
Alignment explanation
Indices: 89550--89692 Score: 209
Period size: 71 Copynumber: 2.0 Consensus size: 72
89540 ATACAATAAA
*
89550 GCTTGAGTTATCCCCCTAAAGTAATTGGTTAATAGCCCC-GACTTTATGGATAATATTCAGCTAG
1 GCTTGAGTTATCCCCCTAAAGCAATTGGTTAATAGCCCCAG-CTTTATGGATAATATTCAGCTAG
*
89614 TCTGTTAT
65 CCTGTTAT
* * * *
89622 GCTTGAG-TGTCCCCCTAAGGCAATTGGTTAATAGCGCCAGCTTTATGGATAATATTCCGCTAGC
1 GCTTGAGTTATCCCCCTAAAGCAATTGGTTAATAGCCCCAGCTTTATGGATAATATTCAGCTAGC
89686 CTGTTAT
66 CTGTTAT
89693 AATATTATAT
Statistics
Matches: 64, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
71 56 0.88
72 8 0.12
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.34
Consensus pattern (72 bp):
GCTTGAGTTATCCCCCTAAAGCAATTGGTTAATAGCCCCAGCTTTATGGATAATATTCAGCTAGC
CTGTTAT
Found at i:90921 original size:41 final size:41
Alignment explanation
Indices: 90862--90944 Score: 116
Period size: 41 Copynumber: 2.0 Consensus size: 41
90852 CCTTTCAGTT
90862 TAGAATGTTGGGACATTTTAAAGACCCATTTCA-ACCAGAAA
1 TAGAATGTTGGGACATTTTAAAGACCCATTTCAGA-CAGAAA
* *
90903 TAGAATGTTGAGGA-ATTTTGAAGGCCCATTTCAGACAGAAA
1 TAGAATGTTG-GGACATTTTAAAGACCCATTTCAGACAGAAA
90944 T
1 T
90945 GATCCATGTG
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
41 34 0.89
42 4 0.11
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.28
Consensus pattern (41 bp):
TAGAATGTTGGGACATTTTAAAGACCCATTTCAGACAGAAA
Found at i:92939 original size:222 final size:222
Alignment explanation
Indices: 92538--93458 Score: 1332
Period size: 222 Copynumber: 4.2 Consensus size: 222
92528 ATATTTCTCG
* * * *
92538 AGATTATAAGACCTCCGGGCCATCCATAAGACCTCTGGGCAGGATGTTTTCAAATGAGATTTTGG
1 AGATGATAAGACCTCTGGGCCATCCATAAGACCTCCGGGCAAGATGTTTTCAAATGAGATTTTGG
92603 AAACTAAGCCTTTCAGGGGTTTCTTAATTATCTCAAAAGAGTTGTTAAAGGAAGCTACA-CCTTT
66 AAACTAAGCCTTTCAGGGGTTTCTTAATTATCTCAAAAGAGTTGTTAAAGGAAGCTA-AGCCTTT
* * *
92667 TAAGGGGTTCCTTGACAACCAAGAAACTAAGCTTGATTTTTAAAAGTTTCTTGATGTTTAAATCC
130 TAAGGGGTTCATTGACAACCAAGAAACTAAGCTTGATTTTCAAGAGTTTCTTGATGTTTAAATCC
* *
92732 TTCAGGTCATCTGTAAGCCTTCCAAGCA
195 TCCGGGTCATCTGTAAGCCTTCCAAGCA
*
92760 AGATGATAAGACCTCTGGGCCATCCATAAGTCCTCCGGGCAAGATGTTTTCAAATGAGATTTTGG
1 AGATGATAAGACCTCTGGGCCATCCATAAGACCTCCGGGCAAGATGTTTTCAAATGAGATTTTGG
*
92825 AAATTAAGCCTTTCAGGGGTTTCTTAATTATCTCAAAAGAGTTGTTAAAGGAAGCTAAGCCTTTT
66 AAACTAAGCCTTTCAGGGGTTTCTTAATTATCTCAAAAGAGTTGTTAAAGGAAGCTAAGCCTTTT
*
92890 AAGGGGTTCATTGACAACCAAGAAACTAAACTTGATTTTCAAGAGTTTCTTGATGTTTAAATCCT
131 AAGGGGTTCATTGACAACCAAGAAACTAAGCTTGATTTTCAAGAGTTTCTTGATGTTTAAATCCT
*
92955 CCGGGTCATCTGTAAGCCTTCTAAGCA
196 CCGGGTCATCTGTAAGCCTTCCAAGCA
* * *
92982 TGATGATAAGACCT-TCGAGCCATCCATAAGACCTCCGGGCAGGATGTTTTCAAATGAGATTTTG
1 AGATGATAAGACCTCT-GGGCCATCCATAAGACCTCCGGGCAAGATGTTTTCAAATGAGATTTTG
* * *
93046 GAAATTAAGCCTTTCAGGGGTTTCTTACTTATCTCAAAAGAGTTGTTAAAGAAAGCTAAGCCTTT
65 GAAACTAAGCCTTTCAGGGGTTTCTTAATTATCTCAAAAGAGTTGTTAAAGGAAGCTAAGCCTTT
93111 TAAGGGGTTCATTGACAACCAAGAAACTAAGCTTGATTTTCAAGAGTTTCTTGATGTTTAAATCC
130 TAAGGGGTTCATTGACAACCAAGAAACTAAGCTTGATTTTCAAGAGTTTCTTGATGTTTAAATCC
*
93176 TCCGGGTCATCTATAAGCCTT-C---C-
195 TCCGGGTCATCTGTAAGCCTTCCAAGCA
93199 -GA-GA-AAGA----T--G--AT--A-AA-ACCTCCGGGCAAGATGTTTTCAAATGAGATTTTGG
1 AGATGATAAGACCTCTGGGCCATCCATAAGACCTCCGGGCAAGATGTTTTCAAATGAGATTTTGG
* *
93249 AAACTAAGCCTTTCAGGGGTTTCTTAATTATCTCAACAGAGTTATTAAAGGAAGCTAAGCCTTTT
66 AAACTAAGCCTTTCAGGGGTTTCTTAATTATCTCAAAAGAGTTGTTAAAGGAAGCTAAGCCTTTT
* *
93314 AAGGGGTT-ATTTGACAACCAAGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATGTGTAAATCC
131 AAGGGGTTCA-TTGACAACCAAGAAACTAAGCTTGATTTTCAAGAGTTTCTTGATGTTTAAATCC
* * **
93378 TCCGGGTCATTTGTAAGCCATCTGAGCA
195 TCCGGGTCATCTGTAAGCCTTCCAAGCA
** * * * *
93406 AGATGATAAGACCTCCAGGTCATTCATAGGACCTCCAGGCATA-ATGTTTTCAA
1 AGATGATAAGACCTCTGGGCCATCCATAAGACCTCCGGGCA-AGATGTTTTCAA
93459 CATTTTCGTT
Statistics
Matches: 638, Mismatches: 37, Indels: 48
0.88 0.05 0.07
Matches are distributed among these distances:
201 1 0.00
202 172 0.27
203 2 0.00
204 1 0.00
206 3 0.00
208 3 0.00
209 2 0.00
210 4 0.01
211 1 0.00
214 4 0.01
215 2 0.00
216 3 0.00
218 3 0.00
220 1 0.00
221 3 0.00
222 432 0.68
223 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.31
Consensus pattern (222 bp):
AGATGATAAGACCTCTGGGCCATCCATAAGACCTCCGGGCAAGATGTTTTCAAATGAGATTTTGG
AAACTAAGCCTTTCAGGGGTTTCTTAATTATCTCAAAAGAGTTGTTAAAGGAAGCTAAGCCTTTT
AAGGGGTTCATTGACAACCAAGAAACTAAGCTTGATTTTCAAGAGTTTCTTGATGTTTAAATCCT
CCGGGTCATCTGTAAGCCTTCCAAGCA
Found at i:93364 original size:202 final size:202
Alignment explanation
Indices: 93007--93421 Score: 688
Period size: 202 Copynumber: 2.1 Consensus size: 202
92997 CGAGCCATCC
* *
93007 ATAAGACCTCCGGGCAGGATGTTTTCAAATGAGATTTTGGAAATTAAGCCTTTCAGGGGTTTCTT
1 ATAAGACCTCCGGGCAAGATGTTTTCAAATGAGATTTTGGAAACTAAGCCTTTCAGGGGTTTCTT
* *
93072 ACTTATCTCAAAAGAGTTGTTAAAGAAAGCTAAGCCTTTTAAGGGGTTCATTGACAACCAAGAAA
66 AATTATCTCAAAAGAGTTATTAAAGAAAGCTAAGCCTTTTAAGGGGTTCATTGACAACCAAGAAA
* *
93137 CTAAGCTTGATTTTCAAGAGTTTCTTGATGTTTAAATCCTCCGGGTCATCTATAAGCCTTCCGAG
131 CTAAGCTTGATTTTCAAGAGTTTCTTGATGTGTAAATCCTCCGGGTCATCTATAAGCCATCCGAG
93202 AAAGATG
196 AAAGATG
*
93209 ATAAAACCTCCGGGCAAGATGTTTTCAAATGAGATTTTGGAAACTAAGCCTTTCAGGGGTTTCTT
1 ATAAGACCTCCGGGCAAGATGTTTTCAAATGAGATTTTGGAAACTAAGCCTTTCAGGGGTTTCTT
* *
93274 AATTATCTCAACAGAGTTATTAAAGGAAGCTAAGCCTTTTAAGGGGTT-ATTTGACAACCAAGAA
66 AATTATCTCAAAAGAGTTATTAAAGAAAGCTAAGCCTTTTAAGGGGTTCA-TTGACAACCAAGAA
* * * *
93338 ACTAAGCTTGATTTTCAAGGGTTTCTTGATGTGTAAATCCTCCGGGTCATTTGTAAGCCATCTGA
130 ACTAAGCTTGATTTTCAAGAGTTTCTTGATGTGTAAATCCTCCGGGTCATCTATAAGCCATCCGA
*
93403 GCAAGATG
195 GAAAGATG
93411 ATAAGACCTCC
1 ATAAGACCTCC
93422 AGGTCATTCA
Statistics
Matches: 197, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
201 1 0.01
202 196 0.99
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (202 bp):
ATAAGACCTCCGGGCAAGATGTTTTCAAATGAGATTTTGGAAACTAAGCCTTTCAGGGGTTTCTT
AATTATCTCAAAAGAGTTATTAAAGAAAGCTAAGCCTTTTAAGGGGTTCATTGACAACCAAGAAA
CTAAGCTTGATTTTCAAGAGTTTCTTGATGTGTAAATCCTCCGGGTCATCTATAAGCCATCCGAG
AAAGATG
Found at i:93854 original size:3 final size:3
Alignment explanation
Indices: 93848--93877 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
93838 ATTATAATAA
93848 ATT ATT ATT ATT ATT ATT A-T ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
93878 AATAATACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:93930 original size:21 final size:20
Alignment explanation
Indices: 93906--93944 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
93896 TAACTATTAC
93906 AGGCCCAGTTATAAGACCCAG
1 AGGCCCAGTTATAA-ACCCAG
*
93927 AGGCCCATTTATAAACCC
1 AGGCCCAGTTATAAACCC
93945 GACCCCAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.31, G:0.18, T:0.18
Consensus pattern (20 bp):
AGGCCCAGTTATAAACCCAG
Found at i:94839 original size:2 final size:2
Alignment explanation
Indices: 94832--94863 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
94822 AGTCACATTA
94832 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
94864 TTGTAAGTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:99577 original size:24 final size:23
Alignment explanation
Indices: 99550--99622 Score: 57
Period size: 24 Copynumber: 3.3 Consensus size: 23
99540 TGTTATTTTT
99550 TTTGTAATATGTTAGTTTGATTTA
1 TTTGTAATATGTTAGTTTGA-TTA
* *
99574 TTTGTGGAT-TGTTACTTTG---A
1 TTTGT-AATATGTTAGTTTGATTA
*
99594 -TCGTAATATGTTAGTTTGATATA
1 TTTGTAATATGTTAGTTTGAT-TA
99617 TTTGTA
1 TTTGTA
99623 GATTATTACT
Statistics
Matches: 36, Mismatches: 6, Indels: 14
0.64 0.11 0.25
Matches are distributed among these distances:
18 2 0.06
19 12 0.33
20 1 0.03
23 1 0.03
24 18 0.50
25 2 0.06
ACGTcount: A:0.23, C:0.03, G:0.19, T:0.55
Consensus pattern (23 bp):
TTTGTAATATGTTAGTTTGATTA
Found at i:99600 original size:43 final size:43
Alignment explanation
Indices: 99553--99635 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
99543 TATTTTTTTT
* * *
99553 GTAATATGTTAGTTTGATTTATTTGTGGATTGTTACTTTGATC
1 GTAATATGTTAGTTTGATATATTTGTAGATTATTACTTTGATC
99596 GTAATATGTTAGTTTGATATATTTGTAGATTATTACTTTG
1 GTAATATGTTAGTTTGATATATTTGTAGATTATTACTTTG
99636 GAATTTAGAC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.24, C:0.04, G:0.19, T:0.53
Consensus pattern (43 bp):
GTAATATGTTAGTTTGATATATTTGTAGATTATTACTTTGATC
Found at i:100449 original size:15 final size:15
Alignment explanation
Indices: 100429--100481 Score: 65
Period size: 15 Copynumber: 3.6 Consensus size: 15
100419 GATTCAGAGG
100429 CTCTGAATGAATTAA
1 CTCTGAATGAATTAA
* *
100444 CTCTGAATG--TGAGG
1 CTCTGAATGAATTA-A
100458 CTCTGAATGAATTAA
1 CTCTGAATGAATTAA
100473 CTCTGAATG
1 CTCTGAATG
100482 TGACATGTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
13 2 0.06
14 9 0.29
15 18 0.58
16 2 0.06
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (15 bp):
CTCTGAATGAATTAA
Found at i:100467 original size:29 final size:29
Alignment explanation
Indices: 100425--100484 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
100415 GAATGATTCA
100425 GAGGCTCTGAATGAATTAACTCTGAATGT
1 GAGGCTCTGAATGAATTAACTCTGAATGT
100454 GAGGCTCTGAATGAATTAACTCTGAATGT
1 GAGGCTCTGAATGAATTAACTCTGAATGT
100483 GA
1 GA
100485 CATGTTGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (29 bp):
GAGGCTCTGAATGAATTAACTCTGAATGT
Found at i:103504 original size:169 final size:169
Alignment explanation
Indices: 103225--103565 Score: 682
Period size: 169 Copynumber: 2.0 Consensus size: 169
103215 ATACATCTGT
103225 TGGACATTTATATATGATGCTTACACTCGAATCCGAGTAACATATGTTTTATACGTTAATTTGCT
1 TGGACATTTATATATGATGCTTACACTCGAATCCGAGTAACATATGTTTTATACGTTAATTTGCT
103290 GATATTATTGTTTTAAATTTCAATGTAAGGCGAAGGCTAGAGCTGGTAGGATCTGGTCTGGCTTC
66 GATATTATTGTTTTAAATTTCAATGTAAGGCGAAGGCTAGAGCTGGTAGGATCTGGTCTGGCTTC
103355 TTGTTCAGTGTTGATCTGGCGTCGTACTGTGTGTTTAAC
131 TTGTTCAGTGTTGATCTGGCGTCGTACTGTGTGTTTAAC
103394 TGGACATTTATATATGATGCTTACACTCGAATCCGAGTAACATATGTTTTATACGTTAATTTGCT
1 TGGACATTTATATATGATGCTTACACTCGAATCCGAGTAACATATGTTTTATACGTTAATTTGCT
103459 GATATTATTGTTTTAAATTTCAATGTAAGGCGAAGGCTAGAGCTGGTAGGATCTGGTCTGGCTTC
66 GATATTATTGTTTTAAATTTCAATGTAAGGCGAAGGCTAGAGCTGGTAGGATCTGGTCTGGCTTC
103524 TTGTTCAGTGTTGATCTGGCGTCGTACTGTGTGTTTAAC
131 TTGTTCAGTGTTGATCTGGCGTCGTACTGTGTGTTTAAC
103563 TGG
1 TGG
103566 GTTCTATTTT
Statistics
Matches: 172, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
169 172 1.00
ACGTcount: A:0.23, C:0.14, G:0.23, T:0.39
Consensus pattern (169 bp):
TGGACATTTATATATGATGCTTACACTCGAATCCGAGTAACATATGTTTTATACGTTAATTTGCT
GATATTATTGTTTTAAATTTCAATGTAAGGCGAAGGCTAGAGCTGGTAGGATCTGGTCTGGCTTC
TTGTTCAGTGTTGATCTGGCGTCGTACTGTGTGTTTAAC
Found at i:105298 original size:28 final size:28
Alignment explanation
Indices: 105258--105315 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
105248 ATTGAAAAAC
105258 GACATAAATCAATCAAAAATATTATTAA
1 GACATAAATCAATCAAAAATATTATTAA
105286 GACATAAATCAATCAAAAATATTATTAA
1 GACATAAATCAATCAAAAATATTATTAA
105314 GA
1 GA
105316 GCGTGATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.57, C:0.10, G:0.05, T:0.28
Consensus pattern (28 bp):
GACATAAATCAATCAAAAATATTATTAA
Found at i:106652 original size:30 final size:29
Alignment explanation
Indices: 106596--106656 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 29
106586 TAGAATGAGT
*
106596 AATAATTTGAGAATAAAATTATAAATTATA
1 AATAATTTGAAAATAAAATTATAAATT-TA
106626 AATAATTTGAAAATAAAATT-TAAAATTTA
1 AATAATTTGAAAATAAAATTAT-AAATTTA
106655 AA
1 AA
106657 AGATTAACTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 5 0.17
30 24 0.83
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (29 bp):
AATAATTTGAAAATAAAATTATAAATTTA
Found at i:108759 original size:26 final size:26
Alignment explanation
Indices: 108723--108783 Score: 113
Period size: 26 Copynumber: 2.3 Consensus size: 26
108713 TTCTCATTAG
108723 ACCAAACATCTTTGAAGAATGTATAA
1 ACCAAACATCTTTGAAGAATGTATAA
*
108749 ACCAAACATCTTTGAAGAATGTATAG
1 ACCAAACATCTTTGAAGAATGTATAA
108775 ACCAAACAT
1 ACCAAACAT
108784 TACAATCCAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.46, C:0.18, G:0.11, T:0.25
Consensus pattern (26 bp):
ACCAAACATCTTTGAAGAATGTATAA
Found at i:109879 original size:15 final size:15
Alignment explanation
Indices: 109859--109888 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
109849 TTGAGACATT
*
109859 ACCCGCCCCGCATCC
1 ACCCGCCCCACATCC
109874 ACCCGCCCCACATCC
1 ACCCGCCCCACATCC
109889 GCCCACCTAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.67, G:0.10, T:0.07
Consensus pattern (15 bp):
ACCCGCCCCACATCC
Found at i:110651 original size:2 final size:2
Alignment explanation
Indices: 110646--110679 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
110636 TTTTTTCTGT
110646 TA TA TA TA 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 TA TA TA TA
110680 CGGTGCGGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Done.