Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 27 of 172
Found at i:8437547 original size:23 final size:23
Alignment explanation
Indices: 8437506--8437564 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
8437496 CTATTGATGT
* *
8437506 GCCAGAGAAT-CTTACTGTTCT-T
1 GCCAGAGAATATTTACTGTT-TAC
*
8437528 GCCAGGGAATATTTACTGTTTAC
1 GCCAGAGAATATTTACTGTTTAC
8437551 GCCAGAGAATATTT
1 GCCAGAGAATATTT
8437565 CTTGTTCACT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
22 10 0.32
23 21 0.68
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (23 bp):
GCCAGAGAATATTTACTGTTTAC
Found at i:8446888 original size:28 final size:29
Alignment explanation
Indices: 8446856--8446914 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
8446846 ACTAAGAATG
*
8446856 AACAA-AATGTACTAAAAACATGCAAATT
1 AACAATAATGTACTAAAAACAGGCAAATT
**
8446884 AACAATCTTGTACTAAAAACAGGCAAATT
1 AACAATAATGTACTAAAAACAGGCAAATT
8446913 AA
1 AA
8446915 AAACCTATCC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 5 0.19
29 22 0.81
ACGTcount: A:0.54, C:0.15, G:0.08, T:0.22
Consensus pattern (29 bp):
AACAATAATGTACTAAAAACAGGCAAATT
Found at i:8446928 original size:28 final size:29
Alignment explanation
Indices: 8446865--8446928 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
8446855 GAACAAAATG
* * * *
8446865 TACTAAAAACATGCAAATTAACAATCTTG
1 TACTAAAAACAGGCAAATTAACAAACCTA
8446894 TACTAAAAACAGGCAAATTAA-AAACCTA
1 TACTAAAAACAGGCAAATTAACAAACCTA
*
8446922 TCCTAAA
1 TACTAAA
8446929 CTCTAAAACA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 10 0.33
29 20 0.67
ACGTcount: A:0.52, C:0.19, G:0.06, T:0.23
Consensus pattern (29 bp):
TACTAAAAACAGGCAAATTAACAAACCTA
Found at i:8447166 original size:8 final size:8
Alignment explanation
Indices: 8447153--8447182 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
8447143 TTCCAGTGTG
8447153 AAAAAAAT
1 AAAAAAAT
8447161 AAAAAAAT
1 AAAAAAAT
8447169 AAAAAAAT
1 AAAAAAAT
8447177 AAAAAA
1 AAAAAA
8447183 CACACAGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (8 bp):
AAAAAAAT
Found at i:8453778 original size:23 final size:23
Alignment explanation
Indices: 8453752--8453796 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
8453742 TGGAAATGTG
*
8453752 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
8453775 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
8453797 TTGAATTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:8455869 original size:18 final size:19
Alignment explanation
Indices: 8455846--8455889 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 19
8455836 CTAAATATTT
8455846 ATTTTAATATTT-TTAT-AC
1 ATTTTAAT-TTTATTATCAC
8455864 ATTTTAATTTTATTATGCAC
1 ATTTTAATTTTATTAT-CAC
8455884 ATTTTA
1 ATTTTA
8455890 TTACCTTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 3 0.13
18 12 0.52
20 8 0.35
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (19 bp):
ATTTTAATTTTATTATCAC
Found at i:8462764 original size:24 final size:24
Alignment explanation
Indices: 8462735--8462856 Score: 244
Period size: 24 Copynumber: 5.1 Consensus size: 24
8462725 ATAAAAATAT
8462735 TTATAATTTTAAAATTTTTATAAC
1 TTATAATTTTAAAATTTTTATAAC
8462759 TTATAATTTTAAAATTTTTATAAC
1 TTATAATTTTAAAATTTTTATAAC
8462783 TTATAATTTTAAAATTTTTATAAC
1 TTATAATTTTAAAATTTTTATAAC
8462807 TTATAATTTTAAAATTTTTATAAC
1 TTATAATTTTAAAATTTTTATAAC
8462831 TTATAATTTTAAAATTTTTATAAC
1 TTATAATTTTAAAATTTTTATAAC
8462855 TT
1 TT
8462857 CTTTTATAAA
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 98 1.00
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (24 bp):
TTATAATTTTAAAATTTTTATAAC
Found at i:8468368 original size:23 final size:22
Alignment explanation
Indices: 8468316--8468368 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
8468306 TCCACGTCTT
*
8468316 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
8468338 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
8468361 TTTCTTTT
1 TTTCTTTT
8468369 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:8469662 original size:18 final size:19
Alignment explanation
Indices: 8469631--8469672 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
8469621 TTTTTTTAAA
*
8469631 TTTTTATTGAATTTCGTCTT
1 TTTTTATT-AATTTCGACTT
*
8469651 TTTTTATT-ATTTTGACTT
1 TTTTTATTAATTTCGACTT
8469669 TTTT
1 TTTT
8469673 GACTGATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 12 0.60
20 8 0.40
ACGTcount: A:0.14, C:0.07, G:0.07, T:0.71
Consensus pattern (19 bp):
TTTTTATTAATTTCGACTT
Found at i:8477520 original size:52 final size:52
Alignment explanation
Indices: 8477442--8477545 Score: 190
Period size: 52 Copynumber: 2.0 Consensus size: 52
8477432 AGACGAAAGC
*
8477442 TAATCAATGGGAAAAGAAATTCCAGGATACTCGGGCTCGAGAGGTCGCCTTG
1 TAATCAATGGGAAAAGAAATTCCAGGATACTCGGGCTCGAGAAGTCGCCTTG
*
8477494 TAATCAATGGGAAAAGAAATTCCAGGATACTCGGGTTCGAGAAGTCGCCTTG
1 TAATCAATGGGAAAAGAAATTCCAGGATACTCGGGCTCGAGAAGTCGCCTTG
8477546 GGAAATAGTC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.22
Consensus pattern (52 bp):
TAATCAATGGGAAAAGAAATTCCAGGATACTCGGGCTCGAGAAGTCGCCTTG
Found at i:8485405 original size:117 final size:117
Alignment explanation
Indices: 8485219--8485441 Score: 419
Period size: 117 Copynumber: 1.9 Consensus size: 117
8485209 TATGTGAAAT
8485219 GGATGGCAAAAGTTTACCAAATCCGGTAAACGCAGACTCCGTCAAGAAATACTTCACATGAAAGA
1 GGATGGCAAAAGTTTACCAAATCCGGTAAACGCAGACTCCGTCAAGAAATACTTCACATGAAAGA
8485284 AAGGGGAACCAAAGTGAAAACCCGTAAAGGGCGCTTTGCTTTCTAAAAAAAA
66 AAGGGGAACCAAAGTGAAAACCCGTAAAGGGCGCTTTGCTTTCTAAAAAAAA
** *
8485336 GGATGGCAAAAGTTTACCAAATCTTGTAAACGCAGACTCCGTCAAGAAATACTTCACGTGAAAGA
1 GGATGGCAAAAGTTTACCAAATCCGGTAAACGCAGACTCCGTCAAGAAATACTTCACATGAAAGA
8485401 AAGGGGAACCAAAGTGAAAACCCGTAAAGGGCGCTTTGCTT
66 AAGGGGAACCAAAGTGAAAACCCGTAAAGGGCGCTTTGCTT
8485442 CAAAAGAAAA
Statistics
Matches: 103, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
117 103 1.00
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.19
Consensus pattern (117 bp):
GGATGGCAAAAGTTTACCAAATCCGGTAAACGCAGACTCCGTCAAGAAATACTTCACATGAAAGA
AAGGGGAACCAAAGTGAAAACCCGTAAAGGGCGCTTTGCTTTCTAAAAAAAA
Found at i:8486792 original size:44 final size:46
Alignment explanation
Indices: 8486678--8486792 Score: 137
Period size: 46 Copynumber: 2.5 Consensus size: 46
8486668 ATACAGGTCT
* * *
8486678 TATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGACCAAAGAATGTCAGATCC
* *
8486724 TATCTCCCTGAGATTACAGCGGAGCAGATCAAAG-ATAGT-A-ATCC
1 TATCTCCCTGAGATTACAGTGGAGCAGACCAAAGAAT-GTCAGATCC
* *
8486768 TATCTCCTTGAGATTACAATGGAGC
1 TATCTCCCTGAGATTACAGTGGAGC
8486793 GGATTAAAAG
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
44 25 0.42
45 3 0.05
46 32 0.53
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (46 bp):
TATCTCCCTGAGATTACAGTGGAGCAGACCAAAGAATGTCAGATCC
Found at i:8486873 original size:42 final size:43
Alignment explanation
Indices: 8486801--8486914 Score: 133
Period size: 47 Copynumber: 2.6 Consensus size: 43
8486791 GCGGATTAAA
* * * *
8486801 AGATCTTATCTCTCTGAAGTTACAGCAGAGTAGACC-GCA-TC
1 AGATCTTATCTCCCTGAGGTTACAGTAGAGTAGACCGGAATTC
*
8486842 AGGTCTTATCTCCCTGAGGATTACAGTAGAGTAGACCGGAGAATTTC
1 AGATCTTATCTCCCTGAGG-TTACAGTAGAGTAGACC-G-GAA-TTC
8486889 AGATCTTATCTCCCTGAGGTTACAGT
1 AGATCTTATCTCCCTGAGGTTACAGT
8486915 GGAGCAGATT
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
41 16 0.26
42 16 0.26
45 2 0.03
46 7 0.11
47 20 0.33
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (43 bp):
AGATCTTATCTCCCTGAGGTTACAGTAGAGTAGACCGGAATTC
Found at i:8515140 original size:30 final size:30
Alignment explanation
Indices: 8515106--8515162 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
8515096 CACTTGAAGG
*
8515106 TATTTGGTTGTTTGTGTTATGCACTGGTTC
1 TATTTGGTTGTTTGTGCTATGCACTGGTTC
8515136 TATTTGGTTGTTTGTGCTATGCACTGG
1 TATTTGGTTGTTTGTGCTATGCACTGG
8515163 GTTCAGCAGA
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:0.11, C:0.11, G:0.28, T:0.51
Consensus pattern (30 bp):
TATTTGGTTGTTTGTGCTATGCACTGGTTC
Found at i:8520431 original size:13 final size:13
Alignment explanation
Indices: 8520413--8520438 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8520403 ACCTGATTCA
8520413 TCATAAACCAGAT
1 TCATAAACCAGAT
8520426 TCATAAACCAGAT
1 TCATAAACCAGAT
8520439 GTCTTCTTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.23, G:0.08, T:0.23
Consensus pattern (13 bp):
TCATAAACCAGAT
Found at i:8522737 original size:22 final size:22
Alignment explanation
Indices: 8522709--8522752 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
8522699 CAATGTGTGC
*
8522709 CATGCATCTCATATGAAGATAT
1 CATGCATCTCATATGAAAATAT
8522731 CATGCATCTCATATGAAAATAT
1 CATGCATCTCATATGAAAATAT
8522753 TTACCATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (22 bp):
CATGCATCTCATATGAAAATAT
Found at i:8523659 original size:19 final size:20
Alignment explanation
Indices: 8523619--8523661 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
8523609 ATTTTGCAAG
8523619 AAAAAAATTATATAATAAATT
1 AAAAAAATTATATAAT-AATT
8523640 AAAATAAATT-TATAAT-ATT
1 AAAA-AAATTATATAATAATT
8523659 AAA
1 AAA
8523662 CATATTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 6 0.29
21 10 0.48
22 5 0.24
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAAAAATTATATAATAATT
Found at i:8524456 original size:6 final size:6
Alignment explanation
Indices: 8524445--8524522 Score: 70
Period size: 6 Copynumber: 12.7 Consensus size: 6
8524435 AATAAATTAT
* * *
8524445 AAAACC AAAACC AAAACC AAAACC AAAA-C AAAAGC AATAGCA ATATTAACC
1 AAAACC AAAACC AAAACC AAAACC AAAACC AAAACC AA-AACC A-A--AACC
*
8524496 AAAACC AAAATC AAAACC AAAA-C AAAA
1 AAAACC AAAACC AAAACC AAAACC AAAA
8524523 GCAATAGCAA
Statistics
Matches: 61, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
5 10 0.16
6 43 0.70
7 2 0.03
8 2 0.03
9 4 0.07
ACGTcount: A:0.67, C:0.24, G:0.03, T:0.06
Consensus pattern (6 bp):
AAAACC
Found at i:8524511 original size:39 final size:39
Alignment explanation
Indices: 8524453--8524528 Score: 118
Period size: 39 Copynumber: 1.9 Consensus size: 39
8524443 ATAAAACCAA
*
8524453 AACCAAAACCAAAACCAAAA-CAAAAGCAATAGCAATATT
1 AACCAAAACCAAAACCAAAACCAAAA-CAAAAGCAATATT
*
8524492 AACCAAAACCAAAATCAAAACCAAAACAAAAGCAATA
1 AACCAAAACCAAAACCAAAACCAAAACAAAAGCAATA
8524529 GCAATATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
39 29 0.85
40 5 0.15
ACGTcount: A:0.64, C:0.24, G:0.04, T:0.08
Consensus pattern (39 bp):
AACCAAAACCAAAACCAAAACCAAAACAAAAGCAATATT
Found at i:8524511 original size:45 final size:45
Alignment explanation
Indices: 8524447--8524538 Score: 175
Period size: 45 Copynumber: 2.0 Consensus size: 45
8524437 TAAATTATAA
8524447 AACCAAAACCAAAACCAAAACCAAAACAAAAGCAATAGCAATATT
1 AACCAAAACCAAAACCAAAACCAAAACAAAAGCAATAGCAATATT
*
8524492 AACCAAAACCAAAATCAAAACCAAAACAAAAGCAATAGCAATATT
1 AACCAAAACCAAAACCAAAACCAAAACAAAAGCAATAGCAATATT
8524537 AA
1 AA
8524539 GTTGTTAACC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.63, C:0.23, G:0.04, T:0.10
Consensus pattern (45 bp):
AACCAAAACCAAAACCAAAACCAAAACAAAAGCAATAGCAATATT
Found at i:8525045 original size:28 final size:28
Alignment explanation
Indices: 8525005--8525059 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
8524995 ATCCATCATA
8525005 AACCAGATGTCTTCTTAAAGAACAAATT
1 AACCAGATGTCTTCTTAAAGAACAAATT
* *
8525033 AACCAGATGTCTTCTTGAAGAATAAAT
1 AACCAGATGTCTTCTTAAAGAACAAAT
8525060 CATCATAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (28 bp):
AACCAGATGTCTTCTTAAAGAACAAATT
Found at i:8525701 original size:15 final size:15
Alignment explanation
Indices: 8525668--8525708 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
8525658 TCTGTTGTGT
8525668 TTTTTAGTTTT-GGA
1 TTTTTAGTTTTAGGA
*
8525682 CTTTTAGTTTTAGGA
1 TTTTTAGTTTTAGGA
*
8525697 TTTTTATTTTTA
1 TTTTTAGTTTTA
8525709 TTTATTAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.17, C:0.02, G:0.15, T:0.66
Consensus pattern (15 bp):
TTTTTAGTTTTAGGA
Found at i:8535705 original size:25 final size:25
Alignment explanation
Indices: 8535677--8535738 Score: 106
Period size: 25 Copynumber: 2.5 Consensus size: 25
8535667 TATCTCATAT
*
8535677 GAGCTTACTGTTATTCAGCTTGGAG
1 GAGCTTACTGTTATTCAGCTCGGAG
8535702 GAGCTTACTGTTATTCAGCTCGGAG
1 GAGCTTACTGTTATTCAGCTCGGAG
*
8535727 GATCTTACTGTT
1 GAGCTTACTGTT
8535739 TATAGCTCGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.37
Consensus pattern (25 bp):
GAGCTTACTGTTATTCAGCTCGGAG
Found at i:8538151 original size:16 final size:15
Alignment explanation
Indices: 8538130--8538161 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
8538120 ATGGCGTCGG
8538130 AGAAAAATGGCGATA
1 AGAAAAATGGCGATA
8538145 AGAAAAATGGCGATA
1 AGAAAAATGGCGATA
8538160 AG
1 AG
8538162 GGTATATTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.28, T:0.12
Consensus pattern (15 bp):
AGAAAAATGGCGATA
Found at i:8542480 original size:36 final size:36
Alignment explanation
Indices: 8542421--8542493 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 36
8542411 CTTCAAGGTA
* * *
8542421 TAAGTTTTTTAAGTAAAAAC-TTTTAGGTATTAATT
1 TAAGTTTTTGAAATAAAAACTTTTTAGGTATAAATT
8542456 TAAGTTTTTGAAATACAAAACTTTTTAGGTATAAATT
1 TAAGTTTTTGAAATA-AAAACTTTTTAGGTATAAATT
8542493 T
1 T
8542494 TTGAAAAAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 13 0.39
36 5 0.15
37 15 0.45
ACGTcount: A:0.38, C:0.04, G:0.11, T:0.47
Consensus pattern (36 bp):
TAAGTTTTTGAAATAAAAACTTTTTAGGTATAAATT
Found at i:8547352 original size:21 final size:20
Alignment explanation
Indices: 8547305--8547352 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
8547295 ATAAAATACC
8547305 TAATAT-GTAAAAGAATTTA
1 TAATATAGTAAAAGAATTTA
* *
8547324 TATTTATAGTAAAATAATTATA
1 TA-ATATAGTAAAAGAATT-TA
8547346 TAATATA
1 TAATATA
8547353 TATGAATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 2 0.09
20 3 0.13
21 14 0.61
22 4 0.17
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (20 bp):
TAATATAGTAAAAGAATTTA
Found at i:8552778 original size:11 final size:11
Alignment explanation
Indices: 8552749--8552790 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
8552739 TAGAATATAC
* *
8552749 CCCATACATTG
1 CCCATACCTTA
*
8552760 CCCATACCTTT
1 CCCATACCTTA
8552771 CCCATACC-TA
1 CCCATACCTTA
8552781 CCCATACCTT
1 CCCATACCTT
8552791 GGAAAGGTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
10 9 0.33
11 18 0.67
ACGTcount: A:0.24, C:0.45, G:0.02, T:0.29
Consensus pattern (11 bp):
CCCATACCTTA
Found at i:8553350 original size:18 final size:18
Alignment explanation
Indices: 8553323--8553397 Score: 78
Period size: 18 Copynumber: 4.2 Consensus size: 18
8553313 TACGACCGTT
*
8553323 TACGGTACTATTCACGTA
1 TACGGCACTATTCACGTA
* * *
8553341 TACGACACTATTTACATA
1 TACGGCACTATTCACGTA
* * *
8553359 TATGGCACTATTTATGTA
1 TACGGCACTATTCACGTA
*
8553377 TACGGTACTATTCACGTA
1 TACGGCACTATTCACGTA
8553395 TAC
1 TAC
8553398 AGTAGTTGGG
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 45 1.00
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (18 bp):
TACGGCACTATTCACGTA
Found at i:8557388 original size:11 final size:11
Alignment explanation
Indices: 8557372--8557414 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
8557362 TAGAATATAC
8557372 CCCATACCTTG
1 CCCATACCTTG
*
8557383 CCCATACCTTT
1 CCCATACCTTG
*
8557394 CCCATACC-TA
1 CCCATACCTTG
8557404 CCCATACCTTG
1 CCCATACCTTG
8557415 GAAAGGTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.21, C:0.47, G:0.05, T:0.28
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:8557409 original size:21 final size:22
Alignment explanation
Indices: 8557372--8557413 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
8557362 TAGAATATAC
*
8557372 CCCATACCTTGCCCATACCTTT
1 CCCATACCTTACCCATACCTTT
8557394 CCCATACC-TACCCATACCTT
1 CCCATACCTTACCCATACCTT
8557414 GGAAAGGTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.21, C:0.48, G:0.02, T:0.29
Consensus pattern (22 bp):
CCCATACCTTACCCATACCTTT
Found at i:8559475 original size:43 final size:43
Alignment explanation
Indices: 8559427--8559565 Score: 170
Period size: 43 Copynumber: 3.2 Consensus size: 43
8559417 CGAAAAAAAT
*
8559427 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTGGCAAAC
1 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTGACAAAC
* * *
8559470 GCCGCTAAAGACCACGACTTTTAGCGGCGCTTTTTTCACAAAC
1 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTGACAAAC
* * * * * * *
8559513 GCCGCTAAAGATCATAAACTTTAGCGCCACTTTTTCGCCAAAC
1 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTGACAAAC
*
8559556 GCCACTAAAG
1 GCCGCTAAAG
8559566 GTCATGAAAT
Statistics
Matches: 81, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 81 1.00
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.24
Consensus pattern (43 bp):
GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTGACAAAC
Found at i:8559779 original size:6 final size:6
Alignment explanation
Indices: 8559768--8559844 Score: 57
Period size: 6 Copynumber: 12.5 Consensus size: 6
8559758 ATTAAATATT
* *
8559768 AAAATA AAAATA AAAATA TAAAATCA AAACT- AAAATA AATAATA AAAATT
1 AAAATA AAAATA AAAATA -AAAAT-A AAAATA AAAATA AA-AATA AAAATA
* * * * *
8559818 AGATTA AATATA AAGATA TAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAA
8559845 TACAGCATCT
Statistics
Matches: 54, Mismatches: 13, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
5 4 0.07
6 34 0.63
7 15 0.28
8 1 0.02
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (6 bp):
AAAATA
Found at i:8559786 original size:20 final size:20
Alignment explanation
Indices: 8559761--8559802 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
8559751 TCAAGTTATT
8559761 AAATATTAAAAT-AAAAATAA
1 AAATA-TAAAATCAAAAATAA
*
8559781 AAATATAAAATCAAAACTAA
1 AAATATAAAATCAAAAATAA
8559801 AA
1 AA
8559803 TAAATAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (20 bp):
AAATATAAAATCAAAAATAA
Found at i:8559791 original size:19 final size:19
Alignment explanation
Indices: 8559761--8559844 Score: 64
Period size: 19 Copynumber: 4.1 Consensus size: 19
8559751 TCAAGTTATT
8559761 AAATATTAAAATAAAAATAA
1 AAATA-TAAAATAAAAATAA
*
8559781 AAATATAAAATCAAAACT-A
1 AAATATAAAAT-AAAAATAA
8559800 AAATA-AATAATAAAAATTAGA
1 AAATATAA-AATAAAAA-TA-A
*
8559821 TTAAATATAAAGATATAAATAA
1 --AAATATAAA-ATAAAAATAA
8559843 AA
1 AA
8559845 TACAGCATCT
Statistics
Matches: 52, Mismatches: 3, Indels: 18
0.71 0.04 0.25
Matches are distributed among these distances:
18 6 0.12
19 16 0.31
20 12 0.23
21 1 0.02
22 1 0.02
23 8 0.15
24 8 0.15
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.25
Consensus pattern (19 bp):
AAATATAAAATAAAAATAA
Found at i:8564605 original size:14 final size:15
Alignment explanation
Indices: 8564569--8564605 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
8564559 AACCATTAAA
8564569 CTTAAACCATAGAAC
1 CTTAAACCATAGAAC
*
8564584 CCTAAACCATAG-AC
1 CTTAAACCATAGAAC
8564598 CTTAAACC
1 CTTAAACC
8564606 TTAAATATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.43, C:0.32, G:0.05, T:0.19
Consensus pattern (15 bp):
CTTAAACCATAGAAC
Found at i:8564784 original size:16 final size:17
Alignment explanation
Indices: 8564763--8564796 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
8564753 AAAGTTATAG
8564763 TTTAAGGTTTAG-GGTT
1 TTTAAGGTTTAGAGGTT
8564779 TTTAAGGTTTAGAGGTT
1 TTTAAGGTTTAGAGGTT
8564796 T
1 T
8564797 AGTGCATTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (17 bp):
TTTAAGGTTTAGAGGTT
Found at i:8564923 original size:41 final size:41
Alignment explanation
Indices: 8564866--8565171 Score: 531
Period size: 41 Copynumber: 7.5 Consensus size: 41
8564856 GTTATATGAC
8564866 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
* * *
8564907 TTTTAGCGGCGTTTTACAGAAAGCGACGCTAATTCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
8564948 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
* * *
8564989 TTTTAGCGGCGTTTTACAGAAAGCGACGCTAATTCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
8565030 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
* * *
8565071 TTTTAGCGGCGTTTTACAGAAAGCGACGCTAATTCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
8565112 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
8565153 TTTTAGCGGCGTTTTACCG
1 TTTTAGCGGCGTTTTACCG
8565172 CTATTGCTCT
Statistics
Matches: 247, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 247 1.00
ACGTcount: A:0.19, C:0.22, G:0.26, T:0.33
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
Found at i:8565197 original size:82 final size:82
Alignment explanation
Indices: 8564866--8565169 Score: 608
Period size: 82 Copynumber: 3.7 Consensus size: 82
8564856 GTTATATGAC
8564866 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACAGAAAGC
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACAGAAAGC
8564931 GACGCTAATTCTCTGGT
66 GACGCTAATTCTCTGGT
8564948 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACAGAAAGC
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACAGAAAGC
8565013 GACGCTAATTCTCTGGT
66 GACGCTAATTCTCTGGT
8565030 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACAGAAAGC
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACAGAAAGC
8565095 GACGCTAATTCTCTGGT
66 GACGCTAATTCTCTGGT
8565112 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTAC
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTAC
8565170 CGCTATTGCT
Statistics
Matches: 222, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 222 1.00
ACGTcount: A:0.19, C:0.22, G:0.26, T:0.34
Consensus pattern (82 bp):
TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACAGAAAGC
GACGCTAATTCTCTGGT
Found at i:8579099 original size:24 final size:24
Alignment explanation
Indices: 8579066--8579118 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
8579056 TGGAGCAGCC
* *
8579066 AGAGGTTTTTGTTGCACAAGGGAA
1 AGAGGGTTTTATTGCACAAGGGAA
8579090 AGAGGGTTTTATTGCACAAGGGAA
1 AGAGGGTTTTATTGCACAAGGGAA
8579114 AGAGG
1 AGAGG
8579119 ACTATGTGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.32, C:0.08, G:0.36, T:0.25
Consensus pattern (24 bp):
AGAGGGTTTTATTGCACAAGGGAA
Found at i:8586840 original size:20 final size:20
Alignment explanation
Indices: 8586815--8586855 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
8586805 ATGTGTACTT
8586815 CTGGAATTAAAATGAAGTAA
1 CTGGAATTAAAATGAAGTAA
8586835 CTGGAATTAAAATGAAGTAA
1 CTGGAATTAAAATGAAGTAA
8586855 C
1 C
8586856 CGAGTAAGGT
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:0.49, C:0.07, G:0.20, T:0.24
Consensus pattern (20 bp):
CTGGAATTAAAATGAAGTAA
Found at i:8589230 original size:3 final size:3
Alignment explanation
Indices: 8589224--8589258 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
8589214 ATAATAATTA
8589224 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
8589259 GTTTAGAGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:8593695 original size:18 final size:19
Alignment explanation
Indices: 8593666--8593718 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
8593656 GGATATGTGG
8593666 TAAAAAAA-TAATAAAA-A
1 TAAAAAAATTAATAAAAGA
8593683 -AATAAAAATTAATAAAAGA
1 TAA-AAAAATTAATAAAAGA
*
8593702 TAAAAAAATTATTAAAA
1 TAAAAAAATTAATAAAA
8593719 TTTAATAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
16 2 0.06
17 5 0.16
18 8 0.26
19 14 0.45
20 2 0.06
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (19 bp):
TAAAAAAATTAATAAAAGA
Found at i:8593704 original size:17 final size:18
Alignment explanation
Indices: 8593668--8593708 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
8593658 ATATGTGGTA
8593668 AAAAAATAATAAAAAAAT
1 AAAAAATAATAAAAAAAT
* *
8593686 AAAAATTAAT-AAAAGAT
1 AAAAAATAATAAAAAAAT
8593703 AAAAAA
1 AAAAAA
8593709 ATTATTAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.17
Consensus pattern (18 bp):
AAAAAATAATAAAAAAAT
Found at i:8593733 original size:19 final size:20
Alignment explanation
Indices: 8593683--8593752 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
8593673 ATAATAAAAA
*
8593683 AATAAAAATTAATAAAAGAT
1 AATAAAAATTATTAAAAGAT
**
8593703 AA-AAAAATTATTAAAATTT
1 AATAAAAATTATTAAAAGAT
* *
8593722 AATAAAAA-TATTTAGAAGTT
1 AATAAAAATTA-TTAAAAGAT
*
8593742 ATTAAAAATTA
1 AATAAAAATTA
8593753 GAAAAAAATT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
19 18 0.44
20 21 0.51
21 2 0.05
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (20 bp):
AATAAAAATTATTAAAAGAT
Found at i:8593779 original size:19 final size:19
Alignment explanation
Indices: 8593757--8593798 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
8593747 AAATTAGAAA
*
8593757 AAAATTGTAAAAAAATTAT
1 AAAATTGTAAAAAAATCAT
* *
8593776 AAAATTTTATAAAAATCAT
1 AAAATTGTAAAAAAATCAT
8593795 AAAA
1 AAAA
8593799 AAATAAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (19 bp):
AAAATTGTAAAAAAATCAT
Found at i:8594554 original size:18 final size:18
Alignment explanation
Indices: 8594521--8594555 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8594511 ACTCCTCTAA
*
8594521 TAATTTAATTTAATTAAT
1 TAATTTAATCTAATTAAT
*
8594539 TAATTTAATCTCATTAA
1 TAATTTAATCTAATTAA
8594556 GTATTAATTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATTTAATCTAATTAAT
Found at i:8595967 original size:28 final size:28
Alignment explanation
Indices: 8595934--8595991 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
8595924 CTATGAAAAG
* *
8595934 TTACAAAATGGTTATTGAACTATTTAAT
1 TTACAAAACGGTTATCGAACTATTTAAT
8595962 TTACAAAACGGTTATCGAACTATTTAAT
1 TTACAAAACGGTTATCGAACTATTTAAT
8595990 TT
1 TT
8595992 TATCTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.41
Consensus pattern (28 bp):
TTACAAAACGGTTATCGAACTATTTAAT
Found at i:8597548 original size:18 final size:19
Alignment explanation
Indices: 8597525--8597562 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
8597515 TATATATTAG
*
8597525 TGTATA-ATTTTTTATATA
1 TGTATATATTTTTAATATA
8597543 TGTATATATTTTTAATATA
1 TGTATATATTTTTAATATA
8597562 T
1 T
8597563 TTATGTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (19 bp):
TGTATATATTTTTAATATA
Found at i:8599950 original size:44 final size:44
Alignment explanation
Indices: 8599859--8600120 Score: 255
Period size: 44 Copynumber: 6.0 Consensus size: 44
8599849 NNNNNNNCTT
*
8599859 TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCA
1 TCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATCTGCA
* * * * * *
8599903 TCTTCGATCCATTTC-CTACCAATATAGGAAGATAGGATCTGATA
1 TCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATCTG-CA
* * * * *
8599947 TCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATCTGC-A
*
8599991 TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCA
1 TCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATCTGCA
* * * * *
8600035 TCTTCGATCCACTTC-CTACCAATATAGGAAGATAGGACCTGC-
1 TCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATCTGCA
* * * *
8600077 TACTTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGC
1 T-C-TTCGATCTACTTCGCCACCAATATAGGAAGACAAGATCTGC
8600121 TTTAATGACT
Statistics
Matches: 174, Mismatches: 39, Indels: 10
0.78 0.17 0.04
Matches are distributed among these distances:
42 1 0.01
43 45 0.26
44 106 0.61
45 22 0.13
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (44 bp):
TCTTCGATCTACTTCGCCACCAATATAGGAAGACAAGATCTGCA
Found at i:8600093 original size:132 final size:132
Alignment explanation
Indices: 8599856--8600123 Score: 493
Period size: 132 Copynumber: 2.0 Consensus size: 132
8599846 NNNNNNNNNN
*
8599856 CTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCATTTCCTA
1 CTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTA
*
8599921 CCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATC
66 CCAATATAGGAAGATAGGACCTGATATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATC
8599986 TG
131 TG
8599988 CTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTA
1 CTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTA
*
8600053 CCAATATAGGAAGATAGGACCTGCTA-CTTTCGATCTACTTCACGCCAATACATGAAGACAAGAT
66 CCAATATAGGAAGATAGGACCTGATATC-TTCGATCTACTTCACGCCAATACATGAAGACAAGAT
8600117 CTG
130 CTG
8600120 CTTT
1 CTTT
8600124 AATGACTTCA
Statistics
Matches: 132, Mismatches: 3, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
131 1 0.01
132 131 0.99
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (132 bp):
CTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTA
CCAATATAGGAAGATAGGACCTGATATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATC
TG
Found at i:8626035 original size:3 final size:3
Alignment explanation
Indices: 8626027--8626067 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
8626017 TATCATTGGT
*
8626027 TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
8626068 CTCGCTTTCA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:8635125 original size:60 final size:60
Alignment explanation
Indices: 8635051--8635173 Score: 192
Period size: 60 Copynumber: 2.0 Consensus size: 60
8635041 TTGACCAAGG
* * *
8635051 ATTCGATTCTCATTATAATTATCTGTCGCCTTTTCCATCTCTTTTGAAGTAAACAACTTA
1 ATTCGATTCTCATTATAATAATCCGTCGCCTTTTCCATCTCTTTTGAAGGAAACAACTTA
* * *
8635111 ATTCGGTTCTCATTATAATAATCCGTCGCCTTTTCTATCTCTTTTGAAGGAAACAATTTA
1 ATTCGATTCTCATTATAATAATCCGTCGCCTTTTCCATCTCTTTTGAAGGAAACAACTTA
8635171 ATT
1 ATT
8635174 TTTTCAACAT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.43
Consensus pattern (60 bp):
ATTCGATTCTCATTATAATAATCCGTCGCCTTTTCCATCTCTTTTGAAGGAAACAACTTA
Found at i:8640384 original size:17 final size:17
Alignment explanation
Indices: 8640362--8640402 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
8640352 AAAACTACCT
8640362 ACCCAAATA-ACCCCAAA
1 ACCCAAATAGA-CCCAAA
*
8640379 ACCCAATTAGACCCAAA
1 ACCCAAATAGACCCAAA
8640396 ACCCAAA
1 ACCCAAA
8640403 CCTTAGCTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 20 0.95
18 1 0.05
ACGTcount: A:0.51, C:0.39, G:0.02, T:0.07
Consensus pattern (17 bp):
ACCCAAATAGACCCAAA
Found at i:8641558 original size:22 final size:22
Alignment explanation
Indices: 8641520--8641600 Score: 60
Period size: 22 Copynumber: 3.7 Consensus size: 22
8641510 ATATTTTTGC
*
8641520 TATTATCTATTATTATCATATT
1 TATTATCTATTATTATCATATA
* *
8641542 TATTAT-TATTTTCTATCCTATA
1 TATTATCTATTAT-TATCATATA
* * *
8641564 TATTTTCTTTTTAGTATCA-ATCA
1 TATTATC-TATTATTATCATAT-A
8641587 TATTAT-TATTATTA
1 TATTATCTATTATTA
8641601 CTTTCCTTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 9
0.69 0.17 0.14
Matches are distributed among these distances:
21 11 0.25
22 20 0.45
23 10 0.23
24 3 0.07
ACGTcount: A:0.30, C:0.10, G:0.01, T:0.59
Consensus pattern (22 bp):
TATTATCTATTATTATCATATA
Found at i:8642137 original size:3 final size:3
Alignment explanation
Indices: 8642129--8642281 Score: 55
Period size: 3 Copynumber: 50.7 Consensus size: 3
8642119 CCCTCATCAC
* * *
8642129 TAT TAT TAT CTA- TACT TTAT TAT TGT TACT TAT TAT T-T TAC TAT TGT
1 TAT TAT TAT -TAT TA-T T-AT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
* * * * * *
8642176 TAT CTAT TA- TAT CAT CAT TAT CAT TAT TTT TAT T-T TAC TAT TGT
1 TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * * *
8642220 AACT TAA TA- TAT TAG CAT TGT TAT TTT TAT TGT TGT TAT TAT TAT
1 TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
8642265 TAT TAT CAT TAT TAT TA
1 TAT TAT TAT TAT TAT TA
8642282 CCATCTTATT
Statistics
Matches: 108, Mismatches: 31, Indels: 22
0.67 0.19 0.14
Matches are distributed among these distances:
2 10 0.09
3 84 0.78
4 13 0.12
5 1 0.01
ACGTcount: A:0.28, C:0.08, G:0.05, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:8642168 original size:21 final size:21
Alignment explanation
Indices: 8642127--8642185 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
8642117 TACCCTCATC
* *
8642127 ACTATTATTATCTA-TACTTT
1 ACTATTGTTATCTATTATTTT
*
8642147 ATTATTGTTA-CTTATTATTTT
1 ACTATTGTTATC-TATTATTTT
8642168 ACTATTGTTATCTATTAT
1 ACTATTGTTATCTATTAT
8642186 ATCATCATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
19 1 0.03
20 10 0.31
21 20 0.62
22 1 0.03
ACGTcount: A:0.27, C:0.10, G:0.03, T:0.59
Consensus pattern (21 bp):
ACTATTGTTATCTATTATTTT
Found at i:8642191 original size:65 final size:65
Alignment explanation
Indices: 8642122--8642243 Score: 147
Period size: 65 Copynumber: 1.9 Consensus size: 65
8642112 GTTATTACCC
* * * * *
8642122 TCATCACTATTATTATCTATACTTTATTATTGTTACTTATTATTTTA-CTATTGTTATCTATTAT
1 TCATCACTATCATTATCTATACTTTACTATTGTAACTTAATATATTAGC-ATTGTTATCTATTAT
8642186 A
65 A
* * * *
8642187 TCATCATTATCATTATTTTTATTTTACTATTGTAACTTAATATATTAGCATTGTTAT
1 TCATCACTATCATTATCTATACTTTACTATTGTAACTTAATATATTAGCATTGTTAT
8642244 TTTTATTGTT
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
65 46 0.98
66 1 0.02
ACGTcount: A:0.29, C:0.11, G:0.04, T:0.56
Consensus pattern (65 bp):
TCATCACTATCATTATCTATACTTTACTATTGTAACTTAATATATTAGCATTGTTATCTATTATA
Found at i:8642301 original size:3 final size:3
Alignment explanation
Indices: 8642145--8642281 Score: 57
Period size: 3 Copynumber: 46.0 Consensus size: 3
8642135 TATCTATACT
* * * *
8642145 TTA TTA TTG TTA CTTA TTA TT- TTA CTA TTG TTA TCTA TTA -TA TCA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
* * * * * * *
8642190 TCA TTA TCA TTA TTT TTA TT- TTA CTA TTG TAA CTTA ATA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
** * * * * *
8642234 GCA TTG TTA TTT TTA TTG TTG TTA TTA TTA TTA TTA TCA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
8642282 CCATCTTATT
Statistics
Matches: 96, Mismatches: 31, Indels: 14
0.68 0.22 0.10
Matches are distributed among these distances:
2 8 0.08
3 80 0.83
4 8 0.08
ACGTcount: A:0.28, C:0.07, G:0.05, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:8647269 original size:66 final size:66
Alignment explanation
Indices: 8647139--8647362 Score: 213
Period size: 66 Copynumber: 3.4 Consensus size: 66
8647129 GTCAATAGCC
* * * * **
8647139 TCACACGGCTTAGCACATGAGTGTGTGG-TTGGCTGTGTGACACAAGAT-AGTATACCTAGTATT
1 TCACACGGCCTAGCACACGAGCGTGTGGCTTGGCCGTGTGACACAAG-TCAGTATACCTACCATT
8647202 TT
65 TT
* * *
8647204 TCACACGGCCTAGCACACGGGCGTGTGGCTTGGCCGTGTGTCACAAGTCAGTAT-GCTCACCATT
1 TCACACGGCCTAGCACACGAGCGTGTGGCTTGGCCGTGTGACACAAGTCAGTATACCT-ACCATT
8647268 TT
65 TT
* * * * * *
8647270 TC-CCCTGGCCTAGCACACGAGCGTGTGGCTTGACCGTGTGACCCAAGTCAGTAAACTTACTATT
1 TCACAC-GGCCTAGCACACGAGCGTGTGGCTTGGCCGTGTGACACAAGTCAGTATACCTACCATT
8647334 TT
65 TT
*** * *
8647336 GGGCACGGGCTAGGACACGAGCGTGTG
1 TCACACGGCCTAGCACACGAGCGTGTG
8647363 TCCCCATTTT
Statistics
Matches: 130, Mismatches: 23, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
65 29 0.22
66 98 0.75
67 3 0.02
ACGTcount: A:0.21, C:0.25, G:0.28, T:0.26
Consensus pattern (66 bp):
TCACACGGCCTAGCACACGAGCGTGTGGCTTGGCCGTGTGACACAAGTCAGTATACCTACCATTT
T
Found at i:8656306 original size:43 final size:43
Alignment explanation
Indices: 8656240--8656385 Score: 147
Period size: 43 Copynumber: 3.4 Consensus size: 43
8656230 CCGAGATGTA
* *
8656240 ATTATATGTAAGACCATGTCTGGGATATTGGCATTGTATTGTG
1 ATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGTG
* *
8656283 ATTACATGTAAGACCATGTCTGGGACATTGGCATCAT-TAAT-CG
1 ATTACATGTAAGACCATGTCTGGGACATTGGCAT--TGTATTGTG
* * * *
8656326 ATTA-AGTGTAAGGCCCTGTCTGGGACAGTGGCATCG-ATATGTG
1 ATTACA-TGTAAGACCATGTCTGGGACATTGGCATTGTAT-TGTG
*
8656369 ATAACATGTAAGACCAT
1 ATTACATGTAAGACCAT
8656386 AAATGGGATA
Statistics
Matches: 83, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
41 1 0.01
42 2 0.02
43 75 0.90
44 4 0.05
45 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.32
Consensus pattern (43 bp):
ATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGTG
Found at i:8663959 original size:32 final size:32
Alignment explanation
Indices: 8663923--8663987 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
8663913 TGTATGCATT
8663923 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
8663955 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
8663987 T
1 T
8663988 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:8665497 original size:26 final size:26
Alignment explanation
Indices: 8665468--8665520 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
8665458 TTTACAGTTT
8665468 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
8665494 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
8665520 T
1 T
8665521 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:8667455 original size:15 final size:15
Alignment explanation
Indices: 8667435--8667464 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8667425 CATTTTATTT
*
8667435 ATATTAGGATAATTA
1 ATATTAAGATAATTA
8667450 ATATTAAGATAATTA
1 ATATTAAGATAATTA
8667465 TTAGGATTAT
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:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:8667492 original size:27 final size:26
Alignment explanation
Indices: 8667431--8667493 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
8667421 ACTACATTTT
8667431 ATTTATATTAGGATAATTAATATTAAG
1 ATTT-TATTAGGATAATTAATATTAAG
* * * *
8667458 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
8667486 ATTTTATT
1 ATTTTATT
8667494 TTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 15 0.52
28 14 0.48
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:8667508 original size:10 final size:10
Alignment explanation
Indices: 8667489--8667520 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
8667479 TTTTAGGATT
8667489 TTAT-TTTAA
1 TTATCTTTAA
8667498 TTATCTTTAA
1 TTATCTTTAA
8667508 TTATCTTTAA
1 TTATCTTTAA
8667518 TTA
1 TTA
8667521 AATGTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:8673851 original size:16 final size:18
Alignment explanation
Indices: 8673830--8673868 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
8673820 GTTCTATAGG
*
8673830 TATTTTACT-TT-TATTT
1 TATTTTACTATTGTACTT
8673846 TATTTTACTATTGTACTT
1 TATTTTACTATTGTACTT
8673864 TATTT
1 TATTT
8673869 AAATAATGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 9 0.45
17 2 0.10
18 9 0.45
ACGTcount: A:0.21, C:0.08, G:0.03, T:0.69
Consensus pattern (18 bp):
TATTTTACTATTGTACTT
Found at i:8676972 original size:20 final size:20
Alignment explanation
Indices: 8676926--8676974 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 20
8676916 ATTTAAATTT
8676926 AAAAA-TATTTAAAAATAAA
1 AAAAATTATTTAAAAATAAA
* *
8676945 AAACAATTATTTAAAACTATA
1 AAA-AATTATTTAAAAATAAA
8676966 AAAAATTAT
1 AAAAATTAT
8676975 AAACTTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 3 0.12
20 8 0.31
21 15 0.58
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAAATTATTTAAAAATAAA
Found at i:8680406 original size:15 final size:15
Alignment explanation
Indices: 8680386--8680415 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
8680376 TATTTTATTT
8680386 ATATTAGGATAATTA
1 ATATTAGGATAATTA
8680401 ATATTAGGATAATTA
1 ATATTAGGATAATTA
8680416 TTAGGATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (15 bp):
ATATTAGGATAATTA
Found at i:8684178 original size:20 final size:20
Alignment explanation
Indices: 8684153--8684196 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
8684143 CAACCCAATT
8684153 TTTTAT-TT-TTATTTTATTTA
1 TTTTATCTTATTA-TTTA-TTA
8684173 TTTTATCTTATTATTTATTA
1 TTTTATCTTATTATTTATTA
8684193 TTTT
1 TTTT
8684197 CAGATATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 13 0.59
21 6 0.27
22 3 0.14
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTATCTTATTATTTATTA
Found at i:8685642 original size:15 final size:15
Alignment explanation
Indices: 8685622--8685651 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8685612 CATTTTATTT
*
8685622 ATATTAGGATAATTA
1 ATATTAAGATAATTA
8685637 ATATTAAGATAATTA
1 ATATTAAGATAATTA
8685652 TTAGGATTAT
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:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:8685716 original size:20 final size:19
Alignment explanation
Indices: 8685676--8685719 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
8685666 ATTTTAGGAT
*
8685676 TTTATTTTAATTATCTTTA
1 TTTATTTTAATTATCTGTA
8685695 TTTATATTTAATTAAT-TGTA
1 TTTAT-TTTAATT-ATCTGTA
8685715 TTTAT
1 TTTAT
8685720 CTTTTTAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 5 0.23
20 15 0.68
21 2 0.09
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (19 bp):
TTTATTTTAATTATCTGTA
Found at i:8690299 original size:43 final size:43
Alignment explanation
Indices: 8690251--8690385 Score: 184
Period size: 43 Copynumber: 3.2 Consensus size: 43
8690241 CATAAAAATG
* * *
8690251 CCACTAAAGGTCATGTTCTTTAGCTGG-GTTTATGTGTAAAGCA
1 CCACTAAAGGTCATGTTCTATAGC-GGCGTTTGTGTGTAAAACA
* *
8690294 CCACTAAAGGTCATGTTCTATAGCGGCATTTGTGTGTAAAACG
1 CCACTAAAGGTCATGTTCTATAGCGGCGTTTGTGTGTAAAACA
* *
8690337 CCACTAAAGGTCATGTTCTATAGCGGCGTTTGTG-GGAAATCA
1 CCACTAAAGGTCATGTTCTATAGCGGCGTTTGTGTGTAAAACA
8690379 CCACTAA
1 CCACTAA
8690386 CTTTAACAGA
Statistics
Matches: 82, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
42 14 0.17
43 68 0.83
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.30
Consensus pattern (43 bp):
CCACTAAAGGTCATGTTCTATAGCGGCGTTTGTGTGTAAAACA
Found at i:8692340 original size:6 final size:5
Alignment explanation
Indices: 8692314--8692353 Score: 62
Period size: 5 Copynumber: 7.6 Consensus size: 5
8692304 TGAAAATGTG
8692314 AAAAT AAAAT AAAAT AAAAT AAAAAT AAAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT -AAAAT -AAAAT AAAAT AAA
8692354 GAACACAGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 23 0.68
6 11 0.32
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:8692340 original size:11 final size:11
Alignment explanation
Indices: 8692314--8692353 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
8692304 TGAAAATGTG
8692314 AAAATAAAAT-
1 AAAATAAAATA
8692324 AAAATAAAATA
1 AAAATAAAATA
8692335 AAAATAAAA-A
1 AAAATAAAATA
8692345 TAAAATAAA
1 -AAAATAAA
8692354 GAACACAGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 11 0.39
11 17 0.61
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:8692719 original size:29 final size:29
Alignment explanation
Indices: 8692682--8692737 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
8692672 CACCTTGACA
* *
8692682 CGAATTCTCAAGGAACAAGTTCTTCATTG
1 CGAACTCTCAACGAACAAGTTCTTCATTG
8692711 CGAACTCTCAACGAACAAGTTCTTCAT
1 CGAACTCTCAACGAACAAGTTCTTCAT
8692738 CTCTTCCATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (29 bp):
CGAACTCTCAACGAACAAGTTCTTCATTG
Found at i:8696782 original size:17 final size:18
Alignment explanation
Indices: 8696760--8696795 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
8696750 CCAATTTGTG
8696760 AAAATAAAAA-AAAATAA
1 AAAATAAAAATAAAATAA
8696777 AAAATAAAAATAAAATAA
1 AAAATAAAAATAAAATAA
8696795 A
1 A
8696796 GAACACACAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (18 bp):
AAAATAAAAATAAAATAA
Found at i:8699939 original size:253 final size:255
Alignment explanation
Indices: 8699436--8700464 Score: 1881
Period size: 253 Copynumber: 4.0 Consensus size: 255
8699426 TCATTTTACC
*
8699436 CACA-AGCTT-GTAAGAGTCCTATAGTCACTATATTGTACCATTTCTTATTTTTTCCTCTCAAAT
1 CACACAGCTTCGTAAGAGTCCTATATTCACTATATTGTACCATTTCTTATTTTTTCCTCTCAAAT
*
8699499 ATTTTGAAATCACCAAGATACCTCTACCTAAACTCGAGTTATCTATGGCCCGATAGTTTCAATAT
66 ATTTTGAAATCACCAAGATACCTCTACCTAAACTCGAGTTATCTATGGCCCAATAGTTTCAATAT
8699564 TACCGATCATTAAGAAGTGTCATAAGGATCAATTATGGGAACTAGGGATAAATAGCATATTGGTA
131 TACCGA--ATTAAGAAGTGTCATAAGGATCAATTATGGGAACTAGGGATAAATAGCATATTGGTA
8699629 TGGTTATTTGAGAATTAGTTATTCAAACAATGATTTAGGTCATCCCTAAGAATTCCACCATA
194 TGGTTATTTGAGAATTAGTTATTCAAACAATGATTTAGGTCATCCCTAAGAATTCCACCATA
* *
8699691 CACACAGCTTCGTAGGAGTCCTATATTCACTGTATTGTACCATTTCTTATTTTTTCCTCTCAAAT
1 CACACAGCTTCGTAAGAGTCCTATATTCACTATATTGTACCATTTCTTATTTTTTCCTCTCAAAT
*
8699756 ATTTTGAAATCACCAAGATACCTCTACCTAAACTCGAGTTATCTATGGCCTAATAGTTTCAATAT
66 ATTTTGAAATCACCAAGATACCTCTACCTAAACTCGAGTTATCTATGGCCCAATAGTTTCAATAT
8699821 TACCG-A-TAAGAAGTGTCATAAGGATCAATTATGGGAACTAGGGATAAATAGCATATTGGTATG
131 TACCGAATTAAGAAGTGTCATAAGGATCAATTATGGGAACTAGGGATAAATAGCATATTGGTATG
8699884 GTTATTTGAGAATTAGTTATTCAAACAATGATTTAGGTCATCCCTAAGAATTCCACCATA
196 GTTATTTGAGAATTAGTTATTCAAACAATGATTTAGGTCATCCCTAAGAATTCCACCATA
*
8699944 CACACAGCTCCGTAAGAGTCCTATATTCACTATATTGTACCATTTCTTATTTTTTCCTCTCAAAT
1 CACACAGCTTCGTAAGAGTCCTATATTCACTATATTGTACCATTTCTTATTTTTTCCTCTCAAAT
*
8700009 ATTTTGAAATCACCAAGATACCTCTACCTAAACTCGAGTTATCTATGGCCTAATAGTTTCAATAT
66 ATTTTGAAATCACCAAGATACCTCTACCTAAACTCGAGTTATCTATGGCCCAATAGTTTCAATAT
8700074 TACCG-A-TAAGAAGTGTCATAAGGATCAATTATGGGAACTAGGGATAAATAGCATATTGGTATG
131 TACCGAATTAAGAAGTGTCATAAGGATCAATTATGGGAACTAGGGATAAATAGCATATTGGTATG
8700137 GTTATTTGAGAATTAGTTATTCAAACAATGATTTAGGTCATCCCTAAGAATTCCACCATA
196 GTTATTTGAGAATTAGTTATTCAAACAATGATTTAGGTCATCCCTAAGAATTCCACCATA
*
8700197 CACACAGCTTCGTAGGAGTCCTATATTCACTATATTGTACCATTTCTTATTTTTTCCTCTCAAAT
1 CACACAGCTTCGTAAGAGTCCTATATTCACTATATTGTACCATTTCTTATTTTTTCCTCTCAAAT
*
8700262 ATTTTGAAATCACCAAGATACCTCTACCTAAACTCGAGTTATCTATGGCCCGATAGTTTCAATAT
66 ATTTTGAAATCACCAAGATACCTCTACCTAAACTCGAGTTATCTATGGCCCAATAGTTTCAATAT
8700327 TACCGATCATTAAGAAGTGTCATAAGGATCAATTATGGGAACTAGGGATAAATAGCATATTGGTA
131 TACCGA--ATTAAGAAGTGTCATAAGGATCAATTATGGGAACTAGGGATAAATAGCATATTGGTA
* *
8700392 TGGTTATTTGAGAATTAGTTATTCAAACAATGCTTTAGGTCATCCCTAAGCATTCCACCATA
194 TGGTTATTTGAGAATTAGTTATTCAAACAATGATTTAGGTCATCCCTAAGAATTCCACCATA
8700454 CACACAGCTTC
1 CACACAGCTTC
8700465 TTTCATACTT
Statistics
Matches: 754, Mismatches: 14, Indels: 10
0.97 0.02 0.01
Matches are distributed among these distances:
253 498 0.66
254 1 0.00
255 4 0.01
256 6 0.01
257 245 0.32
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (255 bp):
CACACAGCTTCGTAAGAGTCCTATATTCACTATATTGTACCATTTCTTATTTTTTCCTCTCAAAT
ATTTTGAAATCACCAAGATACCTCTACCTAAACTCGAGTTATCTATGGCCCAATAGTTTCAATAT
TACCGAATTAAGAAGTGTCATAAGGATCAATTATGGGAACTAGGGATAAATAGCATATTGGTATG
GTTATTTGAGAATTAGTTATTCAAACAATGATTTAGGTCATCCCTAAGAATTCCACCATA
Found at i:8703832 original size:24 final size:24
Alignment explanation
Indices: 8703796--8703846 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
8703786 GACTAAGTCT
* *
8703796 TAGGGGGATTTGTTAACTTGTTAG
1 TAGGAGGAGTTGTTAACTTGTTAG
*
8703820 TAGGAGGAGTTGTTAGCTTGTTAG
1 TAGGAGGAGTTGTTAACTTGTTAG
8703844 TAG
1 TAG
8703847 CAATTTGAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.22, C:0.04, G:0.35, T:0.39
Consensus pattern (24 bp):
TAGGAGGAGTTGTTAACTTGTTAG
Found at i:8711858 original size:24 final size:25
Alignment explanation
Indices: 8711829--8711918 Score: 67
Period size: 24 Copynumber: 3.6 Consensus size: 25
8711819 ATATTTTATA
*
8711829 ATTTTTAATAATTTTTA-ATAATTT
1 ATTTTTAATAATTTTTATAAAATTT
* *
8711853 ATTTTTTATATTTTTTATAAAATTT
1 ATTTTTAATAATTTTTATAAAATTT
* * * **
8711878 AATAATTTTTACATTTTTTA-AAAAAAT
1 -AT--TTTTAATAATTTTTATAAAATTT
8711905 ATTTTTAATAATTT
1 ATTTTTAATAATTT
8711919 AACATGTCAC
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
24 24 0.45
25 6 0.11
26 4 0.08
27 5 0.09
28 14 0.26
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (25 bp):
ATTTTTAATAATTTTTATAAAATTT
Found at i:8711879 original size:33 final size:34
Alignment explanation
Indices: 8711817--8711885 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 34
8711807 ACAAATTAAG
**
8711817 TTATATTTTATAATTTTTAATAATTTTTAATAAT
1 TTATATTTTATAATTTTTAATAAAATTTAATAAT
* *
8711851 TTATTTTTTAT-ATTTTTTATAAAATTTAATAAT
1 TTATATTTTATAATTTTTAATAAAATTTAATAAT
8711884 TT
1 TT
8711886 TTACATTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 21 0.68
34 10 0.32
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (34 bp):
TTATATTTTATAATTTTTAATAAAATTTAATAAT
Found at i:8711888 original size:10 final size:10
Alignment explanation
Indices: 8711822--8711852 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
8711812 TTAAGTTATA
8711822 TTTT-ATAAT
1 TTTTAATAAT
8711831 TTTTAATAAT
1 TTTTAATAAT
8711841 TTTTAATAAT
1 TTTTAATAAT
8711851 TT
1 TT
8711853 ATTTTTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.19
10 17 0.81
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
TTTTAATAAT
Found at i:8712909 original size:69 final size:67
Alignment explanation
Indices: 8712786--8712922 Score: 179
Period size: 69 Copynumber: 2.0 Consensus size: 67
8712776 ACTACATAAA
* *
8712786 TAATATAATGGTTTTACCTTTTAACTTAATGAGTAAATATTTATCAAAACGACGTAGTTTTACCT
1 TAATATAATGGTTTTACCTTTTAACTTAAAGAGTAAATATCTATCAAAACGACGTAGTTTTACCT
8712851 TT
66 TT
* *
8712853 TAATTTAATGGTTTTGA-CTTTTAACTTTAGAA-AGGTAAATATCTATCAAAATGACGTAGTTTT
1 TAATATAATGGTTTT-ACCTTTTAAC-TTA-AAGA-GTAAATATCTATCAAAACGACGTAGTTTT
*
8712916 GCCTTT
62 ACCTTT
8712922 T
1 T
8712923 CTTATTTAGA
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
67 22 0.36
68 5 0.08
69 34 0.56
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.44
Consensus pattern (67 bp):
TAATATAATGGTTTTACCTTTTAACTTAAAGAGTAAATATCTATCAAAACGACGTAGTTTTACCT
TT
Found at i:8714000 original size:32 final size:32
Alignment explanation
Indices: 8713964--8714028 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
8713954 CAATAAGTTA
8713964 TAGTGGTGTTAGGTGACAGTTTAGGTAAAATT
1 TAGTGGTGTTAGGTGACAGTTTAGGTAAAATT
8713996 TAGTGGTGTTAGGTGACAGTTTAGGTAAAATT
1 TAGTGGTGTTAGGTGACAGTTTAGGTAAAATT
8714028 T
1 T
8714029 GCTTCTAAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.28, C:0.03, G:0.31, T:0.38
Consensus pattern (32 bp):
TAGTGGTGTTAGGTGACAGTTTAGGTAAAATT
Found at i:8716065 original size:28 final size:28
Alignment explanation
Indices: 8716014--8716127 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 28
8716004 CTATTCAGAA
* *
8716014 ATCAGTGTTAAT-TGGGCCTTAGCCCAT
1 ATCAGTATTAATCTGGGCCGTAGCCCAT
8716041 ATCAGTATTAATCTGGGCCGTAGCCC-T
1 ATCAGTATTAATCTGGGCCGTAGCCCAT
* *
8716068 ATTACAATATCAGAGCATACTGGGCC-TAGCCCAT
1 A-T-CAGTAT--TA--AT-CTGGGCCGTAGCCCAT
* *
8716102 ATCAGTATCAGTCTGGGCCGTAGCCC
1 ATCAGTATTAATCTGGGCCGTAGCCC
8716128 TATTACAAGT
Statistics
Matches: 70, Mismatches: 7, Indels: 19
0.73 0.07 0.20
Matches are distributed among these distances:
27 20 0.29
28 20 0.29
29 5 0.07
30 1 0.01
31 1 0.01
32 5 0.07
33 9 0.13
34 9 0.13
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (28 bp):
ATCAGTATTAATCTGGGCCGTAGCCCAT
Found at i:8716199 original size:19 final size:20
Alignment explanation
Indices: 8716156--8716211 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 20
8716146 ATTGGGTCTT
*
8716156 GCCCATATTAACACAGTTGG
1 GCCCATATTAAAACAGTTGG
*
8716176 GCCCATTTTAAAACAGTT-G
1 GCCCATATTAAAACAGTTGG
*
8716195 GCCCATAATAAAACAGT
1 GCCCATATTAAAACAGT
8716212 CTCATATGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (20 bp):
GCCCATATTAAAACAGTTGG
Found at i:8717542 original size:28 final size:28
Alignment explanation
Indices: 8717491--8717544 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
8717481 AAGAGATGAG
*
8717491 AGAAGGAAAGAAAAGAATAGAAAATAGA
1 AGAAGGAAAGAAAAGAATACAAAATAGA
*
8717519 AGAAGGAAA-AAAATGAATCCAAAATA
1 AGAAGGAAAGAAAA-GAATACAAAATA
8717545 TACGGCATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.67, C:0.04, G:0.20, T:0.09
Consensus pattern (28 bp):
AGAAGGAAAGAAAAGAATACAAAATAGA
Found at i:8718625 original size:19 final size:18
Alignment explanation
Indices: 8718588--8718631 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
8718578 ATACATGCAG
8718588 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
8718605 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
8718624 TACTAATT
1 TAATAATT
8718632 AAAATTTCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:8730404 original size:26 final size:26
Alignment explanation
Indices: 8730373--8730480 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
8730363 TGAAATTCCC
*
8730373 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
8730399 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
8730425 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
8730451 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
8730477 ATCA
1 ATCA
8730481 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:8732058 original size:50 final size:50
Alignment explanation
Indices: 8731983--8732085 Score: 152
Period size: 50 Copynumber: 2.1 Consensus size: 50
8731973 TGTCAGACAT
* *
8731983 TTCCCTACGAACTCCGTTACTTCTCGTGTAAGTCCAGGCCACCAGTACAA
1 TTCCCTACAAACTCCGTTACTTCTCGTGTAAGCCCAGGCCACCAGTACAA
** * *
8732033 TTCCCTACAAACTTTGTTACTTCTCGTTTAAGCCCAGGCCACCCGTACAA
1 TTCCCTACAAACTCCGTTACTTCTCGTGTAAGCCCAGGCCACCAGTACAA
8732083 TTC
1 TTC
8732086 TCGCAAATCG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.29
Consensus pattern (50 bp):
TTCCCTACAAACTCCGTTACTTCTCGTGTAAGCCCAGGCCACCAGTACAA
Found at i:8737553 original size:26 final size:26
Alignment explanation
Indices: 8737522--8737629 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
8737512 TGAAATGCCC
*
8737522 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
8737548 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
8737574 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
8737600 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
8737626 ATCA
1 ATCA
8737630 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:8755700 original size:30 final size:30
Alignment explanation
Indices: 8755664--8755735 Score: 126
Period size: 30 Copynumber: 2.4 Consensus size: 30
8755654 AATCGGAAGT
8755664 TTTGGCACTAAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCGATTTAAACTAGC
*
8755694 TTTGGCAGTAAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCGATTTAAACTAGC
8755724 TTTGGCTACTAA
1 TTTGGC-ACTAA
8755736 AGGCACTAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
30 35 0.90
31 4 0.10
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (30 bp):
TTTGGCACTAAGTGTGCGATTTAAACTAGC
Found at i:8763092 original size:30 final size:30
Alignment explanation
Indices: 8763056--8763127 Score: 135
Period size: 30 Copynumber: 2.4 Consensus size: 30
8763046 AATCGAAAGT
8763056 TTTGGCACTAAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCGATTTAAACTAGC
8763086 TTTGGCACTAAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCGATTTAAACTAGC
8763116 TTTGGCTACTAA
1 TTTGGC-ACTAA
8763128 AGGCACTAAG
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
30 36 0.88
31 5 0.12
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (30 bp):
TTTGGCACTAAGTGTGCGATTTAAACTAGC
Found at i:8770161 original size:128 final size:128
Alignment explanation
Indices: 8769933--8770168 Score: 472
Period size: 128 Copynumber: 1.8 Consensus size: 128
8769923 AAGGCAACCT
8769933 GTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAG
1 GTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAG
8769998 CTACATATATGGTAATAAAATTAATTCATACTTATTCATACTTCAAATAATTAATACTATAAG
66 CTACATATATGGTAATAAAATTAATTCATACTTATTCATACTTCAAATAATTAATACTATAAG
8770061 GTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAG
1 GTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAG
8770126 CTACATATATGGTAATAAAATTAATTCATACTTATTCATACTT
66 CTACATATATGGTAATAAAATTAATTCATACTTATTCATACTT
8770169 AAGTTGAATC
Statistics
Matches: 108, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
128 108 1.00
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.35
Consensus pattern (128 bp):
GTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAG
CTACATATATGGTAATAAAATTAATTCATACTTATTCATACTTCAAATAATTAATACTATAAG
Found at i:8770766 original size:128 final size:128
Alignment explanation
Indices: 8770538--8770773 Score: 472
Period size: 128 Copynumber: 1.8 Consensus size: 128
8770528 AAGGCAACCC
8770538 GTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAG
1 GTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAG
8770603 CTACATATATGGTAATAAAATTAATTCATACTTATTCATACTTCAAATAATTAATACTATAAG
66 CTACATATATGGTAATAAAATTAATTCATACTTATTCATACTTCAAATAATTAATACTATAAG
8770666 GTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAG
1 GTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAG
8770731 CTACATATATGGTAATAAAATTAATTCATACTTATTCATACTT
66 CTACATATATGGTAATAAAATTAATTCATACTTATTCATACTT
8770774 AAGTTGAATC
Statistics
Matches: 108, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
128 108 1.00
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.35
Consensus pattern (128 bp):
GTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAG
CTACATATATGGTAATAAAATTAATTCATACTTATTCATACTTCAAATAATTAATACTATAAG
Found at i:8770813 original size:605 final size:605
Alignment explanation
Indices: 8769663--8771250 Score: 3068
Period size: 605 Copynumber: 2.6 Consensus size: 605
8769653 ACGTTATGTG
* * *
8769663 AGTTATAACTTTTAAAGACATTTAAAAATATTAAATATTAAAATCAAACATCATTAATATAAAAA
1 AGTTATAACTTTTAAAGACATTTAAAAACATTAAATATTAAAATCAAACATTATTAATATAACAA
*
8769728 AATAGTAATTTGAATATAATAATATCAAAAAAGAATCGTAATTTAATTTTTATAAGTAAATTAGA
66 AATAGTAATTTGAATATAATAATATCAAAAAAGAATCGTAATTTAATTTTTATAAGTAAATTGGA
*
8769793 AATAAATTAAGGTTATATAAATATTCAATAGCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTT
131 AATAAATTAAGGTTATATAAATATTCAATAGCGATAGAACTTTTTTCAATTCTTTTTGAATTTTT
*
8769858 TAAGATTCATCATATGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGCTCGATAT
196 TAAGATTCATCATATGTGGCGTTGTTACACCTAAGGAGGATCCATTATATCTTGCAGCTCGATAT
*
8769923 AAGGCAACCTGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATG
261 AAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATG
8769988 GACAAGCAAGCTACATATATGGTAATAAAATTAATTCATACTTATTCATACTTCAAATAATTAAT
326 GACAAGCAAGCTACATATATGGTAATAAAATTAATTCATACTTATTCATACTTCAAATAATTAAT
8770053 ACTATAAGGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGA
391 ACTATAAGGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGA
8770118 CAAGCAAGCTACATATATGGTAATAAAATTAATTCATACTTATTCATACTTAAGTTGAATCAAAT
456 CAAGCAAGCTACATATATGGTAATAAAATTAATTCATACTTATTCATACTTAAGTTGAATCAAAT
8770183 AATAATTAAGTTGAACCAAAATATAAAAACTTATTCATACTTATTCATACTTCAAATAATAATTA
521 AATAATTAAGTTGAACCAAAATATAAAAACTTATTCATACTTATTCATACTTCAAATAATAATTA
8770248 ATATTGTTTTGATAAAAATT
586 ATATTGTTTTGATAAAAATT
8770268 AGTTATAACTTTTAAAGACATTTAAAAACATTAAATATTAAAATCAAACATTATTAATATAACAA
1 AGTTATAACTTTTAAAGACATTTAAAAACATTAAATATTAAAATCAAACATTATTAATATAACAA
*
8770333 AATAGTAATTTGAATATAATAATATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGA
66 AATAGTAATTTGAATATAATAATATCAAAAAAGAATCGTAATTTAATTTTTATAAGTAAATTGGA
*
8770398 AATAAATTAAGGTTATATAAATATTCAATAGCGACAGAACTTTTTTCAATTCTTTTTGAATTTTT
131 AATAAATTAAGGTTATATAAATATTCAATAGCGATAGAACTTTTTTCAATTCTTTTTGAATTTTT
*
8770463 TAAGATTCATCATACGTGGCGTTGTTACACCTAAGGAGGATCCATTATATCTTGCAGCTCGATAT
196 TAAGATTCATCATATGTGGCGTTGTTACACCTAAGGAGGATCCATTATATCTTGCAGCTCGATAT
8770528 AAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATG
261 AAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATG
8770593 GACAAGCAAGCTACATATATGGTAATAAAATTAATTCATACTTATTCATACTTCAAATAATTAAT
326 GACAAGCAAGCTACATATATGGTAATAAAATTAATTCATACTTATTCATACTTCAAATAATTAAT
8770658 ACTATAAGGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGA
391 ACTATAAGGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGA
8770723 CAAGCAAGCTACATATATGGTAATAAAATTAATTCATACTTATTCATACTTAAGTTGAATCAAAT
456 CAAGCAAGCTACATATATGGTAATAAAATTAATTCATACTTATTCATACTTAAGTTGAATCAAAT
8770788 AATAATTAAGTTGAACCAAAATATAAAAACTTATTCATACTTATTCATACTTCAAATAATAATTA
521 AATAATTAAGTTGAACCAAAATATAAAAACTTATTCATACTTATTCATACTTCAAATAATAATTA
8770853 ATATTGTTTTGATAAAAATT
586 ATATTGTTTTGATAAAAATT
8770873 AGTTATAACTTTTAAAGACATTTAAAAACATTAAATATTAAAATCAAACATTATTAATATAACAA
1 AGTTATAACTTTTAAAGACATTTAAAAACATTAAATATTAAAATCAAACATTATTAATATAACAA
*
8770938 AATAGTAATTTGAATATAATAATATCAAAAAAGAATCATAATTTAATTTTTATAAGTAAATTGGA
66 AATAGTAATTTGAATATAATAATATCAAAAAAGAATCGTAATTTAATTTTTATAAGTAAATTGGA
8771003 AATAAATTAAGGTTATATAAATATTCAATAGCGATAGAACTTTTTTCAATTCTTTTTGAATTTTT
131 AATAAATTAAGGTTATATAAATATTCAATAGCGATAGAACTTTTTTCAATTCTTTTTGAATTTTT
*
8771068 TAAGATTAATCATATGTGGCGTTGTTACACCTAAGGAGGATCCATTATATCTTGCAGCTCGATAT
196 TAAGATTCATCATATGTGGCGTTGTTACACCTAAGGAGGATCCATTATATCTTGCAGCTCGATAT
8771133 AAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATG
261 AAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATG
8771198 GACAAGCAAGCTACATATATGGTAATAAAATTAATTCATACTTATTCATACTT
326 GACAAGCAAGCTACATATATGGTAATAAAATTAATTCATACTTATTCATACTT
8771251 AAGTTGAATC
Statistics
Matches: 968, Mismatches: 15, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
605 968 1.00
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.36
Consensus pattern (605 bp):
AGTTATAACTTTTAAAGACATTTAAAAACATTAAATATTAAAATCAAACATTATTAATATAACAA
AATAGTAATTTGAATATAATAATATCAAAAAAGAATCGTAATTTAATTTTTATAAGTAAATTGGA
AATAAATTAAGGTTATATAAATATTCAATAGCGATAGAACTTTTTTCAATTCTTTTTGAATTTTT
TAAGATTCATCATATGTGGCGTTGTTACACCTAAGGAGGATCCATTATATCTTGCAGCTCGATAT
AAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATG
GACAAGCAAGCTACATATATGGTAATAAAATTAATTCATACTTATTCATACTTCAAATAATTAAT
ACTATAAGGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGA
CAAGCAAGCTACATATATGGTAATAAAATTAATTCATACTTATTCATACTTAAGTTGAATCAAAT
AATAATTAAGTTGAACCAAAATATAAAAACTTATTCATACTTATTCATACTTCAAATAATAATTA
ATATTGTTTTGATAAAAATT
Found at i:8771560 original size:477 final size:477
Alignment explanation
Indices: 8770666--8771727 Score: 2106
Period size: 477 Copynumber: 2.2 Consensus size: 477
8770656 ATACTATAAG
8770666 GTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAG
1 GTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAG
8770731 CTACATATATGGTAATAAAATTAATTCATACTTATTCATACTTAAGTTGAATCAAATAATAATTA
66 CTACATATATGGTAATAAAATTAATTCATACTTATTCATACTTAAGTTGAATCAAATAATAATTA
* *
8770796 AGTTGAACCAAAATATAAAAACTTATTCATACTTATTCATACTTCAAATAATAATTAATATTGTT
131 AGTTGAACCAAAATATAAAAACTTATTCATACTTATTCATACTTCAAATAATAATTAATACTATT
8770861 TTGATAAAAATTAGTTATAACTTTTAAAGACATTTAAAAACATTAAATATTAAAATCAAACATTA
196 TTGATAAAAATTAGTTATAACTTTTAAAGACATTTAAAAACATTAAATATTAAAATCAAACATTA
8770926 TTAATATAACAAAATAGTAATTTGAATATAATAATATCAAAAAAGAATCATAATTTAATTTTTAT
261 TTAATATAACAAAATAGTAATTTGAATATAATAATATCAAAAAAGAATCATAATTTAATTTTTAT
8770991 AAGTAAATTGGAAATAAATTAAGGTTATATAAATATTCAATAGCGATAGAACTTTTTTCAATTCT
326 AAGTAAATTGGAAATAAATTAAGGTTATATAAATATTCAATAGCGATAGAACTTTTTTCAATTCT
8771056 TTTTGAATTTTTTAAGATTAATCATATGTGGCGTTGTTACACCTAAGGAGGATCCATTATATCTT
391 TTTTGAATTTTTTAAGATTAATCATATGTGGCGTTGTTACACCTAAGGAGGATCCATTATATCTT
8771121 GCAGCTCGATATAAGGCAACCC
456 GCAGCTCGATATAAGGCAACCC
8771143 GTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAG
1 GTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAG
8771208 CTACATATATGGTAATAAAATTAATTCATACTTATTCATACTTAAGTTGAATCAAATAATAATTA
66 CTACATATATGGTAATAAAATTAATTCATACTTATTCATACTTAAGTTGAATCAAATAATAATTA
8771273 AGTTGAACCAAAATATAAAAACTTATTCATACTTATTCATACTTCAAATAATAATTAATACTATT
131 AGTTGAACCAAAATATAAAAACTTATTCATACTTATTCATACTTCAAATAATAATTAATACTATT
8771338 TTGATAAAAATTAGTTATAACTTTTAAAGACATTTAAAAACATTAAATATTAAAATCAAACATTA
196 TTGATAAAAATTAGTTATAACTTTTAAAGACATTTAAAAACATTAAATATTAAAATCAAACATTA
8771403 TTAATATAACAAAATAGTAATTTGAATATAATAATATCAAAAAAGAATCATAATTTAATTTTTAT
261 TTAATATAACAAAATAGTAATTTGAATATAATAATATCAAAAAAGAATCATAATTTAATTTTTAT
8771468 AAGTAAATTGGAAATAAATTAAGGTTATATAAATATTCAATAGCGATAGAACTTTTTTCAATTCT
326 AAGTAAATTGGAAATAAATTAAGGTTATATAAATATTCAATAGCGATAGAACTTTTTTCAATTCT
8771533 TTTTGAATTTTTTAAGATTAATCATATGTGGCGTTGTTACACCTAAGGAGGATCCATTATATCTT
391 TTTTGAATTTTTTAAGATTAATCATATGTGGCGTTGTTACACCTAAGGAGGATCCATTATATCTT
8771598 GCAGCTCGATATAAGGCAACCC
456 GCAGCTCGATATAAGGCAACCC
8771620 GTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAG
1 GTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAG
8771685 CTACATATATGGTAATAAAATTAATTCATACTTATTCATACTT
66 CTACATATATGGTAATAAAATTAATTCATACTTATTCATACTT
8771728 CAAATAATTA
Statistics
Matches: 583, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
477 583 1.00
ACGTcount: A:0.42, C:0.11, G:0.10, T:0.36
Consensus pattern (477 bp):
GTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAG
CTACATATATGGTAATAAAATTAATTCATACTTATTCATACTTAAGTTGAATCAAATAATAATTA
AGTTGAACCAAAATATAAAAACTTATTCATACTTATTCATACTTCAAATAATAATTAATACTATT
TTGATAAAAATTAGTTATAACTTTTAAAGACATTTAAAAACATTAAATATTAAAATCAAACATTA
TTAATATAACAAAATAGTAATTTGAATATAATAATATCAAAAAAGAATCATAATTTAATTTTTAT
AAGTAAATTGGAAATAAATTAAGGTTATATAAATATTCAATAGCGATAGAACTTTTTTCAATTCT
TTTTGAATTTTTTAAGATTAATCATATGTGGCGTTGTTACACCTAAGGAGGATCCATTATATCTT
GCAGCTCGATATAAGGCAACCC
Found at i:8771848 original size:128 final size:128
Alignment explanation
Indices: 8771620--8771921 Score: 604
Period size: 128 Copynumber: 2.4 Consensus size: 128
8771610 AAGGCAACCC
8771620 GTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAG
1 GTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAG
8771685 CTACATATATGGTAATAAAATTAATTCATACTTATTCATACTTCAAATAATTAATACTATAAG
66 CTACATATATGGTAATAAAATTAATTCATACTTATTCATACTTCAAATAATTAATACTATAAG
8771748 GTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAG
1 GTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAG
8771813 CTACATATATGGTAATAAAATTAATTCATACTTATTCATACTTCAAATAATTAATACTATAAG
66 CTACATATATGGTAATAAAATTAATTCATACTTATTCATACTTCAAATAATTAATACTATAAG
8771876 GTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAA
1 GTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAA
8771922 CGTACCTTAA
Statistics
Matches: 174, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
128 174 1.00
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.35
Consensus pattern (128 bp):
GTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAG
CTACATATATGGTAATAAAATTAATTCATACTTATTCATACTTCAAATAATTAATACTATAAG
Found at i:8776242 original size:15 final size:15
Alignment explanation
Indices: 8776222--8776253 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
8776212 AAATAATAAT
*
8776222 TTATATATATTTATC
1 TTATATACATTTATC
8776237 TTATATACATTTATC
1 TTATATACATTTATC
8776252 TT
1 TT
8776254 CTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATACATTTATC
Found at i:8777570 original size:41 final size:41
Alignment explanation
Indices: 8777280--8777563 Score: 342
Period size: 41 Copynumber: 7.0 Consensus size: 41
8777270 GTTAAATGAC
8777280 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* *
8777321 TTTTAACGGTGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
*
8777362 TTTTATCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* *
8777403 TTTTAGCAGCGTTTTACCAAAATCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* * * * * *
8777444 TCTTAGAGGCATTTTACCAAAAGTGCCGCTATTGCTCT-AT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* * * **
8777484 TTTTAGCGGCGTTTTTTACTAAAA-CACCGTTGTTGCTCT-GT
1 TTTTAGCGGCG--TTTTACCAAAAGCGCCGCTAATGCTCTGGT
* * *
8777525 TTTTAGCGGCGTTTTTCTTAAAA-CGCCGCTATTGCTCTG
1 TTTTAGCGGCGTTTTAC-CAAAAGCGCCGCTAATGCTCTG
8777564 TATTTTAAAA
Statistics
Matches: 211, Mismatches: 28, Indels: 8
0.85 0.11 0.03
Matches are distributed among these distances:
39 5 0.02
40 26 0.12
41 170 0.81
42 10 0.05
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
Found at i:8780972 original size:144 final size:145
Alignment explanation
Indices: 8780685--8781364 Score: 719
Period size: 144 Copynumber: 4.7 Consensus size: 145
8780675 ATCCAACTTG
* ** *
8780685 ACTTCATTGTACCTCTCTCCCAAAACAAATTGAGTGGTTTGATCCCTTCCTGTATTGGT-AGTTT
1 ACTTCATTGTA-C-CTCTACCAAAACAAATTGAGTGGTTCAATCCCTTCTTGTATTGGTAAG-TT
* * * * *
8780749 ATCAAAAATGCAGTA-TTTAAGACTTGGTTCTAATCTATTAGAAGGTCCTATTCCCCAAGAAATT
63 ATCCAAATTGCA-TACCTTAAGACTTGATTCAAATCTATTAGAAGGTCCTATTCCCCAAGAAATT
*
8780813 TGTGATTTGAG-AAATTTA
127 TGTGATTTCAGCAAATTTA
* * * * *
8780831 ACTTCATTAG-GCCTCTACCAAAACAAATTGAATGGTTCAGTCCCTTCTTGTCTTGGTAAGTTGT
1 ACTTCATT-GTACCTCTACCAAAACAAATTGAGTGGTTCAATCCCTTCTTGTATTGGTAAGTTAT
***
8780895 CCAAATTGCATACCTTAAGACTTGATTCAAATCTATTAGAAGGTCCTATTCTTGAAGAAATTTGT
65 CCAAATTGCATACCTTAAGACTTGATTCAAATCTATTAGAAGGTCCTATTCCCCAAGAAATTTGT
*
8780960 GACTT-AGCAAATTTA
130 GATTTCAGCAAATTTA
* * * * *
8780975 ACTTCATT-AAGCCTCTACCAAAACAAATTGAATGGTTCAATCCCTTTTTGTCTTGGTACA-TTG
1 ACTTCATTGTA-CCTCTACCAAAACAAATTGAGTGGTTCAATCCCTTCTTGTATTGGTA-AGTTA
* *
8781038 TCCAAATTGGATACCTTACA-ACTTCATTCAAATCTATTAGAAGGTCCTATTCCCCAA-AAATTT
64 TCCAAATTGCATACCTTA-AGACTTGATTCAAATCTATTAGAAGGTCCTATTCCCCAAGAAA-TT
*
8781101 TGTAATTTC-GCAAATTTA
127 TGTGATTTCAGCAAATTTA
* *
8781119 ACTTCATTGTACCTCTTCCAAAACAAATTGAGTGGTTCAATCCTTTCTTGTATTGGT-AGTTTAT
1 ACTTCATTGTACCTCTACCAAAACAAATTGAGTGGTTCAATCCCTTCTTGTATTGGTAAG-TTAT
* * * * *
8781183 -CAAAGATGCAGTA-CTTAAGCCTTGGTTCTAATCTATTAAAAGGTCCTATTCCCCAAGAAATTT
65 CCAAA-TTGCA-TACCTTAAGACTTGATTCAAATCTATTAGAAGGTCCTATTCCCCAAGAAATTT
* *
8781246 GT-AATTCAGAAAATTTA
128 GTGATTTCAGCAAATTTA
* * * * *
8781263 ACTTTATTGTACCTCT-CCGAAAACAAATTGAGTTGTTCAATCCCATCATGTATT-GTCAATTTA
1 ACTTCATTGTACCTCTACC-AAAACAAATTGAGTGGTTCAATCCCTTCTTGTATTGGT-AAGTTA
* *
8781326 TCCAATTTGTATACCTT-AGAACTTGATTCAAATCTATTA
64 TCCAAATTGCATACCTTAAG-ACTTGATTCAAATCTATTA
8781365 AAAGTTCCGA
Statistics
Matches: 454, Mismatches: 56, Indels: 50
0.81 0.10 0.09
Matches are distributed among these distances:
142 1 0.00
143 24 0.05
144 405 0.89
145 15 0.03
146 8 0.02
147 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (145 bp):
ACTTCATTGTACCTCTACCAAAACAAATTGAGTGGTTCAATCCCTTCTTGTATTGGTAAGTTATC
CAAATTGCATACCTTAAGACTTGATTCAAATCTATTAGAAGGTCCTATTCCCCAAGAAATTTGTG
ATTTCAGCAAATTTA
Found at i:8784767 original size:12 final size:13
Alignment explanation
Indices: 8784740--8784772 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
8784730 CAAAATATTG
8784740 AATTTGTTTGTAAA
1 AATTTG-TTGTAAA
8784754 AATTTGTT-TAAA
1 AATTTGTTGTAAA
8784766 AATTTGT
1 AATTTGT
8784773 ACAATTTCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 11 0.58
13 2 0.11
14 6 0.32
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (13 bp):
AATTTGTTGTAAA
Found at i:8786437 original size:8 final size:8
Alignment explanation
Indices: 8786424--8786449 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
8786414 GAAATAGAAT
8786424 AAAAAATA
1 AAAAAATA
8786432 AAAAAATA
1 AAAAAATA
8786440 AAAAAATA
1 AAAAAATA
8786448 AA
1 AA
8786450 TTTAATGTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAAATA
Found at i:8787809 original size:29 final size:29
Alignment explanation
Indices: 8787747--8787804 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
8787737 TATCATATAT
* *
8787747 ATTATATTATTTTAATATATATTTTATTC
1 ATTATATCATTTTAATATATATTATATTC
*
8787776 ATTATATCATTTTCATTATATATTATATT
1 ATTATATCATTTT-AATATATATTATATT
8787805 TTTATTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 12 0.48
30 13 0.52
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.60
Consensus pattern (29 bp):
ATTATATCATTTTAATATATATTATATTC
Found at i:8788030 original size:18 final size:18
Alignment explanation
Indices: 8788007--8788042 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
8787997 ATCCTTTATT
8788007 ATTTTTATATTGT-TTTAA
1 ATTTTTAT-TTGTATTTAA
8788025 ATTTTTATTTGTATTTAA
1 ATTTTTATTTGTATTTAA
8788043 TCTTATCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (18 bp):
ATTTTTATTTGTATTTAA
Found at i:8788326 original size:9 final size:9
Alignment explanation
Indices: 8788312--8788336 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
8788302 AATGTATGTA
8788312 TATTTACGT
1 TATTTACGT
8788321 TATTTACGT
1 TATTTACGT
8788330 TATTTAC
1 TATTTAC
8788337 AATTATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.12, G:0.08, T:0.56
Consensus pattern (9 bp):
TATTTACGT
Found at i:8789641 original size:12 final size:12
Alignment explanation
Indices: 8789624--8789649 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8789614 ATATCTTGAT
8789624 AAAGTGGAGGAC
1 AAAGTGGAGGAC
8789636 AAAGTGGAGGAC
1 AAAGTGGAGGAC
8789648 AA
1 AA
8789650 TGCTTCTGTC
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:0.46, C:0.08, G:0.38, T:0.08
Consensus pattern (12 bp):
AAAGTGGAGGAC
Found at i:8800434 original size:44 final size:44
Alignment explanation
Indices: 8799883--8800523 Score: 662
Period size: 44 Copynumber: 14.6 Consensus size: 44
8799873 ATAAATTACC
* *
8799883 GATAGCAGATTTGGCGTCTTTGTATTGTCAGAGAGCAGATCGAA
1 GATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAA
* * * * * * *
8799927 GATAACAGGTTTGGTATCTCTGTATTG-CTAAAAAGTAAATCGAA
1 GATAGCAGATTTGGCATCTCTGTATTGTC-AGAGAGCAGATCGAA
* * * * * * *
8799971 GATAACAGGTTTGGCGTCTTTGTATTATTAGGGAGCAGATCGAA
1 GATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAA
* * * *
8800015 GATAGTAGATTTGACATCTCTGTATGGTCAGAAAGCAGATC-ACCA
1 GATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGA--A
* * *
8800060 -ATAGCAGATTTGGCGTCTCTATATTGGCAGAGAGCAGAT-GAAA
1 GATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCG-AA
* * *
8800103 GATAGTAGGTTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
1 GATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAA
* *
8800147 GATAGCAGATTTGGCATTTCTGTATTGTCAGAGAGCAGGTCGAA
1 GATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAA
* * *
8800191 GATAGTAGATTTGGCATCTCTATATTGTCAAAGAGCAGATCGAA
1 GATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAA
* *
8800235 GATAGTAGATTTGGCGTCTCTGT-TTGTCAGAGAGCAGATCGAA
1 GATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAA
*
8800278 GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
1 GATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAA
* *
8800322 GATAGCAGGTTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
1 GATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAA
* * *
8800366 GATAGTAGATTTGGCGTCTCTGTATTGTCAAAGAGCAGATCGAA
1 GATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAA
* * * * * * * * * *
8800410 GAAAGCACATATAGCATTTTTGTATTGACAGAAAGTAGATCAAA
1 GATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAA
* * * * * * * * *
8800454 GAAAGCACATATAGCATTTCTGTATTGACAGAAAGTAGATCAAA
1 GATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAA
* **
8800498 GATAGCTGATTTGGTGTCTCTGTATT
1 GATAGCAGATTTGGCATCTCTGTATT
8800524 AGGCGGGGTG
Statistics
Matches: 507, Mismatches: 81, Indels: 18
0.84 0.13 0.03
Matches are distributed among these distances:
43 44 0.09
44 460 0.91
45 3 0.01
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (44 bp):
GATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAA
Found at i:8802065 original size:29 final size:29
Alignment explanation
Indices: 8802033--8802099 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
8802023 ATCATATATA
*
8802033 TATATTATTTT-AATATATATTTTATTCAT
1 TATATTATTTTCAATATATATTATATT-AT
* *
8802062 TATATCATTTTCATTATATATTATATTAT
1 TATATTATTTTCAATATATATTATATTAT
8802091 TAT-TTATTT
1 TATATTATTT
8802100 ATTACTATGT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 5 0.15
29 15 0.45
30 13 0.39
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (29 bp):
TATATTATTTTCAATATATATTATATTAT
Found at i:8802316 original size:18 final size:18
Alignment explanation
Indices: 8802293--8802328 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
8802283 ATCATTTATT
8802293 ATTTTTATATTGT-TTTAA
1 ATTTTTAT-TTGTATTTAA
8802311 ATTTTTATTTGTATTTAA
1 ATTTTTATTTGTATTTAA
8802329 TCTTATCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (18 bp):
ATTTTTATTTGTATTTAA
Found at i:8804046 original size:19 final size:22
Alignment explanation
Indices: 8804007--8804046 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
8803997 AGAAACCCAA
8804007 CCATATCCAACCGTATACACCC
1 CCATATCCAACCGTATACACCC
8804029 CCATA-CCAACC-T-TACACC
1 CCATATCCAACCGTATACACC
8804047 GTGTGGGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.33, C:0.47, G:0.03, T:0.17
Consensus pattern (22 bp):
CCATATCCAACCGTATACACCC
Found at i:8804145 original size:27 final size:27
Alignment explanation
Indices: 8804108--8804273 Score: 212
Period size: 27 Copynumber: 6.1 Consensus size: 27
8804098 AGCATGGCTG
* *
8804108 CCAGAACAGATA-ATGTGACAGAGTCA
1 CCAGAACAGATATATGTGGCAGAGCCA
8804134 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGA-ACAGATATAT-GTGGCAGAGCCA
8804162 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
* * *
8804189 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
8804216 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
* * *
8804243 TCAGATCAGATA-ATTGTGGCATAGCCA
1 CCAGAACAGATATA-TGTGGCAGAGCCA
8804270 CCAG
1 CCAG
8804274 GACGCTTCCT
Statistics
Matches: 124, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
26 6 0.05
27 101 0.81
28 17 0.14
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAACAGATATATGTGGCAGAGCCA
Found at i:8804167 original size:54 final size:54
Alignment explanation
Indices: 8804108--8804273 Score: 262
Period size: 54 Copynumber: 3.1 Consensus size: 54
8804098 AGCATGGCTG
* * * *
8804108 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
*
8804162 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
*
8804216 CCAGAACAGATATATGTGGCAGAGCCATCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
8804270 CCAG
1 CCAG
8804274 GACGCTTCCT
Statistics
Matches: 104, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
54 86 0.83
55 18 0.17
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (54 bp):
CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
Found at i:8804413 original size:26 final size:28
Alignment explanation
Indices: 8804384--8804454 Score: 101
Period size: 26 Copynumber: 2.6 Consensus size: 28
8804374 TTAACCCTAC
*
8804384 GGGTATAACAGTAATTTTGCA-AC-TAG
1 GGGTATAACAGTAATTTTCCATACATAG
8804410 GGGTATAACAGTAATTTTCCATACATAG
1 GGGTATAACAGTAATTTTCCATACATAG
* *
8804438 GGGTATTATAGTAATTT
1 GGGTATAACAGTAATTT
8804455 AGCTACTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
26 20 0.50
27 2 0.05
28 18 0.45
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.35
Consensus pattern (28 bp):
GGGTATAACAGTAATTTTCCATACATAG
Found at i:8805750 original size:26 final size:26
Alignment explanation
Indices: 8805712--8805795 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
8805702 NNNNNNNNNN
* *
8805712 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
8805738 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
*
8805764 TTATCATTGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
8805790 TTATCA
1 TTATCA
8805796 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.36
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:8809707 original size:19 final size:22
Alignment explanation
Indices: 8809668--8809707 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
8809658 AGAAACCCAA
8809668 CCATATCCAACCGTATACACCC
1 CCATATCCAACCGTATACACCC
8809690 CCATA-CCAACC-T-TACACC
1 CCATATCCAACCGTATACACC
8809708 GTGTGAGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.33, C:0.47, G:0.03, T:0.17
Consensus pattern (22 bp):
CCATATCCAACCGTATACACCC
Found at i:8809806 original size:27 final size:27
Alignment explanation
Indices: 8809769--8809934 Score: 203
Period size: 27 Copynumber: 6.1 Consensus size: 27
8809759 AGCATGGCTG
* *
8809769 CCAGAACAGATA-ATGTGACAAAGTCA
1 CCAGAACAGATATATGTGGCAAAGCCA
*
8809795 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGA-ACAGATATAT-GTGGCAAAGCCA
8809823 CCAGAACAGATATATGTGGCAAAGCCA
1 CCAGAACAGATATATGTGGCAAAGCCA
* * *
8809850 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAAAGCCA
*
8809877 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAAAGCCA
* *
8809904 CCAGATCAGATA-ATTGTGGCATAGCCA
1 CCAGAACAGATATA-TGTGGCAAAGCCA
8809931 CCAG
1 CCAG
8809935 GAAGCTTTCT
Statistics
Matches: 124, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
26 6 0.05
27 102 0.82
28 16 0.13
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (27 bp):
CCAGAACAGATATATGTGGCAAAGCCA
Found at i:8809828 original size:54 final size:54
Alignment explanation
Indices: 8809769--8809934 Score: 262
Period size: 54 Copynumber: 3.1 Consensus size: 54
8809759 AGCATGGCTG
* * * *
8809769 CCAGAACAGATA-ATGTGACAAAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAAAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
*
8809823 CCAGAACAGATATATGTGGCAAAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCA
*
8809877 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCA
8809931 CCAG
1 CCAG
8809935 GAAGCTTTCT
Statistics
Matches: 104, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
54 86 0.83
55 18 0.17
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCA
Found at i:8811360 original size:26 final size:26
Alignment explanation
Indices: 8811324--8811433 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
8811314 CATGAAATTC
8811324 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
8811350 TTATCATGAAACATTTACCTACCCCA
1 TTATCATGAAACATTTACCTAACCCA
*
8811376 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
8811402 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
8811428 TTATCA
1 TTATCA
8811434 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:8813917 original size:28 final size:29
Alignment explanation
Indices: 8813882--8813956 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
8813872 AAATAAAGGT
* *
8813882 TATAAAAACTA-TTAAATTTTATTAAAAA
1 TATAAAAAATATTTAAATTTTAGTAAAAA
8813910 TATAAAAAATATTTAAATTTTAGTAAAAA
1 TATAAAAAATATTTAAATTTTAGTAAAAA
*
8813939 T-TAGAAAAAAATTATAAA
1 TATA-AAAAATATT-TAAA
8813957 AATCGTAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
28 12 0.29
29 25 0.61
30 4 0.10
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (29 bp):
TATAAAAAATATTTAAATTTTAGTAAAAA
Found at i:8813958 original size:21 final size:20
Alignment explanation
Indices: 8813933--8813975 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
8813923 TAAATTTTAG
8813933 TAAAAAT-TAGAAAAAAATTA
1 TAAAAATCTA-AAAAAAATTA
8813953 TAAAAATCGTAAAAAAAATTA
1 TAAAAATC-TAAAAAAAATTA
8813974 TA
1 TA
8813976 GAATATATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.33
21 12 0.57
22 2 0.10
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (20 bp):
TAAAAATCTAAAAAAAATTA
Done.