Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 244 of 279
Found at i:79402336 original size:44 final size:41
Alignment explanation
Indices: 79402287--79402387 Score: 107
Period size: 40 Copynumber: 2.4 Consensus size: 41
79402277 TAAAATGATT
* *
79402287 CCGCACACTTAGTGCCATTTTAGTTAGCCGAAGCTA-AGTTAGTA
1 CCGCACACTTAGTGCCATTATA--TAGCCGAAGCTATA-TTA-AA
* * *
79402331 TCGCACACTTGGTGCC-TTATATCGCCGAAGCTATATTAAA
1 CCGCACACTTAGTGCCATTATATAGCCGAAGCTATATTAAA
79402371 CCGCACACTTAGTGCCA
1 CCGCACACTTAGTGCCA
79402388 AGCATAGTCG
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
40 15 0.31
41 14 0.29
42 1 0.02
43 4 0.08
44 14 0.29
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.28
Consensus pattern (41 bp):
CCGCACACTTAGTGCCATTATATAGCCGAAGCTATATTAAA
Found at i:79406830 original size:15 final size:15
Alignment explanation
Indices: 79406812--79406843 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
79406802 TTTACAATTG
79406812 ACAATGGTACATAGT
1 ACAATGGTACATAGT
*
79406827 ACAATGGTACATGGT
1 ACAATGGTACATAGT
79406842 AC
1 AC
79406844 TAGTTCATAG
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:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (15 bp):
ACAATGGTACATAGT
Found at i:79408726 original size:45 final size:43
Alignment explanation
Indices: 79408661--79408795 Score: 186
Period size: 45 Copynumber: 3.1 Consensus size: 43
79408651 CAATAGGCCT
* *
79408661 TATATAATACACCGGCATAAAGCCTGCTAGGCAATAAAGCCCGA
1 TATATAACACA-CGGCATAAAGCCTACTAGGCAATAAAGCCCGA
79408705 TAATATAACACACTGGCATAAAGCCTACTAGGCAATAAAGCCCGA
1 T-ATATAACACAC-GGCATAAAGCCTACTAGGCAATAAAGCCCGA
*
79408750 TATA-ATACAC-CGGCATAAAGCCTACTAGGTAATAAAGCCCGA
1 TATATA-ACACACGGCATAAAGCCTACTAGGCAATAAAGCCCGA
79408792 -ATAT
1 TATAT
79408796 CACTAATACA
Statistics
Matches: 84, Mismatches: 3, Indels: 10
0.87 0.03 0.10
Matches are distributed among these distances:
41 3 0.04
42 30 0.36
43 2 0.02
44 9 0.11
45 40 0.48
ACGTcount: A:0.41, C:0.24, G:0.16, T:0.19
Consensus pattern (43 bp):
TATATAACACACGGCATAAAGCCTACTAGGCAATAAAGCCCGA
Found at i:79408766 original size:42 final size:42
Alignment explanation
Indices: 79408605--79408791 Score: 213
Period size: 42 Copynumber: 4.4 Consensus size: 42
79408595 ATAAACTTTG
* * *
79408605 CTAGGC-ATAAAG-CCTAGTATAATACACCGGCACAGAA-CCTG
1 CTAGGCAATAAAGCCCGA-TATAATACACCGGCATA-AAGCCTA
* ** *
79408646 CTAGGCAAT-AGGCCTTATATAATACACCGGCATAAAGCCTG
1 CTAGGCAATAAAGCCCGATATAATACACCGGCATAAAGCCTA
79408687 CTAGGCAATAAAGCCCGATA-ATATAACACACTGGCATAAAGCCTA
1 CTAGGCAATAAAGCCCGATATA-AT-ACAC-C-GGCATAAAGCCTA
79408732 CTAGGCAATAAAGCCCGATATAATACACCGGCATAAAGCCTA
1 CTAGGCAATAAAGCCCGATATAATACACCGGCATAAAGCCTA
*
79408774 CTAGGTAATAAAGCCCGA
1 CTAGGCAATAAAGCCCGA
79408792 ATATCACTAA
Statistics
Matches: 129, Mismatches: 8, Indels: 17
0.84 0.05 0.11
Matches are distributed among these distances:
40 2 0.02
41 38 0.29
42 44 0.34
43 5 0.04
44 5 0.04
45 34 0.26
46 1 0.01
ACGTcount: A:0.39, C:0.25, G:0.18, T:0.18
Consensus pattern (42 bp):
CTAGGCAATAAAGCCCGATATAATACACCGGCATAAAGCCTA
Found at i:79415828 original size:46 final size:46
Alignment explanation
Indices: 79415778--79415953 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
79415768 TGGTTGAGCA
79415778 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * * *
79415824 TCCGAACTCGTTGAGTTGAGTCCAAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* *
79415869 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * * *
79415917 CCCGAGCTCATTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
79415954 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 59 0.56
47 28 0.26
48 4 0.04
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:79419340 original size:42 final size:42
Alignment explanation
Indices: 79419177--79419365 Score: 170
Period size: 42 Copynumber: 4.5 Consensus size: 42
79419167 ACATAAACTT
* * *
79419177 TGCTAGGC-ATAAAG-CCTAGTATAATACACCGGCACAGAA-CC
1 TGCTAGGCAATAAAGCCCGA-TATAATACACCAGCATA-AAGCC
* **
79419218 TGCTAGGCAAT-AGGCCTTATATAATACACCAGCATAAAGCC
1 TGCTAGGCAATAAAGCCCGATATAATACACCAGCATAAAGCC
* * ** * *
79419259 TACTAGGCAAGAAAGACCAATAATATAACACACCGGCATAAAGCC
1 TGCTAGGCAATAAAG-CC--CGATATAATACACCAGCATAAAGCC
79419304 TGCTAGGCAATAAAGCCCGATATAATACACCAGCATAAAGCC
1 TGCTAGGCAATAAAGCCCGATATAATACACCAGCATAAAGCC
* * *
79419346 TACAAGGTAATAAAGCCCGA
1 TGCTAGGCAATAAAGCCCGA
79419366 ATATCACTAA
Statistics
Matches: 122, Mismatches: 19, Indels: 13
0.79 0.12 0.08
Matches are distributed among these distances:
40 2 0.02
41 36 0.30
42 45 0.37
43 2 0.02
44 2 0.02
45 35 0.29
ACGTcount: A:0.41, C:0.25, G:0.17, T:0.17
Consensus pattern (42 bp):
TGCTAGGCAATAAAGCCCGATATAATACACCAGCATAAAGCC
Found at i:79421064 original size:54 final size:54
Alignment explanation
Indices: 79420974--79421082 Score: 164
Period size: 54 Copynumber: 2.0 Consensus size: 54
79420964 TTGAAAACCT
* * * *
79420974 TATTCCAAAAAACACCATTGTTCAAGGAGAAACTACTATTTACGGGGAGACTAC
1 TATTCCAAAAAACACCATTGTTAAAGGAGAAACTACTACTCAAGGGGAGACTAC
* *
79421028 TATTCCAAAAAACACCATTGTTAAAGGGGAAGCTACTACTCAAGGGGAGACTAC
1 TATTCCAAAAAACACCATTGTTAAAGGAGAAACTACTACTCAAGGGGAGACTAC
79421082 T
1 T
79421083 GTCAAGAAGG
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (54 bp):
TATTCCAAAAAACACCATTGTTAAAGGAGAAACTACTACTCAAGGGGAGACTAC
Found at i:79424731 original size:20 final size:20
Alignment explanation
Indices: 79424687--79424754 Score: 66
Period size: 20 Copynumber: 3.3 Consensus size: 20
79424677 AAAATTACAA
*
79424687 AAAAAATTCAACATAATTTT
1 AAAAAATTCAAAATAATTTT
*
79424707 CAAAAATTCAAAAT-ATTTAT
1 AAAAAATTCAAAATAATTT-T
* *
79424727 AAAAATTTCAAAATTTATATTT
1 AAAAAATTCAAAA-TAAT-TTT
79424749 AAAAAA
1 AAAAAA
79424755 ATTATAAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
19 4 0.10
20 24 0.62
21 1 0.03
22 8 0.21
23 2 0.05
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAAAATTCAAAATAATTTT
Found at i:79424748 original size:24 final size:24
Alignment explanation
Indices: 79424719--79424766 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
79424709 AAAATTCAAA
*
79424719 ATATTTATAAAAATT-TCAAAATTT
1 ATATTTAAAAAAATTAT-AAAATTT
79424743 ATATTTAAAAAAATTATAAAATTT
1 ATATTTAAAAAAATTATAAAATTT
79424767 CAAAAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 21 0.95
25 1 0.05
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (24 bp):
ATATTTAAAAAAATTATAAAATTT
Found at i:79424780 original size:18 final size:17
Alignment explanation
Indices: 79424736--79424781 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
79424726 TAAAAATTTC
*
79424736 AAAATTT-ATATTTAAA
1 AAAATTTAAAATTTAAA
79424752 AAAATTATAAAATTTCAAA
1 AAAATT-TAAAATTT-AAA
79424771 AAAATTTAAAA
1 AAAATTTAAAA
79424782 ATATATAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
16 6 0.23
17 1 0.04
18 10 0.38
19 9 0.35
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (17 bp):
AAAATTTAAAATTTAAA
Found at i:79425409 original size:59 final size:59
Alignment explanation
Indices: 79425326--79425464 Score: 163
Period size: 59 Copynumber: 2.3 Consensus size: 59
79425316 ATTTGGGGCC
* *
79425326 TGAATTTTTTATTAGTCCAAGTTAGGCCCTAAACTTGACAATTATT-TCCACATTGAGGCT
1 TGAATTTTTT-TTAGTCCAAGTTAGGCCCTAAACTTGACAATTGTTCT-CACATTAAGGCT
* * ** * *
79425386 TGAACTTTTTTTAGTCCAGGTTAGGCGTTGAACTTGACAATTGTTCTTACATTAAGGCT
1 TGAATTTTTTTTAGTCCAAGTTAGGCCCTAAACTTGACAATTGTTCTCACATTAAGGCT
*
79425445 TGAATTGTTTTTTTGTCCAA
1 TGAATT-TTTTTTAGTCCAA
79425465 ATTATTCCTT
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
59 45 0.68
60 21 0.32
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.42
Consensus pattern (59 bp):
TGAATTTTTTTTAGTCCAAGTTAGGCCCTAAACTTGACAATTGTTCTCACATTAAGGCT
Found at i:79426654 original size:20 final size:19
Alignment explanation
Indices: 79426629--79426694 Score: 80
Period size: 19 Copynumber: 3.4 Consensus size: 19
79426619 TACAAAATAA
79426629 TCAAAATAATTTTCAAAAAT
1 TCAAAATAATTTT-AAAAAT
* *
79426649 TGAAAATAATTTTTAAAAT
1 TCAAAATAATTTTAAAAAT
79426668 TCAAAAT-ATTTATAAAAAT
1 TCAAAATAATTT-TAAAAAT
79426687 TCCAAAAT
1 T-CAAAAT
79426695 TTGTATTTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
18 4 0.10
19 18 0.45
20 18 0.45
ACGTcount: A:0.55, C:0.08, G:0.02, T:0.36
Consensus pattern (19 bp):
TCAAAATAATTTTAAAAAT
Found at i:79434285 original size:42 final size:42
Alignment explanation
Indices: 79434224--79434303 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
79434214 TTTGTAGGCA
* * *
79434224 GTTCCTGGCTACCATCTGCCTCAAAATTCTCAACTTTATCCG
1 GTTCCTGACCACCAACTGCCTCAAAATTCTCAACTTTATCCG
* *
79434266 GTTCCTGACCACCAACTGCCTCAAATTTCTCATCTTTA
1 GTTCCTGACCACCAACTGCCTCAAAATTCTCAACTTTA
79434304 CCTAACTCAG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.23, C:0.34, G:0.10, T:0.34
Consensus pattern (42 bp):
GTTCCTGACCACCAACTGCCTCAAAATTCTCAACTTTATCCG
Found at i:79447063 original size:40 final size:40
Alignment explanation
Indices: 79447005--79447083 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
79446995 CTTGTTATGA
* *
79447005 ACTTTGGGATATTTACCCTGTCTATGATAATTTCATATCC
1 ACTTTGGGATATTCACCCTGTCTATAATAATTTCATATCC
* *
79447045 ACTTTGGGATATTCACCCTGTTTGTAATAATTTCATATC
1 ACTTTGGGATATTCACCCTGTCTATAATAATTTCATATC
79447084 ATTGTAAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.25, C:0.19, G:0.13, T:0.43
Consensus pattern (40 bp):
ACTTTGGGATATTCACCCTGTCTATAATAATTTCATATCC
Found at i:79456379 original size:59 final size:59
Alignment explanation
Indices: 79456309--79456429 Score: 242
Period size: 59 Copynumber: 2.1 Consensus size: 59
79456299 GATTCAACCC
79456309 GCAGAGTTTCACCATTTTCACACTTTAATTCTATAACCTTTTCTTTGCAATTTACTATA
1 GCAGAGTTTCACCATTTTCACACTTTAATTCTATAACCTTTTCTTTGCAATTTACTATA
79456368 GCAGAGTTTCACCATTTTCACACTTTAATTCTATAACCTTTTCTTTGCAATTTACTATA
1 GCAGAGTTTCACCATTTTCACACTTTAATTCTATAACCTTTTCTTTGCAATTTACTATA
79456427 GCA
1 GCA
79456430 TCATGCAATG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 62 1.00
ACGTcount: A:0.27, C:0.22, G:0.07, T:0.43
Consensus pattern (59 bp):
GCAGAGTTTCACCATTTTCACACTTTAATTCTATAACCTTTTCTTTGCAATTTACTATA
Found at i:79456835 original size:57 final size:57
Alignment explanation
Indices: 79456764--79456876 Score: 183
Period size: 57 Copynumber: 2.0 Consensus size: 57
79456754 ATAGCATAAC
* * *
79456764 TTCTAGCCGGAGCCCTTCCTTCAGGTCTAACTGGTGCATCCGTGGCTT-CATTCTTAG
1 TTCTAGCCGAAGCCCTTCCTTCAGGTCTAACCGGTGCATCCCTGG-TTACATTCTTAG
79456821 TTCTAGCCGAAGCCCTTCCTTCAGGTCTAACCGGTGCATCCCTGGTTACATTCTTA
1 TTCTAGCCGAAGCCCTTCCTTCAGGTCTAACCGGTGCATCCCTGGTTACATTCTTA
79456877 CTGCTTGCTT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
56 2 0.04
57 50 0.96
ACGTcount: A:0.16, C:0.31, G:0.20, T:0.33
Consensus pattern (57 bp):
TTCTAGCCGAAGCCCTTCCTTCAGGTCTAACCGGTGCATCCCTGGTTACATTCTTAG
Found at i:79457186 original size:63 final size:63
Alignment explanation
Indices: 79457087--79457212 Score: 234
Period size: 63 Copynumber: 2.0 Consensus size: 63
79457077 AAATCTCGAG
*
79457087 TTCCCTGCACTGGCTGCCGAAGTAGTCTGGGATTTAGGACCCACATTTTGCTTCCTATAATTC
1 TTCCCTACACTGGCTGCCGAAGTAGTCTGGGATTTAGGACCCACATTTTGCTTCCTATAATTC
*
79457150 TTCCCTACACTGGCTGCCGAAGTAGTCTGGGATTTAGGACCCACATTTTGCTTCTTATAATTC
1 TTCCCTACACTGGCTGCCGAAGTAGTCTGGGATTTAGGACCCACATTTTGCTTCCTATAATTC
79457213 CCATATGATT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.34
Consensus pattern (63 bp):
TTCCCTACACTGGCTGCCGAAGTAGTCTGGGATTTAGGACCCACATTTTGCTTCCTATAATTC
Found at i:79466369 original size:30 final size:29
Alignment explanation
Indices: 79466315--79466390 Score: 84
Period size: 30 Copynumber: 2.6 Consensus size: 29
79466305 AAATTACAAA
*
79466315 TTTAATTTTTATACTTTAATTTGATTAAT
1 TTTAATTTTTATACTTTAATTTGATCAAT
79466344 TTTAATTTTT-TACTAATTGAA-TTGATCAAT
1 TTTAATTTTTATACT--TT-AATTTGATCAAT
**
79466374 TTTAATCCTTATACTTT
1 TTTAATTTTTATACTTT
79466391 TGAAATTTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
28 4 0.10
29 12 0.30
30 18 0.45
31 6 0.15
ACGTcount: A:0.30, C:0.08, G:0.04, T:0.58
Consensus pattern (29 bp):
TTTAATTTTTATACTTTAATTTGATCAAT
Found at i:79466549 original size:17 final size:17
Alignment explanation
Indices: 79466513--79466549 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
79466503 TAATTGAGTG
*
79466513 ATTCTAATTCACTATTC
1 ATTCTAATTCACTATAC
*
79466530 ATTCTAATTCATTATAC
1 ATTCTAATTCACTATAC
79466547 ATT
1 ATT
79466550 TTAAATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.32, C:0.19, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTCTAATTCACTATAC
Found at i:79466730 original size:14 final size:14
Alignment explanation
Indices: 79466711--79466740 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
79466701 AAAATATTCA
*
79466711 AAGAAATAATATTT
1 AAGAAATAATAGTT
79466725 AAGAAATAATAGTT
1 AAGAAATAATAGTT
79466739 AA
1 AA
79466741 TTTTAGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.30
Consensus pattern (14 bp):
AAGAAATAATAGTT
Found at i:79469544 original size:22 final size:22
Alignment explanation
Indices: 79469519--79469560 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
79469509 GTGATAAATC
* *
79469519 TAATAGAATGGTTATTGATTAT
1 TAATAAAATGGTGATTGATTAT
79469541 TAATAAAATGGTGATTGATT
1 TAATAAAATGGTGATTGATT
79469561 TTGGGAGTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.43
Consensus pattern (22 bp):
TAATAAAATGGTGATTGATTAT
Found at i:79471489 original size:13 final size:13
Alignment explanation
Indices: 79471471--79471508 Score: 62
Period size: 12 Copynumber: 3.1 Consensus size: 13
79471461 CGGTCTGCCC
79471471 ATATTAATTTTTT
1 ATATTAATTTTTT
79471484 ATATT-ATTTTTT
1 ATATTAATTTTTT
79471496 ATA-TAATTTTTT
1 ATATTAATTTTTT
79471508 A
1 A
79471509 AAAATATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 1 0.04
12 18 0.75
13 5 0.21
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
ATATTAATTTTTT
Found at i:79471769 original size:22 final size:22
Alignment explanation
Indices: 79471744--79471791 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
79471734 AAATAGTGAG
* *
79471744 AAAACAACAAGAAAATAACAAC
1 AAAACAACAAAAAAATAACAAA
**
79471766 AAAACATTAAAAAAATAACAAA
1 AAAACAACAAAAAAATAACAAA
79471788 AAAA
1 AAAA
79471792 AAATCAATAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.77, C:0.12, G:0.02, T:0.08
Consensus pattern (22 bp):
AAAACAACAAAAAAATAACAAA
Found at i:79474290 original size:23 final size:21
Alignment explanation
Indices: 79474260--79474306 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
79474250 ATAACAGTTC
* *
79474260 AAAAATTTTCTTTTCATTTATT
1 AAAAATTTT-TCTGCATTTATT
79474282 AAAAGATTTTTCTGCATTTATT
1 AAAA-ATTTTTCTGCATTTATT
79474304 AAA
1 AAA
79474307 TCTATATTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.36, C:0.09, G:0.04, T:0.51
Consensus pattern (21 bp):
AAAAATTTTTCTGCATTTATT
Found at i:79476824 original size:22 final size:22
Alignment explanation
Indices: 79476799--79476851 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
79476789 GAAATTAAAT
79476799 TATATATTTATGATATTAAAAA
1 TATATATTTATGATATTAAAAA
* * *
79476821 TATA-ATTTTATTATTTTAATAA
1 TATATA-TTTATGATATTAAAAA
*
79476843 TTTATATTT
1 TATATATTT
79476852 TTATAATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 1 0.04
22 23 0.92
23 1 0.04
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
TATATATTTATGATATTAAAAA
Found at i:79476852 original size:15 final size:16
Alignment explanation
Indices: 79476822--79476860 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
79476812 TATTAAAAAT
79476822 ATAATTTTATTATTTTA
1 ATAA-TTTATTATTTTA
*
79476839 ATAATTTA-TATTTTT
1 ATAATTTATTATTTTA
79476854 ATAATTT
1 ATAATTT
79476861 TTAAAAGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.62
16 4 0.19
17 4 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATAATTTATTATTTTA
Found at i:79478021 original size:38 final size:37
Alignment explanation
Indices: 79477946--79478023 Score: 88
Period size: 38 Copynumber: 2.1 Consensus size: 37
79477936 ATATTTTAAC
*
79477946 ATTATTATTAAATATAATTTAATAAAATTCTTAATATA
1 ATTATTATT-AATATAATTTAATAAAATTCTAAATATA
*
79477984 ATTATTATT-ATATGAATTTACTAAAA-TCATAATATATA
1 ATTATTATTAATAT-AATTTAATAAAATTC-TAA-ATATA
79478022 AT
1 AT
79478024 ACTATAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
36 6 0.17
37 13 0.37
38 16 0.46
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (37 bp):
ATTATTATTAATATAATTTAATAAAATTCTAAATATA
Found at i:79479579 original size:16 final size:16
Alignment explanation
Indices: 79479560--79479623 Score: 58
Period size: 16 Copynumber: 3.9 Consensus size: 16
79479550 GATTTTTTAA
79479560 TTTTAATTTTATATAT
1 TTTTAATTTTATATAT
*
79479576 TTTTAATTCTT-TTTAT
1 TTTTAATT-TTATATAT
* *
79479592 TTTTAGTTTTATAATAA
1 TTTTAATTTTAT-ATAT
* *
79479609 TGTTAATGTTATATA
1 TTTTAATTTTATATA
79479624 ATCTTTTACC
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
15 2 0.05
16 23 0.61
17 13 0.34
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.64
Consensus pattern (16 bp):
TTTTAATTTTATATAT
Found at i:79479615 original size:33 final size:32
Alignment explanation
Indices: 79479553--79479615 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
79479543 ACGTTAAGAT
* *
79479553 TTTTTAATTTTAATTTTATATATTTTTAATTC
1 TTTTTAATTTTAATTTTATATAATGTTAATTC
* *
79479585 TTTTTATTTTTAGTTTTATAATAATGTTAAT
1 TTTTTAATTTTAATTTTAT-ATAATGTTAAT
79479616 GTTATATAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 17 0.65
33 9 0.35
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.67
Consensus pattern (32 bp):
TTTTTAATTTTAATTTTATATAATGTTAATTC
Found at i:79480399 original size:19 final size:19
Alignment explanation
Indices: 79480377--79480419 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
79480367 GAAATGGTGG
* *
79480377 CAAAATAATAAGAAAACAA
1 CAAAACAATAAAAAAACAA
*
79480396 CAAAACATTAAAAAAACAA
1 CAAAACAATAAAAAAACAA
79480415 CAAAA
1 CAAAA
79480420 AAAGAGAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.74, C:0.14, G:0.02, T:0.09
Consensus pattern (19 bp):
CAAAACAATAAAAAAACAA
Found at i:79483055 original size:15 final size:16
Alignment explanation
Indices: 79483035--79483067 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
79483025 TATTACATAG
79483035 AATAAA-ATATTAAAA
1 AATAAATATATTAAAA
*
79483050 AATAAATATTTTAAAA
1 AATAAATATATTAAAA
79483066 AA
1 AA
79483068 AGACATGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
AATAAATATATTAAAA
Found at i:79483974 original size:11 final size:11
Alignment explanation
Indices: 79483958--79483993 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
79483948 TCACACACAT
79483958 TCTCAAATCTC
1 TCTCAAATCTC
*
79483969 TCTCAAATTTC
1 TCTCAAATCTC
*
79483980 TCTCAATTCTC
1 TCTCAAATCTC
79483991 TCT
1 TCT
79483994 TAATTTCTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.22, C:0.33, G:0.00, T:0.44
Consensus pattern (11 bp):
TCTCAAATCTC
Found at i:79483984 original size:22 final size:22
Alignment explanation
Indices: 79483957--79484010 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
79483947 CTCACACACA
79483957 TTCTCAAATCTCTCTCAAATTTC
1 TTCTCAAATCTCTCT-AAATTTC
* *
79483980 -TCTCAATTCTCTCTTAATTTC
1 TTCTCAAATCTCTCTAAATTTC
79484001 TTACTCAAAT
1 TT-CTCAAAT
79484011 TTTATTTCTC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 6 0.23
22 14 0.54
23 6 0.23
ACGTcount: A:0.26, C:0.28, G:0.00, T:0.46
Consensus pattern (22 bp):
TTCTCAAATCTCTCTAAATTTC
Found at i:79483989 original size:9 final size:11
Alignment explanation
Indices: 79483958--79484012 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
79483948 TCACACACAT
*
79483958 TCTCAAATCTC
1 TCTCAAATTTC
79483969 TCTCAAATTTC
1 TCTCAAATTTC
79483980 TCTC-AA-TTC
1 TCTCAAATTTC
*
79483989 TCTCTTAATTTC
1 TCTC-AAATTTC
79484001 TTACTCAAATTT
1 -T-CTCAAATTT
79484013 TATTTCTCTC
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
9 7 0.19
10 2 0.05
11 16 0.43
12 3 0.08
13 6 0.16
14 3 0.08
ACGTcount: A:0.25, C:0.27, G:0.00, T:0.47
Consensus pattern (11 bp):
TCTCAAATTTC
Found at i:79485623 original size:19 final size:19
Alignment explanation
Indices: 79485587--79485623 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
79485577 TAACTAGACT
* *
79485587 TTAATTAAGTGAATTTAGC
1 TTAATTAAGAGAAATTAGC
79485606 TTAATTAAGAGAAATTAG
1 TTAATTAAGAGAAATTAG
79485624 GAAAATGACT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.16, T:0.38
Consensus pattern (19 bp):
TTAATTAAGAGAAATTAGC
Found at i:79485789 original size:3 final size:3
Alignment explanation
Indices: 79485774--79485840 Score: 57
Period size: 3 Copynumber: 21.7 Consensus size: 3
79485764 TATATAAATA
* * *
79485774 TAT TAT AAT TAT TAT TAC GAT T-T ATAT ATAT TAGT TAT TAAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT -TAT TA-T TAT T-AT TAT TAT
79485822 TA- TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TA
79485841 AATAAATTGA
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
2 3 0.06
3 39 0.74
4 11 0.21
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:79486098 original size:143 final size:143
Alignment explanation
Indices: 79485949--79486434 Score: 954
Period size: 143 Copynumber: 3.4 Consensus size: 143
79485939 TAGAAAAAAA
79485949 AAGATATTTATTAATTAAATAATTAAATAATGAGATTTTTTGTTTGATAAATAAATTAAATAATG
1 AAGATATTTATTAATTAAATAATTAAATAATGAGATTTTTTGTTTGATAAATAAATTAAATAATG
*
79486014 GCAATTGTAATAAATTTATTGGTACAAATGTGAAAATATAAGTGTGTACAATTGTAATATTAGTA
66 ACAATTGTAATAAATTTATTGGTACAAATGTGAAAATATAAGTGTGTACAATTGTAATATTAGTA
79486079 TTTGATATTAAAT
131 TTTGATATTAAAT
79486092 AAGATATTTATTAATTAAATAATTAAATAATGAGATTTTTTGTTTGATAAATAAATTAAATAATG
1 AAGATATTTATTAATTAAATAATTAAATAATGAGATTTTTTGTTTGATAAATAAATTAAATAATG
79486157 ACAATTGTAATAAATTTATTGGTACAAATGTGAAAATATAAGTGTGTACAATTGTAATATTAGTA
66 ACAATTGTAATAAATTTATTGGTACAAATGTGAAAATATAAGTGTGTACAATTGTAATATTAGTA
79486222 TTTGATATTAAAT
131 TTTGATATTAAAT
*
79486235 AAGATATTTATTAATTAAATAATTAAATAATGAGATTTTTTGTTTGATAAATAAATTCAATAATG
1 AAGATATTTATTAATTAAATAATTAAATAATGAGATTTTTTGTTTGATAAATAAATTAAATAATG
79486300 ACAATTGTAATAAATTTATTGGTACAAATGTGAAAATATAAGTGTGTACAATTGTAATATTAGTA
66 ACAATTGTAATAAATTTATTGGTACAAATGTGAAAATATAAGTGTGTACAATTGTAATATTAGTA
79486365 TTTGATATTAAAT
131 TTTGATATTAAAT
79486378 AAGATATTTATTAATTAAATAATTAAATAATGAGATTTTTTGTTTGATAAATAAATT
1 AAGATATTTATTAATTAAATAATTAAATAATGAGATTTTTTGTTTGATAAATAAATT
79486435 NATTGATAGG
Statistics
Matches: 341, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
143 341 1.00
ACGTcount: A:0.44, C:0.02, G:0.12, T:0.42
Consensus pattern (143 bp):
AAGATATTTATTAATTAAATAATTAAATAATGAGATTTTTTGTTTGATAAATAAATTAAATAATG
ACAATTGTAATAAATTTATTGGTACAAATGTGAAAATATAAGTGTGTACAATTGTAATATTAGTA
TTTGATATTAAAT
Found at i:79486963 original size:15 final size:15
Alignment explanation
Indices: 79486938--79486994 Score: 71
Period size: 15 Copynumber: 3.9 Consensus size: 15
79486928 CAATGAATTT
*
79486938 ATTGAATTTATATTG
1 ATTGAAATTATATTG
* *
79486953 AATGAAATTATTTTG
1 ATTGAAATTATATTG
*
79486968 ATTGAATTTATATTG
1 ATTGAAATTATATTG
79486983 ATTG-AATTATAT
1 ATTGAAATTATAT
79486995 AATATATATG
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
14 7 0.20
15 28 0.80
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (15 bp):
ATTGAAATTATATTG
Found at i:79489900 original size:20 final size:20
Alignment explanation
Indices: 79489862--79489909 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
79489852 TAAATTCTAA
* **
79489862 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
79489882 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
79489902 AAA-ATAAA
1 AAAGATAAA
79489910 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:79489919 original size:13 final size:15
Alignment explanation
Indices: 79489901--79489937 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
79489891 TAAAGATAAT
79489901 TAAAA-TAAA-ATCC
1 TAAAATTAAATATCC
79489914 TAAAATTAAATATCC
1 TAAAATTAAATATCC
79489929 TAATAATTA
1 TAA-AATTA
79489938 TCTTAATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.24
14 4 0.19
15 7 0.33
16 5 0.24
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (15 bp):
TAAAATTAAATATCC
Found at i:79489950 original size:15 final size:15
Alignment explanation
Indices: 79489910--79489961 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 15
79489900 TTAAAATAAA
* *
79489910 ATCCTAAAATTAAAT
1 ATCCTAATATTAATT
79489925 ATCCT-A-A-TAATT
1 ATCCTAATATTAATT
*
79489937 ATCTTAATATTAATT
1 ATCCTAATATTAATT
79489952 ATCCTAATAT
1 ATCCTAATAT
79489962 AAATAAAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
12 8 0.26
13 2 0.06
14 2 0.06
15 19 0.61
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.42
Consensus pattern (15 bp):
ATCCTAATATTAATT
Found at i:79493294 original size:25 final size:22
Alignment explanation
Indices: 79493260--79493332 Score: 67
Period size: 22 Copynumber: 3.1 Consensus size: 22
79493250 TTTTATTAAT
*
79493260 ATAATAAAATAATTAAAAGTAAA
1 ATAATTAAATAATTAAAA-TAAA
*
79493283 ATAAATTGAAATAAAATAAAATAAA
1 AT-AATT-AAAT-AATTAAAATAAA
*
79493308 ATAATT-AATAATTAATAATATA
1 ATAATTAAATAATTAA-AATAAA
79493330 ATA
1 ATA
79493333 TAATAATATA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
21 5 0.12
22 11 0.26
23 2 0.05
24 7 0.17
25 10 0.24
26 7 0.17
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (22 bp):
ATAATTAAATAATTAAAATAAA
Found at i:79493326 original size:3 final size:3
Alignment explanation
Indices: 79493292--79493354 Score: 66
Period size: 3 Copynumber: 22.3 Consensus size: 3
79493282 AATAAATTGA
79493292 AAT AA- AAT AA- AAT AA- AAT AATT AAT AATT AAT AAT -AT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AA-T AAT AA-T AAT AAT AAT AAT AAT
79493334 AAT AAT -AT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT A
79493355 GAAATAAAAT
Statistics
Matches: 52, Mismatches: 0, Indels: 16
0.76 0.00 0.24
Matches are distributed among these distances:
2 12 0.23
3 34 0.65
4 6 0.12
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:79493337 original size:27 final size:27
Alignment explanation
Indices: 79493297--79493360 Score: 85
Period size: 27 Copynumber: 2.3 Consensus size: 27
79493287 ATTGAAATAA
*
79493297 AATAAAATAAAATAATTAATAATTAAT
1 AATAAAATATAATAATTAATAATTAAT
*
79493324 AATATAATATAATAATATAATAA-TAAT
1 AATAAAATATAATAAT-TAATAATTAAT
79493351 AATAGAAATA
1 AATA-AAATA
79493361 AAATTTAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 22 0.69
28 10 0.31
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (27 bp):
AATAAAATATAATAATTAATAATTAAT
Found at i:79493360 original size:6 final size:5
Alignment explanation
Indices: 79493257--79493364 Score: 67
Period size: 5 Copynumber: 20.6 Consensus size: 5
79493247 TAATTTTATT
* * * *
79493257 AATAT AATAA AAT-A ATTAA AAGTAA AATAA ATTGA AATAA AATAA AATAA
1 AATAA AATAA AATAA AATAA AA-TAA AATAA AATAA AATAA AATAA AATAA
* * * *
79493307 AATAA TTAAT-A ATTAA TAATAT AATAT AATAA TATAA TAATAA TAATAGA
1 AATAA --AATAA AATAA -AATAA AATAA AATAA AATAA -AATAA -AATA-A
79493357 AATAA AAT
1 AATAA AAT
79493365 TTAAAATTAA
Statistics
Matches: 82, Mismatches: 13, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
4 5 0.06
5 51 0.62
6 22 0.27
7 4 0.05
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (5 bp):
AATAA
Found at i:79499528 original size:45 final size:45
Alignment explanation
Indices: 79499464--79499553 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
79499454 GAGAAACGAT
*
79499464 GAATACCTGGCGAGAAGGCTAAGTACGGATTCTAGGCCTTAAGAA
1 GAATACCTGGCGAGAAGGCTAAGTACGGATTCTAGGCCTCAAGAA
* *
79499509 GAATACTTGGGGAGAAGGCTAAGTACGGATTCTAGGCCTCAAGAA
1 GAATACCTGGCGAGAAGGCTAAGTACGGATTCTAGGCCTCAAGAA
79499554 CCCTTTTTGG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.33, C:0.17, G:0.30, T:0.20
Consensus pattern (45 bp):
GAATACCTGGCGAGAAGGCTAAGTACGGATTCTAGGCCTCAAGAA
Found at i:79499832 original size:20 final size:20
Alignment explanation
Indices: 79499794--79499841 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
79499784 TAAATTCTAA
* **
79499794 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
79499814 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
79499834 AAA-ATAAA
1 AAAGATAAA
79499842 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:79499851 original size:13 final size:15
Alignment explanation
Indices: 79499833--79499869 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
79499823 TAAAGATAAT
79499833 TAAAA-TAAA-ATCC
1 TAAAATTAAATATCC
79499846 TAAAATTAAATATCC
1 TAAAATTAAATATCC
79499861 TAATAATTA
1 TAA-AATTA
79499870 TCTTAATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.24
14 4 0.19
15 7 0.33
16 5 0.24
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (15 bp):
TAAAATTAAATATCC
Found at i:79499882 original size:15 final size:15
Alignment explanation
Indices: 79499842--79499893 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 15
79499832 TTAAAATAAA
* *
79499842 ATCCTAAAATTAAAT
1 ATCCTAATATTAATT
79499857 ATCCT-A-A-TAATT
1 ATCCTAATATTAATT
*
79499869 ATCTTAATATTAATT
1 ATCCTAATATTAATT
79499884 ATCCTAATAT
1 ATCCTAATAT
79499894 AAATAAAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
12 8 0.26
13 2 0.06
14 2 0.06
15 19 0.61
ACGTcount: A:0.44, C:0.13, G:0.00, T:0.42
Consensus pattern (15 bp):
ATCCTAATATTAATT
Found at i:79500889 original size:19 final size:19
Alignment explanation
Indices: 79500865--79500904 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
79500855 GTTGTGGTTA
79500865 AAAAATTAATAAATCAGTT
1 AAAAATTAATAAATCAGTT
*
79500884 AAAAATTAATAAATCTGTT
1 AAAAATTAATAAATCAGTT
79500903 AA
1 AA
79500905 TGAGGTGTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (19 bp):
AAAAATTAATAAATCAGTT
Found at i:79501483 original size:20 final size:21
Alignment explanation
Indices: 79501451--79501509 Score: 86
Period size: 21 Copynumber: 2.9 Consensus size: 21
79501441 TTTACATCTC
79501451 AAAAAAT-TATAAAAAAAC-T
1 AAAAAATATATAAAAAAACTT
*
79501470 AAAGAATATATAAAAAAAACTT
1 AAAAAATATAT-AAAAAAACTT
79501492 AAAAAATATATAAAAAAA
1 AAAAAATATATAAAAAAA
79501510 GACTCAAAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.17
20 3 0.09
21 15 0.43
22 11 0.31
ACGTcount: A:0.75, C:0.03, G:0.02, T:0.20
Consensus pattern (21 bp):
AAAAAATATATAAAAAAACTT
Found at i:79501487 original size:21 final size:22
Alignment explanation
Indices: 79501451--79501518 Score: 88
Period size: 22 Copynumber: 3.2 Consensus size: 22
79501441 TTTACATCTC
79501451 AAAAAAT-TAT-AAAAAAAC-T
1 AAAAAATATATAAAAAAAACTT
*
79501470 AAAGAATATATAAAAAAAACTT
1 AAAAAATATATAAAAAAAACTT
*
79501492 AAAAAATATATAAAAAAAGACTC
1 AAAAAATATATAAAAAAA-ACTT
79501515 AAAA
1 AAAA
79501519 CCCTACACAA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
19 6 0.14
20 3 0.07
21 8 0.19
22 18 0.43
23 7 0.17
ACGTcount: A:0.72, C:0.06, G:0.03, T:0.19
Consensus pattern (22 bp):
AAAAAATATATAAAAAAAACTT
Found at i:79505109 original size:14 final size:14
Alignment explanation
Indices: 79505090--79505133 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
79505080 AACCCTATAC
79505090 AATCCTAAATCTTA
1 AATCCTAAATCTTA
79505104 AATCCTAAA-CTCTA
1 AATCCTAAATCT-TA
*
79505118 AACCCTAAATCTTA
1 AATCCTAAATCTTA
79505132 AA
1 AA
79505134 ATTCATACAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 2 0.07
14 23 0.85
15 2 0.07
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.30
Consensus pattern (14 bp):
AATCCTAAATCTTA
Found at i:79506955 original size:17 final size:17
Alignment explanation
Indices: 79506933--79506966 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
79506923 ATATCAACTT
79506933 GGAATCAGGGTTAGGGA
1 GGAATCAGGGTTAGGGA
*
79506950 GGAATCAGGGTTGGGGA
1 GGAATCAGGGTTAGGGA
79506967 AAGATTTCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.50, T:0.18
Consensus pattern (17 bp):
GGAATCAGGGTTAGGGA
Found at i:79513473 original size:451 final size:451
Alignment explanation
Indices: 79512631--79513534 Score: 1727
Period size: 451 Copynumber: 2.0 Consensus size: 451
79512621 ACGAAACTGA
79512631 AGAAGGTATCTAGTTGCTTCTCGTTGTTGCAAGCTACAATTCACACAATCAATAGTTGAGAATCC
1 AGAAGGTATCTAGTTGCTTCTCGTTGTTGCAAGCTACAATTCACACAATCAATAGTTGAGAATCC
*
79512696 TGCTAAGTAAGGTAAGTGCTAAGAGGGGCCTGACCATAGATGGCTTCATATGGGGTTGTTTGAAC
66 TGCTAAGTAAGGTAAGTGCTAAGAGGGGCCTGACCATAGATGGCTTCATATGGGGTCGTTTGAAC
*
79512761 AACCGAGTGAAAGGTAAAAACGTACCACCTGTAACACCTTTAACCTGTATCTGTCGCTAGAACAG
131 AACCGAGTGAAAGGTAAAAACGTACCACCTGTAACACCTTTAACCTGTATCTGTCGCTAGAACAC
79512826 GATTACAGAGCATTACCAAAACTTTTAGAATATTTACAAATAATTCACGTTAATTACTATTCATT
196 GATTACAGAGCATTACCAAAACTTTTAGAATATTTACAAATAATTCACGTTAATTACTATTCATT
* *
79512891 TATCGAAATATTCACAACGTCCCTTAAATGGACCCTTGAAGCCCAAAACGAGTATTAGAATCAAG
261 TATCAAAATATTCACAACGTCCCTTAAATGGACCATTGAAGCCCAAAACGAGTATTAGAATCAAG
*
79512956 TCGGGACTTAATTAAGAACTCGAAGAATTTTTCGCAAAATTTCTAAAATTTTTCCTAGGTACAGG
326 TCAGGACTTAATTAAGAACTCGAAGAATTTTTCGCAAAATTTCTAAAATTTTTCCTAGGTACAGG
* *
79513021 GCTCACATGCCTGTGTGGTCTAGGGACATGCCTGTGTGACCCTAAGATATTCCCGCGCTGC
391 GCTCACATGCCTATGTGGTCTAGGGACATGCCTGTGTGACCCTAAGATATGCCCGCGCTGC
79513082 AGAAGGTATCTAGTTGCTTCTCGTTGTTGCAAGCTACAATTCACACAATCAATAGTTGAGAATCC
1 AGAAGGTATCTAGTTGCTTCTCGTTGTTGCAAGCTACAATTCACACAATCAATAGTTGAGAATCC
*
79513147 TGCTAAGTAAGGTAAGTGCTGAGAGGGGCCTGACCATAGATGGCTTCATATGGGGTCGTTTGAAC
66 TGCTAAGTAAGGTAAGTGCTAAGAGGGGCCTGACCATAGATGGCTTCATATGGGGTCGTTTGAAC
79513212 AACCGAGTGAAAGGTAAAAACGTACCACCTGTAACACCTTTAACCTGTATCTGTCGCTAGAACAC
131 AACCGAGTGAAAGGTAAAAACGTACCACCTGTAACACCTTTAACCTGTATCTGTCGCTAGAACAC
79513277 GATTACAGAGCATTACCAAAACTTTTAGAATATTTACAAATAATTCACGTTAATTACTATTCATT
196 GATTACAGAGCATTACCAAAACTTTTAGAATATTTACAAATAATTCACGTTAATTACTATTCATT
79513342 TATCAAAATATTCACAACGTCCCTTAAATGGACCATTGAAGCCCAAAACGAGTATTAGAATCAAG
261 TATCAAAATATTCACAACGTCCCTTAAATGGACCATTGAAGCCCAAAACGAGTATTAGAATCAAG
79513407 TCAGGACTTAATTAAGAACTCGAAGAATTTTTCGCAAAATTTCTAAAATTTTTCCTAGGTACAGG
326 TCAGGACTTAATTAAGAACTCGAAGAATTTTTCGCAAAATTTCTAAAATTTTTCCTAGGTACAGG
*
79513472 GCTCACATGCCTATGTGGTCTAGGGACATGCCTGTGTGACCCTAAGATATGCCCGTGCTGC
391 GCTCACATGCCTATGTGGTCTAGGGACATGCCTGTGTGACCCTAAGATATGCCCGCGCTGC
79513533 AG
1 AG
79513535 GCCATGTTCA
Statistics
Matches: 444, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
451 444 1.00
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.28
Consensus pattern (451 bp):
AGAAGGTATCTAGTTGCTTCTCGTTGTTGCAAGCTACAATTCACACAATCAATAGTTGAGAATCC
TGCTAAGTAAGGTAAGTGCTAAGAGGGGCCTGACCATAGATGGCTTCATATGGGGTCGTTTGAAC
AACCGAGTGAAAGGTAAAAACGTACCACCTGTAACACCTTTAACCTGTATCTGTCGCTAGAACAC
GATTACAGAGCATTACCAAAACTTTTAGAATATTTACAAATAATTCACGTTAATTACTATTCATT
TATCAAAATATTCACAACGTCCCTTAAATGGACCATTGAAGCCCAAAACGAGTATTAGAATCAAG
TCAGGACTTAATTAAGAACTCGAAGAATTTTTCGCAAAATTTCTAAAATTTTTCCTAGGTACAGG
GCTCACATGCCTATGTGGTCTAGGGACATGCCTGTGTGACCCTAAGATATGCCCGCGCTGC
Found at i:79516898 original size:21 final size:20
Alignment explanation
Indices: 79516842--79516898 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 20
79516832 TAATTCCCTT
* *
79516842 TTTCTTTTCTTTTCTCTTTTC
1 TTTC-TTTCTATTCTATTTTC
* *
79516863 TTTATTTCTATTTCTATTTTG
1 TTTCTTTCTA-TTCTATTTTC
79516884 TTTCTATTCTATTCT
1 TTTCT-TTCTATTCT
79516899 TTCCTTCCTT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
20 5 0.17
21 19 0.66
22 5 0.17
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.72
Consensus pattern (20 bp):
TTTCTTTCTATTCTATTTTC
Found at i:79517146 original size:22 final size:20
Alignment explanation
Indices: 79517121--79517167 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
79517111 ATATATATTT
*
79517121 TTTATAAATTAATATAATATAA
1 TTTATAAACTAA-ATAATAT-A
79517143 TTTAT-AACTAAATAATATA
1 TTTATAAACTAAATAATATA
79517162 TTTATA
1 TTTATA
79517168 TAGTTTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 6 0.26
20 7 0.30
21 5 0.22
22 5 0.22
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (20 bp):
TTTATAAACTAAATAATATA
Found at i:79517154 original size:26 final size:25
Alignment explanation
Indices: 79517107--79517161 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
79517097 ATAATAATGT
* *
79517107 TATAATATATATTTTTTATAAATTAA
1 TATAATATATATTTATAATAAA-TAA
79517133 TATAATATA-ATTTATAACTAAATAA
1 TATAATATATATTTATAA-TAAATAA
79517158 TATA
1 TATA
79517162 TTTATATAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 13 0.50
26 13 0.50
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (25 bp):
TATAATATATATTTATAATAAATAA
Found at i:79518606 original size:18 final size:18
Alignment explanation
Indices: 79518565--79518600 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
79518555 CCAATCGATA
79518565 GGTACTTGATGTTCTGCC
1 GGTACTTGATGTTCTGCC
79518583 GGTACTTGATGTTCTGCC
1 GGTACTTGATGTTCTGCC
79518601 TTTACTCGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.22, G:0.28, T:0.39
Consensus pattern (18 bp):
GGTACTTGATGTTCTGCC
Found at i:79521145 original size:17 final size:17
Alignment explanation
Indices: 79521123--79521155 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
79521113 TTTTTCAACA
79521123 TCAAATCAAT-ACATATT
1 TCAAAT-AATCACATATT
79521140 TCAAATAATCACATAT
1 TCAAATAATCACATAT
79521156 AATCATACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.33
Consensus pattern (17 bp):
TCAAATAATCACATATT
Found at i:79521765 original size:22 final size:20
Alignment explanation
Indices: 79521740--79521786 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
79521730 ATATATATTT
*
79521740 TTTATAAATTAATATCATATA
1 TTTATAAATTAA-ATAATATA
79521761 CTTTAT-AATTAAATAATATA
1 -TTTATAAATTAAATAATATA
79521781 TTTATA
1 TTTATA
79521787 TAGTTTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 5 0.22
20 7 0.30
21 6 0.26
22 5 0.22
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (20 bp):
TTTATAAATTAAATAATATA
Found at i:79525311 original size:39 final size:40
Alignment explanation
Indices: 79525190--79525321 Score: 160
Period size: 40 Copynumber: 3.3 Consensus size: 40
79525180 GCTACTCGTT
* * **
79525190 CAAATGCCTTCGGGACATAGCCC-GGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCAGAAT-TAGTAACTCGCA
* *
79525230 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCAGAATTAGTAACTCGCA
* * *
79525270 CAAATGCCTTTGGG-CTTAGCCCAGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCAGAATTAGTAACTCGCA
79525309 CAAATGCCTTCGG
1 CAAATGCCTTCGG
79525322 ATCTTAGTCC
Statistics
Matches: 82, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
39 33 0.40
40 46 0.56
41 3 0.04
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCAGAATTAGTAACTCGCA
Found at i:79525334 original size:79 final size:80
Alignment explanation
Indices: 79525190--79525371 Score: 201
Period size: 79 Copynumber: 2.3 Consensus size: 80
79525180 GCTACTCGTT
* **
79525190 CAAATGCCTTCGGGACATAGCCC-GGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCAGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
79525254 GATTTAGTAAC-TCGCA
64 GATATAGTAACTTAGCA
* * **
79525270 CAAATGCCTTTGGG-CTTAGCCCAGAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAA-GCCTTCGGGACTTAGCCCAGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
* *
79525333 GATATGGTCACTTAGCA
64 GATATAGTAACTTAGCA
79525350 CAAAGCCTTCGGGACTTAGCCC
1 CAAAGCCTTCGGGACTTAGCCC
79525372 GGACATCATT
Statistics
Matches: 86, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 52 0.60
80 31 0.36
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCAGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTTAGCA
Found at i:79551741 original size:51 final size:52
Alignment explanation
Indices: 79551663--79551765 Score: 183
Period size: 51 Copynumber: 2.0 Consensus size: 52
79551653 ATTTATTTTA
79551663 CTAACAGGGGGTGGCAAGAGTTGGTGTTGAATTTAAACTCTGATGTTGGAGGG
1 CTAACAGGGGGTGGCAAGAGTTGGTGTTGAATTTAAACT-TGATGTTGGAGGG
79551716 CTAACA-GGGG-GGCAAGAGTTGGTGTTGAATTTAAACTTGATGTTGGAGGG
1 CTAACAGGGGGTGGCAAGAGTTGGTGTTGAATTTAAACTTGATGTTGGAGGG
79551766 ATCCCACATT
Statistics
Matches: 50, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
50 13 0.26
51 27 0.54
52 4 0.08
53 6 0.12
ACGTcount: A:0.25, C:0.09, G:0.38, T:0.28
Consensus pattern (52 bp):
CTAACAGGGGGTGGCAAGAGTTGGTGTTGAATTTAAACTTGATGTTGGAGGG
Found at i:79552281 original size:27 final size:27
Alignment explanation
Indices: 79552251--79552407 Score: 197
Period size: 27 Copynumber: 5.8 Consensus size: 27
79552241 ATTACCAAAG
* *
79552251 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
79552278 TACCCTCGATTTACAGAGTTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
79552305 TACCCTCAATTTATAGAATTACCATAT
1 TACCCTCGATTTACAGAATTACCATTT
* * * *
79552332 TACCCTCGAATTATAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
79552359 TTCTCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
79552386 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
79552408 TGAAATACCC
Statistics
Matches: 109, Mismatches: 21, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 109 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:79552359 original size:81 final size:81
Alignment explanation
Indices: 79552224--79552407 Score: 260
Period size: 81 Copynumber: 2.3 Consensus size: 81
79552214 ATTATTGAAA
* * *
79552224 TACCCTTAATTTGTAAAATTACCAAAGTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATT
1 TACCCTCAATTTATAAAATTACCAAAGTACCCTCGAATTATAGAATTACCGTTTTACCCTCGATT
*
79552289 TACAGAGTTACCATTT
66 TACAGAATTACCATTT
* * * * * *
79552305 TACCCTCAATTTATAGAATTACCATATTACCCTCGAATTATAGAATTATCGTTTTTCTCTCGATT
1 TACCCTCAATTTATAAAATTACCAAAGTACCCTCGAATTATAGAATTACCGTTTTACCCTCGATT
79552370 TACAGAATTACCATTT
66 TACAGAATTACCATTT
* *
79552386 TACCCTCGATTTACAAAATTAC
1 TACCCTCAATTTATAAAATTAC
79552408 TGAAATACCC
Statistics
Matches: 90, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 90 1.00
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.38
Consensus pattern (81 bp):
TACCCTCAATTTATAAAATTACCAAAGTACCCTCGAATTATAGAATTACCGTTTTACCCTCGATT
TACAGAATTACCATTT
Found at i:79552528 original size:27 final size:27
Alignment explanation
Indices: 79552400--79552662 Score: 176
Period size: 27 Copynumber: 9.8 Consensus size: 27
79552390 CTCGATTTAC
** * * **
79552400 AAAATTACTGAAATACCCTTGGTGTAC
1 AAAATTACCAAAATACCCCTGGTTTGT
79552427 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * *
79552454 AAAATTACTAAAATACCACAGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
79552481 AAAATTACCAAAATACTCCTGGCTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
79552508 AAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * * * *
79552535 GAAATTATCGAAATA-CTCTCGATTTGT
1 AAAATTACCAAAATACCCCT-GGTTTGT
* * * **
79552562 GAAA-TATCGAAATACCCCT-GTAGGGT
1 AAAATTACCAAAATACCCCTGGT-TTGT
* * **
79552588 AGAATTACCGAAATACCCCT-GTAGGGT
1 AAAATTACCAAAATACCCCTGGT-TTGT
* * **
79552615 AGAATTACCGAAATACCCCT-GTAGGGT
1 AAAATTACCAAAATACCCCTGGT-TTGT
*
79552642 AAAAATACCAAAATACCCCTG
1 AAAATTACCAAAATACCCCTG
79552663 TAGGGTAGAA
Statistics
Matches: 200, Mismatches: 31, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
25 1 0.00
26 17 0.09
27 182 0.91
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.27
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTGT
Found at i:79552663 original size:27 final size:27
Alignment explanation
Indices: 79552569--79552704 Score: 209
Period size: 27 Copynumber: 5.0 Consensus size: 27
79552559 TGTGAAATAT
79552569 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
79552596 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
79552623 CGAAATACCCCTGTAGGGTAAAAATAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
79552650 CAAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * * *
79552677 CGAGATACCCTTGTGGGGTAAAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
79552704 C
1 C
79552705 ATTTTGCCCC
Statistics
Matches: 99, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 99 1.00
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAC
Found at i:79552944 original size:25 final size:25
Alignment explanation
Indices: 79552906--79552975 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
79552896 AGGAAGTGGT
* *
79552906 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
79552931 AAAAGGGTTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
79552956 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
79552976 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:79552988 original size:24 final size:24
Alignment explanation
Indices: 79552905--79552988 Score: 89
Period size: 25 Copynumber: 3.4 Consensus size: 24
79552895 GAGGAAGTGG
* *
79552905 TAAAAGGGCTATGCCCCAGTTTACC
1 TAAAAGGGCTTTGCCCCAGTTTA-T
* *
79552930 GAAAAGGGTTTTGCCCCAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
*
79552954 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTTTGCCCCAGTTTAT
79552978 TAAAAGAGGCT
1 TAAAAG-GGCT
79552989 AGGCCTCTAG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
23 5 0.10
24 8 0.16
25 37 0.74
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:79555354 original size:27 final size:27
Alignment explanation
Indices: 79555324--79555658 Score: 160
Period size: 27 Copynumber: 12.4 Consensus size: 27
79555314 AATGCCCTTA
* *
79555324 ATTTGTAAAATTACCAAAGTACCCTCG
1 ATTTATAAAATTACCAAATTACCCTCG
* ***
79555351 ATTTATAGAATTACCGTTTTACCCTCG
1 ATTTATAAAATTACCAAATTACCCTCG
* * * **
79555378 ATTTACAGAGTTACCATTTTACCCTCG
1 ATTTATAAAATTACCAAATTACCCTCG
* ** *
79555405 ATTTATAGAATTACCATTTTACCCTCA
1 ATTTATAAAATTACCAAATTACCCTCG
* * *** * *
79555432 ATTTATAGAATTATCGTTTTTCCTTCG
1 ATTTATAAAATTACCAAATTACCCTCG
* **
79555459 ATTTACAAAATTACCATTTTACCCTCG
1 ATTTATAAAATTACCAAATTACCCTCG
* * *
79555486 ATTTACAAAATTACTGAAA-TACCCTTG
1 ATTTATAAAATTAC-CAAATTACCCTCG
* * *
79555513 GTTTACAAAATTACCAAAATACCC-CTG
1 ATTTATAAAATTACCAAATTACCCTC-G
* * *
79555540 GTTTATAAAATTACTAAAATACCACT-G
1 ATTTATAAAATTACCAAATTACC-CTCG
* * *
79555567 GTTTGTAAAATTACCAAAATACTCCT-G
1 ATTTATAAAATTACCAAATTAC-CCTCG
** * *
79555594 GCTTGTAAAATTACCAAAATACCC-CTG
1 ATTTATAAAATTACCAAATTACCCTC-G
* * * *
79555621 ATTTGTGAAATTATCGAAA-TACTCTCG
1 ATTTATAAAATTA-CCAAATTACCCTCG
*
79555648 ATTTGTAAAAT
1 ATTTATAAAAT
79555659 ATCGAAATAC
Statistics
Matches: 257, Mismatches: 41, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
26 5 0.02
27 244 0.95
28 8 0.03
ACGTcount: A:0.35, C:0.20, G:0.09, T:0.36
Consensus pattern (27 bp):
ATTTATAAAATTACCAAATTACCCTCG
Found at i:79555401 original size:54 final size:54
Alignment explanation
Indices: 79555343--79555499 Score: 215
Period size: 54 Copynumber: 2.9 Consensus size: 54
79555333 ATTACCAAAG
* *
79555343 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAGAGTTACCATTT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTT
* * * *
79555397 TACCCTCGATTTATAGAATTACCATTTTACCCTCAATTTATAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTT
* * * * *
79555451 TTCCTTCGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTAC
79555500 TGAAATACCC
Statistics
Matches: 89, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 89 1.00
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (54 bp):
TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTT
Found at i:79555473 original size:81 final size:81
Alignment explanation
Indices: 79555343--79555499 Score: 242
Period size: 81 Copynumber: 1.9 Consensus size: 81
79555333 ATTACCAAAG
* * *
79555343 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAGAGTTACCATTTTACCCTCGATT
1 TACCCTCAATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
* *
79555408 TATAGAATTACCATTT
66 TACAAAATTACCATTT
* * *
79555424 TACCCTCAATTTATAGAATTATCGTTTTTCCTTCGATTTACAAAATTACCATTTTACCCTCGATT
1 TACCCTCAATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
79555489 TACAAAATTAC
66 TACAAAATTAC
79555500 TGAAATACCC
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 68 1.00
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (81 bp):
TACCCTCAATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
TACAAAATTACCATTT
Found at i:79555509 original size:81 final size:80
Alignment explanation
Indices: 79555330--79555510 Score: 236
Period size: 81 Copynumber: 2.2 Consensus size: 80
79555320 CTTAATTTGT
* * *
79555330 AAAATTACCAAAGTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAGAGTTACCAT
1 AAAATTACCAAA-TACCCTCAATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAT
*
79555395 TTTACCCTCGATTTAT
65 TTTACCCTCGATTTAC
* ** * * *
79555411 AGAATTACCATTTTACCCTCAATTTATAGAATTATCGTTTTTCCTTCGATTTACAAAATTACCAT
1 AAAATTACCA-AATACCCTCAATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACCAT
79555476 TTTACCCTCGATTTAC
65 TTTACCCTCGATTTAC
*
79555492 AAAATTACTGAAATACCCT
1 AAAATTAC-CAAATACCCT
79555511 TGGTTTACAA
Statistics
Matches: 84, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
81 83 0.99
82 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.38
Consensus pattern (80 bp):
AAAATTACCAAATACCCTCAATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATT
TTACCCTCGATTTAC
Found at i:79555626 original size:54 final size:54
Alignment explanation
Indices: 79555492--79555644 Score: 189
Period size: 54 Copynumber: 2.8 Consensus size: 54
79555482 CTCGATTTAC
* * ** * *
79555492 AAAATTACTGAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTAT
1 AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACTCCTGGCTTAT
* *
79555546 AAAATTACTAAAATACCACTGGTTTGTAAAATTACCAAAATACTCCTGGCTTGT
1 AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACTCCTGGCTTAT
* * * * *
79555600 AAAATTACCAAAATACCCCTGATTTGTGAAATTATCGAAATACTC
1 AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACTC
79555645 TCGATTTGTA
Statistics
Matches: 85, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 85 1.00
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.31
Consensus pattern (54 bp):
AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACTCCTGGCTTAT
Found at i:79555696 original size:27 final size:27
Alignment explanation
Indices: 79555658--79555794 Score: 220
Period size: 27 Copynumber: 5.1 Consensus size: 27
79555648 ATTTGTAAAA
79555658 TATCGAAATACCCCTGTAGGGTAGAAT
1 TATCGAAATACCCCTGTAGGGTAGAAT
79555685 TATCGAAATACCCCTGTAGGGTAGAAT
1 TATCGAAATACCCCTGTAGGGTAGAAT
79555712 TATCGAAATACCCCTGTAGGGTAGAAT
1 TATCGAAATACCCCTGTAGGGTAGAAT
*
79555739 TACCGAAATACCCCTGTAGGGTAGAAT
1 TATCGAAATACCCCTGTAGGGTAGAAT
* * * * *
79555766 TACCGAGATACCCTTGTGGGGTAAAAT
1 TATCGAAATACCCCTGTAGGGTAGAAT
79555793 TA
1 TA
79555795 CCATTTTGCC
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 105 1.00
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.26
Consensus pattern (27 bp):
TATCGAAATACCCCTGTAGGGTAGAAT
Found at i:79556036 original size:25 final size:25
Alignment explanation
Indices: 79555998--79556067 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
79555988 AGGAAGTGGT
* *
79555998 AAAAGGGCTATGCCCCAGTTTA-CTG
1 AAAAGGGCTTTGCCCCAGTTTATC-A
* *
79556023 AAAAGGGTTTTGCCTCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
79556048 AAAAGAGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
79556068 ATTAAAAGAG
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
25 36 0.97
26 1 0.03
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:79558441 original size:27 final size:27
Alignment explanation
Indices: 79558397--79558763 Score: 80
Period size: 27 Copynumber: 13.7 Consensus size: 27
79558387 TTAGTTTACC
* * *
79558397 AAATTACTAAAATGCCCTCAATTTGTA
1 AAATTACCAAAATACCCTCAATTTATA
* *
79558424 AAATTACCAAAGTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCAATTTATA
* **** *
79558451 GAATTACCGTTTTACCCTCGATTT-TCA
1 AAATTACCAAAATACCCTCAATTTAT-A
* * *** *
79558478 GAGTTACCATTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCAATTTATA
* * *** *
79558505 GAGTTACCATTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCAATTTATA
* **** * *
79558532 GAATTACCGTTTTACCATCGATTTATA
1 AAATTACCAAAATACCCTCAATTTATA
* * *** * * *
79558559 GAATTTCCATTTTACCCCCGATTTACA
1 AAATTACCAAAATACCCTCAATTTATA
* *** *
79558586 AAATTACTAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCAATTTATA
** *
79558613 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-AATTTATA
* * ** *
79558640 AAATTACTAAAATA-CGTCTGGTTTGTA
1 AAATTACCAAAATACCCTC-AATTTATA
** *
79558667 AAATTACCAAAATATCCCT-AGCTTGTA
1 AAATTACCAAAATA-CCCTCAATTTATA
** * *
79558694 AAATTACCAAAATACCC-CTGTTTGTG
1 AAATTACCAAAATACCCTCAATTTATA
* * * *
79558720 AAATTATCGAAATACTCTCAATTTGTA
1 AAATTACCAAAATACCCTCAATTTATA
* *
79558747 AAA-TATCGAAATACCCT
1 AAATTACCAAAATACCCT
79558764 TGTAGGGTAG
Statistics
Matches: 283, Mismatches: 49, Indels: 17
0.81 0.14 0.05
Matches are distributed among these distances:
26 37 0.13
27 243 0.86
28 1 0.00
29 2 0.01
ACGTcount: A:0.35, C:0.21, G:0.10, T:0.35
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCAATTTATA
Found at i:79558485 original size:54 final size:54
Alignment explanation
Indices: 79558436--79558592 Score: 217
Period size: 54 Copynumber: 2.9 Consensus size: 54
79558426 ATTACCAAAG
* *
79558436 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTT-TCAGAGTTACCATTT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTAT-AGAATTACCATTT
* *
79558490 TACCCTCGATTTATAGAGTTACCATTTTACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTT
* * * * *
79558544 TACCATCGATTTATAGAATTTCCATTTTACCCCCGATTTACAAAATTAC
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTAC
79558593 TAAAATACCC
Statistics
Matches: 92, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
54 91 0.99
55 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.10, T:0.39
Consensus pattern (54 bp):
TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTT
Found at i:79558620 original size:81 final size:81
Alignment explanation
Indices: 79558423--79558603 Score: 238
Period size: 81 Copynumber: 2.2 Consensus size: 81
79558413 CTCAATTTGT
* * *
79558423 AAAATTACCAAAGTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTTCAGAGTTACCAT
1 AAAATTACCAAAATACCCTCGATTTATAGAATTACCGTTTTACCATCGATTTTCAGAATTACCAT
* *
79558488 TTTACCCTCGATTTAT
66 TTTACCCCCGATTTAC
* * *** *
79558504 AGAGTTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCATCGATTTAT-AGAATTTCCA
1 AAAATTACCAAAATACCCTCGATTTATAGAATTACCGTTTTACCATCGATTT-TCAGAATTACCA
79558568 TTTTACCCCCGATTTAC
65 TTTTACCCCCGATTTAC
*
79558585 AAAATTACTAAAATACCCT
1 AAAATTACCAAAATACCCT
79558604 TGGTTTACAA
Statistics
Matches: 83, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
81 82 0.99
82 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.37
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTCGATTTATAGAATTACCGTTTTACCATCGATTTTCAGAATTACCAT
TTTACCCCCGATTTAC
Found at i:79558629 original size:54 final size:54
Alignment explanation
Indices: 79558571--79558680 Score: 141
Period size: 54 Copynumber: 2.0 Consensus size: 54
79558561 ATTTCCATTT
79558571 TACCCCCGATTTACAAAATTACTAAAATACC-CTTGGTTTACAAAATTACCAAAA
1 TACCCCCGATTTACAAAATTACTAAAATACCTC-TGGTTTACAAAATTACCAAAA
* * ** * **
79558625 TACCCCTGGTTTGTAAAATTACTAAAATACGTCTGGTTTGTAAAATTACCAAAA
1 TACCCCCGATTTACAAAATTACTAAAATACCTCTGGTTTACAAAATTACCAAAA
79558679 TA
1 TA
79558681 TCCCTAGCTT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
54 47 0.98
55 1 0.02
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (54 bp):
TACCCCCGATTTACAAAATTACTAAAATACCTCTGGTTTACAAAATTACCAAAA
Found at i:79558693 original size:54 final size:53
Alignment explanation
Indices: 79558585--79558734 Score: 176
Period size: 54 Copynumber: 2.8 Consensus size: 53
79558575 CCCGATTTAC
** * *
79558585 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACTAAAATACCC-TGGTTTGTAAAATTACCAAAATACCCCTAGCTTGT
* *
79558639 AAAATTACTAAAATACGTCTGGTTTGTAAAATTACCAAAATATCCCTAGCTTGT
1 AAAATTACTAAAATAC-CCTGGTTTGTAAAATTACCAAAATACCCCTAGCTTGT
* * * *
79558693 AAAATTACCAAAATACCCCT-GTTTGTGAAATTATCGAAATAC
1 AAAATTACTAAAATA-CCCTGGTTTGTAAAATTACCAAAATAC
79558735 TCTCAATTTG
Statistics
Matches: 82, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
53 18 0.22
54 62 0.76
55 2 0.02
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (53 bp):
AAAATTACTAAAATACCCTGGTTTGTAAAATTACCAAAATACCCCTAGCTTGT
Found at i:79558797 original size:27 final size:27
Alignment explanation
Indices: 79558753--79558976 Score: 322
Period size: 27 Copynumber: 8.3 Consensus size: 27
79558743 TGTAAAATAT
*
79558753 CGAAATACCCTTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
**
79558780 CGAAATACCCCTACAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * *
79558807 CGAATTACCCCTATAGGGTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTAC
79558834 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
79558861 TGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
79558888 TGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * *
79558915 CGAAATACCCTTGTAGGGTAAAAATAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
**
79558942 TAAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
79558969 CGAGATAC
1 CGAAATAC
79558977 TCTTGTGTGT
Statistics
Matches: 175, Mismatches: 22, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 175 1.00
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAC
Found at i:79559237 original size:25 final size:24
Alignment explanation
Indices: 79559199--79559267 Score: 93
Period size: 25 Copynumber: 2.8 Consensus size: 24
79559189 AGGAAGTGGT
* *
79559199 AAAAGGGCTATGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCTAGTTTACC
* *
79559223 GAGAAGGGCTTTGCCCTAGTTTATC
1 -AAAAGGGCTTTGCCCTAGTTTACC
79559248 AAAAGGGCTTTGCCCTAGTT
1 AAAAGGGCTTTGCCCTAGTT
79559268 ATTAAAAGAG
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
24 19 0.49
25 20 0.51
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCTAGTTTACC
Found at i:79559274 original size:23 final size:24
Alignment explanation
Indices: 79559199--79559280 Score: 94
Period size: 24 Copynumber: 3.4 Consensus size: 24
79559189 AGGAAGTGGT
* * *
79559199 AAAAGGGCTATGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCTAGTTTATC
*
79559223 GAGAAGGGCTTTGCCCTAGTTTATC
1 -AAAAGGGCTTTGCCCTAGTTTATC
*
79559248 AAAAGGGCTTTGCCCTAG-TTATT
1 AAAAGGGCTTTGCCCTAGTTTATC
79559271 AAAAGAGGCT
1 AAAAG-GGCT
79559281 AGGCCTCCAG
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
23 9 0.18
24 21 0.42
25 20 0.40
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCTAGTTTATC
Found at i:79561605 original size:23 final size:26
Alignment explanation
Indices: 79561568--79561624 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 26
79561558 TGGTCATTAT
*
79561568 AGAATTCACTTTACAAA-T-TTTTTAG
1 AGAATTCAC-TTACAAAGTCTTTATAG
79561593 AGAATTCAC-TACAAAGTCTTTATAG
1 AGAATTCACTTACAAAGTCTTTATAG
79561618 AGAATTC
1 AGAATTC
79561625 GTATAGAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 6 0.21
24 1 0.03
25 22 0.76
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.37
Consensus pattern (26 bp):
AGAATTCACTTACAAAGTCTTTATAG
Found at i:79570997 original size:25 final size:25
Alignment explanation
Indices: 79570955--79571024 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
79570945 CTGTACATGT
* * *
79570955 ATGCTCACACAAGTTGTGAATCAGA
1 ATGCTCACACGAGCTGTGAATCAAA
*
79570980 ATGCTCACATGAGCTGTGAATCAAA
1 ATGCTCACACGAGCTGTGAATCAAA
*
79571005 ATGCGCACACGAGCTGTGAA
1 ATGCTCACACGAGCTGTGAA
79571025 AATGGGCCTG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.21
Consensus pattern (25 bp):
ATGCTCACACGAGCTGTGAATCAAA
Found at i:79577177 original size:27 final size:27
Alignment explanation
Indices: 79577147--79577221 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 27
79577137 CTCATATCTA
* **
79577147 TAGGCTAGTATTGTTGAAATACCCCTG
1 TAGGCTAGAATTACTGAAATACCCCTG
* *
79577174 TAGGGTAGAATTACTGAAATGCCCCTG
1 TAGGCTAGAATTACTGAAATACCCCTG
* *
79577201 TAGGATAGAATTACTAAAATA
1 TAGGCTAGAATTACTGAAATA
79577222 AATTGGTTTA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (27 bp):
TAGGCTAGAATTACTGAAATACCCCTG
Found at i:79577290 original size:27 final size:27
Alignment explanation
Indices: 79577254--79577418 Score: 122
Period size: 27 Copynumber: 6.1 Consensus size: 27
79577244 ATACCCTTGG
*
79577254 TTTGTAAAATTACCAAAATACCCCTAA
1 TTTGTGAAATTACCAAAATACCCCTAA
* *** *
79577281 TCTGTGAAATTATTGAAATA-CCCTCGA
1 TTTGTGAAATTACCAAAATACCCCT-AA
* * *
79577308 CTTGTAAAATTACCGAAATA-CCCTCAA
1 TTTGTGAAATTACCAAAATACCCCT-AA
* *
79577335 TTTATAAAATTACCAAAATACCCC-AGA
1 TTTGTGAAATTACCAAAATACCCCTA-A
* *
79577362 TTTG-GAAAATTACCAAAATACCCTTGA
1 TTTGTG-AAATTACCAAAATACCCCTAA
* * *
79577389 TTTGAGAAATTACAAAAATACCCCTGA
1 TTTGTGAAATTACCAAAATACCCCTAA
79577416 TTT
1 TTT
79577419 ACAAAATTAT
Statistics
Matches: 111, Mismatches: 21, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
26 5 0.05
27 102 0.92
28 4 0.04
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
TTTGTGAAATTACCAAAATACCCCTAA
Found at i:79577385 original size:54 final size:53
Alignment explanation
Indices: 79577254--79577427 Score: 163
Period size: 54 Copynumber: 3.2 Consensus size: 53
79577244 ATACCCTTGG
* * ***
79577254 TTTGTAAAATTACCAAAATACCC-CTAATCTGTGAAATTATTGAAATACCCTCGA
1 TTTGTAAAATTACCAAAATACCCTC-AATTTATGAAATTACAAAAATACCC-CGA
* * * *
79577308 CTTGTAAAATTACCGAAATACCCTCAATTTATAAAATTACCAAAATACCCCAGA
1 TTTGTAAAATTACCAAAATACCCTCAATTTATGAAATTACAAAAATACCCC-GA
* **
79577362 TTTGGAAAATTACCAAAATACCCTTGATTTGA-GAAATTACAAAAATACCCCTGA
1 TTTGTAAAATTACCAAAATACCCTCAATTT-ATGAAATTACAAAAATACCCC-GA
**
79577416 TTTACAAAATTA
1 TTTGTAAAATTA
79577428 TAGAAATACC
Statistics
Matches: 99, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
53 1 0.01
54 96 0.97
55 2 0.02
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.29
Consensus pattern (53 bp):
TTTGTAAAATTACCAAAATACCCTCAATTTATGAAATTACAAAAATACCCCGA
Found at i:79577419 original size:81 final size:81
Alignment explanation
Indices: 79577243--79577427 Score: 189
Period size: 81 Copynumber: 2.3 Consensus size: 81
79577233 AAAATTACTG
* * * ***
79577243 AATACCCTTGGTTTGTAAAATTACCAAAATACCCCTAATCTGTGAAATTATTGAAATACCCTCGA
1 AATACCCCTGATTTATAAAATTACCAAAATACCCCTAATCTGTGAAATTACCAAAATACCCTCGA
**
79577308 CTTGTAAAATTACCGA
66 CTTGTAAAATTACAAA
* *
79577324 AATA-CCCTCAATTTATAAAATTACCAAAATACCCC-AGATTTG-GAAAATTACCAAAATACCCT
1 AATACCCCT-GATTTATAAAATTACCAAAATACCCCTA-ATCTGTG-AAATTACCAAAATACCCT
* *
79577386 TGATTTG-AGAAATTACAAA
63 CGACTTGTA-AAATTACAAA
*
79577405 AATACCCCTGATTTACAAAATTA
1 AATACCCCTGATTTATAAAATTA
79577428 TAGAAATACC
Statistics
Matches: 85, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
80 6 0.07
81 75 0.88
82 4 0.05
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.29
Consensus pattern (81 bp):
AATACCCCTGATTTATAAAATTACCAAAATACCCCTAATCTGTGAAATTACCAAAATACCCTCGA
CTTGTAAAATTACAAA
Found at i:79577425 original size:27 final size:27
Alignment explanation
Indices: 79577334--79577465 Score: 115
Period size: 27 Copynumber: 4.9 Consensus size: 27
79577324 AATACCCTCA
* * *
79577334 ATTTATAAAATTACCAAAATACCCCAG
1 ATTTACAAAATTACAAAAATACCCCTG
** * *
79577361 ATTTGGAAAATTACCAAAATACCCTTG
1 ATTTACAAAATTACAAAAATACCCCTG
*
79577388 ATTTGA-GAAATTACAAAAATACCCCTG
1 ATTT-ACAAAATTACAAAAATACCCCTG
* * *
79577415 ATTTACAAAATTATAGAAATACCCTTG
1 ATTTACAAAATTACAAAAATACCCCTG
*
79577442 ACTTT-CAAAAATTACAGAAATACC
1 A-TTTAC-AAAATTACAAAAATACC
79577466 ATTGGTTTGC
Statistics
Matches: 88, Mismatches: 13, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 68 0.77
28 19 0.22
ACGTcount: A:0.45, C:0.19, G:0.08, T:0.28
Consensus pattern (27 bp):
ATTTACAAAATTACAAAAATACCCCTG
Found at i:79577435 original size:54 final size:54
Alignment explanation
Indices: 79577296--79577501 Score: 184
Period size: 54 Copynumber: 3.8 Consensus size: 54
79577286 GAAATTATTG
* * * ** *
79577296 AAATA-CCCTCGACTTGTAAAATTACCGAAATACCCTCAATTT-ATAAAATTACCA
1 AAATACCCCT-GATTTGCAAAATTACAGAAATACCCTTGATTTGA-AAAATTACAA
* * *
79577350 AAATACCCCAGATTTGGAAAATTACCA-AAATACCCTTGATTTGAGAAATTACAA
1 AAATACCCCTGATTTGCAAAATTA-CAGAAATACCCTTGATTTGAAAAATTACAA
* * * *
79577404 AAATACCCCTGATTTACAAAATTATAGAAATACCCTTGACTTTCAAAAATTACAG
1 AAATACCCCTGATTTGCAAAATTACAGAAATACCCTTGA-TTTGAAAAATTACAA
** * * * *
79577459 AAATACCATTGGTTTGCAAAATTGCCGAAATACCCTTGGTTTG
1 AAATACCCCTGATTTGCAAAATTACAGAAATACCCTTGATTTG
79577502 TGGATTTACC
Statistics
Matches: 123, Mismatches: 24, Indels: 10
0.78 0.15 0.06
Matches are distributed among these distances:
53 1 0.01
54 74 0.60
55 48 0.39
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (54 bp):
AAATACCCCTGATTTGCAAAATTACAGAAATACCCTTGATTTGAAAAATTACAA
Found at i:79577488 original size:27 final size:27
Alignment explanation
Indices: 79577362--79577501 Score: 97
Period size: 27 Copynumber: 5.1 Consensus size: 27
79577352 ATACCCCAGA
* * *
79577362 TTTGGAAAATTACCA-AAATACCCTTGA
1 TTTGCAAAATTA-CAGAAATACCATTGG
* ** *
79577389 TTTG-AGAAATTACAAAAATACCCCTGA
1 TTTGCA-AAATTACAGAAATACCATTGG
* * * *
79577416 TTTACAAAATTATAGAAATACCCTTGAC
1 TTTGCAAAATTACAGAAATACCATTG-G
79577444 TTT-CAAAAATTACAGAAATACCATTGG
1 TTTGC-AAAATTACAGAAATACCATTGG
* * *
79577471 TTTGCAAAATTGCCGAAATACCCTTGG
1 TTTGCAAAATTACAGAAATACCATTGG
79577498 TTTG
1 TTTG
79577502 TGGATTTACC
Statistics
Matches: 95, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
26 3 0.03
27 68 0.72
28 24 0.25
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (27 bp):
TTTGCAAAATTACAGAAATACCATTGG
Found at i:79577804 original size:41 final size:42
Alignment explanation
Indices: 79577758--79577879 Score: 149
Period size: 41 Copynumber: 3.0 Consensus size: 42
79577748 TGGAGGAAGA
*
79577758 AATTGAGGATCGCATGGTTACTTGACGACCGTGGATCCACT-
1 AATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACTC
* * * *
79577799 GATTGAAGATCGCATGATTGCTTGATGACCGTGGATCCA-TC
1 AATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACTC
* * **
79577840 AATTAAGGATCACATGGTTGCTTCTCGACCGTGGATCCAC
1 AATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCAC
79577880 CGATGGCTTT
Statistics
Matches: 66, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
40 1 0.02
41 65 0.98
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (42 bp):
AATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACTC
Found at i:79581556 original size:22 final size:23
Alignment explanation
Indices: 79581524--79581567 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
79581514 CCTGTGGGAA
79581524 ATTATCAAAATTAATCAAAATTT
1 ATTATCAAAATTAATCAAAATTT
*
79581547 ATTAT-AAAATTAATTAAAATT
1 ATTATCAAAATTAATCAAAATT
79581568 CAATATCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (23 bp):
ATTATCAAAATTAATCAAAATTT
Found at i:79584736 original size:24 final size:24
Alignment explanation
Indices: 79584686--79584739 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
79584676 AATCGAATTT
*
79584686 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
79584710 GCACACATAGTGCCATAGT-ACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
79584734 GCACAC
1 GCACAC
79584740 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 5 0.19
26 3 0.11
ACGTcount: A:0.30, C:0.37, G:0.17, T:0.17
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:79588222 original size:27 final size:27
Alignment explanation
Indices: 79588192--79588614 Score: 521
Period size: 27 Copynumber: 15.8 Consensus size: 27
79588182 ATTACCAAAG
* * *
79588192 TACCATCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* * *
79588219 TACCTTTGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* **
79588246 TACCCTC-A---ATTGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCATTT
*
79588269 TACCCTCAATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* **
79588296 TACCCTCAATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
79588323 TACCCTCGATTCACAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
79588350 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
*
79588377 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* * *
79588404 TACCCTCGATTTACAGAATTACTACTT
1 TACCCTCGATTTATAGAATTACCATTT
* * *
79588431 TACCTTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
79588458 TACCTTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
79588485 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
** * *
79588512 TACCCTTAATTTACAAAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
79588539 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* * *
79588566 TACCTTCGACTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
79588593 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTATAGAATTAC
79588615 TGAAATACCC
Statistics
Matches: 346, Mismatches: 46, Indels: 8
0.87 0.12 0.02
Matches are distributed among these distances:
23 20 0.06
24 1 0.00
26 1 0.00
27 324 0.94
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCATTT
Found at i:79588623 original size:27 final size:27
Alignment explanation
Indices: 79588269--79588798 Score: 240
Period size: 27 Copynumber: 19.6 Consensus size: 27
79588259 ATTACTGTTT
* * ***
79588269 TACCCTCAATTTATAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACCAAAA
* * *****
79588296 TACCCTCAATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAAAATTACCAAAA
* * * ***
79588323 TACCCTCGATTCACAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACCAAAA
* ***
79588350 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACCAAAA
* ****
79588377 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACCAAAA
* * * ***
79588404 TACCCTCGATTTACAGAATTACTACTT
1 TACCCTCGATTTATAAAATTACCAAAA
* * ***
79588431 TACCTTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTATAAAATTACCAAAA
* ***
79588458 TACCTTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTATAAAATTACCAAAA
* ***
79588485 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACCAAAA
** * ***
79588512 TACCCTTAATTTACAAAATTACCATTT
1 TACCCTCGATTTATAAAATTACCAAAA
* ***
79588539 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACCAAAA
* * * ****
79588566 TACCTTCGACTTATAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACCAAAA
* **
79588593 TACCCTCGATTTACAAAATTACTGAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * *
79588620 TACCCTTGGTTTAAAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
79588647 TACCCTCGA-TTAGTAAAATTACCAAAA
1 TACCCTCGATTTA-TAAAATTACCAAAA
* * *
79588674 TACCC-CTGGTTTGTAAAATTACTAAAA
1 TACCCTC-GATTTATAAAATTACCAAAA
* *
79588701 TACCC-CTGGTTTGTAAAATTACCAAAA
1 TACCCTC-GATTTATAAAATTACCAAAA
** *
79588728 TACCC-CTGGCTTGTAAAATTACCAAAA
1 TACCCTC-GATTTATAAAATTACCAAAA
* * * * *
79588755 TACGCTTGATTTGTGAAATTATCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
79588782 TACTCTCGATTTGTAAA
1 TACCCTCGATTTATAAA
79588799 GTATCGAAAT
Statistics
Matches: 437, Mismatches: 62, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
26 4 0.01
27 431 0.99
28 2 0.00
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.37
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCAAAA
Found at i:79588810 original size:26 final size:27
Alignment explanation
Indices: 79588750--79588810 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
79588740 GTAAAATTAC
* *
79588750 CAAAATACGCTTGATTTGTGAAATTAT
1 CAAAATACGCTCGATTTGTGAAAGTAT
*
79588777 CAAAATACTCTCGATTTGT-AAAGTAT
1 CAAAATACGCTCGATTTGTGAAAGTAT
*
79588803 CGAAATAC
1 CAAAATAC
79588811 CCCTATAGGG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 13 0.43
27 17 0.57
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (27 bp):
CAAAATACGCTCGATTTGTGAAAGTAT
Found at i:79588846 original size:27 final size:27
Alignment explanation
Indices: 79588804--79588988 Score: 197
Period size: 27 Copynumber: 7.0 Consensus size: 27
79588794 GTAAAGTATC
* *
79588804 GAAATACCCCTATAGGGTAGAATTACT
1 GAAATAACCCTGTAGGGTAGAATTACT
*
79588831 AAAATAACCCTGTAGGGTAGAATTACCT
1 GAAATAACCCTGTAGGGTAGAATTA-CT
*
79588859 -AAATACCCCTGTAGGGTAGAATTACT
1 GAAATAACCCTGTAGGGTAGAATTACT
79588885 GAAAT-ACTCCTGTAGGGTAGAATTA-T
1 GAAATAAC-CCTGTAGGGTAGAATTACT
79588911 CGAAAT-ACCCTTGTAGGGTAGAAATT-CT
1 -GAAATAACCC-TGTAGGGTAG-AATTACT
* *
79588939 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATAACCCTGTAGGGTAGAATTACT
* *
79588966 GAGAT-ACCCT-T-GGGTAAAATTAC
1 GAAATAACCCTGTAGGGTAGAATTAC
79588989 CATTTTGCCC
Statistics
Matches: 139, Mismatches: 10, Indels: 21
0.82 0.06 0.12
Matches are distributed among these distances:
24 11 0.08
25 1 0.01
26 14 0.10
27 103 0.74
28 10 0.07
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (27 bp):
GAAATAACCCTGTAGGGTAGAATTACT
Found at i:79588909 original size:81 final size:80
Alignment explanation
Indices: 79588803--79588988 Score: 231
Period size: 81 Copynumber: 2.3 Consensus size: 80
79588793 TGTAAAGTAT
79588803 CGAAATACCCCTATAGGGTAGAATTACT-AAAATAACCC-TGTAGGGTAG-AATTACCT-AAATA
1 CGAAATA-CCCT-TAGGGTAGAATTACTCAAAAT-ACCCTTGTAGGGTAGAAATT--CTGAAATA
79588864 CCCCTGTAGGGTAGAATTAC
61 CCCCTGTAGGGTAGAATTAC
* *
79588884 TGAAATACTCCTGTAGGGTAGAATTA-TCGAAATACCCTTGTAGGGTAGAAATTCTGAAATACCC
1 CGAAATAC-CCT-TAGGGTAGAATTACTCAAAATACCCTTGTAGGGTAGAAATTCTGAAATACCC
79588948 CTGTAGGGTAGAATTAC
64 CTGTAGGGTAGAATTAC
* *
79588965 CGAGATACCCTT-GGGTAAAATTAC
1 CGAAATACCCTTAGGGTAGAATTAC
79588989 CATTTTGCCC
Statistics
Matches: 93, Mismatches: 6, Indels: 14
0.82 0.05 0.12
Matches are distributed among these distances:
78 10 0.11
79 1 0.01
80 11 0.12
81 67 0.72
82 4 0.04
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.26
Consensus pattern (80 bp):
CGAAATACCCTTAGGGTAGAATTACTCAAAATACCCTTGTAGGGTAGAAATTCTGAAATACCCCT
GTAGGGTAGAATTAC
Found at i:79588977 original size:54 final size:54
Alignment explanation
Indices: 79588803--79588974 Score: 256
Period size: 54 Copynumber: 3.2 Consensus size: 54
79588793 TGTAAAGTAT
* * *
79588803 CGAAATACCCCTATAGGGTAGAATTACTAAAATAACCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTAC
* * *
79588857 CTAAATACCCCTGTAGGGTAGAATTACTGAAATACTCCTGTAGGGTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTAC
*
79588911 CGAAATACCCTTGTAGGGTAGAAATT-CTGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAG-AATTACTGAAATACCCCTGTAGGGTAGAATTAC
*
79588965 CGAGATACCC
1 CGAAATACCC
79588975 TTGGGTAAAA
Statistics
Matches: 106, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
54 102 0.96
55 4 0.04
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (54 bp):
CGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTAC
Found at i:79589228 original size:25 final size:25
Alignment explanation
Indices: 79589194--79589288 Score: 154
Period size: 25 Copynumber: 3.8 Consensus size: 25
79589184 AGGAAGTGCT
*
79589194 AAAAGGGCTTTGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
79589219 AAAAGGGCTTTGCCTCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
* *
79589244 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCG
79589269 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
79589289 ATTAAAAGAG
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 65 1.00
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:79596053 original size:16 final size:15
Alignment explanation
Indices: 79596028--79596061 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
79596018 ATTGCCTATT
79596028 TTTTTATATTATATA
1 TTTTTATATTATATA
*
79596043 TTTTTATTATTATTTA
1 TTTTTA-TATTATATA
79596059 TTT
1 TTT
79596062 ATTAACCCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTTATATTATATA
Found at i:79600501 original size:6 final size:6
Alignment explanation
Indices: 79600490--79600515 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
79600480 ATTCCATCTA
79600490 TTCATT TTCATT TTCATT TTCATT TT
1 TTCATT TTCATT TTCATT TTCATT TT
79600516 GGAGTAGACC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (6 bp):
TTCATT
Found at i:79603006 original size:48 final size:48
Alignment explanation
Indices: 79602728--79603003 Score: 333
Period size: 48 Copynumber: 5.8 Consensus size: 48
79602718 TAAAGCACCA
* ** * *
79602728 ATGCCATGTCCTC-GACATGGTCTTACATGAATC-CACATATCATCGCCA
1 ATGCCATGTCC-CAGACATGGTCTTACA-CAGGCACATATATCATCGCCG
* * * ** * *
79602776 ATTCCATGTCCTAGACATGGTCTTACATGAATC-CACATATCATTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACA-CAGGCACATATATCATCGCCG
*
79602824 ATGCCATGTCCCAGACATGGTCTTACACTGGCACATATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCG
* *
79602872 ATGCCATGTCCCAGATATGGTCTTACACTGGCACATATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCG
*
79602920 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATTTATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCG
** *
79602968 ATGTGATGTCCCAGACATGGTTTTACACAGGCACAT
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
79603004 TTACAATGGT
Statistics
Matches: 207, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
47 1 0.00
48 206 1.00
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCG
Found at i:79603815 original size:13 final size:13
Alignment explanation
Indices: 79603783--79603817 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
79603773 AAATATTTAA
79603783 CTTGTTTTTAATT
1 CTTGTTTTTAATT
*
79603796 ATGTGTTTTTAATT
1 CT-TGTTTTTAATT
79603810 CTTGTTTT
1 CTTGTTTT
79603818 GATATCCTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.14, C:0.06, G:0.11, T:0.69
Consensus pattern (13 bp):
CTTGTTTTTAATT
Found at i:79610022 original size:47 final size:47
Alignment explanation
Indices: 79609964--79610166 Score: 284
Period size: 47 Copynumber: 4.3 Consensus size: 47
79609954 TGTACAAGTA
* *
79609964 TATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGAACATG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* *
79610011 TGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* *
79610058 CATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TG
* * *
79610105 TATATATGTGATAAGGTCGAATGGCCAATGTGATGGATGTGGAA-GTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT-GAACATG
*
79610152 TATAAATGTGATAAG
1 TATATATGTGATAAG
79610167 TCCCGAAGGG
Statistics
Matches: 140, Mismatches: 14, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
46 1 0.01
47 136 0.97
48 3 0.02
ACGTcount: A:0.33, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
Found at i:79610138 original size:22 final size:22
Alignment explanation
Indices: 79610017--79610138 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
79610007 CATGTGTATG
*
79610017 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGTCGAATGGCCAA
* *
79610039 TGTGATGAATGT-GAACAT-GCATATA
1 TGTGAT-AAGGTCG-A-ATGGC-CA-A
* *
79610064 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGTCGAATGGCCAA
* ***
79610086 TGTGATGAATGT-GAAAGTGTATATA
1 TGTGAT-AAGGTCG-AA-TGGCCA-A
79610111 TGTGATAAGGTCGAATGGCCAA
1 TGTGATAAGGTCGAATGGCCAA
79610133 TGTGAT
1 TGTGAT
79610139 GGATGTGGAA
Statistics
Matches: 71, Mismatches: 17, Indels: 24
0.63 0.15 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 18 0.25
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.26
Consensus pattern (22 bp):
TGTGATAAGGTCGAATGGCCAA
Found at i:79622395 original size:30 final size:30
Alignment explanation
Indices: 79622355--79622414 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
79622345 TTCCCGAGCC
*
79622355 TAGGGACAAAAGTGTAATTATGCAAAAGTT
1 TAGGGACAAAAATGTAATTATGCAAAAGTT
* * *
79622385 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGACAAAAATGTAATTATGCAAAAGTT
79622415 CGTATTAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.28
Consensus pattern (30 bp):
TAGGGACAAAAATGTAATTATGCAAAAGTT
Found at i:79632283 original size:14 final size:13
Alignment explanation
Indices: 79632260--79632291 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
79632250 AGGATATCAA
79632260 AACAATAATTAAG
1 AACAATAATTAAG
79632273 AACACATAATTAAG
1 AACA-ATAATTAAG
79632287 AACAA
1 AACAA
79632292 GTTAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:79635619 original size:49 final size:49
Alignment explanation
Indices: 79635563--79635685 Score: 203
Period size: 49 Copynumber: 2.5 Consensus size: 49
79635553 CTAGTACGCA
*
79635563 TAGTAGCCTGCACTTAGTACTACACATACGACCAATTATCCGGTGCACG
1 TAGTAGCCTGCACTTAGTACTACACATACGACCAATTATCCGGTACACG
** *
79635612 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATACGACCAATTATCCGGTACACG
79635661 TAGTAGCCTGCACTTAG-ACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
79635686 CGTGACCTCA
Statistics
Matches: 70, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
48 8 0.11
49 62 0.89
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATACGACCAATTATCCGGTACACG
Found at i:79639151 original size:18 final size:19
Alignment explanation
Indices: 79639128--79639172 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 19
79639118 TTAAAAGCTT
79639128 GTAATATAAAC-AATAATA
1 GTAATATAAACGAATAATA
79639146 GTAATAGATAAACGAATAATA
1 GTAAT--ATAAACGAATAATA
*
79639167 ATAATA
1 GTAATA
79639173 GGTAAACAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 5 0.22
19 1 0.04
20 6 0.26
21 11 0.48
ACGTcount: A:0.60, C:0.04, G:0.09, T:0.27
Consensus pattern (19 bp):
GTAATATAAACGAATAATA
Found at i:79639165 original size:21 final size:20
Alignment explanation
Indices: 79639133--79639181 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
79639123 AGCTTGTAAT
*
79639133 ATAAACAATAATAGTAATAG
1 ATAAACAATAATAATAATAG
79639153 ATAAACGAATAATAATAATAG
1 ATAAAC-AATAATAATAATAG
*
79639174 GTAAACAA
1 ATAAACAA
79639182 ATTCGAAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 8 0.31
21 18 0.69
ACGTcount: A:0.61, C:0.06, G:0.10, T:0.22
Consensus pattern (20 bp):
ATAAACAATAATAATAATAG
Found at i:79645555 original size:48 final size:47
Alignment explanation
Indices: 79645470--79645731 Score: 285
Period size: 48 Copynumber: 5.5 Consensus size: 47
79645460 GTACCAATGT
* * * * *
79645470 CATGTCCTC-GACATAGTCTTACATGAAACCACATATCATCATCGATTC
1 CATGTCC-CAGACATGGTCTTACATGACA-CATATATCATCACCGATGC
* * * *
79645518 CATGTCCTAGACATGGTCTTACAGTGACACATGTATCATCGCTGATGC
1 CATGTCCCAGACATGGTCTTACA-TGACACATATATCATCACCGATGC
* * * *
79645566 CATGTCCCAGACGTGGTCTTACACTGGCACATATAACATCGCCGATG-
1 CATGTCCCAGACATGGTCTTACA-TGACACATATATCATCACCGATGC
*
79645613 CATGTCCCAGACATGGTCTTACATTGGCACATATATCATCACCGATGC
1 CATGTCCCAGACATGGTCTTACA-TGACACATATATCATCACCGATGC
* ** *
79645661 CATGTCCCAGACATGGTCTCACACAAGCACATTTATCATCACCGATGC
1 CATGTCCCAGACATGGTCTTACATGA-CACATATATCATCACCGATGC
*
79645709 CATGTCCCAAACATGGTCTTACA
1 CATGTCCCAGACATGGTCTTACA
79645732 CAGCTACATT
Statistics
Matches: 183, Mismatches: 27, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
47 43 0.23
48 136 0.74
49 4 0.02
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.26
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACATGACACATATATCATCACCGATGC
Found at i:79645634 original size:95 final size:96
Alignment explanation
Indices: 79645499--79645731 Score: 301
Period size: 95 Copynumber: 2.5 Consensus size: 96
79645489 TACATGAAAC
* * * * * *
79645499 CACATAT--CATCATCGATTCCATGTCCTAGACATGGTCTTACAGTGACACATGTATCATCGCTG
1 CACATATAACATCACCGATGCCATGTCCCAGACATGGTCTTACAGTGACACATATATCATCACCG
* * **
79645562 ATGCCATGTCCCAGACGTGGTCTTACACTGG
66 ATGCCATGTCCCAGACATGGTCTCACACAAG
* * *
79645593 CACATATAACATCGCCGATG-CATGTCCCAGACATGGTCTTACATTGGCACATATATCATCACCG
1 CACATATAACATCACCGATGCCATGTCCCAGACATGGTCTTACAGTGACACATATATCATCACCG
79645657 ATGCCATGTCCCAGACATGGTCTCACACAAG
66 ATGCCATGTCCCAGACATGGTCTCACACAAG
* * *
79645688 CACATTTATCATCACCGATGCCATGTCCCAAACATGGTCTTACA
1 CACATATAACATCACCGATGCCATGTCCCAGACATGGTCTTACA
79645732 CAGCTACATT
Statistics
Matches: 119, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
94 7 0.06
95 82 0.69
96 30 0.25
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.26
Consensus pattern (96 bp):
CACATATAACATCACCGATGCCATGTCCCAGACATGGTCTTACAGTGACACATATATCATCACCG
ATGCCATGTCCCAGACATGGTCTCACACAAG
Found at i:79645733 original size:48 final size:48
Alignment explanation
Indices: 79645502--79645747 Score: 291
Period size: 48 Copynumber: 5.1 Consensus size: 48
79645492 ATGAAACCAC
* * * *
79645502 ATATCATCATCGATTCCATGTCCTAGACATGGTCTTACAGT-GACACAT
1 ATATCATCACCGATGCCATGTCCCAGACATGGTCTTACACTAG-CACAT
* * * * *
79645550 GTATCATCGCTGATGCCATGTCCCAGACGTGGTCTTACACTGGCACAT
1 ATATCATCACCGATGCCATGTCCCAGACATGGTCTTACACTAGCACAT
* * * *
79645598 ATAACATCGCCGATG-CATGTCCCAGACATGGTCTTACATTGGCACAT
1 ATATCATCACCGATGCCATGTCCCAGACATGGTCTTACACTAGCACAT
* *
79645645 ATATCATCACCGATGCCATGTCCCAGACATGGTCTCACACAAGCACAT
1 ATATCATCACCGATGCCATGTCCCAGACATGGTCTTACACTAGCACAT
* *
79645693 TTATCATCACCGATGCCATGTCCCAAACATGGTCTTACAC-AGCTACAT
1 ATATCATCACCGATGCCATGTCCCAGACATGGTCTTACACTAGC-ACAT
*
79645741 TTATCAT
1 ATATCAT
79645748 GGTTTCATGA
Statistics
Matches: 173, Mismatches: 22, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
47 46 0.27
48 126 0.73
49 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (48 bp):
ATATCATCACCGATGCCATGTCCCAGACATGGTCTTACACTAGCACAT
Found at i:79661074 original size:19 final size:19
Alignment explanation
Indices: 79661050--79661089 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
79661040 TATGTATGTA
79661050 TATTATAAAAAGGTACTTC
1 TATTATAAAAAGGTACTTC
79661069 TATTATAAAAAGGTACTTC
1 TATTATAAAAAGGTACTTC
79661088 TA
1 TA
79661090 CAAATGGTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (19 bp):
TATTATAAAAAGGTACTTC
Found at i:79664547 original size:43 final size:44
Alignment explanation
Indices: 79664481--79664653 Score: 187
Period size: 43 Copynumber: 4.0 Consensus size: 44
79664471 AGCTCATACA
*
79664481 ATGCCA-TCGTCCCAAACATGGTCTTACATGT-AATCAAATATCG
1 ATGCCACT-GTCCCAGACATGGTCTTACATGTAAATCAAATATCG
* *
79664524 ATGCCACTGTCCCAGACAGGGTCTTACAAGTAAATCAAATAT-G
1 ATGCCACTGTCCCAGACATGGTCTTACATGTAAATCAAATATCG
* * * *
79664567 ATGGCAATGTCCTAGACATGGTCTTACATGTAAATCTCAA-ATCG
1 ATGCCACTGTCCCAGACATGGTCTTACATGTAAATC-AAATATCG
* * *
79664611 ATGTCAAC-GTCCCAGACATGGCCTTACATG-AAATCATATATCG
1 ATG-CCACTGTCCCAGACATGGTCTTACATGTAAATCAAATATCG
79664654 GAACCTTATG
Statistics
Matches: 108, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
42 1 0.01
43 69 0.64
44 37 0.34
45 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.27
Consensus pattern (44 bp):
ATGCCACTGTCCCAGACATGGTCTTACATGTAAATCAAATATCG
Done.