Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 22 of 284
Found at i:7435802 original size:18 final size:18
Alignment explanation
Indices: 7435781--7435815 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
7435771 AGAAAAGAAA
7435781 ATTGA-AAAAGAAATTGAG
1 ATTGAGAAAA-AAATTGAG
7435799 ATTGAGAAAAAAATTGA
1 ATTGAGAAAAAAATTGA
7435816 AAAAGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (18 bp):
ATTGAGAAAAAAATTGAG
Found at i:7439387 original size:34 final size:34
Alignment explanation
Indices: 7439349--7439414 Score: 132
Period size: 34 Copynumber: 1.9 Consensus size: 34
7439339 TGGGTCCCGA
7439349 GAAGCGCTCCATTGAATGGTCATAGTGGTTCAAT
1 GAAGCGCTCCATTGAATGGTCATAGTGGTTCAAT
7439383 GAAGCGCTCCATTGAATGGTCATAGTGGTTCA
1 GAAGCGCTCCATTGAATGGTCATAGTGGTTCA
7439415 GTTTGAGGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (34 bp):
GAAGCGCTCCATTGAATGGTCATAGTGGTTCAAT
Found at i:7446486 original size:27 final size:27
Alignment explanation
Indices: 7446447--7446615 Score: 196
Period size: 27 Copynumber: 6.2 Consensus size: 27
7446437 NNNNNNNNNC
* * *
7446447 AGTGCTATATAATCAACTCGCACACTT
1 AGTGCTACATAGTCAAATCGCACACTT
* *
7446474 AGTGCTACGTAATCAAATCGCACACTT
1 AGTGCTACATAGTCAAATCGCACACTT
7446501 AGTGCTACATAGTCAAACTCGCACACTT
1 AGTGCTACATAGTCAAA-TCGCACACTT
** * *
7446529 AGTGCCGCATGGTCAATTCGCACACTT
1 AGTGCTACATAGTCAAATCGCACACTT
* **
7446556 AGTGC-ATCATATTCATTTCGCACACTT
1 AGTGCTA-CATAGTCAAATCGCACACTT
*
7446583 AGTGCAACATAGTCAAATCGCACACTT
1 AGTGCTACATAGTCAAATCGCACACTT
7446610 AGTGCT
1 AGTGCT
7446616 GTACAATTTA
Statistics
Matches: 122, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 98 0.80
28 24 0.20
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (27 bp):
AGTGCTACATAGTCAAATCGCACACTT
Found at i:7446584 original size:82 final size:81
Alignment explanation
Indices: 7446459--7446614 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
7446449 TGCTATATAA
* *
7446459 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
7446524 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
7446541 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
7446605 CACTTAGTGC
65 CACTTAGTGC
7446615 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:7450516 original size:77 final size:77
Alignment explanation
Indices: 7450389--7450544 Score: 312
Period size: 77 Copynumber: 2.0 Consensus size: 77
7450379 AACCTCAGTA
7450389 ATATTTCTCGGAGGTTTCCAGTTAAGTATGGCTGAGATTTTGTTCGGGTCAACTCGAATACCCGA
1 ATATTTCTCGGAGGTTTCCAGTTAAGTATGGCTGAGATTTTGTTCGGGTCAACTCGAATACCCGA
7450454 TGCGGATATCAC
66 TGCGGATATCAC
7450466 ATATTTCTCGGAGGTTTCCAGTTAAGTATGGCTGAGATTTTGTTCGGGTCAACTCGAATACCCGA
1 ATATTTCTCGGAGGTTTCCAGTTAAGTATGGCTGAGATTTTGTTCGGGTCAACTCGAATACCCGA
7450531 TGCGGATATCAC
66 TGCGGATATCAC
7450543 AT
1 AT
7450545 GACCCAAGAA
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 79 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (77 bp):
ATATTTCTCGGAGGTTTCCAGTTAAGTATGGCTGAGATTTTGTTCGGGTCAACTCGAATACCCGA
TGCGGATATCAC
Found at i:7461808 original size:29 final size:29
Alignment explanation
Indices: 7461766--7461823 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
7461756 ACAATTCCGA
7461766 GTATGAGTTAAGTTCATACATGATAAATG
1 GTATGAGTTAAGTTCATACATGATAAATG
7461795 GTATGAGTTAAGTTCATACATGATAAATG
1 GTATGAGTTAAGTTCATACATGATAAATG
7461824 ATGTTACAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.34
Consensus pattern (29 bp):
GTATGAGTTAAGTTCATACATGATAAATG
Found at i:7478964 original size:46 final size:46
Alignment explanation
Indices: 7478897--7479068 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
7478887 AACCCGCCCC
* *
7478897 TAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
7478943 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * * *
7478991 TCA-CGAACTCGGGCTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
7479036 TAGGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
7479069 ATGCTCAACC
Statistics
Matches: 104, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 1 0.01
46 58 0.56
47 27 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:7479012 original size:93 final size:93
Alignment explanation
Indices: 7478902--7479072 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
7478892 GCCCCTAAGT
* * *
7478902 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
7478967 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
7478995 GAACTCGGGCTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
7479060 CGAGTTCGGATGC
66 CGAGTTCGGATGC
7479073 TCAACCATCT
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:7479526 original size:30 final size:30
Alignment explanation
Indices: 7479492--7479551 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
7479482 ATTTAATACG
7479492 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
7479522 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
7479552 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:7487017 original size:30 final size:30
Alignment explanation
Indices: 7486983--7487042 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
7486973 ATTTAATACG
7486983 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
7487013 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
7487043 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:7489424 original size:20 final size:21
Alignment explanation
Indices: 7489388--7489436 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
7489378 ACTTCTCTAA
*
7489388 TCACATAGTTCATATTC-ATT
1 TCACATATTTCATATTCAATT
7489408 TCACATATTCTCA-ATTCAATT
1 TCACATATT-TCATATTCAATT
*
7489429 ACACATAT
1 TCACATAT
7489437 AGCATTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.35, C:0.22, G:0.02, T:0.41
Consensus pattern (21 bp):
TCACATATTTCATATTCAATT
Found at i:7489738 original size:17 final size:17
Alignment explanation
Indices: 7489716--7489751 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
7489706 ATAAATTAGT
7489716 TATATTT-GGTTGATGAA
1 TATATTTAGGTT-ATGAA
7489733 TATATTTAGGTTATGAA
1 TATATTTAGGTTATGAA
7489750 TA
1 TA
7489752 GATAATGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.47
Consensus pattern (17 bp):
TATATTTAGGTTATGAA
Found at i:7490358 original size:42 final size:42
Alignment explanation
Indices: 7490311--7490395 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
7490301 ATGTGCATGG
*
7490311 TTTTGTGATTAGGAAAGAAGTCTGTTTAGTTTTAAATAATGA
1 TTTTGTGATTAGGAAAGAAGTATGTTTAGTTTTAAATAATGA
*
7490353 TTTTGTGATTAGGAAAGAAGTATGTTTAGTTTTAAATTATGA
1 TTTTGTGATTAGGAAAGAAGTATGTTTAGTTTTAAATAATGA
7490395 T
1 T
7490396 AGTTTAAATG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.33, C:0.01, G:0.21, T:0.45
Consensus pattern (42 bp):
TTTTGTGATTAGGAAAGAAGTATGTTTAGTTTTAAATAATGA
Found at i:7501352 original size:57 final size:57
Alignment explanation
Indices: 7501279--7501393 Score: 203
Period size: 57 Copynumber: 2.0 Consensus size: 57
7501269 CATATCTCTG
*
7501279 GATTTTCTAGTCTGCGGTGGGAATGTACTACTCATCGGTCTTTTCTTCAAATTTCTA
1 GATTTTCTAGTCTGCGGTGGGAATGCACTACTCATCGGTCTTTTCTTCAAATTTCTA
* *
7501336 GATTTTCTAGTTTGCGGTGGGAATGCACTACTTATCGGTCTTTTCTTCAAATTTCTA
1 GATTTTCTAGTCTGCGGTGGGAATGCACTACTCATCGGTCTTTTCTTCAAATTTCTA
7501393 G
1 G
7501394 TCTCAGCCTC
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.19, C:0.18, G:0.20, T:0.43
Consensus pattern (57 bp):
GATTTTCTAGTCTGCGGTGGGAATGCACTACTCATCGGTCTTTTCTTCAAATTTCTA
Found at i:7502914 original size:25 final size:25
Alignment explanation
Indices: 7502880--7502929 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
7502870 AAAAAAAAAG
7502880 GGGATGAAAACAAAGTTTTATCCAT
1 GGGATGAAAACAAAGTTTTATCCAT
7502905 GGGATGAAAACAAAGTTTTATCCAT
1 GGGATGAAAACAAAGTTTTATCCAT
7502930 TCTTTCTCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (25 bp):
GGGATGAAAACAAAGTTTTATCCAT
Found at i:7504814 original size:48 final size:48
Alignment explanation
Indices: 7504743--7505037 Score: 452
Period size: 48 Copynumber: 6.2 Consensus size: 48
7504733 TACAAGATAA
* * **
7504743 ATATATATGTGTGGTAAAGCCGAATGGCTAGGGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
7504791 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATAGGTAT--G
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
7504837 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* **
7504885 ATATGTATATGTGGTAAAG-TGAATGGCTAACATGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
7504932 ATATATATATGTGGTAAATCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
7504980 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
7505028 ATGTGTATAT
1 ATATGTATAT
7505038 ATTGTGGCCG
Statistics
Matches: 223, Mismatches: 21, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
46 43 0.19
47 42 0.19
48 138 0.62
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.32
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:7504969 original size:141 final size:143
Alignment explanation
Indices: 7504743--7505037 Score: 459
Period size: 141 Copynumber: 2.1 Consensus size: 143
7504733 TACAAGATAA
* * *** *
7504743 ATATATATGTGTGGTAAAGCCGAATGGCTAGGGTGAAATATGTATGAGATATGTATATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAGATATATATATGTGGTAA
7504808 AGCCGAATGGCTAATATGAAATAGGTAT-GATATATATATGTGGTAAAGCCGAATGGCTAATGTG
66 AGCCGAATGGCTAATATGAAATAGGTATAGATATATATATGTGGTAAAGCCGAATGGCTAATGTG
7504872 AAATATGTATGAG
131 AAATATGTATGAG
*
7504885 ATATGTATATGTGGTAAAG-TGAATGGCTAACATGAAATATGTATGAGATATATATATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAGATATATATATGTGGTAA
* * * *
7504949 ATCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGT
66 AGCCGAATGGCTAATATGAAATAGGTAT-AGATATATATATGTGGTAAAGCCGAATGGCTAATGT
7505014 GAAATATGTATGAG
130 GAAATATGTATGAG
*
7505028 ATGTGTATAT
1 ATATGTATAT
7505038 ATTGTGGCCG
Statistics
Matches: 139, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
141 65 0.47
142 17 0.12
143 57 0.41
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.32
Consensus pattern (143 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAACATGAAATATGTATGAGATATATATATGTGGTAA
AGCCGAATGGCTAATATGAAATAGGTATAGATATATATATGTGGTAAAGCCGAATGGCTAATGTG
AAATATGTATGAG
Found at i:7505064 original size:95 final size:95
Alignment explanation
Indices: 7504743--7505029 Score: 454
Period size: 95 Copynumber: 3.0 Consensus size: 95
7504733 TACAAGATAA
* **
7504743 ATATATATGTGTGGTAAAGCCGAATGGCTAGGGTGAAATATGTATGAGATATGTATATGTGGTAA
1 ATATATATATGTGGT-AAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
*
7504808 AGCCGAATGGCTAATATGAAATAGGTAT--G
65 AGCCGAATGGCTAATATGAAATATGTATGAG
7504837 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
1 ATATATATATGTGGT-AAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
* *
7504902 AG-TGAATGGCTAACATGAAATATGTATGAG
65 AGCCGAATGGCTAATATGAAATATGTATGAG
*
7504932 ATATATATATGTGGTAAATCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
1 ATATATATATGTGGT-AAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAA
*
7504997 AGCCGAATGGCTAATGTGAAATATGTATGAG
65 AGCCGAATGGCTAATATGAAATATGTATGAG
7505028 AT
1 AT
7505030 GTGTATATAT
Statistics
Matches: 180, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
93 22 0.12
94 64 0.36
95 67 0.37
96 27 0.15
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (95 bp):
ATATATATATGTGGTAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAA
GCCGAATGGCTAATATGAAATATGTATGAG
Found at i:7505220 original size:37 final size:37
Alignment explanation
Indices: 7505170--7505279 Score: 193
Period size: 37 Copynumber: 3.0 Consensus size: 37
7505160 GGAAATATAT
7505170 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
7505207 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
7505244 TCCGGGTAAGACCCGATAACTACGTGTGGGGATTAT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
7505280 TCGAGCTAAA
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:7511066 original size:29 final size:29
Alignment explanation
Indices: 7511024--7511105 Score: 164
Period size: 29 Copynumber: 2.8 Consensus size: 29
7511014 CTCACTTGGC
7511024 AAACTTTTTGGAACTATGTGATACATTTA
1 AAACTTTTTGGAACTATGTGATACATTTA
7511053 AAACTTTTTGGAACTATGTGATACATTTA
1 AAACTTTTTGGAACTATGTGATACATTTA
7511082 AAACTTTTTGGAACTATGTGATAC
1 AAACTTTTTGGAACTATGTGATAC
7511106 TTTTTGGAAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 53 1.00
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (29 bp):
AAACTTTTTGGAACTATGTGATACATTTA
Found at i:7511282 original size:15 final size:15
Alignment explanation
Indices: 7511262--7511293 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
7511252 CAAGAATGGC
7511262 TACATGTATGTAGGG
1 TACATGTATGTAGGG
7511277 TACATGTATGTAGGG
1 TACATGTATGTAGGG
7511292 TA
1 TA
7511294 GATGAAGACT
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:0.28, C:0.06, G:0.31, T:0.34
Consensus pattern (15 bp):
TACATGTATGTAGGG
Found at i:7512174 original size:28 final size:28
Alignment explanation
Indices: 7512131--7512236 Score: 83
Period size: 28 Copynumber: 3.7 Consensus size: 28
7512121 AAAATCAGAG
*
7512131 TTAA-CTGGGCCTTAGCCCATATCAATA
1 TTAATCTGGGCCATAGCCCATATCAATA
* *
7512158 TTAATCTGGGCCATAGCCCCT-TACAGTA
1 TTAATCTGGGCCATAGCCCATAT-CAATA
* *
7512186 TCAGAGTATACTGGGCC-TAGACCATATCAATA
1 T--TA--AT-CTGGGCCATAGCCCATATCAATA
*
7512218 TCAATCTGGGCCATAGCCC
1 TTAATCTGGGCCATAGCCC
7512237 TATAACAAGT
Statistics
Matches: 61, Mismatches: 9, Indels: 17
0.70 0.10 0.20
Matches are distributed among these distances:
27 12 0.20
28 26 0.43
30 2 0.03
32 13 0.21
33 8 0.13
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.26
Consensus pattern (28 bp):
TTAATCTGGGCCATAGCCCATATCAATA
Found at i:7512263 original size:60 final size:59
Alignment explanation
Indices: 7512124--7512236 Score: 156
Period size: 60 Copynumber: 1.9 Consensus size: 59
7512114 CTATTTAAAA
* * *
7512124 ATCAGAGT-TAACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAG
1 ATCAGAGTAT-ACTAGGCC-TAGACCATATCAATATCAATCTGGGCCATAGCCCCTTACAG
*
7512184 TATCAGAGTATACTGGGCCTAGACCATATCAATATCAATCTGGGCCATAGCCC
1 -ATCAGAGTATACTAGGCCTAGACCATATCAATATCAATCTGGGCCATAGCCC
7512237 TATAACAAGT
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
60 32 0.65
61 16 0.33
62 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.26
Consensus pattern (59 bp):
ATCAGAGTATACTAGGCCTAGACCATATCAATATCAATCTGGGCCATAGCCCCTTACAG
Found at i:7512272 original size:60 final size:59
Alignment explanation
Indices: 7512124--7512275 Score: 143
Period size: 60 Copynumber: 2.5 Consensus size: 59
7512114 CTATTTAAAA
* * *
7512124 ATCAGAGT-TAACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAG
1 ATCAGAGTAT-ACTAGGCCTT-GCACATATCAATATCAATCTGGGCCATAGCCCCTTACAG
* *
7512184 TATCAGAGTATACTGGGCCTAG-ACCATATCAATATCAATCTGGGCCATAG-CCCTATAACA-
1 -ATCAGAGTATACTAGGCCTTGCA-CATATCAATATCAATCTGGGCCATAGCCCCT-T-ACAG
*
7512244 AGTC-GAGATATATTAGGCCTTGCACATATCAA
1 A-TCAGAG-TATACTAGGCCTTGCACATATCAA
7512276 CACAGTTGGC
Statistics
Matches: 78, Mismatches: 6, Indels: 15
0.79 0.06 0.15
Matches are distributed among these distances:
59 8 0.10
60 48 0.62
61 21 0.27
62 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (59 bp):
ATCAGAGTATACTAGGCCTTGCACATATCAATATCAATCTGGGCCATAGCCCCTTACAG
Found at i:7518142 original size:19 final size:19
Alignment explanation
Indices: 7518118--7518154 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
7518108 AAAATGTGTA
*
7518118 AGTTATGTCTACAAATTTT
1 AGTTATGCCTACAAATTTT
*
7518137 AGTTATGCCTATAAATTT
1 AGTTATGCCTACAAATTT
7518155 ATGATGACAC
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:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (19 bp):
AGTTATGCCTACAAATTTT
Found at i:7522718 original size:30 final size:30
Alignment explanation
Indices: 7522682--7522742 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
7522672 TTCCCGAGCC
7522682 TAGGGGCAAAA-GTGTAATTATGCAAAAGTT
1 TAGGGGCAAAATG-GTAATTATGCAAAAGTT
* *
7522712 TAGGGGCAAAATGGTAATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTAATTATGCAAAAGTT
7522742 T
1 T
7522743 GTATTAAAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTATGCAAAAGTT
Found at i:7523469 original size:49 final size:49
Alignment explanation
Indices: 7523396--7523570 Score: 251
Period size: 49 Copynumber: 3.5 Consensus size: 49
7523386 TGAGGTCACG
7523396 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * * * * *
7523445 TGTGTAGTACTAAGTGCAGACTACTATGCGTACCTGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT-GGTCGCA
* *
7523496 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
7523545 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
7523571 TGCGTACTAG
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
49 65 0.60
50 4 0.04
51 39 0.36
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:7523520 original size:51 final size:49
Alignment explanation
Indices: 7523389--7523583 Score: 246
Period size: 49 Copynumber: 3.9 Consensus size: 49
7523379 GCTATTGTGA
* *
7523389 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
* * * *
7523438 GGTCGCATGTGTAGTACTAAGTGCAGACTACTATGCGTACCTGATAACTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA-TT
* * * * *
7523488 CGATCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
* * *
7523538 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
7523584 GCTTCGGCTA
Statistics
Matches: 122, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
49 79 0.65
50 4 0.03
51 39 0.32
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
Found at i:7523589 original size:100 final size:100
Alignment explanation
Indices: 7523391--7523577 Score: 347
Period size: 100 Copynumber: 1.9 Consensus size: 100
7523381 TATTGTGAGG
7523391 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
7523456 AAGTGCAGACTACTATGCGTACCTGATAACTTCGA
66 AAGTGCAGACTACTATGCGTACCTGATAACTTCGA
* *
7523491 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
*
7523556 AAGTGCAGGCTACTATGCGTAC
66 AAGTGCAGACTACTATGCGTAC
7523578 TAGATAGCTT
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 84 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGACTACTATGCGTACCTGATAACTTCGA
Found at i:7525686 original size:25 final size:26
Alignment explanation
Indices: 7525637--7525687 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
7525627 AACATTCCTA
*
7525637 TATATAAAATTTTAATAAATGAAATT
1 TATATAAAATTTTAAAAAATGAAATT
7525663 TATAT-AAATTATTAAAAAAT-AAATT
1 TATATAAAATT-TTAAAAAATGAAATT
7525688 AAAAATAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (26 bp):
TATATAAAATTTTAAAAAATGAAATT
Found at i:7526599 original size:26 final size:26
Alignment explanation
Indices: 7526563--7526613 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
7526553 AGATAAATAA
7526563 AAAAAGTTTAATTCTTATAGAATACC
1 AAAAAGTTTAATTCTTATAGAATACC
7526589 AAAAAGTTTAATTCTTATAGAATAC
1 AAAAAGTTTAATTCTTATAGAATAC
7526614 TTAAGTTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.35
Consensus pattern (26 bp):
AAAAAGTTTAATTCTTATAGAATACC
Found at i:7536200 original size:22 final size:22
Alignment explanation
Indices: 7536152--7536200 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
7536142 ATTTCACTAC
* *
7536152 TCAAATCCATAACCAAAACTTA
1 TCAAATCAATAACCAAAACTCA
*
7536174 CCAAATCAATATACCAAAA-TCA
1 TCAAATCAATA-ACCAAAACTCA
7536196 TCAAA
1 TCAAA
7536201 CTTACATAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.53, C:0.27, G:0.00, T:0.20
Consensus pattern (22 bp):
TCAAATCAATAACCAAAACTCA
Found at i:7538998 original size:34 final size:34
Alignment explanation
Indices: 7538955--7539032 Score: 111
Period size: 34 Copynumber: 2.3 Consensus size: 34
7538945 TGACCTTATG
** * *
7538955 TTTCTTTTCTGGCCTCTTACTTCAGAGTTACTGA
1 TTTCTTTTCTAACCTCTTACTTCAAAGTTACTAA
7538989 TTTCTTTTCTAACCTCTTACTTCAAAGTTACTAA
1 TTTCTTTTCTAACCTCTTACTTCAAAGTTACTAA
7539023 TTTCTGTTTC
1 TTTCT-TTTC
7539033 CCCTTTCTCT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
34 35 0.90
35 4 0.10
ACGTcount: A:0.18, C:0.23, G:0.09, T:0.50
Consensus pattern (34 bp):
TTTCTTTTCTAACCTCTTACTTCAAAGTTACTAA
Found at i:7542667 original size:27 final size:27
Alignment explanation
Indices: 7542637--7542814 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
7542627 ATATTGAGTC
* * * *
7542637 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
7542664 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
7542691 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
7542719 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
7542746 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
7542773 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
7542800 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
7542815 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:7542776 original size:82 final size:81
Alignment explanation
Indices: 7542658--7542813 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
7542648 TGCTATATAA
* *
7542658 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
7542723 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
7542740 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
7542804 CACTTAGTGC
65 CACTTAGTGC
7542814 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:7546319 original size:40 final size:40
Alignment explanation
Indices: 7546282--7546466 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
7546272 GCTACTCGTT
*
7546282 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
7546322 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
7546362 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
7546401 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
7546442 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
7546467 CATCATTCGA
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 79 0.63
41 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:7546393 original size:79 final size:82
Alignment explanation
Indices: 7546282--7546466 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
7546272 GCTACTCGTT
* * *
7546282 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTC-GGATCTTAACCC
* *
7546345 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
7546362 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCACACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGATCTTAACCCG
* *
7546425 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
7546442 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
7546467 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:7554639 original size:30 final size:31
Alignment explanation
Indices: 7554580--7554643 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
7554570 ACTTAATAAG
*
7554580 CAAATGCTTCTAAAGTAATAAAAAAAATTAA
1 CAAATGCTTCTAAAATAATAAAAAAAATTAA
*
7554611 CAAATGCCTT-TAAAATAAT-AAGAAAATTAA
1 CAAATG-CTTCTAAAATAATAAAAAAAATTAA
7554641 CAA
1 CAA
7554644 TAAAATAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 13 0.43
31 14 0.47
32 3 0.10
ACGTcount: A:0.58, C:0.11, G:0.06, T:0.25
Consensus pattern (31 bp):
CAAATGCTTCTAAAATAATAAAAAAAATTAA
Found at i:7571699 original size:40 final size:40
Alignment explanation
Indices: 7571625--7571845 Score: 279
Period size: 40 Copynumber: 5.6 Consensus size: 40
7571615 AACCCAAGTA
* *
7571625 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* * *
7571664 CCTTCGGGTCTTAGCCTGGATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* * *
7571704 CCTTCGGGACTTAGCACGGATATAG-CAACTCGGACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* * *
7571744 CCTTCGGGACTTAGCCCGGGTATAGTCAATAGCACAACTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
7571784 CCTTCGGGACTTAGCCCGGATATGGTCACTAGCAC-CATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
7571823 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
7571846 CATCCGAATA
Statistics
Matches: 156, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
39 38 0.24
40 116 0.74
41 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:7573419 original size:61 final size:61
Alignment explanation
Indices: 7573352--7573536 Score: 352
Period size: 61 Copynumber: 3.0 Consensus size: 61
7573342 AGTAACTAGC
7573352 TTAATACATTCAACAATTTCAAAAGCTACCATGAATTACATACCTTATTTATACATAAATT
1 TTAATACATTCAACAATTTCAAAAGCTACCATGAATTACATACCTTATTTATACATAAATT
* *
7573413 TTAATACACTCAACAATTTCAAAAGCTACCATGAATTACATACCTTATTTGTACATAAATT
1 TTAATACATTCAACAATTTCAAAAGCTACCATGAATTACATACCTTATTTATACATAAATT
7573474 TTAATACATTCAACAATTTCAAAAGCTACCATGAATTACATACCTTATTTATACATAAATT
1 TTAATACATTCAACAATTTCAAAAGCTACCATGAATTACATACCTTATTTATACATAAATT
7573535 TT
1 TT
7573537 CAAGGATTTC
Statistics
Matches: 120, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 120 1.00
ACGTcount: A:0.42, C:0.18, G:0.04, T:0.36
Consensus pattern (61 bp):
TTAATACATTCAACAATTTCAAAAGCTACCATGAATTACATACCTTATTTATACATAAATT
Found at i:7594310 original size:43 final size:43
Alignment explanation
Indices: 7594254--7594371 Score: 109
Period size: 43 Copynumber: 2.8 Consensus size: 43
7594244 AACATATACA
** * *
7594254 ATGCCAACATCCCAGATGTGGTCTTATATGTAA-TCAAACATAG
1 ATGCCAATGTCCCAGAAGTGGTCTTACATGTAAGTCAAACAT-G
* * *
7594297 ATGCCACTGTCCCAAACAG-GGTCTTACATG-AAGTCAAATATG
1 ATGCCAATGTCCCAGA-AGTGGTCTTACATGTAAGTCAAACATG
*
7594339 ATGCCAATGTTCCAGACA-TGGTCTTACATGTAA
1 ATGCCAATGTCCCAGA-AGTGGTCTTACATGTAA
7594372 AACAGAAGTC
Statistics
Matches: 61, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
42 29 0.48
43 31 0.51
44 1 0.02
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGAAGTGGTCTTACATGTAAGTCAAACATG
Found at i:7594362 original size:42 final size:43
Alignment explanation
Indices: 7594272--7594371 Score: 123
Period size: 42 Copynumber: 2.3 Consensus size: 43
7594262 ATCCCAGATG
* *
7594272 TGGTCTTATATGTAATCAAACATAGATGCCACTGTCCCAAACA
1 TGGTCTTACATGTAATCAAACATAGATGCCAATGTCCCAAACA
* * * *
7594315 GGGTCTTACATG-AAGTCAAATAT-GATGCCAATGTTCCAGACA
1 TGGTCTTACATGTAA-TCAAACATAGATGCCAATGTCCCAAACA
7594357 TGGTCTTACATGTAA
1 TGGTCTTACATGTAA
7594372 AACAGAAGTC
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
42 29 0.60
43 19 0.40
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (43 bp):
TGGTCTTACATGTAATCAAACATAGATGCCAATGTCCCAAACA
Found at i:7596854 original size:20 final size:21
Alignment explanation
Indices: 7596818--7596866 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
7596808 ACTTCTCTAA
*
7596818 TCACATAGTTCATATTC-ATT
1 TCACATATTTCATATTCAATT
7596838 TCACATATTCTCA-ATTCAATT
1 TCACATATT-TCATATTCAATT
*
7596859 ACACATAT
1 TCACATAT
7596867 AGCATTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.35, C:0.22, G:0.02, T:0.41
Consensus pattern (21 bp):
TCACATATTTCATATTCAATT
Found at i:7597168 original size:17 final size:17
Alignment explanation
Indices: 7597146--7597181 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
7597136 ATAAATTAGT
7597146 TATATTT-GGTTGATGAA
1 TATATTTAGGTT-ATGAA
7597163 TATATTTAGGTTATGAA
1 TATATTTAGGTTATGAA
7597180 TA
1 TA
7597182 GATAATGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.47
Consensus pattern (17 bp):
TATATTTAGGTTATGAA
Found at i:7597788 original size:42 final size:42
Alignment explanation
Indices: 7597741--7597825 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
7597731 ATGTGCATGG
7597741 TTTTGTGATTAGGAAAGAAGGATGTTTAGTTTTAAATTATGA
1 TTTTGTGATTAGGAAAGAAGGATGTTTAGTTTTAAATTATGA
*
7597783 TTTTGTGATTAGGAAAGAAGTATGTTTAGTTTTAAATTATGA
1 TTTTGTGATTAGGAAAGAAGGATGTTTAGTTTTAAATTATGA
7597825 T
1 T
7597826 AGTTTAAATG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.45
Consensus pattern (42 bp):
TTTTGTGATTAGGAAAGAAGGATGTTTAGTTTTAAATTATGA
Found at i:7609919 original size:40 final size:40
Alignment explanation
Indices: 7609864--7610125 Score: 465
Period size: 40 Copynumber: 6.6 Consensus size: 40
7609854 TATTCGAATG
7609864 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
7609904 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
7609944 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
7609984 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
7610024 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
7610064 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
7610104 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
7610126 TACTTGGGTT
Statistics
Matches: 215, Mismatches: 6, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
39 14 0.07
40 199 0.93
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:7622523 original size:45 final size:45
Alignment explanation
Indices: 7622459--7622548 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
7622449 CGACTTGTGT
7622459 TACGAATTCTTTTATTTCCAAAATACCCATTAGTAGCTTTAAATC
1 TACGAATTCTTTTATTTCCAAAATACCCATTAGTAGCTTTAAATC
7622504 TACGAATTCTTTTATTTCCAAAATACCCATTAGTAGCTTTAAATC
1 TACGAATTCTTTTATTTCCAAAATACCCATTAGTAGCTTTAAATC
7622549 CTCATTCAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.40
Consensus pattern (45 bp):
TACGAATTCTTTTATTTCCAAAATACCCATTAGTAGCTTTAAATC
Found at i:7623091 original size:39 final size:39
Alignment explanation
Indices: 7623037--7623113 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
7623027 TGGGGTGGAT
7623037 TATTCAAATTCGGGAATTGTTGGACAGCCGGGTTGGTTG
1 TATTCAAATTCGGGAATTGTTGGACAGCCGGGTTGGTTG
*
7623076 TATTCAAATTTGGGAATTGTTGGACAGCCGGGTTGGTT
1 TATTCAAATTCGGGAATTGTTGGACAGCCGGGTTGGTT
7623114 CGGGCATATT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.21, C:0.12, G:0.32, T:0.35
Consensus pattern (39 bp):
TATTCAAATTCGGGAATTGTTGGACAGCCGGGTTGGTTG
Found at i:7625477 original size:41 final size:41
Alignment explanation
Indices: 7625351--7625591 Score: 292
Period size: 41 Copynumber: 5.9 Consensus size: 41
7625341 TTGTAAAACA
* * *
7625351 CAGAGCAATAGCGGCGTTTTTGGTAAGACGCCGCTAAA-AC
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGAC
* * * *
7625391 CAGAGCAAT-GCGGCG-TTTTAGTAAAAAGCGCCTCTAAA-AA
1 CAGAGCATTAGCGGCGCTTTTGGT-AAAA-CGCCGCTAAAGAC
* *
7625431 TAGAGCATTAGCGGCGCTTTTGGTGAAACGCCGCTAAAGAC
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGAC
* * *
7625472 CAGAGCATTAGCAGCGCTTTTGGTGAAACGCCACTAAAGAC
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGAC
**
7625513 CAGAGCATTAGCGGCGCTTTTATTAAAACGCCGCTAAAGAC
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGAC
* *
7625554 TAGAGCCTTAGCGGCGCTTTTGGTAAAACGCCGCTAAA
1 CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAA
7625592 AGTCATATAA
Statistics
Matches: 174, Mismatches: 22, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
38 6 0.03
39 9 0.05
40 35 0.20
41 118 0.68
42 6 0.03
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.21
Consensus pattern (41 bp):
CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGAC
Found at i:7625572 original size:123 final size:121
Alignment explanation
Indices: 7625351--7625591 Score: 326
Period size: 123 Copynumber: 2.0 Consensus size: 121
7625341 TTGTAAAACA
* * *
7625351 CAGAGCAATAGCGGCGTTTTTGGTAAGACGCCGCTAAAACCAGAGCAATGCGGCGTTTTAGTAAA
1 CAGAGCAATAGCAGCGCTTTTGGTAAGACGCCACTAAAACCAGAGCAATGCGGCGTTTTAGTAAA
* *
7625416 AAGCGCCTCTAAAAATAGAGCATTAGCGGCGCTTTTGGTGAAACGCCGCTAAAGAC
66 AAGCGCCGCTAAAAATAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGAC
* *
7625472 CAGAGCATTAGCAGCGCTTTTGGTGAA-ACGCCACTAAAGACCAGAGCATTAGCGGCGCTTTTA-
1 CAGAGCAATAGCAGCGCTTTTGGT-AAGACGCCACTAAA-ACCAGAGCAAT-GCGGCG-TTTTAG
* * *
7625535 TTAAAA-CGCCGCTAAAGACTAGAGCCTTAGCGGCGCTTTTGGTAAAACGCCGCTAAA
62 TAAAAAGCGCCGCTAAA-AATAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAA
7625592 AGTCATATAA
Statistics
Matches: 105, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
121 31 0.30
122 21 0.20
123 48 0.46
124 5 0.05
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.21
Consensus pattern (121 bp):
CAGAGCAATAGCAGCGCTTTTGGTAAGACGCCACTAAAACCAGAGCAATGCGGCGTTTTAGTAAA
AAGCGCCGCTAAAAATAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGAC
Found at i:7625771 original size:14 final size:14
Alignment explanation
Indices: 7625749--7625780 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
7625739 TTAATTAACA
7625749 TTATAGTTTAAGGT
1 TTATAGTTTAAGGT
*
7625763 TTATTGTTTAAGGT
1 TTATAGTTTAAGGT
7625777 TTAT
1 TTAT
7625781 GATATTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.25, C:0.00, G:0.19, T:0.56
Consensus pattern (14 bp):
TTATAGTTTAAGGT
Found at i:7625773 original size:44 final size:44
Alignment explanation
Indices: 7625725--7625829 Score: 120
Period size: 51 Copynumber: 2.2 Consensus size: 44
7625715 TAGTATTGAA
*
7625725 TTTAAAATATTAAATTAATTAACATTATAGTTTAAGGTTTATTG
1 TTTAAAATATTAAATTAATTAACATTATAGTTTAAGGTTTATGG
*
7625769 TTTAAGGTTTATGATATTAAATTAATTATCATTATAGTTTAAGGTTTATGG
1 TTTAA-----A--ATATTAAATTAATTAACATTATAGTTTAAGGTTTATGG
*
7625820 TTTAAGATAT
1 TTTAAAATAT
7625830 ATGGGTTTAA
Statistics
Matches: 51, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
44 9 0.18
49 1 0.02
51 41 0.80
ACGTcount: A:0.37, C:0.02, G:0.12, T:0.49
Consensus pattern (44 bp):
TTTAAAATATTAAATTAATTAACATTATAGTTTAAGGTTTATGG
Found at i:7625822 original size:14 final size:14
Alignment explanation
Indices: 7625800--7625877 Score: 56
Period size: 14 Copynumber: 5.7 Consensus size: 14
7625790 TTAATTATCA
* *
7625800 TTATAGTTTAAGGT
1 TTATGGTTTAAGAT
7625814 TTATGGTTTAAGAT
1 TTATGGTTTAAGAT
* *
7625828 ATATGGGTTTAAGCT
1 TTAT-GGTTTAAGAT
7625843 TTATGAG-TT-A-A-
1 TTATG-GTTTAAGAT
*
7625854 CTATGGTTTAAGAT
1 TTATGGTTTAAGAT
*
7625868 ATATGGTTTA
1 TTATGGTTTA
7625878 GGGTTTAAAG
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
10 1 0.02
11 6 0.12
12 1 0.02
13 2 0.04
14 27 0.54
15 13 0.26
ACGTcount: A:0.29, C:0.03, G:0.22, T:0.46
Consensus pattern (14 bp):
TTATGGTTTAAGAT
Found at i:7626203 original size:21 final size:21
Alignment explanation
Indices: 7626179--7626230 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
7626169 TGATTTAATT
*
7626179 TTTAGGGTTTGGAGA-TTAGGG
1 TTTAGGGTTTGG-GATTTAGAG
7626200 TTTAGGGTTTGGGATTTAGAG
1 TTTAGGGTTTGGGATTTAGAG
7626221 TTTAGGGTTT
1 TTTAGGGTTT
7626231 AGGCTTTATA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 2 0.07
21 27 0.93
ACGTcount: A:0.17, C:0.00, G:0.38, T:0.44
Consensus pattern (21 bp):
TTTAGGGTTTGGGATTTAGAG
Found at i:7626206 original size:7 final size:7
Alignment explanation
Indices: 7626179--7626238 Score: 61
Period size: 7 Copynumber: 8.6 Consensus size: 7
7626169 TGATTTAATT
7626179 TTTAGGG
1 TTTAGGG
7626186 TTT-GGAG
1 TTTAGG-G
*
7626193 ATTAGGG
1 TTTAGGG
7626200 TTTAGGG
1 TTTAGGG
7626207 TTT-GGG
1 TTTAGGG
*
7626213 ATTTAGAG
1 -TTTAGGG
7626221 TTTAGGG
1 TTTAGGG
*
7626228 TTTAGGC
1 TTTAGGG
7626235 TTTA
1 TTTA
7626239 TAATTTAGAG
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
6 5 0.11
7 35 0.80
8 4 0.09
ACGTcount: A:0.18, C:0.02, G:0.37, T:0.43
Consensus pattern (7 bp):
TTTAGGG
Found at i:7626238 original size:21 final size:21
Alignment explanation
Indices: 7626179--7626238 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
7626169 TGATTTAATT
* *
7626179 TTTAGGGTTT-GGAGATTAGGG
1 TTTAGGGTTTAGGA-TTTAGAG
*
7626200 TTTAGGGTTTGGGATTTAGAG
1 TTTAGGGTTTAGGATTTAGAG
*
7626221 TTTAGGGTTTAGGCTTTA
1 TTTAGGGTTTAGGATTTA
7626239 TAATTTAGAG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 31 0.91
22 3 0.09
ACGTcount: A:0.18, C:0.02, G:0.37, T:0.43
Consensus pattern (21 bp):
TTTAGGGTTTAGGATTTAGAG
Found at i:7626244 original size:28 final size:28
Alignment explanation
Indices: 7626194--7626248 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
7626184 GGTTTGGAGA
* * *
7626194 TTAGGGTTTAGGGTTTGGGATTTAGAGT
1 TTAGGGTTTAGGCTTTAGAATTTAGAGT
*
7626222 TTAGGGTTTAGGCTTTATAATTTAGAG
1 TTAGGGTTTAGGCTTTAGAATTTAGAG
7626249 CGCCTTAGAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.22, C:0.02, G:0.33, T:0.44
Consensus pattern (28 bp):
TTAGGGTTTAGGCTTTAGAATTTAGAGT
Found at i:7626245 original size:21 final size:21
Alignment explanation
Indices: 7626200--7626246 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
7626190 GAGATTAGGG
* *
7626200 TTTAGGGTTTGGGATTTAGAG
1 TTTAGGGTTTAGGATTTAGAA
* *
7626221 TTTAGGGTTTAGGCTTTATAA
1 TTTAGGGTTTAGGATTTAGAA
7626242 TTTAG
1 TTTAG
7626247 AGCGCCTTAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.21, C:0.02, G:0.30, T:0.47
Consensus pattern (21 bp):
TTTAGGGTTTAGGATTTAGAA
Found at i:7626696 original size:80 final size:81
Alignment explanation
Indices: 7626604--7626752 Score: 255
Period size: 81 Copynumber: 1.9 Consensus size: 81
7626594 CGTTTATTTA
*
7626604 AAAAATGCCGCAAAAAACATAGCAG-TTAACGAAAACGACGTCGTTTTAATTGGATATTTAGGAG
1 AAAAACGCCGCAAAAAACATAGCAGTTTAACGAAAACGACGTCGTTTTAATTGGATATTTAGGAG
7626668 AGTAGCGGCGTTTTCG
66 AGTAGCGGCGTTTTCG
* * *
7626684 AAAAACGCCGCAAAAAACATAGCAGTTTAACGAAAACGGCGTCGTTTTAATTGGATTTTTAGGGG
1 AAAAACGCCGCAAAAAACATAGCAGTTTAACGAAAACGACGTCGTTTTAATTGGATATTTAGGAG
7626749 AGTA
66 AGTA
7626753 CTGGCATTTT
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
80 24 0.38
81 40 0.62
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (81 bp):
AAAAACGCCGCAAAAAACATAGCAGTTTAACGAAAACGACGTCGTTTTAATTGGATATTTAGGAG
AGTAGCGGCGTTTTCG
Found at i:7631732 original size:9 final size:9
Alignment explanation
Indices: 7631715--7631786 Score: 72
Period size: 9 Copynumber: 7.7 Consensus size: 9
7631705 ATTACATAAC
7631715 AACTTACAT
1 AACTTACAT
*
7631724 AACTCACAT
1 AACTTACAT
*
7631733 AACTTGCAT
1 AACTTACAT
*
7631742 AATTTACAT
1 AACTTACAT
*
7631751 AACTCACAT
1 AACTTACAT
*
7631760 AACGTACAT
1 AACTTACAT
7631769 AACAACTTACAT
1 ---AACTTACAT
7631781 AACTTA
1 AACTTA
7631787 ACTAATACAT
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
9 42 0.84
12 8 0.16
ACGTcount: A:0.44, C:0.24, G:0.03, T:0.29
Consensus pattern (9 bp):
AACTTACAT
Found at i:7631769 original size:27 final size:27
Alignment explanation
Indices: 7631718--7631770 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
7631708 ACATAACAAC
* *
7631718 TTACATAACTCACATAACTTGCATAAT
1 TTACATAACTCACATAACGTACATAAT
7631745 TTACATAACTCACATAACGTACATAA
1 TTACATAACTCACATAACGTACATAA
7631771 CAACTTACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.43, C:0.23, G:0.04, T:0.30
Consensus pattern (27 bp):
TTACATAACTCACATAACGTACATAAT
Found at i:7637335 original size:21 final size:21
Alignment explanation
Indices: 7637311--7637352 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
7637301 AACTCAGAGT
7637311 GGAGGCAACAACAAGGGAGGC
1 GGAGGCAACAACAAGGGAGGC
* * *
7637332 GGAGGCAGCAGCGAGGGAGGC
1 GGAGGCAACAACAAGGGAGGC
7637353 AGAGCAGAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.31, C:0.19, G:0.50, T:0.00
Consensus pattern (21 bp):
GGAGGCAACAACAAGGGAGGC
Found at i:7637723 original size:43 final size:43
Alignment explanation
Indices: 7637649--7637750 Score: 150
Period size: 43 Copynumber: 2.4 Consensus size: 43
7637639 ACTAGGCAAA
* * * *
7637649 TTAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAGACCAAGACTT
1 TTAGCGGCGTTTTTTAAAAAAACACCACTAAAGAACAAGACTT
* *
7637692 TTAGTGGCGCTTTTTAAAAAAACACCACTAAAGAACAAGACTT
1 TTAGCGGCGTTTTTTAAAAAAACACCACTAAAGAACAAGACTT
7637735 TTAGCGGCGTTTTTTA
1 TTAGCGGCGTTTTTTA
7637751 TATAAGCGCC
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (43 bp):
TTAGCGGCGTTTTTTAAAAAAACACCACTAAAGAACAAGACTT
Found at i:7637781 original size:43 final size:43
Alignment explanation
Indices: 7637734--7637969 Score: 294
Period size: 43 Copynumber: 5.4 Consensus size: 43
7637724 GAACAAGACT
7637734 TTTAGCGGCGTTTTTTATATAAGCGCCGCTATAAGTCCTGGTC
1 TTTAGCGGCGTTTTTTATATAAGCGCCGCTATAAGTCCTGGTC
* * *
7637777 TTTAGCGGCGTTTTTTAAAAAAGTGCCGCTATAAGTCCTGGTC
1 TTTAGCGGCGTTTTTTATATAAGCGCCGCTATAAGTCCTGGTC
* * * * *
7637820 TTTAGCGGCATTTTTTA-AAAAGCGCCTCTATTAGTCCTAGTC
1 TTTAGCGGCGTTTTTTATATAAGCGCCGCTATAAGTCCTGGTC
7637862 TTTAGCGGCACTTTCGTTTTTTATATAAGCGCCGCTATAAGTCCTGGTC
1 TTTAGCGG------CGTTTTTTATATAAGCGCCGCTATAAGTCCTGGTC
* * * * *
7637911 TTTAGTGGCATTTTTTGTATAAGCGCTGCTAAAAGTCCTGGTC
1 TTTAGCGGCGTTTTTTATATAAGCGCCGCTATAAGTCCTGGTC
7637954 TTTAGCGGCGTTTTTT
1 TTTAGCGGCGTTTTTT
7637970 TCAACAAAAC
Statistics
Matches: 166, Mismatches: 20, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
42 29 0.17
43 101 0.61
48 8 0.05
49 28 0.17
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.39
Consensus pattern (43 bp):
TTTAGCGGCGTTTTTTATATAAGCGCCGCTATAAGTCCTGGTC
Found at i:7643581 original size:46 final size:45
Alignment explanation
Indices: 7643528--7643703 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
7643518 TATTTGGGCA
7643528 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
7643574 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
7643621 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
7643667 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
7643704 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:7643683 original size:93 final size:93
Alignment explanation
Indices: 7643524--7643695 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
7643514 AGGATATTTG
* *
7643524 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
7643589 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
7643617 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
7643682 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
7643696 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:7648293 original size:47 final size:48
Alignment explanation
Indices: 7648175--7648305 Score: 203
Period size: 47 Copynumber: 2.8 Consensus size: 48
7648165 GTGTGAGCGA
* *
7648175 TACCTTGATTTGGCTACGGGCCATGGTATAGGTATTTCGGAGAAGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGGAGAAGAGT
**
7648223 TACCTTGATTTGGCTACAAGCCATGGTATAGGTACTCCGG-GATA-AGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGGAGA-AGAGT
7648270 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
7648306 TATCGATTGA
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
47 39 0.51
48 37 0.49
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (48 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGGAGAAGAGT
Found at i:7648324 original size:47 final size:46
Alignment explanation
Indices: 7648178--7648324 Score: 142
Period size: 47 Copynumber: 3.1 Consensus size: 46
7648168 TGAGCGATAC
7648178 CTTGATTTGGCTACGGGCCATGGTATAGGTA-TTTCGGA-GAAGAGTTA
1 CTTGATTTGGCTACGGGCCATGGTATAGGTACTTTC-GATG-AGA-TTA
** * *
7648225 CCTTGATTTGGCTACAAGCCATGGTATAGGTAC-TCCGGGATAAG-TTA
1 -CTTGATTTGGCTACGGGCCATGGTATAGGTACTTTC--GATGAGATTA
7648272 CCTTGATTTGGCTACGGGCCATGGTATAGGTACTTATCGATTGAGATT-
1 -CTTGATTTGGCTACGGGCCATGGTATAGGTACTT-TCGA-TGAGATTA
7648320 CTTGA
1 CTTGA
7648325 ATATCCAATT
Statistics
Matches: 84, Mismatches: 8, Indels: 15
0.79 0.07 0.14
Matches are distributed among these distances:
47 41 0.49
48 35 0.42
49 8 0.10
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (46 bp):
CTTGATTTGGCTACGGGCCATGGTATAGGTACTTTCGATGAGATTA
Found at i:7650247 original size:39 final size:41
Alignment explanation
Indices: 7650152--7650335 Score: 224
Period size: 40 Copynumber: 4.6 Consensus size: 41
7650142 TTGAATGATG
*
7650152 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA
*
7650191 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAATA
7650231 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
* *
7650270 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
* *
7650310 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
7650336 AACGAGGAGC
Statistics
Matches: 128, Mismatches: 8, Indels: 17
0.84 0.05 0.11
Matches are distributed among these distances:
39 55 0.43
40 61 0.48
41 11 0.09
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
Found at i:7650357 original size:79 final size:79
Alignment explanation
Indices: 7650204--7650368 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
7650194 GGACTAAGAT
* **
7650204 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGATACTAA
*
7650269 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
7650283 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGA-GC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGA-GATAC
* *
7650346 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
7650362 CCGAAGG
1 CCGAAGG
7650369 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.62
80 24 0.32
81 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGATACTAA
ATCCGGGTTAAATC
Found at i:7658200 original size:39 final size:40
Alignment explanation
Indices: 7658105--7658327 Score: 273
Period size: 39 Copynumber: 5.7 Consensus size: 40
7658095 TTGAATGATG
*
7658105 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
7658143 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
7658184 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
7658223 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
7658262 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
7658301 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
7658328 AACGAGGAGC
Statistics
Matches: 166, Mismatches: 10, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
39 93 0.56
40 61 0.37
41 11 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:7658291 original size:79 final size:81
Alignment explanation
Indices: 7658105--7658327 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
7658095 TTGAATGATG
* * *
7658105 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATATCCGGGCTAAGACCCGAAGGCA
*
7658166 TTTGTGCGAGATACTAAT
64 TTTGTGCGAGATACTAAA
7658184 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT-TCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
*
7658246 TGTGCGAGTTACTAAA
66 TGTGCGAGATACTAAA
* * * * *
7658262 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
7658326 TG
66 TG
7658328 AACGAGGAGC
Statistics
Matches: 128, Mismatches: 9, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:7658349 original size:79 final size:79
Alignment explanation
Indices: 7658105--7658360 Score: 224
Period size: 79 Copynumber: 3.3 Consensus size: 79
7658095 TTGAATGATG
* * * *
7658105 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
7658166 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
7658184 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
7658248 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
* *
7658262 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATT
*
7658326 TGAACGAG-GAGCTATA
64 TGAACGAGTGA-CTAAA
* *
7658342 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
7658361 TACGTGATTT
Statistics
Matches: 153, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
77 1 0.01
78 45 0.29
79 70 0.46
80 36 0.24
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:7666483 original size:42 final size:42
Alignment explanation
Indices: 7666436--7666589 Score: 184
Period size: 42 Copynumber: 3.7 Consensus size: 42
7666426 ATAAGTTTAT
* * *
7666436 GTGTAAGACCATATCTGGGATACGGCATCGTTATGAGATTTC
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGATATC
* * *
7666478 GTGTAAGACCATGTCTGGGACATGGCATTGATATGAGA-ATC
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGATATC
* * **
7666519 GTGTAAGACCATAGCTGGGCTATTGGCATCGATATGAGATCCC
1 GTGTAAGACCATATCTGGGATA-TGGCATCGATATGAGATATC
* *
7666562 ATGTAAGACCATATATGGGATATGGCAT
1 GTGTAAGACCATATCTGGGATATGGCAT
7666590 TGGTATGATT
Statistics
Matches: 93, Mismatches: 17, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
41 20 0.22
42 54 0.58
43 19 0.20
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGGCATCGATATGAGATATC
Found at i:7666581 original size:84 final size:83
Alignment explanation
Indices: 7666436--7666597 Score: 216
Period size: 84 Copynumber: 1.9 Consensus size: 83
7666426 ATAAGTTTAT
* * ** * * *
7666436 GTGTAAGACCATATCTGGGATACGGCATCGTTATGAGATTTCGTGTAAGACCATGTCTGGGACAT
1 GTGTAAGACCATAGCTGGGATACGGCATCGATATGAGATCCCATGTAAGACCATATATGGGACAT
7666501 GGCATTGATATGAGAATC
66 GGCATTGATATGAGAATC
* * *
7666519 GTGTAAGACCATAGCTGGGCTATTGGCATCGATATGAGATCCCATGTAAGACCATATATGGGATA
1 GTGTAAGACCATAGCTGGGATA-CGGCATCGATATGAGATCCCATGTAAGACCATATATGGGACA
*
7666584 TGGCATTGGTATGA
65 TGGCATTGATATGA
7666598 TTCTATATGT
Statistics
Matches: 67, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
83 20 0.30
84 47 0.70
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (83 bp):
GTGTAAGACCATAGCTGGGATACGGCATCGATATGAGATCCCATGTAAGACCATATATGGGACAT
GGCATTGATATGAGAATC
Found at i:7673026 original size:9 final size:9
Alignment explanation
Indices: 7673012--7673042 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
7673002 TGCTTTTTCT
7673012 ATTTGATGA
1 ATTTGATGA
7673021 ATTTGATGA
1 ATTTGATGA
7673030 ATTTGATGTA
1 ATTTGATG-A
7673040 ATT
1 ATT
7673043 CTTGGAATGG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 17 0.81
10 4 0.19
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.48
Consensus pattern (9 bp):
ATTTGATGA
Found at i:7680287 original size:49 final size:49
Alignment explanation
Indices: 7680222--7680563 Score: 429
Period size: 49 Copynumber: 6.9 Consensus size: 49
7680212 GCCAAAGCTA
* * * *
7680222 TCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAATTA-
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAA-CAG
*
7680271 TCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG
7680320 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG
* * *
7680369 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAG
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG
* * * * *
7680417 TTTTCGGGTACGCATAGTAGTCTGGACTTAGTACTACACATGCGACCAACAG
1 ---TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG
* * *
7680469 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAG
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG
* * *
7680517 TTTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 ---TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACC
7680564 TCACAATAGA
Statistics
Matches: 254, Mismatches: 31, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
48 9 0.04
49 167 0.66
51 74 0.29
52 4 0.02
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (49 bp):
TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAACAG
Found at i:7680457 original size:149 final size:147
Alignment explanation
Indices: 7680222--7680563 Score: 479
Period size: 149 Copynumber: 2.3 Consensus size: 147
7680212 GCCAAAGCTA
* * *
7680222 TCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACGTAGTA
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACATAGTA
7680287 GCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCCTGCACTTAGTACT
66 GCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCCTGCACTTAGTACT
*
7680352 ACACATGCGACCAACAG-
131 ACACACGCGACC-ACAGT
* * * * * * *
7680369 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCATAG
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAATTATCCGGTACACATAG
* *
7680434 TAGTCTGGACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCCTGCACTTAGTA
64 TAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCCTGCACTTAGTA
* *
7680499 CTACACACGTGATCACAGTTT
129 CTACACACGCGACCACAG--T
* *
7680520 TCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACC
7680564 TCACAATAGA
Statistics
Matches: 170, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
147 37 0.22
148 5 0.03
149 90 0.53
150 1 0.01
151 37 0.22
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (147 bp):
TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACATAGTA
GCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCCTGCACTTAGTACT
ACACACGCGACCACAGT
Found at i:7680464 original size:100 final size:100
Alignment explanation
Indices: 7680225--7680563 Score: 533
Period size: 100 Copynumber: 3.4 Consensus size: 100
7680215 AAAGCTATCT
* * *
7680225 GGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAATTA-TCCGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA-CAGTCTGGTACACGTAGTAGC
* * * *
7680289 CTGCACTTAGTACTACACATGCGACCAACAG---TCT
65 CTGCACTTAGTACTACACACGTGATC-ACAGTTTTCG
* *
7680323 GGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCC
7680388 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
66 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
* *
7680423 GGTACGCATAGTAGTCTGGACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCC
7680488 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
66 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
7680523 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
7680564 TCACAATAGA
Statistics
Matches: 222, Mismatches: 15, Indels: 6
0.91 0.06 0.02
Matches are distributed among these distances:
97 5 0.02
98 80 0.36
100 137 0.62
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTGATCACAGTTTTCG
Found at i:7686618 original size:54 final size:54
Alignment explanation
Indices: 7686550--7686669 Score: 172
Period size: 54 Copynumber: 2.2 Consensus size: 54
7686540 CGTAGGCAAA
* *
7686550 TCAGTCATTTTACCTTACAGGGGTA-TTACAGTCATTTTACCCTAT-AGGGATATT
1 TCAGTCATTCTACCTTACAGGGGTATTTA-AGTCATCTTACCCTATGAGGG-TATT
* *
7686604 TCGGTCATTCTACCTTACAGGGGTATTTAGGTCATCTTACCCTATGAGGGTATT
1 TCAGTCATTCTACCTTACAGGGGTATTTAAGTCATCTTACCCTATGAGGGTATT
7686658 TCAGTCATTCTA
1 TCAGTCATTCTA
7686670 TCACATAAGG
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
54 52 0.88
55 7 0.12
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.38
Consensus pattern (54 bp):
TCAGTCATTCTACCTTACAGGGGTATTTAAGTCATCTTACCCTATGAGGGTATT
Found at i:7686631 original size:27 final size:27
Alignment explanation
Indices: 7686550--7686669 Score: 111
Period size: 27 Copynumber: 4.4 Consensus size: 27
7686540 CGTAGGCAAA
* *
7686550 TCAGTCATTTTACCTTACAGGGGTATT
1 TCAGTCATTCTACCCTACAGGGGTATT
* * * *
7686577 ACAGTCATTTTACCCTATAGGGATATT
1 TCAGTCATTCTACCCTACAGGGGTATT
* *
7686604 TCGGTCATTCTACCTTACAGGGGTATT
1 TCAGTCATTCTACCCTACAGGGGTATT
*
7686631 T-AGGTCA-TCTTACCCTA-TGAGGGTATT
1 TCA-GTCATTC-TACCCTACAG-GGGTATT
7686658 TCAGTCATTCTA
1 TCAGTCATTCTA
7686670 TCACATAAGG
Statistics
Matches: 75, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
26 3 0.04
27 69 0.92
28 3 0.04
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.38
Consensus pattern (27 bp):
TCAGTCATTCTACCCTACAGGGGTATT
Found at i:7686680 original size:27 final size:26
Alignment explanation
Indices: 7686661--7686950 Score: 339
Period size: 27 Copynumber: 10.8 Consensus size: 26
7686651 GGGTATTTCA
* *
7686661 GTCATTCTATCACATAAGGGCAAAATC
1 GTCATTTTATCACATAAGGG-TAAATC
*
7686688 GTCATTTTATCACATAAGGGAAAAATC
1 GTCATTTTATCACATAAGGG-TAAATC
* *
7686715 GTCATCTTATCACATAAGGGCAAAATC
1 GTCATTTTATCACATAAGGG-TAAATC
* *
7686742 ATCATTTTATCACATAAGGATAAAATC
1 GTCATTTTATCACATAAGGGT-AAATC
*
7686769 ATCATTTTATCACATAAGGGTAAAATC
1 GTCATTTTATCACATAAGGGT-AAATC
* *
7686796 ATCATTTTATCACATAAGGGCAAAATC
1 GTCATTTTATCACATAAGGG-TAAATC
7686823 GTCATTTT-TCACATAAGGGTAAAATC
1 GTCATTTTATCACATAAGGGT-AAATC
7686849 GTCATTTTATCACATAAGGGTAAAATC
1 GTCATTTTATCACATAAGGGT-AAATC
*
7686876 GTCATTTTATCACATAAGGGTAAAATT
1 GTCATTTTATCACATAAGGGT-AAATC
* * * *
7686903 GTCATTTTATCTCATAAAGATAAAATT
1 GTCATTTTATCACATAAGGGT-AAATC
*
7686930 TTCATTTTATCACATAAGGGT
1 GTCATTTTATCACATAAGGGT
7686951 TCAGGTACGC
Statistics
Matches: 239, Mismatches: 20, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
26 24 0.10
27 215 0.90
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (26 bp):
GTCATTTTATCACATAAGGGTAAATC
Found at i:7686719 original size:54 final size:54
Alignment explanation
Indices: 7686661--7686950 Score: 415
Period size: 54 Copynumber: 5.4 Consensus size: 54
7686651 GGGTATTTCA
* *
7686661 GTCATTCTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGAAAAATC
1 GTCATTTTATCACATAAGGGTAAAATCGTCATTTTATCACATAAGGGAAAAATC
* * *
7686715 GTCATCTTATCACATAAGGGCAAAATCATCATTTTATCACATAA-GGATAAAATC
1 GTCATTTTATCACATAAGGGTAAAATCGTCATTTTATCACATAAGGGA-AAAATC
* * *
7686769 ATCATTTTATCACATAAGGGTAAAATCATCATTTTATCACATAAGGGCAAAATC
1 GTCATTTTATCACATAAGGGTAAAATCGTCATTTTATCACATAAGGGAAAAATC
*
7686823 GTCATTTT-TCACATAAGGGTAAAATCGTCATTTTATCACATAAGGGTAAAATC
1 GTCATTTTATCACATAAGGGTAAAATCGTCATTTTATCACATAAGGGAAAAATC
* * * *
7686876 GTCATTTTATCACATAAGGGTAAAATTGTCATTTTATCTCATAA-AGATAAAATT
1 GTCATTTTATCACATAAGGGTAAAATCGTCATTTTATCACATAAGGGA-AAAATC
*
7686930 TTCATTTTATCACATAAGGGT
1 GTCATTTTATCACATAAGGGT
7686951 TCAGGTACGC
Statistics
Matches: 216, Mismatches: 16, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
53 55 0.25
54 159 0.74
55 2 0.01
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (54 bp):
GTCATTTTATCACATAAGGGTAAAATCGTCATTTTATCACATAAGGGAAAAATC
Found at i:7686719 original size:81 final size:81
Alignment explanation
Indices: 7686658--7686950 Score: 403
Period size: 81 Copynumber: 3.6 Consensus size: 81
7686648 TGAGGGTATT
* *
7686658 TCAGTCATTCTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGAAAAATCGTCATCTT
1 TCAGTCATT-TATCACATAAGGGTAAAATCGTCATTTTATCACATAAGGGTAAAATCGTCATCTT
7686723 ATCACATAAGGGCAAAA
65 ATCACATAAGGGCAAAA
* * * *
7686740 TCA-TCATTTTATCACATAAGGATAAAATCATCATTTTATCACATAAGGGTAAAATCATCATTTT
1 TCAGTCA-TTTATCACATAAGGGTAAAATCGTCATTTTATCACATAAGGGTAAAATCGTCATCTT
7686804 ATCACATAAGGGCAAAA
65 ATCACATAAGGGCAAAA
* *
7686821 TC-GTCATTTTTCACATAAGGGTAAAATCGTCATTTTATCACATAAGGGTAAAATCGTCATTTTA
1 TCAGTCATTTATCACATAAGGGTAAAATCGTCATTTTATCACATAAGGGTAAAATCGTCATCTTA
*
7686885 TCACATAAGGGTAAAA
66 TCACATAAGGGCAAAA
* * * * **
7686901 T-TGTCATTTTATCTCATAAAGATAAAATTTTCATTTTATCACATAAGGGT
1 TCAGTCA-TTTATCACATAAGGGTAAAATCGTCATTTTATCACATAAGGGT
7686951 TCAGGTACGC
Statistics
Matches: 190, Mismatches: 17, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
80 74 0.39
81 111 0.58
82 5 0.03
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (81 bp):
TCAGTCATTTATCACATAAGGGTAAAATCGTCATTTTATCACATAAGGGTAAAATCGTCATCTTA
TCACATAAGGGCAAAA
Found at i:7689078 original size:17 final size:17
Alignment explanation
Indices: 7689056--7689090 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
7689046 ATATAATACT
7689056 ATTAAGATAAATATTAA
1 ATTAAGATAAATATTAA
* *
7689073 ATTAAGTTTAATATTAA
1 ATTAAGATAAATATTAA
7689090 A
1 A
7689091 CTATTAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (17 bp):
ATTAAGATAAATATTAA
Found at i:7689094 original size:37 final size:35
Alignment explanation
Indices: 7689032--7689106 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 35
7689022 TTAAATTTAA
*
7689032 ATTAAATTAAATTAATATAATACTATTAAGATAAAT
1 ATTAAATTAAATTAATATAATACTATTAAAAT-AAT
*
7689068 ATTAAATTAAGTTTAATATTAA-ACTATTAAAATAAT
1 ATTAAATTAA-ATTAATA-TAATACTATTAAAATAAT
7689104 ATT
1 ATT
7689107 TTTTTGGAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 16 0.46
37 16 0.46
38 3 0.09
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (35 bp):
ATTAAATTAAATTAATATAATACTATTAAAATAAT
Found at i:7691045 original size:25 final size:25
Alignment explanation
Indices: 7691005--7691053 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
7690995 GGTATGCCCA
7691005 TTCGAGCATGTAAACGGGAAGCTCT
1 TTCGAGCATGTAAACGGGAAGCTCT
7691030 TTCGAGCCATGT-AACGGGAAGCTC
1 TTCGAG-CATGTAAACGGGAAGCTC
7691054 ATGTAAGCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 18 0.78
26 5 0.22
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (25 bp):
TTCGAGCATGTAAACGGGAAGCTCT
Found at i:7691217 original size:25 final size:25
Alignment explanation
Indices: 7691174--7691227 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
7691164 ATATTAGGAA
* * *
7691174 GCTCGTAAGAGCCATATAACGGGAT
1 GCTCATAAGAGCCAAATAACGGGAC
* *
7691199 GCTCATAAGAGCTAAATAATGGGAC
1 GCTCATAAGAGCCAAATAACGGGAC
7691224 GCTC
1 GCTC
7691228 TTGCAAGCTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.20
Consensus pattern (25 bp):
GCTCATAAGAGCCAAATAACGGGAC
Found at i:7691425 original size:21 final size:21
Alignment explanation
Indices: 7691401--7691487 Score: 60
Period size: 21 Copynumber: 4.3 Consensus size: 21
7691391 ACATATCATC
7691401 CAATTTAAACATATAAATATA
1 CAATTTAAACATATAAATATA
**
7691422 CAATTTATGGCA-AT---TATA
1 CAATTTA-AACATATAAATATA
* * * *
7691440 C-ATTT-CACATACATATCATC
1 CAATTTAAACATATAAAT-ATA
7691460 CAATTTAAACATATAAATATA
1 CAATTTAAACATATAAATATA
7691481 CAATTTA
1 CAATTTA
7691488 GTTTCACGAA
Statistics
Matches: 48, Mismatches: 10, Indels: 16
0.65 0.14 0.22
Matches are distributed among these distances:
15 2 0.04
16 1 0.02
17 4 0.08
18 5 0.10
19 1 0.02
20 3 0.06
21 22 0.46
22 10 0.21
ACGTcount: A:0.47, C:0.15, G:0.02, T:0.36
Consensus pattern (21 bp):
CAATTTAAACATATAAATATA
Found at i:7691452 original size:59 final size:59
Alignment explanation
Indices: 7691369--7691487 Score: 229
Period size: 59 Copynumber: 2.0 Consensus size: 59
7691359 ATACTTATAC
*
7691369 ATGGCAATTATACATTTCATATACATATCATCCAATTTAAACATATAAATATACAATTT
1 ATGGCAATTATACATTTCACATACATATCATCCAATTTAAACATATAAATATACAATTT
7691428 ATGGCAATTATACATTTCACATACATATCATCCAATTTAAACATATAAATATACAATTT
1 ATGGCAATTATACATTTCACATACATATCATCCAATTTAAACATATAAATATACAATTT
7691487 A
1 A
7691488 GTTTCACGAA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.45, C:0.16, G:0.03, T:0.36
Consensus pattern (59 bp):
ATGGCAATTATACATTTCACATACATATCATCCAATTTAAACATATAAATATACAATTT
Found at i:7698030 original size:47 final size:47
Alignment explanation
Indices: 7697974--7698094 Score: 156
Period size: 47 Copynumber: 2.6 Consensus size: 47
7697964 ATAATATCTT
**
7697974 ATTTGGCTACGGGCCATGGTATAGGTATTCA-GAGAGGAGTTA-CATTG
1 ATTTGGCTACGGGCCATGGTATAGGTATTCAGGA-ACAAGTTAGC-TTG
* *
7698021 ATTTGGCTACGGGCCATGGTATAGGTATTCTGGAACAATTTAGCTTG
1 ATTTGGCTACGGGCCATGGTATAGGTATTCAGGAACAAGTTAGCTTG
* *
7698068 ATTTGGTTACGAGCCATGGTATAGGTA
1 ATTTGGCTACGGGCCATGGTATAGGTA
7698095 CTTATCGATT
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
47 63 0.95
48 3 0.05
ACGTcount: A:0.25, C:0.13, G:0.30, T:0.32
Consensus pattern (47 bp):
ATTTGGCTACGGGCCATGGTATAGGTATTCAGGAACAAGTTAGCTTG
Found at i:7702339 original size:15 final size:15
Alignment explanation
Indices: 7702315--7702346 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
7702305 TATGCAAGAA
*
7702315 AAATATAAAAGACAT
1 AAATACAAAAGACAT
7702330 AAATACAAAAGACAT
1 AAATACAAAAGACAT
7702345 AA
1 AA
7702347 TAGTGAAATG
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:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:7710058 original size:9 final size:9
Alignment explanation
Indices: 7710036--7710071 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
7710026 GAGGGGAGAA
*
7710036 AATATATAAT
1 AATA-ATAAG
7710046 AATAATAAG
1 AATAATAAG
7710055 AATAATAAG
1 AATAATAAG
7710064 AATAATAA
1 AATAATAA
7710072 ACCTTTGATG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
9 21 0.84
10 4 0.16
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.28
Consensus pattern (9 bp):
AATAATAAG
Found at i:7713949 original size:14 final size:15
Alignment explanation
Indices: 7713930--7713958 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7713920 ATTATTAAAA
7713930 TAATAA-TAATCATT
1 TAATAATTAATCATT
7713944 TAATAATTAATCATT
1 TAATAATTAATCATT
7713959 ACTTAACTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (15 bp):
TAATAATTAATCATT
Found at i:7719301 original size:15 final size:16
Alignment explanation
Indices: 7719281--7719319 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 16
7719271 TTTACTAATT
7719281 TTCATTA-TTATAAGA
1 TTCATTATTTATAAGA
7719296 TTCATTATTGTTATAAGA
1 TTCATTA-T-TTATAAGA
7719314 TTCATT
1 TTCATT
7719320 CTTTTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.33
18 14 0.67
ACGTcount: A:0.33, C:0.08, G:0.08, T:0.51
Consensus pattern (16 bp):
TTCATTATTTATAAGA
Found at i:7719625 original size:65 final size:65
Alignment explanation
Indices: 7719545--7719678 Score: 207
Period size: 65 Copynumber: 2.1 Consensus size: 65
7719535 AATAAAATAA
* * **
7719545 TTTTGTCATTTAAATACG-AGTCCAAATTTCACTTACAAATAATTGTTACTTTAATATTTTATTA
1 TTTTGTCATTTAAATACGCA-TCAAAATTTCACCTACAAATAACCGTTACTTTAATATTTTATTA
7719609 C
65 C
*
7719610 TTTTGTCATTTAAATATGCATCAAAATTTCACCTACAAATAACCGTTACTTTAATATTTTATTAC
1 TTTTGTCATTTAAATACGCATCAAAATTTCACCTACAAATAACCGTTACTTTAATATTTTATTAC
7719675 TTTT
1 TTTT
7719679 AACATAATAT
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
65 62 0.98
66 1 0.02
ACGTcount: A:0.34, C:0.15, G:0.05, T:0.46
Consensus pattern (65 bp):
TTTTGTCATTTAAATACGCATCAAAATTTCACCTACAAATAACCGTTACTTTAATATTTTATTAC
Found at i:7722686 original size:224 final size:224
Alignment explanation
Indices: 7722296--7722744 Score: 835
Period size: 224 Copynumber: 2.0 Consensus size: 224
7722286 TTGCATGTCG
* *
7722296 TCTTCCCCGAAATTTCTATGGAAACCCTAGGCGAAAGGAACAAAACTCTCCAAGCTTAAAAAGGT
1 TCTTCCCCAAAATTTCTATGGAAACCCTAGGAGAAAGGAACAAAACTCTCCAAGCTTAAAAAGGT
7722361 ATGAAATCAAGCTCCGTTATTAGTAATTTTTATAGTTTTGGAGTCGGGATAGTCTAATCTATCTA
66 ATGAAATCAAGCTCCGTTATTAGTAATTTTTATAGTTTTGGAGTCGGGATAGTCTAATCTATCTA
*
7722426 TTTGGGGGATTAATTTGAAAAGTTATCAAGGTATGAAATTTCAGTCATGGATGAACATGCTGAAA
131 TTTGGGGGATTAATTTGAAAAGTTATCAAGGTATGAAATTTCAGTCATGGATGAACAGGCTGAAA
7722491 ATTTGAAATTTATGGTAGAAAATAAAAGA
196 ATTTGAAATTTATGGTAGAAAATAAAAGA
* *
7722520 TCTTCCCCAAAATTTCTATGGAAACCCTAGGAGAAAGGAAGAAAACTTTCCAAGCTTAAAAAGGT
1 TCTTCCCCAAAATTTCTATGGAAACCCTAGGAGAAAGGAACAAAACTCTCCAAGCTTAAAAAGGT
* *
7722585 ATGAAATCAAGCTCCGTTTTTAGTAATTTTTATATTTTTGGAGTCGGGATAGTCTAATCTATCTA
66 ATGAAATCAAGCTCCGTTATTAGTAATTTTTATAGTTTTGGAGTCGGGATAGTCTAATCTATCTA
7722650 TTTGGGGGATTAATTTGAAAAGTTATCAAGGTATGAAATTTCAGTCATGGATGAACAGGCTGAAA
131 TTTGGGGGATTAATTTGAAAAGTTATCAAGGTATGAAATTTCAGTCATGGATGAACAGGCTGAAA
7722715 ATTTGAAATTTATGGTAGAAAATAAAAGA
196 ATTTGAAATTTATGGTAGAAAATAAAAGA
7722744 T
1 T
7722745 TCTTGATAGA
Statistics
Matches: 218, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
224 218 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (224 bp):
TCTTCCCCAAAATTTCTATGGAAACCCTAGGAGAAAGGAACAAAACTCTCCAAGCTTAAAAAGGT
ATGAAATCAAGCTCCGTTATTAGTAATTTTTATAGTTTTGGAGTCGGGATAGTCTAATCTATCTA
TTTGGGGGATTAATTTGAAAAGTTATCAAGGTATGAAATTTCAGTCATGGATGAACAGGCTGAAA
ATTTGAAATTTATGGTAGAAAATAAAAGA
Found at i:7728980 original size:43 final size:42
Alignment explanation
Indices: 7728932--7729012 Score: 117
Period size: 43 Copynumber: 1.9 Consensus size: 42
7728922 TTATGTAAAA
* *
7728932 AAACGCCTCTAAAGGTCATGACTTTTAACGGCGCTTTCCCCAC
1 AAACGCCGCTAAAGGTCATG-CTTTTAACGACGCTTTCCCCAC
* *
7728975 AAACGCCGCTAAAGGTCATGTTTTTAGCGACGCTTTCC
1 AAACGCCGCTAAAGGTCATGCTTTTAACGACGCTTTCC
7729013 TTAAAAACGC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
42 15 0.44
43 19 0.56
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (42 bp):
AAACGCCGCTAAAGGTCATGCTTTTAACGACGCTTTCCCCAC
Found at i:7729021 original size:42 final size:43
Alignment explanation
Indices: 7728930--7729034 Score: 122
Period size: 42 Copynumber: 2.5 Consensus size: 43
7728920 GTTTATGTAA
* *
7728930 AAAAACGCCTCTAAAGGTCATGACTTTTAACGGCGCTTTCCCC
1 AAAAACGCCACTAAAGGTCATGACTTTTAACGACGCTTTCCCC
* * * * **
7728973 ACAAACGCCGCTAAAGGTCATG-TTTTTAGCGACGCTTTCCTT
1 AAAAACGCCACTAAAGGTCATGACTTTTAACGACGCTTTCCCC
*
7729015 AAAAACGCCACTAAAAGTCA
1 AAAAACGCCACTAAAGGTCA
7729035 CCACTATCTC
Statistics
Matches: 52, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
42 32 0.62
43 20 0.38
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (43 bp):
AAAAACGCCACTAAAGGTCATGACTTTTAACGACGCTTTCCCC
Found at i:7731415 original size:45 final size:45
Alignment explanation
Indices: 7731364--7731455 Score: 175
Period size: 45 Copynumber: 2.0 Consensus size: 45
7731354 CTGAATTAGT
*
7731364 TAATATTCAAGTTAAAAAGATGAATTTAAAATTCGCATACCTTGG
1 TAATATTCAAATTAAAAAGATGAATTTAAAATTCGCATACCTTGG
7731409 TAATATTCAAATTAAAAAGATGAATTTAAAATTCGCATACCTTGG
1 TAATATTCAAATTAAAAAGATGAATTTAAAATTCGCATACCTTGG
7731454 TA
1 TA
7731456 TTTCTAACTA
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:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (45 bp):
TAATATTCAAATTAAAAAGATGAATTTAAAATTCGCATACCTTGG
Found at i:7733568 original size:16 final size:16
Alignment explanation
Indices: 7733547--7733578 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7733537 TAGCTCAATT
7733547 TTTTGTTTAATTTTAA
1 TTTTGTTTAATTTTAA
*
7733563 TTTTGTTTTATTTTAA
1 TTTTGTTTAATTTTAA
7733579 CATGTTGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (16 bp):
TTTTGTTTAATTTTAA
Found at i:7733638 original size:22 final size:22
Alignment explanation
Indices: 7733610--7733654 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
7733600 AAGAATAAAT
7733610 TAAAATGTGATAGAAGAAAGAG
1 TAAAATGTGATAGAAGAAAGAG
7733632 TAAAATGTGATAGAAGAAAGAG
1 TAAAATGTGATAGAAGAAAGAG
7733654 T
1 T
7733655 GTAGAGAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.27, T:0.20
Consensus pattern (22 bp):
TAAAATGTGATAGAAGAAAGAG
Found at i:7733832 original size:28 final size:28
Alignment explanation
Indices: 7733801--7733863 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
7733791 TCCCATATTA
7733801 ATGGGGTATAGGAAAAGTCTCATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
* * * *
7733829 ATGGGATATAGGAAGAGTTTTATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
7733857 ATGGGGT
1 ATGGGGT
7733864 TGATAATGAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.33, C:0.06, G:0.29, T:0.32
Consensus pattern (28 bp):
ATGGGGTATAGGAAAAGTCTCATAACTT
Found at i:7739232 original size:28 final size:28
Alignment explanation
Indices: 7739201--7739263 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
7739191 TCCCATATTA
7739201 ATGGGGTATAGAAAAAGTCTCATAACTT
1 ATGGGGTATAGAAAAAGTCTCATAACTT
* * * *
7739229 ATGGGGTATAGGAAGAGTTTTATAACTT
1 ATGGGGTATAGAAAAAGTCTCATAACTT
7739257 ATGGGGT
1 ATGGGGT
7739264 TGATAATGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.33, C:0.06, G:0.29, T:0.32
Consensus pattern (28 bp):
ATGGGGTATAGAAAAAGTCTCATAACTT
Found at i:7739441 original size:14 final size:14
Alignment explanation
Indices: 7739422--7739465 Score: 61
Period size: 15 Copynumber: 3.0 Consensus size: 14
7739412 TAAATATTAA
7739422 ATTTTTAAGTTTTTT
1 ATTTTTAA-TTTTTT
*
7739437 ATTTTTAATTTTTA
1 ATTTTTAATTTTTT
7739451 ATTTTTAAATTTTTT
1 ATTTTT-AATTTTTT
7739466 GAAGATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 11 0.42
15 15 0.58
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (14 bp):
ATTTTTAATTTTTT
Found at i:7739443 original size:6 final size:7
Alignment explanation
Indices: 7739421--7739464 Score: 61
Period size: 7 Copynumber: 6.0 Consensus size: 7
7739411 TTAAATATTA
7739421 AATTTTT
1 AATTTTT
7739428 AAGTTTTT
1 AA-TTTTT
*
7739436 TATTTTT
1 AATTTTT
7739443 AATTTTT
1 AATTTTT
7739450 AATTTTT
1 AATTTTT
7739457 AAATTTTT
1 -AATTTTT
7739465 TGAAGATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
7 20 0.61
8 13 0.39
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.70
Consensus pattern (7 bp):
AATTTTT
Found at i:7740225 original size:20 final size:21
Alignment explanation
Indices: 7740171--7740225 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
7740161 AGCCTTAAAC
*
7740171 CCCTAACCCCTAAACCATAAT
1 CCCTAAACCCTAAACCATAAT
* *
7740192 CCCTAAATCATAAA-CATAAT
1 CCCTAAACCCTAAACCATAAT
*
7740212 CTCTAAACCCTAAA
1 CCCTAAACCCTAAA
7740226 AACTTAAAAC
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.44, C:0.35, G:0.00, T:0.22
Consensus pattern (21 bp):
CCCTAAACCCTAAACCATAAT
Found at i:7740297 original size:15 final size:14
Alignment explanation
Indices: 7740269--7740306 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
7740259 AAACCCCAAC
7740269 CCCTAAACCATAAT
1 CCCTAAACCATAAT
7740283 CCCTAAACTCATAAT
1 CCCTAAAC-CATAAT
*
7740298 CCATAAACC
1 CCCTAAACC
7740307 TTAAAATAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.42, C:0.37, G:0.00, T:0.21
Consensus pattern (14 bp):
CCCTAAACCATAAT
Found at i:7740352 original size:14 final size:13
Alignment explanation
Indices: 7740332--7740374 Score: 59
Period size: 14 Copynumber: 3.2 Consensus size: 13
7740322 ATACACTTTA
7740332 AACCCTAAACCAT
1 AACCCTAAACCAT
7740345 ATACCCTAAACCAT
1 A-ACCCTAAACCAT
*
7740359 AACCTCTAAACTAT
1 AACC-CTAAACCAT
7740373 AA
1 AA
7740375 TGATAATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 4 0.15
14 23 0.85
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.21
Consensus pattern (13 bp):
AACCCTAAACCAT
Found at i:7740480 original size:7 final size:7
Alignment explanation
Indices: 7740468--7740567 Score: 51
Period size: 7 Copynumber: 14.0 Consensus size: 7
7740458 ACTAATTAAT
7740468 CTAAACC
1 CTAAACC
7740475 CTAAACTC
1 CTAAAC-C
* *
7740483 TTAATCC
1 CTAAACC
7740490 CTAAACC
1 CTAAACC
* *
7740497 TTAAACT
1 CTAAACC
* *
7740504 ATAAATC
1 CTAAACC
*
7740511 CTAAAAC
1 CTAAACC
* *
7740518 ATGAACC
1 CTAAACC
7740525 CTAAACCC
1 CTAAA-CC
7740533 CT-AACAC
1 CTAAAC-C
7740540 CTAAACC
1 CTAAACC
*
7740547 TTAAACC
1 CTAAACC
*
7740554 C-CAACC
1 CTAAACC
7740560 CTTAAACC
1 C-TAAACC
7740568 ACCCTTAAAC
Statistics
Matches: 67, Mismatches: 20, Indels: 11
0.68 0.20 0.11
Matches are distributed among these distances:
6 6 0.09
7 45 0.67
8 16 0.24
ACGTcount: A:0.42, C:0.36, G:0.01, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:7740517 original size:22 final size:22
Alignment explanation
Indices: 7740468--7740515 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
7740458 ACTAATTAAT
* *
7740468 CTAAACCCTAAACTCTTAATCC
1 CTAAACCCTAAACTATAAATCC
*
7740490 CTAAACCTTAAACTATAAAT-C
1 CTAAACCCTAAACTATAAATCC
7740511 CTAAA
1 CTAAA
7740516 ACATGAACCC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.44, C:0.29, G:0.00, T:0.27
Consensus pattern (22 bp):
CTAAACCCTAAACTATAAATCC
Found at i:7740535 original size:22 final size:22
Alignment explanation
Indices: 7740510--7740555 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
7740500 AACTATAAAT
*
7740510 CCTAAAACATGAACCCTAAACC
1 CCTAAAACATAAACCCTAAACC
* * *
7740532 CCTAACACCTAAACCTTAAACC
1 CCTAAAACATAAACCCTAAACC
7740554 CC
1 CC
7740556 AACCCTTAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.41, C:0.41, G:0.02, T:0.15
Consensus pattern (22 bp):
CCTAAAACATAAACCCTAAACC
Found at i:7740567 original size:21 final size:22
Alignment explanation
Indices: 7740521--7740567 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
7740511 CTAAAACATG
7740521 AACCCTAAACCCCTAACACCTA
1 AACCCTAAACCCCTAACACCTA
*
7740543 AACCTTAAACCCC-AAC-CCTTA
1 AACCCTAAACCCCTAACACC-TA
7740564 AACC
1 AACC
7740568 ACCCTTAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 2 0.09
21 9 0.39
22 12 0.52
ACGTcount: A:0.40, C:0.45, G:0.00, T:0.15
Consensus pattern (22 bp):
AACCCTAAACCCCTAACACCTA
Found at i:7745900 original size:63 final size:63
Alignment explanation
Indices: 7745789--7745909 Score: 161
Period size: 63 Copynumber: 1.9 Consensus size: 63
7745779 GTACTATTCG
* * * * * *
7745789 GGCCTTTGAGCCTAGCAGGCTATAATACCGGTGAGATACTACTCGGGCCTTTGAGCCTCTTCA
1 GGCCTTTAAGCCTAACAGGCTATAATACCGATGAAATACCACTCGGGCCTTTAAGCCTCTTCA
* * *
7745852 GGCCTTTAAGCCTAATAGGCTATAATGCCGATGAAATACCACTTGGGCCTTTAAGCCT
1 GGCCTTTAAGCCTAACAGGCTATAATACCGATGAAATACCACTCGGGCCTTTAAGCCT
7745910 AGCAGGCTAT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
63 49 1.00
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (63 bp):
GGCCTTTAAGCCTAACAGGCTATAATACCGATGAAATACCACTCGGGCCTTTAAGCCTCTTCA
Found at i:7753784 original size:63 final size:63
Alignment explanation
Indices: 7753664--7753790 Score: 150
Period size: 63 Copynumber: 2.0 Consensus size: 63
7753654 TCATACAGTA
* * * * * *
7753664 CTATTCGGGCCTTTGAGCCTAGCAGGCTATAATACCGGTGAGATACTATTCGAGCCTTTGAGC
1 CTATTCAGGCCTTTGAGCCTAACAGGCTATAATACCGATGAAATACCATTCGAGCCTTTAAGC
* *
7753727 CTATTCAGGCCTTTGAGCCTAATAGGCTATAATGA-CGATGAAATACCACTT-GGGCCTTTAAGC
1 CTATTCAGGCCTTTGAGCCTAACAGGCTATAAT-ACCGATGAAATACCA-TTCGAGCCTTTAAGC
7753790 C
1 C
7753791 AAGCAGGCTA
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
63 51 0.94
64 3 0.06
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (63 bp):
CTATTCAGGCCTTTGAGCCTAACAGGCTATAATACCGATGAAATACCATTCGAGCCTTTAAGC
Found at i:7756302 original size:16 final size:15
Alignment explanation
Indices: 7756277--7756306 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
7756267 TGAGTAAAGG
7756277 GAAAAAAATAAAATA
1 GAAAAAAATAAAATA
7756292 GAAACAAAATAAAAT
1 GAAA-AAAATAAAAT
7756307 TTAAATCCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.77, C:0.03, G:0.07, T:0.13
Consensus pattern (15 bp):
GAAAAAAATAAAATA
Found at i:7765052 original size:12 final size:13
Alignment explanation
Indices: 7765035--7765071 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
7765025 GAACCGGACA
7765035 CGAACCGAA-CTC
1 CGAACCGAAGCTC
7765047 CGAACC-AAGCTC
1 CGAACCGAAGCTC
*
7765059 CGAACCGTAGCTC
1 CGAACCGAAGCTC
7765072 TGATGCCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
11 2 0.09
12 15 0.68
13 5 0.23
ACGTcount: A:0.30, C:0.41, G:0.19, T:0.11
Consensus pattern (13 bp):
CGAACCGAAGCTC
Found at i:7766886 original size:13 final size:13
Alignment explanation
Indices: 7766870--7766895 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7766860 AAATTATATT
7766870 TATTTAATTAAAA
1 TATTTAATTAAAA
7766883 TATTTAATTAAAA
1 TATTTAATTAAAA
7766896 ACTTAAATTT
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TATTTAATTAAAA
Found at i:7768946 original size:7 final size:7
Alignment explanation
Indices: 7768930--7768959 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
7768920 TCTAATTTTT
*
7768930 TTTAATA
1 TTTAAAA
7768937 TTTAAAA
1 TTTAAAA
7768944 TTTAAAA
1 TTTAAAA
7768951 TTTAAAA
1 TTTAAAA
7768958 TT
1 TT
7768960 CAAATATCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (7 bp):
TTTAAAA
Found at i:7772343 original size:21 final size:21
Alignment explanation
Indices: 7772302--7772343 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
7772292 GCACTTTGTG
* *
7772302 GTAATTAGTTTTTTTTTAAAA
1 GTAATTAGTTTTTTCTCAAAA
7772323 GTAATTTAG-TTTTTCTCAAAA
1 GTAA-TTAGTTTTTTCTCAAAA
7772344 TCTATTTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.52
Consensus pattern (21 bp):
GTAATTAGTTTTTTCTCAAAA
Done.