Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 164 of 226
Found at i:50717149 original size:231 final size:231
Alignment explanation
Indices: 50716717--50717159 Score: 542
Period size: 231 Copynumber: 1.9 Consensus size: 231
50716707 AGCCTTCACA
* * * * * *
50716717 TCTTTCAACTCAAATTGTTCTTCTTTCAACTCATACTCGCTCAAGCACTTCTCCAAATATTTCTC
1 TCTTTCAACCCAAATTGTTCTTCTCTCAACACAAAATCACTCAAGCACTTCTCCAAATATTTCTC
* * *
50716782 TTTCACCCCAACTTCCTCCAACTTATCTTTTACTGATTTCTCCATCAACTTAAACTCTTCACATT
66 TTTCAACCCAACTTCCTCCAACTTATCATTTACTCATTTCTCCATCAACTTAAACTCTTCACATT
* * * *
50716847 GCCGCTCACATTGTTTTACACTAACTTCAAGATCTCTGCGACGTTCTTCCAAAGCCTTTTCTTCC
131 GCCGCTCACATTGTTCTACACTAAATTCAAGATCTCTACGACGTGCTTCCAAAGCCTTTTCTTCC
*
50716912 AACTCAAACTCCATACACCGCTTCTCAAAACTCTTC
196 AACTCAAAATCCATACACCGCTTCTCAAAACTCTTC
*
50716948 TCTTTCAACCCAAATTGTTGTTCTCTCAACACAAAATCACTCAAGCGA-TTCTCCAAATCA-TTC
1 TCTTTCAACCCAAATTGTTCTTCTCTCAACACAAAATCACTCAAGC-ACTTCTCCAAAT-ATTTC
* *
50717011 TCGTTT-AACCCAA-TTTCTCCCAACTTATCATTTAC-CACTTTCTCCATCAACTTAAACTCTTT
64 TC-TTTCAACCCAACTTCCT-CCAACTTATCATTTACTCA-TTTCTCCATCAACTTAAACTCTTC
* ** * *
50717073 ACATTGCTGCTCACATTGTTCTACACTAAATTGGAGATCTTTACGAC-TGCGTT-CAAGATCCTT
126 ACATTGCCGCTCACATTGTTCTACACTAAATTCAAGATCTCTACGACGTGC-TTCCAA-AGCCTT
* *
50717136 CTTC-TCTAACTCAAAATCCCTACA
189 -TTCTTCCAACTCAAAATCCATACA
50717160 ACACTTGTCA
Statistics
Matches: 180, Mismatches: 24, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
230 10 0.06
231 162 0.90
232 8 0.04
ACGTcount: A:0.26, C:0.32, G:0.06, T:0.36
Consensus pattern (231 bp):
TCTTTCAACCCAAATTGTTCTTCTCTCAACACAAAATCACTCAAGCACTTCTCCAAATATTTCTC
TTTCAACCCAACTTCCTCCAACTTATCATTTACTCATTTCTCCATCAACTTAAACTCTTCACATT
GCCGCTCACATTGTTCTACACTAAATTCAAGATCTCTACGACGTGCTTCCAAAGCCTTTTCTTCC
AACTCAAAATCCATACACCGCTTCTCAAAACTCTTC
Found at i:50717681 original size:7 final size:7
Alignment explanation
Indices: 50717669--50717705 Score: 74
Period size: 7 Copynumber: 5.3 Consensus size: 7
50717659 AAAAGGAAAG
50717669 AAAATTA
1 AAAATTA
50717676 AAAATTA
1 AAAATTA
50717683 AAAATTA
1 AAAATTA
50717690 AAAATTA
1 AAAATTA
50717697 AAAATTA
1 AAAATTA
50717704 AA
1 AA
50717706 TTTTTTTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AAAATTA
Found at i:50717761 original size:18 final size:19
Alignment explanation
Indices: 50717738--50717773 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
50717728 TGCCTTTAAG
*
50717738 GGAGACGGAGATG-GAGAC
1 GGAGACAGAGATGAGAGAC
50717756 GGAGACAGAGATGAGAGA
1 GGAGACAGAGATGAGAGA
50717774 GAAATTAGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.39, C:0.08, G:0.47, T:0.06
Consensus pattern (19 bp):
GGAGACAGAGATGAGAGAC
Found at i:50719143 original size:16 final size:17
Alignment explanation
Indices: 50719122--50719154 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
50719112 AAGTGGATAT
50719122 TCAACCTTT-ATCTTTC
1 TCAACCTTTCATCTTTC
50719138 TCAACCTTTCATCTTTC
1 TCAACCTTTCATCTTTC
50719155 ATGTTCCTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.18, C:0.33, G:0.00, T:0.48
Consensus pattern (17 bp):
TCAACCTTTCATCTTTC
Found at i:50719256 original size:16 final size:16
Alignment explanation
Indices: 50719235--50719265 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
50719225 TCTAATCTCC
50719235 CTATATATATATATAG
1 CTATATATATATATAG
50719251 CTATATATATATATA
1 CTATATATATATATA
50719266 AGAATATACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (16 bp):
CTATATATATATATAG
Found at i:50719272 original size:16 final size:18
Alignment explanation
Indices: 50719236--50719273 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
50719226 CTAATCTCCC
*
50719236 TATATATATATATAGCTA
1 TATATATATATATAGCAA
50719254 TATATATATATA-AG-AA
1 TATATATATATATAGCAA
50719270 TATA
1 TATA
50719274 CTACTTGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 5 0.26
17 2 0.11
18 12 0.63
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (18 bp):
TATATATATATATAGCAA
Found at i:50720904 original size:24 final size:24
Alignment explanation
Indices: 50720877--50720928 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
50720867 ATGTCTGCAT
50720877 GTCTAAAAC-TTAAAAATTTGCAAA
1 GTCTAAAACATT-AAAATTTGCAAA
* *
50720901 GTCTTAAACATTAAATTTTGCAAA
1 GTCTAAAACATTAAAATTTGCAAA
50720925 GTCT
1 GTCT
50720929 TATAATAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 23 0.92
25 2 0.08
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (24 bp):
GTCTAAAACATTAAAATTTGCAAA
Found at i:50729627 original size:39 final size:40
Alignment explanation
Indices: 50729519--50729780 Score: 307
Period size: 40 Copynumber: 6.6 Consensus size: 40
50729509 TTGAATGCTG
* * * * * *
50729519 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
** * * * *
50729559 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
50729599 TCCGGGTTAAGT-CCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
50729638 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
50729678 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
50729718 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
50729757 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
50729781 TGAACGAGGA
Statistics
Matches: 200, Mismatches: 19, Indels: 7
0.88 0.08 0.03
Matches are distributed among these distances:
39 70 0.35
40 122 0.61
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:50729655 original size:79 final size:80
Alignment explanation
Indices: 50729519--50729780 Score: 307
Period size: 79 Copynumber: 3.3 Consensus size: 80
50729509 TTGAATGCTG
* * * * * * **
50729519 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCCT
*
50729582 TTGTGCGAGATACTAAA
64 TTGTGCGAGTTACTAAA
* *
50729599 TCCGGGTTAAGT-CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
50729663 GTGCGAGTTATTAAA
66 GTGCGAGTTACTAAA
* * *
50729678 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
50729742 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* * *
50729757 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
50729781 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
78 1 0.01
79 94 0.60
80 62 0.39
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:50729750 original size:119 final size:120
Alignment explanation
Indices: 50729519--50729780 Score: 316
Period size: 119 Copynumber: 2.2 Consensus size: 120
50729509 TTGAATGCTG
* * *
50729519 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
50729583 TGTGCGAGATACTAAATCCGGGTTAAGTCCGAAGGCATTCGTGCGAGTTATTAAA
66 CGTGCGAGATACTAAATCCGGGTTAAGTCCGAAGGCATTCGTGCGAGTTACTAAA
* * * * **
50729638 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * *
50729701 TCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
65 TCGTGCGAGATACTAAATCCGGGTTAAGT-CCGAAGGCATTCGTGCGAGTTACTAAA
* *
50729757 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
50729781 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
118 1 0.01
119 103 0.85
120 17 0.14
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACTAAATCCGGGTTAAGTCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:50729800 original size:79 final size:80
Alignment explanation
Indices: 50729572--50729815 Score: 244
Period size: 79 Copynumber: 3.1 Consensus size: 80
50729562 GGACTAAGAT
* * * * * ** * *
50729572 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGT-CCGAAGGCATTCGTGCGAGTTA-TT
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAG-GAGCT
50729635 AAATCCGGGTTAAGTC
65 AAATCCGGGTTAAGTC
* * * ** ** *
50729651 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
50729716 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
50729731 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
50729795 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
50729809 CCGAAGG
1 CCGAAGG
50729816 TACGTGATTT
Statistics
Matches: 143, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
78 14 0.10
79 82 0.57
80 47 0.33
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:50729800 original size:119 final size:119
Alignment explanation
Indices: 50729520--50729815 Score: 296
Period size: 119 Copynumber: 2.5 Consensus size: 119
50729510 TGAATGCTGT
* ** * * ** *
50729520 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTATATCCGGGTTAAG-TCCCGAAGGCATT
* * *
50729583 TGTGCGAGATACTAAATCCGGGTTAAGTCCGAAGGCATTCGTGCGAGTTATTAAAT
64 CGTGCGAGATACTAAATCCGGGTTAAGTCCGAAGGCATTCGTGCGAGTTACTAAAA
* ** * * *
50729639 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTATATCCGGGTTAAGTCCCGAAGGCATTCG
* ** * *
50729704 TGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAA
66 TGCGAGATACTAAATCCGGGTTAAGT-CCGAAGGCATTCGTGCGAGTTACTAAAA
* * *
50729758 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTATATCCGGGTTAAGTCCCGAAGG
50729816 TACGTGATTT
Statistics
Matches: 147, Mismatches: 26, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
118 17 0.12
119 113 0.77
120 17 0.12
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTATATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGATACTAAATCCGGGTTAAGTCCGAAGGCATTCGTGCGAGTTACTAAAA
Found at i:50737680 original size:41 final size:40
Alignment explanation
Indices: 50737538--50737737 Score: 232
Period size: 38 Copynumber: 5.1 Consensus size: 40
50737528 ACTAAGATCC
* * * *
50737538 AAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCC-
1 AAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCG
50737577 -AGGCATTCGTGCGAG-TATTAAATCC-GGTTAAGTCCCG
1 AAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCG
50737614 AAGGCATTCGTGCGAGTTATTTTAAATCCGGGTTAAGTCCCG
1 AAGGCATTCGTGCGAGTTA--TTAAATCCGGGTTAAGTCCCG
* *
50737656 AAGGCATTCTGTGCGAGTTGTTAAATCCGGGTTATGTCCCG
1 AAGGCATTC-GTGCGAGTTATTAAATCCGGGTTAAGTCCCG
* * * * *
50737697 AA-GCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCG
1 AAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCG
50737735 AAG
1 AAG
50737738 ATATGAACGA
Statistics
Matches: 143, Mismatches: 10, Indels: 16
0.85 0.06 0.09
Matches are distributed among these distances:
36 11 0.08
37 9 0.06
38 56 0.39
39 2 0.01
40 5 0.03
41 30 0.21
42 21 0.15
43 9 0.06
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
AAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCG
Found at i:50743998 original size:23 final size:23
Alignment explanation
Indices: 50743972--50744015 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
50743962 TGTTCTTTTG
50743972 TTTCTTT-TTCTAACTCATTTTCT
1 TTTCTTTCTTC-AACTCATTTTCT
*
50743995 TTTCTTTCTTCAACTTATTTT
1 TTTCTTTCTTCAACTCATTTT
50744016 TCAATTTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.14, C:0.20, G:0.00, T:0.66
Consensus pattern (23 bp):
TTTCTTTCTTCAACTCATTTTCT
Found at i:50748185 original size:45 final size:44
Alignment explanation
Indices: 50748049--50748229 Score: 198
Period size: 45 Copynumber: 4.2 Consensus size: 44
50748039 AACATCTCAA
* *
50748049 ACGTGGTCTTACATGCT-ATCTC-ATATCGATGCCA-CTGTCCCAG
1 ACGTGGTCTTACACG-TAATCACAATATCGATGCCATC-GTCCCAG
*
50748092 ACAG-GGTCTTACACG-AATCA-AATA-CGATGCCAAT-GTCCTAG
1 AC-GTGGTCTTACACGTAATCACAATATCGATGCC-ATCGTCCCAG
* *
50748133 ACATGGTCTTACACGTAATCACATATATCGATGCCATCGTCCCAA
1 ACGTGGTCTTACACGTAATCACA-ATATCGATGCCATCGTCCCAG
*
50748178 ACGTGGTCTTACACGTAATCACATATATCGATGCCATTGTCCCAG
1 ACGTGGTCTTACACGTAATCACA-ATATCGATGCCATCGTCCCAG
50748223 ACGTGGT
1 ACGTGGT
50748230 TTTGCACGAG
Statistics
Matches: 118, Mismatches: 9, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
41 26 0.22
42 12 0.10
43 13 0.11
44 6 0.05
45 61 0.52
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (44 bp):
ACGTGGTCTTACACGTAATCACAATATCGATGCCATCGTCCCAG
Found at i:50748248 original size:45 final size:45
Alignment explanation
Indices: 50748071--50748229 Score: 220
Period size: 45 Copynumber: 3.6 Consensus size: 45
50748061 ATGCTATCTC
*
50748071 ATATCGATGCCACTGTCCCAGACAG-GGTCTTACACG-AATCA-A-
1 ATATCGATGCCATTGTCCCAGAC-GTGGTCTTACACGTAATCACAT
* * *
50748113 ATA-CGATGCCAATGTCCTAGACATGGTCTTACACGTAATCACAT
1 ATATCGATGCCATTGTCCCAGACGTGGTCTTACACGTAATCACAT
* *
50748157 ATATCGATGCCATCGTCCCAAACGTGGTCTTACACGTAATCACAT
1 ATATCGATGCCATTGTCCCAGACGTGGTCTTACACGTAATCACAT
50748202 ATATCGATGCCATTGTCCCAGACGTGGT
1 ATATCGATGCCATTGTCCCAGACGTGGT
50748230 TTTGCACGAG
Statistics
Matches: 102, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
41 28 0.27
42 8 0.08
43 1 0.01
44 3 0.03
45 62 0.61
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (45 bp):
ATATCGATGCCATTGTCCCAGACGTGGTCTTACACGTAATCACAT
Found at i:50750681 original size:44 final size:47
Alignment explanation
Indices: 50750575--50750681 Score: 130
Period size: 49 Copynumber: 2.3 Consensus size: 47
50750565 CCATATTCTG
* * *
50750575 ATAGAAGTAGTGTAGTAAGGTTGAAACACCTAATTCTAATCAATATCAA
1 ATAGAAGAAGTGTAATAAGGTTGAAAAACCTAATTCTAA-CAATA-CAA
* *
50750624 ATAGAGGAAGTGTAATAAGGTTGAAAAACCTTATTCTAA-AATA-AA
1 ATAGAAGAAGTGTAATAAGGTTGAAAAACCTAATTCTAACAATACAA
50750669 ATA-AAGAAGTGTA
1 ATAGAAGAAGTGTA
50750682 GTTCTATATG
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
44 9 0.17
45 5 0.10
47 4 0.08
49 34 0.65
ACGTcount: A:0.47, C:0.08, G:0.18, T:0.27
Consensus pattern (47 bp):
ATAGAAGAAGTGTAATAAGGTTGAAAAACCTAATTCTAACAATACAA
Found at i:50753593 original size:16 final size:16
Alignment explanation
Indices: 50753574--50753607 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
50753564 GAAATTTTGG
*
50753574 AAAAATAATAAAATTA
1 AAAAATAAAAAAATTA
*
50753590 AAAATTAAAAAAATTA
1 AAAAATAAAAAAATTA
50753606 AA
1 AA
50753608 TCAAAGTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAAATAAAAAAATTA
Found at i:50760243 original size:25 final size:26
Alignment explanation
Indices: 50760199--50760249 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 26
50760189 GTTAGTATGA
50760199 ATGTAACACCCTTAAATTTCTTAACT
1 ATGTAACACCCTTAAATTTCTTAACT
*
50760225 ATGTAACATCC-TAAATTTCTTAACT
1 ATGTAACACCCTTAAATTTCTTAACT
50760250 TTCTTTGTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 14 0.58
26 10 0.42
ACGTcount: A:0.35, C:0.22, G:0.04, T:0.39
Consensus pattern (26 bp):
ATGTAACACCCTTAAATTTCTTAACT
Found at i:50762763 original size:24 final size:24
Alignment explanation
Indices: 50762731--50762782 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
50762721 AGGACCTAAG
50762731 TATGTATCTGCATCTAATTATGAA
1 TATGTATCTGCATCTAATTATGAA
*
50762755 TATGTATCTGTATCTAATTATGAA
1 TATGTATCTGCATCTAATTATGAA
50762779 TATG
1 TATG
50762783 ATTTTGAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (24 bp):
TATGTATCTGCATCTAATTATGAA
Found at i:50765171 original size:20 final size:18
Alignment explanation
Indices: 50765161--50765215 Score: 67
Period size: 17 Copynumber: 3.1 Consensus size: 18
50765151 TACAATTATA
*
50765161 TATATATTTTTATAATTT
1 TATATATTTTTAAAATTT
50765179 TATA-ATTTTTAAAATTT
1 TATATATTTTTAAAATTT
* *
50765196 TTTAAAATTTTTAAAATTT
1 TAT-ATATTTTTAAAATTT
50765215 T
1 T
50765216 GATTTTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
17 14 0.42
18 5 0.15
19 14 0.42
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TATATATTTTTAAAATTT
Found at i:50765188 original size:9 final size:9
Alignment explanation
Indices: 50765136--50765215 Score: 65
Period size: 9 Copynumber: 8.8 Consensus size: 9
50765126 AACTTTTGAT
*
50765136 TAATTATTA
1 TAATTTTTA
50765145 TAA-TTTTA
1 TAATTTTTA
* *
50765153 CAATTATATA
1 TAATT-TTTA
50765163 TATATTTTTA
1 TA-ATTTTTA
50765173 TAA-TTTTA
1 TAATTTTTA
50765181 TAATTTTTA
1 TAATTTTTA
*
50765190 AAATTTTTTA
1 TAA-TTTTTA
*
50765200 AAATTTTTA
1 TAATTTTTA
*
50765209 AAATTTT
1 TAATTTT
50765216 GATTTTTTTA
Statistics
Matches: 60, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
8 14 0.23
9 25 0.42
10 18 0.30
11 3 0.05
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (9 bp):
TAATTTTTA
Found at i:50765199 original size:10 final size:10
Alignment explanation
Indices: 50765184--50765215 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
50765174 AATTTTATAA
50765184 TTTTTAAAAT
1 TTTTTAAAAT
50765194 TTTTTAAAA-
1 TTTTTAAAAT
50765203 TTTTTAAAAT
1 TTTTTAAAAT
50765213 TTT
1 TTT
50765216 GATTTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TTTTTAAAAT
Found at i:50765204 original size:19 final size:19
Alignment explanation
Indices: 50765176--50765215 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
50765166 ATTTTTATAA
*
50765176 TTTTATAATTTTTAAAATT
1 TTTTAAAATTTTTAAAATT
50765195 TTTTAAAATTTTTAAAATT
1 TTTTAAAATTTTTAAAATT
50765214 TT
1 TT
50765216 GATTTTTTTA
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:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTAAAATTTTTAAAATT
Found at i:50768393 original size:27 final size:26
Alignment explanation
Indices: 50768356--50768711 Score: 365
Period size: 27 Copynumber: 13.3 Consensus size: 26
50768346 AGAGGTCAAT
* * * *
50768356 AAATGATCGAATTACTCCCACATGGTA
1 AAATGACCGAAATAC-CCCATAGGGTA
* * *
50768383 AAATGACCGAATTACCCTACAGGGTA
1 AAATGACCGAAATACCCCATAGGGTA
*
50768409 AAATGACTGAAATACCCTCATAGGGTA
1 AAATGACCGAAATACCC-CATAGGGTA
* * *
50768436 AAATGACCAAAATATCCCTATAGGTTA
1 AAATGACCGAAATA-CCCCATAGGGTA
**
50768463 AAATGACTAAAATACCCCCATAGGGTA
1 AAATGACCGAAATA-CCCCATAGGGTA
*
50768490 AAATGACTGAAATACCCTCATAGGGTA
1 AAATGACCGAAATACCC-CATAGGGTA
* **
50768517 AAATAACTAAAATACCCCTATAGGGTA
1 AAATGACCGAAATACCCC-ATAGGGTA
50768544 AAATGACCGAAATACCCCTATAGGGTA
1 AAATGACCGAAATACCCC-ATAGGGTA
*
50768571 AAATGATCGAAATACTCCCATAGGGTA
1 AAATGACCGAAATAC-CCCATAGGGTA
*
50768598 AAATGACTG-AATACCCCCATAGGGTA
1 AAATGACCGAAATA-CCCCATAGGGTA
*
50768624 AAATAACCGAAATACCCCTATAGGGTA
1 AAATGACCGAAATACCCC-ATAGGGTA
*
50768651 AAATGATCGAAATACCTCCATAGGGTA
1 AAATGACCGAAATACC-CCATAGGGTA
* **
50768678 AAATGACTGTTATACCCC-TAGGAGATA
1 AAATGACCGAAATACCCCATAGG-G-TA
50768705 AAATGAC
1 AAATGAC
50768712 TGTTATGGCC
Statistics
Matches: 286, Mismatches: 32, Indels: 22
0.84 0.09 0.06
Matches are distributed among these distances:
25 4 0.01
26 57 0.20
27 217 0.76
28 8 0.03
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.22
Consensus pattern (26 bp):
AAATGACCGAAATACCCCATAGGGTA
Found at i:50768503 original size:81 final size:81
Alignment explanation
Indices: 50768379--50768684 Score: 417
Period size: 81 Copynumber: 3.8 Consensus size: 81
50768369 ACTCCCACAT
* *
50768379 GGTAAAATGACCGAATTA-CCCTACAGGGTAAAATGA-CTGAAATACCCTCATAGGGTAAAATGA
1 GGTAAAATGACCGAAATACCCCTATAGGGTAAAATGATC-GAAATACCCTCATAGGGTAAAATGA
*
50768442 CCAAAATATCCCTATAG
65 CCAAAATACCCCTATAG
* ** * *
50768459 GTTAAAATGACTAAAATACCCCCATAGGGTAAAATGA-CTGAAATACCCTCATAGGGTAAAATAA
1 GGTAAAATGACCGAAATACCCCTATAGGGTAAAATGATC-GAAATACCCTCATAGGGTAAAATGA
*
50768523 CTAAAATACCCCTATAG
65 CCAAAATACCCCTATAG
50768540 GGTAAAATGACCGAAATACCCCTATAGGGTAAAATGATCGAAATACTCC-CATAGGGTAAAATGA
1 GGTAAAATGACCGAAATACCCCTATAGGGTAAAATGATCGAAATAC-CCTCATAGGGTAAAATGA
** *
50768604 -CTGAATACCCCCATAG
65 CCAAAATACCCCTATAG
*
50768620 GGTAAAATAACCGAAATACCCCTATAGGGTAAAATGATCGAAATA-CCTCCATAGGGTAAAATGA
1 GGTAAAATGACCGAAATACCCCTATAGGGTAAAATGATCGAAATACCCT-CATAGGGTAAAATGA
50768684 C
65 C
50768685 TGTTATACCC
Statistics
Matches: 201, Mismatches: 19, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
78 2 0.01
80 85 0.42
81 111 0.55
82 3 0.01
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.21
Consensus pattern (81 bp):
GGTAAAATGACCGAAATACCCCTATAGGGTAAAATGATCGAAATACCCTCATAGGGTAAAATGAC
CAAAATACCCCTATAG
Found at i:50768953 original size:26 final size:26
Alignment explanation
Indices: 50768917--50768993 Score: 93
Period size: 26 Copynumber: 3.0 Consensus size: 26
50768907 TTTGCCACAT
* *
50768917 ATACTGTTACTGGCAGCTTTGTTGCG
1 ATACTGATACTGGCAGCTTTGCTGCG
* *
50768943 ATACTGATACTGGCAGCTCTGCTGTG
1 ATACTGATACTGGCAGCTTTGCTGCG
*
50768969 ATGCT-ATTACTGGCAGCTTTGCTGC
1 ATACTGA-TACTGGCAGCTTTGCTGC
50768994 AATATTGGTG
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
25 1 0.02
26 42 0.98
ACGTcount: A:0.17, C:0.22, G:0.26, T:0.35
Consensus pattern (26 bp):
ATACTGATACTGGCAGCTTTGCTGCG
Found at i:50769169 original size:28 final size:28
Alignment explanation
Indices: 50769099--50769221 Score: 133
Period size: 28 Copynumber: 4.4 Consensus size: 28
50769089 TATTGCACTG
* *
50769099 CACTATTACTGTATTGGGCTAAGGCCTA
1 CACTGTTACTGTATTGGGCTAAGGCCCA
*
50769127 CACTGATT-CTATATTGGGCTAAGGCCCA
1 CACTG-TTACTGTATTGGGCTAAGGCCCA
* * * *
50769155 CACTGTTATTGTATTAGGCTAAGGTCTA
1 CACTGTTACTGTATTGGGCTAAGGCCCA
** *
50769183 TGCTGTTATTGTATTGGGCTAAGGCCCA
1 CACTGTTACTGTATTGGGCTAAGGCCCA
50769211 CACTG-TACTGT
1 CACTGTTACTGT
50769222 CACTGAATAG
Statistics
Matches: 77, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
27 7 0.09
28 68 0.88
29 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (28 bp):
CACTGTTACTGTATTGGGCTAAGGCCCA
Found at i:50772573 original size:40 final size:40
Alignment explanation
Indices: 50772518--50772785 Score: 473
Period size: 40 Copynumber: 6.7 Consensus size: 40
50772508 GAGCATTGGA
*
50772518 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
50772558 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
50772598 ATATACCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
50772638 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
50772678 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
50772718 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
50772758 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
50772786 ATGTGTTTGC
Statistics
Matches: 218, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 218 1.00
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:50779648 original size:3 final size:3
Alignment explanation
Indices: 50779642--50779685 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
50779632 ATTTTTTTTC
50779642 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
50779686 TCCATGTACA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:50779831 original size:16 final size:16
Alignment explanation
Indices: 50779810--50779843 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
50779800 CATAATTTTT
50779810 ATATACATGTATATAC
1 ATATACATGTATATAC
*
50779826 ATATACATTTATATAC
1 ATATACATGTATATAC
50779842 AT
1 AT
50779844 TTTCCTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.44, C:0.12, G:0.03, T:0.41
Consensus pattern (16 bp):
ATATACATGTATATAC
Found at i:50780001 original size:24 final size:23
Alignment explanation
Indices: 50779958--50780029 Score: 74
Period size: 24 Copynumber: 3.1 Consensus size: 23
50779948 TTCCTCTACT
*
50779958 TTTTTATATGTATACTTATATATA
1 TTTTTA-ATATATACTTATATATA
* *
50779982 TGTTTTAATATATACATATACATA
1 T-TTTTAATATATACTTATATATA
* *
50780006 TTTTCAA-ATTTACTTATATATA
1 TTTTTAATATATACTTATATATA
50780028 TT
1 TT
50780030 GTACTTATAT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
22 14 0.35
23 5 0.12
24 16 0.40
25 5 0.12
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.54
Consensus pattern (23 bp):
TTTTTAATATATACTTATATATA
Found at i:50784288 original size:14 final size:14
Alignment explanation
Indices: 50784269--50784308 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
50784259 TCATATGCTC
50784269 AAGAAAAAAAGAAA
1 AAGAAAAAAAGAAA
*
50784283 AAGAAAAGAAA-AGA
1 AAGAAAA-AAAGAAA
50784297 AAGAAAAAAAGA
1 AAGAAAAAAAGA
50784309 GAGCATGTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 3 0.13
14 17 0.74
15 3 0.13
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAGAAAAAAAGAAA
Found at i:50784296 original size:16 final size:17
Alignment explanation
Indices: 50784275--50784308 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
50784265 GCTCAAGAAA
*
50784275 AAAAGAAA-AAGAAAAG
1 AAAAGAAAGAAAAAAAG
50784291 AAAAGAAAGAAAAAAAG
1 AAAAGAAAGAAAAAAAG
50784308 A
1 A
50784309 GAGCATGTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (17 bp):
AAAAGAAAGAAAAAAAG
Found at i:50784986 original size:27 final size:26
Alignment explanation
Indices: 50784926--50784986 Score: 61
Period size: 27 Copynumber: 2.3 Consensus size: 26
50784916 TCGAAATTCA
*
50784926 TAATTTAATTATAAAATAATTAATTT
1 TAATTAAATTATAAAATAATTAATTT
* *
50784952 GAACTTAAATTATTAAAA-ATTTGAATTT
1 TAA-TTAAATTA-TAAAATAATT-AATTT
50784980 TAATTAA
1 TAATTAA
50784987 TTTTATAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
26 2 0.07
27 14 0.50
28 12 0.43
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (26 bp):
TAATTAAATTATAAAATAATTAATTT
Found at i:50788899 original size:13 final size:13
Alignment explanation
Indices: 50788883--50788908 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
50788873 GAAAAAAAAA
50788883 CATGAAAATTATT
1 CATGAAAATTATT
50788896 CATGAAAATTATT
1 CATGAAAATTATT
50788909 TTGGCCCTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
CATGAAAATTATT
Found at i:50791242 original size:68 final size:69
Alignment explanation
Indices: 50791133--50791315 Score: 208
Period size: 69 Copynumber: 2.7 Consensus size: 69
50791123 ATAAAAATCG
* ** * * *
50791133 TATTAAGGCTCGCAGGATAAAAACCATAGCC-TCGAACATAGTTAGTGAAAGCAAAGC-CCTAGT
1 TATTAAGGCTCACAGGATAAAAACCGCAGCCTTC-AACATAGTTAGCGAAAGCAAAGCTCCCAGC
50791196 TGTCA
65 TGTCA
** * *
50791201 TATTAAGGCTCACAGGATAAAAGTCGCAGCCTTCAACATAGTTAGCGAGAGCTAAGCTCCCAGCT
1 TATTAAGGCTCACAGGATAAAAACCGCAGCCTTCAACATAGTTAGCGAAAGCAAAGCTCCCAGCT
50791266 GTCA
66 GTCA
** * * *
50791270 TATTAAGGCTCTTAGGATAAAAACCGCAACATCCAACATAGTTAGC
1 TATTAAGGCTCACAGGATAAAAACCGCAGCCTTCAACATAGTTAGC
50791316 CAAAATTGAA
Statistics
Matches: 96, Mismatches: 17, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
68 46 0.48
69 50 0.52
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (69 bp):
TATTAAGGCTCACAGGATAAAAACCGCAGCCTTCAACATAGTTAGCGAAAGCAAAGCTCCCAGCT
GTCA
Found at i:50791548 original size:57 final size:59
Alignment explanation
Indices: 50791328--50791549 Score: 229
Period size: 58 Copynumber: 3.8 Consensus size: 59
50791318 AAATTGAACT
* * * *
50791328 CCCAGCTACGTTATCTTTCAAAAGTTTCTCAAGTATAAAAC-AGCTCGTGGATTCACATC
1 CCCAGCT-GGTTATCTTTCAAAATTTTCTCAAGTATAAAACTAGCTCGCGGATTTACATC
* * * * *
50791387 CTCAGCTGGTTATCCTTCAAAATTTTCTTAAGTATAAAACT-GCTCGTGGATCTACATC
1 CCCAGCTGGTTATCTTTCAAAATTTTCTCAAGTATAAAACTAGCTCGCGGATTTACATC
* * * * * **
50791445 CCTAGCTAGTTATCTTTCAAAATTCTCTTAAGTATGAAA-TAGCTCGCGGATTTTTATC
1 CCCAGCTGGTTATCTTTCAAAATTTTCTCAAGTATAAAACTAGCTCGCGGATTTACATC
* * *
50791503 CCCAGTTGGTTATCTTT-GAAATTTTCTCAAGTATAAAGCTA-CTCGCG
1 CCCAGCTGGTTATCTTTCAAAATTTTCTCAAGTATAAAACTAGCTCGCG
50791550 AATTAATATT
Statistics
Matches: 135, Mismatches: 25, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
57 23 0.17
58 106 0.79
59 6 0.04
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (59 bp):
CCCAGCTGGTTATCTTTCAAAATTTTCTCAAGTATAAAACTAGCTCGCGGATTTACATC
Found at i:50795729 original size:37 final size:37
Alignment explanation
Indices: 50795670--50795815 Score: 238
Period size: 37 Copynumber: 3.9 Consensus size: 37
50795660 AGCTCAGAAG
* * *
50795670 AAATCTCCACATGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
50795707 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
50795744 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
50795781 TAATCTCCACACATAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
50795816 ATATATTTCC
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 104 1.00
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:50796089 original size:47 final size:47
Alignment explanation
Indices: 50796027--50796366 Score: 437
Period size: 47 Copynumber: 7.1 Consensus size: 47
50796017 ACACGTTTCG
* * *
50796027 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
50796074 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
50796121 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * *
50796168 CATTGGACATTCGGCCTTATCACGCATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C--ATATATGCATGTTCACATTCATCA
* **
50796219 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTAT--CAC--ATATATGCATGTTCACATTCATCA
* * * *
50796270 CATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * *
50796317 CAGTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
50796364 CAT
1 CAT
50796367 AAAATCCTAA
Statistics
Matches: 262, Mismatches: 25, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
47 172 0.66
49 4 0.02
51 84 0.32
53 2 0.01
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.31
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:50801661 original size:43 final size:43
Alignment explanation
Indices: 50801600--50801686 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
50801590 ATTCTCACAT
50801600 TGATATGGAAATCAAAGAAGAAACCAGAGAGGTCGAATGGAGG
1 TGATATGGAAATCAAAGAAGAAACCAGAGAGGTCGAATGGAGG
*
50801643 TGATATGGAAATCAAAGAAGAAAGCAGAGAGGTCGAATGGAGG
1 TGATATGGAAATCAAAGAAGAAACCAGAGAGGTCGAATGGAGG
50801686 T
1 T
50801687 TTACAAGTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.44, C:0.08, G:0.33, T:0.15
Consensus pattern (43 bp):
TGATATGGAAATCAAAGAAGAAACCAGAGAGGTCGAATGGAGG
Found at i:50803753 original size:17 final size:17
Alignment explanation
Indices: 50803731--50803764 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
50803721 GAAAAATTGG
*
50803731 AGTATTTGTAATCTTTC
1 AGTATTTCTAATCTTTC
50803748 AGTATTTCTAATCTTTC
1 AGTATTTCTAATCTTTC
50803765 TACAGGAGGG
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:0.24, C:0.15, G:0.09, T:0.53
Consensus pattern (17 bp):
AGTATTTCTAATCTTTC
Found at i:50804408 original size:73 final size:73
Alignment explanation
Indices: 50804289--50804474 Score: 345
Period size: 73 Copynumber: 2.5 Consensus size: 73
50804279 TATTATTATT
*
50804289 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
50804354 ATTTTAAG
66 ATTTTAAG
* *
50804362 TGGATGTAATGATAAAACTTAATTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
50804427 ATTTTAAG
66 ATTTTAAG
50804435 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
50804475 GTCAAGTTGT
Statistics
Matches: 108, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 108 1.00
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.41
Consensus pattern (73 bp):
TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
ATTTTAAG
Found at i:50806820 original size:21 final size:21
Alignment explanation
Indices: 50806774--50806820 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
50806764 GTTTTTATTT
*
50806774 TAAAAAATAATTCATAATAAA
1 TAAAAAATAATTAATAATAAA
* *
50806795 CAAAAAATAAATTAAT-ATTAA
1 TAAAAAAT-AATTAATAATAAA
50806816 TAAAA
1 TAAAA
50806821 TGTTATTTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (21 bp):
TAAAAAATAATTAATAATAAA
Found at i:50813123 original size:15 final size:15
Alignment explanation
Indices: 50813100--50813130 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
50813090 ATATTTTTCT
50813100 TATAAAATTCTAAAA
1 TATAAAATTCTAAAA
*
50813115 TATATAATTCTAAAA
1 TATAAAATTCTAAAA
50813130 T
1 T
50813131 TCTCAAAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (15 bp):
TATAAAATTCTAAAA
Found at i:50813265 original size:23 final size:23
Alignment explanation
Indices: 50813239--50813292 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
50813229 ATTATTTTGA
** *
50813239 ATTTTTAAAATTTATAATGATAT
1 ATTTTTAAAATTTATAAAAAAAT
*
50813262 A-TTTTATAATTTTATAAAAAAAT
1 ATTTTTA-AAATTTATAAAAAAAT
50813285 ATTTTTAA
1 ATTTTTAA
50813293 GCCTTTTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 5 0.20
23 15 0.60
24 5 0.20
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
ATTTTTAAAATTTATAAAAAAAT
Found at i:50813470 original size:7 final size:7
Alignment explanation
Indices: 50813460--50813489 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
50813450 TATTATAATA
50813460 TTCTATT
1 TTCTATT
50813467 TTCTATT
1 TTCTATT
50813474 TTCTATT
1 TTCTATT
50813481 TTCTATT
1 TTCTATT
50813488 TT
1 TT
50813490 TAAATTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.73
Consensus pattern (7 bp):
TTCTATT
Found at i:50813974 original size:13 final size:13
Alignment explanation
Indices: 50813956--50813989 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
50813946 TATCTCTAAA
50813956 AATTTTCTAAAAG
1 AATTTTCTAAAAG
* *
50813969 AATTTTTTTAAAG
1 AATTTTCTAAAAG
50813982 AATTTTCT
1 AATTTTCT
50813990 CTCTACAACT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (13 bp):
AATTTTCTAAAAG
Found at i:50817905 original size:24 final size:25
Alignment explanation
Indices: 50817801--50817908 Score: 111
Period size: 25 Copynumber: 4.4 Consensus size: 25
50817791 ATGTATGCTA
50817801 ATACGAGCTATG-AATCGG-AATGCTC
1 ATACGAGCTA-GAAATCGGTAA-GCTC
50817826 -TCACGAGCTAGAAATCGGTAAGCTC
1 AT-ACGAGCTAGAAATCGGTAAGCTC
* *
50817851 ATACTAGCT-GAGAATTGGTAAGCTC
1 ATACGAGCTAGA-AATCGGTAAGCTC
50817876 -TCACGAG-TAGAAATCGGTAAGCTC
1 AT-ACGAGCTAGAAATCGGTAAGCTC
50817900 ATACGAGCT
1 ATACGAGCT
50817909 GTGGTGTGTC
Statistics
Matches: 70, Mismatches: 4, Indels: 18
0.76 0.04 0.20
Matches are distributed among these distances:
24 23 0.33
25 44 0.63
26 3 0.04
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.23
Consensus pattern (25 bp):
ATACGAGCTAGAAATCGGTAAGCTC
Found at i:50820493 original size:16 final size:16
Alignment explanation
Indices: 50820472--50820504 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
50820462 TATTAAGAAA
50820472 ATGTTACAAAAATGTG
1 ATGTTACAAAAATGTG
50820488 ATGTTACAAAAATGTG
1 ATGTTACAAAAATGTG
50820504 A
1 A
50820505 AAATAGGGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.06, G:0.18, T:0.30
Consensus pattern (16 bp):
ATGTTACAAAAATGTG
Found at i:50828741 original size:26 final size:26
Alignment explanation
Indices: 50828712--50828775 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 26
50828702 TTACCCTCAG
*
50828712 TAAAATTTTGATGATTTTACCCCTAA
1 TAAAATTTTGAAGATTTTACCCCTAA
* *
50828738 TAAAATTTTTAAAGATTTTACCCCTAG
1 TAAAA-TTTTGAAGATTTTACCCCTAA
*
50828765 TGAAATTTTGA
1 TAAAATTTTGA
50828776 GAAAATATGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 10 0.31
27 22 0.69
ACGTcount: A:0.36, C:0.12, G:0.09, T:0.42
Consensus pattern (26 bp):
TAAAATTTTGAAGATTTTACCCCTAA
Found at i:50828936 original size:12 final size:12
Alignment explanation
Indices: 50828919--50828943 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
50828909 AGCAAATGGA
50828919 TCATTTCCATTT
1 TCATTTCCATTT
50828931 TCATTTCCATTT
1 TCATTTCCATTT
50828943 T
1 T
50828944 TGGAAACCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.60
Consensus pattern (12 bp):
TCATTTCCATTT
Found at i:50831340 original size:25 final size:26
Alignment explanation
Indices: 50831301--50831349 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
50831291 TGTAAATAAG
50831301 AATAATATCTCTAGA-AATTTTCTAA
1 AATAATATCTCTAGAGAATTTTCTAA
* *
50831326 AATAATTTCTTTAGAGAATTTTCT
1 AATAATATCTCTAGAGAATTTTCT
50831350 CTCTACAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.45
Consensus pattern (26 bp):
AATAATATCTCTAGAGAATTTTCTAA
Found at i:50832712 original size:13 final size:14
Alignment explanation
Indices: 50832689--50832720 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
50832679 TCCGTCATAG
50832689 AAATACATCCAACA
1 AAATACATCCAACA
50832703 AAAT-CATCCAACA
1 AAATACATCCAACA
50832716 AAATA
1 AAATA
50832721 AAAACATCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.59, C:0.25, G:0.00, T:0.16
Consensus pattern (14 bp):
AAATACATCCAACA
Found at i:50834755 original size:20 final size:20
Alignment explanation
Indices: 50834730--50834767 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
50834720 CCATTTTCTA
*
50834730 GCTCTGCTGCATGTACCCTT
1 GCTCTGCTGCAAGTACCCTT
50834750 GCTCTGCTGCAAGTACCC
1 GCTCTGCTGCAAGTACCC
50834768 CTAATCCGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.37, G:0.21, T:0.29
Consensus pattern (20 bp):
GCTCTGCTGCAAGTACCCTT
Found at i:50836000 original size:41 final size:41
Alignment explanation
Indices: 50835955--50836075 Score: 154
Period size: 41 Copynumber: 3.0 Consensus size: 41
50835945 AGTGTTATTC
* * * *
50835955 GGGGTACCGTAGTACAAACAGGGGTATATATGTGCAATTTA
1 GGGGTACCGAAGTACAAATAGGGGCATGTATGTGCAATTTA
* * *
50835996 GGGGTACCAAAGTACAAATAGGGCCATGCATGTGCAATTTA
1 GGGGTACCGAAGTACAAATAGGGGCATGTATGTGCAATTTA
*
50836037 GGGGTA-CGAAAGTACAAATAGGGGCACGTATGTGCAATT
1 GGGGTACCG-AAGTACAAATAGGGGCATGTATGTGCAATT
50836076 CAAATATAAT
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
40 1 0.01
41 67 0.99
ACGTcount: A:0.33, C:0.14, G:0.30, T:0.23
Consensus pattern (41 bp):
GGGGTACCGAAGTACAAATAGGGGCATGTATGTGCAATTTA
Found at i:50836060 original size:20 final size:20
Alignment explanation
Indices: 50835994--50836060 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
50835984 ATGTGCAATT
*
50835994 TAGGGGTACCAAAGTACAAA
1 TAGGGGTACGAAAGTACAAA
** * * * * *
50836014 TAGGGCCATGCATGTGCAATT
1 TAGGGGTACGAAAGTACAA-A
50836035 TAGGGGTACGAAAGTACAAA
1 TAGGGGTACGAAAGTACAAA
50836055 TAGGGG
1 TAGGGG
50836061 CACGTATGTG
Statistics
Matches: 31, Mismatches: 15, Indels: 2
0.65 0.31 0.04
Matches are distributed among these distances:
20 18 0.58
21 13 0.42
ACGTcount: A:0.36, C:0.13, G:0.31, T:0.19
Consensus pattern (20 bp):
TAGGGGTACGAAAGTACAAA
Found at i:50838597 original size:10 final size:9
Alignment explanation
Indices: 50838552--50838593 Score: 59
Period size: 9 Copynumber: 4.6 Consensus size: 9
50838542 CAACAAATAT
50838552 ACATACATA
1 ACATACATA
50838561 ACATACATA
1 ACATACATA
50838570 ACAGTACATA
1 ACA-TACATA
50838580 ACATAACAT-
1 ACAT-ACATA
50838589 ACATA
1 ACATA
50838594 AACAGTAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
8 1 0.03
9 17 0.55
10 13 0.42
ACGTcount: A:0.55, C:0.21, G:0.02, T:0.21
Consensus pattern (9 bp):
ACATACATA
Found at i:50838597 original size:15 final size:15
Alignment explanation
Indices: 50838561--50838594 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
50838551 TACATACATA
50838561 ACAT-ACATAACAGT
1 ACATAACATAACAGT
50838575 ACATAACATAACA-T
1 ACATAACATAACAGT
50838589 ACATAA
1 ACATAA
50838595 ACAGTAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 11 0.58
15 8 0.42
ACGTcount: A:0.56, C:0.21, G:0.03, T:0.21
Consensus pattern (15 bp):
ACATAACATAACAGT
Found at i:50842534 original size:37 final size:37
Alignment explanation
Indices: 50842493--50842569 Score: 88
Period size: 37 Copynumber: 2.1 Consensus size: 37
50842483 GATAATCACT
*
50842493 TTAAAATT-AAATTAATA-AAATACTATTAATATAAATA
1 TTAAAATTCAAATTAATATAAAT-CTATTAAAAT-AATA
*
50842530 TT-AAATTCAATTTAATATTAAATCTATTAAAATAATA
1 TTAAAATTCAAATTAATA-TAAATCTATTAAAATAATA
50842567 TTA
1 TTA
50842570 TTTTTTAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
36 5 0.15
37 16 0.47
38 9 0.26
39 4 0.12
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (37 bp):
TTAAAATTCAAATTAATATAAATCTATTAAAATAATA
Found at i:50844139 original size:15 final size:15
Alignment explanation
Indices: 50844119--50844150 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
50844109 TATTCATGTA
*
50844119 AAATATGAAAGACAG
1 AAATATAAAAGACAG
50844134 AAATATAAAAGACAG
1 AAATATAAAAGACAG
50844149 AA
1 AA
50844151 TAATGACATA
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:0.66, C:0.06, G:0.16, T:0.12
Consensus pattern (15 bp):
AAATATAAAAGACAG
Found at i:50844694 original size:29 final size:29
Alignment explanation
Indices: 50844538--50844698 Score: 93
Period size: 29 Copynumber: 5.6 Consensus size: 29
50844528 TTGTTCCTAT
* *
50844538 ATATGTGAGCCTTTGTGGCGTAACTTGTTG
1 ATATGTGAGCCCTTGTGGCGGAACTTG-TG
* * * *
50844568 -TATGTGAGTCTTTGTGGCAGAA--TATG
1 ATATGTGAGCCCTTGTGGCGGAACTTGTG
** * *
50844594 ATATACGAGCCCTTGTGGTAGTAACTTG-G
1 ATATGTGAGCCCTTGTGG-CGGAACTTGTG
* *
50844623 TATATGTGAG-CCTTGGTGGCCGATCTAT-T-
1 -ATATGTGAGCCCTT-GTGGCGGAACT-TGTG
*
50844652 ATATGTAAGCCCTTGTGGCGGGAACTTGTG
1 ATATGTGAGCCCTTGTGGC-GGAACTTGTG
*
50844682 ATATGTGAGCCTTTGTG
1 ATATGTGAGCCCTTGTG
50844699 ACTATTCTTT
Statistics
Matches: 96, Mismatches: 23, Indels: 24
0.67 0.16 0.17
Matches are distributed among these distances:
26 2 0.02
27 14 0.15
28 16 0.17
29 36 0.38
30 28 0.29
ACGTcount: A:0.20, C:0.14, G:0.30, T:0.36
Consensus pattern (29 bp):
ATATGTGAGCCCTTGTGGCGGAACTTGTG
Found at i:50844712 original size:58 final size:58
Alignment explanation
Indices: 50844601--50844720 Score: 136
Period size: 58 Copynumber: 2.1 Consensus size: 58
50844591 ATGATATACG
* * *
50844601 AGCCCTTGTGGTAGTAACTTGGTATATGTGAGCCTTGGTGGCCGATCTATTATATGTA
1 AGCCCTTGTGGCAGGAACTTGGTATATGTGAGCCTTGGTGGACGATCTATTATATGTA
* * * * *
50844659 AGCCCTTGTGGCGGGAACTT-GTGATATGTGAGCCTTTGT-GACTATTCTTTTATATGTG
1 AGCCCTTGTGGCAGGAACTTGGT-ATATGTGAGCCTTGGTGGACGA-TCTATTATATGTA
50844717 AGCC
1 AGCC
50844721 ATCGTGGAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
57 5 0.10
58 47 0.90
ACGTcount: A:0.19, C:0.17, G:0.28, T:0.37
Consensus pattern (58 bp):
AGCCCTTGTGGCAGGAACTTGGTATATGTGAGCCTTGGTGGACGATCTATTATATGTA
Found at i:50848000 original size:21 final size:21
Alignment explanation
Indices: 50847976--50848017 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
50847966 TTTTTTCATT
50847976 AATTGATTAACTA-AATGTTAA
1 AATTGATTAACTATAAT-TTAA
**
50847997 AATTTCTTAACTATAATTTAA
1 AATTGATTAACTATAATTTAA
50848018 TACGACTCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (21 bp):
AATTGATTAACTATAATTTAA
Found at i:50849460 original size:27 final size:27
Alignment explanation
Indices: 50849430--50849607 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 27
50849420 ATATTGAGCC
* *
50849430 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
50849457 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
50849484 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
* ** ** *
50849512 CGCACTCTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
50849539 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
50849566 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
50849593 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
50849608 GTACAATTTA
Statistics
Matches: 124, Mismatches: 24, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
27 101 0.81
28 23 0.19
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:50849569 original size:82 final size:81
Alignment explanation
Indices: 50849451--50849606 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
50849441 TGCTATATAA
* * *
50849451 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCA-AATCGCA
*
50849516 CTCTTAGTGCCGCATGG
65 CCCTTAGTGCCGCATGG
* * **
50849533 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
50849597 CCCTTAGTGC
65 CCCTTAGTGC
50849607 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 17 0.26
82 48 0.74
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
CCTTAGTGCCGCATGG
Found at i:50856640 original size:17 final size:19
Alignment explanation
Indices: 50856618--50856663 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
50856608 TAAAAACTAA
50856618 GATAAATAAA-A-TAGAAC
1 GATAAATAAATATTAGAAC
50856635 GATAAATCAAATATTAGAAC
1 GATAAAT-AAATATTAGAAC
*
50856655 AATAAATAA
1 GATAAATAA
50856664 GGGGAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 7 0.28
18 3 0.12
19 3 0.12
20 12 0.48
ACGTcount: A:0.63, C:0.07, G:0.09, T:0.22
Consensus pattern (19 bp):
GATAAATAAATATTAGAAC
Found at i:50861227 original size:30 final size:30
Alignment explanation
Indices: 50861193--50861253 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 30
50861183 TTAAATTAAG
50861193 ATTAAT-TTTCTAAATTTTTTATTAATT-TTA
1 ATTAATATTT-TAAATTTTTTA-TAATTCTTA
*
50861223 ATTAATATTTTAGATTTTTTATAATTCTTA
1 ATTAATATTTTAAATTTTTTATAATTCTTA
50861253 A
1 A
50861254 CAATTTTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 5 0.18
30 20 0.71
31 3 0.11
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (30 bp):
ATTAATATTTTAAATTTTTTATAATTCTTA
Found at i:50870748 original size:6 final size:6
Alignment explanation
Indices: 50870730--50870766 Score: 56
Period size: 6 Copynumber: 6.0 Consensus size: 6
50870720 AAAGGCAAAG
*
50870730 ATAAAA ATGAAAA ATAAAA ATAAAA CTAAAA ATAAAA
1 ATAAAA AT-AAAA ATAAAA ATAAAA ATAAAA ATAAAA
50870767 GTTTTAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 22 0.79
7 6 0.21
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:50875055 original size:21 final size:21
Alignment explanation
Indices: 50875031--50875072 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
50875021 TTCTTTAGTG
50875031 TTACTATTTGACTTTGGATCA
1 TTACTATTTGACTTTGGATCA
*
50875052 TTACTGTTTGACTTTGGATCA
1 TTACTATTTGACTTTGGATCA
50875073 ATGCGTCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.14, G:0.17, T:0.48
Consensus pattern (21 bp):
TTACTATTTGACTTTGGATCA
Found at i:50877197 original size:21 final size:21
Alignment explanation
Indices: 50877171--50877221 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
50877161 AGCGGTGGCG
*
50877171 GTGAGATTAGTTACTGTAGCA
1 GTGAGATTAGATACTGTAGCA
* *
50877192 GTGAGATTGGATACTGTAGCG
1 GTGAGATTAGATACTGTAGCA
50877213 GTGAGATTA
1 GTGAGATTA
50877222 AAAACAATGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.27, C:0.08, G:0.33, T:0.31
Consensus pattern (21 bp):
GTGAGATTAGATACTGTAGCA
Found at i:50891067 original size:16 final size:17
Alignment explanation
Indices: 50891041--50891078 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
50891031 ATATCTTTCT
50891041 TTAATAATAAATTAAAA
1 TTAATAATAAATTAAAA
*
50891058 TTAA-AATAAATTAAGA
1 TTAATAATAAATTAAAA
50891074 TTAAT
1 TTAAT
50891079 TTTTAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (17 bp):
TTAATAATAAATTAAAA
Found at i:50891129 original size:30 final size:31
Alignment explanation
Indices: 50891073--50891155 Score: 91
Period size: 31 Copynumber: 2.7 Consensus size: 31
50891063 ATAAATTAAG
*
50891073 ATTAATTTTTAAAATTTGTTATTAATT-TTA
1 ATTAATTTTTAAAATTTCTTATTAATTCTTA
*
50891103 ATTAATATTTTAAAGTTTCTTA-TAATTCTTA
1 ATTAAT-TTTTAAAATTTCTTATTAATTCTTA
*
50891134 A-TAATTTTAAATAACTTTCTTA
1 ATTAATTTTTAA-AA-TTTCTTA
50891156 AAAATAAATA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
29 5 0.11
30 16 0.36
31 24 0.53
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.55
Consensus pattern (31 bp):
ATTAATTTTTAAAATTTCTTATTAATTCTTA
Found at i:50902198 original size:15 final size:16
Alignment explanation
Indices: 50902180--50902212 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
50902170 TAATTTTTTT
50902180 TTATAAA-ATTATATA
1 TTATAAACATTATATA
*
50902195 TTATAAACTTTATATA
1 TTATAAACATTATATA
50902211 TT
1 TT
50902213 TGGTGCAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (16 bp):
TTATAAACATTATATA
Found at i:50902532 original size:10 final size:10
Alignment explanation
Indices: 50902519--50902545 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
50902509 TCACTTCTTT
50902519 TGCTCTCAAA
1 TGCTCTCAAA
50902529 TGCTCTCAAA
1 TGCTCTCAAA
50902539 TGCTCTC
1 TGCTCTC
50902546 CTAAGTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.22, C:0.33, G:0.11, T:0.33
Consensus pattern (10 bp):
TGCTCTCAAA
Found at i:50908312 original size:25 final size:24
Alignment explanation
Indices: 50908281--50908377 Score: 92
Period size: 25 Copynumber: 3.9 Consensus size: 24
50908271 CAACTTGTAT
50908281 GAGCTTACCGATTTACAGCTCGTGA
1 GAGCTTACCGATTT-CAGCTCGTGA
*
50908306 GAGCTTACCGATTCTCAGCTTGT-A
1 GAGCTTACCGATT-TCAGCTCGTGA
* *
50908330 TGAGCTTACCGTTATTT-AGCTCGGGG
1 -GAGCTTACCG--ATTTCAGCTCGTGA
50908356 GAGCTTACCG-TTTACAGCTCGT
1 GAGCTTACCGATTT-CAGCTCGT
50908378 ATGAGCATAC
Statistics
Matches: 60, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
22 3 0.05
24 7 0.12
25 45 0.75
26 2 0.03
27 3 0.05
ACGTcount: A:0.20, C:0.24, G:0.25, T:0.32
Consensus pattern (24 bp):
GAGCTTACCGATTTCAGCTCGTGA
Found at i:50908351 original size:50 final size:48
Alignment explanation
Indices: 50908274--50908383 Score: 134
Period size: 50 Copynumber: 2.2 Consensus size: 48
50908264 CATGCCACAA
*
50908274 CTTGTATGAGCTTACCGATTTACAGCTCGTGAGAGCTTACCGATTCT-CAG
1 CTTGTATGAGCTTACCGATTTA-AGCTCGGGAGAGCTTACCG-TT-TACAG
*
50908324 CTTGTATGAGCTTACCGTTATTT-AGCTCGGGGGAGCTTACCGTTTACAG
1 CTTGTATGAGCTTACCG--ATTTAAGCTCGGGAGAGCTTACCGTTTACAG
*
50908373 CTCGTATGAGC
1 CTTGTATGAGC
50908384 ATACACGTAC
Statistics
Matches: 54, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
48 1 0.02
49 15 0.28
50 34 0.63
52 4 0.07
ACGTcount: A:0.20, C:0.23, G:0.25, T:0.33
Consensus pattern (48 bp):
CTTGTATGAGCTTACCGATTTAAGCTCGGGAGAGCTTACCGTTTACAG
Found at i:50909551 original size:12 final size:12
Alignment explanation
Indices: 50909534--50909563 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
50909524 CTCTAGTTTT
50909534 CACACGGCCTAG
1 CACACGGCCTAG
*
50909546 CACACGGCCTGG
1 CACACGGCCTAG
50909558 CACACG
1 CACACG
50909564 AGCGTGTGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.43, G:0.27, T:0.07
Consensus pattern (12 bp):
CACACGGCCTAG
Found at i:50912455 original size:6 final size:6
Alignment explanation
Indices: 50912432--50912476 Score: 54
Period size: 6 Copynumber: 7.2 Consensus size: 6
50912422 TCAAGTAAAT
* *
50912432 TAAAAA TTAAAT TAAAAA TAAAAA TATTAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA TA--AAAA TAAAAA TAAAAA T
50912477 GACTAAATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
6 27 0.82
8 6 0.18
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (6 bp):
TAAAAA
Found at i:50912462 original size:20 final size:20
Alignment explanation
Indices: 50912428--50912487 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
50912418 ATAATCAAGT
*
50912428 AAATTAAAA-ATTAAATTAA
1 AAATAAAAATATTAAATTAA
*
50912447 AAATAAAAATATTAAAATAA
1 AAATAAAAATATTAAATTAA
*
50912467 AAATAAAAATGACTAAATTAA
1 AAATAAAAAT-ATTAAATTAA
50912488 TGGAAATAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.23
20 19 0.54
21 8 0.23
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.27
Consensus pattern (20 bp):
AAATAAAAATATTAAATTAA
Found at i:50922137 original size:27 final size:28
Alignment explanation
Indices: 50922087--50922155 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
50922077 AAATAAAAAA
*
50922087 TTACCAAAATGT-TATAACTTTTTTTTAT
1 TTACCAAAATATATATAAC-TTTTTTTAT
50922115 TTACCAAAATATATATAA-TTTTTTTAT
1 TTACCAAAATATATATAACTTTTTTTAT
50922142 TTACCAAAATATAT
1 TTACCAAAATATAT
50922156 CAAAAAAACA
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 23 0.59
28 11 0.28
29 5 0.13
ACGTcount: A:0.39, C:0.10, G:0.01, T:0.49
Consensus pattern (28 bp):
TTACCAAAATATATATAACTTTTTTTAT
Found at i:50922253 original size:27 final size:27
Alignment explanation
Indices: 50922223--50922299 Score: 118
Period size: 27 Copynumber: 2.9 Consensus size: 27
50922213 ACGCCAATGG
* *
50922223 CATTGGTGGCACCAAAGGTGCCAAAAC
1 CATTGGCGGCACCAATGGTGCCAAAAC
**
50922250 CATTGGCGGCACCAATGGTGCCAATGC
1 CATTGGCGGCACCAATGGTGCCAAAAC
50922277 CATTGGCGGCACCAATGGTGCCA
1 CATTGGCGGCACCAATGGTGCCA
50922300 TACTGATTGG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.26, C:0.29, G:0.29, T:0.17
Consensus pattern (27 bp):
CATTGGCGGCACCAATGGTGCCAAAAC
Found at i:50922308 original size:27 final size:26
Alignment explanation
Indices: 50922224--50922315 Score: 98
Period size: 27 Copynumber: 3.4 Consensus size: 26
50922214 CGCCAATGGC
* * *
50922224 ATTGGTGGCACCAAAGGTGCCAAAAC-C
1 ATTGGCGGCACCAATGGTGCC--AACTG
50922251 ATTGGCGGCACCAATGGTGCCAA-TG
1 ATTGGCGGCACCAATGGTGCCAACTG
50922276 CCATTGGCGGCACCAATGGTGCCATACTG
1 --ATTGGCGGCACCAATGGTGCCA-ACTG
50922305 ATTGGCGGCAC
1 ATTGGCGGCAC
50922316 TATTCGTATT
Statistics
Matches: 57, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
25 2 0.04
27 52 0.91
28 1 0.02
29 2 0.04
ACGTcount: A:0.25, C:0.27, G:0.29, T:0.18
Consensus pattern (26 bp):
ATTGGCGGCACCAATGGTGCCAACTG
Found at i:50922480 original size:19 final size:21
Alignment explanation
Indices: 50922442--50922480 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
50922432 AATAATTGAT
*
50922442 TATATTGTTGTTATTATTTTG
1 TATATTGTTGTTAATATTTTG
50922463 TATATT-TTG-TAATATTTT
1 TATATTGTTGTTAATATTTT
50922481 TTGTTTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (21 bp):
TATATTGTTGTTAATATTTTG
Found at i:50922559 original size:3 final size:3
Alignment explanation
Indices: 50922553--50922599 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
50922543 ATTATTATTA
50922553 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
50922600 AGTATTAAGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:50922626 original size:19 final size:21
Alignment explanation
Indices: 50922602--50922646 Score: 67
Period size: 19 Copynumber: 2.2 Consensus size: 21
50922592 TTGTTGTTAG
*
50922602 TATTAAGATGTTA-TTAAT-A
1 TATTAAGATGTAACTTAATAA
50922621 TATTAAGATGTAACTTAATAA
1 TATTAAGATGTAACTTAATAA
50922642 TATTA
1 TATTA
50922647 TTGTTATCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 12 0.52
20 5 0.22
21 6 0.26
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.44
Consensus pattern (21 bp):
TATTAAGATGTAACTTAATAA
Found at i:50925738 original size:33 final size:33
Alignment explanation
Indices: 50925695--50925762 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
50925685 ATTGTATCCA
50925695 AATTGCATCCAAATTGTATAC-AGATTAAGTTAT
1 AATTGCATCCAAATTGT-TACTAGATTAAGTTAT
* *
50925728 AATTGTATCCAAATTGTTTCTAGATTAAGTTAT
1 AATTGCATCCAAATTGTTACTAGATTAAGTTAT
50925761 AA
1 AA
50925763 AATACTATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 2 0.06
33 30 0.94
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (33 bp):
AATTGCATCCAAATTGTTACTAGATTAAGTTAT
Found at i:50928790 original size:30 final size:31
Alignment explanation
Indices: 50928722--50928792 Score: 80
Period size: 30 Copynumber: 2.4 Consensus size: 31
50928712 AAAAAAATTA
50928722 CTTT-CTTTT-TTCTTTTTTTTCCTTCCTTC
1 CTTTCCTTTTCTTCTTTTTTTTCCTTCCTTC
* *
50928751 C-CTCTTTTTCTTCTTTTTTTTCTCTT-C-TC
1 CTTTCCTTTTCTTCTTTTTTTTC-CTTCCTTC
50928780 CTTTCCTTTTCTT
1 CTTTCCTTTTCTT
50928793 TCCTTCTTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
28 1 0.03
29 8 0.24
30 22 0.65
31 3 0.09
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (31 bp):
CTTTCCTTTTCTTCTTTTTTTTCCTTCCTTC
Found at i:50928842 original size:4 final size:4
Alignment explanation
Indices: 50928787--50928913 Score: 77
Period size: 4 Copynumber: 31.0 Consensus size: 4
50928777 CTCCTTTCCT
* *
50928787 TTTC TTTC CTTC TTTC CTTC TTT- TTTC TTCTCC TTTCC TTT- TCTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT-T-C TTT-C TTTC T-TTC
* * *
50928833 -TTC TTTC TTTC TTTT TTTC TCTTC -TCC TTTCC TTTTC TTTC CTTC -TT-
1 TTTC TTTC TTTC TTTC TTTC T-TTC TTTC TTT-C -TTTC TTTC TTTC TTTC
*
50928880 TTTC TTTC TTTCC TCTCC TTTC TTTC TTTC TTTC
1 TTTC TTTC TTT-C T-TTC TTTC TTTC TTTC TTTC
50928914 CCTCTCCTTC
Statistics
Matches: 98, Mismatches: 11, Indels: 28
0.72 0.08 0.20
Matches are distributed among these distances:
3 13 0.13
4 62 0.63
5 16 0.16
6 7 0.07
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (4 bp):
TTTC
Found at i:50928855 original size:79 final size:77
Alignment explanation
Indices: 50928753--50928901 Score: 239
Period size: 79 Copynumber: 1.9 Consensus size: 77
50928743 CTTCCTTCCC
*
50928753 TCTTTTTCTTCTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTTCCTTCTTT-TTTCTTC
1 TCTTTTTCTTCTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTT--TTCTTTCTTTCCTC
50928817 TCCTTTCCTTTTCT
64 TCCTTTCCTTTTCT
50928831 TCTTCTTTCTT-TCTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCCTC
1 TCTT-TTTCTTCT-TTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCCTC
50928895 TCCTTTC
64 TCCTTTC
50928902 TTTCTTTCTT
Statistics
Matches: 67, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
77 6 0.09
78 18 0.27
79 43 0.64
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (77 bp):
TCTTTTTCTTCTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCCTCTC
CTTTCCTTTTCT
Found at i:50928867 original size:40 final size:40
Alignment explanation
Indices: 50928753--50928901 Score: 172
Period size: 40 Copynumber: 3.8 Consensus size: 40
50928743 CTTCCTTCCC
50928753 TCTT-TTTC-TTCTTTTTTTTCTCTTCTCCTTTCCTTTTC-
1 TCTTCTTTCTTTC-TTTTTTTCTCTTCTCCTTTCCTTTTCT
*
50928791 T-TTCCTTCTTTCCTTCTTTTT-TCTTCTCCTTTCCTTTTCT
1 TCTTCTTTCTTT-CTT-TTTTTCTCTTCTCCTTTCCTTTTCT
50928831 TCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCTTTTCTT
1 TCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCTTTTC-T
*
50928872 TCCTTC-TT-TTTCTTTCTTTC-C-TCTCCTTTC
1 T-CTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTC
50928902 TTTCTTTCTT
Statistics
Matches: 99, Mismatches: 3, Indels: 18
0.82 0.03 0.15
Matches are distributed among these distances:
37 2 0.02
38 13 0.13
39 28 0.28
40 39 0.39
41 13 0.13
42 4 0.04
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (40 bp):
TCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCTTTTCT
Found at i:50928880 original size:18 final size:18
Alignment explanation
Indices: 50928733--50928914 Score: 89
Period size: 18 Copynumber: 10.1 Consensus size: 18
50928723 TTTCTTTTTT
* *
50928733 CTTTTTTTTCCTTCCTTCC
1 CTTTTCTTTCCTT-CTTTC
*
50928752 CTCTT-TTT-CTTCTTT-
1 CTTTTCTTTCCTTCTTTC
* *
50928767 TTTTTCTCTT-CTCCTTTC
1 CTTTTCT-TTCCTTCTTTC
50928785 CTTTTCTTTCCTTCTTTC
1 CTTTTCTTTCCTTCTTTC
* *
50928803 CTTCTTTTTTCTTCTCCTTTC
1 CTT-TTCTTTC--CTTCTTTC
*
50928824 CTTTTCTTCTTCTTTCTTT-
1 CTTTTC-T-TTCCTTCTTTC
50928843 CTTTT-TTTCTCTTCTCCTTTC
1 CTTTTCTTTC-C-T-T-CTTTC
50928864 CTTTTCTTTCCTTCTTT-
1 CTTTTCTTTCCTTCTTTC
*
50928881 TTCTTTCTTTCC-TC--TC
1 CT-TTTCTTTCCTTCTTTC
*
50928897 C-TTTCTTTCTTTCTTTC
1 CTTTTCTTTCCTTCTTTC
50928914 C
1 C
50928915 CTCTCCTTCT
Statistics
Matches: 127, Mismatches: 16, Indels: 42
0.69 0.09 0.23
Matches are distributed among these distances:
14 8 0.06
15 6 0.05
16 7 0.06
17 20 0.16
18 33 0.26
19 17 0.13
20 12 0.09
21 17 0.13
22 7 0.06
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (18 bp):
CTTTTCTTTCCTTCTTTC
Found at i:50928924 original size:18 final size:18
Alignment explanation
Indices: 50928838--50928924 Score: 57
Period size: 22 Copynumber: 4.4 Consensus size: 18
50928828 TCTTCTTCTT
* *
50928838 TCTTTCTTTTTTTCTCTTC
1 TCTTTCTTTCTTTC-CCTC
*
50928857 TCCTTTCCTTTTCTTTCCTTC
1 T-CTTT-C-TTTCTTTCCCTC
*
50928878 TTTTTCTTTCTTTCCTCTCC
1 TCTTTCTTTCTTTCC-CT-C
50928898 TTTCTTTCTTTCTTTCCCTC
1 --TCTTTCTTTCTTTCCCTC
*
50928918 TCCTTCT
1 TCTTTCT
50928925 GCCCCCCACC
Statistics
Matches: 56, Mismatches: 5, Indels: 15
0.74 0.07 0.20
Matches are distributed among these distances:
18 15 0.27
19 3 0.05
20 9 0.16
21 8 0.14
22 21 0.38
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (18 bp):
TCTTTCTTTCTTTCCCTC
Found at i:50929120 original size:27 final size:29
Alignment explanation
Indices: 50929061--50929126 Score: 100
Period size: 29 Copynumber: 2.3 Consensus size: 29
50929051 TTTTTGATAT
* *
50929061 ATTTTAGTAAATAAAAAAAATTTATATAT
1 ATTTTGGTAAATAAAAAAAATTTATATAC
50929090 ATTTTGGTAAATAAAAAAAA-TTATA-AC
1 ATTTTGGTAAATAAAAAAAATTTATATAC
50929117 ATTTTGGTAA
1 ATTTTGGTAA
50929127 TTTTTATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 11 0.31
28 5 0.14
29 19 0.54
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.39
Consensus pattern (29 bp):
ATTTTGGTAAATAAAAAAAATTTATATAC
Found at i:50932589 original size:23 final size:22
Alignment explanation
Indices: 50932546--50932603 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
50932536 AAAGGGTATC
* *
50932546 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
50932567 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
50932590 TGCATATCATATCT
1 TACAAATCATATCT
50932604 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:50934260 original size:17 final size:17
Alignment explanation
Indices: 50934240--50934275 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
50934230 AAAAAAGAAG
*
50934240 AAGAAGAAGATGAGGAA
1 AAGAAGAAGAAGAGGAA
*
50934257 AAGAAGGAGAAGAGGAA
1 AAGAAGAAGAAGAGGAA
50934274 AA
1 AA
50934276 ATGAATACGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.36, T:0.03
Consensus pattern (17 bp):
AAGAAGAAGAAGAGGAA
Found at i:50934919 original size:23 final size:24
Alignment explanation
Indices: 50934880--50934925 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
50934870 AAAGAAAGAA
*
50934880 ACATTTGTATTTCTCAATTCTCAC
1 ACATTTGTATTTCTCAATACTCAC
50934904 ACATTTGT-TTTCTCAATACTCA
1 ACATTTGTATTTCTCAATACTCA
50934926 TATGTTAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.26, C:0.24, G:0.04, T:0.46
Consensus pattern (24 bp):
ACATTTGTATTTCTCAATACTCAC
Found at i:50936191 original size:26 final size:25
Alignment explanation
Indices: 50936144--50936192 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
50936134 ACATGCATAT
**
50936144 TATTAAAAAATAGTCATTGCATGCA
1 TATTAAAAAATAGTCACAGCATGCA
*
50936169 TATTCAAAAATAGTCAACAGCATG
1 TATTAAAAAATAGTC-ACAGCATG
50936193 TGACCATCCC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 14 0.70
26 6 0.30
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (25 bp):
TATTAAAAAATAGTCACAGCATGCA
Found at i:50936370 original size:76 final size:77
Alignment explanation
Indices: 50936163--50936489 Score: 444
Period size: 76 Copynumber: 4.2 Consensus size: 77
50936153 ATAGTCATTG
* * * * * **
50936163 CATGCATATTCAAAAATAGTCAACAGCATGTGACCATCCCCACCAACAATCATACACACACACCT
1 CATGCATATTAAAAAATAGTCAACAACATGTAACCAACCCCACCAACAATCATACACAGACAAAT
* *
50936228 AAAAAATAGTCACTG
66 TAAAAA-A--CACTA
* * * *
50936243 CATGCATATTAAAAAATAGTCAATAGCATATAACCATCCCCACCAACAATCAT-CAACAGACAAA
1 CATGCATATTAAAAAATAGTCAACAACATGTAACCAACCCCACCAACAATCATAC-ACAGACAAA
50936307 TTAAAAAACACTA
65 TTAAAAAACACTA
50936320 CATGCATATTAAAAAATAGTCAA-AACATGTAACCAACCCCACCAACAATCAT-CAACAGACAAA
1 CATGCATATTAAAAAATAGTCAACAACATGTAACCAACCCCACCAACAATCATAC-ACAGACAAA
50936383 TTAAAAAACACTA
65 TTAAAAAACACTA
* *
50936396 CATGCATATTAAAAAATAGTCAACAACATGTAACCAACCCCACCAACAATCATACATAGACATAT
1 CATGCATATTAAAAAATAGTCAACAACATGTAACCAACCCCACCAACAATCATACACAGACAAAT
50936461 TAAAAAAACACTA
66 T-AAAAAACACTA
50936474 CATGCATATTAAAAAA
1 CATGCATATTAAAAAA
50936490 CATTCACTAA
Statistics
Matches: 229, Mismatches: 14, Indels: 10
0.91 0.06 0.04
Matches are distributed among these distances:
76 73 0.32
77 65 0.28
78 28 0.12
79 2 0.01
80 61 0.27
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (77 bp):
CATGCATATTAAAAAATAGTCAACAACATGTAACCAACCCCACCAACAATCATACACAGACAAAT
TAAAAAACACTA
Found at i:50936445 original size:153 final size:157
Alignment explanation
Indices: 50936163--50936489 Score: 450
Period size: 153 Copynumber: 2.1 Consensus size: 157
50936153 ATAGTCATTG
* * * * **
50936163 CATGCATATTCAAAAATAGTCAACAGCATGTGACCATCCCCACCAACAATCATACACACACACCT
1 CATGCATATTAAAAAATAGTCAACAACATGTAACCAACCCCACCAACAATCATACACACACAAAT
* * * *
50936228 AAAAAATAGTCACTGCATGCATATTAAAAAATAGTCAATAGCATATAACCATCCCCACCAACAAT
66 AAAAAATAG-CACTACATGCATATTAAAAAATAGTCAACAACATATAACCAACCCCACCAACAAT
50936293 CAT-CAACAGACAAATT-AAAAAACACTA
130 CATAC-ACAGACAAATTAAAAAAACACTA
*
50936320 CATGCATATTAAAAAATAGTCAA-AACATGTAACCAACCCCACCAACAATCAT-CAACAGACAAA
1 CATGCATATTAAAAAATAGTCAACAACATGTAACCAACCCCACCAACAATCATAC-ACACACAAA
* *
50936383 TTAAAAA-A-CACTACATGCATATTAAAAAATAGTCAACAACATGTAACCAACCCCACCAACAAT
65 TAAAAAATAGCACTACATGCATATTAAAAAATAGTCAACAACATATAACCAACCCCACCAACAAT
* *
50936446 CATACATAGACATATTAAAAAAACACTA
130 CATACACAGACAAATTAAAAAAACACTA
50936474 CATGCATATTAAAAAA
1 CATGCATATTAAAAAA
50936490 CATTCACTAA
Statistics
Matches: 152, Mismatches: 15, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
153 62 0.41
154 28 0.18
155 2 0.01
156 38 0.25
157 22 0.14
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (157 bp):
CATGCATATTAAAAAATAGTCAACAACATGTAACCAACCCCACCAACAATCATACACACACAAAT
AAAAAATAGCACTACATGCATATTAAAAAATAGTCAACAACATATAACCAACCCCACCAACAATC
ATACACAGACAAATTAAAAAAACACTA
Found at i:50938534 original size:41 final size:41
Alignment explanation
Indices: 50938489--50938672 Score: 300
Period size: 41 Copynumber: 4.5 Consensus size: 41
50938479 GGCTATGTGC
50938489 CTAGCAGGCTTAATGCCGATGAAATATTTCAGACTTTACGT
1 CTAGCAGGCTTAATGCCGATGAAATATTTCAGACTTTACGT
*
50938530 CTAGCAGGCTTAATACC-AGTGAAATATTTCAGACTTTACGT
1 CTAGCAGGCTTAATGCCGA-TGAAATATTTCAGACTTTACGT
*
50938571 CTAGCAGGCTTAATGCCGGTGAAATATTTCAGACTTTACGT
1 CTAGCAGGCTTAATGCCGATGAAATATTTCAGACTTTACGT
*
50938612 CTAGCAGGCTTAATGCCTG-TGAAATATTTCAGACTTTATGT
1 CTAGCAGGCTTAATGCC-GATGAAATATTTCAGACTTTACGT
*
50938653 CTAGCAGGCTTAATGTCGAT
1 CTAGCAGGCTTAATGCCGAT
50938673 ATTCTGAATC
Statistics
Matches: 134, Mismatches: 5, Indels: 8
0.91 0.03 0.05
Matches are distributed among these distances:
40 2 0.01
41 131 0.98
42 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (41 bp):
CTAGCAGGCTTAATGCCGATGAAATATTTCAGACTTTACGT
Found at i:50938698 original size:123 final size:120
Alignment explanation
Indices: 50938489--50938716 Score: 275
Period size: 123 Copynumber: 1.9 Consensus size: 120
50938479 GGCTATGTGC
50938489 CTAGCAGGCTTAATGCCGATGAAATATTTCAGACTTTACGTCTAGCAGGCTTAATACCAGTGAAA
1 CTAGCAGGCTTAATGCCGATGAAATATTTCAGACTTTACGTCTAGCAGGCTTAAT---AGTGAAA
* * * *
50938554 TATTTCAGACTTTACGTCTAGCAGGCTTA-ATGCCGGTGAAATATTTCAGACTTTACGT
63 TATTTCAGACTTCAAGCCTAGCAGGC-TACATGCCGATGAAATATTTCAGACTTTACGT
* *
50938612 CTAGCAGGCTTAATGCCTG-TGAAATATTTCAGACTTTATGTCTAGCAGGCTTAAT-GTCGATAT
1 CTAGCAGGCTTAATGCC-GATGAAATATTTCAGACTTTACGTCTAGCAGGCTTAATAGT-GAAAT
*
50938675 -TCTGAATCAGTCTTCAAGCCTAGCAGGCTACATGCCGATGAA
64 AT-T---TCAGACTTCAAGCCTAGCAGGCTACATGCCGATGAA
50938717 TCATTTTAAA
Statistics
Matches: 91, Mismatches: 7, Indels: 14
0.81 0.06 0.12
Matches are distributed among these distances:
119 3 0.03
120 5 0.05
122 2 0.02
123 80 0.88
124 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (120 bp):
CTAGCAGGCTTAATGCCGATGAAATATTTCAGACTTTACGTCTAGCAGGCTTAATAGTGAAATAT
TTCAGACTTCAAGCCTAGCAGGCTACATGCCGATGAAATATTTCAGACTTTACGT
Found at i:50938710 original size:82 final size:82
Alignment explanation
Indices: 50938489--50938703 Score: 254
Period size: 82 Copynumber: 2.6 Consensus size: 82
50938479 GGCTATGTGC
* * * * *
50938489 CTAGCAGGCTTAATGCCGATGAAATATTTCAGACTTTACGTCTAGCAGGCTTAATACCAGTGAAA
1 CTAGCAGGCTTAATGCCGATGAAATATATCAGACTTCAAGCCTAGCAGGCTTAATGCCAGTGAAA
50938554 TATTTCAGACTTTACGT
66 TATTTCAGACTTTACGT
* * * * * *
50938571 CTAGCAGGCTTAATGCCGGTGAAATATTTCAGACTTTACGTCTAGCAGGCTTAATGCCTGTGAAA
1 CTAGCAGGCTTAATGCCGATGAAATATATCAGACTTCAAGCCTAGCAGGCTTAATGCCAGTGAAA
*
50938636 TATTTCAGACTTTATGT
66 TATTTCAGACTTTACGT
* * * *
50938653 CTAGCAGGCTTAATGTCGAT--ATTCTGAATCAGTCTTCAAGCCTAGCAGGCT
1 CTAGCAGGCTTAATGCCGATGAAATAT--ATCAGACTTCAAGCCTAGCAGGCT
50938704 ACATGCCGAT
Statistics
Matches: 118, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
80 3 0.03
82 115 0.97
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (82 bp):
CTAGCAGGCTTAATGCCGATGAAATATATCAGACTTCAAGCCTAGCAGGCTTAATGCCAGTGAAA
TATTTCAGACTTTACGT
Found at i:50939960 original size:493 final size:494
Alignment explanation
Indices: 50939217--50940207 Score: 1957
Period size: 493 Copynumber: 2.0 Consensus size: 494
50939207 TGACATATGA
50939217 ATTTAGCCTATAAATAGGCTATTTTACAACCTTAGAAAAAACACCCATTAGAGATTAGAACTCAT
1 ATTTAGCCTATAAATAGGCTATTTTACAACCTTAGAAAAAACACCCATTAGAGATTAGAACTCAT
50939282 AACACATTTAGAGAATTTTGTGTTTACGTTTTGAGAGTTCTTTATTTTAGGGTTTACGATGTTTA
66 AACACATTTAGAGAATTTTGTGTTTACGTTTTGAGAGTTCTTTATTTTAGGGTTTACGATGTTTA
50939347 GTTTTATCTCCATCTTTTATACTCTTCACTCTTTTTCCATTATAATAAAATTATCTTTACACGTG
131 GTTTTATCTCCATCTTTTATACTCTTCACTCTTTTTCCATTATAATAAAATTATCTTTACACGTG
50939412 ATTTTTTATCCTCTTTGGAGGAGTTTTTTCCACTTTAAATTTGTGTGTTCAATTTCTCAATTTAT
196 ATTTTTTATCCTCTTTGGAGGAGTTTTTTCCACTTTAAATTTGTGTGTTCAATTTCTCAATTTAT
50939477 TCCGCTATTTTTGTTACTTGTTGCTTAATCGGGACGATCCTAACAGTATGTTTAGTTAAATAAAA
261 TCCGCTATTTTTGTTACTTGTTGCTTAATCGGGACGATCCTAACAGTATGTTTAGTTAAATAAAA
50939542 GGTATATGAAATCAAAGGTGTAATCAAGAGATGTATATTACATTTATAAAATAAGTTAATTGCTT
326 GGTATATGAAATCAAAGGTGTAATCAAGAGATGTATATTACATTTATAAAATAAGTTAATTGCTT
50939607 TTTAATTTGTCTATTTAAATTAATTCTATGCTTTTGACTTACTAAGCTCTTAGTAGC-TTTTTTT
391 TTTAATTTGTCTATTTAAATTAATTCTATGCTTTTGACTTACTAAGCTCTTAGTAGCTTTTTTTT
50939671 TTGTGTGTGTGTTTGTATTTGTTTACTTTTGTCTTATAG
456 TTGTGTGTGTGTTTGTATTTGTTTACTTTTGTCTTATAG
*
50939710 ATTTAGCCTATAAATAGGTTATTTTACAACCTTAGAAAAAACACCCATTAGAGATTAGAACTCAT
1 ATTTAGCCTATAAATAGGCTATTTTACAACCTTAGAAAAAACACCCATTAGAGATTAGAACTCAT
50939775 AACACATTTAGAGAATTTTGTGTTTACGTTTTGAGAGTTCTTTATTTTAGGGTTTACGATGTTTA
66 AACACATTTAGAGAATTTTGTGTTTACGTTTTGAGAGTTCTTTATTTTAGGGTTTACGATGTTTA
*
50939840 GTTTTATCTCCATCTTTTATACTCTTCGCTCTTTTTCCATTATAATAAAATTATCTTTACACGTG
131 GTTTTATCTCCATCTTTTATACTCTTCACTCTTTTTCCATTATAATAAAATTATCTTTACACGTG
50939905 ATTTTTTATCCTCTTTGGAGGAGTTTTTTCCACTTTAAATTTGTGTGTTCAATTTCTCAATTTAT
196 ATTTTTTATCCTCTTTGGAGGAGTTTTTTCCACTTTAAATTTGTGTGTTCAATTTCTCAATTTAT
50939970 TCCGCTATTTTTGTTACTTGTTGCTTAATCGGGACGATCCTAACAGTATGTTTAGTTAAATAAAA
261 TCCGCTATTTTTGTTACTTGTTGCTTAATCGGGACGATCCTAACAGTATGTTTAGTTAAATAAAA
50940035 GGTATATGAAATCAAAGGTGTAATCAAGAGATGTATATTACATTTATAAAATAAGTTAATTGCTT
326 GGTATATGAAATCAAAGGTGTAATCAAGAGATGTATATTACATTTATAAAATAAGTTAATTGCTT
50940100 TTTAATTTGTCTATTTAAATTAATTCTATGCTTTTGACTTACTAAGCTCTTAGTAGCTTTTTTTT
391 TTTAATTTGTCTATTTAAATTAATTCTATGCTTTTGACTTACTAAGCTCTTAGTAGCTTTTTTTT
50940165 TTGTGTGTGTGTTTGTATTTGTTTACTTTTGTCTTATAG
456 TTGTGTGTGTGTTTGTATTTGTTTACTTTTGTCTTATAG
50940204 ATTT
1 ATTT
50940208 TGAAGCGTTA
Statistics
Matches: 495, Mismatches: 2, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
493 445 0.90
494 50 0.10
ACGTcount: A:0.27, C:0.13, G:0.14, T:0.46
Consensus pattern (494 bp):
ATTTAGCCTATAAATAGGCTATTTTACAACCTTAGAAAAAACACCCATTAGAGATTAGAACTCAT
AACACATTTAGAGAATTTTGTGTTTACGTTTTGAGAGTTCTTTATTTTAGGGTTTACGATGTTTA
GTTTTATCTCCATCTTTTATACTCTTCACTCTTTTTCCATTATAATAAAATTATCTTTACACGTG
ATTTTTTATCCTCTTTGGAGGAGTTTTTTCCACTTTAAATTTGTGTGTTCAATTTCTCAATTTAT
TCCGCTATTTTTGTTACTTGTTGCTTAATCGGGACGATCCTAACAGTATGTTTAGTTAAATAAAA
GGTATATGAAATCAAAGGTGTAATCAAGAGATGTATATTACATTTATAAAATAAGTTAATTGCTT
TTTAATTTGTCTATTTAAATTAATTCTATGCTTTTGACTTACTAAGCTCTTAGTAGCTTTTTTTT
TTGTGTGTGTGTTTGTATTTGTTTACTTTTGTCTTATAG
Found at i:50943203 original size:28 final size:27
Alignment explanation
Indices: 50943144--50943229 Score: 77
Period size: 28 Copynumber: 3.2 Consensus size: 27
50943134 ACATTAATAA
* *
50943144 TAAATAAAACCAAAATTGAAATAATGC
1 TAAATAAAACCAAAATCGAAATAATCC
*
50943171 TAAATCAAAATCAAAATCGAAATAA-CC
1 TAAAT-AAAACCAAAATCGAAATAATCC
* * * *
50943198 TAAA-ATAACCCTAAATCAAAATAACCC
1 TAAATA-AAACCAAAATCGAAATAATCC
50943225 TAAAT
1 TAAAT
50943230 CCAAAAAATA
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
25 1 0.02
26 14 0.29
27 16 0.33
28 17 0.35
ACGTcount: A:0.58, C:0.17, G:0.03, T:0.21
Consensus pattern (27 bp):
TAAATAAAACCAAAATCGAAATAATCC
Found at i:50943218 original size:16 final size:17
Alignment explanation
Indices: 50943199--50943235 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
50943189 GAAATAACCT
50943199 AAAATAACCCTAAAT-C
1 AAAATAACCCTAAATCC
50943215 AAAATAACCCTAAATCC
1 AAAATAACCCTAAATCC
50943232 AAAA
1 AAAA
50943236 AATAAGAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.59, C:0.24, G:0.00, T:0.16
Consensus pattern (17 bp):
AAAATAACCCTAAATCC
Found at i:50943661 original size:21 final size:21
Alignment explanation
Indices: 50943635--50943675 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
50943625 CAACGTGACA
50943635 AGTTAACTGGCCACAGCAGCT
1 AGTTAACTGGCCACAGCAGCT
* *
50943656 AGTTAACTTGCCACATCAGC
1 AGTTAACTGGCCACAGCAGC
50943676 GGTCCCGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (21 bp):
AGTTAACTGGCCACAGCAGCT
Found at i:50949039 original size:3 final size:3
Alignment explanation
Indices: 50949031--50949082 Score: 77
Period size: 3 Copynumber: 17.0 Consensus size: 3
50949021 CTCTTAATTT
**
50949031 TAA TAA TAA GGA TCAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
50949077 TAA TAA
1 TAA TAA
50949083 AGACGTAATT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
3 42 0.95
4 2 0.05
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:50955603 original size:113 final size:111
Alignment explanation
Indices: 50955401--50955615 Score: 304
Period size: 113 Copynumber: 1.9 Consensus size: 111
50955391 AATAATAAAC
* * *
50955401 CGCCACGTCATTTAACTTTTAGATATATTTTTAATTGTTGGGGATAAACCTATATAAACAACGAA
1 CGCCACGTCATTTAACTTTAAAATATATTTTTAATTGTTGGGGATAAACCCATATAAACAACGAA
* *
50955466 CAAGAAAAGTAAAGAGGATTGAACACACAAATTTTACGTAAAAAAT
66 CAAGAAAAGTAAAGAAGATCGAACACACAAATTTTACGTAAAAAAT
* * * * * *
50955512 CGCCATGTCATTTAACCTTTAAAAGTATTTTTTTGATTGTTGGGGTTCAACCCGTATAAACAACG
1 CGCCACGTCATTTAA-CTTTAAAA-TATATTTTTAATTGTTGGGGATAAACCCATATAAACAACG
*
50955577 AACAAGAAAAGTAAAGAATATCGAACACACAAATTTTAC
64 AACAAGAAAAGTAAAGAAGATCGAACACACAAATTTTAC
50955616 ATGAAAAACT
Statistics
Matches: 90, Mismatches: 12, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
111 14 0.16
112 6 0.07
113 70 0.78
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.29
Consensus pattern (111 bp):
CGCCACGTCATTTAACTTTAAAATATATTTTTAATTGTTGGGGATAAACCCATATAAACAACGAA
CAAGAAAAGTAAAGAAGATCGAACACACAAATTTTACGTAAAAAAT
Found at i:50956036 original size:6 final size:6
Alignment explanation
Indices: 50956025--50956054 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
50956015 ATCAAAGTGG
50956025 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
50956055 ATTATTTATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:50957008 original size:14 final size:14
Alignment explanation
Indices: 50956970--50957009 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
50956960 ACAAAAAAGT
*
50956970 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
50956984 AAATCATTTTACGG
1 AAAACATTTTACAG
50956998 AAAACATTTTAC
1 AAAACATTTTAC
50957010 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:50959477 original size:8 final size:9
Alignment explanation
Indices: 50959459--50959485 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
50959449 TATTTCTCTC
50959459 TTTATTTTT
1 TTTATTTTT
50959468 TTTATTTTT
1 TTTATTTTT
50959477 TTTATTTTT
1 TTTATTTTT
50959486 CTTTTCCTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (9 bp):
TTTATTTTT
Found at i:50961840 original size:42 final size:41
Alignment explanation
Indices: 50961786--50961903 Score: 114
Period size: 43 Copynumber: 2.8 Consensus size: 41
50961776 CTAGCACAAA
* *
50961786 CGCCGCTGAAGACTAAGACCTTTAGCGGCGCTTTAGTG-GAAG
1 CGCCGCTAAAGACTAAGATCTTTAGCGGCG-TTT-GTGAGAAG
***
50961828 CGCCGCTAAAGACCCTGATCTTTAGCGGCGTTTGTGCTAGAAG
1 CGCCGCTAAAGACTAAGATCTTTAGCGGCGTTTGTG--AGAAG
* *
50961871 CGCCGCTATAGA-TCAAGGTCTTTAGCGGCGTTT
1 CGCCGCTAAAGACT-AAGATCTTTAGCGGCGTTT
50961904 TTTTCTCAAA
Statistics
Matches: 62, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
40 3 0.05
41 3 0.05
42 25 0.40
43 31 0.50
ACGTcount: A:0.21, C:0.25, G:0.29, T:0.25
Consensus pattern (41 bp):
CGCCGCTAAAGACTAAGATCTTTAGCGGCGTTTGTGAGAAG
Found at i:50961957 original size:43 final size:43
Alignment explanation
Indices: 50961910--50962183 Score: 214
Period size: 43 Copynumber: 6.3 Consensus size: 43
50961900 GTTTTTTTCT
* *
50961910 CAAACGCC-GTAATAGACCCTGATCTATAGCGGTGCTTTGACCA
1 CAAACGCCAGTAA-AGACCCTGATCTTTAGCGGCGCTTTGACCA
* * ** * * **
50961953 CAAACGCCACTAAATAAACTAATCTTTAGCGACGCTTTCCCCTA
1 CAAACGCCAGTAAAGACCCTGATCTTTAGCGGCGCTTTGACC-A
* * * *
50961997 -AAACGCC-GCAATAGACCCTGATCTATAGCGGTGCTTCGACCA
1 CAAACGCCAGTAA-AGACCCTGATCTTTAGCGGCGCTTTGACCA
* * * * **
50962039 CAAAATGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCA
1 C-AAACGCCAGTAAAGACCCTGATCTTTAGCGGCGCTTTGACCA
* * * **
50962083 CAAACGCCATTAAAGACCATGATCTTTAGTGGCGCTTTTTCCA
1 CAAACGCCAGTAAAGACCCTGATCTTTAGCGGCGCTTTGACCA
*
50962126 CAAACGCC-GCTAAAGACCCTTATCTTTAGCGGCGCTTTGACCA
1 CAAACGCCAG-TAAAGACCCTGATCTTTAGCGGCGCTTTGACCA
* * *
50962169 AAAACGACACTAAAG
1 CAAACGCCAGTAAAG
50962184 GCCAACACCT
Statistics
Matches: 174, Mismatches: 49, Indels: 16
0.73 0.21 0.07
Matches are distributed among these distances:
42 3 0.02
43 135 0.78
44 34 0.20
45 2 0.01
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.23
Consensus pattern (43 bp):
CAAACGCCAGTAAAGACCCTGATCTTTAGCGGCGCTTTGACCA
Found at i:50961979 original size:86 final size:86
Alignment explanation
Indices: 50961889--50962163 Score: 327
Period size: 86 Copynumber: 3.2 Consensus size: 86
50961879 TAGATCAAGG
* ***
50961889 TCTTTAGCGGCGTTTTTTTCTCAAACGCCGTAATAGACCCTGATCTATAGCGGTGCTTTGACCAC
1 TCTTTAGCGGCGCTTTCCCCTCAAACGCCGTAATAGACCCTGATCTATAGCGGTGCTTTGACCAC
* *
50961954 AAACGCCACTAAATAAACTAA
66 AAACGCCACTAAAGAACCTAA
* * * *
50961975 TCTTTAGCGACGCTTTCCCCTAAAACGCCGCAATAGACCCTGATCTATAGCGGTGCTTCGACCAC
1 TCTTTAGCGGCGCTTTCCCCTCAAACGCCGTAATAGACCCTGATCTATAGCGGTGCTTTGACCAC
*
50962040 AAAATGCCACTAAAGAACCTAA
66 -AAACGCCACTAAAGAACCTAA
* * * * * * **
50962062 TCTTTAGCGGCGCTTTCCCCACAAACGCCATTAA-AGACCATGATCTTTAGTGGCGCTTTTTCCA
1 TCTTTAGCGGCGCTTTCCCCTCAAACGCC-GTAATAGACCCTGATCTATAGCGGTGCTTTGACCA
* * *
50962126 CAAACGCCGCTAAAGACCCTTA
65 CAAACGCCACTAAAGAACCTAA
50962148 TCTTTAGCGGCGCTTT
1 TCTTTAGCGGCGCTTT
50962164 GACCAAAAAC
Statistics
Matches: 160, Mismatches: 27, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
86 90 0.56
87 68 0.43
88 2 0.01
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (86 bp):
TCTTTAGCGGCGCTTTCCCCTCAAACGCCGTAATAGACCCTGATCTATAGCGGTGCTTTGACCAC
AAACGCCACTAAAGAACCTAA
Found at i:50962174 original size:86 final size:86
Alignment explanation
Indices: 50962049--50962208 Score: 212
Period size: 86 Copynumber: 1.9 Consensus size: 86
50962039 CAAAATGCCA
* * * * ** *
50962049 CTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCACAAACGCCATTAAAGACCATGATCTTTAGTG
1 CTAAAGAACCTAATCTTTAGCGGCGCTTTCACCAAAAACGACACTAAAGACCAACACCTTTAGTG
50962114 GCGCTTTTTCCACAAACGCCG
66 GCGCTTTTTCCACAAACGCCG
* * * *
50962135 CTAAAGACCCTTATCTTTAGCGGCGCTTTGACCAAAAACGACACTAAAGGCCAACACCTTTAGTG
1 CTAAAGAACCTAATCTTTAGCGGCGCTTTCACCAAAAACGACACTAAAGACCAACACCTTTAGTG
*
50962200 GCGTTTTTT
66 GCGCTTTTT
50962209 TTAAAAAACG
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
86 62 1.00
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (86 bp):
CTAAAGAACCTAATCTTTAGCGGCGCTTTCACCAAAAACGACACTAAAGACCAACACCTTTAGTG
GCGCTTTTTCCACAAACGCCG
Found at i:50962555 original size:21 final size:21
Alignment explanation
Indices: 50962529--50962641 Score: 127
Period size: 21 Copynumber: 5.4 Consensus size: 21
50962519 TTTGACGCTG
50962529 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
**
50962550 CTCTGCTTTGCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* **
50962571 CTCTGTTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGCAGC
*
50962592 CTCTGCTTCCCTCGCTGTAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * * * *
50962613 CTGTACTTCTCTAGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
50962634 CTCTGCTT
1 CTCTGCTT
50962642 TTCTTGCTGC
Statistics
Matches: 75, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 75 1.00
ACGTcount: A:0.05, C:0.41, G:0.19, T:0.35
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:50962581 original size:42 final size:42
Alignment explanation
Indices: 50962529--50962662 Score: 133
Period size: 42 Copynumber: 3.2 Consensus size: 42
50962519 TTTGACGCTG
*
50962529 CTCTGCTTCCCTCGCTGCAGCCTCTGCTTTGCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGCCTCTGCTTTCCTCGCTGCAGC
* ** * *
50962571 CTCTGTTTCCCTCGCTTTAGCCTCTGCTTCCCTCGCTGTAGC
1 CTCTGCTTCCCTCGCTGCAGCCTCTGCTTTCCTCGCTGCAGC
* * * * * * * *
50962613 CTGTACTTCTCTAGCTGCCGCCTCTGCTTTTCTTGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGCCTCTGCTTTCCTCGCTGCAGC
*
50962655 ATCTGCTT
1 CTCTGCTT
50962663 TAAGCTGCTG
Statistics
Matches: 70, Mismatches: 22, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.05, C:0.40, G:0.19, T:0.37
Consensus pattern (42 bp):
CTCTGCTTCCCTCGCTGCAGCCTCTGCTTTCCTCGCTGCAGC
Found at i:50962726 original size:66 final size:66
Alignment explanation
Indices: 50962633--50962798 Score: 201
Period size: 66 Copynumber: 2.5 Consensus size: 66
50962623 CTAGCTGCCG
* * * *
50962633 CCTCTGCTTTTCTTGCTGCCGCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCATT
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-ATT
50962696 GAA
64 GAA
* * *
50962699 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTCAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGA
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTATTGA
50962764 A
66 A
* * * *
50962765 CCTCAGCTTCTCTCGATGTTGCCTCCGCTTTAAG
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAG
50962799 TTGTGTAATT
Statistics
Matches: 86, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
65 1 0.01
66 81 0.94
67 4 0.05
ACGTcount: A:0.13, C:0.28, G:0.18, T:0.40
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTATTGA
A
Found at i:50965242 original size:9 final size:9
Alignment explanation
Indices: 50965225--50965426 Score: 96
Period size: 9 Copynumber: 24.2 Consensus size: 9
50965215 TAAGTATAAT
*
50965225 TAAGCTATG
1 TAAGTTATG
50965234 TAAGTTATG
1 TAAGTTATG
50965243 T-A-TTATG
1 TAAGTTATG
50965250 TAAGTTAT-
1 TAAGTTATG
*
50965258 TTA-TTATG
1 TAAGTTATG
* **
50965266 AAAACTATG
1 TAAGTTATG
*
50965275 TAAGTTGTG
1 TAAGTTATG
50965284 T-A-TTATG
1 TAAGTTATG
*
50965291 -AA--AAT-
1 TAAGTTATG
* *
50965296 TATGCTATG
1 TAAGTTATG
*
50965305 TAAGTTATA
1 TAAGTTATG
* *
50965314 TAAGTCATA
1 TAAGTTATG
50965323 TAAGTTATG
1 TAAGTTATG
50965332 T-A-TTATG
1 TAAGTTATG
50965339 TAAGTTATG
1 TAAGTTATG
50965348 TAAGTTAT-
1 TAAGTTATG
*
50965356 TTA-TTATG
1 TAAGTTATG
* * *
50965364 CAAATTAAG
1 TAAGTTATG
50965373 TAAGTTATG
1 TAAGTTATG
50965382 TAAGTTATG
1 TAAGTTATG
*
50965391 TATA-ATAT-
1 TA-AGTTATG
**
50965399 TAA-TTAAC
1 TAAGTTATG
50965407 TAAGTTATG
1 TAAGTTATG
*
50965416 TAATTTATG
1 TAAGTTATG
50965425 TA
1 TA
50965427 TAATATTTAT
Statistics
Matches: 145, Mismatches: 32, Indels: 32
0.69 0.15 0.15
Matches are distributed among these distances:
6 3 0.02
7 28 0.19
8 18 0.12
9 95 0.66
10 1 0.01
ACGTcount: A:0.37, C:0.03, G:0.15, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Done.