Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 71 of 362
Found at i:22140178 original size:40 final size:40
Alignment explanation
Indices: 22140123--22140333 Score: 230
Period size: 40 Copynumber: 5.3 Consensus size: 40
22140113 ATTTGAATGA
*
22140123 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
*
22140163 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
* * * *
22140203 TATCCGGGCTAAGAGCCGAAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* * * *
22140243 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTT
* * * * * * *
22140283 TACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
22140323 TATCC-GGCTAA
1 TATCCGGGCTAA
22140334 ATTCCGAAGA
Statistics
Matches: 154, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
39 7 0.05
40 144 0.94
41 3 0.02
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTT
Found at i:22155557 original size:55 final size:55
Alignment explanation
Indices: 22155473--22155582 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
22155463 TTAAGGAGAA
22155473 GGATCTCTTTAAGGGAGGAAGCACTTGTTATGGAAGGAATGTTTTCTATTGATTC
1 GGATCTCTTTAAGGGAGGAAGCACTTGTTATGGAAGGAATGTTTTCTATTGATTC
*
22155528 GGATCTCTTTAAGGGAGGAAGTACTTGTTATGGAAGGAATGTTTTCTATTGATTC
1 GGATCTCTTTAAGGGAGGAAGCACTTGTTATGGAAGGAATGTTTTCTATTGATTC
22155583 TGTTAATTTT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.25, C:0.10, G:0.27, T:0.37
Consensus pattern (55 bp):
GGATCTCTTTAAGGGAGGAAGCACTTGTTATGGAAGGAATGTTTTCTATTGATTC
Found at i:22160756 original size:38 final size:38
Alignment explanation
Indices: 22160701--22160795 Score: 88
Period size: 38 Copynumber: 2.4 Consensus size: 38
22160691 TAATTTTATC
*
22160701 ATATATTAAAAATTTAT-ATAAA-CTGATAAAATTCATAA
1 ATATATTAAAAATTTATAATAAATCT--TAAAATTAATAA
*
22160739 ATAT-TTATAAATATTATAATAAATCTTAAAATTAATAAAA
1 ATATATTAAAAAT-TTATAATAAATCTTAAAATTAAT--AA
*
22160779 ACATATTAAAATATTTA
1 ATATATTAAAA-ATTTA
22160796 AAACATTTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
37 7 0.15
38 17 0.37
39 5 0.11
40 7 0.15
41 8 0.17
42 2 0.04
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.39
Consensus pattern (38 bp):
ATATATTAAAAATTTATAATAAATCTTAAAATTAATAA
Found at i:22161691 original size:39 final size:39
Alignment explanation
Indices: 22161648--22161760 Score: 99
Period size: 39 Copynumber: 2.9 Consensus size: 39
22161638 ATTTATTAGA
22161648 ATTTTTTATATTGTTTATAAGTTTTATAAAATTTTAAAT
1 ATTTTTTATATTGTTTATAAGTTTTATAAAATTTTAAAT
** ** *
22161687 ATTTTGAATA-TGTTTTAGTAA-TTTTATAAACAAATTATAT
1 ATTTTTTATATTG-TTTA-TAAGTTTTATAAA-ATTTTAAAT
* *
22161727 TTTTTTTATAATT-TTTATAAG-TTTATACAATTTT
1 ATTTTTTAT-ATTGTTTATAAGTTTTATAAAATTTT
22161761 TTTATATAAT
Statistics
Matches: 57, Mismatches: 11, Indels: 13
0.70 0.14 0.16
Matches are distributed among these distances:
38 5 0.09
39 31 0.54
40 19 0.33
41 1 0.02
42 1 0.02
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (39 bp):
ATTTTTTATATTGTTTATAAGTTTTATAAAATTTTAAAT
Found at i:22161761 original size:30 final size:33
Alignment explanation
Indices: 22161725--22161793 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 33
22161715 AACAAATTAT
*
22161725 ATTTTTTT-TATAATTTTTATAAGTTTATA-CA
1 ATTTTTTTATATAATTTTTATAAGTATATATCA
22161756 ATTTTTTTATATAATTTTTATAAGTATATATCA
1 ATTTTTTTATATAATTTTTATAAGTATATATCA
22161789 ATTTT
1 ATTTT
22161794 AATAATTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
31 8 0.23
32 20 0.57
33 7 0.20
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (33 bp):
ATTTTTTTATATAATTTTTATAAGTATATATCA
Found at i:22161794 original size:30 final size:30
Alignment explanation
Indices: 22161727--22161802 Score: 93
Period size: 32 Copynumber: 2.5 Consensus size: 30
22161717 CAAATTATAT
* *
22161727 TTTTTTTATAATTTTTATAAGTTTATACAA
1 TTTTTATATAATTTTTATAAGTATATACAA
22161757 TTTTTTTATATAATTTTTATAAGTATATATCAA
1 --TTTTTATATAATTTTTATAAGTATATA-CAA
22161790 -TTTTA-ATAATTTT
1 TTTTTATATAATTTT
22161803 ATGAGAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
29 8 0.20
30 5 0.12
32 25 0.61
33 3 0.07
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (30 bp):
TTTTTATATAATTTTTATAAGTATATACAA
Found at i:22161803 original size:9 final size:10
Alignment explanation
Indices: 22161610--22161804 Score: 56
Period size: 9 Copynumber: 19.6 Consensus size: 10
22161600 AAATGATTTT
22161610 TTTTATATATA
1 TTTTATATA-A
*
22161621 TTTTTTAT-A
1 TTTTATATAA
*
22161630 TTTT-TACAA
1 TTTTATATAA
*
22161639 -TTTATTAGAA
1 TTTTA-TATAA
*
22161649 TTTTTTAT-A
1 TTTTATATAA
22161658 TTGTT-TATAA
1 TT-TTATATAA
*
22161668 GTTTTATAAAA
1 -TTTTATATAA
*
22161679 TTTTAAAT-A
1 TTTTATATAA
22161688 TTTTGA-AT-A
1 TTTT-ATATAA
22161697 TGTTT-TAGTAA
1 T-TTTATA-TAA
*
22161708 TTTTATAAACA
1 TTTTATATA-A
** *
22161719 AATTATAT-T
1 TTTTATATAA
*
22161728 TTTTTTATAA
1 TTTTATATAA
22161738 TTTT-TATAA
1 TTTTATATAA
* *
22161747 GTTTATACAA
1 TTTTATATAA
22161757 TTTTTTTATATAA
1 ---TTTTATATAA
22161770 TTTT-TATAA
1 TTTTATATAA
* *
22161779 GTATATATCAA
1 TTTTATAT-AA
22161790 TTTTA-ATAA
1 TTTTATATAA
22161799 TTTTAT
1 TTTTAT
22161805 GAGAAAATAT
Statistics
Matches: 136, Mismatches: 25, Indels: 47
0.65 0.12 0.23
Matches are distributed among these distances:
8 5 0.04
9 49 0.36
10 43 0.32
11 31 0.23
13 8 0.06
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.58
Consensus pattern (10 bp):
TTTTATATAA
Found at i:22161814 original size:28 final size:28
Alignment explanation
Indices: 22161760--22161822 Score: 65
Period size: 28 Copynumber: 2.2 Consensus size: 28
22161750 TATACAATTT
* *
22161760 TTTTATATAATTTTTATAAGTATATATCAA
1 TTTTA-ATAATTTTTATAAGAAAATAT-AA
*
22161790 TTTTAATAA-TTTTATGAGAAAATATAA
1 TTTTAATAATTTTTATAAGAAAATATAA
*
22161817 TATTAA
1 TTTTAA
22161823 ACCAGGATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 7 0.24
28 13 0.45
29 4 0.14
30 5 0.17
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (28 bp):
TTTTAATAATTTTTATAAGAAAATATAA
Found at i:22163306 original size:20 final size:18
Alignment explanation
Indices: 22163251--22163303 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 18
22163241 TTTATTGTAA
22163251 TTTTTATGAATTTTATATT
1 TTTTTAT-AATTTTATATT
*
22163270 TTTTATAAAAGTTTTATGATT
1 TTTT-TATAA-TTTTAT-ATT
22163291 TTTTTATAATTTT
1 TTTTTATAATTTT
22163304 TATAAGTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
19 10 0.34
20 12 0.41
21 7 0.24
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (18 bp):
TTTTTATAATTTTATATT
Found at i:22163310 original size:29 final size:29
Alignment explanation
Indices: 22163236--22163355 Score: 79
Period size: 29 Copynumber: 4.2 Consensus size: 29
22163226 TATAAAAAAA
* * * *
22163236 TATAATTTATTGTAATTTTTATGAATTTTA
1 TATAATTT-TTATAAGTTTTATGATTTTTT
* *
22163266 TAT-TTTTTATAAAAGTTTTATGATTTTTT
1 TATAATTTT-TATAAGTTTTATGATTTTTT
*
22163295 TATAATTTTTATAAG-TTTAT-ATCTATTT
1 TATAATTTTTATAAGTTTTATGAT-TTTTT
* * *
22163323 TA-ATATTTTAATAAATTTAATGA-TTTTT
1 TATA-ATTTTTATAAGTTTTATGATTTTTT
22163351 TATAA
1 TATAA
22163356 GAAAATATAA
Statistics
Matches: 70, Mismatches: 13, Indels: 16
0.71 0.13 0.16
Matches are distributed among these distances:
27 3 0.04
28 28 0.40
29 31 0.44
30 8 0.11
ACGTcount: A:0.34, C:0.01, G:0.05, T:0.60
Consensus pattern (29 bp):
TATAATTTTTATAAGTTTTATGATTTTTT
Found at i:22163323 original size:31 final size:30
Alignment explanation
Indices: 22163261--22163355 Score: 85
Period size: 28 Copynumber: 3.3 Consensus size: 30
22163251 TTTTTATGAA
*
22163261 TTTTATATTTTTTATAAAAGTTTTATGATTT
1 TTTTATAATTTTTAT-AAAGTTTTATGATTT
*
22163292 TTTTATAATTTTTAT-AAG-TTTAT-ATCTA
1 TTTTATAATTTTTATAAAGTTTTATGAT-TT
* *
22163320 TTTTA-ATATTTTAATAAA-TTTAATGA-TT
1 TTTTATA-ATTTTTATAAAGTTTTATGATTT
22163348 TTTTATAA
1 TTTTATAA
22163356 GAAAATATAA
Statistics
Matches: 53, Mismatches: 5, Indels: 15
0.73 0.07 0.21
Matches are distributed among these distances:
27 3 0.06
28 25 0.47
29 10 0.19
30 1 0.02
31 14 0.26
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.61
Consensus pattern (30 bp):
TTTTATAATTTTTATAAAGTTTTATGATTT
Found at i:22163899 original size:18 final size:19
Alignment explanation
Indices: 22163865--22163900 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
22163855 TAATAAATTA
*
22163865 TTTAATATTACAATTTTAC
1 TTTAATAATACAATTTTAC
22163884 TTTAATAATA-AATTTTA
1 TTTAATAATACAATTTTA
22163901 ACAAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTAATAATACAATTTTAC
Found at i:22163988 original size:14 final size:14
Alignment explanation
Indices: 22163969--22163995 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22163959 ATTGATATTT
22163969 TAATAATAAATATG
1 TAATAATAAATATG
22163983 TAATAATAAATAT
1 TAATAATAAATAT
22163996 TTTATAGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (14 bp):
TAATAATAAATATG
Found at i:22164167 original size:17 final size:17
Alignment explanation
Indices: 22164136--22164175 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
22164126 TATTATTGAT
*
22164136 TATTAAATTTATATATAA
1 TATT-AATTTATATAAAA
*
22164154 TATTAATTTTTATAAAA
1 TATTAATTTATATAAAA
22164171 TATTA
1 TATTA
22164176 TCACATTACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATTAATTTATATAAAA
Found at i:22164544 original size:30 final size:30
Alignment explanation
Indices: 22164508--22164568 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 30
22164498 AATTAATTGT
*
22164508 TTTTTTAATTTAAACAATT-TATAAA-AAATA
1 TTTTTTAAATTAAA-AATTAT-TAAATAAATA
22164538 TTTTTTAAATTAAAAATTATTAAATAAATA
1 TTTTTTAAATTAAAAATTATTAAATAAATA
22164568 T
1 T
22164569 AAATATTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 8 0.29
30 20 0.71
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (30 bp):
TTTTTTAAATTAAAAATTATTAAATAAATA
Found at i:22167353 original size:199 final size:197
Alignment explanation
Indices: 22166988--22167501 Score: 699
Period size: 199 Copynumber: 2.6 Consensus size: 197
22166978 AAAAGAAAAG
** ** *
22166988 AAACTATTTTAACTTCCAAGTATTTCAAGTTTC-AAACCGAGGAATGATGTTCCATATACCAATA
1 AAACTATTTTAACTTCCAAGTATTT-AAAATTCAAAACCGAGGAATGATGTTCCATATGTCAAAA
* *
22167052 TGGAGGTGCTACTATAAATTTCAGTTGAAGCTAGCAAACTATTTTAACTTCAAGTATTTCAAGTT
65 TGGAGCTGCTACTGTAAATTTCAGTTGAAGCTAGCAAACTATTTTAACTTCAAGTATTTCAAGTT
* *
22167117 CAAAACCGAGGACTGATACTCCATATGTCAATATGGAGCTGCTACTGTAAATTTCTGTTGAAGCT
130 CAAAACCGAGGACTGATACTCCATATGTCAATATGGAGCAGCTACTGTAAATTTCAGTTGAAGCT
22167182 AGT
195 AGT
*
22167185 AAACTATTTTAACTTCCAAGTATTTAAAAATTCAAAACCGAGGTATGATGTTCCATATGTCAAAA
1 AAACTATTTTAACTTCCAAGTATTT-AAAATTCAAAACCGAGGAATGATGTTCCATATGTCAAAA
* * * *
22167250 TAGAGCTGCTACTGTAAATTTCAGTAGAAGCTAGTAAACTATTTTTAACTTTAAGTATTTCAAGT
65 TGGAGCTGCTACTGTAAATTTCAGTTGAAGCTAGCAAACTA-TTTTAACTTCAAGTATTTCAAGT
** *
22167315 TCAAAACCGAGGACTGATGTTCCATATGTCAATATGGAGCAGCTACTGTAAATTTCAGTTGCAGC
129 TCAAAACCGAGGACTGATACTCCATATGTCAATATGGAGCAGCTACTGTAAATTTCAGTTGAAGC
*
22167380 TCGT
194 TAGT
* * * * * *
22167384 AAACAATTTTAACTTCTCAAGTATTTCAAGTTCAAAACCGAGAAATAATGCTCCATATGT-AAAT
1 AAACTATTTTAACTTC-CAAGTATTTAAAATTCAAAACCGAGGAATGATGTTCCATATGTCAAA-
* * * * * *
22167448 ATGGAGCAGATACTGTAAATTTCAGTTGAAGCTAACAAAGTATTTCAAGTTCAA
64 ATGGAGCTGCTACTGTAAATTTCAGTTGAAGCTAGCAAACTATTTTAACTTCAA
22167502 AACTGAGGAC
Statistics
Matches: 277, Mismatches: 36, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
197 30 0.11
198 75 0.27
199 163 0.59
200 9 0.03
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (197 bp):
AAACTATTTTAACTTCCAAGTATTTAAAATTCAAAACCGAGGAATGATGTTCCATATGTCAAAAT
GGAGCTGCTACTGTAAATTTCAGTTGAAGCTAGCAAACTATTTTAACTTCAAGTATTTCAAGTTC
AAAACCGAGGACTGATACTCCATATGTCAATATGGAGCAGCTACTGTAAATTTCAGTTGAAGCTA
GT
Found at i:22167371 original size:99 final size:99
Alignment explanation
Indices: 22166988--22167481 Score: 688
Period size: 100 Copynumber: 5.0 Consensus size: 99
22166978 AAAAGAAAAG
**
22166988 AAACTATTTTAACTTCCAAGTATTTCAAGTTTC-AAACCGAGGAATGATGTTCCATATACCAATA
1 AAACTATTTTAACTTCCAAGTATTTCAAG-TTCAAAACCGAGGAATGATGTTCCATATGTCAATA
* * *
22167052 TGGAGGTGCTACTATAAATTTCAGTTGAAGCTAGC
65 TGGAGCTGCTACTGTAAATTTCAGTTGAAGCTAGT
* **
22167087 AAACTATTTTAACTT-CAAGTATTTCAAGTTCAAAACCGAGGACTGATACTCCATATGTCAATAT
1 AAACTATTTTAACTTCCAAGTATTTCAAGTTCAAAACCGAGGAATGATGTTCCATATGTCAATAT
*
22167151 GGAGCTGCTACTGTAAATTTCTGTTGAAGCTAGT
66 GGAGCTGCTACTGTAAATTTCAGTTGAAGCTAGT
* * * *
22167185 AAACTATTTTAACTTCCAAGTATTTAAAAATTCAAAACCGAGGTATGATGTTCCATATGTCAAAA
1 AAACTATTTTAACTTCCAAGTATTT-CAAGTTCAAAACCGAGGAATGATGTTCCATATGTCAATA
* *
22167250 TAGAGCTGCTACTGTAAATTTCAGTAGAAGCTAGT
65 TGGAGCTGCTACTGTAAATTTCAGTTGAAGCTAGT
* *
22167285 AAACTATTTTTAACTT-TAAGTATTTCAAGTTCAAAACCGAGGACTGATGTTCCATATGTCAATA
1 AAACTA-TTTTAACTTCCAAGTATTTCAAGTTCAAAACCGAGGAATGATGTTCCATATGTCAATA
* * *
22167349 TGGAGCAGCTACTGTAAATTTCAGTTGCAGCTCGT
65 TGGAGCTGCTACTGTAAATTTCAGTTGAAGCTAGT
* * * * *
22167384 AAACAATTTTAACTTCTCAAGTATTTCAAGTTCAAAACCGAGAAATAATGCTCCATATGTAAATA
1 AAACTATTTTAACTTC-CAAGTATTTCAAGTTCAAAACCGAGGAATGATGTTCCATATGTCAATA
* *
22167449 TGGAGCAGATACTGTAAATTTCAGTTGAAGCTA
65 TGGAGCTGCTACTGTAAATTTCAGTTGAAGCTA
22167482 ACAAAGTATT
Statistics
Matches: 349, Mismatches: 40, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
97 3 0.01
98 94 0.27
99 93 0.27
100 150 0.43
101 9 0.03
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (99 bp):
AAACTATTTTAACTTCCAAGTATTTCAAGTTCAAAACCGAGGAATGATGTTCCATATGTCAATAT
GGAGCTGCTACTGTAAATTTCAGTTGAAGCTAGT
Found at i:22167527 original size:29 final size:29
Alignment explanation
Indices: 22167494--22167555 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
22167484 AAAGTATTTC
** *
22167494 AAGTTCAAAACTGAGGACTGATGTTCCAT
1 AAGTTCAAAACCAAGGACTGATATTCCAT
*
22167523 AAGTTCAAAACCAAGGAGTGATATTCCAT
1 AAGTTCAAAACCAAGGACTGATATTCCAT
22167552 AAGT
1 AAGT
22167556 CAATATGGAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (29 bp):
AAGTTCAAAACCAAGGACTGATATTCCAT
Found at i:22169568 original size:23 final size:23
Alignment explanation
Indices: 22169542--22169588 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
22169532 GATAGTATTT
22169542 TAATTAACTCCTTAAATAATATA
1 TAATTAACTCCTTAAATAATATA
*
22169565 TAATTTACTCCTTAAATAATATA
1 TAATTAACTCCTTAAATAATATA
22169588 T
1 T
22169589 CAAACTTATC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.43
Consensus pattern (23 bp):
TAATTAACTCCTTAAATAATATA
Found at i:22179009 original size:26 final size:26
Alignment explanation
Indices: 22178976--22179035 Score: 81
Period size: 25 Copynumber: 2.3 Consensus size: 26
22178966 GATCATATAG
22178976 AAAATAAAATATTT-TTA-TTTTAATA
1 AAAATAAAATATTTATTATTTTTAA-A
22179001 AAAAGT-AAATATTTATTATTTTTAAA
1 AAAA-TAAAATATTTATTATTTTTAAA
22179027 AAAATAAAA
1 AAAATAAAA
22179036 AAAAAGTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
25 13 0.42
26 12 0.39
27 6 0.19
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (26 bp):
AAAATAAAATATTTATTATTTTTAAA
Found at i:22182644 original size:2 final size:2
Alignment explanation
Indices: 22182639--22182665 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
22182629 TATATATATA
22182639 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
22182666 CGAACTAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:22184049 original size:39 final size:39
Alignment explanation
Indices: 22183994--22184106 Score: 111
Period size: 39 Copynumber: 2.8 Consensus size: 39
22183984 TATAATAATT
*
22183994 CACCGGCATAAAGCCTGCTAGGCCTAAGCCTGAATCT-CA
1 CACCGGCAT-AAGCCTGCTAGGCATAAGCCTGAATCTACA
* * * * * * *
22184033 CACCAGCATAAGGCCTGCTAGACTTTAAGTCTGATTTTATA
1 CACCGGCATAA-GCCTGCTAGGC-ATAAGCCTGAATCTACA
22184074 CACCGGCAATAAGCCTGCTAGGCATAAGCCTGA
1 CACCGGC-ATAAGCCTGCTAGGCATAAGCCTGA
22184107 TTTAATTCAC
Statistics
Matches: 59, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
38 2 0.03
39 18 0.31
40 18 0.31
41 17 0.29
42 4 0.07
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (39 bp):
CACCGGCATAAGCCTGCTAGGCATAAGCCTGAATCTACA
Found at i:22187262 original size:10 final size:11
Alignment explanation
Indices: 22187242--22187298 Score: 59
Period size: 10 Copynumber: 5.5 Consensus size: 11
22187232 TTAGGACTTA
22187242 TTTTCATTTATC
1 TTTT-ATTTATC
22187254 TTTTA-TTATC
1 TTTTATTTATC
*
22187264 -TTTAATTATC
1 TTTTATTTATC
22187274 -TTTATTTAT-
1 TTTTATTTATC
*
22187283 TTGTATTTATC
1 TTTTATTTATC
22187294 TTTTA
1 TTTTA
22187299 GAATTTAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
9 4 0.10
10 26 0.67
11 5 0.13
12 4 0.10
ACGTcount: A:0.21, C:0.09, G:0.02, T:0.68
Consensus pattern (11 bp):
TTTTATTTATC
Found at i:22189481 original size:5 final size:5
Alignment explanation
Indices: 22189466--22189544 Score: 67
Period size: 5 Copynumber: 15.6 Consensus size: 5
22189456 TTTATTATTC
*
22189466 TTTATT TTTAT TTTA- -TTAT TTTAT TTTAT TATTA- TTTATT TATTAC
1 TTTA-T TTTAT TTTAT TTTAT TTTAT TTTAT T-TTAT TTTA-T T-TTAT
*
22189512 TTTAT TTTAT TTTAT TATT-T ATTAT TTTAT TTT
1 TTTAT TTTAT TTTAT T-TTAT TTTAT TTTAT TTT
22189545 GTTTGGGTGA
Statistics
Matches: 61, Mismatches: 4, Indels: 17
0.74 0.05 0.21
Matches are distributed among these distances:
3 3 0.05
4 5 0.08
5 39 0.64
6 11 0.18
7 3 0.05
ACGTcount: A:0.23, C:0.01, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTAT
Found at i:22189486 original size:8 final size:8
Alignment explanation
Indices: 22189455--22189542 Score: 69
Period size: 8 Copynumber: 10.9 Consensus size: 8
22189445 ACAACCCAAT
22189455 TTTTATTA
1 TTTTATTA
*
22189463 TTCT-TTA
1 TTTTATTA
22189470 -TTT-TTA
1 TTTTATTA
22189476 TTTTATTA
1 TTTTATTA
22189484 TTTTATT-
1 TTTTATTA
22189491 TTATTATTA
1 TT-TTATTA
22189500 TTTATTTATTA
1 --T-TTTATTA
*
22189511 CTTTATTTTA
1 -TTT-TATTA
22189521 TTTTATTA
1 TTTTATTA
22189529 -TTTATTA
1 TTTTATTA
22189536 TTTTATT
1 TTTTATT
22189543 TTGTTTGGGT
Statistics
Matches: 66, Mismatches: 5, Indels: 18
0.74 0.06 0.20
Matches are distributed among these distances:
6 5 0.08
7 15 0.23
8 28 0.42
9 5 0.08
10 5 0.08
11 7 0.11
12 1 0.02
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTTATTA
Found at i:22189517 original size:32 final size:32
Alignment explanation
Indices: 22189455--22189539 Score: 102
Period size: 32 Copynumber: 2.6 Consensus size: 32
22189445 ACAACCCAAT
*
22189455 TTTTATTATTCTTTATTTTTATTTTATTATTTTA
1 TTTTATTATT-TTTATTTTTA-TCTATTATTTTA
22189489 TTTTATTATTATTTATTTATTA-CT-TTATTTTA
1 TTTTATTATT-TTTATTT-TTATCTATTATTTTA
22189521 TTTTATTATTTATTATTTT
1 TTTTATTATTT-TTATTTT
22189540 ATTTTGTTTG
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
31 2 0.04
32 24 0.51
33 1 0.02
34 17 0.36
35 3 0.06
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.75
Consensus pattern (32 bp):
TTTTATTATTTTTATTTTTATCTATTATTTTA
Found at i:22189524 original size:45 final size:46
Alignment explanation
Indices: 22189456--22189542 Score: 135
Period size: 45 Copynumber: 1.9 Consensus size: 46
22189446 CAACCCAATT
22189456 TTTATTATTCTTTATTTTTATTTTATTA-TT-TTATTTTATTATTA
1 TTTATTATTCTTTATTTTTATTTTATTATTTATTATTTTATTATTA
22189500 TTTATTTATTACTTTA-TTTTATTTTATTATTTATTATTTTATT
1 TTTA-TTATT-CTTTATTTTTATTTTATTATTTATTATTTTATT
22189543 TTGTTTGGGT
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
44 4 0.10
45 18 0.46
46 7 0.18
47 10 0.26
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (46 bp):
TTTATTATTCTTTATTTTTATTTTATTATTTATTATTTTATTATTA
Found at i:22190574 original size:12 final size:12
Alignment explanation
Indices: 22190554--22190595 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
22190544 ATTTCTAAGC
22190554 AAAAATTAA-TA
1 AAAAATTAATTA
*
22190565 AATTAATTAATTA
1 AA-AAATTAATTA
22190578 AAAAATTAATTA
1 AAAAATTAATTA
22190590 AAAAAT
1 AAAAAT
22190596 AAAAAAAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
11 2 0.07
12 21 0.78
13 4 0.15
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAAATTAATTA
Found at i:22191257 original size:10 final size:11
Alignment explanation
Indices: 22191232--22191293 Score: 62
Period size: 10 Copynumber: 6.1 Consensus size: 11
22191222 TAATTTTAGG
*
22191232 ATTTAT-TTTC
1 ATTTATCTTTT
22191242 ATTTATCTTTT
1 ATTTATCTTTT
22191253 A-TTATC-TTT
1 ATTTATCTTTT
*
22191262 AATTATC-TTT
1 ATTTATCTTTT
*
22191272 ATTTAT-TTGT
1 ATTTATCTTTT
22191282 ATTTATCTTTT
1 ATTTATCTTTT
22191293 A
1 A
22191294 GAATTTAATT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
9 4 0.09
10 32 0.73
11 8 0.18
ACGTcount: A:0.23, C:0.08, G:0.02, T:0.68
Consensus pattern (11 bp):
ATTTATCTTTT
Found at i:22194252 original size:16 final size:15
Alignment explanation
Indices: 22194226--22194255 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
22194216 AATGGAAGTG
22194226 CTTTCCTTCTCAATA
1 CTTTCCTTCTCAATA
22194241 CTTTCACTTCTCAAT
1 CTTTC-CTTCTCAAT
22194256 CTAAAATCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.20, C:0.33, G:0.00, T:0.47
Consensus pattern (15 bp):
CTTTCCTTCTCAATA
Found at i:22204502 original size:20 final size:20
Alignment explanation
Indices: 22204452--22204510 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
22204442 ACGCCGTGAC
* **
22204452 CTTTGGGACAAGCCCAAGTG
1 CTTTGGGACACGCCCGTGTG
*
22204472 ATTTGGGACACGCCCGTGTG
1 CTTTGGGACACGCCCGTGTG
*
22204492 CTTTGGGACACACCCGTGT
1 CTTTGGGACACGCCCGTGT
22204511 CCCTTACCCA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.19, C:0.27, G:0.31, T:0.24
Consensus pattern (20 bp):
CTTTGGGACACGCCCGTGTG
Found at i:22207040 original size:17 final size:16
Alignment explanation
Indices: 22206999--22207040 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
22206989 AAACTTTTAA
*
22206999 AATTTTTCATGCTTGC
1 AATTTTTCATGCATGC
22207015 ACA-TTTTCATGCATGC
1 A-ATTTTTCATGCATGC
22207031 AATTTATTCA
1 AATTT-TTCA
22207041 ATTTGGTCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
15 1 0.05
16 16 0.73
17 5 0.23
ACGTcount: A:0.26, C:0.19, G:0.10, T:0.45
Consensus pattern (16 bp):
AATTTTTCATGCATGC
Found at i:22218748 original size:13 final size:13
Alignment explanation
Indices: 22218732--22218756 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22218722 TTAAATCAGT
22218732 TAATTAGTTTAAA
1 TAATTAGTTTAAA
22218745 TAATTAGTTTAA
1 TAATTAGTTTAA
22218757 TAAACAAACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TAATTAGTTTAAA
Found at i:22227766 original size:21 final size:21
Alignment explanation
Indices: 22227740--22227802 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
22227730 GAATCATTGA
* *
22227740 ATTCTTCTATTTTTTTTATTT
1 ATTCTTATATTTATTTTATTT
*
22227761 ATTCTTATGTTTATTTTATTT
1 ATTCTTATATTTATTTTATTT
*
22227782 -TAT-TTATTTTTATTTTTATTT
1 AT-TCTTATATTTA-TTTTATTT
22227803 TAATTTTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
20 9 0.25
21 27 0.75
ACGTcount: A:0.17, C:0.05, G:0.02, T:0.76
Consensus pattern (21 bp):
ATTCTTATATTTATTTTATTT
Found at i:22227784 original size:26 final size:26
Alignment explanation
Indices: 22227747--22227814 Score: 93
Period size: 26 Copynumber: 2.6 Consensus size: 26
22227737 TGAATTCTTC
22227747 TATTTT-TTTTATTTATTCTTATGTT
1 TATTTTATTTTATTTATTCTTATGTT
* *
22227772 TATTTTATTTTATTTATTTTTATTTT
1 TATTTTATTTTATTTATTCTTATGTT
22227798 TATTTTAATTTTTATTT
1 TATTTT-A-TTTTATTT
22227815 TCATTTCAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
25 6 0.16
26 23 0.61
27 1 0.03
28 8 0.21
ACGTcount: A:0.19, C:0.01, G:0.01, T:0.78
Consensus pattern (26 bp):
TATTTTATTTTATTTATTCTTATGTT
Found at i:22227789 original size:4 final size:5
Alignment explanation
Indices: 22227747--22227839 Score: 66
Period size: 6 Copynumber: 17.2 Consensus size: 5
22227737 TGAATTCTTC
22227747 TATTT T-TTT TA-TT TATTCT TATGTT TATTT TATTT TA-TT TATTTT
1 TATTT TATTT TATTT TATT-T TAT-TT TATTT TATTT TATTT TA-TTT
*
22227792 TATTTT TATTT TAATTTT TATTT TCATTT CAACTTT ATATTT TATTT T
1 TA-TTT TATTT T-A-TTT TATTT T-ATTT -TA-TTT -TATTT TATTT T
22227840 GACAAACATA
Statistics
Matches: 74, Mismatches: 3, Indels: 22
0.75 0.03 0.22
Matches are distributed among these distances:
4 12 0.16
5 25 0.34
6 28 0.38
7 9 0.12
ACGTcount: A:0.20, C:0.04, G:0.01, T:0.74
Consensus pattern (5 bp):
TATTT
Found at i:22230745 original size:13 final size:13
Alignment explanation
Indices: 22230729--22230761 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
22230719 TTTAATTAAA
*
22230729 TTAGTTAATTAGT
1 TTAGATAATTAGT
22230742 TTAGATAATTAGT
1 TTAGATAATTAGT
22230755 TTA-ATAA
1 TTAGATAA
22230762 ACAAATCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:22232961 original size:144 final size:143
Alignment explanation
Indices: 22232700--22232985 Score: 414
Period size: 144 Copynumber: 2.0 Consensus size: 143
22232690 GTTACATAGA
* * * *
22232700 CATTTAACCTCTAAATATGTATAAGAAGTTTTCTCTTCATACGACTCGAGAAAAAAAGATCAATT
1 CATTTAACCCCTAAATATGTATAAGAAATTTTCTCCTCATACGACTCAAGAAAAAAAGATCAATT
* * *
22232765 AAAAGTTATGTCTATGTATGAAATTATAATGTATGAAATTAAAATATAAAAAAATCCATATATTA
66 AAAAGTTATATCTATGTATGAAATTATAATGTATGAAATTAAAATAT-AAAAAATCCATAAATCA
*
22232830 ACAAATCAATTAGG
130 AAAAATCAATTAGG
* *
22232844 CATTTAACCCCTAGAA-ATGTATAAGAAATTTTCTCCTCATACGACTTAAGAAAAAAAGATTAAT
1 CATTTAACCCCTA-AATATGTATAAGAAATTTTCTCCTCATACGACTCAAGAAAAAAAGATCAAT
* * *
22232908 TAAAAGTTATATCTATGTATGAAATTATAATGTAT-ATAATTAGAATATCAAAAATTCATAAATC
65 TAAAAGTTATATCTATGTATGAAATTATAATGTATGA-AATTAAAATATAAAAAATCCATAAATC
22232972 AAAAAATCAATTAG
129 AAAAAATCAATTAG
22232986 TCTTTCAAGA
Statistics
Matches: 127, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
143 26 0.20
144 99 0.78
145 2 0.02
ACGTcount: A:0.47, C:0.11, G:0.09, T:0.33
Consensus pattern (143 bp):
CATTTAACCCCTAAATATGTATAAGAAATTTTCTCCTCATACGACTCAAGAAAAAAAGATCAATT
AAAAGTTATATCTATGTATGAAATTATAATGTATGAAATTAAAATATAAAAAATCCATAAATCAA
AAAATCAATTAGG
Found at i:22233239 original size:91 final size:91
Alignment explanation
Indices: 22233126--22233291 Score: 235
Period size: 91 Copynumber: 1.8 Consensus size: 91
22233116 AAATTTACAC
* *
22233126 CCAATTGAGCCCTTGCAGTTAATTAAAATAATCAATTAGGCCCCTTCGTTAACGAAATCCGCAGT
1 CCAATTCAGCCCTTGCAGTTAATTAAAATAATCAATTAAGCCCCTTCGTTAACGAAATCCGCAGT
22233191 TGACTACATTGACTATTAAAATAAGT
66 TGACTACATTGACTATTAAAATAAGT
* * * ** **
22233217 CCAATTCAGCCCTTGCCA-TTAATTTAAATAATTAATTAATCCTTTTCGTTAACGAAATCCGTGG
1 CCAATTCAGCCCTTG-CAGTTAATTAAAATAATCAATTAAGCCCCTTCGTTAACGAAATCCGCAG
22233281 TTGACTACATT
65 TTGACTACATT
22233292 TAAAATAAAT
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
91 63 0.97
92 2 0.03
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (91 bp):
CCAATTCAGCCCTTGCAGTTAATTAAAATAATCAATTAAGCCCCTTCGTTAACGAAATCCGCAGT
TGACTACATTGACTATTAAAATAAGT
Found at i:22233447 original size:18 final size:19
Alignment explanation
Indices: 22233406--22233446 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
22233396 AAAAAACTGG
22233406 AAAATATTATTAAAAATTA
1 AAAATATTATTAAAAATTA
22233425 AAAATATT-TTAAAAAATTA
1 AAAATATTATT-AAAAATTA
22233444 AAA
1 AAA
22233447 TTGATATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 2 0.10
19 19 0.90
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAATATTATTAAAAATTA
Found at i:22233613 original size:20 final size:21
Alignment explanation
Indices: 22233572--22233625 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
22233562 AAACATATTT
* *
22233572 AAAACAT-TTAAAATTTTATA
1 AAAACATATAAAAATTCTATA
22233592 AAAACATATAAAAATTCT-TA
1 AAAACATATAAAAATTCTATA
*
22233612 AAAACTTATAAAAA
1 AAAACATATAAAAA
22233626 AATCATTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 22 0.73
21 8 0.27
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (21 bp):
AAAACATATAAAAATTCTATA
Found at i:22233634 original size:22 final size:20
Alignment explanation
Indices: 22233590--22233636 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
22233580 TAAAATTTTA
*
22233590 TAAAAACATATAAAAATTCT
1 TAAAAACATATAAAAAATCT
*
22233610 TAAAAACTTATAAAAAAATCAT
1 TAAAAACATAT-AAAAAATC-T
22233632 TAAAA
1 TAAAA
22233637 TATAAAAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 10 0.43
21 7 0.30
22 6 0.26
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.28
Consensus pattern (20 bp):
TAAAAACATATAAAAAATCT
Found at i:22233791 original size:29 final size:28
Alignment explanation
Indices: 22233750--22233821 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 28
22233740 AAAAAATATA
*
22233750 AAAATCTAATAAATTATTGAAATCATTTAT
1 AAAATCTAATAAAATATTGAAAT--TTTAT
*
22233780 AAAAT-TAATAAAATATTTAAATTTTAT
1 AAAATCTAATAAAATATTGAAATTTTAT
* *
22233807 AAAAACTTATAAAAT
1 AAAATCTAATAAAAT
22233822 TAGTAAAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
27 9 0.24
28 8 0.22
29 15 0.41
30 5 0.14
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.39
Consensus pattern (28 bp):
AAAATCTAATAAAATATTGAAATTTTAT
Found at i:22233818 original size:10 final size:9
Alignment explanation
Indices: 22233699--22233894 Score: 113
Period size: 9 Copynumber: 21.0 Consensus size: 9
22233689 TGATATACAC
22233699 TTATAAAAA
1 TTATAAAAA
22233708 TTATAAAAAAA
1 TTAT--AAAAA
*
22233719 TCATAAAAA
1 TTATAAAAA
22233728 TT-TATAAAA
1 TTATA-AAAA
22233737 -TATAAAAA
1 TTATAAAAA
*
22233745 ATATAAAAA
1 TTATAAAAA
*
22233754 TCTA-ATAAA
1 T-TATAAAAA
*
22233763 TTATTGAAATCA
1 TTA-T-AAA-AA
22233775 TT-TATAAAA
1 TTATA-AAAA
22233784 TTAATAAAATA
1 TT-ATAAAA-A
**
22233795 TT-TAAATT
1 TTATAAAAA
22233803 TTATAAAAA
1 TTATAAAAA
22233812 CTTAT-AAAA
1 -TTATAAAAA
22233821 TTAGTAAAAA
1 TTA-TAAAAA
22233831 TTATAAAAA
1 TTATAAAAA
22233840 -TATAAAAAA
1 TTAT-AAAAA
*
22233849 TTCTAATAAA
1 TTATAA-AAA
22233859 TTTATAAAAA
1 -TTATAAAAA
*
22233869 ATATTAAAAA
1 TTA-TAAAAA
22233879 -T-TAAAAA
1 TTATAAAAA
22233886 TTATAAAAA
1 TTATAAAAA
22233895 AGCTATTTAA
Statistics
Matches: 148, Mismatches: 14, Indels: 50
0.70 0.07 0.24
Matches are distributed among these distances:
7 6 0.04
8 18 0.12
9 68 0.46
10 33 0.22
11 20 0.14
12 3 0.02
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (9 bp):
TTATAAAAA
Found at i:22234332 original size:15 final size:15
Alignment explanation
Indices: 22234308--22234344 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
22234298 CAATTCAATT
*
22234308 AAAT-AAAAAATAAA
1 AAATAAAAAAAGAAA
22234322 AAATAAAAAAAGAAA
1 AAATAAAAAAAGAAA
22234337 AAATAAAA
1 AAATAAAA
22234345 TTAAAAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 4 0.19
15 17 0.81
ACGTcount: A:0.86, C:0.00, G:0.03, T:0.11
Consensus pattern (15 bp):
AAATAAAAAAAGAAA
Found at i:22234352 original size:7 final size:7
Alignment explanation
Indices: 22234308--22234344 Score: 56
Period size: 7 Copynumber: 5.1 Consensus size: 7
22234298 CAATTCAATT
22234308 AAATAAA
1 AAATAAA
22234315 AAATAAA
1 AAATAAA
22234322 AAATAAAA
1 AAAT-AAA
*
22234330 AAAGAAA
1 AAATAAA
22234337 AAATAAA
1 AAATAAA
22234344 A
1 A
22234345 TTAAAAATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
7 21 0.78
8 6 0.22
ACGTcount: A:0.86, C:0.00, G:0.03, T:0.11
Consensus pattern (7 bp):
AAATAAA
Found at i:22234572 original size:18 final size:18
Alignment explanation
Indices: 22234522--22234582 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
22234512 TTAATGTTTT
* *
22234522 ATTTTTAATTTTTTTATG-
1 ATTTTT-ATATTTTTAAGA
22234540 ATTTTTATAAGTTTTTAAGA
1 ATTTTTAT-A-TTTTTAAGA
22234560 ATTTTTATATTTTATAA-A
1 ATTTTTATATTTT-TAAGA
22234578 ATTTT
1 ATTTT
22234583 AAATATTTGT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
17 2 0.05
18 16 0.43
19 11 0.30
20 8 0.22
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (18 bp):
ATTTTTATATTTTTAAGA
Found at i:22234675 original size:9 final size:9
Alignment explanation
Indices: 22234532--22234759 Score: 102
Period size: 10 Copynumber: 24.8 Consensus size: 9
22234522 ATTTTTAATT
*
22234532 TTTTTATGA
1 TTTTTATAA
22234541 TTTTTATAA
1 TTTTTATAA
*
22234550 GTTTTTAAGAA
1 -TTTTT-ATAA
22234561 TTTTTAT-A
1 TTTTTATAA
22234569 -TTTTATAAA
1 TTTTTAT-AA
*
22234578 ATTTTA-AA
1 TTTTTATAA
*
22234586 TATTTGTATTAG
1 T-TTT-TA-TAA
*
22234598 TTTTATAAAA
1 TTTT-TATAA
22234608 TTTTTCATAA
1 TTTTT-ATAA
22234618 TTTATTATAA
1 TTT-TTATAA
22234628 --TTT-T-A
1 TTTTTATAA
22234633 TTTTTATAA
1 TTTTTATAA
* *
22234642 TATTTACAA
1 TTTTTATAA
* *
22234651 GTTTTAATTATT
1 -TTTTTA-TA-A
22234663 TTTTTATAA
1 TTTTTATAA
22234672 TTTTTATAA
1 TTTTTATAA
*
22234681 GTTTATATAA
1 -TTTTTATAA
*
22234691 ATTTTAGT-A
1 TTTTTA-TAA
22234700 TTTTTAT--
1 TTTTTATAA
22234707 TTTTTAATAA
1 TTTTT-ATAA
*
22234717 -TTATATAA
1 TTTTTATAA
*
22234725 TAATTTATAA
1 T-TTTTATAA
22234735 TTTTTAT-A
1 TTTTTATAA
22234743 TTTTTAATAA
1 TTTTT-ATAA
22234753 TTTTTAT
1 TTTTTAT
22234760 GAGAAAATAT
Statistics
Matches: 167, Mismatches: 25, Indels: 54
0.68 0.10 0.22
Matches are distributed among these distances:
5 1 0.01
6 1 0.01
7 16 0.10
8 18 0.11
9 53 0.32
10 60 0.36
11 16 0.10
12 2 0.01
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.61
Consensus pattern (9 bp):
TTTTTATAA
Found at i:22234747 original size:36 final size:35
Alignment explanation
Indices: 22234663--22234754 Score: 109
Period size: 35 Copynumber: 2.6 Consensus size: 35
22234653 TTTAATTATT
*
22234663 TTTTTATAATTTTT-ATAAGTTTATATAAATTTTAGTA
1 TTTTTAT-ATTTTTAATAA--TTATATAAAATTTAGTA
22234700 TTTTTAT-TTTTTAATAATTATATAATAATTTA-TAA
1 TTTTTATATTTTTAATAATTATATAA-AATTTAGT-A
22234735 TTTTTATATTTTTAATAATT
1 TTTTTATATTTTTAATAATT
22234755 TTTATGAGAA
Statistics
Matches: 50, Mismatches: 1, Indels: 9
0.83 0.02 0.15
Matches are distributed among these distances:
34 9 0.18
35 18 0.36
36 16 0.32
37 7 0.14
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (35 bp):
TTTTTATATTTTTAATAATTATATAAAATTTAGTA
Found at i:22235079 original size:20 final size:20
Alignment explanation
Indices: 22235056--22235099 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
22235046 TGAAATAATT
* *
22235056 AAAATTCCTTAAAAATATAA
1 AAAATTCATGAAAAATATAA
22235076 AAAATTCATGAAAAATATAA
1 AAAATTCATGAAAAATATAA
22235096 AAAA
1 AAAA
22235100 ATCCCTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.66, C:0.07, G:0.02, T:0.25
Consensus pattern (20 bp):
AAAATTCATGAAAAATATAA
Found at i:22235330 original size:21 final size:20
Alignment explanation
Indices: 22235306--22235353 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
22235296 TTTAAAATAA
*
22235306 TTATTTTGGTTTTTTATGATT
1 TTATTTTAGTTTTTT-TGATT
*
22235327 TTATTTAAGTTTTTTTGATT
1 TTATTTTAGTTTTTTTGATT
22235347 TT-TTTTA
1 TTATTTTA
22235354 AATTTTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 4 0.17
20 7 0.29
21 13 0.54
ACGTcount: A:0.17, C:0.00, G:0.10, T:0.73
Consensus pattern (20 bp):
TTATTTTAGTTTTTTTGATT
Found at i:22235345 original size:20 final size:21
Alignment explanation
Indices: 22235314--22235359 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
22235304 AATTATTTTG
22235314 GTTTTTTATGATTTTATTTAA
1 GTTTTTTATGATTTTATTTAA
*
22235335 GTTTTTT-TGATTTTTTTTAA
1 GTTTTTTATGATTTTATTTAA
*
22235355 ATTTT
1 GTTTT
22235360 AATTTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.20, C:0.00, G:0.09, T:0.72
Consensus pattern (21 bp):
GTTTTTTATGATTTTATTTAA
Found at i:22235375 original size:27 final size:27
Alignment explanation
Indices: 22235330--22235381 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
22235320 TATGATTTTA
*
22235330 TTTAAGTTTTTTTGATTTTTTTTAAAT
1 TTTAAGTTTTTTTGATTTTATTTAAAT
*
22235357 TTTAA-TTTTTTTTACTTTTATTTAA
1 TTTAAGTTTTTTTGA-TTTTATTTAA
22235382 TGTGGCAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.71
Consensus pattern (27 bp):
TTTAAGTTTTTTTGATTTTATTTAAAT
Found at i:22235827 original size:5 final size:5
Alignment explanation
Indices: 22235817--22235842 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
22235807 TGTTTATAAC
22235817 CAGAT CAGAT CAGAT CAGAT CAGAT C
1 CAGAT CAGAT CAGAT CAGAT CAGAT C
22235843 GGGGGGAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.19
Consensus pattern (5 bp):
CAGAT
Found at i:22245184 original size:54 final size:55
Alignment explanation
Indices: 22245074--22245194 Score: 167
Period size: 54 Copynumber: 2.3 Consensus size: 55
22245064 ACCTTTGGTC
*
22245074 CCCCAAA--TTTTTAAAATTTTATTTTGCCCCCCAATACCAAATTCCTGGCTCTG
1 CCCCAAATCTTTTTAAAATTTTATTTTGCACCCCAATACCAAATTCCTGGCTCTG
* ** *
22245127 CCCCAAATCTTTTTAAAATTTTATTTTG-ACCCCGATGGCAAATTCCTGGCTTTG
1 CCCCAAATCTTTTTAAAATTTTATTTTGCACCCCAATACCAAATTCCTGGCTCTG
*
22245181 CCCCTAATCTTTTT
1 CCCCAAATCTTTTT
22245195 GTTGGGTATA
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
53 7 0.12
54 34 0.57
55 19 0.32
ACGTcount: A:0.24, C:0.28, G:0.09, T:0.39
Consensus pattern (55 bp):
CCCCAAATCTTTTTAAAATTTTATTTTGCACCCCAATACCAAATTCCTGGCTCTG
Found at i:22250464 original size:21 final size:21
Alignment explanation
Indices: 22250435--22250475 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
22250425 TGCTGGACAG
**
22250435 GAGCCGGAATGGGAGTGTTTA
1 GAGCCGGAATGAAAGTGTTTA
*
22250456 GAGCTGGAATGAAAGTGTTT
1 GAGCCGGAATGAAAGTGTTT
22250476 GGTTGCTGGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.07, G:0.39, T:0.27
Consensus pattern (21 bp):
GAGCCGGAATGAAAGTGTTTA
Found at i:22253435 original size:13 final size:13
Alignment explanation
Indices: 22253419--22253456 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
22253409 TAAACCAAAT
22253419 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
*
22253432 TTTTCAACAGCAC
1 TTTTCAAAAGCAC
22253445 TTTTCAAAAGCA
1 TTTTCAAAAGCA
22253457 TTGCCAAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.37, C:0.24, G:0.08, T:0.32
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:22269192 original size:27 final size:27
Alignment explanation
Indices: 22269161--22269338 Score: 198
Period size: 27 Copynumber: 6.6 Consensus size: 27
22269151 TAAATTGTAC
22269161 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* **
22269188 TGCACTAAGTGTGCGAAATGA--ATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
22269213 GATGCACTAAGTGTGCGAATTGACCATGC
1 -A-GCACTAAGTGTGCGATTTGACTATGT
*
22269242 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
22269270 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
22269297 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
22269324 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
22269339 GACTCAATAT
Statistics
Matches: 129, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
25 4 0.03
27 99 0.77
28 23 0.18
29 3 0.02
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:22269302 original size:82 final size:81
Alignment explanation
Indices: 22269162--22269317 Score: 226
Period size: 82 Copynumber: 1.9 Consensus size: 81
22269152 AAATTGTACA
* *
22269162 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATGTGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAACGTGATGCACTAAGTGT
22269227 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
**
22269243 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGT-A-GCACTAAG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGA--ACGTGATGCACTAAG
*
22269306 TGTGCGAGTTGA
63 TGTGCGAATTGA
22269318 TTATATAGCA
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
81 15 0.22
82 48 0.72
83 1 0.01
84 3 0.04
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAACGTGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:22269329 original size:82 final size:81
Alignment explanation
Indices: 22269158--22269338 Score: 222
Period size: 82 Copynumber: 2.2 Consensus size: 81
22269148 GATTAAATTG
* *
22269158 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATGTGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAACGTGATGCACTAA
22269223 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * **
22269239 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGT-A-GCAC
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGA--ACGTGATGCAC
* **
22269302 TAAGTGTGCGAGTTGATTA
63 TAAGTGTGCGAATTGACCA
* *
22269321 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
22269339 GACTCAATAT
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
81 17 0.20
82 63 0.75
83 1 0.01
84 3 0.04
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAACGTGATGCACTAA
GTGTGCGAATTGACCA
Found at i:22277246 original size:32 final size:32
Alignment explanation
Indices: 22277210--22277276 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
22277200 CCATTTAAGG
22277210 ACCCTCAATTTAAAATTTCATAACAACTGGAC
1 ACCCTCAATTTAAAATTTCATAACAACTGGAC
*
22277242 ACCCTCAATTTAAAATTTCATAACAATTGGAC
1 ACCCTCAATTTAAAATTTCATAACAACTGGAC
22277274 ACC
1 ACC
22277277 TTTAGTATGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.40, C:0.25, G:0.06, T:0.28
Consensus pattern (32 bp):
ACCCTCAATTTAAAATTTCATAACAACTGGAC
Found at i:22279203 original size:6 final size:6
Alignment explanation
Indices: 22279185--22279327 Score: 105
Period size: 6 Copynumber: 23.3 Consensus size: 6
22279175 AAGAAACATT
*
22279185 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAAA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * * * *
22279233 ATCAGA ATTAG- GTGACAGA ATTAGA ATCAGA ATTAGT ATCAGGTA A-CCGA
1 ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
* * *
22279283 ATCAAA ATCAGA ATCAGC ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
22279328 GTGAATGCAA
Statistics
Matches: 106, Mismatches: 20, Indels: 22
0.72 0.14 0.15
Matches are distributed among these distances:
5 6 0.06
6 89 0.84
7 8 0.08
8 3 0.03
ACGTcount: A:0.48, C:0.15, G:0.17, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:22279259 original size:31 final size:31
Alignment explanation
Indices: 22279194--22279327 Score: 155
Period size: 31 Copynumber: 4.4 Consensus size: 31
22279184 TATCAGAACT
22279194 AGAATCAGAATCAGAATCA-G-AATCAGAATC
1 AGAATCAGAATCAGAATCAGGTAA-CAGAATC
* * * *
22279224 AGAATCAAAATCAGAATTAGGTGACAGAATT
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
* * *
22279255 AGAATCAGAATTAGTATCAGGTAACCGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
* *
22279286 AAAATCAGAATCAGCATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
*
22279317 AAAATCAGAAT
1 AGAATCAGAAT
22279328 GTGAATGCAA
Statistics
Matches: 87, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
30 17 0.20
31 69 0.79
32 1 0.01
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTAACAGAATC
Found at i:22279484 original size:27 final size:26
Alignment explanation
Indices: 22279447--22279554 Score: 126
Period size: 27 Copynumber: 4.0 Consensus size: 26
22279437 TGCATGGCTG
* *
22279447 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
22279473 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
* *
22279500 CCAGAACAAATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGGCAGAGCCA
* * *
22279527 CCAGAATTAGATAATGTGGCAAAGCCA
1 CCAGAA-CAGATATTGTGGCAGAGCCA
22279554 C
1 C
22279555 TTAATAGAAT
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
26 11 0.15
27 56 0.79
28 4 0.06
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:22279637 original size:32 final size:31
Alignment explanation
Indices: 22279568--22279637 Score: 77
Period size: 32 Copynumber: 2.2 Consensus size: 31
22279558 ATAGAATACG
* *
22279568 TGGCACAAAGCCATCAATAACTGTAATAACT
1 TGGCACAAAGCCATCAATAACGGTAATAAAT
* * *
22279599 TCGGCACATAGCCATCAGTGACGGTAATATAAT
1 T-GGCACAAAGCCATCAATAACGGTAATA-AAT
22279632 TGGCAC
1 TGGCAC
22279638 CCAGCCTTCG
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
31 1 0.03
32 28 0.88
33 3 0.09
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.23
Consensus pattern (31 bp):
TGGCACAAAGCCATCAATAACGGTAATAAAT
Found at i:22279745 original size:22 final size:22
Alignment explanation
Indices: 22279713--22279770 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
22279703 TAAATATGTT
*
22279713 TGGCACGAAGCCATAGTCAAGA
1 TGGCACAAAGCCATAGTCAAGA
* * *
22279735 TGGCACAAAGCCATATTTAAGT
1 TGGCACAAAGCCATAGTCAAGA
*
22279757 TGGCACAAATCCAT
1 TGGCACAAAGCCAT
22279771 TGATAACGGG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (22 bp):
TGGCACAAAGCCATAGTCAAGA
Found at i:22280276 original size:53 final size:54
Alignment explanation
Indices: 22280147--22280304 Score: 228
Period size: 53 Copynumber: 2.9 Consensus size: 54
22280137 GGTATCTCGT
* * * **
22280147 TAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAA
22280201 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACA-GGGTATTTCAA
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAA
* * * *
22280254 TAATTCTACCCTAAAGGAGTATTTCGATAATTCTACCTTATAGGGGTATTT
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTT
22280305 TAGTAATTTT
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
53 47 0.50
54 47 0.50
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.37
Consensus pattern (54 bp):
TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAA
Found at i:22280286 original size:80 final size:81
Alignment explanation
Indices: 22280136--22280304 Score: 241
Period size: 80 Copynumber: 2.1 Consensus size: 81
22280126 TACCCCAAGA
* * * * * * *
22280136 GGGTATCTCGTTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAGGGGTATTTCGG
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTAAAGGAGTATTTCGA
22280201 TAATTCTACCCTACAG
66 TAATTCTACCCTACAG
*
22280217 GGGTATTTCGGTAATTCTACCTTACA-GGGTATTTCAATAATTCTACCCTAAAGGAGTATTTCGA
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTAAAGGAGTATTTCGA
* *
22280281 TAATTCTACCTTATAG
66 TAATTCTACCCTACAG
22280297 GGGTATTT
1 GGGTATTT
22280305 TAGTAATTTT
Statistics
Matches: 78, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
80 55 0.71
81 23 0.29
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.37
Consensus pattern (81 bp):
GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTAAAGGAGTATTTCGA
TAATTCTACCCTACAG
Found at i:22280311 original size:27 final size:27
Alignment explanation
Indices: 22280147--22280312 Score: 219
Period size: 27 Copynumber: 6.2 Consensus size: 27
22280137 GGTATCTCGT
22280147 TAATTCTACCCTACAGGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCAG
* *
22280174 TATTTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCAG
*
22280201 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCAG
* *
22280228 TAATTCTACCTTACA-GGGTATTTCAA
1 TAATTCTACCCTACAGGGGTATTTCAG
* *
22280254 TAATTCTACCCTAAAGGAGTATTTC-G
1 TAATTCTACCCTACAGGGGTATTTCAG
* * *
22280280 ATAATTCTACCTTATAGGGGTATTTTAG
1 -TAATTCTACCCTACAGGGGTATTTCAG
22280308 TAATT
1 TAATT
22280313 TTACAGGTCG
Statistics
Matches: 122, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
26 22 0.18
27 99 0.81
28 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCAG
Found at i:22280327 original size:27 final size:27
Alignment explanation
Indices: 22280295--22280421 Score: 125
Period size: 27 Copynumber: 4.7 Consensus size: 27
22280285 TCTACCTTAT
*
22280295 AGGGGTATTTTAGTAATTTTACAGGTCG
1 AGGGGTATTTTAGTAATTTTACA-ATCG
* *
22280323 A-GGGTATTTCAGTAATTTCACAAATC-
1 AGGGGTATTTTAGTAATTTTAC-AATCG
* * *
22280349 AGGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTAGTAATTTTACAATCG
* *
22280376 AGGGGTATTTTGGTAATTTTTCTAATCG
1 AGGGGTATTTTAGTAATTTTAC-AATCG
*
22280404 A-GGGTATTTCAGTAATTT
1 AGGGGTATTTTAGTAATTT
22280422 GGTAAACTAA
Statistics
Matches: 83, Mismatches: 12, Indels: 9
0.80 0.12 0.09
Matches are distributed among these distances:
26 4 0.05
27 73 0.88
28 6 0.07
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.41
Consensus pattern (27 bp):
AGGGGTATTTTAGTAATTTTACAATCG
Found at i:22280339 original size:54 final size:52
Alignment explanation
Indices: 22280147--22280339 Score: 192
Period size: 54 Copynumber: 3.6 Consensus size: 52
22280137 GGTATCTCGT
* * *
22280147 TAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCT-CA-GGGTATTTCAGTAATTCTACCTTACAGGGGTATTTCAG
* *
22280201 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACA-GGGTATTTCAA
1 TAATTCTACCCT-CA-GGGTATTTCAGTAATTCTACCTTACAGGGGTATTTCAG
* * *
22280254 TAATTCTACCCTAAAGGAGTATTTC-GATAATTCTACCTTATAGGGGTATTTTAG
1 TAATTCTACCCT-CAGG-GTATTTCAG-TAATTCTACCTTACAGGGGTATTTCAG
* **
22280308 TAATTTTACAGGTCGAGGGTATTTCAGTAATT
1 TAATTCTAC-CCTC-AGGGTATTTCAGTAATT
22280340 TCACAAATCA
Statistics
Matches: 120, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
52 3 0.03
53 44 0.37
54 68 0.57
55 5 0.04
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (52 bp):
TAATTCTACCCTCAGGGTATTTCAGTAATTCTACCTTACAGGGGTATTTCAG
Found at i:22280366 original size:81 final size:80
Alignment explanation
Indices: 22280163--22280421 Score: 231
Period size: 81 Copynumber: 3.2 Consensus size: 80
22280153 TACCCTACAG
* ** * * *
22280163 GGGTATTTCAGTATTTCTAC-CCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCG
1 GGGTATTTCAGTAATT-TACACAAACAGGGGTATTTCGGTAATTCTACCATATAGGGGTATTTTG
* **
22280227 GTAATTCTACCTTAC-A
65 GTAATTTTACAAT-CGA
* * * * * * *
22280243 GGGTATTTCAATAATTCTACCCTAA-AGGAGTATTTCGATAATTCTACCTTATAGGGGTATTTTA
1 GGGTATTTCAGTAATT-TACACAAACAGGGGTATTTCGGTAATTCTACCATATAGGGGTATTTTG
*
22280307 GTAATTTTACAGGTCGA
65 GTAATTTTACA-ATCGA
* * *
22280324 GGGTATTTCAGTAATTT-CACAAATCAGGGGTATTTTGGTAATTTTA-CAAACTAGGGGTATTTT
1 GGGTATTTCAGTAATTTACACAAA-CAGGGGTATTTCGGTAATTCTACCATA-TAGGGGTATTTT
*
22280387 GGTAATTTTTCTAATCGA
64 GGTAATTTTAC-AATCGA
22280405 GGGTATTTCAGTAATTT
1 GGGTATTTCAGTAATTT
22280422 GGTAAACTAA
Statistics
Matches: 147, Mismatches: 25, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
79 4 0.03
80 64 0.44
81 78 0.53
82 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (80 bp):
GGGTATTTCAGTAATTTACACAAACAGGGGTATTTCGGTAATTCTACCATATAGGGGTATTTTGG
TAATTTTACAATCGA
Found at i:22283149 original size:18 final size:18
Alignment explanation
Indices: 22283110--22283152 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
22283100 CATCTAGTGG
* *
22283110 AGGAACATGCTTGGTAGG
1 AGGAACATGCTTGATAGC
22283128 AGGAACATGCTCTGAT-GC
1 AGGAACATGCT-TGATAGC
22283146 AGGAACA
1 AGGAACA
22283153 CTCCCATAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 19 0.86
19 3 0.14
ACGTcount: A:0.33, C:0.16, G:0.33, T:0.19
Consensus pattern (18 bp):
AGGAACATGCTTGATAGC
Found at i:22303360 original size:27 final size:27
Alignment explanation
Indices: 22303329--22303506 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
22303319 TAAATTGTAC
22303329 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
22303356 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
22303382 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
22303410 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
22303438 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
22303465 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
22303492 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
22303507 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:22303443 original size:82 final size:81
Alignment explanation
Indices: 22303330--22303485 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
22303320 AAATTGTACA
* *
22303330 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
22303394 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
22303411 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
22303476 TGCGAGTTGA
65 TGCGAATTGA
22303486 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:22303497 original size:82 final size:81
Alignment explanation
Indices: 22303326--22303506 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
22303316 GATTAAATTG
* *
22303326 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
22303391 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
22303407 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
22303471 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
22303489 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
22303507 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:22311434 original size:27 final size:27
Alignment explanation
Indices: 22311403--22311580 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
22311393 TAAATTGTAC
22311403 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
22311430 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
22311456 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
22311484 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
22311512 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
22311539 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
22311566 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
22311581 GACTTAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:22311517 original size:82 final size:81
Alignment explanation
Indices: 22311404--22311559 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
22311394 AAATTGTACA
* *
22311404 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
22311468 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
22311485 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
22311550 TGCGAGTTGA
65 TGCGAATTGA
22311560 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:22311571 original size:82 final size:81
Alignment explanation
Indices: 22311400--22311580 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
22311390 GATTAAATTG
* *
22311400 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
22311465 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
22311481 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
22311545 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
22311563 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
22311581 GACTTAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:22323666 original size:6 final size:6
Alignment explanation
Indices: 22323655--22323694 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
22323645 TAGGTTTCCA
*
22323655 AAATGG AAATGG AAATGG AAATGA AAATGG AAATGG AAAT
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAAT
22323695 AATTTGTTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.55, C:0.00, G:0.28, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:22325616 original size:71 final size:71
Alignment explanation
Indices: 22325530--22325698 Score: 180
Period size: 71 Copynumber: 2.4 Consensus size: 71
22325520 TGGGTTGTAG
* * *
22325530 ATTCACTAAAGCTTGTGTAAGTAGCTTCGAATCATCAGATAATGATGGCTTGAG-GTCCA-ACAT
1 ATTCTCTAAAGCTTGTGTAAGTAGCATCGAATCATCAGATAATGATGGCTTGAGAGTCAACACAT
22325593 TTGTTTGA
66 TTG--TGA
* * * * *** * *
22325601 ATTCTCTAAAGCTTGTGTGAGCAACATCGAATTATCCTTTATTGATGGCTTGAGATTCAACACAT
1 ATTCTCTAAAGCTTGTGTAAGTAGCATCGAATCATCAGATAATGATGGCTTGAGAGTCAACACAT
22325666 TTGTGA
66 TTGTGA
* *
22325672 ATTCTCTGAAGCTTGTGTTAGTAGCAT
1 ATTCTCTAAAGCTTGTGTAAGTAGCAT
22325699 TAGGTAAAGC
Statistics
Matches: 80, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
71 70 0.88
72 3 0.04
73 7 0.09
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (71 bp):
ATTCTCTAAAGCTTGTGTAAGTAGCATCGAATCATCAGATAATGATGGCTTGAGAGTCAACACAT
TTGTGA
Found at i:22327299 original size:24 final size:24
Alignment explanation
Indices: 22327267--22327414 Score: 170
Period size: 24 Copynumber: 5.8 Consensus size: 24
22327257 TGGCATTGTG
* *
22327267 CTAAGTGAAATAAGACCAAGGCAT
1 CTAAGTGAAATAAGTCCATGGCAT
*
22327291 CTAAGTGAAATAAGTCCATGGTAATGT
1 CTAAGTGAAATAAGTCCATGG-CA--T
* *
22327318 GCTAAGTGAAATAAGACCATGGGAT
1 -CTAAGTGAAATAAGTCCATGGCAT
22327343 CTAAGTGAAATAAGTCCATGGCAATGT
1 CTAAGTGAAATAAGTCCATGGC-A--T
22327370 GCTAAGTGAAATAAGTCCATGGCAT
1 -CTAAGTGAAATAAGTCCATGGCAT
*
22327395 CTAACTGAAATAAGTCCATG
1 CTAAGTGAAATAAGTCCATG
22327415 CCATAGTGCT
Statistics
Matches: 108, Mismatches: 8, Indels: 16
0.82 0.06 0.12
Matches are distributed among these distances:
24 58 0.54
25 4 0.04
27 4 0.04
28 42 0.39
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (24 bp):
CTAAGTGAAATAAGTCCATGGCAT
Found at i:22327327 original size:52 final size:52
Alignment explanation
Indices: 22327256--22327430 Score: 271
Period size: 52 Copynumber: 3.4 Consensus size: 52
22327246 TATCTAGGAT
* *
22327256 ATGGCATTGTGCTAAGTGAAATAAGACCAAGGCATCTAAGTGAAATAAGTCC
1 ATGGCAATGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCC
* *
22327308 ATGGTAATGTGCTAAGTGAAATAAGACCATGGGATCTAAGTGAAATAAGTCC
1 ATGGCAATGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCC
* *
22327360 ATGGCAATGTGCTAAGTGAAATAAGTCCATGGCATCTAACTGAAATAAGTCC
1 ATGGCAATGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCC
*
22327412 AT-GCCATAGTGCTAAGTGA
1 ATGGCAAT-GTGCTAAGTGA
22327431 GAAATTTCCC
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
51 4 0.04
52 109 0.96
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (52 bp):
ATGGCAATGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCC
Found at i:22327538 original size:51 final size:51
Alignment explanation
Indices: 22327454--22327652 Score: 299
Period size: 51 Copynumber: 3.9 Consensus size: 51
22327444 TGAACCTTAG
* * *
22327454 GAATAAAATAACTTTAGACACAAATGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* * *
22327505 GAATATAATAGCTTTGGACACAAGTGTGCTACTATATGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
22327556 GACTAAAATAGCTTTGGACACAAGTGTGGTACAATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
** *
22327607 GAATAAAATAGCTTTGGTTACAAGGGTGGTACTATGTGAAGGCCAC
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCAC
22327653 CGTGTATCCG
Statistics
Matches: 132, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 132 1.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.29
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:22345889 original size:25 final size:23
Alignment explanation
Indices: 22345868--22345910 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
22345858 ATGTTAAAGT
22345868 AACAAATGAATTAATTATTT--A
1 AACAAATGAATTAATTATTTAAA
*
22345889 AACGAATGAATTAATTATTTAA
1 AACAAATGAATTAATTATTTAA
22345911 CTTATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (23 bp):
AACAAATGAATTAATTATTTAAA
Found at i:22348640 original size:14 final size:15
Alignment explanation
Indices: 22348607--22348650 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
22348597 TAAGGTCTTG
*
22348607 TTAATTAAGGTTTAA
1 TTAATTAAGTTTTAA
*
22348622 TTAATTAA-TTTTGA
1 TTAATTAAGTTTTAA
22348636 TTAATTAAGTTTTAA
1 TTAATTAAGTTTTAA
22348651 ACTAAGTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (15 bp):
TTAATTAAGTTTTAA
Found at i:22349437 original size:64 final size:67
Alignment explanation
Indices: 22349361--22349494 Score: 175
Period size: 67 Copynumber: 2.0 Consensus size: 67
22349351 TACATGATAC
* * * ** * *
22349361 ATACTTTAACATTTCATGC-AAATATAATATAGAAAATGAT-AA-ATAACGACATGAATTACATA
1 ATACATTAACATTTCATGCAAAATACAACATAGAAAACAATGAATATAACAACATAAATTACATA
22349423 AT
66 AT
*
22349425 ATACATTAACATTTCATGCAAAATACAACATAGAAAACAATGAATATAACAATATAAATTACATA
1 ATACATTAACATTTCATGCAAAATACAACATAGAAAACAATGAATATAACAACATAAATTACATA
22349490 AT
66 AT
22349492 ATA
1 ATA
22349495 TGTACAATAA
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
64 18 0.31
65 17 0.29
66 2 0.03
67 22 0.37
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.29
Consensus pattern (67 bp):
ATACATTAACATTTCATGCAAAATACAACATAGAAAACAATGAATATAACAACATAAATTACATA
AT
Found at i:22349995 original size:15 final size:16
Alignment explanation
Indices: 22349977--22350029 Score: 67
Period size: 15 Copynumber: 3.4 Consensus size: 16
22349967 TTTTAGAATT
22349977 ATAA-ATAATATATAA
1 ATAATATAATATATAA
22349992 ATAATATACA-ATA-AA
1 ATAATATA-ATATATAA
22350007 ATAATATAATATAATAA
1 ATAATATAATAT-ATAA
22350024 ATAATA
1 ATAATA
22350030 CAAAAAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
14 1 0.03
15 16 0.48
16 7 0.21
17 9 0.27
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (16 bp):
ATAATATAATATATAA
Found at i:22350016 original size:31 final size:31
Alignment explanation
Indices: 22349977--22350048 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
22349967 TTTTAGAATT
* *
22349977 ATAA-ATAATAT-ATAAATAATATACAATAAA
1 ATAATATAATATAATAAATAATACA-AAAAAA
22350007 ATAATATAATATAATAAATAATACAAAAAAA
1 ATAATATAATATAATAAATAATACAAAAAAA
*
22350038 ATAATAAAATA
1 ATAATATAATA
22350049 ACTATTTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
30 4 0.11
31 22 0.59
32 11 0.30
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (31 bp):
ATAATATAATATAATAAATAATACAAAAAAA
Found at i:22350049 original size:29 final size:31
Alignment explanation
Indices: 22349983--22350049 Score: 84
Period size: 32 Copynumber: 2.2 Consensus size: 31
22349973 AATTATAAAT
* *
22349983 AATATATAAATAATATACAATAAAATAATATA
1 AATA-ATAAATAATACACAAAAAAATAATATA
22350015 ATATAATAAATAATACA-AAAAAAATAATA-A
1 A-ATAATAAATAATACACAAAAAAATAATATA
22350045 AATAA
1 AATAA
22350050 CTATTTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
29 4 0.12
30 2 0.06
31 11 0.34
32 12 0.38
33 3 0.09
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (31 bp):
AATAATAAATAATACACAAAAAAATAATATA
Found at i:22350109 original size:25 final size:25
Alignment explanation
Indices: 22350081--22350129 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
22350071 AGGTTTAAAG
*
22350081 TAAAATAAATAATATACAAAATATT
1 TAAAATAAATAATATAAAAAATATT
*
22350106 TAAAATAAATTATATAAAAAATAT
1 TAAAATAAATAATATAAAAAATAT
22350130 ATATAAAGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (25 bp):
TAAAATAAATAATATAAAAAATATT
Found at i:22351816 original size:90 final size:90
Alignment explanation
Indices: 22351700--22352382 Score: 1035
Period size: 90 Copynumber: 7.6 Consensus size: 90
22351690 CCATGCTGAA
* * * * *
22351700 ATCTTTGATCTACTCCCTGCCTAATACAGAGACGCCAAATCTGTCATCCTCGATCTGCTTCGATG
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
*
22351765 TAAACACACGAATATCAGATCTGCT
66 TAAACACACGAATGTCAGATCTGCT
* * *
22351790 ATCTTCGATCTGCTCCCCGTTTAATACAGAGACGCCAAATCTATCATCTTTGATCTGCTTCGATG
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
22351855 TAAACACACGAATGTCAGATCTGCT
66 TAAACACACGAATGTCAGATCTGCT
* * *
22351880 ACCTTCGATCTACTCCCCGTCTGATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
* * * *
22351945 TAAACACACGCATATCAGGTCTTCT
66 TAAACACACGAATGTCAGATCTGCT
* * *
22351970 ATCTTCAATCTGCTCCCCGTCTAATACAAAGACGCCAAATCTGTCATCTTCGATCTACTTCGATG
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
* *
22352035 TAAACACACAAATGTCAGATCTACT
66 TAAACACACGAATGTCAGATCTGCT
* *
22352060 ATCTTCGATCTGCTCCCTGTCTAATACAGAGATGCCAAATCTGTCATCTTCGATCTGCTTCGATG
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
22352125 TAAACACACGAATGTCAGATCTGCT
66 TAAACACACGAATGTCAGATCTGCT
* *
22352150 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACACCAAATCTGTCATCTTTGATCTGCTTCGATG
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
*
22352215 TAAACACACGAATGTTAGATCTGCT
66 TAAACACACGAATGTCAGATCTGCT
* * * *
22352240 ATCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAAATCTATCATCTTCGATCTGCTTCGATA
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
* * *
22352305 TAAACATATGAATGTCAGATCTACT
66 TAAACACACGAATGTCAGATCTGCT
* * *
22352330 ATCTTCGATCTGCTGCCCGTCTAATACAGAGATGCCAAATCTG-CTTCTTCGAT
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGAT
22352383 TTGTTCCCCG
Statistics
Matches: 537, Mismatches: 56, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
89 9 0.02
90 528 0.98
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.31
Consensus pattern (90 bp):
ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTTCGATG
TAAACACACGAATGTCAGATCTGCT
Found at i:22352408 original size:43 final size:44
Alignment explanation
Indices: 22351783--22352414 Score: 283
Period size: 45 Copynumber: 14.1 Consensus size: 44
22351773 CGAATATCAG
* *
22351783 ATCTGCTATCTTCGATCTGCTCCCCGTTTAATACAGAGACGCCAA
1 ATCTGCT-TCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * * * * * * *
22351828 ATCTATCATCTTTGATCTGCT--TCGATGTAA-ACACACGAATGTCAG
1 ATCT-GCTTCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ATGCCAA
* * * *
22351873 ATCTGCTACCTTCGATCTACTCCCCGTCTGATACAGAGACGCCAA
1 ATCTGCT-TCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * * * ** *
22351918 ATCTGTCATCTTCGATCTGCT--TCGATGTAA-ACACACGCATATCAG
1 ATCTG-CTTCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ATGCCAA
* * * * *
22351963 GTCTTCTATCTTCAATCTGCTCCCCGTCTAATACAAAGACGCCAA
1 ATCTGCT-TCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * * * * * * * *
22352008 ATCTGTCATCTTCGATCTACT--TCGATGTAAACACACAAATGTCAG
1 ATCTG-CTTCTTCGATCTGCTCCCCG-TCT-AATACAGAGATGCCAA
* *
22352053 ATCTACTATCTTCGATCTGCTCCCTGTCTAATACAGAGATGCCAA
1 ATCTGCT-TCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * * * * *
22352098 ATCTGTCATCTTCGATCTGCT--TCGATGTAA-ACACACGAATGTCAG
1 ATCTG-CTTCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ATGCCAA
**
22352143 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACACCAA
1 ATCTGCT-TCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * * * * ** *
22352188 ATCTGTCATCTTTGATCTGCT--TCGATGTAA-ACACACGAATGTTAG
1 ATCTG-CTTCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ATGCCAA
*
22352233 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATATAGAGATGCCAA
1 ATCTGCT-TCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * * * * * *
22352278 ATCTATCATCTTCGATCTGCT--TCGATATAA-ACATATGAATGTCAG
1 ATCT-GCTTCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ATGCCAA
* *
22352323 ATCTACTATCTTCGATCTGCTGCCCGTCTAATACAGAGATGCCAA
1 ATCTGCT-TCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* *
22352368 ATCTGCTTCTTCGATTTGTTCCCCGTC-AATACAGAGATGCCAA
1 ATCTGCTTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
22352411 ATCT
1 ATCT
22352415 ACTATCAATG
Statistics
Matches: 420, Mismatches: 121, Indels: 94
0.66 0.19 0.15
Matches are distributed among these distances:
43 50 0.12
44 49 0.12
45 259 0.62
46 32 0.08
47 30 0.07
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.31
Consensus pattern (44 bp):
ATCTGCTTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
Found at i:22363881 original size:64 final size:67
Alignment explanation
Indices: 22363810--22363937 Score: 181
Period size: 67 Copynumber: 2.0 Consensus size: 67
22363800 GATACATACT
* * ** *
22363810 TTAACATTTCATGC-AAATATAATATAGAAAATGAT-AA-ATAACAACATGAATTACATAATATT
1 TTAACATTTCATGCAAAATACAACATAGAAAACAATGAATATAACAACATAAATTACATAATATT
22363872 CC
66 CC
*
22363874 TTAACATTTCATGCAAAATACAACATAGAAAACAATGAATATAACAATATAAATTACATAATAT
1 TTAACATTTCATGCAAAATACAACATAGAAAACAATGAATATAACAACATAAATTACATAATAT
22363938 ATGTACAATA
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
64 14 0.25
65 17 0.31
66 2 0.04
67 22 0.40
ACGTcount: A:0.52, C:0.12, G:0.05, T:0.30
Consensus pattern (67 bp):
TTAACATTTCATGCAAAATACAACATAGAAAACAATGAATATAACAACATAAATTACATAATATT
CC
Found at i:22364023 original size:18 final size:18
Alignment explanation
Indices: 22364009--22364042 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22363999 TGCAATATAT
22364009 ATAA-AAAAATAAATAAC
1 ATAAGAAAAATAAATAAC
*
22364026 ATAAGAATAATAAATAA
1 ATAAGAAAAATAAATAA
22364043 TTTATGAGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (18 bp):
ATAAGAAAAATAAATAAC
Found at i:22364438 original size:12 final size:12
Alignment explanation
Indices: 22364421--22364490 Score: 65
Period size: 12 Copynumber: 6.0 Consensus size: 12
22364411 AAAATTATAC
22364421 ATAATATAATAA
1 ATAATATAATAA
*
22364433 ATAATAT-A-CA
1 ATAATATAATAA
*
22364443 ATAAAAT-ATAA
1 ATAATATAATAA
22364454 ATAATATAATAA
1 ATAATATAATAA
* *
22364466 ATAATACAAAAAA
1 ATAATA-TAATAA
*
22364479 ATAATAAAATAA
1 ATAATATAATAA
22364491 CTATTTTTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
10 8 0.17
11 8 0.17
12 22 0.46
13 10 0.21
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (12 bp):
ATAATATAATAA
Found at i:22364440 original size:21 final size:20
Alignment explanation
Indices: 22364416--22364471 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
22364406 ATTTTAAAAT
22364416 TATACATAATATAATAAATAA
1 TATACATAA-ATAATAAATAA
22364437 TATACAATAAA-ATATAAATAA
1 TATAC-ATAAATA-ATAAATAA
22364458 TATA-ATAAATAATA
1 TATACATAAATAATA
22364472 CAAAAAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
19 8 0.25
20 2 0.06
21 18 0.56
22 4 0.12
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (20 bp):
TATACATAAATAATAAATAA
Found at i:22364490 original size:33 final size:33
Alignment explanation
Indices: 22364411--22364486 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 33
22364401 TACAAATTTT
* *
22364411 AAAATTATACATAATATAATAAATAATATACAA
1 AAAAATATAAATAATATAATAAATAATATACAA
*
22364444 TAAAATATAAATAATATAATAAAT-A-ATACAA
1 AAAAATATAAATAATATAATAAATAATATACAA
22364475 AAAAATAATAAA
1 AAAAAT-ATAAA
22364487 ATAACTATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
31 11 0.29
32 6 0.16
33 21 0.55
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (33 bp):
AAAAATATAAATAATATAATAAATAATATACAA
Found at i:22364558 original size:13 final size:13
Alignment explanation
Indices: 22364522--22364575 Score: 53
Period size: 12 Copynumber: 4.4 Consensus size: 13
22364512 AGGTTTAAAG
22364522 TAAAATAAATA-A
1 TAAAATAAATATA
* *
22364534 TATACA-AAATATT
1 TA-AAATAAATATA
22364547 TAAAATAAATATA
1 TAAAATAAATATA
22364560 T-AAA-AAATATA
1 TAAAATAAATATA
22364571 TAAAA
1 TAAAA
22364576 GGATTAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
11 8 0.24
12 15 0.44
13 11 0.32
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.30
Consensus pattern (13 bp):
TAAAATAAATATA
Found at i:22364566 original size:24 final size:25
Alignment explanation
Indices: 22364522--22364575 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 25
22364512 AGGTTTAAAG
* *
22364522 TAAAATAAATAATATACAAAATATT
1 TAAAATAAATAATATAAAAAATATA
22364547 TAAAATAAAT-ATATAAAAAATATA
1 TAAAATAAATAATATAAAAAATATA
22364571 TAAAA
1 TAAAA
22364576 GGATTAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 17 0.63
25 10 0.37
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.30
Consensus pattern (25 bp):
TAAAATAAATAATATAAAAAATATA
Found at i:22364569 original size:11 final size:11
Alignment explanation
Indices: 22364528--22364575 Score: 51
Period size: 11 Copynumber: 4.1 Consensus size: 11
22364518 AAAGTAAAAT
*
22364528 AAATAATATACA
1 AAAT-ATATAAA
*
22364540 AAATATTTAAAA
1 AAATATAT-AAA
22364552 TAAATATATAAA
1 -AAATATATAAA
22364564 AAATATATAAA
1 AAATATATAAA
22364575 A
1 A
22364576 GGATTAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
11 15 0.48
12 9 0.29
13 7 0.23
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (11 bp):
AAATATATAAA
Found at i:22364858 original size:72 final size:72
Alignment explanation
Indices: 22364776--22364920 Score: 290
Period size: 72 Copynumber: 2.0 Consensus size: 72
22364766 CAAGGCCAAA
22364776 TTTAAATAAAATAAAATTTGAATTGAACGAAATTATAAATGCTAAAAATGTGAAAGGACTAAAGG
1 TTTAAATAAAATAAAATTTGAATTGAACGAAATTATAAATGCTAAAAATGTGAAAGGACTAAAGG
22364841 GAAAATT
66 GAAAATT
22364848 TTTAAATAAAATAAAATTTGAATTGAACGAAATTATAAATGCTAAAAATGTGAAAGGACTAAAGG
1 TTTAAATAAAATAAAATTTGAATTGAACGAAATTATAAATGCTAAAAATGTGAAAGGACTAAAGG
22364913 GAAAATT
66 GAAAATT
22364920 T
1 T
22364921 CCCTTTTCTA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.52, C:0.04, G:0.15, T:0.28
Consensus pattern (72 bp):
TTTAAATAAAATAAAATTTGAATTGAACGAAATTATAAATGCTAAAAATGTGAAAGGACTAAAGG
GAAAATT
Found at i:22366991 original size:20 final size:20
Alignment explanation
Indices: 22366966--22367005 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
22366956 TGACCTCCTT
22366966 ATTGACCACCAATCATACCA
1 ATTGACCACCAATCATACCA
22366986 ATTGACCACCAATCATACCA
1 ATTGACCACCAATCATACCA
22367006 CACCATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.35, G:0.05, T:0.20
Consensus pattern (20 bp):
ATTGACCACCAATCATACCA
Found at i:22374288 original size:17 final size:17
Alignment explanation
Indices: 22374266--22374300 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
22374256 CGGGATATGT
22374266 GTAAAAGATGATG-TGGA
1 GTAAAAGAT-ATGATGGA
22374283 GTAAAAGATATGATGGA
1 GTAAAAGATATGATGGA
22374300 G
1 G
22374301 ATATCACTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.18
17 14 0.82
ACGTcount: A:0.43, C:0.00, G:0.34, T:0.23
Consensus pattern (17 bp):
GTAAAAGATATGATGGA
Found at i:22374476 original size:69 final size:69
Alignment explanation
Indices: 22374364--22374512 Score: 194
Period size: 69 Copynumber: 2.2 Consensus size: 69
22374354 CTCTATGGAG
* * * *
22374364 ACCTTGGTGTGGTGGAGGGATGATATGTTATCTGATACGATATTGTGCCTATC-ATCTTTGCACT
1 ACCTTGGTGTGATGGAGGGATGATATGTTATATGATACGATATTGTGCC-AACGAGCTTTGCACT
*
22374428 ACGGT
65 ACAGT
*
22374433 ACCTTGGTGTGATGGAGGGATGATTTGTTATATGATATC-ATATTGTGCCAACGAGCTTTGCACT
1 ACCTTGGTGTGATGGAGGGATGATATGTTATATGATA-CGATATTGTGCCAACGAGCTTTGCACT
*
22374497 ATAGT
65 ACAGT
*
22374502 GCCTTGGTGTG
1 ACCTTGGTGTG
22374513 GTGTAGTTAT
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
68 2 0.03
69 67 0.96
70 1 0.01
ACGTcount: A:0.21, C:0.15, G:0.28, T:0.36
Consensus pattern (69 bp):
ACCTTGGTGTGATGGAGGGATGATATGTTATATGATACGATATTGTGCCAACGAGCTTTGCACTA
CAGT
Found at i:22382908 original size:39 final size:40
Alignment explanation
Indices: 22382765--22382946 Score: 244
Period size: 40 Copynumber: 4.6 Consensus size: 40
22382755 AGCTCAAAGT
* *
22382765 CTGCGGAACTTTAACCCCGGATATA-A-TACCAGCACTAAGC
1 CTGCGGGA-TTTAA-CCCGGATATACATTACCAGCACGAAGC
*
22382805 CTGCAGGATTTAACCCGGATATACATTACCAGCACGAAGC
1 CTGCGGGATTTAACCCGGATATACATTACCAGCACGAAGC
* *
22382845 CTGCGGGATTTGACCCAGATATACATTACCAGCACGAAGC
1 CTGCGGGATTTAACCCGGATATACATTACCAGCACGAAGC
* * *
22382885 TTGCGGGA-TTGACCCGGATATACATTACCAGCACAAAGC
1 CTGCGGGATTTAACCCGGATATACATTACCAGCACGAAGC
*
22382924 CTACGGGATTTAACCCGGATATA
1 CTGCGGGATTTAACCCGGATATA
22382947 TATAATATAT
Statistics
Matches: 127, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
38 10 0.08
39 41 0.32
40 76 0.60
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (40 bp):
CTGCGGGATTTAACCCGGATATACATTACCAGCACGAAGC
Found at i:22382915 original size:79 final size:78
Alignment explanation
Indices: 22382774--22382946 Score: 231
Period size: 79 Copynumber: 2.2 Consensus size: 78
22382764 TCTGCGGAAC
* *
22382774 TTTAACCCCGGATATAATACCAGCACTAAGCCTGCAGGATTTAACCCGGATATACATTACCAGCA
1 TTTAA-CCCAGATATAATACCAGCACGAAGCCTGCAGGATTTAACCCGGATATACATTACCAGCA
* *
22382839 CGAAGCCTGCGGGA
65 CAAAGCCTACGGGA
* * * *
22382853 TTTGACCCAGATATACATTACCAGCACGAAGCTTGCGGGA-TTGACCCGGATATACATTACCAGC
1 TTTAACCCAGATATA-A-TACCAGCACGAAGCCTGCAGGATTTAACCCGGATATACATTACCAGC
22382917 ACAAAGCCTACGGGA
64 ACAAAGCCTACGGGA
*
22382932 TTTAACCCGGATATA
1 TTTAACCCAGATATA
22382947 TATAATATAT
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
78 9 0.11
79 54 0.66
80 19 0.23
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (78 bp):
TTTAACCCAGATATAATACCAGCACGAAGCCTGCAGGATTTAACCCGGATATACATTACCAGCAC
AAAGCCTACGGGA
Found at i:22387599 original size:32 final size:32
Alignment explanation
Indices: 22387537--22387600 Score: 78
Period size: 31 Copynumber: 2.0 Consensus size: 32
22387527 TAGGCTACAA
* *
22387537 ATAATATTTATTAAAAATATTTAAATTTATAT
1 ATAATATTTATCAAAAATATTAAAATTTATAT
22387569 ATAAT-TTTATCAAAAA-ATTAAAAATATTATAT
1 ATAATATTTATCAAAAATATT-AAAAT-TTATAT
22387601 TAAAAATATG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 3 0.11
31 14 0.50
32 11 0.39
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (32 bp):
ATAATATTTATCAAAAATATTAAAATTTATAT
Found at i:22387604 original size:14 final size:15
Alignment explanation
Indices: 22387585--22387615 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
22387575 TTATCAAAAA
22387585 ATTAAAAATAT-TAT
1 ATTAAAAATATGTAT
22387599 ATTAAAAATATGTAT
1 ATTAAAAATATGTAT
22387614 AT
1 AT
22387616 GCAAAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (15 bp):
ATTAAAAATATGTAT
Found at i:22389626 original size:17 final size:18
Alignment explanation
Indices: 22389606--22389639 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
22389596 TTGAAAATAA
22389606 ATAAACAAATAA-AAATC
1 ATAAACAAATAACAAATC
*
22389623 ATAAATAAATAACAAAT
1 ATAAACAAATAACAAAT
22389640 AGAAATTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.71, C:0.09, G:0.00, T:0.21
Consensus pattern (18 bp):
ATAAACAAATAACAAATC
Found at i:22389665 original size:21 final size:22
Alignment explanation
Indices: 22389600--22389659 Score: 59
Period size: 24 Copynumber: 2.6 Consensus size: 22
22389590 AACAATTTGA
* *
22389600 AAATAAATAAACAAATAAAAATCAT
1 AAATAAA-GAACAAATAGAAAT--T
*
22389625 AAATAAATAACAAATAGAAATT
1 AAATAAAGAACAAATAGAAATT
22389647 AAA-AAAGAACAAA
1 AAATAAAGAACAAA
22389660 GTGAAAGATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 9 0.28
22 4 0.12
24 12 0.38
25 7 0.22
ACGTcount: A:0.73, C:0.07, G:0.03, T:0.17
Consensus pattern (22 bp):
AAATAAAGAACAAATAGAAATT
Found at i:22398665 original size:17 final size:17
Alignment explanation
Indices: 22398645--22398678 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
22398635 ATAAAAAAAC
22398645 AAATAA-AAATCATAAAT
1 AAATAATAAAT-ATAAAT
22398662 AAATAATAAATATAAAT
1 AAATAATAAATATAAAT
22398679 TAAAAAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
AAATAATAAATATAAAT
Found at i:22409326 original size:42 final size:43
Alignment explanation
Indices: 22409213--22409369 Score: 124
Period size: 43 Copynumber: 3.7 Consensus size: 43
22409203 TGTGTTCTCG
* * * **
22409213 TGTAAGACCACGTCTGGGA-TGTTGGCATCGACT-TATGATTTATG
1 TGTAAGACCATGTCTGGGACAG-TGGCATCGA-TATTTGA-TTACA
* * * ***
22409257 TGTAATACCATGTCTAGAACA-TCGGCATC-ATATTTGATTTTT
1 TGTAAGACCATGTCTGGGACAGT-GGCATCGATATTTGATTACA
* *
22409299 TGTAAGACCCTGTCTGGGATAGTGGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTGGGACAGTGGCATCGATATTTGATTACA
*
22409342 TGTAAGACCATGTCTGGGACATTGGCAT
1 TGTAAGACCATGTCTGGGACAGTGGCAT
22409370 TGTACGAGCT
Statistics
Matches: 89, Mismatches: 19, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
42 26 0.29
43 42 0.47
44 21 0.24
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACAGTGGCATCGATATTTGATTACA
Found at i:22414203 original size:55 final size:55
Alignment explanation
Indices: 22414085--22414222 Score: 159
Period size: 55 Copynumber: 2.5 Consensus size: 55
22414075 GACATGGTCG
* * * * *
22414085 TGGGCGAACCTGCCAAAACAACACGAGCGTGCGACACGCCTGTGCATTGAAACCA
1 TGGGCGAACCTGCCAAAACAACATGGGCATGCGACACGCCCGTGCATAGAAACCA
* * ** * * * *
22414140 TGGCCGAACCTGTCAAATTAACATGGGCATGTGACACGCCCGTGCCTAGCAACCT
1 TGGGCGAACCTGCCAAAACAACATGGGCATGCGACACGCCCGTGCATAGAAACCA
22414195 TGGGCGAACCTGCCAAAACAACATGGGC
1 TGGGCGAACCTGCCAAAACAACATGGGC
22414223 GTAGACCTTC
Statistics
Matches: 66, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
55 66 1.00
ACGTcount: A:0.29, C:0.30, G:0.25, T:0.15
Consensus pattern (55 bp):
TGGGCGAACCTGCCAAAACAACATGGGCATGCGACACGCCCGTGCATAGAAACCA
Found at i:22419751 original size:13 final size:13
Alignment explanation
Indices: 22419735--22419768 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
22419725 TATTTTTTGG
22419735 CATGATTTTGGCT
1 CATGATTTTGGCT
22419748 CATGATTTTGGCT
1 CATGATTTTGGCT
22419761 CATGATTT
1 CATGATTT
22419769 GATCTGATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.18, C:0.15, G:0.21, T:0.47
Consensus pattern (13 bp):
CATGATTTTGGCT
Found at i:22433532 original size:41 final size:42
Alignment explanation
Indices: 22433448--22433551 Score: 104
Period size: 42 Copynumber: 2.5 Consensus size: 42
22433438 ACGACCTACC
* * * * * *
22433448 ACACGGCCTGGCATACAGGCGTGTGTGGCAACTTAGAGTGTT
1 ACACGGCCTGGCACACGGGCATGTGTGGCAAATCAGAGAGTT
*
22433490 ACACGGCCTGGCACACGGGCATGTG-GGCAAATCAGTGAGTT
1 ACACGGCCTGGCACACGGGCATGTGTGGCAAATCAGAGAGTT
* *
22433531 ACATGGGTCTGG-ACACGGGCA
1 ACA-CGGCCTGGCACACGGGCA
22433552 GGGACTGATC
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
41 24 0.46
42 28 0.54
ACGTcount: A:0.23, C:0.23, G:0.35, T:0.19
Consensus pattern (42 bp):
ACACGGCCTGGCACACGGGCATGTGTGGCAAATCAGAGAGTT
Found at i:22440017 original size:43 final size:43
Alignment explanation
Indices: 22439956--22440042 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
22439946 TTCAACGGGT
*
22439956 AAGAAAAAGAAGTGTAATGGTAAGTATGCAAATGGAATGAATC
1 AAGAAAAAGAACTGTAATGGTAAGTATGCAAATGGAATGAATC
22439999 AAGAAAAAGAACTGTAATGGTAAGTATGCAAATGGAATGAATC
1 AAGAAAAAGAACTGTAATGGTAAGTATGCAAATGGAATGAATC
22440042 A
1 A
22440043 TTATCTTATG
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:0.49, C:0.06, G:0.24, T:0.21
Consensus pattern (43 bp):
AAGAAAAAGAACTGTAATGGTAAGTATGCAAATGGAATGAATC
Found at i:22442568 original size:61 final size:61
Alignment explanation
Indices: 22442473--22442589 Score: 207
Period size: 61 Copynumber: 1.9 Consensus size: 61
22442463 CCTACAACTA
22442473 AAAGACAAAAAGAAGAGGAACCCGCAGAAGAAGAAAAGACTAAATCAGTCAGTATTTAGTG
1 AAAGACAAAAAGAAGAGGAACCCGCAGAAGAAGAAAAGACTAAATCAGTCAGTATTTAGTG
* * *
22442534 AAAGACAAGAAGCAGAGGAACCTGCAGAAGAAGAAAAGACTAAATCAGTCAGTATT
1 AAAGACAAAAAGAAGAGGAACCCGCAGAAGAAGAAAAGACTAAATCAGTCAGTATT
22442590 GAGACTAATA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 53 1.00
ACGTcount: A:0.50, C:0.14, G:0.23, T:0.13
Consensus pattern (61 bp):
AAAGACAAAAAGAAGAGGAACCCGCAGAAGAAGAAAAGACTAAATCAGTCAGTATTTAGTG
Found at i:22444394 original size:49 final size:49
Alignment explanation
Indices: 22444318--22444440 Score: 140
Period size: 49 Copynumber: 2.5 Consensus size: 49
22444308 TGCCAATGTA
*
22444318 ATGTCTCAGACATGGTCTTACACTGGCTTTCATATAATAAG-GCCGATGCC
1 ATGTCCCAGACA-GGTCTTACACTGGCTTTCATATAAT-AGTGCCGATGCC
* * * * * *
22444368 ATGTCCCAGATAGGTCTTACATTGGCTTTCATCTACTGGTGTCGATGCC
1 ATGTCCCAGACAGGTCTTACACTGGCTTTCATATAATAGTGCCGATGCC
* *
22444417 ATGTCCTAGACAGGTCTTGCACTG
1 ATGTCCCAGACAGGTCTTACACTG
22444441 ACACACAACA
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
48 1 0.02
49 50 0.82
50 10 0.16
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (49 bp):
ATGTCCCAGACAGGTCTTACACTGGCTTTCATATAATAGTGCCGATGCC
Found at i:22444534 original size:48 final size:47
Alignment explanation
Indices: 22444460--22444674 Score: 222
Period size: 46 Copynumber: 4.6 Consensus size: 47
22444450 AAGCTGACGC
* * *
22444460 CATGTCCCAGACAGGTCTTACTCTAGCTTGTCTATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGC-TCTCTATCTCGAGGCCGATG
* * **
22444508 CATGTCCCAAACATGTCTTACACTAGCTCTC-ATCTCAACACCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCTATCTCGAGGCCGATG
* * * *
22444554 CATGTCCTAGACATGTCTTACACTGGCT-TAAATATCTCGAGGCCAATG
1 CATGTCCCAGACATGTCTTACACTAGCTCT--CTATCTCGAGGCCGATG
* * *
22444602 CATGTCCCAGACATGTCTCACACTAGCTCTCATAT-T-GTGGCCGATT
1 CATGTCCCAGACATGTCTTACACTAGCTCTC-TATCTCGAGGCCGATG
* *
22444648 CATGTCTCGGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
22444675 ACACATATCT
Statistics
Matches: 137, Mismatches: 25, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
45 1 0.01
46 68 0.50
47 4 0.03
48 63 0.46
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.29
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCTATCTCGAGGCCGATG
Done.