Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 132 of 199
Found at i:38408064 original size:12 final size:10
Alignment explanation
Indices: 38408035--38408074 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
38408025 ATTGACATGT
38408035 TTAATTTTAA
1 TTAATTTTAA
38408045 TTAATTTTATA
1 TTAATTTTA-A
*
38408056 TTAAATTTTGA
1 TT-AATTTTAA
38408067 TTAATTTT
1 TTAATTTT
38408075 GATCTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
10 15 0.56
11 6 0.22
12 6 0.22
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (10 bp):
TTAATTTTAA
Found at i:38408979 original size:17 final size:17
Alignment explanation
Indices: 38408933--38408979 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
38408923 TTTAATTTAA
*
38408933 TTAATATG-GCTTAAAT
1 TTAATATGTGTTTAAAT
*
38408949 TTAATTTGTGTTTAAAT
1 TTAATATGTGTTTAAAT
*
38408966 TTAATATGTTTTTA
1 TTAATATGTGTTTA
38408980 TGAATCATGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
16 7 0.27
17 19 0.73
ACGTcount: A:0.32, C:0.02, G:0.11, T:0.55
Consensus pattern (17 bp):
TTAATATGTGTTTAAAT
Found at i:38411195 original size:47 final size:47
Alignment explanation
Indices: 38411144--38411319 Score: 300
Period size: 47 Copynumber: 3.7 Consensus size: 47
38411134 TTAGGATTCT
* * *
38411144 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
38411191 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
38411238 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
38411285 ATGTGATGAATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
38411320 TCCCGAAGGG
Statistics
Matches: 124, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
46 1 0.01
47 123 0.99
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:38411219 original size:25 final size:25
Alignment explanation
Indices: 38411191--38411269 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
38411181 CTAATGGCCG
38411191 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
38411216 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
38411238 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
38411263 ATGTGAT
1 ATGTGAT
38411270 AAGGCCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:38412977 original size:40 final size:40
Alignment explanation
Indices: 38412694--38412965 Score: 418
Period size: 40 Copynumber: 6.8 Consensus size: 40
38412684 GAGAATTGAG
38412694 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
38412734 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
*
38412774 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATCCGTGCT
1 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
* *
38412814 AGTGATGTATCCGGACTAAGTTTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
38412854 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
* * ***
38412894 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
* * * * * *
38412934 GGTGTTATATCCGGGCTAGGTCCCAAAGAGCA
1 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCA
38412966 ATCATGCTGG
Statistics
Matches: 214, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 214 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
Found at i:38415908 original size:47 final size:47
Alignment explanation
Indices: 38415857--38416173 Score: 564
Period size: 47 Copynumber: 6.7 Consensus size: 47
38415847 TTAGGATTCT
* * *
38415857 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
38415904 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
38415951 ATATGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
38415998 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
38416045 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
38416092 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
38416139 ATGTGATGAATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
38416174 TCCCGAAGGG
Statistics
Matches: 261, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
46 1 0.00
47 260 1.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:38419762 original size:28 final size:30
Alignment explanation
Indices: 38419721--38419777 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 30
38419711 GAATTATTTG
38419721 TAAAATTTAGTTGT-TCTTTTTGTAAATAC
1 TAAAATTTAGTTGTCTCTTTTTGTAAATAC
38419750 TAAAA-TTAGTTGTCTCTTTTTGTAAATA
1 TAAAATTTAGTTGTCTCTTTTTGTAAATA
38419778 TTTTTTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 8 0.30
29 19 0.70
ACGTcount: A:0.32, C:0.07, G:0.11, T:0.51
Consensus pattern (30 bp):
TAAAATTTAGTTGTCTCTTTTTGTAAATAC
Found at i:38431357 original size:18 final size:17
Alignment explanation
Indices: 38431334--38431400 Score: 57
Period size: 17 Copynumber: 3.8 Consensus size: 17
38431324 ATTTTATATT
38431334 TAAAATAATTAAAAATTA
1 TAAAAT-ATTAAAAATTA
*
38431352 TAAAATA-TAGAAAATCA
1 TAAAATATTA-AAAATTA
38431369 TAAAACTATATAAAAATTA
1 TAAAA-TAT-TAAAAATTA
* *
38431388 -AAATTTTTAAAAA
1 TAAAATATTAAAAA
38431401 ATATTGAAGT
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
16 8 0.20
17 14 0.34
18 11 0.27
19 6 0.15
20 2 0.05
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.31
Consensus pattern (17 bp):
TAAAATATTAAAAATTA
Found at i:38431510 original size:20 final size:20
Alignment explanation
Indices: 38431458--38431515 Score: 66
Period size: 22 Copynumber: 2.9 Consensus size: 20
38431448 ATTATAACTG
*
38431458 AAAAAATA-TATAAATTGTA
1 AAAAAATATTAAAAATTGTA
38431477 AAAAAATAATTTAAAAATTG-A
1 AAAAAAT-A-TTAAAAATTGTA
38431498 AAGAAAATATTAAAAATT
1 AA-AAAATATTAAAAATT
38431516 TTATATTATA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
19 7 0.21
20 10 0.29
21 4 0.12
22 13 0.38
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (20 bp):
AAAAAATATTAAAAATTGTA
Found at i:38434235 original size:22 final size:23
Alignment explanation
Indices: 38434210--38434269 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
38434200 TGGACTGAAT
38434210 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
38434232 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
38434254 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
38434270 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:38434237 original size:4 final size:4
Alignment explanation
Indices: 38434219--38434252 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
38434209 TATAAAAATT
38434219 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
38434253 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:38435656 original size:23 final size:22
Alignment explanation
Indices: 38435605--38435656 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
38435595 CCTCGTCTTT
*
38435605 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
38435627 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
38435650 TTCTTTT
1 TTCTTTT
38435657 TCAAATTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:38435671 original size:18 final size:18
Alignment explanation
Indices: 38435650--38435688 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
38435640 TTTCTTCAAC
* *
38435650 TTCTTTTTCAAATTTCTT
1 TTCTGTTTCAAATTCCTT
*
38435668 TTCTGTTTCACATTCCTT
1 TTCTGTTTCAAATTCCTT
38435686 TTC
1 TTC
38435689 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.03, T:0.62
Consensus pattern (18 bp):
TTCTGTTTCAAATTCCTT
Found at i:38438043 original size:22 final size:23
Alignment explanation
Indices: 38438018--38438077 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
38438008 TGGACTGAAT
38438018 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
38438040 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
38438062 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
38438078 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:38438045 original size:4 final size:4
Alignment explanation
Indices: 38438027--38438060 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
38438017 TATAAAAATT
38438027 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
38438061 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:38440172 original size:20 final size:20
Alignment explanation
Indices: 38440149--38440200 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 20
38440139 TGTATGATAT
*
38440149 CAAAATTTTTAATGC-GGTAC
1 CAAAATTTTTAAT-CAAGTAC
**
38440169 C-AAATTCCTAATCAAGTAC
1 CAAAATTTTTAATCAAGTAC
38440188 CAAAATTTTTAAT
1 CAAAATTTTTAAT
38440201 AAAATTTCTC
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
18 1 0.04
19 14 0.56
20 10 0.40
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.35
Consensus pattern (20 bp):
CAAAATTTTTAATCAAGTAC
Found at i:38440659 original size:19 final size:19
Alignment explanation
Indices: 38440618--38440681 Score: 62
Period size: 19 Copynumber: 3.3 Consensus size: 19
38440608 TTTAGTCATA
*
38440618 TAATA-AATTATTAATATAAT
1 TAATATAATTATT--TATATT
38440638 TAATATAATT-TATTATATT
1 TAATATAATTAT-TTATATT
38440657 TAATA-AATTATTTAATATT
1 TAATATAATTATTT-ATATT
38440676 TAATAT
1 TAATAT
38440682 TTAAATTTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
18 6 0.16
19 21 0.55
20 6 0.16
21 5 0.13
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATATAATTATTTATATT
Found at i:38441987 original size:12 final size:12
Alignment explanation
Indices: 38441958--38441990 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
38441948 AATACTAATA
*
38441958 AATTAATAAAAT
1 AATTATTAAAAT
38441970 -ATTATTAAAAT
1 AATTATTAAAAT
38441981 AATTATTAAA
1 AATTATTAAA
38441991 TTAAAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
AATTATTAAAAT
Found at i:38464546 original size:15 final size:15
Alignment explanation
Indices: 38464521--38464556 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
38464511 TTAATATATG
38464521 TTTTA-TTTTATTTA
1 TTTTATTTTTATTTA
38464535 TTTTATTTTTATTTA
1 TTTTATTTTTATTTA
38464550 TTTTATT
1 TTTTATT
38464557 AATACAACAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTATTTTTATTTA
Found at i:38469756 original size:50 final size:50
Alignment explanation
Indices: 38469632--38469880 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
38469622 GATAATAACA
* * ** * *
38469632 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
38469683 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
38469733 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
38469783 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
38469838 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
38469881 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:38469810 original size:100 final size:104
Alignment explanation
Indices: 38469631--38469880 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
38469621 TGATAATAAC
**
38469631 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
38469696 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
38469733 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
38469796 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
38469838 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
38469881 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:38469996 original size:13 final size:13
Alignment explanation
Indices: 38469975--38470006 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
38469965 GCTTGGATCA
*
38469975 TCATCAAATAAAT
1 TCATAAAATAAAT
38469988 TCATAAAATAAAT
1 TCATAAAATAAAT
38470001 TCATAA
1 TCATAA
38470007 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:38470121 original size:66 final size:66
Alignment explanation
Indices: 38470039--38470170 Score: 264
Period size: 66 Copynumber: 2.0 Consensus size: 66
38470029 ATAATAAATA
38470039 TTGAAATATTGCATTTATTTACCGTAAACTTACCTCGGTACCAATTATAGCCAAATTCACCAACT
1 TTGAAATATTGCATTTATTTACCGTAAACTTACCTCGGTACCAATTATAGCCAAATTCACCAACT
38470104 T
66 T
38470105 TTGAAATATTGCATTTATTTACCGTAAACTTACCTCGGTACCAATTATAGCCAAATTCACCAACT
1 TTGAAATATTGCATTTATTTACCGTAAACTTACCTCGGTACCAATTATAGCCAAATTCACCAACT
38470170 T
66 T
38470171 AGTCTTCAAC
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.33, C:0.23, G:0.09, T:0.35
Consensus pattern (66 bp):
TTGAAATATTGCATTTATTTACCGTAAACTTACCTCGGTACCAATTATAGCCAAATTCACCAACT
T
Found at i:38470320 original size:30 final size:30
Alignment explanation
Indices: 38470284--38470341 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
38470274 CCTCGACTCT
*
38470284 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
38470314 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
38470342 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:38470842 original size:12 final size:13
Alignment explanation
Indices: 38470820--38470848 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
38470810 AATTTCCCTT
38470820 TTTCTTTTCTTTC
1 TTTCTTTTCTTTC
38470833 TTTC-TTTCTTTC
1 TTTCTTTTCTTTC
38470845 TTTC
1 TTTC
38470849 CTTCCTTCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTCTTTTCTTTC
Found at i:38470914 original size:15 final size:15
Alignment explanation
Indices: 38470886--38470927 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
38470876 GTTTTGTCTC
* *
38470886 TTCTATTCTGTTTCTT
1 TTCT-TTCTTTTTCTA
38470902 TTCTTTCTTTTTCTA
1 TTCTTTCTTTTTCTA
38470917 TTCTTTCTTTT
1 TTCTTTCTTTT
38470928 GTTTTATGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 20 0.83
16 4 0.17
ACGTcount: A:0.05, C:0.19, G:0.02, T:0.74
Consensus pattern (15 bp):
TTCTTTCTTTTTCTA
Found at i:38470972 original size:24 final size:25
Alignment explanation
Indices: 38470936--38471015 Score: 83
Period size: 27 Copynumber: 3.1 Consensus size: 25
38470926 TTGTTTTATG
38470936 TATATATATATAATATAATATAATAA
1 TATATATA-ATAATATAATATAATAA
38470962 TATATTAATAATAATATAATATAA-AA
1 TATA-T-ATAATAATATAATATAATAA
* * *
38470988 CATA-ATCATTACTATAATATAATAA
1 TATATAT-AATAATATAATATAATAA
38471013 TAT
1 TAT
38471016 TTTTTAACAC
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
23 2 0.04
24 13 0.28
25 4 0.09
26 9 0.20
27 15 0.33
28 3 0.07
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (25 bp):
TATATATAATAATATAATATAATAA
Found at i:38470975 original size:22 final size:22
Alignment explanation
Indices: 38470939--38470982 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
38470929 TTTTATGTAT
38470939 ATATATATAATATAATATAATA
1 ATATATATAATATAATATAATA
38470961 ATATAT-TAATAATAATATAATA
1 ATATATATAAT-ATAATATAATA
38470983 TAAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
ATATATATAATATAATATAATA
Found at i:38471011 original size:5 final size:5
Alignment explanation
Indices: 38470937--38470985 Score: 55
Period size: 5 Copynumber: 9.2 Consensus size: 5
38470927 TGTTTTATGT
38470937 ATATA TATATA ATATA ATATA ATA-A TATATTA ATAATA ATATA ATATA
1 ATATA -ATATA ATATA ATATA ATATA -ATA-TA AT-ATA ATATA ATATA
38470985 A
1 A
38470986 AACATAATCA
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
4 1 0.03
5 25 0.64
6 11 0.28
7 2 0.05
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:38472913 original size:13 final size:13
Alignment explanation
Indices: 38472895--38472922 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
38472885 GATAAAAGAG
38472895 CATATAGAATACC
1 CATATAGAATACC
38472908 CATATAGAATACC
1 CATATAGAATACC
38472921 CA
1 CA
38472923 GAAGAGATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.25, G:0.07, T:0.21
Consensus pattern (13 bp):
CATATAGAATACC
Found at i:38475487 original size:50 final size:50
Alignment explanation
Indices: 38475363--38475610 Score: 293
Period size: 50 Copynumber: 4.8 Consensus size: 50
38475353 GATAATAACA
* ** * *
38475363 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCAT-CTCGG
* * *
38475414 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
38475464 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
38475514 TGCCCATGCCATGTCCCAGACATGGTCTTACA-GGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATC-T-CGG
*
38475568 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
38475611 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 19, Indels: 11
0.85 0.09 0.05
Matches are distributed among these distances:
49 11 0.06
50 82 0.48
51 33 0.19
52 2 0.01
53 1 0.01
54 2 0.01
55 31 0.18
56 8 0.05
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:38475541 original size:100 final size:103
Alignment explanation
Indices: 38475362--38475610 Score: 346
Period size: 105 Copynumber: 2.4 Consensus size: 103
38475352 TGATAATAAC
**
38475362 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
38475427 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACA-GGGACCTCTCAATCTTAAGG
* *
38475464 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
38475527 TCCCAGACATGGTCTTACAGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGACCTCTCA--ATCTTAAGG
* *
38475568 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
38475611 TTACCCAAAT
Statistics
Matches: 132, Mismatches: 8, Indels: 11
0.87 0.05 0.07
Matches are distributed among these distances:
99 11 0.08
100 39 0.30
101 36 0.27
102 3 0.02
103 1 0.01
104 2 0.02
105 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (103 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGACCTCTCAATCTTAAGG
Found at i:38475726 original size:13 final size:13
Alignment explanation
Indices: 38475705--38475736 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
38475695 GCTTGGATCA
*
38475705 TCATCAAATAAAT
1 TCATAAAATAAAT
38475718 TCATAAAATAAAT
1 TCATAAAATAAAT
38475731 TCATAA
1 TCATAA
38475737 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:38475980 original size:29 final size:30
Alignment explanation
Indices: 38475948--38476004 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
38475938 CCTCGACTCT
38475948 AACTTTT-CAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
38475977 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
38476005 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.32, C:0.25, G:0.04, T:0.40
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:38476557 original size:25 final size:25
Alignment explanation
Indices: 38476529--38476586 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
38476519 TGCTCTCTGT
38476529 TTCTTTCTCTGTTTC-GTCTCTTCTA
1 TTCTTTCTCT-TTTCTGTCTCTTCTA
* *
38476554 TTCTGTT-TCTTTTCTTTCTTTTCTA
1 TTCT-TTCTCTTTTCTGTCTCTTCTA
38476579 TTCTTTCT
1 TTCTTTCT
38476587 TTTGTTTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
24 6 0.21
25 20 0.71
26 2 0.07
ACGTcount: A:0.03, C:0.24, G:0.05, T:0.67
Consensus pattern (25 bp):
TTCTTTCTCTTTTCTGTCTCTTCTA
Found at i:38476576 original size:14 final size:14
Alignment explanation
Indices: 38476549--38476594 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
38476539 GTTTCGTCTC
38476549 TTCTATTCTGTTTCTT
1 TTCT-TTCT-TTTCTT
*
38476565 TTCTTTCTTTTCTA
1 TTCTTTCTTTTCTT
*
38476579 TTCTTTCTTTTGTT
1 TTCTTTCTTTTCTT
38476593 TT
1 TT
38476595 ATGTATATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 19 0.70
15 4 0.15
16 4 0.15
ACGTcount: A:0.04, C:0.17, G:0.04, T:0.74
Consensus pattern (14 bp):
TTCTTTCTTTTCTT
Found at i:38476611 original size:5 final size:5
Alignment explanation
Indices: 38476598--38476666 Score: 67
Period size: 5 Copynumber: 14.4 Consensus size: 5
38476588 TTGTTTTATG
38476598 TATATA TATAA TATAA TATAA TAT-A T-TAA TATAA TATAA TATAA -A-ACA
1 TATA-A TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA-A
* *
38476646 TATCA T-TAC TATAA TATAA TA
1 TATAA TATAA TATAA TATAA TA
38476667 ATATTTTTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 13
0.76 0.06 0.19
Matches are distributed among these distances:
3 2 0.04
4 8 0.15
5 39 0.74
6 4 0.08
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:38476629 original size:18 final size:19
Alignment explanation
Indices: 38476599--38476640 Score: 77
Period size: 18 Copynumber: 2.3 Consensus size: 19
38476589 TGTTTTATGT
38476599 ATATATATAATATAATATA
1 ATATATATAATATAATATA
38476618 ATATAT-TAATATAATATA
1 ATATATATAATATAATATA
38476636 ATATA
1 ATATA
38476641 AAACATATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 17 0.74
19 6 0.26
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
ATATATATAATATAATATA
Found at i:38476638 original size:28 final size:28
Alignment explanation
Indices: 38476598--38476666 Score: 88
Period size: 28 Copynumber: 2.4 Consensus size: 28
38476588 TTGTTTTATG
38476598 TATATATATAATATAATATA-ATAT-ATTAA
1 TATA-ATATAATATAA-A-ACATATCATTAA
*
38476627 TATAATATAATATAAAACATATCATTAC
1 TATAATATAATATAAAACATATCATTAA
38476655 TATAATATAATA
1 TATAATATAATA
38476667 ATATTTTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
26 1 0.03
27 5 0.14
28 27 0.73
29 4 0.11
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (28 bp):
TATAATATAATATAAAACATATCATTAA
Found at i:38494378 original size:47 final size:47
Alignment explanation
Indices: 38494309--38494402 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
38494299 ATGAATGAAA
38494309 AAGGCTATGATGTGGATACTATGACCTGTAATATTGTAACTGATGGT
1 AAGGCTATGATGTGGATACTATGACCTGTAATATTGTAACTGATGGT
*
38494356 AAGGCTATGGTGTGGATACTATGACCTGTAATATTGTAACTGATGGT
1 AAGGCTATGATGTGGATACTATGACCTGTAATATTGTAACTGATGGT
38494403 TTGTGTAAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.29, C:0.11, G:0.27, T:0.34
Consensus pattern (47 bp):
AAGGCTATGATGTGGATACTATGACCTGTAATATTGTAACTGATGGT
Found at i:38496396 original size:34 final size:33
Alignment explanation
Indices: 38496349--38496413 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 33
38496339 GGTACCATTT
38496349 TTTTCCCCCAATTGCACCTCACTGACATTAATA
1 TTTTCCCCCAATTGCACCTCACTGACATTAATA
* *
38496382 TTTTCCTCTCAATTGCACCTCACTGGCATTAA
1 TTTTCC-CCCAATTGCACCTCACTGACATTAA
38496414 AAGCCAAACC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 6 0.21
34 23 0.79
ACGTcount: A:0.25, C:0.32, G:0.08, T:0.35
Consensus pattern (33 bp):
TTTTCCCCCAATTGCACCTCACTGACATTAATA
Found at i:38497774 original size:27 final size:26
Alignment explanation
Indices: 38497723--38497774 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
38497713 AAGAATGAAT
* *
38497723 AAAAAATACAGAAATGTGAATGAAAA
1 AAAAAATAAAGAAATGTGAAAGAAAA
38497749 AAAAAATTAAAGAACATG-GAAAGAAA
1 AAAAAA-TAAAGAA-ATGTGAAAGAAA
38497775 TGGGAAAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 6 0.27
27 13 0.59
28 3 0.14
ACGTcount: A:0.67, C:0.04, G:0.15, T:0.13
Consensus pattern (26 bp):
AAAAAATAAAGAAATGTGAAAGAAAA
Found at i:38503254 original size:50 final size:50
Alignment explanation
Indices: 38503199--38503584 Score: 381
Period size: 50 Copynumber: 7.8 Consensus size: 50
38503189 TTGAAATTAA
* * **
38503199 GAGAGGTCCCATGTAAGACCGTGTCTAGGACATGGTGTTGGCACCGAGAT
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
*
38503249 GAGAGGTCCCATGTAAGACCATGTCTGAGACATGGCATTGGCACC---AT
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
** * * * * *
38503296 GATGAGGTCCCCCGTAAGACCATGTTTGGGACATGACATGGGAACCGATAT
1 GA-GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* ** * * * * *
38503347 GAAAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGTA--GTACAA
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGAT
* ** * *
38503396 GAAACATCCCATGTAAGACTATGTCTGGGACATGGCGTTGGCACCGAGAT
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* *
38503446 GAGAGGTCCCATGTAAGACCATGTCTGGGATATGGCGTTGGCACCGAGAT
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
** * *
38503496 --GAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATAT
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
** * * *
38503544 GAGAACTCCCATGTAAGACCATATCTGGGATATGACATTGG
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGG
38503585 TAGTATAGGA
Statistics
Matches: 274, Mismatches: 53, Indels: 18
0.79 0.15 0.05
Matches are distributed among these distances:
47 4 0.01
48 79 0.29
49 38 0.14
50 148 0.54
51 5 0.02
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (50 bp):
GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
Found at i:38503382 original size:98 final size:97
Alignment explanation
Indices: 38503201--38503584 Score: 419
Period size: 98 Copynumber: 3.9 Consensus size: 97
38503191 GAAATTAAGA
** * * ** * * **
38503201 GAGGTCCCATGTAAGACCGTGTCTAGGACATGGTGTTGGCACCGAGATGAGAGGTCCCATGTAAG
1 GAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAAG
* * *
38503266 ACCATGTCTGAGACATGGCATTGGCACCATGAT
66 ACCATATCTGGGATATGGCATTGGCACCA-GAT
* * * *
38503299 GAGGTCCCCCGTAAGACCATGTTTGGGACATGACATGGGAACCGATATGAAAACTCCCATGTAAG
1 GAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAAG
* *
38503364 ACCATATCTGGGATATGGCATTGGTAGTACAAGA-
66 ACCATATCTGGGATATGGCATT-G--GCACCAGAT
* ** ** * * * * **
38503398 AACATCCCATGTAAGACTATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAG
1 GAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAAG
* *
38503463 ACCATGTCTGGGATATGGCGTTGGCACCGAGAT
66 ACCATATCTGGGATATGGCATTGGCACC-AGAT
38503496 GAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAAG
1 GAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAAG
*
38503561 ACCATATCTGGGATATGACATTGG
66 ACCATATCTGGGATATGGCATTGG
38503585 TAGTATAGGA
Statistics
Matches: 229, Mismatches: 52, Indels: 10
0.79 0.18 0.03
Matches are distributed among these distances:
96 3 0.01
97 3 0.01
98 146 0.64
99 71 0.31
100 2 0.01
101 4 0.02
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (97 bp):
GAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAAG
ACCATATCTGGGATATGGCATTGGCACCAGAT
Found at i:38503429 original size:197 final size:197
Alignment explanation
Indices: 38503205--38503625 Score: 700
Period size: 197 Copynumber: 2.1 Consensus size: 197
38503195 TTAAGAGAGG
** * *
38503205 TCCCATGTAAGACCGTGTCTAGGACATGGTGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCA
1 TCCCATGTAAGACTATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCA
*
38503270 TGTCTGAGACATGGCATTGGCACC-ATGATGAGGTCCCCCGTAAGACCATGTTTGGGACATGACA
66 TGTCTGAGACATGGCATTGGCACCGA-GATGAGGTCCCCCGTAAGACCATGTCTGGGACATGACA
*
38503334 TGGGAACCGATATGAAAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGTAGTACAAGAA
130 TGGGAACCGATATGAAAACTCCCATGTAAGACCATATCTGGGATATGACATTGGTAGTACAAGAA
38503399 ACA
195 ACA
38503402 TCCCATGTAAGACTATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCA
1 TCCCATGTAAGACTATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCA
* * * *
38503467 TGTCTGGGATATGGCGTTGGCACCGAGATGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCAT
66 TGTCTGAGACATGGCATTGGCACCGAGATGAGGTCCCCCGTAAGACCATGTCTGGGACATGACAT
* * * *
38503532 GGGCACCGATATGAGAACTCCCATGTAAGACCATATCTGGGATATGACATTGGTAGTATAGGAAA
131 GGGAACCGATATGAAAACTCCCATGTAAGACCATATCTGGGATATGACATTGGTAGTACAAGAAA
38503597 CA
196 CA
38503599 TCCCATGTAAGACTATGTCTGGGACAT
1 TCCCATGTAAGACTATGTCTGGGACAT
38503626 ATCTTTGGCA
Statistics
Matches: 209, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
197 208 1.00
198 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (197 bp):
TCCCATGTAAGACTATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCA
TGTCTGAGACATGGCATTGGCACCGAGATGAGGTCCCCCGTAAGACCATGTCTGGGACATGACAT
GGGAACCGATATGAAAACTCCCATGTAAGACCATATCTGGGATATGACATTGGTAGTACAAGAAA
CA
Found at i:38503522 original size:147 final size:146
Alignment explanation
Indices: 38503255--38503531 Score: 342
Period size: 147 Copynumber: 1.9 Consensus size: 146
38503245 AGATGAGAGG
*
38503255 TCCCATGTAAGACCATGTCTGAGACATGGCATTGGCACCATGATGAGGTCCCCCGTAAGACCATG
1 TCCCATGTAAGACCATGTCTGAGACATGGCATTGGCACCATGATGAGGTCCCACGTAAGACCATG
* * * *
38503320 TTTGGGACATGACATGGGAACCGATATGAAAACTCCCATGTAAGACCATATCTGGGATATGGCAT
66 TCTGGGACATGACATGGGAACCGAGATG-AAACTCCCACGTAAGACCATATCTGGGACATGGCAT
38503385 TGGTAGTACAAGAAACA
130 TGGTAGTACAAGAAACA
* * * *
38503402 TCCCATGTAAGACTATGTCTGGGACATGGCGTTGGCACCGA-GATGAGAGGTCCCATGTAAGACC
1 TCCCATGTAAGACCATGTCTGAGACATGGCATTGGCACC-ATGAT--GAGGTCCCACGTAAGACC
* * * * * ** * *
38503466 ATGTCTGGGATATGGCGTTGGCACCGAGATG-AGGTCCCCCGTAAGACCATGTCTGGGACATGGC
63 ATGTCTGGGACATGACATGGGAACCGAGATGAAACTCCCACGTAAGACCATATCTGGGACATGGC
38503530 AT
128 AT
38503532 GGGCACCGAT
Statistics
Matches: 109, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
147 68 0.62
148 1 0.01
149 40 0.37
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.22
Consensus pattern (146 bp):
TCCCATGTAAGACCATGTCTGAGACATGGCATTGGCACCATGATGAGGTCCCACGTAAGACCATG
TCTGGGACATGACATGGGAACCGAGATGAAACTCCCACGTAAGACCATATCTGGGACATGGCATT
GGTAGTACAAGAAACA
Found at i:38506119 original size:28 final size:28
Alignment explanation
Indices: 38506079--38506136 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
38506069 CGGCACCATA
*
38506079 CTTAGTTAAATTCATTGGTTTGTTTTAG
1 CTTAGTTAAATTCATTAGTTTGTTTTAG
38506107 CTTAGTTAAATTCATTAGTTTGTTTTAG
1 CTTAGTTAAATTCATTAGTTTGTTTTAG
38506135 CT
1 CT
38506137 GGCAATTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.22, C:0.09, G:0.16, T:0.53
Consensus pattern (28 bp):
CTTAGTTAAATTCATTAGTTTGTTTTAG
Found at i:38507223 original size:10 final size:11
Alignment explanation
Indices: 38507188--38507226 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
38507178 AAAATAATTC
*
38507188 AAATTAATAAA
1 AAATTAATATA
*
38507199 AAATTGATATA
1 AAATTAATATA
38507210 AAATTAAT-TA
1 AAATTAATATA
38507220 AAATTAA
1 AAATTAA
38507227 AAAATTTTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
10 9 0.36
11 16 0.64
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (11 bp):
AAATTAATATA
Found at i:38509208 original size:3 final size:3
Alignment explanation
Indices: 38509200--38509249 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
38509190 CTCTATGAGA
38509200 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
38509248 TC
1 TC
38509250 GAGATCCTCG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:38510956 original size:22 final size:19
Alignment explanation
Indices: 38510917--38510958 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
38510907 TGCAAAGTTG
38510917 ATAATAATTAATATATATT
1 ATAATAATTAATATATATT
38510936 ATAATAGATATAATTATATATT
1 ATAATA-AT-TAA-TATATATT
38510958 A
1 A
38510959 ATTATTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 3 0.15
22 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
ATAATAATTAATATATATT
Found at i:38522990 original size:9 final size:9
Alignment explanation
Indices: 38522973--38523002 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
38522963 TAGAAACACC
38522973 AAAAA-AAA
1 AAAAACAAA
38522981 AAAAACAAA
1 AAAAACAAA
38522990 AAAAACAAA
1 AAAAACAAA
38522999 AAAA
1 AAAA
38523003 TATTTTGGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 5 0.24
9 16 0.76
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAACAAA
Found at i:38526718 original size:27 final size:29
Alignment explanation
Indices: 38526687--38526763 Score: 97
Period size: 27 Copynumber: 2.7 Consensus size: 29
38526677 TTAATTATTT
38526687 ACATATATTTGCATGAACTTGAT-T-GTC
1 ACATATATTTGCATGAACTTGATATGGTC
* *
38526714 ACATATATTTACATGAA-TACGATATGGTC
1 ACATATATTTGCATGAACT-TGATATGGTC
*
38526743 CCATATATTTGCATGAACTTG
1 ACATATATTTGCATGAACTTG
38526764 TAACATATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
26 1 0.02
27 19 0.46
28 1 0.02
29 19 0.46
30 1 0.02
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (29 bp):
ACATATATTTGCATGAACTTGATATGGTC
Found at i:38530820 original size:3 final size:3
Alignment explanation
Indices: 38530812--38530863 Score: 61
Period size: 3 Copynumber: 17.3 Consensus size: 3
38530802 ATGAATTAAA
* * *
38530812 TAT TAT TA- TAT TAT TAT TAT AAT GTAT TGT TAT TAT TAT TAT TAA
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT
38530857 TAT TAT T
1 TAT TAT T
38530864 GACTAATAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 2 0.05
3 37 0.90
4 2 0.05
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:38531761 original size:36 final size:38
Alignment explanation
Indices: 38531663--38531761 Score: 96
Period size: 36 Copynumber: 2.6 Consensus size: 38
38531653 GAATATATGT
* *
38531663 GTGGAATTGAATTGAATATATTGACTTGAAAAATGGAAAA
1 GTGGAATTGAATTGAA-AT-GTGACTTGAAAAATGAAAAA
** *
38531703 GT-GAATTTTGAATTGATTTGTGA-TTG-AAAGTGAAAAA
1 GTGGAA--TTGAATTGAAATGTGACTTGAAAAATGAAAAA
38531740 GTGGAATTGAATTGAAATGTGA
1 GTGGAATTGAATTGAAATGTGA
38531762 ATTTAGAGAC
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
36 14 0.29
37 11 0.22
38 6 0.12
39 6 0.12
40 3 0.06
41 9 0.18
ACGTcount: A:0.40, C:0.01, G:0.25, T:0.33
Consensus pattern (38 bp):
GTGGAATTGAATTGAAATGTGACTTGAAAAATGAAAAA
Found at i:38537513 original size:29 final size:32
Alignment explanation
Indices: 38537457--38537516 Score: 90
Period size: 29 Copynumber: 2.0 Consensus size: 32
38537447 GATATCAGTC
*
38537457 ATGCAGTGAACAGTATCTAATATCATTAATCG
1 ATGCAGTGAACAGTATCTAAAATCATTAATCG
38537489 ATGCAGT-AACAGTA-C-AAAATCATTAATC
1 ATGCAGTGAACAGTATCTAAAATCATTAATC
38537517 AGTTCAGATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 12 0.44
30 1 0.04
31 7 0.26
32 7 0.26
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.28
Consensus pattern (32 bp):
ATGCAGTGAACAGTATCTAAAATCATTAATCG
Found at i:38537934 original size:27 final size:27
Alignment explanation
Indices: 38537917--38538093 Score: 221
Period size: 27 Copynumber: 6.6 Consensus size: 27
38537907 GGGTATAACA
38537917 GTCATTTTACCCTATAGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
* * *
38537944 GTCATATTACTCTATGGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
* *
38537971 GTCATTTTACCCTATAGGGATATTTTG
1 GTCATTTTACCCTATAGGGGTATTTCG
* * *
38537998 GTCATTTTAACATAT-GAGGGTATTTCA
1 GTCATTTTACCCTATAG-GGGTATTTCG
* * *
38538025 ATCATTTTATCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
*
38538052 ATCATTTTACCCTATAGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
*
38538079 GTCATTCTACCCTAT
1 GTCATTTTACCCTAT
38538094 GAAATAGCCA
Statistics
Matches: 127, Mismatches: 21, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
26 1 0.01
27 125 0.98
28 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTATTTCG
Found at i:38538095 original size:81 final size:82
Alignment explanation
Indices: 38537917--38538095 Score: 247
Period size: 81 Copynumber: 2.2 Consensus size: 82
38537907 GGGTATAACA
** *
38537917 GTCATTTTACCCTAT-AGGGGTATTTCGGTCATATTACTCTATGGGGGTATTTCGGTCATTTTAC
1 GTCATTTTACCCTATGAGGGGTATTTCAATCATATTACTCTATGGGGGTATTTCGATCATTTTAC
*
38537981 CCTATAGGGATATTTTG
66 CCTATAGGGATATTTCG
* * *
38537998 GTCATTTTAACATATGA-GGGTATTTCAATCATTTTA-TCCTATGGGGGTATTTCGATCATTTTA
1 GTCATTTTACCCTATGAGGGGTATTTCAATCATATTACT-CTATGGGGGTATTTCGATCATTTTA
*
38538061 CCCTATAGGGGTATTTCG
65 CCCTATAGGGATATTTCG
*
38538079 GTCATTCTACCCTATGA
1 GTCATTTTACCCTATGA
38538096 AATAGCCACA
Statistics
Matches: 85, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
80 1 0.01
81 83 0.98
82 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (82 bp):
GTCATTTTACCCTATGAGGGGTATTTCAATCATATTACTCTATGGGGGTATTTCGATCATTTTAC
CCTATAGGGATATTTCG
Found at i:38538181 original size:33 final size:33
Alignment explanation
Indices: 38538094--38538181 Score: 89
Period size: 28 Copynumber: 2.8 Consensus size: 33
38538084 TCTACCCTAT
38538094 GAAATAGCCACAAATGCTATA-TTTTATTTCATA
1 GAAATAGCCACAAATGCTA-ACTTTTATTTCATA
* ** *
38538127 G-ATTTTCCACAAA-G---ACATTTATTTCATA
1 GAAATAGCCACAAATGCTAACTTTTATTTCATA
38538155 GAAATAGCCACAAATGCTAACTTTTAT
1 GAAATAGCCACAAATGCTAACTTTTAT
38538182 GGAAATTGGT
Statistics
Matches: 41, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
27 1 0.02
28 12 0.29
29 9 0.22
30 1 0.02
31 1 0.02
32 9 0.22
33 8 0.20
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.35
Consensus pattern (33 bp):
GAAATAGCCACAAATGCTAACTTTTATTTCATA
Found at i:38538745 original size:29 final size:29
Alignment explanation
Indices: 38538683--38539077 Score: 340
Period size: 29 Copynumber: 13.8 Consensus size: 29
38538673 CAAAGGTTGT
* * * **
38538683 CACAAAGGCTTCCTTTTGATAGAGATCAT
1 CACAAAGGCTTCCATTTAACAGAGATCGC
* * *
38538712 TACAAAGGCTTCCATTTAATAAAGATCGC
1 CACAAAGGCTTCCATTTAACAGAGATCGC
* *
38538741 CACAAAGGTTTCCATTTAACAAAGAT-G-
1 CACAAAGGCTTCCATTTAACAGAGATCGC
* *
38538768 -GC--GGGCTTCCATTTAACAGAGA-CAGC
1 CACAAAGGCTTCCATTTAACAGAGATC-GC
* * * * **
38538794 CACAAAGGTTTCCATTTCACAAACATTAC
1 CACAAAGGCTTCCATTTAACAGAGATCGC
* *
38538823 CACAAAGGCTTCCATTTAACAGAGATAGT
1 CACAAAGGCTTCCATTTAACAGAGATCGC
* * * * *
38538852 CAGAAAGGTTTCCATTTAAAAAACATCGC
1 CACAAAGGCTTCCATTTAACAGAGATCGC
* *
38538881 CAGAAAGGCTTCCATTTAATAGAGATCGC
1 CACAAAGGCTTCCATTTAACAGAGATCGC
38538910 CACAAAGGCTTCCATTTAACAGAGAT-GCC
1 CACAAAGGCTTCCATTTAACAGAGATCG-C
* *
38538939 CACAAAGGAC-TCCATTTACCAGAGATAGC
1 CACAAAGG-CTTCCATTTAACAGAGATCGC
* * * *
38538968 CACAATGGCCTCCATTTAATAGAGATAGC
1 CACAAAGGCTTCCATTTAACAGAGATCGC
* *
38538997 CACAAAGGCCTCCATTTCAA-AGAGATCCC
1 CACAAAGGCTTCCATTT-AACAGAGATCGC
* * * *
38539026 CAAAAAGGCCTCCATTTAATAGAGATCAC
1 CACAAAGGCTTCCATTTAACAGAGATCGC
38539055 CACAAAGGCTTCCATTTAACAGA
1 CACAAAGGCTTCCATTTAACAGA
38539078 TACAAAAACT
Statistics
Matches: 300, Mismatches: 53, Indels: 26
0.79 0.14 0.07
Matches are distributed among these distances:
24 17 0.06
25 1 0.00
26 1 0.00
27 1 0.00
28 5 0.02
29 271 0.90
30 4 0.01
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.23
Consensus pattern (29 bp):
CACAAAGGCTTCCATTTAACAGAGATCGC
Found at i:38539716 original size:28 final size:29
Alignment explanation
Indices: 38539692--38539877 Score: 134
Period size: 29 Copynumber: 6.6 Consensus size: 29
38539682 GCGTCCTTTC
* * * *
38539692 ACAAAGGTTGTCACAAAAG-CTTCCTTTTG
1 ACAAAGATTGCCAC-AAAGCCTTCCATTTA
38539721 ACAAAGATTGCCACAAAGCCTTCCATTTA
1 ACAAAGATTGCCACAAAGCCTTCCATTTA
** *
38539750 ACAAAGATCACCACAAAGGCTTCCATTTCA
1 ACAAAGATTGCCACAAAGCCTTCCATTT-A
* ** *
38539780 A-AAAGA-TG--GC-AAG-CTTCTGTTTC
1 ACAAAGATTGCCACAAAGCCTTCCATTTA
* ** *
38539803 ACAGAGACAGCCACAAAGCTTTCCATTTA
1 ACAAAGATTGCCACAAAGCCTTCCATTTA
* *
38539832 ACAAATATTGCCACAAAGGCTTCCATTTA
1 ACAAAGATTGCCACAAAGCCTTCCATTTA
* *
38539861 ACAAATATTTCCACAAA
1 ACAAAGATTGCCACAAA
38539878 AGAATTCATT
Statistics
Matches: 122, Mismatches: 27, Indels: 16
0.74 0.16 0.10
Matches are distributed among these distances:
23 1 0.01
24 11 0.09
25 4 0.03
26 1 0.01
27 1 0.01
28 7 0.06
29 95 0.78
30 2 0.02
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.25
Consensus pattern (29 bp):
ACAAAGATTGCCACAAAGCCTTCCATTTA
Found at i:38539796 original size:82 final size:82
Alignment explanation
Indices: 38539708--38539859 Score: 216
Period size: 82 Copynumber: 1.9 Consensus size: 82
38539698 GTTGTCACAA
* **
38539708 AAGCTTCCT-TTTGACAAAGATTGCCACAAAGCCTTCCATTTAACAAAGATCACCACAAAGGCTT
1 AAGCTT-CTGTTTCACAAAGACAGCCACAAAGCCTTCCATTTAACAAAGATCACCACAAAGGCTT
38539772 CCATTTCAAAAAGATGGC
65 CCATTTCAAAAAGATGGC
* * * **
38539790 AAGCTTCTGTTTCACAGAGACAGCCACAAAGCTTTCCATTTAACAAATATTGCCACAAAGGCTTC
1 AAGCTTCTGTTTCACAAAGACAGCCACAAAGCCTTCCATTTAACAAAGATCACCACAAAGGCTTC
38539855 CATTT
66 CATTT
38539860 AACAAATATT
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
81 2 0.03
82 59 0.97
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (82 bp):
AAGCTTCTGTTTCACAAAGACAGCCACAAAGCCTTCCATTTAACAAAGATCACCACAAAGGCTTC
CATTTCAAAAAGATGGC
Found at i:38540100 original size:252 final size:252
Alignment explanation
Indices: 38539638--38540115 Score: 679
Period size: 252 Copynumber: 1.9 Consensus size: 252
38539628 ATTCCTTTCC
* * * *
38539638 AAAGATAGTCATAGAGGCTTTCCTTTTGGAGTCTCGACACAATGGCGTCCTTTCACAAAGGTTGT
1 AAAGATAGTCATAGAGGCTTTCCTTTTAGAGCCTCGACACAATGGCATCCATTCACAAAGGTTGT
*
38539703 CACAAAAGCTTCCTTTTGACAAAGATTGCCACAAAGCCTTCCATTTAACAAAGATCACCACAAAG
66 CACAAAAGCTTCCTTTTGACAAACATTGCCACAAAGCCTTCCATTTAACAAAGATCACCACAAAG
** **
38539768 GCTTCCATTTCAAAAAGATGGCAAGCTTCTGTTTCACAGAGACAGCCACAAAGCTTTCCATTTAA
131 GCTTCCATTTCAAAAAGATGGCAAGCTTCCATTAAACAGAGACAGCCACAAAGCTTTCCATTTAA
* *
38539833 CAAATATTGCCACAAAGGCTTCCATTTAACAAATATTTCCACAAAAGAATTCATTCG
196 CAAACATTACCACAAAGGCTTCCATTTAACAAATATTTCCACAAAAGAATTCATTCG
* * * *
38539890 AAAGATAGTCATAGAGGCTTTCCTTTTAGAGCCTCGCCATAATGGCATCCATTGAGAAAGGTTGT
1 AAAGATAGTCATAGAGGCTTTCCTTTTAGAGCCTCGACACAATGGCATCCATTCACAAAGGTTGT
* * * * * * * * * *
38539955 CACAAAGGCTTCCTTTTGATAGACATTGTCACAAAGTCTTCTATTTTATAAATATCACCACAGAG
66 CACAAAAGCTTCCTTTTGACAAACATTGCCACAAAGCCTTCCATTTAACAAAGATCACCACAAAG
* * * *
38540020 GCTTCCATTT-AAAATAGATGGCAGGTTTCCATTAAACAGAGACAGCCACAAAGGTTTCCATTTC
131 GCTTCCATTTCAAAA-AGATGGCAAGCTTCCATTAAACAGAGACAGCCACAAAGCTTTCCATTTA
38540084 ACAAACATTACCACAAAGGCTTCCATTTAACA
195 ACAAACATTACCACAAAGGCTTCCATTTAACA
38540116 GAGATAGTTA
Statistics
Matches: 196, Mismatches: 29, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
251 4 0.02
252 192 0.98
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (252 bp):
AAAGATAGTCATAGAGGCTTTCCTTTTAGAGCCTCGACACAATGGCATCCATTCACAAAGGTTGT
CACAAAAGCTTCCTTTTGACAAACATTGCCACAAAGCCTTCCATTTAACAAAGATCACCACAAAG
GCTTCCATTTCAAAAAGATGGCAAGCTTCCATTAAACAGAGACAGCCACAAAGCTTTCCATTTAA
CAAACATTACCACAAAGGCTTCCATTTAACAAATATTTCCACAAAAGAATTCATTCG
Found at i:38540130 original size:29 final size:29
Alignment explanation
Indices: 38540046--38540288 Score: 170
Period size: 29 Copynumber: 8.4 Consensus size: 29
38540036 GATGGCAGGT
* * * *
38540046 TTCCATTAAACAGAGACAGCCACAAAGGT
1 TTCCATTTAACAGAGATAGCCAGAAAGGC
* * * *
38540075 TTCCATTTCACAAACATTA-CCACAAAGGC
1 TTCCATTTAACAGAGA-TAGCCAGAAAGGC
** *
38540104 TTCCATTTAACAGAGATAGTTAGAAAGGT
1 TTCCATTTAACAGAGATAGCCAGAAAGGC
* * * *
38540133 TTCCATTTAAAAAAGATCGCCAGAGA-GC
1 TTCCATTTAACAGAGATAGCCAGAAAGGC
* * * *
38540161 ATTTCATTTAACAGAGATTGCCACAAATGC
1 -TTCCATTTAACAGAGATAGCCAGAAAGGC
* *
38540191 TTCCATTTAATAGAGATACCCAGAAAGGC
1 TTCCATTTAACAGAGATAGCCAGAAAGGC
* * * *
38540220 -CCCTATTTAACAGAGACAGCAATAAAGGC
1 TTCC-ATTTAACAGAGATAGCCAGAAAGGC
* * *
38540249 CTCCATTTAACAGAGATAG-CAAAAAAGC
1 TTCCATTTAACAGAGATAGCCAGAAAGGC
*
38540277 CTCCATTTAACA
1 TTCCATTTAACA
38540289 CATACAGAAA
Statistics
Matches: 165, Mismatches: 43, Indels: 13
0.75 0.19 0.06
Matches are distributed among these distances:
28 23 0.14
29 137 0.83
30 5 0.03
ACGTcount: A:0.40, C:0.22, G:0.15, T:0.23
Consensus pattern (29 bp):
TTCCATTTAACAGAGATAGCCAGAAAGGC
Found at i:38541267 original size:29 final size:29
Alignment explanation
Indices: 38540933--38541268 Score: 222
Period size: 29 Copynumber: 11.8 Consensus size: 29
38540923 AAAGGTTGTT
* * * **
38540933 ACAAAGGCTTCCTTTTGATAGAGATTTCC
1 ACAAAGGCTTCCATTTAACAGAGATAGCC
* * * *
38540962 ATAAAGGCTTCTATTTAACAAAGATCGCC
1 ACAAAGGCTTCCATTTAACAGAGATAGCC
*
38540991 ACAAAAGCTTCCATTTAACA-A-ATATG--
1 ACAAAGGCTTCCATTTAACAGAGATA-GCC
*** * *
38541017 --GTGGGATTCCATTTAACAGAGATAGCT
1 ACAAAGGCTTCCATTTAACAGAGATAGCC
* * * * *
38541044 ACAAAGGTTTACATTTCACAAACATTA-CC
1 ACAAAGGCTTCCATTTAACAGAGA-TAGCC
* * *
38541073 ACAAAGGCTTCCATTTAATAAAGATAGTC
1 ACAAAGGCTTCCATTTAACAGAGATAGCC
* * * * * **
38541102 AGAAAGGTTTCCATTTAAAAAAGATCGTT
1 ACAAAGGCTTCCATTTAACAGAGATAGCC
* *
38541131 AGAGAGGCTTCCATTTAACAGAGATCA-CC
1 ACAAAGGCTTCCATTTAACAGAGAT-AGCC
38541160 ACAAAGGCTTCCATTTAA-ATGAGATAGCC
1 ACAAAGGCTTCCATTTAACA-GAGATAGCC
* **
38541189 ACAAAGGCCTCCATTTAATGGAGATAGCC
1 ACAAAGGCTTCCATTTAACAGAGATAGCC
* * *
38541218 ATAAAGGCCTCCCTTTAACAGAGATAGCC
1 ACAAAGGCTTCCATTTAACAGAGATAGCC
*
38541247 ACAAAGGCCTCCATTTAACAGA
1 ACAAAGGCTTCCATTTAACAGA
38541269 TACAGAAACT
Statistics
Matches: 240, Mismatches: 54, Indels: 26
0.75 0.17 0.08
Matches are distributed among these distances:
24 13 0.05
25 2 0.01
26 3 0.01
27 2 0.01
28 6 0.03
29 212 0.88
30 2 0.01
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (29 bp):
ACAAAGGCTTCCATTTAACAGAGATAGCC
Found at i:38541911 original size:28 final size:29
Alignment explanation
Indices: 38541892--38541970 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
38541882 AATGGCATTC
* *
38541892 TTTGACAAAGGTTGTCACAAAGGCTTCCT
1 TTTGACAAAGATTGCCACAAAGGCTTCCT
* *
38541921 TTTGACAAAGATTGCCACAAAGGCTTACA
1 TTTGACAAAGATTGCCACAAAGGCTTCCT
*
38541950 TTTAACAAAGATCT-CCACAAA
1 TTTGACAAAGAT-TGCCACAAA
38541971 AGCACTTCTT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
29 43 0.98
30 1 0.02
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.27
Consensus pattern (29 bp):
TTTGACAAAGATTGCCACAAAGGCTTCCT
Found at i:38543335 original size:28 final size:27
Alignment explanation
Indices: 38543272--38543335 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
38543262 TAATAGTAAT
*
38543272 AGTACAGTGTGGGCCTTAGCCCAATAC
1 AGTACAGTGTGGGCCTAAGCCCAATAC
* **
38543299 AGAAACAGTGTGGGCCTAAGCCTGATAC
1 AG-TACAGTGTGGGCCTAAGCCCAATAC
38543327 AGTATCAGT
1 AGTA-CAGT
38543336 ATGGTGTAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
27 3 0.10
28 27 0.90
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.22
Consensus pattern (27 bp):
AGTACAGTGTGGGCCTAAGCCCAATAC
Found at i:38543606 original size:32 final size:32
Alignment explanation
Indices: 38543565--38543813 Score: 152
Period size: 32 Copynumber: 7.8 Consensus size: 32
38543555 TATAGTAATG
* *
38543565 TGATTGGCACAAAGCCATCAGTAGTAGTGACA
1 TGATCGGCACAAAGCCATCAGTAGCAGTGACA
* * * *
38543597 TGATCGGCACACAA-CCATTAGTAACGGTAACA
1 TGATCGGCACA-AAGCCATCAGTAGCAGTGACA
* *
38543629 TGATTGGCACAAAGCCATCAGTAGCAGTGATA
1 TGATCGGCACAAAGCCATCAGTAGCAGTGACA
* * ** *
38543661 TGATCGGTACACAA-CCATCAATAATAGTGAAA
1 TGATCGGCACA-AAGCCATCAGTAGCAGTGACA
** * * * * *
38543693 TGATCAACACACAGCCATC-GATAACGGTAAGA
1 TGATCGGCACAAAGCCATCAG-TAGCAGTGACA
* * * *
38543725 TCATTGGCATAAAG-CATCAGTAGCGGT-ACTA
1 TGATCGGCACAAAGCCATCAGTAGCAGTGAC-A
*
38543756 TGATCGGCACAAAGCCATCAGTAGCGGT-ACTA
1 TGATCGGCACAAAGCCATCAGTAGCAGTGAC-A
* *
38543788 CGA-CTGGCACAAAGCCATCAATAGCA
1 TGATC-GGCACAAAGCCATCAGTAGCA
38543814 TCGCAGCAAA
Statistics
Matches: 167, Mismatches: 41, Indels: 18
0.74 0.18 0.08
Matches are distributed among these distances:
30 1 0.01
31 26 0.16
32 136 0.81
33 4 0.02
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (32 bp):
TGATCGGCACAAAGCCATCAGTAGCAGTGACA
Found at i:38543696 original size:64 final size:64
Alignment explanation
Indices: 38543565--38543684 Score: 186
Period size: 64 Copynumber: 1.9 Consensus size: 64
38543555 TATAGTAATG
* * * *
38543565 TGATTGGCACAAAGCCATCAGTAGTAGTGACATGATCGGCACACAACCATTAGTAACGGTAACA
1 TGATTGGCACAAAGCCATCAGTAGCAGTGACATGATCGGCACACAACCATCAATAACAGTAACA
* *
38543629 TGATTGGCACAAAGCCATCAGTAGCAGTGATATGATCGGTACACAACCATCAATAA
1 TGATTGGCACAAAGCCATCAGTAGCAGTGACATGATCGGCACACAACCATCAATAA
38543685 TAGTGAAATG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 51 1.00
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.21
Consensus pattern (64 bp):
TGATTGGCACAAAGCCATCAGTAGCAGTGACATGATCGGCACACAACCATCAATAACAGTAACA
Found at i:38543752 original size:31 final size:32
Alignment explanation
Indices: 38543700--38543784 Score: 84
Period size: 31 Copynumber: 2.7 Consensus size: 32
38543690 AAATGATCAA
* * *
38543700 CACACAGCCATC-GATAACGGTAAGATCATTGG
1 CACAAAGCCATCAG-TAGCGGTAAGATCATCGG
* ** *
38543732 CATAAAG-CATCAGTAGCGGTACTATGATCGG
1 CACAAAGCCATCAGTAGCGGTAAGATCATCGG
38543763 CACAAAGCCATCAGTAGCGGTA
1 CACAAAGCCATCAGTAGCGGTA
38543785 CTACGACTGG
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
31 23 0.53
32 20 0.47
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.19
Consensus pattern (32 bp):
CACAAAGCCATCAGTAGCGGTAAGATCATCGG
Found at i:38544027 original size:24 final size:23
Alignment explanation
Indices: 38543983--38544049 Score: 98
Period size: 24 Copynumber: 2.9 Consensus size: 23
38543973 CATGCTTAAT
38543983 ATCAGTCATTCAAACACAGACAA
1 ATCAGTCATTCAAACACAGACAA
*
38544006 ATCAGTCATATCGAACACAGACAA
1 ATCAGTCAT-TCAAACACAGACAA
* *
38544030 ATCAGTCATTTAACCACAGA
1 ATCAGTCATTCAAACACAGA
38544050 AAAAATAATC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
23 17 0.44
24 22 0.56
ACGTcount: A:0.45, C:0.25, G:0.10, T:0.19
Consensus pattern (23 bp):
ATCAGTCATTCAAACACAGACAA
Found at i:38544142 original size:27 final size:26
Alignment explanation
Indices: 38544107--38544306 Score: 124
Period size: 27 Copynumber: 7.4 Consensus size: 26
38544097 TAGGGCATTA
* *
38544107 CGATTATTTTACCCTACAGGGGTATTA
1 CGATCATTTTACCCTAC-GGGGTATTT
* * *
38544134 CGATCATTTTACCATATGGGGGCATTT
1 CGATCATTTTACCCTA-CGGGGTATTT
* *
38544161 CAGA-CATTTTACAC-ATCGATGGTATTT
1 C-GATCATTTTACCCTA-CG-GGGTATTT
* *
38544188 TGATCATTTTACCC-ATCAAGGGTATTT
1 CGATCATTTTACCCTA-C-GGGGTATTT
*
38544215 CGATCATTTTACCCTTCGAGGGTATTT
1 CGATCATTTTACCCTACG-GGGTATTT
38544242 CGATCATTTTACCC-ATCGAGGGTATTT
1 CGATCATTTTACCCTA-CG-GGGTATTT
* * *
38544269 TGGTTATTTTACCC-ATCGAGGGTATTT
1 CGATCATTTTACCCTA-CG-GGGTATTT
38544296 C-AGTCATTTTA
1 CGA-TCATTTTA
38544307 TCTATCGAGG
Statistics
Matches: 140, Mismatches: 24, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
26 5 0.04
27 133 0.95
28 2 0.01
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40
Consensus pattern (26 bp):
CGATCATTTTACCCTACGGGGTATTT
Found at i:38544295 original size:81 final size:81
Alignment explanation
Indices: 38544108--38544322 Score: 253
Period size: 81 Copynumber: 2.7 Consensus size: 81
38544098 AGGGCATTAC
* * * *
38544108 GATTATTTTACCC-TACAGGGGTATTACGATCATTTTACCATAT-GGGGGCATTTCAGACATTTT
1 GATTATTTTACCCAT-CA-GGGTATTTCGATCATTTTACCCTATCGAGGGTATTTCAGACATTTT
*
38544171 ACACATCGATGGTATTTT
64 ACACATCGAGGGTATTTT
*
38544189 GATCATTTTACCCATCAAGGGTATTTCGATCATTTTACCCT-TCGAGGGTATTTC-GATCATTTT
1 GATTATTTTACCCATC-AGGGTATTTCGATCATTTTACCCTATCGAGGGTATTTCAGA-CATTTT
*
38544252 ACCCATCGAGGGTATTTT
64 ACACATCGAGGGTATTTT
* *
38544270 GGTTATTTTACCCATCGAGGGTATTTC-AGTCATTTTA-TCTATCGAGGGTATTT
1 GATTATTTTACCCATC-AGGGTATTTCGA-TCATTTTACCCTATCGAGGGTATTT
38544323 TAGTCCAGAT
Statistics
Matches: 117, Mismatches: 11, Indels: 12
0.84 0.08 0.09
Matches are distributed among these distances:
80 6 0.05
81 109 0.93
82 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.19, T:0.40
Consensus pattern (81 bp):
GATTATTTTACCCATCAGGGTATTTCGATCATTTTACCCTATCGAGGGTATTTCAGACATTTTAC
ACATCGAGGGTATTTT
Found at i:38544313 original size:27 final size:27
Alignment explanation
Indices: 38544157--38544327 Score: 186
Period size: 27 Copynumber: 6.3 Consensus size: 27
38544147 ATATGGGGGC
* * *
38544157 ATTTCAGACATTTTACACATCGATGGT
1 ATTTCAGTCATTTTACCCATCGAGGGT
* *
38544184 ATTT-TGATCATTTTACCCATCAAGGGT
1 ATTTCAG-TCATTTTACCCATCGAGGGT
*
38544211 ATTTC-GATCATTTTACCCTTCGAGGGT
1 ATTTCAG-TCATTTTACCCATCGAGGGT
38544238 ATTTC-GATCATTTTACCCATCGAGGGT
1 ATTTCAG-TCATTTTACCCATCGAGGGT
** *
38544265 ATTTTGGTTATTTTACCCATCGAGGGT
1 ATTTCAGTCATTTTACCCATCGAGGGT
* *
38544292 ATTTCAGTCATTTTATCTATCGAGGGT
1 ATTTCAGTCATTTTACCCATCGAGGGT
*
38544319 ATTTTAGTC
1 ATTTCAGTC
38544328 CAGATATCAA
Statistics
Matches: 125, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
26 1 0.01
27 123 0.98
28 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.42
Consensus pattern (27 bp):
ATTTCAGTCATTTTACCCATCGAGGGT
Found at i:38544314 original size:54 final size:54
Alignment explanation
Indices: 38544126--38544323 Score: 213
Period size: 54 Copynumber: 3.7 Consensus size: 54
38544116 TACCCTACAG
* * * * * *
38544126 GGGTATTACGATCATTTTA-CCATATGGGGGCATTTCAGA-CATTTTACACATCGA
1 GGGTATTTCGATCATTTTACCCAT-CGAGGGTATTT-TGATCATTTTACCCATCGA
* * * * *
38544180 TGGTATTTTGATCATTTTACCCATCAAGGGTATTTCGATCATTTTACCCTTCGA
1 GGGTATTTCGATCATTTTACCCATCGAGGGTATTTTGATCATTTTACCCATCGA
* *
38544234 GGGTATTTCGATCATTTTACCCATCGAGGGTATTTTGGTTATTTTACCCATCGA
1 GGGTATTTCGATCATTTTACCCATCGAGGGTATTTTGATCATTTTACCCATCGA
* *
38544288 GGGTATTTC-AGTCATTTTATCTATCGAGGGTATTTT
1 GGGTATTTCGA-TCATTTTACCCATCGAGGGTATTTT
38544324 AGTCCAGATA
Statistics
Matches: 122, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
53 3 0.02
54 115 0.94
55 4 0.03
ACGTcount: A:0.23, C:0.18, G:0.19, T:0.40
Consensus pattern (54 bp):
GGGTATTTCGATCATTTTACCCATCGAGGGTATTTTGATCATTTTACCCATCGA
Found at i:38544335 original size:27 final size:27
Alignment explanation
Indices: 38544283--38544335 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
38544273 TATTTTACCC
**
38544283 ATCGAGGGTATTTCAGTCATTTTATCT
1 ATCGAGGGTATTTCAGTCATGATATCT
*
38544310 ATCGAGGGTATTTTAGTCCA-GATATC
1 ATCGAGGGTATTTCAGT-CATGATATC
38544336 AACCTCTCGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.40
Consensus pattern (27 bp):
ATCGAGGGTATTTCAGTCATGATATCT
Found at i:38548411 original size:66 final size:63
Alignment explanation
Indices: 38548334--38548664 Score: 247
Period size: 66 Copynumber: 5.4 Consensus size: 63
38548324 AAATATATTT
38548334 AATATTAATTATTTCAAATTTTCATTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTTT-ATTTA-AGTATCATATATTATGATTTGAGTAAATTCATATAA
38548399 G
63 G
* * * * **
38548400 AATATTAATTATTAAGAATTTTA-TTAA--AT--TATA-TAT--TTTAATTAAAAT-ATAT-TT
1 AATATTAATTATTTA-AATTTTATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
*
38548454 AATAATAATTATGTT-AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTAT-TTAAATTT-TA-TTTA-AGTATCATATATTATGATTTGAGTAAATTCATATA
38548518 AG
62 AG
* * * * **
38548520 AATATTAATTATTAAGAATTTTA-TTAA--AT--TATA-TAT--TTTAATTAAAAT-ATAT-TT
1 AATATTAATTATTTA-AATTTTATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
*
38548574 AATAATAATTATGTT-AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTAT-TTAAATTT-TA-TTTA-AGTATCATATATTATGATTTGAGTAAATTCATATA
38548638 AG
62 AG
*
38548640 AATATTAATTATTAAGAATTTTATT
1 AATATTAATTATTTA-AATTTTATT
38548665 AAATTATATA
Statistics
Matches: 203, Mismatches: 29, Indels: 67
0.68 0.10 0.22
Matches are distributed among these distances:
53 10 0.05
54 26 0.13
55 10 0.05
56 24 0.12
57 2 0.01
58 6 0.03
59 12 0.06
61 12 0.06
62 6 0.03
63 2 0.01
64 24 0.12
65 14 0.07
66 45 0.22
67 10 0.05
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (63 bp):
AATATTAATTATTTAAATTTTATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:38548442 original size:120 final size:120
Alignment explanation
Indices: 38548303--38548708 Score: 728
Period size: 120 Copynumber: 3.4 Consensus size: 120
38548293 TTAAATTATT
* * * *
38548303 TTAAATCATATATTATAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCA-TTTATAG
1 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT--AATTTAT-ATTTTACAG
38548365 TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
63 TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
38548423 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTAT
1 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTAT
38548488 CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
66 CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
38548543 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTAT
1 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTAT
38548608 CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
66 CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
38548663 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
1 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
38548709 TAAATATGAT
Statistics
Matches: 279, Mismatches: 4, Indels: 6
0.97 0.01 0.02
Matches are distributed among these distances:
119 6 0.02
120 271 0.97
121 2 0.01
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.49
Consensus pattern (120 bp):
TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTAT
CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
Found at i:38548445 original size:18 final size:17
Alignment explanation
Indices: 38548417--38548451 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
38548407 ATTATTAAGA
*
38548417 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
38548434 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
38548452 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:38548565 original size:18 final size:17
Alignment explanation
Indices: 38548537--38548571 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
38548527 ATTATTAAGA
*
38548537 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
38548554 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
38548572 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:38548685 original size:18 final size:17
Alignment explanation
Indices: 38548657--38548691 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
38548647 ATTATTAAGA
*
38548657 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
38548674 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
38548692 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:38549080 original size:17 final size:16
Alignment explanation
Indices: 38549046--38549098 Score: 88
Period size: 16 Copynumber: 3.2 Consensus size: 16
38549036 GATTTGCTAT
38549046 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
38549062 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
*
38549079 TATACCTCTAATCCAA
1 TACACCTCTAATCCAA
38549095 TACA
1 TACA
38549099 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
16 19 0.56
17 15 0.44
ACGTcount: A:0.38, C:0.36, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:38551768 original size:19 final size:19
Alignment explanation
Indices: 38551744--38551807 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
38551734 TCTTATGCCA
38551744 AAATATTTAAAGATTTACC
1 AAATATTTAAAGATTTACC
* *
38551763 AAATATCT-AAGGTTTGACC
1 AAATATTTAAAGATTT-ACC
*
38551782 AAAT-TTCTAAGGATTTACC
1 AAATATT-TAAAGATTTACC
38551801 -AATATTT
1 AAATATTT
38551808 CTAGACATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
18 11 0.31
19 20 0.56
20 5 0.14
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (19 bp):
AAATATTTAAAGATTTACC
Found at i:38551809 original size:20 final size:19
Alignment explanation
Indices: 38551755--38551810 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
38551745 AATATTTAAA
*
38551755 GATTTACCAAATATCTAAG
1 GATTTACCAAATTTCTAAG
38551774 G-TTTGACCAAATTTCTAAG
1 GATTT-ACCAAATTTCTAAG
38551793 GATTTACCAATATTTCTA
1 GATTTACCAA-ATTTCTA
38551811 GACATTTCCT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
18 3 0.09
19 20 0.61
20 10 0.30
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (19 bp):
GATTTACCAAATTTCTAAG
Found at i:38551912 original size:20 final size:20
Alignment explanation
Indices: 38551857--38552104 Score: 165
Period size: 20 Copynumber: 12.7 Consensus size: 20
38551847 CATTTTGGCA
*
38551857 TACCAATATTTCTATA-GATT
1 TACCAAAATTTCTA-AGGATT
* * *
38551877 TAACAATA-TGCTAAGGATT
1 TACCAAAATTTCTAAGGATT
* *
38551896 TACTAAAATTTCTAAGGCTT
1 TACCAAAATTTCTAAGGATT
*
38551916 TGCCAAAA-TT-T-AGGATT
1 TACCAAAATTTCTAAGGATT
38551933 TACCAAAATTTCTAAGG-TT
1 TACCAAAATTTCTAAGGATT
* * *
38551952 ATATCAAAATGTATAAGGATT
1 -TACCAAAATTTCTAAGGATT
* *
38551973 TACCAAAGTTTCCAA-GATT
1 TACCAAAATTTCTAAGGATT
* * *
38551992 ATACCAAAATATCCAAGCATT
1 -TACCAAAATTTCTAAGGATT
* *
38552013 TACCAAAAATTCTAAGG-CT
1 TACCAAAATTTCTAAGGATT
*
38552032 TACCCAAATTTCTAAGG-TT
1 TACCAAAATTTCTAAGGATT
** * * *
38552051 ATATAAAAATATCTAGGGAAT
1 -TACCAAAATTTCTAAGGATT
*
38552072 TACCAAAATTTCTAA-GCTT
1 TACCAAAATTTCTAAGGATT
*
38552091 TACCAAAATATCTA
1 TACCAAAATTTCTA
38552105 TTGATTTCCT
Statistics
Matches: 174, Mismatches: 43, Indels: 23
0.73 0.18 0.10
Matches are distributed among these distances:
17 12 0.07
18 4 0.02
19 54 0.31
20 98 0.56
21 6 0.03
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.33
Consensus pattern (20 bp):
TACCAAAATTTCTAAGGATT
Found at i:38552044 original size:19 final size:19
Alignment explanation
Indices: 38552012--38552098 Score: 61
Period size: 19 Copynumber: 4.5 Consensus size: 19
38552002 ATCCAAGCAT
38552012 TTACCAAAAATTCTAAGGC
1 TTACCAAAAATTCTAAGGC
* *
38552031 TTACCCAAATTTCTAAGG-
1 TTACCAAAAATTCTAAGGC
** * *
38552049 TTATATAAAAATATCTAGGGAA
1 TTA-CCAAAAAT-TCTAAGG-C
*
38552071 TTACCAAAATTTCTAA-GC
1 TTACCAAAAATTCTAAGGC
38552089 TTTACCAAAA
1 -TTACCAAAA
38552099 TATCTATTGA
Statistics
Matches: 51, Mismatches: 12, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
18 3 0.06
19 30 0.59
20 10 0.20
21 5 0.10
22 3 0.06
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.31
Consensus pattern (19 bp):
TTACCAAAAATTCTAAGGC
Found at i:38552178 original size:20 final size:20
Alignment explanation
Indices: 38552153--38552220 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
38552143 TTTAACATGA
*
38552153 CAAAATTTCCAAGGCTTTAG
1 CAAAATTTCCAAGGATTTAG
* *
38552173 CAAAATTTTCAAGGATTTAT
1 CAAAATTTCCAAGGATTTAG
* * * * *
38552193 CAATATTTCTAAAGATTCAT
1 CAAAATTTCCAAGGATTTAG
38552213 CAAAATTT
1 CAAAATTT
38552221 TTAAAGATTT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.37
Consensus pattern (20 bp):
CAAAATTTCCAAGGATTTAG
Found at i:38552225 original size:20 final size:20
Alignment explanation
Indices: 38552173--38552229 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
38552163 AAGGCTTTAG
* * *
38552173 CAAAATTTTCAAGGATTTAT
1 CAAAATTTTTAAAGATTCAT
* *
38552193 CAATATTTCTAAAGATTCAT
1 CAAAATTTTTAAAGATTCAT
38552213 CAAAATTTTTAAAGATT
1 CAAAATTTTTAAAGATT
38552230 TCTTTAGTGT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.40
Consensus pattern (20 bp):
CAAAATTTTTAAAGATTCAT
Found at i:38552375 original size:20 final size:20
Alignment explanation
Indices: 38552320--38552402 Score: 80
Period size: 20 Copynumber: 4.2 Consensus size: 20
38552310 TACCTTAATA
*
38552320 TCTAAAGACTTACCAAAATT
1 TCTAAGGACTTACCAAAATT
* *
38552340 T-TCAAGG-CTTTTCCAAACTT
1 TCT-AAGGAC-TTACCAAAATT
*
38552360 TCTAAGGACTTACCAATATT
1 TCTAAGGACTTACCAAAATT
* *
38552380 TCTAAGGGCTCACCAAAATT
1 TCTAAGGACTTACCAAAATT
38552400 TCT
1 TCT
38552403 TAAGATTTCC
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
19 2 0.04
20 46 0.92
21 2 0.04
ACGTcount: A:0.34, C:0.23, G:0.10, T:0.34
Consensus pattern (20 bp):
TCTAAGGACTTACCAAAATT
Found at i:38552509 original size:20 final size:20
Alignment explanation
Indices: 38552471--38552511 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
38552461 CTAAGAAAAA
* *
38552471 TTTATCAAATTTTATAAGGT
1 TTTATCAAAATTTACAAGGT
*
38552491 TTTATCAAAATTTCCAAGGT
1 TTTATCAAAATTTACAAGGT
38552511 T
1 T
38552512 AAACCAAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.46
Consensus pattern (20 bp):
TTTATCAAAATTTACAAGGT
Found at i:38552538 original size:20 final size:20
Alignment explanation
Indices: 38552515--38552554 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
38552505 CAAGGTTAAA
*
38552515 CCAAAATATCTAAGGATTTG
1 CCAAAATATCTAAAGATTTG
*
38552535 CCAAAATTTCTAAAGATTTG
1 CCAAAATATCTAAAGATTTG
38552555 TTTTGTGCCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (20 bp):
CCAAAATATCTAAAGATTTG
Found at i:38562847 original size:50 final size:50
Alignment explanation
Indices: 38562647--38562943 Score: 217
Period size: 50 Copynumber: 5.8 Consensus size: 50
38562637 ATTTGGGTAA
* *
38562647 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTCGCACCGAGAT-
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * *
38562696 ATGAGGTCCCATGTAAGACCATGTTTGGGACCTAGCATTGGCATCATTGAGATTATG
1 A-GAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
* * * * *
38562753 AGATGTCTCATGTAAGACCATGTTTGGGACATGGCGTTGCCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * * *
38562803 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCGATACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * * * *
38562853 AGAACTCTCATGTAAGACCATATTTGGGATATGACATTTGAAGTA-C-AGA--
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCA-TTG--GCACCGAGATG
* ** *
38562902 AAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
38562944 TGTTATTATT
Statistics
Matches: 192, Mismatches: 45, Indels: 25
0.73 0.17 0.10
Matches are distributed among these distances:
46 2 0.01
48 3 0.02
49 28 0.15
50 106 0.55
51 5 0.03
52 1 0.01
53 8 0.04
55 1 0.01
56 37 0.19
57 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.25
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:38569440 original size:50 final size:53
Alignment explanation
Indices: 38569332--38569472 Score: 153
Period size: 56 Copynumber: 2.7 Consensus size: 53
38569322 ATTTGTGTAA
* * * *
38569332 AGAGGTCTCATGTAAGACCATGTCTGGAACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTAGCATCA-CGAG--TATG
* *
38569388 AGATGTCCCATGTAAGACCATGTCTGGGACATGGCGTTAGCA-C-CGAG-ATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTAGCATCACGAGTATG
* * *
38569438 AGAGGTCCCCTATAAGACCATGTCTGGGAGATGGC
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGC
38569473 TTTCACATGT
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
50 34 0.45
53 3 0.04
55 1 0.01
56 37 0.49
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (53 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTAGCATCACGAGTATG
Found at i:38572615 original size:40 final size:39
Alignment explanation
Indices: 38572571--38572712 Score: 194
Period size: 40 Copynumber: 3.6 Consensus size: 39
38572561 CGGACGAGCG
*
38572571 ATACCTACTGAATCTAGTGAAACGTATATGCTTTCAAGCC
1 ATACCTACTGAATCTACTGAAACGTATA-GCTTTCAAGCC
*
38572611 ATACCTACTGAATCTACTGAAACATATGAGCTTTCAAGCC
1 ATACCTACTGAATCTACTGAAACGTAT-AGCTTTCAAGCC
* * *
38572651 ATACCTACTGAATCTACTGAAATGTATGCGCTCTCAAGCC
1 ATACCTACTGAATCTACTGAAACGTAT-AGCTTTCAAGCC
* *
38572691 AGACCTACTGAATCTATTGAAA
1 ATACCTACTGAATCTACTGAAA
38572713 AGAATGCTCT
Statistics
Matches: 93, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
40 92 0.99
41 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (39 bp):
ATACCTACTGAATCTACTGAAACGTATAGCTTTCAAGCC
Found at i:38574090 original size:15 final size:15
Alignment explanation
Indices: 38574066--38574097 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
38574056 TATGTATGAA
*
38574066 AAATATAAAAGACAT
1 AAATACAAAAGACAT
38574081 AAATACAAAAGACAT
1 AAATACAAAAGACAT
38574096 AA
1 AA
38574098 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:38586954 original size:22 final size:23
Alignment explanation
Indices: 38586929--38586974 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
38586919 TGTGTTGTGG
38586929 CTAATATGAAA-ACAATTGATGC
1 CTAATATGAAAGACAATTGATGC
38586951 CTAATATGAAAGACAATTGATGC
1 CTAATATGAAAGACAATTGATGC
38586974 C
1 C
38586975 CTTAATTGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.26
Consensus pattern (23 bp):
CTAATATGAAAGACAATTGATGC
Found at i:38590432 original size:17 final size:17
Alignment explanation
Indices: 38590390--38590432 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
38590380 GGTATAACCG
38590390 TCATAAAATAAAATTAC
1 TCATAAAATAAAATTAC
* *
38590407 T-ATAGAAATTAAATTCC
1 TCATA-AAATAAAATTAC
38590424 TCATAAAAT
1 TCATAAAAT
38590433 GAGGTACATA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 3 0.14
17 16 0.73
18 3 0.14
ACGTcount: A:0.53, C:0.12, G:0.02, T:0.33
Consensus pattern (17 bp):
TCATAAAATAAAATTAC
Found at i:38594785 original size:120 final size:120
Alignment explanation
Indices: 38594597--38594828 Score: 437
Period size: 120 Copynumber: 1.9 Consensus size: 120
38594587 TCACCTTATT
38594597 AGGATCCACTTTAATACCTTCGATAGAAATCACATGGCCCAAAAAATGTACTTCTCTCAACAGAA
1 AGGATCCACTTTAATACCTTCGATAGAAATCACATGGCCCAAAAAATGTACTTCTCTCAACAGAA
*
38594662 CTCACACTTACTCAACTTGGTATATAACTAATTCACACGTAATGCCCGCCTTAAC
66 CTCACACTTACTCAACTCGGTATATAACTAATTCACACGTAATGCCCGCCTTAAC
* *
38594717 AGGATCCACTTTAATACCTTCGATAGAAATCACATGGCCCAAAAAATGTACTTCTCTCAGCATAA
1 AGGATCCACTTTAATACCTTCGATAGAAATCACATGGCCCAAAAAATGTACTTCTCTCAACAGAA
38594782 CTCACACTTACTCAACTCGGTATATAACTAATTCACACGTAATGCCC
66 CTCACACTTACTCAACTCGGTATATAACTAATTCACACGTAATGCCC
38594829 TCAGATAATC
Statistics
Matches: 109, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 109 1.00
ACGTcount: A:0.35, C:0.28, G:0.11, T:0.27
Consensus pattern (120 bp):
AGGATCCACTTTAATACCTTCGATAGAAATCACATGGCCCAAAAAATGTACTTCTCTCAACAGAA
CTCACACTTACTCAACTCGGTATATAACTAATTCACACGTAATGCCCGCCTTAAC
Found at i:38595271 original size:20 final size:20
Alignment explanation
Indices: 38595245--38595289 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
38595235 AAGTACTAGA
*
38595245 AGCTTGTCTACAATTCTGGT
1 AGCTTGTCCACAATTCTGGT
* *
38595265 GGCTTGTCCATAATTCTGGT
1 AGCTTGTCCACAATTCTGGT
38595285 AGCTT
1 AGCTT
38595290 TTCTGTAACT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.18, C:0.20, G:0.22, T:0.40
Consensus pattern (20 bp):
AGCTTGTCCACAATTCTGGT
Found at i:38598167 original size:27 final size:27
Alignment explanation
Indices: 38598132--38598209 Score: 97
Period size: 27 Copynumber: 2.9 Consensus size: 27
38598122 ATATAACCCT
38598132 GTGTTTATTGTCTCGTCAGACTATCTC
1 GTGTTTATTGTCTCGTCAGACTATCTC
*
38598159 GTGTTTATTGTC-CTGAT-GGACTATCTC
1 GTGTTTATTGTCTC-G-TCAGACTATCTC
* *
38598186 ATGTTTAGTGTCTCGTCAGACTAT
1 GTGTTTATTGTCTCGTCAGACTAT
38598210 TCCATGATTA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
26 2 0.05
27 39 0.91
28 2 0.05
ACGTcount: A:0.17, C:0.19, G:0.21, T:0.44
Consensus pattern (27 bp):
GTGTTTATTGTCTCGTCAGACTATCTC
Found at i:38598234 original size:54 final size:54
Alignment explanation
Indices: 38598133--38598235 Score: 122
Period size: 54 Copynumber: 1.9 Consensus size: 54
38598123 TATAACCCTG
* * * *
38598133 TGTTTATTGTCTCGTCAGACTATCTCGTGTTTATTGTCCTGATGGACTATCTCA
1 TGTTTAGTGTCTCGTCAGACTATCTCATGTTAATTGTCCTCATGGACTATCTCA
38598187 TGTTTAGTGTCTCGTCAGACTAT-TCCATGATTAATT-TCC-CATCGGACTA
1 TGTTTAGTGTCTCGTCAGACTATCT-CATG-TTAATTGTCCTCAT-GGACTA
38598236 CTTACGATGC
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
53 3 0.07
54 34 0.81
55 5 0.12
ACGTcount: A:0.19, C:0.21, G:0.17, T:0.42
Consensus pattern (54 bp):
TGTTTAGTGTCTCGTCAGACTATCTCATGTTAATTGTCCTCATGGACTATCTCA
Found at i:38600366 original size:32 final size:30
Alignment explanation
Indices: 38600325--38600394 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 30
38600315 ATTCCAAAAA
38600325 TAATATTATTTTAATAGT-TTAATATTTAATT
1 TAATATTATTTTAATAGTATT-ATA-TTAATT
*
38600356 TAATACTTATTTTAATAGTATTTTATTAATT
1 TAATA-TTATTTTAATAGTATTATATTAATT
38600387 TAATATTA
1 TAATATTA
38600395 AATTAATTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
30 3 0.08
31 16 0.44
32 15 0.42
33 2 0.06
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (30 bp):
TAATATTATTTTAATAGTATTATATTAATT
Found at i:38600393 original size:11 final size:11
Alignment explanation
Indices: 38600342--38600401 Score: 54
Period size: 12 Copynumber: 5.5 Consensus size: 11
38600332 ATTTTAATAG
38600342 TTTAATATTTAA
1 TTTAATA-TTAA
*
38600354 TTTAATACTTAT
1 TTTAATA-TTAA
*
38600366 TTTAATAGT-A
1 TTTAATATTAA
38600376 TTT--TATTAA
1 TTTAATATTAA
38600385 TTTAATATTAA
1 TTTAATATTAA
*
38600396 ATTAAT
1 TTTAAT
38600402 TATCTTAATA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
8 3 0.08
9 4 0.10
10 3 0.08
11 12 0.31
12 17 0.44
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (11 bp):
TTTAATATTAA
Found at i:38603316 original size:43 final size:43
Alignment explanation
Indices: 38603217--38603318 Score: 132
Period size: 43 Copynumber: 2.4 Consensus size: 43
38603207 CACACACCCG
* *
38603217 TGTGGCCAAGCCGTGTGCCTCACACGGCCAAGACACACGCCCA
1 TGTGGCCAAGCCGTGTGCCTCACACAGCCAAGACACACGACCA
* * * * * *
38603260 TGTGACTAGGCCGTGTGCCTCACACAGTCGAGACACATGACCA
1 TGTGGCCAAGCCGTGTGCCTCACACAGCCAAGACACACGACCA
38603303 TGTGGCCAAGCCGTGT
1 TGTGGCCAAGCCGTGT
38603319 AACTCTCTGA
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.23, C:0.33, G:0.27, T:0.17
Consensus pattern (43 bp):
TGTGGCCAAGCCGTGTGCCTCACACAGCCAAGACACACGACCA
Found at i:38611357 original size:14 final size:15
Alignment explanation
Indices: 38611333--38611361 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
38611323 TTTTTCTGTG
38611333 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
38611348 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
38611362 AGTTTCGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:38611580 original size:15 final size:14
Alignment explanation
Indices: 38611556--38611609 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 14
38611546 AGTTTTTATA
*
38611556 ATAATTATAAAGTTT
1 ATAATAATAAAG-TT
*
38611571 ATAATAATAAA-TA
1 ATAATAATAAAGTT
*
38611584 ATATATTATAAAGTT
1 ATA-ATAATAAAGTT
38611599 ATAATAATAAA
1 ATAATAATAAA
38611610 AACAAACATA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
13 4 0.12
14 14 0.44
15 14 0.44
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (14 bp):
ATAATAATAAAGTT
Found at i:38611600 original size:28 final size:28
Alignment explanation
Indices: 38611553--38611609 Score: 98
Period size: 28 Copynumber: 2.0 Consensus size: 28
38611543 TATAGTTTTT
38611553 ATAATAATTATAAAGTTTATAATAATAA
1 ATAATAATTATAAAGTTTATAATAATAA
38611581 ATAATATATTATAAAG-TTATAATAATAA
1 ATAATA-ATTATAAAGTTTATAATAATAA
38611609 A
1 A
38611610 AACAAACATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 19 0.68
29 9 0.32
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.39
Consensus pattern (28 bp):
ATAATAATTATAAAGTTTATAATAATAA
Found at i:38613373 original size:41 final size:41
Alignment explanation
Indices: 38613310--38613388 Score: 115
Period size: 41 Copynumber: 1.9 Consensus size: 41
38613300 TCGGATTTAT
*
38613310 TGCCAGTGAAATACTTCAGAC-TTAATGTCTAGCAGGCTTGA
1 TGCCAGTGAAATAATTCAGACTTTAA-GTCTAGCAGGCTTGA
* *
38613351 TGCCGGTGAAATAATTCGGACTTTAAGTCTAGCAGGCT
1 TGCCAGTGAAATAATTCAGACTTTAAGTCTAGCAGGCT
38613389 AAGTGCCGGT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
41 30 0.88
42 4 0.12
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (41 bp):
TGCCAGTGAAATAATTCAGACTTTAAGTCTAGCAGGCTTGA
Found at i:38613396 original size:41 final size:41
Alignment explanation
Indices: 38613338--38613483 Score: 147
Period size: 41 Copynumber: 3.6 Consensus size: 41
38613328 GACTTAATGT
* *
38613338 CTAGCAGGCT-TGATGCCGGTGAAAT-AATTC-GGACTTTAAGT
1 CTAGCAGGCTAAG-TGCCGGTGAAATGAA-TCAGG-CTTTAAGC
** *
38613379 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGG-TTGTAAAC
1 CTAGCAGGCTAAGTGCCGGTGAAATGAATCAGGCTT-TAAGC
* ** *
38613420 CTAGCAGGCTAAGTGCGGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGAAATGAATCAGGCTTTAAGC
38613461 CTAGCAGGCTAAGTGCCGGTGAA
1 CTAGCAGGCTAAGTGCCGGTGAA
38613484 TATGTTAAAT
Statistics
Matches: 90, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
40 2 0.02
41 82 0.91
42 6 0.07
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGAAATGAATCAGGCTTTAAGC
Found at i:38615756 original size:44 final size:44
Alignment explanation
Indices: 38615705--38615891 Score: 114
Period size: 44 Copynumber: 4.3 Consensus size: 44
38615695 CAAAACATCG
* *
38615705 GGGAGATAGGATTCGCTGTCTTCGATCTGCTCCACTACTGCTTA
1 GGGAGATAAGATTCGCTGTCTTCAATCTGCTCCACTACTGCTTA
*** * * * * * *
38615749 GGGAGATAAGA-TCTGAAATTTTCAACCTACTCCATTGCTGCTCA
1 GGGAGATAAGATTC-GCTGTCTTCAATCTGCTCCACTACTGCTTA
* * * * * *
38615793 GGGAAATAGGACTT-G-TGGCTTAAATCTGCTTCC-CTACT-CCTG
1 GGGAGATAAGA-TTCGCTGTCTTCAATCTGC-TCCACTACTGCTTA
* * * *
38615835 GGGAGGATAAAATTCGCCGTCTTCGATCTGCTCCATTACTGCTTA
1 GGGA-GATAAGATTCGCTGTCTTCAATCTGCTCCACTACTGCTTA
38615880 GGGAGATAAGAT
1 GGGAGATAAGAT
38615892 CTAAAATTCT
Statistics
Matches: 98, Mismatches: 36, Indels: 18
0.64 0.24 0.12
Matches are distributed among these distances:
42 7 0.07
43 20 0.20
44 64 0.65
45 6 0.06
46 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (44 bp):
GGGAGATAAGATTCGCTGTCTTCAATCTGCTCCACTACTGCTTA
Found at i:38616058 original size:44 final size:44
Alignment explanation
Indices: 38615984--38616263 Score: 169
Period size: 44 Copynumber: 6.4 Consensus size: 44
38615974 AAGATCCTTT
* * * * *
38615984 ACTGTAATATTAGGGAAATAGGATTACTGGCTTCAATCTGCTCC
1 ACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCC
* * *
38616028 GCTGTAATCTCAGGGAGATACGATTTCTGGCTTCAATTTGCTCC
1 ACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCC
* * * **
38616072 ACTGTAA-CTTCAGGGAGATAAGATTTGAAAT-TCTTCAGTCTATTCC
1 ACTGTAATC-TCAGGGAGATAAGATTT---CTGGCTTCAATCTGCTCC
* * * * * *
38616118 ACTGTAATCTCAGGGAGATAAGA--CCT-GATGCGATCTACTCT
1 ACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCC
* * * ** * *
38616159 ACTGTAATTTTAGAGAGATAAGATCCTT-T-ATTTTAATCCGCTCC
1 ACTGTAATCTCAGGGAGATAAGAT--TTCTGGCTTCAATCTGCTCC
* * *
38616203 ACTGTAATCTCAGGGAAATAGGATTACTGGCTTCAATCTGCTCC
1 ACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCC
** *
38616247 GTTGTAATCTCAAGGAG
1 ACTGTAATCTCAGGGAG
38616264 GTAAAATCCG
Statistics
Matches: 175, Mismatches: 50, Indels: 22
0.71 0.20 0.09
Matches are distributed among these distances:
41 29 0.17
42 1 0.01
43 2 0.01
44 110 0.63
46 31 0.18
47 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.33
Consensus pattern (44 bp):
ACTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGCTCC
Found at i:38634111 original size:44 final size:44
Alignment explanation
Indices: 38634048--38634136 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
38634038 CCTAGTAACC
38634048 ATGTAATTATCATCACATTACAATCAAAGATTAACTCGGTACAT
1 ATGTAATTATCATCACATTACAATCAAAGATTAACTCGGTACAT
*
38634092 ATGTAATTATCATCACATTATAATCAAAGATTAACTCGGTACAT
1 ATGTAATTATCATCACATTACAATCAAAGATTAACTCGGTACAT
38634136 A
1 A
38634137 CTTCACCTAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.33
Consensus pattern (44 bp):
ATGTAATTATCATCACATTACAATCAAAGATTAACTCGGTACAT
Found at i:38636691 original size:35 final size:35
Alignment explanation
Indices: 38636628--38636698 Score: 92
Period size: 35 Copynumber: 2.0 Consensus size: 35
38636618 TCTAAGATCA
*
38636628 CATATCTCTGAAGATCACCTTTATTATTTTCCAAG
1 CATATCTCTGAAGATCACCTTTATTATTTACCAAG
*
38636663 CATATCTTTGAAGATCA-CTTTCCA-TATTTACCAAG
1 CATATCTCTGAAGATCACCTTT--ATTATTTACCAAG
38636698 C
1 C
38636699 TCCAAAGATG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
34 4 0.12
35 27 0.84
36 1 0.03
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.38
Consensus pattern (35 bp):
CATATCTCTGAAGATCACCTTTATTATTTACCAAG
Found at i:38650093 original size:30 final size:31
Alignment explanation
Indices: 38650067--38650125 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
38650057 GTAAATACTC
* *
38650067 AAAACTTGAGGGACTAA-AGTGTAAATATGA
1 AAAACTTGAAGGACCAATAGTGTAAATATGA
*
38650097 AAAATTTGAAGGACCAATAGTGTAAATAT
1 AAAACTTGAAGGACCAATAGTGTAAATAT
38650126 TTTAAGGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.47, C:0.07, G:0.20, T:0.25
Consensus pattern (31 bp):
AAAACTTGAAGGACCAATAGTGTAAATATGA
Found at i:38664601 original size:50 final size:50
Alignment explanation
Indices: 38664535--38664769 Score: 254
Period size: 50 Copynumber: 4.6 Consensus size: 50
38664525 TAATGTCATA
* ** * *
38664535 TCCCAGATATGGTCTTACATGGGAGTTCTCATATCGATGCCCATGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATATCGATGCCAACGCCATG
** * *
38664585 TCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATATCGATGCCAACGCCATG
* * * * *
38664635 TCCCAAACATGGTCTTACATGGGACCTCTCATCTCGGTGACAACGCCATT
1 TCCCAGACATGGTCTTACATGGGACCTCTCATATCGATGCCAACGCCATG
*
38664685 TCCCAGACATGGTCTTACATGGGACCTCTCATGATCTCAAGGATGCCAAGGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GATGCCAACGCCATG
* * *
38664741 ACCCAGACATGGTCTTACATTGGATCTCT
1 TCCCAGACATGGTCTTACATGGGACCTCT
38664770 TTACCCAAAT
Statistics
Matches: 156, Mismatches: 23, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
50 117 0.75
53 2 0.01
56 37 0.24
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.26
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGGGACCTCTCATATCGATGCCAACGCCATG
Found at i:38664791 original size:106 final size:100
Alignment explanation
Indices: 38664585--38664769 Score: 217
Period size: 106 Copynumber: 1.8 Consensus size: 100
38664575 CCATGCCATG
* *
38664585 TCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAAACATGGTCT
1 TCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAACGCCATGACCCAAACATGGTCT
* ** *
38664650 TACATGGGACCTCTCATCTCGGTGACAACGCCATT
66 TACATGGGACCTCTCATCCCAATGACAACGACATT
* * *
38664685 TCCCAGACATGGTCTTACATGGGACCTCTCATGATCTCAAGGATGCCAAGGCCATGACCCAGACA
1 TCCCAGACATGGTCTTACAGGGGACCTCTC---ATCTC--GG-TGCCAACGCCATGACCCAAACA
* *
38664750 TGGTCTTACATTGGATCTCT
60 TGGTCTTACATGGGACCTCT
38664770 TTACCCAAAT
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
100 28 0.39
103 5 0.07
105 2 0.03
106 37 0.51
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.25
Consensus pattern (100 bp):
TCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAACGCCATGACCCAAACATGGTCT
TACATGGGACCTCTCATCCCAATGACAACGACATT
Found at i:38665678 original size:20 final size:20
Alignment explanation
Indices: 38665653--38665695 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
38665643 ATTGTTCCTA
38665653 ACTTAAAAATGTCCTATTTC
1 ACTTAAAAATGTCCTATTTC
38665673 ACTTAAAAATGTCCTATTTC
1 ACTTAAAAATGTCCTATTTC
38665693 ACT
1 ACT
38665696 CATCTCATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.35, C:0.21, G:0.05, T:0.40
Consensus pattern (20 bp):
ACTTAAAAATGTCCTATTTC
Found at i:38666401 original size:105 final size:101
Alignment explanation
Indices: 38666247--38666443 Score: 252
Period size: 105 Copynumber: 1.9 Consensus size: 101
38666237 TACACTCATA
** *
38666247 ATGCCATAACCCAGTTATGGCCTTATCATCAGGATACCATAGCCTAGCTATGGTCTTACACGTAT
1 ATGCCATAACCCAGTTATGGCCTTATCATCAAAATACCATAGCCCAGCTATGGTCTTACA--T-T
* *
38666312 -ACACTTTCTACCATGGTCCAACCATGGTCTTACGTTTAAG
63 CAAACATT-T-CCATGGTCCAACCATGGTCTTACGTTTAAG
* * * **
38666352 ATGCCATAACCCAGTTATGGTCTTTTCATTAAAATGTCATAGCCCAGCTATGGTCTTACATTCAA
1 ATGCCATAACCCAGTTATGGCCTTATCATCAAAATACCATAGCCCAGCTATGGTCTTACATTCAA
38666417 ACATTTCCATGGTCCAACCATGGTCTT
66 ACATTTCCATGGTCCAACCATGGTCTT
38666444 GTCCGTCAAT
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
101 21 0.26
102 2 0.02
103 6 0.07
105 52 0.64
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (101 bp):
ATGCCATAACCCAGTTATGGCCTTATCATCAAAATACCATAGCCCAGCTATGGTCTTACATTCAA
ACATTTCCATGGTCCAACCATGGTCTTACGTTTAAG
Found at i:38669031 original size:11 final size:12
Alignment explanation
Indices: 38669005--38669038 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
38668995 TAGGTTTCCA
38669005 AAAATGGAAATG
1 AAAATGGAAATG
* *
38669017 GAAATGAAAATG
1 AAAATGGAAATG
38669029 AAAATGGAAA
1 AAAATGGAAA
38669039 CTTGCAATCC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.24, T:0.15
Consensus pattern (12 bp):
AAAATGGAAATG
Found at i:38674070 original size:47 final size:46
Alignment explanation
Indices: 38673995--38674444 Score: 666
Period size: 47 Copynumber: 9.5 Consensus size: 46
38673985 CACAATTGCC
* * * * * *
38673995 ATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCTCT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC-CT
*
38674042 GTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
*
38674088 CATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCT
1 -ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
38674135 CATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 -ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
*
38674182 CATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCT
1 -ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
38674229 CATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 -ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC-T
38674277 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCC-T
* *
38674326 ATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTT
1 ATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCC-T
38674375 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC-T
* *
38674422 ATCACATATATATACATTCACAT
1 ATCACATATATACACTTTCACAT
38674445 CACAATTATC
Statistics
Matches: 381, Mismatches: 18, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
46 2 0.01
47 284 0.75
48 1 0.00
49 94 0.25
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (46 bp):
ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
Found at i:38680346 original size:14 final size:14
Alignment explanation
Indices: 38680307--38680350 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 14
38680297 TAAAACATAG
38680307 ATTAATTAAG-TTAA
1 ATTAATTAAGATT-A
38680321 ATTATGATTAAGATTA
1 ATTA--ATTAAGATTA
38680337 ATTAATTAAGATTA
1 ATTAATTAAGATTA
38680351 CACTATGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 14 0.52
16 11 0.41
17 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (14 bp):
ATTAATTAAGATTA
Done.