Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 97 of 163
Found at i:31195313 original size:30 final size:31
Alignment explanation
Indices: 31195234--31195320 Score: 92
Period size: 30 Copynumber: 2.9 Consensus size: 31
31195224 CCCACATGTA
* * *
31195234 AAAAAATTAATAAATTTAGCCCTTAATGTTT
1 AAAAATTTAATAAATTTATCCCTTAATGTCT
*
31195265 ATAAAATTT--TACATTTATCCCTCT-AT-TCT
1 A-AAAATTTAATAAATTTATCCCT-TAATGTCT
31195294 AAAAATTTAATAAATTTATCCCTTAAT
1 AAAAATTTAATAAATTTATCCCTTAAT
31195321 CTTTACAAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
28 7 0.15
29 4 0.09
30 27 0.59
31 2 0.04
32 6 0.13
ACGTcount: A:0.41, C:0.14, G:0.02, T:0.43
Consensus pattern (31 bp):
AAAAATTTAATAAATTTATCCCTTAATGTCT
Found at i:31202660 original size:22 final size:20
Alignment explanation
Indices: 31202614--31202664 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
31202604 AGATGACTTG
*
31202614 GTAATTAAATTTATTTTTTT
1 GTAATTAAATTTATTATTTT
*
31202634 G-AATTATTATTTAATTATTTT
1 GTAATTA-AATTT-ATTATTTT
31202655 GTAATTAAAT
1 GTAATTAAAT
31202665 AATTTAAGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 5 0.20
20 5 0.20
21 10 0.40
22 5 0.20
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (20 bp):
GTAATTAAATTTATTATTTT
Found at i:31216965 original size:14 final size:15
Alignment explanation
Indices: 31216931--31216969 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
31216921 CTTAATGGTT
*
31216931 AATTAATTAAGCTTA
1 AATTAATTAAACTTA
*
31216946 AGTTAATTAAAC-TA
1 AATTAATTAAACTTA
31216960 AATTAATTAA
1 AATTAATTAA
31216970 TCTTTAATCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.38
Consensus pattern (15 bp):
AATTAATTAAACTTA
Found at i:31222137 original size:20 final size:22
Alignment explanation
Indices: 31222112--31222151 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
31222102 TTATTGAATA
31222112 TAACTAAAAC-TAA-GAAAACT
1 TAACTAAAACATAACGAAAACT
31222132 TAACTAAAACATAACGAAAA
1 TAACTAAAACATAACGAAAA
31222152 TGATATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 3 0.17
22 5 0.28
ACGTcount: A:0.62, C:0.15, G:0.05, T:0.17
Consensus pattern (22 bp):
TAACTAAAACATAACGAAAACT
Found at i:31223945 original size:17 final size:18
Alignment explanation
Indices: 31223923--31223956 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
31223913 ATAATTGTAA
31223923 TTTAAAT-TCTAATTATT
1 TTTAAATGTCTAATTATT
*
31223940 TTTAAATGTGTAATTAT
1 TTTAAATGTCTAATTAT
31223957 CATGATTTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTAAATGTCTAATTATT
Found at i:31224331 original size:21 final size:20
Alignment explanation
Indices: 31224296--31224336 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
31224286 TTCAAATAAT
*
31224296 ATAATTGAAAATTTTCAATA
1 ATAATTAAAAATTTTCAATA
*
31224316 ATAATTAAATAATTTTTAATA
1 ATAATTAAA-AATTTTCAATA
31224337 TATTCAGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (20 bp):
ATAATTAAAAATTTTCAATA
Found at i:31225589 original size:9 final size:9
Alignment explanation
Indices: 31225575--31225611 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
31225565 TATAGTTTGA
31225575 TATTCGAAT
1 TATTCGAAT
31225584 TATTCGAAT
1 TATTCGAAT
* *
31225593 TATTTGAGT
1 TATTCGAAT
31225602 TATTCGAAT
1 TATTCGAAT
31225611 T
1 T
31225612 CGAAAACCCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:31240569 original size:16 final size:16
Alignment explanation
Indices: 31240547--31240582 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
31240537 CCGCACTTCG
31240547 GAAAAAAAAGA-AAAA
1 GAAAAAAAAGACAAAA
*
31240562 GAAAAAAAGGACAAAA
1 GAAAAAAAAGACAAAA
31240578 GAAAA
1 GAAAA
31240583 TATCTATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.81, C:0.03, G:0.17, T:0.00
Consensus pattern (16 bp):
GAAAAAAAAGACAAAA
Found at i:31254615 original size:43 final size:43
Alignment explanation
Indices: 31254549--31254677 Score: 156
Period size: 43 Copynumber: 3.0 Consensus size: 43
31254539 AAGCTCGTAC
* *
31254549 AAGCCAACGTCCCAGACGTGGTCTTACATGTAATCA-AATATCG
1 AAGCCAACGTCCCAGACGTGGTCTTACACGTAAACACAA-ATCG
31254592 AAGCC-ACTGTCCCAGACAG-GGTCTTACACGTAAACACAAATCG
1 AAGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAACACAAATCG
* * * *
31254635 ATGCCAACGTCCCAAACGTGGTCTTACACGAAAACACATATCG
1 AAGCCAACGTCCCAGACGTGGTCTTACACGTAAACACAAATCG
31254678 GAGGTCCTAT
Statistics
Matches: 75, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
42 3 0.04
43 67 0.89
44 5 0.07
ACGTcount: A:0.34, C:0.29, G:0.18, T:0.19
Consensus pattern (43 bp):
AAGCCAACGTCCCAGACGTGGTCTTACACGTAAACACAAATCG
Found at i:31257148 original size:11 final size:11
Alignment explanation
Indices: 31257111--31257152 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
31257101 TATAATTTTT
31257111 ATTTTTAA-AA
1 ATTTTTAACAA
31257121 ATATTTTAACATA
1 AT-TTTTAACA-A
*
31257134 ATTTTTAACAC
1 ATTTTTAACAA
31257145 ATTTTTAA
1 ATTTTTAA
31257153 TGATTTTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
10 2 0.07
11 14 0.50
12 9 0.32
13 3 0.11
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (11 bp):
ATTTTTAACAA
Found at i:31259882 original size:23 final size:26
Alignment explanation
Indices: 31259825--31259881 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 26
31259815 GTTTGGAATC
31259825 TATTAGATTAAATTAATTTTTTATTAT
1 TATTA-ATTAAATTAATTTTTTATTAT
31259852 TAAGTTAATT-AATTAATTTTTATATTAT
1 T-A-TTAATTAAATTAATTTTT-TATTAT
31259880 TA
1 TA
31259882 AAAAAATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
27 13 0.48
28 11 0.41
29 3 0.11
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.58
Consensus pattern (26 bp):
TATTAATTAAATTAATTTTTTATTAT
Found at i:31259889 original size:28 final size:27
Alignment explanation
Indices: 31259835--31259891 Score: 78
Period size: 28 Copynumber: 2.1 Consensus size: 27
31259825 TATTAGATTA
***
31259835 AATTAATTTTTTATTATTAAGTTAATT
1 AATTAATTTTTTATTATTAAAAAAATT
31259862 AATTAATTTTTATATTATTAAAAAAATT
1 AATTAATTTTT-TATTATTAAAAAAATT
31259890 AA
1 AA
31259892 ATAAATTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 11 0.42
28 15 0.58
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (27 bp):
AATTAATTTTTTATTATTAAAAAAATT
Found at i:31266341 original size:1 final size:1
Alignment explanation
Indices: 31266335--31266379 Score: 90
Period size: 1 Copynumber: 45.0 Consensus size: 1
31266325 TGTTTTAGTG
31266335 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
31266380 ACGTTTCATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:31266613 original size:31 final size:31
Alignment explanation
Indices: 31266575--31266645 Score: 133
Period size: 31 Copynumber: 2.3 Consensus size: 31
31266565 ATTATAAATT
*
31266575 AGTCACTAAACTATTCAAAAGTTTTCATTTA
1 AGTCACTAAACTATTCAAAAATTTTCATTTA
31266606 AGTCACTAAACTATTCAAAAATTTTCATTTA
1 AGTCACTAAACTATTCAAAAATTTTCATTTA
31266637 AGTCACTAA
1 AGTCACTAA
31266646 GTTGTTAAGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.41, C:0.17, G:0.06, T:0.37
Consensus pattern (31 bp):
AGTCACTAAACTATTCAAAAATTTTCATTTA
Found at i:31269781 original size:19 final size:19
Alignment explanation
Indices: 31269759--31269795 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
31269749 TTTAAAATAC
*
31269759 TTTTAAAATTATTTTTTAT
1 TTTTAAAATAATTTTTTAT
31269778 TTTTAAAATAATTTTTTA
1 TTTTAAAATAATTTTTTA
31269796 ATGTTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTTAAAATAATTTTTTAT
Found at i:31269802 original size:20 final size:19
Alignment explanation
Indices: 31269760--31269802 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
31269750 TTAAAATACT
* *
31269760 TTTAAAATTATTTTTTATT
1 TTTAAAATAATTTTTTATG
31269779 TTTAAAATAATTTTTTAATG
1 TTTAAAATAATTTTTT-ATG
31269799 TTTA
1 TTTA
31269803 TTTTAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTAAAATAATTTTTTATG
Found at i:31280448 original size:26 final size:27
Alignment explanation
Indices: 31280419--31280478 Score: 81
Period size: 24 Copynumber: 2.3 Consensus size: 27
31280409 GTAAAATAAC
*
31280419 TTAAAATAAAATGATATATAAAG-AAT
1 TTAAAATAAAATGATATATAAAGCAAG
*
31280445 TTAAAAT--AATGATCTATAAAGCAAG
1 TTAAAATAAAATGATATATAAAGCAAG
31280470 TTAAAATAA
1 TTAAAATAA
31280479 TCATATACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
24 13 0.45
25 9 0.31
26 7 0.24
ACGTcount: A:0.58, C:0.03, G:0.08, T:0.30
Consensus pattern (27 bp):
TTAAAATAAAATGATATATAAAGCAAG
Found at i:31280449 original size:21 final size:21
Alignment explanation
Indices: 31280425--31280505 Score: 74
Period size: 21 Copynumber: 3.7 Consensus size: 21
31280415 TAACTTAAAA
*
31280425 TAAAATGATATATAAAGAATT
1 TAAAATAATATATAAAGAATT
*
31280446 TAAAATAATGATCTATAAAGCAAGT
1 TAAAATAAT-A--TATAAAG-AATT
*
31280471 TAAAATAATCATATACA-AATT
1 TAAAATAAT-ATATAAAGAATT
*
31280492 TAACATAATATATA
1 TAAAATAATATATA
31280506 CATATATACA
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
20 5 0.10
21 19 0.38
22 1 0.02
23 5 0.10
24 7 0.14
25 13 0.26
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.32
Consensus pattern (21 bp):
TAAAATAATATATAAAGAATT
Found at i:31280462 original size:24 final size:25
Alignment explanation
Indices: 31280419--31280485 Score: 82
Period size: 25 Copynumber: 2.6 Consensus size: 25
31280409 GTAAAATAAC
*
31280419 TTAAAATAAAATGATATATAAAG-AAT
1 TTAAAAT--AATGATATATAAAGCAAG
*
31280445 TTAAAATAATGATCTATAAAGCAAG
1 TTAAAATAATGATATATAAAGCAAG
*
31280470 TTAAAATAATCATATA
1 TTAAAATAATGATATA
31280486 CAAATTTAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
24 13 0.36
25 16 0.44
26 7 0.19
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.31
Consensus pattern (25 bp):
TTAAAATAATGATATATAAAGCAAG
Found at i:31291037 original size:14 final size:15
Alignment explanation
Indices: 31291018--31291051 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
31291008 TCATATAGCA
31291018 TCATAACTCAAATG-
1 TCATAACTCAAATGT
*
31291032 TCATAACTCATATGT
1 TCATAACTCAAATGT
31291047 TCATA
1 TCATA
31291052 TAATTATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.35
Consensus pattern (15 bp):
TCATAACTCAAATGT
Found at i:31291109 original size:2 final size:2
Alignment explanation
Indices: 31291102--31291127 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
31291092 AACTCATCAC
31291102 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
31291128 TCACTCAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31291479 original size:104 final size:105
Alignment explanation
Indices: 31291288--31291497 Score: 404
Period size: 104 Copynumber: 2.0 Consensus size: 105
31291278 CTATGGTAGT
31291288 CCTAGAACCGACTAAACCATAGCTCTGATACCAATAAAATGTAACACCCATAACCCGTATCCATT
1 CCTAGAACCGACTAAACCATAGCTCTGATACCAATAAAATGTAACACCCATAACCCGTATCCATT
31291353 GCCGGAATAGGGTTACAACGCATTACCATATAAAACACGG
66 GCCGGAATAGGGTTACAACGCATTACCATATAAAACACGG
31291393 CCTAGAACCG-CTAAACCATAGCTCTGATACCAATAAAATGTAACACCCATAACCCGTATCCATT
1 CCTAGAACCGACTAAACCATAGCTCTGATACCAATAAAATGTAACACCCATAACCCGTATCCATT
*
31291457 GCCGGAATAGGGTTACAACGCATTACCCTATAAAACACGG
66 GCCGGAATAGGGTTACAACGCATTACCATATAAAACACGG
31291497 C
1 C
31291498 TCAAAATAGT
Statistics
Matches: 104, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
104 94 0.90
105 10 0.10
ACGTcount: A:0.37, C:0.29, G:0.14, T:0.20
Consensus pattern (105 bp):
CCTAGAACCGACTAAACCATAGCTCTGATACCAATAAAATGTAACACCCATAACCCGTATCCATT
GCCGGAATAGGGTTACAACGCATTACCATATAAAACACGG
Found at i:31298620 original size:12 final size:14
Alignment explanation
Indices: 31298584--31298622 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
31298574 TAAAAATTAA
31298584 AAATATATAAATAG
1 AAATATATAAATAG
*
31298598 AAATTTATAAA-AG
1 AAATATATAAATAG
31298611 -AATATATAAATA
1 AAATATATAAATA
31298623 TATAAAATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 9 0.41
13 3 0.14
14 10 0.45
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (14 bp):
AAATATATAAATAG
Found at i:31321732 original size:41 final size:41
Alignment explanation
Indices: 31321664--31321766 Score: 106
Period size: 41 Copynumber: 2.5 Consensus size: 41
31321654 CAATGCCAAC
* * *
31321664 GTCCCAGAC-GTGGTCTTACATGTAATC-AATATCGATG-CACT
1 GTCCCAGACAG-GGTCTTATACGAAATCAAATAT-GATGCCA-T
31321705 GTCCCAGACAGGGTCTTATACGAAATCAAATATGATGCCGAT
1 GTCCCAGACAGGGTCTTATACGAAATCAAATATGATGCC-AT
*
31321747 GTCCC-GACATGGTCTTATAC
1 GTCCCAGACAGGGTCTTATAC
31321767 ATAAATCTCA
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
41 40 0.74
42 13 0.24
43 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.27
Consensus pattern (41 bp):
GTCCCAGACAGGGTCTTATACGAAATCAAATATGATGCCAT
Found at i:31322760 original size:31 final size:28
Alignment explanation
Indices: 31322724--31322783 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 28
31322714 TTGTTTTTCT
31322724 TTTATTATTATAATAACTTTATAATATATTA
1 TTTATTATTAT-A-AACTTTATAAT-TATTA
*
31322755 TTTATTATTATAACCTTTATAATTATTA
1 TTTATTATTATAAACTTTATAATTATTA
31322783 T
1 T
31322784 AAAAACTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 6 0.21
29 10 0.36
30 1 0.04
31 11 0.39
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (28 bp):
TTTATTATTATAAACTTTATAATTATTA
Found at i:31322768 original size:28 final size:28
Alignment explanation
Indices: 31322728--31322783 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
31322718 TTTTCTTTTA
31322728 TTATTATAATAA-CTTTATAATATATTAT
1 TTATTATAATAACCTTTATAAT-TATTAT
*
31322756 TTATTATTATAACCTTTATAATTATTAT
1 TTATTATAATAACCTTTATAATTATTAT
31322784 AAAAACTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 17 0.65
29 9 0.35
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (28 bp):
TTATTATAATAACCTTTATAATTATTAT
Found at i:31322994 original size:14 final size:15
Alignment explanation
Indices: 31322975--31323003 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
31322965 TCACGAAACT
31322975 TTCACACAT-ATAAA
1 TTCACACATAATAAA
31322989 TTCACACATAATAAA
1 TTCACACATAATAAA
31323004 CACAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:31326000 original size:5 final size:5
Alignment explanation
Indices: 31325992--31326017 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
31325982 ATTTAAAATA
31325992 TATAT TATAT TATAT TATAT TATAT T
1 TATAT TATAT TATAT TATAT TATAT T
31326018 TACTTAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TATAT
Found at i:31327201 original size:22 final size:22
Alignment explanation
Indices: 31327152--31327204 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
31327142 TTTAGCATGC
*
31327152 TAGTGCTCTCTGTTTAGCACAT
1 TAGTGCTCTCTGTATAGCACAT
** * *
31327174 CCGTGCTCTTTGTATAGCACTT
1 TAGTGCTCTCTGTATAGCACAT
31327196 TAGTGCTCT
1 TAGTGCTCT
31327205 ATGTTCATTA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.15, C:0.25, G:0.19, T:0.42
Consensus pattern (22 bp):
TAGTGCTCTCTGTATAGCACAT
Found at i:31331936 original size:14 final size:14
Alignment explanation
Indices: 31331913--31331943 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
31331903 TGTCGCGTTC
*
31331913 TTAGTTAATTTAGA
1 TTAGTAAATTTAGA
31331927 TTAGTAAATTTAGA
1 TTAGTAAATTTAGA
31331941 TTA
1 TTA
31331944 AAAACAATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (14 bp):
TTAGTAAATTTAGA
Found at i:31332764 original size:5 final size:5
Alignment explanation
Indices: 31332754--31332786 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
31332744 ATTGTGATTC
31332754 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTT
31332787 AACGATGAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTCT
Found at i:31339099 original size:16 final size:16
Alignment explanation
Indices: 31339078--31339110 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
31339068 TTTTAATAAA
31339078 ATTAAAACTAATTGTT
1 ATTAAAACTAATTGTT
*
31339094 ATTAAAATTAATTGTT
1 ATTAAAACTAATTGTT
31339110 A
1 A
31339111 GTATAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (16 bp):
ATTAAAACTAATTGTT
Found at i:31339118 original size:16 final size:16
Alignment explanation
Indices: 31339080--31339119 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
31339070 TTAATAAAAT
* *
31339080 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
31339096 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
*
31339112 TATAATTA
1 TAAAATTA
31339120 TCAAATTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:31339225 original size:9 final size:9
Alignment explanation
Indices: 31339192--31339219 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
31339182 TTTATCAAAT
31339192 TATTAATTG
1 TATTAATTG
31339201 TATTAATTG
1 TATTAATTG
31339210 TATTAATTG
1 TATTAATTG
31339219 T
1 T
31339220 TGTAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:31339227 original size:68 final size:68
Alignment explanation
Indices: 31339108--31339317 Score: 381
Period size: 68 Copynumber: 3.1 Consensus size: 68
31339098 AAATTAATTG
31339108 TTAGTATAA-TTATCAAATTATTAATTG--TTAATTGTATTAATTGTTGTAATAAAATCTAACAT
1 TTAGTA-AATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACAT
31339170 TTGA
65 TTGA
31339174 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
31339239 TGA
66 TGA
*
31339242 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAACAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
31339307 TGA
66 TGA
31339310 TTAGTAAA
1 TTAGTAAA
31339318 ACAAACTTGA
Statistics
Matches: 140, Mismatches: 1, Indels: 4
0.97 0.01 0.03
Matches are distributed among these distances:
65 2 0.01
66 24 0.17
68 114 0.81
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.46
Consensus pattern (68 bp):
TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
TGA
Found at i:31339272 original size:9 final size:9
Alignment explanation
Indices: 31339260--31339287 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
31339250 TTTATCAAAT
31339260 TATTAATTG
1 TATTAATTG
31339269 TATTAATTG
1 TATTAATTG
31339278 TATTAATTG
1 TATTAATTG
31339287 T
1 T
31339288 TGTAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:31342332 original size:21 final size:21
Alignment explanation
Indices: 31342308--31342354 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
31342298 ATTTTTAAAT
31342308 TTTTAA-AAAATATTTATATTA
1 TTTTAATAAAATATTTA-ATTA
*
31342329 TTTTAATTAAATATTTAATTA
1 TTTTAATAAAATATTTAATTA
31342350 TTTTA
1 TTTTA
31342355 TTTTATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTTAATAAAATATTTAATTA
Found at i:31346230 original size:19 final size:18
Alignment explanation
Indices: 31346189--31346231 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
31346179 TTTAGATATA
*
31346189 AAATAATAAAATATGTAT
1 AAATAATAAAATATGGAT
* *
31346207 TAATAATTATAATATGGAT
1 AAATAA-TAAAATATGGAT
31346226 AAATAA
1 AAATAA
31346232 GATAAAATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (18 bp):
AAATAATAAAATATGGAT
Found at i:31348365 original size:4 final size:4
Alignment explanation
Indices: 31348356--31348380 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
31348346 TTTCAATAAT
31348356 TTAA TTAA TTAA TTAA TTAA TTAA T
1 TTAA TTAA TTAA TTAA TTAA TTAA T
31348381 AAGTCAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:31348642 original size:4 final size:4
Alignment explanation
Indices: 31348633--31348657 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
31348623 TTTCAATAAT
31348633 TTAA TTAA TTAA TTAA TTAA TTAA T
1 TTAA TTAA TTAA TTAA TTAA TTAA T
31348658 AAGTCAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:31348648 original size:277 final size:278
Alignment explanation
Indices: 31348266--31348820 Score: 1094
Period size: 277 Copynumber: 2.0 Consensus size: 278
31348256 CTTTACCGTA
31348266 AAAGAATCTATGGGGAAATATAATTAATTTCCATATTCAACAAATTCACAATAACTAATTAATTT
1 AAAGAATCTATGGGGAAATATAATTAATTTCCATATTCAACAAATTCACAATAACTAATTAATTT
31348331 AATTCTATTTTTTAATTTCAATAATTTAATTAATTAATTAATTAATTAATAAGTCAAAAACCTTA
66 AATTCTATTTTTTAATTTCAATAATTTAATTAATTAATTAATTAATTAATAAGTCAAAAACCTTA
31348396 AATTAATTCTCAAGTCATTTCTATACTTAGTGAGAAAATACATTAATTTGAGAATTGACCCATTT
131 AATTAATTCTCAAGTCATTTCTATACTTAGTGAGAAAATACATTAATTTGAGAATTGACCCATTT
31348461 CTCTAACTTTATCATTTCCACCCATTTATGTTCATTTGGTTCTACATGCAATTCATTTTTTTTAT
196 CTCTAACTTTATCATTTCCACCCATTTATGTTCATTTGGTTCTACATGCAATTCATTTTTTTTAT
31348526 TTCAACAAGCTACATATT
261 TTCAACAAGCTACATATT
*
31348544 AAAGAA-CTATGGGGAAATATATTTAATTTCCATATTCAACAAATTCACAATAACTAATTAATTT
1 AAAGAATCTATGGGGAAATATAATTAATTTCCATATTCAACAAATTCACAATAACTAATTAATTT
31348608 AATTCTATTTTTTAATTTCAATAATTTAATTAATTAATTAATTAATTAATAAGTCAAAAACCTTA
66 AATTCTATTTTTTAATTTCAATAATTTAATTAATTAATTAATTAATTAATAAGTCAAAAACCTTA
31348673 AATTAATTCTCAAGTCATTTCTATACTTAGTGAGAAAATACATTAATTTGAGAATTGACCCATTT
131 AATTAATTCTCAAGTCATTTCTATACTTAGTGAGAAAATACATTAATTTGAGAATTGACCCATTT
31348738 CTCTAACTTTATCATTTCCACCCATTTATGTTCATTTGGTTCTACATGCAATTCATTTTTTTTAT
196 CTCTAACTTTATCATTTCCACCCATTTATGTTCATTTGGTTCTACATGCAATTCATTTTTTTTAT
31348803 TTCAACAAGCTACATATT
261 TTCAACAAGCTACATATT
31348821 GCAAAAGTCG
Statistics
Matches: 276, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
277 270 0.98
278 6 0.02
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.42
Consensus pattern (278 bp):
AAAGAATCTATGGGGAAATATAATTAATTTCCATATTCAACAAATTCACAATAACTAATTAATTT
AATTCTATTTTTTAATTTCAATAATTTAATTAATTAATTAATTAATTAATAAGTCAAAAACCTTA
AATTAATTCTCAAGTCATTTCTATACTTAGTGAGAAAATACATTAATTTGAGAATTGACCCATTT
CTCTAACTTTATCATTTCCACCCATTTATGTTCATTTGGTTCTACATGCAATTCATTTTTTTTAT
TTCAACAAGCTACATATT
Found at i:31351788 original size:21 final size:21
Alignment explanation
Indices: 31351737--31351795 Score: 75
Period size: 23 Copynumber: 2.7 Consensus size: 21
31351727 GCTTTGTCGA
31351737 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCAC-TTATGTGTCG-ATT
*
31351760 TCAAGCACTTCATGTGTCG-TT
1 TCAGGCACTT-ATGTGTCGATT
31351781 TCAGGCACTTATGTG
1 TCAGGCACTTATGTG
31351796 CCGTATACTG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
20 5 0.15
21 11 0.33
22 2 0.06
23 15 0.45
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (21 bp):
TCAGGCACTTATGTGTCGATT
Found at i:31356652 original size:23 final size:22
Alignment explanation
Indices: 31356609--31356652 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
31356599 TTCTAAGTCG
31356609 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
31356632 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
31356653 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:31356857 original size:51 final size:50
Alignment explanation
Indices: 31356747--31356927 Score: 159
Period size: 51 Copynumber: 3.6 Consensus size: 50
31356737 ATGTTCAGTT
* * *
31356747 CACATAGTAGCCTGCACATAATACTACATATGTGACAATTACCATACGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACAA-TACCATACGATA
* * * *
31356798 CACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAA-ACTATCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-C-AATACCATACGATA
* * * * ** * *
31356849 CGCATAGTAGCCTGCACATAGTACTACACATGCGAC-CTATTATTCCAGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACAATACCATACGA-TA
* *
31356899 CACGTAGTAGCCTACACATAGTACTACAC
1 CACATAGTAGCCTGCACATAGTACTACAC
31356928 GTGTGACCAT
Statistics
Matches: 107, Mismatches: 19, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
49 5 0.05
50 29 0.27
51 70 0.65
52 1 0.01
53 2 0.02
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACAATACCATACGATA
Found at i:31359164 original size:18 final size:19
Alignment explanation
Indices: 31359137--31359172 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
31359127 TATTTGTATA
31359137 TTAAATAGATATTTATTAT
1 TTAAATAGATATTTATTAT
31359156 TTAAA-AGATATTTATTA
1 TTAAATAGATATTTATTA
31359173 GATAAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (19 bp):
TTAAATAGATATTTATTAT
Found at i:31359178 original size:18 final size:19
Alignment explanation
Indices: 31359138--31359180 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
31359128 ATTTGTATAT
**
31359138 TAAATAGATATTTATTATT
1 TAAATAGATATTTATTAGA
31359157 TAAA-AGATATTTATTAGA
1 TAAATAGATATTTATTAGA
31359175 TAAATA
1 TAAATA
31359181 ATTAAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (19 bp):
TAAATAGATATTTATTAGA
Found at i:31359212 original size:31 final size:32
Alignment explanation
Indices: 31359160--31359222 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 32
31359150 TATTATTTAA
31359160 AAGATATTTATTAGATAAAT-AATTAAATTAT
1 AAGATATTTATTAGATAAATAAATTAAATTAT
* * *
31359191 AAGATTTTTATGT-GATTAATAAATTAATTTAT
1 AAGATATTTAT-TAGATAAATAAATTAAATTAT
31359223 GACAAGTGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 16 0.59
32 11 0.41
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (32 bp):
AAGATATTTATTAGATAAATAAATTAAATTAT
Found at i:31360516 original size:50 final size:50
Alignment explanation
Indices: 31360438--31360676 Score: 334
Period size: 50 Copynumber: 4.8 Consensus size: 50
31360428 NNNNNNNNNN
*
31360438 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAG
1 GTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAG
* * **
31360488 GTCCCATGTAAGACCATGTCTAGAACATGGCATTGGCACCGAGATGTTAG
1 GTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAG
*
31360538 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAG
1 GTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAG
** * * *
31360588 GTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 GTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAG-AG
* * * *
31360639 ATTCCATGTAAGGCCATGTCTGGGACATGGCTTTGGCA
1 GTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
31360677 TGTTATTATC
Statistics
Matches: 165, Mismatches: 23, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 133 0.81
51 32 0.19
ACGTcount: A:0.25, C:0.23, G:0.31, T:0.22
Consensus pattern (50 bp):
GTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAG
Found at i:31362955 original size:23 final size:23
Alignment explanation
Indices: 31362928--31363017 Score: 105
Period size: 23 Copynumber: 4.0 Consensus size: 23
31362918 GGCTTTGCCG
31362928 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
*
31362951 ATCAGGCACTTTATGTGTCCTAT
1 ATCAGGCACTTTATGTGTCGTAT
* * **
31362974 TTCAGGCACCTCGTGTGTCGT-T
1 ATCAGGCACTTTATGTGTCGTAT
*
31362996 -TCAGGCAC-TTATGTGCCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
31363017 A
1 A
31363018 CTGATTAGGT
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
20 8 0.14
21 9 0.16
22 1 0.02
23 38 0.68
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (23 bp):
ATCAGGCACTTTATGTGTCGTAT
Found at i:31370831 original size:27 final size:27
Alignment explanation
Indices: 31370801--31371038 Score: 280
Period size: 27 Copynumber: 8.8 Consensus size: 27
31370791 TCATCTATTA
**
31370801 GGGGTATAACAGTCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
31370828 GGGGTATTTCGGTCATTTTACCCTATA
1 GGGGTATTTCAGTCATTTTACCCTATG
** *
31370855 AAGGTATTTCGGTCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
*
31370882 GGGGTATTTCAGTCATTTTACCCTATA
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
31370909 GGGGTATTTCAGTTATTTTACCCTATT
1 GGGGTATTTCAGTCATTTTACCCTATG
*
31370936 GGGGTATTTCAATCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* * * *
31370963 AGGGTATTT-TGATTATTTTACCATATG
1 GGGGTATTTCAG-TCATTTTACCCTATG
* *
31370990 GGGGTATTTCGGTCATTTTACTCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* **
31371017 AGGGTATTTTGGTCATTTTACC
1 GGGGTATTTCAGTCATTTTACC
31371039 TATTTTAGGG
Statistics
Matches: 180, Mismatches: 29, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
27 179 0.99
28 1 0.01
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.42
Consensus pattern (27 bp):
GGGGTATTTCAGTCATTTTACCCTATG
Found at i:31375804 original size:13 final size:13
Alignment explanation
Indices: 31375786--31375811 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31375776 AAAGATTTCT
31375786 ATCTTGATTGTTG
1 ATCTTGATTGTTG
31375799 ATCTTGATTGTTG
1 ATCTTGATTGTTG
31375812 TCAAATTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.23, T:0.54
Consensus pattern (13 bp):
ATCTTGATTGTTG
Found at i:31379374 original size:9 final size:9
Alignment explanation
Indices: 31379362--31379391 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
31379352 TTTAAGGGTT
31379362 TTAATTAAA
1 TTAATTAAA
31379371 TTAATTAAA
1 TTAATTAAA
31379380 TTAATTAAA
1 TTAATTAAA
31379389 TTA
1 TTA
31379392 GGGTTTAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (9 bp):
TTAATTAAA
Found at i:31379757 original size:125 final size:127
Alignment explanation
Indices: 31379502--31379769 Score: 359
Period size: 125 Copynumber: 2.1 Consensus size: 127
31379492 CTTTGTTTTT
* * *
31379502 TTTTTCTACAGTAGTT-TCAGAAAAATTAATTTTAAGAAGACGGTTCTGAAAAGATAATGTTAAA
1 TTTTTCTATAGTAGTTCTCAGAAAAAATAATTTTAAGAAGACAGTTCTGAAAAGATAATGTTAAA
* * ** * *
31379566 AACATTTCAAGCAGGATGCACTGTCAACAAAATTATTGACAAAAGCTCCCATGTGGGTGCTC
66 AACATTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCCCACATGGATGCTA
* * *
31379628 TTTTTCTATAGTAGTTCT-TGAAAAAATAATTTTGAGAAGACAGTTCTGAAAA-ATAGTG-TAAA
1 TTTTTCTATAGTAGTTCTCAGAAAAAATAATTTTAAGAAGACAGTTCTGAAAAGATAATGTTAAA
31379690 AA-ATGCTTCAAGCAGGATGCACTGTCAGA-AAAATTACTGAAAAAAGCTCCCACATGGATGCTA
66 AACAT--TTCAAGCAGGATGCACTGTCA-ACAAAATTACTGAAAAAAGCTCCCACATGGATGCTA
31379753 TTTTTCTATAGTAGTTC
1 TTTTTCTATAGTAGTTC
31379770 CTGCTTGGCC
Statistics
Matches: 126, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
123 2 0.02
124 6 0.05
125 71 0.56
126 46 0.37
127 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.31
Consensus pattern (127 bp):
TTTTTCTATAGTAGTTCTCAGAAAAAATAATTTTAAGAAGACAGTTCTGAAAAGATAATGTTAAA
AACATTTCAAGCAGGATGCACTGTCAACAAAATTACTGAAAAAAGCTCCCACATGGATGCTA
Found at i:31381301 original size:56 final size:59
Alignment explanation
Indices: 31381173--31381302 Score: 151
Period size: 61 Copynumber: 2.2 Consensus size: 59
31381163 TCTATTGCCT
31381173 TATTCAAAAGAACTTCTATTTTATTAAATAGGACAAAATATAAAAATAATTTACTACTAAAA
1 TATT-AAAA-AACTTCTATTTTATTAAATA-GACAAAATATAAAAATAATTTACTACTAAAA
* * *
31381235 TATTCAAAAAACTTTTATTTTATTAAAT-GA-AACAATATAAAAATAGTTT-GTAC-AAATA
1 TATT-AAAAAACTTCTATTTTATTAAATAGACAA-AATATAAAAATAATTTACTACTAAA-A
31381293 TATTAAAAAA
1 TATTAAAAAA
31381303 ATTAATGTAT
Statistics
Matches: 63, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
57 9 0.14
58 10 0.16
59 17 0.27
61 18 0.29
62 9 0.14
ACGTcount: A:0.52, C:0.08, G:0.05, T:0.35
Consensus pattern (59 bp):
TATTAAAAAACTTCTATTTTATTAAATAGACAAAATATAAAAATAATTTACTACTAAAA
Found at i:31382829 original size:25 final size:24
Alignment explanation
Indices: 31382779--31382836 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
31382769 CTGTTATAAA
31382779 AAATTATA-AAATAAAAATTAATTT
1 AAATTATATAAATAAAAA-TAATTT
31382803 AAATTATATAAATGAAAAA-AATATT
1 AAATTATATAAAT-AAAAATAAT-TT
*
31382828 AAATAATAT
1 AAATTATAT
31382837 TCAAAAATTG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 11 0.37
25 14 0.47
26 5 0.17
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (24 bp):
AAATTATATAAATAAAAATAATTT
Found at i:31384876 original size:31 final size:31
Alignment explanation
Indices: 31384841--31384902 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
31384831 TAGGCATTTA
31384841 CCATTACGCTAGCTTGATTGATTTATCTATG
1 CCATTACGCTAGCTTGATTGATTTATCTATG
31384872 CCATTACGCTAGCTTGATTGATTTATCTATG
1 CCATTACGCTAGCTTGATTGATTTATCTATG
31384903 TGCAGAGGGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.19, G:0.16, T:0.42
Consensus pattern (31 bp):
CCATTACGCTAGCTTGATTGATTTATCTATG
Found at i:31397417 original size:12 final size:12
Alignment explanation
Indices: 31397400--31397424 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
31397390 CAAGCAATGT
31397400 TTATCAAATTAC
1 TTATCAAATTAC
31397412 TTATCAAATTAC
1 TTATCAAATTAC
31397424 T
1 T
31397425 AGGCTACTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (12 bp):
TTATCAAATTAC
Found at i:31400461 original size:16 final size:16
Alignment explanation
Indices: 31400442--31400474 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
31400432 CTTACAATTC
31400442 GACAGGCTCACACTTT
1 GACAGGCTCACACTTT
*
31400458 GACAGGCTCGCACTTT
1 GACAGGCTCACACTTT
31400474 G
1 G
31400475 CTTACTGTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.30, G:0.24, T:0.24
Consensus pattern (16 bp):
GACAGGCTCACACTTT
Found at i:31400666 original size:25 final size:27
Alignment explanation
Indices: 31400625--31400700 Score: 79
Period size: 25 Copynumber: 3.0 Consensus size: 27
31400615 CTCATAGCTC
* *
31400625 GCAC-TTCTCGCTAAGCTTGCAGCTTT
1 GCACATTCTTGCTGAGCTTGCAGCTTT
*
31400651 G-GCA-TCTTGCTGAGCTTGCAGC-TT
1 GCACATTCTTGCTGAGCTTGCAGCTTT
* *
31400675 GCACATTTTTGTTGAGCTTGCAGCTT
1 GCACATTCTTGCTGAGCTTGCAGCTT
31400701 GCATATTGGA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
24 3 0.08
25 19 0.47
26 17 0.43
27 1 0.03
ACGTcount: A:0.14, C:0.25, G:0.24, T:0.37
Consensus pattern (27 bp):
GCACATTCTTGCTGAGCTTGCAGCTTT
Found at i:31424323 original size:50 final size:50
Alignment explanation
Indices: 31424225--31424379 Score: 138
Period size: 50 Copynumber: 3.1 Consensus size: 50
31424215 CTTATGGGCA
* * * *
31424225 TCCCGATATTTGGCTCTCATGAGCTTCCCGATTAATTGCTCTCTTGAGCT
1 TCCCGATAATTGGCTCGCATGAGCTTCCCGATTAATTGCTCGCATGAGCT
* *
31424275 TCCCGATAATTGGCTCGCATGAGCTTTCTGA-TAATTGGCTCGCATGAGCT
1 TCCCGATAATTGGCTCGCATGAGCTTCCCGATTAATT-GCTCGCATGAGCT
* * ** * *
31424325 TTCTGAT-ATACAGCTCG-ATTGAGCTTCCCG-TTATATAGCTCACATGAGCT
1 TCCCGATAAT-TGGCTCGCA-TGAGCTTCCCGATTA-ATTGCTCGCATGAGCT
31424375 TCCCG
1 TCCCG
31424380 TTACATGGCT
Statistics
Matches: 84, Mismatches: 16, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
49 8 0.10
50 74 0.88
51 2 0.02
ACGTcount: A:0.19, C:0.26, G:0.20, T:0.34
Consensus pattern (50 bp):
TCCCGATAATTGGCTCGCATGAGCTTCCCGATTAATTGCTCGCATGAGCT
Found at i:31424332 original size:25 final size:25
Alignment explanation
Indices: 31424225--31424325 Score: 132
Period size: 25 Copynumber: 4.0 Consensus size: 25
31424215 CTTATGGGCA
* *
31424225 TCCCGATATTTGGCTCTCATGAGCT
1 TCCCGATAATTGGCTCGCATGAGCT
* *
31424250 TCCCGATTAATT-GCTCTCTTGAGCT
1 TCCCGA-TAATTGGCTCGCATGAGCT
31424275 TCCCGATAATTGGCTCGCATGAGCT
1 TCCCGATAATTGGCTCGCATGAGCT
* *
31424300 TTCTGATAATTGGCTCGCATGAGCT
1 TCCCGATAATTGGCTCGCATGAGCT
31424325 T
1 T
31424326 TCTGATATAC
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
24 5 0.07
25 59 0.87
26 4 0.06
ACGTcount: A:0.18, C:0.26, G:0.21, T:0.36
Consensus pattern (25 bp):
TCCCGATAATTGGCTCGCATGAGCT
Found at i:31424340 original size:25 final size:25
Alignment explanation
Indices: 31424287--31424375 Score: 92
Period size: 25 Copynumber: 3.6 Consensus size: 25
31424277 CCGATAATTG
*
31424287 GCTCGCATGAGCTTTCTGATA-ATTG
1 GCTCGCATGAGCTTTCTGATATA-TA
*
31424312 GCTCGCATGAGCTTTCTGATATACA
1 GCTCGCATGAGCTTTCTGATATATA
* * *
31424337 GCTCG-ATTGAGCTTCCCGTTATATA
1 GCTCGCA-TGAGCTTTCTGATATATA
*
31424362 GCTCACATGAGCTT
1 GCTCGCATGAGCTT
31424376 CCCGTTACAT
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
24 1 0.02
25 51 0.94
26 2 0.04
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (25 bp):
GCTCGCATGAGCTTTCTGATATATA
Found at i:31424390 original size:25 final size:24
Alignment explanation
Indices: 31424235--31424390 Score: 89
Period size: 25 Copynumber: 6.2 Consensus size: 24
31424225 TCCCGATATT
*
31424235 TGGCTCTCATGAGCTTCCCGATTAA
1 TGGCTCACATGAGCTTCCCG-TTAA
* * * *
31424260 TTGCTCTCTTGAGCTTCCCGATAA
1 TGGCTCACATGAGCTTCCCGTTAA
* * * *
31424284 TTGGCTCGCATGAGCTTTCTGATAA
1 -TGGCTCACATGAGCTTCCCGTTAA
* * * *
31424309 TTGGCTCGCATGAGCTTTCTGATATA
1 -TGGCTCACATGAGCTTCCCGTTA-A
** *
31424335 CAGCTCGA-TTGAGCTTCCCGTTATA
1 TGGCTC-ACATGAGCTTCCCGTTA-A
*
31424360 TAGCTCACATGAGCTTCCCGTTACA
1 TGGCTCACATGAGCTTCCCGTTA-A
31424385 TGGCTC
1 TGGCTC
31424391 GAGAGAGCTT
Statistics
Matches: 108, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
24 4 0.04
25 103 0.95
26 1 0.01
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.34
Consensus pattern (24 bp):
TGGCTCACATGAGCTTCCCGTTAA
Found at i:31424398 original size:25 final size:25
Alignment explanation
Indices: 31424344--31424416 Score: 78
Period size: 25 Copynumber: 2.9 Consensus size: 25
31424334 ACAGCTCGAT
*
31424344 TGAGCTTCCCGTTATATAGCTC-ACA
1 TGAGCTTCCCGTTACAT-GCTCGACA
*
31424369 TGAGCTTCCCGTTACATGGCTCGAGA
1 TGAGCTTCCCGTTACAT-GCTCGACA
*
31424395 -GAGCTTCCTGTTTACATGCTCG
1 TGAGCTTCCCG-TTACATGCTCG
31424417 CAAGGGCATA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
25 34 0.81
26 8 0.19
ACGTcount: A:0.19, C:0.27, G:0.22, T:0.32
Consensus pattern (25 bp):
TGAGCTTCCCGTTACATGCTCGACA
Found at i:31428751 original size:137 final size:138
Alignment explanation
Indices: 31428505--31428781 Score: 547
Period size: 137 Copynumber: 2.0 Consensus size: 138
31428495 ACAATCAATT
31428505 AACAATTTAAACAATATTTGTCTAAGTTAAATGCTTAAGATAACTTCTTACAGTTTCTATATTCA
1 AACAATTTAAACAATATTTGTCTAAGTTAAATGCTTAAGATAACTTCTTACAGTTTCTATATTCA
31428570 GTGCAAATTTAGAAATTAGTAATTTTACTAATTTTGTCACTTTAAAATTTAAGTTTAATAAT-AA
66 GTGCAAATTTAGAAATTAGTAATTTTACTAATTTTGTCACTTTAAAATTTAAGTTTAATAATAAA
31428634 TATTATTA
131 TATTATTA
31428642 AACAATTTAAACAATATTTGTCTAAGTTAAATGCTTAAGATAACTTCTTACAGTTTCTATATTCA
1 AACAATTTAAACAATATTTGTCTAAGTTAAATGCTTAAGATAACTTCTTACAGTTTCTATATTCA
31428707 GTGCAAATTTAGAAATTAGTAATTTTACTAATTTTGTCACTTTAAAATTTAAGTTTAATAATAAA
66 GTGCAAATTTAGAAATTAGTAATTTTACTAATTTTGTCACTTTAAAATTTAAGTTTAATAATAAA
31428772 TATTATTA
131 TATTATTA
31428780 AA
1 AA
31428782 ATTTTCTATT
Statistics
Matches: 139, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
137 127 0.91
138 12 0.09
ACGTcount: A:0.40, C:0.09, G:0.08, T:0.43
Consensus pattern (138 bp):
AACAATTTAAACAATATTTGTCTAAGTTAAATGCTTAAGATAACTTCTTACAGTTTCTATATTCA
GTGCAAATTTAGAAATTAGTAATTTTACTAATTTTGTCACTTTAAAATTTAAGTTTAATAATAAA
TATTATTA
Found at i:31429166 original size:31 final size:30
Alignment explanation
Indices: 31429069--31429197 Score: 108
Period size: 31 Copynumber: 4.4 Consensus size: 30
31429059 TTAATATAAC
* *
31429069 ATTTGGTACTTGAACTTGACATTTGTTTTCTA
1 ATTTGGTACCTGAACTTGAC-TTT-TTTCCTA
* * *
31429101 ATTTGGTACAT-AAC-T---TTTTTGCCCA
1 ATTTGGTACCTGAACTTGACTTTTTTCCTA
*
31429126 AATTGGTACCTGAACTTGACACTTTTTT-CTA
1 ATTTGGTACCTGAACTTG--ACTTTTTTCCTA
**
31429157 ATTTGGTACCTGAACTTGGTTTTTTTCCTA
1 ATTTGGTACCTGAACTTGACTTTTTTCCTA
31429187 ATTTGGTACCT
1 ATTTGGTACCT
31429198 AAGCTTTTTT
Statistics
Matches: 78, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
25 13 0.17
26 6 0.08
27 1 0.01
29 6 0.08
30 15 0.19
31 22 0.28
32 15 0.19
ACGTcount: A:0.22, C:0.17, G:0.15, T:0.47
Consensus pattern (30 bp):
ATTTGGTACCTGAACTTGACTTTTTTCCTA
Found at i:31430443 original size:24 final size:23
Alignment explanation
Indices: 31430399--31430443 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
31430389 GGGTATTTGA
* *
31430399 TTTTTTTTGTTCAAATTTGATGT
1 TTTTTTTTCTTCAAATGTGATGT
*
31430422 TTTTTTTTCTTACAACTGTGAT
1 TTTTTTTTCTT-CAAATGTGAT
31430444 TCAAACCCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 10 0.56
24 8 0.44
ACGTcount: A:0.18, C:0.09, G:0.11, T:0.62
Consensus pattern (23 bp):
TTTTTTTTCTTCAAATGTGATGT
Found at i:31432319 original size:3 final size:3
Alignment explanation
Indices: 31432311--31432340 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
31432301 CGGAAACAAT
31432311 CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC
1 CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC
31432341 GTACACTTGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.67, G:0.00, T:0.00
Consensus pattern (3 bp):
CAC
Found at i:31432358 original size:30 final size:30
Alignment explanation
Indices: 31432324--31432405 Score: 146
Period size: 30 Copynumber: 2.7 Consensus size: 30
31432314 CACCACCACC
* *
31432324 ACCACCACCACCACCACGTACACTTGCATG
1 ACCACCACCACCACCACGAACACCTGCATG
31432354 ACCACCACCACCACCACGAACACCTGCATG
1 ACCACCACCACCACCACGAACACCTGCATG
31432384 ACCACCACCACCACCACGAACA
1 ACCACCACCACCACCACGAACA
31432406 TCATGACCAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.34, C:0.50, G:0.09, T:0.07
Consensus pattern (30 bp):
ACCACCACCACCACCACGAACACCTGCATG
Found at i:31433204 original size:33 final size:33
Alignment explanation
Indices: 31433152--31433218 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
31433142 AGTCAACGAC
* *
31433152 CTGCAACTGAATTCTGTCAAAGCTCTATTTGAA
1 CTGCAACTGAATTCAGTCAAAGCTCTATATGAA
* *
31433185 CTGCAACTGGATTCAGTCAAAGGTCTATATGAA
1 CTGCAACTGAATTCAGTCAAAGCTCTATATGAA
31433218 C
1 C
31433219 CTTTCTAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (33 bp):
CTGCAACTGAATTCAGTCAAAGCTCTATATGAA
Found at i:31433811 original size:17 final size:18
Alignment explanation
Indices: 31433789--31433822 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
31433779 TTAATGAATA
31433789 TTTTTAAA-AAATAAAAT
1 TTTTTAAATAAATAAAAT
31433806 TTTTTAAATAAATAAAA
1 TTTTTAAATAAATAAAA
31433823 AATAATCAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TTTTTAAATAAATAAAAT
Found at i:31436368 original size:30 final size:30
Alignment explanation
Indices: 31436332--31436392 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
31436322 CTTAGCTAGC
31436332 TACATCACATTCAAAATGAACTTCTAAATT
1 TACATCACATTCAAAATGAACTTCTAAATT
31436362 TACATCACATTCAAAATGAACTTCTAAATT
1 TACATCACATTCAAAATGAACTTCTAAATT
31436392 T
1 T
31436393 TGTATTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.43, C:0.20, G:0.03, T:0.34
Consensus pattern (30 bp):
TACATCACATTCAAAATGAACTTCTAAATT
Found at i:31439002 original size:29 final size:30
Alignment explanation
Indices: 31438965--31439049 Score: 91
Period size: 31 Copynumber: 2.8 Consensus size: 30
31438955 TTTAATGTAT
* *
31438965 AATTGTATACATG-AATTTTAATTTGGTGC
1 AATTATATACATGAAACTTTAATTTGGTGC
* * *
31438994 AATTATATACGTGAAACTCTAATTGTGGTTC
1 AATTATATACATGAAACTTTAATT-TGGTGC
* *
31439025 AAATATATACTTGAAACTTTAATTT
1 AATTATATACATGAAACTTTAATTT
31439050 TTATTTAATC
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
29 11 0.24
30 9 0.20
31 26 0.57
ACGTcount: A:0.35, C:0.09, G:0.13, T:0.42
Consensus pattern (30 bp):
AATTATATACATGAAACTTTAATTTGGTGC
Found at i:31439618 original size:47 final size:48
Alignment explanation
Indices: 31439547--31439641 Score: 165
Period size: 47 Copynumber: 2.0 Consensus size: 48
31439537 TTTTAAAGTT
*
31439547 TTTATAATTATTTTTATTTAAAGTTAAATTGCAAATGAAAATAAATTG
1 TTTATAATTATTTTTATTTAAAGTTAAACTGCAAATGAAAATAAATTG
*
31439595 TTTATAATTA-TTTTATTTAAAGTTAAACTGCAAATGAAAATGAATTG
1 TTTATAATTATTTTTATTTAAAGTTAAACTGCAAATGAAAATAAATTG
31439642 ACGTCATTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
47 35 0.78
48 10 0.22
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.44
Consensus pattern (48 bp):
TTTATAATTATTTTTATTTAAAGTTAAACTGCAAATGAAAATAAATTG
Found at i:31440486 original size:131 final size:132
Alignment explanation
Indices: 31440255--31440524 Score: 524
Period size: 131 Copynumber: 2.1 Consensus size: 132
31440245 NNNATATTAA
31440255 TAATAAAAATTTAATTTATACATTTAATAATATATAGACTAATTTAACCTAATCTATATCATATA
1 TAATAAAAATTTAATTTATACATTTAATAATATATAGACTAATTTAACCTAATCTATATCATATA
31440320 AGACTTGGAAATTACTTTCATAAAAATATATATATGCCTACAAAACATTATCTTATCATGTAT-A
66 AGACTTGGAAATTACTTTCATAAAAATATATATATGCCTACAAAACATTATCTTATCATGTATAA
31440384 TT
131 TT
*
31440386 TAATAAAAATTTAATTTATACATTTAATAATATATAGACTAATTTAATCTAATCTATATCATATA
1 TAATAAAAATTTAATTTATACATTTAATAATATATAGACTAATTTAACCTAATCTATATCATATA
31440451 AGACTTGGAAATTACTTTCATAAAAATATATATATGCCTACAAAACATTATCTTATCATGTATAA
66 AGACTTGGAAATTACTTTCATAAAAATATATATATGCCTACAAAACATTATCTTATCATGTATAA
31440516 TT
131 TT
31440518 TAATAAA
1 TAATAAA
31440525 CAAAGTGTCA
Statistics
Matches: 137, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
131 127 0.93
132 10 0.07
ACGTcount: A:0.45, C:0.11, G:0.04, T:0.40
Consensus pattern (132 bp):
TAATAAAAATTTAATTTATACATTTAATAATATATAGACTAATTTAACCTAATCTATATCATATA
AGACTTGGAAATTACTTTCATAAAAATATATATATGCCTACAAAACATTATCTTATCATGTATAA
TT
Found at i:31458991 original size:3 final size:3
Alignment explanation
Indices: 31458983--31459047 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
31458973 AAAACATTTA
31458983 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
31459031 AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
31459048 AATCTAATTT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:31460449 original size:17 final size:18
Alignment explanation
Indices: 31460427--31460460 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
31460417 CAATTCTTTA
*
31460427 CTTCTTCTAGT-GCTTCT
1 CTTCTTCAAGTAGCTTCT
31460444 CTTCTTCAAGTAGCTTC
1 CTTCTTCAAGTAGCTTC
31460461 ATTTCAGTCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.12, C:0.29, G:0.12, T:0.47
Consensus pattern (18 bp):
CTTCTTCAAGTAGCTTCT
Found at i:31460701 original size:44 final size:44
Alignment explanation
Indices: 31460639--31461162 Score: 380
Period size: 44 Copynumber: 11.5 Consensus size: 44
31460629 TCTGACCTAT
* * * * *
31460639 TGCAACTTCAGGGGGATAAGGTTTGTTACTTCAACCTGCTCTAT
1 TGCAACTTCAGAGAGATAAGATTTGTTACTTCAATCTGCTCTAC
* ** * *
31460683 TGCAACTTCAGAGAGATAAGGTTTGTGGCTTTAATCTACTCTAC
1 TGCAACTTCAGAGAGATAAGATTTGTTACTTCAATCTGCTCTAC
* * * * *
31460727 TGTAACTTCAGGGAGATAAGATTTGTAACCCGTCTTTAATCTGCTCCAC
1 TGCAACTTCAGAGAGATAAGATTTGTTA-----CTTCAATCTGCTCTAC
* * * * * *
31460776 TGCAACTTCAGGGAGATAATATTTGATTTATTTTTAACCTGCTCCAC
1 TGCAACTTCAGAGAGATAAGATTTG--TTA-CTTCAATCTGCTCTAC
* * * *
31460823 TGCAACTTCAG-GAATATAAGGTTTGATA--T-AATATGCTCTAC
1 TGCAACTTCAGAG-AGATAAGATTTGTTACTTCAATCTGCTCTAC
* * *
31460864 TGCAACTTCAGAGAGATAATATTTGATA--T-GATCTGCTCTAC
1 TGCAACTTCAGAGAGATAAGATTTGTTACTTCAATCTGCTCTAC
*
31460905 TGCAACTTCAGAGAGATAACATTTGTAATCTATAGCTTCAATCTGCTCTAC
1 TGCAACTTCAGAGAGATAAGATTTG-----T-TA-CTTCAATCTGCTCTAC
* *
31460956 TGCAACTTCAGAAAGATAAGATTTGTGGTCTTTAGCTTCAATCTACTCTAC
1 TGCAACTTCAGAGAGATAAGA-TT-T-G---TTA-CTTCAATCTGCTCTAC
*
31461007 TGCAACTTCAGAGAGATAAGATTT-TCTATCTTCAGTCTGCTCTAC
1 TGCAACTTCAGAGAGATAAGATTTGT-TA-CTTCAATCTGCTCTAC
* * ** **
31461052 TGCAACTTCAGGGAGATAAGACTAATGGCTTCAATCTGCTCTAC
1 TGCAACTTCAGAGAGATAAGATTTGTTACTTCAATCTGCTCTAC
* ** **
31461096 TGCAACTTCAGAGAGATAAGACTAATGGCTTCAATCTGCTCTAC
1 TGCAACTTCAGAGAGATAAGATTTGTTACTTCAATCTGCTCTAC
31461140 TGCAACTTCAGAGAGATAAGATT
1 TGCAACTTCAGAGAGATAAGATT
31461163 CACCATGATG
Statistics
Matches: 403, Mismatches: 53, Indels: 48
0.80 0.11 0.10
Matches are distributed among these distances:
41 67 0.17
42 2 0.00
44 140 0.35
45 39 0.10
46 2 0.00
47 37 0.09
49 38 0.09
50 3 0.01
51 70 0.17
52 3 0.01
53 1 0.00
54 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (44 bp):
TGCAACTTCAGAGAGATAAGATTTGTTACTTCAATCTGCTCTAC
Found at i:31460860 original size:41 final size:42
Alignment explanation
Indices: 31460815--31460929 Score: 146
Period size: 41 Copynumber: 2.8 Consensus size: 42
31460805 ATTTTTAACC
* * *
31460815 TGCTCCACTGCAACTTCAGGA-ATATAAGGTTTGATATAATA
1 TGCTCTACTGCAACTTCAGGAGAGATAAGATTTGATATAATA
* * *
31460856 TGCTCTACTGCAACTTCA-GAGAGATAATATTTGATATGATC
1 TGCTCTACTGCAACTTCAGGAGAGATAAGATTTGATATAATA
*
31460897 TGCTCTACTGCAACTTCA-GAGAGATAACATTTG
1 TGCTCTACTGCAACTTCAGGAGAGATAAGATTTG
31460930 TAATCTATAG
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
40 2 0.03
41 64 0.97
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Consensus pattern (42 bp):
TGCTCTACTGCAACTTCAGGAGAGATAAGATTTGATATAATA
Found at i:31477202 original size:6 final size:6
Alignment explanation
Indices: 31477191--31477412 Score: 435
Period size: 6 Copynumber: 37.0 Consensus size: 6
31477181 GCATCATGCA
*
31477191 CCAGAG CCAGAG CCAGGG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG
1 CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG
31477239 CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG
1 CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG
31477287 CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG
1 CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG
31477335 CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG
1 CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG
31477383 CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG
1 CCAGAG CCAGAG CCAGAG CCAGAG CCAGAG
31477413 NNNNNNNNNN
Statistics
Matches: 214, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
6 214 1.00
ACGTcount: A:0.33, C:0.33, G:0.34, T:0.00
Consensus pattern (6 bp):
CCAGAG
Found at i:31483736 original size:3 final size:3
Alignment explanation
Indices: 31483728--31483756 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
31483718 ATGAGAAACC
31483728 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
31483757 AATCTAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:31485743 original size:1 final size:1
Alignment explanation
Indices: 31485737--31485764 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
31485727 TTTGTTTCTT
31485737 GGGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGG
31485765 ATGCACATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:31486301 original size:13 final size:14
Alignment explanation
Indices: 31486277--31486303 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
31486267 ACTATCTTTT
31486277 AAAGTAAAAAAAAA
1 AAAGTAAAAAAAAA
31486291 AAAGTAAAAAAAA
1 AAAGTAAAAAAAA
31486304 CCTAAAAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.07, T:0.07
Consensus pattern (14 bp):
AAAGTAAAAAAAAA
Found at i:31499985 original size:21 final size:22
Alignment explanation
Indices: 31499961--31500002 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
31499951 CATGTTAGTA
*
31499961 TTTAATTA-AATTTTTAAAAAT
1 TTTAAATACAATTTTTAAAAAT
*
31499982 TTTAAATACTATTTTTAAAAA
1 TTTAAATACAATTTTTAAAAA
31500003 CTTATACTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
TTTAAATACAATTTTTAAAAAT
Found at i:31501898 original size:21 final size:21
Alignment explanation
Indices: 31501854--31501904 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
31501844 ATTAACTCTA
*
31501854 TTAAATAGCAAATTATATCTT
1 TTAAATAGCAAATTATATCAT
*
31501875 TTAAATAGTAAATTA-ATTCAT
1 TTAAATAGCAAATTATA-TCAT
31501896 TT-AATAGCA
1 TTAAATAGCA
31501905 CTCCATTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 7 0.27
21 19 0.73
ACGTcount: A:0.45, C:0.08, G:0.06, T:0.41
Consensus pattern (21 bp):
TTAAATAGCAAATTATATCAT
Found at i:31507571 original size:7 final size:7
Alignment explanation
Indices: 31507559--31507584 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
31507549 TAAGTTTTGA
31507559 TTTATGT
1 TTTATGT
31507566 TTTATGT
1 TTTATGT
31507573 TTTATGT
1 TTTATGT
31507580 TTTAT
1 TTTAT
31507585 ATATATATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.12, T:0.73
Consensus pattern (7 bp):
TTTATGT
Found at i:31507740 original size:2 final size:2
Alignment explanation
Indices: 31507733--31507757 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
31507723 TATGTGATCC
31507733 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
31507758 CACGAGTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:31509686 original size:1 final size:1
Alignment explanation
Indices: 31509580--31509679 Score: 137
Period size: 1 Copynumber: 100.0 Consensus size: 1
31509570 AAACTCAGAT
* * * *
31509580 AAAAAAAAAAAAGAAAAAAGAAAAAAAAAAAAAAAAAAAGAAAAAAGAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
31509645 AGAAAAAAGAAAAAAAAAAAAAAAAAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
31509680 GTAAAAATAC
Statistics
Matches: 85, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
1 85 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (1 bp):
A
Found at i:31509693 original size:27 final size:27
Alignment explanation
Indices: 31509580--31509686 Score: 205
Period size: 27 Copynumber: 4.0 Consensus size: 27
31509570 AAACTCAGAT
31509580 AAAAAAAAAAAAGAAAAAAGAAAAAAA
1 AAAAAAAAAAAAGAAAAAAGAAAAAAA
31509607 AAAAAAAAAAAAGAAAAAAGAAAAAAA
1 AAAAAAAAAAAAGAAAAAAGAAAAAAA
31509634 AAAAAAAAAAAAGAAAAAAGAAAAAAA
1 AAAAAAAAAAAAGAAAAAAGAAAAAAA
*
31509661 AAAAAAAAAAAAGAAAAAAGTAAAAA
1 AAAAAAAAAAAAGAAAAAAGAAAAAA
31509687 TACAAAACAA
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
27 79 1.00
ACGTcount: A:0.92, C:0.00, G:0.07, T:0.01
Consensus pattern (27 bp):
AAAAAAAAAAAAGAAAAAAGAAAAAAA
Found at i:31524486 original size:8 final size:8
Alignment explanation
Indices: 31524475--31524501 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
31524465 TAACCCTTTA
31524475 AAAATTTT
1 AAAATTTT
31524483 AAAATTTT
1 AAAATTTT
31524491 AAAATTTT
1 AAAATTTT
31524499 AAA
1 AAA
31524502 TTAGTAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (8 bp):
AAAATTTT
Found at i:31528989 original size:13 final size:13
Alignment explanation
Indices: 31528967--31528998 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
31528957 GAAAAACTTT
31528967 ATAA-AACTAAAA
1 ATAATAACTAAAA
31528979 ATAATAACTAAAA
1 ATAATAACTAAAA
31528992 ATAATAA
1 ATAATAA
31528999 TATATCTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (13 bp):
ATAATAACTAAAA
Found at i:31529293 original size:23 final size:22
Alignment explanation
Indices: 31529246--31529294 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 22
31529236 GTAATCGCAT
31529246 TAAAATTACAACATTCAAAGGAC
1 TAAAATTACAACATTCAAA-GAC
*
31529269 TAAATTTACAATCAATTCAAA-AC
1 TAAAATTACAA-C-ATTCAAAGAC
31529292 TAA
1 TAA
31529295 GGACTAAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 15 0.65
24 1 0.04
25 7 0.30
ACGTcount: A:0.53, C:0.16, G:0.04, T:0.27
Consensus pattern (22 bp):
TAAAATTACAACATTCAAAGAC
Found at i:31531339 original size:26 final size:27
Alignment explanation
Indices: 31531306--31531364 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
31531296 GTTAAAACTC
*
31531306 TTTT-AAAAGAAAAC-TCAAGAGAATT
1 TTTTAAAAAGAAAACTTAAAGAGAATT
31531331 TTTTAAAAAGAAAACTTAAAGAGAATT
1 TTTTAAAAAGAAAACTTAAAGAGAATT
31531358 TTATTAA
1 TT-TTAA
31531365 CTCAAAGTGA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 4 0.13
26 10 0.33
27 12 0.40
28 4 0.13
ACGTcount: A:0.53, C:0.05, G:0.10, T:0.32
Consensus pattern (27 bp):
TTTTAAAAAGAAAACTTAAAGAGAATT
Found at i:31531529 original size:21 final size:21
Alignment explanation
Indices: 31531497--31531536 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
31531487 ACTCTGTTGT
31531497 TTTTGCTTTTGTTTTTCCATG
1 TTTTGCTTTTGTTTTTCCATG
31531518 TTTTG-TTGTTGTTTTTCCA
1 TTTTGCTT-TTGTTTTTCCA
31531537 CATTTTCCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.05, C:0.12, G:0.15, T:0.68
Consensus pattern (21 bp):
TTTTGCTTTTGTTTTTCCATG
Found at i:31531542 original size:21 final size:21
Alignment explanation
Indices: 31531497--31531542 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
31531487 ACTCTGTTGT
**
31531497 TTTTGCTTTTGTTTTTCCATG
1 TTTTGCTTTTGTTTTTCCACA
31531518 TTTTG-TTGTTGTTTTTCCACA
1 TTTTGCTT-TTGTTTTTCCACA
31531539 TTTT
1 TTTT
31531543 CCCACTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.07, C:0.13, G:0.13, T:0.67
Consensus pattern (21 bp):
TTTTGCTTTTGTTTTTCCACA
Found at i:31532796 original size:21 final size:21
Alignment explanation
Indices: 31532757--31532797 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
31532747 AATTTAAGTA
*
31532757 AATCAATTAATTTACTAATCG
1 AATCAATTAATTGACTAATCG
31532778 AATCAAATTAATTGA-TAATC
1 AATC-AATTAATTGACTAATC
31532798 CAATTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.46, C:0.12, G:0.05, T:0.37
Consensus pattern (21 bp):
AATCAATTAATTGACTAATCG
Found at i:31533749 original size:11 final size:10
Alignment explanation
Indices: 31533729--31533755 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
31533719 TAATATACAT
31533729 AAAAAGAAAA
1 AAAAAGAAAA
31533739 AAAAAGAAAA
1 AAAAAGAAAA
31533749 AAAAAGA
1 AAAAAGA
31533756 TGGACATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:31534281 original size:21 final size:20
Alignment explanation
Indices: 31534195--31534288 Score: 54
Period size: 21 Copynumber: 4.8 Consensus size: 20
31534185 ATACTACTTC
* *
31534195 TTTTGAATCAATTGTTTGTA
1 TTTTAAATCAATTGTTTATA
* *
31534215 TGTTTAAATCGATTG-TCATA
1 T-TTTAAATCAATTGTTTATA
* *
31534235 TTGTATAAT--ATCGTTT-T-
1 TTTTA-AATCAATTGTTTATA
* *
31534252 TTTTGAATCGATTGTTTATA
1 TTTTAAATCAATTGTTTATA
31534272 TGTTTAAATCAATTGTT
1 T-TTTAAATCAATTGTT
31534289 ATGGTGGAAT
Statistics
Matches: 54, Mismatches: 12, Indels: 15
0.67 0.15 0.19
Matches are distributed among these distances:
16 3 0.06
17 3 0.06
18 10 0.19
19 5 0.09
20 9 0.17
21 24 0.44
ACGTcount: A:0.27, C:0.06, G:0.14, T:0.53
Consensus pattern (20 bp):
TTTTAAATCAATTGTTTATA
Found at i:31534326 original size:58 final size:57
Alignment explanation
Indices: 31534191--31534398 Score: 237
Period size: 58 Copynumber: 3.7 Consensus size: 57
31534181 GTGAATACTA
* * * **
31534191 CTTCTTTTGAATCAATTGTTTGTATGTTTAAATCGATTGTCATATTGTATAATA-TCGTT
1 CTTCTTTTGAATCGATTGTTTATATGTTTAAATCGATTGT--TATGGTGGAATACTC-TT
*
31534250 -TT-TTTTGAATCGATTGTTTATATGTTTAAATCAATTGTTATGGTGGAATACTGCTT
1 CTTCTTTTGAATCGATTGTTTATATGTTTAAATCGATTGTTATGGTGGAATACT-CTT
* * *
31534306 CTTCTTTTGAATCGATTGTTTATATGTTTAAATCGGTTGTTATGTTGGAATAC-C-G
1 CTTCTTTTGAATCGATTGTTTATATGTTTAAATCGATTGTTATGGTGGAATACTCTT
* * *
31534361 CTTCTTTTGAATTGATTGTTTATATATTTAACTCGATT
1 CTTCTTTTGAATCGATTGTTTATATGTTTAAATCGATT
31534399 ATTACGTAGC
Statistics
Matches: 131, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
55 43 0.33
56 4 0.03
57 36 0.27
58 48 0.37
ACGTcount: A:0.24, C:0.10, G:0.16, T:0.50
Consensus pattern (57 bp):
CTTCTTTTGAATCGATTGTTTATATGTTTAAATCGATTGTTATGGTGGAATACTCTT
Found at i:31534922 original size:21 final size:21
Alignment explanation
Indices: 31534893--31534934 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
31534883 GATTTCGTAC
31534893 AATTCTATCAATTAATATATA
1 AATTCTATCAATTAATATATA
* *
31534914 AATTTTATCTATTAATATATA
1 AATTCTATCAATTAATATATA
31534935 GTTTATATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (21 bp):
AATTCTATCAATTAATATATA
Found at i:31534939 original size:19 final size:20
Alignment explanation
Indices: 31534898--31534940 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
31534888 CGTACAATTC
*
31534898 TATCAATTAATATATAAATTT
1 TATCAATTAATATAT-AAGTT
*
31534919 TATCTATTAATATAT-AGTT
1 TATCAATTAATATATAAGTT
31534938 TAT
1 TAT
31534941 ATTATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 6 0.30
21 14 0.70
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.51
Consensus pattern (20 bp):
TATCAATTAATATATAAGTT
Found at i:31539041 original size:21 final size:21
Alignment explanation
Indices: 31538995--31539066 Score: 92
Period size: 21 Copynumber: 3.5 Consensus size: 21
31538985 CCTGATCAGT
* * *
31538995 ATACGACACA-TAAGTGCTTG
1 ATACGACACACGAGGTGCCTG
*
31539015 AAACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
31539036 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
*
31539057 GTACGACACA
1 ATACGACACA
31539067 TAAAGTGCCT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
20 9 0.20
21 36 0.80
ACGTcount: A:0.33, C:0.26, G:0.25, T:0.15
Consensus pattern (21 bp):
ATACGACACACGAGGTGCCTG
Found at i:31539074 original size:21 final size:21
Alignment explanation
Indices: 31538995--31539079 Score: 91
Period size: 21 Copynumber: 4.1 Consensus size: 21
31538985 CCTGATCAGT
* *
31538995 ATACGACACA-TAAGTGCTTG
1 ATACGACACACGAAGTGCCTG
* *
31539015 AAACGACACACGAGGTGCCTG
1 ATACGACACACGAAGTGCCTG
*
31539036 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAAGTGCCTG
* **
31539057 GTACGACACATAAAGTGCCTG
1 ATACGACACACGAAGTGCCTG
31539078 AT
1 AT
31539080 TGGCAAAGCC
Statistics
Matches: 54, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
20 9 0.17
21 45 0.83
ACGTcount: A:0.33, C:0.25, G:0.25, T:0.18
Consensus pattern (21 bp):
ATACGACACACGAAGTGCCTG
Found at i:31539327 original size:36 final size:36
Alignment explanation
Indices: 31539280--31539351 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
31539270 CTTTTCAAAT
* *
31539280 TCACATTTCAATTC-AATTTCACTTTTTCACTTTCAA
1 TCACAATTCAATTCAAATTT-ACTTTTCCACTTTCAA
*
31539316 TCACAATTCAATTCAAATTTACTTTTCCATTTTCAA
1 TCACAATTCAATTCAAATTTACTTTTCCACTTTCAA
31539352 GTCAATATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
36 27 0.84
37 5 0.16
ACGTcount: A:0.31, C:0.24, G:0.00, T:0.46
Consensus pattern (36 bp):
TCACAATTCAATTCAAATTTACTTTTCCACTTTCAA
Found at i:31541389 original size:51 final size:51
Alignment explanation
Indices: 31541313--31541448 Score: 236
Period size: 51 Copynumber: 2.7 Consensus size: 51
31541303 GACTAACACA
*
31541313 ATGGATGCCATGGAGCCTCACTCACATGGTCTTACACCTCATATCATATTT
1 ATGGATGCCATGGAGCCTCACTCACATGGTCTTACACCTCATATCATATCT
*
31541364 ATGGATGCCATGGAACCTCACTCACATGGTCTTACACCTCATATCATATCT
1 ATGGATGCCATGGAGCCTCACTCACATGGTCTTACACCTCATATCATATCT
**
31541415 ATGGATATCATGGAGCCTCACTCACATGGTCTTA
1 ATGGATGCCATGGAGCCTCACTCACATGGTCTTA
31541449 TACTATCTCA
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 80 1.00
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.30
Consensus pattern (51 bp):
ATGGATGCCATGGAGCCTCACTCACATGGTCTTACACCTCATATCATATCT
Found at i:31543109 original size:5 final size:5
Alignment explanation
Indices: 31543099--31543127 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
31543089 ATAATTCTAT
31543099 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
31543128 CTCTATCAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:31546440 original size:36 final size:36
Alignment explanation
Indices: 31546390--31546470 Score: 117
Period size: 36 Copynumber: 2.2 Consensus size: 36
31546380 TACTAACTCA
* * * *
31546390 TATATATAATCAAATTTCTGCTAATGTATATTTTTT
1 TATAAATAAACAAATTTCTACTAATGCATATTTTTT
*
31546426 TATAAATAAACAAATTTCTATTAATGCATATTTTTT
1 TATAAATAAACAAATTTCTACTAATGCATATTTTTT
31546462 TATAAATAA
1 TATAAATAA
31546471 TATGTTAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.48
Consensus pattern (36 bp):
TATAAATAAACAAATTTCTACTAATGCATATTTTTT
Found at i:31547287 original size:192 final size:191
Alignment explanation
Indices: 31546968--31547350 Score: 624
Period size: 192 Copynumber: 2.0 Consensus size: 191
31546958 TATGCAATTA
*
31546968 TAATTAGCTTGATATGTATGTATGCACTTTTAGTCATGGTAACTTTATGTGACCTTATGAAAATC
1 TAATTAGCTTGATATGTATGTATGCACTTTTAGTCATGGTAACTTTATGTAACCTTATGAAAATC
*
31547033 TTGCATCTTTTTTTTAGTCATCATATATTTGTGTGGCATTATTTTGTGTAGATGGATCGTAATCA
66 TTGCATCTTTTTTGTAGTCATCATATATTTGTGTGGCATTATTTTGTGTAGATGGATCGTAATCA
* *
31547098 ACATCAAAATGCAATTGTCGAAGCCGTGGCTTTAATTTTAGCTTTTGGGGCTCTTTGGATT
131 ACATCAAAATGCAATTGTCGAAGCCGTGGCTTCAATTTTAACTTTTGGGGCTCTTTGGATT
* *
31547159 TAATTAGCTTGATATGTATGTATGCACTTTTAGTCATGGTAAATTTTTATGTAATCTTATGAAAA
1 TAATTAGCTTGATATGTATGTATGCACTTTTAGTCATGGT-AA-CTTTATGTAACCTTATGAAAA
* *
31547224 T-TTGCCTCTTTTTTGTAGTGATCATATATTTGTGTGGCATTATTTTGTGTAGATGGATCGTAAT
64 TCTTGCATCTTTTTTGTAGTCATCATATATTTGTGTGGCATTATTTTGTGTAGATGGATCGTAAT
* * * * *
31547288 CAAGATCAAAATGCAATTGTCGGAGTCGTGGCTTCAGTTTTAACTTTTGGGGCTGTTTGGATT
129 CAACATCAAAATGCAATTGTCGAAGCCGTGGCTTCAATTTTAACTTTTGGGGCTCTTTGGATT
31547351 AAAAAATTAA
Statistics
Matches: 177, Mismatches: 13, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
191 40 0.23
192 118 0.67
193 19 0.11
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.43
Consensus pattern (191 bp):
TAATTAGCTTGATATGTATGTATGCACTTTTAGTCATGGTAACTTTATGTAACCTTATGAAAATC
TTGCATCTTTTTTGTAGTCATCATATATTTGTGTGGCATTATTTTGTGTAGATGGATCGTAATCA
ACATCAAAATGCAATTGTCGAAGCCGTGGCTTCAATTTTAACTTTTGGGGCTCTTTGGATT
Found at i:31548104 original size:77 final size:77
Alignment explanation
Indices: 31548012--31548164 Score: 270
Period size: 77 Copynumber: 2.0 Consensus size: 77
31548002 TTATCTTGCT
* *
31548012 GATGCTGGATATGGCATCCGAAATGGATATATTACCCCATATTGTGGTGTTCGATATCATTTAAA
1 GATGCTGGATATGGCATCCGAAATGGATATATTACCCCATATCGTGGTGTTCAATATCATTTAAA
31548077 AGAGTTTAGTGA
66 AGAGTTTAGTGA
* *
31548089 GATGCTGGATATGGCATTCGAAATGGATATATTACCCCATATCGTGGTGTTCAATATTATTTAAA
1 GATGCTGGATATGGCATCCGAAATGGATATATTACCCCATATCGTGGTGTTCAATATCATTTAAA
31548154 AGAGTTTAGTG
66 AGAGTTTAGTG
31548165 CTCAAAGGCC
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
77 72 1.00
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.35
Consensus pattern (77 bp):
GATGCTGGATATGGCATCCGAAATGGATATATTACCCCATATCGTGGTGTTCAATATCATTTAAA
AGAGTTTAGTGA
Found at i:31548716 original size:35 final size:35
Alignment explanation
Indices: 31548670--31548768 Score: 144
Period size: 35 Copynumber: 2.8 Consensus size: 35
31548660 TTAGATATTG
* *
31548670 ATTATGTTTTAAGCTTGTTTGATATTGAATTTTTT
1 ATTATGTTTTAAGCTTGTTGGATATTGAATTTGTT
* * *
31548705 ATTATATTTTAAGCTTGTTGGGTATTCAATTTGTT
1 ATTATGTTTTAAGCTTGTTGGATATTGAATTTGTT
*
31548740 ATTATGTTTTGAGCTTGTTGGATATTGAA
1 ATTATGTTTTAAGCTTGTTGGATATTGAA
31548769 ATGATTGACA
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 55 1.00
ACGTcount: A:0.23, C:0.04, G:0.18, T:0.55
Consensus pattern (35 bp):
ATTATGTTTTAAGCTTGTTGGATATTGAATTTGTT
Found at i:31550060 original size:32 final size:32
Alignment explanation
Indices: 31550024--31550110 Score: 95
Period size: 33 Copynumber: 2.7 Consensus size: 32
31550014 AACTTTTCCG
*
31550024 GAAAATATTTTCAAAAAATC-TGCCAAACAGCA
1 GAAAATATTTTCAAAAAATCAT-CCAAACACCA
* * *
31550056 GAAAATATTTTACACAGATTCATCCAAACACCA
1 GAAAATATTTT-CAAAAAATCATCCAAACACCA
**
31550089 GAAAATATTTTCAGTAAATCAT
1 GAAAATATTTTCAAAAAATCAT
31550111 TTTCCAGAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
32 18 0.40
33 26 0.58
34 1 0.02
ACGTcount: A:0.47, C:0.18, G:0.08, T:0.26
Consensus pattern (32 bp):
GAAAATATTTTCAAAAAATCATCCAAACACCA
Found at i:31550140 original size:20 final size:20
Alignment explanation
Indices: 31550101--31550141 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
31550091 AAATATTTTC
*
31550101 AGTAAATCATTTTCCAGAAA
1 AGTAAATCATTTTACAGAAA
*
31550121 AGTAAATCATTTTACGGAAA
1 AGTAAATCATTTTACAGAAA
31550141 A
1 A
31550142 TATTTTACTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.29
Consensus pattern (20 bp):
AGTAAATCATTTTACAGAAA
Found at i:31550660 original size:91 final size:89
Alignment explanation
Indices: 31550544--31550714 Score: 202
Period size: 91 Copynumber: 1.9 Consensus size: 89
31550534 ATTAAGCTTT
* *
31550544 TTTTTACACTAAATTGAGCACTTAAACTTTCAAATTGCATAAAAAA-AGACCGTCAAACTTCTTC
1 TTTTTACACTAAATTGAGCACTTAAACTTTCAAAATGCATAAAAAAGAG-CC-TCAAAATTCTTC
*
31550608 AAATAAAAGCAATTAAGCCCCTGTATTC
64 --ATAAAAACAATTAAGCCCCTGTATTC
* * * * * * *
31550636 TTTTT-CACTCAATTGGGTACTTAAACTTTTAAAATGTATCAAAAAGAGCCTCAAAATTTTTCAT
1 TTTTTACACTAAATTGAGCACTTAAACTTTCAAAATGCATAAAAAAGAGCCTCAAAATTCTTCAT
31550700 AAAAACAATTAAGCC
66 AAAAACAATTAAGCC
31550715 TCCGCTCTTA
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
88 16 0.24
90 10 0.15
91 35 0.51
92 7 0.10
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (89 bp):
TTTTTACACTAAATTGAGCACTTAAACTTTCAAAATGCATAAAAAAGAGCCTCAAAATTCTTCAT
AAAAACAATTAAGCCCCTGTATTC
Found at i:31551207 original size:87 final size:87
Alignment explanation
Indices: 31551065--31551235 Score: 222
Period size: 87 Copynumber: 2.0 Consensus size: 87
31551055 CATAAAAAAA
* ** * *
31551065 GGGCTTTAATTGTTTTTTTTAAAAGGTTTGAGGGTCTTTTTTTATGCACTTTGAAAGTTCAAATA
1 GGGCTTTAATTGTTTTTTTGAAAAGGTTTGAGAATCTTTTTTGATACACTTTGAAAGTTCAAATA
*
31551130 CCCAATTGAGTGCAAAAAAAGTAG
66 CCCAAATGAGT--AAAAAAAGTAG
*
31551154 GGGC-TTAATTGCTTTTTTTGAAAAGGTTTGA-AAT-TTTTTTGATACATTTTGAAAGTTCAAAT
1 GGGCTTTAATTG-TTTTTTTGAAAAGGTTTGAGAATCTTTTTTGATACACTTTGAAAGTTCAAAT
*
31551216 ATCCAAATGAGTAAAAAAAG
65 ACCCAAATGAGTAAAAAAAG
31551236 AGATTTGATT
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
85 8 0.11
87 35 0.48
88 8 0.11
89 22 0.30
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (87 bp):
GGGCTTTAATTGTTTTTTTGAAAAGGTTTGAGAATCTTTTTTGATACACTTTGAAAGTTCAAATA
CCCAAATGAGTAAAAAAAGTAG
Found at i:31560932 original size:120 final size:121
Alignment explanation
Indices: 31560719--31560959 Score: 450
Period size: 120 Copynumber: 2.0 Consensus size: 121
31560709 ATTTTCTAAT
31560719 ATTATTAGATTATTCTATAAAGTATTCTTCCAGAAATCTTTTATAGAAATTGAGTTTTTGTTATA
1 ATTATTAGATTATTCTATAAAGTATTCTTCCAGAAATCTTTTATAGAAATTGAGTTTTTGTTATA
31560784 CATTACTCAATGCATAGTGGACTATTCTCGTCAGTGCAAAACGC-AATAGTCATTG
66 CATTACTCAATGCATAGTGGACTATTCTCGTCAGTGCAAAACGCAAATAGTCATTG
*
31560839 ATTATTAGATTATTCTATAAAGTATTAC-TGCAGAAATCTTTTATAGAAATTGAGTTTTTGTTAT
1 ATTATTAGATTATTCTATAAAGTATT-CTTCCAGAAATCTTTTATAGAAATTGAGTTTTTGTTAT
31560903 ACATTACTCAATGCATAGTGGACTATTCTCGTCAGTGCAAAACGCAAATAGTCATTG
65 ACATTACTCAATGCATAGTGGACTATTCTCGTCAGTGCAAAACGCAAATAGTCATTG
31560960 GCTTCATTGT
Statistics
Matches: 118, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
120 106 0.90
121 12 0.10
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.39
Consensus pattern (121 bp):
ATTATTAGATTATTCTATAAAGTATTCTTCCAGAAATCTTTTATAGAAATTGAGTTTTTGTTATA
CATTACTCAATGCATAGTGGACTATTCTCGTCAGTGCAAAACGCAAATAGTCATTG
Found at i:31582149 original size:17 final size:17
Alignment explanation
Indices: 31582107--31582155 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 17
31582097 ATATTGAATG
31582107 TTTTTAT-ATTATTTATT
1 TTTTTATAATTA-TTATT
*
31582124 TTTAATATAATTATTATT
1 TTT-TTATAATTATTATT
31582142 TTTTTATAATTATT
1 TTTTTATAATTATT
31582156 TTTAAATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 13 0.46
18 11 0.39
19 4 0.14
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTTTATAATTATTATT
Found at i:31582742 original size:28 final size:29
Alignment explanation
Indices: 31582685--31582744 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
31582675 TTTAATGTTG
* * **
31582685 ATTTAGTTATAATTTTTTTTATTTTTAAA
1 ATTTAGTTAAAATATTTTTTATTTAAAAA
31582714 ATTTAGTTAAAATATTTTTTA-TTAAAAA
1 ATTTAGTTAAAATATTTTTTATTTAAAAA
31582742 ATT
1 ATT
31582745 GATTGGATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 8 0.30
29 19 0.70
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.58
Consensus pattern (29 bp):
ATTTAGTTAAAATATTTTTTATTTAAAAA
Found at i:31590742 original size:83 final size:75
Alignment explanation
Indices: 31590649--31590856 Score: 218
Period size: 75 Copynumber: 2.7 Consensus size: 75
31590639 TTAAACTAGT
* * * *
31590649 AATGATAAAATTGTACTTTGACTCTCAAAAATAATAAAAATTAGACTTAATCATTTAAAAATTAT
1 AATGGTAAAATTATACTTTGACTATCAAAAA-AAT-AAAATT-GA-TT--TC--TAAAAAATTAT
31590714 AAAGATAAAAACTATTAA
58 AAAGATAAAAACTATTAA
* * * * *
31590732 AATGGTAAAATTATATTTTTACTATCATAAAAATATAATTTATTTCTAAAAAATTATAAAGATAA
1 AATGGTAAAATTATACTTTGACTATCAAAAAAATAAAATTGATTTCTAAAAAATTATAAAGATAA
31590797 AAACTATTAA
66 AAACTATTAA
* * * *
31590807 AATGGTAAAATTATATTTTTACTATCATAAAAATATAAATTTATTTCTAA
1 AATGGTAAAATTATACTTTGACTATCAAAAAAATA-AAATTGATTTCTAA
31590857 TCCAAAAAAA
Statistics
Matches: 114, Mismatches: 10, Indels: 9
0.86 0.08 0.07
Matches are distributed among these distances:
75 63 0.55
76 13 0.11
77 2 0.02
79 2 0.02
80 1 0.01
81 5 0.04
82 3 0.03
83 25 0.22
ACGTcount: A:0.51, C:0.07, G:0.05, T:0.38
Consensus pattern (75 bp):
AATGGTAAAATTATACTTTGACTATCAAAAAAATAAAATTGATTTCTAAAAAATTATAAAGATAA
AAACTATTAA
Found at i:31590786 original size:75 final size:76
Alignment explanation
Indices: 31590705--31590856 Score: 297
Period size: 75 Copynumber: 2.0 Consensus size: 76
31590695 TTAATCATTT
31590705 AAAAATTATAAAGATAAAAACTATTAAAATGGTAAAATTATATTTTTACTATCATAAAAATAT-A
1 AAAAATTATAAAGATAAAAACTATTAAAATGGTAAAATTATATTTTTACTATCATAAAAATATAA
31590769 ATTTATTTCTA
66 ATTTATTTCTA
31590780 AAAAATTATAAAGATAAAAACTATTAAAATGGTAAAATTATATTTTTACTATCATAAAAATATAA
1 AAAAATTATAAAGATAAAAACTATTAAAATGGTAAAATTATATTTTTACTATCATAAAAATATAA
31590845 ATTTATTTCTA
66 ATTTATTTCTA
31590856 A
1 A
31590857 TCCAAAAAAA
Statistics
Matches: 76, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
75 63 0.83
76 13 0.17
ACGTcount: A:0.53, C:0.05, G:0.04, T:0.38
Consensus pattern (76 bp):
AAAAATTATAAAGATAAAAACTATTAAAATGGTAAAATTATATTTTTACTATCATAAAAATATAA
ATTTATTTCTA
Found at i:31605512 original size:18 final size:18
Alignment explanation
Indices: 31605473--31605509 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
31605463 ATGCAAGCTA
*
31605473 TTCTTAAAAGAAGAGTTG
1 TTCTTAAAAGAAGAATTG
31605491 TTCTTAAAAGAA-AATTG
1 TTCTTAAAAGAAGAATTG
31605508 TT
1 TT
31605510 TCTAGATAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.41, C:0.05, G:0.16, T:0.38
Consensus pattern (18 bp):
TTCTTAAAAGAAGAATTG
Done.