Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold324
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: 2336777
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 6 of 16
Found at i:825976 original size:120 final size:120
Alignment explanation
Indices: 825757--825992 Score: 330
Period size: 120 Copynumber: 2.0 Consensus size: 120
825747 CAAAAGATAA
* * *
825757 TGATGATACGGGTGTTTCCCAAAGCCGTCGTTGCTTTGGAGGTGGCGGAGGTGGCGGCGGAGGCG
1 TGATGAAACGGGTGTTTCCCAAAGCCGTCGTTGCCTTGGAGGTGGCGGAGGTGGCGGCGGAGACG
* * * *
825822 GTGGAGACAAGATAGACTTCTCTAAAGCCCTGCTAAGTTTTA-GAGGAGATGGTAC
66 GTAGAGACAAGATAGACTTCTCCAAAGACCTGCTAAGTCTTACG-GGAGATGGTAC
* * * *
825877 TGATGAAACTGGTGTTTCCCAGAGCCGTCGTTGCCTTGGAGGTGGCGGAGGTGGTGGTGGAGACG
1 TGATGAAACGGGTGTTTCCCAAAGCCGTCGTTGCCTTGGAGGTGGCGGAGGTGGCGGCGGAGACG
* * *
825942 GTATAGACAAGATAGGCTTCTCCAAAGACTTGCTAAGTCTTACGGGAGATG
66 GTAGAGACAAGATAGACTTCTCCAAAGACCTGCTAAGTCTTACGGGAGATG
825993 CATCGGGACT
Statistics
Matches: 101, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
120 100 0.99
121 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.36, T:0.25
Consensus pattern (120 bp):
TGATGAAACGGGTGTTTCCCAAAGCCGTCGTTGCCTTGGAGGTGGCGGAGGTGGCGGCGGAGACG
GTAGAGACAAGATAGACTTCTCCAAAGACCTGCTAAGTCTTACGGGAGATGGTAC
Found at i:828095 original size:20 final size:20
Alignment explanation
Indices: 828063--828113 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
828053 TTTTAAATTT
* *
828063 ATAA-TAAAGTTAATCTTAA
1 ATAATTAAATTTAAACTTAA
828082 A-AATTTAAATTTAAACTTAA
1 ATAA-TTAAATTTAAACTTAA
828102 ATAATTAAATTT
1 ATAATTAAATTT
828114 TAAGTGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 2 0.07
19 1 0.04
20 22 0.81
21 2 0.07
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (20 bp):
ATAATTAAATTTAAACTTAA
Found at i:829822 original size:25 final size:27
Alignment explanation
Indices: 829785--829834 Score: 86
Period size: 25 Copynumber: 1.9 Consensus size: 27
829775 ATTTATTTTT
829785 AAATTTAAGATATAATAAAAATATTAA
1 AAATTTAAGATATAATAAAAATATTAA
829812 AAATTT-A-ATATAATAAAAATATT
1 AAATTTAAGATATAATAAAAATATT
829835 CGTTAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 16 0.70
26 1 0.04
27 6 0.26
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (27 bp):
AAATTTAAGATATAATAAAAATATTAA
Found at i:830687 original size:34 final size:34
Alignment explanation
Indices: 830622--830690 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
830612 AAATAATATG
*
830622 TATAATATAAAAAATTAAAATTTATTAAAATTTA
1 TATAATATAAAAAATTAAAATTTAATAAAATTTA
** * *
830656 TATAATATAAATTATTAATATATTAATAAATTTTA
1 TATAATATAAAAAATTAAAAT-TTAATAAAATTTA
830691 AAAAAATCAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
34 18 0.62
35 11 0.38
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (34 bp):
TATAATATAAAAAATTAAAATTTAATAAAATTTA
Found at i:834192 original size:10 final size:10
Alignment explanation
Indices: 834171--834223 Score: 67
Period size: 10 Copynumber: 5.4 Consensus size: 10
834161 TTGGTTGAAC
834171 AATTTA-TTA
1 AATTTATTTA
834180 AATTTATTTA
1 AATTTATTTA
834190 AATTTATATTA
1 AATTTAT-TTA
834201 AATTT-TTT-
1 AATTTATTTA
834209 AATTTAATTTA
1 AATTT-ATTTA
834220 AATT
1 AATT
834224 ATTATTTCAA
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
8 5 0.13
9 8 0.21
10 14 0.36
11 12 0.31
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
AATTTATTTA
Found at i:834195 original size:19 final size:19
Alignment explanation
Indices: 834171--834227 Score: 57
Period size: 19 Copynumber: 3.0 Consensus size: 19
834161 TTGGTTGAAC
834171 AATTTA-TTAAATTTATTTA
1 AATTTATTTAAATTTA-TTA
*
834190 AATTTATATTAAATTT-TTT
1 AATTTAT-TTAAATTTATTA
834209 AATTTAATTTAAA-TTATTA
1 AATTT-ATTTAAATTTATTA
834228 TTTCAAATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
18 2 0.06
19 20 0.62
20 2 0.06
21 8 0.25
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
AATTTATTTAAATTTATTA
Found at i:835921 original size:36 final size:37
Alignment explanation
Indices: 835880--835953 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
835870 GCTTACCACA
* *
835880 AATTGC-TGAGTGGTGACGTAAAAAGCATCACAAAAT
1 AATTGCTTGAGTAGTGACGTAAAAACCATCACAAAAT
*
835916 AATTGCTTGGGTAGTGACGTAAAAACCATCACAAAAT
1 AATTGCTTGAGTAGTGACGTAAAAACCATCACAAAAT
835953 A
1 A
835954 CTATAAACTT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
36 6 0.18
37 28 0.82
ACGTcount: A:0.42, C:0.15, G:0.20, T:0.23
Consensus pattern (37 bp):
AATTGCTTGAGTAGTGACGTAAAAACCATCACAAAAT
Found at i:846357 original size:2 final size:2
Alignment explanation
Indices: 846350--846383 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
846340 AATTATACAC
846350 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
846384 GAGGCTTCGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:850856 original size:29 final size:31
Alignment explanation
Indices: 850809--850867 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 31
850799 TAGTGAAAGA
*
850809 AGCAGTTTTAGTTCTTGTATTATT-AAATTC
1 AGCAGTTTTAGTCCTTGTATTATTGAAATTC
*
850839 AGCA-TTTTAGTCCTTGTATTTTTGAAATT
1 AGCAGTTTTAGTCCTTGTATTATTGAAATT
850868 TTAGCAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.25, C:0.10, G:0.14, T:0.51
Consensus pattern (31 bp):
AGCAGTTTTAGTCCTTGTATTATTGAAATTC
Found at i:852884 original size:2 final size:2
Alignment explanation
Indices: 852877--852903 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
852867 AATTAGTGTT
852877 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
852904 TAAAATATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:858727 original size:2 final size:2
Alignment explanation
Indices: 858720--858753 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
858710 ATAAATAATC
858720 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
858754 AAAGCCCATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:860080 original size:22 final size:22
Alignment explanation
Indices: 860044--860099 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
860034 ATATATTTAT
860044 ATAA-ATTTTAA--TATATC-A
1 ATAATATTTTAATTTATATCGA
* *
860062 ATAATTTTTTATATTTATATCGT
1 ATAATATTTTA-ATTTATATCGA
860085 ATAATATTTTAATTT
1 ATAATATTTTAATTT
860100 TTTTTTACCA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 4 0.13
19 5 0.17
20 1 0.03
22 10 0.33
23 10 0.33
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.55
Consensus pattern (22 bp):
ATAATATTTTAATTTATATCGA
Found at i:862839 original size:3 final size:3
Alignment explanation
Indices: 862831--862855 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
862821 TTAAATTTAG
862831 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
862856 AAGAGTGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:863179 original size:25 final size:23
Alignment explanation
Indices: 863151--863217 Score: 57
Period size: 24 Copynumber: 2.7 Consensus size: 23
863141 TATACCATAT
863151 ATAATATTTACTATAAAAGGTAATG
1 ATAATATTT-CTATAAAA-GTAATG
*
863176 ATAA-ATTTGTCATAAATAGTAATG
1 ATAATATTTCT-ATAAA-AGTAATG
863200 ATAATCATTT-TCATAAAA
1 ATAAT-ATTTCT-ATAAAA
863218 AGTATGCTAC
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
23 1 0.03
24 20 0.54
25 12 0.32
26 4 0.11
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.37
Consensus pattern (23 bp):
ATAATATTTCTATAAAAGTAATG
Found at i:863221 original size:25 final size:24
Alignment explanation
Indices: 863163--863221 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 24
863153 AATATTTACT
*
863163 ATAAAAGGTAATGATAAATTTGTC
1 ATAAAAAGTAATGATAAATTTGTC
*
863187 ATAAATAGTAATGATAATCATTT-TC
1 ATAAAAAGTAATGATAA--ATTTGTC
863212 ATAAAAAGTA
1 ATAAAAAGTA
863222 TGCTACGATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 15 0.50
25 11 0.37
26 4 0.13
ACGTcount: A:0.49, C:0.05, G:0.12, T:0.34
Consensus pattern (24 bp):
ATAAAAAGTAATGATAAATTTGTC
Found at i:864117 original size:19 final size:17
Alignment explanation
Indices: 864095--864135 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
864085 ATTGTAAATA
864095 TAAATATAATAAAAATTAT
1 TAAATAT-ATAAAAATT-T
*
864114 TAAATATATTAAAATTT
1 TAAATATATAAAAATTT
864131 TAAAT
1 TAAAT
864136 GTATTGTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.29
18 8 0.38
19 7 0.33
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAATATATAAAAATTT
Found at i:864135 original size:17 final size:18
Alignment explanation
Indices: 864095--864140 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
864085 ATTGTAAATA
*
864095 TAAATATAATAAAAATTAT
1 TAAATAT-ATTAAAATTAT
864114 TAAATATATTAAAATT-T
1 TAAATATATTAAAATTAT
*
864131 TAAATGTATT
1 TAAATATATT
864141 GTATTCGATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 10 0.40
18 8 0.32
19 7 0.28
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (18 bp):
TAAATATATTAAAATTAT
Found at i:866794 original size:21 final size:21
Alignment explanation
Indices: 866769--866811 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
866759 ATATATTTTT
866769 AAAATAT-AGTAAAAATATAAA
1 AAAATATAAGTAAAAA-ATAAA
* *
866790 AAAATTTAATTAAAAAATAAA
1 AAAATATAAGTAAAAAATAAA
866811 A
1 A
866812 TGTGTATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (21 bp):
AAAATATAAGTAAAAAATAAA
Found at i:867628 original size:19 final size:19
Alignment explanation
Indices: 867604--867651 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
867594 AAATGTAATC
*
867604 AAAAATTTCGTTTAA-ATTT
1 AAAAATTT-ATTTAATATTT
867623 AAAAATTTATTTAATATTT
1 AAAAATTTATTTAATATTT
867642 AAAAAATTTA
1 -AAAAATTTA
867652 AATAAAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 5 0.19
19 12 0.46
20 9 0.35
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (19 bp):
AAAAATTTATTTAATATTT
Found at i:868742 original size:25 final size:26
Alignment explanation
Indices: 868680--868748 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 26
868670 GTGTTTTAGT
* *
868680 TATTTATTTTTTAA-TATATTTTATA
1 TATTTATATTTAAATTATATTTTATA
**
868705 TATTTA-A-AAAAATTATATTTT-TA
1 TATTTATATTTAAATTATATTTTATA
868728 TATTTATATTTAAATATATAT
1 TATTTATATTTAAAT-TATAT
868749 AAAAATAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
23 10 0.29
24 9 0.26
25 10 0.29
26 5 0.15
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (26 bp):
TATTTATATTTAAATTATATTTTATA
Found at i:869453 original size:20 final size:19
Alignment explanation
Indices: 869420--869459 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
869410 ATTAAAAAAA
* *
869420 TTTTATATTGAATAAGTAT
1 TTTTATATTAAATAAATAT
869439 TTTTAATATTAAATAAATAT
1 TTTT-ATATTAAATAAATAT
869459 T
1 T
869460 AAATATAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (19 bp):
TTTTATATTAAATAAATAT
Found at i:869471 original size:16 final size:16
Alignment explanation
Indices: 869449--869488 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
869439 TTTTAATATT
869449 AAATAAATA-TTAAATA
1 AAATAAATACTT-AATA
*
869465 TAATAAATACTTAATA
1 AAATAAATACTTAATA
869481 AAATAAAT
1 AAATAAAT
869489 TCATTTGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 19 0.90
17 2 0.10
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (16 bp):
AAATAAATACTTAATA
Found at i:879326 original size:19 final size:19
Alignment explanation
Indices: 879277--879334 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
879267 TTGGAAGTAA
*
879277 ATATTTAAATATGTTAA-A
1 ATATTTAAATATGTTAATT
*
879295 ATA-ATATAATATGTTAATT
1 ATATTTA-AATATGTTAATT
*
879314 ATATTTAAATATGTTATTT
1 ATATTTAAATATGTTAATT
879333 AT
1 AT
879335 TTTTTATTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
17 2 0.06
18 13 0.39
19 16 0.48
20 2 0.06
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (19 bp):
ATATTTAAATATGTTAATT
Found at i:879851 original size:2 final size:2
Alignment explanation
Indices: 879844--879868 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
879834 TAATTTACAA
879844 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
879869 CACGTAATAT
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:881824 original size:2 final size:2
Alignment explanation
Indices: 881817--881851 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
881807 TTGCTAAATG
881817 AT AT AT AT AT 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 AT AT AT AT AT A
881852 GAAAAGCAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:886224 original size:28 final size:28
Alignment explanation
Indices: 886187--886249 Score: 117
Period size: 28 Copynumber: 2.2 Consensus size: 28
886177 TGAATATTTA
*
886187 TTAAACATAATTATCAAATAAAAATATT
1 TTAAAAATAATTATCAAATAAAAATATT
886215 TTAAAAATAATTATCAAATAAAAATATT
1 TTAAAAATAATTATCAAATAAAAATATT
886243 TTAAAAA
1 TTAAAAA
886250 ATAAAGAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (28 bp):
TTAAAAATAATTATCAAATAAAAATATT
Found at i:886236 original size:17 final size:17
Alignment explanation
Indices: 886188--886240 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 17
886178 GAATATTTAT
*
886188 TAAACATAATTATCAAA
1 TAAAAATAATTATCAAA
886205 TAAAAAT-ATT-T----
1 TAAAAATAATTATCAAA
886216 TAAAAATAATTATCAAA
1 TAAAAATAATTATCAAA
886233 TAAAAATA
1 TAAAAATA
886241 TTTTAAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 12
0.69 0.02 0.29
Matches are distributed among these distances:
11 7 0.24
12 3 0.10
13 1 0.03
15 1 0.03
16 3 0.10
17 14 0.48
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (17 bp):
TAAAAATAATTATCAAA
Found at i:886535 original size:14 final size:14
Alignment explanation
Indices: 886494--886536 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
886484 GACACTAAAC
886494 ATATTAAAATTTAT
1 ATATTAAAATTTAT
* *
886508 ATAATAAAA--AAT
1 ATATTAAAATTTAT
886520 ATATTAAAATTTAT
1 ATATTAAAATTTAT
886534 ATA
1 ATA
886537 CTATAAATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
12 10 0.43
14 13 0.57
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATTAAAATTTAT
Found at i:888314 original size:31 final size:31
Alignment explanation
Indices: 888279--888341 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
888269 TATCAATTGA
*
888279 TTTTAAGAAAAATTAGTTTATAATTTATATT
1 TTTTAAGAAAAATTAATTTATAATTTATATT
*** * *
888310 TTTTATTTAAAATTAATTTATCATTTTTATT
1 TTTTAAGAAAAATTAATTTATAATTTATATT
888341 T
1 T
888342 AATAAATTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.59
Consensus pattern (31 bp):
TTTTAAGAAAAATTAATTTATAATTTATATT
Found at i:888353 original size:23 final size:23
Alignment explanation
Indices: 888298--888343 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
888288 AAATTAGTTT
888298 ATAATTTAT-ATTTTTTATTTAAA
1 ATAATTTATCA-TTTTTATTTAAA
888321 ATTAATTTATCATTTTTATTTAA
1 A-TAATTTATCATTTTTATTTAA
888344 TAAATTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 1 0.05
24 19 0.90
25 1 0.05
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (23 bp):
ATAATTTATCATTTTTATTTAAA
Found at i:888630 original size:2 final size:2
Alignment explanation
Indices: 888623--888656 Score: 50
Period size: 2 Copynumber: 16.5 Consensus size: 2
888613 CGACACGTGA
*
888623 AT AT AT AT AT AT AT AT AT AT AT AT TT AT GAT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT A
888657 AATAATAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:888734 original size:18 final size:19
Alignment explanation
Indices: 888704--888754 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
888694 TTTTAAAATT
888704 TATA-TAATAATTTAT-TAA
1 TATATTAAT-ATTTATATAA
888722 TATATTAATATTTATATAA
1 TATATTAATATTTATATAA
*
888741 T-TATAAAATATTTA
1 TATAT-TAATATTTA
888755 AAATTTAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 13 0.45
19 16 0.55
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TATATTAATATTTATATAA
Found at i:888771 original size:25 final size:27
Alignment explanation
Indices: 888685--888779 Score: 86
Period size: 30 Copynumber: 3.4 Consensus size: 27
888675 GGTAAAAAAT
*
888685 ATAAAATAATTTTAAAATTTATATAATA
1 ATAAAAT-ATATTAAAATTTATATAATA
* * *
888713 ATTTATTAATATATTAATATTTATATAATT
1 A--TA-AAATATATTAAAATTTATATAATA
888743 ATAAAATAT-TTAAAATTTAATTATAATA
1 ATAAAATATATTAAAATTT-A-TATAATA
888771 A-AAAATATA
1 ATAAAATATA
888780 ATGTAAATAT
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
26 8 0.15
27 13 0.24
28 10 0.19
30 20 0.37
31 3 0.06
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (27 bp):
ATAAAATATATTAAAATTTATATAATA
Found at i:893261 original size:76 final size:76
Alignment explanation
Indices: 893130--893283 Score: 283
Period size: 76 Copynumber: 2.0 Consensus size: 76
893120 TATATGTATA
893130 TTAATAAACTTAATAATTGAGTTCTGTACAAGGATAACATGGCTAAAAATATCCAAGAGATTACT
1 TTAATAAACTTAATAATTGAGTTCTGTACAAGGATAACATGGCTAAAAATATCCAAGAGATTACT
893195 GCAAATATGCC
66 GCAAATATGCC
*
893206 TTAATAAACTTAATAATTGAGTTCTGTACAAGGGTAACATGGCTAAAAAGT-TCCAAGAGATTAC
1 TTAATAAACTTAATAATTGAGTTCTGTACAAGGATAACATGGCTAAAAA-TATCCAAGAGATTAC
893270 TGCAAATATGCC
65 TGCAAATATGCC
893282 TT
1 TT
893284 GTGAAATCCG
Statistics
Matches: 76, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
76 75 0.99
77 1 0.01
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (76 bp):
TTAATAAACTTAATAATTGAGTTCTGTACAAGGATAACATGGCTAAAAATATCCAAGAGATTACT
GCAAATATGCC
Found at i:895319 original size:12 final size:13
Alignment explanation
Indices: 895302--895360 Score: 60
Period size: 14 Copynumber: 5.0 Consensus size: 13
895292 ATATTTTTAA
895302 AAAT-TTAATTAT
1 AAATATTAATTAT
895314 AAAT-TT-A-TAT
1 AAATATTAATTAT
895324 AAATATTAATATAT
1 AAATATTAAT-TAT
895338 AAATATTAATT-T
1 AAATATTAATTAT
895350 -AATATT-ATTAT
1 AAATATTAATTAT
895361 GAAGTGGGCT
Statistics
Matches: 42, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
10 10 0.24
11 10 0.24
12 8 0.19
13 1 0.02
14 13 0.31
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
AAATATTAATTAT
Found at i:896047 original size:22 final size:22
Alignment explanation
Indices: 896022--896065 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
896012 TTTATGTTTT
*
896022 GTTTACATAGGTTTGAGTTTAA
1 GTTTACATAGGTTTAAGTTTAA
*
896044 GTTTAGATAGGTTTAAGTTTAA
1 GTTTACATAGGTTTAAGTTTAA
896066 AATTATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.02, G:0.23, T:0.45
Consensus pattern (22 bp):
GTTTACATAGGTTTAAGTTTAA
Found at i:896221 original size:3 final size:3
Alignment explanation
Indices: 896213--896241 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
896203 TACTTTCCCC
896213 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
896242 GTTTGCTTTC
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:899046 original size:33 final size:33
Alignment explanation
Indices: 899009--899074 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
898999 TTTAGAGTTA
*
899009 AATTTAATTTTCATTACAAATAATACATAATAT
1 AATTTAATTTTCATTACAAACAATACATAATAT
*
899042 AATTTAATTTTTATTACAAACAATACATAATAT
1 AATTTAATTTTCATTACAAACAATACATAATAT
899075 GAAATGAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.42
Consensus pattern (33 bp):
AATTTAATTTTCATTACAAACAATACATAATAT
Found at i:899113 original size:11 final size:11
Alignment explanation
Indices: 899097--899140 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
899087 GACATTACAT
899097 AAAATAATATA
1 AAAATAATATA
899108 AAAATAA-ATTA
1 AAAATAATA-TA
*
899119 AAATATAATCTA
1 AAA-ATAATATA
899131 AAAATAATAT
1 AAAATAATAT
899141 GAGCATGTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
10 1 0.04
11 18 0.64
12 9 0.32
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (11 bp):
AAAATAATATA
Found at i:899554 original size:16 final size:17
Alignment explanation
Indices: 899533--899574 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
899523 ATTTGAGTTT
899533 TATTAATA-TATTTTTA
1 TATTAATATTATTTTTA
*
899549 TATTAAAAATTATTTTTA
1 TATT-AATATTATTTTTA
899567 TAATTAAT
1 T-ATTAAT
899575 GTGGGTGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
16 4 0.19
17 3 0.14
18 11 0.52
19 3 0.14
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TATTAATATTATTTTTA
Found at i:899766 original size:9 final size:9
Alignment explanation
Indices: 899747--899795 Score: 59
Period size: 9 Copynumber: 5.7 Consensus size: 9
899737 TATTTATTTT
899747 TTAAAAA-A
1 TTAAAAATA
899755 TTAAAAATA
1 TTAAAAATA
899764 TTAAAAA-A
1 TTAAAAATA
899772 -TAAAAATA
1 TTAAAAATA
*
899780 ATATAAAATA
1 TTA-AAAATA
899790 TTAAAA
1 TTAAAA
899796 TAAGAATGAG
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
7 6 0.17
8 9 0.25
9 13 0.36
10 8 0.22
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (9 bp):
TTAAAAATA
Found at i:899769 original size:16 final size:18
Alignment explanation
Indices: 899750--899795 Score: 60
Period size: 16 Copynumber: 2.6 Consensus size: 18
899740 TTATTTTTTA
899750 AAAAATTAAAAAT-AT-T
1 AAAAATTAAAAATAATAT
*
899766 AAAAAATAAAAATAATAT
1 AAAAATTAAAAATAATAT
899784 AAAATATTAAAA
1 AAAA-ATTAAAA
899796 TAAGAATGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 12 0.48
17 2 0.08
18 5 0.20
19 6 0.24
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAAATTAAAAATAATAT
Found at i:900137 original size:21 final size:20
Alignment explanation
Indices: 900113--900151 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
900103 TAATCAATAA
*
900113 TAAAAGTATATTATTAAAAAT
1 TAAAAGTA-ATTAATAAAAAT
*
900134 TAAATGTAATTAATAAAA
1 TAAAAGTAATTAATAAAA
900152 TAATTGTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (20 bp):
TAAAAGTAATTAATAAAAAT
Found at i:900584 original size:7 final size:7
Alignment explanation
Indices: 900572--900596 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
900562 TATATCATTT
900572 AAAAATA
1 AAAAATA
900579 AAAAATA
1 AAAAATA
900586 AAAAATA
1 AAAAATA
900593 AAAA
1 AAAA
900597 TAATTAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:901464 original size:3 final size:3
Alignment explanation
Indices: 901456--901480 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
901446 CACGTACAAA
901456 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
901481 TTTTATCATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:902417 original size:23 final size:21
Alignment explanation
Indices: 902390--902435 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
902380 TTATTTAATT
902390 AAATTTT-ATTTGATTTGATTTGA
1 AAATTTTAATTT-A-TTG-TTTGA
902413 AAATTTTAATTTATTGTTTGA
1 AAATTTTAATTTATTGTTTGA
902434 AA
1 AA
902436 TATATTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 7 0.32
22 3 0.14
23 8 0.36
24 4 0.18
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (21 bp):
AAATTTTAATTTATTGTTTGA
Found at i:902943 original size:19 final size:21
Alignment explanation
Indices: 902907--902945 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
902897 TAAAAGCGTA
902907 ATTTATTAAAAAATTATTATT
1 ATTTATTAAAAAATTATTATT
902928 ATTT-TTAAAAAA-TATTAT
1 ATTTATTAAAAAATTATTAT
902946 AATAAAGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 8 0.44
21 4 0.22
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATTTATTAAAAAATTATTATT
Found at i:904942 original size:21 final size:21
Alignment explanation
Indices: 904916--904955 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
904906 AAAAATAAAT
904916 TTTAAAAAAAAATTAAATTAA
1 TTTAAAAAAAAATTAAATTAA
* *
904937 TTTAAAAATATATTAAATT
1 TTTAAAAAAAAATTAAATT
904956 TTGACACAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TTTAAAAAAAAATTAAATTAA
Found at i:905708 original size:14 final size:14
Alignment explanation
Indices: 905689--905715 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
905679 ATATCAAAAC
905689 ATATTATTTTTATT
1 ATATTATTTTTATT
905703 ATATTATTTTTAT
1 ATATTATTTTTAT
905716 ATTTATAAAT
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:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
ATATTATTTTTATT
Found at i:907260 original size:23 final size:24
Alignment explanation
Indices: 907229--907321 Score: 67
Period size: 22 Copynumber: 4.1 Consensus size: 24
907219 TTATTTGAAA
*
907229 TATAATAATATATTAAA-AAAATT
1 TATATTAATATATTAAATAAAATT
*
907252 TATATTAATAT-TT--ATAAATTTT
1 TATATTAATATATTAAATAAA-ATT
907274 TATACTTAA-ATA-TAAATAAAA-T
1 TATA-TTAATATATTAAATAAAATT
* *
907296 TATTTTATTA-ATTAAATAATAATT
1 TATATTAATATATTAAATAA-AATT
907320 TA
1 TA
907322 AATCATATTA
Statistics
Matches: 55, Mismatches: 5, Indels: 19
0.70 0.06 0.24
Matches are distributed among these distances:
20 1 0.02
21 7 0.13
22 23 0.42
23 16 0.29
24 8 0.15
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (24 bp):
TATATTAATATATTAAATAAAATT
Found at i:908265 original size:31 final size:31
Alignment explanation
Indices: 908227--908290 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
908217 CAAAAGGAGA
908227 AAACAAATTATACTTATTCACAATGTAGGAT
1 AAACAAATTATACTTATTCACAATGTAGGAT
908258 AAACAAATTATACTTATTCACAATGTAGGAT
1 AAACAAATTATACTTATTCACAATGTAGGAT
908289 AA
1 AA
908291 GGGGACATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.31
Consensus pattern (31 bp):
AAACAAATTATACTTATTCACAATGTAGGAT
Found at i:909557 original size:5 final size:5
Alignment explanation
Indices: 909547--909572 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
909537 AGAAAGAATC
909547 AAAGG AAAGG AAAGG AAAGG AAAGG A
1 AAAGG AAAGG AAAGG AAAGG AAAGG A
909573 TGGAAAGAAG
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:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (5 bp):
AAAGG
Found at i:909800 original size:2 final size:2
Alignment explanation
Indices: 909795--909824 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
909785 TGGTTTTTTC
909795 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
909825 AAGTTTGGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:911765 original size:17 final size:17
Alignment explanation
Indices: 911740--911780 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
911730 AAAAATTAAT
*
911740 TATACTTATATTAAATA
1 TATATTTATATTAAATA
*
911757 TATATTTATATTTAATA
1 TATATTTATATTAAATA
*
911774 TTTATTT
1 TATATTT
911781 TTAAATTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (17 bp):
TATATTTATATTAAATA
Found at i:915280 original size:13 final size:12
Alignment explanation
Indices: 915256--915285 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
915246 GATTATTTAA
915256 TAAAATTTAAAT
1 TAAAATTTAAAT
915268 TAAAATATTAAAT
1 TAAAAT-TTAAAT
915281 TAAAA
1 TAAAA
915286 AAATTTAGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
TAAAATTTAAAT
Found at i:916119 original size:16 final size:16
Alignment explanation
Indices: 916100--916143 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
916090 ATTTTATTAT
916100 TTTTATATTTTTAAA-A
1 TTTTAT-TTTTTAAATA
916116 TTTTATTATTTTAAATA
1 TTTTATT-TTTTAAATA
*
916133 TATTATTTTTT
1 TTTTATTTTTT
916144 TACATTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 1 0.04
16 17 0.68
17 7 0.28
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTATTTTTTAAATA
Found at i:916125 original size:17 final size:18
Alignment explanation
Indices: 916100--916145 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 18
916090 ATTTTATTAT
916100 TTTTA-TATTTTTAAA-A
1 TTTTATTATTTTTAAATA
916116 TTTTATTA-TTTTAAATA
1 TTTTATTATTTTTAAATA
*
916133 TATTATT-TTTTTA
1 TTTTATTATTTTTA
916146 CATTTTAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 12 0.46
17 14 0.54
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTATTATTTTTAAATA
Found at i:917740 original size:26 final size:24
Alignment explanation
Indices: 917679--917740 Score: 65
Period size: 26 Copynumber: 2.6 Consensus size: 24
917669 ATATATCATG
*
917679 TATA-AAATA-ATTTTTTTAATAT
1 TATATAAATATATTTTTTTAATAA
* *
917701 TATATATATTTATTTTTTATACATAA
1 TATATAAATATATTTTTT-TA-ATAA
917727 TATATAAATATATT
1 TATATAAATATATT
917741 ATATAATTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
22 4 0.13
23 3 0.10
24 7 0.23
25 2 0.06
26 15 0.48
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (24 bp):
TATATAAATATATTTTTTTAATAA
Found at i:918056 original size:19 final size:19
Alignment explanation
Indices: 917995--918056 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
917985 TAATTTGATG
*
917995 TTATATTTAATTTGTTAAA
1 TTATTTTTAATTTGTTAAA
* * *
918014 TTAAATTTATATATTT-ATATA
1 TT--ATTTTTA-ATTTGTTAAA
918035 TTATTTTTAATTTGTTAAA
1 TTATTTTTAATTTGTTAAA
918054 TTA
1 TTA
918057 AATTTGTATA
Statistics
Matches: 32, Mismatches: 7, Indels: 8
0.68 0.15 0.17
Matches are distributed among these distances:
18 4 0.12
19 14 0.44
21 10 0.31
22 4 0.12
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (19 bp):
TTATTTTTAATTTGTTAAA
Found at i:919374 original size:15 final size:15
Alignment explanation
Indices: 919351--919384 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
919341 AGTACTAATA
*
919351 AATATATTAAAAAAT
1 AATAAATTAAAAAAT
919366 AATAAATTAAAAAAT
1 AATAAATTAAAAAAT
919381 AATA
1 AATA
919385 GATTCAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AATAAATTAAAAAAT
Found at i:920089 original size:3 final size:3
Alignment explanation
Indices: 920081--920130 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
920071 CTAAAAATTA
920081 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
920129 AA
1 AA
920131 AGTGTAGGAA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:920625 original size:3 final size:3
Alignment explanation
Indices: 920617--920681 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
920607 CATATAACAC
920617 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
920665 ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA AT
920682 TAAGTTTATA
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:921118 original size:67 final size:67
Alignment explanation
Indices: 920979--921121 Score: 173
Period size: 67 Copynumber: 2.1 Consensus size: 67
920969 TAATATCACT
* * *
920979 TTATTAAATAAGTTTTAAAAATAAATATAACATAATTGTTTTTTCAATGATGTTGCATAATTTGA
1 TTATT-AATAAGTTTTAAAAATAAATACAACATAATTGTTTTTTCAATGAAGTTGCATAATTTAA
*
921044 TTC
65 TTA
* ** *
921047 TTATTAATAAGTTTTAAAAATAAATACAA-ATAATT-TTATTTTTAATGAAGTTGTGTTATTTAA
1 TTATTAATAAGTTTTAAAAATAAATACAACATAATTGTT-TTTTCAATGAAGTTGCATAATTTAA
921110 TTTA
65 -TTA
921114 TTATTAAT
1 TTATTAAT
921122 GTATAAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
65 2 0.03
66 25 0.38
67 33 0.51
68 5 0.08
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.48
Consensus pattern (67 bp):
TTATTAATAAGTTTTAAAAATAAATACAACATAATTGTTTTTTCAATGAAGTTGCATAATTTAAT
TA
Found at i:922170 original size:31 final size:34
Alignment explanation
Indices: 922135--922205 Score: 94
Period size: 32 Copynumber: 2.1 Consensus size: 34
922125 ATCATGTATA
*
922135 AATTTAAA-ATTTAAAATTAAT-TTAAT-TTAAT
1 AATTTAAATATTAAAAATTAATATTAATATTAAT
*
922166 AATTTAAATATTAAAAATTTATATTAATATTAAT
1 AATTTAAATATTAAAAATTAATATTAATATTAAT
922200 ATATTT
1 A-ATTT
922206 TTATAATTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 8 0.24
32 11 0.32
33 5 0.15
34 6 0.18
35 4 0.12
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (34 bp):
AATTTAAATATTAAAAATTAATATTAATATTAAT
Found at i:922514 original size:16 final size:16
Alignment explanation
Indices: 922495--922525 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
922485 AATTGTGATT
922495 AAAATAATAATTTTAA
1 AAAATAATAATTTTAA
*
922511 AAAATAATTATTTTA
1 AAAATAATAATTTTA
922526 TACATTAGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AAAATAATAATTTTAA
Found at i:922932 original size:22 final size:22
Alignment explanation
Indices: 922907--922984 Score: 56
Period size: 21 Copynumber: 3.6 Consensus size: 22
922897 ATAATTAAAT
922907 ATTTTATTTTTTAAAAAATTTA
1 ATTTTATTTTTTAAAAAATTTA
* * *
922929 ATTTAATCTATTT--AAAATTTT
1 ATTTTAT-TTTTTAAAAAATTTA
*
922950 ATTTTA-TTATTAAAAAATATATA
1 ATTTTATTTTTTAAAAAAT-T-TA
*
922973 A-ATTATTTTTTA
1 ATTTTATTTTTTA
922985 TTAATATTTA
Statistics
Matches: 41, Mismatches: 9, Indels: 11
0.67 0.15 0.18
Matches are distributed among these distances:
19 3 0.07
21 17 0.41
22 10 0.24
23 11 0.27
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.56
Consensus pattern (22 bp):
ATTTTATTTTTTAAAAAATTTA
Found at i:922996 original size:26 final size:27
Alignment explanation
Indices: 922948--923031 Score: 84
Period size: 26 Copynumber: 3.0 Consensus size: 27
922938 ATTTAAAATT
*
922948 TTATTTTATTATTAAAAAATATATAA-A
1 TTATTTT-TTATTAATAAATATATAATA
*
922975 TTATTTTTTATTAATATTTATATAATAATA
1 TTATTTTTTATTAATA--AATAT-ATAATA
923005 TTA-TTTTTATTAATTAAATA-ATAATA
1 TTATTTTTTATTAA-TAAATATATAATA
923031 T
1 T
923032 AAAGCTAGAT
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
26 15 0.31
27 7 0.14
28 7 0.14
29 14 0.29
30 6 0.12
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (27 bp):
TTATTTTTTATTAATAAATATATAATA
Found at i:923028 original size:29 final size:29
Alignment explanation
Indices: 922943--923030 Score: 85
Period size: 29 Copynumber: 3.0 Consensus size: 29
922933 AATCTATTTA
*
922943 AAATT-TTATTTTATT-ATTAAAAAATATAT
1 AAATTATT-TTTTATTAATTAAATAATA-AT
**
922972 AAATTATTTTTTATTAA-TATTTATATAAT
1 AAATTATTTTTTATTAATTAAATA-ATAAT
923001 AATATTA-TTTTTATTAATTAAATAATAAT
1 AA-ATTATTTTTTATTAATTAAATAATAAT
923030 A
1 A
923031 TAAAGCTAGA
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
29 35 0.71
30 14 0.29
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (29 bp):
AAATTATTTTTTATTAATTAAATAATAAT
Found at i:923082 original size:17 final size:17
Alignment explanation
Indices: 923056--923088 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
923046 TCAATCCAAA
923056 TTAAAAGAAATTTAATC
1 TTAAAAGAAATTTAATC
*
923073 TTAAATGAAATTTAAT
1 TTAAAAGAAATTTAAT
923089 TTGAAGTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (17 bp):
TTAAAAGAAATTTAATC
Found at i:924085 original size:19 final size:19
Alignment explanation
Indices: 924061--924097 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
924051 TATTTAATAT
*
924061 TTTAAATAAATTTATTTAA
1 TTTAAATAAATTAATTTAA
924080 TTTAAATAAATTAATTTA
1 TTTAAATAAATTAATTTA
924098 TATATACTTA
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TTTAAATAAATTAATTTAA
Found at i:925905 original size:20 final size:21
Alignment explanation
Indices: 925863--925913 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
925853 TTCAATAATT
925863 TGTATCGATACAATAAGGTAA
1 TGTATCGATACAATAAGGTAA
*
925884 TGTATTGATAC-ATAA-GTAAA
1 TGTATCGATACAATAAGGT-AA
925904 TGTATCGATA
1 TGTATCGATA
925914 TATGCCTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 2 0.07
20 15 0.56
21 10 0.37
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (21 bp):
TGTATCGATACAATAAGGTAA
Found at i:925984 original size:20 final size:20
Alignment explanation
Indices: 925959--925996 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
925949 ATACTGAAGG
925959 GAAATTGTATCGATACATAA
1 GAAATTGTATCGATACATAA
925979 GAAATTGTATCGATACAT
1 GAAATTGTATCGATACAT
925997 TTCTTATTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.32
Consensus pattern (20 bp):
GAAATTGTATCGATACATAA
Found at i:928572 original size:72 final size:72
Alignment explanation
Indices: 928496--928653 Score: 219
Period size: 73 Copynumber: 2.2 Consensus size: 72
928486 TTTCCGAAGA
* ** * *
928496 GATACTCCAATCCTATTTTTT-TTAAAATTGTCAATATTCAAATCTTATTTTGCCTAATTTATCA
1 GATACTCCAACCCT-TTTTTTAAAAAAATTGTCAATATTCAAATCTTATTTTACCAAATTTATCA
928560 TTAATCGG
65 TTAATCGG
*
928568 GATACTCCAACCCTTTTTTTAAAAAAAATTGTCAGTATTCAAATCTTATTTTACCAAATTTATCA
1 GATACTCCAACCCTTTTTTT-AAAAAAATTGTCAATATTCAAATCTTATTTTACCAAATTTATCA
* *
928633 TTCATTGG
65 TTAATCGG
928641 GATACTCCAACCC
1 GATACTCCAACCC
928654 CATTCTTTCG
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
71 6 0.08
72 13 0.17
73 57 0.75
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.41
Consensus pattern (72 bp):
GATACTCCAACCCTTTTTTTAAAAAAATTGTCAATATTCAAATCTTATTTTACCAAATTTATCAT
TAATCGG
Found at i:932494 original size:24 final size:25
Alignment explanation
Indices: 932467--932528 Score: 58
Period size: 24 Copynumber: 2.5 Consensus size: 25
932457 TAATAATAAA
932467 AAATATATTTTAAAAT-TTAAT-TAT
1 AAAT-TATTTTAAAATATTAATATAT
* *
932491 AAATT-TATAAAAATATTAATATAT
1 AAATTATTTTAAAATATTAATATAT
932515 AAATTCTATTTTAA
1 AAA-T-TATTTTAA
932529 TATTATTGGG
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
22 7 0.24
23 6 0.21
24 10 0.34
25 1 0.03
26 1 0.03
27 4 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (25 bp):
AAATTATTTTAAAATATTAATATAT
Found at i:934125 original size:19 final size:20
Alignment explanation
Indices: 934090--934136 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
934080 TAAAGAAAAA
*
934090 TATTTATTTTATTTTATT-T
1 TATTTATTTTATGTTATTAT
934109 TATTTATTTGT-TGTTATTAT
1 TATTTATTT-TATGTTATTAT
934129 TA-TTATTT
1 TATTTATTT
934137 AAAAAAGGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 21 0.84
20 4 0.16
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.74
Consensus pattern (20 bp):
TATTTATTTTATGTTATTAT
Found at i:938621 original size:20 final size:21
Alignment explanation
Indices: 938596--938642 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
938586 ACACCCAGTT
938596 TTTTTAATGAAATAAATAG-A
1 TTTTTAATGAAATAAATAGTA
* *
938616 TTTTT-ATTATATAAATAGTA
1 TTTTTAATGAAATAAATAGTA
938636 TTTTTAA
1 TTTTTAA
938643 AAGATGGTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 11 0.48
20 11 0.48
21 1 0.04
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (21 bp):
TTTTTAATGAAATAAATAGTA
Found at i:939677 original size:34 final size:33
Alignment explanation
Indices: 939629--939849 Score: 237
Period size: 34 Copynumber: 6.5 Consensus size: 33
939619 TGGTAAAAAC
*
939629 CACCATTTAATCAACAATGGCAA-CTTACCAAAT
1 CACCATTTAATCAACAATGGTAAGC-TACCAAAT
* * *
939662 CTACCATTTAGTCAACAATGGTAAGCCACTAAAT
1 C-ACCATTTAATCAACAATGGTAAGCTACCAAAT
* *
939696 CACCCATTTAATCAATAATAGTAAGCTACCAAAT
1 CA-CCATTTAATCAACAATGGTAAGCTACCAAAT
** *
939730 TTCTCATTTAATCAACAATGGTAAGCTACTAAAT
1 CAC-CATTTAATCAACAATGGTAAGCTACCAAAT
* * * * *
939764 CTCCCATTTAGTCAACAATGGCAAACCACCAAAT
1 C-ACCATTTAATCAACAATGGTAAGCTACCAAAT
*
939798 CACCCATTTAATCAACAATGGTAAACTACCAAAT
1 CA-CCATTTAATCAACAATGGTAAGCTACCAAAT
*
939832 CACCAATTAATCAACAAT
1 CACCATTTAATCAACAAT
939850 TCTCCCACTT
Statistics
Matches: 156, Mismatches: 26, Indels: 12
0.80 0.13 0.06
Matches are distributed among these distances:
33 18 0.12
34 136 0.87
35 2 0.01
ACGTcount: A:0.42, C:0.25, G:0.07, T:0.26
Consensus pattern (33 bp):
CACCATTTAATCAACAATGGTAAGCTACCAAAT
Found at i:939808 original size:102 final size:101
Alignment explanation
Indices: 939629--939849 Score: 309
Period size: 102 Copynumber: 2.2 Consensus size: 101
939619 TGGTAAAAAC
* * *
939629 CACCATTTAATCAACAATGGCAACTTACCAAATCTACCATTTAGTCAACAATGGTAAGCCACTAA
1 CACCATTTAATCAACAATGGCAACTTACCAAATCTACCATTTAGTCAACAATGGCAAACCACCAA
* *
939694 ATCACCCATTTAATCAATAATAGTAAGCTACCAAAT
66 ATCACCCATTTAATCAACAATAGTAAACTACCAAAT
** * * *
939730 TTCTCATTTAATCAACAATGGTAAGC-TACTAAATCTCCCATTTAGTCAACAATGGCAAACCACC
1 CAC-CATTTAATCAACAATGGCAA-CTTACCAAATCTACCATTTAGTCAACAATGGCAAACCACC
*
939794 AAATCACCCATTTAATCAACAATGGTAAACTACCAAAT
64 AAATCACCCATTTAATCAACAATAGTAAACTACCAAAT
*
939832 CACCAATTAATCAACAAT
1 CACCATTTAATCAACAAT
939850 TCTCCCACTT
Statistics
Matches: 104, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
101 15 0.14
102 88 0.85
103 1 0.01
ACGTcount: A:0.42, C:0.25, G:0.07, T:0.26
Consensus pattern (101 bp):
CACCATTTAATCAACAATGGCAACTTACCAAATCTACCATTTAGTCAACAATGGCAAACCACCAA
ATCACCCATTTAATCAACAATAGTAAACTACCAAAT
Found at i:944303 original size:34 final size:34
Alignment explanation
Indices: 944256--944505 Score: 276
Period size: 34 Copynumber: 7.4 Consensus size: 34
944246 GATAAAAACC
*
944256 ACCATTTAATCAACAATGGCAACCTACCAAATCT
1 ACCATTTAATCAACAATGGTAACCTACCAAATCT
* *
944290 ACCATTTAGTCAACAATGGCAACCTACCAAATCT
1 ACCATTTAATCAACAATGGTAACCTACCAAATCT
* * *
944324 ACCATTTAGTCAACAATGGTAAGCTACTAAATC-
1 ACCATTTAATCAACAATGGTAACCTACCAAATCT
* *
944357 ACCCATTTAATCAATAATGGTAAGCTACCAAAT-T
1 A-CCATTTAATCAACAATGGTAACCTACCAAATCT
* * *
944391 TCTCATTTAATCAACAATGGTAAGCTACCAAATTT
1 AC-CATTTAATCAACAATGGTAACCTACCAAATCT
* * * **
944426 CCCATTTAGTCAGCAATGACAAACC-ACCAAATC-
1 ACCATTTAATCAACAATG-GTAACCTACCAAATCT
*
944459 ACCTATTTAATCAACAATGGTAAACTACCAAATC-
1 ACC-ATTTAATCAACAATGGTAACCTACCAAATCT
944493 ACCATTTAATCAA
1 ACCATTTAATCAA
944506 TAGTTATAAA
Statistics
Matches: 187, Mismatches: 22, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
33 17 0.09
34 165 0.88
35 5 0.03
ACGTcount: A:0.40, C:0.25, G:0.08, T:0.26
Consensus pattern (34 bp):
ACCATTTAATCAACAATGGTAACCTACCAAATCT
Found at i:944433 original size:102 final size:101
Alignment explanation
Indices: 944257--944505 Score: 318
Period size: 102 Copynumber: 2.4 Consensus size: 101
944247 ATAAAAACCA
* * *
944257 CCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGCAACCTACCAAAT
1 CCATTTAATCAACAATGGTAAACTACCAAAT-TACCATTTAATCAACAATGGCAACCTACCAAAT
** * * *
944322 CTACCATTTAGTCAACAATGGTAAGCTACTAAATCAC
65 CTACCATTTAGTCAACAATGACAAACCACCAAATCAC
* * * * *
944359 CCATTTAATCAATAATGGTAAGCTACCAAATTTCTCATTTAATCAACAATGGTAAGCTACCAAAT
1 CCATTTAATCAACAATGGTAAACTACCAAATTAC-CATTTAATCAACAATGGCAACCTACCAAAT
* * *
944424 TTCCCATTTAGTCAGCAATGACAAACCACCAAATCAC
65 CTACCATTTAGTCAACAATGACAAACCACCAAATCAC
* *
944461 CTATTTAATCAACAATGGTAAACTACCAAATCACCATTTAATCAA
1 CCATTTAATCAACAATGGTAAACTACCAAATTACCATTTAATCAA
944506 TAGTTATAAA
Statistics
Matches: 126, Mismatches: 20, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
101 13 0.10
102 113 0.90
ACGTcount: A:0.40, C:0.25, G:0.08, T:0.27
Consensus pattern (101 bp):
CCATTTAATCAACAATGGTAAACTACCAAATTACCATTTAATCAACAATGGCAACCTACCAAATC
TACCATTTAGTCAACAATGACAAACCACCAAATCAC
Found at i:945193 original size:16 final size:16
Alignment explanation
Indices: 945168--945210 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
945158 CTTATTATCT
*
945168 TTATATTTTTAAA-ATT
1 TTAT-TTTTTAAATATA
945184 TTATTATTTTAAATATA
1 TTATT-TTTTAAATATA
945201 TTATTTTTTA
1 TTATTTTTTA
945211 CGTTTTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 1 0.04
16 16 0.67
17 7 0.29
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTATTTTTTAAATATA
Found at i:946448 original size:22 final size:22
Alignment explanation
Indices: 946418--946502 Score: 75
Period size: 22 Copynumber: 3.7 Consensus size: 22
946408 TATTATTCTT
* *
946418 ATAAATAAAATAAATTTTAATA
1 ATAATTAAAATAAATTTAAATA
*
946440 ATAATTAAAATTTATAATGTAAATTA
1 ATAATTAAAA--TA-AATTTAAA-TA
*
946466 A-AATTGAAATAAATTTAAATA
1 ATAATTAAAATAAATTTAAATA
946487 ATAATGTAAAA-AAATT
1 ATAAT-TAAAATAAATT
946503 AGGTTTAAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
21 3 0.06
22 24 0.47
23 6 0.12
24 2 0.04
25 13 0.25
26 3 0.06
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (22 bp):
ATAATTAAAATAAATTTAAATA
Found at i:946450 original size:18 final size:19
Alignment explanation
Indices: 946416--946470 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 19
946406 TTTATTATTC
*
946416 TTATAA-ATAAAAT-AAAT
1 TTATAATATAAATTAAAAT
946433 TT-TAATA-ATAATTAAAAT
1 TTATAATATA-AATTAAAAT
*
946451 TTATAATGTAAATTAAAAT
1 TTATAATATAAATTAAAAT
946470 T
1 T
946471 GAAATAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
16 4 0.13
17 6 0.19
18 6 0.19
19 14 0.45
20 1 0.03
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (19 bp):
TTATAATATAAATTAAAAT
Found at i:946847 original size:14 final size:12
Alignment explanation
Indices: 946813--946860 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 12
946803 ATTTTATTTT
946813 AATTTTTTAAATA
1 AATTTTTTAAA-A
946826 AATTTTTTAAAA
1 AATTTTTTAAAA
946838 AATATATTTTAAAA
1 AAT-T-TTTTAAAA
946852 TAATTTTTT
1 -AATTTTTT
946861 TATGAATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
12 4 0.12
13 16 0.50
14 9 0.28
15 3 0.09
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
AATTTTTTAAAA
Found at i:946861 original size:14 final size:14
Alignment explanation
Indices: 946815--946862 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
946805 TTTATTTTAA
*
946815 TTTTTT-AAATAAA
1 TTTTTTAAAATAAT
946828 TTTTTTAAAA-AAT
1 TTTTTTAAAATAAT
*
946841 ATATTTTAAAATAAT
1 -TTTTTTAAAATAAT
946856 TTTTTTA
1 TTTTTTA
946863 TGAATATATT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 8 0.28
14 18 0.62
15 3 0.10
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TTTTTTAAAATAAT
Found at i:947104 original size:17 final size:18
Alignment explanation
Indices: 947070--947109 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
947060 TAATTTAACT
* *
947070 TTTTTTAGATAATTTAAA
1 TTTTTTAGAAAATATAAA
947088 TTTTTTA-AAAATATAAA
1 TTTTTTAGAAAATATAAA
947105 TTTTT
1 TTTTT
947110 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (18 bp):
TTTTTTAGAAAATATAAA
Found at i:947590 original size:25 final size:22
Alignment explanation
Indices: 947533--947578 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
947523 ATAAAATTAA
947533 TTTGATTAGAATTATTATTTAT
1 TTTGATTAGAATTATTATTTAT
947555 TTTGATTAGAATTATTATTTAT
1 TTTGATTAGAATTATTATTTAT
947577 TT
1 TT
947579 CTATTTGTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (22 bp):
TTTGATTAGAATTATTATTTAT
Found at i:947725 original size:19 final size:19
Alignment explanation
Indices: 947701--947763 Score: 67
Period size: 19 Copynumber: 3.2 Consensus size: 19
947691 TACGAGTTTA
947701 AATTTTATTTATGTAATTT
1 AATTTTATTTATGTAATTT
*
947720 AATTTTATTTATAGCCTAGTTT
1 AATTTTATTTAT-G--TAATTT
947742 AATATTTATTT-T-TAATTT
1 AAT-TTTATTTATGTAATTT
947760 AATT
1 AATT
947764 ATAAAACTGT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
17 1 0.03
18 8 0.21
19 12 0.32
20 1 0.03
22 9 0.24
23 7 0.18
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (19 bp):
AATTTTATTTATGTAATTT
Found at i:948193 original size:16 final size:16
Alignment explanation
Indices: 948169--948216 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
948159 AAATTATAAT
*
948169 ATAAAATAATATACAC
1 ATAATATAATATACAC
*
948185 ATAATATAA-ATATAC
1 ATAATATAATATACAC
948200 ATATATATATATATACA
1 ATA-ATATA-ATATACA
948217 AAATAAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 8 0.31
16 13 0.50
17 1 0.04
18 4 0.15
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.33
Consensus pattern (16 bp):
ATAATATAATATACAC
Found at i:948222 original size:29 final size:28
Alignment explanation
Indices: 948190--948254 Score: 71
Period size: 27 Copynumber: 2.3 Consensus size: 28
948180 TACACATAAT
* *
948190 ATAAATATACA-TATATATATATATACAAA
1 ATAAATATAAATTAT-TA-ATATATAAAAA
948219 ATAAA-ATAAATTATTAATATATAAAAA
1 ATAAATATAAATTATTAATATATAAAAA
948246 ATATAATAT
1 ATA-AATAT
948255 TTTAAATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
27 13 0.42
28 8 0.26
29 10 0.32
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (28 bp):
ATAAATATAAATTATTAATATATAAAAA
Found at i:948246 original size:27 final size:27
Alignment explanation
Indices: 948208--948294 Score: 76
Period size: 27 Copynumber: 3.3 Consensus size: 27
948198 ACATATATAT
*
948208 ATATATACAAAATAAAATAAATTATTA
1 ATATATAAAAAATAAAATAAATTATTA
*
948235 ATATATAAAAAATATAAT--ATT-TTA
1 ATATATAAAAAATAAAATAAATTATTA
* *
948259 A-ATAATAAAATAATAATATAAA-TATCA
1 ATAT-ATAAAA-AATAAAATAAATTATTA
*
948286 ACATATAAA
1 ATATATAAA
948295 TATTTTTCTC
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
23 2 0.04
24 10 0.20
25 9 0.18
26 1 0.02
27 25 0.51
28 2 0.04
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (27 bp):
ATATATAAAAAATAAAATAAATTATTA
Found at i:948262 original size:25 final size:25
Alignment explanation
Indices: 948192--948277 Score: 65
Period size: 27 Copynumber: 3.4 Consensus size: 25
948182 CACATAATAT
*
948192 AAATATACATA-TA-TATATATATACA
1 AAATATA-ATATTATTA-ATATATAAA
*
948217 AAATAAAATAAATTATTAATATATAAA
1 AAATATAAT--ATTATTAATATATAAA
*
948244 AAATATAATATT-TTAA-ATA-ATA
1 AAATATAATATTATTAATATATAAA
948266 AAATAATAATAT
1 AAAT-ATAATAT
948278 AAATATCAAC
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
22 6 0.12
23 10 0.19
24 6 0.12
25 9 0.17
26 1 0.02
27 18 0.35
28 2 0.04
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (25 bp):
AAATATAATATTATTAATATATAAA
Found at i:948360 original size:1 final size:1
Alignment explanation
Indices: 948356--948407 Score: 50
Period size: 1 Copynumber: 52.0 Consensus size: 1
948346 ATGCCACGTG
* ** * * *
948356 TTTTTTTCTTTTTTCCTTTTTCTTTTTTTCTTTTTTTCTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
948408 CAGCTGCAGC
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (1 bp):
T
Found at i:948369 original size:7 final size:7
Alignment explanation
Indices: 948357--948405 Score: 64
Period size: 7 Copynumber: 6.9 Consensus size: 7
948347 TGCCACGTGT
948357 TTTTTTC
1 TTTTTTC
948364 TTTTTTC
1 TTTTTTC
*
948371 CTTTTTC
1 TTTTTTC
948378 TTTTTTTC
1 -TTTTTTC
948386 TTTTTTTC
1 -TTTTTTC
948394 TTTTTT-
1 TTTTTTC
948400 TTTTTT
1 TTTTTT
948406 TTCAGCTGCA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
6 6 0.15
7 19 0.49
8 14 0.36
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTC
Found at i:948369 original size:8 final size:8
Alignment explanation
Indices: 948356--948408 Score: 76
Period size: 8 Copynumber: 7.0 Consensus size: 8
948346 ATGCCACGTG
948356 TTTTTTTC
1 TTTTTTTC
948364 -TTTTTTC
1 TTTTTTTC
*
948371 -CTTTTTC
1 TTTTTTTC
948378 TTTTTTTC
1 TTTTTTTC
948386 TTTTTTTC
1 TTTTTTTC
948394 TTTTTTT-
1 TTTTTTTC
948401 TTTTTTTC
1 TTTTTTTC
948409 AGCTGCAGCA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
7 20 0.49
8 21 0.51
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTTTC
Found at i:948384 original size:22 final size:22
Alignment explanation
Indices: 948356--948406 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
948346 ATGCCACGTG
948356 TTTTTTTCTTTTTTCCTTTTTC
1 TTTTTTTCTTTTTTCCTTTTTC
* *
948378 TTTTTTTCTTTTTTTCTTTTTT
1 TTTTTTTCTTTTTTCCTTTTTC
948400 TTTTTTT
1 TTTTTTT
948407 TCAGCTGCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (22 bp):
TTTTTTTCTTTTTTCCTTTTTC
Found at i:948405 original size:16 final size:16
Alignment explanation
Indices: 948356--948408 Score: 76
Period size: 15 Copynumber: 3.5 Consensus size: 16
948346 ATGCCACGTG
948356 TTTTTTTC-TTTTTTC
1 TTTTTTTCTTTTTTTC
*
948371 -CTTTTTCTTTTTTTC
1 TTTTTTTCTTTTTTTC
948386 TTTTTTTCTTTTTTT-
1 TTTTTTTCTTTTTTTC
948401 TTTTTTTC
1 TTTTTTTC
948409 AGCTGCAGCA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
14 6 0.18
15 15 0.44
16 13 0.38
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (16 bp):
TTTTTTTCTTTTTTTC
Found at i:951060 original size:17 final size:18
Alignment explanation
Indices: 951036--951080 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
951026 TTTTATTATC
951036 TTTA-TATTTTTAAA-AT
1 TTTATTATTTTTAAATAT
951052 TTTATTA-TTTTAAATAT
1 TTTATTATTTTTAAATAT
*
951069 ATTATT-TTTTTA
1 TTTATTATTTTTA
951081 CATTTTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 11 0.44
17 14 0.56
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTATTATTTTTAAATAT
Found at i:952581 original size:280 final size:280
Alignment explanation
Indices: 952068--952595 Score: 731
Period size: 280 Copynumber: 1.9 Consensus size: 280
952058 GGTAATCAAA
* * * *
952068 TTTTGTTGGTATTTATAGACTGTGCGGGTATTGGAAGTTTAATTAAAACGTGCATGCATTTCAAC
1 TTTTGTCGGTAATTATAGACTGTCCGGGTATTGGAAGTTTAATTAAAACGTGCATACATTTCAAC
* * *
952133 GCAAGCAACATGACGTGGAACCATTGATTTCTGTCGTAAAGGTGACCCAACCAGGCAGGCTTCTT
66 GCAAGCAACATCACGTGGAACCATTGATTTCTATCGTAAAGGTGACCCAACCAGGCAGGCTTCTC
* * *
952198 TTGTCAGCTCCTTAACTTCGGGTCCATTATCATAGTGTAAACTATCGAAATTTGTTATCATCTAA
131 TTGTCAGCTCCTTAACTTCGGGTCCATTATCATAGTGTAAAATATCGAAATTTATTATCATATAA
* * * *
952263 ACAAAATGAATTTTAGTAATAATTGGGGTATGCAATGTGAATTATAATTAAAACAGATTCAGAAA
196 ACAAAATGAATTTTAATAATAATTGAGATATGCAATGTGAATTAGAATTAAAACAGATTCAGAAA
952328 ATGTGAATTATAGTTAAAAG
261 ATGTGAATTATAGTTAAAAG
* * * *
952348 TTTTGTCGGTAATTATAGACTGTCCGGCG-ATTGGAAGTTTAATTAAAGCGTGCGTATATTTC-T
1 TTTTGTCGGTAATTATAGACTGTCCGG-GTATTGGAAGTTTAATTAAAACGTGCATACATTTCAA
* ** * * **
952411 GGCCAAGCTCCATCACGTGGAGCCATTGATTTCTATCGTAAAGGTTACCCTGCCAGGCAGGCTTC
65 CG-CAAGCAACATCACGTGGAACCATTGATTTCTATCGTAAAGGTGACCCAACCAGGCAGGCTTC
* *
952476 TCTTGTCAGGT-CTCTCACTTCGGGTCCATTATCATA-TCGTAAAATATCGAAATTTATTATCAT
129 TCTTGTCAGCTCCT-TAACTTCGGGTCCATTATCATAGT-GTAAAATATCGAAATTTATTATCAT
* *
952539 ATAAATAAAATGAATTTTAATAATAATTGAGATATGCAATGTGAATTAGAGTTAAAA
192 ATAAACAAAATGAATTTTAATAATAATTGAGATATGCAATGTGAATTAGAATTAAAA
952596 TAAATTTAAG
Statistics
Matches: 215, Mismatches: 29, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
279 4 0.02
280 210 0.98
281 1 0.00
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (280 bp):
TTTTGTCGGTAATTATAGACTGTCCGGGTATTGGAAGTTTAATTAAAACGTGCATACATTTCAAC
GCAAGCAACATCACGTGGAACCATTGATTTCTATCGTAAAGGTGACCCAACCAGGCAGGCTTCTC
TTGTCAGCTCCTTAACTTCGGGTCCATTATCATAGTGTAAAATATCGAAATTTATTATCATATAA
ACAAAATGAATTTTAATAATAATTGAGATATGCAATGTGAATTAGAATTAAAACAGATTCAGAAA
ATGTGAATTATAGTTAAAAG
Found at i:954305 original size:25 final size:26
Alignment explanation
Indices: 954272--954329 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
954262 TATCACATTT
954272 ATTATAATTATAATTAT-A-AAATATTA
1 ATTATAA-T-TAATTATAATAAATATTA
954298 A-TATAATTAATTATAATAAATATTA
1 ATTATAATTAATTATAATAAATATTA
954323 ATTATAA
1 ATTATAA
954330 AAAATTAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
23 7 0.24
24 2 0.07
25 14 0.48
26 6 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
ATTATAATTAATTATAATAAATATTA
Found at i:954324 original size:16 final size:16
Alignment explanation
Indices: 954303--954364 Score: 65
Period size: 16 Copynumber: 3.8 Consensus size: 16
954293 TATTAATATA
954303 ATTAATTATAATAAAT
1 ATTAATTATAATAAAT
954319 ATTAATTATAA-AAA-
1 ATTAATTATAATAAAT
*
954333 ATTAAAATTATAAAACAAT
1 ATT--AATTATAATA-AAT
954352 ATTACATTATAAT
1 ATTA-ATTATAAT
954365 CTTTATTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
14 3 0.08
15 3 0.08
16 19 0.49
17 2 0.05
18 9 0.23
19 3 0.08
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (16 bp):
ATTAATTATAATAAAT
Found at i:954329 original size:13 final size:13
Alignment explanation
Indices: 954272--954330 Score: 52
Period size: 13 Copynumber: 4.6 Consensus size: 13
954262 TATCACATTT
*
954272 ATTATAATTA-TA
1 ATTATAAATATTA
954284 ATTATAAAATATTA
1 ATTAT-AAATATTA
*
954298 A-TATAATTAATT-
1 ATTATAAAT-ATTA
*
954310 ATAATAAATATTA
1 ATTATAAATATTA
954323 ATTATAAA
1 ATTATAAA
954331 AAATTAAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
12 12 0.32
13 22 0.59
14 3 0.08
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATTATAAATATTA
Found at i:956478 original size:14 final size:13
Alignment explanation
Indices: 956447--956471 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
956437 AATATGTTCT
956447 TTTATAAATTTTA
1 TTTATAAATTTTA
956460 TTTATAAATTTT
1 TTTATAAATTTT
956472 TTATTATTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTATAAATTTTA
Found at i:956966 original size:22 final size:20
Alignment explanation
Indices: 956929--956972 Score: 61
Period size: 22 Copynumber: 2.1 Consensus size: 20
956919 GATCCAACCC
*
956929 TAAATTAAAAAATTTAATCT
1 TAAATTAAAAAATTTAAACT
956949 TAAATTAAATTAAATTTAAACT
1 TAAATTAAA--AAATTTAAACT
956971 TA
1 TA
956973 TCTACCAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.43
22 12 0.57
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (20 bp):
TAAATTAAAAAATTTAAACT
Found at i:957454 original size:14 final size:12
Alignment explanation
Indices: 957412--957455 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 12
957402 TTAAAAATAA
957412 AAAATTATTTTT
1 AAAATTATTTTT
957424 AATAATTATTTTTT
1 AA-AATTA-TTTTT
957438 AAAATTATATTTAT
1 AAAATTAT-TTT-T
957452 AAAA
1 AAAA
957456 AGTTTTAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 3 0.11
13 13 0.46
14 12 0.43
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
AAAATTATTTTT
Found at i:957506 original size:58 final size:58
Alignment explanation
Indices: 957386--957506 Score: 129
Period size: 58 Copynumber: 2.1 Consensus size: 58
957376 TATAAGATAA
* * ** *
957386 ATATTTTTAAAAAATTTTAAAAATAAAAAATTATTTTTAATAATTATTTTTTAAAATT
1 ATATTTATAAAAAATTTTAAAAATAAAAAATTATGTTTAATAATTATTAATTAAAATC
* * * *
957444 ATATTTATAAAAAGTTTTAAAAAT-AATATTTATGTTTAAT-ATTATTAAATTAATGATC
1 ATATTTATAAAAAATTTTAAAAATAAAAAATTATGTTTAATAATTATT-AATTAA-AATC
957502 ATATT
1 ATATT
957507 CATTCTCAAT
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
56 6 0.12
57 17 0.33
58 29 0.56
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (58 bp):
ATATTTATAAAAAATTTTAAAAATAAAAAATTATGTTTAATAATTATTAATTAAAATC
Found at i:957626 original size:16 final size:17
Alignment explanation
Indices: 957589--957628 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
957579 TTAAAAATTT
957589 TTTAATTTATAACATAA
1 TTTAATTTATAACATAA
*
957606 -ATAATTTATAA-ATAA
1 TTTAATTTATAACATAA
957621 TTTAATTT
1 TTTAATTT
957629 TTGTTCATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTAATTTATAACATAA
Found at i:957857 original size:4 final size:4
Alignment explanation
Indices: 957850--957889 Score: 59
Period size: 4 Copynumber: 10.8 Consensus size: 4
957840 AAAAAATATA
957850 TATT TATT TATT TA-- TATT TATT TATT TATT TA-T TATT TAT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TAT
957890 GAATAAATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 2 0.06
3 3 0.09
4 28 0.85
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
TATT
Found at i:957867 original size:14 final size:14
Alignment explanation
Indices: 957848--957889 Score: 66
Period size: 14 Copynumber: 2.9 Consensus size: 14
957838 CTAAAAAATA
957848 TATATTTATTTATT
1 TATATTTATTTATT
957862 TATATTTATTTATT
1 TATATTTATTTATT
*
957876 TATTTATTATTTAT
1 TATAT-TTATTTAT
957890 GAATAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 18 0.69
15 8 0.31
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TATATTTATTTATT
Found at i:957871 original size:18 final size:18
Alignment explanation
Indices: 957845--957889 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 18
957835 AAACTAAAAA
*
957845 ATATATATTTATTTATTT
1 ATATTTATTTATTTATTT
957863 ATATTTATTTATTTATTT
1 ATATTTATTTATTTATTT
957881 ATTATTTAT
1 A-TATTTAT
957890 GAATAAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 18 0.72
19 7 0.28
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
ATATTTATTTATTTATTT
Found at i:957968 original size:23 final size:23
Alignment explanation
Indices: 957873--957969 Score: 74
Period size: 23 Copynumber: 4.2 Consensus size: 23
957863 ATATTTATTT
* *
957873 ATTTATTTATTATTTATGAATAA
1 ATTTATTTAATATTTATAAATAA
* * * *
957896 A-TT-TTGAATTATTTTTGAATAT
1 ATTTATTTAA-TATTTATAAATAA
**
957918 ATTTGA-TTATATATTTATAAATTT
1 ATTT-ATTTA-ATATTTATAAATAA
957942 ATTTATTTAATATTTATAAATAA
1 ATTTATTTAATATTTATAAATAA
957965 ATTTA
1 ATTTA
957970 ATAAATTTAA
Statistics
Matches: 58, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
21 3 0.05
22 14 0.24
23 21 0.36
24 19 0.33
25 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (23 bp):
ATTTATTTAATATTTATAAATAA
Found at i:961857 original size:14 final size:12
Alignment explanation
Indices: 961815--961853 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
961805 TTAAAGATAA
961815 AAAATTATTTTT
1 AAAATTATTTTT
961827 AATAATTATCTTTT
1 AA-AATTAT-TTTT
*
961841 AAAATTATATTT
1 AAAATTATTTTT
961853 A
1 A
961854 TAAAGAGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
12 6 0.25
13 12 0.50
14 6 0.25
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (12 bp):
AAAATTATTTTT
Found at i:961906 original size:33 final size:33
Alignment explanation
Indices: 961869--961938 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
961859 AGTTTTGAAG
*
961869 ATAATATTTATTTTTAATATTATTAAATTAAAA
1 ATAATATTTATTTTTAATATTACTAAATTAAAA
*
961902 ATAATATTTATTTTTAATATTACTAAATTCAAA
1 ATAATATTTATTTTTAATATTACTAAATTAAAA
961935 ATAA
1 ATAA
961939 AGAGTATATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (33 bp):
ATAATATTTATTTTTAATATTACTAAATTAAAA
Found at i:962866 original size:21 final size:22
Alignment explanation
Indices: 962833--962873 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
962823 AAATTATCAT
*
962833 AAATTAAATATTTTATTTTTTA
1 AAATTAAATATTTGATTTTTTA
*
962855 AAATTTAA-ATTTGATTTTT
1 AAATTAAATATTTGATTTTT
962874 ATTATTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
AAATTAAATATTTGATTTTTTA
Found at i:963424 original size:2 final size:2
Alignment explanation
Indices: 963419--963450 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
963409 TTTTTTAAAA
*
963419 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
963451 CTGAGGTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:963599 original size:2 final size:2
Alignment explanation
Indices: 963592--963621 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
963582 AAATACCTTT
963592 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
963622 CAGGGGTTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:965461 original size:67 final size:67
Alignment explanation
Indices: 965330--965461 Score: 167
Period size: 66 Copynumber: 2.0 Consensus size: 67
965320 ATTAAATAAG
* * * * *
965330 TTTTAAAAATAAATATAAAATAATTTTATTTTTAATAAGGTTGTATAATTTAATCTTTATTAATA
1 TTTTAAAAATAAATATAAAATAATTTTATTTTCAATAAGATTATATAATTTAATCATTAATAATA
965395 GA
66 GA
* * * *
965397 TTTTAAAAATAAATA-CAAATAATTTTATTTTCAATGAGATTATATTATTTGATTCATTAATAAT
1 TTTTAAAAATAAATATAAAATAATTTTATTTTCAATAAGATTATATAATTT-AATCATTAATAAT
965461 A
65 A
965462 TATAAATATA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
66 29 0.53
67 26 0.47
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (67 bp):
TTTTAAAAATAAATATAAAATAATTTTATTTTCAATAAGATTATATAATTTAATCATTAATAATA
GA
Found at i:965601 original size:2 final size:2
Alignment explanation
Indices: 965594--965621 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
965584 TTCATTGCAA
965594 AT 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 AT
965622 TAAAGAGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:966400 original size:128 final size:126
Alignment explanation
Indices: 966166--966401 Score: 409
Period size: 128 Copynumber: 1.9 Consensus size: 126
966156 AGAAGAAGAT
*
966166 GATGAAACGTGGGTTGCCTCCATACCATAGCTTTGTCTTATGCAAAGACAACTTAAATGGGGAAT
1 GATGAAACGTGGGTTGCCTCCATACCATAGCTTTGCCTTATGCAAAGACAACTTAAATGGGGAAT
966231 GAATGTCGCCAAAAGGAACAAAAGTTTTTGGTAGAGGTGAATCTTCTCAAATTAAATTGGG
66 GAATGTCGCCAAAAGGAACAAAAGTTTTTGGTAGAGGTGAATCTTCTCAAATTAAATTGGG
*
966292 GATGAAACGTGGGTTGCCTCCATACCATAGCTTTGCCTTATGCAAAGACAAAACTTAAATGGGGG
1 GATGAAACGTGGGTTGCCTCCATACCATAGCTTTGCCTTATGCAAAGAC--AACTTAAATGGGGA
* * *
966357 ATGACTGTCGCCCAAAGGAACAAAAGTTTTTGGTAGATGTGAATC
64 ATGAATGTCGCCAAAAGGAACAAAAGTTTTTGGTAGAGGTGAATC
966402 CTGTCAAACT
Statistics
Matches: 103, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
126 48 0.47
128 55 0.53
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.27
Consensus pattern (126 bp):
GATGAAACGTGGGTTGCCTCCATACCATAGCTTTGCCTTATGCAAAGACAACTTAAATGGGGAAT
GAATGTCGCCAAAAGGAACAAAAGTTTTTGGTAGAGGTGAATCTTCTCAAATTAAATTGGG
Found at i:967002 original size:21 final size:20
Alignment explanation
Indices: 966968--967007 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
966958 TTAGCTTGTG
*
966968 TAAAAAATATAATAAATAAC
1 TAAAAAATAAAATAAATAAC
966988 TAAAAATATAAAATAAATAA
1 TAAAAA-ATAAAATAAATAA
967008 AATGATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (20 bp):
TAAAAAATAAAATAAATAAC
Done.