Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 328 of 343
Found at i:105457388 original size:26 final size:26
Alignment explanation
Indices: 105457351--105457408 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
105457341 TGATACAAAT
105457351 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
105457377 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
105457403 TGATAA
1 TGATAA
105457409 GAATTTCATG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.34, C:0.03, G:0.24, T:0.38
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:105458905 original size:26 final size:26
Alignment explanation
Indices: 105458876--105458928 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
105458866 TTTACAGTTT
105458876 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
105458902 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
105458928 T
1 T
105458929 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:105465557 original size:25 final size:25
Alignment explanation
Indices: 105465523--105465574 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
105465513 AAAAAATGAG
105465523 TAGAAAATATTAATAATTTAGTGAA
1 TAGAAAATATTAATAATTTAGTGAA
105465548 TAGAAAATATTAATAATTTAGTGAA
1 TAGAAAATATTAATAATTTAGTGAA
105465573 TA
1 TA
105465575 TAAGTTAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.37
Consensus pattern (25 bp):
TAGAAAATATTAATAATTTAGTGAA
Found at i:105467479 original size:54 final size:54
Alignment explanation
Indices: 105467402--105467504 Score: 179
Period size: 54 Copynumber: 1.9 Consensus size: 54
105467392 ATCAGTGACA
*
105467402 AGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACAATT
1 AGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACAAGTGACAATT
* *
105467456 AGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGA
1 AGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACAAGTGA
105467505 TAAATGTGAT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (54 bp):
AGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACAAGTGACAATT
Found at i:105477083 original size:17 final size:19
Alignment explanation
Indices: 105477046--105477085 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
105477036 CTTTTATAAC
105477046 TTAATTTTTATATTCCATT
1 TTAATTTTTATATTCCATT
105477065 TTAA-TTTTATATT-CATT
1 TTAATTTTTATATTCCATT
105477082 TTAA
1 TTAA
105477086 CCCCAATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 8 0.38
18 9 0.43
19 4 0.19
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.62
Consensus pattern (19 bp):
TTAATTTTTATATTCCATT
Found at i:105477632 original size:11 final size:10
Alignment explanation
Indices: 105477616--105477656 Score: 66
Period size: 10 Copynumber: 4.1 Consensus size: 10
105477606 AGTCAGTTCG
105477616 ATTAAAAAATT
1 ATTAAAAAA-T
105477627 ATTAAAAAAT
1 ATTAAAAAAT
105477637 -TTAAAAAAT
1 ATTAAAAAAT
105477646 ATTAAAAAAT
1 ATTAAAAAAT
105477656 A
1 A
105477657 AAAAAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.31
10 11 0.38
11 9 0.31
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
ATTAAAAAAT
Found at i:105477643 original size:10 final size:9
Alignment explanation
Indices: 105477617--105477665 Score: 53
Period size: 9 Copynumber: 5.1 Consensus size: 9
105477607 GTCAGTTCGA
105477617 TTAAAAAATT
1 TTAAAAAA-T
105477627 ATTAAAAAAT
1 -TTAAAAAAT
105477637 TTAAAAAAT
1 TTAAAAAAT
105477646 ATTAAAAAAT
1 -TTAAAAAAT
**
105477656 AAAAAAAAT
1 TTAAAAAAT
105477665 T
1 T
105477666 GAACCCAATC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 16 0.47
10 10 0.29
11 8 0.24
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
TTAAAAAAT
Found at i:105477648 original size:19 final size:20
Alignment explanation
Indices: 105477617--105477665 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 20
105477607 GTCAGTTCGA
105477617 TTAAAAAATTATTAAAAAAT
1 TTAAAAAATTATTAAAAAAT
105477637 TTAAAAAA-TATTAAAAAAT
1 TTAAAAAATTATTAAAAAAT
**
105477656 AAAAAAAATT
1 TTAAAAAATT
105477666 GAACCCAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 17 0.65
20 9 0.35
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
TTAAAAAATTATTAAAAAAT
Found at i:105482649 original size:28 final size:28
Alignment explanation
Indices: 105482615--105482679 Score: 96
Period size: 28 Copynumber: 2.3 Consensus size: 28
105482605 ATACAAGTTT
*
105482615 TTTTATTTTGATTTTTA-AAAATTTATAA
1 TTTTATTTTGA-TATTAGAAAATTTATAA
105482643 TTTTATTTTGATATTAGAAAATTTATAA
1 TTTTATTTTGATATTAGAAAATTTATAA
*
105482671 TTGTATTTT
1 TTTTATTTT
105482680 ATAATTTCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
27 4 0.12
28 30 0.88
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (28 bp):
TTTTATTTTGATATTAGAAAATTTATAA
Found at i:105487700 original size:23 final size:23
Alignment explanation
Indices: 105487670--105487715 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
105487660 TTGAGATAGG
105487670 GAAAAATGTATATGCTGCAACTA
1 GAAAAATGTATATGCTGCAACTA
105487693 GAAAAATGTATATGCTGCAACTA
1 GAAAAATGTATATGCTGCAACTA
105487716 TGATAGCTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.26
Consensus pattern (23 bp):
GAAAAATGTATATGCTGCAACTA
Found at i:105492141 original size:13 final size:12
Alignment explanation
Indices: 105492116--105492195 Score: 56
Period size: 13 Copynumber: 6.3 Consensus size: 12
105492106 CCAATCTTTC
105492116 TTTTTATTTTTA
1 TTTTTATTTTTA
105492128 TTTTTATTTATTA
1 TTTTTATTT-TTA
** *
105492141 TTTTCCTTTCTTT
1 TTTTTATTT-TTA
105492154 TCTTTTATTATTTA
1 T-TTTTATT-TTTA
105492168 TTATTT-TCTTTTA
1 TT-TTTAT-TTTTA
*
105492181 TTATTA-TTTTA
1 TTTTTATTTTTA
105492192 TTTT
1 TTTT
105492196 AGTTAAATAT
Statistics
Matches: 53, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
11 8 0.15
12 11 0.21
13 21 0.40
14 12 0.23
15 1 0.02
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTTATTTTTA
Found at i:105492167 original size:30 final size:31
Alignment explanation
Indices: 105492118--105492193 Score: 95
Period size: 30 Copynumber: 2.5 Consensus size: 31
105492108 AATCTTTCTT
*
105492118 TTTATTTTTA-TTT-TTATTTATTATTTTCC
1 TTTATTATTATTTTATTATTTATTATTTTCC
* * *
105492147 TTTCTT-TTCTTTTATTATTTATTATTTTCT
1 TTTATTATTATTTTATTATTTATTATTTTCC
105492177 TTTATTATTATTTTATT
1 TTTATTATTATTTTATT
105492194 TTAGTTAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
28 2 0.05
29 8 0.21
30 20 0.51
31 9 0.23
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (31 bp):
TTTATTATTATTTTATTATTTATTATTTTCC
Found at i:105492174 original size:20 final size:21
Alignment explanation
Indices: 105492151--105492195 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 21
105492141 TTTTCCTTTC
105492151 TTTTCTTTTATTATT-TATTA
1 TTTTCTTTTATTATTATATTA
*
105492171 TTTTCTTTTATTATTATTTTA
1 TTTTCTTTTATTATTATATTA
105492192 TTTT
1 TTTT
105492196 AGTTAAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTCTTTTATTATTATATTA
Found at i:105493348 original size:118 final size:118
Alignment explanation
Indices: 105493140--105493370 Score: 372
Period size: 118 Copynumber: 2.0 Consensus size: 118
105493130 TGTTTTCCAT
* *
105493140 GGTTATGAGTACAGCTTAGATCGTGACTGACTGAGTAACCGAGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGAGGTAGGGTGCTTGGGTTGTCATT
105493205 CTACTTCGCGTCAAAAGATTGTGTGACGTGACAAGTAAAACTCCGCTAGCCAA
66 CTACTTCGCGTCAAAAGATTGTGTGACGTGACAAGTAAAACTCCGCTAGCCAA
** *
105493258 GGTTATGAGTATGGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGAGGTAGGGTGCTTGGGTTGTCATT
* ****
105493323 CTACTTCGCGTCAAAAGGTTGTGTGACGTGTTGGGTAAAACTCCGCTA
66 CTACTTCGCGTCAAAAGATTGTGTGACGTGACAAGTAAAACTCCGCTA
105493371 ACCAGAAATA
Statistics
Matches: 103, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
118 103 1.00
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.29
Consensus pattern (118 bp):
GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGAGGTAGGGTGCTTGGGTTGTCATT
CTACTTCGCGTCAAAAGATTGTGTGACGTGACAAGTAAAACTCCGCTAGCCAA
Found at i:105495806 original size:21 final size:22
Alignment explanation
Indices: 105495780--105495838 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
105495770 CACGCAGTTG
*
105495780 TGTGACCTATC-CACATGGCCA
1 TGTGACCTATCTCACACGGCCA
*
105495801 TGTGACCCA-CTCACACGGCCA
1 TGTGACCTATCTCACACGGCCA
*
105495822 TGT-AGCCTATCTTACAC
1 TGTGA-CCTATCTCACAC
105495839 AGGCATGACT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
20 2 0.06
21 23 0.74
22 6 0.19
ACGTcount: A:0.24, C:0.36, G:0.17, T:0.24
Consensus pattern (22 bp):
TGTGACCTATCTCACACGGCCA
Found at i:105496820 original size:17 final size:18
Alignment explanation
Indices: 105496793--105496834 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 18
105496783 TATAAATTAA
105496793 AAAATATATAAATT-TTTT
1 AAAA-ATATAAATTATTTT
105496811 AAAAATATAAATTAATTTT
1 AAAAATATAAATT-ATTTT
105496830 AAAAA
1 AAAAA
105496835 GTATGATCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.41
18 4 0.18
19 9 0.41
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AAAAATATAAATTATTTT
Found at i:105496827 original size:21 final size:20
Alignment explanation
Indices: 105496789--105496829 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
105496779 CGGATATAAA
*
105496789 TTAAAAAATATATAAATTTT
1 TTAAAAAATAAATAAATTTT
*
105496809 TTAAAAATATAAATTAATTTT
1 TTAAAAA-ATAAATAAATTTT
105496830 AAAAAGTATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TTAAAAAATAAATAAATTTT
Found at i:105497992 original size:56 final size:57
Alignment explanation
Indices: 105497926--105498040 Score: 144
Period size: 58 Copynumber: 2.0 Consensus size: 57
105497916 CTCTAAAAAA
* * *
105497926 TTCATTATCTAAATTTACC-TTACCATGAATTAAACCTGCAGAAAAAAATCA-TAAAT
1 TTCATAATCTAAATTTACCTTTACCATAAATTAAACATGCAG-AAAAAATCATTAAAT
* * *
105497982 TTCATAATCTAATTTTGCCTTTTACCATAAATTACACATGCAGAAAAAATCATTAAAT
1 TTCATAATCTAAATTTACC-TTTACCATAAATTAAACATGCAGAAAAAATCATTAAAT
105498040 T
1 T
105498041 ATTATGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
56 16 0.32
57 9 0.18
58 25 0.50
ACGTcount: A:0.43, C:0.17, G:0.05, T:0.35
Consensus pattern (57 bp):
TTCATAATCTAAATTTACCTTTACCATAAATTAAACATGCAGAAAAAATCATTAAAT
Found at i:105502203 original size:17 final size:17
Alignment explanation
Indices: 105502181--105502218 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
105502171 AAGCTAAGTC
105502181 AAAAAAGAAAACGAAAA
1 AAAAAAGAAAACGAAAA
105502198 AAAAAAGAAAACGAAAA
1 AAAAAAGAAAACGAAAA
105502215 AAAA
1 AAAA
105502219 GGTAAAATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.84, C:0.05, G:0.11, T:0.00
Consensus pattern (17 bp):
AAAAAAGAAAACGAAAA
Found at i:105503321 original size:26 final size:25
Alignment explanation
Indices: 105503284--105503337 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
105503274 TACTTTTATA
*
105503284 AAATAATTAATAAAATTAATTGGTC
1 AAATAATTAATAAAATTAATTGATC
* *
105503309 AAATCAATTAATAGAATTAGTTGATC
1 AAAT-AATTAATAAAATTAATTGATC
105503335 AAA
1 AAA
105503338 CTAGTCACTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 4 0.16
26 21 0.84
ACGTcount: A:0.52, C:0.06, G:0.09, T:0.33
Consensus pattern (25 bp):
AAATAATTAATAAAATTAATTGATC
Found at i:105507239 original size:10 final size:10
Alignment explanation
Indices: 105507224--105507260 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
105507214 AAATTAAAAT
105507224 TAAAATAATA
1 TAAAATAATA
*
105507234 TAAAATGATA
1 TAAAATAATA
*
105507244 TAAAAAAATA
1 TAAAATAATA
105507254 TAAAATA
1 TAAAATA
105507261 CAAAATTTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (10 bp):
TAAAATAATA
Found at i:105508097 original size:28 final size:29
Alignment explanation
Indices: 105508050--105508105 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 29
105508040 AATCAATGAC
105508050 CAAAATTTGAATAAGTAAATATAAGTATA
1 CAAAATTTGAATAAGTAAATATAAGTATA
105508079 CAAAATTTG-ATAAGTAAATATAAGTAT
1 CAAAATTTGAATAAGTAAATATAAGTAT
105508106 GCAACTAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
28 18 0.67
29 9 0.33
ACGTcount: A:0.54, C:0.04, G:0.11, T:0.32
Consensus pattern (29 bp):
CAAAATTTGAATAAGTAAATATAAGTATA
Found at i:105509650 original size:35 final size:37
Alignment explanation
Indices: 105509602--105509687 Score: 113
Period size: 35 Copynumber: 2.3 Consensus size: 37
105509592 AGATGAGTTC
* *
105509602 AAAAATATAAAAAAATTAATAATTATTTA-AAAATT-T
1 AAAATTAT-AAAAAATTAATAATAATTTATAAAATTAT
*
105509638 AAAATTATAAAAAATTATTAATAATTTATAAAATTAT
1 AAAATTATAAAAAATTAATAATAATTTATAAAATTAT
105509675 AAAATTAATAAAA
1 AAAATT-ATAAAA
105509688 TGCACATATG
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
35 18 0.41
36 13 0.30
37 7 0.16
38 6 0.14
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (37 bp):
AAAATTATAAAAAATTAATAATAATTTATAAAATTAT
Found at i:105509678 original size:27 final size:28
Alignment explanation
Indices: 105509613--105509681 Score: 58
Period size: 27 Copynumber: 2.5 Consensus size: 28
105509603 AAAATATAAA
*
105509613 AAAATTA-ATAATTATTT-AAAAA-TTT
1 AAAATTATAAAATTATTTAAAAAATTTT
*
105509638 AAAATTATAAAAAATTA-TT-AATAATTTAT
1 AAAATTAT--AAAATTATTTAAAAAATTT-T
105509667 AAAATTATAAAATTA
1 AAAATTATAAAATTA
105509682 ATAAAATGCA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
25 7 0.19
27 13 0.35
28 8 0.22
29 9 0.24
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (28 bp):
AAAATTATAAAATTATTTAAAAAATTTT
Found at i:105509679 original size:8 final size:8
Alignment explanation
Indices: 105509631--105509688 Score: 55
Period size: 10 Copynumber: 6.6 Consensus size: 8
105509621 TAATTATTTA
105509631 AAAATT-T
1 AAAATTAT
105509638 AAAATTAT
1 AAAATTAT
105509646 AAAAAATTATT
1 --AAAATTA-T
105509657 AATAATTTAT
1 AA-AA-TTAT
105509667 AAAATTAT
1 AAAATTAT
105509675 AAAATTAAT
1 AAAATT-AT
105509684 AAAAT
1 AAAAT
105509689 GCACATATGA
Statistics
Matches: 44, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
7 6 0.14
8 11 0.25
9 11 0.25
10 12 0.27
11 4 0.09
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
AAAATTAT
Found at i:105509688 original size:17 final size:17
Alignment explanation
Indices: 105509631--105509688 Score: 64
Period size: 17 Copynumber: 3.3 Consensus size: 17
105509621 TAATTATTTA
*
105509631 AAAATT-TAAAATTATAA
1 AAAATTATAAAATTA-AT
*
105509648 AAAATTATTAATAATTTAT
1 AAAATTA-TAA-AATTAAT
105509667 AAAATTATAAAATTAAT
1 AAAATTATAAAATTAAT
105509684 AAAAT
1 AAAAT
105509689 GCACATATGA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
17 17 0.49
18 3 0.09
19 11 0.31
20 4 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AAAATTATAAAATTAAT
Found at i:105510429 original size:10 final size:10
Alignment explanation
Indices: 105510414--105510463 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
105510404 TAATTTTAGG
105510414 ATTTAT-TTT
1 ATTTATCTTT
105510423 CATTTATCTTT
1 -ATTTATCTTT
*
105510434 AATTATCTTT
1 ATTTATCTTT
*
105510444 ATTTAT-TGGT
1 ATTTATCT-TT
105510454 ATTTATCTTT
1 ATTTATCTTT
105510464 TAGAATTTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
9 1 0.03
10 28 0.85
11 4 0.12
ACGTcount: A:0.22, C:0.08, G:0.04, T:0.66
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:105511213 original size:17 final size:19
Alignment explanation
Indices: 105511176--105511214 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
105511166 GTTTATTTTT
105511176 TTTATTTTAATTTCTGCAA
1 TTTATTTTAATTTCTGCAA
105511195 TTTA-TTTAATTTC-GCAA
1 TTTATTTTAATTTCTGCAA
105511212 TTT
1 TTT
105511215 CAATTCACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 7 0.35
18 9 0.45
19 4 0.20
ACGTcount: A:0.26, C:0.10, G:0.05, T:0.59
Consensus pattern (19 bp):
TTTATTTTAATTTCTGCAA
Found at i:105512254 original size:25 final size:25
Alignment explanation
Indices: 105512208--105512255 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
105512198 ATTTAAAATT
*
105512208 ATATTTTTAATTTTTAATTTTTTTC
1 ATATTTTTAATTTTTAAATTTTTTC
105512233 ATATTTTT-ATTTTTAGAATTTTT
1 ATATTTTTAATTTTTA-AATTTTT
105512256 AAATAACTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (25 bp):
ATATTTTTAATTTTTAAATTTTTTC
Found at i:105515245 original size:16 final size:16
Alignment explanation
Indices: 105515226--105515261 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
105515216 AAAAAAACTC
*
105515226 AAACTTAAAATGATTA
1 AAACTTAAAATGACTA
*
105515242 AAACTTAAATTGACTA
1 AAACTTAAAATGACTA
105515258 AAAC
1 AAAC
105515262 ATGTAATGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.56, C:0.11, G:0.06, T:0.28
Consensus pattern (16 bp):
AAACTTAAAATGACTA
Found at i:105517501 original size:17 final size:18
Alignment explanation
Indices: 105517466--105517504 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
105517456 ATACGACCCT
*
105517466 TCAAATAACATACCCATG
1 TCAAATAACATACCAATG
*
105517484 TCAAAT-ACGTACCAATG
1 TCAAATAACATACCAATG
105517501 TCAA
1 TCAA
105517505 CACACCTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.44, C:0.26, G:0.08, T:0.23
Consensus pattern (18 bp):
TCAAATAACATACCAATG
Found at i:105520641 original size:33 final size:33
Alignment explanation
Indices: 105520604--105520671 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
105520594 CATAATTATA
105520604 ATTATATTAATTTTTTATCAATAATAAATTTAC
1 ATTATATTAATTTTTTATCAATAATAAATTTAC
*
105520637 ATTATATTAATTTTTTATCGATAATAAATTTAC
1 ATTATATTAATTTTTTATCAATAATAAATTTAC
105520670 AT
1 AT
105520672 GAGTTATTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.41, C:0.06, G:0.01, T:0.51
Consensus pattern (33 bp):
ATTATATTAATTTTTTATCAATAATAAATTTAC
Found at i:105524779 original size:21 final size:21
Alignment explanation
Indices: 105524750--105524790 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
105524740 AATACGGGGA
105524750 ATTTCC-TTTTCATGTTTCTTC
1 ATTTCCTTTTTCAT-TTTCTTC
*
105524771 ATTTTCTTTTTCATTTTCTT
1 ATTTCCTTTTTCATTTTCTT
105524791 TTTTTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.10, C:0.20, G:0.02, T:0.68
Consensus pattern (21 bp):
ATTTCCTTTTTCATTTTCTTC
Found at i:105524799 original size:12 final size:12
Alignment explanation
Indices: 105524768--105524793 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
105524758 TTCATGTTTC
105524768 TTCATTTTCTTT
1 TTCATTTTCTTT
105524780 TTCATTTTCTTT
1 TTCATTTTCTTT
105524792 TT
1 TT
105524794 TTTTTTATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (12 bp):
TTCATTTTCTTT
Found at i:105535759 original size:13 final size:13
Alignment explanation
Indices: 105535741--105535792 Score: 61
Period size: 13 Copynumber: 4.0 Consensus size: 13
105535731 AAGTAATTAA
105535741 TAATATATTAATT
1 TAATATATTAATT
*
105535754 TAATATATAAATT
1 TAATATATTAATT
**
105535767 TAATATA-TAACA
1 TAATATATTAATT
105535779 TAATATATATAATT
1 TAATATAT-TAATT
105535793 ATATGAATAT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
12 9 0.29
13 19 0.61
14 3 0.10
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (13 bp):
TAATATATTAATT
Found at i:105535983 original size:34 final size:35
Alignment explanation
Indices: 105535923--105535992 Score: 81
Period size: 34 Copynumber: 2.0 Consensus size: 35
105535913 TTAAATTAGT
* *
105535923 ATGTTATTAATACATAAAATAATAATATAT-TATA
1 ATGTTACTAATACATAAAATAATAATACATATATA
* *
105535957 ATGTTACTATTAC-TAAAACTATTAATACATATATA
1 ATGTTACTAATACATAAAA-TAATAATACATATATA
105535992 A
1 A
105535993 CTATTATTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
33 5 0.17
34 20 0.67
35 5 0.17
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (35 bp):
ATGTTACTAATACATAAAATAATAATACATATATA
Found at i:105536419 original size:223 final size:227
Alignment explanation
Indices: 105535992--105536419 Score: 552
Period size: 230 Copynumber: 1.9 Consensus size: 227
105535982 TACATATATA
* *
105535992 ACTATTATTATAAGATAGATTATAATAAAAAATATAATATTGCATGATATTAATTATAATGTTTA
1 ACTATTATTATAAGATAGATTATAATAAAAAATATAATATTACATGA-ATTAATTATAACGTTTA
*
105536057 ATCATTGATGCATATATATAAACTATTAATATATCATATGATATGATATAGCATTATATAATATA
65 ATCATTGATGCATATATATAAACTATTAAGATATCATATGATATGATATA--ATTATATAATATA
* ** * * * *
105536122 GTAAGAGGGTTAGCTTTTAAATGTATATATGAAAAGCATACTGACTTAGAGTATATTTCAACTAG
128 GTAAGAGGGATAAATTTCAAATG-ATATATGAAAAGCACACGGACTTAGAGCATATTTCAACTAG
105536187 TATAATAAT-ATATAATAAGTAATAAATAATATACT
192 TATAATAATAATATAATAAGTAATAAATAATATACT
* * * *
105536222 ACTATTGTTATAATATAGATTATAATAAAAGATATAGTATTACATG-A-T-ATTATAACGTTTAA
1 ACTATTATTATAAGATAGATTATAATAAAAAATATAATATTACATGAATTAATTATAACGTTTAA
* *
105536284 TCATTTATGCGTATATATATAAACTATTAAGATATGATATGATAT-A-AT-ATTATATAATATAG
66 TCATTGATGC--ATATATATAAACTATTAAGATATCATATGATATGATATAATTATATAATATAG
* * *
105536346 TAGGAGGGATAAATTTCAAATG-TA-A-GAAAAGTACAGGGACTTAGAGCATATTTCAACTAGTA
129 TAAGAGGGATAAATTTCAAATGATATATGAAAAGCACACGGACTTAGAGCATATTTCAACTAGTA
105536408 TAATAAATAATA
194 TAAT-AATAATA
105536420 ATATATGATA
Statistics
Matches: 175, Mismatches: 19, Indels: 17
0.83 0.09 0.08
Matches are distributed among these distances:
219 36 0.21
220 4 0.02
221 5 0.03
223 31 0.18
226 24 0.14
227 2 0.01
228 32 0.18
230 41 0.23
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.37
Consensus pattern (227 bp):
ACTATTATTATAAGATAGATTATAATAAAAAATATAATATTACATGAATTAATTATAACGTTTAA
TCATTGATGCATATATATAAACTATTAAGATATCATATGATATGATATAATTATATAATATAGTA
AGAGGGATAAATTTCAAATGATATATGAAAAGCACACGGACTTAGAGCATATTTCAACTAGTATA
ATAATAATATAATAAGTAATAAATAATATACT
Found at i:105536959 original size:9 final size:9
Alignment explanation
Indices: 105536939--105536988 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 9
105536929 TCACTCTCTC
105536939 AATATA-AT
1 AATATATAT
105536947 AATATATAT
1 AATATATAT
*
105536956 AATAGATAT
1 AATATATAT
*
105536965 TATA-ATGAT
1 AATATAT-AT
*
105536974 AAAATATAT
1 AATATATAT
105536983 AATATA
1 AATATA
105536989 AACAAAATTA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
8 8 0.24
9 24 0.71
10 2 0.06
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (9 bp):
AATATATAT
Found at i:105538714 original size:26 final size:26
Alignment explanation
Indices: 105538677--105538760 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
105538667 TGATACAAAT
* *
105538677 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
105538703 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
105538729 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
105538755 TGATAA
1 TGATAA
105538761 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:105544400 original size:26 final size:26
Alignment explanation
Indices: 105544363--105544446 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
105544353 TGATACAAAT
* *
105544363 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
105544389 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
105544415 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
105544441 TGATAA
1 TGATAA
105544447 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:105548775 original size:22 final size:21
Alignment explanation
Indices: 105548750--105548791 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
105548740 ATATTAAGAT
105548750 AAAACAATAAGTGATAATAATG
1 AAAACAATAAGT-ATAATAATG
* *
105548772 AAAAGAATAGGTATAATAAT
1 AAAACAATAAGTATAATAAT
105548792 AAGTAAAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.60, C:0.02, G:0.14, T:0.24
Consensus pattern (21 bp):
AAAACAATAAGTATAATAATG
Found at i:105548840 original size:33 final size:34
Alignment explanation
Indices: 105548803--105548868 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 34
105548793 AGTAAAATGA
**
105548803 TATACGAA-AATAATACCATATATATA-TAATATG
1 TATAC-AAGAATAATAAAATATATATACTAATATG
*
105548836 TATACAAGAATAATAAAATATATGTACTAATAT
1 TATACAAGAATAATAAAATATATATACTAATAT
105548869 TAATAATAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 2 0.07
33 20 0.71
34 6 0.21
ACGTcount: A:0.53, C:0.08, G:0.06, T:0.33
Consensus pattern (34 bp):
TATACAAGAATAATAAAATATATATACTAATATG
Found at i:105549015 original size:26 final size:25
Alignment explanation
Indices: 105548938--105549066 Score: 85
Period size: 24 Copynumber: 5.2 Consensus size: 25
105548928 TTAAAAATAT
* *
105548938 ATATATACATATAATAGTATTTAAGA
1 ATATATACATA-AATAGTATATAAAA
**
105548964 ATATATACATAAGAT-G-ATATGGAA
1 ATATATACATAA-ATAGTATATAAAA
*
105548988 ATATGTACATAGAATAGTATATAAAA
1 ATATATACATA-AATAGTATATAAAA
*
105549014 ATATA-AC-T-AATAATAT-TGAAAA
1 ATATATACATAAATAGTATAT-AAAA
*
105549036 TATAGATACAT-AATA-TATATAAAA
1 -ATATATACATAAATAGTATATAAAA
105549060 CATATAT
1 -ATATAT
105549067 GATATATACA
Statistics
Matches: 82, Mismatches: 12, Indels: 20
0.72 0.11 0.18
Matches are distributed among these distances:
21 1 0.01
22 11 0.13
23 4 0.05
24 31 0.38
25 12 0.15
26 23 0.28
ACGTcount: A:0.53, C:0.05, G:0.09, T:0.33
Consensus pattern (25 bp):
ATATATACATAAATAGTATATAAAA
Found at i:105549086 original size:21 final size:20
Alignment explanation
Indices: 105549048--105549095 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 20
105549038 TAGATACATA
* *
105549048 ATATATATAAAACATATATG
1 ATATATACAAAACATATACG
*
105549068 ATATATACATAAACGTATACG
1 ATATATACA-AAACATATACG
*
105549089 ACATATA
1 ATATATA
105549096 TATATTAGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.31
Consensus pattern (20 bp):
ATATATACAAAACATATACG
Found at i:105549510 original size:124 final size:124
Alignment explanation
Indices: 105549368--105549637 Score: 515
Period size: 124 Copynumber: 2.2 Consensus size: 124
105549358 GAAAAAAAAG
*
105549368 TAATAATAATAATATAAATAATAATATTGAGATACAAAATTTACTACTATAATAAAAATATAAAA
1 TAATAATAATAATATAAATAATAATATTGAGATACAAAAATTACTACTATAATAAAAATATAAAA
105549433 ATAAAGCAATAAAACATTACTACATATATATATACGTACATAAAGTAAACACTAATACA
66 ATAAAGCAATAAAACATTACTACATATATATATACGTACATAAAGTAAACACTAATACA
105549492 TAATAATAATAATATAAATAATAATATTGAGATACAAAAATTACTACTATAATAAAAATATAAAA
1 TAATAATAATAATATAAATAATAATATTGAGATACAAAAATTACTACTATAATAAAAATATAAAA
105549557 ATAAAGCAATAAAACATTACTACATATATATATACGTACATAAAGTAAACACTAATACA
66 ATAAAGCAATAAAACATTACTACATATATATATACGTACATAAAGTAAACACTAATACA
105549616 TAATAATAATAATA-ATAATAAT
1 TAATAATAATAATATA-AATAAT
105549638 TAAAGTAGAA
Statistics
Matches: 144, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
123 1 0.01
124 143 0.99
ACGTcount: A:0.58, C:0.09, G:0.04, T:0.29
Consensus pattern (124 bp):
TAATAATAATAATATAAATAATAATATTGAGATACAAAAATTACTACTATAATAAAAATATAAAA
ATAAAGCAATAAAACATTACTACATATATATATACGTACATAAAGTAAACACTAATACA
Found at i:105550233 original size:15 final size:17
Alignment explanation
Indices: 105550204--105550237 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
105550194 AAATTTTTCC
105550204 TTTTTTATTATTATTTA
1 TTTTTTATTATTATTTA
105550221 TTTTTTA-TA-TATTTA
1 TTTTTTATTATTATTTA
105550236 TT
1 TT
105550238 AAATATGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 2 0.12
17 7 0.41
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTTATTATTATTTA
Found at i:105551509 original size:54 final size:54
Alignment explanation
Indices: 105551446--105551925 Score: 744
Period size: 54 Copynumber: 8.7 Consensus size: 54
105551436 CATGTGACCG
* * * ** *
105551446 AGGCTCAACTCACCTATTGCAATATAAGTTGATTTTTGAAAAGTATAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
*
105551500 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
* *
105551554 AGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAAAAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC-AGAAATTAAA
105551609 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTAAA
* *
105551664 AGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTTTGAAAAACAAAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTT-G-ATTTTTGAAAAACAGAAATTAAA
105551720 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
105551774 AGGCTCAACTCACCTCTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
1 AGGCTC-A---A---CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
105551835 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
* *
105551889 AGGCTCAACTCACCTTTCGCGATATGAGTTGATTTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
105551926 TTCAACTCAC
Statistics
Matches: 399, Mismatches: 16, Indels: 22
0.91 0.04 0.05
Matches are distributed among these distances:
54 199 0.50
55 81 0.20
56 64 0.16
57 1 0.00
58 1 0.00
60 1 0.00
61 52 0.13
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (54 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
Found at i:105551688 original size:110 final size:108
Alignment explanation
Indices: 105551446--105551925 Score: 753
Period size: 115 Copynumber: 4.3 Consensus size: 108
105551436 CATGTGACCG
* * * ** *
105551446 AGGCTCAACTCACCTATTGCAATATAAGTTGATTTTTGAAAAGTATAAATTAAAAGGCTCAACTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTCAACTC
*
105551511 ACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAA
66 ACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
*
105551554 AGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAAAAAATTAAAAGGCTCAACT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC-AAAAATTAAAAGGCTCAACT
105551619 CACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAA
65 CACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTAAA
*
105551664 AGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTTTGAAAAACAAAAATTAAAAGGCTCAAC
1 AGGCTCAACTCACCTCTCGCAATATGAGTT-G-ATTTTTGAAAAACAAAAATTAAAAGGCTCAAC
105551729 TCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
64 TCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
*
105551774 AGGCTCAACTCACCTCTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGC
1 AGGCTC-A---A---CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGC
105551839 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
59 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
* *
105551889 AGGCTCAACTCACCTTTCGCGATATGAGTTGATTTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
105551926 TTCAACTCAC
Statistics
Matches: 347, Mismatches: 14, Indels: 22
0.91 0.04 0.06
Matches are distributed among these distances:
108 65 0.19
109 41 0.12
110 78 0.22
111 45 0.13
112 12 0.03
114 2 0.01
115 81 0.23
116 1 0.00
117 22 0.06
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (108 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTCAACTC
ACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
Found at i:105551936 original size:34 final size:34
Alignment explanation
Indices: 105551893--105551960 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
105551883 ATTAAAAGGC
* *
105551893 TCAACTCACCTTTCGCGATATGAGTTGATTTTTT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTT
105551927 TCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTT
105551961 GAAAATAGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (34 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTT
Found at i:105551988 original size:88 final size:88
Alignment explanation
Indices: 105551839--105552013 Score: 298
Period size: 88 Copynumber: 2.0 Consensus size: 88
105551829 ATTAAAAGGC
105551839 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCT
* * *
105551904 TTCGCGATATGAGTTGATTTTTT
66 CTCACAATATGAGTTGATTTTTT
*
105551927 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAATAGAAATTAAAAGGCTCAACTCACC
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACC
105551991 TCTCACAATATGAGTTGATTTTT
65 TCTCACAATATGAGTTGATTTTT
105552014 GAAAAACAAA
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
88 76 0.93
89 6 0.07
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (88 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCT
CTCACAATATGAGTTGATTTTTT
Found at i:105552009 original size:54 final size:55
Alignment explanation
Indices: 105551927--105552251 Score: 512
Period size: 54 Copynumber: 5.9 Consensus size: 55
105551917 TTGATTTTTT
*
105551927 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAATAGAAATTAAAAGGC
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAGGC
* *
105551981 TCAACTCACCTCTCACAATATGAGTTGA-TTTTTGAAAAACAAAAATTAAAAGGC
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAGGC
105552035 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAGGC
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAGGC
* *
105552090 TCAACTTACCTCTCGCAATATGAGTTGGTTTTTTTTTTGAAAAACAGAAATTAAAAGGC
1 TCAACTCACCTCTCGCAATATGAGTT-G---ATTTTTTGAAAAACAGAAATTAAAAGGC
*
105552149 TCAACTCACCTCTCGCAATATGAGTTGGTTTTTTTGAAAAACAGAAATTAAAAGGC
1 TCAACTCACCTCTCGCAATATGAGTT-GATTTTTTGAAAAACAGAAATTAAAAGGC
* *
105552205 TCAACTCACCTCTCGCAATATGAATTGA-TTTTTGACAAACAGAAATT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATT
105552252 GAAATTACCT
Statistics
Matches: 254, Mismatches: 11, Indels: 12
0.92 0.04 0.04
Matches are distributed among these distances:
53 6 0.02
54 89 0.35
55 51 0.20
56 54 0.21
59 54 0.21
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (55 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAGGC
Found at i:105552045 original size:142 final size:142
Alignment explanation
Indices: 105551789--105552068 Score: 499
Period size: 142 Copynumber: 2.0 Consensus size: 142
105551779 CAACTCACCT
*
105551789 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCG
1 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCA
* * *
105551854 CAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTTTCGCGATATGAGTT
66 CAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTT
105551919 GATTTTTTTCAA
131 GATTTTTTTCAA
*
105551931 CTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAATAGAAATTAAAAGGCTCAACTCACCTCTC
1 CTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTC
105551995 ACAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGT
65 ACAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGT
105552060 TGATTTTTT
130 TGATTTTTT
105552069 GAAAAACAGA
Statistics
Matches: 132, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
142 126 0.95
143 6 0.05
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (142 bp):
CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCA
CAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTTTCAA
Found at i:105552065 original size:196 final size:198
Alignment explanation
Indices: 105551724--105552124 Score: 664
Period size: 196 Copynumber: 2.0 Consensus size: 198
105551714 ATTAAAAGGC
105551724 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCT
*
105551789 CTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCG
66 CTCA-----C-CAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTCAACTCACCTCTCG
* *
105551854 CAATATGAGTTGA-TTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTTTCGCGATATGAGT
125 CAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGT
105551918 TGATTTTTT
190 TGATTTTTT
*
105551927 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAATAGAAATTAAAAGGCTCAACTCACC
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACC
105551991 TCTCA-CAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTCAACTCACCTCTCGCAATA
65 TCTCACCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTCAACTCACCTCTCGCAATA
* *
105552055 TGAGTTGATTTTTTGAAAAACAGAAATTAAAAGGCTCAACTTACCTCTCGCAATATGAGTTGGTT
130 TGAGTTGATTTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
105552120 TTTT
195 TTTT
105552124 T
1 T
105552125 TTTGAAAAAC
Statistics
Matches: 190, Mismatches: 6, Indels: 10
0.92 0.03 0.05
Matches are distributed among these distances:
196 66 0.35
197 57 0.30
203 61 0.32
204 6 0.03
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.31
Consensus pattern (198 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCT
CTCACCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
TTT
Found at i:105552351 original size:73 final size:71
Alignment explanation
Indices: 105552200--105552401 Score: 262
Period size: 73 Copynumber: 2.8 Consensus size: 71
105552190 CAGAAATTAA
* * *
105552200 AAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTGACAAACAGAAATTGAAATTACCTCAG
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG--AAACAGTAATTGAAAATACCTCAG
* *
105552265 CGTGTCCT
64 CGTGACCC
* *
105552273 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACA-TAATTGAAAATACCTCGGCA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACAGTAATTGAAAATACCTCAGC-
105552337 TGTGAACCC
65 -GTG-ACCC
* *
105552346 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATTAAATTGAAAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACAGT-AATTGAAAA
105552402 AAACAGAAAT
Statistics
Matches: 115, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
70 16 0.14
71 5 0.04
72 3 0.03
73 81 0.70
74 1 0.01
75 9 0.08
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (71 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACAGTAATTGAAAATACCTCAGCG
TGACCC
Found at i:105552467 original size:90 final size:89
Alignment explanation
Indices: 105552318--105552600 Score: 320
Period size: 93 Copynumber: 3.1 Consensus size: 89
105552308 TTTGAAACAT
* * *
105552318 AATTGAAAATACCTCGGCATGTGAACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AATTAAAAATACCTCAGCATGTG-A-CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
105552383 TGAAAAATTAAATTGAAAAAAACAGA
64 TGAAAAATTAAATTGAAAAAAACAGA
* * ** *
105552409 AATTAAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACAAGTTGACTTTT
1 AATTAAAAATACCTCAGCATGTGACC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
** **
105552474 -AAAAAAAAAACAGGAATTGAAAAACAGA
65 GAAAAATTAAA-TTGAA---AAAAACAGA
* *
105552502 AATTGAAAATACGTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AATTAAAAATACCTCAGCATGTGA-CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT
*
105552567 TGAAAAATATAAATTG-AAAAGA-AGA
64 TGAAAAAT-TAAATTGAAAAAAACAGA
105552592 AATTAAAAA
1 AATTAAAAA
105552601 GCAAAAATTG
Statistics
Matches: 158, Mismatches: 25, Indels: 19
0.78 0.12 0.09
Matches are distributed among these distances:
89 10 0.06
90 48 0.30
91 24 0.15
93 60 0.38
94 7 0.04
95 6 0.04
96 3 0.02
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.24
Consensus pattern (89 bp):
AATTAAAAATACCTCAGCATGTGACCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
AAAAATTAAATTGAAAAAAACAGA
Found at i:105552510 original size:13 final size:14
Alignment explanation
Indices: 105552479--105552510 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
105552469 CTTTTAAAAA
*
105552479 AAAAACAGGAATTG
1 AAAAACAGAAATTG
105552493 AAAAACAGAAATTG
1 AAAAACAGAAATTG
105552507 AAAA
1 AAAA
105552511 TACGTCAGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.66, C:0.06, G:0.16, T:0.12
Consensus pattern (14 bp):
AAAAACAGAAATTG
Found at i:105552594 original size:14 final size:14
Alignment explanation
Indices: 105552577--105552614 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
105552567 TGAAAAATAT
105552577 AAATTGAAAAG-AA
1 AAATTGAAAAGCAA
*
105552590 GAAATTAAAAAGCAA
1 -AAATTGAAAAGCAA
105552605 AAATTGAAAA
1 AAATTGAAAA
105552615 TACCTCAGCG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 19 0.90
15 2 0.10
ACGTcount: A:0.68, C:0.03, G:0.13, T:0.16
Consensus pattern (14 bp):
AAATTGAAAAGCAA
Found at i:105552686 original size:14 final size:14
Alignment explanation
Indices: 105552663--105552713 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
105552653 ATATGAGTTG
105552663 ATTTGAAAAGCAGA
1 ATTTGAAAAGCAGA
*
105552677 ATTTGTAAAGCAGA
1 ATTTGAAAAGCAGA
* *
105552691 AATTGAAAAACAGA
1 ATTTGAAAAGCAGA
*
105552705 AATTGAAAA
1 ATTTGAAAA
105552714 TACCTCAGCG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.55, C:0.06, G:0.18, T:0.22
Consensus pattern (14 bp):
ATTTGAAAAGCAGA
Found at i:105552784 original size:14 final size:14
Alignment explanation
Indices: 105552765--105552799 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
105552755 GAGTTAATTT
* *
105552765 TTGAAAAGCATAAA
1 TTGAAAAACAGAAA
105552779 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
105552793 TTGAAAA
1 TTGAAAA
105552800 TACGTCAGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.06, G:0.14, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:105552852 original size:87 final size:86
Alignment explanation
Indices: 105552678--105552853 Score: 271
Period size: 86 Copynumber: 2.0 Consensus size: 86
105552668 AAAAGCAGAA
* * *
105552678 TTTGTAAAGCAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCGAGGCTCAACTCAC
1 TTTGAAAAGCAGAAATTGAAAAACAGAAATTGAAAATACCTCAGAGCGCCCGAGGCTCAACTCAC
*
105552743 CTCTCATAATATGAGTTAATT
66 CTCTCACAATATGAGTTAATT
* *
105552764 TTTGAAAAGCATAAATTGAAAAACAGAAATTGAAAATACGTCAGAGCGCCCCGAGGCTCAACTCA
1 TTTGAAAAGCAGAAATTGAAAAACAGAAATTGAAAATACCTCAGAGCG-CCCGAGGCTCAACTCA
* *
105552829 CCTCTCGCAATATGAGTTGATT
65 CCTCTCACAATATGAGTTAATT
105552851 TTT
1 TTT
105552854 TTTTTGAAAA
Statistics
Matches: 81, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
86 43 0.53
87 38 0.47
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.26
Consensus pattern (86 bp):
TTTGAAAAGCAGAAATTGAAAAACAGAAATTGAAAATACCTCAGAGCGCCCGAGGCTCAACTCAC
CTCTCACAATATGAGTTAATT
Found at i:105561341 original size:22 final size:21
Alignment explanation
Indices: 105561316--105561357 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
105561306 ATATTAAGAT
105561316 AAAACAATAAGTGATAATAATG
1 AAAACAATAAGT-ATAATAATG
* *
105561338 AAAAGAATAGGTATAATAAT
1 AAAACAATAAGTATAATAAT
105561358 AAATAAAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.60, C:0.02, G:0.14, T:0.24
Consensus pattern (21 bp):
AAAACAATAAGTATAATAATG
Found at i:105561581 original size:26 final size:25
Alignment explanation
Indices: 105561506--105561632 Score: 81
Period size: 24 Copynumber: 5.2 Consensus size: 25
105561496 AAAAATATAC
* *
105561506 ATATACATATAATAGTATTTAAGAAT
1 ATATACATA-AATAGTATATAAAAAT
**
105561532 ATATACATAAGAT-G-ATATGGAAAT
1 ATATACATAA-ATAGTATATAAAAAT
*
105561556 ATGTACATAGAATAGTATATAAAAAT
1 ATATACATA-AATAGTATATAAAAAT
*
105561582 ATA-AC-T-AATAATAT-TGAAAATAT
1 ATATACATAAATAGTATAT-AAAA-AT
*
105561605 AGATACAT-AATA-TATATAAAACAT
1 ATATACATAAATAGTATATAAAA-AT
105561629 ATAT
1 ATAT
105561633 GATATATACA
Statistics
Matches: 80, Mismatches: 12, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
21 1 0.01
22 11 0.14
23 4 0.05
24 31 0.39
25 12 0.15
26 21 0.26
ACGTcount: A:0.54, C:0.05, G:0.09, T:0.33
Consensus pattern (25 bp):
ATATACATAAATAGTATATAAAAAT
Found at i:105561652 original size:21 final size:20
Alignment explanation
Indices: 105561614--105561661 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 20
105561604 TAGATACATA
* *
105561614 ATATATATAAAACATATATG
1 ATATATACAAAACATATACG
*
105561634 ATATATACATAAACGTATACG
1 ATATATACA-AAACATATACG
*
105561655 ACATATA
1 ATATATA
105561662 TATATTAGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.31
Consensus pattern (20 bp):
ATATATACAAAACATATACG
Found at i:105562061 original size:3 final size:3
Alignment explanation
Indices: 105562047--105562095 Score: 89
Period size: 3 Copynumber: 16.0 Consensus size: 3
105562037 AAGTAAACAC
105562047 TAA TACA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
105562093 TAA
1 TAA
105562096 AATTAAAGTA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 42 0.93
4 3 0.07
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:105562675 original size:18 final size:19
Alignment explanation
Indices: 105562648--105562686 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
105562638 AAAGGTAAAA
105562648 TTTTTCCTTTTTTAT-TAT
1 TTTTTCCTTTTTTATATAT
*
105562666 TTTTTTCTTTTTTATATAT
1 TTTTTCCTTTTTTATATAT
105562685 TT
1 TT
105562687 ATTAAATATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.13, C:0.08, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTTCCTTTTTTATATAT
Found at i:105566615 original size:17 final size:17
Alignment explanation
Indices: 105566593--105566631 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
105566583 CTCATAAAAG
105566593 TGGTTGTTTTTAATAAA
1 TGGTTGTTTTTAATAAA
105566610 TGGTTGTTTTTAATAAA
1 TGGTTGTTTTTAATAAA
105566627 TGGTT
1 TGGTT
105566632 TGATTTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.26, C:0.00, G:0.21, T:0.54
Consensus pattern (17 bp):
TGGTTGTTTTTAATAAA
Found at i:105568036 original size:57 final size:54
Alignment explanation
Indices: 105567966--105568081 Score: 187
Period size: 57 Copynumber: 2.1 Consensus size: 54
105567956 TAGGAATAAA
*
105567966 TTTTTCTCCATATGTCTAAATAGGTATAACTTGTTGAAAACTATAATAATATGATTC
1 TTTTTCTCCATATGTCTAAATAGGTATAACTTGTCGAAAAC--T-ATAATATGATTC
*
105568023 TTTTTCTCTATATGTCTAAATAGGTATAACTTGTCGAAAACTATAATATGATTC
1 TTTTTCTCCATATGTCTAAATAGGTATAACTTGTCGAAAACTATAATATGATTC
105568077 TTTTT
1 TTTTT
105568082 ACGCCTATTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
54 17 0.30
55 1 0.02
57 39 0.68
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (54 bp):
TTTTTCTCCATATGTCTAAATAGGTATAACTTGTCGAAAACTATAATATGATTC
Found at i:105569107 original size:80 final size:81
Alignment explanation
Indices: 105568996--105569153 Score: 189
Period size: 80 Copynumber: 2.0 Consensus size: 81
105568986 TTTAAAATTT
* * * * * *
105568996 TAATAATTTTTCTATAAGTTTCCTATATTTTTTTATAATTCTTAACAAAAATTGTAA-TATTTTA
1 TAATAATTTATCTAGAAGTTTCCTATATTTTTTAATAATTCTTAAAAAAAATTATAACT-TTTAA
105569060 ATAA-TTTTTATTAACAG
65 ATAACTTTTT-TTAACAG
* *
105569077 TAATAATTTATCTAGAA-TTT-TTATAATTTTTTAATAATTTTTAAAAAAAATTATAACTTTTAA
1 TAATAATTTATCTAGAAGTTTCCTAT-ATTTTTTAATAATTCTTAAAAAAAATTATAACTTTTAA
105569140 ATAACTTTTTTTAA
65 ATAACTTTTTTTAA
105569154 AATCCACATC
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
79 3 0.05
80 42 0.64
81 21 0.32
ACGTcount: A:0.40, C:0.06, G:0.03, T:0.52
Consensus pattern (81 bp):
TAATAATTTATCTAGAAGTTTCCTATATTTTTTAATAATTCTTAAAAAAAATTATAACTTTTAAA
TAACTTTTTTTAACAG
Found at i:105572818 original size:16 final size:17
Alignment explanation
Indices: 105572786--105572819 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
105572776 AATAAAATTT
105572786 TAAAATATTAATTTAATA
1 TAAAATATT-ATTTAATA
105572804 TAAAATATT-TTTAATA
1 TAAAATATTATTTAATA
105572820 CTATAATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
18 9 0.56
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TAAAATATTATTTAATA
Found at i:105573278 original size:16 final size:17
Alignment explanation
Indices: 105573249--105573291 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
105573239 TAAACAATAA
105573249 TATATAATATACTACTAT
1 TATAT-ATATACTACTAT
*
105573267 TATATATA-ACTATTAT
1 TATATATATACTACTAT
105573283 TATA-ATATA
1 TATATATATA
105573292 GATTATAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 3 0.13
16 12 0.52
17 3 0.13
18 5 0.22
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (17 bp):
TATATATATACTACTAT
Found at i:105573501 original size:231 final size:231
Alignment explanation
Indices: 105573037--105573504 Score: 610
Period size: 230 Copynumber: 2.0 Consensus size: 231
105573027 CTATTAATAC
**
105573037 ATATATAACAATTATTATAATATAGATTATAATAAAAGATATAACATTACATGATATTATAATGT
1 ATATATAACAATTATTATAATATAGATTATAATAAAAGATATAACATTACATGATATTATAACAT
* *
105573102 TTAATCATCGATGCATATATATAAACTATTAACATATTATATGTTATGATACAACATTATATAAT
66 TTAATCATCGATGCATATATATAAACTATTAACATATTATATGTGATGACACAACATTATATAAT
* * *** *
105573167 ATAGTAAGAGGGTTAACTTTTAAATGTATGGAAAGTATAGGGACTTAGAGCATATTTCAACTAGT
131 ATAGTAAGAGGGATAACTTTTAAATATAAAAAAAATATAGGGACTTAGAGCATATTTCAACTAGT
*
105573232 ATAATAATAAACAATAATATATAATATACTACTATT
196 ATAATAATAAACAATAATATATAATATAATACTATT
* ** *
105573268 ATATATAACTATTATTATAATATAGATTATAATAAAAGATATAGTATTACATTATATTATAACAT
1 ATATATAACAATTATTATAATATAGATTATAATAAAAGATATAACATTACATGATATTATAACAT
** *
105573333 TTAATCATTTATGCATATATATATA-TA-TAAGC-TATTAATATGTGATGACA-ATACATTATAT
66 TTAATCATCGATGCATATATATAAACTATTAA-CATATT-ATATGTGATGACACA-ACATTATAT
* * *
105573394 AATATAGTAGGAGGGATAATTTTTAAATATAAAAAAAATATA-GGAGCTTCGAGCATATTTCAAC
128 AATATAGTAAGAGGGATAACTTTTAAATATAAAAAAAATATAGGGA-CTTAGAGCATATTTCAAC
*
105573458 TAGTATAATAA-ATAATAAT-ATATGATAATAATTAATA-TATT
192 TAGTATAATAATA-AACAATAATAT-ATAAT-A-TAATACTATT
105573499 ATATAT
1 ATATAT
105573505 TACTCTACTA
Statistics
Matches: 207, Mismatches: 22, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
229 16 0.08
230 95 0.46
231 92 0.44
232 4 0.02
ACGTcount: A:0.46, C:0.07, G:0.09, T:0.38
Consensus pattern (231 bp):
ATATATAACAATTATTATAATATAGATTATAATAAAAGATATAACATTACATGATATTATAACAT
TTAATCATCGATGCATATATATAAACTATTAACATATTATATGTGATGACACAACATTATATAAT
ATAGTAAGAGGGATAACTTTTAAATATAAAAAAAATATAGGGACTTAGAGCATATTTCAACTAGT
ATAATAATAAACAATAATATATAATATAATACTATT
Found at i:105573591 original size:21 final size:19
Alignment explanation
Indices: 105573558--105573600 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
105573548 ACAATTTATC
105573558 TTTTTATTATTTCTATTATTT
1 TTTTTATTATTTCT-TT-TTT
* *
105573579 TTTTTCTTTTTTCTTTTTT
1 TTTTTATTATTTCTTTTTT
105573598 TTT
1 TTT
105573601 CTTTTAGTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 12 0.60
ACGTcount: A:0.09, C:0.07, G:0.00, T:0.84
Consensus pattern (19 bp):
TTTTTATTATTTCTTTTTT
Found at i:105573912 original size:13 final size:13
Alignment explanation
Indices: 105573894--105573921 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
105573884 TTCATGTGTT
105573894 TATACATTATTGG
1 TATACATTATTGG
105573907 TATACATTATTGG
1 TATACATTATTGG
105573920 TA
1 TA
105573922 AAAGAAGACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.07, G:0.14, T:0.46
Consensus pattern (13 bp):
TATACATTATTGG
Found at i:105574242 original size:48 final size:48
Alignment explanation
Indices: 105574186--105574281 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
105574176 AAGGTGTAAG
105574186 GTGCAGATTCAAACAAGAAAGCCTACTATCTACCACATTGCGAGTTTA
1 GTGCAGATTCAAACAAGAAAGCCTACTATCTACCACATTGCGAGTTTA
*
105574234 GTGCAGATTCAAACAAGAAAGCCTACTATCTACCACATTGCGATTTTA
1 GTGCAGATTCAAACAAGAAAGCCTACTATCTACCACATTGCGAGTTTA
105574282 CATGTTAGCA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (48 bp):
GTGCAGATTCAAACAAGAAAGCCTACTATCTACCACATTGCGAGTTTA
Found at i:105578596 original size:16 final size:18
Alignment explanation
Indices: 105578560--105578593 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
105578550 AATTTAAATA
105578560 AATGATAATTCTTTTTTT
1 AATGATAATTCTTTTTTT
105578578 AATG-TAATTCTTTTTT
1 AATGATAATTCTTTTTT
105578594 AATATATTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.62
Consensus pattern (18 bp):
AATGATAATTCTTTTTTT
Found at i:105579172 original size:16 final size:17
Alignment explanation
Indices: 105579143--105579185 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
105579133 TAAACAATAA
105579143 TATATAATATACTACTAT
1 TATAT-ATATACTACTAT
*
105579161 TATATATA-ACTATTAT
1 TATATATATACTACTAT
105579177 TATA-ATATA
1 TATATATATA
105579186 GATTTTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 3 0.13
16 12 0.52
17 3 0.13
18 5 0.22
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (17 bp):
TATATATATACTACTAT
Found at i:105583232 original size:30 final size:30
Alignment explanation
Indices: 105583198--105583258 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
105583188 TCCTTAACTC
105583198 AAACTTTAGAAAAATTACAATTTTGCCCCT
1 AAACTTTAGAAAAATTACAATTTTGCCCCT
* * * * *
105583228 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTAGAAAAATTACAATTTTGCCCCT
105583258 A
1 A
105583259 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.38
Consensus pattern (30 bp):
AAACTTTAGAAAAATTACAATTTTGCCCCT
Found at i:105586973 original size:26 final size:26
Alignment explanation
Indices: 105586934--105587017 Score: 134
Period size: 26 Copynumber: 3.2 Consensus size: 26
105586924 CATGAAATTT
*
105586934 TTATCAT-GACACATTTACCTAACCCA
1 TTATCATGGA-ACATTTACCTAACCTA
*
105586960 TTATCATGGAACATTTACCTAACCTT
1 TTATCATGGAACATTTACCTAACCTA
105586986 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
105587012 TTATCA
1 TTATCA
105587018 ATTTGTATTA
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
26 52 0.96
27 2 0.04
ACGTcount: A:0.33, C:0.25, G:0.06, T:0.36
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:105588231 original size:9 final size:9
Alignment explanation
Indices: 105588217--105588264 Score: 51
Period size: 9 Copynumber: 5.1 Consensus size: 9
105588207 CACTCTCTCA
105588217 ATATAATAT
1 ATATAATAT
*
105588226 ATATAATAG
1 ATATAATAT
*
105588235 ATATTATAAT
1 ATATAAT-AT
*
105588245 GATAAAATAT
1 -ATATAATAT
105588255 ATATAATAT
1 ATATAATAT
105588264 A
1 A
105588265 AACAAAATTA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
9 23 0.74
10 3 0.10
11 5 0.16
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (9 bp):
ATATAATAT
Found at i:105588348 original size:46 final size:47
Alignment explanation
Indices: 105588288--105588384 Score: 178
Period size: 46 Copynumber: 2.1 Consensus size: 47
105588278 TATAAGTGCC
*
105588288 TAAACTTTTTATTTTCAGTAGTGATTTTTATTGTTATACAATTATAG
1 TAAACTTTTTATTTTCAGTAGTGATTCTTATTGTTATACAATTATAG
105588335 TAAAC-TTTTATTTTCAGTAGTGATTCTTATTGTTATACAATTATAG
1 TAAACTTTTTATTTTCAGTAGTGATTCTTATTGTTATACAATTATAG
105588381 TAAA
1 TAAA
105588385 AACAATCCAA
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
46 44 0.90
47 5 0.10
ACGTcount: A:0.32, C:0.07, G:0.10, T:0.51
Consensus pattern (47 bp):
TAAACTTTTTATTTTCAGTAGTGATTCTTATTGTTATACAATTATAG
Found at i:105589230 original size:16 final size:17
Alignment explanation
Indices: 105589201--105589238 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
105589191 AATAATATAC
105589201 AATAT-ACTACTATTAT
1 AATATAACTACTATTAT
*
105589217 -ATATAACTATTATTAT
1 AATATAACTACTATTAT
105589233 AATATA
1 AATATA
105589239 GATTATAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 4 0.21
16 10 0.53
17 5 0.26
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (17 bp):
AATATAACTACTATTAT
Found at i:105589725 original size:32 final size:32
Alignment explanation
Indices: 105589689--105589753 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
105589679 TGTATGCATT
105589689 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
105589721 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
105589753 T
1 T
105589754 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:105591292 original size:26 final size:26
Alignment explanation
Indices: 105591263--105591315 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
105591253 TTTACAGTTT
105591263 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
105591289 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
105591315 T
1 T
105591316 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:105597771 original size:32 final size:32
Alignment explanation
Indices: 105597735--105597799 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
105597725 TGTATGCATT
105597735 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
105597767 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
105597799 T
1 T
105597800 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:105599355 original size:26 final size:26
Alignment explanation
Indices: 105599325--105599377 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
105599315 TTTATAGTTT
105599325 TACCCCTAGGTGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
105599351 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
105599377 T
1 T
105599378 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:105600166 original size:21 final size:21
Alignment explanation
Indices: 105600123--105600166 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
105600113 AATGAACAAT
*
105600123 AAAAAATTTAATAAATATTCA
1 AAAAAATTTAATAAATATGCA
*
105600144 AAAAAATTT-ATACAATGTGCA
1 AAAAAATTTAATA-AATATGCA
105600165 AA
1 AA
105600167 TTTTAAAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.59, C:0.07, G:0.05, T:0.30
Consensus pattern (21 bp):
AAAAAATTTAATAAATATGCA
Found at i:105605419 original size:18 final size:19
Alignment explanation
Indices: 105605392--105605430 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
105605382 TTCGTTTTTG
105605392 TTTCAAATTT-AGTCCATT
1 TTTCAAATTTAAGTCCATT
* *
105605410 TTTCAGATTTAAGTTCATT
1 TTTCAAATTTAAGTCCATT
105605429 TT
1 TT
105605431 CATATTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.26, C:0.13, G:0.08, T:0.54
Consensus pattern (19 bp):
TTTCAAATTTAAGTCCATT
Found at i:105605583 original size:21 final size:20
Alignment explanation
Indices: 105605550--105605610 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 20
105605540 TATGACGTAC
105605550 ATATTTTTAATATTA-TAAT
1 ATATTTTTAATATTATTAAT
105605569 ATATTTATATAATATTATTAAT
1 ATATTT-T-TAATATTATTAAT
* *
105605591 A-AGTTTT-ATATTAATAAT
1 ATATTTTTAATATTATTAAT
105605609 AT
1 AT
105605611 TCATATTAGG
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
18 11 0.31
19 7 0.19
20 2 0.06
21 11 0.31
22 5 0.14
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
ATATTTTTAATATTATTAAT
Found at i:105605754 original size:15 final size:15
Alignment explanation
Indices: 105605723--105605769 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
105605713 GTATATACTT
105605723 TATATG-TATGT-TA
1 TATATGTTATGTATA
105605736 TATATGTTATGTATA
1 TATATGTTATGTATA
105605751 TATATGGTTA-GTAT-
1 TATAT-GTTATGTATA
105605765 TATAT
1 TATAT
105605770 TTCTATATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
13 6 0.19
14 10 0.32
15 11 0.35
16 4 0.13
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (15 bp):
TATATGTTATGTATA
Found at i:105606030 original size:29 final size:28
Alignment explanation
Indices: 105605996--105606086 Score: 75
Period size: 28 Copynumber: 3.3 Consensus size: 28
105605986 ATATAAGCTA
105605996 TGTATATA-CCTTTAATACCATATTATT
1 TGTATATATCCTTTAATACCATATTATT
* * *
105606023 TGTATATATTCTTAAATACCAT-TACATT
1 TGTATATATCCTTTAATACCATAT-TATT
* *
105606051 TATATA-ATTCCTTTTAATACCACATTA--
1 TGTATATA-TCC-TTTAATACCATATTATT
105606078 TGTATATAT
1 TGTATATAT
105606087 TATGCTTTTT
Statistics
Matches: 49, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
27 16 0.33
28 22 0.45
29 10 0.20
30 1 0.02
ACGTcount: A:0.35, C:0.14, G:0.03, T:0.47
Consensus pattern (28 bp):
TGTATATATCCTTTAATACCATATTATT
Found at i:105607705 original size:18 final size:20
Alignment explanation
Indices: 105607682--105607721 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
105607672 AATATACTAC
*
105607682 TATAATTAAA-ATATAG-AT
1 TATAATAAAAGATATAGTAT
105607700 TATAATAAAAGATATAGTAT
1 TATAATAAAAGATATAGTAT
105607720 TA
1 TA
105607722 CATGATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 6 0.32
20 4 0.21
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (20 bp):
TATAATAAAAGATATAGTAT
Found at i:105607767 original size:234 final size:225
Alignment explanation
Indices: 105607457--105607879 Score: 539
Period size: 229 Copynumber: 1.8 Consensus size: 225
105607447 CTATTATTCT
* *
105607457 AATATATATTATAATAAAAAAAATATAATATTACATGATATTATAATGTTTAATCATTGATGTAT
1 AATATAGATTATAAT-AAAAAAATATAATATTACATGATATTATAACGTTTAATCATTGATGTAT
* * *
105607522 ATAAATAAACTATTAACATATTATATGATATGATATAGCATTATATAATACAGTAAGAGGGCTAA
65 ATAAATAAACTATT---A-A-TATATGATATGATATAACATTATATAATACAGTAAGAGAGAT-A
* * * *
105607587 ATTTT-AAATGT-ATGAAAAGTATAAGGGCTCAGATCATATTTCAACTAGTATAGTAATAAATAA
124 ATTTTCAAATATAAT-AAAAGTATAAGGACTCAGAGCATATTTCAACCAG--TA-TAATAAATAA
105607650 TAATATATAATAAGTAATATACAATATACTACTATAATTAA
185 TAATATATAATAAGTAATATACAATATACTACTATAATTAA
* *
105607691 AATATAGATTATAAT-AAAAGATATAGTATTACATGATATTATAACGTTTAATCATAT-ATGTGT
1 AATATAGATTATAATAAAAAAATATAATATTACATGATATTATAACGTTTAATCAT-TGA--TGT
* * *
105607754 ATATATATAAACTATTAATATATGATATGATATAACATTATATAATATAGTAGGAGAGATAATTT
63 ATATAAATAAACTATTAATATATGATATGATATAACATTATATAATACAGTAAGAGAGATAATTT
* * *
105607819 TCAAATATAATAAAAGTATAAGTACTTAGAGCATATTTTAACCAGTATAATAAATAATAAT
128 TCAAATATAATAAAAGTATAAGGACTCAGAGCATATTTCAACCAGTATAATAAATAATAAT
105607880 TGTCGAAACC
Statistics
Matches: 167, Mismatches: 17, Indels: 18
0.83 0.08 0.09
Matches are distributed among these distances:
226 14 0.08
227 2 0.01
228 6 0.04
229 70 0.42
230 3 0.02
231 1 0.01
232 38 0.23
233 1 0.01
234 32 0.19
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.36
Consensus pattern (225 bp):
AATATAGATTATAATAAAAAAATATAATATTACATGATATTATAACGTTTAATCATTGATGTATA
TAAATAAACTATTAATATATGATATGATATAACATTATATAATACAGTAAGAGAGATAATTTTCA
AATATAATAAAAGTATAAGGACTCAGAGCATATTTCAACCAGTATAATAAATAATAATATATAAT
AAGTAATATACAATATACTACTATAATTAA
Found at i:105609738 original size:30 final size:30
Alignment explanation
Indices: 105609698--105609799 Score: 143
Period size: 30 Copynumber: 3.4 Consensus size: 30
105609688 ATTTAAATAA
*
105609698 AAATTGCATTTTGACCCCTAAACTTTTC-TT
1 AAATTTCATTTTGACCCCTAAAC-TTTCATT
* *
105609728 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTCATT
* *
105609758 AAATTTCACTTAGACCCCTAAACTTTCATT
1 AAATTTCATTTTGACCCCTAAACTTTCATT
105609788 AAATTTCATTTT
1 AAATTTCATTTT
105609800 AATCCTAAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
29 4 0.06
30 59 0.94
ACGTcount: A:0.29, C:0.22, G:0.04, T:0.45
Consensus pattern (30 bp):
AAATTTCATTTTGACCCCTAAACTTTCATT
Found at i:105610194 original size:3 final size:3
Alignment explanation
Indices: 105610186--105610227 Score: 50
Period size: 3 Copynumber: 13.7 Consensus size: 3
105610176 GACTTTGAAA
*
105610186 AAG AAG AAGG AAG AAG AAGG AAG AAG AA- AAG AGG AAG AAG AA
1 AAG AAG AA-G AAG AAG AA-G AAG AAG AAG AAG AAG AAG AAG AA
105610228 AGAAAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 2 0.06
3 26 0.76
4 6 0.18
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:105610201 original size:10 final size:10
Alignment explanation
Indices: 105610186--105610213 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
105610176 GACTTTGAAA
105610186 AAGAAGAAGG
1 AAGAAGAAGG
105610196 AAGAAGAAGG
1 AAGAAGAAGG
105610206 AAGAAGAA
1 AAGAAGAA
105610214 AAGAGGAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (10 bp):
AAGAAGAAGG
Found at i:105610221 original size:24 final size:22
Alignment explanation
Indices: 105610182--105610239 Score: 71
Period size: 24 Copynumber: 2.5 Consensus size: 22
105610172 GCTAGACTTT
* *
105610182 GAAAAAGAAGAAGGAAGAAGAAG
1 GAAAAAAAAG-AGGAAGAAGAAA
105610205 GAAGAAGAAAAGAGGAAGAAGAAA
1 GAA-AA-AAAAGAGGAAGAAGAAA
105610229 GAAAAAAAAGA
1 GAAAAAAAAGA
105610240 AAAATCCTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 6 0.19
23 5 0.16
24 16 0.52
25 4 0.13
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (22 bp):
GAAAAAAAAGAGGAAGAAGAAA
Found at i:105610360 original size:16 final size:15
Alignment explanation
Indices: 105610339--105610379 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
105610329 CCAGCAGCCC
105610339 AACAAAAAACAACAAA
1 AACAAAAAACAA-AAA
105610355 AAC-AAAAACAAAAA
1 AACAAAAAACAAAAA
*
105610369 AA-AAGAAACAA
1 AACAAAAAACAA
105610380 GCCCAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 12 0.52
15 8 0.35
16 3 0.13
ACGTcount: A:0.83, C:0.15, G:0.02, T:0.00
Consensus pattern (15 bp):
AACAAAAAACAAAAA
Found at i:105610551 original size:11 final size:11
Alignment explanation
Indices: 105610529--105610595 Score: 54
Period size: 12 Copynumber: 6.3 Consensus size: 11
105610519 GGCCCAGCAG
105610529 AGAAAA-AAAA
1 AGAAAAGAAAA
105610539 AGAAAAGAAAA
1 AGAAAAGAAAA
105610550 AG--AAGAAAA
1 AGAAAAGAAAA
*
105610559 AGAGAAGGAAAA
1 AGA-AAAGAAAA
*
105610571 A-AGAAGGAAAAA
1 AGA-AAAG-AAAA
105610583 AGAAAA-AAAA
1 AGAAAAGAAAA
105610593 AGA
1 AGA
105610596 GGTTCAATTC
Statistics
Matches: 49, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
9 9 0.18
10 13 0.27
11 12 0.24
12 14 0.29
13 1 0.02
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (11 bp):
AGAAAAGAAAA
Found at i:105610564 original size:22 final size:21
Alignment explanation
Indices: 105610529--105610595 Score: 75
Period size: 21 Copynumber: 3.1 Consensus size: 21
105610519 GGCCCAGCAG
*
105610529 AGAAAAAAAAAGAAAAGAAAA
1 AGAAGAAAAAAGAAAAGAAAA
*
105610550 AGAAG-AAAAAGAGAAGGAAAAA
1 AGAAGAAAAAAGA-AAAG-AAAA
105610572 AGAAGGAAAAAAGAAAA-AAAA
1 AGAA-GAAAAAAGAAAAGAAAA
105610593 AGA
1 AGA
105610596 GGTTCAATTC
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
20 7 0.18
21 14 0.36
22 8 0.21
23 3 0.08
24 7 0.18
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (21 bp):
AGAAGAAAAAAGAAAAGAAAA
Found at i:105610763 original size:22 final size:21
Alignment explanation
Indices: 105610735--105610782 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
105610725 TTATATTTAT
105610735 ATTTTTAATTTAATTTAATTTG
1 ATTTTT-ATTTAATTTAATTTG
* * *
105610757 ATTTTTATTTTATTTTATTTT
1 ATTTTTATTTAATTTAATTTG
105610778 ATTTT
1 ATTTT
105610783 AAATAATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (21 bp):
ATTTTTATTTAATTTAATTTG
Found at i:105610767 original size:5 final size:5
Alignment explanation
Indices: 105610722--105610783 Score: 52
Period size: 5 Copynumber: 11.4 Consensus size: 5
105610712 ATTTTATGCA
* * *
105610722 TATTT ATATTT ATATTTT TAATTT AATTT AATTT GATTTT TATTT TATTT
1 TATTT -TATTT -TA-TTT T-ATTT TATTT TATTT TA-TTT TATTT TATTT
105610772 TATTT TATTT TA
1 TATTT TATTT TA
105610784 AATAATTTTA
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
5 30 0.60
6 16 0.32
7 4 0.08
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (5 bp):
TATTT
Found at i:105610979 original size:18 final size:18
Alignment explanation
Indices: 105610958--105611459 Score: 248
Period size: 17 Copynumber: 28.5 Consensus size: 18
105610948 AATTCTCATA
*
105610958 TTTCAAAAATCTTCGTGT
1 TTTCAAAAATTTTCGTGT
* *
105610976 TTTC-AAAATTCTAGTG-
1 TTTCAAAAATTTTCGTGT
*
105610992 TTTCAAAAATTTTCTTGT
1 TTTCAAAAATTTTCGTGT
105611010 TTTCAGAAAAAATTTTCGTGT
1 TTTC---AAAAATTTTCGTGT
* * *
105611031 TTT-ATAAATTTCCGTAT
1 TTTCAAAAATTTTCGTGT
** * *
105611048 TTTCAAAAA-AATCATGCC
1 TTTCAAAAATTTTCGTG-T
105611066 TTTCAAAAATTTTCGTGT
1 TTTCAAAAATTTTCGTGT
***
105611084 TTTCAAAAAAAATGACCGTG-
1 TTTC---AAAAATTTTCGTGT
*
105611104 TTTCAAAAATTTCCGTGT
1 TTTCAAAAATTTTCGTGT
*** * *
105611122 TAAAAAAAATCTTCGTAT
1 TTTCAAAAATTTTCGTGT
105611140 TTTCAAAAAATTTTCGTG-
1 TTTC-AAAAATTTTCGTGT
*
105611158 TTTCAAAAATCTTCGTGT
1 TTTCAAAAATTTTCGTGT
105611176 TTTCAAAAA-TTTCG-GT
1 TTTCAAAAATTTTCGTGT
*
105611192 GTTTCAAAGATTTTCGTGT
1 -TTTCAAAAATTTTCGTGT
* *
105611211 TTTCAAAAA-CTCCGGTGAT
1 TTTCAAAAATTTTC-GTG-T
* ***
105611230 TTTAAGAAAAAAATCGT-T
1 TTTCA-AAAATTTTCGTGT
* *
105611248 TTCTAAAAAATTTCCGTG-
1 TT-TCAAAAATTTTCGTGT
105611266 TTTCAAAAATTTTCGTGT
1 TTTCAAAAATTTTCGTGT
105611284 TTT-AAAAATTTTTCGTGT
1 TTTCAAAAA-TTTTCGTGT
* * *
105611302 TTTTAAAAATTCTCGTAT
1 TTTCAAAAATTTTCGTGT
105611320 TTT---AAATTTT--T-T
1 TTTCAAAAATTTTCGTGT
** **
105611332 TTAAGAAAAAAATT-GTG-
1 TT-TCAAAAATTTTCGTGT
* * *
105611349 TTTCAAAAAAATGTCTTGT
1 TTTC-AAAAATTTTCGTGT
*
105611368 TTT-AAAAATTCTCGTG-
1 TTTCAAAAATTTTCGTGT
* *
105611384 TTTCAAAAAATGTCGTGT
1 TTTCAAAAATTTTCGTGT
105611402 TTT-AAAAATTTTCGTG-
1 TTTCAAAAATTTTCGTGT
** *
105611418 TTTCTGAAATTTCCGTG-
1 TTTCAAAAATTTTCGTGT
*
105611435 TTT-AAAAATTCTCGTGT
1 TTTCAAAAATTTTCGTGT
105611452 TTT-AAAAA
1 TTTCAAAAA
105611460 AAAACTTTCA
Statistics
Matches: 367, Mismatches: 78, Indels: 79
0.70 0.15 0.15
Matches are distributed among these distances:
12 3 0.01
13 1 0.00
15 6 0.02
16 26 0.07
17 152 0.41
18 109 0.30
19 33 0.09
20 10 0.03
21 27 0.07
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.43
Consensus pattern (18 bp):
TTTCAAAAATTTTCGTGT
Found at i:105610996 original size:34 final size:34
Alignment explanation
Indices: 105610922--105611014 Score: 107
Period size: 34 Copynumber: 2.7 Consensus size: 34
105610912 AAAAATTGTA
* * *
105610922 ATTTCAATAATCCTCGTGCTTTTAAAAATTCTCAT
1 ATTTCAAAAATCTTCGTG-TTTTCAAAATTCTCAT
105610957 ATTTCAAAAATCTTCGTGTTTTCAAAATTCT-AGT
1 ATTTCAAAAATCTTCGTGTTTTCAAAATTCTCA-T
* * *
105610991 GTTTCAAAAATTTTCTTGTTTTCA
1 ATTTCAAAAATCTTCGTGTTTTCA
105611015 GAAAAAATTT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
33 1 0.02
34 34 0.67
35 16 0.31
ACGTcount: A:0.30, C:0.16, G:0.08, T:0.46
Consensus pattern (34 bp):
ATTTCAAAAATCTTCGTGTTTTCAAAATTCTCAT
Found at i:105611031 original size:38 final size:37
Alignment explanation
Indices: 105610958--105611310 Score: 197
Period size: 38 Copynumber: 9.7 Consensus size: 37
105610948 AATTCTCATA
* * *
105610958 TTTCAAAAATCTTCGTGTTTTC--AAAATTC-TAGTG
1 TTTCAAAAATTTTCGTGTTTTCAAAAAAATCTTCGTG
* *
105610992 TTTCAAAAATTTTCTTGTTTTCAGAAAAAATTTTCGTG
1 TTTCAAAAATTTTCGTGTTTTCA-AAAAAATCTTCGTG
* * * * * **
105611030 TTTTATAAATTTCCGTATTTTCAAAAAAATCAT-GCC
1 TTTCAAAAATTTTCGTGTTTTCAAAAAAATCTTCGTG
***
105611066 TTTCAAAAATTTTCGTGTTTTCAAAAAAAATGACCGTG
1 TTTCAAAAATTTTCGTGTTTTC-AAAAAAATCTTCGTG
* * *
105611104 TTTCAAAAATTTCCGTG--TTAAAAAAAATCTTCGTAT
1 TTTCAAAAATTTTCGTGTTTTCAAAAAAATCTTCGT-G
105611140 TTTCAAAAAATTTTCGTG-TTTC--AAAAATCTTCGTG
1 TTTC-AAAAATTTTCGTGTTTTCAAAAAAATCTTCGTG
* *
105611175 TTTTCAAAAA-TTTCG-GTGTTTC--AAAGATTTTCGTG
1 -TTTCAAAAATTTTCGTGT-TTTCAAAAAAATCTTCGTG
* * **
105611210 TTTTCAAAAA-CTCCGGTGATTTT-AAGAAAAA-AATCGT-
1 -TTTCAAAAATTTTC-GTG-TTTTCAA-AAAAATCTTCGTG
* *
105611247 TTTCTAAAAAATTTCCGTG-TTTC--AAAAATTTTCGTG
1 TTTC--AAAAATTTTCGTGTTTTCAAAAAAATCTTCGTG
* *
105611283 TTTTAAAAATTTTTCGTGTTTTTAAAAA
1 TTTCAAAAA-TTTTCGTGTTTTCAAAAA
105611311 TTCTCGTATT
Statistics
Matches: 247, Mismatches: 44, Indels: 52
0.72 0.13 0.15
Matches are distributed among these distances:
33 1 0.00
34 35 0.14
35 54 0.22
36 55 0.22
37 38 0.15
38 57 0.23
39 7 0.03
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (37 bp):
TTTCAAAAATTTTCGTGTTTTCAAAAAAATCTTCGTG
Found at i:105611093 original size:37 final size:38
Alignment explanation
Indices: 105610958--105611199 Score: 172
Period size: 36 Copynumber: 6.7 Consensus size: 38
105610948 AATTCTCATA
* * *
105610958 TTTCAAAAATCTTCGTGTTTTC---AAAATTC-TAGTG
1 TTTCAAAAATTTTCGTGTTTTCAAAAAAAATCATCGTG
* * **
105610992 TTTCAAAAATTTTCTTGTTTTCAGAAAAAATTTTCGTG
1 TTTCAAAAATTTTCGTGTTTTCAAAAAAAATCATCGTG
* * * * **
105611030 TTTTATAAATTTCCGTATTTTC-AAAAAAATCAT-GCC
1 TTTCAAAAATTTTCGTGTTTTCAAAAAAAATCATCGTG
* *
105611066 TTTCAAAAATTTTCGTGTTTTCAAAAAAAATGACCGTG
1 TTTCAAAAATTTTCGTGTTTTCAAAAAAAATCATCGTG
* * *
105611104 TTTCAAAAATTTCCGTG--TT-AAAAAAAATCTTCGTAT
1 TTTCAAAAATTTTCGTGTTTTCAAAAAAAATCATCGT-G
*
105611140 TTTCAAAAAATTTTCGTG-TTTC---AAAAATCTTCGTG
1 TTTC-AAAAATTTTCGTGTTTTCAAAAAAAATCATCGTG
105611175 TTTTCAAAAA-TTTCG-GTGTTTCAAA
1 -TTTCAAAAATTTTCGTGT-TTTCAAA
105611200 GATTTTCGTG
Statistics
Matches: 162, Mismatches: 30, Indels: 28
0.74 0.14 0.13
Matches are distributed among these distances:
33 1 0.01
34 25 0.15
35 21 0.13
36 41 0.25
37 34 0.21
38 40 0.25
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (38 bp):
TTTCAAAAATTTTCGTGTTTTCAAAAAAAATCATCGTG
Found at i:105611144 original size:74 final size:73
Alignment explanation
Indices: 105610992--105611166 Score: 192
Period size: 74 Copynumber: 2.4 Consensus size: 73
105610982 AATTCTAGTG
* * *** * * * *
105610992 TTTCAAAAATTTTCTTGTTTTCAGAAAAAATTTTCGTGTTTTATAAATTTCCGTATTTTCAAAAA
1 TTTCAAAAATTTTCGTGTTTTCAAAAAAAATGACCGTGTTTCAAAAATTTCCG-ATGTTAAAAAA
*
105611057 AATCATGCC
65 AATCATGAC
105611066 TTTCAAAAATTTTCGTGTTTTCAAAAAAAATGACCGTGTTTCAAAAATTTCCG-TGTTAAAAAAA
1 TTTCAAAAATTTTCGTGTTTTCAAAAAAAATGACCGTGTTTCAAAAATTTCCGATGTTAAAAAAA
* *
105611130 ATCTTCGTAT
66 ATCAT-G-AC
105611140 TTTCAAAAAATTTTCGTG-TTTCAAAAA
1 TTTC-AAAAATTTTCGTGTTTTCAAAAA
105611167 TCTTCGTGTT
Statistics
Matches: 86, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
72 13 0.15
73 1 0.01
74 59 0.69
75 13 0.15
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.41
Consensus pattern (73 bp):
TTTCAAAAATTTTCGTGTTTTCAAAAAAAATGACCGTGTTTCAAAAATTTCCGATGTTAAAAAAA
ATCATGAC
Found at i:105611148 original size:54 final size:55
Alignment explanation
Indices: 105611070--105611176 Score: 137
Period size: 54 Copynumber: 1.9 Consensus size: 55
105611060 CATGCCTTTC
* *
105611070 AAAAATTTTCGTGTTTTCAAAAAAAATGACCGTGTTTCAAAAAT-TTCCGTGTTAAA
1 AAAAATCTTCGTATTTTC-AAAAAAATGACCGTGTTTCAAAAATCTT-CGTGTTAAA
***
105611126 AAAAATCTTCGTATTTTC-AAAAAATTTTCGTGTTTCAAAAATCTTCGTGTT
1 AAAAATCTTCGTATTTTCAAAAAAATGACCGTGTTTCAAAAATCTTCGTGTT
105611177 TTCAAAAATT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
54 27 0.60
55 2 0.04
56 16 0.36
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.39
Consensus pattern (55 bp):
AAAAATCTTCGTATTTTCAAAAAAATGACCGTGTTTCAAAAATCTTCGTGTTAAA
Found at i:105611194 original size:35 final size:35
Alignment explanation
Indices: 105610958--105611303 Score: 179
Period size: 35 Copynumber: 9.6 Consensus size: 35
105610948 AATTCTCATA
* *
105610958 TTTCAAAAATCTT-CGTGTTTTCAAAATTC-TAGTG-
1 TTTCAAAAAT-TTCCGTG-TTTCAAAAATCTTCGTGT
* * *
105610992 TTTCAAAAATTTTCTTGTTTTCAGAAAAAATTTTCGTGT
1 TTTCAAAAATTTCCGTG-TTTC---AAAAATCTTCGTGT
* * ** * *
105611031 TTT-ATAAATTTCCGTATTTTCAAAAA-AATCATGCC
1 TTTCAAAAATTTCCGT-GTTTCAAAAATCTTCGTG-T
* ***
105611066 TTTCAAAAATTTTCGTGTTTTCAAAAAAAATGACCGTG-
1 TTTCAAAAATTTCCGTG-TTTC---AAAAATCTTCGTGT
** *
105611104 TTTCAAAAATTTCCGTGTTAAAAAAAATCTTCGTAT
1 TTTCAAAAATTTCCGTGTT-TCAAAAATCTTCGTGT
*
105611140 TTTCAAAAAATTTTCGTGTTTCAAAAATCTTCGTGT
1 TTTC-AAAAATTTCCGTGTTTCAAAAATCTTCGTGT
* * *
105611176 TTTCAAAAATTTCGGTGTTTCAAAGATTTTCGTGT
1 TTTCAAAAATTTCCGTGTTTCAAAAATCTTCGTGT
* * ***
105611211 TTTCAAAAA-CTCCGGTGATTTTAAGAAAAAAATCGT-T
1 TTTCAAAAATTTCC-GTG--TTTCA-AAAATCTTCGTGT
* *
105611248 TTCTAAAAAATTTCCGTGTTTCAAAAATTTTCGTGT
1 TT-TCAAAAATTTCCGTGTTTCAAAAATCTTCGTGT
*
105611284 TTT-AAAAATTTTTCGTGTTT
1 TTTCAAAAA-TTTCCGTGTTT
105611304 TTAAAAATTC
Statistics
Matches: 240, Mismatches: 47, Indels: 49
0.71 0.14 0.15
Matches are distributed among these distances:
33 2 0.01
34 29 0.12
35 75 0.31
36 42 0.17
37 28 0.12
38 49 0.20
39 11 0.05
40 4 0.02
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (35 bp):
TTTCAAAAATTTCCGTGTTTCAAAAATCTTCGTGT
Found at i:105611323 original size:36 final size:34
Alignment explanation
Indices: 105611108--105611460 Score: 137
Period size: 35 Copynumber: 10.1 Consensus size: 34
105611098 ACCGTGTTTC
** *
105611108 AAAAATTTCCGTGTTAAAAAAAATCTTCGTATTTTCA
1 AAAAATTTCCGTGTTTCAAAAATTC-TCGT-TTTT-A
* *
105611145 AAAAATTTTCGTGTTTCAAAAA-TCTTCGTGTTTTC
1 AAAAATTTCCGTGTTTCAAAAATTC-TCGT-TTTTA
* * * *
105611180 AAAAATTTCGGTGTTTCAAAGATTTTCGTGTTTTC
1 AAAAATTTCCGTGTTTCAAAAATTCTCGT-TTTTA
* * ***
105611215 AAAAA-CTCCGGTGATTTTAAGAAAAAAATCGTTTTCTA
1 AAAAATTTCC-GTG--TTTCA-AAAATTCTCGTTTT-TA
*
105611253 AAAAATTTCCGTGTTTCAAAAATTTTCGTGTTTTA
1 AAAAATTTCCGTGTTTCAAAAATTCTCGT-TTTTA
* * *
105611288 AAAATTTTTCGTGTTTTTAAAAATTCTCGTATTTT-
1 AAAAATTTCCGTG-TTTCAAAAATTCTCGT-TTTTA
* *** ***** * **
105611323 -AAATTTTTTTTAAGAAAAAAATTGT-GTTTCAA
1 AAAAATTTCCGTGTTTCAAAAATTCTCGTTTTTA
* * * *
105611355 AAAAATGT-CTTGTTTTAAAAATTCTCGTGTTTCA
1 AAAAATTTCCGTGTTTCAAAAATTCTCGT-TTTTA
* * * * *
105611389 AAAAATGT-CGTGTTTTAAAAATTTTCGTGTTTC
1 AAAAATTTCCGTGTTTCAAAAATTCTCGTTTTTA
**
105611422 TGAAATTTCCGTGTTT-AAAAATTCTCGTGTTTTA
1 AAAAATTTCCGTGTTTCAAAAATTCTCGT-TTTTA
105611456 AAAAA
1 AAAAA
105611461 AAACTTTCAT
Statistics
Matches: 240, Mismatches: 61, Indels: 33
0.72 0.18 0.10
Matches are distributed among these distances:
31 2 0.01
32 12 0.05
33 33 0.14
34 53 0.22
35 58 0.24
36 37 0.15
37 26 0.11
38 16 0.07
39 3 0.01
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.43
Consensus pattern (34 bp):
AAAAATTTCCGTGTTTCAAAAATTCTCGTTTTTA
Found at i:105611499 original size:20 final size:20
Alignment explanation
Indices: 105611438--105611491 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
105611428 TTCCGTGTTT
105611438 AAAAATTCTCGTGTTTTAAAA
1 AAAAATT-TCGTGTTTTAAAA
* *
105611459 AAAAACTTTCATTTTTTAAAA
1 AAAAA-TTTCGTGTTTTAAAA
105611480 AAAAATTTCGTG
1 AAAAATTTCGTG
105611492 CTTCAAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 5 0.18
21 21 0.75
22 2 0.07
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.39
Consensus pattern (20 bp):
AAAAATTTCGTGTTTTAAAA
Found at i:105620137 original size:191 final size:192
Alignment explanation
Indices: 105619623--105620236 Score: 1133
Period size: 192 Copynumber: 3.2 Consensus size: 192
105619613 CTTTCCAAGG
105619623 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
105619688 TTAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
66 TT-AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
105619753 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
130 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
*
105619816 AAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
105619881 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
66 TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
105619946 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAA-TTTTGTTTTTC
131 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
105620007 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
*
105620072 TTAACAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTA-TTTTA
66 TTAA-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
*
105620136 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTTA
130 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTG-TTTTTC
* **
105620200 AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
105620237 GGCTCACATG
Statistics
Matches: 411, Mismatches: 7, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
191 135 0.33
192 171 0.42
193 105 0.26
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.35
Consensus pattern (192 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
TTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:105620276 original size:16 final size:17
Alignment explanation
Indices: 105620255--105620288 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
105620245 TGCTGAGGTA
*
105620255 TTTTCAATTTATG-TTT
1 TTTTCAATCTATGCTTT
105620271 TTTTCAATCTATGCTTT
1 TTTTCAATCTATGCTTT
105620288 T
1 T
105620289 CAAAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.65
Consensus pattern (17 bp):
TTTTCAATCTATGCTTT
Found at i:105620399 original size:85 final size:87
Alignment explanation
Indices: 105620195--105620443 Score: 292
Period size: 91 Copynumber: 2.8 Consensus size: 87
105620185 AATTTTTGTT
*
105620195 TTTTAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTATTTT
1 TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGC-CAC--GCTGAGGTATTTT
* * **
105620259 CAATTTATGTTTTTTTCAATCTATGC
63 CAATTTCTGCTTTACTCAATCTA-GC
* *
105620285 TTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGG-CACGCTGAGGTATTTTC
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-AGGCCACGCTGAGGTATTTTC
105620349 AATTTCTGCTTTACT-AATTCTA-C
64 AATTTCTGCTTTACTCAA-TCTAGC
* *
105620372 TTTTC-AAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGCCACACGCTGAGGTCTTTTC
1 TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGG-C-CACGCTGAGGTATTTTC
*
105620436 AAATTCTG
64 AATTTCTG
105620444 TTTTTAATTT
Statistics
Matches: 140, Mismatches: 12, Indels: 17
0.83 0.07 0.10
Matches are distributed among these distances:
84 3 0.02
85 33 0.24
87 29 0.21
88 2 0.01
89 29 0.21
90 4 0.03
91 38 0.27
93 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (87 bp):
TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACGCTGAGGTATTTTCAA
TTTCTGCTTTACTCAATCTAGC
Found at i:105620452 original size:85 final size:88
Alignment explanation
Indices: 105620195--105620452 Score: 307
Period size: 85 Copynumber: 2.9 Consensus size: 88
105620185 AATTTTTGTT
* *
105620195 TTTTAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTATTTT
1 TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGC-CACACGCTGAGGTATTTT
*
105620259 CAATTTATGTTTTTTTCAA-TCTATGC
65 CAATTTCTG-TTTTTT-AATTCTA-GC
* *
105620285 TTTTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGG---CACGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-AGGCCACACGCTGAGGTATTT
**
105620347 TCAATTTCTGCTTTACTAATTCTA-C
64 TCAATTTCTG-TTTTTTAATTCTAGC
* *
105620372 TTTTC-AAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGCCACACGCTGAGGTCTTTTC
1 TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACACGCTGAGGTATTTTC
*
105620436 AAATTCTG-TTTTTAATT
66 AATTTCTGTTTTTTAATT
105620453 TCTGTTTTTT
Statistics
Matches: 146, Mismatches: 15, Indels: 19
0.81 0.08 0.11
Matches are distributed among these distances:
84 3 0.02
85 40 0.27
87 29 0.20
88 2 0.01
89 31 0.21
90 4 0.03
91 35 0.24
93 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (88 bp):
TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACACGCTGAGGTATTTTC
AATTTCTGTTTTTTAATTCTAGC
Found at i:105620635 original size:54 final size:55
Alignment explanation
Indices: 105620551--105620768 Score: 306
Period size: 54 Copynumber: 4.1 Consensus size: 55
105620541 TCAATTTCTA
*
105620551 CTTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
*
105620606 CTTTT-AATTTCTATTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
*
105620660 C--TT---TTTCTATTTTTCAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGC
1 CTTTTCAATTTCTATTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* * * *
105620711 CTTTTGCAAATTCT-GTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTAAGC
1 CTTTT-CAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
105620766 CTT
1 CTT
105620769 GGCTCACGTG
Statistics
Matches: 147, Mismatches: 9, Indels: 14
0.86 0.05 0.08
Matches are distributed among these distances:
50 12 0.08
51 34 0.23
52 2 0.01
53 2 0.01
54 48 0.33
55 40 0.27
56 5 0.03
57 4 0.03
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.37
Consensus pattern (55 bp):
CTTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
Found at i:105620767 original size:106 final size:104
Alignment explanation
Indices: 105620559--105620768 Score: 323
Period size: 106 Copynumber: 2.0 Consensus size: 104
105620549 TACTTTTCAA
* * * *
105620559 TTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTATTTTT
1 TTTCTATTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTTTTAAATTCTAGTTTT
* *
105620624 CAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
66 CAAAAACCAACTCATATTGCGAGAAGTGAGTTAAGCCTT
105620663 TTTCTATTTTTCAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTTTTGCAAATTCT-GT
1 TTTCTATTTTTC-AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTTTT--AAATTCTAGT
*
105620727 TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTT
63 TTTCAAAAACCAACTCATATTGCGAGAAGTGAGTTAAGCCTT
105620769 GGCTCACGTG
Statistics
Matches: 96, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
104 11 0.11
105 39 0.41
106 40 0.42
107 6 0.06
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (104 bp):
TTTCTATTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTTTTAAATTCTAGTTTT
CAAAAACCAACTCATATTGCGAGAAGTGAGTTAAGCCTT
Found at i:105621073 original size:30 final size:31
Alignment explanation
Indices: 105621039--105621140 Score: 122
Period size: 30 Copynumber: 3.4 Consensus size: 31
105621029 TTAAAAATAA
*
105621039 AAATTACATTTTGACCCCTAAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
105621069 AAATTTCATTTTGACCCTTAAAC-TTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
105621099 AAATTTCACTTAGACCCCTAAAC-TTTCAT-T
1 AAATTTCATTTTGACCCCTAAACTTTTC-TCT
105621129 AAATTTCATTTT
1 AAATTTCATTTT
105621141 AATCCTAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
29 4 0.06
30 57 0.92
31 1 0.02
ACGTcount: A:0.30, C:0.23, G:0.03, T:0.44
Consensus pattern (31 bp):
AAATTTCATTTTGACCCCTAAACTTTTCTCT
Found at i:105621565 original size:18 final size:18
Alignment explanation
Indices: 105621539--105621576 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
105621529 AAGAATAAGG
105621539 AAGAAGAAGGAAG-AAGAA
1 AAGAAGAA-GAAGAAAGAA
*
105621557 AAGAGGAAGAAGAAAGAA
1 AAGAAGAAGAAGAAAGAA
105621575 AA
1 AA
105621577 AAAAAAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (18 bp):
AAGAAGAAGAAGAAAGAA
Found at i:105621568 original size:24 final size:24
Alignment explanation
Indices: 105621525--105621584 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
105621515 GCTAGACTTT
* *
105621525 GAAGAAGAATA-AGGAAGAAGAAG
1 GAAGAAGAAAAGAGGAAGAAGAAA
105621548 GAAGAAGAAAAGAGGAAGAAGAAA
1 GAAGAAGAAAAGAGGAAGAAGAAA
* *
105621572 GAAAAAAAAAAGA
1 GAAGAAGAAAAGA
105621585 AAAATCCTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 10 0.31
24 22 0.69
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.02
Consensus pattern (24 bp):
GAAGAAGAAAAGAGGAAGAAGAAA
Found at i:105621573 original size:13 final size:12
Alignment explanation
Indices: 105621525--105621571 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 12
105621515 GCTAGACTTT
105621525 GAAGAAGAATAAG
1 GAAGAAGAA-AAG
105621538 GAAGAAG--AAG
1 GAAGAAGAAAAG
105621548 GAAGAAGAAAAGAG
1 GAAGAAG-AAA-AG
105621562 GAAGAAGAAA
1 GAAGAAGAAA
105621572 GAAAAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
10 10 0.33
13 11 0.37
14 9 0.30
ACGTcount: A:0.64, C:0.00, G:0.34, T:0.02
Consensus pattern (12 bp):
GAAGAAGAAAAG
Done.