Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr2
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: 43198478
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2088848 characters in sequence are not A, C, G, or T
File 114 of 131
Found at i:37866195 original size:192 final size:191
Alignment explanation
Indices: 37865838--37866217 Score: 679
Period size: 192 Copynumber: 2.0 Consensus size: 191
37865828 TGAATTCAAA
* *
37865838 TTCTGGGTTTTAAATAAGTGTTTCTAACTTTAGTTTTGCTAAACATCTATGAGAGTTTTGCCAAT
1 TTCTAGGTTTTAAATAAGTGTTTCTAACTTTAGTTTTGCTAAACATCTATAAGAGTTTTGCCAAT
* *
37865903 TTTTTATTCTTTCAAAACATGCACTGGGTTTGATTAAAATAAAAACTTCTGAACAAGTTGATGTA
66 TTTTTATTCTTTCAAAACATGCACTGAGTTTGATTAAAACAAAAACTTCTGAACAAGTTGATGTA
*
37865968 ATTCCTCAATATCTAGTTATAACTTCTGTGCTAGGTTTGGGGGTGTTACACCACTTATAAC
131 ATTCCTCAATATCTAGTTATAACTTCTGGGCTAGGTTTGGGGGTGTTACACCACTTATAAC
* *
37866029 TTCTAGGTTTTAAATAAGTGTTTTCTGACTTTAGTTTTGCTAAACATCTATAAGAGTTTTTCCAA
1 TTCTAGGTTTTAAATAAGTG-TTTCTAACTTTAGTTTTGCTAAACATCTATAAGAGTTTTGCCAA
*
37866094 TTTTTTATTCTTTCAAAACATGCACTGAGTTTGATTAAAACAAAAGCTTCTGAACAAGTTGATGT
65 TTTTTTATTCTTTCAAAACATGCACTGAGTTTGATTAAAACAAAAACTTCTGAACAAGTTGATGT
37866159 AATTCCTCAATATCTAGTTATAACTTCTGGGCTAGGTTTGGGGGTGTTACACCACTTAT
130 AATTCCTCAATATCTAGTTATAACTTCTGGGCTAGGTTTGGGGGTGTTACACCACTTAT
37866218 TATCAGTTTG
Statistics
Matches: 180, Mismatches: 8, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
191 19 0.11
192 161 0.89
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.41
Consensus pattern (191 bp):
TTCTAGGTTTTAAATAAGTGTTTCTAACTTTAGTTTTGCTAAACATCTATAAGAGTTTTGCCAAT
TTTTTATTCTTTCAAAACATGCACTGAGTTTGATTAAAACAAAAACTTCTGAACAAGTTGATGTA
ATTCCTCAATATCTAGTTATAACTTCTGGGCTAGGTTTGGGGGTGTTACACCACTTATAAC
Found at i:37873294 original size:8 final size:8
Alignment explanation
Indices: 37873283--37873313 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
37873273 TATATTGTTA
37873283 TATTATAT
1 TATTATAT
*
37873291 TATTATAA
1 TATTATAT
37873299 TATTATAT
1 TATTATAT
37873307 TATTATA
1 TATTATA
37873314 ATAAAACAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (8 bp):
TATTATAT
Found at i:37873301 original size:16 final size:16
Alignment explanation
Indices: 37873282--37873316 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
37873272 GTATATTGTT
37873282 ATATTATATTATTATA
1 ATATTATATTATTATA
37873298 ATATTATATTATTATA
1 ATATTATATTATTATA
37873314 ATA
1 ATA
37873317 AAACAAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
ATATTATATTATTATA
Found at i:37874296 original size:41 final size:41
Alignment explanation
Indices: 37874213--37874296 Score: 107
Period size: 41 Copynumber: 2.0 Consensus size: 41
37874203 GCATTTGATG
* * *
37874213 GTATATTGATTGAAAAGTGGAAAATGTATTGGTATTGAATT
1 GTATATTGATTGAAAAGTGGAAAATGAATTCGAATTGAATT
* *
37874254 GTATATTGATT-AGAAAGTGGAAAGTGAATTCGAATTGCATT
1 GTATATTGATTGA-AAAGTGGAAAATGAATTCGAATTGAATT
37874295 GT
1 GT
37874297 GATTGAATCG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 1 0.03
41 36 0.97
ACGTcount: A:0.36, C:0.02, G:0.25, T:0.37
Consensus pattern (41 bp):
GTATATTGATTGAAAAGTGGAAAATGAATTCGAATTGAATT
Found at i:37878909 original size:2 final size:2
Alignment explanation
Indices: 37878902--37878931 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
37878892 AATCCAATTC
37878902 AT 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 AT
37878932 GTGTGTGTGT
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):
AT
Found at i:37882794 original size:22 final size:22
Alignment explanation
Indices: 37882755--37882799 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
37882745 ATTTTTTAAA
*
37882755 ATTTGAAAATTATAAAAAATAT
1 ATTTGAAAATCATAAAAAATAT
* * *
37882777 ATTTTAAAATCATTAAAATTAT
1 ATTTGAAAATCATAAAAAATAT
37882799 A
1 A
37882800 AAAATTAATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (22 bp):
ATTTGAAAATCATAAAAAATAT
Found at i:37882804 original size:30 final size:29
Alignment explanation
Indices: 37882744--37882814 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 29
37882734 ATATTTAATT
37882744 AATT-TTTTAAAATTTGAAAATTATAAAA
1 AATTATTTTAAAATTTGAAAATTATAAAA
37882772 AATATATTTTAAAATCATT-AAAATTAT-AAA
1 AAT-TATTTTAAAAT--TTGAAAATTATAAAA
*
37882802 AATTAATTTAAAA
1 AATTATTTTAAAA
37882815 AATTAATTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
28 3 0.08
29 10 0.26
30 15 0.39
31 8 0.21
32 2 0.05
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (29 bp):
AATTATTTTAAAATTTGAAAATTATAAAA
Found at i:37891067 original size:20 final size:20
Alignment explanation
Indices: 37891042--37891085 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
37891032 TTGATTTTAT
37891042 TTTATTAAT-TTAATACTAAA
1 TTTATT-ATCTTAATACTAAA
*
37891062 TTTATTATCTTAATATTAAA
1 TTTATTATCTTAATACTAAA
37891082 TTTA
1 TTTA
37891086 ATTTAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTATTATCTTAATACTAAA
Found at i:37891132 original size:22 final size:22
Alignment explanation
Indices: 37891072--37891134 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
37891062 TTTATTATCT
* *
37891072 TAATATTAAATTTAATTTAATA
1 TAATATTATATTCAATTTAATA
* * *
37891094 TAGTATTATATTTAATTTAATT
1 TAATATTATATTCAATTTAATA
37891116 TAATATT-TATCTCAATTTA
1 TAATATTATAT-TCAATTTA
37891135 GTTCTTACTC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
21 3 0.09
22 32 0.91
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (22 bp):
TAATATTATATTCAATTTAATA
Found at i:37892681 original size:17 final size:17
Alignment explanation
Indices: 37892661--37892695 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
37892651 CAACAACTAA
37892661 TCTCTCACTTAGACAAG
1 TCTCTCACTTAGACAAG
*
37892678 TCTCTCACTTGGACAAG
1 TCTCTCACTTAGACAAG
37892695 T
1 T
37892696 TAAGTCTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (17 bp):
TCTCTCACTTAGACAAG
Found at i:37903296 original size:18 final size:20
Alignment explanation
Indices: 37903273--37903320 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
37903263 ATTTAATAAA
*
37903273 ATTTAC-AAATATCATTTT-
1 ATTTACTAAAGATCATTTTC
*
37903291 ATTTACTAAAGATTATTTTC
1 ATTTACTAAAGATCATTTTC
*
37903311 ATTTAATAAA
1 ATTTACTAAA
37903321 ATATTATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 6 0.24
19 10 0.40
20 9 0.36
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.48
Consensus pattern (20 bp):
ATTTACTAAAGATCATTTTC
Found at i:37903328 original size:21 final size:19
Alignment explanation
Indices: 37903279--37903328 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
37903269 TAAAATTTAC
* *
37903279 AAATATCATTTTATTTACT
1 AAATATTATTTTATTTAAT
*
37903298 AAAGATTATTTTCATTTAAT
1 AAATATTATTTT-ATTTAAT
37903318 AAAATATTATT
1 -AAATATTATT
37903329 AATATATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 10 0.40
20 6 0.24
21 9 0.36
ACGTcount: A:0.42, C:0.06, G:0.02, T:0.50
Consensus pattern (19 bp):
AAATATTATTTTATTTAAT
Found at i:37912482 original size:12 final size:12
Alignment explanation
Indices: 37912450--37912484 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
37912440 AAATTTAGAT
* *
37912450 TTATTATTATGG
1 TTATTATTGTTG
37912462 TTATTATTGTTG
1 TTATTATTGTTG
37912474 TTATTATTGTT
1 TTATTATTGTT
37912485 ATTGTAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.20, C:0.00, G:0.14, T:0.66
Consensus pattern (12 bp):
TTATTATTGTTG
Found at i:37914130 original size:19 final size:20
Alignment explanation
Indices: 37914106--37914143 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
37914096 TTCGACTAGT
*
37914106 TTTTGGG-TCTTGGTCTCAG
1 TTTTGGGCTCTTGGGCTCAG
37914125 TTTTGGGCTCTTGGGCTCA
1 TTTTGGGCTCTTGGGCTCA
37914144 ATTTACGATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.05, C:0.18, G:0.32, T:0.45
Consensus pattern (20 bp):
TTTTGGGCTCTTGGGCTCAG
Found at i:37916116 original size:34 final size:34
Alignment explanation
Indices: 37916078--37916144 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
37916068 ATTTTGGTAT
*
37916078 ATACCAAAATTACTAAGGTGATATCACAATTTTC
1 ATACCAAAATTACTAAGGTGATACCACAATTTTC
* *
37916112 ATACCATAATTTCTAAGGTGATACCACAATTTT
1 ATACCAAAATTACTAAGGTGATACCACAATTTT
37916145 TAAAATGTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (34 bp):
ATACCAAAATTACTAAGGTGATACCACAATTTTC
Found at i:37917768 original size:20 final size:21
Alignment explanation
Indices: 37917745--37917785 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
37917735 GATGATATTT
37917745 TTAAT-TATTTTTATTTTTAA
1 TTAATGTATTTTTATTTTTAA
*
37917765 TTAATGTGTTTTTATTTTTAA
1 TTAATGTATTTTTATTTTTAA
37917786 CTCTTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (21 bp):
TTAATGTATTTTTATTTTTAA
Found at i:37921128 original size:42 final size:43
Alignment explanation
Indices: 37921027--37921136 Score: 136
Period size: 42 Copynumber: 2.6 Consensus size: 43
37921017 CAACGCCAAC
* * *
37921027 GTCCGAGACATGGTCTTACATGTAATCAAATAATGATGACACT
1 GTCCCAGACATGGTCTTACATGTAATCAAATAATGACGACAAT
*
37921070 GTCCCAGACA-GAGTCTTACATGTAATCATAT-ATGACG-CTAAT
1 GTCCCAGACATG-GTCTTACATGTAATCAAATAATGACGAC-AAT
*
37921112 GTCCCAGACATGGTCTTACACGTAA
1 GTCCCAGACATGGTCTTACATGTAA
37921137 ATCTCAAATC
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
41 1 0.02
42 30 0.51
43 28 0.47
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACATGTAATCAAATAATGACGACAAT
Found at i:37925830 original size:22 final size:20
Alignment explanation
Indices: 37925805--37925881 Score: 79
Period size: 22 Copynumber: 3.8 Consensus size: 20
37925795 NNNNNNNTTT
37925805 AAAAATAATATTTAAATTTTA
1 AAAAAT-ATATTTAAATTTTA
*
37925826 AAAAAT-TA-AT-AATTTTA
1 AAAAATATATTTAAATTTTA
37925843 AGAAAATATATTTAAAATTTTA
1 A-AAAATATATTT-AAATTTTA
37925865 AAAAATAATATTATAAA
1 AAAAAT-ATATT-TAAA
37925882 ACATTTCATA
Statistics
Matches: 47, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
17 8 0.17
18 6 0.13
19 4 0.09
20 1 0.02
21 11 0.23
22 16 0.34
23 1 0.02
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (20 bp):
AAAAATATATTTAAATTTTA
Found at i:37926529 original size:72 final size:72
Alignment explanation
Indices: 37926412--37926558 Score: 276
Period size: 72 Copynumber: 2.0 Consensus size: 72
37926402 ACAATAGCTA
37926412 AAAAAACAAACTCAGATCTGCAACCTTCAAAGTGAAGAAGTCTCTGCAAAGATCGATGATGGATA
1 AAAAAACAAACTCAGATCTGCAACCTTCAAAGTGAAGAAGTCTCTGCAAAGATCGATGATGGATA
37926477 TCACAAT
66 TCACAAT
* *
37926484 AAAAAAGAAACTCAGATCTGCAACCTTCAACGTGAAGAAGTCTCTGCAAAGATCGATGATGGATA
1 AAAAAACAAACTCAGATCTGCAACCTTCAAAGTGAAGAAGTCTCTGCAAAGATCGATGATGGATA
37926549 TCACAAT
66 TCACAAT
37926556 AAA
1 AAA
37926559 GGAAAAAGGT
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.20
Consensus pattern (72 bp):
AAAAAACAAACTCAGATCTGCAACCTTCAAAGTGAAGAAGTCTCTGCAAAGATCGATGATGGATA
TCACAAT
Found at i:37931764 original size:21 final size:21
Alignment explanation
Indices: 37931739--37931796 Score: 75
Period size: 20 Copynumber: 2.8 Consensus size: 21
37931729 TAAATTTATG
37931739 TTAATTAA-GCTTATTATTAA
1 TTAATTAAGGCTTATTATTAA
* *
37931759 TTTAATTAAGGTTTAGT-TTAA
1 -TTAATTAAGGCTTATTATTAA
37931780 TTAATTAAGGCTTATTA
1 TTAATTAAGGCTTATTA
37931797 ATTTTAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 14 0.45
21 12 0.39
22 5 0.16
ACGTcount: A:0.36, C:0.03, G:0.10, T:0.50
Consensus pattern (21 bp):
TTAATTAAGGCTTATTATTAA
Found at i:37939614 original size:18 final size:17
Alignment explanation
Indices: 37939586--37939620 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
37939576 NNNNNNNNNA
*
37939586 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
37939603 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
37939621 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:37939874 original size:16 final size:16
Alignment explanation
Indices: 37939853--37939885 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
37939843 TTGATTTGCT
37939853 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
37939869 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
37939885 A
1 A
37939886 ATACAACGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.36, G:0.06, T:0.36
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:37961711 original size:15 final size:15
Alignment explanation
Indices: 37961693--37961738 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
37961683 ATTAAATTTG
37961693 ATTAAAATAAAAATA
1 ATTAAAATAAAAATA
*
37961708 ATTAAAATCAAAATA
1 ATTAAAATAAAAATA
37961723 ATAGTAAAGATAAAAA
1 AT--TAAA-ATAAAAA
37961739 ACTATAGCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 16 0.62
17 4 0.15
18 6 0.23
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (15 bp):
ATTAAAATAAAAATA
Found at i:37962765 original size:7 final size:7
Alignment explanation
Indices: 37962745--37962821 Score: 51
Period size: 7 Copynumber: 11.6 Consensus size: 7
37962735 TTTGAACTAT
37962745 TTTATTA
1 TTTATTA
37962752 TTTTATTA
1 -TTTATTA
37962760 TTTATT-
1 TTTATTA
37962766 TATTATTA
1 T-TTATTA
37962774 TATTA-TA
1 T-TTATTA
*
37962781 CTT-TT-
1 TTTATTA
37962786 TTT-TTA
1 TTTATTA
37962792 -TTATTA
1 TTTATTA
37962798 TTTATTA
1 TTTATTA
*
37962805 TTT-TCA
1 TTTATTA
*
37962811 ATTATTA
1 TTTATTA
37962818 TTTA
1 TTTA
37962822 CGTGTACATA
Statistics
Matches: 56, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
5 6 0.11
6 11 0.20
7 27 0.48
8 12 0.21
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (7 bp):
TTTATTA
Found at i:37962767 original size:19 final size:18
Alignment explanation
Indices: 37962745--37962821 Score: 88
Period size: 19 Copynumber: 4.2 Consensus size: 18
37962735 TTTGAACTAT
37962745 TTTATTATTTTATTATTTA
1 TTTATTATTTTATTA-TTA
*
37962764 TTTATTATTATATTA-TA
1 TTTATTATTTTATTATTA
37962781 CTTT-TT-TTTTATTATTA
1 -TTTATTATTTTATTATTA
37962798 TTTATTATTTTCAATTATTA
1 TTTATTATTTT--ATTATTA
37962818 TTTA
1 TTTA
37962822 CGTGTACATA
Statistics
Matches: 50, Mismatches: 2, Indels: 11
0.79 0.03 0.17
Matches are distributed among these distances:
16 10 0.20
17 8 0.16
18 7 0.14
19 14 0.28
20 11 0.22
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTATTATTTTATTATTA
Found at i:37962769 original size:24 final size:23
Alignment explanation
Indices: 37962742--37962808 Score: 61
Period size: 22 Copynumber: 3.0 Consensus size: 23
37962732 TTTTTTGAAC
37962742 TATTTTATTATTTTATTATTTATT
1 TATTTTATTATTTTATTATTT-TT
* *
37962766 TA--TTATTATATTA-TACTTTT
1 TATTTTATTATTTTATTATTTTT
37962786 T-TTTTATTATTATTTATTATTTT
1 TATTTTATTA-T-TTTATTATTTT
37962809 CAATTATTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
20 3 0.09
21 10 0.29
22 11 0.32
23 3 0.09
24 7 0.21
ACGTcount: A:0.25, C:0.01, G:0.00, T:0.73
Consensus pattern (23 bp):
TATTTTATTATTTTATTATTTTT
Found at i:37967022 original size:20 final size:21
Alignment explanation
Indices: 37966980--37967024 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
37966970 TTATAACAAT
* * *
37966980 AAAAATAGATTAAAAATTTTA
1 AAAAATAGAATAAAAAGTATA
37967001 AAAAATA-AATAAAAAGTATA
1 AAAAATAGAATAAAAAGTATA
37967021 AAAA
1 AAAA
37967025 TTCAAAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.24
Consensus pattern (21 bp):
AAAAATAGAATAAAAAGTATA
Found at i:37987343 original size:21 final size:23
Alignment explanation
Indices: 37987319--37987360 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
37987309 CTTCAATCTC
*
37987319 CAAT-TTCTAATTTT-ATTTTTT
1 CAATCTTCAAATTTTCATTTTTT
37987340 CAATCTTCAAATTTTCATTTT
1 CAATCTTCAAATTTTCATTTT
37987361 CAATTCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 9 0.50
23 5 0.28
ACGTcount: A:0.26, C:0.14, G:0.00, T:0.60
Consensus pattern (23 bp):
CAATCTTCAAATTTTCATTTTTT
Found at i:37987352 original size:22 final size:22
Alignment explanation
Indices: 37987319--37987372 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
37987309 CTTCAATCTC
*
37987319 CAATTTCTAATTTT-ATTTTTT
1 CAATTTCAAATTTTCATTTTTT
37987340 CAATCTTCAAATTTTCA--TTTT
1 CAAT-TTCAAATTTTCATTTTTT
37987361 CAATTCTCAAAT
1 CAATT-TCAAAT
37987373 ATTTTTTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
20 1 0.03
21 18 0.62
22 9 0.31
23 1 0.03
ACGTcount: A:0.30, C:0.17, G:0.00, T:0.54
Consensus pattern (22 bp):
CAATTTCAAATTTTCATTTTTT
Found at i:37987381 original size:21 final size:20
Alignment explanation
Indices: 37987334--37987388 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 20
37987324 TCTAATTTTA
37987334 TTTTTTCAA-TCTTCAAATTT
1 TTTTTTCAATTC-TCAAATTT
*
37987354 TCATTTTCAATTCTCAAATATT
1 T-TTTTTCAATTCTCAAAT-TT
*
37987376 TTTTTTAAATTCT
1 TTTTTTCAATTCT
37987389 TTTTTTCTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 1 0.03
21 23 0.79
22 5 0.17
ACGTcount: A:0.27, C:0.15, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTTTTCAATTCTCAAATTT
Found at i:37987407 original size:16 final size:16
Alignment explanation
Indices: 37987374--37987430 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 16
37987364 TTCTCAAATA
37987374 TTTTTT-TT-AAATTCT
1 TTTTTTCTTCAAATT-T
37987389 TTTTTTCTTCAAATTT
1 TTTTTTCTTCAAATTT
* *
37987405 TTTTCTCTTCAATTTT
1 TTTTTTCTTCAAATTT
37987421 ATTTTTTCTT
1 -TTTTTTCTT
37987431 ATAAAATTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
15 6 0.17
16 17 0.47
17 13 0.36
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTTTCTTCAAATTT
Found at i:37987420 original size:14 final size:15
Alignment explanation
Indices: 37987367--37987425 Score: 52
Period size: 15 Copynumber: 3.9 Consensus size: 15
37987357 TTTTCAATTC
*
37987367 TCAAATATTTTTT-T
1 TCAAATTTTTTTTCT
37987381 T-AAATTCTTTTTTTCT
1 TCAAA-T-TTTTTTTCT
37987397 TCAAATTTTTTTCTCT
1 TCAAATTTTTTT-TCT
37987413 TC-AATTTTATTTT
1 TCAAATTTT-TTTT
37987426 TTCTTATAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
13 3 0.08
14 2 0.05
15 19 0.50
16 11 0.29
17 3 0.08
ACGTcount: A:0.22, C:0.12, G:0.00, T:0.66
Consensus pattern (15 bp):
TCAAATTTTTTTTCT
Found at i:37988976 original size:18 final size:18
Alignment explanation
Indices: 37988953--37988990 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
37988943 TAAAATTTAC
37988953 AATTCAAATAACTCGAAT
1 AATTCAAATAACTCGAAT
*
37988971 AATTCAAATAATTCGAAT
1 AATTCAAATAACTCGAAT
37988989 AA
1 AA
37988991 CATGTTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.53, C:0.13, G:0.05, T:0.29
Consensus pattern (18 bp):
AATTCAAATAACTCGAAT
Found at i:37996423 original size:15 final size:15
Alignment explanation
Indices: 37996377--37996434 Score: 52
Period size: 15 Copynumber: 4.0 Consensus size: 15
37996367 ATACAACTAT
37996377 AATAATAAAATAT--
1 AATAATAAAATATAA
* *
37996390 AATAATAGTAATA-AC
1 AATAATA-AAATATAA
37996405 AATAATAAAATATAA
1 AATAATAAAATATAA
37996420 AATAA-AACAATATAA
1 AATAATAA-AATATAA
37996435 CTTATTCATA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
13 7 0.19
14 10 0.27
15 20 0.54
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.26
Consensus pattern (15 bp):
AATAATAAAATATAA
Found at i:38003209 original size:41 final size:41
Alignment explanation
Indices: 38003153--38003257 Score: 122
Period size: 41 Copynumber: 2.6 Consensus size: 41
38003143 TGATTCGGTA
* * * *
38003153 CACCGGCTTTTAGCCTGCTAGACTTATTGTCCGAAAT-GTAT
1 CACCGGCATTAAGCCTGCTAGACTTATAGT-CGAAATAATAT
* * *
38003194 CACCGGCATTAAGCCTGCTAGAATTATAGTCTAAATAATTT
1 CACCGGCATTAAGCCTGCTAGACTTATAGTCGAAATAATAT
*
38003235 CACCGGCATCAAGCCTGCTAGAC
1 CACCGGCATTAAGCCTGCTAGAC
38003258 ATAAAGTCTG
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
40 5 0.09
41 49 0.91
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.29
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACTTATAGTCGAAATAATAT
Found at i:38003266 original size:41 final size:42
Alignment explanation
Indices: 38003193--38003275 Score: 116
Period size: 41 Copynumber: 2.0 Consensus size: 42
38003183 CCGAAATGTA
* *
38003193 TCACCGGCATTAAGCCTGCTAGAATTATAGTCT-AAATAATT
1 TCACCGGCATCAAGCCTGCTAGAATTAAAGTCTGAAATAATT
*
38003234 TCACCGGCATCAAGCCTGCTAGACA-TAAAGTCTGAATTAATT
1 TCACCGGCATCAAGCCTGCTAGA-ATTAAAGTCTGAAATAATT
38003276 CACTAACAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
41 29 0.78
42 8 0.22
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.29
Consensus pattern (42 bp):
TCACCGGCATCAAGCCTGCTAGAATTAAAGTCTGAAATAATT
Found at i:38003990 original size:2 final size:2
Alignment explanation
Indices: 38003983--38004019 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
38003973 AACATGATAC
38003983 AT 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 AT A
38004020 AATTCAATCC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:38010605 original size:34 final size:32
Alignment explanation
Indices: 38010541--38010605 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
38010531 TGCTTAGCAA
* * *
38010541 ATGCATATACCTATTGCATATATATTTAATAT
1 ATGCATATACCGAATGCATATATATCTAATAT
38010573 ATGCATATACCGAATGCACATATATATCTAATA
1 ATGCATATACCGAATG--CATATATATCTAATA
38010606 ATTGCTTAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 14 0.50
34 14 0.50
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (32 bp):
ATGCATATACCGAATGCATATATATCTAATAT
Found at i:38010919 original size:41 final size:41
Alignment explanation
Indices: 38010874--38010958 Score: 125
Period size: 41 Copynumber: 2.1 Consensus size: 41
38010864 CCGAAATGAA
* * * *
38010874 TCACCGGCATTAAGCCTGCTAGACTTATAGTGTGAATAATT
1 TCACCGGCATCAAGCCTGCTAGACATAAAGTCTGAATAATT
*
38010915 TCACCGGCATCAAGCCTGCTAGACATAAAGTCTGAATTATT
1 TCACCGGCATCAAGCCTGCTAGACATAAAGTCTGAATAATT
38010956 TCA
1 TCA
38010959 TTGACAATAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (41 bp):
TCACCGGCATCAAGCCTGCTAGACATAAAGTCTGAATAATT
Found at i:38011687 original size:2 final size:2
Alignment explanation
Indices: 38011680--38011707 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
38011670 NNNNNNNNNN
38011680 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
38011708 CATTCATACT
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:38014175 original size:2 final size:2
Alignment explanation
Indices: 38014168--38014198 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
38014158 CAACAATAGA
38014168 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
38014199 TATATATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:38023726 original size:16 final size:16
Alignment explanation
Indices: 38023705--38023739 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
38023695 CCAATATCCA
* *
38023705 ATTATCATATTTGCAC
1 ATTATCACATTTACAC
38023721 ATTATCACATTTACAC
1 ATTATCACATTTACAC
38023737 ATT
1 ATT
38023740 TATATTCCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.34, C:0.20, G:0.03, T:0.43
Consensus pattern (16 bp):
ATTATCACATTTACAC
Found at i:38024462 original size:2 final size:2
Alignment explanation
Indices: 38024455--38024485 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
38024445 CAACAATAGA
38024455 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
38024486 TATATATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:38037190 original size:2 final size:2
Alignment explanation
Indices: 38037183--38037212 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
38037173 AATTATTTTA
38037183 AT 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 AT
38037213 TCTCCATAAA
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):
AT
Found at i:38042384 original size:34 final size:34
Alignment explanation
Indices: 38042341--38042408 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
38042331 CAAAGTATAC
38042341 GAGTTACATACACATAGTCGGTTACTTACTTAGG
1 GAGTTACATACACATAGTCGGTTACTTACTTAGG
38042375 GAGTTACATACACATAGTCGGTTACTTACTTAGG
1 GAGTTACATACACATAGTCGGTTACTTACTTAGG
38042409 ATTAAGGTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (34 bp):
GAGTTACATACACATAGTCGGTTACTTACTTAGG
Found at i:38044439 original size:14 final size:13
Alignment explanation
Indices: 38044401--38044449 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
38044391 AAGTATATTG
*
38044401 TTATTTTATTATA
1 TTATTATATTATA
* *
38044414 TT-GTAAATTATA
1 TTATTATATTATA
38044426 TTAATTATATTATA
1 TT-ATTATATTATA
38044440 TTATTATATT
1 TTATTATATT
38044450 TCAAATAAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
12 9 0.31
13 10 0.34
14 10 0.34
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (13 bp):
TTATTATATTATA
Found at i:38058898 original size:2 final size:2
Alignment explanation
Indices: 38058891--38058916 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
38058881 TCTAGTAGTA
38058891 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
38058917 GATTGATATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:38060105 original size:20 final size:20
Alignment explanation
Indices: 38060065--38060116 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
38060055 CTTATATACT
* *
38060065 TTAATTAAATATTTAATGAC
1 TTAATTAATTAATTAATGAC
*
38060085 TTATTTAACTTAATTAA-GAC
1 TTAATTAA-TTAATTAATGAC
38060105 TTAATTAATTAA
1 TTAATTAATTAA
38060117 AGTTAATCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 4 0.15
20 17 0.63
21 6 0.22
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (20 bp):
TTAATTAATTAATTAATGAC
Found at i:38063670 original size:84 final size:85
Alignment explanation
Indices: 38063553--38063722 Score: 333
Period size: 84 Copynumber: 2.0 Consensus size: 85
38063543 ATAACAATAT
38063553 ATAATCTAAATATTAAAAAAATTAAGTTCCTTATATATAAAACTTTAGTAAATAAAAATCTATAC
1 ATAATCTAAATATTAAAAAAATTAAGTTCCTTATATATAAAACTTTAGTAAATAAAAATCTATAC
38063618 AATTATTAAATACTAAACTA
66 AATTATTAAATACTAAACTA
38063638 ATAATCTAAAT-TTAAAAAAATTAAGTTCCTTATATATAAAACTTTAGTAAATAAAAATCTATAC
1 ATAATCTAAATATTAAAAAAATTAAGTTCCTTATATATAAAACTTTAGTAAATAAAAATCTATAC
38063702 AATTATTAAATACTAAACTA
66 AATTATTAAATACTAAACTA
38063722 A
1 A
38063723 AATTAATATA
Statistics
Matches: 85, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
84 74 0.87
85 11 0.13
ACGTcount: A:0.53, C:0.09, G:0.02, T:0.35
Consensus pattern (85 bp):
ATAATCTAAATATTAAAAAAATTAAGTTCCTTATATATAAAACTTTAGTAAATAAAAATCTATAC
AATTATTAAATACTAAACTA
Found at i:38075804 original size:26 final size:29
Alignment explanation
Indices: 38075752--38075808 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
38075742 AAGAACAACT
38075752 AAAAATAAATCTAAAACCTTAAGAAGAAGA
1 AAAAATAAATCTAAAA-CTTAAGAAGAAGA
*
38075782 AAAAATAAAT-TGAAA-TTAA-AAGAAGA
1 AAAAATAAATCTAAAACTTAAGAAGAAGA
38075808 A
1 A
38075809 TTCTAGCCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 8 0.31
27 4 0.15
29 4 0.15
30 10 0.38
ACGTcount: A:0.67, C:0.05, G:0.11, T:0.18
Consensus pattern (29 bp):
AAAAATAAATCTAAAACTTAAGAAGAAGA
Found at i:38083004 original size:27 final size:27
Alignment explanation
Indices: 38082969--38083240 Score: 296
Period size: 27 Copynumber: 10.1 Consensus size: 27
38082959 ATTCATGAGT
*
38082969 AAATTACCAAAATACCCTCGAAGGGTA
1 AAATTACCGAAATACCCTCGAAGGGTA
* * *
38082996 AAATTACCAAAATACCCTTGAAAGGTA
1 AAATTACCGAAATACCCTCGAAGGGTA
*
38083023 AAATTACTGAAATACCCTCGAAGGGTA
1 AAATTACCGAAATACCCTCGAAGGGTA
*
38083050 AAATTACCGAAATATCCTCGAAGGGTA
1 AAATTACCGAAATACCCTCGAAGGGTA
* * * *
38083077 AAATTATCGAAATGCCCTCCAAGGATA
1 AAATTACCGAAATACCCTCGAAGGGTA
* * *
38083104 AAATTACTGAAATATCCTCGAATGGTA
1 AAATTACCGAAATACCCTCGAAGGGTA
* *
38083131 AAATTATCAAAATACCCTCGAAGGGT-
1 AAATTACCGAAATACCCTCGAAGGGTA
* * **
38083157 AAATTATCGAAATACCTTTAAAGGGTA
1 AAATTACCGAAATACCCTCGAAGGGTA
* *
38083184 AAATTACCAAAATACCCTTGAAGGGT-
1 AAATTACCGAAATACCCTCGAAGGGTA
* * * * *
38083210 AACTTACTGTAATACCCCCTAAGGGTA
1 AAATTACCGAAATACCCTCGAAGGGTA
38083237 AAAT
1 AAAT
38083241 GATATGACTG
Statistics
Matches: 202, Mismatches: 41, Indels: 4
0.82 0.17 0.02
Matches are distributed among these distances:
26 41 0.20
27 161 0.80
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.24
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGAAGGGTA
Found at i:38090234 original size:12 final size:12
Alignment explanation
Indices: 38090217--38090242 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
38090207 AAGAAAGACG
38090217 TTGTTTGGGTCA
1 TTGTTTGGGTCA
38090229 TTGTTTGGGTCA
1 TTGTTTGGGTCA
38090241 TT
1 TT
38090243 CTTGATTTTT
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:0.08, G:0.31, T:0.54
Consensus pattern (12 bp):
TTGTTTGGGTCA
Found at i:38098508 original size:15 final size:14
Alignment explanation
Indices: 38098483--38098522 Score: 62
Period size: 15 Copynumber: 2.8 Consensus size: 14
38098473 TAAAATTTGG
38098483 AATAAATAAAAAAT
1 AATAAATAAAAAAT
*
38098497 AATAATATAAAACAT
1 AATAA-ATAAAAAAT
38098512 AATAAATAAAA
1 AATAAATAAAA
38098523 TATTGGGCTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.23
Consensus pattern (14 bp):
AATAAATAAAAAAT
Found at i:38103727 original size:6 final size:7
Alignment explanation
Indices: 38103710--38103735 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
38103700 TCGAGTCGAT
38103710 TTTTTAA
1 TTTTTAA
38103717 TTTTTAA
1 TTTTTAA
38103724 TTTTTAA
1 TTTTTAA
38103731 TTTTT
1 TTTTT
38103736 CTTACTCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTAA
Found at i:38103920 original size:9 final size:9
Alignment explanation
Indices: 38103906--38103936 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
38103896 GTTAAACGAA
38103906 TCGAGTTAT
1 TCGAGTTAT
*
38103915 TCGAGTTAA
1 TCGAGTTAT
38103924 TCGAGTTAT
1 TCGAGTTAT
38103933 TCGA
1 TCGA
38103937 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:38105212 original size:2 final size:2
Alignment explanation
Indices: 38105205--38105231 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
38105195 GGTTGTTTTA
38105205 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 A
38105232 ATTATTGGAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:38109028 original size:14 final size:13
Alignment explanation
Indices: 38109009--38109038 Score: 51
Period size: 13 Copynumber: 2.2 Consensus size: 13
38108999 CCTGTAAGTG
38109009 TTTTTTATAGTTAT
1 TTTTTTAT-GTTAT
38109023 TTTTTTATGTTAT
1 TTTTTTATGTTAT
38109036 TTT
1 TTT
38109039 ATTTTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.77
Consensus pattern (13 bp):
TTTTTTATGTTAT
Found at i:38109110 original size:15 final size:15
Alignment explanation
Indices: 38109086--38109117 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
38109076 AAAATAAAAT
38109086 TTCACATTTTTCTTC
1 TTCACATTTTTCTTC
*
38109101 TTCACGTTTTTCTTC
1 TTCACATTTTTCTTC
38109116 TT
1 TT
38109118 TTTTTTCTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.09, C:0.25, G:0.03, T:0.62
Consensus pattern (15 bp):
TTCACATTTTTCTTC
Found at i:38110938 original size:21 final size:22
Alignment explanation
Indices: 38110914--38110959 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 22
38110904 TGTGCTATAT
* *
38110914 AATTTTGAATTATGATTCA-AC
1 AATTTTCAATTATGATTAATAC
38110935 AA-TTTCAATTATGATTAATAC
1 AATTTTCAATTATGATTAATAC
38110956 AATT
1 AATT
38110960 AACCAAGCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
20 14 0.67
21 6 0.29
22 1 0.05
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (22 bp):
AATTTTCAATTATGATTAATAC
Found at i:38118050 original size:94 final size:94
Alignment explanation
Indices: 38117868--38118063 Score: 272
Period size: 94 Copynumber: 2.1 Consensus size: 94
38117858 TTGGCTGTGT
* * * * *
38117868 AAAAA-GCCTTCAAACTTTTTTAACAAAAGCAATTAAGTCCTTGCTCTTTTTTTTTTTGCACTCA
1 AAAAAGGCCCTCAAACTTTTTCAACAAAAGCAATTAAGTCCCTGATCTTTTTTTTTTTGCACCCA
38117932 ATTGGGTACTTGAACTTTCAAAATGCATC
66 ATTGGGTACTTGAACTTTCAAAATGCATC
* * *
38117961 AAAAAGGCCCTCAAACTTTTTCAAGAAAAGCAATTAAGTCCCTGATTTTTATTTTTTTTTCACCC
1 AAAAAGGCCCTCAAACTTTTTCAACAAAAGCAATTAAGTCCCTGATCTTT-TTTTTTTTGCACCC
*
38118026 AATTGGTTACTTGAA-TTATC-AAATGCATC
65 AATTGGGTACTTGAACTT-TCAAAATGCATC
38118055 AAAAAGGCC
1 AAAAAGGCC
38118064 TTTTGACCAT
Statistics
Matches: 91, Mismatches: 9, Indels: 5
0.87 0.09 0.05
Matches are distributed among these distances:
93 5 0.05
94 58 0.64
95 28 0.31
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.36
Consensus pattern (94 bp):
AAAAAGGCCCTCAAACTTTTTCAACAAAAGCAATTAAGTCCCTGATCTTTTTTTTTTTGCACCCA
ATTGGGTACTTGAACTTTCAAAATGCATC
Found at i:38118179 original size:10 final size:10
Alignment explanation
Indices: 38118164--38118293 Score: 71
Period size: 10 Copynumber: 13.6 Consensus size: 10
38118154 GACATGTGGC
38118164 AAAAAATTAT
1 AAAAAATTAT
38118174 AAAAAA--AT
1 AAAAAATTAT
38118182 -AAAAATTA-
1 AAAAAATTAT
*
38118190 ATAAAATT-T
1 AAAAAATTAT
*
38118199 ATAACAATTAT
1 A-AAAAATTAT
*
38118210 --TAAATTAT
1 AAAAAATTAT
*
38118218 AATAAAAATAT
1 AA-AAAATTAT
*
38118229 -AAAAATTAGA
1 AAAAAATTA-T
* *
38118239 AAAAAAATAG
1 AAAAAATTAT
*
38118249 AAAAAATTGT
1 AAAAAATTAT
38118259 AAAAAATTAT
1 AAAAAATTAT
**
38118269 AAAATTTTAT
1 AAAAAATTAT
*
38118279 -AAAAATCAT
1 AAAAAATTAT
38118288 AAAAAA
1 AAAAAA
38118294 AATTATAAAG
Statistics
Matches: 88, Mismatches: 20, Indels: 24
0.67 0.15 0.18
Matches are distributed among these distances:
7 5 0.06
8 8 0.09
9 20 0.23
10 41 0.47
11 14 0.16
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:38118202 original size:19 final size:19
Alignment explanation
Indices: 38118165--38118291 Score: 84
Period size: 19 Copynumber: 6.7 Consensus size: 19
38118155 ACATGTGGCA
*
38118165 AAAAATTATAAAA--AAAT
1 AAAAATTATAAAATTATAT
38118182 AAAAATTAATAAAATT-TAT
1 AAAAATT-ATAAAATTATAT
* *
38118201 AACAATTATTAAATTATAAT
1 AAAAATTATAAAATTAT-AT
* *
38118221 AAAAA-TATAAAAATTAGAAA
1 AAAAATTAT-AAAATTA-TAT
* * *
38118241 AAAAATAGAAAAAATTGTA-
1 AAAAAT-TATAAAATTATAT
*
38118260 AAAAATTATAAAATTTTAT
1 AAAAATTATAAAATTATAT
*
38118279 AAAAATCATAAAA
1 AAAAATTATAAAA
38118292 AAAATTATAA
Statistics
Matches: 85, Mismatches: 15, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
17 7 0.08
18 22 0.26
19 30 0.35
20 19 0.22
21 6 0.07
22 1 0.01
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (19 bp):
AAAAATTATAAAATTATAT
Found at i:38118272 original size:9 final size:9
Alignment explanation
Indices: 38118165--38118292 Score: 71
Period size: 9 Copynumber: 13.6 Consensus size: 9
38118155 ACATGTGGCA
38118165 AAAAATTAT
1 AAAAATTAT
*
38118174 AAAAA-AAT
1 AAAAATTAT
38118182 AAAAATTAAT
1 AAAAATT-AT
*
38118192 AAAATTTAT
1 AAAAATTAT
*
38118201 AACAATTAT
1 AAAAATTAT
*
38118210 -TAAATTAT
1 AAAAATTAT
*
38118218 AATAAAAATAT
1 -A-AAAATTAT
*
38118229 AAAAATTAGAA
1 AAAAATT--AT
* *
38118240 AAAAAATAGA
1 AAAAATTA-T
*
38118250 AAAAATTGT
1 AAAAATTAT
38118259 AAAAAATTAT
1 -AAAAATTAT
*
38118269 AAAATTTTAT
1 AAAA-ATTAT
*
38118279 AAAAATCAT
1 AAAAATTAT
38118288 AAAAA
1 AAAAA
38118293 AAATTATAAA
Statistics
Matches: 90, Mismatches: 19, Indels: 20
0.70 0.15 0.16
Matches are distributed among these distances:
8 13 0.14
9 32 0.36
10 32 0.36
11 13 0.14
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (9 bp):
AAAAATTAT
Found at i:38118559 original size:29 final size:29
Alignment explanation
Indices: 38118525--38118595 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
38118515 TCTTTACATT
*
38118525 TTTTATAATTTTCTTATAACTTT-ATAAAA
1 TTTTATAATTTT-TTACAACTTTCATAAAA
* * *
38118554 TTTTATAAGTTTTTACGATTTTCATAAAA
1 TTTTATAATTTTTTACAACTTTCATAAAA
*
38118583 TTTTACAATTTTT
1 TTTTATAATTTTT
38118596 ATAATTTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 7 0.20
29 28 0.80
ACGTcount: A:0.34, C:0.07, G:0.03, T:0.56
Consensus pattern (29 bp):
TTTTATAATTTTTTACAACTTTCATAAAA
Found at i:38118604 original size:29 final size:29
Alignment explanation
Indices: 38118548--38118603 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
38118538 TTATAACTTT
* *
38118548 ATAAAATTTTATAAGTTTTTACGATTTTC
1 ATAAAATTTTACAAGTTTTTACAATTTTC
*
38118577 ATAAAATTTTACAA-TTTTTATAATTTT
1 ATAAAATTTTACAAGTTTTTACAATTTT
38118604 TTTACGATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.38, C:0.05, G:0.04, T:0.54
Consensus pattern (29 bp):
ATAAAATTTTACAAGTTTTTACAATTTTC
Found at i:38118615 original size:20 final size:19
Alignment explanation
Indices: 38118554--38118625 Score: 72
Period size: 19 Copynumber: 3.7 Consensus size: 19
38118544 CTTTATAAAA
*
38118554 TTTTATAAGTTTTTACGAT
1 TTTTATAATTTTTTACGAT
* ** *
38118573 TTTCATAAAATTTTACAAT
1 TTTTATAATTTTTTACGAT
38118592 TTTTATAATTTTTTTACGAT
1 TTTTATAA-TTTTTTACGAT
* *
38118612 TTTTGTAGTTTTTT
1 TTTTATAATTTTTT
38118626 CTAATTTTAA
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
19 28 0.67
20 14 0.33
ACGTcount: A:0.26, C:0.06, G:0.07, T:0.61
Consensus pattern (19 bp):
TTTTATAATTTTTTACGAT
Found at i:38118654 original size:29 final size:28
Alignment explanation
Indices: 38118621--38118692 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 28
38118611 TTTTTGTAGT
*
38118621 TTTTTCTAATTTTAAATAAAATTTAAATA
1 TTTTTATAATTTTAAATAAAATTT-AATA
* ***
38118650 TTTTTATATTTTTTGTTAAAATTTAATA
1 TTTTTATAATTTTAAATAAAATTTAATA
38118678 TTTTTATAACTTTTA
1 TTTTTATAA-TTTTA
38118693 TTAATTTTTA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
28 12 0.34
29 23 0.66
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (28 bp):
TTTTTATAATTTTAAATAAAATTTAATA
Found at i:38118691 original size:28 final size:29
Alignment explanation
Indices: 38118637--38118696 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 29
38118627 TAATTTTAAA
** *
38118637 TAAAATTTAAATATTTTTATATTTTTTGT
1 TAAAATTTAAATATTTTTATAACTTTTAT
38118666 TAAAATTT-AATATTTTTATAACTTTTAT
1 TAAAATTTAAATATTTTTATAACTTTTAT
38118694 TAA
1 TAA
38118697 TTTTTATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 20 0.71
29 8 0.29
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (29 bp):
TAAAATTTAAATATTTTTATAACTTTTAT
Found at i:38118935 original size:89 final size:90
Alignment explanation
Indices: 38118780--38119026 Score: 331
Period size: 89 Copynumber: 2.7 Consensus size: 90
38118770 ACTAAGGGCG
* *
38118780 GTTCAAGTACTCAGTTGAGTGCAAAAAAAAG-ATAGAGGCTTAATTGCTTTTTTTTTTTTAAGTT
1 GTTCAAGTACCCAATTGAGTGCAAAAAAAAGCA-AG-GGCTTAATTGCTTTTTTTTTTTTAAGTT
* * *
38118844 TGAGGGTCCTTTTTATGCATTTTGAAA
64 TGAGGGTACTTTTTATGCATTGTAAAA
* * *
38118871 GTTCAAGTGCCCAATTGAGT-CAAAAAAATGCAAGGGCTTAATTGCTTTTTTTTTTTTAAATTTG
1 GTTCAAGTACCCAATTGAGTGCAAAAAAAAGCAAGGGCTTAATTGCTTTTTTTTTTTTAAGTTTG
*
38118935 AGGGTATTTTTTATGCATTGTAAAA
66 AGGGTACTTTTTATGCATTGTAAAA
* *
38118960 GTTCAAGTACCCAAGTGAGTGCAAAAAAAAAAGC-AGGTCTTAATTGC-TTTTTTTTTTTAAGTT
1 GTTCAAGTACCCAATTGAGTGC--AAAAAAAAGCAAGGGCTTAATTGCTTTTTTTTTTTTAAGTT
38119023 TGAG
64 TGAG
38119027 AATTTTTTAC
Statistics
Matches: 138, Mismatches: 14, Indels: 9
0.86 0.09 0.06
Matches are distributed among these distances:
89 68 0.49
90 31 0.22
91 30 0.22
92 9 0.07
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (90 bp):
GTTCAAGTACCCAATTGAGTGCAAAAAAAAGCAAGGGCTTAATTGCTTTTTTTTTTTTAAGTTTG
AGGGTACTTTTTATGCATTGTAAAA
Found at i:38119646 original size:75 final size:76
Alignment explanation
Indices: 38119524--38119676 Score: 299
Period size: 75 Copynumber: 2.0 Consensus size: 76
38119514 TAAATAGTAT
38119524 AAAAAAAAGTAATAATAATAAATAAAAATAAAGTAAATTATTTTTATAATTTTATAATTGGTTGA
1 AAAAAAAAGTAATAATAATAAATAAAAATAAAGTAAATTATTTTTATAATTTTATAATTGGTTGA
38119589 TGACCCAATTA
66 TGACCCAATTA
38119600 AAAAAAAAGT-ATAATAATAAATAAAAATAAAGTAAATTATTTTTATAATTTTATAATTGGTTGA
1 AAAAAAAAGTAATAATAATAAATAAAAATAAAGTAAATTATTTTTATAATTTTATAATTGGTTGA
38119664 TGACCCAATTA
66 TGACCCAATTA
38119675 AA
1 AA
38119677 TGTGGTACAA
Statistics
Matches: 77, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
75 67 0.87
76 10 0.13
ACGTcount: A:0.53, C:0.04, G:0.08, T:0.35
Consensus pattern (76 bp):
AAAAAAAAGTAATAATAATAAATAAAAATAAAGTAAATTATTTTTATAATTTTATAATTGGTTGA
TGACCCAATTA
Found at i:38121541 original size:6 final size:6
Alignment explanation
Indices: 38121503--38121533 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
38121493 TCAATCTTTC
38121503 TATTTT TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT TATTTT T
38121534 TTAATTTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:38126760 original size:24 final size:21
Alignment explanation
Indices: 38126729--38126778 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 21
38126719 CTCTAGTTTT
38126729 TCTCTTCACCTTATTTCGAAACA
1 TCTCTTCA-CTTATTT-GAAACA
* *
38126752 TCTCGTTCACTTGTTTGCAACA
1 TCTC-TTCACTTATTTGAAACA
38126774 TCTCT
1 TCTCT
38126779 CTCTATCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 1 0.04
22 9 0.38
23 10 0.42
24 4 0.17
ACGTcount: A:0.20, C:0.30, G:0.08, T:0.42
Consensus pattern (21 bp):
TCTCTTCACTTATTTGAAACA
Found at i:38126925 original size:30 final size:30
Alignment explanation
Indices: 38126889--38127060 Score: 172
Period size: 30 Copynumber: 5.7 Consensus size: 30
38126879 AAAAAATTTG
* *
38126889 CATTTTGACCCCTGAACTTTTCTAAAATTA
1 CATTTTGACCCCTAAAATTTTCTAAAATTA
** *
38126919 CATTTTGACCCCTAATTTTTTTTAAAATTA
1 CATTTTGACCCCTAAAATTTTCTAAAATTA
**
38126949 CATTTCAACCCCTAAAATTTTCT-AAATTA
1 CATTTTGACCCCTAAAATTTTCTAAAATTA
38126978 CATTTTGACCCCTTAAAA-TTTCTCAAAATTA
1 CATTTTGACCCC-TAAAATTTTCT-AAAATTA
* *
38127009 CATTTTAACCCCT-AAACTTTCTCAAAATTA
1 CATTTTGACCCCTAAAATTTTCT-AAAATTA
** *
38127039 TGTTTTG-GCCCTAAAACTTTTC
1 CATTTTGACCCCTAAAA-TTTTC
38127061 CTGTGTTTGC
Statistics
Matches: 119, Mismatches: 17, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
29 28 0.24
30 70 0.59
31 21 0.18
ACGTcount: A:0.32, C:0.23, G:0.04, T:0.41
Consensus pattern (30 bp):
CATTTTGACCCCTAAAATTTTCTAAAATTA
Found at i:38126960 original size:60 final size:61
Alignment explanation
Indices: 38126896--38127038 Score: 193
Period size: 60 Copynumber: 2.4 Consensus size: 61
38126886 TTGCATTTTG
* ** * *
38126896 ACCCCTGAACTTTTCTAAAATTACATTTTGACCCC-TAATTTTTTTTAAAATTACATTTCA
1 ACCCCTAAACTTTTCTAAAATTACATTTTGACCCCTTAAAATTTCTCAAAATTACATTTCA
* *
38126956 ACCCCTAAAATTTTCT-AAATTACATTTTGACCCCTTAAAATTTCTCAAAATTACATTTTA
1 ACCCCTAAACTTTTCTAAAATTACATTTTGACCCCTTAAAATTTCTCAAAATTACATTTCA
38127016 ACCCCTAAAC-TTTCTCAAAATTA
1 ACCCCTAAACTTTTCT-AAAATTA
38127039 TGTTTTGGCC
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
59 23 0.32
60 43 0.60
61 6 0.08
ACGTcount: A:0.35, C:0.23, G:0.02, T:0.40
Consensus pattern (61 bp):
ACCCCTAAACTTTTCTAAAATTACATTTTGACCCCTTAAAATTTCTCAAAATTACATTTCA
Found at i:38127399 original size:3 final size:3
Alignment explanation
Indices: 38127391--38127486 Score: 86
Period size: 3 Copynumber: 30.0 Consensus size: 3
38127381 AAGGTTCAAG
38127391 GAA GAA GAA GAA GAA GAA GAAA GAA GAAA GAA GAAA GAA GAAA GAAA
1 GAA GAA GAA GAA GAA GAA G-AA GAA G-AA GAA G-AA GAA G-AA G-AA
* * * *
38127438 GAA GAA -AA GAG GAA GAA GAAA GAA GAAA GAA GAA AAA AAA GAA AAA
1 GAA GAA GAA GAA GAA GAA G-AA GAA G-AA GAA GAA GAA GAA GAA GAA
38127484 GAA
1 GAA
38127487 AATAATTTTT
Statistics
Matches: 80, Mismatches: 6, Indels: 14
0.80 0.06 0.14
Matches are distributed among these distances:
2 2 0.03
3 56 0.70
4 22 0.28
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:38127416 original size:7 final size:7
Alignment explanation
Indices: 38127392--38127486 Score: 110
Period size: 7 Copynumber: 13.7 Consensus size: 7
38127382 AGGTTCAAGG
38127392 AAGAAG-
1 AAGAAGA
38127398 AAGAAG-
1 AAGAAGA
38127404 AAGAAGA
1 AAGAAGA
38127411 AAGAAGA
1 AAGAAGA
38127418 AAGAAGA
1 AAGAAGA
38127425 AAGAAGA
1 AAGAAGA
38127432 AAGAAAGA
1 AAG-AAGA
*
38127440 AGAAAAGA
1 A-AGAAGA
38127448 GGAAGAAGA
1 --AAGAAGA
38127457 AAGAAGA
1 AAGAAGA
38127464 AAGAAGA
1 AAGAAGA
38127471 AA-AA-A
1 AAGAAGA
38127476 AAGAA-A
1 AAGAAGA
38127482 AAGAA
1 AAGAA
38127487 AATAATTTTT
Statistics
Matches: 81, Mismatches: 2, Indels: 12
0.85 0.02 0.13
Matches are distributed among these distances:
5 3 0.04
6 22 0.27
7 40 0.49
8 9 0.11
9 6 0.07
10 1 0.01
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (7 bp):
AAGAAGA
Found at i:38127486 original size:32 final size:32
Alignment explanation
Indices: 38127392--38127486 Score: 113
Period size: 32 Copynumber: 2.9 Consensus size: 32
38127382 AGGTTCAAGG
*
38127392 AAGAAG-AAGAAGAAGAAGAAAGAAGAAAGAAGA
1 AAGAAGAAAGAAGAA-AAAAAAGAA-AAAGAAGA
* **
38127425 AAGAAGAAAGAA-AGAAGAAAAGAGGAAGAAGA
1 AAGAAGAAAGAAGA-AAAAAAAGAAAAAGAAGA
38127457 AAGAAGAAAGAAGAAAAAAAAGAAAAAGAA
1 AAGAAGAAAGAAGAAAAAAAAGAAAAAGAA
38127487 AATAATTTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
32 32 0.62
33 14 0.27
34 6 0.12
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (32 bp):
AAGAAGAAAGAAGAAAAAAAAGAAAAAGAAGA
Found at i:38127488 original size:14 final size:15
Alignment explanation
Indices: 38127395--38127486 Score: 78
Period size: 17 Copynumber: 5.7 Consensus size: 15
38127385 TTCAAGGAAG
*
38127395 AAGAAGAAGAAGAAGA
1 AAGAAAAAGAAGAA-A
38127411 AAGAAGAAAGAAGAAA
1 AAGAA-AAAGAAGAAA
38127427 GAAGAAAGAAAGAAG-AA
1 -AAG-AA-AAAGAAGAAA
**
38127444 AAGAGGAAGAAGAAA
1 AAGAAAAAGAAGAAA
*
38127459 GAAGAAAGAAGAAAAAA
1 -AAGAAA-AAGAAGAAA
38127476 AAGAAAAAGAA
1 AAGAAAAAGAA
38127487 AATAATTTTT
Statistics
Matches: 64, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
14 6 0.09
15 8 0.12
16 19 0.30
17 21 0.33
18 10 0.16
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (15 bp):
AAGAAAAAGAAGAAA
Found at i:38127522 original size:5 final size:5
Alignment explanation
Indices: 38127512--38127555 Score: 54
Period size: 5 Copynumber: 9.0 Consensus size: 5
38127502 AAATCGGGCT
* * *
38127512 GACCC GACCC GACCC GACCC GAACC G-GCC GACCC GACCC AACCC
1 GACCC GACCC GACCC GACCC GACCC GACCC GACCC GACCC GACCC
38127556 ACGACCTGAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
4 3 0.09
5 31 0.91
ACGTcount: A:0.23, C:0.57, G:0.20, T:0.00
Consensus pattern (5 bp):
GACCC
Found at i:38127789 original size:10 final size:10
Alignment explanation
Indices: 38127776--38127846 Score: 79
Period size: 10 Copynumber: 7.0 Consensus size: 10
38127766 CCAGTCCAGA
38127776 AAAAAAAAAG
1 AAAAAAAAAG
* *
38127786 AAAAAGAGAG
1 AAAAAAAAAG
*
38127796 AAAAAAGAAG
1 AAAAAAAAAG
*
38127806 AAAAAGAGAAG
1 AAAAA-AAAAG
*
38127817 AAAAAAGAAG
1 AAAAAAAAAG
*
38127827 GAAAAAAAAG
1 AAAAAAAAAG
38127837 AAAAAAAAAG
1 AAAAAAAAAG
38127847 TTTTAATTTG
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
10 42 0.81
11 10 0.19
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:38127789 original size:11 final size:11
Alignment explanation
Indices: 38127773--38127845 Score: 58
Period size: 13 Copynumber: 6.0 Consensus size: 11
38127763 AGCCCAGTCC
38127773 AGAAAAAAAAA
1 AGAAAAAAAAA
38127784 AGAAAAAGAGAGAA
1 AGAAAAA-A-A-AA
38127798 A-AAAGAAGAAAA
1 AGAAA-AA-AAAA
*
38127810 AGAGAAGAAAAA
1 AGA-AAAAAAAA
38127822 AGAAGGAAAAAAA
1 AGAA--AAAAAAA
38127835 AGAAAAAAAAA
1 AGAAAAAAAAA
38127846 GTTTTAATTT
Statistics
Matches: 52, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
11 15 0.29
12 11 0.21
13 17 0.33
14 9 0.17
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (11 bp):
AGAAAAAAAAA
Found at i:38127801 original size:20 final size:20
Alignment explanation
Indices: 38127776--38127846 Score: 90
Period size: 20 Copynumber: 3.5 Consensus size: 20
38127766 CCAGTCCAGA
38127776 AAAAAAAAAGAAAAAGAGAG
1 AAAAAAAAAGAAAAAGAGAG
*
38127796 AAAAAAGAAGAAAAAGAGAAG
1 AAAAAAAAAGAAAAAGAG-AG
* *
38127817 AAAAAAGAAGGAAAAA-AAAG
1 AAAAAA-AAAGAAAAAGAGAG
38127837 AAAAAAAAAG
1 AAAAAAAAAG
38127847 TTTTAATTTG
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
19 3 0.07
20 25 0.57
21 9 0.20
22 7 0.16
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAGAAAAAGAGAG
Found at i:38128199 original size:18 final size:21
Alignment explanation
Indices: 38128162--38128204 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
38128152 AAAATATTCA
38128162 AAAAAAAAATCTCATGTTTTC
1 AAAAAAAAATCTCATGTTTTC
38128183 AAAAAAAAAT-T-AT-TTTTC
1 AAAAAAAAATCTCATGTTTTC
38128201 AAAA
1 AAAA
38128205 TTTTTTGTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 9 0.41
19 2 0.09
20 1 0.05
21 10 0.45
ACGTcount: A:0.56, C:0.09, G:0.02, T:0.33
Consensus pattern (21 bp):
AAAAAAAAATCTCATGTTTTC
Found at i:38128423 original size:18 final size:18
Alignment explanation
Indices: 38128386--38129050 Score: 437
Period size: 17 Copynumber: 37.3 Consensus size: 18
38128376 TTGTGTAAAA
*
38128386 AAAAATCTTTCCGCGTTTTC
1 AAAAAT-TTT-CGTGTTTTC
38128406 AAAAATTTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
* ***
38128424 AAAAA-TTCCG-GCGATC
1 AAAAATTTTCGTGTTTTC
*
38128440 CAAAATTTTCCGTGTTTTC
1 AAAAATTTT-CGTGTTTTC
* *
38128459 TAAAAATTTCCATG-TTTC
1 -AAAAATTTTCGTGTTTTC
* *
38128477 TAAAATTTTTGTG-TTTC
1 AAAAATTTTCGTGTTTTC
*
38128494 AAAAATTTTTGTGTTTTC
1 AAAAATTTTCGTGTTTTC
* *
38128512 AAAAATTTTTGTATTTTC
1 AAAAATTTTCGTGTTTTC
* *
38128530 AACAATTCTCGTG-TTTC
1 AAAAATTTTCGTGTTTTC
*
38128547 ATAAATTTTCGTGTTTT-
1 AAAAATTTTCGTGTTTTC
* ** *
38128564 -AAATTTTTTATGTTTTAAA
1 AAAAATTTTCGTGTTTT--C
38128583 AAAAATTTGTCGTG-TTTC
1 AAAAATTT-TCGTGTTTTC
*
38128601 AAAAATTGTCGTGTTTT-
1 AAAAATTTTCGTGTTTTC
*
38128618 AAAAATTTTTGTGTTTGT-
1 AAAAATTTTCGTGTTT-TC
*
38128636 -AAAATTTTCGT-ATTTC
1 AAAAATTTTCGTGTTTTC
38128652 AAAAATTTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
*
38128670 -AAAATTTTGCGCG-TTTC
1 AAAAATTTT-CGTGTTTTC
38128687 AAAAATTCTT-GTGTTTT-
1 AAAAATT-TTCGTGTTTTC
*
38128704 AAAAATTTCCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
**
38128722 AAAAATTTAAGTGTTTTC
1 AAAAATTTTCGTGTTTTC
* *
38128740 AAAATTTTTCGT-ATTTC
1 AAAAATTTTCGTGTTTTC
**
38128757 AAAAATCCTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
*
38128775 AAAAATTTTGGTGTTTT-
1 AAAAATTTTCGTGTTTTC
*
38128792 GAAAATTTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
* *
38128810 AAAAAAATCTCGTG-TTTC
1 -AAAAATTTTCGTGTTTTC
* * *
38128828 ATAAATTTTCGTTTTTTAA
1 AAAAATTTTCGTGTTTT-C
**
38128847 AAAAATAAT--TG-TTTC
1 AAAAATTTTCGTGTTTTC
*
38128862 AAAAATCTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
** *
38128880 AAAAAAAAATTCCTGTGTTTC
1 --AAAAATTTTCGTGT-TTTC
* * *
38128901 AAAAATCTTCATGTCTTC
1 AAAAATTTTCGTGTTTTC
*
38128919 AAAAA-TTCCGATGTTTTC
1 AAAAATTTTCG-TGTTTTC
* * *
38128937 AAAAACTGTCATGTTTTC
1 AAAAATTTTCGTGTTTTC
**
38128955 AAAAAATTACCGTGTTTT-
1 -AAAAATTTTCGTGTTTTC
*
38128973 AAAAATTTTCGTGTTTTTT
1 AAAAATTTTCGTG-TTTTC
* * *
38128992 AAGAATTTTTGTG-TCTC
1 AAAAATTTTCGTGTTTTC
* *
38129009 TAAAATTCTCGTGTTTT-
1 AAAAATTTTCGTGTTTTC
38129026 AAAAATTTTTCGTGTTTTC
1 AAAAA-TTTTCGTGTTTTC
38129045 GAAAAA
1 -AAAAA
38129051 AAATAATTGT
Statistics
Matches: 499, Mismatches: 104, Indels: 84
0.73 0.15 0.12
Matches are distributed among these distances:
15 8 0.02
16 25 0.05
17 181 0.36
18 176 0.35
19 64 0.13
20 38 0.08
21 7 0.01
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.46
Consensus pattern (18 bp):
AAAAATTTTCGTGTTTTC
Found at i:38128547 original size:35 final size:35
Alignment explanation
Indices: 38128402--38129042 Score: 363
Period size: 35 Copynumber: 18.1 Consensus size: 35
38128392 CTTTCCGCGT
* *
38128402 TTTCAAAAATTTTCGTGTTTTCAAAAA-TTCCG-G
1 TTTCAAAAATTTTTGTGTTTTCAAAAATTTTCGTG
** * * * *
38128435 CGATCCAAAATTTTCCGTGTTTTCTAAAAATTTCCATG
1 -TTTCAAAAATTTT-TGTGTTTTC-AAAAATTTTCGTG
* *
38128473 TTTCTAAAATTTTTGTG-TTTCAAAAATTTTTGTG
1 TTTCAAAAATTTTTGTGTTTTCAAAAATTTTCGTG
* * *
38128507 TTTTCAAAAATTTTTGTATTTTCAACAATTCTCGTG
1 -TTTCAAAAATTTTTGTGTTTTCAAAAATTTTCGTG
* * * **
38128543 TTTCATAAATTTTCGTGTTTT--AAATTTTTTATG
1 TTTCAAAAATTTTTGTGTTTTCAAAAATTTTCGTG
* ** *
38128576 TTTTAAAAAAAATTTGTCGTGTTTCAAAAATTGTCGTG
1 -TTTCAAAAATTTTTGT-GT-TTTCAAAAATTTTCGTG
* *
38128614 TTTTAAAAATTTTTGTGTTTGT--AAAATTTTCGTA
1 TTTCAAAAATTTTTGTGTTT-TCAAAAATTTTCGTG
* *
38128648 TTTCAAAAATTTTCGTGTTTTC-AAAATTTTGCGCG
1 TTTCAAAAATTTTTGTGTTTTCAAAAATTTT-CGTG
* *
38128683 TTTCAAAAATTCTTGTGTTTT-AAAAATTTCCGTG
1 TTTCAAAAATTTTTGTGTTTTCAAAAATTTTCGTG
** * *
38128717 TTTTCAAAAATTTAAGTGTTTTCAAAATTTTTCGTA
1 -TTTCAAAAATTTTTGTGTTTTCAAAAATTTTCGTG
** * *
38128753 TTTCAAAAATCCTCGTGTTTTCAAAAATTTTGGTG
1 TTTCAAAAATTTTTGTGTTTTCAAAAATTTTCGTG
** * * *
38128788 TTTTGAAAATTTTCGTGTTTTCAAAAAAATCTCGTG
1 TTTCAAAAATTTTTGTGTTTTC-AAAAATTTTCGTG
* * * * **
38128824 TTTCATAAATTTTCGTTTTTTAAAAAAATAAT--TG
1 TTTCAAAAATTTTTGTGTTTT-CAAAAATTTTCGTG
* * * *
38128858 TTTCAAAAATCTTCGTGTTTTCAAAAAAAAATTCCTGTG
1 TTTCAAAAATTTTTGTGTTTTC---AAAAATTTTC-GTG
* ** * *
38128897 TTTCAAAAATCTTCATGTCTTCAAAAA-TTCCGATG
1 TTTCAAAAATTTTTGTGTTTTCAAAAATTTTCG-TG
* * ** **
38128932 TTTTCAAAAACTGTCATGTTTTCAAAAAATTACCGTG
1 -TTTCAAAAATTTTTGTGTTTTC-AAAAATTTTCGTG
* * * * *
38128969 TTTTAAAAATTTTCGTGTTTTTTAAGAATTTTTGTG
1 TTTCAAAAATTTTTGTG-TTTTCAAAAATTTTCGTG
* * * *
38129005 TCTCTAAAATTCTCGTGTTTT-AAAAATTTTTCGTG
1 TTTCAAAAATTTTTGTGTTTTCAAAAA-TTTTCGTG
38129040 TTT
1 TTT
38129043 TCGAAAAAAA
Statistics
Matches: 471, Mismatches: 105, Indels: 61
0.74 0.16 0.10
Matches are distributed among these distances:
33 8 0.02
34 95 0.20
35 161 0.34
36 134 0.28
37 38 0.08
38 13 0.03
39 22 0.05
ACGTcount: A:0.30, C:0.12, G:0.11, T:0.47
Consensus pattern (35 bp):
TTTCAAAAATTTTTGTGTTTTCAAAAATTTTCGTG
Found at i:38128876 original size:17 final size:17
Alignment explanation
Indices: 38128856--38129042 Score: 79
Period size: 18 Copynumber: 10.3 Consensus size: 17
38128846 AAAAAATAAT
*
38128856 TGTTTCAAAAATCTTCG
1 TGTTTCAAAAATTTTCG
* *
38128873 TGTTTTCAAAAAAAAATTCCTG
1 TG-TTTC---AAAAATTTTC-G
* *
38128895 TGTTTCAAAAATCTTCA
1 TGTTTCAAAAATTTTCG
*
38128912 TGTCTTCAAAAA-TTCCG
1 TGT-TTCAAAAATTTTCG
* * *
38128929 ATGTTTTCAAAAACTGTCA
1 -TG-TTTCAAAAATTTTCG
**
38128948 TGTTTTCAAAAAATTACCG
1 TG-TTTC-AAAAATTTTCG
*
38128967 TGTTTTAAAAATTTTCG
1 TGTTTCAAAAATTTTCG
* * *
38128984 TGTTTTTTAAGAATTTTTG
1 TG--TTTCAAAAATTTTCG
* * *
38129003 TGTCTCTAAAATTCTCG
1 TGTTTCAAAAATTTTCG
*
38129020 TGTTTTAAAAATTTTTCG
1 TGTTTCAAAAA-TTTTCG
38129038 TGTTT
1 TGTTT
38129043 TCGAAAAAAA
Statistics
Matches: 125, Mismatches: 32, Indels: 25
0.69 0.18 0.14
Matches are distributed among these distances:
17 35 0.28
18 49 0.39
19 27 0.22
21 11 0.09
22 3 0.02
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.45
Consensus pattern (17 bp):
TGTTTCAAAAATTTTCG
Found at i:38128970 original size:19 final size:18
Alignment explanation
Indices: 38128648--38128989 Score: 120
Period size: 18 Copynumber: 19.2 Consensus size: 18
38128638 AATTTTCGTA
* *
38128648 TTTCAAAAATTTTCGTGT
1 TTTCAAAAAATTCCGTGT
** * *
38128666 TTTCAAAATTTTGCGCG-
1 TTTCAAAAAATTCCGTGT
*
38128683 TTTC-AAAAATTCTTGTGT
1 TTTCAAAAAATTC-CGTGT
*
38128701 TTT-AAAAATTTCCGTGT
1 TTTCAAAAAATTCCGTGT
* **
38128718 TTTCAAAAATTTAAGTGT
1 TTTCAAAAAATTCCGTGT
** * *
38128736 TTTCAAAATTTTTCGT-A
1 TTTCAAAAAATTCCGTGT
*
38128753 TTTC-AAAAATCCTCGTGT
1 TTTCAAAAAATTC-CGTGT
* **
38128771 TTTCAAAAATTTTGGTGT
1 TTTCAAAAAATTCCGTGT
* * *
38128789 TTT-GAAAATTTTCGTGT
1 TTTCAAAAAATTCCGTGT
*
38128806 TTTCAAAAAAATCTCGTG-
1 TTTCAAAAAATTC-CGTGT
* * *
38128824 TTTCATAAATTTTCGT-T
1 TTTCAAAAAATTCCGTGT
* * ***
38128841 TTTTAAAAAAATAATTG-
1 TTTCAAAAAATTCCGTGT
*
38128858 TTTC-AAAAATCTTCGTGT
1 TTTCAAAAAAT-TCCGTGT
38128876 TTTCAAAAAAAAATTCC-TGT
1 TTTC---AAAAAATTCCGTGT
* *
38128896 GTTTC-AAAAATCTTCATGT
1 -TTTCAAAAAAT-TCCGTGT
*
38128915 CTTC-AAAAATTCCGATGT
1 TTTCAAAAAATTCCG-TGT
* *
38128933 TTTCAAAAACTGT-CATGT
1 TTTCAAAAAAT-TCCGTGT
38128951 TTTCAAAAAATTACCGTGT
1 TTTCAAAAAATT-CCGTGT
* *
38128970 TTT-AAAAATTTTCGTGT
1 TTTCAAAAAATTCCGTGT
38128987 TTT
1 TTT
38128990 TTAAGAATTT
Statistics
Matches: 240, Mismatches: 59, Indels: 51
0.69 0.17 0.15
Matches are distributed among these distances:
16 14 0.06
17 70 0.29
18 115 0.48
19 25 0.10
20 4 0.02
21 6 0.03
22 6 0.03
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.45
Consensus pattern (18 bp):
TTTCAAAAAATTCCGTGT
Found at i:38130224 original size:83 final size:83
Alignment explanation
Indices: 38130085--38130251 Score: 334
Period size: 83 Copynumber: 2.0 Consensus size: 83
38130075 GAGCCATGCC
38130085 GAACCTCTGTCCGTTTGATAGTTACCAAAATAAGTACACGGGAGAAACGCCTCTTACCTTTTATT
1 GAACCTCTGTCCGTTTGATAGTTACCAAAATAAGTACACGGGAGAAACGCCTCTTACCTTTTATT
38130150 TCTTTTACATTTACACTT
66 TCTTTTACATTTACACTT
38130168 GAACCTCTGTCCGTTTGATAGTTACCAAAATAAGTACACGGGAGAAACGCCTCTTACCTTTTATT
1 GAACCTCTGTCCGTTTGATAGTTACCAAAATAAGTACACGGGAGAAACGCCTCTTACCTTTTATT
38130233 TCTTTTACATTTACACTT
66 TCTTTTACATTTACACTT
38130251 G
1 G
38130252 TTTGCAAATA
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 84 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.36
Consensus pattern (83 bp):
GAACCTCTGTCCGTTTGATAGTTACCAAAATAAGTACACGGGAGAAACGCCTCTTACCTTTTATT
TCTTTTACATTTACACTT
Found at i:38132975 original size:15 final size:16
Alignment explanation
Indices: 38132955--38132984 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
38132945 CCAAGGACCA
38132955 GCAAAACC-CAGTTCT
1 GCAAAACCTCAGTTCT
38132970 GCAAAACCTCAGTTC
1 GCAAAACCTCAGTTC
38132985 ACCTCTATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.33, C:0.33, G:0.13, T:0.20
Consensus pattern (16 bp):
GCAAAACCTCAGTTCT
Found at i:38138240 original size:78 final size:77
Alignment explanation
Indices: 38138111--38138627 Score: 743
Period size: 78 Copynumber: 6.6 Consensus size: 77
38138101 AATTTTTTAT
* * *
38138111 TTTCTGTTTTTTAAAAATCAACTCATATTGCAAGAGTTAAGTTGAGCCTCGGACACATGCCGAGG
1 TTTCTGTTTTTT-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATGCCGAGG
38138176 TATTTCGTTTAAA
65 TATTTCGTTTAAA
*
38138189 TTTCTGTTCTTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATGCCGAGG
1 TTTCTGTT-TTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATGCCGAGG
38138254 TATTTCGTTTAAA
65 TATTTCGTTTAAA
*
38138267 TTTCTGTTCTTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATGCCGAGG
1 TTTCTGTT-TTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATGCCGAGG
38138332 TATTTCGTTTAAA
65 TATTTCGTTTAAA
* * *
38138345 TTTTTGTTCTTTTTAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCGGACACATGCCGAGG
1 TTTCTGTT-TTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATGCCGAGG
38138410 TATTTCGTTTAAA
65 TATTTCGTTTAAA
* * * *
38138423 TTTCTATTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGAGACATGCCGAG
1 TTTCTGTTTTT--TAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATGCCGAG
38138488 GTATTTCGTTTAAA
64 GTATTTCGTTTAAA
* * *
38138502 TTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGTCACATGCCGAGG
1 TTTCTGTTTTT-TAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATGCCGAGG
* *
38138567 TA--TCTTTTCAA
65 TATTTCGTTTAAA
* * *
38138578 TTTCTGTTTTTCAAAAAATCAACAT-ATAATGCTAGAGGTGAGTTGAGCCT
1 TTTCTGTTTTT--TAAAATCAAC-TCATATTGCGAGAGGTGAGTTGAGCCT
38138628 TGGGCCACAC
Statistics
Matches: 409, Mismatches: 25, Indels: 11
0.92 0.06 0.02
Matches are distributed among these distances:
76 18 0.04
77 35 0.09
78 281 0.69
79 75 0.18
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.35
Consensus pattern (77 bp):
TTTCTGTTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATGCCGAGGT
ATTTCGTTTAAA
Found at i:38138535 original size:235 final size:234
Alignment explanation
Indices: 38138125--38138569 Score: 750
Period size: 235 Copynumber: 1.9 Consensus size: 234
38138115 TGTTTTTTAA
*
38138125 AAATCAACTCATATTGCAAGAGTTAAGTTGAGCCTCGGACACATGCCGAGGTATTTCGTTTAAAT
1 AAATCAACTCATATTGCAAGAGGTAAGTTGAGCCTCGGACACATGCCGAGGTATTTCGTTTAAAT
* ** *
38138190 TTCTGTTCTTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATGCCGAGGT
66 TTCTATTCTTTAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGACACATGCCGAGGT
** *
38138255 ATTTCGTTTAAATTTCTGTTCTTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGA
131 ATTTCGTTTAAATTTCTGTTCTTTAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGA
38138320 CACATGCCGAGGTATTTCGTTTAAATTTTTGTTCTTTTT
196 CACATGCCGAGGTATTTCGTTTAAATTTTTGTTCTTTTT
*
38138359 AAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCGGACACATGCCGAGGTATTTCGTTTAAAT
1 AAATCAACTCATATTGCAAGAGGTAAGTTGAGCCTCGGACACATGCCGAGGTATTTCGTTTAAAT
*
38138424 TTCTATT-TTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGAGACATGCCGAG
66 TTCTATTCTTT--AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGACACATGCCGAG
38138488 GTATTTCGTTTAAATTTCTGTT-TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC
129 GTATTTCGTTTAAATTTCTGTTCTTT-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC
*
38138552 GGTCACATGCCGAGGTAT
193 GGACACATGCCGAGGTAT
38138570 CTTTTCAATT
Statistics
Matches: 197, Mismatches: 11, Indels: 5
0.92 0.05 0.02
Matches are distributed among these distances:
233 3 0.02
234 72 0.37
235 122 0.62
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (234 bp):
AAATCAACTCATATTGCAAGAGGTAAGTTGAGCCTCGGACACATGCCGAGGTATTTCGTTTAAAT
TTCTATTCTTTAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGACACATGCCGAGGT
ATTTCGTTTAAATTTCTGTTCTTTAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGA
CACATGCCGAGGTATTTCGTTTAAATTTTTGTTCTTTTT
Found at i:38138854 original size:30 final size:30
Alignment explanation
Indices: 38138819--38138967 Score: 182
Period size: 30 Copynumber: 5.0 Consensus size: 30
38138809 AAAAAATTTC
38138819 CATTTTGACCCCTGAACTTTTCT-AAAATTA
1 CATTTTGACCCCT-AACTTTTCTCAAAATTA
* *
38138849 CATTTTGACCCCTAAGTTTTTTCAAAATTA
1 CATTTTGACCCCTAACTTTTCTCAAAATTA
**
38138879 CATTTCAACCCCTAAACTTTTCT--AAATTA
1 CATTTTGACCCCT-AACTTTTCTCAAAATTA
*
38138908 CATTTTGACTCCTAAAC-TTTCTCAAAATTA
1 CATTTTGACCCCT-AACTTTTCTCAAAATTA
38138938 CATTTTGACCCCTACAC-TTTCTCAAAATTA
1 CATTTTGACCCCTA-ACTTTTCTCAAAATTA
38138968 TGTTTTAGCC
Statistics
Matches: 104, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
28 5 0.05
29 28 0.27
30 64 0.62
31 7 0.07
ACGTcount: A:0.32, C:0.25, G:0.04, T:0.40
Consensus pattern (30 bp):
CATTTTGACCCCTAACTTTTCTCAAAATTA
Found at i:38138933 original size:59 final size:59
Alignment explanation
Indices: 38138826--38138967 Score: 185
Period size: 59 Copynumber: 2.4 Consensus size: 59
38138816 TTCCATTTTG
* ** *
38138826 ACCCCTGAACTTTTCTAAAATTACATTTTGACCCCTAAGTTTTTTCAAAATTACATTTCA
1 ACCCCTAAACTTTTCT-AAATTACATTTTGACCCCTAAACTTTCTCAAAATTACATTTCA
* **
38138886 ACCCCTAAACTTTTCTAAATTACATTTTGACTCCTAAACTTTCTCAAAATTACATTTTG
1 ACCCCTAAACTTTTCTAAATTACATTTTGACCCCTAAACTTTCTCAAAATTACATTTCA
* *
38138945 ACCCCTACACTTTCTCAAAATTA
1 ACCCCTAAACTTT-TCTAAATTA
38138968 TGTTTTAGCC
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
59 49 0.68
60 23 0.32
ACGTcount: A:0.32, C:0.25, G:0.04, T:0.39
Consensus pattern (59 bp):
ACCCCTAAACTTTTCTAAATTACATTTTGACCCCTAAACTTTCTCAAAATTACATTTCA
Found at i:38138985 original size:89 final size:89
Alignment explanation
Indices: 38138819--38138989 Score: 229
Period size: 89 Copynumber: 1.9 Consensus size: 89
38138809 AAAAAATTTC
* * *
38138819 CATTTTGACCCCTGAACTTTTCTAAAATTACATTTTGACCCCTAAGTTTTTTCAAAATTACATTT
1 CATTTTGACCCCTAAACTTTTCTAAAATTACATTTTGACCCCTAAGCTTTCTCAAAATTACATTT
*
38138884 CAACCCCTAAACTTTTCTAAATTA
66 CAACCCCAAAACTTTTCTAAATTA
* **
38138908 CATTTTGACTCCTAAAC-TTTCTCAAAATTACATTTTGACCCCTACA-CTTTCTCAAAATTATGT
1 CATTTTGACCCCTAAACTTTTCT-AAAATTACATTTTGACCCCTA-AGCTTTCTCAAAATTACAT
* *
38138971 TTTAGCCCCAAAACTTTTC
64 TTCAACCCCAAAACTTTTC
38138990 CTGCGTTTGC
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
88 5 0.07
89 65 0.92
90 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.40
Consensus pattern (89 bp):
CATTTTGACCCCTAAACTTTTCTAAAATTACATTTTGACCCCTAAGCTTTCTCAAAATTACATTT
CAACCCCAAAACTTTTCTAAATTA
Found at i:38138987 original size:30 final size:30
Alignment explanation
Indices: 38138819--38138987 Score: 155
Period size: 30 Copynumber: 5.7 Consensus size: 30
38138809 AAAAAATTTC
**
38138819 CATTTTGACCCCTGAACTTT-TCTAAAATTA
1 CATTTTGACCCCAAAACTTTCTC-AAAATTA
* ** *
38138849 CATTTTGACCCCTAAGTTTTTTCAAAATTA
1 CATTTTGACCCCAAAACTTTCTCAAAATTA
** * *
38138879 CATTTCAACCCCTAAACTTT-TCTAAATTA
1 CATTTTGACCCCAAAACTTTCTCAAAATTA
* *
38138908 CATTTTGACTCCTAAACTTTCTCAAAATTA
1 CATTTTGACCCCAAAACTTTCTCAAAATTA
* *
38138938 CATTTTGACCCCTACACTTTCTCAAAATTA
1 CATTTTGACCCCAAAACTTTCTCAAAATTA
**
38138968 TGTTTT-AGCCCCAAAACTTT
1 CATTTTGA-CCCCAAAACTTT
38138988 TCCTGCGTTT
Statistics
Matches: 118, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
29 26 0.22
30 90 0.76
31 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.05, T:0.40
Consensus pattern (30 bp):
CATTTTGACCCCAAAACTTTCTCAAAATTA
Found at i:38139522 original size:22 final size:23
Alignment explanation
Indices: 38139481--38139541 Score: 79
Period size: 22 Copynumber: 2.6 Consensus size: 23
38139471 CAAAAGCCCA
*
38139481 AAAAAAAAAAGAAATTAAGCAAAAG
1 AAAAAAAAAA-AAA-TAAGCAAAAC
*
38139506 AAAAAAAAAAAAA-AAGCAATAC
1 AAAAAAAAAAAAATAAGCAAAAC
38139528 AAAAAAAAAAAAAT
1 AAAAAAAAAAAAAT
38139542 CAAAACAGCC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 20 0.61
24 3 0.09
25 10 0.30
ACGTcount: A:0.82, C:0.05, G:0.07, T:0.07
Consensus pattern (23 bp):
AAAAAAAAAAAAATAAGCAAAAC
Found at i:38139535 original size:26 final size:30
Alignment explanation
Indices: 38139480--38139540 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
38139470 CCAAAAGCCC
38139480 AAAAAAAAAAAGAAATTAAGCAAAAGAAAA
1 AAAAAAAAAAAGAAATTAAGCAAAAGAAAA
*
38139510 AAAAAAAAAAAGCAA-T-A-CAAAA-AAAA
1 AAAAAAAAAAAGAAATTAAGCAAAAGAAAA
38139536 AAAAA
1 AAAAA
38139541 TCAAAACAGC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 9 0.30
27 5 0.17
28 1 0.03
29 1 0.03
30 14 0.47
ACGTcount: A:0.84, C:0.05, G:0.07, T:0.05
Consensus pattern (30 bp):
AAAAAAAAAAAGAAATTAAGCAAAAGAAAA
Found at i:38139661 original size:10 final size:10
Alignment explanation
Indices: 38139648--38139718 Score: 61
Period size: 10 Copynumber: 6.9 Consensus size: 10
38139638 CCAGTCCAGA
38139648 AAAAAAAAAG
1 AAAAAAAAAG
* *
38139658 AAAAAGAGAG
1 AAAAAAAAAG
*
38139668 AAAAAAGAAG
1 AAAAAAAAAG
**
38139678 AAAAAGGGAAG
1 AAAAA-AAAAG
* *
38139689 AAAGAAGAAGG
1 AAA-AAAAAAG
38139700 AAAAAAAAAG
1 AAAAAAAAAG
38139710 AAAAAAAAA
1 AAAAAAAAA
38139719 AGGTTTTAAT
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
10 34 0.69
11 13 0.27
12 2 0.04
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:38139671 original size:9 final size:10
Alignment explanation
Indices: 38139645--38139715 Score: 67
Period size: 11 Copynumber: 7.1 Consensus size: 10
38139635 AGCCCAGTCC
38139645 AGAA-AAAAA
1 AGAAGAAAAA
38139654 A-AAG-AAAA
1 AGAAGAAAAA
38139662 AGAGAGAAAAA
1 AGA-AGAAAAA
38139673 AGAAGAAAAA
1 AGAAGAAAAA
* *
38139683 GGGAAGAAAGA
1 -AGAAGAAAAA
38139694 AGAAGGAAAAA
1 AGAA-GAAAAA
*
38139705 AAAAGAAAAA
1 AGAAGAAAAA
38139715 A
1 A
38139716 AAAAGGTTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
8 7 0.14
9 2 0.04
10 19 0.37
11 23 0.45
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (10 bp):
AGAAGAAAAA
Found at i:38139671 original size:21 final size:21
Alignment explanation
Indices: 38139645--38139720 Score: 73
Period size: 20 Copynumber: 3.6 Consensus size: 21
38139635 AGCCCAGTCC
38139645 AGAAAAAAAAAAGAAAAAGAG
1 AGAAAAAAAAAAGAAAAAGAG
* *
38139666 AG-AAAAAAGAAGAAAAAGGG
1 AGAAAAAAAAAAGAAAAAGAG
* * * * *
38139686 AAGAAAGAAGAAGGAAAAAAAA
1 -AGAAAAAAAAAAGAAAAAGAG
38139708 AGAAAAAAAAAAG
1 AGAAAAAAAAAAG
38139721 GTTTTAATTT
Statistics
Matches: 41, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
20 16 0.39
21 14 0.34
22 11 0.27
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (21 bp):
AGAAAAAAAAAAGAAAAAGAG
Found at i:38139711 original size:32 final size:31
Alignment explanation
Indices: 38139655--38139714 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 31
38139645 AGAAAAAAAA
*
38139655 AAGAAAAAGAGAGAAAAAAGAAGAAAAAGGG
1 AAGAAAAAGAGAGAAAAAAAAAGAAAAAGGG
38139686 AAGAAAGAAGA-AGGAAAAAAAAAGAAAAA
1 AAGAAA-AAGAGA-GAAAAAAAAAGAAAAA
38139715 AAAAAGGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 7 0.27
32 19 0.73
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (31 bp):
AAGAAAAAGAGAGAAAAAAAAAGAAAAAGGG
Found at i:38140071 original size:18 final size:20
Alignment explanation
Indices: 38140032--38140076 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
38140022 ATCGAAAATA
38140032 TTCAAAAAAAATCTCATGTT
1 TTCAAAAAAAATCTCATGTT
*
38140052 TTCAAAAAAATTCT-AT-TT
1 TTCAAAAAAAATCTCATGTT
38140070 TTCAAAA
1 TTCAAAA
38140077 TTTTTCGTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 9 0.38
19 2 0.08
20 13 0.54
ACGTcount: A:0.47, C:0.13, G:0.02, T:0.38
Consensus pattern (20 bp):
TTCAAAAAAAATCTCATGTT
Found at i:38140098 original size:22 final size:21
Alignment explanation
Indices: 38140073--38140120 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
38140063 TCTATTTTTC
*
38140073 AAAATTTTTCGTGTCTTCAAAA
1 AAAATTTTTCGT-TCTTAAAAA
*
38140095 AAAATTTTTCGTTTTTAAAAA
1 AAAATTTTTCGTTCTTAAAAA
38140116 AAAAT
1 AAAAT
38140121 AGTCATGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (21 bp):
AAAATTTTTCGTTCTTAAAAA
Found at i:38140295 original size:18 final size:18
Alignment explanation
Indices: 38140272--38141009 Score: 571
Period size: 18 Copynumber: 41.6 Consensus size: 18
38140262 ATCTTTCCGC
38140272 GTTTTCAAAAATTTTCGT
1 GTTTTCAAAAATTTTCGT
**
38140290 GTTTTCAAAAATCCTCGT
1 GTTTTCAAAAATTTTCGT
*
38140308 GTTTTCAAAAA-TCTCG-
1 GTTTTCAAAAATTTTCGT
38140324 GTGTTTCAAAAATTTTCGT
1 GT-TTTCAAAAATTTTCGT
*
38140343 GTTTTCAAAAA-TTCCG-
1 GTTTTCAAAAATTTTCGT
** *
38140359 GTGATCCAAAATTTTCCGT
1 GTTTTCAAAAATTTT-CGT
* *
38140378 GTTTTCTAAAAATTTCCAT
1 GTTTTC-AAAAATTTTCGT
* *
38140397 G-TTTCTAAAATTTTTGT
1 GTTTTCAAAAATTTTCGT
*
38140414 G-TTTCAAAAATTTTCGA
1 GTTTTCAAAAATTTTCGT
*
38140431 GTTTTCAAAAATTTTTGT
1 GTTTTCAAAAATTTTCGT
* * *
38140449 ATTTTCAACAATTCTCGT
1 GTTTTCAAAAATTTTCGT
* *
38140467 G-TTTCACAAATTTTCTT
1 GTTTTCAAAAATTTTCGT
* **
38140484 GTTTT--AAATTTTTTAT
1 GTTTTCAAAAATTTTCGT
*
38140500 GTTTTAAAAAAAATTTCTCGT
1 GTTTT--CAAAAATTT-TCGT
*
38140521 G-TTTCAAAAATTGTCGT
1 GTTTTCAAAAATTTTCGT
*
38140538 GTTTT-AAAAATTTTTGT
1 GTTTTCAAAAATTTTCGT
*
38140555 G-TTTCTAAAATTTTCGT
1 GTTTTCAAAAATTTTCGT
*
38140572 -ATTTCAAAAATTTTCGT
1 GTTTTCAAAAATTTTCGT
* *
38140589 -ATTTC-AAAATTTTGCGC
1 GTTTTCAAAAATTTT-CGT
*
38140606 G-TTTCAAAAATCTTCGT
1 GTTTTCAAAAATTTTCGT
*
38140623 GTTTTCAAAAA-TTCCAGT
1 GTTTTCAAAAATTTTC-GT
* *
38140641 G-TTTCAAAAAATTCCTGT
1 GTTTTCAAAAATTTTC-GT
*
38140659 GTTTT-AAAAATTTCCGT
1 GTTTTCAAAAATTTTCGT
38140676 GTTTTCAAAAATTTTCGT
1 GTTTTCAAAAATTTTCGT
38140694 GTTTTCAAAAATTTTCGT
1 GTTTTCAAAAATTTTCGT
* **
38140712 -ATTTCAAAAATCCTCGT
1 GTTTTCAAAAATTTTCGT
*
38140729 GTTTTCAAAAATTTTGGT
1 GTTTTCAAAAATTTTCGT
*
38140747 GTTTT-GAAAATTTTCGT
1 GTTTTCAAAAATTTTCGT
* *
38140764 GTTTTCAAAAAAGTCTCGT
1 GTTTTC-AAAAATTTTCGT
*
38140783 G-TTTCATAAATTTTCGT
1 GTTTTCAAAAATTTTCGT
* * **
38140800 TTTCTTAAAAAATAAT--T
1 GTT-TTCAAAAATTTTCGT
*
38140817 G-TTTCAAAAATCTTCGT
1 GTTTTCAAAAATTTTCGT
* ** * *
38140834 GTTTTAAAAAAAAATGCAT
1 GTTTT-CAAAAATTTTCGT
*
38140853 GTGTTTCAAAAATCTTCGT
1 GT-TTTCAAAAATTTTCGT
*
38140872 GTTTTCAAAAA-TTCCGAT
1 GTTTTCAAAAATTTTCG-T
*
38140890 GTTTTCAAAAATTTTCAT
1 GTTTTCAAAAATTTTCGT
*
38140908 GTTTTCAAAAAATTCTCGT
1 GTTTTC-AAAAATTTTCGT
38140927 GTTTT-AAAAATTTTCGT
1 GTTTTCAAAAATTTTCGT
* *
38140944 GTTTTTTAAGAATTTTCGT
1 G-TTTTCAAAAATTTTCGT
* * *
38140963 G-TCTCTAAAATTCTCGT
1 GTTTTCAAAAATTTTCGT
38140980 GTTTT-AAAAATTTTTCGT
1 GTTTTCAAAAA-TTTTCGT
38140998 GTTTTCGAAAAA
1 GTTTTC-AAAAA
38141010 ATAATTGTTT
Statistics
Matches: 572, Mismatches: 104, Indels: 86
0.75 0.14 0.11
Matches are distributed among these distances:
15 9 0.02
16 34 0.06
17 200 0.35
18 222 0.39
19 80 0.14
20 24 0.04
21 3 0.01
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (18 bp):
GTTTTCAAAAATTTTCGT
Found at i:38140342 original size:53 final size:52
Alignment explanation
Indices: 38140274--38141035 Score: 483
Period size: 53 Copynumber: 14.4 Consensus size: 52
38140264 CTTTCCGCGT
* *
38140274 TTTCAAAAATTTTCGTGTTTTCAAAAATCCTCGTGTTTTCAAAAATCTCGGTG
1 TTTCAAAAATTTTCGTGTTTTCAAAAATTCTCGTGTTTTCAAAAATTTC-GTG
* * *
38140327 TTTCAAAAATTTTCGTGTTTTCAAAAATTC-CG-GTGATCCAAAATTTTCCGTG
1 TTTCAAAAATTTTCGTGTTTTCAAAAATTCTCGTGT-TTTCAAAAATTT-CGTG
* * * * * *
38140379 TTTTCTAAAAATTTCCATG-TTTCTAAAATTTTTGTG-TTTCAAAAATTTTCGAG
1 -TTTC-AAAAATTTTCGTGTTTTCAAAAATTCTCGTGTTTTCAAAAA-TTTCGTG
* * * * *
38140432 TTTTCAAAAATTTTTGTATTTTCAACAATTCTCGTG-TTTCACAAATTTTCTTG
1 -TTTCAAAAATTTTCGTGTTTTCAAAAATTCTCGTGTTTTCA-AAAATTTCGTG
* * ** *
38140485 TTT-TAAATTTTTTATGTTTTAAAAAAAATTTCTCGTG-TTTCAAAAATTGTCGTG
1 TTTCAAAAATTTTCGTGTTTT--CAAAAA-TTCTCGTGTTTTCAAAAATT-TCGTG
* * * * * *
38140539 TTTTAAAAATTTTTGTG-TTTCTAAAATTTTCGT-ATTTCAAAAATTTTCGTA
1 TTTCAAAAATTTTCGTGTTTTCAAAAATTCTCGTGTTTTCAAAAA-TTTCGTG
* *
38140590 TTTC-AAAATTTTGCGCG-TTTCAAAAA-TCTTCGTGTTTTCAAAAATTCCAGTG
1 TTTCAAAAATTTT-CGTGTTTTCAAAAATTC-TCGTGTTTTCAAAAATTTC-GTG
* *
38140642 TTTCAAAAAATTCCTGTGTTTT-AAAAATT-TCCGTGTTTTCAAAAATTTTCGTG
1 TTTCAAAAATTTTC-GTGTTTTCAAAAATTCT-CGTGTTTTCAAAAA-TTTCGTG
* * *
38140695 TTTTCAAAAATTTTCGT-ATTTCAAAAATCCTCGTGTTTTCAAAAATTTTGGTG
1 -TTTCAAAAATTTTCGTGTTTTCAAAAATTCTCGTGTTTTCAAAAA-TTTCGTG
** * *
38140748 TTTTGAAAATTTTCGTGTTTTCAAAAAAGTCTCGTG-TTTCATAAATTTTCGT-
1 TTTCAAAAATTTTCGTGTTTTC-AAAAATTCTCGTGTTTTCA-AAAATTTCGTG
** * * *
38140800 TTTCTTAAAAAATAAT--TG-TTTCAAAAA-TCTTCGTGTTTTAAAAAAAAATGCATGTG
1 TTTC---AAAAATTTTCGTGTTTTCAAAAATTC-TCGTGTTTT--CAAAAATTTC--GTG
* *
38140856 TTTCAAAAATCTTCGTGTTTTCAAAAATTC-CGATGTTTTCAAAAATTTTCATG
1 TTTCAAAAATTTTCGTGTTTTCAAAAATTCTCG-TGTTTTCAAAAA-TTTCGTG
* * * *
38140909 TTTTCAAAAAATTCTCGTGTTTT-AAAAATTTTCGTGTTTTTTAAGAATTTTCGTG
1 -TTTC-AAAAATTTTCGTGTTTTCAAAAATTCTCGTG-TTTTCAA-AAATTTCGTG
* * * * * ***
38140964 TCTCTAAAATTCTCGTGTTTT-AAAAATTTTTCGTGTTTTCGAAAAAATAATTG
1 TTTCAAAAATTTTCGTGTTTTCAAAAA-TTCTCGTGTTTTC-AAAAATTTCGTG
*
38141017 TTTCAAAAATATTCGTGTT
1 TTTCAAAAATTTTCGTGTT
38141036 AAAAAAAATT
Statistics
Matches: 558, Mismatches: 96, Indels: 110
0.73 0.13 0.14
Matches are distributed among these distances:
50 11 0.02
51 64 0.11
52 75 0.13
53 224 0.40
54 107 0.19
55 54 0.10
56 21 0.04
57 2 0.00
ACGTcount: A:0.30, C:0.12, G:0.11, T:0.46
Consensus pattern (52 bp):
TTTCAAAAATTTTCGTGTTTTCAAAAATTCTCGTGTTTTCAAAAATTTCGTG
Found at i:38140343 original size:35 final size:34
Alignment explanation
Indices: 38140272--38141001 Score: 544
Period size: 35 Copynumber: 20.6 Consensus size: 34
38140262 ATCTTTCCGC
**
38140272 GTTTTCAAAAATTTTCGTGTTTTCAAAAATCCTCGT
1 GTTTTCAAAAA-TTTCGTG-TTTCAAAAATTTTCGT
*
38140308 GTTTTCAAAAATCTCGGTGTTTCAAAAATTTTCGT
1 GTTTTCAAAAATTTC-GTGTTTCAAAAATTTTCGT
* * *
38140343 GTTTTCAAAAATTCCG-GTGATCCAAAATTTTCCGT
1 GTTTTCAAAAATTTCGTGT-TTCAAAAATTTT-CGT
* * *
38140378 GTTTTCTAAAAATTTCCATGTTTCTAAAATTTTTGT
1 GTTTTC-AAAAATTT-CGTGTTTCAAAAATTTTCGT
* *
38140414 G-TTTCAAAAATTTTCGAGTTTTCAAAAATTTTTGT
1 GTTTTCAAAAA-TTTCGTG-TTTCAAAAATTTTCGT
* * * *
38140449 ATTTTCAACAATTCTCGTGTTTCACAAATTTTCTT
1 GTTTTCAAAAATT-TCGTGTTTCAAAAATTTTCGT
** ** *
38140484 GTTTT-AAATTTTTTATGTTTTAAAAAAAATTTCTCGT
1 GTTTTCAAAAATTTCGTG-TTT--CAAAAATTT-TCGT
* *
38140521 G-TTTCAAAAATTGTCGTGTTTTAAAAATTTTTGT
1 GTTTTCAAAAATT-TCGTGTTTCAAAAATTTTCGT
* *
38140555 G-TTTCTAAAATTTTCGTATTTCAAAAATTTTCGT
1 GTTTTC-AAAAATTTCGTGTTTCAAAAATTTTCGT
* * * *
38140589 -ATTTCAAAATTTTGCGCGTTTCAAAAATCTTCGT
1 GTTTTCAAAAATTT-CGTGTTTCAAAAATTTTCGT
* * *
38140623 GTTTTCAAAAATTCCAGTGTTTCAAAAAATTCCTGT
1 GTTTTCAAAAATTTC-GTGTTTCAAAAATTTTC-GT
38140659 GTTTT-AAAAATTTCCGTGTTTTCAAAAATTTTCGT
1 GTTTTCAAAAATTT-CGTG-TTTCAAAAATTTTCGT
* **
38140694 GTTTTCAAAAATTTTCGTATTTCAAAAATCCTCGT
1 GTTTTCAAAAA-TTTCGTGTTTCAAAAATTTTCGT
* **
38140729 GTTTTCAAAAATTTTGGTGTTTTGAAAATTTTCGT
1 GTTTTCAAAAA-TTTCGTGTTTCAAAAATTTTCGT
* *
38140764 GTTTTCAAAAAAGTCTCGTGTTTCATAAATTTTCGT
1 GTTTTC-AAAAA-TTTCGTGTTTCAAAAATTTTCGT
* * * *
38140800 TTTCTTAAAAAATAAT--TGTTTCAAAAATCTTCGT
1 GTT-TTCAAAAAT-TTCGTGTTTCAAAAATTTTCGT
* * * *
38140834 GTTTTAAAAAAAAATGCATGTGTTTCAAAAATCTTCGT
1 GTTTT--CAAAAATTTC--GTGTTTCAAAAATTTTCGT
* *
38140872 GTTTTCAAAAATTCCGATGTTTTCAAAAATTTTCAT
1 GTTTTCAAAAATTTCG-TG-TTTCAAAAATTTTCGT
*
38140908 GTTTTCAAAAAATTCTCGTGTTTTAAAAATTTTCGT
1 GTTTTC-AAAAATT-TCGTGTTTCAAAAATTTTCGT
* * * * *
38140944 GTTTTTTAAGAATTTTCGTGTCTCTAAAATTCTCGT
1 G-TTTTCAA-AAATTTCGTGTTTCAAAAATTTTCGT
38140980 GTTTT-AAAAATTTTTCGTGTTT
1 GTTTTCAAAAA--TTTCGTGTTT
38141002 TCGAAAAAAT
Statistics
Matches: 558, Mismatches: 93, Indels: 87
0.76 0.13 0.12
Matches are distributed among these distances:
33 17 0.03
34 94 0.17
35 205 0.37
36 167 0.30
37 45 0.08
38 30 0.05
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (34 bp):
GTTTTCAAAAATTTCGTGTTTCAAAAATTTTCGT
Found at i:38140494 original size:15 final size:16
Alignment explanation
Indices: 38140474--38140507 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
38140464 CGTGTTTCAC
38140474 AAATTTTCT-TGTTTT
1 AAATTTTCTATGTTTT
*
38140489 AAATTTTTTATGTTTT
1 AAATTTTCTATGTTTT
38140505 AAA
1 AAA
38140508 AAAAATTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.62
Consensus pattern (16 bp):
AAATTTTCTATGTTTT
Found at i:38144445 original size:21 final size:22
Alignment explanation
Indices: 38144419--38144465 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
38144409 CTTAAACCCA
*
38144419 TTACCCAA-AAATTAAAAAATC
1 TTACCCAACAAAATAAAAAATC
*
38144440 TTACCCAACTAAAATATAAAATC
1 TTACCCAAC-AAAATAAAAAATC
38144463 TTA
1 TTA
38144466 AAAATTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 8 0.36
23 14 0.64
ACGTcount: A:0.53, C:0.19, G:0.00, T:0.28
Consensus pattern (22 bp):
TTACCCAACAAAATAAAAAATC
Found at i:38154177 original size:12 final size:12
Alignment explanation
Indices: 38154160--38154185 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
38154150 AGGATATGCA
38154160 ATCTTAGATATG
1 ATCTTAGATATG
38154172 ATCTTAGATATG
1 ATCTTAGATATG
38154184 AT
1 AT
38154186 ATATGCAATC
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:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (12 bp):
ATCTTAGATATG
Found at i:38154222 original size:23 final size:24
Alignment explanation
Indices: 38154177--38154223 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
38154167 ATATGATCTT
38154177 AGATATGATATATGCAATCTTAGA
1 AGATATGATATATGCAATCTTAGA
* *
38154201 AGATATGAT-TTTGTAATCTTAGA
1 AGATATGATATATGCAATCTTAGA
38154224 GATTTAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.38
Consensus pattern (24 bp):
AGATATGATATATGCAATCTTAGA
Found at i:38154544 original size:3 final size:3
Alignment explanation
Indices: 38154536--38154577 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
38154526 TGTTATTAAG
* *
38154536 TTA TTA TTA TTA TCA TTA TCA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
38154578 CTATATATAC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:38155876 original size:18 final size:18
Alignment explanation
Indices: 38155836--38155878 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
38155826 AAACAAATTT
*
38155836 ATAAATATATATATAAAAT
1 ATAAA-ATATATATAAAAG
38155855 ATAAAATATATA-AAAGAG
1 ATAAAATATATATAAA-AG
38155873 ATAAAA
1 ATAAAA
38155879 AATAATAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 3 0.14
18 14 0.64
19 5 0.23
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (18 bp):
ATAAAATATATATAAAAG
Found at i:38157594 original size:132 final size:132
Alignment explanation
Indices: 38157448--38157707 Score: 439
Period size: 132 Copynumber: 2.0 Consensus size: 132
38157438 AGGAATACTG
* *
38157448 GCTTCAATGTACTCCACTATAACCTCAGGGAGGTAAATTCTGCCATCTTTGATCTGCTCCACTAC
1 GCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTAC
* * *
38157513 TGCTTAGGGAGATAAGATCTAAAATCCTCAATCTATTCCACTGCTGCCTAGGGAAGTAGAATTTC
66 TGCTTAGGGAGACAAGATCTAAAATACTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTTC
38157578 TA
131 TA
* *
38157580 GCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTTC
1 GCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTAC
* *
38157645 TGCTTAGGGAGACAAGATCTAAAATATTCAATCTATTCCGCTGCTGCCCAGGGAAGTAGAATT
66 TGCTTAGGGAGACAAGATCTAAAATACTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATT
38157708 ACTGGCGATC
Statistics
Matches: 119, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 119 1.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (132 bp):
GCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTAC
TGCTTAGGGAGACAAGATCTAAAATACTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTTC
TA
Found at i:38157777 original size:44 final size:43
Alignment explanation
Indices: 38157713--38158035 Score: 322
Period size: 44 Copynumber: 7.3 Consensus size: 43
38157703 GAATTACTGG
38157713 CGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTGTCTT
1 CGATCTACTTCACGCCAATACATGAAGACAAGATCTGTT-TCTT
* *
38157757 TGATCTACTTCACGCCAATACATGAAGACAAGATTTGTTTTCTT
1 CGATCTACTTCACGCCAATACATGAAGACAAGATCTG-TTTCTT
*
38157801 CGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTT
1 CGATCTACTTCACGCCAATACATGAAGACAAGATCTG-TTTCTT
*
38157845 TGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
1 CGATCTACTTCACGCCAATACATGAAGACAAGATCTG-TTTCTT
* * * * *** *
38157889 GGATCTACTTCGCCACCAGTATGGGAAGACAATATCTGCTTTCTT
1 CGATCTACTTC-ACGCCAATACATGAAGACAAGATCTG-TTTCTT
* * * * * *** * * * *
38157934 CAATCTAATCCACCACCAGTATGGGGAGACAATATCTATTGTATT
1 CGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGTT-TCTT
* * *
38157979 TGATCTACTTCACGCCGATACATGAAGACAAGATATGTTTTCTT
1 CGATCTACTTCACGCCAATACATGAAGACAAGATCTG-TTTCTT
38158023 CGATCTACTTCAC
1 CGATCTACTTCAC
38158036 CACCAGTATG
Statistics
Matches: 234, Mismatches: 40, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
44 163 0.70
45 71 0.30
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.31
Consensus pattern (43 bp):
CGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTCTT
Found at i:38158021 original size:134 final size:133
Alignment explanation
Indices: 38157714--38158080 Score: 412
Period size: 134 Copynumber: 2.8 Consensus size: 133
38157704 AATTACTGGC
* * * * * **
38157714 GATCTACTTCACGCCAATACATGAAGACAAGATCTGTTGTCTTTGATCTACTTCACGCCAATACA
1 GATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCCCACCAGTATG
* * * * * * * * * *
38157779 TGAAGACAAGATTTGTTTTCTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGCTATC
66 GGAAGACAAGATCTGATTTCTTCAATCTAATCCACCACCAATACAGGAAGACAAGATCTACTATA
38157843 TTT
131 TTT
* *
38157846 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTGGATCTACTTCGCCACCAGTAT
1 GATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTC-CCACCAGTAT
* * * ** * * * *
38157911 GGGAAGACAATATCTGCTTTCTTCAATCTAATCCACCACCAGTATGGGGAGACAATATCTATTGT
65 GGGAAGACAAGATCTGATTTCTTCAATCTAATCCACCACCAATACAGGAAGACAAGATCTACTAT
38157976 ATTT
130 ATTT
* *
38157980 GATCTACTTCACGCCGATACATGAAGACAAGATATGTTTTCTTCGATCTACTTCACCACCAGTAT
1 GATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTC-CCACCAGTAT
* * *
38158045 GGGAAGACAAGATCTGATATCTTTAATCTATTCCAC
65 GGGAAGACAAGATCTGATTTCTTCAATCTAATCCAC
38158081 TGCTGCCTAG
Statistics
Matches: 197, Mismatches: 36, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
132 51 0.26
133 33 0.17
134 113 0.57
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (133 bp):
GATCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCCCACCAGTATG
GGAAGACAAGATCTGATTTCTTCAATCTAATCCACCACCAATACAGGAAGACAAGATCTACTATA
TTT
Found at i:38158446 original size:132 final size:132
Alignment explanation
Indices: 38158049--38158435 Score: 648
Period size: 132 Copynumber: 2.9 Consensus size: 132
38158039 CAGTATGGGA
* * * *
38158049 AGACAAGATCTGATATCTTTAATCTATTCCACTGCTGCCTAGGAAAGTAGAATTACTGGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCCTAGGGAAGTAGAATTACTGGCTTCAA
* *
38158114 TGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATATTTGATCTGCTCTACTACTGCTTAG
66 TGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAG
38158179 GG
131 GG
* *
38158181 AGACAAGATCTGAACTCTTCAATCTATTCCGCTGCTGCCTAGAGAAGTAGAATTACTGGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCCTAGGGAAGTAGAATTACTGGCTTCAA
* * *
38158246 TGTACTCCACTGTAACCACAGGGAGGTAAAATATGCCATCTTTAATCTGCTCCACTATTGCTTAG
66 TGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAG
38158311 GG
131 GG
* *
38158313 AGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCCCAGGGAAGTAGAATTACTAGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCCTAGGGAAGTAGAATTACTGGCTTCAA
*
38158378 TGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTTGATCTGCTCCACTAC
66 TGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTAC
38158436 AACTGAGGGA
Statistics
Matches: 236, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 236 1.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (132 bp):
AGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCCTAGGGAAGTAGAATTACTGGCTTCAA
TGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAG
GG
Found at i:38159759 original size:14 final size:13
Alignment explanation
Indices: 38159728--38159760 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
38159718 CCATTTTCTT
38159728 TTTTCATTTTTCA
1 TTTTCATTTTTCA
38159741 TTTTCATCTTTTCA
1 TTTTCAT-TTTTCA
38159755 TTTTCA
1 TTTTCA
38159761 CATCATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.15, C:0.18, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTTCATTTTTCA
Found at i:38159760 original size:6 final size:7
Alignment explanation
Indices: 38159721--38159758 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
38159711 AGCCTCTCCA
*
38159721 TTTTCTT
1 TTTTCAT
38159728 TTTTCAT
1 TTTTCAT
38159735 TTTTCA-
1 TTTTCAT
38159741 TTTTCAT
1 TTTTCAT
38159748 CTTTTCAT
1 -TTTTCAT
38159756 TTT
1 TTT
38159759 CACATCATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
6 6 0.21
7 15 0.54
8 7 0.25
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTCAT
Found at i:38168491 original size:3 final size:3
Alignment explanation
Indices: 38168483--38168518 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
38168473 ATGCATAAAT
*
38168483 ATA ATA ATA ATA ATA AT- ATA AGA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
38168519 CAATTCAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:38168502 original size:17 final size:17
Alignment explanation
Indices: 38168480--38168517 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
38168470 TATATGCATA
*
38168480 AATATAATAATAATAAT
1 AATATAAGAATAATAAT
38168497 AATATAAGAATAATAAT
1 AATATAAGAATAATAAT
38168514 AATA
1 AATA
38168518 ACAATTCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (17 bp):
AATATAAGAATAATAAT
Done.