Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 117 of 168
Found at i:34098868 original size:17 final size:17
Alignment explanation
Indices: 34098828--34098861 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
34098818 TTGTTATAAA
34098828 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
34098845 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
34098862 TGTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:34098975 original size:54 final size:54
Alignment explanation
Indices: 34098785--34098980 Score: 135
Period size: 54 Copynumber: 3.4 Consensus size: 54
34098775 TATTAATATA
* * * * * *
34098785 AATAATAAATAATTTAATCATATTTTAACATAATTGTTATAAAATATAATTTAAT
1 AATAATAAATAATTAAAT-AAAATTTAAAATAATTATTATTAAATATAATTTAAT
* * * ** *
34098840 AA-AATATATAATTTAATAAAATTGTTAATAA-ATATTCTTATATAAATTTACTAATAAAAC
1 AATAATAAATAATTAAATAAAA-T-TTAA-AATA-ATTATTAT-TAAA--TA-TAATTTAAT
* * *
34098900 CATAATATATAATACTAAAATATAATTTAAAATAATTATTATTAAATATAATTTAAT
1 AATAATAAATAAT--T-AAATAAAATTTAAAATAATTATTATTAAATATAATTTAAT
34098957 AATAATAAATAATTAAATAAAATT
1 AATAATAAATAATTAAATAAAATT
34098981 CTTATTCTTA
Statistics
Matches: 109, Mismatches: 19, Indels: 27
0.70 0.12 0.17
Matches are distributed among these distances:
53 2 0.02
54 24 0.22
55 8 0.07
56 8 0.07
57 20 0.18
58 2 0.02
59 2 0.02
60 11 0.10
61 19 0.17
62 5 0.05
63 2 0.02
64 6 0.06
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.41
Consensus pattern (54 bp):
AATAATAAATAATTAAATAAAATTTAAAATAATTATTATTAAATATAATTTAAT
Found at i:34099059 original size:32 final size:32
Alignment explanation
Indices: 34099023--34099086 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 32
34099013 TATATAATAC
*
34099023 TATAAAATATAATTTAAATAATTATTATTAAA
1 TATAAAATATAATATAAATAATTATTATTAAA
** ** *
34099055 TATAATTTATAATATACTTTATTATTATTAAA
1 TATAAAATATAATATAAATAATTATTATTAAA
34099087 CTGCAATACA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (32 bp):
TATAAAATATAATATAAATAATTATTATTAAA
Found at i:34100498 original size:49 final size:49
Alignment explanation
Indices: 34100426--34100529 Score: 145
Period size: 49 Copynumber: 2.1 Consensus size: 49
34100416 GAAAAAAAAC
* * ** * *
34100426 AAATTAAAATTAAGTTTAATATCATGAATCAAAAGGTGAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATAAAAAACTCAACACTGTATA
*
34100475 AAATTAAAATTGAGTTCAATATCATGAATAAAAAACTCAACACTGTATA
1 AAATTAAAATTAAGTTCAATATCATGAATAAAAAACTCAACACTGTATA
34100524 AAATTA
1 AAATTA
34100530 TAACACATGA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.51, C:0.10, G:0.09, T:0.31
Consensus pattern (49 bp):
AAATTAAAATTAAGTTCAATATCATGAATAAAAAACTCAACACTGTATA
Found at i:34113276 original size:33 final size:33
Alignment explanation
Indices: 34113233--34113295 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
34113223 GGCTCCTCTG
34113233 GTCTTCTGCTTCGCTGCTTCTGCTGTCTCCATT
1 GTCTTCTGCTTCGCTGCTTCTGCTGTCTCCATT
* *
34113266 GTCTTTTGCTTCGCTGCTTCTGCTTTCTCC
1 GTCTTCTGCTTCGCTGCTTCTGCTGTCTCC
34113296 TTCATGCTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.02, C:0.33, G:0.17, T:0.48
Consensus pattern (33 bp):
GTCTTCTGCTTCGCTGCTTCTGCTGTCTCCATT
Found at i:34119465 original size:21 final size:20
Alignment explanation
Indices: 34119440--34119491 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
34119430 ATTTAAGTAT
34119440 ATTTAAATTTTATATAATATA
1 ATTTAAATTTTATATAATA-A
* ** *
34119461 ATTTACATAATATATTATAA
1 ATTTAAATTTTATATAATAA
*
34119481 ATTTGAATTTT
1 ATTTAAATTTT
34119492 CTTCTTATGA
Statistics
Matches: 23, Mismatches: 8, Indels: 1
0.72 0.25 0.03
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (20 bp):
ATTTAAATTTTATATAATAA
Found at i:34123087 original size:7 final size:7
Alignment explanation
Indices: 34123075--34123106 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
34123065 TGATCTGATC
34123075 AGTGACA
1 AGTGACA
34123082 AGTGACA
1 AGTGACA
34123089 AGTGACA
1 AGTGACA
*
34123096 AGTGATA
1 AGTGACA
34123103 AGTG
1 AGTG
34123107 GTAGCTTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.41, C:0.09, G:0.31, T:0.19
Consensus pattern (7 bp):
AGTGACA
Found at i:34132098 original size:30 final size:30
Alignment explanation
Indices: 34132057--34132137 Score: 103
Period size: 30 Copynumber: 2.7 Consensus size: 30
34132047 GGCCCATTTT
34132057 TATTTTAAAAAT-TTTTAAAAATTAAAAACA
1 TATTTTAAAAATATTTT-AAAATTAAAAACA
*
34132087 TATTTTTAAAATATTTTAAAATTAAAAA-A
1 TATTTTAAAAATATTTTAAAATTAAAAACA
* *
34132116 AATTTAAAAAAGTATTTTAAAA
1 TATTTTAAAAA-TATTTTAAAA
34132138 ATATTTTAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
29 9 0.20
30 32 0.71
31 4 0.09
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (30 bp):
TATTTTAAAAATATTTTAAAATTAAAAACA
Found at i:34132117 original size:40 final size:38
Alignment explanation
Indices: 34132058--34132231 Score: 165
Period size: 40 Copynumber: 4.4 Consensus size: 38
34132048 GCCCATTTTT
***
34132058 ATTTTAAAAATTTTTAAAAATTAAAAACA-TATTTTTAAA
1 ATTTTAAAAATTAAAAAAAATTAAAAA-AGTA-TTTTAAA
*
34132097 ATATTTTAAAATTAAAAAAAATTTAAAAAAGTATTTTAAAA
1 AT-TTTAAAAATTAAAAAAAA-TTAAAAAAGTATTTT-AAA
*
34132138 ATATTTTAAAATT-AAAAAAATTAAAAAAAGTATTTTAAA
1 AT-TTTAAAAATTAAAAAAAATT-AAAAAAGTATTTTAAA
* *
34132177 ATTTAAAAAAATTAAAAAAGTATCTAAAAAA-TATTTTAAA
1 ATTT-TAAAAATTAAAAAA-AAT-TAAAAAAGTATTTTAAA
*
34132217 ATTTTAAAAAATAAA
1 ATTTTAAAAATTAAA
34132232 TATATTTATT
Statistics
Matches: 117, Mismatches: 9, Indels: 18
0.81 0.06 0.12
Matches are distributed among these distances:
38 2 0.02
39 24 0.21
40 57 0.49
41 33 0.28
42 1 0.01
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.37
Consensus pattern (38 bp):
ATTTTAAAAATTAAAAAAAATTAAAAAAGTATTTTAAA
Found at i:34132137 original size:11 final size:11
Alignment explanation
Indices: 34132057--34132148 Score: 65
Period size: 11 Copynumber: 8.9 Consensus size: 11
34132047 GGCCCATTTT
34132057 TATTTTAAAAA
1 TATTTTAAAAA
34132068 T-TTTT-AAAA
1 TATTTTAAAAA
*
34132077 -A-TTAAAAACA
1 TATTTTAAAA-A
*
34132087 TATTTTTAAAA
1 TATTTTAAAAA
34132098 TATTTT--AAA
1 TATTTTAAAAA
*
34132107 -A-TTAAAAAA
1 TATTTTAAAAA
* *
34132116 AATTTAAAAAA
1 TATTTTAAAAA
34132127 GTATTTTAAAAA
1 -TATTTTAAAAA
34132139 TATTTTAAAA
1 TATTTTAAAA
34132149 TTAAAAAAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
7 2 0.03
8 3 0.05
9 13 0.20
10 6 0.09
11 27 0.42
12 14 0.22
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:34132166 original size:29 final size:30
Alignment explanation
Indices: 34132134--34132195 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
34132124 AAAGTATTTT
34132134 AAAAATATTTTAAAA-TTAAAAAAATTAAA
1 AAAAATATTTTAAAATTTAAAAAAATTAAA
*
34132163 AAAAGTATTTTAAAATTTAAAAAAATTAAA
1 AAAAATATTTTAAAATTTAAAAAAATTAAA
34132193 AAA
1 AAA
34132196 GTATCTAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 14 0.45
30 17 0.55
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.31
Consensus pattern (30 bp):
AAAAATATTTTAAAATTTAAAAAAATTAAA
Found at i:34132206 original size:29 final size:30
Alignment explanation
Indices: 34132145--34132206 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 30
34132135 AAAATATTTT
* *
34132145 AAAA-TTAAAAAAATTAAAAAAAGTATTTT
1 AAAATTTAAAAAAATTAAAAAAAGTATCTA
34132174 AAAATTTAAAAAAATT-AAAAAAGTATCTA
1 AAAATTTAAAAAAATTAAAAAAAGTATCTA
34132203 AAAA
1 AAAA
34132207 ATATTTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 19 0.63
30 11 0.37
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (30 bp):
AAAATTTAAAAAAATTAAAAAAAGTATCTA
Found at i:34132208 original size:30 final size:30
Alignment explanation
Indices: 34132112--34132208 Score: 92
Period size: 30 Copynumber: 3.2 Consensus size: 30
34132102 TTAAAATTAA
**
34132112 AAAAAATTTAAAAAAGTATTTTAAAAA-TATT
1 AAAAAATTTAAAAAA--ATTAAAAAAAGTATT
**
34132143 TTAAAA-TTAAAAAAATTAAAAAAAGTATT
1 AAAAAATTTAAAAAAATTAAAAAAAGTATT
**
34132172 TTAAAATTTAAAAAAATT-AAAAAAGTATCT
1 AAAAAATTTAAAAAAATTAAAAAAAGTAT-T
34132202 AAAAAAT
1 AAAAAAT
34132209 ATTTTAAAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
28 8 0.14
29 20 0.35
30 25 0.44
31 4 0.07
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (30 bp):
AAAAAATTTAAAAAAATTAAAAAAAGTATT
Found at i:34145728 original size:21 final size:21
Alignment explanation
Indices: 34145704--34145750 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
34145694 TATTATAATA
34145704 ATTT-GATTTTACATTATATGT
1 ATTTAGATTTTA-ATTATATGT
* *
34145725 ATTTATATTTTAATTATATTT
1 ATTTAGATTTTAATTATATGT
34145746 ATTTA
1 ATTTA
34145751 TAAATTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (21 bp):
ATTTAGATTTTAATTATATGT
Found at i:34145751 original size:21 final size:22
Alignment explanation
Indices: 34145709--34145752 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
34145699 TAATAATTTG
34145709 ATTTTACATTATATGTATTTAT
1 ATTTTACATTATATGTATTTAT
*
34145731 ATTTTA-ATTATATTTATTTAT
1 ATTTTACATTATATGTATTTAT
34145752 A
1 A
34145753 AATTTTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (22 bp):
ATTTTACATTATATGTATTTAT
Found at i:34146559 original size:24 final size:24
Alignment explanation
Indices: 34146532--34146602 Score: 67
Period size: 23 Copynumber: 2.9 Consensus size: 24
34146522 AAAAATACTA
*
34146532 AAATTTCTCTTTTTTAT-TTTTAGT
1 AAATTT-TATTTTTTATATTTTAGT
34146556 AAATTTTATTTTTTATATTTTA-T
1 AAATTTTATTTTTTATATTTTAGT
*
34146579 AAGTTTT-TTGTTTTAATAATTTTA
1 AAATTTTATT-TTTT-AT-ATTTTA
34146603 ATAATTTGGA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
22 2 0.05
23 20 0.49
24 13 0.32
25 6 0.15
ACGTcount: A:0.27, C:0.03, G:0.04, T:0.66
Consensus pattern (24 bp):
AAATTTTATTTTTTATATTTTAGT
Found at i:34153271 original size:9 final size:9
Alignment explanation
Indices: 34153257--34153288 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
34153247 CAGGTTAAGA
34153257 TTTTTAGGG
1 TTTTTAGGG
*
34153266 TTTTTAGGA
1 TTTTTAGGG
34153275 TTTTTAGGG
1 TTTTTAGGG
34153284 TTTTT
1 TTTTT
34153289 GGAGAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.12, C:0.00, G:0.25, T:0.62
Consensus pattern (9 bp):
TTTTTAGGG
Found at i:34153742 original size:126 final size:125
Alignment explanation
Indices: 34153397--34153839 Score: 617
Period size: 127 Copynumber: 3.5 Consensus size: 125
34153387 AATAAAATCA
* * * * * * *
34153397 AAGCAGGATGATTTATCAGAAGGATTTTTGAAGTCGCGCCCAT-GTGTACGCGTTTTTGCTACAG
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCG-CCATCGTGGACGCGCTTTTGCTACAG
* * *
34153461 TAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTCAGCAAATAGTTTAAAAAACACTTC
65 TAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTAAGCAAATAGTATAAAAAACGCTTC
*
34153522 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCATCGTGGACGCGCTTTTGCTACAGT
* * * *
34153587 TGGTTCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAACAACGCTAC
66 AGGTCCTGGAA-AAATAATTTCGAGTTGACGTTTCTAAGCAAATAGTATAAAA-AACGCTTC
* *
34153649 AAGCAGGATGCTATT-TGAGAAGAATTTGTGAAATCGTGTCATCGTGGACGCGCTTTTGCTACAG
1 AAGCAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCATCGTGGACGCGCTTTTGCTACAG
* *
34153713 TAGGTCCTGGAAAAATAA-TTCTGACTTGACGTTTCTAAGCAAATAGTAT-AAAATCGCTTC
65 TAGGTCCTGGAAAAATAATTTC-GAGTTGACGTTTCTAAGCAAATAGTATAAAAAACGCTTC
*
34153773 TAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCA-CGTGGACGCGCTTTTGCTACAG
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCG-CCATCGTGGACGCGCTTTTGCTACAG
34153837 TAG
65 TAG
34153840 CATGTTTGGG
Statistics
Matches: 285, Mismatches: 26, Indels: 15
0.87 0.08 0.05
Matches are distributed among these distances:
123 2 0.01
124 67 0.24
125 70 0.25
126 70 0.25
127 74 0.26
128 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.30
Consensus pattern (125 bp):
AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCATCGTGGACGCGCTTTTGCTACAGT
AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTAAGCAAATAGTATAAAAAACGCTTC
Found at i:34156255 original size:20 final size:20
Alignment explanation
Indices: 34156218--34156255 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
34156208 TTTATTTTTA
*
34156218 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
34156238 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
34156256 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:34157256 original size:11 final size:11
Alignment explanation
Indices: 34157242--34157296 Score: 60
Period size: 11 Copynumber: 4.9 Consensus size: 11
34157232 TTAAATATGG
34157242 ATTTGAGAGAA
1 ATTTGAGAGAA
*
34157253 ATTTG-GAAGGA
1 ATTTGAG-AGAA
34157264 ATTTGAGAGCAA
1 ATTTGAGAG-AA
34157276 A-TTGAGAGGAA
1 ATTTGAGA-GAA
34157287 ATTTGAGAGA
1 ATTTGAGAGA
34157297 GGATTAGTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
10 1 0.03
11 26 0.70
12 10 0.27
ACGTcount: A:0.42, C:0.02, G:0.31, T:0.25
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:34157289 original size:23 final size:22
Alignment explanation
Indices: 34157242--34157296 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
34157232 TTAAATATGG
34157242 ATTTGAGAGAAATTTGGAAGGA
1 ATTTGAGAGAAATTTGGAAGGA
34157264 ATTTGAGAGCAAA-TT-GAGAGGAA
1 ATTTGAGAG-AAATTTGGA-AGG-A
34157287 ATTTGAGAGA
1 ATTTGAGAGA
34157297 GGATTAGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
21 2 0.07
22 15 0.50
23 13 0.43
ACGTcount: A:0.42, C:0.02, G:0.31, T:0.25
Consensus pattern (22 bp):
ATTTGAGAGAAATTTGGAAGGA
Found at i:34158665 original size:2 final size:2
Alignment explanation
Indices: 34158655--34158688 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
34158645 TGGTTTTTTT
*
34158655 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
34158689 AAACACTAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:34166219 original size:41 final size:41
Alignment explanation
Indices: 34166174--34166276 Score: 127
Period size: 41 Copynumber: 2.5 Consensus size: 41
34166164 GTGATAATCG
* * * ** *
34166174 GGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATATCA
1 GGCTTTAAGCCTAGCAGGCTTAATACCGGTGAACCATAACA
*
34166215 GGCTTTAAGCCTAGCAGGCTTAATACCGGTGTACCATAACA
1 GGCTTTAAGCCTAGCAGGCTTAATACCGGTGAACCATAACA
34166256 GGCTTTACA-CCTAGCAGGCTT
1 GGCTTTA-AGCCTAGCAGGCTT
34166277 CGTGCCAGTG
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
41 53 0.98
42 1 0.02
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.29
Consensus pattern (41 bp):
GGCTTTAAGCCTAGCAGGCTTAATACCGGTGAACCATAACA
Found at i:34171517 original size:2 final size:2
Alignment explanation
Indices: 34171512--34171536 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
34171502 AAAAAAAAAA
34171512 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
34171537 AAAACATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:34175311 original size:37 final size:37
Alignment explanation
Indices: 34175250--34175381 Score: 214
Period size: 37 Copynumber: 3.6 Consensus size: 37
34175240 TACGTATGAT
* *
34175250 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
34175285 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
34175322 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
34175359 CACTTATCACTTTGTTTCTTGAT
1 CACTTATCACTTTGTTTCTTGAT
34175382 NNNNNNNNNN
Statistics
Matches: 89, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 9 0.10
36 3 0.03
37 77 0.87
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.39
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:34184121 original size:24 final size:23
Alignment explanation
Indices: 34184094--34184145 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
34184084 AATTTTTTTA
* *
34184094 ATTTTCAAAATTAAATATAAAAAT
1 ATTTTCAAAAAT-AAGATAAAAAT
* *
34184118 ATTTTTAAAAATAAGATACAAAT
1 ATTTTCAAAAATAAGATAAAAAT
34184141 ATTTT
1 ATTTT
34184146 TAGTAAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 14 0.58
24 10 0.42
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (23 bp):
ATTTTCAAAAATAAGATAAAAAT
Found at i:34185849 original size:2 final size:2
Alignment explanation
Indices: 34185844--34185868 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
34185834 GTGTGTATAA
34185844 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
34185869 CTTTATTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:34186661 original size:63 final size:63
Alignment explanation
Indices: 34186583--34186708 Score: 243
Period size: 63 Copynumber: 2.0 Consensus size: 63
34186573 TAGGGTATAG
34186583 TTGGCATTCCATAAGATTCGTATATGTTGTTCGTGGGAGCATTTGGGCACTTTAATGCGATTC
1 TTGGCATTCCATAAGATTCGTATATGTTGTTCGTGGGAGCATTTGGGCACTTTAATGCGATTC
*
34186646 TTGGCATTCCATAAGATTCGTATATGTTGTTGGTGGGAGCATTTGGGCACTTTAATGCGATTC
1 TTGGCATTCCATAAGATTCGTATATGTTGTTCGTGGGAGCATTTGGGCACTTTAATGCGATTC
34186709 ATTCTGACAC
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.21, C:0.15, G:0.26, T:0.38
Consensus pattern (63 bp):
TTGGCATTCCATAAGATTCGTATATGTTGTTCGTGGGAGCATTTGGGCACTTTAATGCGATTC
Found at i:34186734 original size:23 final size:23
Alignment explanation
Indices: 34186708--34186759 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
34186698 TAATGCGATT
*
34186708 CATTCTGACA-CTTCGGTGTGATC
1 CATTCTGACATCTT-GGTGGGATC
* *
34186731 CATTCTGGCATCTTGGTGGGATT
1 CATTCTGACATCTTGGTGGGATC
34186754 CATTCT
1 CATTCT
34186760 ATGGAGTGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 22 0.88
24 3 0.12
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.38
Consensus pattern (23 bp):
CATTCTGACATCTTGGTGGGATC
Found at i:34187445 original size:117 final size:117
Alignment explanation
Indices: 34187284--34187517 Score: 405
Period size: 117 Copynumber: 2.0 Consensus size: 117
34187274 ATGTGCTTAC
* * *
34187284 CTTGATAGGTCATATACAACATGTATCTAGGTCATTAAGAAGTATTGTGGAGTTTTAGTGACGTT
1 CTTGATAGGTCACATACAACATGTATCTAGGTCATTAAGAAGTATTGTGGAGTCTTAATGACGTT
*
34187349 TTGAACATGGCTTAGATGTTTTGGATGATTTTAGTATTACATATCGTATGGT
66 TTGAACATGGCTTAGATGTTTTGGATGATTTTAGTAGTACATATCGTATGGT
*
34187401 CTTGATAGGTTACATACAACATGTATCTAGGTCATTAAGAAGTATTGTGGAGTCTTAATGACGTT
1 CTTGATAGGTCACATACAACATGTATCTAGGTCATTAAGAAGTATTGTGGAGTCTTAATGACGTT
* *
34187466 TTGAACATGTCTTGGATGTTTTGGATGATTTTAGTAGTACATATCGTATGGT
66 TTGAACATGGCTTAGATGTTTTGGATGATTTTAGTAGTACATATCGTATGGT
34187518 TAATGACTAA
Statistics
Matches: 110, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
117 110 1.00
ACGTcount: A:0.27, C:0.10, G:0.23, T:0.40
Consensus pattern (117 bp):
CTTGATAGGTCACATACAACATGTATCTAGGTCATTAAGAAGTATTGTGGAGTCTTAATGACGTT
TTGAACATGGCTTAGATGTTTTGGATGATTTTAGTAGTACATATCGTATGGT
Found at i:34188638 original size:51 final size:51
Alignment explanation
Indices: 34188583--34188680 Score: 169
Period size: 51 Copynumber: 1.9 Consensus size: 51
34188573 ACATTGTCTA
* *
34188583 ATCATGTTTATGTTATAGTTCTAAGCGTATGGGAATTATTATTATTGTTTG
1 ATCATGTTTATGTTATAGTTCTAAACGTATGGGAATTATTATGATTGTTTG
*
34188634 ATCATGTTTATGTTATAGTTCTAAATGTATGGGAATTATTATGATTG
1 ATCATGTTTATGTTATAGTTCTAAACGTATGGGAATTATTATGATTG
34188681 AATGCTAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.28, C:0.05, G:0.19, T:0.48
Consensus pattern (51 bp):
ATCATGTTTATGTTATAGTTCTAAACGTATGGGAATTATTATGATTGTTTG
Found at i:34193386 original size:58 final size:57
Alignment explanation
Indices: 34193315--34193485 Score: 153
Period size: 58 Copynumber: 3.1 Consensus size: 57
34193305 TATATATTAT
** *
34193315 TTTTATTGTATTATATATTATGATTT-TTTAATTCATA-TAATAATAATTATATTAAGAA
1 TTTTATTAAATTATATATTAT--TTTATTAAATT-ATATTAATAATAATTATATTAAGAA
*
34193373 TTTTATTAAATTATATATTATTTTATTAAATTATATTTAATAATAATTATGTTAA-AA
1 TTTTATTAAATTATATATTATTTTATTAAATTATA-TTAATAATAATTATATTAAGAA
* ** *
34193430 TATGGTTAAA-T-TAT-TT-TTTTATTAAATTATTTTTAATAATAATCT-TATTAA-AA
1 TTTTATTAAATTATATATTATTTTATTAAATTA-TATTAATAATAAT-TATATTAAGAA
34193483 TTT
1 TTT
34193486 AATAATAATA
Statistics
Matches: 98, Mismatches: 10, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
53 33 0.34
54 4 0.04
55 3 0.03
56 7 0.07
57 15 0.15
58 36 0.37
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (57 bp):
TTTTATTAAATTATATATTATTTTATTAAATTATATTAATAATAATTATATTAAGAA
Found at i:34193477 original size:26 final size:25
Alignment explanation
Indices: 34193394--34193481 Score: 68
Period size: 26 Copynumber: 3.4 Consensus size: 25
34193384 TATATATTAT
34193394 TTTATTAAATTATATTTAATAATAA
1 TTTATTAAATTATATTTAATAATAA
* * * * * **
34193419 TTATGTTAAAATATGGTTAAATTATTTT
1 TT-TATTAAATTAT-ATTTAA-TAATAA
*
34193447 TTTATTAAATTATTTTTAATAATAA
1 TTTATTAAATTATATTTAATAATAA
34193472 TCTTATTAAA
1 T-TTATTAAA
34193482 ATTTAATAAT
Statistics
Matches: 45, Mismatches: 14, Indels: 7
0.68 0.21 0.11
Matches are distributed among these distances:
25 6 0.13
26 21 0.47
27 13 0.29
28 5 0.11
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.53
Consensus pattern (25 bp):
TTTATTAAATTATATTTAATAATAA
Found at i:34193631 original size:44 final size:46
Alignment explanation
Indices: 34193581--34193667 Score: 119
Period size: 46 Copynumber: 1.9 Consensus size: 46
34193571 AACATCTCCG
34193581 TTCAACCAAACACA-AGAA-TACT-ATTACAG-TTCTATTCCATTCCA
1 TTCAACCAAACA-ATAGAATTACTGATTACAGCTT-TATTCCATTCCA
*
34193625 TTCAACCAAACAATTGAATTACTGATTACAGCTTTATTCCATT
1 TTCAACCAAACAATAGAATTACTGATTACAGCTTTATTCCATT
34193668 ACAACTCTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
43 1 0.03
44 15 0.39
45 4 0.11
46 16 0.42
47 2 0.05
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.33
Consensus pattern (46 bp):
TTCAACCAAACAATAGAATTACTGATTACAGCTTTATTCCATTCCA
Found at i:34193670 original size:16 final size:16
Alignment explanation
Indices: 34193649--34193702 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
34193639 TGAATTACTG
* *
34193649 ATTACAGCTTTATTCC
1 ATTACAACTCTATTCC
**
34193665 ATTACAACTCTATTAA
1 ATTACAACTCTATTCC
34193681 ATTACAACTCTATTCC
1 ATTACAACTCTATTCC
34193697 ATTACA
1 ATTACA
34193703 GTGAACCAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.35, C:0.24, G:0.02, T:0.39
Consensus pattern (16 bp):
ATTACAACTCTATTCC
Found at i:34194006 original size:24 final size:24
Alignment explanation
Indices: 34193961--34194007 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
34193951 TAACCTCAGT
* ** *
34193961 TTTTCTGAAAAATTAAACTAAAAG
1 TTTTATGAAAAACAAAAATAAAAG
34193985 TTTTATGAAAAACAAAAATAAAA
1 TTTTATGAAAAACAAAAATAAAA
34194008 TAAAGGATTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.30
Consensus pattern (24 bp):
TTTTATGAAAAACAAAAATAAAAG
Found at i:34200910 original size:24 final size:24
Alignment explanation
Indices: 34200883--34200930 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
34200873 TAGTCTTTAT
34200883 TACCATAAAAAGGACATGAAACTA
1 TACCATAAAAAGGACATGAAACTA
34200907 TACCATAAAAAGGACATGAAACTA
1 TACCATAAAAAGGACATGAAACTA
34200931 CCTTACTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.17, G:0.12, T:0.17
Consensus pattern (24 bp):
TACCATAAAAAGGACATGAAACTA
Found at i:34210617 original size:20 final size:20
Alignment explanation
Indices: 34210592--34210631 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
34210582 AATATTTTCC
*
34210592 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
34210612 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
34210632 TTATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:34210646 original size:34 final size:35
Alignment explanation
Indices: 34210580--34210646 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
34210570 CAAACACCAG
*
34210580 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
34210615 AAAACATTTTCCAG-AAATTATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
34210647 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:34212678 original size:20 final size:21
Alignment explanation
Indices: 34212644--34212682 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
34212634 ACTCTATTTG
34212644 ATATTTTTATAAAATTTAATA
1 ATATTTTTATAAAATTTAATA
*
34212665 ATATTTTTA-CAAATTTAA
1 ATATTTTTATAAAATTTAA
34212683 AAAATTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (21 bp):
ATATTTTTATAAAATTTAATA
Found at i:34212685 original size:28 final size:27
Alignment explanation
Indices: 34212649--34212719 Score: 79
Period size: 29 Copynumber: 2.5 Consensus size: 27
34212639 ATTTGATATT
*
34212649 TTTATAAAATTTAATAATATTTTTACAAA
1 TTTA-AAAATTTAAAAATATTTTT-CAAA
* *
34212678 TTTAAAAAATTTAAAAAATATTTTTTAAT
1 TTT-AAAAATTT-AAAAATATTTTTCAAA
34212707 TTTAAAAATTTAA
1 TTTAAAAATTTAA
34212720 GTTTCCAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
27 2 0.05
28 8 0.22
29 15 0.41
30 12 0.32
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (27 bp):
TTTAAAAATTTAAAAATATTTTTCAAA
Found at i:34212687 original size:29 final size:27
Alignment explanation
Indices: 34212649--34212719 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 27
34212639 ATTTGATATT
* *
34212649 TTTATAAAATTTAATAATATTTTTACAAA
1 TTTAAAAAATTTAAAAATATTTTT--AAA
*
34212678 TTTAAAAAATTTAAAAAATATTTTTTAA
1 TTTAAAAAATTT-AAAAATATTTTTAAA
*
34212706 TTTTAAAAATTTAA
1 TTTAAAAAATTTAA
34212720 GTTTCCAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
27 2 0.05
28 13 0.35
29 11 0.30
30 11 0.30
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (27 bp):
TTTAAAAAATTTAAAAATATTTTTAAA
Found at i:34213732 original size:20 final size:20
Alignment explanation
Indices: 34213709--34213755 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
34213699 TTATTTTTAC
34213709 TTTTTTATTAACTTTTGTCT
1 TTTTTTATTAACTTTTGTCT
* *
34213729 TTTTCTT-TTAATTTTTTTCT
1 TTTT-TTATTAACTTTTGTCT
34213749 TTTTTTA
1 TTTTTTA
34213756 AGTTTTAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 2 0.09
20 19 0.83
21 2 0.09
ACGTcount: A:0.13, C:0.09, G:0.02, T:0.77
Consensus pattern (20 bp):
TTTTTTATTAACTTTTGTCT
Found at i:34213774 original size:25 final size:24
Alignment explanation
Indices: 34213734--34213780 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
34213724 TGTCTTTTTC
*
34213734 TTTTAATTTTTTTCTTTTTTTAAG
1 TTTTAATTTTTTTCTTATTTTAAG
34213758 TTTTAAGTTTTTTTCTTATTTTA
1 TTTTAA-TTTTTTTCTTATTTTA
34213781 TTTTGTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.74
Consensus pattern (24 bp):
TTTTAATTTTTTTCTTATTTTAAG
Found at i:34213793 original size:13 final size:14
Alignment explanation
Indices: 34213773--34213818 Score: 53
Period size: 13 Copynumber: 3.4 Consensus size: 14
34213763 AGTTTTTTTC
34213773 TTATTTTATTT-TGT
1 TTATTTTATTTAT-T
34213787 TTA-TTTATTTA-T
1 TTATTTTATTTATT
34213799 TTATTTTATTTATT
1 TTATTTTATTTATT
34213813 GTTATT
1 -TTATT
34213819 AATTTTAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
12 4 0.14
13 15 0.54
14 4 0.14
15 5 0.18
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.76
Consensus pattern (14 bp):
TTATTTTATTTATT
Found at i:34213799 original size:17 final size:17
Alignment explanation
Indices: 34213777--34213812 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
34213767 TTTTTCTTAT
34213777 TTTATTT-TGTTTATTTA
1 TTTATTTAT-TTTATTTA
34213794 TTTATTTATTTTATTTA
1 TTTATTTATTTTATTTA
34213811 TT
1 TT
34213813 GTTATTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.94
18 1 0.06
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (17 bp):
TTTATTTATTTTATTTA
Found at i:34213810 original size:9 final size:9
Alignment explanation
Indices: 34213773--34213825 Score: 65
Period size: 9 Copynumber: 5.9 Consensus size: 9
34213763 AGTTTTTTTC
34213773 TTATTTTAT
1 TTATTTTAT
34213782 TT-TGTTTAT
1 TTAT-TTTAT
34213791 TTA-TTTAT
1 TTATTTTAT
34213799 TTATTTTAT
1 TTATTTTAT
34213808 TTATTGTTAT
1 TTATT-TTAT
*
34213818 TAATTTTA
1 TTATTTTA
34213826 AAAAATTTGG
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
8 9 0.23
9 22 0.56
10 8 0.21
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.74
Consensus pattern (9 bp):
TTATTTTAT
Found at i:34213944 original size:18 final size:18
Alignment explanation
Indices: 34213902--34213944 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
34213892 TTAAATTATT
* *
34213902 TTTTCAAATATTTTAATA
1 TTTTAAAATATTTAAATA
* *
34213920 ATATAAAATATTTAAATA
1 TTTTAAAATATTTAAATA
34213938 TTTTAAA
1 TTTTAAA
34213945 GGTATGACCT
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTTAAAATATTTAAATA
Found at i:34214331 original size:18 final size:18
Alignment explanation
Indices: 34214317--34214356 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
34214307 TAAAAAATAA
34214317 AAATATTTGTTAAAAAAG
1 AAATATTTGTTAAAAAAG
** *
34214335 ATTTATTTGTTAAAAAAT
1 AAATATTTGTTAAAAAAG
34214353 AAAT
1 AAAT
34214357 TTATTTAAAA
Statistics
Matches: 17, Mismatches: 5, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (18 bp):
AAATATTTGTTAAAAAAG
Found at i:34214358 original size:16 final size:16
Alignment explanation
Indices: 34214339--34214387 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
34214329 AAAAAGATTT
*
34214339 ATTTGTTAAAAAATAA
1 ATTTATTAAAAAATAA
* *
34214355 ATTTATTTAAAAATAT
1 ATTTATTAAAAAATAA
* *
34214371 ATATATTAAAAAGTAA
1 ATTTATTAAAAAATAA
34214387 A
1 A
34214388 AATTAAAATT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (16 bp):
ATTTATTAAAAAATAA
Found at i:34214358 original size:20 final size:20
Alignment explanation
Indices: 34214306--34214362 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
34214296 TTTGAATTAA
**
34214306 TTAAAAAATAAAAATATTTG
1 TTAAAAAATAAATTTATTTG
*
34214326 TT-AAAAA-AGATTTATTTG
1 TTAAAAAATAAATTTATTTG
34214344 TTAAAAAATAAATTTATTT
1 TTAAAAAATAAATTTATTT
34214363 AAAAATATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
18 10 0.32
19 10 0.32
20 11 0.35
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (20 bp):
TTAAAAAATAAATTTATTTG
Found at i:34214389 original size:7 final size:7
Alignment explanation
Indices: 34214361--34214410 Score: 57
Period size: 7 Copynumber: 7.1 Consensus size: 7
34214351 ATAAATTTAT
34214361 TTAAAAA
1 TTAAAAA
* *
34214368 TATATATA
1 T-TAAAAA
34214376 TTAAAAA
1 TTAAAAA
*
34214383 GTAAAAA
1 TTAAAAA
34214390 TT-AAAA
1 TTAAAAA
34214396 TTAAAAA
1 TTAAAAA
34214403 TTAAAAA
1 TTAAAAA
34214410 T
1 T
34214411 ATATATTATA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
6 6 0.17
7 24 0.69
8 5 0.14
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (7 bp):
TTAAAAA
Found at i:34214418 original size:13 final size:13
Alignment explanation
Indices: 34214361--34214411 Score: 57
Period size: 13 Copynumber: 3.7 Consensus size: 13
34214351 ATAAATTTAT
*
34214361 TTAAAAATATATATA
1 TTAAAAATA-A-AAA
34214376 TTAAAAAGTAAAAA
1 TTAAAAA-TAAAAA
*
34214390 TTAAAATTAAAAA
1 TTAAAAATAAAAA
34214403 TTAAAAATA
1 TTAAAAATA
34214412 TATATTATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
13 14 0.44
14 8 0.25
15 8 0.25
16 2 0.06
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (13 bp):
TTAAAAATAAAAA
Found at i:34214418 original size:20 final size:20
Alignment explanation
Indices: 34214364--34214418 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
34214354 AATTTATTTA
34214364 AAAATATATATATTAAAAAGT
1 AAAA-ATATATATTAAAAAGT
* *
34214385 AAAAAT-TAAAATTAAAAATT
1 AAAAATAT-ATATTAAAAAGT
34214405 AAAAATATATATTA
1 AAAAATATATATTA
34214419 TAAGATCACA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 1 0.03
20 23 0.79
21 5 0.17
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (20 bp):
AAAAATATATATTAAAAAGT
Found at i:34214578 original size:57 final size:58
Alignment explanation
Indices: 34214515--34214629 Score: 223
Period size: 57 Copynumber: 2.0 Consensus size: 58
34214505 CCCCTTCATA
34214515 TTATAGTTATTGTAATATAATAATTATTTATATTGTATTTATGTG-TTTTTTTATATT
1 TTATAGTTATTGTAATATAATAATTATTTATATTGTATTTATGTGTTTTTTTTATATT
34214572 TTATAGTTATTGTAATATAATAATTATTTATATTGTATTTATGTGTTTTTTTTATATT
1 TTATAGTTATTGTAATATAATAATTATTTATATTGTATTTATGTGTTTTTTTTATATT
34214630 ATGCAGATAT
Statistics
Matches: 57, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
57 45 0.79
58 12 0.21
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.62
Consensus pattern (58 bp):
TTATAGTTATTGTAATATAATAATTATTTATATTGTATTTATGTGTTTTTTTTATATT
Found at i:34215186 original size:80 final size:76
Alignment explanation
Indices: 34215076--34215245 Score: 206
Period size: 71 Copynumber: 2.3 Consensus size: 76
34215066 AAAGATTTTC
* * * * * *
34215076 TTAATAGATTTAAAATGTTTAAAAACTTAAAGAAATTAAATATATTAAAAAATGTTATGTATAGC
1 TTAATATATTTAATATATTTTAAAA-TTAAA-AAATTAAATATATTAAAAAATGTTAAGTATAAC
*
34215141 CAATTTTAAAATT
64 CAATATTAAAATT
34215154 TTAATATATTTAATATA-TTT----TTAAAAAATTAAATATATTAAAAAATGTTAAGTATAACCA
1 TTAATATATTTAATATATTTTAAAATTAAAAAATTAAATATATTAAAAAATGTTAAGTATAACCA
34215214 ATATTAAAATT
66 ATATTAAAATT
* *
34215225 ATAATATATTCAATATATTTT
1 TTAATATATTTAATATATTTT
34215246 TTAAAAATAT
Statistics
Matches: 82, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
71 58 0.71
72 8 0.10
77 2 0.02
78 14 0.17
ACGTcount: A:0.50, C:0.04, G:0.05, T:0.42
Consensus pattern (76 bp):
TTAATATATTTAATATATTTTAAAATTAAAAAATTAAATATATTAAAAAATGTTAAGTATAACCA
ATATTAAAATT
Found at i:34215188 original size:71 final size:71
Alignment explanation
Indices: 34215102--34215253 Score: 241
Period size: 71 Copynumber: 2.1 Consensus size: 71
34215092 GTTTAAAAAC
* * * * *
34215102 TTAAAGAAATTAAATATATTAAAAAATGTTATGTATAGCCAATTTTAAAATTTTAATATATTTAA
1 TTAAA-AAATTAAATATATTAAAAAATGTTAAGTATAACCAATATTAAAATTATAATATATTCAA
34215167 TATATTT
65 TATATTT
34215174 TTAAAAAATTAAATATATTAAAAAATGTTAAGTATAACCAATATTAAAATTATAATATATTCAAT
1 TTAAAAAATTAAATATATTAAAAAATGTTAAGTATAACCAATATTAAAATTATAATATATTCAAT
34215239 ATATTT
66 ATATTT
*
34215245 TTTAAAAAT
1 TTAAAAAAT
34215254 ATATTTTAAA
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
71 69 0.93
72 5 0.07
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.42
Consensus pattern (71 bp):
TTAAAAAATTAAATATATTAAAAAATGTTAAGTATAACCAATATTAAAATTATAATATATTCAAT
ATATTT
Found at i:34218205 original size:29 final size:29
Alignment explanation
Indices: 34218130--34218206 Score: 70
Period size: 29 Copynumber: 2.6 Consensus size: 29
34218120 AAAACGTTTG
*
34218130 AATATCTTTAAAAT-TAATTTTAAAATTAAT
1 AATATATTTAAAATAT-A-TTTAAAATTAAT
* *
34218160 AATTTA-TAAAAATTATATTTAAAATTTAA-
1 AATATATTTAAAA-TATATTTAAAA-TTAAT
34218189 AATATATTTAAAATATAT
1 AATATATTTAAAATATAT
34218207 ATTTAAAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
29 22 0.58
30 15 0.39
31 1 0.03
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.45
Consensus pattern (29 bp):
AATATATTTAAAATATATTTAAAATTAAT
Found at i:34218208 original size:13 final size:13
Alignment explanation
Indices: 34218190--34218214 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34218180 AAAATTTAAA
34218190 ATATATTTAAAAT
1 ATATATTTAAAAT
34218203 ATATATTTAAAA
1 ATATATTTAAAA
34218215 AATTATAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATATATTTAAAAT
Found at i:34218297 original size:24 final size:25
Alignment explanation
Indices: 34218252--34218308 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
34218242 AGGTCATATC
* *
34218252 TTTAAAAATAATATATTTTAAATAA
1 TTTAAAAATAATATATTATAAAAAA
*
34218277 TTTAAAAATCATA-ATTATAAAAAA
1 TTTAAAAATAATATATTATAAAAAA
34218301 TTATAAAA
1 TT-TAAAA
34218309 CAAATTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 11 0.39
25 17 0.61
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (25 bp):
TTTAAAAATAATATATTATAAAAAA
Found at i:34218378 original size:57 final size:57
Alignment explanation
Indices: 34218190--34218378 Score: 167
Period size: 57 Copynumber: 3.3 Consensus size: 57
34218180 AAAATTTAAA
* * *
34218190 ATATATTTAAAATATATATTTAAAAAATTATAAAACAAATAATAAATTTGAAAGGTC
1 ATATCTTTAAAATATATATTTAAAATATTATAAAACTAATAATAAATTTGAAAGGTC
* *
34218247 ATATCTTTAAAAATAATATATTTTAAATAATT-TAAAAATCATAATTATAAAAAATTAT-AAA--
1 ATATCTTT-AAAAT-ATATATTTAAAAT-ATTAT-AAAA-C-T-A--ATAATAAATT-TGAAAGG
*
34218308 AC
56 TC
* *
34218310 A-A--ATTAAAATATACATTTAAAATATTATAAAACTAATAATAAATTTGAAAGGTC
1 ATATCTTTAAAATATATATTTAAAATATTATAAAACTAATAATAAATTTGAAAGGTC
34218364 ATATCTTTAAAATAT
1 ATATCTTTAAAATAT
34218379 TTAAATGTTT
Statistics
Matches: 103, Mismatches: 12, Indels: 34
0.69 0.08 0.23
Matches are distributed among these distances:
51 1 0.01
52 12 0.12
54 3 0.03
55 2 0.02
56 1 0.01
57 23 0.22
58 17 0.17
59 17 0.17
60 9 0.09
61 1 0.01
62 1 0.01
63 3 0.03
65 12 0.12
66 1 0.01
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.37
Consensus pattern (57 bp):
ATATCTTTAAAATATATATTTAAAATATTATAAAACTAATAATAAATTTGAAAGGTC
Found at i:34218414 original size:21 final size:21
Alignment explanation
Indices: 34218390--34218442 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
34218380 TAAATGTTTT
34218390 ATATTATTAAAAAT-ATATTTA
1 ATATT-TTAAAAATAATATTTA
34218411 ATA-TTTAAAAATAATATTTA
1 ATATTTTAAAAATAATATTTA
*
34218431 ATTTTTTAAAAA
1 ATATTTTAAAAA
34218443 AATTAAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 8 0.28
20 10 0.34
21 11 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
ATATTTTAAAAATAATATTTA
Found at i:34218421 original size:20 final size:21
Alignment explanation
Indices: 34218387--34218442 Score: 73
Period size: 20 Copynumber: 2.8 Consensus size: 21
34218377 ATTTAAATGT
34218387 TTTATATTA-TTAAAAAT-ATA
1 TTTA-ATTATTTAAAAATAATA
34218407 TTTAA-TATTTAAAAATAATA
1 TTTAATTATTTAAAAATAATA
*
34218427 TTTAATTTTTTAAAAA
1 TTTAATTATTTAAAAA
34218443 AATTAAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
18 2 0.06
19 9 0.28
20 12 0.38
21 9 0.28
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TTTAATTATTTAAAAATAATA
Found at i:34218485 original size:32 final size:31
Alignment explanation
Indices: 34218410--34218507 Score: 117
Period size: 30 Copynumber: 3.1 Consensus size: 31
34218400 AAATATATTT
* **
34218410 AATATTTAAAAATAATATTTAATTTTTTAAA
1 AATAATTAAAAATAATATTTAAAATTTTAAA
*
34218441 AA-AATTAAAAATAATATTTAAAATTTAGAAA
1 AATAATTAAAAATAATATTTAAAATTT-TAAA
**
34218472 AATAATTTCAAATATATATTTAAAATTTTAAA
1 AATAATTAAAAATA-ATATTTAAAATTTTAAA
34218504 AATA
1 AATA
34218508 TATATTATAA
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
30 21 0.37
31 7 0.12
32 16 0.28
33 13 0.23
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (31 bp):
AATAATTAAAAATAATATTTAAAATTTTAAA
Found at i:34218861 original size:21 final size:21
Alignment explanation
Indices: 34218836--34218895 Score: 65
Period size: 19 Copynumber: 3.0 Consensus size: 21
34218826 TAAATGGTTA
34218836 AATATTATTAAAAATATATTT
1 AATATTATTAAAAATATATTT
34218857 AATA-T-TTAAAAATAATATTT
1 AATATTATTAAAAAT-ATATTT
* *
34218877 AAAATTA-AAAAAATA-ATTT
1 AATATTATTAAAAATATATTT
34218896 CAAAAATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
19 12 0.35
20 11 0.32
21 11 0.32
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AATATTATTAAAAATATATTT
Found at i:34218867 original size:19 final size:19
Alignment explanation
Indices: 34218842--34218891 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
34218832 GTTAAATATT
34218842 ATTAAAAAT-ATATTTAATA
1 ATTAAAAATAATATTTAA-A
*
34218861 TTTAAAAATAATATTTAAA
1 ATTAAAAATAATATTTAAA
34218880 ATTAAAAA-AATA
1 ATTAAAAATAATA
34218892 ATTTCAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 4 0.14
19 16 0.57
20 8 0.29
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
ATTAAAAATAATATTTAAA
Found at i:34218868 original size:20 final size:19
Alignment explanation
Indices: 34218845--34218965 Score: 64
Period size: 19 Copynumber: 6.6 Consensus size: 19
34218835 AAATATTATT
* *
34218845 AAAAATATATTTAATATTT
1 AAAAATATATTTAAAATTA
34218864 AAAAATAATATTTAAAATTA
1 AAAAAT-ATATTTAAAATTA
*
34218884 AAAAA-ATAATTT--CA--A
1 AAAAATAT-ATTTAAAATTA
*
34218899 AAATATATATTTAAAATTTA
1 AAAAATATATTTAAAA-TTA
*
34218919 TAAGAAATA-ATTTCAAA-T-
1 -AA-AAATATATTTAAAATTA
* *
34218937 --ATATATATTTAAAATTT
1 AAAAATATATTTAAAATTA
34218954 AAAAATATATTT
1 AAAAATATATTT
34218966 TTGAAATTAT
Statistics
Matches: 77, Mismatches: 10, Indels: 30
0.66 0.09 0.26
Matches are distributed among these distances:
14 4 0.05
15 16 0.21
16 3 0.04
17 2 0.03
18 2 0.03
19 20 0.26
20 17 0.22
21 9 0.12
22 4 0.05
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (19 bp):
AAAAATATATTTAAAATTA
Found at i:34218874 original size:13 final size:13
Alignment explanation
Indices: 34218856--34218880 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34218846 AAAATATATT
34218856 TAATATTTAAAAA
1 TAATATTTAAAAA
34218869 TAATATTTAAAA
1 TAATATTTAAAA
34218881 TTAAAAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TAATATTTAAAAA
Found at i:34218912 original size:34 final size:35
Alignment explanation
Indices: 34218860--34219139 Score: 207
Period size: 36 Copynumber: 8.0 Consensus size: 35
34218850 TATATTTAAT
34218860 ATTT-AAAAATA-ATATTTAAAA-TTAAAAAAATA
1 ATTTCAAAAATATATATTTAAAATTTAAAAAAATA
*
34218892 ATTTCAAAAATATATATTTAAAATTTATAAGAAATA
1 ATTTCAAAAATATATATTTAAAATTTA-AAAAAATA
* *
34218928 ATTTCAAATATATATATTTAAAATTTAAAAATATA
1 ATTTCAAAAATATATATTTAAAATTTAAAAAAATA
* ** * * ** * *
34218963 TTTTTGAAATTATGTTATTT--TGTTTAAAAATATT
1 ATTTCAAAAATAT-ATATTTAAAATTTAAAAAAATA
* * * *
34218997 TTTTTAAAATATATTTAAAATTTAAAATTTAGAAAAATTA
1 ATTTCAAAA-ATA--T-ATATTTAAAATTTA-AAAAAATA
* * *
34219037 ATTTCAAAAATATATTTTTAAAATTTATAAGACATA
1 ATTTCAAAAATATATATTTAAAATTTA-AAAAAATA
** * *
34219073 ATTAAAAAAATA-ATATTCAAAATTTTAAAAAATA
1 ATTTCAAAAATATATATTTAAAATTTAAAAAAATA
* *
34219107 ATTT-AAACATA-ATATTTAAAATTTTAAAAAATA
1 ATTTCAAAAATATATATTTAAAATTTAAAAAAATA
34219140 TATATTATAA
Statistics
Matches: 196, Mismatches: 41, Indels: 21
0.76 0.16 0.08
Matches are distributed among these distances:
32 4 0.02
33 34 0.17
34 38 0.19
35 30 0.15
36 65 0.33
37 6 0.03
39 7 0.04
40 12 0.06
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (35 bp):
ATTTCAAAAATATATATTTAAAATTTAAAAAAATA
Found at i:34218961 original size:21 final size:22
Alignment explanation
Indices: 34218927--34218973 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
34218917 TATAAGAAAT
*
34218927 AATTTCAAATATATATATTTAA
1 AATTTCAAAAATATATATTTAA
* *
34218949 AATTT-AAAAATATATTTTTGA
1 AATTTCAAAAATATATATTTAA
34218970 AATT
1 AATT
34218974 ATGTTATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (22 bp):
AATTTCAAAAATATATATTTAA
Found at i:34219007 original size:13 final size:15
Alignment explanation
Indices: 34218978--34219012 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
34218968 GAAATTATGT
34218978 TATTTTGTTTAAAAA
1 TATTTTGTTTAAAAA
34218993 TATTTT-TTTAAAATA
1 TATTTTGTTTAAAA-A
34219008 TATTT
1 TATTT
34219013 AAAATTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (15 bp):
TATTTTGTTTAAAAA
Found at i:34219095 original size:35 final size:33
Alignment explanation
Indices: 34219016--34219139 Score: 124
Period size: 33 Copynumber: 3.6 Consensus size: 33
34219006 TATATTTAAA
*
34219016 ATTTAAAA-TTTAGAAAAATTAATTTCAAAAATATAT
1 ATTTAAAATTTTA-AAAAA-TAA-TTAAAAAATA-AT
* * *
34219052 TTTTAAAATTTATAAGACATAATTAAAAAAATAAT
1 ATTTAAAATTT-TAAAAAATAATT-AAAAAATAAT
* * *
34219087 ATTCAAAATTTTAAAAAATAATTTAAACATAAT
1 ATTTAAAATTTTAAAAAATAATTAAAAAATAAT
34219120 ATTTAAAATTTTAAAAAATA
1 ATTTAAAATTTTAAAAAATA
34219140 TATATTATAA
Statistics
Matches: 74, Mismatches: 11, Indels: 9
0.79 0.12 0.10
Matches are distributed among these distances:
33 27 0.36
34 10 0.14
35 13 0.18
36 17 0.23
37 5 0.07
38 2 0.03
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (33 bp):
ATTTAAAATTTTAAAAAATAATTAAAAAATAAT
Found at i:34219137 original size:145 final size:143
Alignment explanation
Indices: 34218873--34219140 Score: 330
Period size: 145 Copynumber: 1.9 Consensus size: 143
34218863 TAAAAATAAT
** *
34218873 ATTTAAAATTAAAAAAATAATTTCAAAAATATATATTTAAAATTTATAAGAAATAATTTCAAATA
1 ATTTAAAATTAAAAAAATAATTTCAAAAATATATATTTAAAATTTATAAGAAATAATTAAAAAAA
* * * ** *
34218938 TATATATTTAAAATTTAAAAATATATTTTTGAAATTATGTTATTTTGTTTAAAAATATTTTTTTA
66 TATATATTCAAAATTTAAAAATATATATTTAAAATTATGTTAAATTGTTAAAAAATATTTTTTTA
34219003 AAATATATTTAAA
131 AAATATATTTAAA
* * *
34219016 ATTTAAAATTTAGAAAAATTAATTTCAAAAATATATTTTTAAAATTTATAAGACATAATTAAAAA
1 ATTTAAAA-TTA-AAAAAATAATTTCAAAAATATATATTTAAAATTTATAAGAAATAATTAAAAA
34219081 AATA-ATATTCAAAATTTTAAAAA-ATA-ATTTAAACATAATAT-TTAAAATT-TTAAAAAATAT
64 AATATATATTCAAAA-TTTAAAAATATATATTTAAA-AT--TATGTT-AAATTGTTAAAAAATAT
34219141 ATATTATAAA
Statistics
Matches: 106, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
143 13 0.12
144 17 0.16
145 70 0.66
146 6 0.06
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (143 bp):
ATTTAAAATTAAAAAAATAATTTCAAAAATATATATTTAAAATTTATAAGAAATAATTAAAAAAA
TATATATTCAAAATTTAAAAATATATATTTAAAATTATGTTAAATTGTTAAAAAATATTTTTTTA
AAATATATTTAAA
Found at i:34219209 original size:9 final size:9
Alignment explanation
Indices: 34219195--34219227 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
34219185 TAATAACAAT
34219195 AAATAAATA
1 AAATAAATA
34219204 AAATAAATA
1 AAATAAATA
34219213 AACA-AAATA
1 AA-ATAAATA
34219222 AAATAA
1 AAATAA
34219228 GAAAAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 1 0.05
9 20 0.91
10 1 0.05
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (9 bp):
AAATAAATA
Found at i:34219210 original size:13 final size:13
Alignment explanation
Indices: 34219181--34219223 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
34219171 AAATTTTTTA
*
34219181 AAATTAATAACAAT
1 AAATAAATAA-AAT
34219195 AAATAAATAAAAT
1 AAATAAATAAAAT
*
34219208 AAATAAACAAAAT
1 AAATAAATAAAAT
34219221 AAA
1 AAA
34219224 ATAAGAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
13 18 0.67
14 9 0.33
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (13 bp):
AAATAAATAAAAT
Found at i:34219242 original size:9 final size:8
Alignment explanation
Indices: 34219192--34219260 Score: 57
Period size: 8 Copynumber: 8.2 Consensus size: 8
34219182 AATTAATAAC
*
34219192 AATAAATA
1 AATAAAAA
34219200 AATAAAATA
1 AATAAAA-A
34219209 AATAAACAA
1 AATAAA-AA
*
34219218 AATAAAAT
1 AATAAAAA
*
34219226 AAGAAAAA
1 AATAAAAA
34219234 AATATAAAA
1 AATA-AAAA
**
34219243 CTTAAAAA
1 AATAAAAA
*
34219251 AAGAAAAA
1 AATAAAAA
34219259 AA
1 AA
34219261 ATTAAAGAAA
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
8 27 0.56
9 20 0.42
10 1 0.02
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.16
Consensus pattern (8 bp):
AATAAAAA
Found at i:34222192 original size:5 final size:5
Alignment explanation
Indices: 34222182--34222222 Score: 55
Period size: 5 Copynumber: 8.2 Consensus size: 5
34222172 AATTCAATTT
* * *
34222182 AACTC AGCTC AGCTC AGCTC AACTC AACTC AACTC AACTC A
1 AACTC AACTC AACTC AACTC AACTC AACTC AACTC AACTC A
34222223 CTTCACTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.34, C:0.39, G:0.07, T:0.20
Consensus pattern (5 bp):
AACTC
Found at i:34247539 original size:31 final size:30
Alignment explanation
Indices: 34247500--34247559 Score: 93
Period size: 31 Copynumber: 2.0 Consensus size: 30
34247490 TTTTTTGTCA
*
34247500 CAAGTGGTACTTAAACTATATTTTATTACT
1 CAAGTGGTACTTAAACTATATTTCATTACT
*
34247530 CAAGATGGTACTTAAACTATGTTTCATTAC
1 CAAG-TGGTACTTAAACTATATTTCATTAC
34247560 CCAAATGACC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 4 0.15
31 23 0.85
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (30 bp):
CAAGTGGTACTTAAACTATATTTCATTACT
Found at i:34249279 original size:31 final size:31
Alignment explanation
Indices: 34249227--34249287 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
34249217 GCCGAAGTAA
* *
34249227 TTTGGGTAATAAAGTACAGTTTAGGTACCAC
1 TTTGAGTAACAAAGTACAGTTTAGGTACCAC
*
34249258 TTTGAGTAACAAAGTATAGTTTAGGTACCA
1 TTTGAGTAACAAAGTACAGTTTAGGTACCA
34249288 ACTTAAGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (31 bp):
TTTGAGTAACAAAGTACAGTTTAGGTACCAC
Found at i:34251660 original size:32 final size:32
Alignment explanation
Indices: 34251619--34251682 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
34251609 TGTCTTGAGA
34251619 CATAGCCTCCCAATGACTATATAATAACTATG
1 CATAGCCTCCCAATGACTATATAATAACTATG
34251651 CATAGCCTCCCAATGACTATATAATAACTATG
1 CATAGCCTCCCAATGACTATATAATAACTATG
34251683 TTTCAACCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.38, C:0.25, G:0.09, T:0.28
Consensus pattern (32 bp):
CATAGCCTCCCAATGACTATATAATAACTATG
Found at i:34256722 original size:26 final size:26
Alignment explanation
Indices: 34256666--34256723 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
34256656 ACATACCGCA
* *
34256666 GCTCTTTATGAGCTTCCCGATATAAG
1 GCTCTTAATGAGCTTCCCGATATAAC
* *
34256692 GCTCTTAATGAGCTTCCTGATATGAC
1 GCTCTTAATGAGCTTCCCGATATAAC
*
34256718 TCTCTT
1 GCTCTT
34256724 GAACTTCTTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (26 bp):
GCTCTTAATGAGCTTCCCGATATAAC
Found at i:34263226 original size:40 final size:40
Alignment explanation
Indices: 34263180--34263262 Score: 141
Period size: 40 Copynumber: 2.1 Consensus size: 40
34263170 CTTTTGGGGA
*
34263180 GAGAGTGTTTATAGAAAAAGAAAAGAT-GAGATCCCCTTTT
1 GAGAGTGTTTACAGAAAAAGAAAAGATAG-GATCCCCTTTT
34263220 GAGAGTGTTTACAGAAAAAGAAAAGATAGGATCCCCTTTT
1 GAGAGTGTTTACAGAAAAAGAAAAGATAGGATCCCCTTTT
34263260 GAG
1 GAG
34263263 CCACTTCACC
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
40 40 0.98
41 1 0.02
ACGTcount: A:0.40, C:0.11, G:0.24, T:0.25
Consensus pattern (40 bp):
GAGAGTGTTTACAGAAAAAGAAAAGATAGGATCCCCTTTT
Found at i:34267960 original size:20 final size:20
Alignment explanation
Indices: 34267919--34267960 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
34267909 TAAAACTATT
* *
34267919 TTTCATTTTTATTAATTAAA
1 TTTCATTTTTAGTAAGTAAA
34267939 TTTCA-TTTTAGTAAGTACAA
1 TTTCATTTTTAGTAAGTA-AA
34267959 TT
1 TT
34267961 ATTTTATGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (20 bp):
TTTCATTTTTAGTAAGTAAA
Found at i:34270448 original size:18 final size:19
Alignment explanation
Indices: 34270411--34270450 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
34270401 CGGAAAATAA
34270411 TTTTTAAAAAATAACTTATT
1 TTTTTAAAAAATAAC-TATT
34270431 TTTTTAAAAAATAA-TATT
1 TTTTTAAAAAATAACTATT
34270449 TT
1 TT
34270451 CTGGTGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 6 0.30
20 14 0.70
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTTAAAAAATAACTATT
Found at i:34271042 original size:18 final size:18
Alignment explanation
Indices: 34271004--34271039 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
34270994 TTATTATTTT
*
34271004 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
34271022 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
34271040 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:34271059 original size:22 final size:25
Alignment explanation
Indices: 34271051--34271114 Score: 60
Period size: 26 Copynumber: 2.5 Consensus size: 25
34271041 AATTTATTAA
*
34271051 TAATAATTAATTATATTAATTATAT
1 TAATAATTAAATATATTAATTATAT
*
34271076 TAATAATTTATTATATGATTAA--ATAT
1 TAATAA-TTA-AATAT-ATTAATTATAT
*
34271102 AAATAATTAAATA
1 TAATAATTAAATA
34271115 AGTATGTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
24 3 0.09
25 9 0.28
26 12 0.38
27 3 0.09
28 5 0.16
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (25 bp):
TAATAATTAAATATATTAATTATAT
Found at i:34271070 original size:9 final size:9
Alignment explanation
Indices: 34271040--34271091 Score: 56
Period size: 9 Copynumber: 6.0 Consensus size: 9
34271030 AAATATTAAA
34271040 TAATT-TAT
1 TAATTATAT
*
34271048 TAATAATAAT
1 TAATTAT-AT
34271058 TAATTATAT
1 TAATTATAT
34271067 TAATTATAT
1 TAATTATAT
34271076 TAA-TA-AT
1 TAATTATAT
*
34271083 TTATTATAT
1 TAATTATAT
34271092 GATTAAATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
7 4 0.11
8 8 0.22
9 17 0.46
10 8 0.22
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (9 bp):
TAATTATAT
Found at i:34271096 original size:28 final size:29
Alignment explanation
Indices: 34271040--34271134 Score: 76
Period size: 28 Copynumber: 3.4 Consensus size: 29
34271030 AAATATTAAA
34271040 TAATT-TATTAATAA-TAATTAATTATAT
1 TAATTATATTAATAATTAATTAATTATAT
*
34271067 TAATTATATTAATAATTTATT-A-TATGAT
1 TAATTATATTAATAATTAATTAATTAT-AT
* * * *
34271095 TAA--ATATAAATAATTAAATAAGTATGTT
1 TAATTATATTAATAATTAATTAATTAT-AT
*
34271123 TAATAATATTAA
1 TAATTATATTAA
34271135 AAAATATAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
26 13 0.24
27 9 0.16
28 23 0.42
29 4 0.07
30 6 0.11
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.47
Consensus pattern (29 bp):
TAATTATATTAATAATTAATTAATTATAT
Found at i:34275750 original size:31 final size:30
Alignment explanation
Indices: 34275674--34275750 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 30
34275664 GGAGAACTGG
* *
34275674 CCCGTGTGGCTCCACACGATCTGACACACT
1 CCCGTGTGTCTCCACACGATCTGACACACA
* *
34275704 TCCGTATGTC-CCACAC-AGTCTGACACACA
1 CCCGTGTGTCTCCACACGA-TCTGACACACA
34275733 CCCGTGTGTCTCACACAC
1 CCCGTGTGTCTC-CACAC
34275751 CCATGTCACT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
28 1 0.03
29 24 0.63
30 8 0.21
31 5 0.13
ACGTcount: A:0.22, C:0.40, G:0.17, T:0.21
Consensus pattern (30 bp):
CCCGTGTGTCTCCACACGATCTGACACACA
Found at i:34279124 original size:43 final size:41
Alignment explanation
Indices: 34279071--34279200 Score: 98
Period size: 45 Copynumber: 3.0 Consensus size: 41
34279061 ATCCAAAAAT
*
34279071 TACTGGCAACTTTTAGCTGCAAATATGTTGTGCATCCACAACC
1 TACTGACAACTTTTA-CT-CAAATATGTTGTGCATCCACAACC
* * * * * * * **
34279114 TATTGACAACTTAATAATCTATAACACTGGTGTTCATCCATAAAT
1 TACTGACAACTT-TTACTC-A-AATA-TGTTGTGCATCCACAACC
34279159 TACTGACAACTTTTATCTACAAATATGTTGTGCATCCACAAC
1 TACTGACAACTTTTA-CT-CAAATATGTTGTGCATCCACAAC
34279201 AAGTGGCAAC
Statistics
Matches: 63, Mismatches: 18, Indels: 12
0.68 0.19 0.13
Matches are distributed among these distances:
42 1 0.02
43 25 0.40
44 10 0.16
45 26 0.41
46 1 0.02
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (41 bp):
TACTGACAACTTTTACTCAAATATGTTGTGCATCCACAACC
Found at i:34279182 original size:88 final size:89
Alignment explanation
Indices: 34279025--34279200 Score: 282
Period size: 88 Copynumber: 2.0 Consensus size: 89
34279015 AAGGAGGAAG
* * *
34279025 TATTGACAATTTAATAATCTACAACACTAGTGGTTCATCCAAAAATTACTGGCAACTTTTAGCTG
1 TATTGACAACTTAATAATCTACAACACTAGTGGTTCATCCAAAAATTACTGACAACTTTTAGCTA
34279090 CAAATATGTTGTGCATCCACAACC
66 CAAATATGTTGTGCATCCACAACC
* * * *
34279114 TATTGACAACTTAATAATCTATAACACTGGT-GTTCATCCATAAATTACTGACAACTTTTATCTA
1 TATTGACAACTTAATAATCTACAACACTAGTGGTTCATCCAAAAATTACTGACAACTTTTAGCTA
34279178 CAAATATGTTGTGCATCCACAAC
66 CAAATATGTTGTGCATCCACAAC
34279201 AAGTGGCAAC
Statistics
Matches: 80, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
88 52 0.65
89 28 0.35
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.33
Consensus pattern (89 bp):
TATTGACAACTTAATAATCTACAACACTAGTGGTTCATCCAAAAATTACTGACAACTTTTAGCTA
CAAATATGTTGTGCATCCACAACC
Found at i:34279329 original size:100 final size:99
Alignment explanation
Indices: 34279141--34279329 Score: 254
Period size: 100 Copynumber: 1.9 Consensus size: 99
34279131 TCTATAACAC
34279141 TGGTGTTCATCCATAAATTACTGACAACTTTTATCTACAAATATGTTGTGCATCCACAACAAGTG
1 TGGTGTTCATCCATAAATTACTGACAACTTTTATCTACAAATATGTTGTGCATCCACAACAAGTG
**
34279206 GCAACTTGTCTGTGAACTATTTTTTTTTAAATAT
66 GCAACTTGTCTGCAAACTATTTTTTTTTAAATAT
***** * *
34279240 TGGTGGTTCATCCATAAATTACTGGTTGTTTTTATCTGCAGATATGTTGTGCA-CCTACAACAAG
1 TGGT-GTTCATCCATAAATTACTGACAACTTTTATCTACAAATATGTTGTGCATCC-ACAACAAG
* *
34279304 TGGCAGCTTGTCTGCAAACTGTTTTT
64 TGGCAACTTGTCTGCAAACTATTTTT
34279330 AAAATACTGG
Statistics
Matches: 77, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
99 6 0.08
100 71 0.92
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.39
Consensus pattern (99 bp):
TGGTGTTCATCCATAAATTACTGACAACTTTTATCTACAAATATGTTGTGCATCCACAACAAGTG
GCAACTTGTCTGCAAACTATTTTTTTTTAAATAT
Found at i:34279374 original size:100 final size:99
Alignment explanation
Indices: 34279139--34279401 Score: 223
Period size: 100 Copynumber: 2.6 Consensus size: 99
34279129 AATCTATAAC
* * *
34279139 ACTGGT-GTTCATCCATAAATTACTGAC--AACTTTTATCTACAAATATGTTGTGCATCCACAAC
1 ACTGGTGGTTCATCCATAAATTACTG-CTGGA-GTTTATCTGCAAATATGTTGTGCATCCACAAC
* * * *
34279201 AAGTGGCAACTTGTCTGTGAACTATTTTTTTTTAAAT
64 AAGTGGCAACTTGTCTGTCAAC-ACTGTTTTTAAAAT
* * * ** *
34279238 ATTGGTGGTTCATCCATAAATTACTGGTTGTTTTTATCTGCAGATATGTTGTGCA-CCTACAACA
1 ACTGGTGGTTCATCCATAAATTACTGCTGGAGTTTATCTGCAAATATGTTGTGCATCC-ACAACA
*
34279302 AGTGGCAGCTTGTCTG-CAA-ACTGTTTTTAAAAT
65 AGTGGCAACTTGTCTGTCAACACTGTTTTTAAAAT
* * * * * *
34279335 ACTGGTTGTTTATCCATAATTTTGACTGCTGGGAGTTTATTTGCAAATACTGGTGGTTCATCCAC
1 ACTGGTGGTTCATCCATAA-ATT-ACTGCT-GGAGTTTATCTGCAAATA-T-GTTGTGCATCCAC
34279400 AA
61 AA
34279402 ACTAGAGTGT
Statistics
Matches: 131, Mismatches: 23, Indels: 17
0.77 0.13 0.10
Matches are distributed among these distances:
97 27 0.21
98 2 0.02
99 14 0.11
100 75 0.57
101 1 0.01
102 10 0.08
103 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.38
Consensus pattern (99 bp):
ACTGGTGGTTCATCCATAAATTACTGCTGGAGTTTATCTGCAAATATGTTGTGCATCCACAACAA
GTGGCAACTTGTCTGTCAACACTGTTTTTAAAAT
Found at i:34285895 original size:37 final size:37
Alignment explanation
Indices: 34285818--34285888 Score: 90
Period size: 36 Copynumber: 1.9 Consensus size: 37
34285808 ATTCACAATA
* ** *
34285818 ATTAGTTTAAAAAGTTGTGCTAATTTAATTTATAACT
1 ATTAGTTTAAAAAATTGTGCTAATTTAAAATAGAACT
34285855 ATTAG-TTAAAAAATTGTGCTAATTTTAAAATAGA
1 ATTAGTTTAAAAAATTGTGCTAA-TTTAAAATAGA
34285889 GTTATTACTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 16 0.55
37 13 0.45
ACGTcount: A:0.42, C:0.04, G:0.11, T:0.42
Consensus pattern (37 bp):
ATTAGTTTAAAAAATTGTGCTAATTTAAAATAGAACT
Found at i:34285952 original size:12 final size:13
Alignment explanation
Indices: 34285937--34285969 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
34285927 GAAAAATTTG
34285937 ATAATTAT-AATT
1 ATAATTATAAATT
34285949 ATAATTATAAATT
1 ATAATTATAAATT
*
34285962 AAAATTAT
1 ATAATTAT
34285970 TAGTTAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
ATAATTATAAATT
Found at i:34287900 original size:50 final size:50
Alignment explanation
Indices: 34287785--34288033 Score: 282
Period size: 50 Copynumber: 4.8 Consensus size: 50
34287775 GATAATAACA
* * ** * *
34287785 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCATCTCGG
* *
34287836 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * * *
34287886 TGCCAACGTCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
34287936 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTTATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTC---TCATC-T-CGG
* *
34287991 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
34288034 TTACCCAAAT
Statistics
Matches: 168, Mismatches: 24, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
50 90 0.54
51 33 0.20
53 4 0.02
54 1 0.01
55 2 0.01
56 38 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:34287971 original size:100 final size:104
Alignment explanation
Indices: 34287784--34288033 Score: 337
Period size: 100 Copynumber: 2.4 Consensus size: 104
34287774 TGATAATAAC
** * *
34287784 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCCATGCCATG
* *
34287849 TCCCAGACATGGTCTTATAGGGGACCTC-TCATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTTCATCTTAAGG
* * *
34287886 -TGCCAACGTCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCATGCCATGT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
*
34287950 CCCAGACATGGTCTTACAGGGGACCTCTTATGATCTTAAGG
66 CCCAGACATGGTCTTACAGGGGACCTC-T-TCATCTTAAGG
* *
34287991 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
34288034 TTACCCAAAT
Statistics
Matches: 129, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
100 48 0.37
101 35 0.27
103 4 0.03
104 1 0.01
105 2 0.02
106 39 0.30
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTTCATCTTAAGG
Found at i:34288406 original size:30 final size:30
Alignment explanation
Indices: 34288371--34288428 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
34288361 CCTCGACTCT
*
34288371 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
34288401 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
34288429 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:34291721 original size:2 final size:2
Alignment explanation
Indices: 34291714--34291755 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
34291704 AGGCATTTGA
34291714 AT AT AT AT AT AT 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 AT AT AT AT AT AT
34291756 TACTACTACT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34294764 original size:6 final size:6
Alignment explanation
Indices: 34294755--34294782 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
34294745 TACCATCATC
34294755 TTCTGA TTCTGA TTCTGA TTCTGA TTCT
1 TTCTGA TTCTGA TTCTGA TTCTGA TTCT
34294783 TCCGACACCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.18, G:0.14, T:0.54
Consensus pattern (6 bp):
TTCTGA
Found at i:34298842 original size:432 final size:434
Alignment explanation
Indices: 34298018--34298880 Score: 1451
Period size: 432 Copynumber: 2.0 Consensus size: 434
34298008 TTTGCCATTG
34298018 AAGTATATGAAGGCGGTGAGAAGGAGTAAGAAGAGTATAAACACGGCAAAGACGACGCATTTAAG
1 AAGTATATGAAGGCGGT-AGAAGGAGTAAGAAGAGTATAAACACGGCAAAGACGACGCATTTAAG
* *
34298083 CTCCAAGGGGAAGGGGATTGCTATGGTGTGACAAAATGCAGCAGCAGCTACAAGGACCCCAACTT
65 CTCCAAGGGGAAGGGGATTGCTATGGCGTAACAAAATGCAGCAGCAGCTACAAGGACCCCAACTT
* * *
34298148 TTTCTAATGTTTCTGAAGTTTGGGTAGAAATTGGTTTGATAAACAAAGCCAGTAAGAAAAGATTG
130 TTTCTAACGTTTCTGAAGTTTGGGTAGAAACTGGTTTGATAAACAAAGCCAATAAGAAAAGATTG
*
34298213 AAAGTAAGTAGGACGAGAAAGGAAAGCACAATCAAAGAAACATTGGATTGATTTTGATCGGTTTG
195 AAAGTAAGTAGGACGAGAAAGGAAAGCACAACCAAAGAAACATTGGATTGATTTTGATCGGTTTG
* * *
34298278 GGCGTACTGGAATTGGAGCACGGTAATGGGATACGAAAAACAAAATGACAGGACTGCGTTTATCC
260 GACGTACTGGAACTGGAGCACGGTAATGGGATACGAAAAACAAAATGACAGGACTGCGCTTATCC
* * *
34298343 ATTGCAGATGCTGCTGAGCTGCTGCAAGTTTCCGATGGGATGGAGTTGGTGGCAGCGGTTGTTGT
325 ATTGCAGATGCTGCTGAGCTGCTGCAAGTTTCCGATGGGAGGGAATTGGTGGCAGCGATTGTTGT
* **
34298408 TGGGGAAGCGGTGGTGTATGTGGTGGTGGTGATTGAAAGTCAACA
390 TGGGGAAGCGGCGGTGTATGTGGTGGCAGTGATTGAAAGTCAACA
34298453 AAGTATATGAAGGCGGT-G-AGGAGTAAGAAGAGTATAAACACGGCAAAGACGACGCATTTAAGC
1 AAGTATATGAAGGCGGTAGAAGGAGTAAGAAGAGTATAAACACGGCAAAGACGACGCATTTAAGC
* * *
34298516 TCCAAGGGGAAGGGGATTGCTATGGCGTAACAAATTGCAGTAGCAGCTACAAGGACTCCAACTTT
66 TCCAAGGGGAAGGGGATTGCTATGGCGTAACAAAATGCAGCAGCAGCTACAAGGACCCCAACTTT
*
34298581 TTCTAACGTTTCTGAAGTTTGGGTAGAAACTGGTTTGATAAACAAAGCCAATAAGAAAAGTTTGA
131 TTCTAACGTTTCTGAAGTTTGGGTAGAAACTGGTTTGATAAACAAAGCCAATAAGAAAAGATTGA
* *
34298646 AAGTAAGTAGGATGAGAAAGGAAAGCACAACCAAAGAAACATTGGGTTGATTTTGATCGGTTTGG
196 AAGTAAGTAGGACGAGAAAGGAAAGCACAACCAAAGAAACATTGGATTGATTTTGATCGGTTTGG
* * * *
34298711 ACGTATTGGAACTGGAGCACGGTCATGGGATACGAAAAACAAAATGAGAGGACTGCGCTTCTCCA
261 ACGTACTGGAACTGGAGCACGGTAATGGGATACGAAAAACAAAATGACAGGACTGCGCTTATCCA
* * *
34298776 TTGTAGATGCTGCTGAGCTGTTGCAAGTTTCTGATGGGAGGGAATTGGTGGCAGCGATTGTTGTT
326 TTGCAGATGCTGCTGAGCTGCTGCAAGTTTCCGATGGGAGGGAATTGGTGGCAGCGATTGTTGTT
34298841 GGGGAAGCGGCGGTGTATGTGGTGGCAGTGATTGAAAGTC
391 GGGGAAGCGGCGGTGTATGTGGTGGCAGTGATTGAAAGTC
34298881 GGAGTGATTG
Statistics
Matches: 400, Mismatches: 28, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
432 382 0.95
433 1 0.00
435 17 0.04
ACGTcount: A:0.32, C:0.13, G:0.31, T:0.24
Consensus pattern (434 bp):
AAGTATATGAAGGCGGTAGAAGGAGTAAGAAGAGTATAAACACGGCAAAGACGACGCATTTAAGC
TCCAAGGGGAAGGGGATTGCTATGGCGTAACAAAATGCAGCAGCAGCTACAAGGACCCCAACTTT
TTCTAACGTTTCTGAAGTTTGGGTAGAAACTGGTTTGATAAACAAAGCCAATAAGAAAAGATTGA
AAGTAAGTAGGACGAGAAAGGAAAGCACAACCAAAGAAACATTGGATTGATTTTGATCGGTTTGG
ACGTACTGGAACTGGAGCACGGTAATGGGATACGAAAAACAAAATGACAGGACTGCGCTTATCCA
TTGCAGATGCTGCTGAGCTGCTGCAAGTTTCCGATGGGAGGGAATTGGTGGCAGCGATTGTTGTT
GGGGAAGCGGCGGTGTATGTGGTGGCAGTGATTGAAAGTCAACA
Found at i:34306910 original size:31 final size:29
Alignment explanation
Indices: 34306864--34306949 Score: 82
Period size: 31 Copynumber: 2.9 Consensus size: 29
34306854 GGATAAATCT
* * *
34306864 CAAAATTATAGATGAACTTTGGTTTAATGTG
1 CAAATTTATACATGAACTTTGATTT--TGTG
* *
34306895 TAAATTTATACATGAATTTTGATTTTGTG
1 CAAATTTATACATGAACTTTGATTTTGTG
* *
34306924 CAATTTTATACATGAAATCTTGATTT
1 CAAATTTATACATGAACT-TTGATTT
34306950 GATGCAATTC
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
29 19 0.41
30 7 0.15
31 20 0.43
ACGTcount: A:0.34, C:0.07, G:0.14, T:0.45
Consensus pattern (29 bp):
CAAATTTATACATGAACTTTGATTTTGTG
Found at i:34306933 original size:29 final size:30
Alignment explanation
Indices: 34306899--34306958 Score: 88
Period size: 29 Copynumber: 2.0 Consensus size: 30
34306889 AATGTGTAAA
*
34306899 TTTATACATG-AATTTTGATTTTG-TGCAAT
1 TTTATACATGAAATCTTGA-TTTGATGCAAT
34306928 TTTATACATGAAATCTTGATTTGATGCAAT
1 TTTATACATGAAATCTTGATTTGATGCAAT
34306958 T
1 T
34306959 CTCACAAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 14 0.50
30 14 0.50
ACGTcount: A:0.30, C:0.08, G:0.13, T:0.48
Consensus pattern (30 bp):
TTTATACATGAAATCTTGATTTGATGCAAT
Found at i:34307478 original size:2 final size:2
Alignment explanation
Indices: 34307466--34307519 Score: 99
Period size: 2 Copynumber: 26.5 Consensus size: 2
34307456 AAAAGGATAA
34307466 AT AT CAT AT AT AT 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 AT AT AT AT AT AT
34307509 AT AT AT AT AT A
1 AT AT AT AT AT A
34307520 AACCTTAATA
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 49 0.96
3 2 0.04
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:34311365 original size:14 final size:13
Alignment explanation
Indices: 34311339--34311388 Score: 59
Period size: 12 Copynumber: 3.9 Consensus size: 13
34311329 ATTTATTTGA
34311339 AATATAATAATAT
1 AATATAATAATAT
34311352 AATATAATTAATAT
1 AATATAA-TAATAT
* *
34311366 AAT-TTACAATAT
1 AATATAATAATAT
34311378 AATA-AATAATA
1 AATATAATAATA
34311389 ATATACTTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
12 13 0.42
13 9 0.29
14 9 0.29
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (13 bp):
AATATAATAATAT
Found at i:34314454 original size:12 final size:12
Alignment explanation
Indices: 34314437--34314462 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
34314427 AACATTGGCC
34314437 GGTGATGATGAT
1 GGTGATGATGAT
34314449 GGTGATGATGAT
1 GGTGATGATGAT
34314461 GG
1 GG
34314463 AGGGAGGGAA
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:0.23, C:0.00, G:0.46, T:0.31
Consensus pattern (12 bp):
GGTGATGATGAT
Found at i:34318326 original size:14 final size:14
Alignment explanation
Indices: 34318289--34318326 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
34318279 ATTCCTTAAC
*
34318289 ATAATAATGGTTTT
1 ATAATAATGATTTT
34318303 ATAA-ACATGATTTT
1 ATAATA-ATGATTTT
34318317 ATAATAATGA
1 ATAATAATGA
34318327 GTTGCTTAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 1 0.05
14 19 0.90
15 1 0.05
ACGTcount: A:0.45, C:0.03, G:0.11, T:0.42
Consensus pattern (14 bp):
ATAATAATGATTTT
Found at i:34325586 original size:4 final size:4
Alignment explanation
Indices: 34325577--34325667 Score: 53
Period size: 4 Copynumber: 22.8 Consensus size: 4
34325567 ATTAAAATAA
* * * ** *
34325577 AAAT AAAT AAAT GAAT -AAT ATAT AAAT AAAT AAGT AAAT AAGC AATT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
* **
34325624 AAAT GAAT AAAAT AAA- AGGAAT -AAT AAAT AAAT ATGT AAAT AAA
1 AAAT AAAT -AAAT AAAT A--AAT AAAT AAAT AAAT AAAT AAAT AAA
34325668 AAAACTAAAA
Statistics
Matches: 65, Mismatches: 16, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
3 7 0.11
4 53 0.82
5 5 0.08
ACGTcount: A:0.66, C:0.01, G:0.08, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:34325607 original size:23 final size:24
Alignment explanation
Indices: 34325558--34325609 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
34325548 CAAATAAAGG
34325558 AATAAAGGAATTAAAATAAAAATA
1 AATAAAGGAATTAAAATAAAAATA
* * *
34325582 AATAAATGAA-TAATATATAAATA
1 AATAAAGGAATTAAAATAAAAATA
34325605 AATAA
1 AATAA
34325610 GTAAATAAGC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 16 0.64
24 9 0.36
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (24 bp):
AATAAAGGAATTAAAATAAAAATA
Found at i:34327562 original size:51 final size:51
Alignment explanation
Indices: 34327482--34327579 Score: 144
Period size: 51 Copynumber: 1.9 Consensus size: 51
34327472 AGAATAAGAT
*
34327482 TTGTAACTTTAATATGTTCCACTGCAACTTCAAGG-AGATAAGATTCGTACC
1 TTGTAACTTTAATATGTTCCACTGCAACTT-AAGGAAAATAAGATTCGTACC
* * *
34327533 TTGTAGCTTTAATATGTTCCACTGTAACTTTAGGAAAATAAGATTCG
1 TTGTAACTTTAATATGTTCCACTGCAACTTAAGGAAAATAAGATTCG
34327580 CTATGGTAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 3 0.07
51 39 0.93
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (51 bp):
TTGTAACTTTAATATGTTCCACTGCAACTTAAGGAAAATAAGATTCGTACC
Found at i:34327652 original size:44 final size:44
Alignment explanation
Indices: 34327601--34328167 Score: 231
Period size: 44 Copynumber: 12.5 Consensus size: 44
34327591 TTAATCCAAC
* * * *
34327601 CCACTGCAATTTCAGGGAGATTAGACTTGTAGCTTTAATCTGCT
1 CCACTGCAACTTCAGGGAGATGAGACTTGTAGCTTCAATCTACT
* * * *
34327645 CCGCTGCAACTTCAGGGCGATGAGACTCGTATCTTCAATCTACT
1 CCACTGCAACTTCAGGGAGATGAGACTTGTAGCTTCAATCTACT
* * * * **
34327689 CCACAGCAACTTCTGGGAGATGAGATTTGTAACTTGTAGCTTTAATTTGTT
1 CCACTGCAACTTCAGGGAGAT--GA---G--ACTTGTAGCTTCAATCTACT
* * * * * *
34327740 CCACTACAACTTCAGGGAAATAAGATTTGTATCTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATGAGACTTGTAGCTTCAATCTACT
* * * ***
34327784 CCACTGCTACTTCTGGGAGATAAGATTTGTAACTTGTAGCTTTAATCCGTT
1 CCACTGCAACTTCAGGGAGAT--GA---G--ACTTGTAGCTTCAATCTACT
* * * * *
34327835 CCACTGCAACTTCAGGGAAATAAGA-TTCACTATCTTCAATCTATT
1 CCACTGCAACTTCAGGGAGATGAGACTT--GTAGCTTCAATCTACT
* * * ** * * *
34327880 CCATTGCAACTTCAGGGAAATAAGGTTTGCTATCTTCAATTTGCT
1 CCACTGCAACTTCAGGGAGATGAGACTTG-TAGCTTCAATCTACT
* * * **
34327925 CCACTACAACTTCGGGGAGATAAGTTTTGTAGCTTCAATCTACT
1 CCACTGCAACTTCAGGGAGATGAGACTTGTAGCTTCAATCTACT
* * * * * * * * *
34327969 CTACTGCAACTTCAGAGATATAAGATTTGTTATCTAT-GATTTGCT
1 CCACTGCAACTTCAGGGAGATGAGACTTG-TAGCT-TCAATCTACT
* * * * * *
34328014 TCACTGCAACTTCAGGGAGATAATATTTGTAGTTTTAATCTACT
1 CCACTGCAACTTCAGGGAGATGAGACTTGTAGCTTCAATCTACT
* * * * * * ** *
34328058 CTACTACAACTTTAGAGAGATAAGATTTGCTATATTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATGAGACTTG-TAGCTTCAATCTACT
* * * * * * *
34328103 TCACCGCAACTTCAGGGAGATAAGA-TTTTTGCCTTTAATATACT
1 CCACTGCAACTTCAGGGAGATGAGACTTGTAG-CTTCAATCTACT
* *
34328147 CCTCTACAACTTCAGGGAGAT
1 CCACTGCAACTTCAGGGAGAT
34328168 AAGATTCACC
Statistics
Matches: 392, Mismatches: 108, Indels: 46
0.72 0.20 0.08
Matches are distributed among these distances:
43 4 0.01
44 179 0.46
45 133 0.34
46 8 0.02
49 4 0.01
51 64 0.16
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGAGATGAGACTTGTAGCTTCAATCTACT
Found at i:34327733 original size:95 final size:95
Alignment explanation
Indices: 34327396--34327998 Score: 462
Period size: 95 Copynumber: 6.4 Consensus size: 95
34327386 TTGTCGCTTA
* * * * * *
34327396 AATCTGCTCCACTACAACTTCAGGAAGATAAGATTTGTAACTTGTAGTTTTCATCTGTTCCACTG
1 AATCTACTCCACTGCAACTTCTGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTG
* * * *
34327461 CAATGTTCA-GGAGAATAAGATTTGTAACTTT
66 CAA-CTTCAGGGA-AATAAGATTCGTATCTTC
* ** ** * * *
34327492 AATATGTTCCACTGCAACTTCAAGGAGATAAGATTCGTACCTTGTAGCTTTAATATGTTCCACTG
1 AATCTACTCCACTGCAACTTCTGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTG
* * * * *
34327557 TAACTTTAGGAAAATAAGATTCGCTATGGTAAATTT
66 CAACTTCAGGGAAATAAGATTCG-TA---T--CTTC
* * * * * *
34327593 AATCCAAC-CCACTGCAATTTC-AGG-G---AGATTAG--ACTTGTAGCTTTAATCTGCTCCGCT
1 AAT-CTACTCCACTGCAACTTCTGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACT
** * *
34327650 GCAACTTCAGGGCGATGAGACTCGTATCTTC
65 GCAACTTCAGGGAAATAAGATTCGTATCTTC
* * * *
34327681 AATCTACTCCACAGCAACTTCTGGGAGATGAGATTTGTAACTTGTAGCTTTAATTTGTTCCACTA
1 AATCTACTCCACTGCAACTTCTGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTG
*
34327746 CAACTTCAGGGAAATAAGATTTGTATCTTC
66 CAACTTCAGGGAAATAAGATTCGTATCTTC
* * *
34327776 AATCTGCTCCACTGCTACTTCTGGGAGATAAGATTTGTAACTTGTAGCTTTAATCCGTTCCACTG
1 AATCTACTCCACTGCAACTTCTGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTG
*
34327841 CAACTTCAGGGAAATAAGATTCACTATCTTC
66 CAACTTCAGGGAAATAAGATTC-GTATCTTC
* * * * * * * * * *
34327872 AATCTATTCCATTGCAACTTCAGGGAAATAAGGTTTG---C---TATCTTCAATTTGCTCCACTA
1 AATCTACTCCACTGCAACTTCTGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTG
* * * * *
34327931 CAACTTCGGGGAGATAAGTTTTGTAGCTTC
66 CAACTTCAGGGAAATAAGATTCGTATCTTC
* * * *
34327961 AATCTACTCTACTGCAACTTCAGAGATATAAGATTTGT
1 AATCTACTCCACTGCAACTTCTGGGAGATAAGATTTGT
34327999 TATCTATGAT
Statistics
Matches: 405, Mismatches: 84, Indels: 42
0.76 0.16 0.08
Matches are distributed among these distances:
87 3 0.01
88 16 0.04
89 39 0.10
90 35 0.09
93 9 0.02
94 38 0.09
95 139 0.34
96 104 0.26
99 1 0.00
100 3 0.01
101 18 0.04
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (95 bp):
AATCTACTCCACTGCAACTTCTGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTG
CAACTTCAGGGAAATAAGATTCGTATCTTC
Found at i:34327766 original size:51 final size:51
Alignment explanation
Indices: 34327688--34327861 Score: 191
Period size: 51 Copynumber: 3.5 Consensus size: 51
34327678 TTCAATCTAC
* * * * *
34327688 TCCACAGCAACTTCTGGGAGATGAGATTTGTAACTTGTAGCTTTAATTTGT
1 TCCACTGCAACTTCAGGGAAATAAGATTTGTAACTTGTAGCTTTAATCTGT
* * *
34327739 TCCACTACAACTTCAGGGAAATAAGATTTGT-A----T--CTTCAATCTGC
1 TCCACTGCAACTTCAGGGAAATAAGATTTGTAACTTGTAGCTTTAATCTGT
* * * *
34327783 TCCACTGCTACTTCTGGGAGATAAGATTTGTAACTTGTAGCTTTAATCCGT
1 TCCACTGCAACTTCAGGGAAATAAGATTTGTAACTTGTAGCTTTAATCTGT
34327834 TCCACTGCAACTTCAGGGAAATAAGATT
1 TCCACTGCAACTTCAGGGAAATAAGATT
34327862 CACTATCTTC
Statistics
Matches: 98, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
44 35 0.36
45 1 0.01
46 1 0.01
49 1 0.01
50 1 0.01
51 59 0.60
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (51 bp):
TCCACTGCAACTTCAGGGAAATAAGATTTGTAACTTGTAGCTTTAATCTGT
Found at i:34327897 original size:45 final size:45
Alignment explanation
Indices: 34327739--34328213 Score: 253
Period size: 45 Copynumber: 10.4 Consensus size: 45
34327729 TTTAATTTGT
* * *
34327739 TCCACTACAACTTCAGGGAAATAAGATTT-GTATCTTCAATCTGC
1 TCCACTGCAACTTCAGGGAAATAAGATTTACTATCTTCAATCTAC
* * * * * ***
34327783 TCCACTGCTACTTCTGGGAGATAAGATTTGTAACTTGTAGCTTTAATCCGT
1 TCCACTGCAACTTCAGGGAAATAAGA-TT-T-AC---TATCTTCAATCTAC
* *
34327834 TCCACTGCAACTTCAGGGAAATAAGATTCACTATCTTCAATCTAT
1 TCCACTGCAACTTCAGGGAAATAAGATTTACTATCTTCAATCTAC
* * * * *
34327879 TCCATTGCAACTTCAGGGAAATAAGGTTTGCTATCTTCAATTTGC
1 TCCACTGCAACTTCAGGGAAATAAGATTTACTATCTTCAATCTAC
* * * ** *
34327924 TCCACTACAACTTCGGGGAGATAAG-TTTTGTAGCTTCAATCTAC
1 TCCACTGCAACTTCAGGGAAATAAGATTTACTATCTTCAATCTAC
* * * ** * * *
34327968 TCTACTGCAACTTCAGAGATATAAGATTTGTTATCTAT-GATTTGC
1 TCCACTGCAACTTCAGGGAAATAAGATTTACTATCT-TCAATCTAC
* * * * *
34328013 TTCACTGCAACTTCAGGGAGATAATATTT-GTAGT-TTTAATCTAC
1 TCCACTGCAACTTCAGGGAAATAAGATTTACTA-TCTTCAATCTAC
* * * * * * * *
34328057 TCTACTACAACTTTAGAGAGATAAGATTTGCTATATTCAATCTGC
1 TCCACTGCAACTTCAGGGAAATAAGATTTACTATCTTCAATCTAC
* * * * ** * *
34328102 TTCACCGCAACTTCAGGGAGATAAGATTT-TTGCCTTTAATATAC
1 TCCACTGCAACTTCAGGGAAATAAGATTTACTATCTTCAATCTAC
* * * * *
34328146 TCCTCTACAACTTCAGGGAGATAAGATTCACCGTGATAACTTCAATCCA-
1 TCCACTGCAACTTCAGGGAAATAAGATTTA-C-T-AT--CTTCAATCTAC
34328195 TCCCACTGCAACTTCAGGG
1 T-CCACTGCAACTTCAGGG
34328214 GTATAGGATT
Statistics
Matches: 323, Mismatches: 88, Indels: 34
0.73 0.20 0.08
Matches are distributed among these distances:
43 1 0.00
44 119 0.37
45 140 0.43
46 2 0.01
47 1 0.00
48 2 0.01
49 1 0.00
50 24 0.07
51 33 0.10
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (45 bp):
TCCACTGCAACTTCAGGGAAATAAGATTTACTATCTTCAATCTAC
Found at i:34327992 original size:89 final size:89
Alignment explanation
Indices: 34327836--34328173 Score: 326
Period size: 89 Copynumber: 3.8 Consensus size: 89
34327826 TAATCCGTTC
* *** * * * * *
34327836 CACTGCAACTTCAGGGAAATAAGATTCACTATCTTCAATCTATTCCATTGCAACTTCAGGGAAAT
1 CACTGCAACTTCAGGGAGATAAG-TTTTGTAGCTTCAATCTACTCTACTGCAACTTCAGAGAAAT
* *
34327901 AAGGTTTGCTATCTTCAATTTGCTC
65 AAGATTTGCTATCTTCAATTTGCTT
* * *
34327926 CACTACAACTTCGGGGAGATAAGTTTTGTAGCTTCAATCTACTCTACTGCAACTTCAGAGATATA
1 CACTGCAACTTCAGGGAGATAAGTTTTGTAGCTTCAATCTACTCTACTGCAACTTCAGAGAAATA
* *
34327991 AGATTTGTTATCTAT-GATTTGCTT
66 AGATTTGCTATCT-TCAATTTGCTT
* * * * *
34328015 CACTGCAACTTCAGGGAGATAA-TATTTGTAGTTTTAATCTACTCTACTACAACTTTAGAGAGAT
1 CACTGCAACTTCAGGGAGATAAGT-TTTGTAGCTTCAATCTACTCTACTGCAACTTCAGAGAAAT
* *
34328079 AAGATTTGCTATATTCAATCTGCTT
65 AAGATTTGCTATCTTCAATTTGCTT
* * * * * *
34328104 CACCGCAACTTCAGGGAGATAAGATTTT-T-GCCTTTAATATACTCCT-CTACAACTTCAGGGAG
1 CACTGCAACTTCAGGGAGATAAG-TTTTGTAG-CTTCAATCTACT-CTACTGCAACTTCAGAGAA
34328166 ATAAGATT
63 ATAAGATT
34328174 CACCGTGATA
Statistics
Matches: 209, Mismatches: 32, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
88 3 0.01
89 179 0.86
90 26 0.12
91 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.35
Consensus pattern (89 bp):
CACTGCAACTTCAGGGAGATAAGTTTTGTAGCTTCAATCTACTCTACTGCAACTTCAGAGAAATA
AGATTTGCTATCTTCAATTTGCTT
Found at i:34327994 original size:185 final size:186
Alignment explanation
Indices: 34327625--34327998 Score: 437
Period size: 185 Copynumber: 2.0 Consensus size: 186
34327615 GGGAGATTAG
* * ** * *
34327625 ACTTGTAGCTTTAATCTGCTCCGCTGCAACTTCAGGGCGATGAGACTCGTATCTTCAATCTACTC
1 ACTTGTAGCTTTAATCCGCTCCACTGCAACTTCAGGGAAATAAGACTCCTATCTTCAATCTACTC
* * * * *
34327690 CACAGCAACTTCTGGGAGATGAGATTTGTAACTTGTAGCTTTAATTTGTTCCACTACAACTTCAG
66 CACAGCAACTTCAGGGAAATAAGATTTG--AC-T-TAGCTTCAATTTGCTCCACTACAACTTCAG
* * * * *
34327755 GGAAATAAGATTTGTATCTTCAATCTGCTCCACTGCTACTTCTGGGAGATAAGATTTGTA
127 GGAAATAAGATTTGTAGCTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGTA
* * *
34327815 ACTTGTAGCTTTAATCCGTTCCACTGCAACTTCAGGGAAATAAGATTCACTATCTTCAATCTATT
1 ACTTGTAGCTTTAATCCGCTCCACTGCAACTTCAGGGAAATAAGACTC-CTATCTTCAATCTACT
** * * *
34327880 CCATTGCAACTTCAGGGAAATAAGGTTTG-C-TATCTTCAATTTGCTCCACTACAACTTCGGGGA
65 CCACAGCAACTTCAGGGAAATAAGATTTGACTTAGCTTCAATTTGCTCCACTACAACTTCAGGGA
* * * *
34327943 GATAAGTTTTGTAGCTTCAATCTACTCTACTGCAACTTCAGAGATATAAGATTTGT
130 AATAAGATTTGTAGCTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGT
34327999 TATCTATGAT
Statistics
Matches: 155, Mismatches: 28, Indels: 7
0.82 0.15 0.04
Matches are distributed among these distances:
185 76 0.49
188 1 0.01
190 41 0.26
191 37 0.24
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.34
Consensus pattern (186 bp):
ACTTGTAGCTTTAATCCGCTCCACTGCAACTTCAGGGAAATAAGACTCCTATCTTCAATCTACTC
CACAGCAACTTCAGGGAAATAAGATTTGACTTAGCTTCAATTTGCTCCACTACAACTTCAGGGAA
ATAAGATTTGTAGCTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGTA
Found at i:34334967 original size:23 final size:22
Alignment explanation
Indices: 34334888--34334970 Score: 62
Period size: 23 Copynumber: 3.7 Consensus size: 22
34334878 GAAAATTTTA
34334888 AATAT-TAAA-AAATGAAGCAAT
1 AATATATAAATAAATGAAG-AAT
* * * *
34334909 AACAAATAAATGAATAAAGGAATT
1 AATATATAAATAAATGAA-GAA-T
* *
34334933 AAAATAAAAATAAATGAATGAAT
1 AATATATAAATAAATGAA-GAAT
34334956 AATATATAAATAAAT
1 AATATATAAATAAAT
34334971 AAGTAAATAA
Statistics
Matches: 46, Mismatches: 12, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
21 3 0.07
22 4 0.09
23 21 0.46
24 18 0.39
ACGTcount: A:0.65, C:0.02, G:0.08, T:0.24
Consensus pattern (22 bp):
AATATATAAATAAATGAAGAAT
Found at i:34334968 original size:4 final size:4
Alignment explanation
Indices: 34334940--34335038 Score: 51
Period size: 4 Copynumber: 24.8 Consensus size: 4
34334930 ATTAAAATAA
* * * * ** *
34334940 AAAT AAAT GAAT GAAT -AAT ATAT AAAT AAAT AAGT AAAT AAGC AATT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
* ** *
34334987 AAAT GAAT AAAAT AAA- AGGAAT -AAT AAAT AAAT ATGT AAAT AAAA AAAT
1 AAAT AAAT -AAAT AAAT A--AAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
34335036 AAA
1 AAA
34335039 AGGAAAGAGT
Statistics
Matches: 71, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
3 7 0.10
4 59 0.83
5 5 0.07
ACGTcount: A:0.67, C:0.01, G:0.08, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:34334971 original size:15 final size:15
Alignment explanation
Indices: 34334934--34335020 Score: 52
Period size: 15 Copynumber: 5.3 Consensus size: 15
34334924 AAAGGAATTA
34334934 AAATAAA-AATAAAT
1 AAATAAATAATAAAT
* * *
34334948 GAATGAATAATATAT
1 AAATAAATAATAAAT
34334963 AAATAAATAAGTAAAT
1 AAATAAATAA-TAAAT
34334979 AAGCAATTAAATGAATAAAAT
1 -A--AA-TAAAT-AAT-AAAT
34335000 AAA-AGGAATAATAAAT
1 AAATA--AATAATAAAT
34335016 AAATA
1 AAATA
34335021 TGTAAATAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 19
0.69 0.07 0.23
Matches are distributed among these distances:
14 5 0.09
15 14 0.25
16 12 0.21
17 5 0.09
18 5 0.09
19 2 0.04
20 7 0.12
21 6 0.11
ACGTcount: A:0.67, C:0.01, G:0.08, T:0.24
Consensus pattern (15 bp):
AAATAAATAATAAAT
Found at i:34336579 original size:7 final size:7
Alignment explanation
Indices: 34336567--34336593 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
34336557 TTCTTATGCT
34336567 TTTTAAA
1 TTTTAAA
34336574 TTTTAAA
1 TTTTAAA
34336581 TTTTAAA
1 TTTTAAA
34336588 TTTTAA
1 TTTTAA
34336594 TGTAAAACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
TTTTAAA
Done.