Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168026.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_28, whole genome shotgun sequence
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: 15507587
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 18 of 91
Found at i:3126559 original size:14 final size:15
Alignment explanation
Indices: 3126537--3126570 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
3126527 AGTTTGAAGA
*
3126537 TTTTAGGGTTT-GGG
1 TTTTGGGGTTTGGGG
3126551 TTTTGGGGTTTGGGG
1 TTTTGGGGTTTGGGG
3126566 TTTTG
1 TTTTG
3126571 ATTTAAGGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.03, C:0.00, G:0.44, T:0.53
Consensus pattern (15 bp):
TTTTGGGGTTTGGGG
Found at i:3126570 original size:51 final size:50
Alignment explanation
Indices: 3126506--3126619 Score: 133
Period size: 51 Copynumber: 2.3 Consensus size: 50
3126496 AGATATGGAA
* *
3126506 GGTTTAGGATTTTGATTTTAGAGTTTGAAGATTTTAGGG-TTTGGGTTTTGG
1 GGTTTGGGATTTTGATTTAAGAGTTTG--GATTTTAGGGATTTGGGTTTTGG
* * *
3126557 GGTTTGGGGTTTTGATTTAAGGGTTTGGATTTTAGGGATTTTGGTTTTTGG
1 GGTTTGGGATTTTGATTTAAGAGTTTGGATTTTAGGGA-TTTGGGTTTTGG
*
3126608 AGTTT-GGATTTT
1 GGTTTGGGATTTT
3126620 AAGGGTTTCG
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
49 10 0.19
50 6 0.11
51 38 0.70
ACGTcount: A:0.15, C:0.00, G:0.34, T:0.51
Consensus pattern (50 bp):
GGTTTGGGATTTTGATTTAAGAGTTTGGATTTTAGGGATTTGGGTTTTGG
Found at i:3126580 original size:14 final size:14
Alignment explanation
Indices: 3126563--3126652 Score: 65
Period size: 14 Copynumber: 6.1 Consensus size: 14
3126553 TTGGGGTTTG
*
3126563 GGGTTTTGATTTAA
1 GGGTTTGGATTTAA
*
3126577 GGGTTTGGATTTTA
1 GGGTTTGGATTTAA
**
3126591 GGGATTTTGG-TTTTT
1 GGG--TTTGGATTTAA
3126606 GGAGTTTGGATTTTAA
1 GG-GTTTGGA-TTTAA
* *
3126622 GGGTTTCGAATTTTAG
1 GGGTTT-GGA-TTTAA
3126638 GGGTTTGGATTTAA
1 GGGTTTGGATTTAA
3126652 G
1 G
3126653 AGATTTTGGA
Statistics
Matches: 61, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
14 25 0.41
15 12 0.20
16 24 0.39
ACGTcount: A:0.18, C:0.01, G:0.33, T:0.48
Consensus pattern (14 bp):
GGGTTTGGATTTAA
Found at i:3126603 original size:35 final size:35
Alignment explanation
Indices: 3126535--3126606 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 35
3126525 AGAGTTTGAA
* * *
3126535 GATTTTAGGGTTTGGGTTTTGGGGTTTGGGGTTTT
1 GATTTAAGGGTTTGGATTTTGGGATTTGGGGTTTT
* *
3126570 GATTTAAGGGTTTGGATTTTAGGGATTTTGGTTTTT
1 GATTTAAGGGTTTGGATTTT-GGGATTTGGGGTTTT
3126606 G
1 G
3126607 GAGTTTGGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
35 18 0.58
36 13 0.42
ACGTcount: A:0.11, C:0.00, G:0.38, T:0.51
Consensus pattern (35 bp):
GATTTAAGGGTTTGGATTTTGGGATTTGGGGTTTT
Found at i:3126605 original size:16 final size:16
Alignment explanation
Indices: 3126580--3126670 Score: 82
Period size: 16 Copynumber: 5.9 Consensus size: 16
3126570 GATTTAAGGG
3126580 TTTGGATTTTAGGGAT
1 TTTGGATTTTAGGGAT
* *
3126596 TTTGG-TTTT-TGGAG
1 TTTGGATTTTAGGGAT
3126610 TTTGGATTTTAAGGG-T
1 TTTGGATTTT-AGGGAT
* * *
3126626 TTCGAATTTTAGGG-G
1 TTTGGATTTTAGGGAT
* *
3126641 TTTGGATTTAAGAGAT
1 TTTGGATTTTAGGGAT
3126657 TTTGGATTTTAGGG
1 TTTGGATTTTAGGG
3126671 GGTTTTAGAA
Statistics
Matches: 57, Mismatches: 14, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
14 8 0.14
15 22 0.39
16 25 0.44
17 2 0.04
ACGTcount: A:0.19, C:0.01, G:0.32, T:0.48
Consensus pattern (16 bp):
TTTGGATTTTAGGGAT
Found at i:3126647 original size:31 final size:30
Alignment explanation
Indices: 3126563--3126671 Score: 107
Period size: 31 Copynumber: 3.6 Consensus size: 30
3126553 TTGGGGTTTG
*
3126563 GGGTTTTGA-TTTAAGGGTTTGGATTTT-A
1 GGGTTTTGATTTTAGGGGTTTGGATTTTAA
* * *
3126591 GGGATTTTGGTTTTTGGAGTTTGGATTTTAA
1 GGG-TTTTGATTTTAGGGGTTTGGATTTTAA
*
3126622 GGGTTTCGAATTTTAGGGGTTTGGA-TTTAA
1 GGGTTTTG-ATTTTAGGGGTTTGGATTTTAA
*
3126652 GAGATTTTGGATTTTAGGGG
1 G-GGTTTT-GATTTTAGGGG
3126672 GTTTTAGAAA
Statistics
Matches: 65, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
28 3 0.05
29 5 0.08
30 25 0.38
31 31 0.48
32 1 0.02
ACGTcount: A:0.18, C:0.01, G:0.34, T:0.47
Consensus pattern (30 bp):
GGGTTTTGATTTTAGGGGTTTGGATTTTAA
Found at i:3128208 original size:3 final size:3
Alignment explanation
Indices: 3128200--3128228 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
3128190 ATTTAAAATA
3128200 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
3128229 ATTTTAATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:3128800 original size:22 final size:22
Alignment explanation
Indices: 3128772--3128815 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
3128762 ATCACGAATC
*
3128772 GAAATTATGCCCGAAAGTCTTA
1 GAAATTATACCCGAAAGTCTTA
* *
3128794 GAAATTATATCCGAAGGTCTTA
1 GAAATTATACCCGAAAGTCTTA
3128816 CAGAATTGAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (22 bp):
GAAATTATACCCGAAAGTCTTA
Found at i:3128866 original size:110 final size:110
Alignment explanation
Indices: 3128478--3129002 Score: 459
Period size: 110 Copynumber: 4.8 Consensus size: 110
3128468 TCATGCCCGG
* * * ** * * * * *
3128478 AGGTCTTACAGAATCGA-TCAGGATAACATCGCAAGTC-AAAAATAATGAATCAATAGGGACAAT
1 AGGTCTTACAGAATCGACT-ATGACAACATCGTAAGTCAAAAAATAAAAAATCGATCGAGATAAC
* * * * * *
3128541 ACCGCGAATCGAATTTATGCCCGAAGGTCTTAAAAATCATACCCGG
65 ATCGCGAATCGAAATTATGCCCGAAAGTCTTAGAAATCATATCCGA
* * * * * *
3128587 AGGTCTTACAGAATTGACTGA-AACAACACCGTAAGTCAAAAAATCAAAAATCGATCGGGATAAT
1 AGGTCTTACAGAATCGACT-ATGACAACATCGTAAGTCAAAAAATAAAAAATCGATCGAGATAAC
** * * * * *
3128651 ATCGTAAATCGAATTTATGCCCGAAAGTTTTACAGAATCATGTTCGA
65 ATCGCGAATCGAAATTATGCCCGAAAGTCTTAGA-AATCATATCCGA
* * ** * * *
3128698 AGGTCTTATAAAATCGACTGGGACAACATCATAAGTCAAAAAATGAAGAATCGATCGAGATAACA
1 AGGTCTTACAGAATCGACTATGACAACATCGTAAGTCAAAAAATAAAAAATCGATCGAGATAACA
* *
3128763 TCACGAATCGAAATTATGCCCGAAAGTCTTAGAAATTATATCCGA
66 TCGCGAATCGAAATTATGCCCGAAAGTCTTAGAAATCATATCCGA
* * * *
3128808 AGGTCTTACAGAATTGACTATGATAATATCGTAAGTCAAAAAATAAAAAATTGATCGAGATAACA
1 AGGTCTTACAGAATCGACTATGACAACATCGTAAGTCAAAAAATAAAAAATCGATCGAGATAACA
* * * * *
3128873 TCGCGAATCAAAATTATG-CCTAGAGGACTTAGAAATCATA-CCCA
66 TCGCGAATCGAAATTATGCCCGA-AAGTCTTAGAAATCATATCCGA
* * * ** * *
3128917 GAGGTCTTACAGAATCGACTATGATAACATTGCAAGTCAAAAAATAAGGAATCAATCGAAATAAC
1 -AGGTCTTACAGAATCGACTATGACAACATCGTAAGTCAAAAAATAAAAAATCGATCGAGATAAC
*
3128982 A-CTGCGAATCAAAATTATGCC
65 ATC-GCGAATCGAAATTATGCC
3129003 TGGAGGTCTT
Statistics
Matches: 339, Mismatches: 69, Indels: 14
0.80 0.16 0.03
Matches are distributed among these distances:
109 35 0.10
110 215 0.63
111 89 0.26
ACGTcount: A:0.42, C:0.18, G:0.17, T:0.23
Consensus pattern (110 bp):
AGGTCTTACAGAATCGACTATGACAACATCGTAAGTCAAAAAATAAAAAATCGATCGAGATAACA
TCGCGAATCGAAATTATGCCCGAAAGTCTTAGAAATCATATCCGA
Found at i:3129040 original size:88 final size:88
Alignment explanation
Indices: 3128917--3129189 Score: 323
Period size: 88 Copynumber: 3.1 Consensus size: 88
3128907 ATCATACCCA
** ** * * *
3128917 GAGGTCTTACAGAATCGACTATGATAACATTGCAAGTCAAAAAATAAGGAATCAATCGAAATAAC
1 GAGGTCTTACAGAATCGACTGGGATAACACCGCAAGTCAAAAAATAAGAAATCGATCGAGATAAC
*
3128982 ACTGCGAATCAAAATTATGCCTG
66 ACTGCGAATCGAAATTATGCCTG
* * * * *
3129005 GAGGTCTTATAGAATCGATTGGGATAGCACCGCAAGTCAAAAAATAAAAAATCGATCGGGATAAC
1 GAGGTCTTACAGAATCGACTGGGATAACACCGCAAGTCAAAAAATAAGAAATCGATCGAGATAAC
* *
3129070 A-TCGTGACTCGAAATTATGCCTG
66 ACT-GCGAATCGAAATTATGCCTG
* * * * *
3129093 GAGGTCTTACAGAATCGACTGTGATAATATCGCAAGTTAAAAAATAAGAAATTGATCGAGATAAC
1 GAGGTCTTACAGAATCGACTGGGATAACACCGCAAGTCAAAAAATAAGAAATCGATCGAGATAAC
* *
3129158 ACCGCGAATCGAAATTATGCCCG
66 ACTGCGAATCGAAATTATGCCTG
*
3129181 GAAGTCTTA
1 GAGGTCTTA
3129190 AAAGTTGTGC
Statistics
Matches: 153, Mismatches: 30, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
87 1 0.01
88 152 0.99
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (88 bp):
GAGGTCTTACAGAATCGACTGGGATAACACCGCAAGTCAAAAAATAAGAAATCGATCGAGATAAC
ACTGCGAATCGAAATTATGCCTG
Found at i:3129443 original size:107 final size:107
Alignment explanation
Indices: 3129321--3129531 Score: 359
Period size: 107 Copynumber: 2.0 Consensus size: 107
3129311 AAGTCATGCG
* *
3129321 CAAAGGTTTTTAGAGATTATGCCCGGAGGTCTTACAAATCTCAAAATCTTTGAATGCTCCTCATA
1 CAAAGGCTTTTAGAGATTATGCCCGGAGGTCTTACAAATCTCAAAATCTTTGAATACTCCTCATA
* *
3129386 ATCAAAGGCAATAAAATTTTAAAAATTTGAAAATCTTTTGCA
66 ATCAAAGGCAATAAAACTTTAAAAATTTAAAAATCTTTTGCA
*
3129428 CAAAGGCTTTTAGAGATTATGTCCGGAGGTCTTACAAATCTCAAAATCTTTGAATACTCCTCATA
1 CAAAGGCTTTTAGAGATTATGCCCGGAGGTCTTACAAATCTCAAAATCTTTGAATACTCCTCATA
* *
3129493 ATCAGAGGCAATGAAACTTTAAAAATTTAAAAATCTTTT
66 ATCAAAGGCAATAAAACTTTAAAAATTTAAAAATCTTTT
3129532 AAAACATGGC
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
107 97 1.00
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (107 bp):
CAAAGGCTTTTAGAGATTATGCCCGGAGGTCTTACAAATCTCAAAATCTTTGAATACTCCTCATA
ATCAAAGGCAATAAAACTTTAAAAATTTAAAAATCTTTTGCA
Found at i:3131345 original size:17 final size:17
Alignment explanation
Indices: 3131319--3131356 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
3131309 AATATGTCCC
*
3131319 TTTTG-TTTTTTATTTTT
1 TTTTGCTTTTTT-TATTT
3131336 TTTTGCTTTTTTTATTT
1 TTTTGCTTTTTTTATTT
3131353 TTTT
1 TTTT
3131357 TATGCCCCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.05, C:0.03, G:0.05, T:0.87
Consensus pattern (17 bp):
TTTTGCTTTTTTTATTT
Found at i:3131347 original size:18 final size:18
Alignment explanation
Indices: 3131319--3131357 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
3131309 AATATGTCCC
3131319 TTTTG-TTTTTTATTTTT
1 TTTTGTTTTTTTATTTTT
3131336 TTTTGCTTTTTTTATTTTT
1 TTTTG-TTTTTTTATTTTT
3131355 TTT
1 TTT
3131358 ATGCCCCATC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 5 0.25
19 15 0.75
ACGTcount: A:0.05, C:0.03, G:0.05, T:0.87
Consensus pattern (18 bp):
TTTTGTTTTTTTATTTTT
Found at i:3132310 original size:57 final size:57
Alignment explanation
Indices: 3132000--3132571 Score: 753
Period size: 59 Copynumber: 9.6 Consensus size: 57
3131990 TTTTTTGGAG
*
3132000 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTCGATTT-TGAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTGGAAATTT--ATTTCT-AA
*
3132060 GGAAAATTGATACTTTCAACTTTT-CCTCAAAAACCCT-TTTTTTGAAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCT-AAAAA---TATTTTTTGGAAATTTATTTCTAA
*
3132119 GGAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTTTGGAAATTTATTTTTCTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTTGGAAATTTA--TTTC---TAA
*
3132183 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTGAAATTTATTTCT--
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA---TTTTTTGGAAATTTATTTCTAA
3132241 GGAAAAATTGATACTTTCAACTTTTTCCC-AAAAATATTTTTTGGAAATTTATTTCTAA
1 GG-AAAATTGATACTTTCAAC-TTTTCCCTAAAAATATTTTTTGGAAATTTATTTCTAA
*
3132299 GAAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTTTCTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTTGGAAATTTA--TTTC---TAA
3132363 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTA-TTCTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTTC-TAA
* *
3132420 GGAAAATTGATACTTTCAACTTTTCCCTAAAAAAATATTTTTTTGAAATTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCT--AAAAATATTTTTTGGAAATTTATTTCTAA
*
3132479 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTTCTAA
3132536 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATAT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATAT
3132572 ATATTTTTTA
Statistics
Matches: 468, Mismatches: 14, Indels: 63
0.86 0.03 0.12
Matches are distributed among these distances:
56 27 0.06
57 119 0.25
58 3 0.01
59 144 0.31
60 44 0.09
61 21 0.04
62 15 0.03
63 5 0.01
64 74 0.16
65 16 0.03
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (57 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTTCTAA
Found at i:3132319 original size:180 final size:176
Alignment explanation
Indices: 3132000--3132571 Score: 824
Period size: 180 Copynumber: 3.2 Consensus size: 176
3131990 TTTTTTGGAG
*
3132000 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTCGATTT-TGAAGGAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTT--ATTTCT---GGAA
*
3132064 AATTGATACTTTCAACTTTTCCTCAAAAACCCT-TTTTTTGAAAATTTATTTCTAAGGAAAATTG
61 AATTGATACTTTCAACTTTTCC-CAAAAA---TATTTTTTGGAAATTTATTTCTAAGGAAAATTG
*
3132128 ATACTTTCAACTTTTTCCTAAAAATATTTTTTTTGGAAATTTATTTTTCTTTTAA
122 ATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTTTCTTTTAA
*
3132183 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTGAAATTTATTTCTGGAAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTTTGGAAATTTATTTCTGG-AAAA
*
3132248 TTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGGAAATTTATTTCTAAGAAAAATTGATACT
63 TTGATACTTTCAAC-TTTTCCCAAAAATATTTTTTGGAAATTTATTTCTAAGGAAAATTGATACT
3132313 TTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTTTCTTTTAA
127 TTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTTTCTTTTAA
3132363 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTGGAAATTTA-TTCTTAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTATTTC-T--GGAAAA
* *
3132426 TTGATACTTTCAACTTTTCCCTAAAAAAATATTTTTTTGAAATTTATTTCTGAGGAAAATTGATA
63 TTGATACTTTCAACTTTTCCC---AAAAATATTTTTTGGAAATTTATTTCTAAGGAAAATTGATA
*
3132491 CTTTCAACTTTTCCCCAAAAATA--TTTTTTGGAAATTTA--TTTC---TAA
125 CTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTTTCTTTTAA
3132536 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATAT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATAT
3132572 ATATTTTTTA
Statistics
Matches: 366, Mismatches: 10, Indels: 35
0.89 0.02 0.09
Matches are distributed among these distances:
173 38 0.10
176 7 0.02
177 22 0.06
178 33 0.09
179 3 0.01
180 178 0.49
181 2 0.01
182 24 0.07
183 44 0.12
184 1 0.00
185 14 0.04
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (176 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAATTTATTTCTGGAAAATTG
ATACTTTCAACTTTTCCCAAAAATATTTTTTGGAAATTTATTTCTAAGGAAAATTGATACTTTCA
ACTTTTCCCTAAAAATATTTTTTTTGGAAATTTATTTTTCTTTTAA
Found at i:3132635 original size:10 final size:10
Alignment explanation
Indices: 3132620--3132644 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
3132610 AGAATAATAA
3132620 AAAAATAAAT
1 AAAAATAAAT
3132630 AAAAATAAAT
1 AAAAATAAAT
3132640 AAAAA
1 AAAAA
3132645 GAAAATTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (10 bp):
AAAAATAAAT
Found at i:3132639 original size:14 final size:15
Alignment explanation
Indices: 3132600--3132642 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 15
3132590 TATTTTTATT
3132600 TAAAGAAAATAGAATAA
1 TAAA-AAAATA-AATAA
3132617 TAAAAAAATAAATAA
1 TAAAAAAATAAATAA
*
3132632 -AAATAAATAAA
1 TAAAAAAATAAA
3132643 AAGAAAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 10 0.40
15 5 0.20
16 6 0.24
17 4 0.16
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.19
Consensus pattern (15 bp):
TAAAAAAATAAATAA
Found at i:3133283 original size:24 final size:25
Alignment explanation
Indices: 3133234--3133291 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
3133224 CCGGAATCTG
3133234 AAAA-TTTCCCAAAAATTTCCAGAA
1 AAAATTTTCCCAAAAATTTCCAGAA
*
3133258 AAAATTTTCGCCAAAAATTTCTA-AA
1 AAAATTTTC-CCAAAAATTTCCAGAA
*
3133283 AAATTTTTC
1 AAAATTTTC
3133292 TCACTCCCAG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
24 4 0.13
25 14 0.47
26 12 0.40
ACGTcount: A:0.47, C:0.17, G:0.03, T:0.33
Consensus pattern (25 bp):
AAAATTTTCCCAAAAATTTCCAGAA
Found at i:3133676 original size:17 final size:18
Alignment explanation
Indices: 3133654--3133687 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
3133644 TAGATAAGTA
*
3133654 AAAATACAAAA-ATAAAT
1 AAAATAAAAAAGATAAAT
3133671 AAAATAAAAAAGATAAA
1 AAAATAAAAAAGATAAA
3133688 AAATATATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (18 bp):
AAAATAAAAAAGATAAAT
Found at i:3133734 original size:16 final size:16
Alignment explanation
Indices: 3133715--3133819 Score: 60
Period size: 16 Copynumber: 6.6 Consensus size: 16
3133705 TATTAGTAAT
3133715 AATACATAAATAATAA
1 AATACATAAATAATAA
*
3133731 AATACACATAAATATTAA
1 AAT--ACATAAATAATAA
* *
3133749 CAAAAAATAAATAA-ATA
1 -AATACATAAATAATA-A
* * *
3133766 AATATATACAT-ATATT
1 AATACATAAATAATA-A
3133782 AATACAT-AATAAT--
1 AATACATAAATAATAA
*
3133795 AATA-ATAAATAATAC
1 AATACATAAATAATAA
3133810 AATACATAAA
1 AATACATAAA
3133820 ATACAAAAGA
Statistics
Matches: 69, Mismatches: 10, Indels: 20
0.70 0.10 0.20
Matches are distributed among these distances:
12 2 0.03
13 10 0.14
15 7 0.10
16 27 0.39
17 9 0.13
18 12 0.17
19 2 0.03
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.28
Consensus pattern (16 bp):
AATACATAAATAATAA
Found at i:3133742 original size:73 final size:74
Alignment explanation
Indices: 3133664--3133829 Score: 182
Period size: 73 Copynumber: 2.3 Consensus size: 74
3133654 AAAATACAAA
* * *
3133664 AATAAATAAAATAAAAAAGATAAA-AAATATATATATATACATATTAGTA-ATAATACATAAATA
1 AATAAATAAAATAAAAAAGATAAATAAATAAATATATACACATATTAATACATAATA-AT-AATA
3133727 AT-AA-AATAC
64 ATAAATAATAC
* * *
3133736 ACATAAAT--ATTAACAAAAAATAAATAAATAAATATATACATATATTAATACATAATAATAATA
1 A-ATAAATAAAATAA-AAAAGATAAATAAATAAATATATACACATATTAATACATAATAATAATA
3133799 ATAAATAATAC
64 ATAAATAATAC
* *
3133810 AATACATAAAATACAAAAGA
1 AATAAATAAAATAAAAAAGA
3133830 AGAAGAAAGA
Statistics
Matches: 76, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
71 4 0.05
72 16 0.21
73 36 0.47
74 17 0.22
75 3 0.04
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.27
Consensus pattern (74 bp):
AATAAATAAAATAAAAAAGATAAATAAATAAATATATACACATATTAATACATAATAATAATAAT
AAATAATAC
Found at i:3133793 original size:35 final size:34
Alignment explanation
Indices: 3133683--3133810 Score: 95
Period size: 35 Copynumber: 3.6 Consensus size: 34
3133673 AATAAAAAAG
*
3133683 ATAAA-AAATATATATATATACATATTAGTAATAATA
1 ATAAATAAATA-A-ATATATACATA-TATTAATAATA
* * *
3133719 CATAAAT-AATAAA-ATACACATAAATATTAACAAAAA
1 -ATAAATAAATAAATATATACAT--ATATTAA-TAATA
3133755 ATAAATAAATAAATATATACATATATTAATACATA
1 ATAAATAAATAAATATATACATATATTAATA-ATA
3133790 AT-AATAATAATAAATA-ATACA
1 ATAAAT-A-AATAAATATATACA
3133811 ATACATAAAA
Statistics
Matches: 75, Mismatches: 7, Indels: 20
0.74 0.07 0.20
Matches are distributed among these distances:
34 11 0.15
35 29 0.39
36 19 0.25
37 16 0.21
ACGTcount: A:0.62, C:0.06, G:0.01, T:0.30
Consensus pattern (34 bp):
ATAAATAAATAAATATATACATATATTAATAATA
Found at i:3138921 original size:21 final size:21
Alignment explanation
Indices: 3138884--3138936 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
3138874 GAATGTTTTC
3138884 AAAA-AAA-TAAA-ATAAAAG
1 AAAATAAATTAAATATAAAAG
* *
3138902 AAATTAAATTAAATATAAAAT
1 AAAATAAATTAAATATAAAAG
*
3138923 AAAATCAATTAAAT
1 AAAATAAATTAAAT
3138937 CCAACCATTG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
18 3 0.11
19 3 0.11
20 4 0.14
21 18 0.64
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (21 bp):
AAAATAAATTAAATATAAAAG
Found at i:3140129 original size:16 final size:16
Alignment explanation
Indices: 3140108--3140138 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3140098 TTAGGGTTTT
3140108 GATTTTAGAGTTTGGA
1 GATTTTAGAGTTTGGA
*
3140124 GATTTTAGGGTTTGG
1 GATTTTAGAGTTTGG
3140139 GTTTTATGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.45
Consensus pattern (16 bp):
GATTTTAGAGTTTGGA
Found at i:3140193 original size:16 final size:15
Alignment explanation
Indices: 3140147--3140305 Score: 101
Period size: 16 Copynumber: 10.3 Consensus size: 15
3140137 GGGTTTTATG
*
3140147 TTTAGGG-TTTTAAT
1 TTTAGGGATTTTGAT
* *
3140161 TTAAGGG-TTTGGAT
1 TTTAGGGATTTTGAT
3140175 TTTAGGGATTTTGAT
1 TTTAGGGATTTTGAT
* * *
3140190 TTTTGGGGTTTGGAT
1 TTTAGGGATTTTGAT
* *
3140205 TTTAGGGGTTTCAGAT
1 TTTAGGGATTT-TGAT
* *
3140221 TTTAGGGGTTTCAGAT
1 TTTAGGGATTT-TGAT
3140237 TTTAGGGATTTTAGATT
1 TTTAGGGATTTT-GA-T
*
3140254 TTTAGAGG-TTTCGGAT
1 TTTAG-GGATTT-TGAT
*
3140270 TTTA-AGATTTTTGAT
1 TTTAGGGA-TTTTGAT
3140285 TTTAGGAGATTTTGGAT
1 TTTAGG-GATTTT-GAT
3140302 TTTA
1 TTTA
3140306 AGGGGGTTTA
Statistics
Matches: 118, Mismatches: 16, Indels: 19
0.77 0.10 0.12
Matches are distributed among these distances:
14 18 0.15
15 35 0.30
16 43 0.36
17 20 0.17
18 2 0.02
ACGTcount: A:0.20, C:0.02, G:0.28, T:0.50
Consensus pattern (15 bp):
TTTAGGGATTTTGAT
Found at i:3140243 original size:32 final size:31
Alignment explanation
Indices: 3140147--3140305 Score: 139
Period size: 32 Copynumber: 5.1 Consensus size: 31
3140137 GGGTTTTATG
* *
3140147 TTTAGGGTTTTA-A-TTTAAGGGTTT-GGAT
1 TTTAGGGATTTAGATTTTAGGGGTTTCGGAT
* *
3140175 TTTAGGGATTTTGATTTTTGGGGTTT-GGAT
1 TTTAGGGATTTAGATTTTAGGGGTTTCGGAT
* *
3140205 TTTAGGGGTTTCAGATTTTAGGGGTTTCAGAT
1 TTTAGGGATTT-AGATTTTAGGGGTTTCGGAT
*
3140237 TTTAGGGATTTTAGATTTTTAGAGGTTTCGGAT
1 TTTAGGGA-TTTAGA-TTTTAGGGGTTTCGGAT
* * * *
3140270 TTTA-AGATTTTTGATTTTAGGAGATTTTGGAT
1 TTTAGGGA-TTTAGATTTTAGG-GGTTTCGGAT
3140302 TTTA
1 TTTA
3140306 AGGGGGTTTA
Statistics
Matches: 108, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
28 10 0.09
29 1 0.01
30 23 0.21
31 19 0.18
32 33 0.31
33 22 0.20
ACGTcount: A:0.20, C:0.02, G:0.28, T:0.50
Consensus pattern (31 bp):
TTTAGGGATTTAGATTTTAGGGGTTTCGGAT
Found at i:3141890 original size:3 final size:3
Alignment explanation
Indices: 3141876--3141925 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
3141866 TAAAATATAT
*
3141876 TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
3141924 TT
1 TT
3141926 TTTAATAGTA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:3142770 original size:25 final size:25
Alignment explanation
Indices: 3142742--3142808 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
3142732 CCTTTAGGCT
*
3142742 TGTCTCGAACCTTCAGCTTC-TCCTA
1 TGTCTCGAACCTTCAGC-TCATCCCA
3142767 TGTCTCGAACCTTCAGCTCATCCCA
1 TGTCTCGAACCTTCAGCTCATCCCA
* *
3142792 CGTCTTGAACCTTCAGC
1 TGTCTCGAACCTTCAGC
3142809 ACTTCCCACT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 2 0.05
25 36 0.95
ACGTcount: A:0.18, C:0.37, G:0.13, T:0.31
Consensus pattern (25 bp):
TGTCTCGAACCTTCAGCTCATCCCA
Found at i:3142815 original size:25 final size:24
Alignment explanation
Indices: 3142743--3142817 Score: 80
Period size: 25 Copynumber: 3.0 Consensus size: 24
3142733 CTTTAGGCTT
*
3142743 GTCTCGAACCTTCAG-CTTCTCCTAT
1 GTCTCGAACCTTCAGCCTTC-CC-AC
*
3142768 GTCTCGAACCTTCAGCTCATCCCAC
1 GTCTCGAACCTTCAGC-CTTCCCAC
*
3142793 GTCTTGAACCTTCAGCACTTCCCAC
1 GTCTCGAACCTTCAGC-CTTCCCAC
3142818 TTGTTAGGAA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
25 38 0.88
26 2 0.05
27 3 0.07
ACGTcount: A:0.19, C:0.40, G:0.12, T:0.29
Consensus pattern (24 bp):
GTCTCGAACCTTCAGCCTTCCCAC
Found at i:3143418 original size:52 final size:52
Alignment explanation
Indices: 3143336--3143438 Score: 163
Period size: 52 Copynumber: 2.0 Consensus size: 52
3143326 ATAACCATAC
*
3143336 AAACTTGCCTATTAAGAATCCCTTTACTCTTAGAATTCTTCTTTTGCAAGTT
1 AAACTTGCCTATTAAGAATCCCTTTACTCTTAAAATTCTTCTTTTGCAAGTT
**
3143388 AAACTTGCCTATTAAGAATTTTCTTT-CTCTTAAAATTCTTCTTTTGCAAGT
1 AAACTTGCCTATTAAGAA-TCCCTTTACTCTTAAAATTCTTCTTTTGCAAGT
3143439 CTTTTTGTCC
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
52 42 0.89
53 5 0.11
ACGTcount: A:0.27, C:0.19, G:0.09, T:0.45
Consensus pattern (52 bp):
AAACTTGCCTATTAAGAATCCCTTTACTCTTAAAATTCTTCTTTTGCAAGTT
Found at i:3149269 original size:12 final size:12
Alignment explanation
Indices: 3149252--3149278 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
3149242 GGTTGGGTTT
3149252 TATATATACATA
1 TATATATACATA
3149264 TATATATACATA
1 TATATATACATA
3149276 TAT
1 TAT
3149279 GAGAAGGGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (12 bp):
TATATATACATA
Found at i:3149473 original size:2 final size:2
Alignment explanation
Indices: 3149468--3149498 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3149458 CTCGTGTGTC
3149468 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3149499 TGCGGAAGAC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3149714 original size:17 final size:18
Alignment explanation
Indices: 3149689--3149722 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
3149679 AACTGACACG
3149689 ATTTCAATTTC-AAATTA
1 ATTTCAATTTCTAAATTA
*
3149706 ATTTTAATTTCTAAATT
1 ATTTCAATTTCTAAATT
3149723 TATAAAATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTTCAATTTCTAAATTA
Found at i:3164546 original size:34 final size:34
Alignment explanation
Indices: 3164508--3164572 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
3164498 GACCGCTGTC
* *
3164508 TTAGTTTTTACTGAAATGTGAATATAACTTTGTT
1 TTAGTTTTCACTGAAATGTGAATAAAACTTTGTT
*
3164542 TTAGTTTTCATTGAAATGTGAATAAAACTTT
1 TTAGTTTTCACTGAAATGTGAATAAAACTTT
3164573 CAAAGACATC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.32, C:0.06, G:0.14, T:0.48
Consensus pattern (34 bp):
TTAGTTTTCACTGAAATGTGAATAAAACTTTGTT
Found at i:3165090 original size:47 final size:47
Alignment explanation
Indices: 3165020--3165114 Score: 154
Period size: 47 Copynumber: 2.0 Consensus size: 47
3165010 AAAGTATATG
** * *
3165020 TATACTTGAAAATTTTATGGCAGATATGTTCTTATTTCCATTCCTAT
1 TATACTTGAAAAAGTAATAGCAGATATGTTCTTATTTCCATTCCTAT
3165067 TATACTTGAAAAAGTAATAGCAGATATGTTCTTATTTCCATTCCTAT
1 TATACTTGAAAAAGTAATAGCAGATATGTTCTTATTTCCATTCCTAT
3165114 T
1 T
3165115 GCACGTTGTT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.44
Consensus pattern (47 bp):
TATACTTGAAAAAGTAATAGCAGATATGTTCTTATTTCCATTCCTAT
Found at i:3171481 original size:11 final size:11
Alignment explanation
Indices: 3171465--3171489 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
3171455 TAATTTGTGC
3171465 ATTTAATTTAT
1 ATTTAATTTAT
3171476 ATTTAATTTAT
1 ATTTAATTTAT
3171487 ATT
1 ATT
3171490 AAATATGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
ATTTAATTTAT
Found at i:3171957 original size:2 final size:2
Alignment explanation
Indices: 3171950--3171985 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
3171940 AACCCTTCAA
3171950 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
3171986 GATCATGAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3173677 original size:7 final size:7
Alignment explanation
Indices: 3173665--3173746 Score: 60
Period size: 7 Copynumber: 10.7 Consensus size: 7
3173655 CTATGCTTAA
3173665 AAAAATG
1 AAAAATG
3173672 AAAAATG
1 AAAAATG
3173679 AAAAA--
1 AAAAATG
3173684 AAAAATG
1 AAAAATG
3173691 AAAAAATGATG
1 --AAAA--ATG
3173702 AAAAAATAG
1 -AAAAAT-G
3173711 AAAAAATG
1 -AAAAATG
3173719 AAAAAATG
1 -AAAAATG
*
3173727 AAAAAAG
1 AAAAATG
3173734 AAAAAGTG
1 AAAAA-TG
3173742 AAAAA
1 AAAAA
3173747 AGAAGACTCA
Statistics
Matches: 65, Mismatches: 2, Indels: 15
0.79 0.02 0.18
Matches are distributed among these distances:
5 5 0.08
7 23 0.35
8 17 0.26
9 12 0.18
10 5 0.08
11 3 0.05
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (7 bp):
AAAAATG
Found at i:3173707 original size:12 final size:12
Alignment explanation
Indices: 3173672--3173696 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3173662 TAAAAAAATG
3173672 AAAAATGAAAAA
1 AAAAATGAAAAA
3173684 AAAAATGAAAAA
1 AAAAATGAAAAA
3173696 A
1 A
3173697 TGATGAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (12 bp):
AAAAATGAAAAA
Found at i:3173708 original size:11 final size:11
Alignment explanation
Indices: 3173688--3173719 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
3173678 GAAAAAAAAA
3173688 ATGAAAAAATG
1 ATGAAAAAATG
3173699 ATGAAAAAAT-
1 ATGAAAAAATG
3173709 A-GAAAAAATG
1 ATGAAAAAATG
3173719 A
1 A
3173720 AAAAATGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
9 8 0.40
10 2 0.10
11 10 0.50
ACGTcount: A:0.69, C:0.00, G:0.16, T:0.16
Consensus pattern (11 bp):
ATGAAAAAATG
Found at i:3173748 original size:9 final size:8
Alignment explanation
Indices: 3173664--3173747 Score: 81
Period size: 8 Copynumber: 10.8 Consensus size: 8
3173654 ACTATGCTTA
3173664 AAAAAATG
1 AAAAAATG
3173672 -AAAAATG
1 AAAAAATG
3173679 --AAAA--
1 AAAAAATG
3173683 AAAAAATG
1 AAAAAATG
3173691 AAAAAATGATG
1 -AAAAA--ATG
3173702 AAAAAATAG
1 AAAAAAT-G
3173711 AAAAAATG
1 AAAAAATG
3173719 AAAAAATG
1 AAAAAATG
3173727 AAAAAA-G
1 AAAAAATG
*
3173734 AAAAAGTG
1 AAAAAATG
3173742 AAAAAA
1 AAAAAA
3173748 GAAGACTCAA
Statistics
Matches: 65, Mismatches: 2, Indels: 18
0.76 0.02 0.21
Matches are distributed among these distances:
6 8 0.12
7 13 0.20
8 23 0.35
9 13 0.20
10 5 0.08
11 3 0.05
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (8 bp):
AAAAAATG
Found at i:3174790 original size:33 final size:33
Alignment explanation
Indices: 3174748--3174855 Score: 117
Period size: 33 Copynumber: 3.0 Consensus size: 33
3174738 GATTGTCAAG
3174748 GAGCAATTTATTTTTCAAAGTCGTGGTGCCTCT
1 GAGCAATTTATTTTTCAAAGTCGTGGTGCCTCT
* *
3174781 GAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTT
1 GAGCAATTTATTTTTCAAAGTCGTGGTGCCTC----T
*
3174818 AGAGGAGCAATTTATTTTTCAAAGTCGTGATGCCTCT
1 ----GAGCAATTTATTTTTCAAAGTCGTGGTGCCTCT
3174855 G
1 G
3174856 TTTAGAGGAG
Statistics
Matches: 62, Mismatches: 5, Indels: 16
0.75 0.06 0.19
Matches are distributed among these distances:
33 31 0.50
37 2 0.03
41 29 0.47
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (33 bp):
GAGCAATTTATTTTTCAAAGTCGTGGTGCCTCT
Found at i:3174896 original size:42 final size:42
Alignment explanation
Indices: 3174781--3174951 Score: 222
Period size: 41 Copynumber: 4.1 Consensus size: 42
3174771 TGGTGCCTCT
* * *
3174781 GAGCAATTTA-CTTTCCAAAGTCGTGGTGCCTCTGTTTAGAG
1 GAGCAATTTATTTTTCCAAAGTCGTTGAGCCTCTGTTTAGAG
3174822 GAGCAATTTATTTTT-CAAAGTCG-TGATGCCTCTGTTTAGAG
1 GAGCAATTTATTTTTCCAAAGTCGTTGA-GCCTCTGTTTAGAG
*
3174863 GAGCAATTTATTTTTCCAAAGTCGTTGAGCCTCTGATTAGAG
1 GAGCAATTTATTTTTCCAAAGTCGTTGAGCCTCTGTTTAGAG
* * * **
3174905 GAGCCATTTATGTTTCTCAAAGTCATTGAGCCTCTGCCTAGAG
1 GAGCAATTTATTTTTC-CAAAGTCGTTGAGCCTCTGTTTAGAG
3174948 GAGC
1 GAGC
3174952 TGTGATCAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
40 1 0.01
41 47 0.41
42 38 0.33
43 30 0.26
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.35
Consensus pattern (42 bp):
GAGCAATTTATTTTTCCAAAGTCGTTGAGCCTCTGTTTAGAG
Found at i:3175219 original size:28 final size:28
Alignment explanation
Indices: 3175179--3175242 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 28
3175169 ATATATTTTC
* * *
3175179 TTTTATATCCTATGTATTTAT-TATTTAT
1 TTTTAT-TACTATGTATTAATATATATAT
*
3175207 TTATTATTACTATTTATTAATATATATAT
1 TT-TTATTACTATGTATTAATATATATAT
3175236 TTTTATT
1 TTTTATT
3175243 TTTTTTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
28 18 0.60
29 12 0.40
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (28 bp):
TTTTATTACTATGTATTAATATATATAT
Found at i:3175259 original size:15 final size:16
Alignment explanation
Indices: 3175235--3175277 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
3175225 AATATATATA
3175235 TTTTTATTTTT-TTTT
1 TTTTTATTTTTGTTTT
*
3175250 TTTTTCTTTTTGTTTT
1 TTTTTATTTTTGTTTT
3175266 TCATTTTATTTT
1 T--TTTTATTTT
3175278 ATATGTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 10 0.43
16 5 0.22
18 8 0.35
ACGTcount: A:0.07, C:0.05, G:0.02, T:0.86
Consensus pattern (16 bp):
TTTTTATTTTTGTTTT
Found at i:3175895 original size:19 final size:19
Alignment explanation
Indices: 3175871--3175908 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
3175861 TTCGACGAAC
3175871 TTCTGACGAAAAACCCAGA
1 TTCTGACGAAAAACCCAGA
*
3175890 TTCTGACGAAAAATCCAGA
1 TTCTGACGAAAAACCCAGA
3175909 ATCCGATGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.24, G:0.16, T:0.18
Consensus pattern (19 bp):
TTCTGACGAAAAACCCAGA
Found at i:3176321 original size:5 final size:5
Alignment explanation
Indices: 3176311--3176395 Score: 58
Period size: 5 Copynumber: 17.6 Consensus size: 5
3176301 TCTTTTTACC
* *
3176311 TTTAT TTTA- -TTAT TTTATT TTTGT TTTACT TTT-C TTTAT TTTA- TTT-T
1 TTTAT TTTAT TTTAT TTTA-T TTTAT TTTA-T TTTAT TTTAT TTTAT TTTAT
*
3176358 TTTAT TTTCACT TTTAT TTTGT TTTA- -TTAT TTTAT TTT
1 TTTAT TTT-A-T TTTAT TTTAT TTTAT TTTAT TTTAT TTT
3176396 CTTTAAATAA
Statistics
Matches: 63, Mismatches: 6, Indels: 22
0.69 0.07 0.24
Matches are distributed among these distances:
3 6 0.10
4 9 0.14
5 34 0.54
6 10 0.16
7 4 0.06
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.78
Consensus pattern (5 bp):
TTTAT
Found at i:3176338 original size:30 final size:31
Alignment explanation
Indices: 3176304--3176396 Score: 91
Period size: 30 Copynumber: 2.9 Consensus size: 31
3176294 TTAGTATTCT
**
3176304 TTTTACCTTTATTTTATTATTTTATTTT-TG
1 TTTTACCTTTATTTTATTATTTTATTTTCAC
*
3176334 TTTTACTTTTCTTTATTTTATTTTTTTATTTTCAC
1 TTTTAC----CTTTATTTTATTATTTTATTTTCAC
* *
3176369 TTTTA-TTTTGTTTTATTATTTTATTTTC
1 TTTTACCTTTATTTTATTATTTTATTTTC
3176397 TTTAAATAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
30 26 0.50
34 21 0.40
35 5 0.10
ACGTcount: A:0.15, C:0.08, G:0.02, T:0.75
Consensus pattern (31 bp):
TTTTACCTTTATTTTATTATTTTATTTTCAC
Found at i:3176558 original size:59 final size:58
Alignment explanation
Indices: 3176411--3176727 Score: 418
Period size: 59 Copynumber: 5.4 Consensus size: 58
3176401 AATAAAAATA
* * *
3176411 AAAAAAATATTTTTGGGGAAAAGCTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAGTTTC
*** * * *
3176469 AAAAAAGGGTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCTTTGAAAATCAAAGTTTC
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAAGTTTC
* * * *
3176528 AAAAAAATATTTTTGGGGAAAAGTTAAAAGTATTAATTTTCCTTAAAAATAAAATTTC
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAGTTTC
* * *
3176586 AAAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATGAAAGTTTC
1 AAAAAAATA--TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAAGTTTC
*
3176647 AAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAGTTTC
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAAGTTTC
* *
3176706 CAAAAAATATTTTTGGAGAAAA
1 AAAAAAATATTTTTGGGGAAAA
3176728 ATTTTCCCTG
Statistics
Matches: 221, Mismatches: 34, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
58 57 0.26
59 113 0.51
60 36 0.16
61 15 0.07
ACGTcount: A:0.46, C:0.06, G:0.14, T:0.33
Consensus pattern (58 bp):
AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAGTTTC
Found at i:3176631 original size:119 final size:118
Alignment explanation
Indices: 3176411--3176728 Score: 498
Period size: 119 Copynumber: 2.7 Consensus size: 118
3176401 AATAAAAATA
*
3176411 AAAAAAATATTTTTGGGGAAAAGCTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC-AAAAAA
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAA
*
3176475 GGGTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCTTTGAAAATCAAAGTTTC
66 AGGTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCTTTGAAAATCAAAGTTTC
* *
3176528 AAAAAAATATTTTTGGGGAAAAGTTAAAAGTATTAATTTTCCTTAAAAATAAAATTTCAAAAAAA
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTC-AAAAAA
* *
3176593 AAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATGAAAGTTTC
65 AAGGTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCTTTGAAAATCAAAGTTTC
* *
3176647 AAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAGTTTCCAAAAA
1 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAA-TTT-CAAAAA
*
3176712 ATA--TTTTTGGAGAAAAA
64 AAAGGTTTTT-GAGAAAAA
3176729 TTTTCCCTGT
Statistics
Matches: 184, Mismatches: 12, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
117 55 0.30
118 5 0.03
119 113 0.61
120 10 0.05
121 1 0.01
ACGTcount: A:0.46, C:0.06, G:0.14, T:0.33
Consensus pattern (118 bp):
AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAA
AGGTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCTTTGAAAATCAAAGTTTC
Found at i:3184053 original size:31 final size:31
Alignment explanation
Indices: 3183994--3184055 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
3183984 CTCAAACCTT
*
3183994 CAGCTCTGATAACAATTATTAAGGATCACTA
1 CAGCTCTGATAACAATTATTAAGAATCACTA
* * * *
3184025 CAGCTCTGATACCATTTGTTGAGAATCACTA
1 CAGCTCTGATAACAATTATTAAGAATCACTA
3184056 TAGTTTTGAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.31
Consensus pattern (31 bp):
CAGCTCTGATAACAATTATTAAGAATCACTA
Found at i:3186254 original size:12 final size:12
Alignment explanation
Indices: 3186234--3186265 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
3186224 TTATTTATTC
*
3186234 ATTTGTTAACTA
1 ATTTATTAACTA
3186246 ATTTATTAACTA
1 ATTTATTAACTA
3186258 ATTTATTA
1 ATTTATTA
3186266 TTATTTGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.53
Consensus pattern (12 bp):
ATTTATTAACTA
Found at i:3193379 original size:754 final size:751
Alignment explanation
Indices: 3191745--3193981 Score: 3329
Period size: 748 Copynumber: 3.0 Consensus size: 751
3191735 TTCTAAAAAA
* * * * *
3191745 TCAACACCTAACTATTGAAAGTAGCCTTTAGCACTAGTCTAGCTTGAAATTTATAAATGGTGCCA
1 TCAACACCTGACGATTGAAAATAGCCTTTAGAACTAGTCTAGCCTGAAATTTATAAATGGTGCCA
* *
3191810 TCTATATTTATATTGGTTTTGTAGATCTATTTAACTCTAATGATATTCTTATTGCTTGGTCTATC
66 TCTATATTTATATTGATTTTGTAGATCTATTTAACTCCAATGATATTCTTATTGCTTGGTCTA-C
* * **
3191875 C-ATTAGTAACTAGATCTGATTGTTCTCAATCATTTAAATCTTCTCCTTCATTGCATCTCTCAAT
130 CTATTAGCAACTAGATCTGATTGTTCTCAATCATTTAAATCTTTTCCTTCATTGCATCTCTTTAT
* *
3191939 TCTTTCAATTTGATAACTTTTTCAAAGCATGTTGGTTCAAAAATAACCATGTTTAACCTTTTAAA
195 TCTTTCAATTTGATAACTTTTTCAAAGCTTGTTGGTTAAAAAATAACCATGTTTAACCTTTTAAA
* ** *
3192004 AATATTAATAAATGGTTTGATACCTCTAACTAGCTCATGATCAATATTCTCATTATGTCACAAGT
260 AATATTAATAAGTGGCCTGATACCTCTAACTAGCTCATGATCAATATTCTCATCATGTCACAAGT
* * *
3192069 AACCTTTC-TGTTCTTGAAACTTTATCATGTTTATTATAATTTGCATGACTGAATCTT-CTCTAA
325 AACC-TTCATGTTCTTGAAACCTTATCATGTTTACTACAATTTGCATGACTGAATCTTCCTCTAA
* *
3192132 CTTTTTCTAA-TTCAAAGTAGCTTACTCATTCAATTTTATATTCCTTCTTACAATCACCTCGTCT
389 CTTTTCCTAATTTC-AAGTAGCTTACTCATTCAATCTTATATTCCTTCTTACAATCACCTCGTCT
** *
3192196 ATAAGAGGATTGTAAGCTCTATAGCATTTAGTTATGTTGCTAT---AACCCGAAAAAATACAAAA
453 ATAAGAGGATTGTAAGCTCTATAGCATTTAGTTATGTTGCTATAGCAACCAAAAAAAATACAAAT
* * *
3192258 TTTAACTTTGTGATCAAGCTTATGCCTTTTGACTTCATGAACAAGCACATAAGAAATGCTTCCAA
518 TTTAACTTTGTGATCAAGCTTGT-CCTTTTGACTTCATGAACAAGCATATAATAAATGCTTCCAA
* * * ** * * *
3192323 GGACTTTAAAGTGCTAAACAGATGGTTTACTGTCATACCAAGTTTTAAAATGAGTTTTTTCTCTT
582 GGACTTTAAGGTGTTGAACAGATGGTTTGTTGTCATACCAAGCTTCAAAATGAGTTTTTCCTCTT
* * * *
3192388 AAGGCTTTTGTATATAACTTGTTAAGTAAATAAATAGAGGTATTGGTTGCCTTTGCCCAAAACTT
647 AAGGCTTTTGTAGATAACCTGTTAAGTAAATAAATAAAGGTATTGGTTGCCTTTGCCTAAAACTT
* * *
3192453 CTTAGGAAGTTTCTTTTCAAATAACATGCACGTGGTCATT
712 CTTGGGAAGTTTCTTTTCAAATAACATGCACCTGGCCATT
* * *
3192493 TCAACACCTGGCTATTGAAAATAGCCTTTAGAACTAGTCTAGCCTAAAATTTATAAATGGTGCCA
1 TCAACACCTGACGATTGAAAATAGCCTTTAGAACTAGTCTAGCCTGAAATTTATAAATGGTGCCA
* * *
3192558 TCTATATTTATATT-AGTTTTATAGATTTATTTAACTCCAATGATATTCTTATTGCTTGGTGTAC
66 TCTATATTTATATTGA-TTTTGTAGATCTATTTAACTCCAATGATATTCTTATTGCTTGGTCTAC
* * * * *
3192622 CTATTAGCAACTAGATCTAATTGTTTTCAATTATTTAAATCTTTTCCTTCATCGTATCTCTTTAT
130 CTATTAGCAACTAGATCTGATTGTTCTCAATCATTTAAATCTTTTCCTTCATTGCATCTCTTTAT
* * * *
3192687 TCTTTCAATTTGATAGCTTTTCCAAAGCTTGTTAGATAAAAAATAACCATGTTTAACCTTTTAAA
195 TCTTTCAATTTGATAACTTTTTCAAAGCTTGTTGGTTAAAAAATAACCATGTTTAACCTTTTAAA
*
3192752 AATATTAATAAGTGGCCTGATACCTTTAACTAGCTCATGATCAATATTCTCATCATGTCACAAGT
260 AATATTAATAAGTGGCCTGATACCTCTAACTAGCTCATGATCAATATTCTCATCATGTCACAAGT
* *
3192817 AACCTTCATGTTCTTGAAACCTTATTATGTTTACTACAATTTGCAAGACTGAATCTTCCTCTAAC
325 AACCTTCATGTTCTTGAAACCTTATCATGTTTACTACAATTTGCATGACTGAATCTTCCTCTAAC
* * *
3192882 TTTTCCTAATTTCAAGTAGTTTACTCATTCAATCTTATATTCCTTTTTACAATCACCTTGTCTAT
390 TTTTCCTAATTTCAAGTAGCTTACTCATTCAATCTTATATTCCTTCTTACAATCACCTCGTCTAT
* **
3192947 AAGAGGATTGTAAGCTCTATAGCATTTAGTTATGTTGTTATAGCAAAAAAAAAAAAATACAAATT
455 AAGAGGATTGTAAGCTCTATAGCATTTAGTTATGTTGCTATAGC-AACCAAAAAAAATACAAATT
* *
3193012 TTAACTTTATGATCAAGCTTGTCTCTTTTGACTTCATGAACAAGCATATAATAAATGCTTCCAAA
519 TTAACTTTGTGATCAAGCTTGTC-CTTTTGACTTCATGAACAAGCATATAATAAATGCTTCCAAG
*
3193077 GACTTTAAGGTGTTGAACATATGGTTTGTTGTCATACCAAGCTTCAAAATGAGTTTTTCCTTCTT
583 GACTTTAAGGTGTTGAACAGATGGTTTGTTGTCATACCAAGCTTCAAAATGAGTTTTTCC-TCTT
* * *
3193142 AAGGCTTTTATAGCTAACCTATTAAGTAAATAAATAAAGGTATTGGTTGCCTTTGCCTAAAACTT
647 AAGGCTTTTGTAGATAACCTGTTAAGTAAATAAATAAAGGTATTGGTTGCCTTTGCCTAAAACTT
*
3193207 CTTGGGAAGCTTCTTTTCAAATAACATGCACCTGGCCATT
712 CTTGGGAAGTTTCTTTTCAAATAACATGCACCTGGCCATT
** * * *
3193247 TCAACATTTGACGGTTGAAATTAGCCTTTAGAACTAGTCTAGCCTGAAATTTATAAATGGTGTCA
1 TCAACACCTGACGATTGAAAATAGCCTTTAGAACTAGTCTAGCCTGAAATTTATAAATGGTGCCA
* *
3193312 TCTATATTTATATTGATTTTGTAGATCTATTTAAATCCACTGATATTCTTATTGCTTGGTCTACC
66 TCTATATTTATATTGATTTTGTAGATCTATTTAACTCCAATGATATTCTTATTGCTTGGTCTACC
* * *
3193377 TATTAGCAACTAGATTTGATTGTTCTCAATCATGTAAATCTTTT-TTTCATTGCATCT-TTCTAT
131 TATTAGCAACTAGATCTGATTGTTCTCAATCATTTAAATCTTTTCCTTCATTGCATCTCTT-TAT
*
3193440 TCTTTCAATTT-ATTAACTTTTTCAAAGCTTGTTGGTTTAAAAATAACCATGTTTAACCTTTTAA
195 TCTTTCAATTTGA-TAACTTTTTCAAAGCTTGTTGGTTAAAAAATAACCATGTTTAACCTTTTAA
*
3193504 AAATATTAATAAGTGGCCTGATACCTCTAACTAGCTCATGATCAAT-TTCTTATCATGTCACAAG
259 AAATATTAATAAGTGGCCTGATACCTCTAACTAGCTCATGATCAATATTCTCATCATGTCACAAG
* * *
3193568 TAAACTTTATGTTCTTGAAACCTTATCATGTTTACTACAATTTACATGACTGAATCTTCCTCTAA
324 TAACCTTCATGTTCTTGAAACCTTATCATGTTTACTACAATTTGCATGACTGAATCTTCCTCTAA
*
3193633 CTTTTCCTAATTCCAAGTAGCTTACTCATTCAATCTTATATTCCTTCTTACAATCACCTCGTCTA
389 CTTTTCCTAATTTCAAGTAGCTTACTCATTCAATCTTATATTCCTTCTTACAATCACCTCGTCTA
*
3193698 TAAGAGGATTGTAAGCTTTATAGCATTTAGTTATGTTGCTATAGC--CCAAAAAAAAT--AAATT
454 TAAGAGGATTGTAAGCTCTATAGCATTTAGTTATGTTGCTATAGCAACCAAAAAAAATACAAATT
*
3193759 TCAACTTTGTGATCAAGCTTGTCCTTTTGACTTCATGAACAAGCATATAATAAATGCTTCCAAGG
519 TTAACTTTGTGATCAAGCTTGTCCTTTTGACTTCATGAACAAGCATATAATAAATGCTTCCAAGG
* * * *
3193824 ACATTAAGGTGTTGAATAGATGGTTTGTTGTCATACCCAGCTTCAAAATAAGTTTTTCCTCTTAA
584 ACTTTAAGGTGTTGAACAGATGGTTTGTTGTCATACCAAGCTTCAAAATGAGTTTTTCCTCTTAA
* * * *
3193889 GACTTTTGTAGGTAACCTGTTAAGTAAATATATAGAA-GTATTGGTTGCCTTTACCTAAAACTTC
649 GGCTTTTGTAGATAACCTGTTAAGTAAATAAATA-AAGGTATTGGTTGCCTTTGCCTAAAACTTC
* * *
3193953 TTGGAAAGTTTTTTTTCAAATAAGATGCA
713 TTGGGAAGTTTCTTTTCAAATAACATGCA
3193982 TGTAACCATT
Statistics
Matches: 1343, Mismatches: 131, Indels: 33
0.89 0.09 0.02
Matches are distributed among these distances:
745 86 0.06
746 97 0.07
747 31 0.02
748 337 0.25
749 112 0.08
750 3 0.00
752 185 0.14
753 239 0.18
754 252 0.19
755 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (751 bp):
TCAACACCTGACGATTGAAAATAGCCTTTAGAACTAGTCTAGCCTGAAATTTATAAATGGTGCCA
TCTATATTTATATTGATTTTGTAGATCTATTTAACTCCAATGATATTCTTATTGCTTGGTCTACC
TATTAGCAACTAGATCTGATTGTTCTCAATCATTTAAATCTTTTCCTTCATTGCATCTCTTTATT
CTTTCAATTTGATAACTTTTTCAAAGCTTGTTGGTTAAAAAATAACCATGTTTAACCTTTTAAAA
ATATTAATAAGTGGCCTGATACCTCTAACTAGCTCATGATCAATATTCTCATCATGTCACAAGTA
ACCTTCATGTTCTTGAAACCTTATCATGTTTACTACAATTTGCATGACTGAATCTTCCTCTAACT
TTTCCTAATTTCAAGTAGCTTACTCATTCAATCTTATATTCCTTCTTACAATCACCTCGTCTATA
AGAGGATTGTAAGCTCTATAGCATTTAGTTATGTTGCTATAGCAACCAAAAAAAATACAAATTTT
AACTTTGTGATCAAGCTTGTCCTTTTGACTTCATGAACAAGCATATAATAAATGCTTCCAAGGAC
TTTAAGGTGTTGAACAGATGGTTTGTTGTCATACCAAGCTTCAAAATGAGTTTTTCCTCTTAAGG
CTTTTGTAGATAACCTGTTAAGTAAATAAATAAAGGTATTGGTTGCCTTTGCCTAAAACTTCTTG
GGAAGTTTCTTTTCAAATAACATGCACCTGGCCATT
Found at i:3198008 original size:22 final size:24
Alignment explanation
Indices: 3197983--3198030 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
3197973 TCAAAAGTTT
3197983 ATACAAAA-ATAAAATAAA-AATA
1 ATACAAAACATAAAATAAATAATA
*
3198005 ATACAAAATCATAAATTAAATAATA
1 ATACAAAA-CATAAAATAAATAATA
3198030 A
1 A
3198031 AAATATATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 8 0.36
24 9 0.41
25 5 0.23
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (24 bp):
ATACAAAACATAAAATAAATAATA
Found at i:3198042 original size:18 final size:21
Alignment explanation
Indices: 3198000--3198042 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
3197990 AATAAAATAA
3198000 AAATAATACAAAATCATAAATT
1 AAATAATACAAAATCAT-AATT
3198022 AAATAATA-AAAAT-AT-ATT
1 AAATAATACAAAATCATAATT
3198040 AAA
1 AAA
3198043 AAATTGAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
18 6 0.29
20 2 0.10
21 5 0.24
22 8 0.38
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (21 bp):
AAATAATACAAAATCATAATT
Found at i:3198968 original size:14 final size:14
Alignment explanation
Indices: 3198946--3198976 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
3198936 TGGCTAGCAG
3198946 AAAAGACAAAAAAA
1 AAAAGACAAAAAAA
*
3198960 AAAATACAAAAAAA
1 AAAAGACAAAAAAA
3198974 AAA
1 AAA
3198977 GAAAGAAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.87, C:0.06, G:0.03, T:0.03
Consensus pattern (14 bp):
AAAAGACAAAAAAA
Found at i:3199006 original size:3 final size:3
Alignment explanation
Indices: 3199000--3199031 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
3198990 GTAGTAGTAG
*
3199000 TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
3199032 TTTAGATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:3199427 original size:11 final size:11
Alignment explanation
Indices: 3199411--3199436 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
3199401 TTTGATATAT
3199411 TTTTCTTCTCA
1 TTTTCTTCTCA
3199422 TTTTCTTCTCA
1 TTTTCTTCTCA
3199433 TTTT
1 TTTT
3199437 ATTTATTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.23, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTTCTTCTCA
Found at i:3211931 original size:21 final size:21
Alignment explanation
Indices: 3211902--3211942 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
3211892 TGTTATTTTT
*
3211902 ATTATTGAACAATAAATGAAG
1 ATTAATGAACAATAAATGAAG
**
3211923 ATTAATGAACTCTAAATGAA
1 ATTAATGAACAATAAATGAA
3211943 CCATACATGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.51, C:0.07, G:0.12, T:0.29
Consensus pattern (21 bp):
ATTAATGAACAATAAATGAAG
Found at i:3213166 original size:102 final size:102
Alignment explanation
Indices: 3212979--3213166 Score: 349
Period size: 102 Copynumber: 1.8 Consensus size: 102
3212969 GCTCTTTCAC
*
3212979 CCAATTTATTTTCCTCTTTATTTATCTATTTTGCCAATCTTTTTAGAAAATAAGTATCAACATGG
1 CCAATTTATTTTCCTCTTTATTTATCTATTTTGCCAATCTCTTTAGAAAATAAGTATCAACATGG
* *
3213044 CAACTGGCACTAATAGTTTCCTTTTACATTCTGGCAT
66 CAACTGGCACTAACAATTTCCTTTTACATTCTGGCAT
3213081 CCAATTTATTTTCCTCTTTATTTATCTATTTTGCCAATCTCTTTAGAAAATAAGTATCAACATGG
1 CCAATTTATTTTCCTCTTTATTTATCTATTTTGCCAATCTCTTTAGAAAATAAGTATCAACATGG
3213146 CAACTGGCACTAACAATTTCC
66 CAACTGGCACTAACAATTTCC
3213167 CTTGGCATCC
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
102 83 1.00
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.41
Consensus pattern (102 bp):
CCAATTTATTTTCCTCTTTATTTATCTATTTTGCCAATCTCTTTAGAAAATAAGTATCAACATGG
CAACTGGCACTAACAATTTCCTTTTACATTCTGGCAT
Found at i:3233593 original size:11 final size:10
Alignment explanation
Indices: 3233517--3233653 Score: 77
Period size: 10 Copynumber: 13.5 Consensus size: 10
3233507 AAAAAAAAAC
3233517 AAAAAATT-T
1 AAAAAATTCT
3233526 AAAAAAATTCT
1 -AAAAAATTCT
* *
3233537 AAAAAGTTGT
1 AAAAAATTCT
*
3233547 TAAAAATTCT
1 AAAAAATTCT
*
3233557 AAAAAATTTT
1 AAAAAATTCT
*
3233567 ACAAAAATTCA
1 A-AAAAATTCT
*
3233578 AAAATAATTTT
1 AAAA-AATTCT
**
3233589 AAAATTTTTCT
1 AAAA-AATTCT
3233600 AAAAAATTC-
1 AAAAAATTCT
*
3233609 ATACAAA-T-T
1 A-AAAAATTCT
3233618 AAAAAATTGC-
1 AAAAAATT-CT
*
3233628 AATAAAAATCT
1 AA-AAAATTCT
*
3233639 AAAAATTTCT
1 AAAAAATTCT
3233649 AAAAA
1 AAAAA
3233654 GTTTTGAAAG
Statistics
Matches: 96, Mismatches: 21, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
8 4 0.04
9 4 0.04
10 56 0.58
11 32 0.33
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.32
Consensus pattern (10 bp):
AAAAAATTCT
Found at i:3233636 original size:20 final size:19
Alignment explanation
Indices: 3233597--3233653 Score: 64
Period size: 18 Copynumber: 3.0 Consensus size: 19
3233587 TTAAAATTTT
*
3233597 TCTAAAAAATTCATACAAA
1 TCTAAAAAATTCATAAAAA
3233616 T-TAAAAAATTGCAATAAAAA
1 TCTAAAAAATT-C-ATAAAAA
*
3233636 TCTAAAAATTTC-TAAAAA
1 TCTAAAAAATTCATAAAAA
3233654 GTTTTGAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
18 15 0.45
19 2 0.06
20 8 0.24
21 8 0.24
ACGTcount: A:0.60, C:0.11, G:0.02, T:0.28
Consensus pattern (19 bp):
TCTAAAAAATTCATAAAAA
Found at i:3233730 original size:19 final size:20
Alignment explanation
Indices: 3233708--3233753 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
3233698 AAAAAAAAAA
* * *
3233708 AAAAATT-TGACATTTTTTT
1 AAAAATTCTAACAATTTTTC
3233727 AAAAATTCTAACAATTTTTC
1 AAAAATTCTAACAATTTTTC
3233747 AAAAATT
1 AAAAATT
3233754 ATAAAATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.46, C:0.09, G:0.02, T:0.43
Consensus pattern (20 bp):
AAAAATTCTAACAATTTTTC
Found at i:3233847 original size:17 final size:17
Alignment explanation
Indices: 3233808--3233858 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
3233798 AACAATTCCA
* *
3233808 AAAAAAATTTCAAAATT
1 AAAAAATTTTCAAAAGT
*
3233825 ATAAAAATTTTTAAAAGT
1 A-AAAAATTTTCAAAAGT
3233843 AAAAAATTTTCCAAAA
1 AAAAAATTTT-CAAAA
3233859 ATTCTTGAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
17 10 0.36
18 18 0.64
ACGTcount: A:0.61, C:0.06, G:0.02, T:0.31
Consensus pattern (17 bp):
AAAAAATTTTCAAAAGT
Found at i:3234045 original size:18 final size:19
Alignment explanation
Indices: 3234024--3234064 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
3234014 AAAATTAACA
3234024 AAAACTCAA-AAAAAAAAG
1 AAAACTCAATAAAAAAAAG
* *
3234042 AAAACTCAATGAAAAAATG
1 AAAACTCAATAAAAAAAAG
3234061 AAAA
1 AAAA
3234065 AAATTTTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.73, C:0.10, G:0.07, T:0.10
Consensus pattern (19 bp):
AAAACTCAATAAAAAAAAG
Found at i:3234077 original size:21 final size:20
Alignment explanation
Indices: 3234053--3234107 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
3234043 AAACTCAATG
3234053 AAAAAATGAAAAAAATTTTGA
1 AAAAAAT-AAAAAAATTTTGA
* * *
3234074 AAAACAATATAATAATTTTTA
1 AAAA-AATAAAAAAATTTTGA
3234095 AAAAAATTAAAAA
1 AAAAAA-TAAAAA
3234108 CTTCTAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
20 2 0.07
21 22 0.81
22 3 0.11
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (20 bp):
AAAAAATAAAAAAATTTTGA
Found at i:3234376 original size:55 final size:51
Alignment explanation
Indices: 3234236--3234376 Score: 128
Period size: 55 Copynumber: 2.6 Consensus size: 51
3234226 AAGTTCTTTG
* *
3234236 ATTTTTTAAATTTTATGAAAAT-TTTAT-TTTTTAAAATTTCAAATTTTCATA
1 ATTTTTT-AA-TTTATAAAAATATTTATATTTTTAAAATTTCAAATTATCATA
* *
3234287 ATTTTCTT-ATTT-TAAAAATATTTTTAGAGTTTTTAAAATTTTTCAAATTATGATA
1 ATTTT-TTAATTTATAAAAATA--TTTATA-TTTTTAAAA--TTTCAAATTATCATA
3234342 ATTTTTTAATTTATAAAAATATTTCATATCTTTTA
1 ATTTTTTAATTTATAAAAATATTT-ATAT-TTTTA
3234377 TTTTTTATAA
Statistics
Matches: 73, Mismatches: 5, Indels: 20
0.74 0.05 0.20
Matches are distributed among these distances:
48 6 0.08
49 3 0.04
50 1 0.01
51 9 0.12
52 2 0.03
53 9 0.12
54 6 0.08
55 29 0.40
56 8 0.11
ACGTcount: A:0.37, C:0.04, G:0.03, T:0.56
Consensus pattern (51 bp):
ATTTTTTAATTTATAAAAATATTTATATTTTTAAAATTTCAAATTATCATA
Found at i:3234429 original size:20 final size:20
Alignment explanation
Indices: 3234406--3234454 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
3234396 AAATTTTCAA
3234406 AATTTTTTAGAATGCTTTAG
1 AATTTTTTAGAATGCTTTAG
**
3234426 AATTGTTTT-GAATTTTTTAG
1 AATT-TTTTAGAATGCTTTAG
*
3234446 AATATTTTA
1 AATTTTTTA
3234455 AATTTTTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 4 0.17
20 16 0.67
21 4 0.17
ACGTcount: A:0.31, C:0.02, G:0.12, T:0.55
Consensus pattern (20 bp):
AATTTTTTAGAATGCTTTAG
Found at i:3234440 original size:30 final size:28
Alignment explanation
Indices: 3234406--3234465 Score: 84
Period size: 30 Copynumber: 2.1 Consensus size: 28
3234396 AAATTTTCAA
*
3234406 AATTTTTTAGAATGCTTTAGAATTGTTTTG
1 AATTTTTTAGAATACTTTA-AATT-TTTTG
*
3234436 AATTTTTTAGAATATTTTAAATTTTTTG
1 AATTTTTTAGAATACTTTAAATTTTTTG
3234464 AA
1 AA
3234466 AAATTTTACA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 7 0.25
29 4 0.14
30 17 0.61
ACGTcount: A:0.32, C:0.02, G:0.12, T:0.55
Consensus pattern (28 bp):
AATTTTTTAGAATACTTTAAATTTTTTG
Found at i:3234458 original size:19 final size:20
Alignment explanation
Indices: 3234421--3234462 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
3234411 TTTAGAATGC
* *
3234421 TTTAGAATTGTTTTGAATTT
1 TTTAGAATTATTTTAAATTT
3234441 TTTAGAA-TATTTTAAATTT
1 TTTAGAATTATTTTAAATTT
3234460 TTT
1 TTT
3234463 GAAAAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.62
Consensus pattern (20 bp):
TTTAGAATTATTTTAAATTT
Found at i:3234471 original size:19 final size:19
Alignment explanation
Indices: 3234431--3234473 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
3234421 TTTAGAATTG
* *
3234431 TTTTGAATTTTTTAGAATA
1 TTTTAAATTTTTTAGAAAA
3234450 TTTTAAATTTTTT-GAAAAA
1 TTTTAAATTTTTTAG-AAAA
3234469 TTTTA
1 TTTTA
3234474 CAATACTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (19 bp):
TTTTAAATTTTTTAGAAAA
Found at i:3234568 original size:10 final size:10
Alignment explanation
Indices: 3234532--3234661 Score: 61
Period size: 10 Copynumber: 13.1 Consensus size: 10
3234522 AAGCTTTTGA
3234532 TAAAA-TTTT
1 TAAAATTTTT
3234541 TAAAATTTTT
1 TAAAATTTTT
***
3234551 TCGTATTTTT
1 TAAAATTTTT
*
3234561 TATAATTTTT
1 TAAAATTTTT
* *
3234571 TAGAATAATTT
1 TAAAAT-TTTT
*
3234582 T-GAATTTTT
1 TAAAATTTTT
** *
3234591 TCTAAGTTTT
1 TAAAATTTTT
*
3234601 TAAAATGTTT
1 TAAAATTTTT
*
3234611 TAGAAA-ATTT
1 TA-AAATTTTT
3234621 TAAAATTTTT
1 TAAAATTTTT
*
3234631 T-GAATTTTT
1 TAAAATTTTT
* *
3234640 AAAAAATTTTG
1 -TAAAATTTTT
*
3234651 AAAAATTTTT
1 TAAAATTTTT
3234661 T
1 T
3234662 TGCATTTTTT
Statistics
Matches: 91, Mismatches: 23, Indels: 13
0.72 0.18 0.10
Matches are distributed among these distances:
9 19 0.21
10 59 0.65
11 13 0.14
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.56
Consensus pattern (10 bp):
TAAAATTTTT
Found at i:3234601 original size:40 final size:40
Alignment explanation
Indices: 3234533--3234643 Score: 122
Period size: 40 Copynumber: 2.8 Consensus size: 40
3234523 AGCTTTTGAT
* * *
3234533 AAAATTTTTAAAATTTTTTCGTATTTTTTATAATTTTTTAG
1 AAAA-TTTTAAAATTTTTTCGTAGTTTTTAAAATGTTTTAG
*
3234574 AATAATTTT-GAATTTTTTC-TAAGTTTTTAAAATGTTTTAG
1 AA-AATTTTAAAATTTTTTCGT-AGTTTTTAAAATGTTTTAG
*
3234614 AAAATTTTAAAATTTTTT-G-AATTTTTAAAA
1 AAAATTTTAAAATTTTTTCGTAGTTTTTAAAA
3234644 AATTTTGAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
38 10 0.17
39 7 0.12
40 35 0.58
41 6 0.10
42 2 0.03
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.56
Consensus pattern (40 bp):
AAAATTTTAAAATTTTTTCGTAGTTTTTAAAATGTTTTAG
Found at i:3234649 original size:18 final size:18
Alignment explanation
Indices: 3234618--3234652 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3234608 TTTTAGAAAA
**
3234618 TTTTAAAATTTTTTGAAT
1 TTTTAAAAAATTTTGAAT
3234636 TTTTAAAAAATTTTGAA
1 TTTTAAAAAATTTTGAA
3234653 AAATTTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (18 bp):
TTTTAAAAAATTTTGAAT
Found at i:3237912 original size:16 final size:16
Alignment explanation
Indices: 3237887--3237918 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
3237877 AACGATTTGA
3237887 ATGATAATGATGATTT
1 ATGATAATGATGATTT
*
3237903 ATGATGATGATGATTT
1 ATGATAATGATGATTT
3237919 GCGACGATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.22, T:0.44
Consensus pattern (16 bp):
ATGATAATGATGATTT
Found at i:3238718 original size:46 final size:46
Alignment explanation
Indices: 3238651--3238740 Score: 146
Period size: 46 Copynumber: 2.0 Consensus size: 46
3238641 GCAAGATGAT
3238651 TTGTAAAAGACAATTCTAGCAAAAGCTAGCACAAGGATGGAATGGA
1 TTGTAAAAGACAATTCTAGCAAAAGCTAGCACAAGGATGGAATGGA
* *
3238697 TTGTAAAAGA-AATTTCTAGCAAGAGCTAGCATAAGGATGGAATG
1 TTGTAAAAGACAA-TTCTAGCAAAAGCTAGCACAAGGATGGAATG
3238741 AAACCTTTCT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
45 2 0.05
46 39 0.95
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.22
Consensus pattern (46 bp):
TTGTAAAAGACAATTCTAGCAAAAGCTAGCACAAGGATGGAATGGA
Found at i:3239431 original size:23 final size:23
Alignment explanation
Indices: 3239405--3239455 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
3239395 TATTGAGATA
*
3239405 TATTGTTTCTACATTGTTGTGTT
1 TATTGTTTCTACAATGTTGTGTT
*
3239428 TATTATTTCTACAATGTTGTGTT
1 TATTGTTTCTACAATGTTGTGTT
3239451 TATTG
1 TATTG
3239456 CTTCAAACCC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.18, C:0.08, G:0.16, T:0.59
Consensus pattern (23 bp):
TATTGTTTCTACAATGTTGTGTT
Found at i:3249061 original size:24 final size:23
Alignment explanation
Indices: 3249034--3249078 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
3249024 CGTTATGTCA
3249034 TGTGAAAAAACTAAAAAATAAATT
1 TGTGAAAAAACT-AAAAATAAATT
**
3249058 TGTGTGAAAACTAAAAATAAA
1 TGTGAAAAAACTAAAAATAAA
3249079 AGCTTAACGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.60, C:0.04, G:0.11, T:0.24
Consensus pattern (23 bp):
TGTGAAAAAACTAAAAATAAATT
Found at i:3253263 original size:22 final size:22
Alignment explanation
Indices: 3253238--3253281 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
3253228 ATTTTTTGTC
*
3253238 CTTAACTCTAGGGATACAAATA
1 CTTAACTCTAGAGATACAAATA
* *
3253260 CTTAATTCTAGAGATATAAATA
1 CTTAACTCTAGAGATACAAATA
3253282 TACATATTAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAACTCTAGAGATACAAATA
Found at i:3258276 original size:10 final size:10
Alignment explanation
Indices: 3258261--3258288 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
3258251 AAACTATAAC
3258261 TAAACAAATT
1 TAAACAAATT
3258271 TAAACAAATT
1 TAAACAAATT
3258281 TAAACAAA
1 TAAACAAA
3258289 CAAACCTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.64, C:0.11, G:0.00, T:0.25
Consensus pattern (10 bp):
TAAACAAATT
Found at i:3258298 original size:25 final size:24
Alignment explanation
Indices: 3258246--3258315 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 24
3258236 TCATAAATAA
*
3258246 TAAACAAACTAT-AACTAAACAAATT
1 TAAACAAA-TATAAAC-AAACAAACT
*
3258271 TAAACAAATTTAAACAAACAAACCT
1 TAAACAAATATAAACAAACAAA-CT
**
3258296 TAAATGAATATAAACAAACA
1 TAAACAAATATAAACAAACA
3258316 TAAATAACAC
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
24 9 0.24
25 29 0.76
ACGTcount: A:0.61, C:0.16, G:0.01, T:0.21
Consensus pattern (24 bp):
TAAACAAATATAAACAAACAAACT
Found at i:3261194 original size:13 final size:13
Alignment explanation
Indices: 3261176--3261201 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3261166 TTCTCTCTTA
3261176 AAAAAATAAAAAT
1 AAAAAATAAAAAT
3261189 AAAAAATAAAAAT
1 AAAAAATAAAAAT
3261202 TGAATCTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:3261664 original size:10 final size:11
Alignment explanation
Indices: 3261642--3261675 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
3261632 TCTTTAAAAG
3261642 AAAATTTCTAA
1 AAAATTTCTAA
3261653 AAAATTTC-AA
1 AAAATTTCTAA
*
3261663 AAAAATTCTAA
1 AAAATTTCTAA
3261674 AA
1 AA
3261676 TTAAAAATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (11 bp):
AAAATTTCTAA
Found at i:3261675 original size:9 final size:9
Alignment explanation
Indices: 3261663--3262009 Score: 74
Period size: 9 Copynumber: 36.6 Consensus size: 9
3261653 AAAATTTCAA
3261663 AAAAATTCT
1 AAAAATTCT
3261672 -AAAA-T-T
1 AAAAATTCT
3261678 AAAAATTCT
1 AAAAATTCT
3261687 AAAAA-T-T
1 AAAAATTCT
3261694 AAGAAATTCT
1 AA-AAATTCT
3261704 AAAAATTCT
1 AAAAATTCT
3261713 AAAAATTTTCCT
1 AAAAA--TT-CT
3261725 -AAAATTCT
1 AAAAATTCT
*
3261733 AAAATAATTTT
1 -AAA-AATTCT
*
3261744 AAAAAAT-T
1 AAAAATTCT
*** *
3261752 -ATTTTTAT
1 AAAAATTCT
* *
3261760 GAAAATTCAA
1 AAAAATTC-T
3261770 AAAAATTAC-
1 AAAAATT-CT
3261779 AAAAATTCAAAT
1 AAAAATTC---T
3261791 GAAAAA-TCT
1 -AAAAATTCT
3261800 AAACAATTCT
1 AAA-AATTCT
*
3261810 AAAAACTTTT
1 AAAAA-TTCT
*
3261820 AAAAGAATTCCA
1 -AAA-AATT-CT
*
3261832 AAAAATTTT
1 AAAAATTCT
*
3261841 AAAAATTATT
1 AAAAATT-CT
3261851 AAAAATT-T
1 AAAAATTCT
**
3261859 AAAAAAACCT
1 -AAAAATTCT
3261869 AAAAGATTCT
1 AAAA-ATTCT
*
3261879 CAAAATTCTTT
1 AAAAATTC--T
*
3261890 TAAAATTCT
1 AAAAATTCT
*
3261899 AACAATTTCT
1 AA-AAATTCT
*
3261909 CAAAATTTCT
1 -AAAAATTCT
*
3261919 ACAATAATTTCA
1 A-AA-AA-TTCT
3261931 AAAAATT-T
1 AAAAATTCT
* *
3261939 AAAATTTTCA
1 AAAA-ATTCT
*
3261949 AAAATATTTT
1 AAAA-ATTCT
*
3261959 TAAAATTCT
1 AAAAATTCT
*
3261968 AAAAATTTT
1 AAAAATTCT
*
3261977 ACAAAAATT-A
1 --AAAAATTCT
*
3261987 AAAAATTTCA
1 AAAAA-TTCT
3261997 AAAAATTC-
1 AAAAATTCT
3262005 AAAAA
1 AAAAA
3262010 AGAATTATGG
Statistics
Matches: 256, Mismatches: 38, Indels: 89
0.67 0.10 0.23
Matches are distributed among these distances:
6 1 0.00
7 10 0.04
8 32 0.12
9 82 0.32
10 76 0.30
11 40 0.16
12 10 0.04
13 5 0.02
ACGTcount: A:0.55, C:0.10, G:0.01, T:0.34
Consensus pattern (9 bp):
AAAAATTCT
Found at i:3261683 original size:15 final size:15
Alignment explanation
Indices: 3261663--3261707 Score: 72
Period size: 16 Copynumber: 2.9 Consensus size: 15
3261653 AAAATTTCAA
3261663 AAAAATTCTAAAATT
1 AAAAATTCTAAAATT
3261678 AAAAATTCTAAAAATT
1 AAAAATTCT-AAAATT
3261694 AAGAAATTCTAAAA
1 AA-AAATTCTAAAA
3261708 ATTCTAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.32
16 12 0.43
17 7 0.25
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.29
Consensus pattern (15 bp):
AAAAATTCTAAAATT
Found at i:3261691 original size:10 final size:10
Alignment explanation
Indices: 3261642--3262010 Score: 95
Period size: 10 Copynumber: 37.5 Consensus size: 10
3261632 TCTTTAAAAG
*
3261642 AAAATTTCTA
1 AAAAATTCTA
*
3261652 AAAAATTTCAA
1 AAAAA-TTCTA
3261663 AAAAATTCT-
1 AAAAATTCTA
3261672 -AAAA-T-T-
1 AAAAATTCTA
3261678 AAAAATTCT-
1 AAAAATTCTA
3261687 AAAAA-T-TA
1 AAAAATTCTA
*
3261695 AGAAATTCT-
1 AAAAATTCTA
3261704 AAAAATTCTA
1 AAAAATTCTA
*
3261714 AAAATTTTCCT-
1 AAAA-ATT-CTA
3261725 -AAAATTCTA
1 AAAAATTCTA
*
3261734 AAATAATTTTAA
1 AAA-AATTCT-A
*
3261746 AAAATTATTTTTA
1 AAAA--A-TTCTA
*
3261759 TGAAAATTC-A
1 -AAAAATTCTA
*
3261769 AAAAAAT-TA
1 AAAAATTCTA
*
3261778 CAAAAATTCAA
1 -AAAAATTCTA
*
3261789 ATGAAAAATCTA
1 A--AAAATTCTA
*
3261801 AACAATTCTA
1 AAAAATTCTA
* *
3261811 AAAACTTTTA
1 AAAAATTCTA
*
3261821 AAAGAATTCCA
1 AAA-AATTCTA
*
3261832 AAAAATT-TT
1 AAAAATTCTA
* *
3261841 AAAAATTATT
1 AAAAATTCTA
3261851 AAAAATT-TA
1 AAAAATTCTA
**
3261860 AAAAAACCTA
1 AAAAATTCTA
*
3261870 AAAGATTCT-
1 AAAAATTCTA
* *
3261879 CAAAATTCTTT
1 AAAAATTC-TA
*
3261890 TAAAATTCTA
1 AAAAATTCTA
* * *
3261900 ACAATTTCTC
1 AAAAATTCTA
*
3261910 AAAATTTCTA
1 AAAAATTCTA
*
3261920 CAATAATT-TCA
1 -AAAAATTCT-A
3261931 AAAAATT-TA
1 AAAAATTCTA
**
3261940 AAATTTTC-A
1 AAAAATTCTA
*
3261949 AAAATATT-TT
1 AAAA-ATTCTA
*
3261959 TAAAATTCT-
1 AAAAATTCTA
*
3261968 AAAAATTTTA
1 AAAAATTCTA
3261978 CAAAAA-T-TA
1 -AAAAATTCTA
3261987 AAAAATT-TCA
1 AAAAATTCT-A
3261997 AAAAATTC-A
1 AAAAATTCTA
3262006 AAAAA
1 AAAAA
3262011 GAATTATGGA
Statistics
Matches: 267, Mismatches: 53, Indels: 79
0.67 0.13 0.20
Matches are distributed among these distances:
6 1 0.00
7 6 0.02
8 17 0.06
9 72 0.27
10 102 0.38
11 45 0.17
12 15 0.06
13 2 0.01
14 7 0.03
ACGTcount: A:0.55, C:0.09, G:0.01, T:0.34
Consensus pattern (10 bp):
AAAAATTCTA
Found at i:3261700 original size:17 final size:16
Alignment explanation
Indices: 3261663--3261710 Score: 80
Period size: 17 Copynumber: 3.0 Consensus size: 16
3261653 AAAATTTCAA
3261663 AAAAATTCT-AAAATT
1 AAAAATTCTAAAAATT
3261678 AAAAATTCTAAAAATT
1 AAAAATTCTAAAAATT
3261694 AAGAAATTCTAAAAATT
1 AA-AAATTCTAAAAATT
3261711 CTAAAAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.29
16 8 0.26
17 14 0.45
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.31
Consensus pattern (16 bp):
AAAAATTCTAAAAATT
Found at i:3261748 original size:20 final size:18
Alignment explanation
Indices: 3261677--3262009 Score: 83
Period size: 19 Copynumber: 17.3 Consensus size: 18
3261667 ATTCTAAAAT
*
3261677 TAAAAATTCTAAAAA-T-
1 TAAAAATTTTAAAAATTC
*
3261693 TAAGAAATTCTAAAAATTC
1 TAA-AAATTTTAAAAATTC
*
3261712 TAAAAATTTTCCTAAAATTC
1 TAAAAATTTT--AAAAATTC
*
3261732 TAAAATAATTTTAAAAAAT-
1 T-AAA-AATTTTAAAAATTC
*
3261751 T---ATTTTTATGAAAATTC
1 TAAAAATTTTA--AAAATTC
* **
3261768 AAAAAAATTACAAAAATTC
1 -TAAAAATTTTAAAAATTC
*
3261787 AAATGAAAAA-TCTAAACAATTC
1 ---T-AAAAATTTTAAA-AATTC
3261809 TAAAAACTTTTAAAAGAATTCC
1 TAAAAA-TTTT-AAA-AATT-C
* *
3261831 AAAAAATTTTAAAAATTAT
1 TAAAAATTTTAAAAATT-C
* **
3261850 TAAAAATTTAAAAAAACC
1 TAAAAATTTTAAAAATTC
* *
3261868 TAAAAGATTCTCAAAATTC
1 TAAAA-ATTTTAAAAATTC
* * *
3261887 TTTTAAAATTCTAACAATTTC
1 --TAAAAATTTTAA-AAATTC
*
3261908 TCAAAATTTCTACAATAATT-
1 TAAAAATTT-TA-AA-AATTC
* *
3261928 TCAAAAAATTTAAAATTTTC
1 T-AAAAATTTTAAAA-ATTC
* *
3261948 AAAAATATTTTTAAAATTC
1 TAAAA-ATTTTAAAAATTC
3261967 TAAAAATTTTACAAAAATT-
1 TAAAAATTTT--AAAAATTC
* *
3261986 AAAAAATTTCAAAAAATTC
1 TAAAAATTT-TAAAAATTC
3262005 -AAAAA
1 TAAAAA
3262010 AGAATTATGG
Statistics
Matches: 235, Mismatches: 45, Indels: 72
0.67 0.13 0.20
Matches are distributed among these distances:
14 6 0.03
16 8 0.03
17 12 0.05
18 35 0.15
19 67 0.29
20 43 0.18
21 42 0.18
22 22 0.09
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.34
Consensus pattern (18 bp):
TAAAAATTTTAAAAATTC
Found at i:3261829 original size:21 final size:21
Alignment explanation
Indices: 3261804--3261844 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
3261794 AAATCTAAAC
* *
3261804 AATTCTAAAAACTTTTAAAAG
1 AATTCCAAAAAATTTTAAAAG
3261825 AATTCCAAAAAATTTTAAAA
1 AATTCCAAAAAATTTTAAAA
3261845 ATTATTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.32
Consensus pattern (21 bp):
AATTCCAAAAAATTTTAAAAG
Found at i:3262083 original size:17 final size:17
Alignment explanation
Indices: 3262045--3262083 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
3262035 CAACAATTTT
* *
3262045 ACAAATTTTAAAGAAAT
1 ACAAATTTTAAAAAAAG
*
3262062 CCAAATTTTAAAAAAAG
1 ACAAATTTTAAAAAAAG
3262079 ACAAA
1 ACAAA
3262084 AAAAATGACA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.62, C:0.10, G:0.05, T:0.23
Consensus pattern (17 bp):
ACAAATTTTAAAAAAAG
Found at i:3262212 original size:21 final size:21
Alignment explanation
Indices: 3262162--3262213 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
3262152 AAAAACTATA
* *
3262162 ATAAAAATTTTTTGAAAAAAT
1 ATAAAAAATTTTTAAAAAAAT
*
3262183 AT-AATAATTTTTAAAAAAAT
1 ATAAAAAATTTTTAAAAAAAT
*
3262203 TTAAAAAATTT
1 ATAAAAAATTT
3262214 ATTCTTATTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
ATAAAAAATTTTTAAAAAAAT
Found at i:3262289 original size:10 final size:10
Alignment explanation
Indices: 3262276--3262335 Score: 54
Period size: 10 Copynumber: 6.2 Consensus size: 10
3262266 TTTTGAAAAA
3262276 TTTTTAAATT
1 TTTTTAAATT
* *
3262286 TTTTTGAGTT
1 TTTTTAAATT
3262296 TTTATTAAA--
1 TTT-TTAAATT
*
3262305 TTTTTAAGTT
1 TTTTTAAATT
*
3262315 TTTTTAGATT
1 TTTTTAAATT
3262325 TTTTT-AATT
1 TTTTTAAATT
3262334 TT
1 TT
3262336 AAAGAATGTT
Statistics
Matches: 39, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
8 4 0.10
9 8 0.21
10 24 0.62
11 3 0.08
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (10 bp):
TTTTTAAATT
Found at i:3262303 original size:21 final size:20
Alignment explanation
Indices: 3262276--3262335 Score: 72
Period size: 19 Copynumber: 3.1 Consensus size: 20
3262266 TTTTGAAAAA
*
3262276 TTTTTAAATTTTTTTGAGTT
1 TTTTTAAATTTTTTTAAGTT
3262296 TTTATTAAA--TTTTTAAGTT
1 TTT-TTAAATTTTTTTAAGTT
*
3262315 TTTTTAGATTTTTTTAA-TT
1 TTTTTAAATTTTTTTAAGTT
3262334 TT
1 TT
3262336 AAAGAATGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
18 4 0.11
19 16 0.46
20 10 0.29
21 5 0.14
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (20 bp):
TTTTTAAATTTTTTTAAGTT
Found at i:3262305 original size:29 final size:28
Alignment explanation
Indices: 3262256--3262335 Score: 85
Period size: 29 Copynumber: 2.9 Consensus size: 28
3262246 TTATATATAT
***
3262256 ATTTTTTTA-ATTTTGAAAAATTTTTAA
1 ATTTTTTTAGATTTTTTTAAATTTTTAA
3262283 ATTTTTTT-GAGTTTTTATTAAATTTTTAA
1 ATTTTTTTAGA-TTTTT-TTAAATTTTTAA
*
3262312 GTTTTTTTAGATTTTTTT-AATTTT
1 ATTTTTTTAGATTTTTTTAAATTTT
3262336 AAAGAATGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
27 15 0.33
28 6 0.13
29 22 0.49
30 2 0.04
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (28 bp):
ATTTTTTTAGATTTTTTTAAATTTTTAA
Found at i:3262409 original size:16 final size:16
Alignment explanation
Indices: 3262388--3262439 Score: 63
Period size: 15 Copynumber: 3.4 Consensus size: 16
3262378 TTCGTTAAAA
*
3262388 ATTTTTAATTTTTTTT
1 ATTTTTAATTTTTTGT
*
3262404 ATTTTT-ATTTTTAGT
1 ATTTTTAATTTTTTGT
*
3262419 -TTTTTAACTTTTTGT
1 ATTTTTAATTTTTTGT
3262434 ATTTTT
1 ATTTTT
3262440 TAAATCTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
14 5 0.17
15 14 0.47
16 11 0.37
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.77
Consensus pattern (16 bp):
ATTTTTAATTTTTTGT
Found at i:3262430 original size:22 final size:22
Alignment explanation
Indices: 3262388--3262431 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
3262378 TTCGTTAAAA
* *
3262388 ATTTTTAATTTTTTTTATTTTT
1 ATTTTTAAGTTTTTTAATTTTT
3262410 ATTTTT-AGTTTTTTAACTTTTT
1 ATTTTTAAGTTTTTTAA-TTTTT
3262432 GTATTTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.77
Consensus pattern (22 bp):
ATTTTTAAGTTTTTTAATTTTT
Found at i:3262656 original size:10 final size:10
Alignment explanation
Indices: 3262643--3262676 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
3262633 AATTGCTTTG
3262643 AATTTTTCAA
1 AATTTTTCAA
*
3262653 AATTTTTTAA
1 AATTTTTCAA
*
3262663 ACTTTTTCAA
1 AATTTTTCAA
3262673 AATT
1 AATT
3262677 AAAAAATTAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (10 bp):
AATTTTTCAA
Found at i:3262656 original size:20 final size:19
Alignment explanation
Indices: 3262606--3262676 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 19
3262596 TTATTATAAA
3262606 TTTTCAAAATTTTTTAGAAT
1 TTTTCAAAATTTTTT-GAAT
* *
3262626 GTTTT-AGAATTGCTTTGAAT
1 -TTTTCAAAATT-TTTTGAAT
*
3262646 TTTTCAAAATTTTTTAAACT
1 TTTTCAAAATTTTTTGAA-T
3262666 TTTTCAAAATT
1 TTTTCAAAATT
3262677 AAAAAATTAC
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
19 9 0.21
20 26 0.62
21 7 0.17
ACGTcount: A:0.32, C:0.07, G:0.07, T:0.54
Consensus pattern (19 bp):
TTTTCAAAATTTTTTGAAT
Found at i:3262746 original size:8 final size:9
Alignment explanation
Indices: 3262699--3262843 Score: 78
Period size: 9 Copynumber: 15.4 Consensus size: 9
3262689 TAGTTTAGTG
*
3262699 TTTTATAAT
1 TTTTAAAAT
3262708 CTTTTAAAA-
1 -TTTTAAAAT
*
3262717 -TTAAAAATT
1 TTTTAAAA-T
3262726 TTTTAAAAT
1 TTTTAAAAT
3262735 TTTTAAAAT
1 TTTTAAAAT
* *
3262744 TTTTCATAT
1 TTTTAAAAT
*
3262753 TTTTATAATT
1 TTTTA-AAAT
*
3262763 TTTTAGAATAA
1 TTTTA-AA-AT
***
3262774 TTTTATTTT
1 TTTTAAAAT
* *
3262783 TTTTGAAGT
1 TTTTAAAAT
*
3262792 TTTTTAAAT
1 TTTTAAAAT
3262801 GTTTTAGAAAT
1 -TTTTA-AAAT
3262812 TTTTAAAAT
1 TTTTAAAAT
**
3262821 TTTTTGAAT
1 TTTTAAAAT
3262830 TTTTAAAAAT
1 TTTT-AAAAT
3262840 TTTT
1 TTTT
3262844 TTTTGCATTT
Statistics
Matches: 101, Mismatches: 26, Indels: 16
0.71 0.18 0.11
Matches are distributed among these distances:
7 6 0.06
9 48 0.48
10 38 0.38
11 9 0.09
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.59
Consensus pattern (9 bp):
TTTTAAAAT
Found at i:3262814 original size:18 final size:18
Alignment explanation
Indices: 3262725--3262836 Score: 68
Period size: 19 Copynumber: 6.0 Consensus size: 18
3262715 AATTAAAAAT
3262725 TTTTTA-AAATTTTTAAAA
1 TTTTTAGAAATTTTT-AAA
* *
3262743 TTTTT-CATATTTTTATAA
1 TTTTTAGAAATTTTTA-AA
* **
3262761 TTTTTTAGAATAATTTTATT
1 -TTTTTAGAA-ATTTTTAAA
* *
3262781 TTTTTTGAAGTTTTTTAAA
1 TTTTTAGAA-ATTTTTAAA
3262800 TGTTTTAGAAATTTTTAAAA
1 T-TTTTAGAAATTTTT-AAA
*
3262820 TTTTTTG-AATTTTTAAA
1 TTTTTAGAAATTTTTAAA
3262837 AATTTTTTTT
Statistics
Matches: 72, Mismatches: 15, Indels: 15
0.71 0.15 0.15
Matches are distributed among these distances:
17 4 0.06
18 21 0.29
19 29 0.40
20 12 0.17
21 6 0.08
ACGTcount: A:0.33, C:0.01, G:0.05, T:0.61
Consensus pattern (18 bp):
TTTTTAGAAATTTTTAAA
Found at i:3263518 original size:60 final size:58
Alignment explanation
Indices: 3263349--3263746 Score: 306
Period size: 60 Copynumber: 6.7 Consensus size: 58
3263339 TACACTAAAA
* * * * ** * * *
3263349 ATTTTCGAGAAATATTGAGACTTTCAATTTTTCCTCAAACAGACATTTCTTGAAAGTTTT
1 ATTTTCAAGAAA-ATTGATACTTTCAACTTTTCCTCAAA-ATATTTTTTTTAAAAATTTT
* * * ** * *
3263409 ATTTTAAAAGAAAGTTGATACTCTCAACACTCCCTCTAAAATATATTTTTTAAAAAATTTT
1 ATTTT-CAAGAAAATTGATACTTTCAACTTTTCCTC-AAAATAT-TTTTTTTAAAAATTTT
* * * *
3263470 ATTTTCAAGAAAAATTGACACTTTCAACTTTTCATCAAAATATTTTTTTTGAAAGTTTT
1 ATTTTCAAG-AAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTTTAAAAATTTT
* **
3263529 ATTTTCAACGAAAATTGATACTTTCAACCTTTT-CTTAAAATTATTTTTTTCGAAAATTTT
1 ATTTTCAA-GAAAATTGATACTTTCAA-CTTTTCCTCAAAA-TATTTTTTTTAAAAATTTT
* *** * **
3263589 ATTTTCGAAGAAAATTGATATTTTTC-ACTTTTCCTC-AAA-A-CGCTCTTCGAAATTTT
1 ATTTTC-AAGAAAATTGATA-CTTTCAACTTTTCCTCAAAATATTTTTTTTAAAAATTTT
*
3263645 ATTTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTCTCTTTCTTAAAAATTTT
1 ATTTTCAAG-AAAATTGATACTTTCAACTTTTCCTC-AAAATA-TT-T-TTT-TTAAAAATTTT
3263709 ATTTT-AAGGAAAATTGATACTTTCAA-TTTTCCTCAAAA
1 ATTTTCAA-GAAAATTGATACTTTCAACTTTTCCTCAAAA
3263747 CAATTTTAGA
Statistics
Matches: 268, Mismatches: 49, Indels: 41
0.75 0.14 0.11
Matches are distributed among these distances:
55 7 0.03
56 34 0.13
57 1 0.00
58 3 0.01
59 51 0.19
60 76 0.28
61 53 0.20
62 8 0.03
63 20 0.07
64 15 0.06
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.44
Consensus pattern (58 bp):
ATTTTCAAGAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTTTAAAAATTTT
Found at i:3263556 original size:120 final size:116
Alignment explanation
Indices: 3263349--3263746 Score: 351
Period size: 119 Copynumber: 3.3 Consensus size: 116
3263339 TACACTAAAA
* * * * *
3263349 ATTTTCGAGAAATATTGAGACTTTCAATTTTTCCTCAAACAGACATTTCTTGAAAGTTTTATTTT
1 ATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAA-A-ACATTTTTTGAAAGTTTTATTTT
* *
3263414 AAAAGAAAGTTGATACTCTCAACACTCCCTCTAAAATATATTTTTTAAAAAATTTT
64 -AAAGAAAATTGATACTTTCAAC-CT-CCTCTAAAATATATTTTTTAAAAAATTTT
* * **
3263470 ATTTTCAAGAAAAATTGACACTTTCAACTTTTCATCAAAATATTTTTTTTGAAAGTTTTATTTTC
1 ATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAA-ACATTTTTTGAAAGTTTTATTTT-
* ** **
3263535 AACGAAAATTGATACTTTCAACCTTTTCTTAAAAT-TATTTTTTTCGAAAATTTT
64 AAAGAAAATTGATACTTTCAACCTCCTC-TAAAATATA-TTTTTTAAAAAATTTT
* ** * *
3263589 ATTTTCGAAG-AAAATTGATATTTTTC-ACTTTTCCTC-AAAACGCTCTTCGAAA-TTTTATTTT
1 ATTTTC-AAGAAAAATTGATA-CTTTCAACTTTTCCTCAAAAACATTTTTTGAAAGTTTTATTTT
* * * * *
3263650 TAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTCTCTTTCTTAAAAATTTT
64 AAAG-AAAATTGATACTTTCAAC--CTCCTCTAAAATATAT-T-TTT-TAAAAAATTTT
*
3263709 ATTTT-AAGGAAAATTGATACTTTCAA-TTTTCCTCAAAA
1 ATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAA
3263747 CAATTTTAGA
Statistics
Matches: 228, Mismatches: 35, Indels: 30
0.78 0.12 0.10
Matches are distributed among these distances:
115 2 0.01
116 27 0.12
117 14 0.06
118 27 0.12
119 63 0.28
120 61 0.27
121 34 0.15
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.44
Consensus pattern (116 bp):
ATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAACATTTTTTGAAAGTTTTATTTTAA
AGAAAATTGATACTTTCAACCTCCTCTAAAATATATTTTTTAAAAAATTTT
Found at i:3263593 original size:15 final size:16
Alignment explanation
Indices: 3263565--3263597 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
3263555 ACCTTTTCTT
*
3263565 AAAATTATTTTTTTCG
1 AAAATTATTATTTTCG
3263581 AAAATT-TTATTTTCG
1 AAAATTATTATTTTCG
3263596 AA
1 AA
3263598 GAAAATTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.52
Consensus pattern (16 bp):
AAAATTATTATTTTCG
Found at i:3265025 original size:86 final size:86
Alignment explanation
Indices: 3264880--3265249 Score: 345
Period size: 86 Copynumber: 4.3 Consensus size: 86
3264870 CCAACATAAG
* * * * * * * *
3264880 ATGACCTAGATTGAAC-CATAGTCTGAAATGAATAACTTGGACTAAGCCAAAGAAAGATCTAGCG
1 ATGACCTAGATTGAACTGA-AGTCTAAAATAAAAAACTTAGACTCAGCCGAAGAAAGATCTAGCA
**
3264944 TAGGTTGAAACCCAAAAACAAA
65 TAGGCCGAAACCCAAAAACAAA
* * * * * *
3264966 ATGACCTGGATTAAATTGAAGTCTAAAATAAAAAACTTAGACTCAACCGAAGAAAGATCTGGCCT
1 ATGACCTAGATTGAACTGAAGTCTAAAATAAAAAACTTAGACTCAGCCGAAGAAAGATCTAGCAT
*
3265031 AGGCTGAAA-CCAAAAACAAA
66 AGGCCGAAACCCAAAAACAAA
* * * * * * * *
3265051 ATTACCTAGATTGAA-TGAAGTCTGAAATAAACAACTTGGACTTAGTCGAAAAAAGATCTAGCTT
1 ATGACCTAGATTGAACTGAAGTCTAAAATAAAAAACTTAGACTCAGCCGAAGAAAGATCTAGCAT
* **
3265115 AGGTCGAAACTTAAAAACAAA
66 AGGCCGAAACCCAAAAACAAA
* * * * * * * *
3265136 ATGACCTAAATTGAACTGAACTCTGAAATGAATAACTTAGACTGAGCCAAAG-AAGCATCTGGCA
1 ATGACCTAGATTGAACTGAAGTCTAAAATAAAAAACTTAGACTCAGCCGAAGAAAG-ATCTAGCA
*
3265200 TAGGCCGAAACCC-AAAATAAA
65 TAGGCCGAAACCCAAAAACAAA
*
3265221 ATGACCTAGATTGAACCGAAGTCTAAAAT
1 ATGACCTAGATTGAACTGAAGTCTAAAAT
3265250 GACTGACTTG
Statistics
Matches: 230, Mismatches: 50, Indels: 9
0.80 0.17 0.03
Matches are distributed among these distances:
84 47 0.20
85 80 0.35
86 102 0.44
87 1 0.00
ACGTcount: A:0.45, C:0.17, G:0.17, T:0.21
Consensus pattern (86 bp):
ATGACCTAGATTGAACTGAAGTCTAAAATAAAAAACTTAGACTCAGCCGAAGAAAGATCTAGCAT
AGGCCGAAACCCAAAAACAAA
Found at i:3265198 original size:170 final size:170
Alignment explanation
Indices: 3264880--3265272 Score: 450
Period size: 170 Copynumber: 2.3 Consensus size: 170
3264870 CCAACATAAG
* * *
3264880 ATGACCTAGATTGAACCATAGTCTGAAATGAATAACTTGGACTAAGCCAAAGAAAGATCTAGCGT
1 ATGACCTAGATTGAACGA-AGTCTGAAATAAACAACTTGGACTAAGCCAAAGAAAGATCTAGCGT
* ** * *
3264945 AGGTTGAAACCCAAAAACAAAATGACCTGGATTAAATTGAAGTCTAAAATAAAAAACTTAGACTC
65 AGGTCGAAACCCAAAAACAAAATGACCTAAATTAAACTGAACTCTAAAATAAAAAACTTAGACTC
* * *
3265010 AACCGAAGAAAGATCTGGCCTAGGCTGAAACCAAAAACAAA
130 AACCAAAGAAAGATCTGGCATAGGCCGAAACCAAAAACAAA
* * * * *
3265051 ATTACCTAGATTGAATGAAGTCTGAAATAAACAACTTGGACTTAGTCGAAA-AAAGATCTAGCTT
1 ATGACCTAGATTGAACGAAGTCTGAAATAAACAACTTGGACTAAG-CCAAAGAAAGATCTAGCGT
** * * * * *
3265115 AGGTCGAAACTTAAAAACAAAATGACCTAAATTGAACTGAACTCTGAAATGAATAACTTAGACTG
65 AGGTCGAAACCCAAAAACAAAATGACCTAAATTAAACTGAACTCTAAAATAAAAAACTTAGACTC
* * *
3265180 AGCCAAAG-AAGCATCTGGCATAGGCCGAAACCCAAAATAAA
130 AACCAAAGAAAG-ATCTGGCATAGGCCGAAACCAAAAACAAA
* * * *
3265221 ATGACCTAGATTGAACCGAAGTCTAAAAT-GACTGACTTGGACTACGCCAAAG
1 ATGACCTAGATTGAA-CGAAGTCTGAAATAAAC-AACTTGGACTAAGCCAAAG
3265273 TCATGACTTC
Statistics
Matches: 183, Mismatches: 34, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
169 3 0.02
170 140 0.77
171 40 0.22
ACGTcount: A:0.44, C:0.18, G:0.18, T:0.21
Consensus pattern (170 bp):
ATGACCTAGATTGAACGAAGTCTGAAATAAACAACTTGGACTAAGCCAAAGAAAGATCTAGCGTA
GGTCGAAACCCAAAAACAAAATGACCTAAATTAAACTGAACTCTAAAATAAAAAACTTAGACTCA
ACCAAAGAAAGATCTGGCATAGGCCGAAACCAAAAACAAA
Found at i:3265222 original size:85 final size:85
Alignment explanation
Indices: 3264880--3265272 Score: 364
Period size: 85 Copynumber: 4.6 Consensus size: 85
3264870 CCAACATAAG
* * *
3264880 ATGACCTAGATTGAAC-CATAGTCTGAAATGAATAACTTGGACTAAGCCAAAGAAAGATCTAGCG
1 ATGACCTAGATTGAACTGA-AGTCTGAAATGAATAACTTAGACTAAGCCAAAGAAAGATCTAGCA
**
3264944 TAGGTTGAAACCCAAAAACAAA
65 TAGGCCGAAACCC-AAAACAAA
* * * * * * * * *
3264966 ATGACCTGGATTAAATTGAAGTCTAAAATAAAAAACTTAGACTCAA-CCGAAGAAAGATCTGGCC
1 ATGACCTAGATTGAACTGAAGTCTGAAATGAATAACTTAGACT-AAGCCAAAGAAAGATCTAGCA
* *
3265030 TAGGCTGAAACCAAAAACAAA
65 TAGGCCGAAACCCAAAACAAA
* * * * * * *
3265051 ATTACCTAGATTGAA-TGAAGTCTGAAATAAACAACTTGGACTTAGTCGAAA-AAAGATCTAGCT
1 ATGACCTAGATTGAACTGAAGTCTGAAATGAATAACTTAGACTAAG-CCAAAGAAAGATCTAGCA
* **
3265114 TAGGTCGAAACTTAAAAACAAA
65 TAGGCCGAAAC-CCAAAACAAA
* * * *
3265136 ATGACCTAAATTGAACTGAACTCTGAAATGAATAACTTAGACTGAGCCAAAG-AAGCATCTGGCA
1 ATGACCTAGATTGAACTGAAGTCTGAAATGAATAACTTAGACTAAGCCAAAGAAAG-ATCTAGCA
*
3265200 TAGGCCGAAACCCAAAATAAA
65 TAGGCCGAAACCCAAAACAAA
* * * * * *
3265221 ATGACCTAGATTGAACCGAAGTCTAAAATGACTGACTTGGACTACGCCAAAG
1 ATGACCTAGATTGAACTGAAGTCTGAAATGAATAACTTAGACTAAGCCAAAG
3265273 TCATGACTTC
Statistics
Matches: 249, Mismatches: 50, Indels: 17
0.79 0.16 0.05
Matches are distributed among these distances:
83 1 0.00
84 43 0.17
85 102 0.41
86 100 0.40
87 3 0.01
ACGTcount: A:0.44, C:0.18, G:0.18, T:0.21
Consensus pattern (85 bp):
ATGACCTAGATTGAACTGAAGTCTGAAATGAATAACTTAGACTAAGCCAAAGAAAGATCTAGCAT
AGGCCGAAACCCAAAACAAA
Found at i:3265553 original size:17 final size:17
Alignment explanation
Indices: 3265533--3265607 Score: 55
Period size: 17 Copynumber: 4.5 Consensus size: 17
3265523 AGATCTTTAT
3265533 ATTCACAAGAATTGAAG
1 ATTCACAAGAATTGAAG
** * *
3265550 ATTCGTAAAAATTCAAG
1 ATTCACAAGAATTGAAG
** **
3265567 ATTTTCAA-AATTTTCAG
1 ATTCACAAGAA-TTGAAG
3265584 -TTCACAAGAATTGAAG
1 ATTCACAAGAATTGAAG
3265600 ATTCACAA
1 ATTCACAA
3265608 ATTTCAAATA
Statistics
Matches: 42, Mismatches: 13, Indels: 6
0.69 0.21 0.10
Matches are distributed among these distances:
16 11 0.26
17 31 0.74
ACGTcount: A:0.44, C:0.13, G:0.12, T:0.31
Consensus pattern (17 bp):
ATTCACAAGAATTGAAG
Found at i:3266820 original size:8 final size:7
Alignment explanation
Indices: 3266790--3266837 Score: 51
Period size: 7 Copynumber: 6.4 Consensus size: 7
3266780 TGAGTCTCTA
3266790 TTTTCAT
1 TTTTCAT
*
3266797 CTTTCAT
1 TTTTCAT
3266804 TTTTCAT
1 TTTTCAT
3266811 TTTTCAAT
1 TTTTC-AT
*
3266819 TTTCTTAT
1 TTT-TCAT
3266827 TCTTTCAT
1 T-TTTCAT
3266835 TTT
1 TTT
3266838 CTTTTTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
7 19 0.56
8 12 0.35
9 3 0.09
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.69
Consensus pattern (7 bp):
TTTTCAT
Found at i:3266838 original size:16 final size:16
Alignment explanation
Indices: 3266796--3266840 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
3266786 TCTATTTTCA
*
3266796 TCTTTCATTTT-TCAT
1 TCTTTCATTTTCTTAT
3266811 T-TTTCAATTTTCTTAT
1 TCTTTC-ATTTTCTTAT
3266827 TCTTTCATTTTCTT
1 TCTTTCATTTTCTT
3266841 TTTTTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 4 0.15
15 6 0.23
16 12 0.46
17 4 0.15
ACGTcount: A:0.13, C:0.18, G:0.00, T:0.69
Consensus pattern (16 bp):
TCTTTCATTTTCTTAT
Found at i:3270825 original size:119 final size:120
Alignment explanation
Indices: 3270678--3271016 Score: 422
Period size: 119 Copynumber: 2.9 Consensus size: 120
3270668 AGACATTTCC
* * * * * *
3270678 TGAAAGTTTTATTTTAAAGGAAAGTTGATACTCTCAACTTTCCCTCCAAAATATAC-CTTTTTAA
1 TGAAAGTTTTATTTTAAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATACTTTTTTTGA
** *
3270742 AAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTC-TCAAAATATTTTTT
66 AAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCTTCAAAAT-GCTCTT
* *
3270797 TGAAAGTTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCT-TAAAAT-TACTTTTTTTGA
1 TGAAAGTTTTATTTTAAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATACTTTTTTTGA
* *
3270860 AATTTTTATTTTCAAGAAAAATTGATACTTTCAAC-TTTTCTTCAAAATGCTCTT
66 AAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCTTCAAAATGCTCTT
* * * * * *
3270914 CGAAA-TTTTATTTTTAAGAAAAATTAATACTTTTAACTTTTCCTCAAAAATATTTCTTTTTCTT
1 TGAAAGTTTTATTTTAAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TACTTTTT-TT
*
3270978 GAAAA-TTTAATTTTAAGAAAAATTGATACTTTCAACTTT
64 GAAAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTT
3271017 CTTAAAAAAA
Statistics
Matches: 191, Mismatches: 22, Indels: 13
0.85 0.10 0.06
Matches are distributed among these distances:
116 35 0.18
117 20 0.10
118 51 0.27
119 77 0.40
120 8 0.04
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.46
Consensus pattern (120 bp):
TGAAAGTTTTATTTTAAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATACTTTTTTTGA
AAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCTTCAAAATGCTCTT
Found at i:3275317 original size:18 final size:19
Alignment explanation
Indices: 3275288--3275327 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
3275278 TCATCTTTAT
3275288 TAAAAGTAAAAAAATAA-AA
1 TAAAAGT-AAAAAATAATAA
3275307 TAAAA-TAAAAAATAATAA
1 TAAAAGTAAAAAATAATAA
3275325 TAA
1 TAA
3275328 GATTCTATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 9 0.45
18 6 0.30
19 5 0.25
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.20
Consensus pattern (19 bp):
TAAAAGTAAAAAATAATAA
Found at i:3278145 original size:12 final size:12
Alignment explanation
Indices: 3278128--3278152 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3278118 TTTAACATCC
3278128 TTAATTTGAATG
1 TTAATTTGAATG
3278140 TTAATTTGAATG
1 TTAATTTGAATG
3278152 T
1 T
3278153 CTATCCCTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (12 bp):
TTAATTTGAATG
Found at i:3286575 original size:18 final size:20
Alignment explanation
Indices: 3286554--3286591 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3286544 ATCTAGAAAA
3286554 TTTT-TAGATTTCAATGAAT
1 TTTTCTAGATTTCAATGAAT
*
3286573 TTTTCTAGTTTTCAATGAA
1 TTTTCTAGATTTCAATGAA
3286592 GATTCCGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.29, C:0.08, G:0.11, T:0.53
Consensus pattern (20 bp):
TTTTCTAGATTTCAATGAAT
Found at i:3287125 original size:17 final size:18
Alignment explanation
Indices: 3287093--3287127 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
3287083 AGAAAATTAG
*
3287093 AGAAGAAAACTAAAAAAT
1 AGAACAAAACTAAAAAAT
3287111 AGAACAAAA-TAAAAAAT
1 AGAACAAAACTAAAAAAT
3287128 TAATAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.74, C:0.06, G:0.09, T:0.11
Consensus pattern (18 bp):
AGAACAAAACTAAAAAAT
Found at i:3288867 original size:3 final size:3
Alignment explanation
Indices: 3288829--3288937 Score: 99
Period size: 3 Copynumber: 38.3 Consensus size: 3
3288819 AATCGAACCC
*
3288829 TAT T-T TAT TACT T-T TAT TA- TAT TA- TAT TA- TAG TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
3288870 TAT TAG TA- TAT TGT ATAG TAT TA- TAT CA- TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
3288913 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
3288938 TTCTTTCTTT
Statistics
Matches: 88, Mismatches: 8, Indels: 20
0.76 0.07 0.17
Matches are distributed among these distances:
2 15 0.17
3 70 0.80
4 3 0.03
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:3288932 original size:40 final size:39
Alignment explanation
Indices: 3288829--3288933 Score: 117
Period size: 40 Copynumber: 2.7 Consensus size: 39
3288819 AATCGAACCC
*
3288829 TATT-TTATTACTT-TTATTATATTATATTATAGTATTAT
1 TATTATTATTA-TTATTATTATATTATATCATAGTATTAT
* * *
3288867 TATTATTAGTA-TATTGTATAGTATTATATCATATTATTAT
1 TATTATTATTATTATTAT-TA-TATTATATCATAGTATTAT
3288907 TATTATTATTATTATTATTATTATTAT
1 TATTATTATTATTATTATTA-TATTAT
3288934 TATTTTCTTT
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
37 1 0.02
38 7 0.13
39 7 0.13
40 35 0.64
41 5 0.09
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (39 bp):
TATTATTATTATTATTATTATATTATATCATAGTATTAT
Found at i:3289803 original size:19 final size:19
Alignment explanation
Indices: 3289779--3289815 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
3289769 TTTTCTGGTT
* *
3289779 TTATTTTTTAGAAATTTTA
1 TTATTTTGTAAAAATTTTA
3289798 TTATTTTGTAAAAATTTT
1 TTATTTTGTAAAAATTTT
3289816 TTCTGTTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (19 bp):
TTATTTTGTAAAAATTTTA
Found at i:3294674 original size:45 final size:45
Alignment explanation
Indices: 3294608--3294698 Score: 166
Period size: 45 Copynumber: 2.0 Consensus size: 45
3294598 AATATTACAT
3294608 ACATTGTGTTTATATCGAAGATAGGACATGCATTTGCATTGTCAC
1 ACATTGTGTTTATATCGAAGATAGGACATGCATTTGCATTGTCAC
3294653 ACATTGTGTTTATAT-GCAAGATAGGACATGCATTTGCATTGTCAC
1 ACATTGTGTTTATATCG-AAGATAGGACATGCATTTGCATTGTCAC
3294698 A
1 A
3294699 TTACACTTAT
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
44 1 0.02
45 44 0.98
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (45 bp):
ACATTGTGTTTATATCGAAGATAGGACATGCATTTGCATTGTCAC
Found at i:3295456 original size:115 final size:115
Alignment explanation
Indices: 3295364--3295637 Score: 273
Period size: 115 Copynumber: 2.4 Consensus size: 115
3295354 TTCTTGACCT
* * *
3295364 ATGATATCGTCTCGATCATTCATCTTTGACATCGACTTGATCATAGTCACTTTTAGACTCACGGC
1 ATGACATCATCTCGATCATTCATCTTTGACATCGACTTGATCATAGTCACTTTTAGACTCAAGGC
* *
3295429 ATCGTCTAAGTTATTTGATCTTGGCTCAGGCTAAATCACATTTTTAACCC
66 ATCGTCTAAGTTATTTGATCTTAGCTCAAGCTAAATCACATTTTTAACCC
* * * * *
3295479 ATGACATCATCTCGATCATTCATTTTTGACCTCGACTTGGTCTTGGTCACTTTTAGACTCAAGGC
1 ATGACATCATCTCGATCATTCATCTTTGACATCGACTTGATCATAGTCACTTTTAGACTCAAGGC
* * * * ** * * * * * *
3295544 AACATCCCAA-TCATCCGATCTCAACTTAGGCTAGATCA-TTTTCTTAACCC
66 ATCGT-CTAAGTTATTTGATCTTAGCTCAAGCTAAATCACATTT-TTAACCC
* * * * *
3295594 ACGACATCATCTTGGTCATTTATCTTTGACATCGACTCGATCAT
1 ATGACATCATCTCGATCATTCATCTTTGACATCGACTTGATCAT
3295638 GGTGGCTTTT
Statistics
Matches: 128, Mismatches: 29, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
114 3 0.02
115 122 0.95
116 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.14, T:0.35
Consensus pattern (115 bp):
ATGACATCATCTCGATCATTCATCTTTGACATCGACTTGATCATAGTCACTTTTAGACTCAAGGC
ATCGTCTAAGTTATTTGATCTTAGCTCAAGCTAAATCACATTTTTAACCC
Found at i:3295802 original size:115 final size:114
Alignment explanation
Indices: 3295472--3295794 Score: 317
Period size: 115 Copynumber: 2.8 Consensus size: 114
3295462 AATCACATTT
* * * * *
3295472 TTAACCCATGACATCATCTCGATCATTCATTTTTGACCTCGACTTGGTCTTGGTCACTTTTAGAC
1 TTAACCCACGACATCATCTCGATCATTCATCTTTGACCTCGAC-TCGTCTTGGTCGCTTTTAAAC
* * * * * * *
3295537 TCAAGGCAACATCCCAATCATCCGATCTCAACTTAGGCTAGATCATTTTC
65 TCACGACATCATCCCAATCATTCGATCTCGACTTAGGCCAGACCATTTTC
* * * * * *
3295587 TTAACCCACGACATCATCTTGGTCATTTATCTTTGACATCGACTCGATCATGGTGGCTTTTAAAC
1 TTAACCCACGACATCATCTCGATCATTCATCTTTGACCTCGACTCG-TCTTGGTCGCTTTTAAAC
* * *
3295652 TCGCAACATCATCCCAGTCA-TCTGATCTCGACTTAGGCCAGACCATTTTC
65 TCACGACATCATCCCAATCATTC-GATCTCGACTTAGGCCAGACCATTTTC
* * ** * * *
3295702 TTGA-CCAGTGGTATCATCTCGATCATTCATCTTTGACCTCAACTCAGTCTTGGTTGCTTTCAAA
1 TTAACCCA-CGACATCATCTCGATCATTCATCTTTGACCTCGACTC-GTCTTGGTCGCTTTTAAA
* *
3295766 CTCACGACATCATCCTAATCATTCAATCT
64 CTCACGACATCATCCCAATCATTCGATCT
3295795 TGGCTTAGTC
Statistics
Matches: 165, Mismatches: 38, Indels: 10
0.77 0.18 0.05
Matches are distributed among these distances:
114 6 0.04
115 156 0.95
116 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.34
Consensus pattern (114 bp):
TTAACCCACGACATCATCTCGATCATTCATCTTTGACCTCGACTCGTCTTGGTCGCTTTTAAACT
CACGACATCATCCCAATCATTCGATCTCGACTTAGGCCAGACCATTTTC
Done.