Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168004.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_26, 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: 16099665
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 54 of 77
Found at i:10654497 original size:25 final size:26
Alignment explanation
Indices: 10654379--10654499 Score: 133
Period size: 28 Copynumber: 4.5 Consensus size: 26
10654369 TTTTAATTTA
10654379 TTATTA-TTTTTTTTATTTT-TT-TT
1 TTATTATTTTTTTTTATTTTATTATT
10654402 TTCATTATTTTTTTTTATTTTCATTATT
1 TT-ATTATTTTTTTTTATTTT-ATTATT
* *
10654430 TT-TTATTATTTTATTATTTTCTTATT
1 TTATTATT-TTTTTTTATTTTATTATT
10654456 TTCATTATTTTATTTTTATTTTATTATTT
1 TT-ATTATTTT-TTTTTATTTTATTA-TT
10654485 TTATTTATTTTTTTT
1 TTA-TTATTTTTTTT
10654500 GGTCCGAAAT
Statistics
Matches: 83, Mismatches: 4, Indels: 17
0.80 0.04 0.16
Matches are distributed among these distances:
23 2 0.02
24 4 0.05
25 13 0.16
26 12 0.14
27 15 0.18
28 26 0.31
29 11 0.13
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.79
Consensus pattern (26 bp):
TTATTATTTTTTTTTATTTTATTATT
Found at i:10656874 original size:51 final size:51
Alignment explanation
Indices: 10656819--10656918 Score: 137
Period size: 51 Copynumber: 2.0 Consensus size: 51
10656809 CACAACATGC
* *
10656819 ATCCTCATGTTCTAAGCATTATCATGTTACATCATTCTATGCATCATTTCT
1 ATCCTCATGTTCTAAGCATTATCATATCACATCATTCTATGCATCATTTCT
* * * * *
10656870 ATCCTTATGTTTTAAGCATTATTATATCATATCATTTTATGCATCATTT
1 ATCCTCATGTTCTAAGCATTATCATATCACATCATTCTATGCATCATTT
10656919 TCATAATAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.27, C:0.19, G:0.07, T:0.47
Consensus pattern (51 bp):
ATCCTCATGTTCTAAGCATTATCATATCACATCATTCTATGCATCATTTCT
Found at i:10666302 original size:8 final size:8
Alignment explanation
Indices: 10666291--10666326 Score: 63
Period size: 8 Copynumber: 4.4 Consensus size: 8
10666281 AAGAGAAAAA
10666291 AAATAATT
1 AAATAATT
10666299 AAATAATT
1 AAATAATT
10666307 AAATAATT
1 AAATAATT
10666315 AAAATAATT
1 -AAATAATT
10666324 AAA
1 AAA
10666327 AAATGAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 19 0.70
9 8 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
AAATAATT
Found at i:10666335 original size:17 final size:17
Alignment explanation
Indices: 10666299--10666335 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
10666289 AAAAATAATT
* *
10666299 AAATAATTAAATAATTA
1 AAATAATTAAAAAATGA
10666316 AAATAATTAAAAAATGA
1 AAATAATTAAAAAATGA
10666333 AAA
1 AAA
10666336 ATGAAAAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (17 bp):
AAATAATTAAAAAATGA
Found at i:10666343 original size:25 final size:25
Alignment explanation
Indices: 10666289--10666343 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
10666279 AAAAGAGAAA
* *
10666289 AAAAATAATTAAATAATTAAATAAT
1 AAAAATAATTAAAAAATGAAATAAT
*
10666314 TAAAATAATTAAAAAATGAAA-AAT
1 AAAAATAATTAAAAAATGAAATAAT
10666338 GAAAAA
1 -AAAAA
10666344 GGAAGACTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
24 3 0.12
25 22 0.88
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (25 bp):
AAAAATAATTAAAAAATGAAATAAT
Found at i:10667399 original size:37 final size:39
Alignment explanation
Indices: 10667349--10667434 Score: 131
Period size: 40 Copynumber: 2.2 Consensus size: 39
10667339 TAAGGAGTAT
*
10667349 TTTATTTTTCAAAG-T-TTGCCTCTATTCAGAAGAGCCA
1 TTTATTTTTCAAAGTTCTTGCCTCTATTAAGAAGAGCCA
*
10667386 TTTATTTTTCAAAGTTCGTTGCCTCTATTAAGAGGAGCCA
1 TTTATTTTTCAAAGTTC-TTGCCTCTATTAAGAAGAGCCA
10667426 TTTATTTTT
1 TTTATTTTT
10667435 GAAGTCTGTT
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
37 14 0.32
38 1 0.02
40 29 0.66
ACGTcount: A:0.24, C:0.16, G:0.14, T:0.45
Consensus pattern (39 bp):
TTTATTTTTCAAAGTTCTTGCCTCTATTAAGAAGAGCCA
Found at i:10667684 original size:7 final size:7
Alignment explanation
Indices: 10667672--10667706 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
10667662 CCAATTTTAG
10667672 TTTTAAT
1 TTTTAAT
10667679 TTTTAAT
1 TTTTAAT
10667686 TTTTAA-
1 TTTTAAT
10667692 TTTTAAT
1 TTTTAAT
10667699 TTTTAAT
1 TTTTAAT
10667706 T
1 T
10667707 ATTATTATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.22
7 21 0.78
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTAAT
Found at i:10667688 original size:13 final size:13
Alignment explanation
Indices: 10667672--10667706 Score: 61
Period size: 13 Copynumber: 2.6 Consensus size: 13
10667662 CCAATTTTAG
10667672 TTTTAATTTTTAAT
1 TTTTAA-TTTTAAT
10667686 TTTTAATTTTAAT
1 TTTTAATTTTAAT
10667699 TTTTAATT
1 TTTTAATT
10667707 ATTATTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 15 0.71
14 6 0.29
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTTAATTTTAAT
Found at i:10667695 original size:20 final size:20
Alignment explanation
Indices: 10667666--10667706 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
10667656 TCTGGCCCAA
*
10667666 TTTTAGTTTTAATTTTTAAT
1 TTTTAATTTTAATTTTTAAT
10667686 TTTTAATTTTAATTTTTAAT
1 TTTTAATTTTAATTTTTAAT
10667706 T
1 T
10667707 ATTATTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (20 bp):
TTTTAATTTTAATTTTTAAT
Found at i:10667712 original size:3 final size:3
Alignment explanation
Indices: 10667704--10667747 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
10667694 TTAATTTTTA
10667704 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -TT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
10667748 TTTGATTTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:10667750 original size:6 final size:6
Alignment explanation
Indices: 10667666--10667798 Score: 78
Period size: 6 Copynumber: 21.7 Consensus size: 6
10667656 TCTGGCCCAA
* * * *
10667666 TTTTAGT TTTAAT TTTTAAT TTTTAAT TTTAAT TTTTAAT TATTAT TATTAT
1 TTTTA-T TTTTAT TTTT-AT TTTT-AT TTTTAT TTTT-AT TTTTAT TTTTAT
* * * *
10667718 TATTAT TATTAT TATTAT TATTA- TTTTAT TTTTGATT TTTTGAT TATTT-T
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT-A-T TTTT-AT T-TTTAT
*
10667768 TTCTA- TTTTAT TTTTA- TTTTAT TTTT-T TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
10667799 GGTCCGAAAT
Statistics
Matches: 109, Mismatches: 8, Indels: 20
0.80 0.06 0.15
Matches are distributed among these distances:
5 20 0.18
6 55 0.50
7 24 0.22
8 10 0.09
ACGTcount: A:0.23, C:0.01, G:0.02, T:0.74
Consensus pattern (6 bp):
TTTTAT
Found at i:10667764 original size:38 final size:36
Alignment explanation
Indices: 10667705--10667794 Score: 87
Period size: 38 Copynumber: 2.4 Consensus size: 36
10667695 TAATTTTTAA
10667705 TTATTATTATTATTATT-ATTATTATTAT-TATTATTA-TT
1 TTATT-TTATT-TT-TTGATTATT-TTATCTATT-TTATTT
*
10667743 TTATTTTTGATTTTTTGATTATTTTTTCTATTTTATTT
1 TTA-TTTT-ATTTTTTGATTATTTTATCTATTTTATTT
10667781 TTATTTTATTTTTT
1 TTATTTTATTTTTT
10667795 TTTTGGTCCG
Statistics
Matches: 46, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
36 7 0.15
37 12 0.26
38 22 0.48
39 5 0.11
ACGTcount: A:0.22, C:0.01, G:0.02, T:0.74
Consensus pattern (36 bp):
TTATTTTATTTTTTGATTATTTTATCTATTTTATTT
Found at i:10667798 original size:11 final size:11
Alignment explanation
Indices: 10667738--10667798 Score: 50
Period size: 11 Copynumber: 5.2 Consensus size: 11
10667728 ATTATTATTA
10667738 TTATTTTATTTT
1 TTATTTT-TTTT
* **
10667750 TGATTTTTTGA
1 TTATTTTTTTT
10667761 TTATTTTTTCTATT
1 TTA-TTTTT-T-TT
*
10667775 TTATTTTTATT
1 TTATTTTTTTT
10667786 TTATTTTTTTT
1 TTATTTTTTTT
10667797 TT
1 TT
10667799 GGTCCGAAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
11 18 0.47
12 11 0.29
13 6 0.16
14 3 0.08
ACGTcount: A:0.15, C:0.02, G:0.03, T:0.80
Consensus pattern (11 bp):
TTATTTTTTTT
Found at i:10668052 original size:11 final size:11
Alignment explanation
Indices: 10668036--10668060 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10668026 CAGTTTATAG
10668036 TTTTTAGGAAA
1 TTTTTAGGAAA
10668047 TTTTTAGGAAA
1 TTTTTAGGAAA
10668058 TTT
1 TTT
10668061 GGGGTTTTTT
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:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (11 bp):
TTTTTAGGAAA
Found at i:10669429 original size:33 final size:33
Alignment explanation
Indices: 10669392--10669461 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
10669382 ATTCTTTTAG
10669392 GGATCCTTAGTCAAACTTAAGAGTTCTCTAAAA
1 GGATCCTTAGTCAAACTTAAGAGTTCTCTAAAA
* ** * *
10669425 GGATCCTTGGTCAAGTTTAGGAGTTCTCTAAGA
1 GGATCCTTAGTCAAACTTAAGAGTTCTCTAAAA
10669458 GGAT
1 GGAT
10669462 AAATTCTTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (33 bp):
GGATCCTTAGTCAAACTTAAGAGTTCTCTAAAA
Found at i:10674072 original size:14 final size:14
Alignment explanation
Indices: 10674053--10674081 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
10674043 AATCAAAACA
10674053 ATATATATATTTAT
1 ATATATATATTTAT
10674067 ATATATATATTTAT
1 ATATATATATTTAT
10674081 A
1 A
10674082 AAACAAATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATATATATATTTAT
Found at i:10678345 original size:31 final size:31
Alignment explanation
Indices: 10678295--10678360 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
10678285 AAGAACATTT
*
10678295 TCTAATGAGTAGGACAACAACTAGAAAAATG
1 TCTAATAAGTAGGACAACAACTAGAAAAATG
* *
10678326 TCTAATAAGTGGGATAACAACTAGAAAAATG
1 TCTAATAAGTAGGACAACAACTAGAAAAATG
10678357 TCTA
1 TCTA
10678361 CATGATGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.47, C:0.12, G:0.18, T:0.23
Consensus pattern (31 bp):
TCTAATAAGTAGGACAACAACTAGAAAAATG
Found at i:10682877 original size:3 final size:3
Alignment explanation
Indices: 10682830--10682858 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
10682820 ATATTTATAT
10682830 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
10682859 TTAGTATTCG
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:10688631 original size:14 final size:14
Alignment explanation
Indices: 10688612--10688639 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
10688602 TCTTTTCTAG
10688612 TATATTTTATAAAA
1 TATATTTTATAAAA
10688626 TATATTTTATAAAA
1 TATATTTTATAAAA
10688640 AAGAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TATATTTTATAAAA
Found at i:10688795 original size:17 final size:17
Alignment explanation
Indices: 10688762--10688794 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10688752 TATTATTATC
10688762 AATAAAAAACTAATTTT
1 AATAAAAAACTAATTTT
*
10688779 AATAGAAAA-TAATTTT
1 AATAAAAAACTAATTTT
10688795 TTTTAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (17 bp):
AATAAAAAACTAATTTT
Found at i:10719629 original size:285 final size:285
Alignment explanation
Indices: 10719115--10719654 Score: 902
Period size: 285 Copynumber: 1.9 Consensus size: 285
10719105 TCGAACACTG
* * *
10719115 CTCAAAATGCCTCTCTTTCAACTCAAGCCGCTGCCCTTTGGTTTCAAGCTCTTCAAATTGATCTT
1 CTCAAAATGCCTCTCTTTCAACCCAAGCCGCTCCCCTTTGGTTTCAAGCTCTTCAAACTGATCTT
*
10719180 TAACCGATTCCTCCTTAAGCTTCAGCTCCGTGAATCTCTGATCATATTGCTTAACTTTGAATTCA
66 TAACCAATTCCTCCTTAAGCTTCAGCTCCGTGAATCTCTGATCATATTGCTTAACTTTGAATTCA
* * *
10719245 AGATCTTTGCACTGTAATTTATATGTTCTCCTGAGTTGCTCAGATGATTCTTCTATTTGCTTCTC
131 AGATCTTTGAACTGTAATTCATATGTTCTCCTCAGTTGCTCAGATGATTCTTCTATTTGCTTCTC
* *
10719310 TTTCAATTTGATTTCTCTCAAGCATTTATCATAATGCTTCTCTTTTGCTTCAAGCTCTTGATAAC
196 TTTCAATCTGATTTCTCTCAAGCATTTATCATAATGCTTCTCTTTTGCTTCAAGATCTTGATAAC
10719375 GTTGCTCAATACATTTTTCTTTCAA
261 GTTGCTCAATACATTTTTCTTTCAA
*
10719400 CTCAAAATGCCTCTCTTTCAACCCAAGCCGCTCCCCTTTGGTTTCAAGCTCTTCAAACTGGTCTT
1 CTCAAAATGCCTCTCTTTCAACCCAAGCCGCTCCCCTTTGGTTTCAAGCTCTTCAAACTGATCTT
* * * *
10719465 TAGCCAATTTCTCCTTAAGCTTCAGCTCCGTGAATCTCTGATCGTATTGCTTAATTTTGAATTCA
66 TAACCAATTCCTCCTTAAGCTTCAGCTCCGTGAATCTCTGATCATATTGCTTAACTTTGAATTCA
* *
10719530 AGATCTTTGAACTGTAATTCATATTTTCTCCTCAGTTGCTCAGTTGATTCTTCTATTTGCTTCTC
131 AGATCTTTGAACTGTAATTCATATGTTCTCCTCAGTTGCTCAGATGATTCTTCTATTTGCTTCTC
* *
10719595 TTTCAATCTGATTTCTCTCAAGCATTCT-TCATAATGCTTCTGTTTTGCTTGAAGATCTTG
196 TTTCAATCTGATTTCTCTCAAGCATT-TATCATAATGCTTCTCTTTTGCTTCAAGATCTTG
10719655 TTGACTCTTT
Statistics
Matches: 236, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
285 235 1.00
286 1 0.00
ACGTcount: A:0.21, C:0.25, G:0.12, T:0.42
Consensus pattern (285 bp):
CTCAAAATGCCTCTCTTTCAACCCAAGCCGCTCCCCTTTGGTTTCAAGCTCTTCAAACTGATCTT
TAACCAATTCCTCCTTAAGCTTCAGCTCCGTGAATCTCTGATCATATTGCTTAACTTTGAATTCA
AGATCTTTGAACTGTAATTCATATGTTCTCCTCAGTTGCTCAGATGATTCTTCTATTTGCTTCTC
TTTCAATCTGATTTCTCTCAAGCATTTATCATAATGCTTCTCTTTTGCTTCAAGATCTTGATAAC
GTTGCTCAATACATTTTTCTTTCAA
Found at i:10720336 original size:21 final size:22
Alignment explanation
Indices: 10720312--10720360 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
10720302 CCTTTCCTTC
*
10720312 CAACTCAAAACT-CTTCTCTAT
1 CAACTCAAAACTGCTCCTCTAT
* *
10720333 CAAC-CTAAACTGCTCCTCTTT
1 CAACTCAAAACTGCTCCTCTAT
10720354 CAACTCA
1 CAACTCA
10720361 TGCTCTCTCA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
20 6 0.27
21 15 0.68
22 1 0.05
ACGTcount: A:0.31, C:0.37, G:0.02, T:0.31
Consensus pattern (22 bp):
CAACTCAAAACTGCTCCTCTAT
Found at i:10720492 original size:231 final size:231
Alignment explanation
Indices: 10720086--10720567 Score: 754
Period size: 231 Copynumber: 2.1 Consensus size: 231
10720076 CAACGCTTCC
* * *
10720086 CAAAACTCTTCTCTTTTAACCCAAATTGCTCCTGTTTCAACTCAAACTCTCTACAACACTTCTCA
1 CAAAACTCTTCTCTTTCAACCCAAACTGCTCCTCTTTCAACTCAAACTCTCTACAACACTTCTCA
* *
10720151 AAATGCCTCTTTTTCCATCCAAATTCCTCCTCATTCCTTTTAGCAACTTCCAACTGATCTTTCAC
66 AAATGCCTCTCTTTCCAACCAAATTCCTCCTCATTCCTTTTAGCAACTTCCAACTGATCTTTCAC
*
10720216 CAATTTCTCCATGACTTCAACCTCTTGATACTTCTGCAGACACTGCTTTTCATTGAATTCAAGTT
131 CAATTTCTCCATGACTTCAACCTCTTGATACTTCTGCACACACTGCTTTTCATTGAATTCAAGTT
10720281 CTTTACAACGTTCTTCAAGACCCTTTCCTTCCAACT
196 CTTTACAACGTTCTTCAAGACCCTTTCCTTCCAACT
* * ** *
10720317 CAAAACTCTTCTCTATCAACCTAAACTGCTCCTCTTTCAACTCATGCTCTCT-CAAACATTTCTC
1 CAAAACTCTTCTCTTTCAACCCAAACTGCTCCTCTTTCAACTCAAACTCTCTAC-AACACTTCTC
* * * * *
10720381 CAAAT-CCTTCTCTTT-CAGACCAACTTCCTCCTCTTTCCTTTTAGTAACTTCCAACTGCTCTTT
65 AAAATGCC-TCTCTTTCCA-ACCAAATTCCTCCTCATTCCTTTTAGCAACTTCCAACTGATCTTT
* *
10720444 CACCAATTTCTCCATGACTTCAAGCTCTTTATACTTCTGCACACACTGCTTTTCATTGAATTCAA
128 CACCAATTTCTCCATGACTTCAACCTCTTGATACTTCTGCACACACTGCTTTTCATTGAATTCAA
10720509 GTTCTTTACAACGTTCTTCAAGACCCTTTCCTTCCAACT
193 GTTCTTTACAACGTTCTTCAAGACCCTTTCCTTCCAACT
10720548 CAAAACTCTTCTCTTTCAAC
1 CAAAACTCTTCTCTTTCAAC
10720568 TCATGTTCCC
Statistics
Matches: 229, Mismatches: 19, Indels: 6
0.90 0.07 0.02
Matches are distributed among these distances:
230 5 0.02
231 224 0.98
ACGTcount: A:0.24, C:0.33, G:0.06, T:0.37
Consensus pattern (231 bp):
CAAAACTCTTCTCTTTCAACCCAAACTGCTCCTCTTTCAACTCAAACTCTCTACAACACTTCTCA
AAATGCCTCTCTTTCCAACCAAATTCCTCCTCATTCCTTTTAGCAACTTCCAACTGATCTTTCAC
CAATTTCTCCATGACTTCAACCTCTTGATACTTCTGCACACACTGCTTTTCATTGAATTCAAGTT
CTTTACAACGTTCTTCAAGACCCTTTCCTTCCAACT
Found at i:10724049 original size:207 final size:207
Alignment explanation
Indices: 10723694--10724109 Score: 796
Period size: 207 Copynumber: 2.0 Consensus size: 207
10723684 ATTAAAACTA
10723694 AACAAATAACTAGGAACGGTTATATCTGTTCAAATATCTGACATTATGTTTAAACTTTTTCGGGA
1 AACAAATAACTAGGAACGGTTATATCTGTTCAAATATCTGACATTATGTTTAAACTTTTTCGGGA
*
10723759 AACATGTTATCATCATTGATCAAGTATCAACAAACAGAAGCAAAAAACCAATGTTGTATTCAAAC
66 AACATGTTATCATCATTGATCAAGTATCAACAAACAGAAGCAAAAAACCAATGTTGTATCCAAAC
*
10723824 CCAAAGAGTCGTCAAACGAAGTAAATGTGAATGCTATTAACATGAGGTATCTAACATCATTACCT
131 ACAAAGAGTCGTCAAACGAAGTAAATGTGAATGCTATTAACATGAGGTATCTAACATCATTACCT
10723889 CAACCTTTTTCT
196 CAACCTTTTTCT
10723901 AACAAATAACTAGGAACGGTTATATCTGTTCAAATATCTGACATTATGTTTAAACTTTTTCGGGA
1 AACAAATAACTAGGAACGGTTATATCTGTTCAAATATCTGACATTATGTTTAAACTTTTTCGGGA
10723966 AACATGTTATCATCATTGATCAAGTATCAACAAACAGAAGCAAAAAACCAATGTTGTATCCAAAC
66 AACATGTTATCATCATTGATCAAGTATCAACAAACAGAAGCAAAAAACCAATGTTGTATCCAAAC
* *
10724031 ACAAAGAGTCGTCAAACGAAGTGAATGTGAATGCTATTAACATGAGGTTTCTAACATCATTACCT
131 ACAAAGAGTCGTCAAACGAAGTAAATGTGAATGCTATTAACATGAGGTATCTAACATCATTACCT
10724096 CAACCTTTTTCT
196 CAACCTTTTTCT
10724108 AA
1 AA
10724110 TTTCTGCAGT
Statistics
Matches: 205, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
207 205 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.30
Consensus pattern (207 bp):
AACAAATAACTAGGAACGGTTATATCTGTTCAAATATCTGACATTATGTTTAAACTTTTTCGGGA
AACATGTTATCATCATTGATCAAGTATCAACAAACAGAAGCAAAAAACCAATGTTGTATCCAAAC
ACAAAGAGTCGTCAAACGAAGTAAATGTGAATGCTATTAACATGAGGTATCTAACATCATTACCT
CAACCTTTTTCT
Found at i:10726233 original size:18 final size:19
Alignment explanation
Indices: 10726191--10726233 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
10726181 TAATTTATAT
* *
10726191 AATAAAATAAAAGTTTTTT
1 AATAAAATAAAAGTATTTA
10726210 AA-AAAATAAAA-TATTTA
1 AATAAAATAAAAGTATTTA
10726227 AATAAAA
1 AATAAAA
10726234 ATGTACTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 6 0.29
18 13 0.62
19 2 0.10
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (19 bp):
AATAAAATAAAAGTATTTA
Found at i:10726281 original size:13 final size:14
Alignment explanation
Indices: 10726255--10726283 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
10726245 AATATTTATA
10726255 TAATTATAATATTT
1 TAATTATAATATTT
10726269 TAATTAT-ATATTT
1 TAATTATAATATTT
10726282 TA
1 TA
10726284 TTCATATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TAATTATAATATTT
Found at i:10727273 original size:3 final size:3
Alignment explanation
Indices: 10727267--10727295 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
10727257 TTTTTTTTTT
10727267 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
10727296 TTACCATAAA
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:10727444 original size:21 final size:20
Alignment explanation
Indices: 10727420--10727481 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
10727410 ATTAAAAACA
*
10727420 ATAATAAAAATAAGATTAATT
1 ATAATAAAAATAA-ATTAAAT
10727441 ATAATAAAAATGAAATTAAAT
1 ATAATAAAAAT-AAATTAAAT
* *
10727462 ATTATAATAATAAAATTAAA
1 ATAATAAAAAT-AAATTAAA
10727482 ATTAATGATG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
21 34 0.94
22 2 0.06
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (20 bp):
ATAATAAAAATAAATTAAAT
Found at i:10727731 original size:24 final size:24
Alignment explanation
Indices: 10727651--10727717 Score: 89
Period size: 24 Copynumber: 2.8 Consensus size: 24
10727641 CAATCAAAAC
* * *
10727651 AATAATACATATTATTTATTATAT
1 AATAATAAATTTTATTTATCATAT
*
10727675 AATAATAAATTTTTTTTATCATAT
1 AATAATAAATTTTATTTATCATAT
*
10727699 AATACTAAATTTTATTTAT
1 AATAATAAATTTTATTTAT
10727718 ATTAAATTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.52
Consensus pattern (24 bp):
AATAATAAATTTTATTTATCATAT
Found at i:10728301 original size:15 final size:15
Alignment explanation
Indices: 10728264--10728330 Score: 55
Period size: 15 Copynumber: 4.3 Consensus size: 15
10728254 AATAGAATAT
*
10728264 ATTATTTATTTATGT-
1 ATTATTTAATTAT-TA
*
10728279 ATTAATTTAATTCTTA
1 ATT-ATTTAATTATTA
* *
10728295 GTTATTTATTTATTA
1 ATTATTTAATTATTA
*
10728310 ATTATTTTATTATATA
1 ATTATTTAATTAT-TA
10728326 ATTAT
1 ATTAT
10728331 AAAAATGTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
15 24 0.59
16 17 0.41
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.63
Consensus pattern (15 bp):
ATTATTTAATTATTA
Found at i:10730851 original size:7 final size:7
Alignment explanation
Indices: 10730834--10730864 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
10730824 TATAAACTAC
10730834 AAGCC-T
1 AAGCCTT
10730840 AAGCCTT
1 AAGCCTT
10730847 AAGCCTT
1 AAGCCTT
10730854 AAGCCTT
1 AAGCCTT
10730861 AAGC
1 AAGC
10730865 TAAGGATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.21
7 19 0.79
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (7 bp):
AAGCCTT
Found at i:10730858 original size:14 final size:13
Alignment explanation
Indices: 10730834--10730868 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
10730824 TATAAACTAC
10730834 AAGCCTAAGCCTT
1 AAGCCTAAGCCTT
10730847 AAGCCTTAAGCCTT
1 AAGCC-TAAGCCTT
10730861 AAG-CTAAG
1 AAGCCTAAG
10730869 GATTAATCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.19
13 6 0.29
14 11 0.52
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (13 bp):
AAGCCTAAGCCTT
Found at i:10755589 original size:15 final size:16
Alignment explanation
Indices: 10755559--10755597 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
10755549 TTATCTTAAA
*
10755559 ATTATAATTATTTTAT
1 ATTATAAATATTTTAT
10755575 ATTATAAAT-TTTTAT
1 ATTATAAATATTTTAT
*
10755590 ATTTTAAA
1 ATTATAAA
10755598 CTAATATTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTATAAATATTTTAT
Found at i:10756345 original size:35 final size:35
Alignment explanation
Indices: 10756297--10756373 Score: 100
Period size: 35 Copynumber: 2.2 Consensus size: 35
10756287 TTTTTATTTT
** *
10756297 AATTTATTTTTTTATACTTTATCTTTTCAAATCAA
1 AATTTATAATTTTATAATTTATCTTTTCAAATCAA
* * *
10756332 AGTTTATAATTTTATAATTTATTTTTTCAAATTAA
1 AATTTATAATTTTATAATTTATCTTTTCAAATCAA
10756367 AATTTAT
1 AATTTAT
10756374 TAATATTTCA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.35, C:0.06, G:0.01, T:0.57
Consensus pattern (35 bp):
AATTTATAATTTTATAATTTATCTTTTCAAATCAA
Found at i:10760574 original size:10 final size:10
Alignment explanation
Indices: 10760559--10760588 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
10760549 AATTGAATTT
10760559 TATATTTTAA
1 TATATTTTAA
10760569 TATATTTTAA
1 TATATTTTAA
10760579 T-TATTTTAA
1 TATATTTTAA
10760588 T
1 T
10760589 TGATAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTTAA
Found at i:10761257 original size:28 final size:28
Alignment explanation
Indices: 10761215--10761268 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
10761205 CGTATTATCG
10761215 CCCCTTGCTACTGTCACTTGTTCCATTT
1 CCCCTTGCTACTGTCACTTGTTCCATTT
*
10761243 CCCCTTGCTATTGTCACTTGTTCCAT
1 CCCCTTGCTACTGTCACTTGTTCCAT
10761269 GTTAAGGACA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.11, C:0.35, G:0.11, T:0.43
Consensus pattern (28 bp):
CCCCTTGCTACTGTCACTTGTTCCATTT
Found at i:10761510 original size:21 final size:20
Alignment explanation
Indices: 10761480--10761518 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
10761470 TTCACTGTTG
10761480 ATATTAATCTCATCATTACA
1 ATATTAATCTCATCATTACA
10761500 ATATTCAATCTCATCATTA
1 ATATT-AATCTCATCATTA
10761519 TATTAACTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATTAATCTCATCATTACA
Found at i:10761521 original size:18 final size:18
Alignment explanation
Indices: 10761480--10761524 Score: 56
Period size: 21 Copynumber: 2.4 Consensus size: 18
10761470 TTCACTGTTG
10761480 ATATTAATCTCATCATTACA
1 ATATTAATCTCATCATT--A
10761500 ATATTCAATCTCATCATT-
1 ATATT-AATCTCATCATTA
10761518 ATATTAA
1 ATATTAA
10761525 CTAATCTCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 2 0.08
18 5 0.21
20 5 0.21
21 12 0.50
ACGTcount: A:0.40, C:0.18, G:0.00, T:0.42
Consensus pattern (18 bp):
ATATTAATCTCATCATTA
Found at i:10761530 original size:21 final size:20
Alignment explanation
Indices: 10761484--10761533 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
10761474 CTGTTGATAT
*
10761484 TAATCTCATCATTACAATAT
1 TAATCTCATCATTACAATAC
* *
10761504 TCAATCTCATCATTATATTAAC
1 T-AATCTCATCATTACAAT-AC
10761526 TAATCTCA
1 TAATCTCA
10761534 CTATCATCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 22 0.88
22 2 0.08
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.40
Consensus pattern (20 bp):
TAATCTCATCATTACAATAC
Found at i:10781150 original size:15 final size:16
Alignment explanation
Indices: 10781120--10781158 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
10781110 TTTTCTTAAA
*
10781120 ATTATAATTATTTTAT
1 ATTATAAATATTTTAT
10781136 ATTATAAAT-TTTTAT
1 ATTATAAATATTTTAT
*
10781151 ATTTTAAA
1 ATTATAAA
10781159 CTAATATTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTATAAATATTTTAT
Found at i:10781913 original size:35 final size:35
Alignment explanation
Indices: 10781874--10781941 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
10781864 TTTTAATTTT
* *
10781874 TTTTATACTTTATCTTTTCAAATCAAAGTTTATAA
1 TTTTATAATTTATCTTTTCAAATCAAAATTTATAA
* *
10781909 TTTTATAATTTATTTTTTCAAATTAAAATTTAT
1 TTTTATAATTTATCTTTTCAAATCAAAATTTAT
10781942 TAATATTTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.35, C:0.07, G:0.01, T:0.56
Consensus pattern (35 bp):
TTTTATAATTTATCTTTTCAAATCAAAATTTATAA
Found at i:10786142 original size:19 final size:21
Alignment explanation
Indices: 10786118--10786166 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 21
10786108 AGTTCACAAG
*
10786118 TTTAATTGA-ATTTTTA-TAT
1 TTTAATTGATATTTTAATTAT
10786137 TTTAA-T-ATATTTTAATTAT
1 TTTAATTGATATTTTAATTAT
10786156 TTTAATTGATA
1 TTTAATTGATA
10786167 AAATATTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 1 0.04
18 7 0.28
19 13 0.52
20 1 0.04
21 3 0.12
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (21 bp):
TTTAATTGATATTTTAATTAT
Found at i:10786147 original size:10 final size:10
Alignment explanation
Indices: 10786132--10786161 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
10786122 ATTGAATTTT
10786132 TATATTTTAA
1 TATATTTTAA
10786142 TATATTTTAA
1 TATATTTTAA
10786152 T-TATTTTAA
1 TATATTTTAA
10786161 T
1 T
10786162 TGATAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTTAA
Found at i:10786814 original size:28 final size:28
Alignment explanation
Indices: 10786782--10786835 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
10786772 CGTATTATCG
10786782 CCCCTTGCTACTGTCACTTGTTCCATTT
1 CCCCTTGCTACTGTCACTTGTTCCATTT
*
10786810 CCCCTTGCTATTGTCACTTGTTCCAT
1 CCCCTTGCTACTGTCACTTGTTCCAT
10786836 GTTAAGGACA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.11, C:0.35, G:0.11, T:0.43
Consensus pattern (28 bp):
CCCCTTGCTACTGTCACTTGTTCCATTT
Found at i:10793098 original size:24 final size:23
Alignment explanation
Indices: 10793043--10793096 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 23
10793033 TTTTCTTTTG
10793043 TATTTTATGTATTCTATTATTAT
1 TATTTTATGTATTCTATTATTAT
10793066 TATTATTATGTATATCT-TTATTCATT
1 TATT-TTATGTAT-TCTATTATT-A-T
10793092 TATTT
1 TATTT
10793097 ATTTTTATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
23 4 0.15
24 13 0.48
25 5 0.19
26 5 0.19
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.65
Consensus pattern (23 bp):
TATTTTATGTATTCTATTATTAT
Found at i:10793155 original size:3 final size:3
Alignment explanation
Indices: 10793147--10793172 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
10793137 AGTTATATAT
10793147 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
10793173 TTTGTAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:10793619 original size:25 final size:25
Alignment explanation
Indices: 10793590--10793643 Score: 74
Period size: 26 Copynumber: 2.2 Consensus size: 25
10793580 CTAGGAGTGA
*
10793590 GAAAAAA-TTTCTAGAAATTTTTGG
1 GAAAAAATTTTCTAGAAATTTCTGG
*
10793614 CGAAAAAATTTTCTGGAAATTTCTGG
1 -GAAAAAATTTTCTAGAAATTTCTGG
10793640 GAAA
1 GAAA
10793644 TTTCCAGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 11 0.42
26 15 0.58
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.33
Consensus pattern (25 bp):
GAAAAAATTTTCTAGAAATTTCTGG
Found at i:10793785 original size:11 final size:11
Alignment explanation
Indices: 10793755--10793794 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
10793745 ATCCCAGAAA
*
10793755 CCGGCGATCTT
1 CCGGCGAACTT
*
10793766 TCGGC-AACTT
1 CCGGCGAACTT
10793776 CCGGCGAACTT
1 CCGGCGAACTT
10793787 CCGGCGAA
1 CCGGCGAA
10793795 ATTTTCCAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 8 0.32
11 17 0.68
ACGTcount: A:0.17, C:0.35, G:0.28, T:0.20
Consensus pattern (11 bp):
CCGGCGAACTT
Found at i:10793810 original size:20 final size:20
Alignment explanation
Indices: 10793785--10793836 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
10793775 TCCGGCGAAC
10793785 TTCCGGCGAAATTTTCCAGA
1 TTCCGGCGAAATTTTCCAGA
10793805 TTCCGGCGAGAA-TTTCCAGA
1 TTCCGGCGA-AATTTTCCAGA
*
10793825 ATCCGGCGAAAT
1 TTCCGGCGAAAT
10793837 CCCACCGGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 2 0.07
20 25 0.86
21 2 0.07
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (20 bp):
TTCCGGCGAAATTTTCCAGA
Found at i:10794071 original size:5 final size:5
Alignment explanation
Indices: 10794061--10794103 Score: 61
Period size: 5 Copynumber: 8.6 Consensus size: 5
10794051 TTCAGCCCCT
*
10794061 CCGAG CCGAG CCGAG CCGAG CCGAG CCGCA- CCAAG CCGAG CCG
1 CCGAG CCGAG CCGAG CCGAG CCGAG CCG-AG CCGAG CCGAG CCG
10794104 CGATCCGAGC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 1 0.03
5 32 0.94
6 1 0.03
ACGTcount: A:0.21, C:0.44, G:0.35, T:0.00
Consensus pattern (5 bp):
CCGAG
Found at i:10794072 original size:15 final size:15
Alignment explanation
Indices: 10794061--10794115 Score: 67
Period size: 15 Copynumber: 3.5 Consensus size: 15
10794051 TTCAGCCCCT
10794061 CCGAGCCGAGCCG-A
1 CCGAGCCGAGCCGCA
10794075 GCCGAGCCGAGCCGCA
1 -CCGAGCCGAGCCGCA
*
10794091 CCAAGCCGAGCCGCGA
1 CCGAGCCGAGCCGC-A
10794107 TCCGAGCCG
1 -CCGAGCCG
10794116 CTCCAGGTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 26 0.74
16 2 0.06
17 7 0.20
ACGTcount: A:0.20, C:0.44, G:0.35, T:0.02
Consensus pattern (15 bp):
CCGAGCCGAGCCGCA
Found at i:10794151 original size:10 final size:10
Alignment explanation
Indices: 10794138--10794164 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
10794128 TTTTTTTTTT
10794138 TTTTTTTGAA
1 TTTTTTTGAA
10794148 TTTTTTTGAA
1 TTTTTTTGAA
10794158 TTTTTTT
1 TTTTTTT
10794165 TATTTGACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (10 bp):
TTTTTTTGAA
Found at i:10794453 original size:161 final size:161
Alignment explanation
Indices: 10794187--10794645 Score: 768
Period size: 156 Copynumber: 2.9 Consensus size: 161
10794177 ATTTTGATCT
* * *
10794187 TGATTTT-TTTTTCTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAG
1 TGATTTTGATTTT-TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGT-GAAACAGTAG
10794251 TTTTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAA
64 TTTTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAA
*
10794316 TTGAGAATAATTTCCGATAATTAATTACTTGGC
129 TTGAGAATAATTTCCGATAATTAATTAATTGGC
10794349 TGATTTTGATTTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTT
1 TGATTTTGATTTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTT
10794414 TTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATT
66 TTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATT
* *
10794479 GAGAATAATTTTCGATAATTAATTAATTGGT
131 GAGAATAATTTCCGATAATTAATTAATTGGC
* *
10794510 TGATCTTGA-----TTTTTCTTTAAATAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTT
1 TGATTTTGATTTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTT
* *
10794570 TTTCTTGCATACTCTTGAGGTGAGGGAATTTTCTCAATTTTTTGCTAAAAGTATTAGAGTCAATT
66 TTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATT
10794635 GAGAATAATTT
131 GAGAATAATTT
10794646 TCAACAACTA
Statistics
Matches: 286, Mismatches: 10, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
156 124 0.43
161 112 0.39
162 46 0.16
163 4 0.01
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (161 bp):
TGATTTTGATTTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTT
TTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATT
GAGAATAATTTCCGATAATTAATTAATTGGC
Found at i:10797909 original size:1 final size:1
Alignment explanation
Indices: 10797905--10797943 Score: 60
Period size: 1 Copynumber: 39.0 Consensus size: 1
10797895 GTAATTTTTG
* *
10797905 AAAAAAAAAAAAAAAAAAAAAGAGAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
10797944 CACCACAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.95, C:0.00, G:0.05, T:0.00
Consensus pattern (1 bp):
A
Found at i:10797953 original size:21 final size:21
Alignment explanation
Indices: 10797908--10797953 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
10797898 ATTTTTGAAA
* *
10797908 AAAAAAAAAAAAAAAAAAGAG
1 AAAAAAAAAAAAAAAAAACAC
* *
10797929 AAAAAAAAAAAAAAACACCAC
1 AAAAAAAAAAAAAAAAAACAC
10797950 AAAA
1 AAAA
10797954 GGTCTCAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.87, C:0.09, G:0.04, T:0.00
Consensus pattern (21 bp):
AAAAAAAAAAAAAAAAAACAC
Found at i:10798339 original size:11 final size:11
Alignment explanation
Indices: 10798311--10798401 Score: 78
Period size: 11 Copynumber: 8.0 Consensus size: 11
10798301 AACAATGGAT
10798311 GAAAAAAAAATGA
1 GAAAAAAAAA--A
10798324 TGAAAAAAAAAA
1 -GAAAAAAAAAA
10798336 G-AAAAAAAAA
1 GAAAAAAAAAA
*
10798346 GGAAAAAAAAA
1 GAAAAAAAAAA
*
10798357 GAAAAAATGAAA
1 GAAAAAA-AAAA
*
10798369 -AAAAAAAGAA
1 GAAAAAAAAAA
* *
10798379 GGAAAAAAAGA
1 GAAAAAAAAAA
10798390 GAAAATAAAAAA
1 GAAAA-AAAAAA
10798402 AAGAGATTCA
Statistics
Matches: 64, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
10 12 0.19
11 33 0.52
12 9 0.14
14 10 0.16
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.04
Consensus pattern (11 bp):
GAAAAAAAAAA
Found at i:10798351 original size:18 final size:17
Alignment explanation
Indices: 10798330--10798387 Score: 66
Period size: 18 Copynumber: 3.4 Consensus size: 17
10798320 ATGATGAAAA
10798330 AAAAAAGAAAAAAAAAGG
1 AAAAAA-AAAAAAAAAGG
*
10798348 AAAAAAAAAGAAAAAATG
1 AAAAAAAAA-AAAAAAGG
*
10798366 --AAAAAAAAAAGAAGG
1 AAAAAAAAAAAAAAAGG
10798381 AAAAAAA
1 AAAAAAA
10798388 GAGAAAATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
15 6 0.18
16 7 0.21
17 8 0.24
18 13 0.38
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (17 bp):
AAAAAAAAAAAAAAAGG
Found at i:10798406 original size:16 final size:16
Alignment explanation
Indices: 10798349--10798407 Score: 59
Period size: 16 Copynumber: 3.8 Consensus size: 16
10798339 AAAAAAAGGA
*
10798349 AAAAAAAAGAAAAAAT
1 AAAAAAAAGAGAAAAT
* *
10798365 GAAAAAAAA-A-AGAAG
1 -AAAAAAAAGAGAAAAT
*
10798380 GAAAAAAAGAGAAAAT
1 AAAAAAAAGAGAAAAT
10798396 AAAAAAAAGAGA
1 AAAAAAAAGAGA
10798408 TTCAAATTGA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
14 7 0.21
15 4 0.12
16 15 0.44
17 8 0.24
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAAAAAAGAGAAAAT
Found at i:10799810 original size:42 final size:41
Alignment explanation
Indices: 10799597--10800242 Score: 933
Period size: 42 Copynumber: 15.5 Consensus size: 41
10799587 AAAGTTCCGT
*
10799597 TGCCTCTGTTTAGAGGAGCAATTTATCTTTTCCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTA-CTTTT-CAAAGTCGTGG
10799640 TTGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
1 -TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
*
10799682 TGCCTCTGTTGAGAGGAGCAATTTATTTTTTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTA--CTTTTCAAAGTCGTGG
10799725 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
*
10799766 TGCCTCTGTTGAGAGGAGCAATTTATTTTTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTA-CTTTTCAAAGTCGTGG
*
10799808 TGCCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
10799849 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGT-GG
* * *
10799891 TGCCTCTGTTGAGAGGAGCAATTTAATTTCCAAAGTTCCGT-T
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAG-T-CGTGG
*
10799933 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
* *
10799974 TGCCTCTGTTGAGAGGAGCAATTTTAATTTCCAAAGTTTCGT--
1 TGCCTCTGTTGAGAGGAGCAA-TTTACTTTTCAAAG--TCGTGG
* *
10800016 TGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTT-CAAAGTCGTGG
*
10800058 TACCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
*
10800099 TGCCTCTGTTGAAGAGGAGCAATTTAC-TTCCAAAGTCGTGGG
1 TGCCTCTGTTG-AGAGGAGCAATTTACTTTTCAAAGTCGT-GG
10800141 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCG-TGG
* *
10800183 TACCTCTGTTGAGAGGAGCAATTTAC-TTTCAAAAGTCGTTG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTC-AAAGTCGTGG
* * *
10800224 AGTCTCTGTTTAGAGGAGC
1 TGCCTCTGTTGAGAGGAGC
10800243 TTCGGCAAAA
Statistics
Matches: 552, Mismatches: 32, Indels: 39
0.89 0.05 0.06
Matches are distributed among these distances:
40 7 0.01
41 213 0.39
42 254 0.46
43 47 0.09
44 31 0.06
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.35
Consensus pattern (41 bp):
TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
Found at i:10799847 original size:83 final size:82
Alignment explanation
Indices: 10799597--10800242 Score: 924
Period size: 83 Copynumber: 7.7 Consensus size: 82
10799587 AAAGTTCCGT
*
10799597 TGCCTCTGTTTAGAGGAGCAATTTATCTTTTCCAAAGTCGTGGTTGCCTCTGTTGAGAGGAGCAA
1 TGCCTCTGTTGAGAGGAGCAATTTAT-TTTT-CAAAGTCGTGG-TGCCTCTGTTGAGAGGAGCAA
10799662 TTTACTTTTCAAAGTCGTGG
63 TTTACTTTTCAAAGTCGTGG
10799682 TGCCTCTGTTGAGAGGAGCAATTTATTTTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAAT
1 TGCCTCTGTTGAGAGGAGCAATTTA--TTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAAT
10799747 TTACTTTTCAAAGTCGTGG
64 TTACTTTTCAAAGTCGTGG
10799766 TGCCTCTGTTGAGAGGAGCAATTTATTTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATT
1 TGCCTCTGTTGAGAGGAGCAATTTA-TTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATT
*
10799831 TACTTTCCAAAGTCGTGG
65 TACTTTTCAAAGTCGTGG
*
10799849 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGGTGCCTCTGTTGAGAGGAGCAATT
1 TGCCTCTGTTGAGAGGAGCAATTTATTTTTCAAAGTCGT-GGTGCCTCTGTTGAGAGGAGCAATT
* * *
10799914 TAATTTCCAAAGTTCCGT-T
65 TACTTTTCAAAG-T-CGTGG
* *
10799933 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTT
1 TGCCTCTGTTGAGAGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAA-TT
* *
10799998 TAATTTCCAAAGTTTCGT--
65 TACTTTTCAAAG--TCGTGG
* *
10800016 TGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATT
1 TGCCTCTGTTGAGAGGAGCAATTTATTTTT-CAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATT
10800081 TACTTTTCAAAGTCGTGG
65 TACTTTTCAAAGTCGTGG
* *
10800099 TGCCTCTGTTGAAGAGGAGCAATTTA-CTTCCAAAGTCGTGGGTGCCTCTGTTGAGAGGAGCAAT
1 TGCCTCTGTTG-AGAGGAGCAATTTATTTTTCAAAGTCGT-GGTGCCTCTGTTGAGAGGAGCAAT
10800163 TTACTTTTCAAAGTCGTTGG
64 TTACTTTTCAAAGTCG-TGG
* * * * * *
10800183 TACCTCTGTTGAGAGGAGCAATTTA-CTTTCAAAAGTCGTTGAGTCTCTGTTTAGAGGAGC
1 TGCCTCTGTTGAGAGGAGCAATTTATTTTTC-AAAGTCGTGGTGCCTCTGTTGAGAGGAGC
10800243 TTCGGCAAAA
Statistics
Matches: 527, Mismatches: 20, Indels: 30
0.91 0.03 0.05
Matches are distributed among these distances:
81 4 0.01
82 22 0.04
83 268 0.51
84 188 0.36
85 40 0.08
86 4 0.01
87 1 0.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.35
Consensus pattern (82 bp):
TGCCTCTGTTGAGAGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTT
ACTTTTCAAAGTCGTGG
Found at i:10799914 original size:125 final size:124
Alignment explanation
Indices: 10799597--10800242 Score: 942
Period size: 125 Copynumber: 5.2 Consensus size: 124
10799587 AAAGTTCCGT
* *
10799597 TGCCTCTGTTTAGAGGAGCAATTTATCTTTTCCAAAGTCGTGGTTGCCTCTGTTGAGAGGAGCAA
1 TGCCTCTGTTGAGAGGAGCAATTTA-CTTTT-CAAAGTCGTGGGTGCCTCTGTTGAGAGGAGCAA
*
10799662 TTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTATTTTTTTCAAAGTCGTGG
64 TTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTA--CTTTTCAAAGTCGTGG
10799725 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGT-GGTGCCTCTGTTGAGAGGAGCAATT
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGGTGCCTCTGTTGAGAGGAGCAATT
* *
10799789 TATTTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTCGTGG
66 TA-CTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
10799849 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGGTGCCTCTGTTGAGAGGAGCAATT
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGGTGCCTCTGTTGAGAGGAGCAATT
* * * *
10799914 TAATTTCCAAAGTTCCGT-TTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGG
66 TACTTTTCAAAG-T-CGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
* * * * * *
10799974 TGCCTCTGTTGAGAGGAGCAATTTTAATTTCCAAAGT-TTCGTTGCCTCTGTTTAGAGGAGCAAT
1 TGCCTCTGTTGAGAGGAGCAA-TTTACTTTTCAAAGTCGTGGGTGCCTCTGTTGAGAGGAGCAAT
* *
10800038 TTATTTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
65 TTACTTTT-CAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
*
10800099 TGCCTCTGTTGAAGAGGAGCAATTTAC-TTCCAAAGTCGTGGGTGCCTCTGTTGAGAGGAGCAAT
1 TGCCTCTGTTG-AGAGGAGCAATTTACTTTTCAAAGTCGTGGGTGCCTCTGTTGAGAGGAGCAAT
* *
10800163 TTACTTTTCAAAGTCGTTGGTACCTCTGTTGAGAGGAGCAATTTAC-TTTCAAAAGTCGTTG
65 TTACTTTTCAAAGTCG-TGGTGCCTCTGTTGAGAGGAGCAATTTACTTTTC-AAAGTCGTGG
* * *
10800224 AGTCTCTGTTTAGAGGAGC
1 TGCCTCTGTTGAGAGGAGC
10800243 TTCGGCAAAA
Statistics
Matches: 476, Mismatches: 31, Indels: 26
0.89 0.06 0.05
Matches are distributed among these distances:
124 93 0.20
125 274 0.58
126 80 0.17
127 5 0.01
128 24 0.05
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.35
Consensus pattern (124 bp):
TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGGTGCCTCTGTTGAGAGGAGCAATT
TACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
Found at i:10800309 original size:41 final size:42
Alignment explanation
Indices: 10800249--10800378 Score: 160
Period size: 41 Copynumber: 3.1 Consensus size: 42
10800239 GAGCTTCGGC
*
10800249 AAAAA-AAAAAAAAAAACAAAAAAAAACAAAAAAAA-CAAAA
1 AAAAACAAAAAAAAAAACAAAAAAAAAAAAAAAAAATCAAAA
*
10800289 AAAAACAAAAAAAAAAACAAAAAAAAAAATAAAAAAATCAGAA
1 AAAAACAAAAAAAAAAACAAAAAAAAAAA-AAAAAAATCAAAA
* * *
10800332 AAAATC--AAAAAATAACAAAACAAAAATAAAAAAAATCAAAA
1 AAAAACAAAAAAAAAAACAAAA-AAAAAAAAAAAAAATCAAAA
10800373 ATAAAA
1 A-AAAA
10800379 TGTTTGAGTT
Statistics
Matches: 78, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
40 5 0.06
41 48 0.62
42 16 0.21
43 9 0.12
ACGTcount: A:0.86, C:0.08, G:0.01, T:0.05
Consensus pattern (42 bp):
AAAAACAAAAAAAAAAACAAAAAAAAAAAAAAAAAATCAAAA
Found at i:10800372 original size:10 final size:9
Alignment explanation
Indices: 10800248--10800373 Score: 116
Period size: 9 Copynumber: 13.7 Consensus size: 9
10800238 GGAGCTTCGG
10800248 CAAAAAAAA
1 CAAAAAAAA
10800257 -AAAAAAAA
1 CAAAAAAAA
10800265 CAAAAAAAAA
1 C-AAAAAAAA
10800275 CAAAAAAAA
1 CAAAAAAAA
10800284 CAAAAAAAA
1 CAAAAAAAA
10800293 -ACAAAAAAA
1 CA-AAAAAAA
*
10800302 -AAAACAAA
1 CAAAAAAAA
10800310 -AAAAAAAA
1 CAAAAAAAA
* *
10800318 TAAAAAAAT
1 CAAAAAAAA
*
10800327 CAGAAAAAAT
1 CA-AAAAAAA
10800337 CAAAAAATAA
1 CAAAAAA-AA
10800347 CAAAACAAAAA
1 C-AAA-AAAAA
*
10800358 TAAAAAAAA
1 CAAAAAAAA
10800367 TCAAAAA
1 -CAAAAA
10800374 TAAAATGTTT
Statistics
Matches: 101, Mismatches: 7, Indels: 17
0.81 0.06 0.14
Matches are distributed among these distances:
8 22 0.22
9 43 0.43
10 28 0.28
11 5 0.05
12 3 0.03
ACGTcount: A:0.86, C:0.09, G:0.01, T:0.05
Consensus pattern (9 bp):
CAAAAAAAA
Found at i:10800373 original size:1 final size:1
Alignment explanation
Indices: 10800249--10800366 Score: 101
Period size: 1 Copynumber: 118.0 Consensus size: 1
10800239 GAGCTTCGGC
* * * * *
10800249 AAAAAAAAAAAAAAAACAAAAAAAAACAAAAAAAACAAAAAAAAACAAAAAAAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* ** * ** * * * *
10800314 AAAATAAAAAAATCAGAAAAAATCAAAAAATAACAAAACAAAAATAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
10800367 TCAAAAATAA
Statistics
Matches: 89, Mismatches: 28, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 89 1.00
ACGTcount: A:0.87, C:0.08, G:0.01, T:0.04
Consensus pattern (1 bp):
A
Found at i:10810257 original size:4 final size:4
Alignment explanation
Indices: 10810248--10810289 Score: 66
Period size: 4 Copynumber: 10.5 Consensus size: 4
10810238 AGTTTACAAA
* *
10810248 ATGT ATGT ATGT ATGT ATGT ATAT ATGT ATGT ATAT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
10810290 TTGGTACATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:10810265 original size:12 final size:12
Alignment explanation
Indices: 10810248--10810289 Score: 75
Period size: 12 Copynumber: 3.5 Consensus size: 12
10810238 AGTTTACAAA
*
10810248 ATGTATGTATGT
1 ATGTATGTATAT
10810260 ATGTATGTATAT
1 ATGTATGTATAT
10810272 ATGTATGTATAT
1 ATGTATGTATAT
10810284 ATGTAT
1 ATGTAT
10810290 TTGGTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (12 bp):
ATGTATGTATAT
Found at i:10810346 original size:25 final size:25
Alignment explanation
Indices: 10810311--10810360 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
10810301 GAGCAGACTA
10810311 AGTCGGAAAAATTACACAAGATGTT
1 AGTCGGAAAAATTACACAAGATGTT
*
10810336 AGTCGGCAAAATTACACAAGATGTT
1 AGTCGGAAAAATTACACAAGATGTT
10810361 TCGTTATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.42, C:0.14, G:0.20, T:0.24
Consensus pattern (25 bp):
AGTCGGAAAAATTACACAAGATGTT
Found at i:10816828 original size:16 final size:16
Alignment explanation
Indices: 10816807--10816838 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
10816797 AATCAAAGTG
*
10816807 AATTTTTATTTAATTT
1 AATTTTAATTTAATTT
10816823 AATTTTAATTTAATTT
1 AATTTTAATTTAATTT
10816839 TTTAATTTTT
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:0.00, T:0.66
Consensus pattern (16 bp):
AATTTTAATTTAATTT
Found at i:10816829 original size:11 final size:11
Alignment explanation
Indices: 10816815--10816839 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10816805 TGAATTTTTA
10816815 TTTAATTTAAT
1 TTTAATTTAAT
10816826 TTTAATTTAAT
1 TTTAATTTAAT
10816837 TTT
1 TTT
10816840 TTAATTTTTA
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTAATTTAAT
Found at i:10817797 original size:18 final size:18
Alignment explanation
Indices: 10817749--10817800 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
10817739 ATACTATTTG
10817749 ATAAATTATTATTTTTATTA
1 ATAAATTATTA--TTTATTA
* *
10817769 AT-TATCAATTATTTATTA
1 ATAAAT-TATTATTTATTA
10817787 ATAAATTATTATTT
1 ATAAATTATTATTT
10817801 GACATAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
18 16 0.62
19 4 0.15
20 6 0.23
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (18 bp):
ATAAATTATTATTTATTA
Found at i:10817826 original size:14 final size:14
Alignment explanation
Indices: 10817794--10817823 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
10817784 TTAATAAATT
10817794 ATTATTTGACATAA
1 ATTATTTGACATAA
10817808 ATTATTTGA-ATAA
1 ATTATTTGACATAA
10817821 ATT
1 ATT
10817824 TATAATTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (14 bp):
ATTATTTGACATAA
Found at i:10817846 original size:19 final size:20
Alignment explanation
Indices: 10817807--10817847 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
10817797 ATTTGACATA
10817807 AATTATTTGAATAAATTTAT
1 AATTATTTGAATAAATTTAT
* *
10817827 AATTATTT-ATTAATTTTAT
1 AATTATTTGAATAAATTTAT
10817846 AA
1 AA
10817848 ATTTTAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
AATTATTTGAATAAATTTAT
Found at i:10817850 original size:20 final size:21
Alignment explanation
Indices: 10817804--10817850 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
10817794 ATTATTTGAC
10817804 ATAAATTATTTGAATAAATTT
1 ATAAATTATTTGAATAAATTT
* *
10817825 AT-AATTATTT-ATTAATTTT
1 ATAAATTATTTGAATAAATTT
10817844 ATAAATT
1 ATAAATT
10817851 TTAAATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 9 0.39
20 12 0.52
21 2 0.09
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
ATAAATTATTTGAATAAATTT
Found at i:10817856 original size:34 final size:33
Alignment explanation
Indices: 10817818--10817892 Score: 80
Period size: 33 Copynumber: 2.2 Consensus size: 33
10817808 ATTATTTGAA
* *
10817818 TAAATTTATAATTATTTATTAATTTTATA-AATTT
1 TAAATTTATAA-AATTT-TTAATTATATATAATTT
* *
10817852 TAAATTTTTAAAATTTTTTATTATATATAATTT
1 TAAATTTATAAAATTTTTAATTATATATAATTT
*
10817885 TTAATTTA
1 TAAATTTA
10817893 ATATCTTATA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
32 9 0.26
33 15 0.44
34 10 0.29
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (33 bp):
TAAATTTATAAAATTTTTAATTATATATAATTT
Found at i:10817859 original size:16 final size:16
Alignment explanation
Indices: 10817831--10817891 Score: 61
Period size: 16 Copynumber: 3.7 Consensus size: 16
10817821 ATTTATAATT
10817831 ATTTATTAATTTTATAA
1 ATTT-TTAATTTTATAA
*
10817848 ATTTTAAATTTT-TAAA
1 ATTTTTAATTTTAT-AA
* *
10817864 ATTTTTTATTATATATA
1 ATTTTTAATTTTATA-A
10817881 ATTTTTAATTT
1 ATTTTTAATTT
10817892 AATATCTTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
15 1 0.03
16 19 0.54
17 15 0.43
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTTTTAATTTTATAA
Found at i:10820499 original size:24 final size:23
Alignment explanation
Indices: 10820451--10820501 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
10820441 AACCACAAGT
10820451 ATAAAAGTAGTCTGGCTGTTAAA
1 ATAAAAGTAGTCTGGCTGTTAAA
*
10820474 ATAAAAGTACCGTC-GGTTGTTAAA
1 ATAAAAGTA--GTCTGGCTGTTAAA
10820498 ATAA
1 ATAA
10820502 TTTTAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 9 0.36
24 13 0.52
25 3 0.12
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.29
Consensus pattern (23 bp):
ATAAAAGTAGTCTGGCTGTTAAA
Found at i:10820535 original size:35 final size:35
Alignment explanation
Indices: 10820469--10820536 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
10820459 AGTCTGGCTG
* *
10820469 TTAAAATAAAAGTACCGTCGGTTGTTAAAATAATT
1 TTAAAATAAAAGTACCGTCAGCTGTTAAAATAATT
* * *
10820504 TTAAAATAAAAGTACTGTTAGCTGTTGAAATAA
1 TTAAAATAAAAGTACCGTCAGCTGTTAAAATAA
10820537 AATTTTTATT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.44, C:0.07, G:0.15, T:0.34
Consensus pattern (35 bp):
TTAAAATAAAAGTACCGTCAGCTGTTAAAATAATT
Found at i:10836068 original size:32 final size:33
Alignment explanation
Indices: 10836032--10836111 Score: 96
Period size: 32 Copynumber: 2.5 Consensus size: 33
10836022 TTTGGATTTC
*
10836032 GGATTTTGGAGGG-TTTTGGATTTAA-GGAGTTT
1 GGATTTT-AAGGGATTTTGGATTTAAGGGAGTTT
*
10836064 GGA-TTTAAGGGATTTTGGATTTAAGGGGGTTT
1 GGATTTTAAGGGATTTTGGATTTAAGGGAGTTT
*
10836096 GGATTTAAAGGG-TTTT
1 GGATTTTAAGGGATTTT
10836112 AGAAACCTAG
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
30 4 0.10
31 15 0.36
32 16 0.38
33 7 0.17
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.42
Consensus pattern (33 bp):
GGATTTTAAGGGATTTTGGATTTAAGGGAGTTT
Found at i:10836080 original size:16 final size:16
Alignment explanation
Indices: 10836046--10836103 Score: 91
Period size: 16 Copynumber: 3.7 Consensus size: 16
10836036 TTTGGAGGGT
10836046 TTTGGATTTAA-GGAG
1 TTTGGATTTAAGGGAG
*
10836061 TTTGGATTTAAGGGAT
1 TTTGGATTTAAGGGAG
*
10836077 TTTGGATTTAAGGGGG
1 TTTGGATTTAAGGGAG
10836093 TTTGGATTTAA
1 TTTGGATTTAA
10836104 AGGGTTTTAG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
15 11 0.28
16 28 0.72
ACGTcount: A:0.24, C:0.00, G:0.33, T:0.43
Consensus pattern (16 bp):
TTTGGATTTAAGGGAG
Found at i:10836110 original size:15 final size:14
Alignment explanation
Indices: 10836041--10836110 Score: 77
Period size: 15 Copynumber: 4.5 Consensus size: 14
10836031 CGGATTTTGG
10836041 AGGGTTTTGGATTTA
1 AGGG-TTTGGATTTA
10836056 AGGAGTTTGGATTTA
1 AGG-GTTTGGATTTA
10836071 AGGGATTTTGGATTTA
1 AGGG--TTTGGATTTA
10836087 AGGGGGTTTGGATTTAA
1 A--GGGTTTGGATTT-A
10836104 AGGGTTT
1 AGGGTTT
10836111 TAGAAACCTA
Statistics
Matches: 49, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
14 1 0.02
15 22 0.45
16 21 0.43
17 2 0.04
18 3 0.06
ACGTcount: A:0.23, C:0.00, G:0.36, T:0.41
Consensus pattern (14 bp):
AGGGTTTGGATTTA
Found at i:10836251 original size:21 final size:21
Alignment explanation
Indices: 10836226--10836266 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
10836216 CAAGTTTGAT
10836226 TTTAATAATTT-TTAAAATTAA
1 TTTAA-AATTTCTTAAAATTAA
*
10836247 TTTAAAATTTCTTATAATTA
1 TTTAAAATTTCTTAAAATTA
10836267 TTTTTTTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
TTTAAAATTTCTTAAAATTAA
Found at i:10836534 original size:17 final size:17
Alignment explanation
Indices: 10836514--10836555 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
10836504 TCAAAATAAC
10836514 AAAAAAAATA-ATAAATT
1 AAAAAAAATAGA-AAATT
**
10836531 AAAAAATTTAGAAAATT
1 AAAAAAAATAGAAAATT
10836548 AAAAAAAA
1 AAAAAAAA
10836556 AATTTTTTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
17 19 0.95
18 1 0.05
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.21
Consensus pattern (17 bp):
AAAAAAAATAGAAAATT
Found at i:10837559 original size:11 final size:11
Alignment explanation
Indices: 10837539--10837571 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
10837529 AGAACTTCAA
10837539 GGTGGCTGTAG
1 GGTGGCTGTAG
*
10837550 GGTGGTTGTA-
1 GGTGGCTGTAG
10837560 GGTGGCTGTAG
1 GGTGGCTGTAG
10837571 G
1 G
10837572 TTGGTGGGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.09, C:0.06, G:0.55, T:0.30
Consensus pattern (11 bp):
GGTGGCTGTAG
Found at i:10837569 original size:10 final size:10
Alignment explanation
Indices: 10837538--10837572 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
10837528 AAGAACTTCA
10837538 AGGTGGCTGT
1 AGGTGGCTGT
*
10837548 AGGGTGGTTGT
1 A-GGTGGCTGT
10837559 AGGTGGCTGT
1 AGGTGGCTGT
10837569 AGGT
1 AGGT
10837573 TGGTGGGTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.11, C:0.06, G:0.51, T:0.31
Consensus pattern (10 bp):
AGGTGGCTGT
Found at i:10837698 original size:18 final size:19
Alignment explanation
Indices: 10837675--10837714 Score: 73
Period size: 18 Copynumber: 2.2 Consensus size: 19
10837665 CTACTTTCTG
10837675 TTTTTTTGTTTTTT-TATT
1 TTTTTTTGTTTTTTATATT
10837693 TTTTTTTGTTTTTTATATT
1 TTTTTTTGTTTTTTATATT
10837712 TTT
1 TTT
10837715 ATATAATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.07, C:0.00, G:0.05, T:0.88
Consensus pattern (19 bp):
TTTTTTTGTTTTTTATATT
Found at i:10839574 original size:18 final size:19
Alignment explanation
Indices: 10839551--10839594 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
10839541 ATAGCTCATG
10839551 TTTTAATCAAATTTT-A-TA
1 TTTTAAT-AAATTTTAATTA
*
10839569 TTTTAATATATTTTAATTA
1 TTTTAATAAATTTTAATTA
10839588 TTTTAAT
1 TTTTAAT
10839595 TAATAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 6 0.26
18 8 0.35
19 9 0.39
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTTAATAAATTTTAATTA
Found at i:10839580 original size:10 final size:10
Alignment explanation
Indices: 10839565--10839594 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
10839555 AATCAAATTT
10839565 TATATTTTAA
1 TATATTTTAA
10839575 TATATTTTAA
1 TATATTTTAA
10839585 T-TATTTTAA
1 TATATTTTAA
10839594 T
1 T
10839595 TAATAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTTAA
Found at i:10839591 original size:9 final size:9
Alignment explanation
Indices: 10839567--10839596 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
10839557 TCAAATTTTA
10839567 TATTTTAAT
1 TATTTTAAT
10839576 ATATTTTAAT
1 -TATTTTAAT
10839586 TATTTTAAT
1 TATTTTAAT
10839595 TA
1 TA
10839597 ATAAAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
TATTTTAAT
Found at i:10839807 original size:25 final size:25
Alignment explanation
Indices: 10839760--10839808 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
10839750 AATAAATTTA
* *
10839760 ATCAAATTTAAATTAAATTTCAAAT
1 ATCAAATTTAAATCAAATCTCAAAT
10839785 ATCAAATTTAAAATCAAA-CTCAAA
1 ATCAAATTT-AAATCAAATCTCAAA
10839809 CTCAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (25 bp):
ATCAAATTTAAATCAAATCTCAAAT
Found at i:10841719 original size:6 final size:6
Alignment explanation
Indices: 10841708--10841737 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
10841698 ATTATTCATG
*
10841708 CTCGAA CTCGAA CTCGAA CTCGGA CTCGAA
1 CTCGAA CTCGAA CTCGAA CTCGAA CTCGAA
10841738 ATATTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.30, C:0.33, G:0.20, T:0.17
Consensus pattern (6 bp):
CTCGAA
Found at i:10842018 original size:18 final size:19
Alignment explanation
Indices: 10841995--10842030 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
10841985 CCCTTTCTCT
10841995 CTTTTTCT-TTTTTTTTTA
1 CTTTTTCTATTTTTTTTTA
10842013 CTTTTTCTATTTTTTTTT
1 CTTTTTCTATTTTTTTTT
10842031 TTTAAGTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.06, C:0.11, G:0.00, T:0.83
Consensus pattern (19 bp):
CTTTTTCTATTTTTTTTTA
Found at i:10842996 original size:16 final size:15
Alignment explanation
Indices: 10842965--10843006 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
10842955 ATGTATAACA
10842965 TTTAAAATTCAAATAG
1 TTTAAAATT-AAATAG
10842981 CTTTAAAATTAAATAG
1 -TTTAAAATTAAATAG
*
10842997 TTAAAAATTA
1 TTTAAAATTA
10843007 TCTATTCTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 9 0.38
16 6 0.25
17 9 0.38
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (15 bp):
TTTAAAATTAAATAG
Found at i:10848546 original size:18 final size:18
Alignment explanation
Indices: 10848523--10848562 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
10848513 AGCTATGAGC
10848523 TTTTTTTACTTTTCTCAT-
1 TTTTTTTA-TTTTCTCATA
10848541 TTTTTTTATTTTCTCATA
1 TTTTTTTATTTTCTCATA
10848559 TTTT
1 TTTT
10848563 ACTTTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTTTTATTTTCTCATA
Found at i:10860334 original size:12 final size:12
Alignment explanation
Indices: 10860317--10860354 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
10860307 AGTTTACAAA
*
10860317 ATGTATGTATGT
1 ATGTATATATGT
*
10860329 ATGTATATATAT
1 ATGTATATATGT
10860341 ATGTATATATGT
1 ATGTATATATGT
10860353 AT
1 AT
10860355 TTGGTACATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (12 bp):
ATGTATATATGT
Found at i:10864711 original size:13 final size:13
Alignment explanation
Indices: 10864693--10864719 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10864683 GGATGCAACA
10864693 CCTGACATCACTT
1 CCTGACATCACTT
10864706 CCTGACATCACTT
1 CCTGACATCACTT
10864719 C
1 C
10864720 GAAGTTTGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.41, G:0.07, T:0.30
Consensus pattern (13 bp):
CCTGACATCACTT
Found at i:10867480 original size:18 final size:17
Alignment explanation
Indices: 10867459--10867521 Score: 56
Period size: 18 Copynumber: 3.6 Consensus size: 17
10867449 ATATAATAAA
10867459 ATTATTATTTGATAAATT
1 ATTATTATTT-ATAAATT
*
10867477 ATTATT-TTTATTAATT
1 ATTATTATTTATAAATT
* * *
10867493 ATCAATTATTTATTAATAA
1 AT-TATTATTTATAAAT-T
10867512 ATTATTATTT
1 ATTATTATTT
10867522 GACATAAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
16 8 0.21
17 6 0.16
18 22 0.58
19 2 0.05
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (17 bp):
ATTATTATTTATAAATT
Found at i:10867547 original size:14 final size:14
Alignment explanation
Indices: 10867515--10867544 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
10867505 TTAATAAATT
10867515 ATTATTTGACATAA
1 ATTATTTGACATAA
10867529 ATTATTTGA-ATAA
1 ATTATTTGACATAA
10867542 ATT
1 ATT
10867545 TATAATTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (14 bp):
ATTATTTGACATAA
Found at i:10867553 original size:20 final size:19
Alignment explanation
Indices: 10867528--10867610 Score: 59
Period size: 17 Copynumber: 4.6 Consensus size: 19
10867518 ATTTGACATA
10867528 AATTATTTGAATAAATTTAT
1 AATTATTT-AATAAATTTAT
* *
10867548 AATTATTTATTAATTTTAT
1 AATTATTTAATAAATTTAT
* * *
10867567 AAAT-TTTAA-AATTTTAA
1 AATTATTTAATAAATTTAT
* *
10867584 AATTTTTTATTAAA--TAT
1 AATTATTTAATAAATTTAT
10867601 AATT-TTTAAT
1 AATTATTTAAT
10867611 TTAATATCCT
Statistics
Matches: 51, Mismatches: 10, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
16 5 0.10
17 16 0.31
18 8 0.16
19 14 0.27
20 8 0.16
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (19 bp):
AATTATTTAATAAATTTAT
Found at i:10867571 original size:9 final size:9
Alignment explanation
Indices: 10867538--10867589 Score: 56
Period size: 8 Copynumber: 6.0 Consensus size: 9
10867528 AATTATTTGA
10867538 ATAAA-TTT
1 ATAAATTTT
*
10867546 ATAATTATTT
1 ATAAAT-TTT
*
10867556 ATTAATTTT
1 ATAAATTTT
10867565 ATAAATTTT
1 ATAAATTTT
10867574 A-AAATTTT
1 ATAAATTTT
10867582 A-AAATTTT
1 ATAAATTTT
10867590 TTATTAAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
8 19 0.50
9 12 0.32
10 7 0.18
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
ATAAATTTT
Found at i:10867604 original size:17 final size:17
Alignment explanation
Indices: 10867584--10867617 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10867574 AAAATTTTAA
*
10867584 AATTTTTTATTAAATAT
1 AATTTTTAATTAAATAT
*
10867601 AATTTTTAATTTAATAT
1 AATTTTTAATTAAATAT
10867618 CCTATATGAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
AATTTTTAATTAAATAT
Found at i:10888570 original size:17 final size:17
Alignment explanation
Indices: 10888532--10888588 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
10888522 AGCTATGAGC
*
10888532 TTTTTTTATTTTTCTCA
1 TTTTTTTATTTTTATCA
10888549 TTTTTTTA-TTTTATCA
1 TTTTTTTATTTTTATCA
* * *
10888565 -TATTTTACTTTTTTTAA
1 TTTTTTTA-TTTTTATCA
10888582 TTTTTTT
1 TTTTTTT
10888589 TGTTTTTCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
15 6 0.19
16 7 0.22
17 14 0.44
18 5 0.16
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTTTTATTTTTATCA
Found at i:10890308 original size:10 final size:9
Alignment explanation
Indices: 10890295--10890351 Score: 53
Period size: 10 Copynumber: 5.9 Consensus size: 9
10890285 TTCTTTTGTA
10890295 TTTTATGTAT
1 TTTTAT-TAT
10890305 TTTTATTAT
1 TTTTATTAT
10890314 TTATTATTAT
1 TT-TTATTAT
*
10890324 TATGTATTTAT
1 T-TTTA-TTAT
10890335 TTTT-TTATT
1 TTTTATTA-T
10890344 TTTTATTA
1 TTTTATTA
10890352 GATTAGATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
8 3 0.08
9 10 0.25
10 21 0.52
11 6 0.15
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.74
Consensus pattern (9 bp):
TTTTATTAT
Found at i:10890361 original size:29 final size:32
Alignment explanation
Indices: 10890304--10890363 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
10890294 ATTTTATGTA
*
10890304 TTTTTATTATTTATTATTATTATGTATTTATT
1 TTTTTATTATTTATTATGATTATGTATTTATT
*
10890336 TTTTTATTTTTTATTA-GATTA-G-ATTTAT
1 TTTTTATTATTTATTATGATTATGTATTTAT
10890364 ATGTATTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 6 0.23
30 1 0.04
31 4 0.15
32 15 0.58
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (32 bp):
TTTTTATTATTTATTATGATTATGTATTTATT
Found at i:10890548 original size:13 final size:13
Alignment explanation
Indices: 10890530--10890554 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10890520 ATCTAGTATT
10890530 TTTTTTATTTTGA
1 TTTTTTATTTTGA
10890543 TTTTTTATTTTG
1 TTTTTTATTTTG
10890555 GAGGGCTAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.08, T:0.80
Consensus pattern (13 bp):
TTTTTTATTTTGA
Found at i:10891373 original size:17 final size:17
Alignment explanation
Indices: 10891353--10891385 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
10891343 TTTTTAGAAT
10891353 TTTTATTTATTTATTTG
1 TTTTATTTATTTATTTG
10891370 TTTTATTTATTTATTT
1 TTTTATTTATTTATTT
10891386 ATTTATTAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (17 bp):
TTTTATTTATTTATTTG
Found at i:10891386 original size:25 final size:25
Alignment explanation
Indices: 10891354--10891469 Score: 89
Period size: 25 Copynumber: 4.6 Consensus size: 25
10891344 TTTTAGAATT
10891354 TTTATTTATTTATTTGTTTTATTTA
1 TTTATTTATTTATTTGTTTTATTTA
* **
10891379 TTTATTTATTTATTAGGTTAGATTTA
1 TTTATTTATTTATT-TGTTTTATTTA
* *
10891405 TTTA-ATATTT-TTTATCTTTATCTTA
1 TTTATTTATTTATTTGT-TTTAT-TTA
*
10891430 TTT-TTT-TTTACTTTTTTTTATTT-
1 TTTATTTATTTA-TTTGTTTTATTTA
10891453 TTTATCTTTATTTATTT
1 TTTA--TTTATTTATTT
10891470 TCACTTTTAT
Statistics
Matches: 71, Mismatches: 10, Indels: 19
0.71 0.10 0.19
Matches are distributed among these distances:
23 4 0.06
24 10 0.14
25 31 0.44
26 22 0.31
27 4 0.06
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.73
Consensus pattern (25 bp):
TTTATTTATTTATTTGTTTTATTTA
Found at i:10891408 original size:4 final size:4
Alignment explanation
Indices: 10891354--10891392 Score: 60
Period size: 4 Copynumber: 9.5 Consensus size: 4
10891344 TTTTAGAATT
*
10891354 TTTA TTTA TTTA TTTGT TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTT-A TTTA TTTA TTTA TTTA TTTA TT
10891393 AGGTTAGATT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
4 29 0.91
5 3 0.09
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:10891448 original size:32 final size:33
Alignment explanation
Indices: 10891412--10891497 Score: 95
Period size: 33 Copynumber: 2.6 Consensus size: 33
10891402 TTATTTAATA
* *
10891412 TTTTTTA-TCTTTATC-TTATTTTTTTTTACTT
1 TTTTTTATTCTTTATCTTTATTTATTTTCACTT
*
10891443 TTTTTTATTTTTTATCTTTATTTATTTTCACTT
1 TTTTTTATTCTTTATCTTTATTTATTTTCACTT
* *
10891476 TTATTTTGTTCTATTTTCTTTA
1 TT-TTTTATTCT-TTATCTTTA
10891498 AATAAAAATC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
31 7 0.16
32 7 0.16
33 16 0.36
34 7 0.16
35 8 0.18
ACGTcount: A:0.14, C:0.09, G:0.01, T:0.76
Consensus pattern (33 bp):
TTTTTTATTCTTTATCTTTATTTATTTTCACTT
Found at i:10891453 original size:17 final size:17
Alignment explanation
Indices: 10891410--10891470 Score: 52
Period size: 17 Copynumber: 3.4 Consensus size: 17
10891400 ATTTATTTAA
10891410 TATTTTTTATCTTTATCTTAT
1 TATTTTTTA-CTTT-T-TT-T
*
10891431 TTTTTTTTACTTTTTTT
1 TATTTTTTACTTTTTTT
*
10891448 TATTTTTTA-TCTTTATT
1 TATTTTTTACT-TTTTTT
10891465 TATTTT
1 TATTTT
10891471 CACTTTTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
16 1 0.03
17 20 0.56
18 2 0.06
19 1 0.03
20 4 0.11
21 8 0.22
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.79
Consensus pattern (17 bp):
TATTTTTTACTTTTTTT
Found at i:10891477 original size:22 final size:22
Alignment explanation
Indices: 10891452--10891493 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
10891442 TTTTTTTATT
10891452 TTTTATCTTTATT-TATTTTCAC
1 TTTTAT-TTTATTCTATTTTCAC
*
10891474 TTTTATTTTGTTCTATTTTC
1 TTTTATTTTATTCTATTTTC
10891494 TTTAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.14, C:0.12, G:0.02, T:0.71
Consensus pattern (22 bp):
TTTTATTTTATTCTATTTTCAC
Found at i:10891577 original size:58 final size:58
Alignment explanation
Indices: 10891500--10891912 Score: 537
Period size: 58 Copynumber: 7.0 Consensus size: 58
10891490 TTTCTTTAAA
*
10891500 TAAAAATCAAAGTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAAT-AAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
* * * *
10891559 TAGAAATAAATGTCCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATAAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
** *
10891617 TAAAAATAAATTTTCAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAGTTTTCCT
1 TAAAAATAAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
* * *
10891675 TGAAAATCAAAGTTTC-AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTT
1 TAAAAAT-AAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
** *
10891733 TAAAAATCAAAATTTT-TGAAAATTATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAAT--AAATTTTCAAAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCT
*
10891792 TAAAAATAAATTTTCAAAGTTTCAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATAAATTTTC--A-----AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
* *
10891857 TAGAAATAAATTTTC-AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 TAAAAATAAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
10891913 CTACACAAGA
Statistics
Matches: 310, Mismatches: 31, Indels: 28
0.84 0.08 0.08
Matches are distributed among these distances:
57 46 0.15
58 149 0.48
59 63 0.20
65 51 0.16
66 1 0.00
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.36
Consensus pattern (58 bp):
TAAAAATAAATTTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
Found at i:10894201 original size:41 final size:40
Alignment explanation
Indices: 10894156--10894574 Score: 590
Period size: 41 Copynumber: 10.2 Consensus size: 40
10894146 ATGATTGTCA
*
10894156 AGGAGCAATTTACTTTTCCAAGTTCCGT-TGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAG-T-CGTGTGCCTCTGTTTAG
10894197 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTAC-TTTTCAAAGTCGT-GTGCCTCTGTTTAG
10894239 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTAC-TTTTCAAAGTCGT-GTGCCTCTGTTTAG
*
10894281 ATGAGCAATTTA-TTTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTT-CAAAGTCGT-GTGCCTCTGTTTAG
*
10894322 AAGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAG
* *
10894363 ATGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAG
* *
10894404 AGGAGCAATTTATTTTTCAAAGTCGCGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCG-TGTGCCTCTGTTTAG
10894445 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAG
* *
10894486 AGGAGAAATTTACTTTCCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTT-TCAAAGTCGT-GTGCCTCTGTTTAG
* *
10894528 AGGAGCAATTTATTTTTCAAAGTCGTTGAGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCG-TGTGCCTCTGTTTAG
10894569 AGGAGC
1 AGGAGC
10894575 TTTGGTAAAA
Statistics
Matches: 352, Mismatches: 17, Indels: 18
0.91 0.04 0.05
Matches are distributed among these distances:
40 7 0.02
41 228 0.65
42 117 0.33
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.37
Consensus pattern (40 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGTGCCTCTGTTTAG
Found at i:10894629 original size:17 final size:15
Alignment explanation
Indices: 10894583--10894631 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 15
10894573 GCTTTGGTAA
10894583 AAAAAAAATAAGAAAAC
1 AAAAAAAA-AA-AAAAC
10894600 AAAAAACAAAAAAACAC
1 AAAAAA-AAAAAAA-AC
10894617 AAAAAAAACAAAAAA
1 AAAAAAAA-AAAAAA
10894632 TGACAACGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
16 6 0.21
17 21 0.72
18 2 0.07
ACGTcount: A:0.86, C:0.10, G:0.02, T:0.02
Consensus pattern (15 bp):
AAAAAAAAAAAAAAC
Found at i:10894637 original size:10 final size:9
Alignment explanation
Indices: 10894600--10894631 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
10894590 ATAAGAAAAC
10894600 AAAAAACAA
1 AAAAAACAA
10894609 AAAAACACAA
1 AAAAA-ACAA
10894619 AAAAAACAA
1 AAAAAACAA
10894628 AAAA
1 AAAA
10894632 TGACAACGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 13 0.59
10 9 0.41
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAACAA
Found at i:10894849 original size:3 final size:3
Alignment explanation
Indices: 10894822--10894956 Score: 61
Period size: 3 Copynumber: 43.3 Consensus size: 3
10894812 CTTTCTTTTG
*
10894822 TAT T-T TAT GTAT TTT TAT TATT TAT TAT TAT TAT TAT GTATT TATT
1 TAT TAT TAT -TAT TAT TAT TA-T TAT TAT TAT TAT TAT -TA-T TA-T
* *
10894868 TATT TAT T-T T-T TAT TA- GAT TA- GAT T-T ATAT GTAT T-T TATT TAT
1 TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT -TAT TAT TA-T TAT
*
10894911 ATAGT TAT ATATT TAT TAT TA- TAT GAT TAT TAT TAT TAT TAT TAT T
1 -TA-T TAT -TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
10894957 TGTTTTATTT
Statistics
Matches: 106, Mismatches: 9, Indels: 34
0.71 0.06 0.23
Matches are distributed among these distances:
2 13 0.12
3 57 0.54
4 33 0.31
5 3 0.03
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:10894853 original size:28 final size:28
Alignment explanation
Indices: 10894822--10894966 Score: 90
Period size: 28 Copynumber: 5.7 Consensus size: 28
10894812 CTTTCTTTTG
*
10894822 TATT-TTATGTATTTTTATTATTTATTAT
1 TATTATTATGTATTTAT-TTATTTATTAT
10894850 TATTATTATGTATTTATTTATTTATT-T
1 TATTATTATGTATTTATTTATTTATTAT
*
10894877 T-TTATTA-G-A-TTA--GATTTA-TAT
1 TATTATTATGTATTTATTTATTTATTAT
* * * *
10894898 GTATT-TTATTTATATAGTTATATATTTAT
1 -TATTATTATGTATTTATTTATTTA-TTAT
10894927 TATTA-TATG-A-TTA-TTA-TTATTAT
1 TATTATTATGTATTTATTTATTTATTAT
10894950 TATTATT-TGT-TTTATTT
1 TATTATTATGTATTTATTT
10894967 TGTAATATAT
Statistics
Matches: 92, Mismatches: 9, Indels: 35
0.68 0.07 0.26
Matches are distributed among these distances:
20 1 0.01
21 6 0.07
22 4 0.04
23 16 0.17
24 8 0.09
25 8 0.09
26 8 0.09
27 7 0.08
28 20 0.22
29 14 0.15
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (28 bp):
TATTATTATGTATTTATTTATTTATTAT
Found at i:10895023 original size:15 final size:15
Alignment explanation
Indices: 10894822--10895023 Score: 64
Period size: 15 Copynumber: 13.2 Consensus size: 15
10894812 CTTTCTTTTG
*
10894822 TATTTTATGTATT-T
1 TATTTTATTTATTAT
*
10894836 T-TATTATTTATTAT
1 TATTTTATTTATTAT
*
10894850 TATTATTATGTATTTAT
1 TATT-TTATTTA-TTAT
*
10894867 T-TATTTATTTTTTAT
1 TAT-TTTATTTATTAT
**
10894882 TAGATTAGATTTA-TAT
1 T--ATTTTATTTATTAT
10894898 GTATTTTATTTATATAGT
1 -TATTTTATTTAT-TA-T
*
10894916 TA-TATATTTATTAT
1 TATTTTATTTATTAT
10894930 TATATGATTA-TTATTAT
1 TAT-T--TTATTTATTAT
*
10894947 TATTATTATTTGTT-T
1 TATT-TTATTTATTAT
* *
10894962 TATTTT-GTAATATAT
1 TATTTTATTTAT-TAT
** *
10894977 T-TTTGGGTTTA-TCT
1 TATTT-TATTTATTAT
*
10894991 TATTTTATTTGTTAT
1 TATTTTATTTATTAT
* *
10895006 TATTTTTTTTATTTT
1 TATTTTATTTATTAT
10895021 TAT
1 TAT
10895024 ACTATAATAT
Statistics
Matches: 137, Mismatches: 28, Indels: 45
0.65 0.13 0.21
Matches are distributed among these distances:
13 11 0.08
14 18 0.13
15 47 0.34
16 31 0.23
17 26 0.19
18 4 0.03
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.67
Consensus pattern (15 bp):
TATTTTATTTATTAT
Found at i:10895943 original size:18 final size:18
Alignment explanation
Indices: 10895920--10895979 Score: 79
Period size: 18 Copynumber: 3.3 Consensus size: 18
10895910 ATTTATTTAA
10895920 TATTTTTTATCTTTATCT
1 TATTTTTTATCTTTATCT
*
10895938 TATTTTTTTTACTTT-TCTT
1 TATTTTTTAT-CTTTATC-T
10895957 TATTTTTTATCTTTAT-T
1 TATTTTTTATCTTTATCT
10895974 TATTTT
1 TATTTT
10895980 CACTTTTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
17 7 0.19
18 15 0.41
19 15 0.41
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (18 bp):
TATTTTTTATCTTTATCT
Found at i:10895962 original size:17 final size:17
Alignment explanation
Indices: 10895920--10895979 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
10895910 ATTTATTTAA
10895920 TATTTTTTATCTTTATCTT
1 TATTTTTTA-CTTT-TCTT
*
10895939 ATTTTTTTTACTTTTCTT
1 -TATTTTTTACTTTTCTT
*
10895957 TATTTTTTA-TCTTTATT
1 TATTTTTTACT-TTTCTT
10895974 TATTTT
1 TATTTT
10895980 CACTTTTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
16 1 0.03
17 19 0.53
18 4 0.11
19 4 0.11
20 8 0.22
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (17 bp):
TATTTTTTACTTTTCTT
Found at i:10895986 original size:22 final size:22
Alignment explanation
Indices: 10895961--10896002 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
10895951 TTTCTTTATT
10895961 TTTTATCTTTATT-TATTTTCAC
1 TTTTAT-TTTATTCTATTTTCAC
*
10895983 TTTTATTTTGTTCTATTTTC
1 TTTTATTTTATTCTATTTTC
10896003 TTTAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.14, C:0.12, G:0.02, T:0.71
Consensus pattern (22 bp):
TTTTATTTTATTCTATTTTCAC
Done.