Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032246.1 Gossypioides kirkii chromosome KI_03
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: 42061019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2000 characters in sequence are not A, C, G, or T
File 112 of 135
Found at i:33616674 original size:18 final size:18
Alignment explanation
Indices: 33616653--33616688 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
33616643 TGTTTAGCAT
*
33616653 TGCTTATGGCTCCAAAAG
1 TGCTTATGCCTCCAAAAG
*
33616671 TGCTTTTGCCTCCAAAAG
1 TGCTTATGCCTCCAAAAG
33616689 CACTTTTGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (18 bp):
TGCTTATGCCTCCAAAAG
Found at i:33616694 original size:18 final size:18
Alignment explanation
Indices: 33616662--33616696 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33616652 TTGCTTATGG
**
33616662 CTCCAAAAGTGCTTTTGC
1 CTCCAAAAGCACTTTTGC
33616680 CTCCAAAAGCACTTTTG
1 CTCCAAAAGCACTTTTG
33616697 AAACGCAATG
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:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (18 bp):
CTCCAAAAGCACTTTTGC
Found at i:33621444 original size:16 final size:16
Alignment explanation
Indices: 33621405--33621442 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
33621395 AAAATGATTG
33621405 TATTTTTAACTATATA
1 TATTTTTAACTATATA
*
33621421 TATTTTTAATTATATA
1 TATTTTTAACTATATA
33621437 -ATTTTT
1 TATTTTT
33621443 TATAAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (16 bp):
TATTTTTAACTATATA
Found at i:33622160 original size:31 final size:31
Alignment explanation
Indices: 33622120--33622178 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
33622110 ATGTCAAAAA
* * *
33622120 TAAAGTATAGAGATCAAATCTCAAATTTGAG
1 TAAAATATAGAGATCAAAACTAAAATTTGAG
*
33622151 TAAAATATAGGGATCAAAACTAAAATTT
1 TAAAATATAGAGATCAAAACTAAAATTT
33622179 AACTATTCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.49, C:0.08, G:0.14, T:0.29
Consensus pattern (31 bp):
TAAAATATAGAGATCAAAACTAAAATTTGAG
Found at i:33622555 original size:174 final size:169
Alignment explanation
Indices: 33622101--33622585 Score: 566
Period size: 170 Copynumber: 2.8 Consensus size: 169
33622091 CAACATTTTA
* * * *
33622101 ATTTGAATTATGTCAAAAA-TAAAGTATAGAGATCAAATCTCAAATTTGAGTAAAATATAGGGAT
1 ATTTAAATTATGT-AAAAATTAAA-TATAGAAATTAAATCTCAAATTTGAGTGAAATATAGGGAT
* * *
33622165 CAAAACTAAAATTTAACTATTCTTATATAATCTTTAAAAAGTAGATGGATTAGAACTGAAATTTA
64 TAAAACTAAAATTTAACCATTCTTATATAATC-TTAAAAAGTAGAGGGATTAGAACTGAAATTTA
* *
33622230 ACCATTATTTTCTCAAGTCAAAAGAAAAAAAAATGGACAGGC
128 ACCATTATTTTCTCAAGTCAAAAGAAAAAAAAAAGAACAGGC
* *
33622272 ATTTAAATTATGTAAAAATTTAAATATAGAAATTAAATCTCAAATTTGAGTGAAATACATGGA-T
1 ATTTAAATTATGTAAAAA-TTAAATATAGAAATTAAATCTCAAATTTGAGTGAAATATAGGGATT
* * * **
33622336 CAAACTGAAATTTAATCATTCTTATATAATCTTAAAAAGGTAGAGGGATTAGAACTGAAATGCAA
65 AAAACTAAAATTTAACCATTCTTATATAATCTTAAAAA-GTAGAGGGATTAGAACTGAAATTTAA
* * *
33622401 CCATTATTTTTTCATGTCAAAAGAAAAAAAAAAGAATAGAG-
129 CCATTATTTTCTCAAGTCAAAAGAAAAAAAAAAGAACAG-GC
* * * *
33622442 AGGTGTCTAAATTATGTAAAAATTAGACTATAGAAATTAAATATCAAATTTAATTGAAATATAGG
1 A--T-T-TAAATTATGTAAAAATTA-AATATAGAAATTAAATCTCAAATTTGAGTGAAATATAGG
* ** * * *
33622507 GATTAAAACTTAAATTTAACCATTCTGT-TATAATGATAAAAAGTAGAGGGGTTAAAACTAAAAT
61 GATTAAAACTAAAATTTAACCATTCT-TATATAATCTTAAAAAGTAGAGGGATTAGAACTGAAAT
33622571 TTAACCATT-TTTTCT
125 TTAACCATTATTTTCT
33622586 TATTGCCAAA
Statistics
Matches: 267, Mismatches: 36, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
169 7 0.03
170 90 0.34
171 47 0.18
172 5 0.02
173 9 0.03
174 76 0.28
175 32 0.12
176 1 0.00
ACGTcount: A:0.46, C:0.09, G:0.13, T:0.32
Consensus pattern (169 bp):
ATTTAAATTATGTAAAAATTAAATATAGAAATTAAATCTCAAATTTGAGTGAAATATAGGGATTA
AAACTAAAATTTAACCATTCTTATATAATCTTAAAAAGTAGAGGGATTAGAACTGAAATTTAACC
ATTATTTTCTCAAGTCAAAAGAAAAAAAAAAGAACAGGC
Found at i:33623172 original size:27 final size:27
Alignment explanation
Indices: 33623117--33623169 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
33623107 TTGAAAGTTT
**
33623117 AAAAATAAATATAAATATTTTTATTTA
1 AAAAATAAATATAAATATAATTATTTA
*
33623144 AAAAATAAATATTAATTATAATTATT
1 AAAAATAAATA-TAAATATAATTATT
33623170 AAACATTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 11 0.50
28 11 0.50
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (27 bp):
AAAAATAAATATAAATATAATTATTTA
Found at i:33628819 original size:12 final size:13
Alignment explanation
Indices: 33628788--33628814 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
33628778 TAATGATTTT
33628788 TAATTTTTATAAA
1 TAATTTTTATAAA
33628801 TAATTTTTATAAA
1 TAATTTTTATAAA
33628814 T
1 T
33628815 TTTTTCAATT
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TAATTTTTATAAA
Found at i:33632852 original size:58 final size:59
Alignment explanation
Indices: 33632745--33632940 Score: 286
Period size: 59 Copynumber: 3.3 Consensus size: 59
33632735 TGGACACTCG
* ** * *
33632745 GGGGGTAAAATAGTAATTTTTGGTGAAATTGGGGTCGAAAATGGAATTTTGGAAAATTA
1 GGGGGTAAAATGGTAATTTTTGGTGAAATTGGGGTTAAAAATGGAATTTTGGAAAGTTC
* * * * *
33632804 AGGGGTAAAATGGTGA-TTTTGGTGAAATTGAGGTTAAAAAGGGGATTTTGGAAAGTTC
1 GGGGGTAAAATGGTAATTTTTGGTGAAATTGGGGTTAAAAATGGAATTTTGGAAAGTTC
*
33632862 GGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTC
1 GGGGGTAAAATGGTAATTTTTGGTGAAATTGGGGTTAAAAATGGAATTTTGGAAAGTTC
33632921 GGGGGTAAAATGGTAATTTT
1 GGGGGTAAAATGGTAATTTT
33632941 GGACAATCCA
Statistics
Matches: 120, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
58 49 0.41
59 71 0.59
ACGTcount: A:0.33, C:0.02, G:0.33, T:0.32
Consensus pattern (59 bp):
GGGGGTAAAATGGTAATTTTTGGTGAAATTGGGGTTAAAAATGGAATTTTGGAAAGTTC
Found at i:33632943 original size:29 final size:28
Alignment explanation
Indices: 33632745--33632943 Score: 140
Period size: 29 Copynumber: 6.8 Consensus size: 28
33632735 TGGACACTCG
*
33632745 GGGGGTAAAATAGTAATTTTTGGTGAAATT-
1 GGGGGTAAAATGGTAA-TTTT-G-GAAATTC
*
33632775 -GGGGTCGAAAATGG-AATTTTGGAAAATTA
1 GGGGGT--AAAATGGTAATTTTGG-AAATTC
* *
33632804 AGGGGTAAAATGGTGATTTTGGTGAAATT-
1 GGGGGTAAAATGGTAATTTT-G-GAAATTC
* * * **
33632833 GAGGTTAAAAAGGGGATTTTGGAAAGTTC
1 GGGGGTAAAATGGTAATTTTGGAAA-TTC
33632862 GGGGGTAAAATGGTAATTTTTGGTGAAA-TC
1 GGGGGTAAAATGGTAA-TTTT-G-GAAATTC
*
33632892 GGGGTTAAAAATGG-AATTTTGGAAAGTTC
1 GGGGGT-AAAATGGTAATTTTGGAAA-TTC
33632921 GGGGGTAAAATGGTAATTTTGGA
1 GGGGGTAAAATGGTAATTTTGGA
33632944 CAATCCAGGG
Statistics
Matches: 138, Mismatches: 14, Indels: 35
0.74 0.07 0.19
Matches are distributed among these distances:
27 9 0.07
28 24 0.17
29 60 0.43
30 26 0.19
31 15 0.11
32 4 0.03
ACGTcount: A:0.33, C:0.02, G:0.33, T:0.32
Consensus pattern (28 bp):
GGGGGTAAAATGGTAATTTTGGAAATTC
Found at i:33635425 original size:869 final size:869
Alignment explanation
Indices: 33633747--33635482 Score: 3427
Period size: 869 Copynumber: 2.0 Consensus size: 869
33633737 GACCCAAGAT
*
33633747 CTGGAAATTTTCCTTTTATTTCTTATTTTGCTTTCATTTTGTTTGTTTTGTTTTCAAAGGGAAAT
1 CTGGAAATTTTCCTTTTATTTCTTATTTCGCTTTCATTTTGTTTGTTTTGTTTTCAAAGGGAAAT
33633812 CGGCTTTAATCATTTTGCTTTGTTTCTTGTGTACTAAATACCATTTTTCTGGGTTAGCCGCGTTC
66 CGGCTTTAATCATTTTGCTTTGTTTCTTGTGTACTAAATACCATTTTTCTGGGTTAGCCGCGTTC
33633877 AAGGTGGATAGATCGGCGATATGCGAGGCTTGGGACGGCGATGGCTCGGCGGTTATGTCGGCGGC
131 AAGGTGGATAGATCGGCGATATGCGAGGCTTGGGACGGCGATGGCTCGGCGGTTATGTCGGCGGC
33633942 TCCGACGATGGTACAGCAAGGAAGGGTCTTCTCTGTCCTTTCAATTTCTTCTTTTTTATTTAATA
196 TCCGACGATGGTACAGCAAGGAAGGGTCTTCTCTGTCCTTTCAATTTCTTCTTTTTTATTTAATA
33634007 ATAATTATTAAAAATATTATTATAACATTTATTACTAGCATTAAAAAATTTAAGATTATTATTTA
261 ATAATTATTAAAAATATTATTATAACATTTATTACTAGCATTAAAAAATTTAAGATTATTATTTA
33634072 ATAAACTCTGTAAATATTTATTACCATTACCGTTTTTATGACTTCCATTGTTATCACCGAAATAT
326 ATAAACTCTGTAAATATTTATTACCATTACCGTTTTTATGACTTCCATTGTTATCACCGAAATAT
33634137 TCATTATTATTTAACACTAGTAATGTGAGAAATTAATGTTAATATTAATAATATTTATTAATATG
391 TCATTATTATTTAACACTAGTAATGTGAGAAATTAATGTTAATATTAATAATATTTATTAATATG
33634202 TTTTGAAAGACGAAATAATAAATACCCAGATGGATAGTAAATGCATGTTATTAACACAATTAAAA
456 TTTTGAAAGACGAAATAATAAATACCCAGATGGATAGTAAATGCATGTTATTAACACAATTAAAA
33634267 ACTGATGGACTCATATGCTTGAATCATGAATAACAATAAATATATTAGCAGTACCTGATTGCTTT
521 ACTGATGGACTCATATGCTTGAATCATGAATAACAATAAATATATTAGCAGTACCTGATTGCTTT
*
33634332 TATGCTTGAACTTTGAGTCTTTTCGGCTACTGATTCTGGGTGTTCGAATACTGTAGGTGAGTTTA
586 TATGCTTGAACTTTGAGTCTTTTCGGCTACTGATTCTGGGTGTTCGAATACTGTAAGTGAGTTTA
*
33634397 TTCTGCTACTGCACTAATATTGAAGATGGATTTTATATTTGGATTTTCAAGAACAATGTTTTTAT
651 TTCTGCTACTGCACTAATATTGAAGATCGATTTTATATTTGGATTTTCAAGAACAATGTTTTTAT
33634462 ATTTTGATTTCAAGAAAAGGGTTCGTAACCGAAACCTCAGAACGGAGTTTTGTTTGGCTTTTTAT
716 ATTTTGATTTCAAGAAAAGGGTTCGTAACCGAAACCTCAGAACGGAGTTTTGTTTGGCTTTTTAT
33634527 AGCCATTTATTACAATCATTCTGTTTTGTTTCATTCATTTTAATGCATTTCTAATCTTTCTTTTC
781 AGCCATTTATTACAATCATTCTGTTTTGTTTCATTCATTTTAATGCATTTCTAATCTTTCTTTTC
33634592 TCTTTGCAGGTTCGACAGTGGCAA
846 TCTTTGCAGGTTCGACAGTGGCAA
33634616 CTGGAAATTTTCCTTTTATTTCTTATTTCGCTTTCATTTTGTTTGTTTTGTTTTCAAAGGGAAAT
1 CTGGAAATTTTCCTTTTATTTCTTATTTCGCTTTCATTTTGTTTGTTTTGTTTTCAAAGGGAAAT
33634681 CGGCTTTAATCATTTTGCTTTGTTTCTTGTGTACTAAATACCATTTTTCTGGGTTAGCCGCGTTC
66 CGGCTTTAATCATTTTGCTTTGTTTCTTGTGTACTAAATACCATTTTTCTGGGTTAGCCGCGTTC
33634746 AAGGTGGATAGATCGGCGATATGCGAGGCTTGGGACGGCGATGGCTCGGCGGTTATGTCGGCGGC
131 AAGGTGGATAGATCGGCGATATGCGAGGCTTGGGACGGCGATGGCTCGGCGGTTATGTCGGCGGC
33634811 TCCGACGATGGTACAGCAAGGAAGGGTCTTCTCTGTCCTTTCAATTTCTTCTTTTTTATTTAATA
196 TCCGACGATGGTACAGCAAGGAAGGGTCTTCTCTGTCCTTTCAATTTCTTCTTTTTTATTTAATA
*
33634876 ATAATTATTAAAAATATTATTATAACATTTATTATTAGCATTAAAAAATTTAAGATTATTATTTA
261 ATAATTATTAAAAATATTATTATAACATTTATTACTAGCATTAAAAAATTTAAGATTATTATTTA
33634941 ATAAACTCTGTAAATATTTATTACCATTACCGTTTTTATGACTTCCATTGTTATCACCGAAATAT
326 ATAAACTCTGTAAATATTTATTACCATTACCGTTTTTATGACTTCCATTGTTATCACCGAAATAT
33635006 TCATTATTATTTAACACTAGTAATGTGAGAAATTAATGTTAATATTAATAATATTTATTAATATG
391 TCATTATTATTTAACACTAGTAATGTGAGAAATTAATGTTAATATTAATAATATTTATTAATATG
33635071 TTTTGAAAGACGAAATAATAAATACCCAGATGGATAGTAAATGCATGTTATTAACACAATTAAAA
456 TTTTGAAAGACGAAATAATAAATACCCAGATGGATAGTAAATGCATGTTATTAACACAATTAAAA
33635136 ACTGATGGACTCATATGCTTGAATCATGAATAACAATAAATATATTAGCAGTACCTGATTGCTTT
521 ACTGATGGACTCATATGCTTGAATCATGAATAACAATAAATATATTAGCAGTACCTGATTGCTTT
*
33635201 TATGCTTGAACTTTGAGTCTTTTCGGCTATTGATTCTGGGTGTTCGAATACTGTAAGTGAGTTTA
586 TATGCTTGAACTTTGAGTCTTTTCGGCTACTGATTCTGGGTGTTCGAATACTGTAAGTGAGTTTA
33635266 TTCTGCTACTGCACTAATATTGAAGATCGATTTTATATTTGGATTTTCAAGAACAATGTTTTTAT
651 TTCTGCTACTGCACTAATATTGAAGATCGATTTTATATTTGGATTTTCAAGAACAATGTTTTTAT
33635331 ATTTTGATTTCAAGAAAAGGGTTCGTAACCGAAACCTCAGAACGGAGTTTTGTTTGGCTTTTTAT
716 ATTTTGATTTCAAGAAAAGGGTTCGTAACCGAAACCTCAGAACGGAGTTTTGTTTGGCTTTTTAT
33635396 AGCCATTTATTACAATCATTCTGTTTTGTTTCATTCATTTTAATGCATTTCTAATCTTTCTTTTC
781 AGCCATTTATTACAATCATTCTGTTTTGTTTCATTCATTTTAATGCATTTCTAATCTTTCTTTTC
33635461 TCTTTGCAGGTTCGACAGTGGC
846 TCTTTGCAGGTTCGACAGTGGC
33635483 GGTTTGGAGC
Statistics
Matches: 862, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
869 862 1.00
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.41
Consensus pattern (869 bp):
CTGGAAATTTTCCTTTTATTTCTTATTTCGCTTTCATTTTGTTTGTTTTGTTTTCAAAGGGAAAT
CGGCTTTAATCATTTTGCTTTGTTTCTTGTGTACTAAATACCATTTTTCTGGGTTAGCCGCGTTC
AAGGTGGATAGATCGGCGATATGCGAGGCTTGGGACGGCGATGGCTCGGCGGTTATGTCGGCGGC
TCCGACGATGGTACAGCAAGGAAGGGTCTTCTCTGTCCTTTCAATTTCTTCTTTTTTATTTAATA
ATAATTATTAAAAATATTATTATAACATTTATTACTAGCATTAAAAAATTTAAGATTATTATTTA
ATAAACTCTGTAAATATTTATTACCATTACCGTTTTTATGACTTCCATTGTTATCACCGAAATAT
TCATTATTATTTAACACTAGTAATGTGAGAAATTAATGTTAATATTAATAATATTTATTAATATG
TTTTGAAAGACGAAATAATAAATACCCAGATGGATAGTAAATGCATGTTATTAACACAATTAAAA
ACTGATGGACTCATATGCTTGAATCATGAATAACAATAAATATATTAGCAGTACCTGATTGCTTT
TATGCTTGAACTTTGAGTCTTTTCGGCTACTGATTCTGGGTGTTCGAATACTGTAAGTGAGTTTA
TTCTGCTACTGCACTAATATTGAAGATCGATTTTATATTTGGATTTTCAAGAACAATGTTTTTAT
ATTTTGATTTCAAGAAAAGGGTTCGTAACCGAAACCTCAGAACGGAGTTTTGTTTGGCTTTTTAT
AGCCATTTATTACAATCATTCTGTTTTGTTTCATTCATTTTAATGCATTTCTAATCTTTCTTTTC
TCTTTGCAGGTTCGACAGTGGCAA
Found at i:33635717 original size:17 final size:17
Alignment explanation
Indices: 33635690--33635819 Score: 154
Period size: 17 Copynumber: 7.5 Consensus size: 17
33635680 TGGACTTTTG
* *
33635690 AATTTAGATTTATAATA
1 AATTTAAATTTAAAATA
*
33635707 ATTTTAAATTTGAAAATA
1 AATTTAAATTT-AAAATA
* * *
33635725 AATTTAAACTCAAATTA
1 AATTTAAATTTAAAATA
33635742 AATTTAAATTTAAAAATA
1 AATTTAAATTT-AAAATA
33635760 AATTTAAATTTAAAATA
1 AATTTAAATTTAAAATA
*
33635777 AATTTAAATTTTAAAACA
1 AATTTAAA-TTTAAAATA
33635795 AATTT-AATCTTAAAATA
1 AATTTAAAT-TTAAAATA
33635812 AATTTAAA
1 AATTTAAA
33635820 ATGGGTTTGG
Statistics
Matches: 96, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
16 1 0.01
17 51 0.53
18 44 0.46
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.41
Consensus pattern (17 bp):
AATTTAAATTTAAAATA
Found at i:33635730 original size:35 final size:35
Alignment explanation
Indices: 33635690--33635819 Score: 163
Period size: 35 Copynumber: 3.7 Consensus size: 35
33635680 TGGACTTTTG
* * * *
33635690 AATTTAGATTTATAATAATTTTAAATTTGAAAATA
1 AATTTAAATTTAAAATAAATTTAAATTTAAAAATA
* * *
33635725 AATTTAAACTCAAATTAAATTTAAATTTAAAAATA
1 AATTTAAATTTAAAATAAATTTAAATTTAAAAATA
* *
33635760 AATTTAAATTTAAAATAAATTTAAATTTTAAAACA
1 AATTTAAATTTAAAATAAATTTAAATTTAAAAATA
33635795 AATTT-AATCTTAAAATAAATTTAAA
1 AATTTAAAT-TTAAAATAAATTTAAA
33635820 ATGGGTTTGG
Statistics
Matches: 82, Mismatches: 12, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
34 3 0.04
35 79 0.96
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.41
Consensus pattern (35 bp):
AATTTAAATTTAAAATAAATTTAAATTTAAAAATA
Found at i:33635791 original size:7 final size:6
Alignment explanation
Indices: 33635709--33635787 Score: 74
Period size: 6 Copynumber: 13.5 Consensus size: 6
33635699 TTATAATAAT
* * *
33635709 TTTAAA TTTGAAA -ATAAA TTTAAA CTCAAA -TTAAA TTTAAA TTTAAA
1 TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
** *
33635756 AATAAA TTTAAA TTTAAA -ATAAA TTTAAA TTT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT
33635788 TAAAACAAAT
Statistics
Matches: 58, Mismatches: 11, Indels: 8
0.75 0.14 0.10
Matches are distributed among these distances:
5 11 0.19
6 44 0.76
7 3 0.05
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (6 bp):
TTTAAA
Found at i:33636542 original size:76 final size:75
Alignment explanation
Indices: 33636082--33637151 Score: 1565
Period size: 76 Copynumber: 14.1 Consensus size: 75
33636072 TTAGGCTTCG
*
33636082 TCTTGCTCTTACTTCAATTTCAGAGATAACGACCTT-TTATCCAACTCTACTTCAAATTTCAAGA
1 TCTTGCTCTTACTTCAATTTCAGAGATAAAGA-CTTGTTATCCAACTCTACTTC-AATTTCAAGA
* *
33636146 GTATAGGCAATGA
64 GGAT-GGAAATGA
* * *
33636159 TGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGCGG
1 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGG
*
33636223 ATAGGAAAAGA
66 AT-GGAAATGA
* * * * *
33636234 TCTTGCTCTTACTTCAACTTCAGAGAGATAAGACTTGATATCCAGCTTTACTTCAATTTCAAGAG
1 TCTTGCTCTTACTTCAATTTCAGAGATA-AAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
*
33636299 GATAGGAAATAA
65 GAT-GGAAATGA
* * * *
33636311 TCTTGCTCTTACTTCAATTTCAGACATAAAGACGTGTTGTCC-ACTCTACTTCAATTTCAAGCGG
1 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGG
*
33636375 ATAGGAAAAGA
66 AT-GGAAATGA
* * *
33636386 TCTTGCTCTTACTTCAATTTCAGAGAGATAAGACTTGATATCCAGCTCTACTTCAATTTCAAGAG
1 TCTTGCTCTTACTTCAATTTCAGAGATA-AAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
*
33636451 GATAGGAAATAA
65 GAT-GGAAATGA
33636463 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGG
1 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGG
33636528 ATGTGAAATGA
66 ATG-GAAATGA
*
33636539 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCGAGAGG
1 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGG
33636604 ATGTGAAATGA
66 ATG-GAAATGA
*
33636615 TCTTGCTCTTACTTCAA-TTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCGAGAGG
1 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGG
33636679 ATGTGAAATGA
66 ATG-GAAATGA
33636690 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGG
1 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGG
33636755 ATGTGAAATGA
66 ATG-GAAATGA
33636766 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGG
1 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGG
33636831 ATGTGAAATGA
66 ATG-GAAATGA
* ** * *
33636842 TCTTGCTCTTACTTCACTTTCAGAGATAAAGACTTGACATCCAGCTTTACTTCAATTTCAAGAGG
1 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGG
*
33636907 ATGGGAAACGA
66 AT-GGAAATGA
* * * *
33636918 TCTTGCTCTTACTTCAATTTCAGAGATAAAGGCTTGATATCCAGCTTTACTTCAATTTCAAGAGG
1 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGG
33636983 ATGGGAAATGA
66 AT-GGAAATGA
* * * *
33636994 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGATATCCAGCTTTACTTCAATTTCAAGAGG
1 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGG
*
33637059 ATGGGAAACGA
66 AT-GGAAATGA
* * *
33637070 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCC-ACTCTACTTTAATTTCAAGCGG
1 TCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGG
33637134 ATAGGAAATGA
66 AT-GGAAATGA
33637145 TCTTGCT
1 TCTTGCT
33637152 GCGGTCTGAT
Statistics
Matches: 922, Mismatches: 63, Indels: 18
0.92 0.06 0.02
Matches are distributed among these distances:
75 208 0.23
76 568 0.62
77 146 0.16
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (75 bp):
TCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGG
ATGGAAATGA
Found at i:33641978 original size:14 final size:15
Alignment explanation
Indices: 33641948--33641981 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
33641938 TGTCGTGCTC
*
33641948 TTCTTGTCTCTTTCT
1 TTCTTGTCTATTTCT
33641963 TTCTT-TCTATTTCT
1 TTCTTGTCTATTTCT
33641977 TTCTT
1 TTCTT
33641982 CCTTTCTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.03, C:0.24, G:0.03, T:0.71
Consensus pattern (15 bp):
TTCTTGTCTATTTCT
Found at i:33648702 original size:30 final size:29
Alignment explanation
Indices: 33648654--33648762 Score: 105
Period size: 30 Copynumber: 3.7 Consensus size: 29
33648644 TGGACACCCG
* *
33648654 GGGGGTAAAATAGTAATTTTTGGTAAAATC
1 GGGGTTAAAAT-GGAATTTTTGGTAAAATC
* *
33648684 GGGGTTGAAAATGGAA-TTTTGG-AAAGTTA
1 GGGGTT-AAAATGGAATTTTTGGTAAA-ATC
* *
33648713 GGGGGTAAAATGATAATTTTTGGTAAAATC
1 GGGGTTAAAATG-GAATTTTTGGTAAAATC
33648743 GGGGTTAAAAATGGAATTTT
1 GGGGTT-AAAATGGAATTTT
33648763 GGAAAGTTCG
Statistics
Matches: 63, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
28 9 0.14
29 14 0.22
30 26 0.41
31 14 0.22
ACGTcount: A:0.36, C:0.02, G:0.29, T:0.33
Consensus pattern (29 bp):
GGGGTTAAAATGGAATTTTTGGTAAAATC
Found at i:33648717 original size:59 final size:59
Alignment explanation
Indices: 33648654--33648770 Score: 209
Period size: 59 Copynumber: 2.0 Consensus size: 59
33648644 TGGACACCCG
*
33648654 GGGGGTAAAAT-AGTAATTTTTGGTAAAATCGGGGTTGAAAATGGAATTTTGGAAAGTTA
1 GGGGGTAAAATGA-TAATTTTTGGTAAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTA
33648713 GGGGGTAAAATGATAATTTTTGGTAAAATCGGGGTTAAAAATGGAATTTTGGAAAGTT
1 GGGGGTAAAATGATAATTTTTGGTAAAATCGGGGTTAAAAATGGAATTTTGGAAAGTT
33648771 CGGGAAGTTC
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
59 55 0.98
60 1 0.02
ACGTcount: A:0.36, C:0.02, G:0.30, T:0.32
Consensus pattern (59 bp):
GGGGGTAAAATGATAATTTTTGGTAAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTA
Found at i:33648763 original size:29 final size:28
Alignment explanation
Indices: 33648671--33648764 Score: 100
Period size: 29 Copynumber: 3.2 Consensus size: 28
33648661 AAATAGTAAT
33648671 TTTTGGTAAAATCGGGGTTGAAAATGGAA
1 TTTTGGTAAAATCGGGGTT-AAAATGGAA
* * * *
33648700 TTTTGG-AAAGTTAGGGGGTAAAATGATAA
1 TTTTGGTAAA-ATCGGGGTTAAAATG-GAA
33648729 TTTTTGGTAAAATCGGGGTTAAAAATGGAA
1 -TTTTGGTAAAATCGGGGTT-AAAATGGAA
33648759 TTTTGG
1 TTTTGG
33648765 AAAGTTCGGG
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
28 9 0.17
29 20 0.38
30 14 0.27
31 9 0.17
ACGTcount: A:0.34, C:0.02, G:0.30, T:0.34
Consensus pattern (28 bp):
TTTTGGTAAAATCGGGGTTAAAATGGAA
Found at i:33648773 original size:29 final size:28
Alignment explanation
Indices: 33648682--33648774 Score: 98
Period size: 29 Copynumber: 3.2 Consensus size: 28
33648672 TTTGGTAAAA
33648682 TCGGGGTTGAAAATGGAATTTTGGAAAGT
1 TCGGGGTT-AAAATGGAATTTTGGAAAGT
* * * *
33648711 TAGGGGGTAAAATGATAATTTTTGGTAAA-A
1 TCGGGGTTAAAATG-GAA-TTTTGG-AAAGT
33648741 TCGGGGTTAAAAATGGAATTTTGGAAAGT
1 TCGGGGTT-AAAATGGAATTTTGGAAAGT
33648770 TCGGG
1 TCGGG
33648775 AAGTTCGGGG
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
28 9 0.18
29 19 0.37
30 14 0.27
31 9 0.18
ACGTcount: A:0.33, C:0.03, G:0.32, T:0.31
Consensus pattern (28 bp):
TCGGGGTTAAAATGGAATTTTGGAAAGT
Found at i:33650708 original size:17 final size:17
Alignment explanation
Indices: 33650681--33650810 Score: 163
Period size: 17 Copynumber: 7.5 Consensus size: 17
33650671 TGGACTTTTG
* *
33650681 AATTTAGATTTATAATA
1 AATTTAAATTTAAAATA
*
33650698 ATTTTAAATTTGAAAATA
1 AATTTAAATTT-AAAATA
* * *
33650716 AATTTAAACTCAAATTA
1 AATTTAAATTTAAAATA
33650733 AATTTAAATTTAAAAATA
1 AATTTAAATTT-AAAATA
33650751 AATTTAAATTTAAAATA
1 AATTTAAATTTAAAATA
33650768 AATTTAAATTTTAAAATA
1 AATTTAAA-TTTAAAATA
33650786 AATTT-AATCTTAAAATA
1 AATTTAAAT-TTAAAATA
33650803 AATTTAAA
1 AATTTAAA
33650811 ATGGGTTTGA
Statistics
Matches: 98, Mismatches: 10, Indels: 9
0.84 0.09 0.08
Matches are distributed among these distances:
16 1 0.01
17 52 0.53
18 45 0.46
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (17 bp):
AATTTAAATTTAAAATA
Found at i:33650719 original size:12 final size:11
Alignment explanation
Indices: 33650702--33650792 Score: 60
Period size: 11 Copynumber: 7.8 Consensus size: 11
33650692 ATAATAATTT
33650702 TAAATTTGAAAA
1 TAAATTT-AAAA
*
33650714 TAAATTTAAAC
1 TAAATTTAAAA
*
33650725 TCAAA-TTAAATT
1 T-AAATTTAAA-A
33650737 TAAATTTAAAAA
1 TAAATTT-AAAA
*
33650749 TAAATTTAAATT
1 TAAATTTAAA-A
* *
33650761 TAAA-ATAAATT
1 TAAATTTAAA-A
33650772 TAAATTTTAAAA
1 TAAA-TTTAAAA
33650784 TAAATTTAA
1 TAAATTTAA
33650793 TCTTAAAATA
Statistics
Matches: 65, Mismatches: 7, Indels: 15
0.75 0.08 0.17
Matches are distributed among these distances:
11 30 0.46
12 28 0.43
13 7 0.11
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:33650721 original size:35 final size:35
Alignment explanation
Indices: 33650681--33650810 Score: 172
Period size: 35 Copynumber: 3.7 Consensus size: 35
33650671 TGGACTTTTG
* * * *
33650681 AATTTAGATTTATAATAATTTTAAATTTGAAAATA
1 AATTTAAATTTAAAATAAATTTAAATTTAAAAATA
* * *
33650716 AATTTAAACTCAAATTAAATTTAAATTTAAAAATA
1 AATTTAAATTTAAAATAAATTTAAATTTAAAAATA
*
33650751 AATTTAAATTTAAAATAAATTTAAATTTTAAAATA
1 AATTTAAATTTAAAATAAATTTAAATTTAAAAATA
33650786 AATTT-AATCTTAAAATAAATTTAAA
1 AATTTAAAT-TTAAAATAAATTTAAA
33650811 ATGGGTTTGA
Statistics
Matches: 83, Mismatches: 11, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
34 3 0.04
35 80 0.96
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (35 bp):
AATTTAAATTTAAAATAAATTTAAATTTAAAAATA
Found at i:33650780 original size:7 final size:6
Alignment explanation
Indices: 33650700--33650810 Score: 81
Period size: 6 Copynumber: 19.0 Consensus size: 6
33650690 TTATAATAAT
* * *
33650700 TTTAAA TTTGAAA -ATAAA TTTAAA CTCAAA -TTAAA TTTAAA TTTAAA
1 TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
** * *
33650747 AATAAA TTTAAA TTTAAA -ATAAA TTTAAA TTTTAAA -ATAAA TTT-AA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA -TTTAAA TTTAAA TTTAAA
*
33650793 TCTTAAA -ATAAA TTTAAA
1 T-TTAAA TTTAAA TTTAAA
33650811 ATGGGTTTGA
Statistics
Matches: 81, Mismatches: 15, Indels: 18
0.71 0.13 0.16
Matches are distributed among these distances:
5 22 0.27
6 48 0.59
7 11 0.14
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.41
Consensus pattern (6 bp):
TTTAAA
Found at i:33653535 original size:26 final size:27
Alignment explanation
Indices: 33653489--33653540 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 27
33653479 AACTTAAATT
*
33653489 CCTAATTATCTTATCTAAA-TTAAAAC
1 CCTAATTATCTAATCTAAATTTAAAAC
*
33653515 CCTAATTATCCTAAT-TTAATTTAAAA
1 CCTAATTAT-CTAATCTAAATTTAAAA
33653541 TCTTAATCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.40
Consensus pattern (27 bp):
CCTAATTATCTAATCTAAATTTAAAAC
Found at i:33655319 original size:229 final size:229
Alignment explanation
Indices: 33654917--33655363 Score: 551
Period size: 229 Copynumber: 2.0 Consensus size: 229
33654907 AATAATTAAT
* *
33654917 ATATAATGTACTACTATTATATATAACTATTATTATATTATAGGTTATAATAAAACAAATATAGT
1 ATATAATGTACTACTATTATATATAACTATTATTATATTATAGATTATAATAAAACAAATATACT
33654982 ATTACATGATATTATAATGTTTAATCAGTGATGCATATACATATAAACTATTAATATATTATATA
66 ATTACATGATATTATAATGTTTAATCAGTGATGCATATACATATAAACTATTAATATATTATATA
* * * ** * * * *
33655047 TTATATGATATAGTCTAACATTATATAATATACTTTCAAATGTATGAAAAGTGTAAGAATTTAGA
131 CTATATGATATAATATAACAAGAGATAATATACTTTCAAATGTACGAAAAGTATAAGAACTTAGA
*
33655112 GTATATTTCAACCAATATAATAATGAACAATAAA
196 GCATATTTCAACCAATATAATAATGAACAATAAA
* ** *
33655146 ATATAATGTATTACTATTATATATAACTATTATTATATTATAGATTATAAT-AAA-TGATATTCT
1 ATATAATGTACTACTATTATATATAACTATTATTATATTATAGATTATAATAAAACAAATATACT
* * * * * *
33655209 ATTAGATTATATTATATTGTTTAATCATTGATGCATATATATATATATAAACTATTAGTATATTA
66 ATTACATGATATTATAATGTTTAATCAGTGATGC----ATATACATATAAACTATTAATATATTA
* ** * * *
33655274 TATGCTATATGATATAATATAGTAAGAGGT-CTA-ACTTTGAAATGTACGAAAAGTATAAGAACT
127 TATACTATATGATATAATATAACAAGAGATAATATACTTTCAAATGTACGAAAAGTATAAGAACT
* * *
33655337 TGGCGCATATTTCAACCAGTATAATAA
192 TAGAGCATATTTCAACCAATATAATAA
33655364 AAAATAATAA
Statistics
Matches: 183, Mismatches: 31, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
227 35 0.19
228 3 0.02
229 98 0.54
230 2 0.01
231 45 0.25
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.40
Consensus pattern (229 bp):
ATATAATGTACTACTATTATATATAACTATTATTATATTATAGATTATAATAAAACAAATATACT
ATTACATGATATTATAATGTTTAATCAGTGATGCATATACATATAAACTATTAATATATTATATA
CTATATGATATAATATAACAAGAGATAATATACTTTCAAATGTACGAAAAGTATAAGAACTTAGA
GCATATTTCAACCAATATAATAATGAACAATAAA
Found at i:33656813 original size:25 final size:26
Alignment explanation
Indices: 33656763--33656812 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
33656753 AAAAACAGTT
33656763 TTAAAAAATAAAACAAATTTGAAAAG
1 TTAAAAAATAAAACAAATTTGAAAAG
*
33656789 TTAAAAAATAAAACAGATTTGAAA
1 TTAAAAAATAAAACAAATTTGAAA
33656813 GCAAAGAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.64, C:0.04, G:0.08, T:0.24
Consensus pattern (26 bp):
TTAAAAAATAAAACAAATTTGAAAAG
Found at i:33656822 original size:26 final size:26
Alignment explanation
Indices: 33656765--33656828 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 26
33656755 AAACAGTTTT
**
33656765 AAAAAATAAAACAAATTTGAAAAGTT
1 AAAAAATAAAACAAATTTGAAAAGCA
*
33656791 AAAAAATAAAACAGATTTG-AAAGCA
1 AAAAAATAAAACAAATTTGAAAAGCA
33656816 AAGAAAATTAAAA
1 AA-AAAA-TAAAA
33656829 TAAAAAGAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
25 6 0.18
26 22 0.67
27 5 0.15
ACGTcount: A:0.67, C:0.05, G:0.09, T:0.19
Consensus pattern (26 bp):
AAAAAATAAAACAAATTTGAAAAGCA
Found at i:33657406 original size:58 final size:59
Alignment explanation
Indices: 33657352--33657466 Score: 146
Period size: 59 Copynumber: 2.0 Consensus size: 59
33657342 CTTTAAAGTT
* *
33657352 TTTC-AAAATCACATTTTAACCC-CAAGCTT-TTTCAAAATTTCATTTTGACCTTAAACC
1 TTTCTAAAATCACATTTTAACCCTCAAACTTCTCT-AAAATTTCATTTTGACCTTAAACC
* * *
33657409 TTTCTAAAATCACATTTTGACCCTTAAACTTCTCTAAAATTACATTTTGACCCTTAAA
1 TTTCTAAAATCACATTTTAACCCTCAAACTTCTCTAAAATTTCATTTTGA-CCTTAAA
33657467 TTTCCCAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
57 4 0.08
58 17 0.35
59 19 0.39
60 9 0.18
ACGTcount: A:0.34, C:0.23, G:0.03, T:0.39
Consensus pattern (59 bp):
TTTCTAAAATCACATTTTAACCCTCAAACTTCTCTAAAATTTCATTTTGACCTTAAACC
Found at i:33657417 original size:29 final size:29
Alignment explanation
Indices: 33657381--33657602 Score: 145
Period size: 30 Copynumber: 7.6 Consensus size: 29
33657371 CCCCAAGCTT
*
33657381 TTTC-AAAATTTCATTTTGA-CCTTAAACC
1 TTTCTAAAATTACATTTTGACCCTTAAA-C
*
33657409 TTTCTAAAATCACATTTTGACCCTTAAAC
1 TTTCTAAAATTACATTTTGACCCTTAAAC
33657438 TTCTCTAAAATTACATTTTGACCCTTAAA-
1 TT-TCTAAAATTACATTTTGACCCTTAAAC
* ** ** *
33657467 TTTCCCAAAACCATTTTTTAACCC-TAAACC
1 TTT-CTAAAATTACATTTTGACCCTTAAA-C
* * * * *
33657497 TTCCCAAAGTCACATTTTGACCCCTAAAC
1 TTTCTAAAATTACATTTTGACCCTTAAAC
** * *
33657526 TTTCCTAAAATTATTTTTTTATCCC-TAAAT
1 TTT-CTAAAATTACATTTTGA-CCCTTAAAC
*
33657556 TTTCCTAAAATTACATTTTAACCC-TAAA-
1 TTT-CTAAAATTACATTTTGACCCTTAAAC
33657584 TTATCTAAAACTT-CATTTT
1 TT-TCTAAAA-TTACATTTT
33657603 TTGACCCCAT
Statistics
Matches: 157, Mismatches: 26, Indels: 22
0.77 0.13 0.11
Matches are distributed among these distances:
28 23 0.15
29 60 0.38
30 71 0.45
31 3 0.02
ACGTcount: A:0.33, C:0.24, G:0.02, T:0.41
Consensus pattern (29 bp):
TTTCTAAAATTACATTTTGACCCTTAAAC
Found at i:33657436 original size:30 final size:29
Alignment explanation
Indices: 33657337--33657593 Score: 141
Period size: 30 Copynumber: 8.8 Consensus size: 29
33657327 AAAATTTCAC
* * *
33657337 TTGACCTTTAAAGTTTTTCAAAATCACATT
1 TTGACCCTTAAACTTTCT-AAAATCACATT
* * * * **
33657367 TTAACCC-CAAGCTTTTTCAAAATTTCATT
1 TTGACCCTTAAACTTTCT-AAAATCACATT
33657396 TTGA-CCTTAAACCTTTCTAAAATCACATT
1 TTGACCCTTAAA-CTTTCTAAAATCACATT
*
33657425 TTGACCCTTAAACTTCTCTAAAATTACATT
1 TTGACCCTTAAACTT-TCTAAAATCACATT
* * **
33657455 TTGACCCTTAAA-TTTCCCAAAACCATTTT
1 TTGACCCTTAAACTTT-CTAAAATCACATT
* * * *
33657484 TTAACCC-TAAACCTTCCCAAAGTCACATT
1 TTGACCCTTAAA-CTTTCTAAAATCACATT
* * **
33657513 TTGACCCCTAAACTTTCCTAAAATTATTTT
1 TTGACCCTTAAACTTT-CTAAAATCACATT
* * *
33657543 TTTATCCC-TAAATTTTCCTAAAATTACATT
1 TTGA-CCCTTAAACTTT-CTAAAATCACATT
*
33657573 TTAACCC-TAAA-TTATCTAAAA
1 TTGACCCTTAAACTT-TCTAAAA
33657594 CTTCATTTTT
Statistics
Matches: 179, Mismatches: 37, Indels: 24
0.75 0.15 0.10
Matches are distributed among these distances:
28 15 0.08
29 80 0.45
30 81 0.45
31 3 0.02
ACGTcount: A:0.34, C:0.24, G:0.03, T:0.39
Consensus pattern (29 bp):
TTGACCCTTAAACTTTCTAAAATCACATT
Found at i:33657455 original size:59 final size:58
Alignment explanation
Indices: 33657352--33657529 Score: 150
Period size: 58 Copynumber: 3.1 Consensus size: 58
33657342 CTTTAAAGTT
* * *
33657352 TTTCAAAATCACATTTTAACCCCAAGCTTTTTCAAAATTTCATTTTGA-CCTTAAACC
1 TTTCAAAATCACATTTTAACCCCAAACTTTCTCAAAATTACATTTTGACCCTTAAACC
* *
33657409 TTTCTAAAATCACATTTTGACCCTTAAAC-TTCTCTAAAATTACATTTTGACCCTTAAA--
1 TTTC-AAAATCACATTTTAACCC-CAAACTTTCTC-AAAATTACATTTTGACCCTTAAACC
* ** * * * * * *
33657467 TTTCCCAAAACCATTTTTTAACCCTAAACCTTCCCAAAGTCACATTTTGACCCCTAAA-C
1 TTT--CAAAATCACATTTTAACCCCAAACTTTCTCAAAATTACATTTTGACCCTTAAACC
33657526 TTTC
1 TTTC
33657530 CTAAAATTAT
Statistics
Matches: 100, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
57 5 0.05
58 49 0.49
59 38 0.38
60 8 0.08
ACGTcount: A:0.33, C:0.27, G:0.03, T:0.37
Consensus pattern (58 bp):
TTTCAAAATCACATTTTAACCCCAAACTTTCTCAAAATTACATTTTGACCCTTAAACC
Found at i:33657476 original size:88 final size:89
Alignment explanation
Indices: 33657384--33657583 Score: 226
Period size: 88 Copynumber: 2.3 Consensus size: 89
33657374 CAAGCTTTTT
* * * * * *
33657384 CAAAATTTCATTTTGACCTTAAACCTTTCTAAAATCACATTTTGACCCTTAAAC-TTCTCTAAAA
1 CAAAATTACATTTTAACCCTAAACCTTCCCAAAATCACATTTTGACCCCTAAACTTTC-CTAAAA
33657448 TTACATTTTGA-CCCTTAAA-TTTCC
65 TTACATTTTGATCCC-TAAATTTTCC
** ** *
33657472 CAAAACCATTTTTTAACCCTAAACCTTCCCAAAGTCACATTTTGACCCCTAAACTTTCCTAAAAT
1 CAAAATTACATTTTAACCCTAAACCTTCCCAAAATCACATTTTGACCCCTAAACTTTCCTAAAAT
** *
33657537 TATTTTTTTATCCCTAAATTTTCC
66 TACATTTTGATCCCTAAATTTTCC
*
33657561 TAAAATTACATTTTAACCCTAAA
1 CAAAATTACATTTTAACCCTAAA
33657584 TTATCTAAAA
Statistics
Matches: 90, Mismatches: 19, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
88 61 0.68
89 29 0.32
ACGTcount: A:0.34, C:0.25, G:0.03, T:0.39
Consensus pattern (89 bp):
CAAAATTACATTTTAACCCTAAACCTTCCCAAAATCACATTTTGACCCCTAAACTTTCCTAAAAT
TACATTTTGATCCCTAAATTTTCC
Found at i:33657583 original size:59 final size:58
Alignment explanation
Indices: 33657423--33657604 Score: 163
Period size: 59 Copynumber: 3.1 Consensus size: 58
33657413 TAAAATCACA
* * * **
33657423 TTTTGACCCTTAAA-CTTCTCTAAAATTACATTTTGACCCTTAAATTTCCCAAAACCA-TT
1 TTTTAACCC-TAAACCTTC-CTAAAATTACATTTTAACCC-TAAATTTCCTAAAATTATTT
* * * *
33657482 TTTTAACCCTAAACCTTCCCAAAGTCACATTTTGACCCCTAAACTTTCCTAAAATTATTT
1 TTTTAACCCTAAACCTTCCTAAAATTACATTTT-AACCCTAAA-TTTCCTAAAATTATTT
* **
33657542 TTTTATCCCTAAATTTTCCTAAAATTACATTTTAACCCTAAATTAT-CTAAAACTTCATTT
1 TTTTAACCCTAAACCTTCCTAAAATTACATTTTAACCCTAAATT-TCCTAAAA-TT-ATTT
33657602 TTT
1 TTT
33657605 GACCCCATTT
Statistics
Matches: 100, Mismatches: 16, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
58 28 0.28
59 36 0.36
60 36 0.36
ACGTcount: A:0.32, C:0.24, G:0.02, T:0.41
Consensus pattern (58 bp):
TTTTAACCCTAAACCTTCCTAAAATTACATTTTAACCCTAAATTTCCTAAAATTATTT
Found at i:33672929 original size:15 final size:15
Alignment explanation
Indices: 33672909--33672939 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
33672899 ATTAAAAGGG
33672909 TAAAATTAAAATATT
1 TAAAATTAAAATATT
*
33672924 TAAAATTATAATATT
1 TAAAATTAAAATATT
33672939 T
1 T
33672940 TGATTTCGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TAAAATTAAAATATT
Found at i:33682970 original size:21 final size:22
Alignment explanation
Indices: 33682944--33682985 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
33682934 ACTCTGATAA
*
33682944 CAGGAACTCTAG-AAATATATG
1 CAGGAACTCTAGTAAACATATG
33682965 CAGGAACTCTAGTAAACATAT
1 CAGGAACTCTAGTAAACATAT
33682986 CACATAACCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.24
Consensus pattern (22 bp):
CAGGAACTCTAGTAAACATATG
Found at i:33684007 original size:16 final size:16
Alignment explanation
Indices: 33683982--33684018 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
33683972 GGAGATTTTC
*
33683982 TTTTCTTTTTCTATCT
1 TTTTCCTTTTCTATCT
*
33683998 TTTTCCTTTTCTTTCT
1 TTTTCCTTTTCTATCT
33684014 TTTTC
1 TTTTC
33684019 TCCCTCTCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTCCTTTTCTATCT
Found at i:33684208 original size:24 final size:24
Alignment explanation
Indices: 33684175--33684225 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
33684165 AGAAATAATC
* * *
33684175 TTTCAGTTAAACTTTGTTTATTTG
1 TTTCAATTAAACTCTATTTATTTG
33684199 TTTCAATTAAACTCTATTTATTTG
1 TTTCAATTAAACTCTATTTATTTG
33684223 TTT
1 TTT
33684226 GAGTCAAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.24, C:0.10, G:0.08, T:0.59
Consensus pattern (24 bp):
TTTCAATTAAACTCTATTTATTTG
Found at i:33684234 original size:24 final size:24
Alignment explanation
Indices: 33684191--33684237 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
33684181 TTAAACTTTG
*
33684191 TTTATTTGTTTCAATTAAACTCTA
1 TTTATTTGTTTCAATCAAACTCTA
* *
33684215 TTTATTTGTTTGAGTCAAACTCT
1 TTTATTTGTTTCAATCAAACTCT
33684238 TATTACTCTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.09, T:0.53
Consensus pattern (24 bp):
TTTATTTGTTTCAATCAAACTCTA
Found at i:33686010 original size:24 final size:24
Alignment explanation
Indices: 33685983--33686044 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
33685973 GAAATAATCA
*
33685983 TTCAGTTAAACTCTGTTTATTTGT
1 TTCAGTTAAACTCTATTTATTTGT
*
33686007 TTCAATTAAACTCTATTTATTTGT
1 TTCAGTTAAACTCTATTTATTTGT
* *
33686031 TTGAGTCAAACTCT
1 TTCAGTTAAACTCT
33686045 TATTACTCTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.26, C:0.15, G:0.10, T:0.50
Consensus pattern (24 bp):
TTCAGTTAAACTCTATTTATTTGT
Found at i:33686757 original size:30 final size:30
Alignment explanation
Indices: 33686714--33686773 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
33686704 AAAAATGGTC
*
33686714 AATTTGCATTTTAGTCCTT-TAACTTTCAA
1 AATTTGCAATTTAGTCCTTATAACTTTCAA
*
33686743 AATTGTGCAATTTAGTCTTTACTAACTTTCA
1 AATT-TGCAATTTAGTCCTTA-TAACTTTCA
33686774 TTATTCATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 4 0.15
30 13 0.50
32 9 0.35
ACGTcount: A:0.28, C:0.17, G:0.08, T:0.47
Consensus pattern (30 bp):
AATTTGCAATTTAGTCCTTATAACTTTCAA
Found at i:33691327 original size:14 final size:14
Alignment explanation
Indices: 33691308--33691340 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
33691298 CACCCAAATG
33691308 AAAATA-ATTTATA
1 AAAATATATTTATA
33691321 TAAAATATATTTATA
1 -AAAATATATTTATA
33691336 AAAAT
1 AAAAT
33691341 TTAATAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AAAATATATTTATA
Found at i:33692363 original size:15 final size:15
Alignment explanation
Indices: 33692343--33692376 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
33692333 TAAAATTTAA
33692343 AAAATTCTAAAAAAT
1 AAAATTCTAAAAAAT
*
33692358 AAAATTTTAAAAAAT
1 AAAATTCTAAAAAAT
33692373 AAAA
1 AAAA
33692377 ATAGATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAATTCTAAAAAAT
Found at i:33706393 original size:28 final size:28
Alignment explanation
Indices: 33706362--33706425 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
33706352 ACAATTAAGT
* *
33706362 TTAAATTT-TTAAATTAAAATATAAAAAA
1 TTAAATTTCTGAAAATAAAATAT-AAAAA
* *
33706390 TTAAATTTCTGAAAATAAAATATGAGAA
1 TTAAATTTCTGAAAATAAAATATAAAAA
33706418 TTAAATTT
1 TTAAATTT
33706426 AAAATATAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 19 0.61
29 12 0.39
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.39
Consensus pattern (28 bp):
TTAAATTTCTGAAAATAAAATATAAAAA
Found at i:33716927 original size:19 final size:19
Alignment explanation
Indices: 33716903--33716971 Score: 72
Period size: 19 Copynumber: 3.7 Consensus size: 19
33716893 TTTTTTAGAG
33716903 TTTATATATATTTAGATTA
1 TTTATATATATTTAGATTA
* *
33716922 TTTATATATTTTTTGGA--A
1 TTTATATA-TATTTAGATTA
*
33716940 TTTTTATATATTTA-ATTA
1 TTTATATATATTTAGATTA
33716958 TTTCATATATATTT
1 TTT-ATATATATTT
33716972 TTTAGAGTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
16 1 0.03
17 4 0.10
18 12 0.30
19 17 0.43
20 6 0.15
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.62
Consensus pattern (19 bp):
TTTATATATATTTAGATTA
Found at i:33716967 original size:39 final size:37
Alignment explanation
Indices: 33716892--33716987 Score: 122
Period size: 37 Copynumber: 2.5 Consensus size: 37
33716882 ATTTTTAATG
*
33716892 ATTTTTTAGAGTTTATATATATTTAGATTATTTATAT
1 ATTTTTTAGAATTTATATATATTTAGATTATTTATAT
* *
33716929 ATTTTTTGGAATTTTTATATATTTA-ATTATTTCATATAT
1 ATTTTTTAGAATTTATATATATTTAGATTA-TT--TATAT
*
33716968 ATTTTTTAGAGTTTATATAT
1 ATTTTTTAGAATTTATATAT
33716988 TATAATTTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
36 4 0.08
37 24 0.48
39 22 0.44
ACGTcount: A:0.31, C:0.01, G:0.07, T:0.60
Consensus pattern (37 bp):
ATTTTTTAGAATTTATATATATTTAGATTATTTATAT
Found at i:33716988 original size:37 final size:34
Alignment explanation
Indices: 33716870--33716998 Score: 113
Period size: 37 Copynumber: 3.6 Consensus size: 34
33716860 CCTCGAAAAC
*
33716870 GTTTATATA-TAAATT-TTTA-ATGATTTTTTAGA
1 GTTTATATATTTAATTATTTATAT-ATTTTTTAGA
*
33716902 GTTTATATATATTTAGATTATTTATATATTTTTTGGAA
1 G-TT-TATATATTTA-ATTATTTATATATTTTTTAG-A
*
33716940 TTTTTATATATTTAATTATTTCATATATATTTTTTAGA
1 -GTTTATATATTTAATTA-TT--TATATATTTTTTAGA
33716978 GTTTATATATTATAATT-TTTA
1 GTTTATATATT-TAATTATTTA
33716999 AAATTTCTTT
Statistics
Matches: 80, Mismatches: 5, Indels: 22
0.75 0.05 0.21
Matches are distributed among these distances:
32 1 0.01
33 2 0.03
34 8 0.10
35 2 0.03
36 9 0.11
37 34 0.43
38 11 0.14
39 13 0.16
ACGTcount: A:0.33, C:0.01, G:0.07, T:0.60
Consensus pattern (34 bp):
GTTTATATATTTAATTATTTATATATTTTTTAGA
Found at i:33717039 original size:13 final size:15
Alignment explanation
Indices: 33717016--33717054 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
33717006 TTTCTATTTT
*
33717016 TATATTTTTTAA-TA
1 TATATTTTTAAATTA
33717030 TATATTTTTAAATTA
1 TATATTTTTAAATTA
33717045 TATTATTTTT
1 TA-TATTTTT
33717055 CTTATTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.50
15 4 0.18
16 7 0.32
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TATATTTTTAAATTA
Found at i:33717068 original size:17 final size:17
Alignment explanation
Indices: 33717048--33717081 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
33717038 TAAATTATAT
* *
33717048 TATTTTTCTTATTTTTA
1 TATTTTTATGATTTTTA
33717065 TATTTTTATGATTTTTA
1 TATTTTTATGATTTTTA
33717082 AAAGTTTATA
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:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (17 bp):
TATTTTTATGATTTTTA
Found at i:33717078 original size:9 final size:8
Alignment explanation
Indices: 33717010--33717081 Score: 53
Period size: 8 Copynumber: 9.0 Consensus size: 8
33717000 AATTTCTTTC
33717010 TATTTTTA
1 TATTTTTA
33717018 TATTTTT-
1 TATTTTTA
* *
33717025 TA-ATATA
1 TATTTTTA
33717032 TATTTTTA
1 TATTTTTA
*
33717040 AATTATATTA
1 TATT-T-TTA
33717050 T-TTTTCT-
1 TATTTT-TA
33717057 TATTTTTA
1 TATTTTTA
33717065 TATTTTTA
1 TATTTTTA
33717073 TGATTTTTA
1 T-ATTTTTA
33717082 AAAGTTTATA
Statistics
Matches: 50, Mismatches: 6, Indels: 15
0.70 0.08 0.21
Matches are distributed among these distances:
6 2 0.04
7 7 0.14
8 28 0.56
9 10 0.20
10 3 0.06
ACGTcount: A:0.28, C:0.01, G:0.01, T:0.69
Consensus pattern (8 bp):
TATTTTTA
Found at i:33722077 original size:27 final size:27
Alignment explanation
Indices: 33722024--33722077 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
33722014 GTCAAGGTGA
**
33722024 TTAACCATTTGCTCATTAAACTTTGAT
1 TTAACCATTTGCTCATTAAACCATGAT
* *
33722051 TTAACCTTTTTCTCATTAAACCATGAT
1 TTAACCATTTGCTCATTAAACCATGAT
33722078 CATTTTGTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.30, C:0.20, G:0.06, T:0.44
Consensus pattern (27 bp):
TTAACCATTTGCTCATTAAACCATGAT
Found at i:33725076 original size:21 final size:23
Alignment explanation
Indices: 33725047--33725088 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
33725037 GAGTCAGATA
33725047 CAAACAAGATCTTAAT-TTAAAC
1 CAAACAAGATCTTAATGTTAAAC
*
33725069 CAAA-AAGATTTTAATGTTAA
1 CAAACAAGATCTTAATGTTAA
33725089 CTAAATATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.50, C:0.12, G:0.07, T:0.31
Consensus pattern (23 bp):
CAAACAAGATCTTAATGTTAAAC
Found at i:33739829 original size:79 final size:79
Alignment explanation
Indices: 33739718--33739899 Score: 262
Period size: 79 Copynumber: 2.3 Consensus size: 79
33739708 GCACATTGTG
* * *
33739718 GTTTAACCGCTAGGCA-T-GGTGCCAAGATTTGACGGATATTGTTGGTTAATCCAATTAGAGCT-
1 GTTTAACCGCTAGGCACTGGGTGCCAAGATTTGACAGACATTGTTGGTTAATCCAACTAGAGCTA
33739780 GGACTCACAATTGCA
66 GG-CTCACAATTGCA
* *
33739795 GTTTAACAGCTAGGCACTGGGTGCCAGGATTTGACAGACATTGTTGGTTAATCCAACTAGAGCTA
1 GTTTAACCGCTAGGCACTGGGTGCCAAGATTTGACAGACATTGTTGGTTAATCCAACTAGAGCTA
* *
33739860 GGCTCACATTTGCG
66 GGCTCACAATTGCA
*
33739874 GTTTATCCGCTAGGCACTGGGTGCCA
1 GTTTAACCGCTAGGCACTGGGTGCCA
33739900 TGACCATCGG
Statistics
Matches: 93, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
77 15 0.16
78 1 0.01
79 75 0.81
80 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (79 bp):
GTTTAACCGCTAGGCACTGGGTGCCAAGATTTGACAGACATTGTTGGTTAATCCAACTAGAGCTA
GGCTCACAATTGCA
Found at i:33740953 original size:21 final size:21
Alignment explanation
Indices: 33740909--33740963 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
33740899 ACGGCCAAGG
33740909 CACGGGCGTGTGTGAGTGGATA
1 CACGGGCGTGTGT-AGTGGATA
*
33740931 CACGGGCGTGTGT-TTGAGATA
1 CACGGGCGTGTGTAGTG-GATA
*
33740952 CACGGTCGTGTG
1 CACGGGCGTGTG
33740964 CCCCTATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 2 0.07
21 15 0.50
22 13 0.43
ACGTcount: A:0.16, C:0.16, G:0.42, T:0.25
Consensus pattern (21 bp):
CACGGGCGTGTGTAGTGGATA
Found at i:33743431 original size:57 final size:56
Alignment explanation
Indices: 33743340--33743528 Score: 166
Period size: 59 Copynumber: 3.2 Consensus size: 56
33743330 TCTCGGGGGA
* * * * *
33743340 AAAATGGTAATTTTGGGAAAATTC-AGGGTTAAAAATGATATTTTGGACGTTTGGAGT
1 AAAATGGTAATTTTAGGAAAAATCGA-GATCAAAAATGA-ATTTTGGACGTTCGGAGT
* * * *
33743397 AAAATGGTAATTTTTGGAAAAATCGAGATCAAAAACGAAATTCTTGGAC-ATCCGAGGAT
1 AAAATGGTAATTTTAGGAAAAATCGAGATCAAAAATG-AATT-TTGGACGTTCGGA-G-T
* * * *
33743456 AAAATGGTAATTTTAAGAAAAATCGAGATCAGAAATAGAATTTTCGGATGTTCGAGGGT
1 AAAATGGTAATTTTAGGAAAAATCGAGATCAAAAAT-GAATTTT-GGACGTTCG-GAGT
33743515 AAAATGGTAATTTT
1 AAAATGGTAATTTT
33743529 GGACTTTCGG
Statistics
Matches: 107, Mismatches: 16, Indels: 16
0.77 0.12 0.12
Matches are distributed among these distances:
57 36 0.34
58 11 0.10
59 55 0.51
60 4 0.04
61 1 0.01
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.31
Consensus pattern (56 bp):
AAAATGGTAATTTTAGGAAAAATCGAGATCAAAAATGAATTTTGGACGTTCGGAGT
Found at i:33743546 original size:28 final size:28
Alignment explanation
Indices: 33743506--33743559 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
33743496 TTTTCGGATG
*
33743506 TTCGAGGGTAAAATGGTAATTTTGGACT
1 TTCGAGGGCAAAATGGTAATTTTGGACT
*
33743534 TTCGGGGGCAAAATGGTAATTTTGGA
1 TTCGAGGGCAAAATGGTAATTTTGGA
33743560 AAAATTTAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.28, C:0.07, G:0.31, T:0.33
Consensus pattern (28 bp):
TTCGAGGGCAAAATGGTAATTTTGGACT
Found at i:33743605 original size:58 final size:58
Alignment explanation
Indices: 33743543--33743674 Score: 151
Period size: 58 Copynumber: 2.3 Consensus size: 58
33743533 TTTCGGGGGC
* * *
33743543 AAAATGGTAATTTTGGAAAAATTTAGGGTTAAAAATGACA-TTTTAGATAAT-CGAGGGT
1 AAAATGGTAATTTTGGAAAAATTGA-GATAAAAAATGACATTTTTAGA-AATCCGAGGGT
* * * * * *
33743601 AAAATAGTAATTTTAGAAAAATTGAGATAAAAAATGAGATTTTTGGACATCCGGGGGT
1 AAAATGGTAATTTTGGAAAAATTGAGATAAAAAATGACATTTTTAGAAATCCGAGGGT
33743659 AAAATGGTAATTTTGG
1 AAAATGGTAATTTTGG
33743675 GATTTAGGGG
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
57 13 0.21
58 48 0.79
ACGTcount: A:0.42, C:0.04, G:0.23, T:0.32
Consensus pattern (58 bp):
AAAATGGTAATTTTGGAAAAATTGAGATAAAAAATGACATTTTTAGAAATCCGAGGGT
Found at i:33743719 original size:29 final size:29
Alignment explanation
Indices: 33743687--33743949 Score: 259
Period size: 29 Copynumber: 8.9 Consensus size: 29
33743677 TTTAGGGGAC
*
33743687 AAAAATGGAATTTTTGGAAGTTTGAGGTT
1 AAAAATGTAATTTTTGGAAGTTTGAGGTT
* * *
33743716 AAAAATGAAATTTTTGGAAGTTTGGGGGT
1 AAAAATGTAATTTTTGGAAGTTTGAGGTT
*
33743745 -AAAATGTAATTTTTGGAAGTTTTAAGGTT
1 AAAAATGTAATTTTTGGAAG-TTTGAGGTT
* **
33743774 AAAAATAG-AATTTTTTGAAGTTT-AGGGGC
1 AAAAAT-GTAATTTTTGGAAGTTTGA-GGTT
* *
33743803 AAAAATGTAATTTTTGGAAGTTTCGAGATC
1 AAAAATGTAATTTTTGGAAGTTT-GAGGTT
33743833 AAAAATGTAA-TTTTGGAGAGTTTCGAGGTT
1 AAAAATGTAATTTTTGGA-AGTTT-GAGGTT
*
33743863 -AAAATGTAATTTTTGAAAGTTTTGAGGTT
1 AAAAATGTAATTTTTGGAAG-TTTGAGGTT
* *
33743892 AAAAATATAATTTTGGAGAAGTTTCGAGG-T
1 AAAAATGTAATTTTTG-GAAGTTT-GAGGTT
* *
33743922 CAAAATGTAATTTTAGAGAAGTTTGAGG
1 AAAAATGTAATTTTTG-GAAGTTTGAGG
33743950 GATTTGTGGC
Statistics
Matches: 199, Mismatches: 22, Indels: 26
0.81 0.09 0.11
Matches are distributed among these distances:
28 20 0.10
29 85 0.43
30 85 0.43
31 9 0.05
ACGTcount: A:0.36, C:0.02, G:0.24, T:0.37
Consensus pattern (29 bp):
AAAAATGTAATTTTTGGAAGTTTGAGGTT
Found at i:33743818 original size:59 final size:59
Alignment explanation
Indices: 33743669--33743949 Score: 272
Period size: 59 Copynumber: 4.8 Consensus size: 59
33743659 AAAATGGTAA
* *
33743669 TTTTGGGA-TTTAGGGGACAAAAATGGAATTTTTGGAAG-TTTGAGGTTAAAAATGAAAT
1 TTTTGGAAGTTTAGGGG-CAAAAATGTAATTTTTGGAAGTTTTGAGGTTAAAAATGAAAT
** *
33743727 TTTTGGAAGTTT-GGGGGTAAAATGTAATTTTTGGAAGTTTTAAGGTTAAAAAT-AGAAT
1 TTTTGGAAGTTTAGGGGCAAAAATGTAATTTTTGGAAGTTTTGAGGTTAAAAATGA-AAT
* * * * *
33743785 TTTTTGAAGTTTAGGGGCAAAAATGTAATTTTTGGAAGTTTCGAGATCAAAAATGTAA-
1 TTTTGGAAGTTTAGGGGCAAAAATGTAATTTTTGGAAGTTTTGAGGTTAAAAATGAAAT
* * ** *
33743843 TTTTGGAGAGTTTCGAGGTTAAAATGTAATTTTTGAAAGTTTTGAGGTTAAAAAT-ATAAT
1 TTTTGGA-AGTTTAGGGGCAAAAATGTAATTTTTGGAAGTTTTGAGGTTAAAAATGA-AAT
* * * *
33743903 TTTGGAGAAGTTTCGAGGTC-AAAATGTAATTTTAGAGAAG-TTTGAGG
1 TTTTG-GAAGTTTAG-GGGCAAAAATGTAATTTTTG-GAAGTTTTGAGG
33743950 GATTTGTGGC
Statistics
Matches: 183, Mismatches: 29, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
57 19 0.10
58 45 0.25
59 81 0.44
60 32 0.17
61 6 0.03
ACGTcount: A:0.35, C:0.02, G:0.25, T:0.37
Consensus pattern (59 bp):
TTTTGGAAGTTTAGGGGCAAAAATGTAATTTTTGGAAGTTTTGAGGTTAAAAATGAAAT
Found at i:33753567 original size:12 final size:12
Alignment explanation
Indices: 33753551--33753639 Score: 78
Period size: 11 Copynumber: 7.6 Consensus size: 12
33753541 ATTAAGTTTG
*
33753551 ATTTAAATTTAG
1 ATTTAAATTTAA
33753563 ATTT--ATTTCAA
1 ATTTAAATTT-AA
33753574 ATTTAAATTTAA
1 ATTTAAATTTAA
*
33753586 AATTAAACTTTAA
1 ATTTAAA-TTTAA
*
33753599 ATTTGAATTT-A
1 ATTTAAATTTAA
* *
33753610 ATTTAAGTCTAA
1 ATTTAAATTTAA
*
33753622 ATTT-ATTTTAA
1 ATTTAAATTTAA
33753633 ATTTAAA
1 ATTTAAA
33753640 AATTATTATA
Statistics
Matches: 61, Mismatches: 10, Indels: 12
0.73 0.12 0.14
Matches are distributed among these distances:
10 4 0.07
11 22 0.36
12 21 0.34
13 14 0.23
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.49
Consensus pattern (12 bp):
ATTTAAATTTAA
Found at i:33753577 original size:17 final size:16
Alignment explanation
Indices: 33753524--33753653 Score: 76
Period size: 17 Copynumber: 8.1 Consensus size: 16
33753514 ATCGGGCCCT
33753524 TTTAAATTTATTTAAA
1 TTTAAATTTATTTAAA
* *
33753540 GATTAAGTTTGATTTAAA
1 -TTTAAATTT-ATTTAAA
*
33753558 TTTAGATTTATTTCAAA
1 TTTAAATTTATTT-AAA
33753575 TTTAAATTTA---AAA
1 TTTAAATTTATTTAAA
*
33753588 -TTAAA---CTTTAAA
1 TTTAAATTTATTTAAA
* *
33753600 TTTGAATTTAATTTAAG
1 TTTAAATTT-ATTTAAA
*
33753617 TCTAAATTTATTTTAAA
1 TTTAAATTTA-TTTAAA
*
33753634 TTTAAAAATTATTATAAA
1 TTT-AAATTTATT-TAAA
33753652 TT
1 TT
33753654 GAAACCCAAT
Statistics
Matches: 85, Mismatches: 15, Indels: 25
0.68 0.12 0.20
Matches are distributed among these distances:
12 8 0.09
13 7 0.08
16 5 0.06
17 46 0.54
18 19 0.22
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (16 bp):
TTTAAATTTATTTAAA
Found at i:33753581 original size:6 final size:6
Alignment explanation
Indices: 33753551--33753639 Score: 78
Period size: 6 Copynumber: 15.2 Consensus size: 6
33753541 ATTAAGTTTG
* *
33753551 ATTTAA ATTTAG ATTT-- ATTTCAA ATTTAA ATTTAA AATTAA ACTTTAA
1 ATTTAA ATTTAA ATTTAA ATTT-AA ATTTAA ATTTAA ATTTAA A-TTTAA
* * * *
33753599 ATTTGA ATTT-A ATTTAA GTCTAA ATTT-A TTTTAA ATTTAA A
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA A
33753640 AATTATTATA
Statistics
Matches: 67, Mismatches: 10, Indels: 12
0.75 0.11 0.13
Matches are distributed among these distances:
4 4 0.06
5 9 0.13
6 45 0.67
7 9 0.13
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.49
Consensus pattern (6 bp):
ATTTAA
Found at i:33755514 original size:29 final size:28
Alignment explanation
Indices: 33755481--33755766 Score: 145
Period size: 29 Copynumber: 10.0 Consensus size: 28
33755471 TGAACTGTCT
**
33755481 AAAAATTTTATTTTGACCCTAAAACTTC
1 AAAAATTCCATTTTGACCCTAAAACTTC
* *
33755509 AAAAAATTCCATTTTTAACCC-CAAACATTC
1 -AAAAATTCCA-TTTTGACCCTAAAAC-TTC
* *
33755539 CAAAATCCCATTTTGACCCTAAAACTTC
1 AAAAATTCCATTTTGACCCTAAAACTTC
* *
33755567 CAAAATTACTATTTTGACCCT-AAACTTTC
1 AAAAATT-CCATTTTGACCCTAAAAC-TTC
* *
33755596 AAAAATTCCATTTTTAACCCCAAAACTTC
1 AAAAATTCCA-TTTTGACCCTAAAACTTC
* * ** *
33755625 CAAAATTACTATTTTGA-CCTCGAACTTTT
1 AAAAATT-CCATTTTGACCCTAAAAC-TTC
** * * ***
33755654 TGAAATTCCATTTTAACTCTAATTTTTCC
1 AAAAATTCCATTTTGACCCTAAAACTT-C
*
33755683 AAAAATTACCATTTT-ACCCCT-GAACTTTC
1 AAAAATT-CCATTTTGA-CCCTAAAAC-TTC
* * **
33755712 CAAAATTCCATTTTAACCCT-AATTTTCC
1 AAAAATTCCATTTTGACCCTAAAACTT-C
*
33755740 AAAAATTACCATTTT-ACCCTCAAACTT
1 AAAAATT-CCATTTTGACCCTAAAACTT
33755767 TCCAAAATCT
Statistics
Matches: 193, Mismatches: 46, Indels: 36
0.70 0.17 0.13
Matches are distributed among these distances:
27 2 0.01
28 61 0.32
29 101 0.52
30 29 0.15
ACGTcount: A:0.36, C:0.25, G:0.02, T:0.36
Consensus pattern (28 bp):
AAAAATTCCATTTTGACCCTAAAACTTC
Found at i:33755581 original size:58 final size:56
Alignment explanation
Indices: 33755490--33755835 Score: 268
Period size: 58 Copynumber: 6.0 Consensus size: 56
33755480 TAAAAATTTT
* * * *
33755490 ATTTTGACCCTAAAACTTCAAAAAATT-CCATTTTTAACCCCAAACATTCCAAAATCCC
1 ATTTTAACCCTAAAACTTC-CAAAATTACCA-TTTT-ACCCCAAACTTTCCAAAATTCC
* * * *
33755548 ATTTTGACCCTAAAACTTCCAAAATTACTATTTTGACCCTAAACTTTCAAAAATTCC
1 ATTTTAACCCTAAAACTTCCAAAATTACCATTTT-ACCCCAAACTTTCCAAAATTCC
* * * * ***
33755605 ATTTTTAACCCCAAAACTTCCAAAATTACTATTTTGACCTCGAACTTTTTGAAATTCC
1 A-TTTTAACCCTAAAACTTCCAAAATTACCATTTT-ACCCCAAACTTTCCAAAATTCC
* *** *
33755663 ATTTTAACTCTAATTTTTCCAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCC
1 ATTTTAACCCTAAAACTTCC-AAAATTACCATTTTACCCC-AAACTTTCCAAAATTCC
**
33755721 ATTTTAACCCT-AATTTTCCAAAAATTACCATTTTACCCTCAAACTTTCCAAAA-TCTC
1 ATTTTAACCCTAAAACTTCC-AAAATTACCATTTTACCC-CAAACTTTCCAAAATTC-C
* *****
33755778 ATTTTTCACCC-CGGTTTTACCAAAAATTACCATTTTACCCCTAAAACTTTCCAAAATT
1 A-TTTTAACCCTAAAACTT-CC-AAAATTACCATTTTACCCC--AAACTTTCCAAAATT
33755836 TTATTTTTGA
Statistics
Matches: 245, Mismatches: 31, Indels: 21
0.82 0.10 0.07
Matches are distributed among these distances:
56 2 0.01
57 87 0.36
58 121 0.49
59 21 0.09
60 13 0.05
61 1 0.00
ACGTcount: A:0.35, C:0.27, G:0.03, T:0.36
Consensus pattern (56 bp):
ATTTTAACCCTAAAACTTCCAAAATTACCATTTTACCCCAAACTTTCCAAAATTCC
Found at i:33755711 original size:116 final size:116
Alignment explanation
Indices: 33755490--33755835 Score: 314
Period size: 116 Copynumber: 3.0 Consensus size: 116
33755480 TAAAAATTTT
* * * *
33755490 ATTTTGACCCTAAAACTTCAAAAAATT-CCATTTTTAACCC-CAAACATTCCAAAATCCCA-TTT
1 ATTTTAACCC-AAAACTTCCAAAAATTACCA-TTTT-ACCCTCAAACTTTCCAAAATCTCATTTT
* * *** * *
33755552 TGACCCTAAAACTTCC-AAAATTACTATTTTGA-CCCTAAACTTTCAAAAATTCC
63 TAACCCCAATTTTTCCAAAAATTACCATTTT-ACCCCTAAACTTTCCAAAATTCC
* * ***
33755605 ATTTTTAACCCCAAAACTTCC-AAAATTACTATTTTGA-CCTCGAACTTTTTGAAAT-TCCA-TT
1 A-TTTTAA-CCCAAAACTTCCAAAAATTACCATTTT-ACCCTCAAACTTTCCAAAATCT-CATTT
* * *
33755666 TTAACTCTAATTTTTCCAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCC
62 TTAACCCCAATTTTTCCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCC
* ** *
33755721 ATTTTAACCCTAATTTTCCAAAAATTACCATTTTACCCTCAAACTTTCCAAAATCTCATTTTTCA
1 ATTTTAACCCAAAACTTCCAAAAATTACCATTTTACCCTCAAACTTTCCAAAATCTCATTTTTAA
** *
33755786 CCCCGGTTTTACCAAAAATTACCATTTTACCCCTAAAACTTTCCAAAATT
66 CCCCAATTTTTCCAAAAATTACCATTTTACCCCT-AAACTTTCCAAAATT
33755836 TTATTTTTGA
Statistics
Matches: 186, Mismatches: 33, Indels: 22
0.77 0.14 0.09
Matches are distributed among these distances:
114 12 0.06
115 74 0.40
116 83 0.45
117 17 0.09
ACGTcount: A:0.35, C:0.27, G:0.03, T:0.36
Consensus pattern (116 bp):
ATTTTAACCCAAAACTTCCAAAAATTACCATTTTACCCTCAAACTTTCCAAAATCTCATTTTTAA
CCCCAATTTTTCCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCC
Found at i:33755773 original size:29 final size:29
Alignment explanation
Indices: 33755511--33755835 Score: 201
Period size: 29 Copynumber: 11.2 Consensus size: 29
33755501 AAAACTTCAA
*
33755511 AAAATTCCATTTTTAACCC-CAAACATTCC
1 AAAATTCCA-TTTTAACCCTCAAACTTTCC
* * *
33755540 AAAATCCCATTTTGACCCTAAAAC-TTCC
1 AAAATTCCATTTTAACCCTCAAACTTTCC
* * *
33755568 AAAATTACTATTTTGACCCT-AAACTTTCA
1 AAAATT-CCATTTTAACCCTCAAACTTTCC
33755597 AAAATTCCATTTTTAACCC-CAAAAC-TTCC
1 AAAATTCCA-TTTTAACCCTC-AAACTTTCC
* * * **
33755626 AAAATTACTATTTTGA-CCTCGAACTTTTT
1 AAAATT-CCATTTTAACCCTCAAACTTTCC
* * **
33755655 GAAATTCCATTTTAACTCT-AATTTTTCC
1 AAAATTCCATTTTAACCCTCAAACTTTCC
* *
33755683 AAAAATTACCATTTTACCCCT-GAACTTTCC
1 -AAAATT-CCATTTTAACCCTCAAACTTTCC
*
33755713 AAAATTCCATTTTAACCCT--AATTTTCC
1 AAAATTCCATTTTAACCCTCAAACTTTCC
33755740 AAAAATTACCATTTT-ACCCTCAAACTTTCC
1 -AAAATT-CCATTTTAACCCTCAAACTTTCC
* ***
33755770 AAAA-TCTCATTTTTCACCC-C-GGTTTTACC
1 AAAATTC-CA-TTTTAACCCTCAAACTTT-CC
* *
33755799 AAAAATTACCATTTTACCCCTAAAACTTTCC
1 -AAAATT-CCATTTTAACCCTCAAACTTTCC
33755830 AAAATT
1 AAAATT
33755836 TTATTTTTGA
Statistics
Matches: 230, Mismatches: 41, Indels: 49
0.72 0.13 0.15
Matches are distributed among these distances:
27 8 0.03
28 68 0.30
29 94 0.41
30 51 0.22
31 5 0.02
32 4 0.02
ACGTcount: A:0.35, C:0.27, G:0.02, T:0.36
Consensus pattern (29 bp):
AAAATTCCATTTTAACCCTCAAACTTTCC
Found at i:33767911 original size:48 final size:48
Alignment explanation
Indices: 33767844--33767963 Score: 177
Period size: 48 Copynumber: 2.5 Consensus size: 48
33767834 TTTGAACCCG
* * *
33767844 GCTTCCTGATGAAACACTGAGAAGCAGGTCGAAGCAATAAAATGGTTA
1 GCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTCA
* * *
33767892 GCTTTCTGATGAGATACTGAGAAGCAGGTTGAAGCAATAAAAAGGTCA
1 GCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTCA
*
33767940 GCTTCCTGATGAGACACAGAGAAG
1 GCTTCCTGATGAGACACTGAGAAG
33767964 TGGACCAAAT
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 63 1.00
ACGTcount: A:0.37, C:0.16, G:0.27, T:0.21
Consensus pattern (48 bp):
GCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTCA
Found at i:33768384 original size:201 final size:200
Alignment explanation
Indices: 33767891--33768452 Score: 793
Period size: 200 Copynumber: 2.8 Consensus size: 200
33767881 TAAAATGGTT
* *
33767891 AGCTTTCTGATGAGATACTGAGAAGCAGGTTGAAGCAATAAAAAGGTCAGCTTCCTGATGAGACA
1 AGCTTCCTGATGAGATACTGAGAAGCAGGTTGAAGCAATAAAAAGGTTAGCTTCCTGATGAGACA
* * * * *
33767956 CAGAGAAGTGGACCAAATTCGTCTTCTTGAAGAGATCTAGAGAAGCGAATTAAAACAACCGGGGC
66 CAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATTAAAACAAGCGAGGC
* * * * *
33768021 GGTCATCTTCCTGATAAGATACAAAGAAGAATACCAACTCAACGCTCAACACGAACAAATCTTCA
131 AGTCATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAACGCTCAACACGAACAAATCTCCA
33768086 AACCC
196 AACCC
* * * * *
33768091 AGCTTCCTGATGAGACACTGAGAAGCGGGTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGATA
1 AGCTTCCTGATGAGATACTGAGAAGCAGGTTGAAGCAATAAAAAGGTTAGCTTCCTGATGAGACA
* * * *
33768156 CAGAGAAGTGAACCAGATTTGTCTTCCTGAGGAGATCCAGAGAAGCGAATCAAAACAAGCGAGGC
66 CAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATTAAAACAAGCGAGGC
* * * *
33768221 AGTCATCTTCCTGATGAGATACAGAGAAGTATGCCAACTCAACGCTCGATACGAGCAAATCTCCG
131 AGTCATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAACGCTCAACACGAACAAATCTCC-
*
33768286 AACCCC
195 AAACCC
* *
33768292 AGCTTCCTGTTGAGATACTGAGAAGCAGGTTGAAGCAATAAAAAGGTTAGCTTCCTAATGAGACA
1 AGCTTCCTGATGAGATACTGAGAAGCAGGTTGAAGCAATAAAAAGGTTAGCTTCCTGATGAGACA
* * *
33768357 CAGAGAAGTGGACCAAATTCATCTTCCTGAGGAGATCCAGAGAAGCGAATTAAAAC-AGATGATT
66 CAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATTAAAACAAG-CGA-G
* *
33768421 GCAGTCATTTTCCTGATGAGACACAGAGAAGT
129 GCAGTCATCTTCCTGATGAGATACAGAGAAGT
33768453 GAACCAAATT
Statistics
Matches: 317, Mismatches: 42, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
200 171 0.54
201 116 0.37
202 30 0.09
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (200 bp):
AGCTTCCTGATGAGATACTGAGAAGCAGGTTGAAGCAATAAAAAGGTTAGCTTCCTGATGAGACA
CAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATTAAAACAAGCGAGGC
AGTCATCTTCCTGATGAGATACAGAGAAGTATACCAACTCAACGCTCAACACGAACAAATCTCCA
AACCC
Found at i:33768449 original size:87 final size:87
Alignment explanation
Indices: 33768343--33768538 Score: 347
Period size: 87 Copynumber: 2.3 Consensus size: 87
33768333 AAAGGTTAGC
* *
33768343 TTCCTAATGAGACACAGAGAAGTGGACCAAATTCATCTTCCTGAGGAGATCCAGAGAAGCGAATT
1 TTCCTGATGAGACACAGAGAAGTGAACCAAATTCATCTTCCTGAGGAGATCCAGAGAAGCGAATT
33768408 AAAACAGATGATTGCAGTCATT
66 AAAACAGATGATTGCAGTCATT
* *
33768430 TTCCTGATGAGACACAGAGAAGTGAACCAAATTCGTCTTCTTGAGGAGATCCAGAGAAGCGAATT
1 TTCCTGATGAGACACAGAGAAGTGAACCAAATTCATCTTCCTGAGGAGATCCAGAGAAGCGAATT
33768495 AAAACAGATGATTGCAGTCATT
66 AAAACAGATGATTGCAGTCATT
*
33768517 TTCCTGATGAGACACTGAGAAG
1 TTCCTGATGAGACACAGAGAAG
33768539 AAGGCCAAGT
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 104 1.00
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (87 bp):
TTCCTGATGAGACACAGAGAAGTGAACCAAATTCATCTTCCTGAGGAGATCCAGAGAAGCGAATT
AAAACAGATGATTGCAGTCATT
Found at i:33768883 original size:17 final size:17
Alignment explanation
Indices: 33768860--33768989 Score: 75
Period size: 17 Copynumber: 8.1 Consensus size: 17
33768850 ATCGGGCCCT
33768860 TTTAAATTTATTTTAAGA
1 TTTAAATTTATTTTAA-A
33768878 -TTAAATTTGA-TTTAAA
1 TTTAAATTT-ATTTTAAA
* *
33768894 TTTAGATTTATTTCAAA
1 TTTAAATTTATTTTAAA
33768911 TTTAAATTTA----AAA
1 TTTAAATTTATTTTAAA
*
33768924 -TT-AA---ACTTTAAA
1 TTTAAATTTATTTTAAA
* * *
33768936 TTTGAATTTAATTTAAG
1 TTTAAATTTATTTTAAA
*
33768953 TCTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
* *
33768970 TTTAAAAATTATTATAAA
1 TTT-AAATTTATTTTAAA
33768988 TT
1 TT
33768990 GAAACCCAAT
Statistics
Matches: 87, Mismatches: 12, Indels: 26
0.70 0.10 0.21
Matches are distributed among these distances:
8 1 0.01
11 2 0.02
12 5 0.06
13 5 0.06
14 2 0.02
16 2 0.02
17 55 0.63
18 15 0.17
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:33768896 original size:6 final size:6
Alignment explanation
Indices: 33768860--33768975 Score: 84
Period size: 6 Copynumber: 20.0 Consensus size: 6
33768850 ATCGGGCCCT
* * *
33768860 TTTAAA TTT-AT TTTAAGA -TTAAA TTT-GA TTTAAA TTTAGA TTT--A
1 TTTAAA TTTAAA TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * *
33768904 TTTCAAA TTTAAA TTTAAA ATTAAA CTTTAAA TTTGAA TTT-AA TTTAAG
1 TTT-AAA TTTAAA TTTAAA TTTAAA -TTTAAA TTTAAA TTTAAA TTTAAA
* *
33768953 TCTAAA TTT-AT TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA
33768976 AATTATTATA
Statistics
Matches: 86, Mismatches: 14, Indels: 20
0.72 0.12 0.17
Matches are distributed among these distances:
4 4 0.05
5 18 0.21
6 55 0.64
7 9 0.10
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (6 bp):
TTTAAA
Found at i:33768903 original size:12 final size:12
Alignment explanation
Indices: 33768860--33768975 Score: 84
Period size: 11 Copynumber: 10.0 Consensus size: 12
33768850 ATCGGGCCCT
*
33768860 TTTAAATTT-AT
1 TTTAAATTTAAA
33768871 TTTAAGA-TTAAA
1 TTTAA-ATTTAAA
*
33768883 TTT-GATTTAAA
1 TTTAAATTTAAA
*
33768894 TTTAGATTT--A
1 TTTAAATTTAAA
33768904 TTTCAAATTTAAA
1 TTT-AAATTTAAA
*
33768917 TTTAAAATTAAA
1 TTTAAATTTAAA
*
33768929 CTTTAAATTTGAA
1 -TTTAAATTTAAA
*
33768942 TTT-AATTTAAG
1 TTTAAATTTAAA
* *
33768953 TCTAAATTT-AT
1 TTTAAATTTAAA
33768964 TTTAAATTTAAA
1 TTTAAATTTAAA
33768976 AATTATTATA
Statistics
Matches: 83, Mismatches: 12, Indels: 19
0.73 0.11 0.17
Matches are distributed among these distances:
10 5 0.06
11 37 0.45
12 27 0.33
13 14 0.17
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (12 bp):
TTTAAATTTAAA
Found at i:33770882 original size:30 final size:28
Alignment explanation
Indices: 33770841--33771026 Score: 135
Period size: 29 Copynumber: 6.4 Consensus size: 28
33770831 AGAAATTATA
*
33770841 TTTTAACCCCAAAACTTCAGAAAATCCCAT
1 TTTTAACCCC-AAACTTC-CAAAATCCCAT
*
33770871 TTTTTACCCCAAACTTTCCAAAATCCCAT
1 TTTTAACCCCAAAC-TTCCAAAATCCCAT
* **
33770900 TTTTAACCCTGAAACTTCCAAAAATTAC-T
1 TTTTAACCC-CAAACTTCC-AAAATCCCAT
** *
33770929 ATTTTGGCCCCAAACTTTCCAAAATTCCAT
1 -TTTTAACCCCAAAC-TTCCAAAATCCCAT
* ** *
33770959 TTTTAACCTCAATTTTCCAAAAATTACCA-
1 TTTTAACCCCAAACTTCC-AAAA-TCCCAT
*
33770988 TTTT-ACCCTCGAACTTTCCAAAATCCCAT
1 TTTTAACCC-CAAAC-TTCCAAAATCCCAT
33771017 TTTTAACCCC
1 TTTTAACCCC
33771027 GATTTCACCA
Statistics
Matches: 123, Mismatches: 21, Indels: 25
0.73 0.12 0.15
Matches are distributed among these distances:
28 11 0.09
29 66 0.54
30 46 0.37
ACGTcount: A:0.33, C:0.30, G:0.03, T:0.34
Consensus pattern (28 bp):
TTTTAACCCCAAACTTCCAAAATCCCAT
Found at i:33771005 original size:58 final size:57
Alignment explanation
Indices: 33770872--33771113 Score: 272
Period size: 58 Copynumber: 4.2 Consensus size: 57
33770862 AAATCCCATT
* ** *
33770872 TTTTACCCCAAACTTTCCAAAATCCCATTTTTAACCCTGAAACTTCCAAAAATTACTA
1 TTTTACCCCAAACTTTCCAAAATCCCATTTTTAA-CCTCAATTTTCCAAAAATTACCA
* *
33770930 TTTTGGCCCCAAACTTTCCAAAATTCCATTTTTAACCTCAATTTTCCAAAAATTACCA
1 TTTT-ACCCCAAACTTTCCAAAATCCCATTTTTAACCTCAATTTTCCAAAAATTACCA
* * * *
33770988 TTTTACCCTCGAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCA
1 TTTTACCC-CAAACTTTCCAAAATCCCATTTTTAACCTCAATTT-TCCAAAAATTACCA
** * *
33771047 -TTT-CCCCTAAAACTTTCCAAAATTTCATTTTTGACCTCGATTTTCCTAAAAATTACCA
1 TTTTACCCC--AAACTTTCCAAAATCCCATTTTTAACCTCAATTTTCC-AAAAATTACCA
*
33771105 TTTTTCCCC
1 TTTTACCCC
33771114 TGGGCATCCA
Statistics
Matches: 158, Mismatches: 18, Indels: 14
0.83 0.09 0.07
Matches are distributed among these distances:
56 1 0.01
57 8 0.05
58 101 0.64
59 44 0.28
60 4 0.03
ACGTcount: A:0.32, C:0.29, G:0.03, T:0.36
Consensus pattern (57 bp):
TTTTACCCCAAACTTTCCAAAATCCCATTTTTAACCTCAATTTTCCAAAAATTACCA
Found at i:33771039 original size:117 final size:114
Alignment explanation
Indices: 33770872--33771113 Score: 319
Period size: 117 Copynumber: 2.1 Consensus size: 114
33770862 AAATCCCATT
* *
33770872 TTTTACCCCAAACTTTCCAAAATCCCATTTTTAACCCTGAAACTTCCAAAAATTACTATTTTGGC
1 TTTTACCCCAAACTTTCCAAAATCCCATTTTTAACCCCG-AACTTCCAAAAATTACCA-TTT--C
33770937 CCC-AAACTTTCCAAAATTCCATTTTTAACCTCAATTTTCC-AAAAATTACCA
62 CCCAAAACTTTCCAAAATTCCATTTTTAACCTCAATTTTCCTAAAAATTACCA
* *
33770988 TTTTACCCTCGAACTTTCCAAAATCCCATTTTTAACCCCG-ATTTCACCAAAAATTACCATTTCC
1 TTTTACCC-CAAACTTTCCAAAATCCCATTTTTAACCCCGAACTT--CCAAAAATTACCATTTCC
* * *
33771052 CCTAAAACTTTCCAAAATTTCATTTTTGACCTCGATTTTCCTAAAAATTACCA
63 CC-AAAACTTTCCAAAATTCCATTTTTAACCTCAATTTTCCTAAAAATTACCA
*
33771105 TTTTTCCCC
1 TTTTACCCC
33771114 TGGGCATCCA
Statistics
Matches: 112, Mismatches: 8, Indels: 12
0.85 0.06 0.09
Matches are distributed among these distances:
114 4 0.04
115 3 0.03
116 46 0.41
117 59 0.53
ACGTcount: A:0.32, C:0.29, G:0.03, T:0.36
Consensus pattern (114 bp):
TTTTACCCCAAACTTTCCAAAATCCCATTTTTAACCCCGAACTTCCAAAAATTACCATTTCCCCA
AAACTTTCCAAAATTCCATTTTTAACCTCAATTTTCCTAAAAATTACCA
Found at i:33772898 original size:116 final size:114
Alignment explanation
Indices: 33772761--33773067 Score: 273
Period size: 116 Copynumber: 2.6 Consensus size: 114
33772751 TACCCGGGGG
* * *
33772761 TAAAATGGTAATTTTTGGAAAATTCGAGGTTAAAAATTATATTTTGGACGTCTGGGGTAAAATGG
1 TAAAATGGTAA-TTTTAGAAAAATCGAGGTAAAAAATTATATTTTGGACGTCTGGGGTAAAATGG
* *
33772826 TAATTTTTGAAAAAATCG-GGATAAAAAACGAAACTCTTGGA-CATCCGAGGA
65 TAATTTTTGAAAAAATCGAGGAT-AAAAACGAAA-TCTTAGATAAT-CGAGGA
* * * * * *
33772877 TAAAATGGTAATTTTAAGAAAAATCGAGATCAAAAA-TAGAATTTTCGGATGTTCGGGGGCAAAA
1 TAAAATGGTAATTTT-AGAAAAATCGAGGTAAAAAATTA-TATTTT-GGACG-TCTGGGGTAAAA
* ** * * * * *
33772941 TGGTAATTTTGGAAAATTTTGAGGATAAAAATGACATTTTAGATAATCGAGGG
62 TGGTAATTTTTGAAAAAATCGAGGATAAAAACGAAATCTTAGATAATCGAGGA
* * *
33772994 TAAAACGGTAATTTTAGAAAAATCG-GGATAAAAAATGGGAT-TTTTGGACATCTGGGGTAAAAT
1 TAAAATGGTAATTTTAGAAAAATCGAGG-TAAAAAAT--TATATTTTGGACGTCTGGGGTAAAAT
*
33773057 GGAAATTTTTG
63 GGTAATTTTTG
33773068 GATTTCAGGG
Statistics
Matches: 152, Mismatches: 29, Indels: 21
0.75 0.14 0.10
Matches are distributed among these distances:
115 27 0.18
116 51 0.34
117 32 0.21
118 37 0.24
119 5 0.03
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (114 bp):
TAAAATGGTAATTTTAGAAAAATCGAGGTAAAAAATTATATTTTGGACGTCTGGGGTAAAATGGT
AATTTTTGAAAAAATCGAGGATAAAAACGAAATCTTAGATAATCGAGGA
Found at i:33773088 original size:30 final size:29
Alignment explanation
Indices: 33773024--33773268 Score: 193
Period size: 29 Copynumber: 8.5 Consensus size: 29
33773014 AATCGGGATA
*
33773024 AAAAATGGGATTTTTGGACA--TCTGGGGT-
1 AAAAATGGAATTTTTGGA-AGTTC-GGGGTC
*
33773052 -AAAATGGAAATTTTTGG-ATTTCAGGGGTC
1 AAAAATGG-AATTTTTGGAAGTTC-GGGGTC
33773081 AAAAATGGAATTTTTGGAAGTTCGGGGTC
1 AAAAATGGAATTTTTGGAAGTTCGGGGTC
** *
33773110 AAAAATAAAATTTTTGGAAGTTTTGGGGTC
1 AAAAATGGAATTTTTGGAAG-TTCGGGGTC
33773140 AAAAATGGAATTTTTGGAAGTTCGGGGGT-
1 AAAAATGGAATTTTTGGAAGTTC-GGGGTC
** * * *
33773169 AAAAATATAGTTTTTGGAAGTTTTGAGGT-
1 AAAAATGGAATTTTTGGAAG-TTCGGGGTC
* * *
33773198 TAAAATGAAATTTTTGAAAGTTCGGGG--
1 AAAAATGGAATTTTTGGAAGTTCGGGGTC
* * * *
33773225 GAAAATGTAATTTTTGGAAATTTCGGGTTC
1 AAAAATGGAATTTTTGG-AAGTTCGGGGTC
*
33773255 AAAAATGTAATTTT
1 AAAAATGGAATTTT
33773269 GGAGATTTTT
Statistics
Matches: 178, Mismatches: 27, Indels: 22
0.78 0.12 0.10
Matches are distributed among these distances:
26 1 0.01
27 21 0.12
28 28 0.16
29 71 0.40
30 57 0.32
ACGTcount: A:0.33, C:0.04, G:0.27, T:0.36
Consensus pattern (29 bp):
AAAAATGGAATTTTTGGAAGTTCGGGGTC
Found at i:33773145 original size:59 final size:58
Alignment explanation
Indices: 33773075--33773366 Score: 275
Period size: 59 Copynumber: 5.0 Consensus size: 58
33773065 TTGGATTTCA
*
33773075 GGGGTCAAAAATGGAATTTTTGGAAGTTCGGGGTCAAAAATAAAATTTTTGGAAGTTTT
1 GGGGTCAAAAATGGAATTTTTGGAAGTTCGGGGT-AAAAATATAATTTTTGGAAGTTTT
*
33773134 GGGGTCAAAAATGGAATTTTTGGAAGTTCGGGGGTAAAAATATAGTTTTTGGAAGTTTT
1 GGGGTCAAAAATGGAATTTTTGGAAGTTC-GGGGTAAAAATATAATTTTTGGAAGTTTT
* * * * * * * *
33773193 GAGGT-TAAAATGAAATTTTTGAAAGTTCGGGG-GAAAATGTAATTTTTGGAAATTTC
1 GGGGTCAAAAATGGAATTTTTGGAAGTTCGGGGTAAAAATATAATTTTTGGAAGTTTT
* * * * * * * *
33773249 GGGTTCAAAAATGTAA-TTTTGGAGATTTTTGAGGTTAAAATGTAATTTTTGAAAGTTTT
1 GGGGTCAAAAATGGAATTTTTGGA-A-GTTCGGGGTAAAAATATAATTTTTGGAAGTTTT
* * * * * * *
33773308 AGGGTCAAAAATGTAATTTTGGAGAAGTTTTGGGGTTAAAATGTAATTTTGGAGAAGTT
1 GGGGTCAAAAATGGAATTTTTG-GAAG-TTCGGGGTAAAAATATAATTTTTG-GAAGTT
33773367 CAAGGGTTAA
Statistics
Matches: 194, Mismatches: 30, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
56 28 0.14
57 13 0.07
58 25 0.13
59 89 0.46
60 32 0.16
61 7 0.04
ACGTcount: A:0.33, C:0.03, G:0.27, T:0.37
Consensus pattern (58 bp):
GGGGTCAAAAATGGAATTTTTGGAAGTTCGGGGTAAAAATATAATTTTTGGAAGTTTT
Found at i:33773319 original size:30 final size:29
Alignment explanation
Indices: 33773075--33773397 Score: 231
Period size: 30 Copynumber: 11.0 Consensus size: 29
33773065 TTGGATTTCA
* * *
33773075 GGGGTCAAAAATGGAATTTTTGGAAG-TTC
1 GGGGT-AAAAATGTAATTTTTGAAAGTTTT
** *
33773104 GGGGTCAAAAATAAAATTTTTGGAAGTTTT
1 GGGGT-AAAAATGTAATTTTTGAAAGTTTT
* * **
33773134 GGGGTCAAAAATGGAATTTTTGGAAGTTCG
1 GGGGT-AAAAATGTAATTTTTGAAAGTTTT
* * *
33773164 GGGGTAAAAATATAGTTTTTGGAAGTTTT
1 GGGGTAAAAATGTAATTTTTGAAAGTTTT
* * * *
33773193 GAGGTTAAAATGAAATTTTTGAAAG-TTC
1 GGGGTAAAAATGTAATTTTTGAAAGTTTT
* *
33773221 GGGG-GAAAATGTAATTTTTGGAAA-TTTC
1 GGGGTAAAAATGTAATTTTT-GAAAGTTTT
* * * *
33773249 GGGTTCAAAAATGTAATTTTGGAGATTTTT
1 GGGGT-AAAAATGTAATTTTTGAAAGTTTT
* *
33773279 GAGGTTAAAATGTAATTTTTGAAAGTTTT
1 GGGGTAAAAATGTAATTTTTGAAAGTTTT
* *
33773308 AGGGTCAAAAATGTAATTTTGGAGAAGTTTT
1 GGGGT-AAAAATGTAATTTTTGA-AAGTTTT
* * **
33773339 GGGGTTAAAATGTAATTTTGGAGAAGTTCA
1 GGGGTAAAAATGTAATTTTTGA-AAGTTTT
* * *
33773369 AGGGTTAAAATGTAATTTTGGAGAAGTTT
1 GGGGTAAAAATGTAATTTTTGA-AAGTTT
33773398 AAGGACCTCT
Statistics
Matches: 243, Mismatches: 43, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
27 13 0.05
28 15 0.06
29 88 0.36
30 116 0.48
31 11 0.05
ACGTcount: A:0.33, C:0.03, G:0.27, T:0.37
Consensus pattern (29 bp):
GGGGTAAAAATGTAATTTTTGAAAGTTTT
Found at i:33775432 original size:6 final size:6
Alignment explanation
Indices: 33775421--33775475 Score: 53
Period size: 6 Copynumber: 9.7 Consensus size: 6
33775411 TACAATGATA
* * *
33775421 TTAAAT TTAAA- TTAAAT TCAAAT TTAAA- TTAAAA TTGAAT TTAAA-
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
33775466 ATAAAT TTAA
1 TTAAAT TTAA
33775476 TTTCAAAGTG
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
5 14 0.36
6 25 0.64
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (6 bp):
TTAAAT
Found at i:33775436 original size:11 final size:11
Alignment explanation
Indices: 33775420--33775475 Score: 67
Period size: 11 Copynumber: 5.0 Consensus size: 11
33775410 TTACAATGAT
33775420 ATTAAATTTAA
1 ATTAAATTTAA
*
33775431 ATTAAATTCAA
1 ATTAAATTTAA
*
33775442 ATTTAAATTAAA
1 A-TTAAATTTAA
*
33775454 ATTGAATTTAA
1 ATTAAATTTAA
*
33775465 AATAAATTTAA
1 ATTAAATTTAA
33775476 TTTCAAAGTG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
11 28 0.74
12 10 0.26
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (11 bp):
ATTAAATTTAA
Found at i:33775443 original size:17 final size:16
Alignment explanation
Indices: 33775403--33775478 Score: 80
Period size: 17 Copynumber: 4.6 Consensus size: 16
33775393 ATGGATATTT
* *
33775403 ATTAAATTTACAATGAT
1 ATTAAATTTA-AATTAA
33775420 ATTAAATTTAAATTAA
1 ATTAAATTTAAATTAA
33775436 ATTCAAATTTAAATTAAA
1 ATT-AAATTTAAATT-AA
* *
33775454 ATTGAATTTAAAATAA
1 ATTAAATTTAAATTAA
*
33775470 ATTTAATTT
1 ATTAAATTT
33775479 CAAAGTGAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
16 17 0.33
17 30 0.58
18 5 0.10
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (16 bp):
ATTAAATTTAAATTAA
Found at i:33775487 original size:28 final size:28
Alignment explanation
Indices: 33775440--33775495 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
33775430 AATTAAATTC
*
33775440 AAATTTAAATTAAAATTGAATTTAAAAT
1 AAATTTAAATTAAAAGTGAATTTAAAAT
* *
33775468 AAATTTAATTTCAAAGTGAATTTAAAAT
1 AAATTTAAATTAAAAGTGAATTTAAAAT
33775496 GGTTTGAGCC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (28 bp):
AAATTTAAATTAAAAGTGAATTTAAAAT
Found at i:33788698 original size:29 final size:29
Alignment explanation
Indices: 33788662--33789080 Score: 317
Period size: 29 Copynumber: 14.7 Consensus size: 29
33788652 AAAGTTTTAG
* * *
33788662 GGGT-AAAATGTTATTTTGGGAAAATTCG-
1 GGGTAAAAATGTGATTTTTGG-AAGTTCGA
33788690 GGGTAAAAATGTGATTTTTGGAAGTTCGA
1 GGGTAAAAATGTGATTTTTGGAAGTTCGA
* ** *
33788719 GGGTAAAAAAGAAATTTTTAGAAGTTCGA
1 GGGTAAAAATGTGATTTTTGGAAGTTCGA
* * * *
33788748 GGGTAAAAATATAATTTTTAGAAATTCGA
1 GGGTAAAAATGTGATTTTTGGAAGTTCGA
* * *
33788777 GGGCAAAAATGTGATTTTTGAAAGTT--T
1 GGGTAAAAATGTGATTTTTGGAAGTTCGA
* *
33788804 GGGTCAAAAATGTGATTTTTGGAAGTTTGG
1 GGGT-AAAAATGTGATTTTTGGAAGTTCGA
33788834 GGGTAAAAATGTGATTTTTGGAAGTTCGA
1 GGGTAAAAATGTGATTTTTGGAAGTTCGA
* * *
33788863 AGGTAAAAATG-GAATTTTTGGAAATTTG-
1 GGGTAAAAATGTG-ATTTTTGGAAGTTCGA
* * *
33788891 GGG--GAAATGTGATTTTTGGATA-TACGG
1 GGGTAAAAATGTGATTTTTGGA-AGTTCGA
* ** * *
33788918 GGGCAAAAATGAAATTTTTGAAAGTTTGA
1 GGGTAAAAATGTGATTTTTGGAAGTTCGA
*
33788947 GGGCAAAAATGTGATTTTTGGAAGTTCGA
1 GGGTAAAAATGTGATTTTTGGAAGTTCGA
* *
33788976 GGATAAAAATG-GAATTTTTGGAAGGTTAG-
1 GGGTAAAAATGTG-ATTTTTGGAA-GTTCGA
* ** * *
33789005 GGGTAAAAATGTAATTTTTAAAAAATTTGA
1 GGGTAAAAATGTGATTTTT-GGAAGTTCGA
* *
33789035 GGGT--AAATGTAATTTTTGAAAAGTTCGA
1 GGGTAAAAATGTGATTTTTG-GAAGTTCGA
* *
33789063 -GGTTAAAATATGATTTTT
1 GGGTAAAAATGTGATTTTT
33789081 AAATCGGATC
Statistics
Matches: 316, Mismatches: 55, Indels: 39
0.77 0.13 0.10
Matches are distributed among these distances:
26 16 0.05
27 11 0.03
28 56 0.18
29 219 0.69
30 14 0.04
ACGTcount: A:0.36, C:0.03, G:0.27, T:0.35
Consensus pattern (29 bp):
GGGTAAAAATGTGATTTTTGGAAGTTCGA
Found at i:33788830 original size:86 final size:85
Alignment explanation
Indices: 33788683--33789080 Score: 305
Period size: 86 Copynumber: 4.6 Consensus size: 85
33788673 TATTTTGGGA
* * * * ** *
33788683 AAATTCG-GGGTAAAAATGTGATTTTTGGAAGTTCGAGGGTAAAAAAGAAATTTTTAGAAGTTCG
1 AAATTCGAGGGCAAAAATGTGATTTTTGAAAGTT--TGGGTAAAAATGTGATTTTTGGAAGTTCG
*
33788747 AGGGTAAAAATATAATTTTTAG
64 GGGGTAAAAATATAATTTTTAG
*
33788769 AAATTCGAGGGCAAAAATGTGATTTTTGAAAGTTTGGGTCAAAAATGTGATTTTTGGAAGTTTGG
1 AAATTCGAGGGCAAAAATGTGATTTTTGAAAGTTTGGGT-AAAAATGTGATTTTTGGAAGTTCGG
* * *
33788834 GGGTAAAAATGTGATTTTTGG
65 GGGTAAAAATATAATTTTTAG
* * * ** *
33788855 AAGTTCGAAGGTAAAAATG-GAATTTTTGGAAA-TTTGGG-GGAAATGTGATTTTTGGATA-TAC
1 AAATTCGAGGGCAAAAATGTG-ATTTTT-GAAAGTTTGGGTAAAAATGTGATTTTTGGA-AGTTC
*
33788916 GGGGGCAAAAATGA-AATTTTT-G
63 GGGGGTAAAAAT-ATAATTTTTAG
* * *
33788938 AAAGTTTGAGGGCAAAAATGTGATTTTTGGAAGTTCGAGGATAAAAATG-GAATTTTTGGAAGGT
1 AAA-TTCGAGGGCAAAAATGTGATTTTTGAAAGTTTG-GG-TAAAAATGTG-ATTTTTGGAA-GT
* * *
33789002 T-AGGGGTAAAAATGTAATTTTTAAA
61 TCGGGGGTAAAAATATAATTTTT-AG
* * * * * *
33789027 AAATTTGAGGG--TAAATGTAATTTTTGAAAAGTTCGAGGTTAAAATATGATTTTT
1 AAATTCGAGGGCAAAAATGTGATTTTTG-AAAGTTTG-GGTAAAAATGTGATTTTT
33789081 AAATCGGATC
Statistics
Matches: 252, Mismatches: 40, Indels: 40
0.76 0.12 0.12
Matches are distributed among these distances:
83 6 0.02
84 56 0.22
85 9 0.04
86 99 0.39
87 70 0.28
88 9 0.04
89 3 0.01
ACGTcount: A:0.36, C:0.03, G:0.26, T:0.34
Consensus pattern (85 bp):
AAATTCGAGGGCAAAAATGTGATTTTTGAAAGTTTGGGTAAAAATGTGATTTTTGGAAGTTCGGG
GGTAAAAATATAATTTTTAG
Found at i:33788935 original size:84 final size:84
Alignment explanation
Indices: 33788732--33788969 Score: 234
Period size: 84 Copynumber: 2.8 Consensus size: 84
33788722 TAAAAAAGAA
* * * * *
33788732 ATTTTTAGAAGTTCGAGGGTAAAAAT-ATAATTTTTAGAAA-TTCGAGGGCAAAAATGTGATTTT
1 ATTTTTGGAAGTACGGGGGCAAAAATGA-AATTTTT-GAAAGTTCGAAGGCAAAAATGTGATTTT
**
33788795 T-GAAAGTTTGGGTCAAAAATGTG
64 TGGAAA-TTTGGG--GGAAATGTG
** * ** * *
33788818 ATTTTTGGAAGTTTGGGGGTAAAAATGTGATTTTTGGAAGTTCGAAGGTAAAAATG-GAATTTTT
1 ATTTTTGGAAGTACGGGGGCAAAAATGAAATTTTTGAAAGTTCGAAGGCAAAAATGTG-ATTTTT
33788882 GGAAATTTGGGGGAAATGTG
65 GGAAATTTGGGGGAAATGTG
* *
33788902 ATTTTTGGATA-TACGGGGGCAAAAATGAAATTTTTGAAAGTTTGAGGGCAAAAATGTGATTTTT
1 ATTTTTGGA-AGTACGGGGGCAAAAATGAAATTTTTGAAAGTTCGAAGGCAAAAATGTGATTTTT
33788966 GGAA
65 GGAA
33788970 GTTCGAGGAT
Statistics
Matches: 127, Mismatches: 19, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
84 62 0.49
85 6 0.05
86 55 0.43
87 4 0.03
ACGTcount: A:0.34, C:0.03, G:0.27, T:0.35
Consensus pattern (84 bp):
ATTTTTGGAAGTACGGGGGCAAAAATGAAATTTTTGAAAGTTCGAAGGCAAAAATGTGATTTTTG
GAAATTTGGGGGAAATGTG
Found at i:33788965 original size:113 final size:114
Alignment explanation
Indices: 33788689--33788998 Score: 367
Period size: 113 Copynumber: 2.7 Consensus size: 114
33788679 GGGAAAATTC
* * * ** * *
33788689 GGGGTAAAAATGTGATTTTTGGAAGTTCGAGGGTAAAAAAGAAATTTTTAGAAGTTCGAGGGTAA
1 GGGGCAAAAATGTGATTTTTGGAAGTTTGAGGGTAAAAATGTGATTTTTGGAAGTTCGAAGGTAA
** * **
33788754 AAATATAATTTTTAGAAATTCGAGGGCAAAAATGTGATTTTTGAAAGTTT
66 AAATGGAATTTTTGGAAATTCGAGGG-AAAAATGTGATTTTTGAAAGTCG
* *
33788804 GGGTCAAAAATGTGATTTTTGGAAGTTTGGGGGTAAAAATGTGATTTTTGGAAGTTCGAAGGTAA
1 GGGGCAAAAATGTGATTTTTGGAAGTTTGAGGGTAAAAATGTGATTTTTGGAAGTTCGAAGGTAA
* * *
33788869 AAATGGAATTTTTGGAAATTTG-GGG-GAAATGTGATTTTTGGATA-TACG
66 AAATGGAATTTTTGGAAATTCGAGGGAAAAATGTGATTTTT-GAAAGT-CG
** * *
33788917 GGGGCAAAAATGAAATTTTTGAAAGTTTGAGGGCAAAAATGTGATTTTTGGAAGTTCG-AGGATA
1 GGGGCAAAAATGTGATTTTTGGAAGTTTGAGGGTAAAAATGTGATTTTTGGAAGTTCGAAGG-TA
33788981 AAAATGGAATTTTTGGAA
65 AAAATGGAATTTTTGGAA
33788999 GGTTAGGGGT
Statistics
Matches: 169, Mismatches: 23, Indels: 8
0.85 0.12 0.04
Matches are distributed among these distances:
112 17 0.10
113 75 0.44
114 3 0.02
115 74 0.44
ACGTcount: A:0.35, C:0.03, G:0.28, T:0.33
Consensus pattern (114 bp):
GGGGCAAAAATGTGATTTTTGGAAGTTTGAGGGTAAAAATGTGATTTTTGGAAGTTCGAAGGTAA
AAATGGAATTTTTGGAAATTCGAGGGAAAAATGTGATTTTTGAAAGTCG
Found at i:33789043 original size:28 final size:29
Alignment explanation
Indices: 33789005--33789083 Score: 88
Period size: 28 Copynumber: 2.7 Consensus size: 29
33788995 GGAAGGTTAG
*
33789005 GGGTAAAAATGTAATTTTTAAAAAATTTGA
1 GGGT-AAAATGTAATTTTTAAAAAATTCGA
* *
33789035 GGGT-AAATGTAATTTTTGAAAAGTTCGA
1 GGGTAAAATGTAATTTTTAAAAAATTCGA
* * *
33789063 GGTTAAAATATGATTTTTAAA
1 GGGTAAAATGTAATTTTTAAA
33789084 TCGGATCGGA
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
28 24 0.59
29 13 0.32
30 4 0.10
ACGTcount: A:0.42, C:0.01, G:0.19, T:0.38
Consensus pattern (29 bp):
GGGTAAAATGTAATTTTTAAAAAATTCGA
Found at i:33790677 original size:17 final size:17
Alignment explanation
Indices: 33790655--33790688 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
33790645 GAAAAAATTC
*
33790655 ATTTAAATGTTATTTAA
1 ATTTAAATATTATTTAA
33790672 ATTTAAATATTATTTAA
1 ATTTAAATATTATTTAA
33790689 TCATGTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
ATTTAAATATTATTTAA
Found at i:33793853 original size:25 final size:26
Alignment explanation
Indices: 33793809--33793860 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
33793799 AACCTTCTGT
* *
33793809 TTCCTTTTCTTCTTAAAAAATTTTGC
1 TTCCTTTCCTTCTTAAAAAAATTTGC
*
33793835 TTCCTTTCCTTCTT-CAAAAATTTGC
1 TTCCTTTCCTTCTTAAAAAAATTTGC
33793860 T
1 T
33793861 GTTAAAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.21, C:0.23, G:0.04, T:0.52
Consensus pattern (26 bp):
TTCCTTTCCTTCTTAAAAAAATTTGC
Found at i:33795101 original size:6 final size:6
Alignment explanation
Indices: 33795090--33795148 Score: 54
Period size: 6 Copynumber: 10.3 Consensus size: 6
33795080 AGATTTTTTT
* *
33795090 AATTTA AATTTA GAA--TA ATTTTA AACTTA AA-TTA AATTTA AATTTA
1 AATTTA AATTTA -AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
*
33795136 AA-ATA AATTTA AA
1 AATTTA AATTTA AA
33795149 AAAGTGAGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
4 1 0.02
5 11 0.26
6 29 0.67
7 2 0.05
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (6 bp):
AATTTA
Found at i:33795114 original size:17 final size:16
Alignment explanation
Indices: 33795090--33795148 Score: 73
Period size: 17 Copynumber: 3.5 Consensus size: 16
33795080 AGATTTTTTT
33795090 AATTTAAATTTAGAATA
1 AATTTAAATTTA-AATA
* *
33795107 ATTTTAAACTTAAATTA
1 AATTTAAATTTAAA-TA
33795124 AATTTAAATTTAAAATA
1 AATTTAAATTT-AAATA
33795141 AATTTAAA
1 AATTTAAA
33795149 AAAGTGAGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
16 2 0.06
17 31 0.86
18 3 0.08
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (16 bp):
AATTTAAATTTAAATA
Found at i:33795142 original size:11 final size:11
Alignment explanation
Indices: 33795094--33795149 Score: 51
Period size: 11 Copynumber: 5.0 Consensus size: 11
33795084 TTTTTTAATT
*
33795094 TAAATTTAGAA
1 TAAATTTAAAA
* *
33795105 TAATTTTAAACT
1 TAAATTTAAA-A
*
33795117 TAAA-TTAAATT
1 TAAATTTAAA-A
33795128 TAAATTTAAAA
1 TAAATTTAAAA
33795139 TAAATTTAAAA
1 TAAATTTAAAA
33795150 AAGTGAGTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
11 29 0.78
12 8 0.22
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:33797381 original size:21 final size:22
Alignment explanation
Indices: 33797355--33797396 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
33797345 TGTTAATTCA
*
33797355 ATAATTATAA-TATATGTTTAG
1 ATAATTATAATTATAAGTTTAG
*
33797376 ATAATTTTAATTATAAGTTTA
1 ATAATTATAATTATAAGTTTA
33797397 ATATAAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (22 bp):
ATAATTATAATTATAAGTTTAG
Found at i:33797838 original size:30 final size:30
Alignment explanation
Indices: 33797803--33797874 Score: 74
Period size: 31 Copynumber: 2.4 Consensus size: 30
33797793 TTTGATATAT
* *
33797803 AAACTTTAATTTGGTACAATTGTGCACATG
1 AAACTTTAATTTGGTACAAATGTACACATG
** * *
33797833 AAACTTTTGTTGTGGTTCAAATGTATACATG
1 AAACTTTAATT-TGGTACAAATGTACACATG
33797864 AAA-TTTAATTT
1 AAACTTTAATTT
33797875 TGATTAATCA
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
29 1 0.03
30 14 0.42
31 18 0.55
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (30 bp):
AAACTTTAATTTGGTACAAATGTACACATG
Found at i:33798130 original size:20 final size:21
Alignment explanation
Indices: 33798097--33798135 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
33798087 ATAGTTTTGA
*
33798097 AATTTATTCCTTTA-TAAAAC
1 AATTTAATCCTTTAGTAAAAC
*
33798117 AATTTAATCTTTTAGTAAA
1 AATTTAATCCTTTAGTAAA
33798136 GGGCGAAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.46
Consensus pattern (21 bp):
AATTTAATCCTTTAGTAAAAC
Found at i:33803555 original size:42 final size:42
Alignment explanation
Indices: 33803493--33803575 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
33803483 TTTATATGTG
* * * *
33803493 TATTTGAAATTATTATTTGAAACATTTCACATATAATAATAA
1 TATTTGAAATAATTAATTGAAACATTCCACATATAAAAATAA
*
33803535 TATTTGAAATAATTAATTGAAATATTCCACATATAAAAATA
1 TATTTGAAATAATTAATTGAAACATTCCACATATAAAAATA
33803576 TTTAAAATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.40
Consensus pattern (42 bp):
TATTTGAAATAATTAATTGAAACATTCCACATATAAAAATAA
Found at i:33805568 original size:53 final size:53
Alignment explanation
Indices: 33805488--33805593 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
33805478 TTTTTCATTC
33805488 AAATCCATTTTCTATCAATTCTCTCAACTCTCTCAAGATTATAGTTCTAAAAT
1 AAATCCATTTTCTATCAATTCTCTCAACTCTCTCAAGATTATAGTTCTAAAAT
33805541 AAATCCATTTTCTATCAATTCTCTCAACTCTCTCAAGATTATAGTTCTAAAAT
1 AAATCCATTTTCTATCAATTCTCTCAACTCTCTCAAGATTATAGTTCTAAAAT
33805594 TTTATTTAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.34, C:0.23, G:0.04, T:0.40
Consensus pattern (53 bp):
AAATCCATTTTCTATCAATTCTCTCAACTCTCTCAAGATTATAGTTCTAAAAT
Found at i:33811670 original size:23 final size:23
Alignment explanation
Indices: 33811644--33811687 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
33811634 ATTATATTAT
*
33811644 ATTAAACATGATTAAAGTATTCA
1 ATTAAACATGATTAAAATATTCA
*
33811667 ATTAAATATGATTAAAATATT
1 ATTAAACATGATTAAAATATT
33811688 TTTACTTACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.39
Consensus pattern (23 bp):
ATTAAACATGATTAAAATATTCA
Found at i:33815400 original size:2 final size:2
Alignment explanation
Indices: 33815393--33815417 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
33815383 TAATATGACA
33815393 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
33815418 ATAAATCCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:33815579 original size:17 final size:19
Alignment explanation
Indices: 33815551--33815585 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
33815541 ATAGAGAATT
33815551 ATTAAGAATTA-TAAAAAA
1 ATTAAGAATTATTAAAAAA
33815569 ATTAA-AATTATTAAAAA
1 ATTAAGAATTATTAAAAA
33815586 CAATATACAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (19 bp):
ATTAAGAATTATTAAAAAA
Found at i:33815694 original size:30 final size:30
Alignment explanation
Indices: 33815639--33815729 Score: 84
Period size: 30 Copynumber: 3.1 Consensus size: 30
33815629 CTTAAATAAG
* *
33815639 TATTAAATAATTA-TAAAAATGTA-AAATAT
1 TATTAAATAGTTATTAAAAAT-TATAAAAAT
*
33815668 TATTTAAA-A-TTATTAAGAATTATAAAAAAT
1 TA-TTAAATAGTTATTAAAAATTAT-AAAAAT
*
33815698 TA-TAAATAGTTTTTAAAAATTATAAAAAT
1 TATTAAATAGTTATTAAAAATTATAAAAAT
33815727 TAT
1 TAT
33815730 CTATATACAC
Statistics
Matches: 51, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
28 9 0.18
29 18 0.35
30 24 0.47
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (30 bp):
TATTAAATAGTTATTAAAAATTATAAAAAT
Found at i:33815696 original size:39 final size:38
Alignment explanation
Indices: 33815642--33815729 Score: 101
Period size: 39 Copynumber: 2.3 Consensus size: 38
33815632 AAATAAGTAT
33815642 TAAATAATTATAAAAATGTA-AAATA-TTATTT-AAAATTA
1 TAAA-AATTATAAAAAT-TATAAATAGTT-TTTAAAAATTA
*
33815680 TTAAGAATTATAAAAAATTATAAATAGTTTTTAAAAATTA
1 -TAAAAATTAT-AAAAATTATAAATAGTTTTTAAAAATTA
33815720 TAAAAATTAT
1 TAAAAATTAT
33815730 CTATATACAC
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
38 8 0.19
39 26 0.60
40 9 0.21
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (38 bp):
TAAAAATTATAAAAATTATAAATAGTTTTTAAAAATTA
Found at i:33815701 original size:10 final size:10
Alignment explanation
Indices: 33815642--33815729 Score: 56
Period size: 10 Copynumber: 9.1 Consensus size: 10
33815632 AAATAAGTAT
*
33815642 TAAATAATTA
1 TAAAAAATTA
*
33815652 T-AAAAA-TG
1 TAAAAAATTA
*
33815660 TAAAATATTA
1 TAAAAAATTA
**
33815670 TTTAAAATTA
1 TAAAAAATTA
* *
33815680 TTAAGAATTA
1 TAAAAAATTA
33815690 TAAAAAATTA
1 TAAAAAATTA
* * *
33815700 TAAATAGTTT
1 TAAAAAATTA
*
33815710 TTAAAAATTA
1 TAAAAAATTA
33815720 T-AAAAATTA
1 TAAAAAATTA
33815729 T
1 T
33815730 CTATATACAC
Statistics
Matches: 58, Mismatches: 18, Indels: 5
0.72 0.22 0.06
Matches are distributed among these distances:
8 2 0.03
9 17 0.29
10 39 0.67
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:33820618 original size:29 final size:29
Alignment explanation
Indices: 33820578--33820638 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
33820568 CCAGAGCTAT
*
33820578 TCTCCCTCTCCTCTTTT-TGCGTCCCCATC
1 TCTCCCTCTCCT-TTTTCTGCCTCCCCATC
33820607 TCTCCCTCTCCTTTTTCTGCCTCCCCATC
1 TCTCCCTCTCCTTTTTCTGCCTCCCCATC
33820636 TCT
1 TCT
33820639 GCTTAACTCT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 4 0.13
29 26 0.87
ACGTcount: A:0.03, C:0.49, G:0.05, T:0.43
Consensus pattern (29 bp):
TCTCCCTCTCCTTTTTCTGCCTCCCCATC
Found at i:33829137 original size:22 final size:23
Alignment explanation
Indices: 33829112--33829158 Score: 87
Period size: 22 Copynumber: 2.1 Consensus size: 23
33829102 AAAAATTATA
33829112 TTATTGTTTTGG-TGCTATTTTT
1 TTATTGTTTTGGTTGCTATTTTT
33829134 TTATTGTTTTGGTTGCTATTTTT
1 TTATTGTTTTGGTTGCTATTTTT
33829157 TT
1 TT
33829159 TTACTATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 12 0.50
23 12 0.50
ACGTcount: A:0.09, C:0.04, G:0.17, T:0.70
Consensus pattern (23 bp):
TTATTGTTTTGGTTGCTATTTTT
Found at i:33829174 original size:24 final size:22
Alignment explanation
Indices: 33829118--33829216 Score: 90
Period size: 24 Copynumber: 4.2 Consensus size: 22
33829108 TATATTATTG
* *
33829118 TTTTGGTGCTATTTTTTTATTGT
1 TTTTGTTGCTATTTTTTT-TTAT
*
33829141 TTTGGTTGCTATTTTTTTTTACT
1 TTTTGTTGCTATTTTTTTTTA-T
* *
33829164 ATTTTGATGCTGTTTTTATTGTTAT
1 -TTTTGTTGCTATTTTT-TT-TTAT
*
33829189 TTTTGTTGCTATTTTTCTATTAT
1 TTTTGTTGCTATTTTT-TTTTAT
33829212 TTTTG
1 TTTTG
33829217 CTGTTGTTTT
Statistics
Matches: 62, Mismatches: 10, Indels: 8
0.77 0.12 0.10
Matches are distributed among these distances:
22 2 0.03
23 26 0.42
24 28 0.45
25 3 0.05
26 3 0.05
ACGTcount: A:0.11, C:0.06, G:0.14, T:0.69
Consensus pattern (22 bp):
TTTTGTTGCTATTTTTTTTTAT
Found at i:33829191 original size:12 final size:12
Alignment explanation
Indices: 33829176--33829238 Score: 56
Period size: 12 Copynumber: 5.3 Consensus size: 12
33829166 TTTGATGCTG
*
33829176 TTTTTATTGTTA
1 TTTTTGTTGTTA
*
33829188 TTTTTGTTGCTA
1 TTTTTGTTGTTA
* *
33829200 TTTTT-CTATTA
1 TTTTTGTTGTTA
* *
33829211 TTTTTGCTGTTG
1 TTTTTGTTGTTA
*
33829223 TTTTGGTTGTTA
1 TTTTTGTTGTTA
33829235 TTTT
1 TTTT
33829239 GATTGTTTGG
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
11 8 0.20
12 32 0.80
ACGTcount: A:0.10, C:0.05, G:0.14, T:0.71
Consensus pattern (12 bp):
TTTTTGTTGTTA
Found at i:33829204 original size:47 final size:47
Alignment explanation
Indices: 33829118--33829239 Score: 115
Period size: 47 Copynumber: 2.6 Consensus size: 47
33829108 TATATTATTG
* * * *
33829118 TTTTGGTGCTATTTTTTTATTGTTTTGGTTGCTATTTTTT-T-TTACT
1 TTTTGATGCTGTTTTTTTGTTATTTTGGTTGCTATTTTTTCTATTA-T
*
33829164 ATTTTGATGCTGTTTTTATTGTTATTTTTGTTGCTA-TTTTTCTATTAT
1 -TTTTGATGCTGTTTTT-TTGTTATTTTGGTTGCTATTTTTTCTATTAT
* * *
33829212 TTTTGCTGTTGTTTTGGTTGTTATTTTG
1 TTTTGATGCTGTTTT-TTTGTTATTTTG
33829240 ATTGTTTGGA
Statistics
Matches: 62, Mismatches: 9, Indels: 8
0.78 0.11 0.10
Matches are distributed among these distances:
47 42 0.68
48 17 0.27
49 3 0.05
ACGTcount: A:0.10, C:0.06, G:0.16, T:0.68
Consensus pattern (47 bp):
TTTTGATGCTGTTTTTTTGTTATTTTGGTTGCTATTTTTTCTATTAT
Found at i:33830580 original size:23 final size:23
Alignment explanation
Indices: 33830553--33830597 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
33830543 TGACGTACTA
*
33830553 CATAATTTTTTTTTAAAAAAATC
1 CATAATTTTATTTTAAAAAAATC
33830576 CATAATTTTATTTTAAAAAAAT
1 CATAATTTTATTTTAAAAAAAT
33830598 ATCTATGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (23 bp):
CATAATTTTATTTTAAAAAAATC
Found at i:33844257 original size:2 final size:2
Alignment explanation
Indices: 33844250--33844295 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
33844240 TGAAATTACA
33844250 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33844292 AT AT
1 AT AT
33844296 TAATCTTTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33844919 original size:45 final size:45
Alignment explanation
Indices: 33844863--33844966 Score: 163
Period size: 45 Copynumber: 2.3 Consensus size: 45
33844853 TCTTATATGC
*
33844863 GACTCATACATGCGAACTCGTAAAAAAAGATTCATAGATATGGCA
1 GACTCATACATGCAAACTCGTAAAAAAAGATTCATAGATATGGCA
* * *
33844908 GACTCACACATGCAAACTCGTAGAAGAAGATTCATAGATATGGCA
1 GACTCATACATGCAAACTCGTAAAAAAAGATTCATAGATATGGCA
*
33844953 AACTCATACATGCA
1 GACTCATACATGCA
33844967 GATTCATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.21
Consensus pattern (45 bp):
GACTCATACATGCAAACTCGTAAAAAAAGATTCATAGATATGGCA
Found at i:33844957 original size:31 final size:31
Alignment explanation
Indices: 33844919--33844979 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
33844909 ACTCACACAT
* *
33844919 GCAAACTCGTAGAAGAAGATTCATAGATATG
1 GCAAACTCATACAAGAAGATTCATAGATATG
* *
33844950 GCAAACTCATACATGCAGATTCATAGATAT
1 GCAAACTCATACAAGAAGATTCATAGATAT
33844980 TACGAGTGAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.25
Consensus pattern (31 bp):
GCAAACTCATACAAGAAGATTCATAGATATG
Found at i:33847428 original size:15 final size:16
Alignment explanation
Indices: 33847407--33847452 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 16
33847397 AGCAGGCGGT
33847407 GATGGTGGTGGAGGGC
1 GATGGTGGTGGAGGGC
* *
33847423 -ATGGTGGAGG-CGGC
1 GATGGTGGTGGAGGGC
*
33847437 GACGGTGGTGGAGGGC
1 GATGGTGGTGGAGGGC
33847453 TTTGTACGCA
Statistics
Matches: 23, Mismatches: 5, Indels: 4
0.72 0.16 0.12
Matches are distributed among these distances:
14 3 0.13
15 17 0.74
16 3 0.13
ACGTcount: A:0.13, C:0.11, G:0.61, T:0.15
Consensus pattern (16 bp):
GATGGTGGTGGAGGGC
Found at i:33850569 original size:23 final size:22
Alignment explanation
Indices: 33850520--33850569 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
33850510 ATTATAAATT
*
33850520 AAAAATATTAATGATTTATGTA
1 AAAAATATTAATGATTTAGGTA
*
33850542 TAAAATATATAAT-ATTTAGGGTA
1 AAAAATAT-TAATGATTTA-GGTA
33850565 AAAAA
1 AAAAA
33850570 GAGAGAGATA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
22 12 0.52
23 11 0.48
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.36
Consensus pattern (22 bp):
AAAAATATTAATGATTTAGGTA
Found at i:33851503 original size:9 final size:9
Alignment explanation
Indices: 33851489--33851521 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
33851479 CCTTGGTGAT
33851489 GGTGGGTTG
1 GGTGGGTTG
33851498 GGTGGGTTG
1 GGTGGGTTG
*
33851507 GG-GGGGTG
1 GGTGGGTTG
33851515 GGTGGGT
1 GGTGGGT
33851522 ACAAATATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.00, C:0.00, G:0.73, T:0.27
Consensus pattern (9 bp):
GGTGGGTTG
Found at i:33853260 original size:85 final size:86
Alignment explanation
Indices: 33853056--33853271 Score: 353
Period size: 86 Copynumber: 2.5 Consensus size: 86
33853046 AATTAAATTG
* * *
33853056 AATAATTCTGTTTCAAAATTTCTTCCTGCCGTTCAATAGAATTTATTTGATTTTTTGTTTTCAAA
1 AATAATTATGTTTCAAGATTTATTCCTGCCGTTCAATAGAATTTATTTGATTTTTTGTTTTCAAA
33853121 CATAAATTAATTAAAAAAATA
66 CATAAATTAATTAAAAAAATA
*
33853142 AATAATTATGTTTCAAGATTTATTCCTGTCGTTCAATAGAATTTATTTGATTTTTTGTTTTCAAA
1 AATAATTATGTTTCAAGATTTATTCCTGCCGTTCAATAGAATTTATTTGATTTTTTGTTTTCAAA
33853207 CATAAATTAATT-AAAAAATA
66 CATAAATTAATTAAAAAAATA
* ** *
33853227 AATAATTTTGTTTCAAGATTTATAACTGCCGTTCAACAGAATTTA
1 AATAATTATGTTTCAAGATTTATTCCTGCCGTTCAATAGAATTTA
33853272 ATCAAGAATA
Statistics
Matches: 121, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
85 48 0.40
86 73 0.60
ACGTcount: A:0.37, C:0.11, G:0.08, T:0.44
Consensus pattern (86 bp):
AATAATTATGTTTCAAGATTTATTCCTGCCGTTCAATAGAATTTATTTGATTTTTTGTTTTCAAA
CATAAATTAATTAAAAAAATA
Found at i:33853468 original size:75 final size:75
Alignment explanation
Indices: 33853278--33853490 Score: 268
Period size: 76 Copynumber: 2.8 Consensus size: 75
33853268 TTTAATCAAG
* * * *
33853278 AATAAATTGAACAATTCTGTTTCAGGATTTATTCTTT-CCGTTCGACAAAATTTATTCGAGTTTG
1 AATAAATTAAATAATTCTGTTTCAGGATTTATT-TTTGCCATTCAACAAAATTTATTCGA-TTTG
*
33853342 TTTCCAAACAGA
64 TTTCCAAACAAA
* * ** *
33853354 AATTAATTAAATAATTTTGTTTCAGGATTTATTCCTGCCATTCAACAAAATTTATTC-ATTTTTT
1 AATAAATTAAATAATTCTGTTTCAGGATTTATTTTTGCCATTCAACAAAATTTATTCGATTTGTT
33853418 TCCAAACAAA
66 TCCAAACAAA
* **
33853428 AATAAATTAAAATAATTCTATTTCAGGATTTATTTTTGCCATTCAACCGAATTTATTCGATTT
1 AATAAATT-AAATAATTCTGTTTCAGGATTTATTTTTGCCATTCAACAAAATTTATTCGATTT
33853491 CTGTTGTTAA
Statistics
Matches: 117, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
74 21 0.18
75 45 0.38
76 51 0.44
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.42
Consensus pattern (75 bp):
AATAAATTAAATAATTCTGTTTCAGGATTTATTTTTGCCATTCAACAAAATTTATTCGATTTGTT
TCCAAACAAA
Found at i:33854537 original size:143 final size:144
Alignment explanation
Indices: 33854264--33854547 Score: 405
Period size: 143 Copynumber: 2.0 Consensus size: 144
33854254 CTCCTAAGTA
* * * *
33854264 TACACAGTTTTAGGATGGTGTTTGAATCCTAGAATCTAGTTTTGTCTAAAAGGGAATGTTTTTAG
1 TACACAATTTTAGGATGGTGTTTGAATCCTAGAAACTAGTTTTGTCTAAAAGGGAATGATTTGAG
* *
33854329 GACGGAGATATGTATTAAATGACATATGAAAACTTAAAACAATCTCTATAAAAGCAAAGACAATG
66 GACAGAGATATGTATTAAATGACATATGAAAACTTAAAACAATCTCTATAAAAGCAAAAACAATG
33854394 AATAAGAATGTGTG
131 AATAAGAATGTGTG
* *
33854408 TACACAATTTTAGGATGGTGTTTGAATCTTAGAAACTAGTTTTGTCTAAAGGGGAAAT-ATTTGA
1 TACACAATTTTAGGATGGTGTTTGAATCCTAGAAACTAGTTTTGTCTAAAAGGG-AATGATTTGA
* * *
33854472 GGGA-AG-GATATGTATTAAATGACA-AGTGAAAACTTAATACAATCTCTATAAAAGTAAAAATA
65 -GGACAGAGATATGTATTAAATGACATA-TGAAAACTTAAAACAATCTCTATAAAAGCAAAAACA
*
33854534 ATGAATAAGGATGT
128 ATGAATAAGAATGT
33854548 CACTTCTTCT
Statistics
Matches: 125, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
142 1 0.01
143 63 0.50
144 55 0.44
145 6 0.05
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.31
Consensus pattern (144 bp):
TACACAATTTTAGGATGGTGTTTGAATCCTAGAAACTAGTTTTGTCTAAAAGGGAATGATTTGAG
GACAGAGATATGTATTAAATGACATATGAAAACTTAAAACAATCTCTATAAAAGCAAAAACAATG
AATAAGAATGTGTG
Found at i:33854654 original size:2 final size:2
Alignment explanation
Indices: 33854649--33854673 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
33854639 TTTTCAAATT
33854649 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 T
33854674 TTTAAGTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:33858461 original size:12 final size:11
Alignment explanation
Indices: 33858400--33858462 Score: 64
Period size: 12 Copynumber: 5.9 Consensus size: 11
33858390 TAAATATTAG
33858400 ATTAAATTTAAT
1 ATTAAA-TTAAT
33858412 ATTAAATCT--T
1 ATTAAAT-TAAT
33858422 ATTAAATTAAT
1 ATTAAATTAAT
33858433 A--AAA-TAAT
1 ATTAAATTAAT
33858441 ATTAAATTAATT
1 ATTAAATTAA-T
33858453 ATTAAATTAA
1 ATTAAATTAA
33858463 ATTTTTATAA
Statistics
Matches: 44, Mismatches: 0, Indels: 14
0.76 0.00 0.24
Matches are distributed among these distances:
8 5 0.11
9 4 0.09
10 11 0.25
11 6 0.14
12 18 0.41
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (11 bp):
ATTAAATTAAT
Done.