Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167949.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_21, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 19848060
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Warning! 113000 characters in sequence are not A, C, G, or T
File 48 of 138
Found at i:10300757 original size:100 final size:98
Alignment explanation
Indices: 10300606--10300795 Score: 326
Period size: 100 Copynumber: 1.9 Consensus size: 98
10300596 ATGGTACCTT
10300606 TGTTTAGAGGAGCATTTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAACAATTTATTTTT
1 TGTTTAGAGGAGCATTTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAACAATTTATTTTT
* *
10300671 CAAAGTTGTAGTGCCTCTGTTTAAAGGTGCCTC
66 CAAAGTTATAGTGCCTCTATTTAAAGGTGCCTC
*
10300704 TGTTTAGAGGGAGCATTTTATTTTTCAAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTATTT
1 TGTTTAGA-GGAGCATTTTATTTTTC-AAAGTTGTGGTGCCTCTGTTTAGAGGAACAATTTATTT
*
10300769 TTCAAAGTTATGGTGCCTCTATTTAAA
64 TTCAAAGTTATAGTGCCTCTATTTAAA
10300796 AGAGCATTTT
Statistics
Matches: 86, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
98 8 0.09
99 17 0.20
100 61 0.71
ACGTcount: A:0.24, C:0.12, G:0.22, T:0.42
Consensus pattern (98 bp):
TGTTTAGAGGAGCATTTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAACAATTTATTTTT
CAAAGTTATAGTGCCTCTATTTAAAGGTGCCTC
Found at i:10300777 original size:141 final size:141
Alignment explanation
Indices: 10300580--10300837 Score: 401
Period size: 141 Copynumber: 1.8 Consensus size: 141
10300570 AAAGGAGTAA
* * *
10300580 TTTATTTTTCAAAGTTATGGTACCTTTGTTTAGAGGAGCATTTTATTTTTCAAAGTTGTGGTGCC
1 TTTATTTTTCAAAGTTATGGTACCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTATGGTGCC
* * *
10300645 TCTGTTTAGAGGAACAATTTATTTTTC-AAAGTTGTAGTGCCTCTGTTTAAAGGTGCCTCTGTTT
66 TCTATTTAAAAGAACAATTTATTTTTCAAAAGTTGTAGTGCCTCTGTTTAAAGGTGCCTCTGTTT
10300709 AGAGGGAGCAT
131 AGAGGGAGCAT
* *
10300720 TTTATTTTTCAAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTATGGTGC
1 TTTATTTTTC-AAAGTTATGGTACCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTATGGTGC
* * *
10300785 CTCTATTTAAAAGAGCATTTTATTTTTCAAAAGTTGTGGTGCCTCTGTTTAAA
65 CTCTATTTAAAAGAACAATTTATTTTTCAAAAGTTGTAGTGCCTCTGTTTAAA
10300838 TGAGCATTTA
Statistics
Matches: 105, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
140 10 0.10
141 72 0.69
142 23 0.22
ACGTcount: A:0.24, C:0.12, G:0.21, T:0.43
Consensus pattern (141 bp):
TTTATTTTTCAAAGTTATGGTACCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTATGGTGCC
TCTATTTAAAAGAACAATTTATTTTTCAAAAGTTGTAGTGCCTCTGTTTAAAGGTGCCTCTGTTT
AGAGGGAGCAT
Found at i:10300853 original size:42 final size:42
Alignment explanation
Indices: 10300696--10300852 Score: 228
Period size: 41 Copynumber: 3.8 Consensus size: 42
10300686 TCTGTTTAAA
*
10300696 GGTGCCTCTGTTTAGAGGGAGCATTTTATTTTTCAAAAGTTGT
1 GGTGCCTCTGTTTA-AAGGAGCATTTTATTTTTCAAAAGTTGT
* * *
10300739 GGTGCCTCTGTTTAGAGGAGCAATTTATTTTTC-AAAGTTAT
1 GGTGCCTCTGTTTAAAGGAGCATTTTATTTTTCAAAAGTTGT
* *
10300780 GGTGCCTCTATTTAAAAGAGCATTTTATTTTTCAAAAGTTGT
1 GGTGCCTCTGTTTAAAGGAGCATTTTATTTTTCAAAAGTTGT
*
10300822 GGTGCCTCTGTTTAAATGAGCA-TTTATTTTT
1 GGTGCCTCTGTTTAAAGGAGCATTTTATTTTT
10300853 TTCAATGCCA
Statistics
Matches: 102, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
41 45 0.44
42 43 0.42
43 14 0.14
ACGTcount: A:0.24, C:0.12, G:0.21, T:0.43
Consensus pattern (42 bp):
GGTGCCTCTGTTTAAAGGAGCATTTTATTTTTCAAAAGTTGT
Found at i:10300853 original size:83 final size:84
Alignment explanation
Indices: 10300696--10300852 Score: 255
Period size: 83 Copynumber: 1.9 Consensus size: 84
10300686 TCTGTTTAAA
* ** *
10300696 GGTGCCTCTGTTTAGAGGGAGCATTTTATTTTTCAAAAGTTGTGGTGCCTCTGTTTAGAGGAGCA
1 GGTGCCTCTATTTAGAAAGAGCATTTTATTTTTCAAAAGTTGTGGTGCCTCTGTTTAAAGGAGCA
10300761 ATTTATTTTTCAAAGTTAT
66 ATTTATTTTTCAAAGTTAT
*
10300780 GGTGCCTCTATTTA-AAAGAGCATTTTATTTTTCAAAAGTTGTGGTGCCTCTGTTTAAATGAGC-
1 GGTGCCTCTATTTAGAAAGAGCATTTTATTTTTCAAAAGTTGTGGTGCCTCTGTTTAAAGGAGCA
10300843 ATTTATTTTT
66 ATTTATTTTT
10300853 TTCAATGCCA
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
82 10 0.15
83 45 0.66
84 13 0.19
ACGTcount: A:0.24, C:0.12, G:0.21, T:0.43
Consensus pattern (84 bp):
GGTGCCTCTATTTAGAAAGAGCATTTTATTTTTCAAAAGTTGTGGTGCCTCTGTTTAAAGGAGCA
ATTTATTTTTCAAAGTTAT
Found at i:10300891 original size:223 final size:222
Alignment explanation
Indices: 10300472--10300879 Score: 539
Period size: 223 Copynumber: 1.8 Consensus size: 222
10300462 TAAAAGTTGT
* *
10300472 GGTGCCTCTGTTTTTAGAAGAGCAATTTATTTTTCAAACGTTGTGGTGCCTCTATTTAGATGAGC
1 GGTGCCTCTG-TTTTAGAAGAGCAATTTATTTTTCAAAAGTTGTGGTGCCTCTATTTAGAGGAGC
* * * *
10300537 AATTTATATTTCAAAGTTGTGATGCCTTTATTTAAAGGAGTAATTTATTTTTCAAAGTTATGGTA
65 AATTTATATTTCAAAGTTATGATGCCTCTATTTAAAAGAGCAATTTATTTTTCAAAGTTATGGTA
* * *** * *
10300602 CCTTTGTTTAGAGGAGCATTTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAACAATTTAT
130 CCTCTGTTTAAAGGAGCATTTTATTTTTCAAAGCCATGGAGCCTCTGTTCAGA-GAACAATTTAT
10300667 TTTTCAAAGTTGTAGTGCCTCTGTTTAAA
194 TTTTCAAAGTTGTAGTGCCTCTGTTTAAA
* * *
10300696 GGTGCCTCTG-TTTAGAGGGAGCATTTTATTTTTCAAAAGTTGTGGTGCCTCTGTTTAGAGGAGC
1 GGTGCCTCTGTTTTAGA-AGAGCAATTTATTTTTCAAAAGTTGTGGTGCCTCTATTTAGAGGAGC
* * * *
10300760 AATTTATTTTTCAAAGTTATGGTGCCTCTATTTAAAAGAGCATTTTATTTTTCAAAAGTTGTGGT
65 AATTTATATTTCAAAGTTATGATGCCTCTATTTAAAAGAGCAATTTATTTTTC-AAAGTTATGGT
* * * * *
10300825 GCCTCTGTTTAAATGAGCATTTATTTTTTTCAATGCCATTGAGCCTCTGTTCAGA
129 ACCTCTGTTTAAAGGAGCATTT-TATTTTTCAAAGCCATGGAGCCTCTGTTCAGA
10300880 AAAGCTTTAT
Statistics
Matches: 156, Mismatches: 25, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
222 6 0.04
223 88 0.56
224 38 0.24
225 24 0.15
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.43
Consensus pattern (222 bp):
GGTGCCTCTGTTTTAGAAGAGCAATTTATTTTTCAAAAGTTGTGGTGCCTCTATTTAGAGGAGCA
ATTTATATTTCAAAGTTATGATGCCTCTATTTAAAAGAGCAATTTATTTTTCAAAGTTATGGTAC
CTCTGTTTAAAGGAGCATTTTATTTTTCAAAGCCATGGAGCCTCTGTTCAGAGAACAATTTATTT
TTCAAAGTTGTAGTGCCTCTGTTTAAA
Found at i:10301522 original size:14 final size:14
Alignment explanation
Indices: 10301499--10301537 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
10301489 TCAATTCTAT
*
10301499 AAAAAGAGGGAAAG
1 AAAAAAAGGGAAAG
*
10301513 AAAAAAAGGGGAAG
1 AAAAAAAGGGAAAG
10301527 AAAAAGAAGGG
1 AAAAA-AAGGG
10301538 GAATGAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (14 bp):
AAAAAAAGGGAAAG
Found at i:10301524 original size:15 final size:15
Alignment explanation
Indices: 10301499--10301540 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 15
10301489 TCAATTCTAT
10301499 AAAAAGAGGGAAAGAA
1 AAAAAG-GGGAAAGAA
10301515 AAAAAGGGG-AAGAA
1 AAAAAGGGGAAAGAA
10301529 AAAGAAGGGGAA
1 AAA-AAGGGGAA
10301541 TGAGAAATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 8 0.33
15 9 0.38
16 7 0.29
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (15 bp):
AAAAAGGGGAAAGAA
Found at i:10302354 original size:109 final size:110
Alignment explanation
Indices: 10302230--10302440 Score: 293
Period size: 109 Copynumber: 1.9 Consensus size: 110
10302220 TTTCTTAAAA
* * *
10302230 CAAAAGAAATAAAAAGAATTTCTAAATAGGCCAAAATGATGGA-AATTTTAGAAAGTTCAAAA-A
1 CAAAAAAAAAAAAAAGAATTTCTAAATAGGCCAAAATGATGGAGAA-TTTA-AAAATTCAAAACA
* *
10302293 AGAAAATATTTTTAAATTGACCAAAATGATGGAA-AATTTAGAAATC
64 AAAAAATATTTCTAAATTGACCAAAATGATGGAATAATTTAGAAATC
*
10302339 CAAAAAAAAAAAAAAGAATTTCTAAATAGGCCAAAATGATGGAGAATTTAAAAATTTAAAACAAA
1 CAAAAAAAAAAAAAAGAATTTCTAAATAGGCCAAAATGATGGAGAATTTAAAAATTCAAAACAAA
* * * *
10302404 AAAATATTTCTAATTTGGCCTAAATGGTGGAATAATT
66 AAAATATTTCTAAATTGACCAAAATGATGGAATAATT
10302441 AGACATATTT
Statistics
Matches: 89, Mismatches: 10, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
108 9 0.10
109 74 0.83
110 6 0.07
ACGTcount: A:0.53, C:0.08, G:0.13, T:0.26
Consensus pattern (110 bp):
CAAAAAAAAAAAAAAGAATTTCTAAATAGGCCAAAATGATGGAGAATTTAAAAATTCAAAACAAA
AAAATATTTCTAAATTGACCAAAATGATGGAATAATTTAGAAATC
Found at i:10302374 original size:56 final size:56
Alignment explanation
Indices: 10302230--10302407 Score: 202
Period size: 56 Copynumber: 3.2 Consensus size: 56
10302220 TTTCTTAAAA
* * *
10302230 CAAAAGAAATAAAAAGAATTTCTAAATAGGCCAAAATGATGGAAATTTTAGAAAGTT
1 CAAAAAAAAAAAAAAGAATTTCTAAATAGGCCAAAATGATGGAAAATTTAGAAA-TT
* * * * * *
10302287 C---AAAAAAGAAAA-TATTTTTAAATTGACCAAAATGATGGAAAATTTAGAAATC
1 CAAAAAAAAAAAAAAGAATTTCTAAATAGGCCAAAATGATGGAAAATTTAGAAATT
* *
10302339 CAAAAAAAAAAAAAAGAATTTCTAAATAGGCCAAAATGATGGAGAATTTAAAAATT
1 CAAAAAAAAAAAAAAGAATTTCTAAATAGGCCAAAATGATGGAAAATTTAGAAATT
* *
10302395 TAAAACAAAAAAA
1 CAAAAAAAAAAAA
10302408 TATTTCTAAT
Statistics
Matches: 98, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
52 2 0.02
53 33 0.34
54 8 0.08
55 10 0.10
56 44 0.45
57 1 0.01
ACGTcount: A:0.57, C:0.07, G:0.12, T:0.23
Consensus pattern (56 bp):
CAAAAAAAAAAAAAAGAATTTCTAAATAGGCCAAAATGATGGAAAATTTAGAAATT
Found at i:10302429 original size:53 final size:51
Alignment explanation
Indices: 10302247--10302435 Score: 171
Period size: 53 Copynumber: 3.5 Consensus size: 51
10302237 AATAAAAAGA
* * *
10302247 ATTTCTAAATAGGCCAAAATGATGGAAATTTTAGAAAGTTCAAAAAAGAAAAT
1 ATTTCTAAATAGGCCAAAATGATGGAAA-TTTA-AAAATTAAAAAAAAAAAAT
* * * * * *
10302300 ATTTTTAAATTGACCAAAATGATGGAAAATTTAGAAATCCAAAAAAAAAAAAAAGA
1 ATTTCTAAATAGGCCAAAATGATGG-AAATTTAAAAAT---TAAAAAAAAAAAA-T
*
10302356 ATTTCTAAATAGGCCAAAATGATGGAGAATTTAAAAATTTAAAACAAAAAAAT
1 ATTTCTAAATAGGCCAAAATGATGGA-AATTTAAAAA-TTAAAAAAAAAAAAT
* * * *
10302409 ATTTCTAATTTGGCCTAAATGGTGGAA
1 ATTTCTAAATAGGCCAAAATGATGGAA
10302436 TAATTAGACA
Statistics
Matches: 109, Mismatches: 20, Indels: 15
0.76 0.14 0.10
Matches are distributed among these distances:
52 4 0.04
53 48 0.44
54 14 0.13
55 11 0.10
56 31 0.28
57 1 0.01
ACGTcount: A:0.51, C:0.08, G:0.14, T:0.27
Consensus pattern (51 bp):
ATTTCTAAATAGGCCAAAATGATGGAAATTTAAAAATTAAAAAAAAAAAAT
Found at i:10313138 original size:83 final size:84
Alignment explanation
Indices: 10312982--10313282 Score: 278
Period size: 83 Copynumber: 3.6 Consensus size: 84
10312972 ACTATGCTCG
* * * * ** *
10312982 GAGGTTTTATAAATCTTGACATGAAAACATATTTAGCTTGGAAGACTTATGAATCTTACCCAGAT
1 GAGGTCTTATAAATCTTGACATGAAAATAAACTTAGCTTAAAAGACTTACGAATCTTA-CCAGAT
*
10313047 -GAATTAGAGGCTATGCCTA
65 AGAATTAGAGACTATGCCTA
* * * **
10313066 GAGGCCTTATAAATCTTGACAT-AAAATAAACTTAGCTTAAAAGACGTACGAATCTTGCTTGATA
1 GAGGTCTTATAAATCTTGACATGAAAATAAACTTAGCTTAAAAGACTTACGAATCTTACCAGATA
* *
10313130 GACTTAGAGACAATG-CTCA
66 GAATTAGAGACTATGCCT-A
* * * *
10313149 GAGGTCTTATAGATCTT---ATGAAAATAGATTTAGCTTGAAAA-ACTTACGAATATTACCAGA-
1 GAGGTCTTATAAATCTTGACATGAAAATAAACTTAGCTT-AAAAGACTTACGAATCTTACCAGAT
*
10313209 AGATTTAGAGACTATGCCTA
65 AGAATTAGAGACTATGCCTA
* * * * *
10313229 AAGGTCTTACAAATCTCGACATGAAAAT-AGCTTTAGCTTAAAAGACTTATGAAT
1 GAGGTCTTATAAATCTTGACATGAAAATAAAC-TTAGCTTAAAAGACTTACGAAT
10313283 TTCAAATCTA
Statistics
Matches: 173, Mismatches: 34, Indels: 21
0.76 0.15 0.09
Matches are distributed among these distances:
80 30 0.17
81 30 0.17
82 14 0.08
83 79 0.46
84 20 0.12
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (84 bp):
GAGGTCTTATAAATCTTGACATGAAAATAAACTTAGCTTAAAAGACTTACGAATCTTACCAGATA
GAATTAGAGACTATGCCTA
Found at i:10313273 original size:164 final size:165
Alignment explanation
Indices: 10312965--10313274 Score: 392
Period size: 164 Copynumber: 1.9 Consensus size: 165
10312955 GCCTAAAGGT
* * * * * * *
10312965 CTTAGATACTATGCTCGGAGGTTTTATAAATCTTGACATGAAAACATATTTAGCTTGGAAGACTT
1 CTTAGAGACAATGCTCAGAGGTCTTATAAATCTT-A-ATGAAAACAGATTTAGCTTGAAAAACTT
* * * * * * *
10313030 ATGAATCTTACCCAGATGAATTAGAGGCTATGCCTAGAGGCCTTATAAATCTTGACATAAAATAA
64 ACGAATATTACCCAGAAGAATTAGAGACTATGCCTAAAGGCCTTACAAATCTCGACATAAAATAA
10313095 ACTTAGCTTAAAAGACGTACGAATCTTGCTTGATAGA
129 ACTTAGCTTAAAAGACGTACGAATCTTGCTTGATAGA
* *
10313132 CTTAGAGACAATGCTCAGAGGTCTTATAGATCTT-ATGAAAATAGATTTAGCTTGAAAAACTTAC
1 CTTAGAGACAATGCTCAGAGGTCTTATAAATCTTAATGAAAACAGATTTAGCTTGAAAAACTTAC
* * *
10313196 GAATATTA-CCAGAAGATTTAGAGACTATGCCTAAAGGTCTTACAAATCTCGACATGAAAAT-AG
66 GAATATTACCCAGAAGAATTAGAGACTATGCCTAAAGGCCTTACAAATCTCGACAT-AAAATAAA
10313259 CTTTAGCTTAAAAGAC
130 C-TTAGCTTAAAAGAC
10313275 TTATGAATTT
Statistics
Matches: 122, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
163 42 0.34
164 51 0.42
167 29 0.24
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.30
Consensus pattern (165 bp):
CTTAGAGACAATGCTCAGAGGTCTTATAAATCTTAATGAAAACAGATTTAGCTTGAAAAACTTAC
GAATATTACCCAGAAGAATTAGAGACTATGCCTAAAGGCCTTACAAATCTCGACATAAAATAAAC
TTAGCTTAAAAGACGTACGAATCTTGCTTGATAGA
Found at i:10314617 original size:18 final size:17
Alignment explanation
Indices: 10314590--10314629 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
10314580 GCTCATGAAT
*
10314590 GAAACATGAATTTTTTA
1 GAAACATGAATTCTTTA
10314607 GAAAGCATGAATTCTTTA
1 GAAA-CATGAATTCTTTA
*
10314625 AAAAC
1 GAAAC
10314630 TAAACATGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (17 bp):
GAAACATGAATTCTTTA
Found at i:10315337 original size:23 final size:23
Alignment explanation
Indices: 10315309--10315354 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
10315299 CTTTGTATTT
10315309 TTTCCTTTCTTCTTT-TGCCTTTG
1 TTTCCTTTCTTCTTTCT-CCTTTG
*
10315332 TTTCCTTTTTTCTTTCTCCTTTG
1 TTTCCTTTCTTCTTTCTCCTTTG
10315355 AATGGATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 20 0.95
24 1 0.05
ACGTcount: A:0.00, C:0.26, G:0.07, T:0.67
Consensus pattern (23 bp):
TTTCCTTTCTTCTTTCTCCTTTG
Found at i:10320637 original size:16 final size:16
Alignment explanation
Indices: 10320591--10320638 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
10320581 GATTTTTATT
*
10320591 TTTATTTAAATATATA
1 TTTATTTAAATATTTA
10320607 TTT-TTTGAAATATTTA
1 TTTATTT-AAATATTTA
*
10320623 TTTATTTAAAAATTTA
1 TTTATTTAAATATTTA
10320639 AAACTTGAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 3 0.11
16 22 0.79
17 3 0.11
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (16 bp):
TTTATTTAAATATTTA
Found at i:10322634 original size:11 final size:11
Alignment explanation
Indices: 10322603--10322806 Score: 70
Period size: 12 Copynumber: 17.9 Consensus size: 11
10322593 CAAAATAATT
10322603 TCATACAAAATA
1 TCATA-AAAATA
*
10322615 TTATAAAAAATA
1 TCAT-AAAAATA
10322627 TCATAAAAGA-A
1 TCATAAAA-ATA
*
10322638 TCATTAAACCATTA
1 TCA-TAAA--AATA
*
10322652 T-AAAAATAATA
1 TCATAAA-AATA
*
10322663 TCATAAAAAGA
1 TCATAAAAATA
*
10322674 TAAT-AAAATA
1 TCATAAAAATA
*
10322684 TCATTAAAATA
1 TCATAAAAATA
10322695 TCATAATAAA-A
1 TCATAA-AAATA
*
10322706 TCATGCAAAA-A
1 TCAT-AAAAATA
10322717 T-AT--AAATA
1 TCATAAAAATA
* *
10322725 CCATGCAATAATA
1 TCAT--AAAAATA
10322738 TCATTAAAAAT-
1 TCA-TAAAAATA
10322749 TCATGCAAAAATA
1 TCAT--AAAAATA
*
10322762 TCATGCAAAAAAA
1 TCAT--AAAAATA
*
10322775 TCACAATAAATA
1 TCATAA-AAATA
10322787 TCATACAAAA-A
1 TCATA-AAAATA
10322798 T-ATAAAAAT
1 TCATAAAAAT
10322807 TCAATCAAAG
Statistics
Matches: 148, Mismatches: 21, Indels: 48
0.68 0.10 0.22
Matches are distributed among these distances:
7 3 0.02
8 1 0.01
9 6 0.04
10 14 0.09
11 46 0.31
12 50 0.34
13 24 0.16
14 4 0.03
ACGTcount: A:0.59, C:0.11, G:0.03, T:0.26
Consensus pattern (11 bp):
TCATAAAAATA
Found at i:10322700 original size:24 final size:24
Alignment explanation
Indices: 10322621--10322706 Score: 74
Period size: 22 Copynumber: 3.8 Consensus size: 24
10322611 AATATTATAA
*
10322621 AAAATATCATAA-AAGA-ATCATT
1 AAAATATCATAATAAAATATCATT
** * *
10322643 AAACCATTATAAAAATAATATCA-T
1 AAAATATCATAATAA-AATATCATT
*
10322667 AAAA-A-GATAATAAAATATCATT
1 AAAATATCATAATAAAATATCATT
10322689 AAAATATCATAATAAAAT
1 AAAATATCATAATAAAAT
10322707 CATGCAAAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
21 7 0.14
22 20 0.40
23 4 0.08
24 15 0.30
25 4 0.08
ACGTcount: A:0.62, C:0.08, G:0.02, T:0.28
Consensus pattern (24 bp):
AAAATATCATAATAAAATATCATT
Found at i:10322706 original size:13 final size:13
Alignment explanation
Indices: 10322673--10322706 Score: 54
Period size: 11 Copynumber: 2.8 Consensus size: 13
10322663 TCATAAAAAG
10322673 ATAATAAAATATC
1 ATAATAAAATATC
10322686 AT--TAAAATATC
1 ATAATAAAATATC
10322697 ATAATAAAAT
1 ATAATAAAAT
10322707 CATGCAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 11 0.58
13 8 0.42
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (13 bp):
ATAATAAAATATC
Found at i:10322716 original size:24 final size:24
Alignment explanation
Indices: 10322673--10322791 Score: 78
Period size: 24 Copynumber: 5.1 Consensus size: 24
10322663 TCATAAAAAG
10322673 ATAATAAAAT-AT-CATTAAAATATC
1 ATAATAAAATCATGCA--AAAATATC
10322697 ATAATAAAATCATGCAAAAATAT-
1 ATAATAAAATCATGCAAAAATATC
* *
10322720 A-AAT---ACCATGCAATAATATC
1 ATAATAAAATCATGCAAAAATATC
*
10322740 ATTAA-AAATTCATGCAAAAATATC
1 A-TAATAAAATCATGCAAAAATATC
*
10322764 ATGCAAAAAAATCA--CAATAAATATC
1 AT--AATAAAATCATGCAA-AAATATC
10322789 ATA
1 ATA
10322792 CAAAAATATA
Statistics
Matches: 77, Mismatches: 6, Indels: 25
0.71 0.06 0.23
Matches are distributed among these distances:
19 13 0.17
20 1 0.01
22 5 0.06
23 3 0.04
24 34 0.44
25 13 0.17
26 8 0.10
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.27
Consensus pattern (24 bp):
ATAATAAAATCATGCAAAAATATC
Found at i:10322765 original size:13 final size:13
Alignment explanation
Indices: 10322720--10322800 Score: 80
Period size: 13 Copynumber: 6.5 Consensus size: 13
10322710 GCAAAAATAT
*
10322720 AAATACCATGCAA
1 AAATATCATGCAA
* *
10322733 TAATATCAT-TAA
1 AAATATCATGCAA
10322745 AAAT-TCATGCAA
1 AAATATCATGCAA
10322757 AAATATCATGCAA
1 AAATATCATGCAA
*
10322770 AAAAATCA--CAA
1 AAATATCATGCAA
*
10322781 TAAATATCATACAA
1 -AAATATCATGCAA
10322795 AAATAT
1 AAATAT
10322801 AAAAATTCAA
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
11 7 0.12
12 18 0.32
13 28 0.50
14 3 0.05
ACGTcount: A:0.57, C:0.15, G:0.04, T:0.25
Consensus pattern (13 bp):
AAATATCATGCAA
Found at i:10323003 original size:14 final size:13
Alignment explanation
Indices: 10322885--10323219 Score: 84
Period size: 14 Copynumber: 25.5 Consensus size: 13
10322875 AAGAAGGAGT
10322885 ATTAAAAAATAGAA
1 ATTAAAAAATA-AA
10322899 ATTAAAAAATAGAA
1 ATTAAAAAATA-AA
*
10322913 A-TAAAAAATAAT
1 ATTAAAAAATAAA
* *
10322925 TTTAGAAACA-AAA
1 ATTA-AAAAATAAA
*
10322938 ATTAAAAAACAGAA
1 ATTAAAAAATA-AA
*
10322952 ATTAAAAAA-AAC
1 ATTAAAAAATAAA
*
10322964 TTTAAAAAA-ATAA
1 ATTAAAAAATA-AA
*
10322977 A-TAGAAATTATAAA
1 ATTA-AAA-AATAAA
10322991 ATTATAAAAATAAA
1 ATTA-AAAAATAAA
*
10323005 AAT-AAAAATGCAGAA
1 ATTAAAAAAT--A-AA
*
10323020 ACT---AAA-AAA
1 ATTAAAAAATAAA
*
10323029 ATTTAAAAA-AAA
1 ATTAAAAAATAAA
*
10323041 ATTCAAAGAA-AAA
1 ATT-AAAAAATAAA
*
10323054 GTTAAAAATATAAA
1 ATTAAAAA-ATAAA
*
10323068 A-TATAAAAA-GAA
1 ATTA-AAAAATAAA
* *
10323080 ATTAAATAACAAGA
1 ATTAAAAAATAA-A
*
10323094 ATTAAAACAATAGGA
1 ATTAAAA-AATA-AA
*
10323109 ACTAAAAACA-AAA
1 ATTAAAAA-ATAAA
*
10323122 ATTAAAAAA-ATA
1 ATTAAAAAATAAA
**
10323134 A--AAATCAT-AA
1 ATTAAAAAATAAA
*
10323144 A-TAAAAAACAAA
1 ATTAAAAAATAAA
10323156 ACTTGAAAAACA-AGAA
1 A-TT-AAAAA-ATA-AA
10323172 ATTAAAAACA-AAA
1 ATTAAAAA-ATAAA
10323185 ATTAAAAAATAGAA
1 ATTAAAAAATA-AA
*
10323199 ATTTAAAAAACAAAA
1 A-TTAAAAAA-TAAA
10323214 ATTAAA
1 ATTAAA
10323220 GACCAAAAAT
Statistics
Matches: 246, Mismatches: 38, Indels: 74
0.69 0.11 0.21
Matches are distributed among these distances:
9 4 0.02
10 7 0.03
11 4 0.02
12 51 0.21
13 60 0.24
14 75 0.30
15 40 0.16
16 5 0.02
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.20
Consensus pattern (13 bp):
ATTAAAAAATAAA
Found at i:10323040 original size:12 final size:12
Alignment explanation
Indices: 10323023--10323061 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
10323013 TGCAGAAACT
10323023 AAAAAAATTTAA
1 AAAAAAATTTAA
*
10323035 AAAAAAATTCAA
1 AAAAAAATTTAA
* *
10323047 AGAAAAAGTTAA
1 AAAAAAATTTAA
10323059 AAA
1 AAA
10323062 TATAAAATAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.74, C:0.03, G:0.05, T:0.18
Consensus pattern (12 bp):
AAAAAAATTTAA
Found at i:10323041 original size:68 final size:70
Alignment explanation
Indices: 10322934--10323076 Score: 156
Period size: 68 Copynumber: 2.1 Consensus size: 70
10322924 TTTTAGAAAC
* * *
10322934 AAAAATTAAAAAACAGAAATTAAAAAAAACTTTAAAAAAA-T-AAATAGAAA-TTATAAAATTAT
1 AAAAATTAAAAAACAGAAACTAAAAAAAACTTTAAAAAAATTCAAAGAAAAAGTTA-AAAA-TAT
10322996 AAAA-AT
64 AAAATAT
*
10323002 AAAAA-TAAAAATGCAGAAACT-AAAAAAA-TTTAAAAAAAAATTCAAAGAAAAAGTTAAAAATA
1 AAAAATTAAAAA-ACAGAAACTAAAAAAAACTTT--AAAAAAATTCAAAGAAAAAGTTAAAAATA
10323064 TAAAATAT
63 TAAAATAT
10323072 AAAAA
1 AAAAA
10323077 GAAATTAAAT
Statistics
Matches: 64, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
66 3 0.05
67 13 0.20
68 19 0.30
69 8 0.12
70 18 0.28
71 3 0.05
ACGTcount: A:0.71, C:0.03, G:0.04, T:0.21
Consensus pattern (70 bp):
AAAAATTAAAAAACAGAAACTAAAAAAAACTTTAAAAAAATTCAAAGAAAAAGTTAAAAATATAA
AATAT
Found at i:10323135 original size:21 final size:21
Alignment explanation
Indices: 10323111--10323273 Score: 77
Period size: 21 Copynumber: 7.6 Consensus size: 21
10323101 CAATAGGAAC
10323111 TAAAAA-CAAAAATTAAAAAAA
1 TAAAAATCAAAAA-TAAAAAAA
*
10323132 TAAAAATCATAAATAAAAAACA
1 TAAAAATCAAAAATAAAAAA-A
** * * * *
10323154 -AAACTTGAAAAACAAGAAAT
1 TAAAAATCAAAAATAAAAAAA
*
10323174 TAAAAA-CAAAAATTAAAAAA
1 TAAAAATCAAAAATAAAAAAA
* * *
10323194 TAGAAATTTAAAAA-ACAAAAAT
1 TA-AAAATCAAAAATA-AAAAAA
* *
10323216 TAAAGACCAAAAATTAAAAAGAA
1 TAAAAATCAAAAA-TAAAAA-AA
10323239 -AAAAAT-AAAAAGCTAAATAAAA
1 TAAAAATCAAAAA--TAAA-AAAA
*
10323261 TAAAAATAAAAAA
1 TAAAAATCAAAAA
10323274 ACATAAAAAT
Statistics
Matches: 102, Mismatches: 27, Indels: 23
0.67 0.18 0.15
Matches are distributed among these distances:
20 11 0.11
21 44 0.43
22 32 0.31
23 10 0.10
24 5 0.05
ACGTcount: A:0.74, C:0.06, G:0.04, T:0.16
Consensus pattern (21 bp):
TAAAAATCAAAAATAAAAAAA
Found at i:10323214 original size:29 final size:28
Alignment explanation
Indices: 10323145--10323249 Score: 110
Period size: 28 Copynumber: 3.7 Consensus size: 28
10323135 AAATCATAAA
*
10323145 TAAAAAACAAAACTTGAAAAACAAGAAAT
1 TAAAAAACAAAAATT-AAAAACAAGAAAT
10323174 T-AAAAACAAAAATTAAAAA-ATAGAAATT
1 TAAAAAACAAAAATTAAAAACA-AGAAA-T
*
10323202 TAAAAAACAAAAATTAAAGACCAA-AAAT
1 TAAAAAACAAAAATTAAA-AACAAGAAAT
*
10323230 TAAAAAGA-AAAAAATAAAAA
1 TAAAAA-ACAAAAATTAAAAA
10323250 GCTAAATAAA
Statistics
Matches: 66, Mismatches: 4, Indels: 14
0.79 0.05 0.17
Matches are distributed among these distances:
26 1 0.02
27 11 0.17
28 30 0.45
29 21 0.32
30 2 0.03
31 1 0.02
ACGTcount: A:0.73, C:0.07, G:0.05, T:0.15
Consensus pattern (28 bp):
TAAAAAACAAAAATTAAAAACAAGAAAT
Found at i:10323241 original size:14 final size:13
Alignment explanation
Indices: 10323023--10323249 Score: 89
Period size: 14 Copynumber: 16.1 Consensus size: 13
10323013 TGCAGAAACT
*
10323023 AAAAAAATT-TAA
1 AAAAAAATTAAAA
*
10323035 AAAAAAATTCAAA
1 AAAAAAATTAAAA
* *
10323048 GAAAAAGTTAAAA
1 AAAAAAATTAAAA
* *
10323061 ATATAAAA-TATAA
1 A-AAAAAATTAAAA
*
10323074 AAAGAAATTAAATA
1 AAAAAAATTAAA-A
* *
10323088 ACAAGAATTAAAA
1 AAAAAAATTAAAA
** *
10323101 CAATAGGAACTAAAA
1 -AA-AAAAATTAAAA
*
10323116 ACAAAAATTAAAAA
1 AAAAAAATT-AAAA
10323130 AATAAAAATCATAAATAAA
1 AA-AAAAAT--T--A-AAA
10323149 AAACAAAACTTGAAAA
1 AAA-AAAA-TT-AAAA
*
10323165 ACAAGAAATTAAAA
1 A-AAAAAATTAAAA
*
10323179 ACAAAAATTAAAA
1 AAAAAAATTAAAA
*
10323192 AATAGAAATTTAAAA
1 AA-A-AAAATTAAAA
10323207 AACAAAAATTAAAGA
1 AA-AAAAATTAAA-A
**
10323222 CCAAAAATTAAAA
1 AAAAAAATTAAAA
*
10323235 AGAAAAAAATAAAA
1 A-AAAAAATTAAAA
10323249 A
1 A
10323250 GCTAAATAAA
Statistics
Matches: 161, Mismatches: 35, Indels: 36
0.69 0.15 0.16
Matches are distributed among these distances:
12 13 0.08
13 37 0.23
14 56 0.35
15 30 0.19
16 7 0.04
17 4 0.02
18 4 0.02
19 9 0.06
20 1 0.01
ACGTcount: A:0.72, C:0.06, G:0.05, T:0.17
Consensus pattern (13 bp):
AAAAAAATTAAAA
Found at i:10323281 original size:10 final size:10
Alignment explanation
Indices: 10323237--10323297 Score: 52
Period size: 10 Copynumber: 5.7 Consensus size: 10
10323227 AATTAAAAAG
10323237 AAAAAAATAA
1 AAAAAAATAA
*
10323247 AAAGCTAAATAA
1 AAA--AAAATAA
10323259 AATAAAAATAA
1 AA-AAAAATAA
*
10323270 AAAAACATAA
1 AAAAAAATAA
10323280 AAATAGAAA-AA
1 AAA-A-AAATAA
10323291 AAAAAAA
1 AAAAAAA
10323298 CTATGGAATC
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
9 3 0.07
10 14 0.33
11 14 0.33
12 10 0.24
13 1 0.02
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.11
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:10323282 original size:17 final size:15
Alignment explanation
Indices: 10323224--10323297 Score: 71
Period size: 17 Copynumber: 4.8 Consensus size: 15
10323214 ATTAAAGACC
* *
10323224 AAAAATTAAAAA-GA
1 AAAAAATAAAAATAA
10323238 AAAAAATAAAAAGCTAA
1 AAAAAATAAAAA--TAA
*
10323255 ATAAAATAAAAATAA
1 AAAAAATAAAAATAA
10323270 AAAAACATAAAAATAGA
1 AAAAA-ATAAAAATA-A
10323287 AAAAAA-AAAAA
1 AAAAAATAAAAA
10323298 CTATGGAATC
Statistics
Matches: 51, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
14 11 0.22
15 12 0.24
16 10 0.20
17 18 0.35
ACGTcount: A:0.81, C:0.03, G:0.04, T:0.12
Consensus pattern (15 bp):
AAAAAATAAAAATAA
Found at i:10325455 original size:16 final size:15
Alignment explanation
Indices: 10325434--10325481 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
10325424 TTATTTGATT
*
10325434 TTATTTATTTAAATAA
1 TTATTTTTTTAAAT-A
10325450 TTATTTTTTTAAATA
1 TTATTTTTTTAAATA
*
10325465 TAATTTTTTTAAA-A
1 TTATTTTTTTAAATA
10325479 TTA
1 TTA
10325482 AACTCATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 3 0.10
15 13 0.45
16 13 0.45
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTATTTTTTTAAATA
Found at i:10328269 original size:13 final size:13
Alignment explanation
Indices: 10328251--10328277 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10328241 TCGATAGAAT
10328251 ACCAAAGCATAGA
1 ACCAAAGCATAGA
10328264 ACCAAAGCATAGA
1 ACCAAAGCATAGA
10328277 A
1 A
10328278 GAAACCTAAG
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:0.56, C:0.22, G:0.15, T:0.07
Consensus pattern (13 bp):
ACCAAAGCATAGA
Found at i:10331590 original size:6 final size:6
Alignment explanation
Indices: 10331579--10331668 Score: 87
Period size: 6 Copynumber: 15.3 Consensus size: 6
10331569 CAAAAAAATG
* *
10331579 TTGATT TTGATT TTGA-T TTAATT TTGATTT TTGATT TTGATT TTG-GT
1 TTGATT TTGATT TTGATT TTGATT TTGA-TT TTGATT TTGATT TTGATT
* * * * *
10331626 TTAATT TTGGTT TTGATT TTGGTT TTGGTT TTAATT TTG-TT TT
1 TTGATT TTGATT TTGATT TTGATT TTGATT TTGATT TTGATT TT
10331669 TATTGTTAAT
Statistics
Matches: 69, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
5 11 0.16
6 52 0.75
7 6 0.09
ACGTcount: A:0.14, C:0.00, G:0.18, T:0.68
Consensus pattern (6 bp):
TTGATT
Found at i:10331613 original size:30 final size:29
Alignment explanation
Indices: 10331579--10331669 Score: 128
Period size: 30 Copynumber: 3.1 Consensus size: 29
10331569 CAAAAAAATG
10331579 TTGATTTTGATTTTGATTTAATTTTGATTT
1 TTGATTTTGATTTTGATTTAATTTTG-TTT
* *
10331609 TTGATTTTGATTTTGGTTTAATTTTGGTT
1 TTGATTTTGATTTTGATTTAATTTTGTTT
* *
10331638 TTGATTTTGGTTTTGGTTTTAATTTTGTTT
1 TTGATTTTGATTTT-GATTTAATTTTGTTT
10331668 TT
1 TT
10331670 ATTGTTAATT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
29 15 0.27
30 40 0.73
ACGTcount: A:0.14, C:0.00, G:0.18, T:0.68
Consensus pattern (29 bp):
TTGATTTTGATTTTGATTTAATTTTGTTT
Found at i:10331645 original size:23 final size:23
Alignment explanation
Indices: 10331582--10331650 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
10331572 AAAAATGTTG
***
10331582 ATTTTGATTTTGATTTAATTTTGA
1 ATTTTGATTTTGATTTTGGTTT-A
*
10331606 TTTTTGATTTTGATTTTGGTTTA
1 ATTTTGATTTTGATTTTGGTTTA
*
10331629 ATTTTGGTTTTGATTTTGGTTT
1 ATTTTGATTTTGATTTTGGTTT
10331651 TGGTTTTAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
23 21 0.54
24 18 0.46
ACGTcount: A:0.16, C:0.00, G:0.17, T:0.67
Consensus pattern (23 bp):
ATTTTGATTTTGATTTTGGTTTA
Found at i:10331702 original size:25 final size:25
Alignment explanation
Indices: 10331674--10331731 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
10331664 GTTTTTATTG
10331674 TTAATTTTAA-ATTTTGGTTCTAATC
1 TTAATTTTAATATTTTGGTT-TAATC
* * *
10331699 TTAAATTTAATTTTTTGGTTTAATT
1 TTAATTTTAATATTTTGGTTTAATC
*
10331724 TTATTTTT
1 TTAATTTT
10331732 TTTTATAGTC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 19 0.70
26 8 0.30
ACGTcount: A:0.26, C:0.03, G:0.07, T:0.64
Consensus pattern (25 bp):
TTAATTTTAATATTTTGGTTTAATC
Found at i:10332806 original size:6 final size:6
Alignment explanation
Indices: 10332797--10332923 Score: 112
Period size: 6 Copynumber: 20.7 Consensus size: 6
10332787 ATGTTTTTTC
* * * *
10332797 TTTTGA TTTTGA TTTTGA TTTTGA TTTGGA TTTGGA TTTTGT TTTTGT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA
* * * * *
10332845 TTTTGA TTTAGA GTTGGA TTTGGA TTTTGA TTTGGA TTTTGA -TTTGA
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA
* *
10332892 CTTTTTCA TTTTGG TTTTGTA TTTTGTA TTTT
1 --TTTTGA TTTTGA TTTTG-A TTTTG-A TTTT
10332924 ATTATTTATT
Statistics
Matches: 102, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
5 5 0.05
6 82 0.80
7 11 0.11
8 4 0.04
ACGTcount: A:0.14, C:0.02, G:0.20, T:0.64
Consensus pattern (6 bp):
TTTTGA
Found at i:10332837 original size:36 final size:36
Alignment explanation
Indices: 10332797--10332889 Score: 141
Period size: 36 Copynumber: 2.6 Consensus size: 36
10332787 ATGTTTTTTC
* *
10332797 TTTTGATTTTGATTTTGATTTTGATTTGGATTTGGA
1 TTTTGATTTTGATTTTGATTTAGAGTTGGATTTGGA
* *
10332833 TTTTGTTTTTGTTTTTGATTTAGAGTTGGATTTGGA
1 TTTTGATTTTGATTTTGATTTAGAGTTGGATTTGGA
*
10332869 TTTTGATTTGGATTTTGATTT
1 TTTTGATTTTGATTTTGATTT
10332890 GACTTTTTCA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.15, C:0.00, G:0.23, T:0.62
Consensus pattern (36 bp):
TTTTGATTTTGATTTTGATTTAGAGTTGGATTTGGA
Found at i:10333047 original size:18 final size:18
Alignment explanation
Indices: 10333007--10333043 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
10332997 TATAGTTTAG
*
10333007 TATTTTTTTCATGGTATT
1 TATTTTTTGCATGGTATT
10333025 TATTTTTTGCATGG-ATT
1 TATTTTTTGCATGGTATT
10333042 TA
1 TA
10333044 ATTTAATTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.19, C:0.05, G:0.14, T:0.62
Consensus pattern (18 bp):
TATTTTTTGCATGGTATT
Found at i:10333148 original size:24 final size:23
Alignment explanation
Indices: 10333121--10333210 Score: 67
Period size: 24 Copynumber: 3.7 Consensus size: 23
10333111 ATATAATTGC
10333121 ATATTTATTTGCATGATTATTAAT
1 ATATTTA-TTGCATGATTATTAAT
** *
10333145 ATATTTATTTGTGTGATTTATT-TT
1 ATATTTA-TTGCATGA-TTATTAAT
*
10333169 ATA-TTATTGCATGATAATTTTACAT
1 ATATTTATTGCATGAT--TATTA-AT
10333194 GATATTTATTGCATGAT
1 -ATATTTATTGCATGAT
10333211 GTTGATATTT
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
21 1 0.02
22 6 0.12
23 6 0.12
24 18 0.35
25 6 0.12
26 3 0.06
27 12 0.23
ACGTcount: A:0.30, C:0.04, G:0.11, T:0.54
Consensus pattern (23 bp):
ATATTTATTGCATGATTATTAAT
Found at i:10333210 original size:14 final size:14
Alignment explanation
Indices: 10333171--10333210 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
10333161 TTTATTTTAT
10333171 ATTATTGCATGATA
1 ATTATTGCATGATA
*
10333185 ATT-TTACATGATA
1 ATTATTGCATGATA
*
10333198 TTTATTGCATGAT
1 ATTATTGCATGAT
10333211 GTTGATATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.47
Consensus pattern (14 bp):
ATTATTGCATGATA
Found at i:10333421 original size:183 final size:183
Alignment explanation
Indices: 10333226--10333596 Score: 742
Period size: 183 Copynumber: 2.0 Consensus size: 183
10333216 TATTTGCATG
10333226 ATGATTTTATACTTATTGCCTGATATCTTTGCATGATTGTTGGTATGATTTATAATATATTTGCC
1 ATGATTTTATACTTATTGCCTGATATCTTTGCATGATTGTTGGTATGATTTATAATATATTTGCC
10333291 TGATGCATGCATGTTTTAATTATTGCATGATTGCATGATTTGATTTTGATAGAATTTTTGTATGA
66 TGATGCATGCATGTTTTAATTATTGCATGATTGCATGATTTGATTTTGATAGAATTTTTGTATGA
10333356 CAATGTTATGTAAATAAATAAAAGTGATTGGAATTGATTTTTGCATGCTTTGC
131 CAATGTTATGTAAATAAATAAAAGTGATTGGAATTGATTTTTGCATGCTTTGC
10333409 ATGATTTTATACTTATTGCCTGATATCTTTGCATGATTGTTGGTATGATTTATAATATATTTGCC
1 ATGATTTTATACTTATTGCCTGATATCTTTGCATGATTGTTGGTATGATTTATAATATATTTGCC
10333474 TGATGCATGCATGTTTTAATTATTGCATGATTGCATGATTTGATTTTGATAGAATTTTTGTATGA
66 TGATGCATGCATGTTTTAATTATTGCATGATTGCATGATTTGATTTTGATAGAATTTTTGTATGA
10333539 CAATGTTATGTAAATAAATAAAAGTGATTGGAATTGATTTTTGCATGCTTTGC
131 CAATGTTATGTAAATAAATAAAAGTGATTGGAATTGATTTTTGCATGCTTTGC
10333592 ATGAT
1 ATGAT
10333597 ATAAAACTAT
Statistics
Matches: 188, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
183 188 1.00
ACGTcount: A:0.28, C:0.08, G:0.18, T:0.46
Consensus pattern (183 bp):
ATGATTTTATACTTATTGCCTGATATCTTTGCATGATTGTTGGTATGATTTATAATATATTTGCC
TGATGCATGCATGTTTTAATTATTGCATGATTGCATGATTTGATTTTGATAGAATTTTTGTATGA
CAATGTTATGTAAATAAATAAAAGTGATTGGAATTGATTTTTGCATGCTTTGC
Found at i:10334068 original size:19 final size:20
Alignment explanation
Indices: 10334012--10334057 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
10334002 TAACCCTTGT
10334012 TTTTTTTCTATAAATTATAG
1 TTTTTTTCTATAAATTATAG
10334032 TTTTTTTCTATAAATTAT-G
1 TTTTTTTCTATAAATTATAG
10334051 TTTTTTT
1 TTTTTTT
10334058 TACTAATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 8 0.31
20 18 0.69
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.67
Consensus pattern (20 bp):
TTTTTTTCTATAAATTATAG
Found at i:10338929 original size:16 final size:15
Alignment explanation
Indices: 10338888--10338952 Score: 53
Period size: 16 Copynumber: 4.1 Consensus size: 15
10338878 AAAATGAAAT
*
10338888 AAAAGGAAA-AAAACA
1 AAAAAGAAAGAAAA-A
*
10338903 AAAATAAAAAGAATAAA
1 AAAA-AGAAAGAA-AAA
10338920 AAAAAGAAAGAGAAAA
1 AAAAAGAAAGA-AAAA
10338936 ATAAAAG-AAGAAAAA
1 A-AAAAGAAAGAAAAA
10338951 AA
1 AA
10338953 GAATAACTGA
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
14 1 0.02
15 9 0.21
16 17 0.40
17 13 0.31
18 2 0.05
ACGTcount: A:0.82, C:0.02, G:0.12, T:0.05
Consensus pattern (15 bp):
AAAAAGAAAGAAAAA
Found at i:10340591 original size:11 final size:11
Alignment explanation
Indices: 10340577--10340616 Score: 55
Period size: 10 Copynumber: 3.5 Consensus size: 11
10340567 ACAAAAAGGT
10340577 TAAAAATAAAA
1 TAAAAATAAAA
10340588 TAAAAATAAAAAA
1 TAAAAAT--AAAA
10340601 TAAAAA-AAAA
1 TAAAAATAAAA
10340611 TAAAAA
1 TAAAAA
10340617 AAAGAAAACC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 10 0.37
11 7 0.26
13 10 0.37
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (11 bp):
TAAAAATAAAA
Found at i:10340592 original size:10 final size:9
Alignment explanation
Indices: 10340578--10340624 Score: 51
Period size: 9 Copynumber: 5.1 Consensus size: 9
10340568 CAAAAAGGTT
10340578 AAAAATAAA
1 AAAAATAAA
*
10340587 ATAAAA-ATA
1 A-AAAATAAA
10340596 AAAAATAAAA
1 AAAAAT-AAA
10340606 AAAAATAAA
1 AAAAATAAA
*
10340615 AAAAAGAAA
1 AAAAATAAA
10340624 A
1 A
10340625 CCTACGATCG
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
8 4 0.12
9 16 0.50
10 12 0.38
ACGTcount: A:0.87, C:0.00, G:0.02, T:0.11
Consensus pattern (9 bp):
AAAAATAAA
Found at i:10340593 original size:6 final size:6
Alignment explanation
Indices: 10340577--10340616 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
10340567 ACAAAAAGGT
10340577 TAAAAA T-AAAA TAAAAA TAAAAA -ATAAAA -AAAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TA-AAAA TAAAAA TAAAAA
10340617 AAAGAAAACC
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
5 10 0.32
6 21 0.68
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
TAAAAA
Found at i:10340617 original size:11 final size:11
Alignment explanation
Indices: 10340577--10340619 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
10340567 ACAAAAAGGT
*
10340577 TAAAAATAAAA
1 TAAAAAAAAAA
10340588 TAAAAATAAAAA
1 TAAAAA-AAAAA
10340600 -ATAAAAAAAAA
1 TA-AAAAAAAAA
10340611 TAAAAAAAA
1 TAAAAAAAA
10340620 GAAAACCTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
11 19 0.68
12 9 0.32
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (11 bp):
TAAAAAAAAAA
Found at i:10340618 original size:18 final size:18
Alignment explanation
Indices: 10340578--10340617 Score: 73
Period size: 17 Copynumber: 2.3 Consensus size: 18
10340568 CAAAAAGGTT
10340578 AAAAATAAAATAAAAATA
1 AAAAATAAAATAAAAATA
10340596 AAAAATAAAA-AAAAATA
1 AAAAATAAAATAAAAATA
10340613 AAAAA
1 AAAAA
10340618 AAGAAAACCT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (18 bp):
AAAAATAAAATAAAAATA
Found at i:10340624 original size:17 final size:17
Alignment explanation
Indices: 10340559--10340617 Score: 73
Period size: 18 Copynumber: 3.4 Consensus size: 17
10340549 GAATAAAACC
**
10340559 AAAAAATAACAAAAAGGT
1 AAAAAATAA-AAAAAAAT
*
10340577 TAAAAATAAAATAAAAAT
1 AAAAAATAAAA-AAAAAT
10340595 AAAAAATAAAAAAAAAT
1 AAAAAATAAAAAAAAAT
10340612 AAAAAA
1 AAAAAA
10340618 AAGAAAACCT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
17 14 0.39
18 22 0.61
ACGTcount: A:0.81, C:0.02, G:0.03, T:0.14
Consensus pattern (17 bp):
AAAAAATAAAAAAAAAT
Found at i:10341429 original size:15 final size:13
Alignment explanation
Indices: 10341404--10341454 Score: 50
Period size: 13 Copynumber: 3.7 Consensus size: 13
10341394 CAGGTTGAAT
10341404 AAAAAAGAAAGACAGC
1 AAAAAA-AAAGA-A-C
10341420 AAAAAAAAAGAAC
1 AAAAAAAAAGAAC
*
10341433 AAAAAAAATGAA-
1 AAAAAAAAAGAAC
10341445 AAATAAAAAA
1 AAA-AAAAAA
10341455 ATAATAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
12 3 0.09
13 17 0.53
14 1 0.03
15 5 0.16
16 6 0.19
ACGTcount: A:0.80, C:0.06, G:0.10, T:0.04
Consensus pattern (13 bp):
AAAAAAAAAGAAC
Found at i:10341452 original size:6 final size:6
Alignment explanation
Indices: 10341436--10341503 Score: 50
Period size: 6 Copynumber: 11.3 Consensus size: 6
10341426 AAAGAACAAA
* * * *
10341436 AAAAAT GAAAAAT AAAAA- AATAAT AATAAT -ATAAT GAAAAT AAAAAT
1 AAAAAT -AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
* *
10341483 AAGAAT AAAAAAT AATAAT AA
1 AAAAAT -AAAAAT AAAAAT AA
10341504 TAAAAGCATT
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
5 9 0.17
6 32 0.62
7 11 0.21
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (6 bp):
AAAAAT
Found at i:10341460 original size:3 final size:3
Alignment explanation
Indices: 10341454--10341506 Score: 51
Period size: 3 Copynumber: 18.7 Consensus size: 3
10341444 AAAATAAAAA
* *
10341454 AAT AAT AAT AAT -AT AAT GAA- AAT AAA AAT AAG AAT AA- AA- AAT
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT
10341496 AAT AAT AAT AA
1 AAT AAT AAT AA
10341507 AAGCATTTGA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
2 8 0.19
3 32 0.76
4 2 0.05
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:10341993 original size:119 final size:119
Alignment explanation
Indices: 10341744--10342465 Score: 631
Period size: 119 Copynumber: 6.2 Consensus size: 119
10341734 AAAAATAACT
* * ** * *
10341744 TGGATTAAGCCAAGGTCAAGTGACCAGGATTAAACCACGAGTC-AAATGAAA-CGATCAAGATCG
1 TGGATTGAGCCAAGATCAAGTGACCAGGACGAAACCACAAGTCAAAAT-AAAGCGACCAAGATCG
* * * * * * *
10341807 AGTCGAGGTCAAAAATAAATGATCAGGATGGAACTACGAATCATAAAAAATGATC
65 AGTCGAGGTCGAAAATGAATGATCGGGATAGAACCATGAATCATAAGAAATGATC
* *
10341862 TGGATTGAGCCAAGATCAAGTGACCAGGACGAAACCATAAGTCAAAATAAAGCGACCAAGA-CTA
1 TGGATTGAGCCAAGATCAAGTGACCAGGACGAAACCACAAGTCAAAATAAAGCGACCAAGATC-G
* * * *
10341926 AGTTGAGGTCGAAAATGAATAATCGGGATAGAACCATGAATCATAAGAAGTGATT
65 AGTCGAGGTCGAAAATGAATGATCGGGATAGAACCATGAATCATAAGAAATGATC
* * **
10341981 TGGACTGAGCCAAGATCGAAAG-G-TCAGGGTGAAACCACAAGTCAAAATAAAGCGACCAAGATC
1 TGGATTGAGCCAAGATC--AAGTGACCAGGACGAAACCACAAGTCAAAATAAAGCGACCAAGATC
* * * *
10342044 GAGTCGATGTCGAAAATGAATGATCGGGAAAAAATCATGAATCATAAGAAATGATC
64 GAGTCGAGGTCGAAAATGAATGATCGGGATAGAACCATGAATCATAAGAAATGATC
* * * * ** * * * *
10342100 TAGATTGAGCCAAGATCAGGTGACCAAGATTG-AGTC-GAGGTC--AA-AAA-TGA--ATGATCG
1 TGGATTGAGCCAAGATCAAGTGACCAGGA-CGAAACCACAAGTCAAAATAAAGCGACCAAGATCG
* ** *
10342157 -G--GA--TCGAAAATAAATGATCGAAAT-GAAACCATGAATCATAAGAAATGATT
65 AGTCGAGGTCGAAAATGAATGATCGGGATAG-AACCATGAATCATAAGAAATGATC
* * * *
10342207 TGGATTGAGCCAAGATCAGGTGACCAAGACAAAACCACAAGTCAAAATAAAGCGATCAAGA-CTG
1 TGGATTGAGCCAAGATCAAGTGACCAGGACGAAACCACAAGTCAAAATAAAGCGACCAAGATC-G
* ** * *
10342271 AGTCGAGGTCAAAAATGAATGATCAAGATGGAACCATGAATCATAAGAAACGATC
65 AGTCGAGGTCGAAAATGAATGATCGGGATAGAACCATGAATCATAAGAAATGATC
* * * * * * ** *
10342326 TGGATTAAGCCAAGATTAAATGATC-GAGACAAAATCACAAGTCAAAATAAAATGACCAGGATCG
1 TGGATTGAGCCAAGATCAAGTGACCAG-GACGAAACCACAAGTCAAAATAAAGCGACCAAGATCG
* * * * * *
10342390 AGTCGAGGTCTAAAATGAATGATCGGGACAAAACTACGAATCATAAAAAATGATC
65 AGTCGAGGTCGAAAATGAATGATCGGGATAGAACCATGAATCATAAGAAATGATC
*
10342445 TGGACTGAGCCAAGATCAAGT
1 TGGATTGAGCCAAGATCAAGT
10342466 AGATGTAAAT
Statistics
Matches: 485, Mismatches: 92, Indels: 53
0.77 0.15 0.08
Matches are distributed among these distances:
107 69 0.14
108 4 0.01
109 2 0.00
110 2 0.00
111 4 0.01
112 8 0.02
113 1 0.00
114 6 0.01
115 4 0.01
116 2 0.00
117 4 0.01
118 46 0.09
119 324 0.67
120 6 0.01
121 3 0.01
ACGTcount: A:0.43, C:0.16, G:0.23, T:0.18
Consensus pattern (119 bp):
TGGATTGAGCCAAGATCAAGTGACCAGGACGAAACCACAAGTCAAAATAAAGCGACCAAGATCGA
GTCGAGGTCGAAAATGAATGATCGGGATAGAACCATGAATCATAAGAAATGATC
Found at i:10342254 original size:107 final size:106
Alignment explanation
Indices: 10342053--10342253 Score: 260
Period size: 107 Copynumber: 1.9 Consensus size: 106
10342043 CGAGTCGATG
* *
10342053 TCGAAAATGAATGATCGGGAAAAAATCATGAATCATAAGAAATGATCTAGATTGAGCCAAGATCA
1 TCGAAAATAAATGATC-GGAAAAAACCATGAATCATAAGAAATGATCTAGATTGAGCCAAGATCA
*** ** * *
10342118 GGTGACCAAGATTGAGTCGAGGTCAAAAATGAATGATCGGGA
65 GGTGACCAAGACAAAACCCAAGTCAAAAATGAATGATCGGGA
* *
10342160 TCGAAAATAAATGATC-GAAATGAAACCATGAATCATAAGAAATGATTTGGATTGAGCCAAGATC
1 TCGAAAATAAATGATCGGAAA--AAACCATGAATCATAAGAAATGATCTAGATTGAGCCAAGATC
10342224 AGGTGACCAAGACAAAACCACAAGTCAAAA
64 AGGTGACCAAGACAAAACC-CAAGTCAAAA
10342254 TAAAGCGATC
Statistics
Matches: 80, Mismatches: 11, Indels: 5
0.83 0.11 0.05
Matches are distributed among these distances:
105 4 0.05
107 68 0.85
108 8 0.10
ACGTcount: A:0.45, C:0.14, G:0.22, T:0.19
Consensus pattern (106 bp):
TCGAAAATAAATGATCGGAAAAAACCATGAATCATAAGAAATGATCTAGATTGAGCCAAGATCAG
GTGACCAAGACAAAACCCAAGTCAAAAATGAATGATCGGGA
Found at i:10342456 original size:345 final size:345
Alignment explanation
Indices: 10341818--10342462 Score: 875
Period size: 345 Copynumber: 1.9 Consensus size: 345
10341808 GTCGAGGTCA
* * *
10341818 AAAATAAATGATCAGGATGGAACTACGAATCATAAAAAATGATCTGGATTGAGCCAAGATCAAGT
1 AAAATAAATGATCAGAATGAAACCACGAATCATAAAAAATGATCTGGATTGAGCCAAGATCAAGT
* * * * *
10341883 GACCAGGACGAAACCATAAGTCAAAATAAAGCGACCAAGACTAAGTTGAGGTCGAAAATGAATAA
66 GACCAAGACAAAACCACAAGTCAAAATAAAGCGACCAAGACTAAGTCGAGGTCAAAAATGAATAA
** ** * * * ***
10341948 TCGGGATAGAACCATGAATCATAAGAAGTGATTTGGACTGAGCCAAGATCGAAAGGTCAGGGTGA
131 TCAAGATAGAACCATGAATCATAAGAAACGATCTGGACTAAGCCAAGATCGAAAGATCAGGACAA
* *
10342013 AACCACAAGTCAAAATAAAGCGACCAAGATCGAGTCGATGTCGAAAATGAATGATCGGGAAAAAA
196 AACCACAAGTCAAAATAAAACGACCAAGATCGAGTCGAGGTCGAAAATGAATGATCGGGAAAAAA
* * *
10342078 TCATGAATCATAAGAAATGATCTAGATTGAGCCAAGATCAGGTGACCAAGATTGAGTCGAGGTCA
261 TCACGAATCATAAAAAATGATCTAGACTGAGCCAAGATCAGGTGACCAAGATTGAGTCGAGGTCA
10342143 AAAATGAATGATCGGGATCG
326 AAAATGAATGATCGGGATCG
* * * *
10342163 AAAATAAATGATC-GAAATGAAACCATGAATCATAAGAAATGATTTGGATTGAGCCAAGATCAGG
1 AAAATAAATGATCAG-AATGAAACCACGAATCATAAAAAATGATCTGGATTGAGCCAAGATCAAG
* * *
10342227 TGACCAAGACAAAACCACAAGTCAAAATAAAGCGATCAAGACTGAGTCGAGGTCAAAAATGAATG
65 TGACCAAGACAAAACCACAAGTCAAAATAAAGCGACCAAGACTAAGTCGAGGTCAAAAATGAATA
* * *
10342292 ATCAAGATGGAACCATGAATCATAAGAAACGATCTGGATTAAGCCAAGAT-TAAATGATC-GAGA
130 ATCAAGATAGAACCATGAATCATAAGAAACGATCTGGACTAAGCCAAGATCGAAA-GATCAG-GA
* * * * *
10342355 CAAAATCACAAGTCAAAATAAAATGACCAGGATCGAGTCGAGGTCTAAAATGAATGATCGGGACA
193 CAAAACCACAAGTCAAAATAAAACGACCAAGATCGAGTCGAGGTCGAAAATGAATGATCGGGAAA
*
10342420 AAA-CTACGAATCATAAAAAATGATCTGGACTGAGCCAAGATCA
258 AAATC-ACGAATCATAAAAAATGATCTAGACTGAGCCAAGATCA
10342463 AGTAGATGTA
Statistics
Matches: 257, Mismatches: 39, Indels: 8
0.85 0.13 0.03
Matches are distributed among these distances:
344 6 0.02
345 251 0.98
ACGTcount: A:0.44, C:0.15, G:0.22, T:0.18
Consensus pattern (345 bp):
AAAATAAATGATCAGAATGAAACCACGAATCATAAAAAATGATCTGGATTGAGCCAAGATCAAGT
GACCAAGACAAAACCACAAGTCAAAATAAAGCGACCAAGACTAAGTCGAGGTCAAAAATGAATAA
TCAAGATAGAACCATGAATCATAAGAAACGATCTGGACTAAGCCAAGATCGAAAGATCAGGACAA
AACCACAAGTCAAAATAAAACGACCAAGATCGAGTCGAGGTCGAAAATGAATGATCGGGAAAAAA
TCACGAATCATAAAAAATGATCTAGACTGAGCCAAGATCAGGTGACCAAGATTGAGTCGAGGTCA
AAAATGAATGATCGGGATCG
Found at i:10350989 original size:15 final size:15
Alignment explanation
Indices: 10350964--10351006 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
10350954 GAATTTCATG
10350964 AAAATTATTTTTTTCT
1 AAAA-TATTTTTTTCT
*
10350980 AAAATATTTTTTTTT
1 AAAATATTTTTTTCT
*
10350995 AATAAGATTTTT
1 AA-AATATTTTT
10351007 CAATATGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (15 bp):
AAAATATTTTTTTCT
Found at i:10354881 original size:2 final size:2
Alignment explanation
Indices: 10354874--10354903 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
10354864 TAGAGTACTC
10354874 TA TA TA TA TA TA TA TA TA TA TA TA TCA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
10354904 TGTATGTAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10356721 original size:52 final size:52
Alignment explanation
Indices: 10356659--10356762 Score: 149
Period size: 52 Copynumber: 2.0 Consensus size: 52
10356649 ATAACCATAT
* *
10356659 AAACTTACCTATTAAGAAT-TTCTTTCCTCTTAGAATTATT-TTCTTGCAAGTC
1 AAACTTACCTATTAAAAATCATCTTT-CTCTTAGAATTATTCTT-TTGCAAGTC
*
10356711 AAACTTACCTATTAAAAATCATCTTTCTCTTAGAATTCTTCTTTTGCAAGTC
1 AAACTTACCTATTAAAAATCATCTTTCTCTTAGAATTATTCTTTTGCAAGTC
10356763 TTCTTGTCCA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
52 40 0.85
53 7 0.15
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.43
Consensus pattern (52 bp):
AAACTTACCTATTAAAAATCATCTTTCTCTTAGAATTATTCTTTTGCAAGTC
Found at i:10357666 original size:49 final size:50
Alignment explanation
Indices: 10357566--10357708 Score: 173
Period size: 49 Copynumber: 2.8 Consensus size: 50
10357556 TATAACCATA
* *
10357566 CAAACTTACCTATTAAGAATTCCTTTCCTCTTAGAATTCTTTTTCTACAAGT
1 CAAACTTACCTATTAA-AAAT-CTTTCCTCTTAGAATTCTTTCTCTACAAGT
* *
10357618 CAAACTTACCTATTAAAAAT-TTTCCTCTTATAATT-TTTCTCTTGCAAGT
1 CAAACTTACCTATTAAAAATCTTTCCTCTTAGAATTCTTTCTC-TACAAGT
* *
10357667 CAAACTTACCTATTAAAAATCTTCTTTCTCTTAAAATTCTTT
1 CAAACTTACCTATTAAAAATC-T-TTCCTCTTAGAATTCTTT
10357709 TTTTGCAAGT
Statistics
Matches: 80, Mismatches: 6, Indels: 9
0.84 0.06 0.09
Matches are distributed among these distances:
48 5 0.06
49 40 0.50
51 4 0.05
52 28 0.35
53 3 0.04
ACGTcount: A:0.31, C:0.22, G:0.03, T:0.44
Consensus pattern (50 bp):
CAAACTTACCTATTAAAAATCTTTCCTCTTAGAATTCTTTCTCTACAAGT
Found at i:10358154 original size:2 final size:2
Alignment explanation
Indices: 10358147--10358182 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
10358137 GTATAAACAA
*
10358147 AT AT AT AT AC 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
10358183 TGTATAAAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:10359425 original size:16 final size:16
Alignment explanation
Indices: 10359406--10359448 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 16
10359396 TATTTAAATT
10359406 TTAAAATATATAAAAA
1 TTAAAATATATAAAAA
*
10359422 TT--AATATTTAAAAA
1 TTAAAATATATAAAAA
*
10359436 ATAAAATATATAA
1 TTAAAATATATAA
10359449 TTTGTATTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
14 12 0.55
16 10 0.45
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
TTAAAATATATAAAAA
Found at i:10360510 original size:38 final size:38
Alignment explanation
Indices: 10360457--10360533 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
10360447 GAATTTCATT
*
10360457 CTTGATCCTTTTCTTTCTTTACCCTTTGCCATCAATGC
1 CTTGATCCTTCTCTTTCTTTACCCTTTGCCATCAATGC
10360495 CTTGATCCTTCTCTTTCTTTACCCTTTGCCATCAATGC
1 CTTGATCCTTCTCTTTCTTTACCCTTTGCCATCAATGC
10360533 C
1 C
10360534 ATTGGGTCGT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.13, C:0.34, G:0.08, T:0.45
Consensus pattern (38 bp):
CTTGATCCTTCTCTTTCTTTACCCTTTGCCATCAATGC
Found at i:10363228 original size:8 final size:8
Alignment explanation
Indices: 10363215--10363240 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
10363205 TTCATTCATT
10363215 CTGTAAAG
1 CTGTAAAG
10363223 CTGTAAAG
1 CTGTAAAG
10363231 CTGTAAAG
1 CTGTAAAG
10363239 CT
1 CT
10363241 TCTTTGGGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (8 bp):
CTGTAAAG
Found at i:10365153 original size:2 final size:2
Alignment explanation
Indices: 10365146--10365175 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
10365136 TAGAAGAGAA
*
10365146 AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10365176 CAGCATCTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10365814 original size:17 final size:18
Alignment explanation
Indices: 10365792--10365843 Score: 63
Period size: 17 Copynumber: 3.0 Consensus size: 18
10365782 AAATAATTTG
*
10365792 AATAAATTTTAT-TTATT
1 AATAAATTTTATATAATT
*
10365809 AATAAAATTTATATAATT
1 AATAAATTTTATATAATT
*
10365827 GATAAATTTTATA-AATT
1 AATAAATTTTATATAATT
10365844 TTAAATAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 15 0.50
18 15 0.50
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
AATAAATTTTATATAATT
Found at i:10365831 original size:18 final size:17
Alignment explanation
Indices: 10365810--10365843 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
10365800 TTATTTATTA
10365810 ATAAAATTTATATAATTG
1 ATAAAATTTATA-AATTG
*
10365828 ATAAATTTTATAAATT
1 ATAAAATTTATAAATT
10365844 TTAAATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
ATAAAATTTATAAATTG
Found at i:10367372 original size:22 final size:22
Alignment explanation
Indices: 10367314--10367372 Score: 59
Period size: 24 Copynumber: 2.6 Consensus size: 22
10367304 TAAAGATCAA
10367314 TAAAATAATAAA-AAACAAAAC
1 TAAAATAATAAATAAACAAAAC
*
10367335 TAGAAATAAAATAAATATA-AAAAC
1 TA-AAAT--AATAAATAAACAAAAC
10367359 TTAAAATAATAAAT
1 -TAAAATAATAAAT
10367373 GAAATAAGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
21 2 0.06
22 11 0.34
24 15 0.47
25 4 0.12
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.22
Consensus pattern (22 bp):
TAAAATAATAAATAAACAAAAC
Found at i:10368180 original size:3 final size:3
Alignment explanation
Indices: 10368174--10368237 Score: 119
Period size: 3 Copynumber: 21.3 Consensus size: 3
10368164 AAAAAATGAA
10368174 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
10368222 AAT AAT AAT AGT AAT A
1 AAT AAT AAT AAT AAT A
10368238 GTAGTAGTAG
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10368359 original size:17 final size:16
Alignment explanation
Indices: 10368333--10368375 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
10368323 ACTAGTAGGC
*
10368333 TACA-ATAATAATTATA
1 TACATATAATAAAT-TA
10368349 TACATATAATAAATTA
1 TACATATAATAAATTA
10368365 TACTATATAAT
1 TAC-ATATAAT
10368376 TTAATATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 9 0.38
17 15 0.62
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (16 bp):
TACATATAATAAATTA
Found at i:10368365 original size:18 final size:16
Alignment explanation
Indices: 10368333--10368366 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
10368323 ACTAGTAGGC
10368333 TACAATAATAATTATA
1 TACAATAATAATTATA
10368349 TACATATAATAAATTATA
1 TACA-ATAAT-AATTATA
10368367 CTATATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 5 0.31
18 7 0.44
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (16 bp):
TACAATAATAATTATA
Found at i:10378238 original size:14 final size:15
Alignment explanation
Indices: 10378212--10378240 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
10378202 ATGAATATAC
10378212 ATAAAAGGAAGATAA
1 ATAAAAGGAAGATAA
10378227 ATAAAA-GAAGATAA
1 ATAAAAGGAAGATAA
10378241 GAAAATTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (15 bp):
ATAAAAGGAAGATAA
Found at i:10379373 original size:6 final size:6
Alignment explanation
Indices: 10379358--10379392 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
10379348 TAAAAATGAT
* *
10379358 TTTTTA TTTTTG TTTTTA CTTTTA TTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
10379393 TTGAAAAAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.11, C:0.03, G:0.03, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:10379642 original size:17 final size:18
Alignment explanation
Indices: 10379620--10379666 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
10379610 TCAATAAAAT
10379620 AATAAAAAAA-AACTGAA
1 AATAAAAAAATAACTGAA
*
10379637 AATAAAATAAATAACTTAA
1 AATAAAA-AAATAACTGAA
*
10379656 AATAATAAAAT
1 AATAAAAAAAT
10379667 GAAATCAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 7 0.27
18 7 0.27
19 12 0.46
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.21
Consensus pattern (18 bp):
AATAAAAAAATAACTGAA
Found at i:10379680 original size:21 final size:21
Alignment explanation
Indices: 10379654--10379701 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
10379644 TAAATAACTT
*
10379654 AAAATAATAAAATGAAATCAA
1 AAAATAATAAAATAAAATCAA
*
10379675 AAAAT-A-AAAATAAAATGAA
1 AAAATAATAAAATAAAATCAA
10379694 AAAA-AATA
1 AAAATAATA
10379702 CCTGTGATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
19 16 0.70
20 2 0.09
21 5 0.22
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.17
Consensus pattern (21 bp):
AAAATAATAAAATAAAATCAA
Found at i:10380465 original size:3 final size:3
Alignment explanation
Indices: 10380457--10380491 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
10380447 AGGAAAGAAC
10380457 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
10380492 GTAGTAGTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:10380616 original size:5 final size:5
Alignment explanation
Indices: 10380606--10380646 Score: 55
Period size: 5 Copynumber: 7.8 Consensus size: 5
10380596 AATAATAGAC
*
10380606 AATAT AATAT ATTAT ACTATAT AATAT AATAT AATAT AATA
1 AATAT AATAT AATAT A--ATAT AATAT AATAT AATAT AATA
10380647 ATACTACTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 28 0.88
7 4 0.12
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (5 bp):
AATAT
Found at i:10380627 original size:12 final size:12
Alignment explanation
Indices: 10380591--10380717 Score: 59
Period size: 13 Copynumber: 10.5 Consensus size: 12
10380581 GTAGGCTACA
*
10380591 ATAATAATAATAG
1 ATAAT-ATAATAT
*
10380604 ACAATATAATAT
1 ATAATATAATAT
*
10380616 AT--TATACTAT
1 ATAATATAATAT
10380626 ATAATAT-A-AT
1 ATAATATAATAT
10380636 ATAATATAATAAT
1 ATAATATAAT-AT
*
10380649 ACTACTAGTAATA-
1 A-TAATA-TAATAT
**
10380662 ATAATACCATA-
1 ATAATATAATAT
* *
10380673 CTAACATAATATT
1 ATAATATAATA-T
* *
10380686 ATACTATACTACT
1 ATAATATAATA-T
10380699 ATAATAATAATAT
1 ATAAT-ATAATAT
10380712 ATAATA
1 ATAATA
10380718 ACATATAATA
Statistics
Matches: 84, Mismatches: 20, Indels: 21
0.67 0.16 0.17
Matches are distributed among these distances:
10 18 0.21
11 11 0.13
12 15 0.18
13 26 0.31
14 10 0.12
15 4 0.05
ACGTcount: A:0.54, C:0.09, G:0.02, T:0.36
Consensus pattern (12 bp):
ATAATATAATAT
Found at i:10380629 original size:17 final size:17
Alignment explanation
Indices: 10380607--10380727 Score: 65
Period size: 17 Copynumber: 7.1 Consensus size: 17
10380597 ATAATAGACA
* *
10380607 ATATAATATATTATACT
1 ATATAATATAATATAAT
10380624 ATATAATATAATATAAT
1 ATATAATATAATATAAT
*
10380641 ATAATAATACTACTAGTAAT
1 AT-ATAATA-TAATA-TAAT
**
10380661 A-ATAATACCATACT-A-
1 ATATAATATAATA-TAAT
* *
10380676 ACATAATAT--TATACT
1 ATATAATATAATATAAT
*
10380691 ATACTACTATAATAATAAT
1 ATA-TAATATAAT-ATAAT
10380710 ATATAATA-ACATATAAT
1 ATATAATATA-ATATAAT
10380727 A
1 A
10380728 ACAAAAAAAA
Statistics
Matches: 80, Mismatches: 13, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
13 1 0.01
14 2 0.03
15 3 0.04
16 12 0.15
17 27 0.34
18 19 0.24
19 11 0.14
20 5 0.06
ACGTcount: A:0.53, C:0.09, G:0.01, T:0.37
Consensus pattern (17 bp):
ATATAATATAATATAAT
Found at i:10380667 original size:21 final size:20
Alignment explanation
Indices: 10380635--10380710 Score: 75
Period size: 21 Copynumber: 3.6 Consensus size: 20
10380625 TATAATATAA
10380635 TATAATATAATA-ATACTAC
1 TATAATATAATACATACTAC
10380654 TAGTAATAATAATACCATACTAAC
1 TA-TAAT-ATAATA-CATACT-AC
*
10380678 -ATAATATTATACTATACTAC
1 TATAATATAATAC-ATACTAC
10380698 TATAATAATAATA
1 TATAAT-ATAATA
10380711 TATAATAACA
Statistics
Matches: 47, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
19 2 0.04
20 7 0.15
21 21 0.45
22 9 0.19
23 6 0.13
24 2 0.04
ACGTcount: A:0.51, C:0.12, G:0.01, T:0.36
Consensus pattern (20 bp):
TATAATATAATACATACTAC
Found at i:10380714 original size:21 final size:23
Alignment explanation
Indices: 10380565--10380728 Score: 91
Period size: 22 Copynumber: 7.3 Consensus size: 23
10380555 TAATGATAAA
**
10380565 TATAATAATAATACTAGTA--GGC
1 TATAATAATAATACTA-TACTAAC
* * *
10380587 TACAATAATAATAATAGAC-AA-
1 TATAATAATAATACTATACTAAC
*
10380608 TATAATATATTATACTATA-TAA-
1 TATAATA-ATAATACTATACTAAC
*
10380630 TATAAT-ATAATA-TAATAATACTAC
1 TATAATAATAATACT-ATACTA--AC
*
10380654 TAGTAATAATAATACCATACTAAC
1 TA-TAATAATAATACTATACTAAC
*
10380678 -ATAAT-ATTATACTATACT-AC
1 TATAATAATAATACTATACTAAC
*
10380698 TATAATAATAATA-TATAATAAC
1 TATAATAATAATACTATACTAAC
10380720 ATATAATAA
1 -TATAATAA
10380729 CAAAAAAAAT
Statistics
Matches: 111, Mismatches: 16, Indels: 29
0.71 0.10 0.19
Matches are distributed among these distances:
19 1 0.01
20 10 0.09
21 30 0.27
22 41 0.37
23 10 0.09
24 4 0.04
25 4 0.04
26 11 0.10
ACGTcount: A:0.53, C:0.09, G:0.03, T:0.35
Consensus pattern (23 bp):
TATAATAATAATACTATACTAAC
Found at i:10382731 original size:2 final size:2
Alignment explanation
Indices: 10382724--10382748 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10382714 TAAGCGAGTC
10382724 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
10382749 ATTAGGGATA
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:10383528 original size:14 final size:13
Alignment explanation
Indices: 10383511--10383540 Score: 51
Period size: 13 Copynumber: 2.2 Consensus size: 13
10383501 TCAAAAAGTA
10383511 AAAATATAAAATAT
1 AAAATAT-AAATAT
10383525 AAAATATAAATAT
1 AAAATATAAATAT
10383538 AAA
1 AAA
10383541 TACAGTAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (13 bp):
AAAATATAAATAT
Found at i:10383542 original size:6 final size:7
Alignment explanation
Indices: 10383511--10383540 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
10383501 TCAAAAAGTA
10383511 AAAATAT
1 AAAATAT
10383518 AAAATAT
1 AAAATAT
10383525 AAAATAT
1 AAAATAT
10383532 -AAATAT
1 AAAATAT
10383538 AAA
1 AAA
10383541 TACAGTAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AAAATAT
Found at i:10384201 original size:16 final size:16
Alignment explanation
Indices: 10384180--10384213 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
10384170 ATTTAATTTC
*
10384180 ATTTAAACTCGAATTG
1 ATTTAAACTCGAAGTG
*
10384196 ATTTAAATTCGAAGTG
1 ATTTAAACTCGAAGTG
10384212 AT
1 AT
10384214 CCAAAATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (16 bp):
ATTTAAACTCGAAGTG
Found at i:10384246 original size:32 final size:32
Alignment explanation
Indices: 10384191--10384256 Score: 78
Period size: 32 Copynumber: 2.1 Consensus size: 32
10384181 TTTAAACTCG
* * *
10384191 AATTGATTTAAATTCGAAGTGATCCAAAATTA
1 AATTAATTTAAATTCAAAATGATCCAAAATTA
* * *
10384223 AATTAATTTGAATTCAAAATGATCCGAACTTA
1 AATTAATTTAAATTCAAAATGATCCAAAATTA
10384255 AA
1 AA
10384257 AGACTCAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.33
Consensus pattern (32 bp):
AATTAATTTAAATTCAAAATGATCCAAAATTA
Found at i:10385195 original size:45 final size:45
Alignment explanation
Indices: 10385128--10385231 Score: 122
Period size: 48 Copynumber: 2.2 Consensus size: 45
10385118 CCACGTGAAC
* * *
10385128 TGAAAGAAAGAAAAATAGAAAC-AAAGTGCAG-GAGTAGAATTTGAT
1 TGAAAGAAA-AAAAAAAAAAACAAAAG-ACAGAGAGTAGAATTTGAT
10385173 TGAAAGAAAAACAAAAAAAAACAAAAGACAGAAAGAGTAGAATTTGAT
1 TGAAAGAAAAA-AAAAAAAAACAAAAGACAG--AGAGTAGAATTTGAT
10385221 TGAAAGAAAAA
1 TGAAAGAAAAA
10385232 TTCAGCATCA
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
44 2 0.04
45 20 0.39
46 4 0.08
48 25 0.49
ACGTcount: A:0.61, C:0.05, G:0.20, T:0.14
Consensus pattern (45 bp):
TGAAAGAAAAAAAAAAAAAACAAAAGACAGAGAGTAGAATTTGAT
Found at i:10387870 original size:18 final size:18
Alignment explanation
Indices: 10387824--10387860 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
10387814 TTACTTGGTG
10387824 AAAAAGGAGCAATTCTAC
1 AAAAAGGAGCAATTCTAC
10387842 AAAAAGGAGCAATTCTAC
1 AAAAAGGAGCAATTCTAC
10387860 A
1 A
10387861 GTAATGAGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.16, G:0.16, T:0.16
Consensus pattern (18 bp):
AAAAAGGAGCAATTCTAC
Found at i:10389136 original size:22 final size:22
Alignment explanation
Indices: 10389108--10389156 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
10389098 TATGGGCTGT
*
10389108 ATCTCTTCAGTATCTATCTCAA
1 ATCTCTTCAGCATCTATCTCAA
10389130 ATCTCTTCAGCATCTATCTCAA
1 ATCTCTTCAGCATCTATCTCAA
*
10389152 TTCTC
1 ATCTC
10389157 ATTAACGGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.24, C:0.31, G:0.04, T:0.41
Consensus pattern (22 bp):
ATCTCTTCAGCATCTATCTCAA
Found at i:10394330 original size:35 final size:34
Alignment explanation
Indices: 10394291--10394358 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
10394281 TTTCTTTCTA
* *
10394291 TTATTTTCAGAACCTTTG-TTTTTTTTTTTATCTTC
1 TTATTTTCAG--CCTTTGCTTTTTGTTTGTATCTTC
*
10394326 TTATTTTCTGCCTTTGCTTTTTGTTTGTATCTT
1 TTATTTTCAGCCTTTGCTTTTTGTTTGTATCTT
10394359 ACCTTTCTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
33 6 0.21
34 14 0.48
35 9 0.31
ACGTcount: A:0.10, C:0.15, G:0.09, T:0.66
Consensus pattern (34 bp):
TTATTTTCAGCCTTTGCTTTTTGTTTGTATCTTC
Found at i:10394477 original size:96 final size:96
Alignment explanation
Indices: 10394360--10394548 Score: 290
Period size: 96 Copynumber: 2.0 Consensus size: 96
10394350 TTGTATCTTA
* * *
10394360 CCTTTCTCATTGGCTACAAAAGCACCTTCTGTTAAA-TCTTTTTGTCTAATAGCCCTTCTTTTCT
1 CCTTTCTCATTGGCTACAAAAGCACCTTCTGTTAAATTC-TCTTGTCTAATAGCCCTTATTTGCT
*
10394424 CTTGAGCTTACAAAGCATTGAACAATTCTGTG
65 CTTGAGCTCACAAAGCATTGAACAATTCTGTG
* **
10394456 CCTTTCTCCTTGGCTGTAAAAGCACCTTCTGTTAAATTCTCTTGTCTAATAGCCCTTATTTGCTC
1 CCTTTCTCATTGGCTACAAAAGCACCTTCTGTTAAATTCTCTTGTCTAATAGCCCTTATTTGCTC
*
10394521 TTGAGCTCGCAAAGCATTGAACAATTCT
66 TTGAGCTCACAAAGCATTGAACAATTCT
10394549 ACTAGAGTTA
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
96 82 0.98
97 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.13, T:0.39
Consensus pattern (96 bp):
CCTTTCTCATTGGCTACAAAAGCACCTTCTGTTAAATTCTCTTGTCTAATAGCCCTTATTTGCTC
TTGAGCTCACAAAGCATTGAACAATTCTGTG
Found at i:10394751 original size:24 final size:25
Alignment explanation
Indices: 10394716--10394762 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
10394706 CATTGTACTC
*
10394716 CTTTAAATTTTCAGACT-TCTTCAT
1 CTTTAAATTTTCAAACTCTCTTCAT
10394740 CTTTAAGA-TTTCAAACTCTCTTC
1 CTTTAA-ATTTTCAAACTCTCTTC
10394763 TAAGATTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.26, C:0.23, G:0.04, T:0.47
Consensus pattern (25 bp):
CTTTAAATTTTCAAACTCTCTTCAT
Found at i:10404253 original size:18 final size:19
Alignment explanation
Indices: 10404226--10404263 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
10404216 GAAAATAATT
10404226 TTTATGAAACAAATTTCTC
1 TTTATGAAACAAATTTCTC
**
10404245 TTTAT-AAACTTATTTCTC
1 TTTATGAAACAAATTTCTC
10404263 T
1 T
10404264 CTCTTGACCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.32, C:0.16, G:0.03, T:0.50
Consensus pattern (19 bp):
TTTATGAAACAAATTTCTC
Found at i:10406526 original size:14 final size:14
Alignment explanation
Indices: 10406480--10406550 Score: 54
Period size: 14 Copynumber: 4.6 Consensus size: 14
10406470 AAATATGTGT
10406480 ATAAAAAAATATAA
1 ATAAAAAAATATAA
10406494 ATAATAATAAAATTGATAA
1 AT-A-AA-AAAA-T-ATAA
*
10406513 ATAAAAATATATAAAA
1 ATAAAAA-A-ATATAA
10406529 ATAAAAAAATA-ATA
1 ATAAAAAAATATA-A
10406543 ATAAAAAA
1 ATAAAAAA
10406551 GAAAAATTTT
Statistics
Matches: 48, Mismatches: 1, Indels: 16
0.74 0.02 0.25
Matches are distributed among these distances:
13 1 0.02
14 14 0.29
15 2 0.04
16 14 0.29
17 8 0.17
18 3 0.06
19 6 0.12
ACGTcount: A:0.75, C:0.00, G:0.01, T:0.24
Consensus pattern (14 bp):
ATAAAAAAATATAA
Found at i:10406548 original size:29 final size:30
Alignment explanation
Indices: 10406480--10406549 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 30
10406470 AAATATGTGT
* *
10406480 ATAA-AAAAATATAAATAATAATAAAATTG
1 ATAATAAAAATATAAATAATAATAAAAATA
*
10406509 ATAAATAAAAATATATAAAAATAA-AAAAATA
1 AT-AATAAAAATATA-AATAATAATAAAAATA
10406540 ATAATAAAAA
1 ATAATAAAAA
10406550 AGAAAAATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
29 2 0.06
30 10 0.29
31 16 0.46
32 7 0.20
ACGTcount: A:0.74, C:0.00, G:0.01, T:0.24
Consensus pattern (30 bp):
ATAATAAAAATATAAATAATAATAAAAATA
Found at i:10406550 original size:16 final size:17
Alignment explanation
Indices: 10406482--10406550 Score: 56
Period size: 16 Copynumber: 4.2 Consensus size: 17
10406472 ATATGTGTAT
10406482 AAAAAAATATA-AATAA
1 AAAAAAATATATAATAA
* * *
10406498 TAATAAA-AT-TGATAA
1 AAAAAAATATATAATAA
* *
10406513 ATAAAAATATATAAAAA
1 AAAAAAATATATAATAA
10406530 TAAAAAAATA-ATAATAA
1 -AAAAAAATATATAATAA
10406547 AAAA
1 AAAA
10406551 GAAAAATTTT
Statistics
Matches: 39, Mismatches: 10, Indels: 8
0.68 0.18 0.14
Matches are distributed among these distances:
15 10 0.26
16 11 0.28
17 10 0.26
18 8 0.21
ACGTcount: A:0.75, C:0.00, G:0.01, T:0.23
Consensus pattern (17 bp):
AAAAAAATATATAATAA
Found at i:10406721 original size:3 final size:3
Alignment explanation
Indices: 10406704--10406753 Score: 84
Period size: 3 Copynumber: 16.7 Consensus size: 3
10406694 TTTCCTGAAA
10406704 AAT ATAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10406749 AAT AA
1 AAT AA
10406754 AAACGAATCC
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 2 0.04
3 40 0.89
4 3 0.07
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:10409445 original size:185 final size:187
Alignment explanation
Indices: 10409132--10409479 Score: 478
Period size: 186 Copynumber: 1.9 Consensus size: 187
10409122 TGTAAAACTT
* * * *
10409132 AATAAAATAAAATTTTGAGAATAAATAATAATTATCCAATGATGAAATTTTTAGAAATTTCAAAT
1 AATAAAATAAAATTTTGAGAATAAATAATAATTACCCAAGGATGAAATTCTTAAAAATTTCAAAT
* * *
10409197 GGTAAATTTCTATAAAATTCTTAGGTGAGAAATTTTGTCTAAATTTGCCCCAAATGATGGAATAA
66 GGTAAATTTCTAAAAAATTCTTAGGTGAGAAATTTTCTCTAAATTTGCCACAAATGATGGAATAA
10409262 TTTAGAT-AAAGTTTCAATAACAA-TAATTAATATTTATTTTCAAACAAAATAAAGAAAA
131 TTTAGATGAAA-TTTCAATAA-AAGTAATT-ATATTTATTTTCAAACAAAATAAAGAAAA
* * * *
10409320 AATAAAATAAAATTTTG-GAA-ATATACTAATTACCCAAGGATGAGATTCTTAAAAATTTTAAAT
1 AATAAAATAAAATTTTGAGAATAAATAATAATTACCCAAGGATGAAATTCTTAAAAATTTCAAAT
*
10409383 GGT-AATTTCTTAAAAAA-TCTTTAGGTGAGAAA-TTTCTCTAAATTTGTCACAAATTG-TGGAA
66 GGTAAATTTC-TAAAAAATTC-TTAGGTGAGAAATTTTCTCTAAATTTGCCACAAA-TGATGGAA
10409444 TAATTTAGATGAAATTTCAATAAAAGTAATTATATT
128 TAATTTAGATGAAATTTCAATAAAAGTAATTATATT
10409480 CTTTTCCAAA
Statistics
Matches: 143, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
184 7 0.05
185 55 0.38
186 61 0.43
187 3 0.02
188 17 0.12
ACGTcount: A:0.46, C:0.07, G:0.11, T:0.36
Consensus pattern (187 bp):
AATAAAATAAAATTTTGAGAATAAATAATAATTACCCAAGGATGAAATTCTTAAAAATTTCAAAT
GGTAAATTTCTAAAAAATTCTTAGGTGAGAAATTTTCTCTAAATTTGCCACAAATGATGGAATAA
TTTAGATGAAATTTCAATAAAAGTAATTATATTTATTTTCAAACAAAATAAAGAAAA
Found at i:10414866 original size:16 final size:16
Alignment explanation
Indices: 10414845--10414877 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
10414835 TTCAAAATAT
*
10414845 TATATATATTCTTTAA
1 TATATATATTCATTAA
10414861 TATATATATTCATTAA
1 TATATATATTCATTAA
10414877 T
1 T
10414878 CTAATAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (16 bp):
TATATATATTCATTAA
Found at i:10433988 original size:30 final size:30
Alignment explanation
Indices: 10433948--10434035 Score: 122
Period size: 30 Copynumber: 2.9 Consensus size: 30
10433938 TAACTCATTC
* * *
10433948 AAGTAGATGCATATAAAATGCATCAACTAT
1 AAGTAAATGCATATAAAATGCATAAACTAG
*
10433978 AAGTACATGCATATAAAATGCATAAACTAG
1 AAGTAAATGCATATAAAATGCATAAACTAG
* *
10434008 AAGTAAATACATATGAAATGCATAAACT
1 AAGTAAATGCATATAAAATGCATAAACT
10434036 TTAAAACTAG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.25
Consensus pattern (30 bp):
AAGTAAATGCATATAAAATGCATAAACTAG
Found at i:10435849 original size:9 final size:9
Alignment explanation
Indices: 10435835--10435859 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
10435825 AAGCCAAACA
10435835 CTTGAATGG
1 CTTGAATGG
10435844 CTTGAATGG
1 CTTGAATGG
10435853 CTTGAAT
1 CTTGAAT
10435860 CTTGACTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.12, G:0.28, T:0.36
Consensus pattern (9 bp):
CTTGAATGG
Found at i:10439481 original size:15 final size:16
Alignment explanation
Indices: 10439461--10439494 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
10439451 ATAGTTTGAA
*
10439461 AATATAAAA-ATTTAT
1 AATATAAAATAATTAT
10439476 AATATAAAATAATTAT
1 AATATAAAATAATTAT
10439492 AAT
1 AAT
10439495 TTTAATATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AATATAAAATAATTAT
Found at i:10440148 original size:20 final size:19
Alignment explanation
Indices: 10440104--10440149 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
10440094 ATATTAATTA
*
10440104 ATTAATTAATTAGTGTAGG
1 ATTAATTAATTAATGTAGG
*
10440123 ATTTAATTAATTAATGTTTGG
1 A-TTAATTAATTAATG-TAGG
10440144 ATTAAT
1 ATTAAT
10440150 CTAGTTTCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 1 0.04
20 18 0.78
21 4 0.17
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (19 bp):
ATTAATTAATTAATGTAGG
Found at i:10450476 original size:19 final size:19
Alignment explanation
Indices: 10450452--10450489 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
10450442 TTTGTGTAAG
10450452 GTGATAATATTTCCTAAAA
1 GTGATAATATTTCCTAAAA
10450471 GTGATAATATTTCCTAAAA
1 GTGATAATATTTCCTAAAA
10450490 TTGTCAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.37
Consensus pattern (19 bp):
GTGATAATATTTCCTAAAA
Found at i:10458391 original size:6 final size:6
Alignment explanation
Indices: 10458366--10458433 Score: 50
Period size: 6 Copynumber: 10.8 Consensus size: 6
10458356 CACTTTTAAT
* * *
10458366 AATATA AATTATTAA AATATA AATAT- AATATA AAT-TAA AAAATA TATTTA
1 AATATA AA-TA-T-A AATATA AATATA AATATA AATAT-A AATATA AATATA
10458416 AATATTA AATATA AATAT
1 AATA-TA AATATA AATAT
10458434 GATACGTTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
5 6 0.12
6 27 0.55
7 10 0.20
8 3 0.06
9 3 0.06
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (6 bp):
AATATA
Found at i:10458427 original size:17 final size:16
Alignment explanation
Indices: 10458366--10458428 Score: 56
Period size: 17 Copynumber: 3.8 Consensus size: 16
10458356 CACTTTTAAT
*
10458366 AATATAAAT-TATTAA
1 AATATAAATATATTTA
*
10458381 AATATAAATATAATATA
1 AATATAAATAT-ATTTA
*
10458398 AATTAAAAAATATATTTA
1 AA-T-ATAAATATATTTA
10458416 AATATTAAATATA
1 AATA-TAAATATA
10458429 AATATGATAC
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
15 9 0.24
16 2 0.05
17 13 0.34
18 7 0.18
19 7 0.18
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AATATAAATATATTTA
Found at i:10458553 original size:29 final size:29
Alignment explanation
Indices: 10458533--10458625 Score: 104
Period size: 29 Copynumber: 3.3 Consensus size: 29
10458523 TAGACACAAG
10458533 TAATATAAATATATACAAATAAACACGAT
1 TAATATAAATATATACAAATAAACACGAT
* * *
10458562 TAATA-AGGATACATACAAATAAATACGAT
1 TAATATA-AATATATACAAATAAACACGAT
10458591 TAATATAAATATATATC--A-AAACACGAT
1 TAATATAAATATATA-CAAATAAACACGAT
*
10458618 TAAAATAA
1 TAATATAA
10458626 TAAATAATTA
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
27 15 0.28
28 2 0.04
29 35 0.65
30 2 0.04
ACGTcount: A:0.58, C:0.10, G:0.05, T:0.27
Consensus pattern (29 bp):
TAATATAAATATATACAAATAAACACGAT
Found at i:10458728 original size:20 final size:22
Alignment explanation
Indices: 10458711--10458750 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
10458701 ATTAATATCA
10458711 ATTT-AATATT-ATATATATAT
1 ATTTAAATATTAATATATATAT
*
10458731 ATTTAAATTTTAATATATAT
1 ATTTAAATATTAATATATAT
10458751 TACATAACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 5 0.29
22 8 0.47
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTTAAATATTAATATATATAT
Found at i:10458923 original size:19 final size:19
Alignment explanation
Indices: 10458875--10458923 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
10458865 TTAATATAAA
*
10458875 AAATAATTATTAACAAAATT
1 AAAT-ATTAATAACAAAATT
*
10458895 AAA-ATATAATAATAAAATT
1 AAATAT-TAATAACAAAATT
10458914 AAATATTAAT
1 AAATATTAAT
10458924 CTATAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
18 2 0.08
19 18 0.72
20 5 0.20
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (19 bp):
AAATATTAATAACAAAATT
Found at i:10461368 original size:20 final size:20
Alignment explanation
Indices: 10461345--10461386 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
10461335 AAAATCTTCA
10461345 TGACATGCTAAAAATTTGTT
1 TGACATGCTAAAAATTTGTT
*
10461365 TGACATGCTGAAAATTTGTT
1 TGACATGCTAAAAATTTGTT
10461385 TG
1 TG
10461387 TTCTCTATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (20 bp):
TGACATGCTAAAAATTTGTT
Found at i:10461932 original size:6 final size:6
Alignment explanation
Indices: 10461907--10461970 Score: 51
Period size: 6 Copynumber: 10.7 Consensus size: 6
10461897 TATTTTTAAA
* * * * *
10461907 AAAATT AATTAATA AAAATT AAAATT AGAATT AGAATT AGAATT AGAATT
1 AAAATT AA--AATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
10461957 AAAA-T AAAA-T AAAA
1 AAAATT AAAATT AAAA
10461971 CAAGAAGGAA
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
5 10 0.19
6 37 0.71
8 5 0.10
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (6 bp):
AAAATT
Found at i:10461944 original size:12 final size:12
Alignment explanation
Indices: 10461923--10461957 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
10461913 AATTAATAAA
*
10461923 AATTAAAATTAG
1 AATTAGAATTAG
10461935 AATTAGAATTAG
1 AATTAGAATTAG
10461947 AATTAGAATTA
1 AATTAGAATTA
10461958 AAATAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.11, T:0.34
Consensus pattern (12 bp):
AATTAGAATTAG
Found at i:10461950 original size:18 final size:18
Alignment explanation
Indices: 10461921--10461961 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
10461911 TTAATTAATA
*
10461921 AAAATTAAAATTAGAATT
1 AAAATTAGAATTAGAATT
*
10461939 AGAATTAGAATTAGAATT
1 AAAATTAGAATTAGAATT
10461957 AAAAT
1 AAAAT
10461962 AAAATAAAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.32
Consensus pattern (18 bp):
AAAATTAGAATTAGAATT
Found at i:10462035 original size:23 final size:23
Alignment explanation
Indices: 10462004--10462068 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
10461994 AAATCTCCAA
* *
10462004 AGATGAAATTTTAAGAAAGTTTG
1 AGATAAAATTTTAAGAAAGTCTG
*
10462027 AGATAAAATTTTAAAAAAGTCTG
1 AGATAAAATTTTAAGAAAGTCTG
*
10462050 A-ATAGAGATTTTTAAGAAA
1 AGATA-A-AATTTTAAGAAA
10462069 TTTTTAGGTG
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
22 3 0.09
23 22 0.63
24 10 0.29
ACGTcount: A:0.49, C:0.02, G:0.17, T:0.32
Consensus pattern (23 bp):
AGATAAAATTTTAAGAAAGTCTG
Found at i:10469115 original size:14 final size:14
Alignment explanation
Indices: 10469086--10469120 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
10469076 AAAATTGTTG
10469086 AAAAAAGCTCAAAA
1 AAAAAAGCTCAAAA
10469100 AAGAAAAGCT-AAAA
1 AA-AAAAGCTCAAAA
10469114 AAAAAAG
1 AAAAAAG
10469121 GTATTGGGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 5 0.25
14 8 0.40
15 7 0.35
ACGTcount: A:0.74, C:0.09, G:0.11, T:0.06
Consensus pattern (14 bp):
AAAAAAGCTCAAAA
Found at i:10474153 original size:9 final size:8
Alignment explanation
Indices: 10474129--10474188 Score: 52
Period size: 8 Copynumber: 7.4 Consensus size: 8
10474119 AGGAAAGGAG
10474129 AAAGAAAA
1 AAAGAAAA
10474137 AAA-AAAA
1 AAAGAAAA
10474144 AAAGACAAA
1 AAAGA-AAA
*
10474153 AAATAAAA
1 AAAGAAAA
* *
10474161 GAACAATAA
1 AAAGAA-AA
10474170 AATA-AAAA
1 AA-AGAAAA
10474178 AAAGAAAA
1 AAAGAAAA
10474186 AAA
1 AAA
10474189 AGATGAACAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
7 8 0.19
8 22 0.51
9 12 0.28
10 1 0.02
ACGTcount: A:0.85, C:0.03, G:0.07, T:0.05
Consensus pattern (8 bp):
AAAGAAAA
Found at i:10474168 original size:11 final size:9
Alignment explanation
Indices: 10474129--10474191 Score: 56
Period size: 9 Copynumber: 6.6 Consensus size: 9
10474119 AGGAAAGGAG
10474129 AAAGAAAAA
1 AAAGAAAAA
10474138 AAA-AAAAA
1 AAAGAAAAA
*
10474146 AGACAAAAAATA
1 A-A-AGAAAA-A
10474158 AAAGAACAATA
1 AAAGAA-AA-A
*
10474169 AAATAAAAA
1 AAAGAAAAA
10474178 AAAGAAAAA
1 AAAGAAAAA
10474187 AAAGA
1 AAAGA
10474192 TGAACAAGAA
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
8 6 0.13
9 18 0.39
10 6 0.13
11 14 0.30
12 2 0.04
ACGTcount: A:0.84, C:0.03, G:0.08, T:0.05
Consensus pattern (9 bp):
AAAGAAAAA
Found at i:10474197 original size:32 final size:34
Alignment explanation
Indices: 10474134--10474204 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 34
10474124 AGGAGAAAGA
*
10474134 AAAAAAAAAAAAAGACAAAAAATAAAAGAACAAT
1 AAAAAAAAAAAAAGACAAAAAATAAAAGAACAAG
* * *
10474168 AAAATAAAAAAAAGA-AAAAAA-AGATGAACAAG
1 AAAAAAAAAAAAAGACAAAAAATAAAAGAACAAG
10474200 AAAAA
1 AAAAA
10474205 TGAAAGAAGA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
32 12 0.38
33 6 0.19
34 14 0.44
ACGTcount: A:0.82, C:0.04, G:0.08, T:0.06
Consensus pattern (34 bp):
AAAAAAAAAAAAAGACAAAAAATAAAAGAACAAG
Found at i:10475214 original size:50 final size:51
Alignment explanation
Indices: 10475133--10475358 Score: 219
Period size: 50 Copynumber: 4.6 Consensus size: 51
10475123 GTTACAGAGA
*
10475133 ATTTTTAACA-AAAATTTTTAAAGTTTCAAAGCCTCTACTTATGAAGAGCC
1 ATTTTTAACATAAGATTTTTAAAGTTTCAAAGCCTCTACTTATGAAGAGCC
**
10475183 ATTTTTAA-ATAAGATTTTTAAAG-TTCTAAAGCCTCT-CTTTATGGGGAGCC
1 ATTTTTAACATAAGATTTTTAAAGTTTC-AAAGCCTCTAC-TTATGAAGAGCC
* * * *
10475233 ATTTTCAA-ACAAGATTTTTAAAGTTTCAAAGCCTCTATTTATAAAGAGCC
1 ATTTTTAACATAAGATTTTTAAAGTTTCAAAGCCTCTACTTATGAAGAGCC
* * * *
10475283 ATTTTTAAACATAA-A-TTTTAAAGTTTCAAGGCTTCTATTTA-GAAAAG-C
1 ATTTTT-AACATAAGATTTTTAAAGTTTCAAAGCCTCTACTTATGAAGAGCC
*
10475331 --TTTT-CCA-AA-ATTTTTAAAGTTTCAAAGC
1 ATTTTTAACATAAGATTTTTAAAGTTTCAAAGC
10475359 TTCTGGTTAT
Statistics
Matches: 151, Mismatches: 17, Indels: 22
0.79 0.09 0.12
Matches are distributed among these distances:
43 3 0.02
44 18 0.12
46 4 0.03
48 1 0.01
49 9 0.06
50 107 0.71
51 6 0.04
52 3 0.02
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.38
Consensus pattern (51 bp):
ATTTTTAACATAAGATTTTTAAAGTTTCAAAGCCTCTACTTATGAAGAGCC
Found at i:10475361 original size:44 final size:44
Alignment explanation
Indices: 10475246--10475510 Score: 207
Period size: 44 Copynumber: 5.9 Consensus size: 44
10475236 TTCAAACAAG
* * *
10475246 ATTTTTAAAGTTTCAAAGCCTCTATTTATAAAGAGCCATTTT-TAAA
1 ATTTTTAAAGTTTCAAAGCTTCTATTTAGAAA-AG-C-TTTTCCAAA
*
10475292 CATAAATTTTAAAGTTTCAAGGCTTCTATTTAGAAAAGCTTTTCCAAA
1 -AT---TTTTAAAGTTTCAAAGCTTCTATTTAGAAAAGCTTTTCCAAA
** * * *
10475340 ATTTTTAAAGTTTCAAAGCTTCTGGTTATAAGAGCTATTCCAAA
1 ATTTTTAAAGTTTCAAAGCTTCTATTTAGAAAAGCTTTTCCAAA
* * * *
10475384 ATTTTTAAAGTTTTAAGACCTT-TATTTAGAGAAGCTTTTTCAAA
1 ATTTTTAAAGTTTCAA-AGCTTCTATTTAGAAAAGCTTTTCCAAA
* * *
10475428 ATTTTTTAAGTTTCAAAGCCTT-TAATTA-AATGAG-TTATTCCAAA
1 ATTTTTAAAGTTTCAAAG-CTTCTATTTAGAA-AAGCTT-TTCCAAA
* * * **
10475472 ATTTTTAAAGTATCAAAGCCTCTTTTTAGAGGAGCTTTT
1 ATTTTTAAAGTTTCAAAGCTTCTATTTAGAAAAGCTTTT
10475511 ATAGCATTGA
Statistics
Matches: 175, Mismatches: 32, Indels: 25
0.75 0.14 0.11
Matches are distributed among these distances:
43 6 0.03
44 121 0.69
45 7 0.04
47 8 0.05
48 4 0.02
49 2 0.01
50 27 0.15
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.42
Consensus pattern (44 bp):
ATTTTTAAAGTTTCAAAGCTTCTATTTAGAAAAGCTTTTCCAAA
Found at i:10475420 original size:88 final size:88
Alignment explanation
Indices: 10475298--10475510 Score: 254
Period size: 88 Copynumber: 2.4 Consensus size: 88
10475288 TAAACATAAA
*
10475298 TTTTAAAGTTTCAAGGCTTCTATTTAGAAAAGCTTTTCCAAAATTTTTAAAGTTTCAAAG-CTTC
1 TTTTAAAGTTTCAAGCCTTCTATTTAGAAAAGCTTTTCCAAAATTTTTAAAGTTTCAAAGCCTT-
**
10475362 TGGTTATAA-GAGCTATTCCAAAAT
65 TAATTA-AATGAGCTATTCCAAAAT
* * * *
10475386 TTTTAAAGTTTTAAGACCTT-TATTTAGAGAAGCTTTTTCAAAATTTTTTAAGTTTCAAAGCCTT
1 TTTTAAAGTTTCAAG-CCTTCTATTTAGAAAAGCTTTTCCAAAATTTTTAAAGTTTCAAAGCCTT
*
10475450 TAATTAAATGAGTTATTCCAAAAT
65 TAATTAAATGAGCTATTCCAAAAT
* * **
10475474 TTTTAAAGTATCAAAGCC-TCTTTTTAGAGGAGCTTTT
1 TTTTAAAGTTTC-AAGCCTTCTATTTAGAAAAGCTTTT
10475511 ATAGCATTGA
Statistics
Matches: 108, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
87 3 0.03
88 96 0.89
89 9 0.08
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (88 bp):
TTTTAAAGTTTCAAGCCTTCTATTTAGAAAAGCTTTTCCAAAATTTTTAAAGTTTCAAAGCCTTT
AATTAAATGAGCTATTCCAAAAT
Found at i:10475694 original size:14 final size:14
Alignment explanation
Indices: 10475675--10475740 Score: 60
Period size: 14 Copynumber: 4.4 Consensus size: 14
10475665 TTTTCAAATT
*
10475675 AAAAAAAAAAACTA
1 AAAAAAAAAAACCA
10475689 AAAAAAACAAAACAAACA
1 AAAAAAA-AAAAC---CA
*
10475707 AAACAAAAAAACCA
1 AAAAAAAAAAACCA
**
10475721 AAAACTAAAAACCA
1 AAAAAAAAAAACCA
10475735 AAAAAA
1 AAAAAA
10475741 TAAACTTTCT
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
14 24 0.59
15 5 0.12
17 5 0.12
18 7 0.17
ACGTcount: A:0.82, C:0.15, G:0.00, T:0.03
Consensus pattern (14 bp):
AAAAAAAAAAACCA
Done.