Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 285 of 332
Found at i:95038233 original size:101 final size:99
Alignment explanation
Indices: 95038050--95038233 Score: 235
Period size: 101 Copynumber: 1.8 Consensus size: 99
95038040 CTGGTACGCA
* * * *
95038050 TAGTAGCCTGCACTTAGTACTACACATGAGACCAATTATCTGGTACACGTAGTAGGCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGAGACCAATTATCGGGTACACATAGTAGCCTGCACTTA
*
95038115 GTACTACACACTTGACCTAACCATCTGATACACG
66 GTACTACACACTCGACCTAACCATCTGATACACG
* * * ** *
95038149 TAGTAGCCTGTACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGTATAGTAGCCTGCGCT
1 TAGTAGCCTGCACTTAGTACTACACACGAGA-CCAA-TTATCGGGTACACATAGTAGCCTGCACT
95038214 TAGTACTACACA-TGCGACCT
64 TAGTACTACACACT-CGACCT
95038234 CACAATATAT
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
99 28 0.39
100 4 0.06
101 39 0.55
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGAGACCAATTATCGGGTACACATAGTAGCCTGCACTTA
GTACTACACACTCGACCTAACCATCTGATACACG
Found at i:95045930 original size:21 final size:20
Alignment explanation
Indices: 95045889--95045927 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
95045879 TCGATTGAAC
95045889 TAATTTTTTAAATAAAATTA
1 TAATTTTTTAAATAAAATTA
**
95045909 TAATTTTTTTTATAAAATT
1 TAATTTTTTAAATAAAATT
95045928 TATTTAATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TAATTTTTTAAATAAAATTA
Found at i:95048760 original size:19 final size:19
Alignment explanation
Indices: 95048738--95048778 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
95048728 TTTATTAGTA
95048738 GAACTATGTCTGATTAATG
1 GAACTATGTCTGATTAATG
* * *
95048757 GAACTGTGTGTGATTAGTG
1 GAACTATGTCTGATTAATG
95048776 GAA
1 GAA
95048779 TCGTATGTGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.29, C:0.07, G:0.29, T:0.34
Consensus pattern (19 bp):
GAACTATGTCTGATTAATG
Found at i:95051427 original size:25 final size:25
Alignment explanation
Indices: 95051398--95051445 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
95051388 TTATAACATG
* * *
95051398 AAAATGACTGTTTTGCCCCTAGGTA
1 AAAATGACTATTATACCCCTAGGTA
95051423 AAAATGACTATTATACCCCTAGG
1 AAAATGACTATTATACCCCTAGG
95051446 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (25 bp):
AAAATGACTATTATACCCCTAGGTA
Found at i:95051540 original size:20 final size:20
Alignment explanation
Indices: 95051491--95051548 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
95051481 AACATGGTAC
* *
95051491 GTATGATATACACATGACAT
1 GTATGATATGCACATGATAT
*
95051511 GTATGATATGCACCTGATAT
1 GTATGATATGCACATGATAT
*
95051531 GTATGATATGCACGTGAT
1 GTATGATATGCACATGAT
95051549 GTAATCATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.33
Consensus pattern (20 bp):
GTATGATATGCACATGATAT
Found at i:95051654 original size:24 final size:23
Alignment explanation
Indices: 95051598--95051730 Score: 185
Period size: 24 Copynumber: 5.7 Consensus size: 23
95051588 GAGGAAGTGA
95051598 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
* *
95051621 TAAAGGGCTTGTGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
95051644 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
95051668 CAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
* *
95051692 TAAAGGGCATATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
95051715 AAAAAGGGCTTTTGCC
1 -AAAAGGGCTTATGCC
95051731 AAGCAGCTAA
Statistics
Matches: 97, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
23 41 0.42
24 56 0.58
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:95051667 original size:47 final size:47
Alignment explanation
Indices: 95051598--95051730 Score: 187
Period size: 47 Copynumber: 2.8 Consensus size: 47
95051588 GAGGAAGTGA
* *
95051598 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTGTGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* *
95051644 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* * *
95051692 TAAAGGGCATATGCCCCAGTTATAAAAAGGGCTTTTGCC
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCC
95051731 AAGCAGCTAA
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
47 57 0.74
48 20 0.26
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
Found at i:95051714 original size:71 final size:71
Alignment explanation
Indices: 95051598--95051730 Score: 221
Period size: 71 Copynumber: 1.9 Consensus size: 71
95051588 GAGGAAGTGA
* * * *
95051598 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTGTGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCATATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
95051663 GTTATC
66 GTTATC
*
95051669 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCATATGCCCCAGTTATAAAAAGGGCTTTTGCC
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCATATGCCCCAGTTATAAAAAGGGCTTATGCC
95051731 AAGCAGCTAA
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
71 57 1.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (71 bp):
AAAAGGGCTTACGCCCCAGTTATTAAAGGGCATATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
GTTATC
Found at i:95054096 original size:28 final size:29
Alignment explanation
Indices: 95054037--95054096 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 29
95054027 ATTTATTTCA
* *
95054037 CAATTTAATCCCTCAATTTACACTTTTAT
1 CAATTTAACCCCTCAATTGACACTTTTAT
* *
95054066 CAATTTAACCCCT-AATTGACATTTTTGT
1 CAATTTAACCCCTCAATTGACACTTTTAT
95054094 CAA
1 CAA
95054097 AAATCACTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 15 0.56
29 12 0.44
ACGTcount: A:0.32, C:0.23, G:0.03, T:0.42
Consensus pattern (29 bp):
CAATTTAACCCCTCAATTGACACTTTTAT
Found at i:95059219 original size:32 final size:33
Alignment explanation
Indices: 95059178--95059291 Score: 99
Period size: 33 Copynumber: 3.5 Consensus size: 33
95059168 TACCCAAATG
*
95059178 GTACAACTT-GAAAGGGTTATGTACACTTTGTGT
1 GTACAACTTGGAAA-GGTTAGGTACACTTTGTGT
*
95059211 GTAC-ACTTGGAAAGGTTAGGTATACTTTGTGT
1 GTACAACTTGGAAAGGTTAGGTACACTTTGTGT
* * * ** * *
95059243 ATACCA-TATGAAAAGGAAAGGTATATTTTGTGT
1 GTACAACT-TGGAAAGGTTAGGTACACTTTGTGT
*
95059276 GTACCACTTGGAAAGG
1 GTACAACTTGGAAAGG
95059292 AATGTACACC
Statistics
Matches: 68, Mismatches: 9, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
32 25 0.37
33 42 0.62
34 1 0.01
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (33 bp):
GTACAACTTGGAAAGGTTAGGTACACTTTGTGT
Found at i:95059292 original size:33 final size:33
Alignment explanation
Indices: 95059202--95059293 Score: 116
Period size: 33 Copynumber: 2.8 Consensus size: 33
95059192 GGTTATGTAC
**
95059202 ACTTTGTGTGTA-CACTTGGAAAGGTTAGGTAT
1 ACTTTGTGTGTACCACTTGGAAAGGAAAGGTAT
* *
95059234 ACTTTGTGTATACCA-TATGAAAAGGAAAGGTAT
1 ACTTTGTGTGTACCACT-TGGAAAGGAAAGGTAT
*
95059267 ATTTTGTGTGTACCACTTGGAAAGGAA
1 ACTTTGTGTGTACCACTTGGAAAGGAA
95059294 TGTACACCTC
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
32 12 0.24
33 37 0.74
34 1 0.02
ACGTcount: A:0.32, C:0.10, G:0.25, T:0.34
Consensus pattern (33 bp):
ACTTTGTGTGTACCACTTGGAAAGGAAAGGTAT
Found at i:95064178 original size:28 final size:29
Alignment explanation
Indices: 95064114--95064178 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 29
95064104 TTTTCATTTA
* *
95064114 TTTCACAATTTAACCCCTCAATTTACACT
1 TTTCTCAATTTAACCCCTCAATTGACACT
*
95064143 TTTCTCAATTTAACCCCT-AATTGACATT
1 TTTCTCAATTTAACCCCTCAATTGACACT
*
95064171 TTTGTCAA
1 TTTCTCAA
95064179 AAATCACTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 15 0.47
29 17 0.53
ACGTcount: A:0.29, C:0.26, G:0.03, T:0.42
Consensus pattern (29 bp):
TTTCTCAATTTAACCCCTCAATTGACACT
Found at i:95064752 original size:21 final size:21
Alignment explanation
Indices: 95064699--95064753 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
95064689 TAAATAGTTG
*
95064699 TAAAGTTTCGTCAAGAAATTT
1 TAAAGTTTCGTTAAGAAATTT
95064720 TAAAGTTTCGTTAAGAAATTT
1 TAAAGTTTCGTTAAGAAATTT
*
95064741 TAAAGCTTCGTTA
1 TAAAGTTTCGTTA
95064754 GTTAATTGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.40
Consensus pattern (21 bp):
TAAAGTTTCGTTAAGAAATTT
Found at i:95066424 original size:51 final size:51
Alignment explanation
Indices: 95066348--95066515 Score: 282
Period size: 51 Copynumber: 3.3 Consensus size: 51
95066338 ACTTCGGATT
95066348 AGTGACAAGTGATAAGTGGTAGCCTCAGTTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCCTCAGTTACACTTATCTGATCAGTGACA
* *
95066399 AGTGATAAGTGATAAGTGGTAGCCTCAGTTACACTTATCTTATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCCTCAGTTACACTTATCTGATCAGTGACA
* * **
95066450 AGTGACAAGTGATAAGTGGTAGCTTTAGCAACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCCTCAGTTACACTTATCTGATCAGTGACA
95066501 AGTGACAAGTGATAA
1 AGTGACAAGTGATAA
95066516 ATGTGATCCG
Statistics
Matches: 109, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 109 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.28
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCCTCAGTTACACTTATCTGATCAGTGACA
Found at i:95075749 original size:17 final size:17
Alignment explanation
Indices: 95075724--95075820 Score: 99
Period size: 17 Copynumber: 5.8 Consensus size: 17
95075714 ACAATGTACG
*
95075724 AGCTCTGTTTATATGCT
1 AGCTGTGTTTATATGCT
*
95075741 AGCTGTGTTTATATGCG
1 AGCTGTGTTTATATGCT
*
95075758 AGCTGTGTTTATATGTT
1 AGCTGTGTTTATATGCT
* *
95075775 AGTTGCG-TTATATG-T
1 AGCTGTGTTTATATGCT
* * *
95075790 GAGTTGTGTTTATATACG
1 -AGCTGTGTTTATATGCT
95075808 AGCTGTGTTTATA
1 AGCTGTGTTTATA
95075821 AGTGAACTGT
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
15 1 0.01
16 13 0.19
17 53 0.79
ACGTcount: A:0.20, C:0.09, G:0.25, T:0.46
Consensus pattern (17 bp):
AGCTGTGTTTATATGCT
Found at i:95075798 original size:33 final size:34
Alignment explanation
Indices: 95075722--95075820 Score: 110
Period size: 34 Copynumber: 2.9 Consensus size: 34
95075712 TGACAATGTA
* *
95075722 CGAGCTCTGTTTATATGCTAGCTGTGTTTATATG
1 CGAGCTGTGTTTATATGCTAGCTGCGTTTATATG
* *
95075756 CGAGCTGTGTTTATATGTTAGTTGCG-TTATATG
1 CGAGCTGTGTTTATATGCTAGCTGCGTTTATATG
* * * * *
95075789 TGAGTTGTGTTTATATACGAGCTGTGTTTATA
1 CGAGCTGTGTTTATATGCTAGCTGCGTTTATA
95075821 AGTGAACTGT
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
33 26 0.49
34 27 0.51
ACGTcount: A:0.19, C:0.10, G:0.25, T:0.45
Consensus pattern (34 bp):
CGAGCTGTGTTTATATGCTAGCTGCGTTTATATG
Found at i:95076040 original size:27 final size:27
Alignment explanation
Indices: 95076002--95076066 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
95075992 GTGTGGGCTC
*
95076002 TCTATAAAGTATCTAAGTGCGAGCTGG
1 TCTATAAAGTATCTAAGTGCGAGCTAG
* *
95076029 TCTATAAAGTATTTAAGTTCGAGCTAG
1 TCTATAAAGTATCTAAGTGCGAGCTAG
*
95076056 TCTGTAAAGTA
1 TCTATAAAGTA
95076067 ATAATATGTG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.34
Consensus pattern (27 bp):
TCTATAAAGTATCTAAGTGCGAGCTAG
Found at i:95077811 original size:38 final size:38
Alignment explanation
Indices: 95077769--95077875 Score: 160
Period size: 38 Copynumber: 2.8 Consensus size: 38
95077759 TGAAATACCA
*
95077769 AATATACTGAATGTTGCTCAATCAAGTAAAATCTACTG
1 AATATACTGAATGTTGCTCAATCAAGCAAAATCTACTG
* * *
95077807 AATATACTGAACGTTTCTCAATCGAGCAAAATCTACTG
1 AATATACTGAATGTTGCTCAATCAAGCAAAATCTACTG
* *
95077845 AATATACTGAATGTCGCTCAATCGAGCAAAA
1 AATATACTGAATGTTGCTCAATCAAGCAAAA
95077876 GAATTCACTG
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 62 1.00
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (38 bp):
AATATACTGAATGTTGCTCAATCAAGCAAAATCTACTG
Found at i:95085696 original size:7 final size:7
Alignment explanation
Indices: 95085686--95085714 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
95085676 ATCAAATTCA
95085686 AAATTTT
1 AAATTTT
95085693 AAATTTT
1 AAATTTT
95085700 AAATTTT
1 AAATTTT
95085707 AAATTTT
1 AAATTTT
95085714 A
1 A
95085715 GTTGAGGAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (7 bp):
AAATTTT
Found at i:95086397 original size:10 final size:10
Alignment explanation
Indices: 95086382--95086477 Score: 63
Period size: 10 Copynumber: 9.5 Consensus size: 10
95086372 ATAAAATATT
95086382 AAAAATTATA
1 AAAAATTATA
* *
95086392 AAAAATCAGA
1 AAAAATTATA
95086402 AAAACATTATA
1 AAAA-ATTATA
*
95086413 AAAAATTACA
1 AAAAATTATA
*
95086423 AAAAATATATTT
1 AAAAAT-TA-TA
95086435 AAAAA-TAT-
1 AAAAATTATA
*
95086443 GAAAATTGATA
1 AAAAATT-ATA
* *
95086454 TAAACTTAT-
1 AAAAATTATA
*
95086463 AAAAATTAGA
1 AAAAATTATA
95086473 AAAAA
1 AAAAA
95086478 AACATAAAAA
Statistics
Matches: 66, Mismatches: 13, Indels: 14
0.71 0.14 0.15
Matches are distributed among these distances:
8 4 0.06
9 8 0.12
10 34 0.52
11 15 0.23
12 5 0.08
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.26
Consensus pattern (10 bp):
AAAAATTATA
Found at i:95086425 original size:21 final size:20
Alignment explanation
Indices: 95086382--95086428 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 20
95086372 ATAAAATATT
*
95086382 AAAAATTATAAAAAATCAGA
1 AAAAATTATAAAAAATCACA
*
95086402 AAAACATTATAAAAAATTACA
1 AAAA-ATTATAAAAAATCACA
95086423 AAAAAT
1 AAAAAT
95086429 ATATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.70, C:0.06, G:0.02, T:0.21
Consensus pattern (20 bp):
AAAAATTATAAAAAATCACA
Found at i:95087457 original size:18 final size:17
Alignment explanation
Indices: 95087430--95087518 Score: 65
Period size: 17 Copynumber: 5.0 Consensus size: 17
95087420 TAATTTGAAG
*
95087430 AATTCTAATAATTTTTT
1 AATTTTAATAATTTTTT
95087447 AATTTTAA-ATATTTTAATT
1 AATTTTAATA-ATTTT--TT
* *
95087466 AAGTTTTATTAATTTTAT
1 AA-TTTTAATAATTTTTT
*
95087484 AA-TTTATTAGATTTTTAT
1 AATTTTAATA-ATTTTT-T
*
95087502 AATTTTAATAGTTTTTT
1 AATTTTAATAATTTTTT
95087519 GTTAATTTTA
Statistics
Matches: 58, Mismatches: 6, Indels: 16
0.73 0.08 0.20
Matches are distributed among these distances:
16 8 0.14
17 18 0.31
18 11 0.19
19 10 0.17
20 10 0.17
21 1 0.02
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (17 bp):
AATTTTAATAATTTTTT
Found at i:95087464 original size:26 final size:26
Alignment explanation
Indices: 95087430--95087509 Score: 74
Period size: 26 Copynumber: 2.9 Consensus size: 26
95087420 TAATTTGAAG
95087430 AATTCTAATAATTTTTTAATTTTAAAT
1 AATT-TAATAATTTTTTAATTTTAAAT
*
95087457 ATTTTAATTAAGTTTTATTAATTTT--AT
1 AATTTAA-TAA-TTTT-TTAATTTTAAAT
*
95087484 AATTTATTAGATTTTTATAATTTTAA
1 AATTTAATA-ATTTTT-TAATTTTAA
95087510 TAGTTTTTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
25 1 0.02
26 16 0.37
27 14 0.33
28 4 0.09
29 8 0.19
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.59
Consensus pattern (26 bp):
AATTTAATAATTTTTTAATTTTAAAT
Found at i:95087481 original size:9 final size:9
Alignment explanation
Indices: 95087438--95087508 Score: 53
Period size: 9 Copynumber: 7.9 Consensus size: 9
95087428 AGAATTCTAA
95087438 TAATTTT-T
1 TAATTTTAT
95087446 TAATTTTA-
1 TAATTTTAT
*
95087454 AATATTTTAAT
1 TA-ATTTT-AT
95087465 TAAGTTTTAT
1 TAA-TTTTAT
95087475 TAATTTTA-
1 TAATTTTAT
95087483 TAA-TTTAT
1 TAATTTTAT
95087491 TAGATTTT-T
1 TA-ATTTTAT
95087500 ATAATTTTA
1 -TAATTTTA
95087509 ATAGTTTTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 18
0.72 0.03 0.25
Matches are distributed among these distances:
7 4 0.08
8 13 0.25
9 17 0.33
10 12 0.24
11 5 0.10
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (9 bp):
TAATTTTAT
Found at i:95090575 original size:3 final size:3
Alignment explanation
Indices: 95090567--95090631 Score: 53
Period size: 3 Copynumber: 22.0 Consensus size: 3
95090557 ACAATAGAAA
* * * * *
95090567 AAT AAT AAT GAT GAT AAT AAT ACT -AT AAC AGA- AAT AAT ATT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT
*
95090611 AAT AAC AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT
95090632 TTTAAAAAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
2 2 0.04
3 47 0.94
4 1 0.02
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:95092358 original size:45 final size:45
Alignment explanation
Indices: 95092227--95092359 Score: 178
Period size: 45 Copynumber: 3.0 Consensus size: 45
95092217 GGTGGCTAAA
* * * * *
95092227 ATCTGCTCCATAGCTGATACATGGAGATAAGA-CTCACCATCTTTG
1 ATCTGCTCCATAACCGATACATGGAGATAAGATCTGA-AATTTTTG
* *
95092272 ATCTGCTCTATAACCGATACATGGAGATAAGATCTGTAATTTTTG
1 ATCTGCTCCATAACCGATACATGGAGATAAGATCTGAAATTTTTG
*
95092317 ATCTACTCCATAACCGATACATGGAGATAAGATCTGAAATTTT
1 ATCTGCTCCATAACCGATACATGGAGATAAGATCTGAAATTTT
95092360 CCAGCTTGTT
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
45 75 0.97
46 2 0.03
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.32
Consensus pattern (45 bp):
ATCTGCTCCATAACCGATACATGGAGATAAGATCTGAAATTTTTG
Found at i:95092632 original size:177 final size:177
Alignment explanation
Indices: 95092272--95093101 Score: 1139
Period size: 177 Copynumber: 4.7 Consensus size: 177
95092262 ACCATCTTTG
* * * ** * * *
95092272 ATCTGCTCTATAACCGATACATGGAGATAAGA-TCTGTAATTTTTGATCTACTCCATAACCGATA
1 ATCTGCTCCATAGCCGATACATAGAGATAAGACT-TGCCATCTTTGATCTGCTCCATAGCCGATA
* * *
95092336 CATGGAGATAAGATCTGAAATTTTCCAGCTTGTTACCCTACTGCTTAGGGGGTTAAGACTTGTAT
65 CATGGAGATAAGATCTGTAATTTT-CAGCCTGTTACCCTACTACTTAGGGGGTTAAGACTTGTAT
* *
95092401 CTTTAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGTCGGTGGCTAAA
129 CTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGTCGTTGGCTAAA
95092450 ATCTGCTCCATAGCCGATACATAGAGATAAGACTTGCCATCTTTGATCTGCTCCATAGCCGATAC
1 ATCTGCTCCATAGCCGATACATAGAGATAAGACTTGCCATCTTTGATCTGCTCCATAGCCGATAC
* * * *
95092515 ATGGAGATAAGATCTGTAATTTTCAGCCTATTACCTTACTACTTAGGGGGTTAAGAATCGTATCT
66 ATGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGACTTGTATCT
*
95092580 TCAACCTGCTCTCTTGCTACCTTAGAGAGATAAGGTCGTTGGCTAAA
131 TCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGTCGTTGGCTAAA
95092627 ATCTGCTCCATAGCCGATACATAGAGATAAGACTTGCCATCTTTGATCTGCTCCATAGCCGATAC
1 ATCTGCTCCATAGCCGATACATAGAGATAAGACTTGCCATCTTTGATCTGCTCCATAGCCGATAC
* * * * * ** * ** *
95092692 ATGGAGATAAGATCTATAATTTCCAGTCTGCTT-TCTTGTTAGCTCAGGAAGATAAGACTTGTAT
66 ATGGAGATAAGATCTGTAATTTTCAGCCTG-TTACCCTACTA-CTTAGGGGGTTAAGACTTGTAT
* * *
95092756 CTTCAACCTGCTATCTTGCTACCTCAGAGAGATAAGACTAG-TGGCTAAA
129 CTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAG-GTCGTTGGCTAAA
*
95092805 ATCTGCTCCATAGCCGATACATAGAGATAAGACTTGCCAT-TTCTGATCTGCTCCATAGGCGATA
1 ATCTGCTCCATAGCCGATACATAGAGATAAGACTTGCCATCTT-TGATCTGCTCCATAGCCGATA
* *
95092869 CATGAAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGACTTGTATC
65 CATGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGACTTGTATC
* *
95092934 TTCAACCTGCTCTTTTGCCACCTCAGAGAGATAAGG-CTGTTGGCTAAA
130 TTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGTC-GTTGGCTAAA
* * * * * * *
95092982 ATCTGCTCCATAGCCAATACATGGAGATAAGACTCGTCATCTTTGATCTACTCCATAGCTGGTAC
1 ATCTGCTCCATAGCCGATACATAGAGATAAGACTTGCCATCTTTGATCTGCTCCATAGCCGATAC
** *
95093047 ATAAAGATAAGATCTGTAATTTTTAGCCTGTTACCCTACTACTTAGGGGGTTAAG
66 ATGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAG
95093102 GCTAGTCGAA
Statistics
Matches: 578, Mismatches: 65, Indels: 19
0.87 0.10 0.03
Matches are distributed among these distances:
176 1 0.00
177 345 0.60
178 229 0.40
179 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (177 bp):
ATCTGCTCCATAGCCGATACATAGAGATAAGACTTGCCATCTTTGATCTGCTCCATAGCCGATAC
ATGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTACTTAGGGGGTTAAGACTTGTATCT
TCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGTCGTTGGCTAAA
Found at i:95092923 original size:355 final size:354
Alignment explanation
Indices: 95092272--95093086 Score: 1140
Period size: 355 Copynumber: 2.3 Consensus size: 354
95092262 ACCATCTTTG
* * * * *
95092272 ATCTGCTCTATAACCGATACATGGAGATAAGA-TCTGTAATTTTTGATCTACTCCATAACCGATA
1 ATCTGCTCCATAGCCGATACATGGAGATAAGACT-TGTCATCTTTGATCTACTCCATAGCCGATA
* ** *
95092336 CATGGAGATAAGATCTGA-AATTTTCCAGCTTGTTACCCTACTGCTTAGGGGGTTAAGACTTGTA
65 CATGGAGATAAGATCT-ATAA-TTTCCAGCTTGTTACCCTACTGCTCAGGAAGATAAGACTTGTA
* * * *
95092400 TCTTTAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGTCGGTGGCTAAAATCTGCTCCATAGCC
128 TCTTCAACCTGCTATCTTGCTACCTCAGAGAGATAAGCTCAGTGGCTAAAATCTGCTCCATAGCC
*
95092465 GATACATAGAGATAAGACTTGCCATCTTTGATCTGCTCCATAGCCGATACATGGAGATAAGATCT
193 GATACATAGAGATAAGACTTGCCATCTTTGATCTGCTCCATAGCCGATACATGAAGATAAGATCT
*
95092530 GTAATTTTCAGCCTATTACCTTACTACTTAGGGGGTTAAGAATCGTATCTTCAACCTGCTCTCTT
258 GTAATTTTCAGCCTATTACCCTACTACTTAGGGGGTTAAGAATCGTATCTTCAACCTGCTCTCTT
* *
95092595 GCTACCTTAGAGAGATAAGG-TCGTTGGCTAAA
323 GCCACCTCAGAGAGATAAGGCT-GTTGGCTAAA
* * *
95092627 ATCTGCTCCATAGCCGATACATAGAGATAAGACTTGCCATCTTTGATCTGCTCCATAGCCGATAC
1 ATCTGCTCCATAGCCGATACATGGAGATAAGACTTGTCATCTTTGATCTACTCCATAGCCGATAC
* * **
95092692 ATGGAGATAAGATCTATAATTTCCAG-TCTGCTT-TCTTGTTAGCTCAGGAAGATAAGACTTGTA
66 ATGGAGATAAGATCTATAATTTCCAGCT-TG-TTACCCTACT-GCTCAGGAAGATAAGACTTGTA
95092755 TCTTCAACCTGCTATCTTGCTACCTCAGAGAGATAAGACT-AGTGGCTAAAATCTGCTCCATAGC
128 TCTTCAACCTGCTATCTTGCTACCTCAGAGAGATAAG-CTCAGTGGCTAAAATCTGCTCCATAGC
*
95092819 CGATACATAGAGATAAGACTTGCCAT-TTCTGATCTGCTCCATAGGCGATACATGAAGATAAGAT
192 CGATACATAGAGATAAGACTTGCCATCTT-TGATCTGCTCCATAGCCGATACATGAAGATAAGAT
* * * * *
95092883 CTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGACTTGTATCTTCAACCTGCTCTT
256 CTGTAATTTTCAGCCTATTACCCTACTACTTAGGGGGTTAAGAATCGTATCTTCAACCTGCTCTC
95092948 TTGCCACCTCAGAGAGATAAGGCTGTTGGCTAAA
321 TTGCCACCTCAGAGAGATAAGGCTGTTGGCTAAA
* * * *
95092982 ATCTGCTCCATAGCCAATACATGGAGATAAGACTCGTCATCTTTGATCTACTCCATAGCTGGTAC
1 ATCTGCTCCATAGCCGATACATGGAGATAAGACTTGTCATCTTTGATCTACTCCATAGCCGATAC
** * ** *
95093047 ATAAAGATAAGATCTGTAATTTTTAGCCTGTTACCCTACT
66 ATGGAGATAAGATCTATAATTTCCAGCTTGTTACCCTACT
95093087 ACTTAGGGGG
Statistics
Matches: 403, Mismatches: 47, Indels: 20
0.86 0.10 0.04
Matches are distributed among these distances:
353 1 0.00
354 17 0.04
355 382 0.95
356 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (354 bp):
ATCTGCTCCATAGCCGATACATGGAGATAAGACTTGTCATCTTTGATCTACTCCATAGCCGATAC
ATGGAGATAAGATCTATAATTTCCAGCTTGTTACCCTACTGCTCAGGAAGATAAGACTTGTATCT
TCAACCTGCTATCTTGCTACCTCAGAGAGATAAGCTCAGTGGCTAAAATCTGCTCCATAGCCGAT
ACATAGAGATAAGACTTGCCATCTTTGATCTGCTCCATAGCCGATACATGAAGATAAGATCTGTA
ATTTTCAGCCTATTACCCTACTACTTAGGGGGTTAAGAATCGTATCTTCAACCTGCTCTCTTGCC
ACCTCAGAGAGATAAGGCTGTTGGCTAAA
Found at i:95094015 original size:53 final size:52
Alignment explanation
Indices: 95093958--95094063 Score: 126
Period size: 53 Copynumber: 2.0 Consensus size: 52
95093948 ACTCAAAACC
95093958 CTTTTGGTCTCAAAGC-GCCCTTTAT-GGGTTTTCGCCTTGGCCTTTTCATTTTT
1 CTTTTGGTCTCAAA-CTGCCCTTT-TCGGGTTTTCGCCTTGGCC-TTTCATTTTT
** * * *
95094011 CTTTTTTTTTCAAACTGCCCTTTTCGGGTTTTCGCCTTGTCCTTTCCTTTTT
1 CTTTTGGTCTCAAACTGCCCTTTTCGGGTTTTCGCCTTGGCCTTTCATTTTT
95094063 C
1 C
95094064 AGGTGAAGTA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
52 12 0.26
53 34 0.74
ACGTcount: A:0.08, C:0.26, G:0.15, T:0.51
Consensus pattern (52 bp):
CTTTTGGTCTCAAACTGCCCTTTTCGGGTTTTCGCCTTGGCCTTTCATTTTT
Found at i:95108979 original size:13 final size:13
Alignment explanation
Indices: 95108936--95108980 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
95108926 CTATTTGTAG
95108936 CTTTTTC-TTTTT
1 CTTTTTCTTTTTT
95108948 C-TTTTCTTTTTT
1 CTTTTTCTTTTTT
*
95108960 -TAATTTCTTTTTT
1 CT-TTTTCTTTTTT
95108973 CTTTTTCT
1 CTTTTTCT
95108981 CACATTGCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
11 5 0.19
12 6 0.22
13 15 0.56
14 1 0.04
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (13 bp):
CTTTTTCTTTTTT
Found at i:95115590 original size:18 final size:19
Alignment explanation
Indices: 95115547--95115601 Score: 78
Period size: 18 Copynumber: 2.9 Consensus size: 19
95115537 TTACATGTCA
*
95115547 AAAAAT-TATAAAAAATTT
1 AAAAATATATAAAAAACTT
95115565 AAAGAATATATAAAAAACTT
1 AAA-AATATATAAAAAACTT
95115585 -AAAATATATAAAAAACT
1 AAAAATATATAAAAAACT
95115602 CCTAAATCAC
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
18 18 0.53
19 5 0.15
20 11 0.32
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (19 bp):
AAAAATATATAAAAAACTT
Found at i:95116389 original size:24 final size:24
Alignment explanation
Indices: 95116338--95116394 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
95116328 CGCCTTCAAA
*
95116338 ATCATCATCAAACTCATCATCGTC
1 ATCATCATCAAACTCATCATCATC
* *
95116362 ATCATCATCAAACTCGTTATCCAT-
1 ATCATCATCAAACTCATCAT-CATC
95116386 ATCATCATC
1 ATCATCATC
95116395 GTCCTGCACC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 27 0.93
25 2 0.07
ACGTcount: A:0.33, C:0.32, G:0.04, T:0.32
Consensus pattern (24 bp):
ATCATCATCAAACTCATCATCATC
Found at i:95117855 original size:15 final size:15
Alignment explanation
Indices: 95117835--95117864 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
95117825 TTTAATCCTT
*
95117835 TATAAATTATAAAAA
1 TATAAACTATAAAAA
95117850 TATAAACTATAAAAA
1 TATAAACTATAAAAA
95117865 ATTAAAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (15 bp):
TATAAACTATAAAAA
Found at i:95120177 original size:14 final size:16
Alignment explanation
Indices: 95120154--95120185 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
95120144 AGATTCACAT
95120154 ACCAAGATATAA-TCA
1 ACCAAGATATAATTCA
95120169 ACCAA-ATATAATTCA
1 ACCAAGATATAATTCA
95120184 AC
1 AC
95120186 ATATTATCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.53, C:0.22, G:0.03, T:0.22
Consensus pattern (16 bp):
ACCAAGATATAATTCA
Found at i:95121019 original size:20 final size:20
Alignment explanation
Indices: 95120994--95121046 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
95120984 ATTAATCAAC
95120994 ATTTTACATTTTACCCTAAA
1 ATTTTACATTTTACCCTAAA
95121014 ATTTTACATTTTACCCTAAA
1 ATTTTACATTTTACCCTAAA
95121034 ATTTTACATTTTA
1 ATTTTACATTTTA
95121047 TTCAATTTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.49
Consensus pattern (20 bp):
ATTTTACATTTTACCCTAAA
Found at i:95122553 original size:28 final size:28
Alignment explanation
Indices: 95122513--95122569 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
95122503 TCTAGTTTCT
95122513 TATAGAAGAAACAATGTAAGTAACGGAA
1 TATAGAAGAAACAATGTAAGTAACGGAA
* *
95122541 TATAGAAGAAACAGTGTAAGTAATGGAA
1 TATAGAAGAAACAATGTAAGTAACGGAA
95122569 T
1 T
95122570 TGTAAATCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (28 bp):
TATAGAAGAAACAATGTAAGTAACGGAA
Found at i:95123426 original size:51 final size:51
Alignment explanation
Indices: 95123350--95123510 Score: 237
Period size: 51 Copynumber: 3.3 Consensus size: 51
95123340 ACTTCTGATC
*
95123350 AGTGACAAGTGATAAGTAGTAGCCTCAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACA
95123401 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACA
* * *
95123452 AGT-----G-G-CAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACA
95123496 AGTGACAAGTGATAA
1 AGTGACAAGTGATAA
95123511 ATATGATCCG
Statistics
Matches: 98, Mismatches: 5, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
44 39 0.40
45 1 0.01
46 1 0.01
49 1 0.01
50 1 0.01
51 55 0.56
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACA
Found at i:95123464 original size:44 final size:44
Alignment explanation
Indices: 95123401--95123506 Score: 176
Period size: 44 Copynumber: 2.4 Consensus size: 44
95123391 ATCAGTGACA
*
95123401 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATC
1 AGTGACAAGTGACAAGTGGTAGCCTCAGCTACACTTATCTGATC
* * *
95123445 AGTGACAAGTGGCAAGTGGTAGCTTTAGCTACACTTATCTGATC
1 AGTGACAAGTGACAAGTGGTAGCCTCAGCTACACTTATCTGATC
95123489 AGTGACAAGTGACAAGTG
1 AGTGACAAGTGACAAGTG
95123507 ATAAATATGA
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 57 1.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.26
Consensus pattern (44 bp):
AGTGACAAGTGACAAGTGGTAGCCTCAGCTACACTTATCTGATC
Found at i:95134787 original size:11 final size:11
Alignment explanation
Indices: 95134771--95134812 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
95134761 TTTAGAAGAG
95134771 AGAAAAATAAA
1 AGAAAAATAAA
*
95134782 AGAAAAAGAAAA
1 AGAAAAA-TAAA
95134794 AGAAAAATAATA
1 AGAAAAATAA-A
95134806 A-AAAAAT
1 AGAAAAAT
95134813 TATCCCAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 15 0.56
12 12 0.44
ACGTcount: A:0.81, C:0.00, G:0.10, T:0.10
Consensus pattern (11 bp):
AGAAAAATAAA
Found at i:95135873 original size:14 final size:13
Alignment explanation
Indices: 95135840--95135883 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
95135830 CTTCGAACCC
*
95135840 CAAATCTTGAACT
1 CAAACCTTGAACT
95135853 CAAACCTTGAACAT
1 CAAACCTTGAAC-T
*
95135867 TAAACCTTGAATCT
1 CAAACCTTGAA-CT
95135881 CAA
1 CAA
95135884 GGTTCAGGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
13 11 0.42
14 14 0.54
15 1 0.04
ACGTcount: A:0.41, C:0.25, G:0.07, T:0.27
Consensus pattern (13 bp):
CAAACCTTGAACT
Found at i:95135908 original size:21 final size:22
Alignment explanation
Indices: 95135882--95135922 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
95135872 CTTGAATCTC
95135882 AAGGTTCAGGATTT-GGGTTTT
1 AAGGTTCAGGATTTAGGGTTTT
* *
95135903 AAGGTTTATGATTTAGGGTT
1 AAGGTTCAGGATTTAGGGTT
95135923 ATTGGCTCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.22, C:0.02, G:0.32, T:0.44
Consensus pattern (22 bp):
AAGGTTCAGGATTTAGGGTTTT
Found at i:95136877 original size:64 final size:64
Alignment explanation
Indices: 95136776--95136972 Score: 247
Period size: 64 Copynumber: 3.1 Consensus size: 64
95136766 CTCCTTATTA
* *
95136776 CTATATTTATTAATTATTAATTTA-TTTTATGTACTTCCACCTACCAACCTGACGTCCTACTTTG
1 CTATATTTATTAATTATTAA-TTAGTTTTATGTACTTCCACCTAACAACCTGACGTCTTACTTTG
* * * * * *
95136840 CTATATTTATTAATTATTAATTAGTTTTATATGCTTCCACCTATCAAACT-ACCTCTTAGC-TTC
1 CTATATTTATTAATTATTAATTAGTTTTATGTACTTCCACCTAACAACCTGACGTCTTA-CTTTG
* * * *
95136903 CCATATTTATTAATTATTAATTTGTTTTATGTACTTCCAACTAACAACCTGACGTCTTAATTTG
1 CTATATTTATTAATTATTAATTAGTTTTATGTACTTCCACCTAACAACCTGACGTCTTACTTTG
95136967 CTATAT
1 CTATAT
95136973 AGTTCCATGT
Statistics
Matches: 111, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
63 54 0.49
64 57 0.51
ACGTcount: A:0.28, C:0.20, G:0.06, T:0.46
Consensus pattern (64 bp):
CTATATTTATTAATTATTAATTAGTTTTATGTACTTCCACCTAACAACCTGACGTCTTACTTTG
Found at i:95136930 original size:63 final size:64
Alignment explanation
Indices: 95136778--95136955 Score: 216
Period size: 63 Copynumber: 2.8 Consensus size: 64
95136768 CCTTATTACT
* * * * *
95136778 ATATTTATTAATTATTAATTTATTTTATGTACTTCCACCTACCAACCTGACGTCCTACTTTGCT
1 ATATTTATTAATTATTAATTTGTTTTATGTACTTCCACCTACCAAACTGACCTCCTACTTTCCC
* * * * *
95136842 ATATTTATTAATTATTAATTAGTTTTATATGCTTCCACCTATCAAACT-ACCTCTTAGC-TTCCC
1 ATATTTATTAATTATTAATTTGTTTTATGTACTTCCACCTACCAAACTGACCTCCTA-CTTTCCC
* * *
95136905 ATATTTATTAATTATTAATTTGTTTTATGTACTTCCAACTAACAACCTGAC
1 ATATTTATTAATTATTAATTTGTTTTATGTACTTCCACCTACCAAACTGAC
95136956 GTCTTAATTT
Statistics
Matches: 96, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
63 51 0.53
64 45 0.47
ACGTcount: A:0.29, C:0.20, G:0.06, T:0.45
Consensus pattern (64 bp):
ATATTTATTAATTATTAATTTGTTTTATGTACTTCCACCTACCAAACTGACCTCCTACTTTCCC
Found at i:95138118 original size:23 final size:23
Alignment explanation
Indices: 95138088--95138136 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
95138078 AGACCCAAAG
95138088 ATAGTCCATAATCTAAAATTAGA
1 ATAGTCCATAATCTAAAATTAGA
95138111 ATAGTCCATAATCTAAAATTAGA
1 ATAGTCCATAATCTAAAATTAGA
95138134 ATA
1 ATA
95138137 AACCTTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.49, C:0.12, G:0.08, T:0.31
Consensus pattern (23 bp):
ATAGTCCATAATCTAAAATTAGA
Found at i:95142276 original size:3 final size:3
Alignment explanation
Indices: 95142268--95142314 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
95142258 GTACATACTT
95142268 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
95142315 GTTGTTGTTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:95142381 original size:21 final size:22
Alignment explanation
Indices: 95142346--95142387 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
95142336 ATGTGTTCTA
95142346 TTATATATGTATATATCTTTAAT
1 TTATATATG-ATATATCTTTAAT
*
95142369 TTATATATG-TATATGTTTA
1 TTATATATGATATATCTTTA
95142388 CTATTAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
23 9 0.50
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.57
Consensus pattern (22 bp):
TTATATATGATATATCTTTAAT
Found at i:95142532 original size:22 final size:22
Alignment explanation
Indices: 95142471--95142533 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
95142461 TTTTTAACAC
*
95142471 TATAT-TATGTACATACTCTTAA
1 TATATATATGTACATA-TTTTAA
**
95142493 TAT-TATTATGTATTTATTTTAA
1 TATATA-TATGTACATATTTTAA
95142515 TATATATATGTACATATTT
1 TATATATATGTACATATTT
95142534 ATGTAGTATT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
21 1 0.03
22 22 0.67
23 10 0.30
ACGTcount: A:0.35, C:0.06, G:0.05, T:0.54
Consensus pattern (22 bp):
TATATATATGTACATATTTTAA
Found at i:95143674 original size:14 final size:14
Alignment explanation
Indices: 95143657--95143683 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
95143647 AGCTCTAAGT
95143657 TTTTATAGTTTTAG
1 TTTTATAGTTTTAG
95143671 TTTTATAGTTTTA
1 TTTTATAGTTTTA
95143684 AAATAAGATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.00, G:0.11, T:0.67
Consensus pattern (14 bp):
TTTTATAGTTTTAG
Found at i:95162970 original size:9 final size:8
Alignment explanation
Indices: 95162943--95163066 Score: 52
Period size: 9 Copynumber: 13.9 Consensus size: 8
95162933 TAAATTTTAG
95162943 AAAAATTA
1 AAAAATTA
*
95162951 AAATATT-
1 AAAAATTA
95162958 AAAAATTAGA
1 AAAAATT--A
*
95162968 AAAAAATA
1 AAAAATTA
95162976 TAAAAATCATA
1 -AAAAAT--TA
95162987 AAAAATATA
1 AAAAAT-TA
95162996 AAAAATTGTA
1 AAAAA-T-TA
*
95163006 AAATATTA
1 AAAAATTA
95163014 TAAAAATATA
1 -AAAAAT-TA
*
95163024 AAAAGTTA
1 AAAAATTA
95163032 TAAAATATATA
1 -AAAA-AT-TA
* *
95163043 GAAATATAA
1 -AAAAATTA
95163052 AAAAATTA
1 AAAAATTA
*
95163060 TAAAATT
1 AAAAATT
95163067 TTATAAAGTC
Statistics
Matches: 89, Mismatches: 15, Indels: 24
0.70 0.12 0.19
Matches are distributed among these distances:
7 6 0.07
8 23 0.26
9 29 0.33
10 24 0.27
11 7 0.08
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.28
Consensus pattern (8 bp):
AAAAATTA
Found at i:95162980 original size:10 final size:10
Alignment explanation
Indices: 95162950--95163064 Score: 57
Period size: 10 Copynumber: 12.1 Consensus size: 10
95162940 TAGAAAAATT
*
95162950 AAAATATTAA
1 AAAATATAAA
* *
95162960 AAATTAGAAA
1 AAAATATAAA
95162970 AAAATAT--A
1 AAAATATAAA
95162978 AAAATCAT-AA
1 AAAAT-ATAAA
95162988 AAAATATAAA
1 AAAATATAAA
* *
95162998 AAATTGT-AA
1 AAAATATAAA
* *
95163007 AATAT-TATA
1 AAAATATAAA
95163016 AAAATAT-AA
1 AAAATATAAA
* *
95163025 AAAGT-T-AT
1 AAAATATAAA
*
95163033 AAAATATATA
1 AAAATATAAA
*
95163043 GAAATATAAA
1 AAAATATAAA
95163053 AAAATTATAAA
1 AAAA-TATAAA
95163064 A
1 A
95163065 TTTTATAAAG
Statistics
Matches: 77, Mismatches: 20, Indels: 15
0.69 0.18 0.13
Matches are distributed among these distances:
8 13 0.17
9 20 0.26
10 37 0.48
11 7 0.09
ACGTcount: A:0.69, C:0.01, G:0.03, T:0.27
Consensus pattern (10 bp):
AAAATATAAA
Found at i:95162980 original size:18 final size:18
Alignment explanation
Indices: 95162950--95162999 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
95162940 TAGAAAAATT
*
95162950 AAAATATTAAAAATTAGAAA
1 AAAATA-TAAAAATCA-AAA
*
95162970 AAAATATAAAAATCATAA
1 AAAATATAAAAATCAAAA
95162988 AAAATATAAAAA
1 AAAATATAAAAA
95163000 ATTGTAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 14 0.50
19 8 0.29
20 6 0.21
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (18 bp):
AAAATATAAAAATCAAAA
Found at i:95163048 original size:38 final size:36
Alignment explanation
Indices: 95162878--95163073 Score: 118
Period size: 38 Copynumber: 5.4 Consensus size: 36
95162868 CTATTTTTAT
* *
95162878 TAAAAATTAGAAAAAAATATAAAA-A-ATAAAAATCGA
1 TAAAAATTATAAAAAATTATAAAATATATAAAAAT--A
* * * *
95162914 TAAAATTTAT-AAATATTATTAAAT-TTTAGAAAA-A
1 TAAAAATTATAAAAAATTATAAAATATATA-AAAATA
* * * *
95162948 TTAAAA-TATTAAAAATTAGAAAAAAATATAAAAATCA
1 TAAAAATTATAAAAAATTA-TAAAATATATAAAAAT-A
* *
95162985 TAAAAAATATAAAAAATTGTAAAATATTATAAAAATA
1 TAAAAATTATAAAAAATTATAAAATA-TATAAAAATA
* *
95163022 TAAAAAGTTATAAAATA-TATAGAAATATAAAAAAATTA
1 TAAAAA-TTATAAAAAATTATA-AAATATATAAAAA-TA
*
95163060 TAAAATTTTATAAA
1 TAAAA-ATTATAAA
95163074 GTCGTAAGAA
Statistics
Matches: 123, Mismatches: 23, Indels: 26
0.72 0.13 0.15
Matches are distributed among these distances:
33 3 0.02
34 12 0.10
35 17 0.14
36 13 0.11
37 32 0.26
38 46 0.37
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (36 bp):
TAAAAATTATAAAAAATTATAAAATATATAAAAATA
Found at i:95163065 original size:28 final size:29
Alignment explanation
Indices: 95162878--95163065 Score: 129
Period size: 28 Copynumber: 6.9 Consensus size: 29
95162868 CTATTTTTAT
*
95162878 TAAAAAT-TAGAAAAAAATATAAAA-A-A
1 TAAAAATATAGAAAAAATTATAAAATATA
* *
95162904 T-AAAA-ATCGATAAAATT-TATAAATATTA
1 TAAAAATATAGAAAAAATTATA-AAATA-TA
* * *
95162932 TTAAATTTTAG-AAAAA-T-TAAAATAT-
1 TAAAAATATAGAAAAAATTATAAAATATA
*
95162957 TAAAAAT-TAGAAAAAAATATAAAA-ATCA
1 TAAAAATATAGAAAAAATTATAAAATAT-A
* *
95162985 TAAAAA-ATATAAAAAATTGTAAAATATTA
1 TAAAAATATAGAAAAAATTATAAAATA-TA
*
95163014 TAAAAATAT--AAAAAGTTATAAAATATA
1 TAAAAATATAGAAAAAATTATAAAATATA
*
95163041 TAGAAATATA-AAAAAATTATAAAAT
1 TAAAAATATAGAAAAAATTATAAAAT
95163066 TTTATAAAGT
Statistics
Matches: 129, Mismatches: 16, Indels: 32
0.73 0.09 0.18
Matches are distributed among these distances:
24 5 0.04
25 25 0.19
26 6 0.05
27 20 0.16
28 53 0.41
29 15 0.12
30 5 0.04
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (29 bp):
TAAAAATATAGAAAAAATTATAAAATATA
Found at i:95163439 original size:18 final size:19
Alignment explanation
Indices: 95163418--95163462 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
95163408 AATAAATTTG
* *
95163418 AAAATTTTATATTTTAT-T
1 AAAATTTAATAATTTATCT
95163436 AAAATTTAATAATTTATCT
1 AAAATTTAATAATTTATCT
95163455 AAAATTTA
1 AAAATTTA
95163463 TTTTTTCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (19 bp):
AAAATTTAATAATTTATCT
Found at i:95163457 original size:19 final size:18
Alignment explanation
Indices: 95163405--95163462 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
95163395 AGTTCTAATT
* *
95163405 TTTAATAAATT-TGAAAA
1 TTTAATAATTTATTAAAA
* *
95163422 TTTTATATTTTATTAAAA
1 TTTAATAATTTATTAAAA
95163440 TTTAATAATTTATCTAAAA
1 TTTAATAATTTAT-TAAAA
95163459 TTTA
1 TTTA
95163463 TTTTTTCTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
17 8 0.24
18 16 0.48
19 9 0.27
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (18 bp):
TTTAATAATTTATTAAAA
Found at i:95168711 original size:136 final size:133
Alignment explanation
Indices: 95168541--95168809 Score: 421
Period size: 136 Copynumber: 2.0 Consensus size: 133
95168531 GAAATAAACT
* *
95168541 TTTAGAAAAATGAAAATATCTGGAGTTTCAAGAAAAGAGAATTTCCTTTTCTCTATCTCCAGATT
1 TTTAGAAAAATGAAAATATCCGGAGTTTCAAGAAAAGAGAATTTCCATTTCTC--TCTCCAGATT
* * *
95168606 TATTGATTTATGTGATTATGTTAGGAAAGACATAGAAAAAGCTACCGACTCTTACCCTTTTTTTG
64 CATTGATATATGTGATTATGTCAGGAAAGACATAG-AAAAGCTACCGACTCTTACCCTTTTTTTG
95168671 ACTATA
128 ACTATA
* *
95168677 TTTAGAAAAATGAAAATATCCGGAGTTTCGAGAAAAGAGAATTTCCATTTCTCTGTCCAGATTCA
1 TTTAGAAAAATGAAAATATCCGGAGTTTCAAGAAAAGAGAATTTCCATTTCTCTCTCCAGATTCA
* * *
95168742 TTGATATATGTGATTATGTCAGGAAAGGCATAGAAAAGCTACCGACTCTTACCTTTTTTTTGCCT
66 TTGATATATGTGATTATGTCAGGAAAGACATAGAAAAGCTACCGACTCTTACCCTTTTTTTGACT
95168807 ATA
131 ATA
95168810 AATATACTTA
Statistics
Matches: 123, Mismatches: 10, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
133 33 0.27
134 40 0.33
136 50 0.41
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (133 bp):
TTTAGAAAAATGAAAATATCCGGAGTTTCAAGAAAAGAGAATTTCCATTTCTCTCTCCAGATTCA
TTGATATATGTGATTATGTCAGGAAAGACATAGAAAAGCTACCGACTCTTACCCTTTTTTTGACT
ATA
Found at i:95174761 original size:94 final size:97
Alignment explanation
Indices: 95174625--95174813 Score: 278
Period size: 94 Copynumber: 2.0 Consensus size: 97
95174615 ATTGTTTTCA
* * *
95174625 ATTTTTAATTAAGAACTCTTTTATTTATTTAAATAAAATAATAAATATTTAATTATATAATAAAT
1 ATTTTTAATTAAGAACTCCTTTATTTATATAAATAAAATAATAAATATGTAATTATATAATAAA-
95174690 AAATA-TTTT-ATA-TATCATTATGTTAAAATT
65 AAATATTTTTGATATTATCATTATGTTAAAATT
* *
95174720 ATTTTTAATTAATAACTCCTTT-TTTATATAAATAAATTAATAAATATGTAATTATATAATAAAA
1 ATTTTTAATTAAGAACTCCTTTATTTATATAAATAAAATAATAAATATGTAATTATATAATAAAA
*
95174784 TATATTTTTGATATTTATCATTATGTTAAA
66 AATATTTTTGATA-TTATCATTATGTTAAA
95174814 TATATATATT
Statistics
Matches: 84, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
93 4 0.05
94 42 0.50
95 23 0.27
97 15 0.18
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.49
Consensus pattern (97 bp):
ATTTTTAATTAAGAACTCCTTTATTTATATAAATAAAATAATAAATATGTAATTATATAATAAAA
AATATTTTTGATATTATCATTATGTTAAAATT
Found at i:95175782 original size:22 final size:22
Alignment explanation
Indices: 95175757--95175801 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
95175747 AGTAGAATTC
95175757 GAAACCTTATCAAAACTACCTT
1 GAAACCTTATCAAAACTACCTT
95175779 GAAACCTTATCAAAACTACCTT
1 GAAACCTTATCAAAACTACCTT
95175801 G
1 G
95175802 TATAGCTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.40, C:0.27, G:0.07, T:0.27
Consensus pattern (22 bp):
GAAACCTTATCAAAACTACCTT
Found at i:95177893 original size:34 final size:34
Alignment explanation
Indices: 95177850--95177919 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
95177840 CAAGACTTTT
95177850 ACACTATTTAGAAACCCAAAATCTCACTAAGGTG
1 ACACTATTTAGAAACCCAAAATCTCACTAAGGTG
*
95177884 ACACTATTTAGAAACCTAAAATCTCACTAAGGTG
1 ACACTATTTAGAAACCCAAAATCTCACTAAGGTG
95177918 AC
1 AC
95177920 TCTCTAACTC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.41, C:0.23, G:0.11, T:0.24
Consensus pattern (34 bp):
ACACTATTTAGAAACCCAAAATCTCACTAAGGTG
Found at i:95178391 original size:20 final size:20
Alignment explanation
Indices: 95178368--95178406 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
95178358 CTCTTTCTAC
*
95178368 TTTTTTTCCTCCTTTTTCCA
1 TTTTCTTCCTCCTTTTTCCA
* *
95178388 TTTTCTTCTTGCTTTTTCC
1 TTTTCTTCCTCCTTTTTCC
95178407 TTGTTTTGGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.03, C:0.28, G:0.03, T:0.67
Consensus pattern (20 bp):
TTTTCTTCCTCCTTTTTCCA
Found at i:95183727 original size:28 final size:28
Alignment explanation
Indices: 95183695--95183749 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
95183685 CAAGGCTGAC
95183695 TTTT-ATCT-CTTGATTTCAATTTCAATCT
1 TTTTAATCTACTTG-TTT-AATTTCAATCT
*
95183723 TTTTAATTTACTTGTTTAATTTCAATC
1 TTTTAATCTACTTGTTTAATTTCAATC
95183750 ATTTACTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 14 0.58
29 6 0.25
30 4 0.17
ACGTcount: A:0.24, C:0.15, G:0.04, T:0.58
Consensus pattern (28 bp):
TTTTAATCTACTTGTTTAATTTCAATCT
Found at i:95186281 original size:36 final size:35
Alignment explanation
Indices: 95186241--95186337 Score: 110
Period size: 36 Copynumber: 2.7 Consensus size: 35
95186231 TTCTTACAAT
95186241 TTCTCCCTAAAACTTCAACACAAACAACTTTTTTTC
1 TTCTCCC-AAAACTTCAACACAAACAACTTTTTTTC
*
95186277 TTCTCCCCAAAA-TTACAACATAAACAACTTTTTTTC
1 TTCT-CCCAAAACTT-CAACACAAACAACTTTTTTTC
* *
95186313 CT-TCCCAAAAC-ACTAACACAAACAA
1 TTCTCCCAAAACTTC-AACACAAACAA
95186338 TAACACGCAG
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
33 1 0.02
34 17 0.32
35 3 0.06
36 29 0.55
37 3 0.06
ACGTcount: A:0.39, C:0.31, G:0.00, T:0.30
Consensus pattern (35 bp):
TTCTCCCAAAACTTCAACACAAACAACTTTTTTTC
Found at i:95186418 original size:25 final size:26
Alignment explanation
Indices: 95186382--95186434 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
95186372 CTTTCATTTT
* *
95186382 TTCAGTTGAGGGA-TGGGATCGTTTA
1 TTCAGTTAAGGGAGGGGGATCGTTTA
95186407 TTCAGTTAAGGGAGGGGGATCGTTTA
1 TTCAGTTAAGGGAGGGGGATCGTTTA
95186433 TT
1 TT
95186435 TAGCTTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 12 0.48
26 13 0.52
ACGTcount: A:0.21, C:0.08, G:0.36, T:0.36
Consensus pattern (26 bp):
TTCAGTTAAGGGAGGGGGATCGTTTA
Found at i:95187443 original size:17 final size:17
Alignment explanation
Indices: 95187415--95187479 Score: 62
Period size: 20 Copynumber: 3.6 Consensus size: 17
95187405 GTAATACATG
95187415 TATTTAATTATTAAAATA
1 TATTT-ATTATTAAAATA
95187433 TATTTATTATTTATAAAATA
1 TATTTATTA--T-TAAAATA
95187453 TATTTATTAATT-AAATA
1 TATTTATT-ATTAAAATA
95187470 -ATTATATTAT
1 TATT-TATTAT
95187480 GAGATTTTTA
Statistics
Matches: 42, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
16 5 0.12
17 13 0.31
18 6 0.14
19 2 0.05
20 15 0.36
21 1 0.02
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TATTTATTATTAAAATA
Found at i:95188118 original size:51 final size:50
Alignment explanation
Indices: 95188042--95188162 Score: 152
Period size: 51 Copynumber: 2.4 Consensus size: 50
95188032 GAGCTAAGTT
* * * *
95188042 ATCCGGGTGAAATATGAAGCTCTTGTTGAAACTAGAGCAATAAAGTAATA
1 ATCCGGATGAAATATGAAGCTCTTGTTGAAACCAGAACAACAAAGTAATA
* * *
95188092 GATCCGGATGAAATATGAAGTTCTTGTTGAAGCCAGAATAACAAAGTAATA
1 -ATCCGGATGAAATATGAAGCTCTTGTTGAAACCAGAACAACAAAGTAATA
*
95188143 ATTCCGGATGAAGTATGAAG
1 A-TCCGGATGAAATATGAAG
95188163 AAAATTTGGG
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 1 0.02
51 60 0.98
ACGTcount: A:0.40, C:0.12, G:0.23, T:0.26
Consensus pattern (50 bp):
ATCCGGATGAAATATGAAGCTCTTGTTGAAACCAGAACAACAAAGTAATA
Found at i:95188914 original size:21 final size:21
Alignment explanation
Indices: 95188865--95188914 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
95188855 ATGTGTCATA
95188865 TTTTAGGCACCTCGTGTGTCG
1 TTTTAGGCACCTCGTGTGTCG
* * *
95188886 TATCAGGCACCTCTTGTGTCG
1 TTTTAGGCACCTCGTGTGTCG
95188907 TTTTAGGC
1 TTTTAGGC
95188915 GCTTTATGTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.26, T:0.38
Consensus pattern (21 bp):
TTTTAGGCACCTCGTGTGTCG
Found at i:95194472 original size:125 final size:125
Alignment explanation
Indices: 95194250--95194499 Score: 491
Period size: 125 Copynumber: 2.0 Consensus size: 125
95194240 AATGTTTAAA
*
95194250 CAACTAGGTCTTGGGAAACCCAAACAAACTAGGATGAGCATTCAGTTAGCAGATAAAACCATTAG
1 CAACTAGGTCTTAGGAAACCCAAACAAACTAGGATGAGCATTCAGTTAGCAGATAAAACCATTAG
95194315 ATTTCCTAGGGGTATCATTGAAGATGTACTTGTCAAAATCGATAAATTTATATTCCCAAT
66 ATTTCCTAGGGGTATCATTGAAGATGTACTTGTCAAAATCGATAAATTTATATTCCCAAT
95194375 CAACTAGGTCTTAGGAAACCCAAACAAACTAGGATGAGCATTCAGTTAGCAGATAAAACCATTAG
1 CAACTAGGTCTTAGGAAACCCAAACAAACTAGGATGAGCATTCAGTTAGCAGATAAAACCATTAG
95194440 ATTTCCTAGGGGTATCATTGAAGATGTACTTGTCAAAATCGATAAATTTATATTCCCAAT
66 ATTTCCTAGGGGTATCATTGAAGATGTACTTGTCAAAATCGATAAATTTATATTCCCAAT
95194500 TGATTTTGTT
Statistics
Matches: 124, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
125 124 1.00
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (125 bp):
CAACTAGGTCTTAGGAAACCCAAACAAACTAGGATGAGCATTCAGTTAGCAGATAAAACCATTAG
ATTTCCTAGGGGTATCATTGAAGATGTACTTGTCAAAATCGATAAATTTATATTCCCAAT
Found at i:95197672 original size:6 final size:6
Alignment explanation
Indices: 95197661--95197690 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
95197651 TATTTTACTA
95197661 TTATTT TTATTT TTATTT TTATTT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT
95197691 AAATTTTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTATTT
Found at i:95197696 original size:18 final size:18
Alignment explanation
Indices: 95197661--95197697 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
95197651 TATTTTACTA
**
95197661 TTATTTTTATTTTTATTT
1 TTATTTTTATTTAAATTT
95197679 TTATTTTTATTTAAATTT
1 TTATTTTTATTTAAATTT
95197697 T
1 T
95197698 CTTTTCTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (18 bp):
TTATTTTTATTTAAATTT
Found at i:95202091 original size:19 final size:18
Alignment explanation
Indices: 95202063--95202098 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
95202053 GCCATGCAAC
*
95202063 CCACATAGCCTGATCCATT
1 CCACACAGCCTGA-CCATT
95202082 CCACACAGCCTGACCAT
1 CCACACAGCCTGACCAT
95202099 ATGACCATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.28, C:0.42, G:0.11, T:0.19
Consensus pattern (18 bp):
CCACACAGCCTGACCATT
Found at i:95202503 original size:34 final size:34
Alignment explanation
Indices: 95202465--95202534 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
95202455 ATTGTTTACC
95202465 ACTGTATTGTT-TCGTTAAAG-GCATATTAAATGCT
1 ACTGTATTGTTCT-GTT-AAGTGCATATTAAATGCT
* *
95202499 ACTGTATTGTTCTGTTATGTGCATATTAATTGCT
1 ACTGTATTGTTCTGTTAAGTGCATATTAAATGCT
95202533 AC
1 AC
95202535 CATATGAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
33 2 0.06
34 29 0.91
35 1 0.03
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.44
Consensus pattern (34 bp):
ACTGTATTGTTCTGTTAAGTGCATATTAAATGCT
Found at i:95202698 original size:44 final size:43
Alignment explanation
Indices: 95202624--95202707 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 43
95202614 GCATTATTGT
* *
95202624 TTGTTGTGTACCCACAACCGTAGCAGATTCCAACTACGACAATC
1 TTGTTGTGAACCCACAACCGTAGCAAATTCC-ACTACGACAATC
* *
95202668 TTGTTGTGAACCCACAGCCAG-AGCAAATTCCACTGCGACA
1 TTGTTGTGAACCCACAACC-GTAGCAAATTCCACTACGACA
95202708 TTTTATCGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
43 8 0.23
44 26 0.74
45 1 0.03
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.23
Consensus pattern (43 bp):
TTGTTGTGAACCCACAACCGTAGCAAATTCCACTACGACAATC
Found at i:95204061 original size:18 final size:18
Alignment explanation
Indices: 95204038--95204077 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
95204028 ACTGAAAATA
*
95204038 ACCATTAAATTTGTCTCC
1 ACCATTAAATATGTCTCC
**
95204056 ACCATTATCTATGTCTCC
1 ACCATTAAATATGTCTCC
95204074 ACCA
1 ACCA
95204078 AATAAAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.28, C:0.33, G:0.05, T:0.35
Consensus pattern (18 bp):
ACCATTAAATATGTCTCC
Found at i:95204646 original size:15 final size:15
Alignment explanation
Indices: 95204626--95204668 Score: 77
Period size: 15 Copynumber: 2.9 Consensus size: 15
95204616 TTTAATCATT
95204626 TATAAATTATAAATA
1 TATAAATTATAAATA
95204641 TATAAATTATAAATA
1 TATAAATTATAAATA
*
95204656 TATAAAATATAAA
1 TATAAATTATAAA
95204669 AAATTAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TATAAATTATAAATA
Found at i:95204653 original size:22 final size:22
Alignment explanation
Indices: 95204626--95204669 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
95204616 TTTAATCATT
*
95204626 TATAAATTATAAATATATAAAT
1 TATAAATTATAAATATATAAAA
95204648 TATAAATATATAAA-ATATAAAA
1 TATAAAT-TATAAATATATAAAA
95204670 AATTAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
TATAAATTATAAATATATAAAA
Found at i:95204663 original size:9 final size:8
Alignment explanation
Indices: 95204626--95204668 Score: 65
Period size: 7 Copynumber: 5.8 Consensus size: 8
95204616 TTTAATCATT
95204626 TATAAAT-
1 TATAAATA
95204633 TATAAATA
1 TATAAATA
95204641 TATAAAT-
1 TATAAATA
95204648 TATAAATA
1 TATAAATA
95204656 TATAAA-A
1 TATAAATA
95204663 TATAAA
1 TATAAA
95204669 AAATTAAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 21 0.62
8 13 0.38
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (8 bp):
TATAAATA
Found at i:95212145 original size:21 final size:22
Alignment explanation
Indices: 95212121--95212162 Score: 68
Period size: 21 Copynumber: 1.9 Consensus size: 22
95212111 AATAAAGTAG
95212121 ATTATATATTAT-TTTTTTAGT
1 ATTATATATTATATTTTTTAGT
95212142 ATTATATATTATGATTTTTTA
1 ATTATATATTAT-ATTTTTTA
95212163 ATTCATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 12 0.63
23 7 0.37
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (22 bp):
ATTATATATTATATTTTTTAGT
Found at i:95212300 original size:26 final size:26
Alignment explanation
Indices: 95212210--95212301 Score: 94
Period size: 26 Copynumber: 3.5 Consensus size: 26
95212200 ATTACATATT
*
95212210 ATTTTATTAAATTATATTTAATAATA
1 ATTTTATTAAAATATATTTAATAATA
* * * * * *
95212236 ATTATGTTAAAATATGGTTAAATTATT
1 ATTTTATTAAAATAT-ATTTAATAATA
* *
95212263 TTTTTAATAAAATATATTTAATAATA
1 ATTTTATTAAAATATATTTAATAATA
95212289 ATTTTATTAAAAT
1 ATTTTATTAAAAT
95212302 TTAATAACAA
Statistics
Matches: 48, Mismatches: 17, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
26 30 0.62
27 18 0.38
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (26 bp):
ATTTTATTAAAATATATTTAATAATA
Found at i:95212473 original size:16 final size:16
Alignment explanation
Indices: 95212452--95212505 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
95212442 TGAATTACTT
95212452 ATTACAGTTCTATTCC
1 ATTACAGTTCTATTCC
**
95212468 ATTACAGTTCTATTTA
1 ATTACAGTTCTATTCC
***
95212484 ATTACAACCCTATTCC
1 ATTACAGTTCTATTCC
95212500 ATTACA
1 ATTACA
95212506 ACCAACCAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.31, C:0.24, G:0.04, T:0.41
Consensus pattern (16 bp):
ATTACAGTTCTATTCC
Found at i:95213362 original size:29 final size:29
Alignment explanation
Indices: 95213313--95213368 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
95213303 AAAATTGAAT
*
95213313 CAAAATAATATTTCATATATAAAATTATA
1 CAAAATAAAATTTCATATATAAAATTATA
* *
95213342 CAAAATTAAAATTT-ATGTATAGAATTA
1 CAAAA-TAAAATTTCATATATAAAATTA
95213369 CAAATTTAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 16 0.70
30 7 0.30
ACGTcount: A:0.54, C:0.05, G:0.04, T:0.38
Consensus pattern (29 bp):
CAAAATAAAATTTCATATATAAAATTATA
Found at i:95222581 original size:38 final size:34
Alignment explanation
Indices: 95222535--95222609 Score: 105
Period size: 34 Copynumber: 2.1 Consensus size: 34
95222525 AAAATTTCGG
95222535 CCTCGAAATTTACCTGATCAGAATTTCTAAATCAAATT
1 CCTCGAAATTTACCT--T--GAATTTCTAAATCAAATT
*
95222573 CCTCGAAATTTATCTTGAATTTCTAAATCAAATT
1 CCTCGAAATTTACCTTGAATTTCTAAATCAAATT
95222607 CCT
1 CCT
95222610 GTAATAATAA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
34 21 0.58
36 1 0.03
38 14 0.39
ACGTcount: A:0.35, C:0.21, G:0.07, T:0.37
Consensus pattern (34 bp):
CCTCGAAATTTACCTTGAATTTCTAAATCAAATT
Found at i:95228541 original size:20 final size:20
Alignment explanation
Indices: 95228512--95228559 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
95228502 GTAGGAAACT
95228512 GCCTTGAATGTCGCGACATA
1 GCCTTGAATGTCGCGACATA
*
95228532 GCCTTTAATGTCGCGACATA
1 GCCTTGAATGTCGCGACATA
*
95228552 ACCTTGAA
1 GCCTTGAA
95228560 GACGGTTGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (20 bp):
GCCTTGAATGTCGCGACATA
Found at i:95230531 original size:95 final size:95
Alignment explanation
Indices: 95230351--95230646 Score: 308
Period size: 95 Copynumber: 3.1 Consensus size: 95
95230341 CTCGAGCATT
* * **
95230351 TAAGGTATCCAGTAAATCGAGACATTAACCGTTACACGATGCTACTAACAGGAGCTGTGAAGAAT
1 TAAGATATCCAGTAAATCGAGACATTAACCGTTACACGATGCTACTCACACTAGCTGTGAAGAAT
** * * * *
95230416 ATGCAACACAAGCAGAATCTTATCCATCGG
66 CCGCAATATATGCAGGATCTTATCCATCGG
* * * * *
95230446 CAAGATATCCAATAAATCGATACATTAACCGTTATC-CGATGCTGCTCACACTAGTTGTGAAGAA
1 TAAGATATCCAGTAAATCGAGACATTAACCGTTA-CACGATGCTACTCACACTAGCTGTGAAGAA
* * * *
95230510 TCCACAATATATGCAGGATCTTAGCCATTGA
65 TCCGCAATATATGCAGGATCTTATCCATCGG
* * * * * **
95230541 TAAGGTATCTAGTAAATCGGGACATTAACCGGTACATGATATTACTCACACTAGCTGTGCAA-AA
1 TAAGATATCCAGTAAATCGAGACATTAACCGTTACACGATGCTACTCACACTAGCTGTG-AAGAA
* *
95230605 TCCGCAATATATGCAAGATCTTATCCATCAG
65 TCCGCAATATATGCAGGATCTTATCCATCGG
95230636 TAAGATATCCA
1 TAAGATATCCA
95230647 CCACTGGTAC
Statistics
Matches: 159, Mismatches: 39, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
94 1 0.01
95 155 0.97
96 3 0.02
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (95 bp):
TAAGATATCCAGTAAATCGAGACATTAACCGTTACACGATGCTACTCACACTAGCTGTGAAGAAT
CCGCAATATATGCAGGATCTTATCCATCGG
Found at i:95232724 original size:36 final size:36
Alignment explanation
Indices: 95232684--95232796 Score: 93
Period size: 36 Copynumber: 3.0 Consensus size: 36
95232674 ATAAACCAAA
*
95232684 AATGTTTTGTGCCCAACGCTAGTCGGATAAACTGAC
1 AATGTTTTGTGCCCAGCGCTAGTCGGATAAACTGAC
* * *
95232720 AATGTCAAATGTGTGCCCAGCACTAGTCGAATAAA-TCGAC
1 AATGT----TTTGTGCCCAGCGCTAGTCGGATAAACT-GAC
* * * * *
95232760 AAAGATTTATGCCCAGTGCTAGTCGGATAAACCGAC
1 AATGTTTTGTGCCCAGCGCTAGTCGGATAAACTGAC
95232796 A
1 A
95232797 GTAGATGTGC
Statistics
Matches: 59, Mismatches: 12, Indels: 12
0.71 0.14 0.14
Matches are distributed among these distances:
36 30 0.51
39 1 0.02
40 28 0.47
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (36 bp):
AATGTTTTGTGCCCAGCGCTAGTCGGATAAACTGAC
Found at i:95235364 original size:25 final size:25
Alignment explanation
Indices: 95235335--95235386 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
95235325 AAGAATAATT
**
95235335 TGAATATTTGATATTGCATAATAAA
1 TGAATATCCGATATTGCATAATAAA
* *
95235360 TGAATATCCGATATTGCTTAGTAAA
1 TGAATATCCGATATTGCATAATAAA
95235385 TG
1 TG
95235387 TCAAGCCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (25 bp):
TGAATATCCGATATTGCATAATAAA
Found at i:95243214 original size:23 final size:22
Alignment explanation
Indices: 95243146--95243216 Score: 83
Period size: 21 Copynumber: 3.3 Consensus size: 22
95243136 CCTGATCAAT
**
95243146 ATACGACACATAAAGTGCCTAA
1 ATACGACACACGAAGTGCCTAA
* *
95243168 A-ACGACACACGAGGTGCCT-G
1 ATACGACACACGAAGTGCCTAA
95243188 ATACGACACACGAAGTGCCTAAA
1 ATACGACACACGAAGTGCCT-AA
95243211 ATACGA
1 ATACGA
95243217 TACATAAAGT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
20 1 0.03
21 32 0.80
22 1 0.03
23 6 0.15
ACGTcount: A:0.41, C:0.25, G:0.20, T:0.14
Consensus pattern (22 bp):
ATACGACACACGAAGTGCCTAA
Found at i:95251894 original size:21 final size:20
Alignment explanation
Indices: 95251856--95251894 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
95251846 TTTTATTTGT
* *
95251856 TTTGGCTTTTGTTGTTTTCA
1 TTTGGCTTTCGTTATTTTCA
95251876 TTTGGACTTTCGTTATTTT
1 TTTGG-CTTTCGTTATTTT
95251895 GGTTTTTCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.08, C:0.10, G:0.18, T:0.64
Consensus pattern (20 bp):
TTTGGCTTTCGTTATTTTCA
Found at i:95252809 original size:13 final size:13
Alignment explanation
Indices: 95252793--95252842 Score: 55
Period size: 13 Copynumber: 3.6 Consensus size: 13
95252783 ATAATATTTT
95252793 TTATATTTAATTA
1 TTATATTTAATTA
*
95252806 TTATATTTAATTT
1 TTATATTTAATTA
*
95252819 TTAAAATTATAATTTA
1 TT-ATATT-TAA-TTA
95252835 TTATATTT
1 TTATATTT
95252843 TTTCATGACA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
13 14 0.47
14 5 0.17
15 7 0.23
16 4 0.13
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTATATTTAATTA
Found at i:95253909 original size:13 final size:13
Alignment explanation
Indices: 95253891--95253917 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
95253881 TAATCTTAAT
95253891 AGATTTTTCAATA
1 AGATTTTTCAATA
95253904 AGATTTTTCAATA
1 AGATTTTTCAATA
95253917 A
1 A
95253918 ATTGTTCAGT
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:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (13 bp):
AGATTTTTCAATA
Found at i:95259712 original size:14 final size:14
Alignment explanation
Indices: 95259677--95259703 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
95259667 AATTTTCTTC
95259677 TAAAATTTAATTTT
1 TAAAATTTAATTTT
95259691 TAAAATTTAATTT
1 TAAAATTTAATTT
95259704 ATTATATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TAAAATTTAATTTT
Found at i:95259909 original size:27 final size:27
Alignment explanation
Indices: 95259879--95259935 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
95259869 TAAAGTGTAG
95259879 GAATGTGGATTCCGATAATGGATATAC
1 GAATGTGGATTCCGATAATGGATATAC
*
95259906 GAATGTGGATTCTGATAATGGATATAC
1 GAATGTGGATTCCGATAATGGATATAC
95259933 GAA
1 GAA
95259936 AGAGTCTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.35, C:0.09, G:0.26, T:0.30
Consensus pattern (27 bp):
GAATGTGGATTCCGATAATGGATATAC
Found at i:95263004 original size:21 final size:22
Alignment explanation
Indices: 95262978--95263019 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
95262968 GAATGATTGA
95262978 TGGGAG-AGGAATGAAT-AGAAG
1 TGGGAGAAGGAAT-AATGAGAAG
95262999 TGGGAGAAGGAATAATGAGAA
1 TGGGAGAAGGAATAATGAGAA
95263020 AATCGAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.45, C:0.00, G:0.40, T:0.14
Consensus pattern (22 bp):
TGGGAGAAGGAATAATGAGAAG
Found at i:95268221 original size:15 final size:15
Alignment explanation
Indices: 95268201--95268252 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
95268191 ACTACAAAAC
95268201 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
95268216 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
95268235 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
95268250 ATT
1 ATT
95268253 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:95268351 original size:16 final size:16
Alignment explanation
Indices: 95268324--95268366 Score: 68
Period size: 16 Copynumber: 2.6 Consensus size: 16
95268314 TATTATTAAA
95268324 ATATTAAATAATTTATT
1 ATATT-AATAATTTATT
95268341 ATATTAATAATTTATT
1 ATATTAATAATTTATT
*
95268357 ATATGAATAA
1 ATATTAATAA
95268367 ATATAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
16 20 0.80
17 5 0.20
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (16 bp):
ATATTAATAATTTATT
Found at i:95275114 original size:11 final size:11
Alignment explanation
Indices: 95275098--95275130 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
95275088 TAAAGTCCAG
95275098 GATATTTAAGA
1 GATATTTAAGA
95275109 GATATTTAAGA
1 GATATTTAAGA
*
95275120 GATATTCAAGA
1 GATATTTAAGA
95275131 TAAGTTTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.45, C:0.03, G:0.18, T:0.33
Consensus pattern (11 bp):
GATATTTAAGA
Found at i:95278229 original size:22 final size:22
Alignment explanation
Indices: 95278177--95278219 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
95278167 AATAAAAGAA
95278177 AAACAATTTAAAGCTTATATTT
1 AAACAATTTAAAGCTTATATTT
95278199 AAACAATTTAAAGCTTATATT
1 AAACAATTTAAAGCTTATATT
95278220 CTCATCATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.40
Consensus pattern (22 bp):
AAACAATTTAAAGCTTATATTT
Found at i:95279147 original size:43 final size:40
Alignment explanation
Indices: 95279049--95279171 Score: 115
Period size: 43 Copynumber: 2.9 Consensus size: 40
95279039 TATCGAGATG
* *
95279049 TGATTACATGTAAGACCATGTATGGGACATTGGCATTGTAT
1 TGATTTCATGTAAGACCATGT-TGGGACATTGGCATCGTAT
*
95279090 TGAGATTAT-GTGTAAGACCATGTCTGGGACATTGGCATCGTTAAT
1 T--GATT-TCATGTAAGACCATGT-TGGGACATTGGCATCG-T-AT
*
95279135 TGATTTCATGTAAGACTC-TGTTCGGGACAGTGGCATC
1 TGATTTCATGTAAGAC-CATGTT-GGGACATTGGCATC
95279172 AATATATAAT
Statistics
Matches: 68, Mismatches: 6, Indels: 14
0.77 0.07 0.16
Matches are distributed among these distances:
41 1 0.01
42 2 0.03
43 60 0.88
44 2 0.03
45 3 0.04
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (40 bp):
TGATTTCATGTAAGACCATGTTGGGACATTGGCATCGTAT
Found at i:95288909 original size:13 final size:13
Alignment explanation
Indices: 95288891--95288923 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
95288881 ATTTTTCAAG
95288891 TCATTTT-CATTTT
1 TCATTTTCCA-TTT
95288904 TCATTTTCCATTT
1 TCATTTTCCATTT
95288917 TCATTTT
1 TCATTTT
95288924 GGAGAAAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 17 0.89
14 2 0.11
ACGTcount: A:0.15, C:0.18, G:0.00, T:0.67
Consensus pattern (13 bp):
TCATTTTCCATTT
Found at i:95288974 original size:6 final size:6
Alignment explanation
Indices: 95288952--95288986 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
95288942 TTCCAAATGA
95288952 TTTCAT TTCTCCAT TTTCAT TTTCAT TTTCAT TTT
1 TTTCAT TT-T-CAT TTTCAT TTTCAT TTTCAT TTT
95288987 GTAGAAAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 20 0.74
7 2 0.07
8 5 0.19
ACGTcount: A:0.14, C:0.20, G:0.00, T:0.66
Consensus pattern (6 bp):
TTTCAT
Found at i:95289033 original size:63 final size:64
Alignment explanation
Indices: 95288901--95289031 Score: 158
Period size: 63 Copynumber: 2.0 Consensus size: 64
95288891 TCATTTTCAT
* *
95288901 TTTTCATTTTCCATTTTCATTTTGGAGAAAACCACAGTCATTTCCAAATGATTTCATTTCTCCA
1 TTTTCATTTTCCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTTCATTTATCCA
* * ** * *
95288965 TTTTCATTTT-CATTTTCATTTTGTAGAAAATCTTAATCATTTTCAAAT-ATTTCTTATTTATCT
1 TTTTCATTTTCCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTTC--ATTTATCC
95289028 A
64 A
95289029 TTT
1 TTT
95289032 CACCATTTCT
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
62 5 0.09
63 32 0.56
64 20 0.35
ACGTcount: A:0.27, C:0.17, G:0.05, T:0.51
Consensus pattern (64 bp):
TTTTCATTTTCCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTTCATTTATCCA
Found at i:95295828 original size:43 final size:42
Alignment explanation
Indices: 95295732--95295837 Score: 122
Period size: 42 Copynumber: 2.5 Consensus size: 42
95295722 GATTTGGTAT
* * * *
95295732 TTACATGTAAGACCATGTTTGGGTCGTTGGCATCATATTTAA
1 TTACATGTAAGACCATGTCTGAGACATTGGCATCATATTTAA
* * * *
95295774 TTTCCTATAAGACCATGTCTGAGACATTGGCATCGATATTTGA
1 TTACATGTAAGACCATGTCTGAGACATTGGCATC-ATATTTAA
*
95295817 TTACATGTAAGACCATATCTG
1 TTACATGTAAGACCATGTCTG
95295838 GGACGTCGGC
Statistics
Matches: 51, Mismatches: 12, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
42 27 0.53
43 24 0.47
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (42 bp):
TTACATGTAAGACCATGTCTGAGACATTGGCATCATATTTAA
Found at i:95295849 original size:43 final size:43
Alignment explanation
Indices: 95295693--95295849 Score: 156
Period size: 43 Copynumber: 3.7 Consensus size: 43
95295683 TGTGATATCG
* * * *
95295693 TGTAAGAACAGGTCTGGGACGTTGGCATTGAT-TTGGTATTTACA
1 TGTAAGACCATGTCTGGGACGTTGGCATCGATATTTG-A-TTACA
* * * * *
95295737 TGTAAGACCATGTTTGGGTCGTTGGCATC-ATATTTAATTTCC
1 TGTAAGACCATGTCTGGGACGTTGGCATCGATATTTGATTACA
* * *
95295779 TATAAGACCATGTCTGAGACATTGGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTGGGACGTTGGCATCGATATTTGATTACA
* *
95295822 TGTAAGACCATATCTGGGACGTCGGCAT
1 TGTAAGACCATGTCTGGGACGTTGGCAT
95295850 TGTACGAGCT
Statistics
Matches: 89, Mismatches: 22, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
42 27 0.30
43 36 0.40
44 26 0.29
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACGTTGGCATCGATATTTGATTACA
Found at i:95302718 original size:41 final size:40
Alignment explanation
Indices: 95302620--95302896 Score: 198
Period size: 43 Copynumber: 6.6 Consensus size: 40
95302610 TTTTATCAAA
* * *
95302620 TCACCGGCATTTAGCCTGCTAGGTTTTAAACCCGAATTCA-
1 TCACCGGCATTTAGCCTGCTAGGCTTTAAGCCTGAA-TCAT
** * **
95302660 TCACCGGCATGAAGCCTGCTAGACTTTAAGTTTGAACTCAT
1 TCACCGGCATTTAGCCTGCTAGGCTTTAAGCCTGAA-TCAT
* * *
95302701 TCACCGGCATTTCGCCTGATAGGCTTGAAGCCTGATATCATT
1 TCACCGGCATTTAGCCTGCTAGGCTTTAAGCCTGA-ATCA-T
*** *
95302743 TCACCGGCATTATAGCCTGCTAGGCCCGAAGCCTGATATTAT
1 TCACCGGCATT-TAGCCTGCTAGGCTTTAAGCCTGA-ATCAT
*** * *
95302785 CTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATTAT
1 -TCACCGGCATT-TAGCCTGCTAGGCTTTAAGCCTGA-ATCAT
** *
95302828 CTCACCGGCATTATAGCCTGCTAGG-TCCGAAGCCTGATATTAT
1 -TCACCGGCATT-TAGCCTGCTAGGCT-TTAAGCCTGA-ATCAT
95302871 CTCACCGGCATTATAGCCTGCTAGGC
1 -TCACCGGCATT-TAGCCTGCTAGGC
95302897 CTGAAGCCCG
Statistics
Matches: 205, Mismatches: 25, Indels: 10
0.85 0.10 0.04
Matches are distributed among these distances:
40 31 0.15
41 30 0.15
42 14 0.07
43 130 0.63
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (40 bp):
TCACCGGCATTTAGCCTGCTAGGCTTTAAGCCTGAATCAT
Found at i:95302774 original size:43 final size:43
Alignment explanation
Indices: 95302701--95302909 Score: 321
Period size: 43 Copynumber: 4.9 Consensus size: 43
95302691 TTGAACTCAT
* * ** * *
95302701 TCACCGGCATT-TCGCCTGATAGGCTTGAAGCCTGATATCATT
1 TCACCGGCATTATAGCCTGCTAGGCCCGAAGCCTGATATTATC
95302743 TCACCGGCATTATAGCCTGCTAGGCCCGAAGCCTGATATTATC
1 TCACCGGCATTATAGCCTGCTAGGCCCGAAGCCTGATATTATC
*
95302786 TCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATTATC
1 TCACCGGCATTATAGCCTGCTAGGCCCGAAGCCTGATATTATC
*
95302829 TCACCGGCATTATAGCCTGCTAGGTCCGAAGCCTGATATTATC
1 TCACCGGCATTATAGCCTGCTAGGCCCGAAGCCTGATATTATC
* *
95302872 TCACCGGCATTATAGCCTGCTAGGCCTGAAGCCCGATA
1 TCACCGGCATTATAGCCTGCTAGGCCCGAAGCCTGATA
95302910 ATATTATTCA
Statistics
Matches: 154, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
42 11 0.07
43 143 0.93
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.26
Consensus pattern (43 bp):
TCACCGGCATTATAGCCTGCTAGGCCCGAAGCCTGATATTATC
Found at i:95302949 original size:129 final size:128
Alignment explanation
Indices: 95302701--95302950 Score: 328
Period size: 129 Copynumber: 1.9 Consensus size: 128
95302691 TTGAACTCAT
* * *
95302701 TCACCGGCATTTCGCCTGATAGGCTTGAAGCCTGATATCATTTCACCGGCATTATAGCCTGCTAG
1 TCACCGGCATTTAGCCTGATAGGCTCGAAGCCTGATATCATCTCACCGGCATTATAGCCTGCTAG
* * *
95302766 GCCCGAAGCCTGATATTATCTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATTATC
66 GCCCGAAGCCTAATATTATCTCACCAGCATTAAAGCCTGCTAGGCCCGAAGCCCGATATTATC
* *
95302829 TCACCGGCATTATAGCCTGCTAGG-TCCGAAGCCTGATATTATCTCACCGGCATTATAGCCTGCT
1 TCACCGGCATT-TAGCCTGATAGGCT-CGAAGCCTGATATCATCTCACCGGCATTATAGCCTGCT
* * *
95302893 AGGCCTGAAGCCCGATAATATTAT-TCACCAGC-TTAAAGCTTGCTAGG-CCGAGGCCCGA
64 AGGCCCGAAG-CC--TAATATTATCTCACCAGCATTAAAGCCTGCTAGGCCCGAAGCCCGA
95302951 ATATCACATT
Statistics
Matches: 106, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
128 12 0.11
129 64 0.60
130 15 0.14
131 7 0.07
132 8 0.08
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.26
Consensus pattern (128 bp):
TCACCGGCATTTAGCCTGATAGGCTCGAAGCCTGATATCATCTCACCGGCATTATAGCCTGCTAG
GCCCGAAGCCTAATATTATCTCACCAGCATTAAAGCCTGCTAGGCCCGAAGCCCGATATTATC
Found at i:95312462 original size:13 final size:13
Alignment explanation
Indices: 95312444--95312471 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
95312434 GCTCGGCAGG
95312444 GACACGCCCGTGT
1 GACACGCCCGTGT
95312457 GACACGCCCGTGT
1 GACACGCCCGTGT
95312470 GA
1 GA
95312472 GTCGTGCTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.18, C:0.36, G:0.32, T:0.14
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:95313091 original size:28 final size:28
Alignment explanation
Indices: 95313025--95313082 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
95313015 GCCGTGTCAA
95313025 CTAGAAACCAACTCAAAATTACACACAG
1 CTAGAAACCAACTCAAAATTACACACAG
95313053 CTAGAAACCAACTCAAAATTACACACAG
1 CTAGAAACCAACTCAAAATTACACACAG
95313081 CT
1 CT
95313083 CGAGCCCAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.48, C:0.29, G:0.07, T:0.16
Consensus pattern (28 bp):
CTAGAAACCAACTCAAAATTACACACAG
Found at i:95321886 original size:27 final size:27
Alignment explanation
Indices: 95321826--95321880 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
95321816 GCCGAGGGTG
95321826 AAGAAACATAATAGAAACTTACCAGCT
1 AAGAAACATAATAGAAACTTACCAGCT
95321853 AAGAAACATAATAGAAACTTACCAGCT
1 AAGAAACATAATAGAAACTTACCAGCT
95321880 A
1 A
95321881 CTAAACGGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.53, C:0.18, G:0.11, T:0.18
Consensus pattern (27 bp):
AAGAAACATAATAGAAACTTACCAGCT
Found at i:95331905 original size:21 final size:21
Alignment explanation
Indices: 95331873--95331913 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
95331863 ATATATATTT
95331873 ATCCATGACAT-AGATAGATTC
1 ATCCATGACATAAG-TAGATTC
95331894 ATCCAT-AGCATAAGTAGATT
1 ATCCATGA-CATAAGTAGATT
95331914 TCTCACACGA
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 1 0.06
21 15 0.83
22 2 0.11
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (21 bp):
ATCCATGACATAAGTAGATTC
Found at i:95334178 original size:23 final size:22
Alignment explanation
Indices: 95334152--95334201 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
95334142 CAGATTTGAT
95334152 TTATTTTA-TTATTTTATTTCTCG
1 TTATTTTATTTA-TTTATTT-TCG
*
95334175 TTA-TTTATTTATTTATTTTCT
1 TTATTTTATTTATTTATTTTCG
95334196 TTATTT
1 TTATTT
95334202 CATCATAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
21 5 0.21
22 13 0.54
23 6 0.25
ACGTcount: A:0.18, C:0.06, G:0.02, T:0.74
Consensus pattern (22 bp):
TTATTTTATTTATTTATTTTCG
Found at i:95338789 original size:43 final size:43
Alignment explanation
Indices: 95338735--95338820 Score: 102
Period size: 43 Copynumber: 2.0 Consensus size: 43
95338725 AACCCGTGAA
* * *
95338735 AAGAGGGGCACACGACCGTGTGGA-AAAGCCACACGCCCGTGTG
1 AAGAGGCGCACAAGACCGTGT-GACAAAGACACACGCCCGTGTG
* * *
95338778 AAGAGGCGCACAAGGCCTTGTGACTAAGACACACGCCCGTGTG
1 AAGAGGCGCACAAGACCGTGTGACAAAGACACACGCCCGTGTG
95338821 GACCAATGAC
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
42 2 0.06
43 34 0.94
ACGTcount: A:0.28, C:0.28, G:0.33, T:0.12
Consensus pattern (43 bp):
AAGAGGCGCACAAGACCGTGTGACAAAGACACACGCCCGTGTG
Found at i:95341618 original size:26 final size:26
Alignment explanation
Indices: 95341589--95341644 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
95341579 TGATACAAAT
95341589 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
95341615 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
95341641 TGAT
1 TGAT
95341645 TGGAATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:95348674 original size:26 final size:26
Alignment explanation
Indices: 95348645--95348751 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
95348635 TGATACAAAT
95348645 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
95348671 TGATAATGGATTAGGTAAATGTT-CA
1 TGATAATGGGTTAGGTAAATGTTCCA
95348696 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
95348722 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
95348748 TGAT
1 TGAT
95348752 GGAATTTCAT
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
25 24 0.31
26 54 0.69
ACGTcount: A:0.32, C:0.07, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:95348700 original size:51 final size:52
Alignment explanation
Indices: 95348645--95348751 Score: 198
Period size: 51 Copynumber: 2.1 Consensus size: 52
95348635 TGATACAAAT
95348645 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATGTT-CA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATGTTCCA
*
95348696 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATGTTCCA
95348748 TGAT
1 TGAT
95348752 GGAATTTCAT
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
51 48 0.89
52 6 0.11
ACGTcount: A:0.32, C:0.07, G:0.26, T:0.36
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATGTTCCA
Found at i:95362838 original size:7 final size:7
Alignment explanation
Indices: 95362822--95362853 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
95362812 CTAAAGCTAC
*
95362822 CACTTAT
1 CACTTGT
95362829 CACTTGT
1 CACTTGT
95362836 CACTTGT
1 CACTTGT
95362843 CACTTGT
1 CACTTGT
95362850 CACT
1 CACT
95362854 AATCAGATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.19, C:0.31, G:0.09, T:0.41
Consensus pattern (7 bp):
CACTTGT
Found at i:95362845 original size:14 final size:14
Alignment explanation
Indices: 95362822--95362858 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
95362812 CTAAAGCTAC
95362822 CACTTATCACTTGT
1 CACTTATCACTTGT
*
95362836 CACTTGTCACTTGT
1 CACTTATCACTTGT
*
95362850 CACTAATCA
1 CACTTATCA
95362859 GATAAGTGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.24, C:0.30, G:0.08, T:0.38
Consensus pattern (14 bp):
CACTTATCACTTGT
Found at i:95362867 original size:58 final size:58
Alignment explanation
Indices: 95362777--95362904 Score: 229
Period size: 58 Copynumber: 2.2 Consensus size: 58
95362767 ATCACATTTA
* * *
95362777 TCACTTGTCAATTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
1 TCACTTGTCACTTGTCACTAATCAGATAAGTGTAGCCAAAGCTACCACTTATCACTTG
95362835 TCACTTGTCACTTGTCACTAATCAGATAAGTGTAGCCAAAGCTACCACTTATCACTTG
1 TCACTTGTCACTTGTCACTAATCAGATAAGTGTAGCCAAAGCTACCACTTATCACTTG
95362893 TCACTTGTCACT
1 TCACTTGTCACT
95362905 GATCAGAAAA
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 67 1.00
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (58 bp):
TCACTTGTCACTTGTCACTAATCAGATAAGTGTAGCCAAAGCTACCACTTATCACTTG
Found at i:95362884 original size:51 final size:51
Alignment explanation
Indices: 95362829--95362948 Score: 170
Period size: 51 Copynumber: 2.4 Consensus size: 51
95362819 TACCACTTAT
* * *
95362829 CACTTGTCACTTGTCACTTGTCACTAATCAGATAAGTGTAGCCAAAG-CTAC
1 CACTTATCACTTGTCACTTGTCACTAATCAGAAAAGTATAG-CAAAGACTAC
* **
95362880 CACTTATCACTTGTCACTTGTCACTGATCAGAAAAGTATAGCTGAGACTAC
1 CACTTATCACTTGTCACTTGTCACTAATCAGAAAAGTATAGCAAAGACTAC
95362931 CACTTATCACTTGTCACT
1 CACTTATCACTTGTCACT
95362949 GATCAGAAGT
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
50 3 0.05
51 59 0.95
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (51 bp):
CACTTATCACTTGTCACTTGTCACTAATCAGAAAAGTATAGCAAAGACTAC
Found at i:95370282 original size:22 final size:22
Alignment explanation
Indices: 95370254--95370296 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
95370244 AAGGAAAAAG
*
95370254 AACCATCAACTTAATTGGCTCA
1 AACCATCAACTCAATTGGCTCA
*
95370276 AACCATCAGCTCAATTGGCTC
1 AACCATCAACTCAATTGGCTC
95370297 CTAACCAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.30, G:0.12, T:0.26
Consensus pattern (22 bp):
AACCATCAACTCAATTGGCTCA
Found at i:95388953 original size:25 final size:25
Alignment explanation
Indices: 95388925--95388985 Score: 95
Period size: 25 Copynumber: 2.4 Consensus size: 25
95388915 CATGTAAACA
* * *
95388925 GGAAGCTCTTTTGAGCTATATAACG
1 GGAAGCTCATGTGAGCTAAATAACG
95388950 GGAAGCTCATGTGAGCTAAATAACG
1 GGAAGCTCATGTGAGCTAAATAACG
95388975 GGAAGCTCATG
1 GGAAGCTCATG
95388986 CGAGTTGTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (25 bp):
GGAAGCTCATGTGAGCTAAATAACG
Done.