Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 222 of 250
Found at i:68352755 original size:15 final size:16
Alignment explanation
Indices: 68352735--68352764 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
68352725 AATAATTTCA
68352735 AAATATT-ATTTATTT
1 AAATATTAATTTATTT
68352750 AAATATTAATTTATT
1 AAATATTAATTTATT
68352765 ATATTTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
AAATATTAATTTATTT
Found at i:68352765 original size:23 final size:22
Alignment explanation
Indices: 68352738--68352780 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
68352728 AATTTCAAAA
68352738 TATTAT-TTATTTAAATATTAATT
1 TATTATATT-TTTAAA-ATTAATT
68352761 TATTATATTTTTAAAATTAA
1 TATTATATTTTTAAAATTAA
68352781 GCTCATACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.26
23 12 0.63
24 2 0.11
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TATTATATTTTTAAAATTAATT
Found at i:68354590 original size:22 final size:20
Alignment explanation
Indices: 68354562--68354607 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
68354552 TTGATTTTAA
*
68354562 TTTTTATTACTAGTTTATAATT
1 TTTTTATT-CT-GTTAATAATT
*
68354584 TTTTTATTGTGTTAATAATT
1 TTTTTATTCTGTTAATAATT
68354604 TTTT
1 TTTT
68354608 ATTGTAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 13 0.59
21 1 0.05
22 8 0.36
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.67
Consensus pattern (20 bp):
TTTTTATTCTGTTAATAATT
Found at i:68354618 original size:20 final size:20
Alignment explanation
Indices: 68354578--68354620 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
68354568 TTACTAGTTT
*
68354578 ATAATTTTTTTATTGTGTTA
1 ATAATTTTTTTATTGTATTA
68354598 ATAA-TTTTTTATTGTAATTA
1 ATAATTTTTTTATTGT-ATTA
68354618 ATA
1 ATA
68354621 TTTAAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (20 bp):
ATAATTTTTTTATTGTATTA
Found at i:68371612 original size:21 final size:21
Alignment explanation
Indices: 68371569--68371612 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
68371559 CTTTTTTAAC
*
68371569 AAAAGAAAAACAAAAAGATGA
1 AAAAGAAAAACAAAAAGACGA
*
68371590 AAAAGAAAAA-AAGAAATACGA
1 AAAAGAAAAACAA-AAAGACGA
68371611 AA
1 AA
68371613 GTAAAATGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.77, C:0.05, G:0.14, T:0.05
Consensus pattern (21 bp):
AAAAGAAAAACAAAAAGACGA
Found at i:68371858 original size:37 final size:37
Alignment explanation
Indices: 68371808--68371889 Score: 155
Period size: 37 Copynumber: 2.2 Consensus size: 37
68371798 GAGGAGGCTA
68371808 CGTGGAGGTGGATGGAGGTAAGGGTGCAGAGGGCCTT
1 CGTGGAGGTGGATGGAGGTAAGGGTGCAGAGGGCCTT
*
68371845 CGTGGAGGTGGATGGGGGTAAGGGTGCAGAGGGCCTT
1 CGTGGAGGTGGATGGAGGTAAGGGTGCAGAGGGCCTT
68371882 CGTGGAGG
1 CGTGGAGG
68371890 GGCTGTGGAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.17, C:0.11, G:0.54, T:0.18
Consensus pattern (37 bp):
CGTGGAGGTGGATGGAGGTAAGGGTGCAGAGGGCCTT
Found at i:68372005 original size:16 final size:17
Alignment explanation
Indices: 68371983--68372024 Score: 61
Period size: 16 Copynumber: 2.5 Consensus size: 17
68371973 CCTGGGGTTA
68371983 ATTTGGGTTAGTTTT-GG
1 ATTTGGGTT-GTTTTGGG
68372000 -TTTGGGTTGTTTTGGG
1 ATTTGGGTTGTTTTGGG
68372016 ATTTGGGTT
1 ATTTGGGTT
68372025 TTAAATTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 5 0.22
16 10 0.43
17 8 0.35
ACGTcount: A:0.07, C:0.00, G:0.38, T:0.55
Consensus pattern (17 bp):
ATTTGGGTTGTTTTGGG
Found at i:68372359 original size:109 final size:110
Alignment explanation
Indices: 68372165--68372386 Score: 351
Period size: 109 Copynumber: 2.0 Consensus size: 110
68372155 TTAATGGAAA
68372165 ACGAGTATAATCGGCGTGGTTTGGTGGTAAAACTTAACGAGTATAATAAAACTCAAATTTTCAAA
1 ACGAGTATAATCGGCGTGGTTTGGTGGTAAAACTT-A-GAGTATAATAAAACTCAAATTTTCAAA
* * *
68372230 TTCAAAATCAAATTCTACCAAATGAGATTATTCCATATATAGAACAC
64 TTCAAAATCAAACTCTACCAAATGAGATTACTCCAGATATAGAACAC
*
68372277 ACGAGTATAAAT-GGCGTGGTTTGGTGGTAAAACTT-GAGTATAATAAAA-TCCAAATTTTCAAT
1 ACGAGTAT-AATCGGCGTGGTTTGGTGGTAAAACTTAGAGTATAATAAAACT-CAAATTTTCAAA
68372339 TTCAAAATCAAACTCTACCAAATGAGATTACTCCAGATATAGAACAC
64 TTCAAAATCAAACTCTACCAAATGAGATTACTCCAGATATAGAACAC
68372386 A
1 A
68372387 AAAACAGAAA
Statistics
Matches: 104, Mismatches: 4, Indels: 7
0.90 0.03 0.06
Matches are distributed among these distances:
108 1 0.01
109 69 0.66
112 31 0.30
113 3 0.03
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (110 bp):
ACGAGTATAATCGGCGTGGTTTGGTGGTAAAACTTAGAGTATAATAAAACTCAAATTTTCAAATT
CAAAATCAAACTCTACCAAATGAGATTACTCCAGATATAGAACAC
Found at i:68384633 original size:17 final size:18
Alignment explanation
Indices: 68384611--68384645 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
68384601 AAGAGTTTAA
*
68384611 TTTATAATTTATA-AATT
1 TTTATAATCTATATAATT
68384628 TTTATAATCTATATAATT
1 TTTATAATCTATATAATT
68384646 GGTTTGATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTATAATCTATATAATT
Found at i:68385802 original size:132 final size:132
Alignment explanation
Indices: 68385565--68385831 Score: 367
Period size: 132 Copynumber: 2.0 Consensus size: 132
68385555 TTGCCTTGCC
* * * * *
68385565 TTAGAAACCACGAATGAAATTCCAAAGGGATATTCGATTATTTTGCGCAAAGGAGAAATTGCAAC
1 TTAGAAAACACGAACGAAATTCCAAAGAGACATTCGATTATTTTGCGCAAACGAGAAATTGCAAC
* * *
68385630 CCAACACGATAGGGCACAATTCCCCGAATTGCCAATTATCGAACA-CTTCATTCGTTTTAAA-AA
66 CCAACACGATAGGGCACAATTCCCCGAATTGCCAAATATCGAACATCGTC-TCCGTTTTAAAGAA
68385693 GTTT
130 -TTT
* * *
68385697 TTAGAAAACATGAACGAAATTCTAAAGAGACATTCGATTATTTTGGGCAAACGAGAAATTGCAAC
1 TTAGAAAACACGAACGAAATTCCAAAGAGACATTCGATTATTTTGCGCAAACGAGAAATTGCAAC
* * * *
68385762 CCAGCACGATAGGGCACGATTCTCCGAATTGCTAAATATCGAACATCGTCTCCGTTTTAAAGAAT
66 CCAACACGATAGGGCACAATTCCCCGAATTGCCAAATATCGAACATCGTCTCCGTTTTAAAGAAT
68385827 TT
131 TT
68385829 TTA
1 TTA
68385832 AACAAATGAT
Statistics
Matches: 118, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
132 113 0.96
133 5 0.04
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.27
Consensus pattern (132 bp):
TTAGAAAACACGAACGAAATTCCAAAGAGACATTCGATTATTTTGCGCAAACGAGAAATTGCAAC
CCAACACGATAGGGCACAATTCCCCGAATTGCCAAATATCGAACATCGTCTCCGTTTTAAAGAAT
TT
Found at i:68386928 original size:3 final size:3
Alignment explanation
Indices: 68386922--68386966 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
68386912 ATTTTAAATA
68386922 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
68386967 GCAGAAACCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:68388555 original size:45 final size:45
Alignment explanation
Indices: 68388351--68388875 Score: 198
Period size: 45 Copynumber: 11.6 Consensus size: 45
68388341 TTCAATCTAT
* * * *
68388351 TCCAATGCAACTTCAGGGAGATAAGATCTGCTATC-TTAGTCTGC
1 TCCACTGCAACTTCAGGAAGATAAGATTTGTTATCTTTAGTCTGC
* * * * *
68388395 TCCACTGCAACTTTAGGAAGATAAGACTTG-TGTC--GA-TCTAC
1 TCCACTGCAACTTCAGGAAGATAAGATTTGTTATCTTTAGTCTGC
* * * * *
68388436 TCTACTGCAACTTCA-GAGAGATGAG-TCTGTGGTTTATAGCTTCAATCTGT
1 TCCACTGCAACTTCAGGA-AGATAAGAT-T-T-G-TTAT--CTTTAGTCTGC
* *
68388486 TCCACTACAACTTCAGGGAA-ATAAGATTTGTTATCTTTAGTCAGC
1 TCCACTGCAACTTCA-GGAAGATAAGATTTGTTATCTTTAGTCTGC
* * * *
68388531 TCCACTGCAACTTCAGGAAGATAAGACTTG-TGTC--GA-TCTAC
1 TCCACTGCAACTTCAGGAAGATAAGATTTGTTATCTTTAGTCTGC
* * * * * *
68388572 TCTACTGCTACTTCA-GAGAGATGAGATCTGTGGTTTATAGCTTCAATCTGT
1 TCCACTGCAACTTCAGGA-AGATAAGAT-T-T-G-TTAT--CTTTAGTCTGC
* **
68388623 TCCATTGCAACTTCAGGGAA-ATAAGATTTACTATCTTTAGTCTGC
1 TCCACTGCAACTTCA-GGAAGATAAGATTTGTTATCTTTAGTCTGC
* * * * *
68388668 TCCACTGCAACTTCAGGGAGATAAGACTTG---TGTTGA-TCTAC
1 TCCACTGCAACTTCAGGAAGATAAGATTTGTTATCTTTAGTCTGC
* * * * ** *
68388709 TCTACTGCAACTTCA-GAGAGATGAGATCGGTGGTTTATAGCTTCAACCTGT
1 TCCACTGCAACTTCAGGA-AGATAAGAT---TTG-TTAT--CTTTAGTCTGC
* * *
68388760 TCCACTGTAACTTCAAGGAA-ATAAGATTTGCTATCTTCAGTCTGC
1 TCCACTGCAACTTC-AGGAAGATAAGATTTGTTATCTTTAGTCTGC
* * * *
68388805 TCCACTGCAACTTCAAGG-AGATAAGACTTG-TAAC-TTCGACCTGC
1 TCCACTGCAACTTC-AGGAAGATAAGATTTGTTATCTTTAG-TCTGC
*
68388849 TCTACTGCAACTTCA-GAGAGATAAGAT
1 TCCACTGCAACTTCAGGA-AGATAAGAT
68388876 CTGTAATTTT
Statistics
Matches: 356, Mismatches: 79, Indels: 92
0.68 0.15 0.17
Matches are distributed among these distances:
40 5 0.01
41 72 0.20
42 9 0.03
43 8 0.02
44 67 0.19
45 96 0.27
46 2 0.01
47 11 0.03
48 5 0.01
49 3 0.01
50 26 0.07
51 43 0.12
52 5 0.01
53 4 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (45 bp):
TCCACTGCAACTTCAGGAAGATAAGATTTGTTATCTTTAGTCTGC
Found at i:68388670 original size:137 final size:137
Alignment explanation
Indices: 68388286--68388879 Score: 906
Period size: 137 Copynumber: 4.3 Consensus size: 137
68388276 GGGATAGGGT
* * * *
68388286 TTGTTTCGATCTGCTCTACTGCAACTTCAGAGAGATGAGATCTGTGATTTATAGCTTCAATCTAT
1 TTGTGTCGATCTACTCTACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAATCTGT
* * * *
68388351 TCCAATGCAACTTCAGGGAGATAAGATCTGCTATC-TTAGTCTGCTCCACTGCAACTTTAGGAAG
66 TCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTTAGTCTGCTCCACTGCAACTTCAGGAAG
68388415 ATAAGAC
131 ATAAGAC
68388422 TTGTGTCGATCTACTCTACTGCAACTTCAGAGAGATGAG-TCTGTGGTTTATAGCTTCAATCTGT
1 TTGTGTCGATCTACTCTACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAATCTGT
* * *
68388486 TCCACTACAACTTCAGGGAAATAAGATTTGTTATCTTTAGTCAGCTCCACTGCAACTTCAGGAAG
66 TCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTTAGTCTGCTCCACTGCAACTTCAGGAAG
68388551 ATAAGAC
131 ATAAGAC
*
68388558 TTGTGTCGATCTACTCTACTGCTACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAATCTGT
1 TTGTGTCGATCTACTCTACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAATCTGT
* * *
68388623 TCCATTGCAACTTCAGGGAAATAAGATTTACTATCTTTAGTCTGCTCCACTGCAACTTCAGGGAG
66 TCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTTAGTCTGCTCCACTGCAACTTCAGGAAG
68388688 ATAAGAC
131 ATAAGAC
* * *
68388695 TTGTGTTGATCTACTCTACTGCAACTTCAGAGAGATGAGATCGGTGGTTTATAGCTTCAACCTGT
1 TTGTGTCGATCTACTCTACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAATCTGT
* * *
68388760 TCCACTGTAACTTCAAGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAAGG-A
66 TCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTTAGTCTGCTCCACTGCAACTTC-AGGAA
68388824 GATAAGAC
130 GATAAGAC
* * * *
68388832 TTGTAACTTCGACCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGT
1 TTGT---GTCGATCTACTCTACTGCAACTTCAGAGAGATGAGATCTGT
68388880 AATTTTCAGA
Statistics
Matches: 419, Mismatches: 33, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
135 53 0.13
136 109 0.26
137 219 0.52
138 3 0.01
140 35 0.08
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.32
Consensus pattern (137 bp):
TTGTGTCGATCTACTCTACTGCAACTTCAGAGAGATGAGATCTGTGGTTTATAGCTTCAATCTGT
TCCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTTAGTCTGCTCCACTGCAACTTCAGGAAG
ATAAGAC
Found at i:68400589 original size:132 final size:132
Alignment explanation
Indices: 68400414--68400680 Score: 376
Period size: 132 Copynumber: 2.0 Consensus size: 132
68400404 TTGCATTGCC
* * * *
68400414 TTAGAAACCACGAATGAAATTCCAAAGGGATATTCGATTATTTTGCGCAAAGGAGAAATTGCAAC
1 TTAGAAAACACGAACGAAATTCCAAAGAGACATTCGATTATTTTGCGCAAAGGAGAAATTGCAAC
* * *
68400479 CCAGCACGATAGGGCACAATTCCCCGAATTGCCAATTATCGAACA-CTTCCTTCGTTTTAAA-AA
66 CCAGCACGATAGGGCACAATTCCCCGAATTGCCAAATATCGAACATCGT-CTCCGTTTTAAAGAA
68400542 GTTT
130 -TTT
* * * *
68400546 TTAGAAAACATGAACGAAATTCTAAAGAGACATTCGATTATTTTGGGCAAATGAGAAATTGCAAC
1 TTAGAAAACACGAACGAAATTCCAAAGAGACATTCGATTATTTTGCGCAAAGGAGAAATTGCAAC
* * *
68400611 CCAGCACGATAGGGCACGATTCCTCGAATTGCTAAATATCGAACATCGTCTCCGTTTTAAAGAAT
66 CCAGCACGATAGGGCACAATTCCCCGAATTGCCAAATATCGAACATCGTCTCCGTTTTAAAGAAT
68400676 TT
131 TT
68400678 TTA
1 TTA
68400681 AACAAATGAT
Statistics
Matches: 119, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
132 115 0.97
133 4 0.03
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (132 bp):
TTAGAAAACACGAACGAAATTCCAAAGAGACATTCGATTATTTTGCGCAAAGGAGAAATTGCAAC
CCAGCACGATAGGGCACAATTCCCCGAATTGCCAAATATCGAACATCGTCTCCGTTTTAAAGAAT
TT
Found at i:68400987 original size:3 final size:3
Alignment explanation
Indices: 68400968--68401005 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
68400958 ACAAACGATT
* *
68400968 ATA AAA ATA AAA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
68401006 GCAATAACAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:68401535 original size:24 final size:24
Alignment explanation
Indices: 68401505--68401556 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
68401495 TATGTACACA
*
68401505 ATATATAATA-TATTAAAGATATAT
1 ATATATAATATTAATAAA-ATATAT
68401529 ATATATAATATTAATAAAATATAT
1 ATATATAATATTAATAAAATATAT
68401553 ATAT
1 ATAT
68401557 GTAGTATAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 20 0.77
25 6 0.23
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (24 bp):
ATATATAATATTAATAAAATATAT
Found at i:68406356 original size:21 final size:21
Alignment explanation
Indices: 68406289--68406366 Score: 88
Period size: 21 Copynumber: 3.8 Consensus size: 21
68406279 ACGCCAGAAA
*
68406289 AAGCTCG-AA-AGCTGAACAA
1 AAGCTCGTAAGAGCTGAACAG
* *
68406308 AAGCTCATAAGAGATGAACAG
1 AAGCTCGTAAGAGCTGAACAG
* *
68406329 AAACTCGTAAGAGCTTAACAG
1 AAGCTCGTAAGAGCTGAACAG
*
68406350 AAGCTCGTAACAGCTGA
1 AAGCTCGTAAGAGCTGA
68406367 TCCATCCAAT
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
19 6 0.13
20 2 0.04
21 39 0.83
ACGTcount: A:0.44, C:0.19, G:0.22, T:0.15
Consensus pattern (21 bp):
AAGCTCGTAAGAGCTGAACAG
Found at i:68414189 original size:7 final size:7
Alignment explanation
Indices: 68414177--68414203 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
68414167 TGATTGGGTG
68414177 TTTGAAC
1 TTTGAAC
68414184 TTTGAAC
1 TTTGAAC
68414191 TTTGAAC
1 TTTGAAC
68414198 TTTGAA
1 TTTGAA
68414204 GCAGAGTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.44
Consensus pattern (7 bp):
TTTGAAC
Found at i:68417516 original size:23 final size:23
Alignment explanation
Indices: 68417490--68417538 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
68417480 ATCTTTGGAT
*
68417490 TGTCTATTTCGACTATTATTTTG
1 TGTCTATTTCGACTACTATTTTG
68417513 TGTCTATTTCGACTACTATTTTG
1 TGTCTATTTCGACTACTATTTTG
68417536 TGT
1 TGT
68417539 TTTTATTGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.16, C:0.14, G:0.14, T:0.55
Consensus pattern (23 bp):
TGTCTATTTCGACTACTATTTTG
Found at i:68420264 original size:14 final size:14
Alignment explanation
Indices: 68420236--68420268 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
68420226 AAGGAATGTT
68420236 ATTAGTAGATTAAA
1 ATTAGTAGATTAAA
68420250 ATTAG-AGATTAAA
1 ATTAGTAGATTAAA
*
68420263 AATAGT
1 ATTAGT
68420269 TTTTCTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.52, C:0.00, G:0.15, T:0.33
Consensus pattern (14 bp):
ATTAGTAGATTAAA
Found at i:68430589 original size:21 final size:21
Alignment explanation
Indices: 68430557--68430597 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
68430547 GAACATTTGG
68430557 TGTATAGGCTAAGAA-AGGCCT
1 TGTATAGGCTAA-AACAGGCCT
68430578 TGTAT-GGCCTAAAACAGGCC
1 TGTATAGG-CTAAAACAGGCC
68430598 CCTCGAGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (21 bp):
TGTATAGGCTAAAACAGGCCT
Found at i:68449113 original size:137 final size:138
Alignment explanation
Indices: 68448861--68449137 Score: 502
Period size: 137 Copynumber: 2.0 Consensus size: 138
68448851 TAGCCGTTGC
68448861 CTCTCTTGCTCATCTACAATGGTCAATATTTTCTAACATAAAACATATTAAAAAAAATAAGAACA
1 CTCTCTTGCTCATCTACAATGGTCAATATTTTCTAACATAAAACATATTAAAAAAAATAAGAACA
*
68448926 GAACAAAGAATTTTCTTTTCACAAAAAAGATAACTAGTTGTTAGCTTAGCTACACTAGATGAAGT
66 GAACAAACAATTTTCTTTTCACAAAAAAGATAACTAGTTGTTAGCTTAGCTACACTAGATGAAGT
68448991 TCAAATCA
131 TCAAATCA
* * *
68448999 CTCTTTTGCTCATCTACAATGGTCAATATTTTCTAACATATAACATCTT-AAAAAAATAAGAACA
1 CTCTCTTGCTCATCTACAATGGTCAATATTTTCTAACATAAAACATATTAAAAAAAATAAGAACA
*
68449063 GAGCAAACAATTTTCTTTTCACAAAAAAGATAACTAGTTGTTAGCTTAGCTACACTAGATGAAGT
66 GAACAAACAATTTTCTTTTCACAAAAAAGATAACTAGTTGTTAGCTTAGCTACACTAGATGAAGT
68449128 TCAAATCA
131 TCAAATCA
68449136 CT
1 CT
68449138 AAAAATAAAA
Statistics
Matches: 134, Mismatches: 5, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
137 88 0.66
138 46 0.34
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.31
Consensus pattern (138 bp):
CTCTCTTGCTCATCTACAATGGTCAATATTTTCTAACATAAAACATATTAAAAAAAATAAGAACA
GAACAAACAATTTTCTTTTCACAAAAAAGATAACTAGTTGTTAGCTTAGCTACACTAGATGAAGT
TCAAATCA
Found at i:68453117 original size:30 final size:30
Alignment explanation
Indices: 68453081--68453177 Score: 115
Period size: 30 Copynumber: 3.2 Consensus size: 30
68453071 AATCCTAAGA
*
68453081 TCCTGAATGACATATTGAGTCTTCCCAAGT
1 TCCTGAATGAGATATTGAGTCTTCCCAAGT
* *
68453111 TCCTGAATAAGATATTGAGTCTTCCCAAGC
1 TCCTGAATGAGATATTGAGTCTTCCCAAGT
* * *
68453141 TCTTGAAAGAGATATT-AGGTCTTCTCAAGT
1 TCCTGAATGAGATATTGA-GTCTTCCCAAGT
*
68453171 TCTTGAA
1 TCCTGAA
68453178 CGTCCTCGTA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 1 0.02
30 57 0.98
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.34
Consensus pattern (30 bp):
TCCTGAATGAGATATTGAGTCTTCCCAAGT
Found at i:68454011 original size:20 final size:20
Alignment explanation
Indices: 68453956--68454004 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
68453946 TTGCTATTTA
68453956 TTTTAA-AAACTTTTTATTAT
1 TTTTAATAAA-TTTTTATTAT
68453976 TTTTAATAAATTTTTA-TAT
1 TTTTAATAAATTTTTATTAT
68453995 TGTTTAATAA
1 T-TTTAATAA
68454005 TTATTTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 4 0.15
20 20 0.74
21 3 0.11
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (20 bp):
TTTTAATAAATTTTTATTAT
Found at i:68457763 original size:10 final size:10
Alignment explanation
Indices: 68457750--68457788 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
68457740 TTATTTTCAT
68457750 TTATCTTTAA
1 TTATCTTTAA
68457760 TTATCTTTAA
1 TTATCTTTAA
* *
68457770 TTATTTATTAT
1 TTATCT-TTAA
68457781 TTATCTTT
1 TTATCTTT
68457789 TAGAATTTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 17 0.68
11 8 0.32
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.67
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:68458538 original size:17 final size:18
Alignment explanation
Indices: 68458506--68458539 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
68458496 TTTCCCTCAT
68458506 TTTAATTTCTGCAATTTA
1 TTTAATTTCTGCAATTTA
68458524 TTTAATTTC-GCAATTT
1 TTTAATTTCTGCAATTT
68458540 CCATTCACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.26, C:0.12, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTAATTTCTGCAATTTA
Found at i:68461397 original size:22 final size:23
Alignment explanation
Indices: 68461369--68461416 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
68461359 CAATAAGAGG
*
68461369 AAAAACTT-AAATTTTATATGGA
1 AAAAACTTGAAATTTTATAAGGA
* *
68461391 AAAAACTTGGAATTTTGTAAGGA
1 AAAAACTTGAAATTTTATAAGGA
68461414 AAA
1 AAA
68461417 GCATTTTATC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.50, C:0.04, G:0.15, T:0.31
Consensus pattern (23 bp):
AAAAACTTGAAATTTTATAAGGA
Found at i:68461459 original size:19 final size:18
Alignment explanation
Indices: 68461419--68461467 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
68461409 AAGGAAAAGC
* *
68461419 ATTTTATCTTTTAAATTT
1 ATTTTATTTTTTAAATTA
68461437 ATTTTATTTTTTAGAATTA
1 ATTTTATTTTTTA-AATTA
68461456 ATTTTAATTTTT
1 ATTTT-ATTTTT
68461468 CTATAGTCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 12 0.44
19 9 0.33
20 6 0.22
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (18 bp):
ATTTTATTTTTTAAATTA
Found at i:68461928 original size:67 final size:67
Alignment explanation
Indices: 68461855--68461997 Score: 180
Period size: 67 Copynumber: 2.1 Consensus size: 67
68461845 ACCCCATAAT
*
68461855 CGAGCTATGATATTACACATTATACCCCA-TGTTTAATATCCTGACAGACTATTTATGTTGCCAT
1 CGAGCTATGATATTACACATTATACCCCATTG-TTAATATCCTGACAGACTATTTACGTTGCCAT
68461919 AGC
65 AGC
* * * * * * * * *
68461922 CGAGCTATGATCTTACACCTTATATCCCATTGTTAATGTCTTGGCGGACTCTTTACGTTGCCATG
1 CGAGCTATGATATTACACATTATACCCCATTGTTAATATCCTGACAGACTATTTACGTTGCCATA
68461987 GC
66 GC
68461989 CGAGCTATG
1 CGAGCTATG
68461998 GTTTAATGTC
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
67 63 0.97
68 2 0.03
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.34
Consensus pattern (67 bp):
CGAGCTATGATATTACACATTATACCCCATTGTTAATATCCTGACAGACTATTTACGTTGCCATA
GC
Found at i:68465159 original size:23 final size:24
Alignment explanation
Indices: 68465120--68465201 Score: 89
Period size: 23 Copynumber: 3.4 Consensus size: 24
68465110 TGTATCAAAT
68465120 TATTTAAATATAATTTATTATTTA-
1 TATTTAAA-ATAATTTATTATTTAG
68465144 TATTTAAAATAATTTATTATCATTAG
1 TATTTAAAATAATTTATTAT--TTAG
* *
68465170 T-TTTATAAATAATTTA-TATTAAT
1 TATTTA-AAATAATTTATTATTTAG
68465193 TATTTAAAA
1 TATTTAAAA
68465202 GATATTTAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
23 18 0.35
24 12 0.24
25 10 0.20
26 11 0.22
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (24 bp):
TATTTAAAATAATTTATTATTTAG
Found at i:68465179 original size:26 final size:23
Alignment explanation
Indices: 68465120--68465221 Score: 91
Period size: 24 Copynumber: 4.2 Consensus size: 23
68465110 TGTATCAAAT
68465120 TATTTAAATATAATTTATTATTTA
1 TATTTAAA-ATAATTTATTATTTA
68465144 TATTTAAAATAATTTATTATCATTA
1 TATTTAAAATAATTTATTAT--TTA
*
68465169 GT-TTTATAAATAATTTA-TATTAA
1 -TATTTA-AAATAATTTATTATTTA
* **
68465192 TTATTTAAAAGATATTTAAAATTTA
1 -TATTTAAAATA-ATTTATTATTTA
68465217 TATTT
1 TATTT
68465222 TATGTATTAT
Statistics
Matches: 66, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
23 19 0.29
24 22 0.33
25 14 0.21
26 11 0.17
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (23 bp):
TATTTAAAATAATTTATTATTTA
Found at i:68465468 original size:17 final size:17
Alignment explanation
Indices: 68465441--68465473 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
68465431 TGATTGCTTG
68465441 TTTATTTATAATTATTAT
1 TTTATTTATAA-TATTAT
68465459 TTTA-TTATAATATTA
1 TTTATTTATAATATTA
68465474 AATGCATTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 6 0.40
18 4 0.27
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTATTTATAATATTAT
Found at i:68468581 original size:52 final size:52
Alignment explanation
Indices: 68468492--68468691 Score: 173
Period size: 52 Copynumber: 3.9 Consensus size: 52
68468482 GACGGAAAAG
* ** * *
68468492 ATGTGATATGTGCTTCCGTATAAGACTGTAGCAGGGCTATGGCATTGGTACA
1 ATGTGATATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACA
* ***
68468544 ATGTGAT-TCGTG-TTCCCGTATAAGACCATAGCTGGGCTATGACATCGGTGTG
1 ATGTGATAT-GTGATT-CCGTATAAGACCATAGCTGGGCTATGGCATCGGTACA
* * *
68468596 ATGTGATAATGTGATTCCGTATAAGACCATATCTAGGATATGGCATCGGT---
1 ATGTGAT-ATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACA
* * * *
68468646 A--TGATATGTGA-TCCGTGTAAGACCATGGCAGGGCTATGGCTTCGGT
1 ATGTGATATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGT
68468692 GTGTGATGTG
Statistics
Matches: 124, Mismatches: 19, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
46 28 0.23
47 6 0.05
48 4 0.03
50 1 0.01
51 3 0.02
52 46 0.37
53 33 0.27
54 3 0.02
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.30
Consensus pattern (52 bp):
ATGTGATATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACA
Found at i:68468691 original size:46 final size:48
Alignment explanation
Indices: 68468559--68468671 Score: 122
Period size: 53 Copynumber: 2.3 Consensus size: 48
68468549 ATTCGTGTTC
* * *
68468559 CCGTATAAGACCATAGCTGGGCTATGACATCGGTGTGATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTAGGATATGGCATC-G-GT-A--TGATAATGTGATT
*
68468612 CCGTATAAGACCATATCTAGGATATGGCATCGGTATGAT-ATGTGA-T
1 CCGTATAAGACCATAGCTAGGATATGGCATCGGTATGATAATGTGATT
*
68468658 CCGTGTAAGACCAT
1 CCGTATAAGACCAT
68468672 GGCAGGGCTA
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
46 14 0.25
47 6 0.11
48 4 0.07
50 1 0.02
51 2 0.04
52 1 0.02
53 27 0.49
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (48 bp):
CCGTATAAGACCATAGCTAGGATATGGCATCGGTATGATAATGTGATT
Found at i:68473782 original size:25 final size:25
Alignment explanation
Indices: 68473754--68473801 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
68473744 TTATAAAAAT
* *
68473754 AATAAAATAAATAAAACATAAAAGG
1 AATAAAACAAACAAAACATAAAAGG
*
68473779 AATAAAACAAACAAAGCATAAAA
1 AATAAAACAAACAAAACATAAAA
68473802 AGAAACAGAG
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:0.73, C:0.08, G:0.06, T:0.12
Consensus pattern (25 bp):
AATAAAACAAACAAAACATAAAAGG
Found at i:68474283 original size:5 final size:6
Alignment explanation
Indices: 68474268--68474297 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
68474258 AAACCCTAAT
68474268 TTTTTC TTTTTC TTTTTC -TTTTC TTTTTC T
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC T
68474298 CTATTCCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTC
Found at i:68474289 original size:11 final size:11
Alignment explanation
Indices: 68474268--68474297 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
68474258 AAACCCTAAT
68474268 TTTTTCTTTTTC
1 TTTTTC-TTTTC
68474280 TTTTTCTTTTC
1 TTTTTCTTTTC
68474291 TTTTTCT
1 TTTTTCT
68474298 CTATTCCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.67
12 6 0.33
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTTCTTTTC
Found at i:68474379 original size:25 final size:25
Alignment explanation
Indices: 68474335--68474382 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
68474325 CTCTGTTTCT
* *
68474335 TTTTATGCTTTGTTTGTTTTATTCC
1 TTTTATGCTTTATTTATTTTATTCC
*
68474360 TTTTATGTTTTATTTATTTTATT
1 TTTTATGCTTTATTTATTTTATT
68474383 AGTTTTATAA
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:0.12, C:0.06, G:0.08, T:0.73
Consensus pattern (25 bp):
TTTTATGCTTTATTTATTTTATTCC
Found at i:68474388 original size:25 final size:25
Alignment explanation
Indices: 68474335--68474390 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
68474325 CTCTGTTTCT
* * *
68474335 TTTTATGCTTTGTTTGTTTTATTCC
1 TTTTATGCTTTATTTATTTTATTAC
* *
68474360 TTTTATGTTTTATTTATTTTATTAG
1 TTTTATGCTTTATTTATTTTATTAC
68474385 TTTTAT
1 TTTTAT
68474391 AATAATATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.14, C:0.05, G:0.09, T:0.71
Consensus pattern (25 bp):
TTTTATGCTTTATTTATTTTATTAC
Found at i:68474747 original size:20 final size:21
Alignment explanation
Indices: 68474714--68474756 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
68474704 TATAATAACT
*
68474714 TAATTTAATAATATATT-TTA
1 TAATTAAATAATATATTATTA
*
68474734 TAATTAAATCATATATTATTA
1 TAATTAAATAATATATTATTA
68474755 TA
1 TA
68474757 TAATTAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
TAATTAAATAATATATTATTA
Found at i:68475864 original size:32 final size:32
Alignment explanation
Indices: 68475802--68475865 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
68475792 ATATTAAAAT
* * * *
68475802 AATATAATATAATAAAGTAATTAAATAAAACA
1 AATAAAATAAAATAAAGTAATAAAACAAAACA
68475834 AATAAAATAAAATAAAG-AATGAAAACAAAACA
1 AATAAAATAAAATAAAGTAAT-AAAACAAAACA
68475866 GGGCAGTGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 3 0.11
32 24 0.89
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.20
Consensus pattern (32 bp):
AATAAAATAAAATAAAGTAATAAAACAAAACA
Found at i:68477585 original size:20 final size:20
Alignment explanation
Indices: 68477560--68477598 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
68477550 CCCATGGCCT
68477560 TGTCCCAAGCCACACGGGCA
1 TGTCCCAAGCCACACGGGCA
*
68477580 TGTCCCAGGCCACACGGGC
1 TGTCCCAAGCCACACGGGC
68477599 GTATGCCCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.41, G:0.28, T:0.10
Consensus pattern (20 bp):
TGTCCCAAGCCACACGGGCA
Found at i:68483041 original size:13 final size:13
Alignment explanation
Indices: 68482994--68483035 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
68482984 TAAAGTAATT
* *
68482994 AAATAAAATAAATA
1 AAATAAAAGAAA-G
68483008 AAATAAAAGAAAG
1 AAATAAAAGAAAG
68483021 AAATAAAAGAAAG
1 AAATAAAAGAAAG
68483034 AA
1 AA
68483036 TGAAAACGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
13 15 0.58
14 11 0.42
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.12
Consensus pattern (13 bp):
AAATAAAAGAAAG
Found at i:68485931 original size:47 final size:47
Alignment explanation
Indices: 68485858--68486027 Score: 288
Period size: 47 Copynumber: 3.6 Consensus size: 47
68485848 ATGGTTGAGT
*
68485858 TCCGAACTCATTGAGTTGAGGT-CGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGA-GTCCGAGTTCGTGAGATGTAACTAGGCA
*
68485905 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
*
68485952 TCCGAACTCGTTGAGTTGAGTCCGAGTTTGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
*
68485999 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
68486028 ACTTATGGAT
Statistics
Matches: 116, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
46 2 0.02
47 114 0.98
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCA
Found at i:68490696 original size:4 final size:4
Alignment explanation
Indices: 68490687--68490729 Score: 86
Period size: 4 Copynumber: 10.8 Consensus size: 4
68490677 TGGTTTGACC
68490687 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA
68490730 GAAGAAACAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (4 bp):
ACAT
Found at i:68492955 original size:33 final size:33
Alignment explanation
Indices: 68492918--68492986 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
68492908 GGAGTTCATA
68492918 ATAAAAGAAG-GACCTTCAAGTCTGAGATTTATG
1 ATAAAAGAAGTGA-CTTCAAGTCTGAGATTTATG
* * *
68492951 ATAAAAGAAGTGATTTCAAGTCTGAGGTTTTTG
1 ATAAAAGAAGTGACTTCAAGTCTGAGATTTATG
68492984 ATA
1 ATA
68492987 TGAGCTTACA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 30 0.94
34 2 0.06
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.32
Consensus pattern (33 bp):
ATAAAAGAAGTGACTTCAAGTCTGAGATTTATG
Found at i:68495842 original size:160 final size:160
Alignment explanation
Indices: 68495578--68495900 Score: 628
Period size: 160 Copynumber: 2.0 Consensus size: 160
68495568 TCTACAATTT
68495578 ACTTAATCATGGAGTCAGTCCACAAGAAGTACCATGATTGAAAGCTCATTATTGTATATTTTTTA
1 ACTTAATCATGGAGTCAGTCCACAAGAAGTACCATGATTGAAAGCTCATTATTGTATATTTTTTA
*
68495643 CAAAAGCAATTCATCTAACTTTTTTGTCGAATGACCTCGTCATGTGTGTGTTTCCCTCATATGAT
66 CAAAAGCAATTCATCTAACTTTTTTGTCGAATGACCTCGTCATGTGTGTGTTACCCTCATATGAT
68495708 ATCCTTAGTTCTTTTGAGCTAAATCCATTC
131 ATCCTTAGTTCTTTTGAGCTAAATCCATTC
68495738 ACTTAATCATGGAGTCAGTCCACAAGAAGTACCATGATTGAAAGCTCATTATTGTATATTTTTTA
1 ACTTAATCATGGAGTCAGTCCACAAGAAGTACCATGATTGAAAGCTCATTATTGTATATTTTTTA
68495803 CAAAAGCAATTCATCTAACTTTTTTGTCGAATGACCTCGTCATGTGTGTGTTACCCTCATATGAT
66 CAAAAGCAATTCATCTAACTTTTTTGTCGAATGACCTCGTCATGTGTGTGTTACCCTCATATGAT
*
68495868 ATCCTTAGTTCTTTTGAGCTAAATTCATTC
131 ATCCTTAGTTCTTTTGAGCTAAATCCATTC
68495898 ACT
1 ACT
68495901 CAATACAATC
Statistics
Matches: 161, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
160 161 1.00
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.38
Consensus pattern (160 bp):
ACTTAATCATGGAGTCAGTCCACAAGAAGTACCATGATTGAAAGCTCATTATTGTATATTTTTTA
CAAAAGCAATTCATCTAACTTTTTTGTCGAATGACCTCGTCATGTGTGTGTTACCCTCATATGAT
ATCCTTAGTTCTTTTGAGCTAAATCCATTC
Found at i:68506202 original size:39 final size:38
Alignment explanation
Indices: 68506138--68506263 Score: 171
Period size: 39 Copynumber: 3.3 Consensus size: 38
68506128 TTTTTAACCT
* * *
68506138 GGATATTTTTCAGCACATAGCCTGCGGACCTCAAGTCC
1 GGATATATTTCAGCATATAGCCTGCGGACCTCATGTCC
* *
68506176 GGATATATTTCTAGCATATAGCCTGCGGATCTCATGTCA
1 GGATATATTTC-AGCATATAGCCTGCGGACCTCATGTCC
* *
68506215 GGATATTTTTCCAGCATATAGCCTGCGGACTTCATGTCC
1 GGATATATTT-CAGCATATAGCCTGCGGACCTCATGTCC
68506254 GGATATATTT
1 GGATATATTT
68506264 TCAATCTCAT
Statistics
Matches: 76, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
38 10 0.13
39 65 0.86
40 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.33
Consensus pattern (38 bp):
GGATATATTTCAGCATATAGCCTGCGGACCTCATGTCC
Found at i:68507389 original size:9 final size:9
Alignment explanation
Indices: 68507360--68507396 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
68507350 TGAGTTTTCA
68507360 AATTCGAAT
1 AATTCGAAT
*
68507369 AACTCGAAT
1 AATTCGAAT
68507378 AATTCGAAT
1 AATTCGAAT
*
68507387 AATTAGAAT
1 AATTCGAAT
68507396 A
1 A
68507397 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:68523150 original size:17 final size:17
Alignment explanation
Indices: 68523116--68523171 Score: 76
Period size: 17 Copynumber: 3.2 Consensus size: 17
68523106 AAATAAAATG
*
68523116 AAAAAAGTAGAAACATAT
1 AAAAAAGTA-AAAAATAT
68523134 AAAAAAGTAAAAAATAT
1 AAAAAAGTAAAAAATAT
*
68523151 AAAAAAGTAAATATATAT
1 AAAAAAGTAAA-AAATAT
68523169 AAA
1 AAA
68523172 TTAAAAAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
17 18 0.51
18 17 0.49
ACGTcount: A:0.71, C:0.02, G:0.07, T:0.20
Consensus pattern (17 bp):
AAAAAAGTAAAAAATAT
Found at i:68523767 original size:16 final size:17
Alignment explanation
Indices: 68523742--68523777 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
68523732 AATTTTATTT
68523742 ATAATAAATTTTAAAAA
1 ATAATAAATTTTAAAAA
*
68523759 ATAAT-AATTTTAAATA
1 ATAATAAATTTTAAAAA
68523775 ATA
1 ATA
68523778 TTATTTACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
ATAATAAATTTTAAAAA
Found at i:68523830 original size:15 final size:15
Alignment explanation
Indices: 68523810--68523866 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
68523800 ATTCAATATT
68523810 AATATTTTAATAATA
1 AATATTTTAATAATA
*
68523825 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
68523844 AATATATTAATAATA
1 AATATTTTAATAATA
*
68523859 AATGTTTT
1 AATATTTT
68523867 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:68524321 original size:14 final size:14
Alignment explanation
Indices: 68524302--68524339 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
68524292 TCAGAAAAAT
68524302 AAATTATTTTTTAA
1 AAATTATTTTTTAA
*
68524316 AAATTATTTTTTTA
1 AAATTATTTTTTAA
68524330 AAATTATTTT
1 AAATTATTTT
68524340 CAATGAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
AAATTATTTTTTAA
Found at i:68530063 original size:33 final size:32
Alignment explanation
Indices: 68530016--68530122 Score: 117
Period size: 33 Copynumber: 3.3 Consensus size: 32
68530006 GGTGTACATT
* **
68530016 CCTTTCCAAGTGGTACACACAAAGTATACATTT
1 CCTTTTCAA-TGGTACACACAAAGTATACATAA
* *
68530049 CCTTTTCATATGGTATACACAAAGTATACCTAA
1 CCTTTTCA-ATGGTACACACAAAGTATACATAA
* *
68530082 CCTTTTCAA-GTGTACACACAAGGTGTACATAA
1 CCTTTTCAATG-GTACACACAAAGTATACATAA
68530114 CCTTTTCAA
1 CCTTTTCAA
68530123 ATTATACCAT
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
31 1 0.02
32 27 0.43
33 34 0.54
34 1 0.02
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (32 bp):
CCTTTTCAATGGTACACACAAAGTATACATAA
Found at i:68538849 original size:32 final size:32
Alignment explanation
Indices: 68538808--68538874 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
68538798 CATGAAGTAC
*
68538808 ATTGAATTGTCATTTGGGCTATAATTTTAAAA
1 ATTGAATTGTCATTTGGGCTACAATTTTAAAA
68538840 ATTGAATTGTCATTTGGGCTACAATTTTAAAA
1 ATTGAATTGTCATTTGGGCTACAATTTTAAAA
68538872 ATT
1 ATT
68538875 TAATGTTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.34, C:0.07, G:0.15, T:0.43
Consensus pattern (32 bp):
ATTGAATTGTCATTTGGGCTACAATTTTAAAA
Found at i:68539823 original size:62 final size:60
Alignment explanation
Indices: 68539700--68539832 Score: 162
Period size: 62 Copynumber: 2.2 Consensus size: 60
68539690 AAGAATCGAT
* * ** * *
68539700 TAGTTGGGTGATCAATTTAAAAAAATTCATAATTGGGTGACCAAAGAAGACACAAATCTA
1 TAGTTGGGTGATCAATTTAAAAAAAATAATAATTGAATGACCAAAAAAGACACAAACCTA
68539760 TAGTTGGGTGATCAATTTTAAAAAAACATAATAATTGAATGACCAAAAAAGA-A-AACGACCTA
1 TAGTTGGGTGATCAA-TTTAAAAAAA-ATAATAATTGAATGACCAAAAAAGACACAA--ACCTA
68539822 TAGTTGGGTGA
1 TAGTTGGGTGA
68539833 CCTATAGTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
60 17 0.27
61 11 0.17
62 35 0.56
ACGTcount: A:0.44, C:0.11, G:0.19, T:0.26
Consensus pattern (60 bp):
TAGTTGGGTGATCAATTTAAAAAAAATAATAATTGAATGACCAAAAAAGACACAAACCTA
Found at i:68546661 original size:25 final size:22
Alignment explanation
Indices: 68546612--68546664 Score: 61
Period size: 25 Copynumber: 2.3 Consensus size: 22
68546602 AAATACAAAG
*
68546612 TAAAAAATTCTAAAATAAAATA
1 TAAAAAATTCTAAAATAAAACA
*
68546634 TAAAACAATTCTAACAAATAATACA
1 TAAAA-AATTCT-A-AAATAAAACA
68546659 TAAAAA
1 TAAAAA
68546665 GGATTTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
22 5 0.19
23 6 0.23
24 2 0.08
25 13 0.50
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.25
Consensus pattern (22 bp):
TAAAAAATTCTAAAATAAAACA
Found at i:68546789 original size:21 final size:23
Alignment explanation
Indices: 68546742--68546795 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
68546732 CATTGAAGAT
**
68546742 AAAATAATATATAAAACCCTTTA
1 AAAATAATATATAAAACCAATTA
*
68546765 AAAATAATATAT-AAA-CAATTC
1 AAAATAATATATAAAACCAATTA
68546786 AAAAT-ATATA
1 AAAATAATATA
68546796 ATGTGTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 8 0.29
22 3 0.11
23 12 0.43
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (23 bp):
AAAATAATATATAAAACCAATTA
Found at i:68546789 original size:22 final size:23
Alignment explanation
Indices: 68546742--68546789 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
68546732 CATTGAAGAT
** *
68546742 AAAATAATATATAAAACCCTTTA
1 AAAATAATATATAAAACAATTCA
68546765 AAAATAATATAT-AAACAATTCA
1 AAAATAATATATAAAACAATTCA
68546787 AAA
1 AAA
68546790 TATATAATGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.27
Consensus pattern (23 bp):
AAAATAATATATAAAACAATTCA
Found at i:68546848 original size:25 final size:25
Alignment explanation
Indices: 68546766--68546898 Score: 76
Period size: 25 Copynumber: 5.3 Consensus size: 25
68546756 AACCCTTTAA
*
68546766 AAATAATATATAAACAAT-TCAAAAT
1 AAATAATATATAAA-AATATTAAAAT
* * *
68546791 ATATAATGTGTAAAAA-AGGTTTAAAAT
1 AAATAATATATAAAAATA---TTAAAAT
* * *
68546818 ACATAATATATGAAAATATTAAAGT
1 AAATAATATATAAAAATATTAAAAT
* *
68546843 AAATAATGTATAAAAAT-TTGAAAT
1 AAATAATATATAAAAATATTAAAAT
* ***
68546867 GAACGTTATATAAAAAT-TTAAAAT
1 AAATAATATATAAAAATATTAAAAT
*
68546891 AGATAATA
1 AAATAATA
68546899 ACAAAAAATG
Statistics
Matches: 78, Mismatches: 25, Indels: 11
0.68 0.22 0.10
Matches are distributed among these distances:
24 28 0.36
25 31 0.40
27 18 0.23
28 1 0.01
ACGTcount: A:0.57, C:0.03, G:0.08, T:0.32
Consensus pattern (25 bp):
AAATAATATATAAAAATATTAAAAT
Found at i:68547027 original size:29 final size:29
Alignment explanation
Indices: 68546995--68547051 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
68546985 ATTAGTATAT
68546995 AAATAGAAATAGA-AATATAATAATAGTAG
1 AAATAGAAATAGATAA-ATAATAATAGTAG
*
68547024 AAATATAAATAGATAAATAATAATAGTA
1 AAATAGAAATAGATAAATAATAATAGTA
68547052 TTAGAATAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 24 0.92
30 2 0.08
ACGTcount: A:0.63, C:0.00, G:0.11, T:0.26
Consensus pattern (29 bp):
AAATAGAAATAGATAAATAATAATAGTAG
Found at i:68547031 original size:14 final size:15
Alignment explanation
Indices: 68547011--68547051 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
68547001 AAATAGAAAT
68547011 ATAATAATAGTAGAA
1 ATAATAATAGTAGAA
*
68547026 AT-ATAAATAG-ATAA
1 ATAAT-AATAGTAGAA
68547040 ATAATAATAGTA
1 ATAATAATAGTA
68547052 TTAGAATAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (15 bp):
ATAATAATAGTAGAA
Found at i:68547049 original size:43 final size:43
Alignment explanation
Indices: 68546993--68547091 Score: 103
Period size: 43 Copynumber: 2.3 Consensus size: 43
68546983 ATATTAGTAT
* * * *
68546993 ATAAATAGA-AATAGAAATATAATAATAGTAGAAATATAAATAG
1 ATAAATA-ATAATAGAAATAGAATAACAGAAGAAATACAAATAG
* * *
68547036 ATAAATAATAATAGTATTAGAATAACAGAATAAATACAAATAG
1 ATAAATAATAATAGAAATAGAATAACAGAAGAAATACAAATAG
68547079 A-AACATAATAATA
1 ATAA-ATAATAATA
68547092 ATAGCAATAA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
42 3 0.06
43 44 0.94
ACGTcount: A:0.63, C:0.03, G:0.09, T:0.25
Consensus pattern (43 bp):
ATAAATAATAATAGAAATAGAATAACAGAAGAAATACAAATAG
Found at i:68547060 original size:29 final size:27
Alignment explanation
Indices: 68546977--68547060 Score: 78
Period size: 29 Copynumber: 2.9 Consensus size: 27
68546967 AAATAATAAT
*
68546977 AAAATAATATTAGTATATAAATAGAAATAG
1 AAAATAATAATAGTAT-TAAAT--AAATAG
**
68547007 AAATATAATAATAGTAGAAATATAAATAG
1 AAA-ATAATAATAGTATTAA-ATAAATAG
68547036 ATAAATAATAATAGTATTAGAATAA
1 A-AAATAATAATAGTATTA-AATAA
68547061 CAGAATAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
29 24 0.53
30 8 0.18
31 13 0.29
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.30
Consensus pattern (27 bp):
AAAATAATAATAGTATTAAATAAATAG
Found at i:68550847 original size:23 final size:24
Alignment explanation
Indices: 68550819--68550875 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 24
68550809 ATTGAATCTT
*
68550819 AATTTTAAATTTTGAAAAA-AATA
1 AATTTTAAATTTTGAAAAATAAAA
*
68550842 AATTTTAAA--ATGAAAAATAAAA
1 AATTTTAAATTTTGAAAAATAAAA
*
68550864 AAATTTAAATTT
1 AATTTTAAATTT
68550876 AAATATGCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
21 7 0.26
22 11 0.41
23 9 0.33
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (24 bp):
AATTTTAAATTTTGAAAAATAAAA
Found at i:68553747 original size:16 final size:15
Alignment explanation
Indices: 68553709--68553751 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
68553699 AATGAAACAT
68553709 ACAAATTGAAATAAA
1 ACAAATTGAAATAAA
* *
68553724 ACTTAATTGAGATAAA
1 AC-AAATTGAAATAAA
68553740 ATCAAATTGAAA
1 A-CAAATTGAAA
68553752 GGGGGCAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
15 2 0.09
16 19 0.86
17 1 0.05
ACGTcount: A:0.58, C:0.07, G:0.09, T:0.26
Consensus pattern (15 bp):
ACAAATTGAAATAAA
Found at i:68565968 original size:27 final size:26
Alignment explanation
Indices: 68565928--68565987 Score: 102
Period size: 27 Copynumber: 2.3 Consensus size: 26
68565918 CAAAATTATT
*
68565928 CCAAACCCAACTCGAATTAACCAAAA
1 CCAAAACCAACTCGAATTAACCAAAA
68565954 CCAAAACCAATCTCGAATTAACCAAAA
1 CCAAAACCAA-CTCGAATTAACCAAAA
68565981 CCAAAAC
1 CCAAAAC
68565988 TAACCCATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 9 0.28
27 23 0.72
ACGTcount: A:0.52, C:0.33, G:0.03, T:0.12
Consensus pattern (26 bp):
CCAAAACCAACTCGAATTAACCAAAA
Found at i:68569559 original size:20 final size:20
Alignment explanation
Indices: 68569536--68569612 Score: 63
Period size: 20 Copynumber: 3.9 Consensus size: 20
68569526 TTAATATTTT
68569536 TAAATCTTTAGATATTTTGA
1 TAAATCTTTAGATATTTTGA
68569556 TAAAGTCTTATA-ATA--TTGA
1 TAAA-TCTT-TAGATATTTTGA
* * *
68569575 TAAATCTTTAAAAATATT-A
1 TAAATCTTTAGATATTTTGA
*
68569594 GTAAATTTTTAGATATTTT
1 -TAAATCTTTAGATATTTT
68569613 AGTAAAAGTT
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
17 2 0.04
18 6 0.13
19 9 0.20
20 20 0.43
21 7 0.15
22 2 0.04
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (20 bp):
TAAATCTTTAGATATTTTGA
Found at i:68569571 original size:21 final size:17
Alignment explanation
Indices: 68569526--68569585 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 17
68569516 TAAGAATTTA
68569526 TTAATATTTTTAAATCT
1 TTAATATTTTTAAATCT
68569543 TTAGATATTTTGATAAAGTCT
1 TTA-ATATTTT--TAAA-TCT
**
68569564 TATAATATTGATAAATCT
1 T-TAATATTTTTAAATCT
68569582 TTAA
1 TTAA
68569586 AAATATTAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
17 6 0.17
18 11 0.31
19 4 0.11
20 4 0.11
21 9 0.25
22 2 0.06
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.50
Consensus pattern (17 bp):
TTAATATTTTTAAATCT
Found at i:68573426 original size:21 final size:21
Alignment explanation
Indices: 68573400--68573440 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
68573390 ATCTGCTCAA
* *
68573400 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
68573421 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
68573441 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:68579913 original size:9 final size:9
Alignment explanation
Indices: 68579899--68579959 Score: 104
Period size: 9 Copynumber: 6.8 Consensus size: 9
68579889 TTTGGTTAAA
68579899 AATTACCCG
1 AATTACCCG
68579908 AATTACCCG
1 AATTACCCG
68579917 AATTACCCG
1 AATTACCCG
68579926 AATTACCCG
1 AATTACCCG
*
68579935 AATTAACCG
1 AATTACCCG
*
68579944 AATTAACCG
1 AATTACCCG
68579953 AATTACC
1 AATTACC
68579960 GAAAAATATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 50 1.00
ACGTcount: A:0.38, C:0.30, G:0.10, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:68591441 original size:17 final size:17
Alignment explanation
Indices: 68591419--68591452 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
68591409 ATCCACTAAT
*
68591419 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
68591436 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
68591453 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:68596080 original size:17 final size:17
Alignment explanation
Indices: 68596058--68596091 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
68596048 ATCCACTAAT
*
68596058 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
68596075 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
68596092 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:68602305 original size:20 final size:20
Alignment explanation
Indices: 68602282--68602342 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 20
68602272 TATTTTAAAA
68602282 ATTAAAATTAAATTTTTATT
1 ATTAAAATTAAATTTTTATT
* *
68602302 ATTAATATAATAAATTTTGATT
1 ATTAA-A-ATTAAATTTTTATT
68602324 -TTATTAAATT-AATTTTTAT
1 ATTA--AAATTAAATTTTTAT
68602343 ATAAAAACCA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
20 13 0.39
21 6 0.18
22 13 0.39
23 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
ATTAAAATTAAATTTTTATT
Found at i:68621195 original size:30 final size:30
Alignment explanation
Indices: 68621155--68621211 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
68621145 ATAACTCATA
68621155 TTTAACAGAGATGGCAACGAGAAATTGACT
1 TTTAACAGAGATGGCAACGAGAAATTGACT
* *
68621185 TTTAATAGAGATGGCAACGAGAGATTG
1 TTTAACAGAGATGGCAACGAGAAATTG
68621212 GTCAGCGATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.25
Consensus pattern (30 bp):
TTTAACAGAGATGGCAACGAGAAATTGACT
Found at i:68622677 original size:29 final size:30
Alignment explanation
Indices: 68622601--68622678 Score: 86
Period size: 31 Copynumber: 2.6 Consensus size: 30
68622591 TCAAATTTTG
* *
68622601 AAAAGTACAGAGGCTAAAAGTGATCAATTCA
1 AAAAGTACAAAGGCTAAAAGTGATCAAAT-A
** *
68622632 AAAAGTACATGGGCTAAAATTGATCAAAT-
1 AAAAGTACAAAGGCTAAAAGTGATCAAATA
*
68622661 AAAAGTACAAAGACTAAA
1 AAAAGTACAAAGGCTAAA
68622679 TCTACAACTT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
29 15 0.38
31 25 0.62
ACGTcount: A:0.53, C:0.12, G:0.17, T:0.19
Consensus pattern (30 bp):
AAAAGTACAAAGGCTAAAAGTGATCAAATA
Found at i:68623509 original size:13 final size:13
Alignment explanation
Indices: 68623493--68623520 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
68623483 CTTTTTTAGA
68623493 ATTATTTTAGAGT
1 ATTATTTTAGAGT
68623506 ATTATTTTAGAGT
1 ATTATTTTAGAGT
68623519 AT
1 AT
68623521 CGTGTGGTAA
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:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (13 bp):
ATTATTTTAGAGT
Found at i:68625756 original size:17 final size:17
Alignment explanation
Indices: 68625705--68625756 Score: 52
Period size: 16 Copynumber: 3.0 Consensus size: 17
68625695 TTTTTTAAAT
*
68625705 TATTTTTTTATATTTTTAA
1 TATTTTTTGA-ATTTTT-A
* *
68625724 TTTTTTTTGAA-GTTTA
1 TATTTTTTGAATTTTTA
68625740 TATTTTTTGAATTTTTA
1 TATTTTTTGAATTTTTA
68625757 GATATTTAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
16 11 0.41
17 7 0.26
18 1 0.04
19 8 0.30
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (17 bp):
TATTTTTTGAATTTTTA
Found at i:68627104 original size:32 final size:32
Alignment explanation
Indices: 68627068--68627130 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
68627058 TTTTAACAAT
68627068 TTTCTAAATTATTTTAACATATTACCTTAAAA
1 TTTCTAAATTATTTTAACATATTACCTTAAAA
*
68627100 TTTCTAAATTATTTTAGCATATTACCTTAAA
1 TTTCTAAATTATTTTAACATATTACCTTAAA
68627131 CACTTTGATA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.38, C:0.13, G:0.02, T:0.48
Consensus pattern (32 bp):
TTTCTAAATTATTTTAACATATTACCTTAAAA
Found at i:68629116 original size:17 final size:17
Alignment explanation
Indices: 68629094--68629145 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 17
68629084 TATTAATAAC
68629094 CGTCATTTTCATAATTT
1 CGTCATTTTCATAATTT
68629111 CGTCATTTTCATGAA-TT
1 CGTCATTTTCAT-AATTT
*
68629128 CAGTTCAATTTCATAATT
1 C-G-TCATTTTCATAATT
68629146 ATTTGTCTCG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
17 15 0.50
18 5 0.17
19 10 0.33
ACGTcount: A:0.27, C:0.17, G:0.08, T:0.48
Consensus pattern (17 bp):
CGTCATTTTCATAATTT
Found at i:68629440 original size:42 final size:42
Alignment explanation
Indices: 68629390--68629516 Score: 170
Period size: 42 Copynumber: 3.0 Consensus size: 42
68629380 CTTCATTTTC
** *
68629390 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACAT-A
*
68629433 T-GATGCCATAGCCCAACTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
*
68629474 TCGATGCCATAGCCCAGCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAACTATGGTCTTACAC-ATATTCACATA
68629515 TC
1 TC
68629517 TCACTGATGC
Statistics
Matches: 76, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
41 10 0.13
42 64 0.84
43 2 0.03
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
Found at i:68629611 original size:31 final size:31
Alignment explanation
Indices: 68629576--68629722 Score: 224
Period size: 31 Copynumber: 4.7 Consensus size: 31
68629566 CTTGTCACCT
*
68629576 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
68629607 GTAGCCGGAGCTACCACTTTTCATTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
68629638 GTAGCCGGAA-CTACCACTTTTCACTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
**
68629669 GTAGCAAAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
68629700 GTAGCTGAAGCTACCACTTTTCA
1 GTAGCCGAAGCTACCACTTTTCA
68629723 TTTGTCATTT
Statistics
Matches: 105, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
30 2 0.02
31 101 0.96
32 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:68629803 original size:50 final size:51
Alignment explanation
Indices: 68629700--68629828 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
68629690 CACTGATCAG
* * * *
68629700 GTAGCTGAAGCTACCACTTTTCATTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
*
68629751 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
68629801 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
68629829 TGCCATGGTC
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 45 0.63
51 26 0.37
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:68645560 original size:27 final size:27
Alignment explanation
Indices: 68645530--68645613 Score: 77
Period size: 27 Copynumber: 3.1 Consensus size: 27
68645520 AAGCCCACCC
68645530 ATATTATTTTTATTTTTGAAAATATTT
1 ATATTATTTTTATTTTTGAAAATATTT
*
68645557 ATATTA-TATTA-TTTT-AATTTAATATTT
1 ATATTATTTTTATTTTTGAA---AATATTT
* *
68645584 A-ATAATTTTTATTTATTGAAAATTTTT
1 ATATTATTTTTATTT-TTGAAAATATTT
68645611 ATA
1 ATA
68645614 GAATCATCTT
Statistics
Matches: 45, Mismatches: 4, Indels: 15
0.70 0.06 0.23
Matches are distributed among these distances:
24 2 0.04
25 4 0.09
26 7 0.16
27 25 0.56
28 3 0.07
29 2 0.04
30 2 0.04
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (27 bp):
ATATTATTTTTATTTTTGAAAATATTT
Found at i:68646381 original size:16 final size:16
Alignment explanation
Indices: 68646360--68646391 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
68646350 TATTTTTTAA
68646360 TAAAATTTTTATATTT
1 TAAAATTTTTATATTT
68646376 TAAAATTTTTATATTT
1 TAAAATTTTTATATTT
68646392 GCTTTTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TAAAATTTTTATATTT
Found at i:68647615 original size:24 final size:24
Alignment explanation
Indices: 68647587--68647636 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
68647577 TTTTTTCCTC
* *
68647587 TTCCCTTTCCTTCTCT-CCTCTCTT
1 TTCCCTCTCCCTCTCTCCCT-TCTT
68647611 TTCCCTCTCCCTCTCTCCCTTCTT
1 TTCCCTCTCCCTCTCTCCCTTCTT
68647635 TT
1 TT
68647637 TCTTTAATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 20 0.87
25 3 0.13
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (24 bp):
TTCCCTCTCCCTCTCTCCCTTCTT
Found at i:68647623 original size:17 final size:18
Alignment explanation
Indices: 68647592--68647626 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
68647582 TCCTCTTCCC
*
68647592 TTTCCTTCTCTCCTCTCT
1 TTTCCCTCTCTCCTCTCT
68647610 TTTCCCTCTC-CCTCTCT
1 TTTCCCTCTCTCCTCTCT
68647627 CCCTTCTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTCCCTCTCTCCTCTCT
Found at i:68653818 original size:30 final size:30
Alignment explanation
Indices: 68653782--68653845 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
68653772 CAATTTTAAG
*
68653782 TATGGTTATAGCTTAGCCTAACGTTTCTAC
1 TATGGTTATAGCTTAGCCTAACATTTCTAC
68653812 TATGGTTATAGCTTAGCCTAACATTTCTAC
1 TATGGTTATAGCTTAGCCTAACATTTCTAC
68653842 TATG
1 TATG
68653846 TTTTTGCAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.41
Consensus pattern (30 bp):
TATGGTTATAGCTTAGCCTAACATTTCTAC
Found at i:68664098 original size:45 final size:45
Alignment explanation
Indices: 68664042--68664133 Score: 166
Period size: 45 Copynumber: 2.0 Consensus size: 45
68664032 AAAGGGGGAG
*
68664042 TTCTTTTTTGGAGATTAATCAAATATCAAAGCAAAAGGGGTTTTC
1 TTCTTTTTTGGAGATTAATCAAATATCAAAGCAAAAGAGGTTTTC
*
68664087 TTCTTTTTTGGAGATTAATCAAATATCAAAGTAAAAGAGGTTTTC
1 TTCTTTTTTGGAGATTAATCAAATATCAAAGCAAAAGAGGTTTTC
68664132 TT
1 TT
68664134 TGTCTATTCT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.40
Consensus pattern (45 bp):
TTCTTTTTTGGAGATTAATCAAATATCAAAGCAAAAGAGGTTTTC
Found at i:68664394 original size:3 final size:3
Alignment explanation
Indices: 68664371--68664540 Score: 84
Period size: 3 Copynumber: 56.7 Consensus size: 3
68664361 GGGGAGAGTG
* * *
68664371 TTA TTT TTA ATA TTG TTA TTA TTA TATA TTA TTA TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
* * * * *
68664416 -TA CTTA TT- TTA TTA CTG TTA CTA TTA TTT TGTA TATA TTTA TTA TCA
1 TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA T-TA -TTA TTA TTA
** ** * *
68664463 TTA TTGA TTTA TTA TTA TTA GAA ACA -TA TT- TTA TTT TTA TTA TTT
1 TTA TT-A -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
68664508 TTA -TA TTA TTA TTT TTA TTA ATA -TA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
68664541 GTCTTCTATT
Statistics
Matches: 125, Mismatches: 29, Indels: 26
0.69 0.16 0.14
Matches are distributed among these distances:
2 13 0.10
3 96 0.77
4 13 0.10
5 3 0.02
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:68664412 original size:14 final size:14
Alignment explanation
Indices: 68664386--68664540 Score: 75
Period size: 14 Copynumber: 11.6 Consensus size: 14
68664376 TTTAATATTG
68664386 TTATTATTA-TATA
1 TTATTATTATTATA
68664399 TTATTATTATTATA
1 TTATTATTATTATA
*
68664413 TTA-TACTTATTTTA
1 TTATTA-TTATTATA
* * *
68664427 TTACTGTTACTATTA
1 TTATTATTATTA-TA
*
68664442 TTTTGTATATATT-TA
1 TTAT-TAT-TATTATA
*
68664457 TTATCATTATTGAT-
1 TTATTATTATT-ATA
*
68664471 TTATTATTATTAGA
1 TTATTATTATTATA
* *
68664485 -AACATATT-TTAT-
1 TTA-TTATTATTATA
68664497 TT-TTATTATT-T-
1 TTATTATTATTATA
68664508 TTA-TATTATTAT-
1 TTATTATTATTATA
*
68664520 TT-TTATTAATATA
1 TTATTATTATTATA
68664533 TTATTATT
1 TTATTATT
68664541 GTCTTCTATT
Statistics
Matches: 107, Mismatches: 18, Indels: 33
0.68 0.11 0.21
Matches are distributed among these distances:
11 14 0.13
12 13 0.12
13 22 0.21
14 42 0.39
15 11 0.10
16 2 0.02
17 3 0.03
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (14 bp):
TTATTATTATTATA
Found at i:68664525 original size:20 final size:21
Alignment explanation
Indices: 68664488--68664540 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
68664478 TATTAGAAAC
* *
68664488 ATATTTTATT-TTTATTATTT
1 ATATATTATTATTTATTATTA
*
68664508 TTATATTATTATTT-TTATTA
1 ATATATTATTATTTATTATTA
68664528 ATATATTATTATT
1 ATATATTATTATT
68664541 GTCTTCTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 25 0.89
21 3 0.11
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (21 bp):
ATATATTATTATTTATTATTA
Found at i:68665357 original size:126 final size:126
Alignment explanation
Indices: 68665127--68665360 Score: 371
Period size: 126 Copynumber: 1.9 Consensus size: 126
68665117 TTCTCAATTG
* * * * *
68665127 TTTTTAAAATAATGGCAATGTACGGTATTTAAAGACTTCGAACAATCGTGCCCTAACGTACTGGG
1 TTTTCAAAATAAAGGCAATGTACAGTATTTAAAGAATTCGAACAATCATGCCCTAACGTACTGGG
* *
68665192 TTTCGCTTTCTTTGTTTGTCTTGAATATTCGGATATCCTCTTACCAGTTCACTCTAAAAAA
66 TTTCGCTTTATTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCACTCTAAAAAA
*
68665253 TTTTCAAAATAAAGGCAATGGT-CAGTATTTAAAGAATTCGAAGAATCATGCCCTAACGTACTGG
1 TTTTCAAAATAAAGGCAAT-GTACAGTATTTAAAGAATTCGAACAATCATGCCCTAACGTACTGG
*
68665317 GTTTCGCTTTATTTGTTTGTTTTGAATATTCGAATATCCTCTTA
65 GTTTCGCTTTATTTGTTTGTCTTGAATATTCGAATATCCTCTTA
68665361 AGGCTAAAAC
Statistics
Matches: 98, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
126 96 0.98
127 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (126 bp):
TTTTCAAAATAAAGGCAATGTACAGTATTTAAAGAATTCGAACAATCATGCCCTAACGTACTGGG
TTTCGCTTTATTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCACTCTAAAAAA
Found at i:68666707 original size:19 final size:19
Alignment explanation
Indices: 68666683--68666729 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
68666673 GACGTCTTCT
*
68666683 TTTGCATT-CATCCCATGCA
1 TTTGCATTACATCACAT-CA
68666702 TTTGCATTACATCACATCA
1 TTTGCATTACATCACATCA
*
68666721 TGTGCATTA
1 TTTGCATTA
68666730 ATTCAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.38
Consensus pattern (19 bp):
TTTGCATTACATCACATCA
Found at i:68669090 original size:20 final size:20
Alignment explanation
Indices: 68669053--68669091 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
68669043 CATCAAATTT
* *
68669053 AAAAAAAAAAAGACAAAAGG
1 AAAAAAAAAAACAAAAAAGG
68669073 AAAAAAAAAAACAAAAAAG
1 AAAAAAAAAAACAAAAAAG
68669092 AAGAAAAGAT
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:0.85, C:0.05, G:0.10, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAAACAAAAAAGG
Found at i:68669098 original size:19 final size:20
Alignment explanation
Indices: 68669053--68669098 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
68669043 CATCAAATTT
* *
68669053 AAAAAAAAAAAGACAAAAGG
1 AAAAAAAAAAACACAAAAAG
68669073 AAAAAAAAAAACA-AAAAAG
1 AAAAAAAAAAACACAAAAAG
68669092 AAGAAAA
1 AA-AAAA
68669099 GATGCCAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.85, C:0.04, G:0.11, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAAACACAAAAAG
Found at i:68670372 original size:23 final size:25
Alignment explanation
Indices: 68670346--68670392 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
68670336 TATCATTCAT
*
68670346 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
68670369 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
68670393 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:68670713 original size:46 final size:47
Alignment explanation
Indices: 68670653--68670820 Score: 207
Period size: 46 Copynumber: 3.6 Consensus size: 47
68670643 TTTGACGTGA
* * * * *
68670653 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATGTCACGT
*
68670699 TGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATGTCACGT
* * * *
68670745 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATGTCACGT
* *
68670791 TGTCATGGTATCTTTCAACCATGGTTTTAC
1 TGCCATGGTATCTTTCAACCATGGTCTTAC
68670821 ACACAGGTTG
Statistics
Matches: 107, Mismatches: 13, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
45 5 0.05
46 102 0.95
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.41
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCATGTCACGT
Found at i:68670821 original size:46 final size:44
Alignment explanation
Indices: 68670699--68670910 Score: 223
Period size: 38 Copynumber: 5.0 Consensus size: 44
68670689 TCTGTCATGC
* * * *
68670699 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTA-AC-ATTCATATCAGGT
68670745 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTA-ACAT-TCATATCAGGT
* *
68670791 TGTCATGGTATCTTTCAACCATGGT-TTTACA--C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTAACATTCATATCAGGT
68670829 TGCCATGGTATCTTTCAACCATGGTCTT-ACA--C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTAACATTCATATCAGGT
*
68670867 TTCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTA-ACA-TTCATATCAG
68670911 AGAGCACACT
Statistics
Matches: 147, Mismatches: 9, Indels: 20
0.84 0.05 0.11
Matches are distributed among these distances:
38 66 0.45
39 3 0.02
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 4 0.03
46 66 0.45
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.37
Consensus pattern (44 bp):
TGCCATGGTATCTTTCAACCATGGTCTTAACATTCATATCAGGT
Found at i:68671198 original size:62 final size:62
Alignment explanation
Indices: 68671092--68671246 Score: 256
Period size: 62 Copynumber: 2.5 Consensus size: 62
68671082 ACCCTAATTC
* * * *
68671092 GGATTACCCGTCCGGGCTAAATCCATTTTACACGTATTCTTCGGGAGGGCTATATCAGAATA
1 GGATCACCCGTCCGGGCTAGATCCTTTTTACACATATTCTTCGGGAGGGCTATATCAGAATA
* *
68671154 GGATCACCTGTCCGGGCTAGATCCTTTTTACACATATTCTTCGGGAGGGCTATATCAGGATA
1 GGATCACCCGTCCGGGCTAGATCCTTTTTACACATATTCTTCGGGAGGGCTATATCAGAATA
68671216 GGATCACCCGTCCGGGCTAGATCCTTTTTAC
1 GGATCACCCGTCCGGGCTAGATCCTTTTTAC
68671247 CGTCAATTCA
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 86 1.00
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.30
Consensus pattern (62 bp):
GGATCACCCGTCCGGGCTAGATCCTTTTTACACATATTCTTCGGGAGGGCTATATCAGAATA
Found at i:68673140 original size:30 final size:30
Alignment explanation
Indices: 68673097--68673167 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 30
68673087 TTATATACTA
*
68673097 ATAAAATAATAATAATATCTTATTAAAGT-ATT
1 ATAAAATAAT-AT-ATATCTAATTAAA-TAATT
*
68673129 AATAAAATAATATTTATCTAATTAAATAATT
1 -ATAAAATAATATATATCTAATTAAATAATT
68673160 ATAAAATA
1 ATAAAATA
68673168 TCAAAATATC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
30 9 0.26
31 14 0.40
32 2 0.06
33 10 0.29
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.39
Consensus pattern (30 bp):
ATAAAATAATATATATCTAATTAAATAATT
Found at i:68675770 original size:23 final size:25
Alignment explanation
Indices: 68675744--68675790 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
68675734 TATCATTCAT
*
68675744 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
68675767 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
68675791 TATATTATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:68676159 original size:45 final size:46
Alignment explanation
Indices: 68676061--68676213 Score: 179
Period size: 46 Copynumber: 3.4 Consensus size: 46
68676051 CATAGTGTCT
* * *
68676061 TTTCAACTATGGTCTTACTCATTTTC-TGTCATGCTGCCATGGTATC
1 TTTCAACCATGGTCTTACTC-TTTTCATGTCACGTTGCCATGGTATC
*
68676107 TTTCAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACTCTTTTCATGTCACGTTGCCATGGTATC
* * * * * *
68676153 -TTCAACCATGGTCTTACACATCTCATATCAGGTT--CTTGGTATC
1 TTTCAACCATGGTCTTACTCTTTTCATGTCACGTTGCCATGGTATC
68676196 TTTCAACCATGGTCTTAC
1 TTTCAACCATGGTCTTAC
68676214 ACAACAGGTT
Statistics
Matches: 94, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
43 8 0.09
44 17 0.18
45 33 0.35
46 36 0.38
ACGTcount: A:0.20, C:0.25, G:0.14, T:0.41
Consensus pattern (46 bp):
TTTCAACCATGGTCTTACTCTTTTCATGTCACGTTGCCATGGTATC
Found at i:68676549 original size:60 final size:62
Alignment explanation
Indices: 68676454--68676601 Score: 246
Period size: 60 Copynumber: 2.4 Consensus size: 62
68676444 TAATTCGATT
* * *
68676454 ACCCGTCCGGGCTAAATCCATTTTACACGTATTCTTCGGGAGGGCTATATC-GAATAGGATC
1 ACCCGTCCGGGCTAGATCCTTTTTACACATATTCTTCGGGAGGGCTATATCAGAATAGGATC
*
68676515 A-CCGTCCGGGCTAGATCCTTTTTACACATATTCTTCGGGAGGGCTATATCAGGATAGGATC
1 ACCCGTCCGGGCTAGATCCTTTTTACACATATTCTTCGGGAGGGCTATATCAGAATAGGATC
68676576 ACCCGTCCGGGCTAGATCCTTTTTAC
1 ACCCGTCCGGGCTAGATCCTTTTTAC
68676602 CGTCAATTCT
Statistics
Matches: 81, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
60 46 0.57
61 11 0.14
62 24 0.30
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.29
Consensus pattern (62 bp):
ACCCGTCCGGGCTAGATCCTTTTTACACATATTCTTCGGGAGGGCTATATCAGAATAGGATC
Found at i:68680710 original size:181 final size:180
Alignment explanation
Indices: 68680460--68680794 Score: 386
Period size: 181 Copynumber: 1.9 Consensus size: 180
68680450 GGTAACCAGT
* * * *
68680460 CTAAATTTTACAGATCTGGGCTCGCCGAGCAAGTGTGGACGCAGGTTCGAAGAACTCGCCTTACC
1 CTAAAATTTACAGATCTAGGCTCGCCCAGCAAGTGTGGACGCAGGTTCGAAGAACTCGCCTAACC
68680525 CTAAG-CAGTAGGCGTAA-G-GCT-AAATTTACAAAGTATCTGGGCTCAGCCGAGCAGTGGTGGA
66 CTAAGACAGTAGG-GTAACGTGCTAAAATTT-CAAAG-ATCTGGGCT--GCCGAGCAGTGGTGGA
68680586 AG-CAGGTTC-AAAAACTCGCCTTAACCCCTAAGCAGTTAAGGGTAAAAGGAGGGAG
126 AGTC-GG-TCGAAAAACTCGCCTTAACCCCTAAGCAGTTAAGGGTAAAAGGAGGGAG
*
68680641 CTAAAATTTACAGATCTAGGCTCGCGCCAGC-AGTGGTGGAGGCAGG-TCGAAG-ACT-G-CTAA
1 CTAAAATTTACAGATCTAGGCTCGC-CCAGCAAGT-GTGGACGCAGGTTCGAAGAACTCGCCTAA
* * *
68680701 CCCCCCTAAGCACAGTAGGGTAACGTGCTAAAATTTTAAAGATCTGGGCTGCTGAGTAGTGGTGG
64 ---CCCTAAG-ACAGTAGGGTAACGTGCTAAAATTTCAAAGATCTGGGCTGCCGAGCAGTGGTGG
* *
68680766 ATGTCGGTCGAAGAACTCGCCTTAACCCC
125 AAGTCGGTCGAAAAACTCGCCTTAACCCC
68680795 CCTTTAAAAA
Statistics
Matches: 132, Mismatches: 10, Indels: 24
0.80 0.06 0.14
Matches are distributed among these distances:
178 3 0.02
179 1 0.01
180 5 0.04
181 74 0.56
182 19 0.14
183 17 0.13
184 7 0.05
185 6 0.05
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.21
Consensus pattern (180 bp):
CTAAAATTTACAGATCTAGGCTCGCCCAGCAAGTGTGGACGCAGGTTCGAAGAACTCGCCTAACC
CTAAGACAGTAGGGTAACGTGCTAAAATTTCAAAGATCTGGGCTGCCGAGCAGTGGTGGAAGTCG
GTCGAAAAACTCGCCTTAACCCCTAAGCAGTTAAGGGTAAAAGGAGGGAG
Found at i:68680923 original size:267 final size:256
Alignment explanation
Indices: 68679983--68681106 Score: 890
Period size: 267 Copynumber: 4.2 Consensus size: 256
68679973 ATCACACCCG
68679983 CTTAACCCCTTAAGA--AGTAGGGTAACAGGCTAAAAATTTAC-AGATCTGGGC-CTCGCCGAGC
1 CTTAACCCCTTAA-ACCAGTAGGGT-ACAGGCT--AAATTTACAAGATCTGGGCTCTC-CCGA-C
* *
68680044 AGTAGTGCGAGCAGGTCGATAGACTCGCCTTAA-CCCTAAGCAGTAGGGTTAACTAGGCTAAATT
60 AGTGGTG-GAGCAGGTCGA-AGACTCGCCTTAACCCCTAAGCAGTAGGG-TAAC-AGGCTAAAAT
*
68680108 TTAACAGATCTGGGCCTCGCCGAGCAAGTGTGTGGAGCAGGTCGACAGACTCCGCCTTAA-CCCC
121 TT-ACAGATCTGGG-CTCGCCGAGC-AGTG-GTGGAGCAGGTCGATAGACT-CGCCTTAACCCCC
* * *
68680172 TAAGTAGTAGGGTAACAG-GCTAAAA-TTT-AATATCTGGGCTGCCGAGCGCTGGTGGAGCAGGG
181 TAAGCAGTAGGGTAACAGTGCTAAAATTTTAAAGATCTGGGCTGCCGAGAG-TGGTGGAGCA-GG
68680234 TCG-AGACGACTCGC
244 TCGAAGA--ACTCGC
* ** * * * *
68680248 CTTAACCTCTCTAGAGTCAGTAGGGTACAGGCTTAAATTTACCCAGATCTGAG--CTGCCAAGCA
1 CTTAACCCCT-TA-AACCAGTAGGGTACAGGC-TAAATTTA-CAAGATCTGGGCTCTCCCGA-CA
*
68680311 GTGGTGGAGCAGGTCGAAGACTCGCTTTAAACTCCCCTAAAGCAGTA-GGTAACAGGCTGCATAA
61 GTGGTGGAGCAGGTCGAAGACTCGCCTT-AA--CCCCT-AAGCAGTAGGGTAACAGGCT--A-AA
*
68680375 ATTGTACAGATCTGGGCTCACCGAGCCAGTGGTGGAGCAGGTCGATTGAGACTCGCCTTAACCCC
119 ATT-TACAGATCTGGGCTCGCCGAG-CAGTGGTGGAGCAGGTCGA-T-AGACTCGCCTTAACCCC
*
68680440 C-AAGCAGTAGGGTAACCAGT-CT-AAATTTTACAGATCTGGGCTCGCCGAGCAAGT-GTGGACG
180 CTAAGCAGTAGGGTAA-CAGTGCTAAAATTTTAAAGATCTGGGCT-GCCGAG--AGTGGTGGA-G
68680501 CAGGTTCGAAGAACTCGC
240 CAGG-TCGAAGAACTCGC
* **
68680519 CTT-A-CCC-T-AAGCAGTAGGCGTA-AGGCTAAATTTACAAAGTATCTGGGCTCAGCCGAGCAG
1 CTTAACCCCTTAAACCAGTAGG-GTACAGGCTAAATTTAC-AAG-ATCTGGGCTCTCCCGA-CAG
* * *
68680579 TGGTGGAAGCAGGTTCAAAAACTCGCCTTAACCCCTAAGCAGTTAAGGGTAAAAGGAGGGAGCTA
62 TGGTGG-AGCAGG-TCGAAGACTCGCCTTAACCCCTAAGCAG-T-AGGGT--AA-CA--G-GCTA
* *
68680644 AAATTTACAGATCTAGGCTCGCGCCAGCAGTGGTGGAGGCAGGTCGA-AGACT-G-C-TAACCCC
117 AAATTTACAGATCTGGGCTCGC-CGAGCAGTGGTGGA-GCAGGTCGATAGACTCGCCTTAA-CCC
*
68680705 CCTAAGCACAGTAGGGTAAC-GTGCTAAAATTTTAAAGATCTGGGCTGCTGAGTAGTGGTGGATG
179 CCTAAG--CAGTAGGGTAACAGTGCTAAAATTTTAAAGATCTGGGCTGCCGAG-AGTGGTGGA-G
68680769 TC-GGTCGAAGAACTCGC
240 -CAGGTCGAAGAACTCGC
68680786 CTTAACCCCCCTTTAAAAACCAGTAGGGGTAACAGGCTAAATTTACAAGATCGTGGGCTCTCCCG
1 CTTAA--CCCC-TT--AAACCAGTA-GGGT-ACAGGCTAAATTTACAAGATC-TGGGCTCTCCCG
*
68680851 -CAAGTGGTGGAG-TGGTCGAAGACTCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAA
58 AC-AGTGGTGGAGCAGGTCGAAGACTCGCCTTAA-CCCCTAAGCAGTAGGGTAACAGGCT-AAAA
* *
68680914 TTTACAGATCTGGGCTCGCCGAGCAGT-GTGGAAGCAGGTTGA-AGACTCGCCTTAA-GCCCTAC
120 TTTACAGATCTGGGCTCGCCGAGCAGTGGTGG-AGCAGGTCGATAGACTCGCCTTAACCCCCTA-
* * *
68680976 AGCAGTAGGGTAAACAG-GCTAAAAGTTTACAGAT-TGGGCTCACCGAGCAGTGGTGGAGCAAGG
183 AGCAGTAGGGT-AACAGTGCTAAAATTTTAAAGATCTGGGCT-GCCGAG-AGTGGTGGAGC-AGG
68681039 TCGAAGAA-TACCGC
244 TCGAAGAACT--CGC
*
68681053 CTTTAAACCCC-T-AA-CAGTAGGCGTAACAGGCTAAAAGTTACAA-ATCT-GGCTCTC
1 C-TT-AACCCCTTAAACCAGTAGG-GT-ACAGGCT-AAATTTACAAGATCTGGGCTCTC
68681107 GCAGCATGGT
Statistics
Matches: 722, Mismatches: 49, Indels: 182
0.76 0.05 0.19
Matches are distributed among these distances:
259 7 0.01
260 3 0.00
261 18 0.02
262 11 0.02
263 1 0.00
264 21 0.03
265 84 0.12
266 98 0.14
267 105 0.15
268 98 0.14
269 89 0.12
270 41 0.06
271 43 0.06
272 13 0.02
273 22 0.03
274 16 0.02
275 3 0.00
276 20 0.03
277 16 0.02
278 13 0.02
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.21
Consensus pattern (256 bp):
CTTAACCCCTTAAACCAGTAGGGTACAGGCTAAATTTACAAGATCTGGGCTCTCCCGACAGTGGT
GGAGCAGGTCGAAGACTCGCCTTAACCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCT
GGGCTCGCCGAGCAGTGGTGGAGCAGGTCGATAGACTCGCCTTAACCCCCTAAGCAGTAGGGTAA
CAGTGCTAAAATTTTAAAGATCTGGGCTGCCGAGAGTGGTGGAGCAGGTCGAAGAACTCGC
Found at i:68680962 original size:86 final size:85
Alignment explanation
Indices: 68679983--68681101 Score: 986
Period size: 86 Copynumber: 12.6 Consensus size: 85
68679973 ATCACACCCG
* * *
68679983 CTTAACCCCTTAAGAAGTAGGGTAACAGGCTAAAAATTTACAGATCTGGGCCTCGCCGAGCAGTA
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCT-AAAATTTACAGATCTGGG-CTCGCCGAGCAGTG
68680048 GTGCGAGCAGGTCGATAGACTCGC
64 GTG-GAGCAGGTCGA-AGACTCGC
*
68680072 CTTAA--CCCTAAGCAGTAGGGTTAACTAGGCTAAATTTTAACAGATCTGGGCCTCGCCGAGCAA
1 CTTAACCCCCTAAGCAGTAGGG-TAAC-AGGCTAAAATTT-ACAGATCTGGG-CTCGCCGAGC-A
68680135 GTGTGTGGAGCAGGTCGACAGACTCCGC
61 GTG-GTGGAGCAGGTCGA-AGACT-CGC
* *
68680163 CTTAA-CCCCTAAGTAGTAGGGTAACAGGCTAAAATTTA-ATATCTGGGCT-GCCGAGC-GCTGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGCAG-TGG
68680224 TGGAGCAGGGTCGAGACGACTCGC
65 TGGAGCA-GGTCGA-A-GACTCGC
* * * *
68680248 CTTAACCTCTCTAGAGTCAGTAGGGT-ACAGGCTTAAATTTACCCAGATCTGAGCT-GCCAAGCA
1 CTTAACC-CCCTA-AG-CAGTAGGGTAACAGGCTAAAATTTA--CAGATCTGGGCTCGCCGAGCA
68680311 GTGGTGGAGCAGGTCGAAGACTCGC
61 GTGGTGGAGCAGGTCGAAGACTCGC
* *
68680336 TTTAAACTCCCCTAAAGCAGTA-GGTAACAGGCTGCATAAATTGTACAGATCTGGGCTCACCGAG
1 CTT-AAC-CCCCT-AAGCAGTAGGGTAACAGGCT--A-AAATT-TACAGATCTGGGCTCGCCGAG
68680400 CCAGTGGTGGAGCAGGTCGATTGAGACTCGC
59 -CAGTGGTGGAGCAGGTCGA---AGACTCGC
* *
68680431 CTTAACCCCC-AAGCAGTAGGGTAACCAGTCTAAATTTTACAGATCTGGGCTCGCCGAGCAAGT-
1 CTTAACCCCCTAAGCAGTAGGGTAA-CAGGCTAAAATTTACAGATCTGGGCTCGCCGAGC-AGTG
68680494 GTGGACGCAGGTTCGAAGAACTCGC
64 GTGGA-GCAGG-TCGAAG-ACTCGC
68680519 CTT-A--CCCTAAGCAGTAGGCGT-A-AGGCT-AAATTTACAAAGTATCTGGGCTCAGCCGAGCA
1 CTTAACCCCCTAAGCAGTAGG-GTAACAGGCTAAAATTTAC--AG-ATCTGGGCTC-GCCGAGCA
* *
68680578 GTGGTGGAAGCAGGTTCAAAAACTCGC
61 GTGGTGG-AGCAGG-TCGAAGACTCGC
* * *
68680605 CTTAA-CCCCTAAGCAGTTAAGGGTAAAAGGAGGGAGCTAAAATTTACAGATCTAGGCTCGCGCC
1 CTTAACCCCCTAAGCAG-T-AGGGT--AA-CA--G-GCTAAAATTTACAGATCTGGGCTCGC-CG
68680669 AGCAGTGGTGGAGGCAGGTCGAAGACT-G-
57 AGCAGTGGTGGA-GCAGGTCGAAGACTCGC
* * *
68680697 C-TAACCCCCCTAAGCACAGTAGGGTAAC-GTGCTAAAATTTTAAAGATCTGGGCT-GCTGAGTA
1 CTTAA-CCCCCTAAG--CAGTAGGGTAACAG-GCTAAAA-TTTACAGATCTGGGCTCGCCGAGCA
68680759 GTGGTGGATGTC-GGTCGAAGAACTCGC
61 GTGGTGGA-G-CAGGTCGAAG-ACTCGC
* *
68680786 CTTAACCCCCCTTTAAAAACCAGTAGGGGTAACAGGCT-AAATTTACAAGATCGTGGGCTCTCC-
1 CTTAA-CCCCC--T---AAGCAGTA-GGGTAACAGGCTAAAATTTAC-AGATC-TGGGCTCGCCG
* *
68680849 CGCAAGTGGTGGAG-TGGTCGAAGACTCGC
57 AGC-AGTGGTGGAGCAGGTCGAAGACTCGC
68680878 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTTACAGATCTGGGCTCGCCGAGCAGT-G
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCT-AAAATTTACAGATCTGGGCTCGCCGAGCAGTGG
*
68680942 TGGAAGCAGGTTGAAGACTCGC
65 TGG-AGCAGGTCGAAGACTCGC
* *
68680964 CTTAA-GCCCTACAGCAGTAGGGTAAACAGGCTAAAAGTTTACAGAT-TGGGCTCACCGAGCAGT
1 CTTAACCCCCTA-AGCAGTAGGGT-AACAGGCTAAAA-TTTACAGATCTGGGCTCGCCGAGCAGT
*
68681027 GGTGGAGCAAGGTCGAAGAATACCGC
63 GGTGGAGC-AGGTCGAAGACT--CGC
* * *
68681053 CTTTAAACCCCTAA-CAGTAGGCGTAACAGGCTAAAAGTTACAAATCTGG
1 C-TTAACCCCCTAAGCAGTAGG-GTAACAGGCTAAAATTTACAGATCTGG
68681102 CTCTCGCAGC
Statistics
Matches: 873, Mismatches: 59, Indels: 196
0.77 0.05 0.17
Matches are distributed among these distances:
83 7 0.01
84 17 0.02
85 53 0.06
86 131 0.15
87 102 0.12
88 103 0.12
89 109 0.12
90 76 0.09
91 73 0.08
92 59 0.07
93 44 0.05
94 33 0.04
95 52 0.06
96 3 0.00
97 3 0.00
98 8 0.01
ACGTcount: A:0.29, C:0.23, G:0.28, T:0.21
Consensus pattern (85 bp):
CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTGGGCTCGCCGAGCAGTGGT
GGAGCAGGTCGAAGACTCGC
Found at i:68683706 original size:24 final size:24
Alignment explanation
Indices: 68683679--68683732 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
68683669 ATTAGAAGAC
*
68683679 ATAATATAATAATATTA-ACAAATA
1 ATAATATAA-AATAATATACAAATA
68683703 ATAATATAAAATAATATACAAATA
1 ATAATATAAAATAATATACAAATA
68683727 A-AATAT
1 ATAATAT
68683733 GTTTCCTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 11 0.39
24 17 0.61
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (24 bp):
ATAATATAAAATAATATACAAATA
Found at i:68710850 original size:30 final size:30
Alignment explanation
Indices: 68710787--68710850 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 30
68710777 TTTTATGTGA
*
68710787 AATTTAAACATTTTATTGAAATAATATTTT
1 AATTTAAACATTTTATTGAAATAATATTAT
*
68710817 AATTTAAATCACTTTTATT-TAATAA-ATTAT
1 AATTTAAA-CA-TTTTATTGAAATAATATTAT
68710847 AATT
1 AATT
68710851 AACAGTCTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 16 0.53
31 7 0.23
32 7 0.23
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.50
Consensus pattern (30 bp):
AATTTAAACATTTTATTGAAATAATATTAT
Found at i:68711819 original size:30 final size:27
Alignment explanation
Indices: 68711771--68711838 Score: 73
Period size: 30 Copynumber: 2.4 Consensus size: 27
68711761 AATCTCAAAA
*
68711771 TTATATATAAATTTAATTTAATGTACAATT
1 TTATAAAT-AATTTAATTTAATGT--AATT
*
68711801 TTATAAATAATTTAAATTTTATGTAATT
1 TTATAAATAATTT-AATTTAATGTAATT
*
68711829 TTATACATAA
1 TTATAAATAA
68711839 ATTTTTTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 13 0.38
29 5 0.15
30 16 0.47
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (27 bp):
TTATAAATAATTTAATTTAATGTAATT
Found at i:68712260 original size:15 final size:15
Alignment explanation
Indices: 68712220--68712280 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 15
68712210 ACCGATTGAT
68712220 AATATAGAAAAAGAA
1 AATATAGAAAAAGAA
* * * *
68712235 AAGAAAAAAAAAGGA
1 AATATAGAAAAAGAA
*
68712250 AATATAGAAAATG-A
1 AATATAGAAAAAGAA
68712264 AATA-AGTAAAAAGAA
1 AATATAG-AAAAAGAA
68712279 AA
1 AA
68712281 GAAATAAAGA
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
13 2 0.06
14 10 0.29
15 23 0.66
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.11
Consensus pattern (15 bp):
AATATAGAAAAAGAA
Found at i:68712628 original size:21 final size:23
Alignment explanation
Indices: 68712587--68712629 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
68712577 GTAATAAGAG
68712587 TAAATTATGCTAAATTAAATATC
1 TAAATTATGCTAAATTAAATATC
*
68712610 TAAATT-TGC-AAATTGAATAT
1 TAAATTATGCTAAATTAAATAT
68712630 AATATACCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 3 0.16
23 6 0.32
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (23 bp):
TAAATTATGCTAAATTAAATATC
Found at i:68713941 original size:24 final size:24
Alignment explanation
Indices: 68713907--68713956 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
68713897 TTACGAGAGG
*
68713907 TTTGGGGAATATTTAAGGAAGCAC
1 TTTGGGAAATATTTAAGGAAGCAC
68713931 TTTGGGAAATATTTAAGGAAGCAC
1 TTTGGGAAATATTTAAGGAAGCAC
68713955 TT
1 TT
68713957 AATGTGTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.34, C:0.08, G:0.26, T:0.32
Consensus pattern (24 bp):
TTTGGGAAATATTTAAGGAAGCAC
Found at i:68719013 original size:22 final size:19
Alignment explanation
Indices: 68718987--68719026 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 19
68718977 TGTATTCTAT
68718987 ATTTTATCTTTAATTTCTAAAC
1 ATTTTA-CTTT-A-TTCTAAAC
68719009 ATTTTACTTTATTCTAAA
1 ATTTTACTTTATTCTAAA
68719027 TAAAAGTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 1 0.06
21 4 0.22
22 6 0.33
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.55
Consensus pattern (19 bp):
ATTTTACTTTATTCTAAAC
Found at i:68728214 original size:21 final size:22
Alignment explanation
Indices: 68728179--68728219 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
68728169 AACATTTTTT
68728179 TATAAAATTACAA-TTAAATCA
1 TATAAAATTACAATTTAAATCA
68728200 TATAAAATTTA-AATTTAAAT
1 TATAAAA-TTACAATTTAAAT
68728220 TGATATATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (22 bp):
TATAAAATTACAATTTAAATCA
Found at i:68734318 original size:15 final size:16
Alignment explanation
Indices: 68734293--68734323 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
68734283 AAATTGTGAG
68734293 AATTATTATTTTAAAT
1 AATTATTATTTTAAAT
68734309 AATT-TTATTTTAAAT
1 AATTATTATTTTAAAT
68734324 TTTAATGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
AATTATTATTTTAAAT
Found at i:68751880 original size:19 final size:19
Alignment explanation
Indices: 68751841--68751877 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
68751831 ATTTTTCAAA
68751841 ATCATATAACTTAAATTTT
1 ATCATATAACTTAAATTTT
*
68751860 ATCATA-AACTTTAATTTT
1 ATCATATAACTTAAATTTT
68751878 TATGTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.49
Consensus pattern (19 bp):
ATCATATAACTTAAATTTT
Found at i:68766554 original size:16 final size:16
Alignment explanation
Indices: 68766533--68766564 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
68766523 AAGTAGTTAT
68766533 CTATTTACTTATCATA
1 CTATTTACTTATCATA
68766549 CTATTTACTTATCATA
1 CTATTTACTTATCATA
68766565 ATCGACACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.19, G:0.00, T:0.50
Consensus pattern (16 bp):
CTATTTACTTATCATA
Found at i:68767060 original size:48 final size:48
Alignment explanation
Indices: 68767005--68767096 Score: 184
Period size: 48 Copynumber: 1.9 Consensus size: 48
68766995 ACATCTATTT
68767005 ATTCAAACATATTCCATAATTTTTATGGTCAGATGTAATTATTAATAA
1 ATTCAAACATATTCCATAATTTTTATGGTCAGATGTAATTATTAATAA
68767053 ATTCAAACATATTCCATAATTTTTATGGTCAGATGTAATTATTA
1 ATTCAAACATATTCCATAATTTTTATGGTCAGATGTAATTATTA
68767097 CAACCTTAAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.42
Consensus pattern (48 bp):
ATTCAAACATATTCCATAATTTTTATGGTCAGATGTAATTATTAATAA
Found at i:68768376 original size:20 final size:20
Alignment explanation
Indices: 68768351--68768393 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
68768341 TCATGAATGG
*
68768351 TTCTTTCATTGATGCTAATT
1 TTCTTTCATTGATACTAATT
68768371 TTCTTTCATTGATACTAATT
1 TTCTTTCATTGATACTAATT
68768391 TTC
1 TTC
68768394 CTTACGGATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.21, C:0.16, G:0.07, T:0.56
Consensus pattern (20 bp):
TTCTTTCATTGATACTAATT
Done.