Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 6 of 290
Found at i:1632339 original size:27 final size:26
Alignment explanation
Indices: 1632320--1632450 Score: 120
Period size: 27 Copynumber: 4.9 Consensus size: 26
1632310 GTAATTCTGT
*
1632320 AAATCAGGGGTACTTTGGTAATTTTAC
1 AAATCAGGGGTATTTTGGTAA-TTTAC
* * ** *
1632347 AAGTCAAGGGTATTTCAGTAATTTCAA
1 AAATCAGGGGTATTTTGGTAATTT-AC
*
1632374 AAATTAGGGGTATTTTGGTAATTTTAC
1 AAATCAGGGGTATTTTGGTAA-TTTAC
* * *
1632401 AAACCAAGGGTATTTTGGTAATTTTGC
1 AAATCAGGGGTATTTTGGTAA-TTTAC
1632428 AAA-CTAGGGGTATTTTGGTAATT
1 AAATC-AGGGGTATTTTGGTAATT
1632451 GGTAAACTAA
Statistics
Matches: 84, Mismatches: 17, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
26 6 0.07
27 75 0.89
28 3 0.04
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.38
Consensus pattern (26 bp):
AAATCAGGGGTATTTTGGTAATTTAC
Found at i:1632358 original size:81 final size:81
Alignment explanation
Indices: 1631889--1632328 Score: 677
Period size: 81 Copynumber: 5.4 Consensus size: 81
1631879 GTAAATTCAC
* * **
1631889 AATCGAGGGTAAAACGGTAATTTTGTAAATTAAGGGTAAAACGATAATTCTGTAACTCAAGGGTA
1 AATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAACTCAAGGGTA
1631954 AAATAGTGATTCTGTA
66 AAATAGTGATTCTGTA
*
1631970 AATCAAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAACTCAAGGGTA
1 AATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAACTCAAGGGTA
1632035 AAATAGTGATTCTGTA
66 AAATAGTGATTCTGTA
* *
1632051 AATCAAGGGTAAAACGGTAATTCTGTGAATCGAGGGTAAAACGATAATTCTGTAACTCAATGGTA
1 AATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAACTCAAGGGTA
* *
1632116 AAACAATGATTCTGTA
66 AAATAGTGATTCTGTA
*
1632132 AATCAAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTGTAACTCAAGGGTA
1 AATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAACTCAAGGGTA
1632197 AAATAGTGATTCTGTA
66 AAATAGTGATTCTGTA
* * * * * *
1632213 AATCAATGGTAAAACGATAATTCTGTGAATCGAGGGTAAAAC-AGTAATTCTATAAATCGAGGGT
1 AATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGA-TAATTCTGTAACTCAAGGGT
* * *
1632277 AAAACAATAATTCTGTA
65 AAAATAGTGATTCTGTA
*
1632294 AATCAAGAGTAAAACGGTAATTCTGTAAATC-AGGG
1 AATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGG
1632329 GTACTTTGGT
Statistics
Matches: 329, Mismatches: 29, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
80 5 0.02
81 324 0.98
ACGTcount: A:0.41, C:0.11, G:0.21, T:0.27
Consensus pattern (81 bp):
AATCAAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTGTAACTCAAGGGTA
AAATAGTGATTCTGTA
Found at i:1632368 original size:54 final size:53
Alignment explanation
Indices: 1632310--1632450 Score: 158
Period size: 54 Copynumber: 2.6 Consensus size: 53
1632300 GAGTAAAACG
* * **
1632310 GTAATTCTGTAAATCAGGGGTACTTTGGTAATTTTACAAGTCAAGGGTATTTCA
1 GTAATT-TGAAAATCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCA
* * **
1632364 GTAATTTCAAAAATTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTG
1 GTAATTT-GAAAATCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCA
*
1632418 GTAATTTTGCAAA-CTAGGGGTATTTTGGTAATT
1 GTAA-TTTGAAAATC-AGGGGTATTTTGGTAATT
1632451 GGTAAACTAA
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
53 1 0.01
54 69 0.95
55 3 0.04
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (53 bp):
GTAATTTGAAAATCAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCA
Found at i:1632457 original size:26 final size:25
Alignment explanation
Indices: 1632378--1632459 Score: 83
Period size: 27 Copynumber: 3.1 Consensus size: 25
1632368 TTTCAAAAAT
*
1632378 TAGGGGTATTTTGGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTGT--AAAC
* * *
1632405 CAAGGGTATTTTGGTAATTTTGCAAAC
1 TAGGGGTATTTTGGTAA--TTGTAAAC
1632432 TAGGGGTATTTTGGTAATTGGTAAAC
1 TAGGGGTATTTTGGTAATT-GTAAAC
1632458 TA
1 TA
1632460 AAGTATTCTA
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
25 2 0.04
26 7 0.16
27 34 0.76
29 2 0.04
ACGTcount: A:0.29, C:0.07, G:0.24, T:0.39
Consensus pattern (25 bp):
TAGGGGTATTTTGGTAATTGTAAAC
Found at i:1633357 original size:27 final size:27
Alignment explanation
Indices: 1633327--1633427 Score: 96
Period size: 27 Copynumber: 3.7 Consensus size: 27
1633317 CAGTTATCGA
* * *
1633327 TGGCTTTGCCACATTACCTGTTTCTGG
1 TGGCTATGCCACAATATCTGTTTCTGG
*
1633354 TGGCTATGCCACAAATATCT-ATTCTGG
1 TGGCTATGCCAC-AATATCTGTTTCTGG
* *
1633381 TGGCTCTGCCACAATATCTGTATCTGG
1 TGGCTATGCCACAATATCTGTTTCTGG
* * **
1633408 TGACTCTATCACAATATCTG
1 TGGCTATGCCACAATATCTG
1633428 ATAACTGAGC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
26 7 0.11
27 50 0.81
28 5 0.08
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (27 bp):
TGGCTATGCCACAATATCTGTTTCTGG
Found at i:1633602 original size:6 final size:6
Alignment explanation
Indices: 1633586--1633715 Score: 52
Period size: 6 Copynumber: 21.0 Consensus size: 6
1633576 GATTCAATTA
* * * *
1633586 TCTGAT ACTGAT TCTGATT TTTGAT TCTG-T TACCTCAT ACTGAT TCTGAT
1 TCTGAT TCTGAT TCTGA-T TCTGAT TCTGAT T--CTGAT TCTGAT TCTGAT
* * * * * * *
1633636 TTTGAT TCTG-T TACAGGAT ACTGAT TCTAAT TTTGAT TCTG-T CACCTAAT
1 TCTGAT TCTGAT T-C-TGAT TCTGAT TCTGAT TCTGAT TCTGAT --TCTGAT
*
1633686 TCTGAT TCTGAT TCTGGT TCT-AGT TCTGAT
1 TCTGAT TCTGAT TCTGAT TCTGA-T TCTGAT
1633716 AATGTTTCTT
Statistics
Matches: 88, Mismatches: 24, Indels: 24
0.65 0.18 0.18
Matches are distributed among these distances:
5 5 0.06
6 68 0.77
7 12 0.14
8 3 0.03
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.48
Consensus pattern (6 bp):
TCTGAT
Found at i:1633642 original size:31 final size:31
Alignment explanation
Indices: 1633564--1633698 Score: 162
Period size: 31 Copynumber: 4.3 Consensus size: 31
1633554 TTGCATTCAC
** *
1633564 ATTCTGATTTTTGATTCAATTATCTGATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
*
1633596 ATTCTGATTTTTGATTCTGTTACCTCATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
**
1633628 ATTCTGATTTTGATTCTGTTACAGGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* * * *
1633659 ATTCTAATTTTGATTCTGTCACCTAATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
1633690 ATTCTGATT
1 ATTCTGATT
1633699 CTGGTTCTAG
Statistics
Matches: 89, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
31 54 0.61
32 35 0.39
ACGTcount: A:0.22, C:0.16, G:0.13, T:0.49
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:1641374 original size:37 final size:38
Alignment explanation
Indices: 1641327--1641409 Score: 123
Period size: 37 Copynumber: 2.2 Consensus size: 38
1641317 GGCACGAAGG
* * *
1641327 CCCGAATATAATACCAGCACTAGGCCTGCGG-ATTTAT
1 CCCGAATATAATACCAGCACGAAGCCTGCGGAATTTAA
*
1641364 CCCGGATATAATACCAGCACGAAGCCTGCGGAATTTAA
1 CCCGAATATAATACCAGCACGAAGCCTGCGGAATTTAA
1641402 CCCGAATA
1 CCCGAATA
1641410 CACATCAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
37 28 0.70
38 12 0.30
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACGAAGCCTGCGGAATTTAA
Found at i:1650126 original size:17 final size:17
Alignment explanation
Indices: 1650087--1650127 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
1650077 TTTACCCATA
*
1650087 TGGGCCCCACATGCCCG
1 TGGGGCCCACATGCCCG
* *
1650104 TCGGGCCCACATGCCCT
1 TGGGGCCCACATGCCCG
1650121 TGGGGCC
1 TGGGGCC
1650128 TGTACAACCC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.10, C:0.44, G:0.32, T:0.15
Consensus pattern (17 bp):
TGGGGCCCACATGCCCG
Found at i:1651731 original size:13 final size:13
Alignment explanation
Indices: 1651715--1651759 Score: 81
Period size: 13 Copynumber: 3.5 Consensus size: 13
1651705 GAAAGCCATC
*
1651715 AGCAAATGAGAGA
1 AGCAAATGAGCGA
1651728 AGCAAATGAGCGA
1 AGCAAATGAGCGA
1651741 AGCAAATGAGCGA
1 AGCAAATGAGCGA
1651754 AGCAAA
1 AGCAAA
1651760 GGAACAAAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.51, C:0.13, G:0.29, T:0.07
Consensus pattern (13 bp):
AGCAAATGAGCGA
Found at i:1655415 original size:21 final size:21
Alignment explanation
Indices: 1655391--1655430 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1655381 TCCTAGGATT
*
1655391 TGAATTGAATTAAATTGAATA
1 TGAAATGAATTAAATTGAATA
*
1655412 TGAAATGGATTAAATTGAA
1 TGAAATGAATTAAATTGAA
1655431 GTTAAATTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.35
Consensus pattern (21 bp):
TGAAATGAATTAAATTGAATA
Found at i:1660997 original size:44 final size:42
Alignment explanation
Indices: 1660900--1661190 Score: 263
Period size: 44 Copynumber: 6.9 Consensus size: 42
1660890 CAATGGTATT
* * *
1660900 TGGCACTAAGTGTGCGAT-TCAAAATAGCTTCGGCTATTTGA
1 TGGCACTAAGTGTGCGATATCGAGATAGCTTCGGCTATTAGA
*
1660941 -GGCACTAAGTGTGCGATATCGAGATAGCTTCGGTTAATTCAGA
1 TGGCACTAAGTGTGCGATATCGAGATAGCTTCGGCT-ATT-AGA
* *** *
1660984 TGGCACTAAGTGTGTAGA-ATCGTTCTAGCTTCGGCTATTTGA
1 TGGCACTAAGTGTG-CGATATCGAGATAGCTTCGGCTATTAGA
* *
1661026 -GGCACTAACTGTGCGATATCGAGATAGCTTCGGTTAATTCAGA
1 TGGCACTAAGTGTGCGATATCGAGATAGCTTCGGCT-ATT-AGA
* *** *
1661069 TGGCACTAAGTGTGTAGA-ATCGTTCTAGCTTCGGCTATTTGA
1 TGGCACTAAGTGTG-CGATATCGAGATAGCTTCGGCTATTAGA
* *
1661111 -GGCACTAACTGTGCGATATCGAGATAGCTTCGGTTAATTCAGA
1 TGGCACTAAGTGTGCGATATCGAGATAGCTTCGGCT-ATT-AGA
***
1661154 TGGCACTAAGTGTGCAGA-ATCGTTCTAGCTTCGGCTA
1 TGGCACTAAGTGTGC-GATATCGAGATAGCTTCGGCTA
1661191 ACCCTTAAAG
Statistics
Matches: 199, Mismatches: 36, Indels: 28
0.76 0.14 0.11
Matches are distributed among these distances:
40 21 0.11
41 66 0.33
42 13 0.07
43 13 0.07
44 80 0.40
45 6 0.03
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (42 bp):
TGGCACTAAGTGTGCGATATCGAGATAGCTTCGGCTATTAGA
Found at i:1661042 original size:85 final size:85
Alignment explanation
Indices: 1660924--1661190 Score: 516
Period size: 85 Copynumber: 3.1 Consensus size: 85
1660914 CGATTCAAAA
*
1660924 TAGCTTCGGCTATTTGAGGCACTAAGTGTGCGATATCGAGATAGCTTCGGTTAATTCAGATGGCA
1 TAGCTTCGGCTATTTGAGGCACTAACTGTGCGATATCGAGATAGCTTCGGTTAATTCAGATGGCA
1660989 CTAAGTGTGTAGAATCGTTC
66 CTAAGTGTGTAGAATCGTTC
1661009 TAGCTTCGGCTATTTGAGGCACTAACTGTGCGATATCGAGATAGCTTCGGTTAATTCAGATGGCA
1 TAGCTTCGGCTATTTGAGGCACTAACTGTGCGATATCGAGATAGCTTCGGTTAATTCAGATGGCA
1661074 CTAAGTGTGTAGAATCGTTC
66 CTAAGTGTGTAGAATCGTTC
1661094 TAGCTTCGGCTATTTGAGGCACTAACTGTGCGATATCGAGATAGCTTCGGTTAATTCAGATGGCA
1 TAGCTTCGGCTATTTGAGGCACTAACTGTGCGATATCGAGATAGCTTCGGTTAATTCAGATGGCA
*
1661159 CTAAGTGTGCAGAATCGTTC
66 CTAAGTGTGTAGAATCGTTC
1661179 TAGCTTCGGCTA
1 TAGCTTCGGCTA
1661191 ACCCTTAAAG
Statistics
Matches: 180, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 180 1.00
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.31
Consensus pattern (85 bp):
TAGCTTCGGCTATTTGAGGCACTAACTGTGCGATATCGAGATAGCTTCGGTTAATTCAGATGGCA
CTAAGTGTGTAGAATCGTTC
Found at i:1664435 original size:79 final size:79
Alignment explanation
Indices: 1664216--1665228 Score: 1811
Period size: 79 Copynumber: 12.8 Consensus size: 79
1664206 GCTACTCGTT
* * * *
1664216 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCG
* *
1664280 GATTTAGTAACTCGCA
64 GAATTAGTATCTCGCA
* * *
1664296 CAAATGCCTTCGGG-CTTAGCCCAGAATTAGT-ACTCGCACAAATGCCTTCGGGCTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGA
1664359 ATTAGTATCTCGCA
66 ATTAGTATCTCGCA
1664373 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGA
1664438 ATTAGTATCTCGCA
66 ATTAGTATCTCGCA
1664452 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGA
1664517 ATTAGTATCTCGCA
66 ATTAGTATCTCGCA
1664531 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGA
1664596 ATTAGTATCTCGCA
66 ATTAGTATCTCGCA
1664610 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGA
1664675 ATTAGTATCTCGCA
66 ATTAGTATCTCGCA
1664689 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGA
1664754 ATTAGTATCTCGCA
66 ATTAGTATCTCGCA
1664768 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGA
1664833 ATTAGTATCTCGCA
66 ATTAGTATCTCGCA
1664847 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGA
1664912 ATTAGTATCTCGCA
66 ATTAGTATCTCGCA
1664926 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGA
1664991 ATTAGTATCTCGCA
66 ATTAGTATCTCGCA
1665005 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGA
1665070 ATTAGTATCTCGCA
66 ATTAGTATCTCGCA
1665084 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGA
1665149 ATTAGTATCTCGCA
66 ATTAGTATCTCGCA
** * * * *
1665163 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCC
1665226 GGA
63 GGA
1665229 CATCATTCAA
Statistics
Matches: 911, Mismatches: 16, Indels: 12
0.97 0.02 0.01
Matches are distributed among these distances:
77 36 0.04
78 37 0.04
79 804 0.88
80 34 0.04
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGA
ATTAGTATCTCGCA
Found at i:1667321 original size:12 final size:12
Alignment explanation
Indices: 1667304--1667331 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
1667294 AGCAAAATTG
1667304 GTTTTTAGCGGC
1 GTTTTTAGCGGC
1667316 GTTTTTAGCGGC
1 GTTTTTAGCGGC
1667328 GTTT
1 GTTT
1667332 GAATGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.14, G:0.32, T:0.46
Consensus pattern (12 bp):
GTTTTTAGCGGC
Found at i:1667636 original size:40 final size:38
Alignment explanation
Indices: 1667513--1667658 Score: 132
Period size: 40 Copynumber: 3.7 Consensus size: 38
1667503 CCTTTGGTGG
* * * *
1667513 CTTTAGCGGCGCTTTCTAAAAATGCCGCTAAAGATCGAG
1 CTTTAGCGGCGCTTTTTAAAAACGCCGCTAATG-TCGAC
**
1667552 AATTAGCGGCGCTTTTCTAAAAACGCCGCTATATGTAC-AC
1 CTTTAGCGGCGCTTTT-TAAAAACGCCGCTA-ATGT-CGAC
*
1667592 CTTTAGCGGCGCTTTTTAAAAAACGCCGCTAATGCTCGAT
1 CTTTAGCGGCGCTTTTT-AAAAACGCCGCTAATG-TCGAC
* **
1667632 CTTTAGCGTCATTTTTTGAAAAACGCC
1 CTTTAGCGGCGCTTTTT-AAAAACGCC
1667659 ACAAAAATAG
Statistics
Matches: 88, Mismatches: 13, Indels: 11
0.79 0.12 0.10
Matches are distributed among these distances:
39 18 0.20
40 67 0.76
41 3 0.03
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.29
Consensus pattern (38 bp):
CTTTAGCGGCGCTTTTTAAAAACGCCGCTAATGTCGAC
Found at i:1670121 original size:43 final size:43
Alignment explanation
Indices: 1670056--1670151 Score: 185
Period size: 43 Copynumber: 2.3 Consensus size: 43
1670046 ATTTAGCTAA
1670056 TACA-TTAAAAAAGTATTGTTCTAGTAATCATTATGCTTGTGT
1 TACAGTTAAAAAAGTATTGTTCTAGTAATCATTATGCTTGTGT
1670098 TACAGTTAAAAAAGTATTGTTCTAGTAATCATTATGCTTGTGT
1 TACAGTTAAAAAAGTATTGTTCTAGTAATCATTATGCTTGTGT
1670141 TACAGTTAAAA
1 TACAGTTAAAA
1670152 CAGTCCTTCC
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 4 0.08
43 49 0.92
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.41
Consensus pattern (43 bp):
TACAGTTAAAAAAGTATTGTTCTAGTAATCATTATGCTTGTGT
Found at i:1672023 original size:43 final size:43
Alignment explanation
Indices: 1671976--1672282 Score: 261
Period size: 43 Copynumber: 7.2 Consensus size: 43
1671966 AGGTTATATT
* *
1671976 TTTAGCGGTGTTTTTAGGAAAAGCGCCGCTAAAAGTCATGATC
1 TTTAGCGGCGTTTTTAGGAAAAGCGCCGCTAAAGGTCATGATC
* * * * * *
1672019 TTTAGCGGCATTTGTGGGAAAAGTGCCGCTACAA-GTCATCACC
1 TTTAGCGGCGTTTTTAGGAAAAGCGCCGCTA-AAGGTCATGATC
* * *
1672062 TTTAGCGGCGTTTGT-GTGAAAAGCGCCGCTACAGGTCATGACC
1 TTTAGCGGCGTTTTTAG-GAAAAGCGCCGCTAAAGGTCATGATC
* * * *
1672105 TTTAGCGGCGTTTGT-GGAAAAAGTGTCGCTAAAGGTCCTTG-TC
1 TTTAGCGGCGTTTTTAGG-AAAAGCGCCGCTAAAGGT-CATGATC
* *
1672148 TTTAGCGGCGTTTTTA-TAAAAGCGCCGCTAAAGGTCCT-AGTC
1 TTTAGCGGCGTTTTTAGGAAAAGCGCCGCTAAAGGTCATGA-TC
* * * * * *
1672190 TTTACCGGCGTTTTTA-TAAAAGCGTCACTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTTTAGGAAAAGCGCCGCTAAAGGTCATGATC
* * * *
1672232 TTTAGCAGCGTTTTTTA-AAAAAGCGCCGCTAAAGGTCCTGGTC
1 TTTAGCGGCG-TTTTTAGGAAAAGCGCCGCTAAAGGTCATGATC
1672275 TTTAGCGG
1 TTTAGCGG
1672283 TATTTTTTTC
Statistics
Matches: 221, Mismatches: 33, Indels: 20
0.81 0.12 0.07
Matches are distributed among these distances:
41 2 0.01
42 65 0.29
43 149 0.67
44 5 0.02
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTTTAGGAAAAGCGCCGCTAAAGGTCATGATC
Found at i:1672289 original size:85 final size:84
Alignment explanation
Indices: 1672123--1672289 Score: 237
Period size: 85 Copynumber: 2.0 Consensus size: 84
1672113 CGTTTGTGGA
* * * *
1672123 AAAAGTGTCGCTAAAGGTCCTTGTCTTTAGCGGCGTTTTTATAAAAGCGCCGCTAAAGGTCCTAG
1 AAAAGCGTCACTAAAGGTCCTTGTCTTTAGCAGCGTTTTTAAAAAAGCGCCGCTAAAGGTCCTAG
*
1672188 TCTTTACCGGCGTTTTTAT
66 TCTTTACCGGCATTTTTAT
1672207 AAAAGCGTCACTAAAGGT-CTTGGTCTTTAGCAGCGTTTTTTAAAAAAGCGCCGCTAAAGGTCCT
1 AAAAGCGTCACTAAAGGTCCTT-GTCTTTAGCAGCG-TTTTTAAAAAAGCGCCGCTAAAGGTCCT
* * *
1672271 GGTCTTTAGCGGTATTTTT
64 AGTCTTTACCGGCATTTTT
1672290 TTCTAAAAAA
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
83 3 0.04
84 28 0.38
85 42 0.58
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (84 bp):
AAAAGCGTCACTAAAGGTCCTTGTCTTTAGCAGCGTTTTTAAAAAAGCGCCGCTAAAGGTCCTAG
TCTTTACCGGCATTTTTAT
Found at i:1672290 original size:43 final size:42
Alignment explanation
Indices: 1672080--1672282 Score: 208
Period size: 42 Copynumber: 4.8 Consensus size: 42
1672070 CGTTTGTGTG
* * ** * **
1672080 AAAAGCGCCGCTACAGGTCATGACCTTTAGCGGCGTTTGTGGA
1 AAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGC-TTTTTTAA
* * * * *
1672123 AAAAGTGTCGCTAAAGGTCCTTGTCTTTAGCGGCGTTTTTAT
1 AAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCTTTTTTAA
* * * *
1672165 AAAAGCGCCGCTAAAGGTCCTAGTCTTTACCGGCGTTTTTAT
1 AAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCTTTTTTAA
* * * *
1672207 AAAAGCGTCACTAAAGGTCTTGGTCTTTAGCAGCGTTTTTTAA
1 AAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGC-TTTTTTAA
1672250 AAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGG
1 AAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGG
1672283 TATTTTTTTC
Statistics
Matches: 131, Mismatches: 28, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
42 69 0.53
43 62 0.47
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (42 bp):
AAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCTTTTTTAA
Found at i:1678682 original size:26 final size:26
Alignment explanation
Indices: 1678652--1678759 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
1678642 TGAAATGCCC
1678652 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
1678678 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
1678704 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
1678730 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
1678756 ATCA
1 ATCA
1678760 ATTTGTACCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:1685733 original size:26 final size:26
Alignment explanation
Indices: 1685697--1685806 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
1685687 CATGAAATTC
1685697 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
1685723 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
1685749 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* * *
1685775 TTATCATGGAATATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
1685801 TTATCA
1 TTATCA
1685807 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:1689097 original size:61 final size:61
Alignment explanation
Indices: 1689020--1689236 Score: 297
Period size: 61 Copynumber: 3.7 Consensus size: 61
1689010 AACCAAAATG
* *
1689020 AGAATCAGAATCAGAATTAGTATTAGTAA-CAGAATCAGAATCAGAATCAGAATTACGTGAC
1 AGAATCAGAATCAGAATCAGTATCAG-AATCAGAATCAGAATCAGAATCAGAATTACGTGAC
* *
1689081 AGAATTAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGAATCAGAATTACGTGAC
1 AGAATCAGAATCAGAATCAGTATCAGAATCAGAATCAGAATCAGAATCAGAATTACGTGAC
* * *
1689142 AGAATTAGAATCAGAATCAG--T---AA-CAGAATCAGAATCAGAATCAGTATTA-GTAAC
1 AGAATCAGAATCAGAATCAGTATCAGAATCAGAATCAGAATCAGAATCAGAATTACGTGAC
*
1689196 AGAATCAGAATCAGAATCAGAATCAGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTATCAGAATCAGAATCAGAAT
1689237 TACGTGACAG
Statistics
Matches: 141, Mismatches: 8, Indels: 15
0.86 0.05 0.09
Matches are distributed among these distances:
54 23 0.16
55 25 0.18
56 3 0.02
59 2 0.01
60 14 0.10
61 74 0.52
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.21
Consensus pattern (61 bp):
AGAATCAGAATCAGAATCAGTATCAGAATCAGAATCAGAATCAGAATCAGAATTACGTGAC
Found at i:1689255 original size:6 final size:6
Alignment explanation
Indices: 1689020--1689236 Score: 221
Period size: 6 Copynumber: 35.8 Consensus size: 6
1689010 AACCAAAATG
* * *
1689020 AGAATC AGAATC AGAATT AGTATT AGTAA-C AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC
* * *
1689068 AGAATT ACGTGA-C AGAATT AGAATC AGAATC AGTAA-C AGAATC AGAATC
1 AGAATC A-G-AATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC
* * *
1689117 AGAATC AGAATC AGAATT ACGTGA-C AGAATT AGAATC AGAATC AGTAA-C
1 AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC AG-AATC
* *
1689166 AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC
1689214 AGAATC AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAATC AGAAT
1689237 TACGTGACAG
Statistics
Matches: 177, Mismatches: 20, Indels: 28
0.79 0.09 0.12
Matches are distributed among these distances:
5 10 0.06
6 155 0.88
7 10 0.06
8 2 0.01
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:1689416 original size:27 final size:26
Alignment explanation
Indices: 1689379--1689444 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
1689369 AGCATGGCTG
*
1689379 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
1689405 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
1689432 CCAGAATCAGATA
1 CCAGAA-CAGATA
1689445 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:1689449 original size:27 final size:27
Alignment explanation
Indices: 1689379--1689452 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
1689369 AGCATGGCTG
* *
1689379 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
1689405 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
1689432 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
1689453 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:1689459 original size:27 final size:27
Alignment explanation
Indices: 1689403--1689460 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
1689393 GTGACAGAGT
* * *
1689403 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
1689430 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
1689457 CACC
1 CACC
1689461 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:1689665 original size:22 final size:22
Alignment explanation
Indices: 1689617--1689675 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
1689607 GTAAATACGT
* *
1689617 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAATCAAG
* * *
1689639 ATGGCACAAAGCCATAATTAGG
1 TTGGCACAAAGCCATAATCAAG
*
1689661 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
1689676 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAAG
Found at i:1689842 original size:27 final size:26
Alignment explanation
Indices: 1689763--1689845 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
1689753 TCGATTGGTC
* * *
1689763 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
1689789 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
1689816 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
1689843 AAC
1 AAC
1689846 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:1690074 original size:27 final size:27
Alignment explanation
Indices: 1690044--1690239 Score: 248
Period size: 27 Copynumber: 7.3 Consensus size: 27
1690034 GGGGCAAAAT
* * *
1690044 GGTAATTTTACCCTACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
1690071 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
1690098 GGTATTTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
1690125 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
1690152 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
1690179 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
1690206 AGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
1690233 AGTAATT
1 GGTAATT
1690240 TCACAATCAA
Statistics
Matches: 149, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 149 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:1690274 original size:27 final size:27
Alignment explanation
Indices: 1690244--1690733 Score: 605
Period size: 27 Copynumber: 18.2 Consensus size: 27
1690234 GTAATTTCAC
*
1690244 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
1690271 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
1690298 AA-CTGAAGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
1690325 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
1690352 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* **
1690379 AATCAAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
1690406 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
1690433 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
** *
1690460 AA-CTGAGGGTAAAACAATACTTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
1690487 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
1690514 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
1690541 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
1690568 AA-CTGAGGGTAAAACGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
1690595 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
1690622 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
1690649 AATCGAGGG-AAAATGGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
1690675 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
1690702 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
1690729 AATCG
1 AATCG
1690734 GGAGTACTTT
Statistics
Matches: 394, Mismatches: 58, Indels: 22
0.83 0.12 0.05
Matches are distributed among these distances:
26 27 0.07
27 362 0.92
28 5 0.01
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:1692147 original size:27 final size:27
Alignment explanation
Indices: 1692109--1692166 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
1692099 TATTTATAGG
*
1692109 CATAAGAAGTATATAAG-AGTTAGAGAT
1 CATAAGAAGTATAAAAGAAG-TAGAGAT
1692136 CATAAGAAGTATAAAAGAAGTAGAGAT
1 CATAAGAAGTATAAAAGAAGTAGAGAT
1692163 -ATAA
1 CATAA
1692167 TTCTAATAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 4 0.14
27 23 0.79
28 2 0.07
ACGTcount: A:0.53, C:0.03, G:0.21, T:0.22
Consensus pattern (27 bp):
CATAAGAAGTATAAAAGAAGTAGAGAT
Found at i:1693414 original size:142 final size:142
Alignment explanation
Indices: 1693228--1694222 Score: 1981
Period size: 142 Copynumber: 7.0 Consensus size: 142
1693218 ATTTATATAA
1693228 TAACAATAATAAATTAAAAAACCTTAGCTTATATTTGGAAAAAAAAACCTCGCACTAAATAAAAC
1 TAACAATAATAAATTAAAAAACCTTAGCTTATATTTGGAAAAAAAAACCTCGCACTAAATAAAAC
1693293 CCATTTATAAATTATAATGGAAAGGTAAAAAGACATAAAGTCAAATGAATCTGACGTTTGGTCAA
66 CCATTTATAAATTATAATGGAAAGGTAAAAAGACATAAAGTCAAATGAATCTGACGTTTGGTCAA
1693358 CTGGAGCTTTGC
131 CTGGAGCTTTGC
1693370 TAACAATAATAAATTAAAAAACCTTAGCTTATATTTGGAAAAAAAAACCTCGCACTAAATAAAAC
1 TAACAATAATAAATTAAAAAACCTTAGCTTATATTTGGAAAAAAAAACCTCGCACTAAATAAAAC
1693435 CCATTTATAAATTATAATGGAAAGGTAAAAAGACATAAAGTCAAATGAATCTGACGTTTGGTCAA
66 CCATTTATAAATTATAATGGAAAGGTAAAAAGACATAAAGTCAAATGAATCTGACGTTTGGTCAA
1693500 CTGGAGCTTTGC
131 CTGGAGCTTTGC
1693512 TAACAATAATAAATTAAAAAACCTTAGCTTATATTTGGAAAAAAAAACCTCGCACTAAATAAAAC
1 TAACAATAATAAATTAAAAAACCTTAGCTTATATTTGGAAAAAAAAACCTCGCACTAAATAAAAC
1693577 CCATTTATAAATTATAATGGAAAGGTAAAAAGACATAAAGTCAAATGAATCTGACGTTTGGTCAA
66 CCATTTATAAATTATAATGGAAAGGTAAAAAGACATAAAGTCAAATGAATCTGACGTTTGGTCAA
1693642 CTGGAGCTTTGC
131 CTGGAGCTTTGC
1693654 TAACAATAATAAATTAAAAAACCTTAGCTTATATTTGGAAAAAAAAACCTCGCACTAAATAAAAC
1 TAACAATAATAAATTAAAAAACCTTAGCTTATATTTGGAAAAAAAAACCTCGCACTAAATAAAAC
1693719 CCATTTATAAATTATAATGGAAAGGTAAAAAGACATAAAGTCAAATGAATCTGACGTTTGGTCAA
66 CCATTTATAAATTATAATGGAAAGGTAAAAAGACATAAAGTCAAATGAATCTGACGTTTGGTCAA
1693784 CTGGAGCTTTGC
131 CTGGAGCTTTGC
1693796 TAACAATAATAAATTAAAAAACCTTAGCTTATATTTGGAAAAAAAAACCTCGCACTAAATAAAAC
1 TAACAATAATAAATTAAAAAACCTTAGCTTATATTTGGAAAAAAAAACCTCGCACTAAATAAAAC
1693861 CCATTTATAAATTATAATGGAAAGGTAAAAAGACATAAAGTCAAATGAATCTGACGTTTGGTCAA
66 CCATTTATAAATTATAATGGAAAGGTAAAAAGACATAAAGTCAAATGAATCTGACGTTTGGTCAA
1693926 CTGGAGCTTTGC
131 CTGGAGCTTTGC
1693938 TAACAATAATAAATTAAAAAACCTTAGCTTATATTTGGAAAAAAAAACCTCGCACTAAATAAAAC
1 TAACAATAATAAATTAAAAAACCTTAGCTTATATTTGGAAAAAAAAACCTCGCACTAAATAAAAC
1694003 CCATTTATAAATTATAATGGAAAGGTAAAAAGACATAAAGTCAAATGAATCTGACGTTTGGTCAA
66 CCATTTATAAATTATAATGGAAAGGTAAAAAGACATAAAGTCAAATGAATCTGACGTTTGGTCAA
1694068 CTGGAGCTTTGC
131 CTGGAGCTTTGC
1694080 TAACAATAATAAATTAAAAAACCTTAGCTTATATTTGGAAAAAAAAAACCTCGCACTAAATAAAA
1 TAACAATAATAAATTAAAAAACCTTAGCTTATATTTGG-AAAAAAAAACCTCGCACTAAATAAAA
1694145 CCCATTTATAAATTATAATGGAAAGGTAAAAAGACATAAAGTCAAATGAATCTGACGTTTGGTCA
65 CCCATTTATAAATTATAATGGAAAGGTAAAAAGACATAAAGTCAAATGAATCTGACGTTTGGTCA
1694210 ACTGGAGCTTTGC
130 ACTGGAGCTTTGC
1694223 CCTCTTGCGA
Statistics
Matches: 852, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
142 748 0.88
143 104 0.12
ACGTcount: A:0.46, C:0.14, G:0.13, T:0.27
Consensus pattern (142 bp):
TAACAATAATAAATTAAAAAACCTTAGCTTATATTTGGAAAAAAAAACCTCGCACTAAATAAAAC
CCATTTATAAATTATAATGGAAAGGTAAAAAGACATAAAGTCAAATGAATCTGACGTTTGGTCAA
CTGGAGCTTTGC
Found at i:1700275 original size:87 final size:86
Alignment explanation
Indices: 1700121--1700283 Score: 227
Period size: 87 Copynumber: 1.9 Consensus size: 86
1700111 TGTGTAAGGA
1700121 TGAGTTTTTACTCTTAATGAATTCATAGCCTAAAATTTGGGTGGTCCTACTGAAACGGACTTAAT
1 TGAGTTTTTACTCTTAATGAATTCATAGCCTAAAATTTGGGTGGTCCTACTGAAACGGACTTAAT
1700186 GAATTCACCGACGTGAGAGGT
66 GAATTCACCGACGTGAGAGGT
* * * * * * * * *
1700207 TGAGTTTATTACTCTTAATGAGTTCATATCCTAGAGTTTGGGTGGTCTTATTGAGATGGACTTGA
1 TGAGTTT-TTACTCTTAATGAATTCATAGCCTAAAATTTGGGTGGTCCTACTGAAACGGACTTAA
*
1700272 TGAATTTACCGA
65 TGAATTCACCGA
1700284 ACTTAAATTT
Statistics
Matches: 66, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
86 7 0.11
87 59 0.89
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (86 bp):
TGAGTTTTTACTCTTAATGAATTCATAGCCTAAAATTTGGGTGGTCCTACTGAAACGGACTTAAT
GAATTCACCGACGTGAGAGGT
Found at i:1702634 original size:28 final size:29
Alignment explanation
Indices: 1702563--1702637 Score: 100
Period size: 28 Copynumber: 2.6 Consensus size: 29
1702553 CAAGCAACAA
1702563 CTTTTTGCTTACATTTAATGTCTTAATAGT
1 CTTTTT-CTTACATTTAATGTCTTAATAGT
* *
1702593 -TTTTTCATGCATTTAATGTCTTAAT-GT
1 CTTTTTCTTACATTTAATGTCTTAATAGT
*
1702620 CTTTTTCTTATATTTAAT
1 CTTTTTCTTACATTTAAT
1702638 ATATTTTTCT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
27 2 0.05
28 32 0.82
29 5 0.13
ACGTcount: A:0.23, C:0.12, G:0.08, T:0.57
Consensus pattern (29 bp):
CTTTTTCTTACATTTAATGTCTTAATAGT
Found at i:1702888 original size:13 final size:16
Alignment explanation
Indices: 1702856--1702895 Score: 59
Period size: 13 Copynumber: 2.7 Consensus size: 16
1702846 TGACCCATCC
1702856 TATTTTTATAATTAAT
1 TATTTTTATAATTAAT
1702872 TATTTTT-TAA-T-AT
1 TATTTTTATAATTAAT
1702885 TATTTTTATAA
1 TATTTTTATAA
1702896 AAAAAGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 9 0.39
14 4 0.17
15 3 0.13
16 7 0.30
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TATTTTTATAATTAAT
Found at i:1702911 original size:5 final size:6
Alignment explanation
Indices: 1702896--1702921 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
1702886 ATTTTTATAA
1702896 AAAAAG AAAAAG AAAAAG AAAAAG AA
1 AAAAAG AAAAAG AAAAAG AAAAAG AA
1702922 GTGATGTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:1704200 original size:30 final size:29
Alignment explanation
Indices: 1704129--1704215 Score: 90
Period size: 29 Copynumber: 3.0 Consensus size: 29
1704119 CAGACAGTGT
* *
1704129 AAAGAGTGAGTCAAAGTGGCAGACAAGCC
1 AAAGAGTAAGCCAAAGTGGCAGACAAGCC
1704158 AAAGAGTAAGCCAAAGTGGCATG-CAAGCC
1 AAAGAGTAAGCCAAAGTGGCA-GACAAGCC
* *
1704187 AAA-AGTATAAGCCAATGTGGCGGA-AAGCC
1 AAAGAG--TAAGCCAAAGTGGCAGACAAGCC
1704216 CGAGTGTAAG
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
28 2 0.04
29 34 0.68
30 14 0.28
ACGTcount: A:0.41, C:0.18, G:0.29, T:0.11
Consensus pattern (29 bp):
AAAGAGTAAGCCAAAGTGGCAGACAAGCC
Found at i:1708740 original size:20 final size:20
Alignment explanation
Indices: 1708700--1708743 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
1708690 ACACAATGTA
*
1708700 TAAATATTAACGCTAACAAT
1 TAAATATTAACACTAACAAT
* *
1708720 TAAATATTAACATTAATAAT
1 TAAATATTAACACTAACAAT
1708740 TAAA
1 TAAA
1708744 AGCAATGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (20 bp):
TAAATATTAACACTAACAAT
Found at i:1721655 original size:19 final size:19
Alignment explanation
Indices: 1721609--1721656 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
1721599 GTATATATTT
1721609 TAAA-TTTATTTAGATAGA
1 TAAATTTTATTTAGATAGA
* * *
1721627 TAAATCTTATTTAGGTAGC
1 TAAATTTTATTTAGATAGA
*
1721646 TAAGTTTTATT
1 TAAATTTTATT
1721657 CATATTCTAG
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 4 0.17
19 20 0.83
ACGTcount: A:0.35, C:0.04, G:0.12, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGATAGA
Found at i:1721732 original size:42 final size:42
Alignment explanation
Indices: 1721673--1721761 Score: 133
Period size: 42 Copynumber: 2.1 Consensus size: 42
1721663 CTAGGAATAT
* * *
1721673 TTTTATTTTATCTTTTAGTAGTTTATTAGGACAAGAGAACTA
1 TTTTCTTTTATATTTTAGTAGTTTATTAGAACAAGAGAACTA
* *
1721715 TTTTCTTTTATATTTTAGTAGTTTATTAGAATAAGGGAACTA
1 TTTTCTTTTATATTTTAGTAGTTTATTAGAACAAGAGAACTA
1721757 TTTTC
1 TTTTC
1721762 CCAATTAGGA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.29, C:0.07, G:0.13, T:0.51
Consensus pattern (42 bp):
TTTTCTTTTATATTTTAGTAGTTTATTAGAACAAGAGAACTA
Found at i:1722149 original size:15 final size:15
Alignment explanation
Indices: 1722125--1722155 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1722115 CTTCAATTCC
*
1722125 TAACTCATCCAATAA
1 TAACTAATCCAATAA
1722140 TAACTAATCCAATAA
1 TAACTAATCCAATAA
1722155 T
1 T
1722156 CCTTCTTCCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.29
Consensus pattern (15 bp):
TAACTAATCCAATAA
Found at i:1725566 original size:19 final size:19
Alignment explanation
Indices: 1725520--1725567 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
1725510 GTATATATTT
1725520 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
1725538 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
1725557 TAAGTTTTATT
1 TAAATTTTATT
1725568 CATATTCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:1725643 original size:42 final size:42
Alignment explanation
Indices: 1725584--1725672 Score: 142
Period size: 42 Copynumber: 2.1 Consensus size: 42
1725574 CTAGGAATAT
* * *
1725584 TTTTATTTTATCTTTTAGTAGTTTATTAGGACAAGGGAACTA
1 TTTTCTTTTATATTTTAGTAGTTTATTAGAACAAGGGAACTA
*
1725626 TTTTCTTTTATATTTTAGTAGTTTATTAGAATAAGGGAACTA
1 TTTTCTTTTATATTTTAGTAGTTTATTAGAACAAGGGAACTA
1725668 TTTTC
1 TTTTC
1725673 CCAATTAGGA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.28, C:0.07, G:0.15, T:0.51
Consensus pattern (42 bp):
TTTTCTTTTATATTTTAGTAGTTTATTAGAACAAGGGAACTA
Found at i:1725737 original size:43 final size:43
Alignment explanation
Indices: 1725690--1726506 Score: 1634
Period size: 43 Copynumber: 19.0 Consensus size: 43
1725680 GGATTAGGAC
1725690 TCTTTTCTCTATTTAAGTTCAATTCTTCAATTAATAATATAGA
1 TCTTTTCTCTATTTAAGTTCAATTCTTCAATTAATAATATAGA
1725733 TCTTTTCTCTATTTAAGTTCAATTCTTCAATTAATAATATAGA
1 TCTTTTCTCTATTTAAGTTCAATTCTTCAATTAATAATATAGA
1725776 TCTTTTCTCTATTTAAGTTCAATTCTTCAATTAATAATATAGA
1 TCTTTTCTCTATTTAAGTTCAATTCTTCAATTAATAATATAGA
1725819 TCTTTTCTCTATTTAAGTTCAATTCTTCAATTAATAATATAGA
1 TCTTTTCTCTATTTAAGTTCAATTCTTCAATTAATAATATAGA
1725862 TCTTTTCTCTATTTAAGTTCAATTCTTCAATTAATAATATAGA
1 TCTTTTCTCTATTTAAGTTCAATTCTTCAATTAATAATATAGA
1725905 TCTTTTCTCTATTTAAGTTCAATTCTTCAATTAATAATATAGA
1 TCTTTTCTCTATTTAAGTTCAATTCTTCAATTAATAATATAGA
1725948 TCTTTTCTCTATTTAAGTTCAATTCTTCAATTAATAATATAGA
1 TCTTTTCTCTATTTAAGTTCAATTCTTCAATTAATAATATAGA
1725991 TCTTTTCTCTATTTAAGTTCAATTCTTCAATTAATAATATAGA
1 TCTTTTCTCTATTTAAGTTCAATTCTTCAATTAATAATATAGA
1726034 TCTTTTCTCTATTTAAGTTCAATTCTTCAATTAATAATATAGA
1 TCTTTTCTCTATTTAAGTTCAATTCTTCAATTAATAATATAGA
1726077 TCTTTTCTCTATTTAAGTTCAATTCTTCAATTAATAATATAGA
1 TCTTTTCTCTATTTAAGTTCAATTCTTCAATTAATAATATAGA
1726120 TCTTTTCTCTATTTAAGTTCAATTCTTCAATTAATAATATAGA
1 TCTTTTCTCTATTTAAGTTCAATTCTTCAATTAATAATATAGA
1726163 TCTTTTCTCTATTTAAGTTCAATTCTTCAATTAATAATATAGA
1 TCTTTTCTCTATTTAAGTTCAATTCTTCAATTAATAATATAGA
1726206 TCTTTTCTCTATTTAAGTTCAATTCTTCAATTAATAATATAGA
1 TCTTTTCTCTATTTAAGTTCAATTCTTCAATTAATAATATAGA
1726249 TCTTTTCTCTATTTAAGTTCAATTCTTCAATTAATAATATAGA
1 TCTTTTCTCTATTTAAGTTCAATTCTTCAATTAATAATATAGA
1726292 TCTTTTCTCTATTTAAGTTCAATTCTTCAATTAATAATATAGA
1 TCTTTTCTCTATTTAAGTTCAATTCTTCAATTAATAATATAGA
1726335 TCTTTTCTCTATTTAAGTTCAATTCTTCAATTAATAATATAGA
1 TCTTTTCTCTATTTAAGTTCAATTCTTCAATTAATAATATAGA
1726378 TCTTTTCTCTATTTAAGTTCAATTCTTCAATTAATAATATAGA
1 TCTTTTCTCTATTTAAGTTCAATTCTTCAATTAATAATATAGA
1726421 TCTTTTCTCTATTTAAGTTCAATTCTTCAATTAATAATATAGA
1 TCTTTTCTCTATTTAAGTTCAATTCTTCAATTAATAATATAGA
1726464 TCTTTTCTCTATTTAAGTTCAATTCTTCAATTAATAATATAGA
1 TCTTTTCTCTATTTAAGTTCAATTCTTCAATTAATAATATAGA
1726507 ACAGTTTTAT
Statistics
Matches: 774, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 774 1.00
ACGTcount: A:0.33, C:0.14, G:0.05, T:0.49
Consensus pattern (43 bp):
TCTTTTCTCTATTTAAGTTCAATTCTTCAATTAATAATATAGA
Found at i:1732762 original size:3 final size:3
Alignment explanation
Indices: 1732754--1732782 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
1732744 GGGTTAATAT
1732754 AGA AGA AGA AGA AGA AGA AGA AGA A-A AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1732783 GGGTGTAAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:1736635 original size:202 final size:201
Alignment explanation
Indices: 1736289--1736694 Score: 758
Period size: 202 Copynumber: 2.0 Consensus size: 201
1736279 ATCCTCAGAA
*
1736289 ATAGGCGAGTCGGTGTGACGGAGGCTCTGCGGTGACCACTAGTTCATGAACTGTCTTAAATAATG
1 ATAGGCGAGTCGGTGTGACGGAGGCTCTGCGGTGACCACTAGTTCATGAACTATCTTAAATAATG
1736354 GTTTTTATTTAAAATATGGATTATTTCTGAAAGTTTTGTAATTCTTGGACTCTCCGGACTATTGA
66 GTTTTTATTTAAAATATGGATTATTTCTGAAAGTTTTGTAATTCTTGGACTCTCCGGACTATTGA
* *
1736419 TTTTAATTTTGGTTTTGGGATGTGTTTTTTTATTTTCATATTGCAATGTTTGACAAAAACCACGA
131 TTTTAATTTTGGTTTTGGGATGTGTTTTTTTATTTCCATACTGCAATGTTTGACAAAAACCACGA
1736484 ATTTGAC
196 ATTTG-C
*
1736491 ATAGGCGAGTCGGTGTGACGGAGGCTCTGCGGTGACCACTAGTTCGTGAACTATCTTAAATAATG
1 ATAGGCGAGTCGGTGTGACGGAGGCTCTGCGGTGACCACTAGTTCATGAACTATCTTAAATAATG
*
1736556 GTTTTTATTTAAAATATGGATTATTTCTGAAAGTTTTGTAATTCTTGGACTCTTCGGACTATTGA
66 GTTTTTATTTAAAATATGGATTATTTCTGAAAGTTTTGTAATTCTTGGACTCTCCGGACTATTGA
1736621 TTTTAATTTTGGTTTTGGGATGTGTTTTTTTATTTCCATACTGCAATGTTTGACAAAAACCACGA
131 TTTTAATTTTGGTTTTGGGATGTGTTTTTTTATTTCCATACTGCAATGTTTGACAAAAACCACGA
1736686 ATTTGC
196 ATTTGC
1736692 ATA
1 ATA
1736695 AACAAATGTT
Statistics
Matches: 199, Mismatches: 5, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
201 4 0.02
202 195 0.98
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.40
Consensus pattern (201 bp):
ATAGGCGAGTCGGTGTGACGGAGGCTCTGCGGTGACCACTAGTTCATGAACTATCTTAAATAATG
GTTTTTATTTAAAATATGGATTATTTCTGAAAGTTTTGTAATTCTTGGACTCTCCGGACTATTGA
TTTTAATTTTGGTTTTGGGATGTGTTTTTTTATTTCCATACTGCAATGTTTGACAAAAACCACGA
ATTTGC
Found at i:1741384 original size:120 final size:116
Alignment explanation
Indices: 1741171--1741412 Score: 369
Period size: 117 Copynumber: 2.1 Consensus size: 116
1741161 AATAATTATT
* *
1741171 ATTATATTAAGAATCCTATTAAATTATGTTTTATTTTATTAAATTATATTTAATAATTATGTTAA
1 ATTATATTAAGAATCCTATTAAATTATATATTATTTTATTAAATTATATTTAATAATTATGTTAA
1741236 AATATGATTAAATCATTTATTATGATTTTTATT-AATTCATATTTTAATAATA
66 AATATGATTAAATCATTTATTATGATTTTTATTAAATT-ATA-TTTAATAATA
**
1741288 ATTATATTAAGAATGTTATTAAATTATATATTATTTTATTAAATTATATTTAATAATAACTATGT
1 ATTATATTAAGAATCCTATTAAATTATATATTATTTTATTAAATTATATTTAATAAT---TATGT
* * *
1741353 TAAAATATGATTAAATTATTTATTTTTATTTTTATTAAATTATATTTAATAATA
63 TAAAATATGATTAAATCATTTATTATGATTTTTATTAAATTATATTTAATAATA
1741407 ATTATA
1 ATTATA
1741413 ATAGTCCAAT
Statistics
Matches: 114, Mismatches: 7, Indels: 6
0.90 0.06 0.05
Matches are distributed among these distances:
117 53 0.46
119 16 0.14
120 41 0.36
121 4 0.04
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (116 bp):
ATTATATTAAGAATCCTATTAAATTATATATTATTTTATTAAATTATATTTAATAATTATGTTAA
AATATGATTAAATCATTTATTATGATTTTTATTAAATTATATTTAATAATA
Found at i:1742289 original size:18 final size:18
Alignment explanation
Indices: 1742266--1742300 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1742256 GAGTTAAACG
*
1742266 AATCAAGTTATTTGAGTT
1 AATCAAGTTATTCGAGTT
1742284 AATCAAGTTATTCGAGT
1 AATCAAGTTATTCGAGT
1742301 CAACTCGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (18 bp):
AATCAAGTTATTCGAGTT
Found at i:1744279 original size:17 final size:18
Alignment explanation
Indices: 1744257--1744298 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
1744247 AGCATAGCAT
1744257 TTTTATTTTATCT-TTTA
1 TTTTATTTTATCTATTTA
*
1744274 TTTTATTTTATTTATTTA
1 TTTTATTTTATCTATTTA
1744292 -TTTATTT
1 TTTTATTT
1744299 ACCTCTCGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 19 0.83
18 4 0.17
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTATTTTATCTATTTA
Found at i:1747415 original size:22 final size:22
Alignment explanation
Indices: 1747387--1747430 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
1747377 CCAGGGTAGC
1747387 AGAATTAGAAAGGTCACTGCAT
1 AGAATTAGAAAGGTCACTGCAT
1747409 AGAATTAGAAAGGTCACTGCAT
1 AGAATTAGAAAGGTCACTGCAT
1747431 CAATATTGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.23
Consensus pattern (22 bp):
AGAATTAGAAAGGTCACTGCAT
Found at i:1751273 original size:39 final size:39
Alignment explanation
Indices: 1751206--1751282 Score: 109
Period size: 39 Copynumber: 2.0 Consensus size: 39
1751196 ATCTTTCCCC
1751206 ATATATCTAAAACATTCATGTCAAGAGAAATCATTTATT
1 ATATATCTAAAACATTCATGTCAAGAGAAATCATTTATT
* * * * *
1751245 ATATATTTAAAACGTTCGTGTTAGGAGAAATCATTTAT
1 ATATATCTAAAACATTCATGTCAAGAGAAATCATTTAT
1751283 CCTGAACGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (39 bp):
ATATATCTAAAACATTCATGTCAAGAGAAATCATTTATT
Found at i:1754005 original size:30 final size:30
Alignment explanation
Indices: 1753971--1754027 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
1753961 ATGATAAAAA
* *
1753971 GGACACTAAGAAGAGTGGCTAATGACTATG
1 GGACACTAAGAAGACTAGCTAATGACTATG
*
1754001 GGACACTAAGGAGACTAGCTAATGACT
1 GGACACTAAGAAGACTAGCTAATGACT
1754028 TTGTCTTAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.37, C:0.16, G:0.28, T:0.19
Consensus pattern (30 bp):
GGACACTAAGAAGACTAGCTAATGACTATG
Found at i:1756229 original size:44 final size:44
Alignment explanation
Indices: 1756166--1756257 Score: 157
Period size: 44 Copynumber: 2.1 Consensus size: 44
1756156 TACCATAGCG
*
1756166 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAAATTGAAGCTACA
1 AATCTTATCTCCCTGAAGTTCCAGTAGAGCAAATTGAAGCTACA
* *
1756210 AATCTTATCTCCCTGAAGTTCCAGTGGAGCAGATTGAAGCTACA
1 AATCTTATCTCCCTGAAGTTCCAGTAGAGCAAATTGAAGCTACA
1756254 AATC
1 AATC
1756258 CTGCAACTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTCCAGTAGAGCAAATTGAAGCTACA
Found at i:1756245 original size:94 final size:91
Alignment explanation
Indices: 1756019--1756247 Score: 212
Period size: 94 Copynumber: 2.4 Consensus size: 91
1756009 CAGTGAAACC
**
1756019 ACAAATCCTATACCCCTGAAGTTACAGTGGGTCAGATTGAAATCAACATAGCGAATCTTATCTTT
1 ACAAATCCTAT-CCCCTGAAGTT-CAGTGGG-CAGATTGAAATCAACATAGCGAATCTTATCTCC
*
1756084 TTGAAGTTGCAGTGAAATAGATTGAAGCT
63 CTGAAGTTGCAGTGAAATAGATTGAAGCT
* * ** * * * *
1756113 ACAAATCCTGCA-ACCCTAAAGTTGTGATGGGGCGGATTGAATTTACCATAGCGAATCTTATCTC
1 ACAAATCCT--ATCCCCTGAAGTTCAG-T-GGGCAGATTGAAATCAACATAGCGAATCTTATCTC
*
1756177 CCTGAAGTTGCAGTAGAGCA-A-ATTGAAGCT
62 CCTGAAGTTGCAGT-GA-AATAGATTGAAGCT
*
1756207 ACAAATCTTATCTCCCTGAAGTTCCAGTGGAGCAGATTGAA
1 ACAAATCCTATC-CCCTGAAGTT-CAGTGG-GCAGATTGAA
1756248 GCTACAAATC
Statistics
Matches: 107, Mismatches: 18, Indels: 20
0.74 0.12 0.14
Matches are distributed among these distances:
92 1 0.01
93 3 0.03
94 94 0.88
95 7 0.07
96 2 0.02
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (91 bp):
ACAAATCCTATCCCCTGAAGTTCAGTGGGCAGATTGAAATCAACATAGCGAATCTTATCTCCCTG
AAGTTGCAGTGAAATAGATTGAAGCT
Found at i:1756366 original size:137 final size:138
Alignment explanation
Indices: 1756102--1756396 Score: 425
Period size: 137 Copynumber: 2.1 Consensus size: 138
1756092 GCAGTGAAAT
* *
1756102 AGATTGAAGCTACAAATCCTGCAACCCTAAAGTTGTGATGGGGCGGATTGAATTTACCATAGCGA
1 AGATTGAAGCTACAAATCCTGCAACCCTAAAGTTGTGATGGGACGGATCGAATTTACCATAGCGA
* * * *
1756167 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAAATTGAAGCTACAAATCTTATCTCCCTGAAGTTCC
66 ATCTTATCTCCCTGAAGTTGCAATAGAGCAAATTGAAGCTACAAATCTTATCACCCTCAAGTTAC
1756232 AGTGGAGC
131 AGTGGAGC
** *
1756240 AGATTGAAGCTACAAATCCTGCAACTTTGAAGTTGTGATGGGAC-GATCGAATTTACCATAGCGA
1 AGATTGAAGCTACAAATCCTGCAACCCTAAAGTTGTGATGGGACGGATCGAATTTACCATAGCGA
* * *
1756304 ATCTTATCT-CCTTATAGTT-CTAATAGAGCAAATTGAAGCTACAAGTCTTATCACCTTCAAGTT
66 ATCTTATCTCCCTGA-AGTTGC-AATAGAGCAAATTGAAGCTACAAATCTTATCACCCTCAAGTT
*
1756367 ACAGTGGAGT
129 ACAGTGGAGC
*
1756377 ATATTGAAGCTACAAATCCT
1 AGATTGAAGCTACAAATCCT
1756397 ATACCCCTGA
Statistics
Matches: 141, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
136 5 0.04
137 96 0.68
138 40 0.28
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.29
Consensus pattern (138 bp):
AGATTGAAGCTACAAATCCTGCAACCCTAAAGTTGTGATGGGACGGATCGAATTTACCATAGCGA
ATCTTATCTCCCTGAAGTTGCAATAGAGCAAATTGAAGCTACAAATCTTATCACCCTCAAGTTAC
AGTGGAGC
Found at i:1756546 original size:92 final size:93
Alignment explanation
Indices: 1756373--1756557 Score: 214
Period size: 92 Copynumber: 2.0 Consensus size: 93
1756363 AGTTACAGTG
* * * * *
1756373 GAGTATATTGAAGCTACAAATCCTATACCCCTGAAATTACAGTGGATTGGATTGAATCTACCATA
1 GAGTAGATTGAAGCTAAAAATCC-ATACCCCTGAAATTACAGTGGATTAGAATGAAACTACCATA
1756438 GTAAATCTTATATCCCTAAAATTGTAGTA
65 GTAAATCTTATATCCCTAAAATTGTAGTA
* * *
1756467 GAGTAGATTGAAGCTAAAAATCC-TACCCCT-AAAGTTGCAGTGGGTTAGAATGAAACTACGATG
1 GAGTAGATTGAAGCTAAAAATCCATACCCCTGAAA-TTACAGTGGATTAGAATGAAACTACCAT-
* * * *
1756530 AG-GAATCTTATCTCCCTGAAGTTGTAGT
64 AGTAAATCTTATATCCCTAAAATTGTAGT
1756558 GGAACAAGAA
Statistics
Matches: 77, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
91 3 0.04
92 51 0.66
93 2 0.03
94 21 0.27
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.30
Consensus pattern (93 bp):
GAGTAGATTGAAGCTAAAAATCCATACCCCTGAAATTACAGTGGATTAGAATGAAACTACCATAG
TAAATCTTATATCCCTAAAATTGTAGTA
Found at i:1759716 original size:14 final size:14
Alignment explanation
Indices: 1759697--1759725 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1759687 AAACATGCTG
1759697 TAAATGAGCTACCA
1 TAAATGAGCTACCA
1759711 TAAATGAGCTACCA
1 TAAATGAGCTACCA
1759725 T
1 T
1759726 CACACGAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.21, G:0.14, T:0.24
Consensus pattern (14 bp):
TAAATGAGCTACCA
Found at i:1764294 original size:20 final size:20
Alignment explanation
Indices: 1764248--1764286 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1764238 TATAAAATAT
1764248 AAATTTTAAAAATTATTTTG
1 AAATTTTAAAAATTATTTTG
*
1764268 AAATTTTGAAAATTATTTT
1 AAATTTTAAAAATTATTTT
1764287 AATTTTTTTT
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:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (20 bp):
AAATTTTAAAAATTATTTTG
Found at i:1773702 original size:55 final size:55
Alignment explanation
Indices: 1773618--1773727 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
1773608 CGTGTCCCAT
*
1773618 GGCCATGTGTCCCAAAATCTATAAATAGGCTACACTATTCATCGTCTTCCCTACA
1 GGCCATGTGTCCCAAAATCTATAAATAGGCTACACTATTCATCGTCTGCCCTACA
1773673 GGCCATGTGTCCCAAAATCTATAAATAGGCTACACTATTCATCGTCTGCCCTACA
1 GGCCATGTGTCCCAAAATCTATAAATAGGCTACACTATTCATCGTCTGCCCTACA
1773728 CAAAAACCCT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.28
Consensus pattern (55 bp):
GGCCATGTGTCCCAAAATCTATAAATAGGCTACACTATTCATCGTCTGCCCTACA
Found at i:1778099 original size:46 final size:47
Alignment explanation
Indices: 1777993--1778114 Score: 147
Period size: 46 Copynumber: 2.6 Consensus size: 47
1777983 TGTCTTCGAC
** * *
1777993 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
* *
1778043 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
*
1778089 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
1778115 CTGTCCTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 34 0.53
50 30 0.47
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:1785043 original size:39 final size:39
Alignment explanation
Indices: 1784982--1785108 Score: 135
Period size: 39 Copynumber: 3.5 Consensus size: 39
1784972 TCGTGATCTA
* * * * *
1784982 AAGCCCAAAGTCTAGCTAAAGCACATAAGTGCTAAACGG
1 AAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGG
* *
1785021 AAGCCCGAAGGCTAATTGAAGCACACAAGTGTTAAAC--
1 AAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGG
1785058 -A----GAA-GCTAACTGAAGCACACAAGTGCTAAACGG
1 AAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGG
1785091 AAGCCCGAAGGCTAACTG
1 AAGCCCGAAGGCTAACTG
1785109 GAGCTCATCA
Statistics
Matches: 71, Mismatches: 9, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
31 25 0.35
32 3 0.04
34 1 0.01
36 1 0.01
38 3 0.04
39 38 0.54
ACGTcount: A:0.40, C:0.23, G:0.23, T:0.14
Consensus pattern (39 bp):
AAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGG
Found at i:1785066 original size:31 final size:31
Alignment explanation
Indices: 1785031--1785094 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
1785021 AAGCCCGAAG
* *
1785031 GCTAATTGAAGCACACAAGTGTTAAACAGAA
1 GCTAACTGAAGCACACAAGTGCTAAACAGAA
*
1785062 GCTAACTGAAGCACACAAGTGCTAAACGGAA
1 GCTAACTGAAGCACACAAGTGCTAAACAGAA
1785093 GC
1 GC
1785095 CCGAAGGCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.42, C:0.20, G:0.22, T:0.16
Consensus pattern (31 bp):
GCTAACTGAAGCACACAAGTGCTAAACAGAA
Found at i:1788634 original size:15 final size:15
Alignment explanation
Indices: 1788610--1788641 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1788600 TTCCAAATAT
1788610 TAGTTATTCTCAACA
1 TAGTTATTCTCAACA
*
1788625 TAGTTGTTCTCAACA
1 TAGTTATTCTCAACA
1788640 TA
1 TA
1788642 TTTTCCCTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.19, G:0.09, T:0.41
Consensus pattern (15 bp):
TAGTTATTCTCAACA
Found at i:1789869 original size:22 final size:21
Alignment explanation
Indices: 1789844--1789898 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 21
1789834 AGGATCTAAT
1789844 TTTTTTAAAATTATAACATTTA
1 TTTTTTAAAATT-TAACATTTA
** * *
1789866 TTTTTTTCAATTTTATATTTA
1 TTTTTTAAAATTTAACATTTA
1789887 -TTTTTAAAATTT
1 TTTTTTAAAATTT
1789899 CCAAAATTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
20 10 0.37
21 7 0.26
22 10 0.37
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTTTAAAATTTAACATTTA
Found at i:1792410 original size:3 final size:3
Alignment explanation
Indices: 1792402--1792428 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
1792392 TAAAAACTTG
1792402 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1792429 TGTTGAGGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:1792582 original size:13 final size:13
Alignment explanation
Indices: 1792564--1792588 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1792554 AATTGATATC
1792564 AACATAATTTTTA
1 AACATAATTTTTA
1792577 AACATAATTTTT
1 AACATAATTTTT
1792589 TTTTGTCTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (13 bp):
AACATAATTTTTA
Found at i:1797591 original size:24 final size:24
Alignment explanation
Indices: 1797538--1797593 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
1797528 TTCTTCTTTT
*
1797538 TCTTCTTT-TTCTCTTTTGTCTCG
1 TCTTCTTTCTTCTCTTTTGTCTCA
*
1797561 TCATCTTTCTTCTCTTTGTGT-TCA
1 TCTTCTTTCTTCTCTTT-TGTCTCA
1797585 TCTTCTTTC
1 TCTTCTTTC
1797594 AGCTCTTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 7 0.25
24 18 0.64
25 3 0.11
ACGTcount: A:0.04, C:0.27, G:0.07, T:0.62
Consensus pattern (24 bp):
TCTTCTTTCTTCTCTTTTGTCTCA
Found at i:1797632 original size:6 final size:6
Alignment explanation
Indices: 1797621--1797655 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
1797611 CTTCTCTTGC
1797621 TTCTTT TTCTTT TTCTCTT TTC-TT TTCTTT TTCTT
1 TTCTTT TTCTTT TTCT-TT TTCTTT TTCTTT TTCTT
1797656 ATCTGAATCC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 5 0.19
6 17 0.63
7 5 0.19
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
TTCTTT
Found at i:1797703 original size:21 final size:21
Alignment explanation
Indices: 1797678--1797718 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1797668 GTCAGAAGAC
*
1797678 GACGAAGAAGATGAAGATGAT
1 GACGAAGAAGAAGAAGATGAT
*
1797699 GACGAGGAAGAAGAAGATGA
1 GACGAAGAAGAAGAAGATGA
1797719 CGATGACGAC
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:0.49, C:0.05, G:0.37, T:0.10
Consensus pattern (21 bp):
GACGAAGAAGAAGAAGATGAT
Found at i:1797708 original size:24 final size:24
Alignment explanation
Indices: 1797675--1797742 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 24
1797665 CGAGTCAGAA
* *
1797675 GACGACGAAGAAGATGAAGATGAT
1 GACGACGAAGAAGAAGAAGACGAT
* *
1797699 GACGAGGAAGAAGAAGATGACGAT
1 GACGACGAAGAAGAAGAAGACGAT
* *
1797723 GACGACGATGAGGAAGAAGA
1 GACGACGAAGAAGAAGAAGA
1797743 ACCTTTATTC
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.46, C:0.09, G:0.37, T:0.09
Consensus pattern (24 bp):
GACGACGAAGAAGAAGAAGACGAT
Found at i:1797723 original size:27 final size:27
Alignment explanation
Indices: 1797681--1797742 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
1797671 AGAAGACGAC
*
1797681 GAAGAAGATGAAGATGATGACGAGGAA
1 GAAGAAGATGAAGATGACGACGAGGAA
* * *
1797708 GAAGAAGATGACGATGACGACGATGAG
1 GAAGAAGATGAAGATGACGACGAGGAA
1797735 GAAGAAGA
1 GAAGAAGA
1797743 ACCTTTATTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.47, C:0.06, G:0.37, T:0.10
Consensus pattern (27 bp):
GAAGAAGATGAAGATGACGACGAGGAA
Found at i:1797849 original size:14 final size:15
Alignment explanation
Indices: 1797824--1797901 Score: 54
Period size: 15 Copynumber: 5.3 Consensus size: 15
1797814 CCTCTTTATC
*
1797824 CTTTTTCTTCTTTTT
1 CTTTTTCTTCTTTCT
1797839 CTTTTTC-TCTTTCT
1 CTTTTTCTTCTTTCT
** ** *
1797853 CTTTCCCAGCTTTGT
1 CTTTTTCTTCTTTCT
1797868 CTTTCTTCTTC-TTCT
1 CTTT-TTCTTCTTTCT
*
1797883 -TTTTCTTTTCTTTCT
1 CTTTT-TCTTCTTTCT
1797898 CTTT
1 CTTT
1797902 CCCTTTCTCT
Statistics
Matches: 47, Mismatches: 11, Indels: 9
0.70 0.16 0.13
Matches are distributed among these distances:
13 1 0.02
14 18 0.38
15 23 0.49
16 5 0.11
ACGTcount: A:0.01, C:0.27, G:0.03, T:0.69
Consensus pattern (15 bp):
CTTTTTCTTCTTTCT
Found at i:1797902 original size:6 final size:6
Alignment explanation
Indices: 1797831--1797912 Score: 51
Period size: 6 Copynumber: 13.2 Consensus size: 6
1797821 ATCCTTTTTC
* * * *
1797831 TTCTTT TTCTTT TTCTCT TTCTCT TTCCCAGCT TTGTCT TTCT-T CTTCTTCT
1 TTCTCT TTCTCT TTCTCT TTCTCT TT--C-TCT TTCTCT TTCTCT -TTC-TCT
* *
1797883 TTTTCT TT-TCT TTCTCT TTCCCT TTCTCT T
1 TTCTCT TTCTCT TTCTCT TTCTCT TTCTCT T
1797913 CGTCTCCCTT
Statistics
Matches: 61, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
5 6 0.10
6 46 0.75
7 3 0.05
8 2 0.03
9 4 0.07
ACGTcount: A:0.01, C:0.29, G:0.02, T:0.67
Consensus pattern (6 bp):
TTCTCT
Found at i:1798008 original size:24 final size:24
Alignment explanation
Indices: 1797975--1798025 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
1797965 TTCCTTAACC
*
1797975 TCTTTATCCTTC-TCCTTCTCCTCT
1 TCTTTATCC-TCGACCTTCTCCTCT
* *
1797999 TCTTTGTCCTCGACCTTCTTCTCT
1 TCTTTATCCTCGACCTTCTCCTCT
1798023 TCT
1 TCT
1798026 GTCTCTACCG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 2 0.09
24 21 0.91
ACGTcount: A:0.04, C:0.39, G:0.04, T:0.53
Consensus pattern (24 bp):
TCTTTATCCTCGACCTTCTCCTCT
Found at i:1806110 original size:33 final size:33
Alignment explanation
Indices: 1806072--1806170 Score: 153
Period size: 33 Copynumber: 3.0 Consensus size: 33
1806062 GACTAAGTGG
* * *
1806072 GAGTGTTTGGTTGTTGGACAGGAGTTGGAATGT
1 GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
*
1806105 GAGTGTTTTGTTGCTGGACAAGAGCTGGAATGT
1 GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
*
1806138 GGGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
1 GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
1806171 CAAGAAGAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.18, C:0.07, G:0.40, T:0.34
Consensus pattern (33 bp):
GAGTGTTTTGTTGCTGGACAGGAGCTGGAATGT
Found at i:1815594 original size:21 final size:21
Alignment explanation
Indices: 1815564--1815652 Score: 90
Period size: 21 Copynumber: 4.1 Consensus size: 21
1815554 CTCACAAAGA
* *
1815564 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTAACTTAGAC
* *
1815584 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAGTAACTTAGAC
*
1815605 AAAAAGAGAAGTAACTTGGAC
1 AAAAAGAGAAGTAACTTAGAC
*
1815626 AAAAAGAAACGAAGTGACTTAGAC
1 AAAAAG--A-GAAGTAACTTAGAC
1815650 AAA
1 AAA
1815653 TCTTTTTTGT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
20 6 0.10
21 36 0.62
23 1 0.02
24 15 0.26
ACGTcount: A:0.54, C:0.10, G:0.24, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTAGAC
Found at i:1815645 original size:24 final size:21
Alignment explanation
Indices: 1815564--1815632 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
1815554 CTCACAAAGA
* * *
1815564 AAAAAG-GAAGTGAGTTAGAC
1 AAAAAGAGAAGTAACTTGGAC
*
1815584 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
1815605 AAAAAGAGAAGTAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
1815626 AAAAAGA
1 AAAAAGA
1815633 AACGAAGTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 6 0.14
21 37 0.86
ACGTcount: A:0.55, C:0.09, G:0.25, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTGGAC
Found at i:1819814 original size:14 final size:14
Alignment explanation
Indices: 1819795--1819823 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1819785 TACAATATAT
1819795 ATAAGAATTATACG
1 ATAAGAATTATACG
1819809 ATAAGAATTATACG
1 ATAAGAATTATACG
1819823 A
1 A
1819824 ATCCATCTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.14, T:0.28
Consensus pattern (14 bp):
ATAAGAATTATACG
Found at i:1822312 original size:33 final size:33
Alignment explanation
Indices: 1822268--1822333 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
1822258 TTTCTTCTTG
*
1822268 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTATCCAGCAACCAAACACTC
*
1822301 ACATTCTAGCTCCTATCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTATCCAGCAACCAAACACTC
1822334 CCACTCAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.32, C:0.41, G:0.08, T:0.20
Consensus pattern (33 bp):
ACATTCCAGCTCCTATCCAGCAACCAAACACTC
Found at i:1826541 original size:12 final size:12
Alignment explanation
Indices: 1826524--1826548 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1826514 TCCTGAAGTG
1826524 ACAAATAAATAA
1 ACAAATAAATAA
1826536 ACAAATAAATAA
1 ACAAATAAATAA
1826548 A
1 A
1826549 AGAGACTTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (12 bp):
ACAAATAAATAA
Found at i:1827833 original size:14 final size:14
Alignment explanation
Indices: 1827814--1827840 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1827804 TAAACTAGCC
1827814 AAAAATAGTCAAAA
1 AAAAATAGTCAAAA
1827828 AAAAATAGTCAAA
1 AAAAATAGTCAAA
1827841 CTTTTAATTA
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:0.70, C:0.07, G:0.07, T:0.15
Consensus pattern (14 bp):
AAAAATAGTCAAAA
Found at i:1842356 original size:131 final size:133
Alignment explanation
Indices: 1842144--1842388 Score: 327
Period size: 131 Copynumber: 1.8 Consensus size: 133
1842134 TGTAATTATA
* * * * *
1842144 TAATGGAAATATTTTTTATATATATTATTATATTAAATATATTTTATCTTTTAAAAAAATAATTT
1 TAATGAAAATATATTTTATATATATCATTATATTAAATACATTTTATCTTTTAAAAAAATAA-TA
* * *
1842209 TTATTTTTTTATATTTTTCTTTATATAT-AATTTTTTATGTAAAATATTTTTTCACTTACATTGC
65 TAACTTTTTTATATTTTT-TTTATATATAAATTTTATATGTAAAATATTTTTTCACTTACATTGC
1842273 GGAAG
129 GGAAG
* * *
1842278 TAATGAAAATATATTTT-TATATGTCATTATGTTAAATACATTTTAT-TTTTAAAAACATCAA-A
1 TAATGAAAATATATTTTATATATATCATTATATTAAATACATTTTATCTTTTAAAAAAAT-AATA
*
1842340 TAACTTTTTTATATTTTTTTTATATATAAATTTTATGTGTAAAATATTT
65 TAACTTTTTTATATTTTTTTTATATATAAATTTTATATGTAAAATATTT
1842389 ATTTTTTCAT
Statistics
Matches: 97, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
130 9 0.09
131 35 0.36
132 11 0.11
133 27 0.28
134 15 0.15
ACGTcount: A:0.37, C:0.04, G:0.05, T:0.54
Consensus pattern (133 bp):
TAATGAAAATATATTTTATATATATCATTATATTAAATACATTTTATCTTTTAAAAAAATAATAT
AACTTTTTTATATTTTTTTTATATATAAATTTTATATGTAAAATATTTTTTCACTTACATTGCGG
AAG
Found at i:1844444 original size:42 final size:42
Alignment explanation
Indices: 1844394--1844486 Score: 127
Period size: 41 Copynumber: 2.3 Consensus size: 42
1844384 AGATATTCTA
** *
1844394 GAAA-TATTTTATTTTATCTTTTAGTAGTTTATTAGAATAAG
1 GAAATTATTTTACCTTATCTTTTAGTAGTTTATTAAAATAAG
*
1844435 GAAATTA-TTTCCCTTATCTTTTAGTAGTTTATTAAAATAAG
1 GAAATTATTTTACCTTATCTTTTAGTAGTTTATTAAAATAAG
*
1844476 GGAATTATTTT
1 GAAATTATTTT
1844487 CCCAATTAGG
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
41 40 0.89
42 5 0.11
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.49
Consensus pattern (42 bp):
GAAATTATTTTACCTTATCTTTTAGTAGTTTATTAAAATAAG
Found at i:1844452 original size:41 final size:41
Alignment explanation
Indices: 1844407--1844485 Score: 140
Period size: 41 Copynumber: 1.9 Consensus size: 41
1844397 ATATTTTATT
*
1844407 TTATCTTTTAGTAGTTTATTAGAATAAGGAAATTATTTCCC
1 TTATCTTTTAGTAGTTTATTAAAATAAGGAAATTATTTCCC
*
1844448 TTATCTTTTAGTAGTTTATTAAAATAAGGGAATTATTT
1 TTATCTTTTAGTAGTTTATTAAAATAAGGAAATTATTT
1844486 TCCCAATTAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.33, C:0.06, G:0.13, T:0.48
Consensus pattern (41 bp):
TTATCTTTTAGTAGTTTATTAAAATAAGGAAATTATTTCCC
Found at i:1848205 original size:19 final size:19
Alignment explanation
Indices: 1848181--1848221 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
1848171 TATTTTAAAG
1848181 TTATTTAGGTAGATAAATC
1 TTATTTAGGTAGATAAATC
1848200 TTATTTAGGTAGATAAATC
1 TTATTTAGGTAGATAAATC
1848219 TTA
1 TTA
1848222 GAATAAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.37, C:0.05, G:0.15, T:0.44
Consensus pattern (19 bp):
TTATTTAGGTAGATAAATC
Found at i:1848748 original size:18 final size:17
Alignment explanation
Indices: 1848723--1848775 Score: 52
Period size: 20 Copynumber: 2.9 Consensus size: 17
1848713 TTGAATCTTA
1848723 AAATGGTATCGATACAT
1 AAATGGTATCGATACAT
*
1848740 AAATAGGTATCTATACCAT
1 AAAT-GGTATCGATA-CAT
*
1848759 ATAACCGGTATCGATAC
1 A-AA-TGGTATCGATAC
1848776 CAGTGAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
17 4 0.14
18 9 0.31
19 5 0.17
20 11 0.38
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (17 bp):
AAATGGTATCGATACAT
Found at i:1848946 original size:22 final size:22
Alignment explanation
Indices: 1848919--1848962 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
1848909 CTTTCATAAG
1848919 CTCGATTAAAGCTCAGTTTCAA
1 CTCGATTAAAGCTCAGTTTCAA
*
1848941 CTCGATTAAAGCTTAGTTTCAA
1 CTCGATTAAAGCTCAGTTTCAA
1848963 TTATATATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (22 bp):
CTCGATTAAAGCTCAGTTTCAA
Found at i:1849314 original size:45 final size:45
Alignment explanation
Indices: 1849192--1849316 Score: 169
Period size: 45 Copynumber: 2.7 Consensus size: 45
1849182 TATTATAAAA
*
1849192 TCAAATAATTATTTCAAATATCACAATTATTTTTACATGTGAAATATT
1 TCAAATAATTATTTCAAATAT--CAA-TATTTTTACATGTAAAATATT
* * *
1849240 TCAAAAAAATTATTTCAAATATCATTATTTTTATATGTAAAATATT
1 TC-AAATAATTATTTCAAATATCAATATTTTTACATGTAAAATATT
*
1849286 TCAAATAATTAATTCAAATATCAATATTTTT
1 TCAAATAATTATTTCAAATATCAATATTTTT
1849317 TCACCTGCAT
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
45 26 0.38
46 21 0.30
47 2 0.03
48 2 0.03
49 18 0.26
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.45
Consensus pattern (45 bp):
TCAAATAATTATTTCAAATATCAATATTTTTACATGTAAAATATT
Found at i:1849317 original size:46 final size:46
Alignment explanation
Indices: 1849192--1849317 Score: 157
Period size: 46 Copynumber: 2.7 Consensus size: 46
1849182 TATTATAAAA
*
1849192 TCAAATAATTATTTCAAATATCACA-ATTATTTTTACATGTGAAATATT
1 TCAAATAATTATTTCAAATATCA-ATA-T-TTTTTACATGTAAAATATT
* * *
1849240 TCAAAAAAATTATTTCAAATATCATTA-TTTTTATATGTAAAATATT
1 TC-AAATAATTATTTCAAATATCAATATTTTTTACATGTAAAATATT
*
1849286 TCAAATAATTAATTCAAATATCAATATTTTTT
1 TCAAATAATTATTTCAAATATCAATATTTTTT
1849318 CACCTGCATT
Statistics
Matches: 68, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
45 21 0.31
46 24 0.35
48 2 0.03
49 21 0.31
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.45
Consensus pattern (46 bp):
TCAAATAATTATTTCAAATATCAATATTTTTTACATGTAAAATATT
Found at i:1851085 original size:23 final size:23
Alignment explanation
Indices: 1851055--1851101 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
1851045 GAATTATTGG
*
1851055 AATTTATTTTTTATTTCGAACCT
1 AATTTATTTTTCATTTCGAACCT
1851078 AATTTATTTTTCATTTCGAACCT
1 AATTTATTTTTCATTTCGAACCT
1851101 A
1 A
1851102 TAGGGGTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (23 bp):
AATTTATTTTTCATTTCGAACCT
Found at i:1856592 original size:19 final size:22
Alignment explanation
Indices: 1856553--1856592 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
1856543 AGAAACCCAA
1856553 CCATATCCAACCGTATACACCC
1 CCATATCCAACCGTATACACCC
1856575 CCATA-CCAACC-T-TACACC
1 CCATATCCAACCGTATACACC
1856593 GTGTGGGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.33, C:0.47, G:0.03, T:0.17
Consensus pattern (22 bp):
CCATATCCAACCGTATACACCC
Found at i:1856703 original size:27 final size:27
Alignment explanation
Indices: 1856655--1856759 Score: 135
Period size: 27 Copynumber: 3.9 Consensus size: 27
1856645 GCGAGGCTGC
* *
1856655 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
1856682 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
1856708 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
1856735 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
1856760 NNNNNNNNNN
Statistics
Matches: 71, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
26 8 0.11
27 60 0.85
28 3 0.04
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:1857927 original size:25 final size:26
Alignment explanation
Indices: 1857854--1857934 Score: 128
Period size: 26 Copynumber: 3.2 Consensus size: 26
1857844 TGAAATGCCC
1857854 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
1857880 ATCATGGAACATTTACCAAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
1857906 ATCAT-GAATATTTACCTTACCCATT
1 ATCATGGAACATTTACCTAACCCATT
1857931 ATCA
1 ATCA
1857935 ATTTTTATCA
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
25 21 0.41
26 30 0.59
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:1861181 original size:40 final size:40
Alignment explanation
Indices: 1861137--1861405 Score: 432
Period size: 40 Copynumber: 6.7 Consensus size: 40
1861127 GCTACTTGCT
1861137 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1861177 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
1861217 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1861257 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * *
1861297 CAAATGCCTTCAGAACTTAGCCCGGATATAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * *
1861337 CAAATGCCTTCGGGACTTAGTCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
*
1861377 CAAATGCCTTCGAGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1861406 CATCCGAATA
Statistics
Matches: 211, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.00
40 209 0.99
41 1 0.00
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:1861331 original size:120 final size:118
Alignment explanation
Indices: 1861104--1861405 Score: 453
Period size: 120 Copynumber: 2.5 Consensus size: 118
1861094 AAACCAAGTA
* * * *
1861104 CCTTCGGAATTTAGCCGGATATAGCTACTTGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGT
1 CCTTCGGGACTTAGCCGGATATAG-TACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGT
* * *
1861169 AACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
65 AACTCGCACAAATGCCTTCAGAACTTAGCCCGGATATAGTAACTCGCACAAATG
*
1861223 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
1 CCTTCGGGACTTAG-CCGGATATAGT-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
*
1861288 TAACTCGCACAAATGCCTTCAGAACTTAGCCCGGATATAGTAACTCGTACAAATG
64 TAACTCGCACAAATGCCTTCAGAACTTAGCCCGGATATAGTAACTCGCACAAATG
*
1861343 CCTTCGGGACTTAGTCCGGA-ATTAGTCACTAGCACAAATGCCTTCGAGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAG-CCGGATA-TAGT-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
1861406 CATCCGAATA
Statistics
Matches: 168, Mismatches: 12, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
119 14 0.08
120 154 0.92
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (118 bp):
CCTTCGGGACTTAGCCGGATATAGTACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
ACTCGCACAAATGCCTTCAGAACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:1869471 original size:22 final size:22
Alignment explanation
Indices: 1869432--1869505 Score: 66
Period size: 19 Copynumber: 3.4 Consensus size: 22
1869422 GTCATTTTGA
1869432 TATTATATTGTTACTATTTTATTAT
1 TATTAT-TTG-TA-TATTTTATTAT
* *
1869457 TATTATTTGTATATTGTATAAT
1 TATTATTTGTATATTTTATTAT
*
1869479 TATTA-TT-T-TATTTTACTAT
1 TATTATTTGTATATTTTATTAT
1869498 TATT-TTTG
1 TATTATTTG
1869506 AAGTATTTGT
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
19 14 0.33
20 1 0.02
21 2 0.05
22 14 0.33
23 2 0.05
24 3 0.07
25 6 0.14
ACGTcount: A:0.27, C:0.03, G:0.05, T:0.65
Consensus pattern (22 bp):
TATTATTTGTATATTTTATTAT
Found at i:1878674 original size:43 final size:41
Alignment explanation
Indices: 1878620--1878776 Score: 165
Period size: 43 Copynumber: 3.7 Consensus size: 41
1878610 CATATCGTAC
*
1878620 ATGCCAATGTCCTAGACGTGGTATTACATGTAATCACATGTCG
1 ATGCCAATGTCCTAGACGTGGTCTTACATG-AATCACAT-TCG
* *
1878663 ATGCCACTGTCCTAGACAG-GGTCTTACACGAATCACAATTACG
1 ATGCCAATGTCCTAGAC-GTGGTCTTACATGAATCAC-ATT-CG
* * *
1878706 ATGCCAATGTCCCAGACATGGTCTTAC-TCGAAATCACATATAG
1 ATGCCAATGTCCTAGACGTGGTCTTACAT-G-AATCACAT-TCG
*
1878749 ATGCCAACGTCCTAGACGTGGTCTTACA
1 ATGCCAATGTCCTAGACGTGGTCTTACA
1878777 CGAGAACACA
Statistics
Matches: 95, Mismatches: 11, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
42 7 0.07
43 80 0.84
44 8 0.08
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.26
Consensus pattern (41 bp):
ATGCCAATGTCCTAGACGTGGTCTTACATGAATCACATTCG
Found at i:1878765 original size:86 final size:86
Alignment explanation
Indices: 1878620--1878779 Score: 218
Period size: 86 Copynumber: 1.9 Consensus size: 86
1878610 CATATCGTAC
* * * * *
1878620 ATGCCAATGTCCTAGACGTGGTATTACATGTAATCACATGTCGATGCCACTGTCCTAGACAG-GG
1 ATGCCAATGTCCCAGACATGGTATTACATGAAATCACATATAGATGCCACTGTCCTAGAC-GTGG
1878684 TCTTACACGAATCACAATTACG
65 TCTTACACGAATCACAATTACG
*
1878706 ATGCCAATGTCCCAGACATGGTCTTAC-TCGAAATCACATATAGATGCCAAC-GTCCTAGACGTG
1 ATGCCAATGTCCCAGACATGGTATTACAT-GAAATCACATATAGATGCC-ACTGTCCTAGACGTG
1878769 GTCTTACACGA
64 GTCTTACACGA
1878780 GAACACATAA
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
85 2 0.03
86 61 0.94
87 2 0.03
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (86 bp):
ATGCCAATGTCCCAGACATGGTATTACATGAAATCACATATAGATGCCACTGTCCTAGACGTGGT
CTTACACGAATCACAATTACG
Found at i:1883124 original size:22 final size:22
Alignment explanation
Indices: 1883099--1883141 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
1883089 GTGTAGAGTA
1883099 ATCTGATA-AGCCTTAGTGGCAT
1 ATCT-ATATAGCCTTAGTGGCAT
* *
1883121 ATCTATATTGCCTTTGTGGCA
1 ATCTATATAGCCTTAGTGGCA
1883142 AATTATGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (22 bp):
ATCTATATAGCCTTAGTGGCAT
Found at i:1883894 original size:102 final size:102
Alignment explanation
Indices: 1883718--1883917 Score: 373
Period size: 102 Copynumber: 2.0 Consensus size: 102
1883708 AATCTGCCAA
*
1883718 AATTAAGATCAATGTAGATTTCAACTTAAAAGATTCGTTAGTTTTATTATCCGCCAAGAGTGATA
1 AATTAAGATCAATGTAGATTTCAACTTAAAAGATTCATTAGTTTTATTATCCGCCAAGAGTGATA
1883783 TTTGTGAGTACCCATCCTAAGGGAAAAAATATTATAG
66 TTTGTGAGTACCCATCCTAAGGGAAAAAATATTATAG
*
1883820 AATTAAGATCAATGTAGATTTCAACTTAAGAGATTCATTAGTTTTATTATCCGCCAAGAGTGATA
1 AATTAAGATCAATGTAGATTTCAACTTAAAAGATTCATTAGTTTTATTATCCGCCAAGAGTGATA
*
1883885 TTTGTGAGTACCCATCTTAAGGGAAAAAATATT
66 TTTGTGAGTACCCATCCTAAGGGAAAAAATATT
1883918 CTATGTCGAT
Statistics
Matches: 95, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
102 95 1.00
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34
Consensus pattern (102 bp):
AATTAAGATCAATGTAGATTTCAACTTAAAAGATTCATTAGTTTTATTATCCGCCAAGAGTGATA
TTTGTGAGTACCCATCCTAAGGGAAAAAATATTATAG
Found at i:1889607 original size:30 final size:30
Alignment explanation
Indices: 1889568--1889628 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
1889558 ATAAATTTTC
* *
1889568 AGACATAGGGGTAAAATAGTCATTTTGCCA
1 AGACATAGGGGCAAAATAGTCATTTTACCA
* *
1889598 AGACCTAGGGGCAAAATGGTCATTTTACCA
1 AGACATAGGGGCAAAATAGTCATTTTACCA
1889628 A
1 A
1889629 AGTTGTGAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (30 bp):
AGACATAGGGGCAAAATAGTCATTTTACCA
Found at i:1890127 original size:47 final size:44
Alignment explanation
Indices: 1889965--1890236 Score: 147
Period size: 47 Copynumber: 5.8 Consensus size: 44
1889955 GGGTGATTCG
* *
1889965 TGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATCCAGACGA
1 TGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-T-AAGA-GA
* * * * * **
1890014 -GGGCTAGTGTAAGACATGTTTGGGACATGCTTCAGCCATATTATGA
1 TGAGCCAGTGTAAGACATGTCTGGGACATGCATC-GGC-TAAGA-GA
* *
1890060 -GTGCCAGAGTAAGACATGTCTGGGACATGCATCGGCCTCGACAGAGA
1 TGAGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CT--A-AGAGA
* * * * *
1890107 T-AGCCAGTGTAAGACGTGTCTTGGACACGCATTGGCTAAGAGT
1 TGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTAAGAGA
* * * *
1890150 TGTGCAAGTGTAAGACATGTCTGGGACATGCATCAGCATGCATATATGA
1 TGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGC-T--A-AGA-GA
* *
1890199 -GAGCCAGTATAAGACCATGTCTCGGACATGGCATCGGC
1 TGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
1890237 AATTTATTCT
Statistics
Matches: 170, Mismatches: 39, Indels: 27
0.72 0.17 0.11
Matches are distributed among these distances:
43 5 0.03
44 29 0.17
45 3 0.02
46 38 0.22
47 48 0.28
48 26 0.15
49 14 0.08
50 7 0.04
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.23
Consensus pattern (44 bp):
TGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTAAGAGA
Found at i:1890433 original size:20 final size:20
Alignment explanation
Indices: 1890408--1890449 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
1890398 AGACTCGAGT
1890408 AGATGATAATGAGTAAGTTA
1 AGATGATAATGAGTAAGTTA
1890428 AGATGATAATGAGTAAGTTA
1 AGATGATAATGAGTAAGTTA
1890448 AG
1 AG
1890450 TTATTCACCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.26, T:0.29
Consensus pattern (20 bp):
AGATGATAATGAGTAAGTTA
Found at i:1891397 original size:72 final size:72
Alignment explanation
Indices: 1891311--1891454 Score: 279
Period size: 72 Copynumber: 2.0 Consensus size: 72
1891301 AAGTTGAAAG
*
1891311 TTAGTTCAAATATGGTAAATGTGATATGAATGAAAGTCTTGAATGTTTGATGTGTTGTTGATGTA
1 TTAGTTCAAATATGGTAAATGTGATATGAATGAAAGTCTTGAATGTTTGATGCGTTGTTGATGTA
1891376 TTTGAAC
66 TTTGAAC
1891383 TTAGTTCAAATATGGTAAATGTGATATGAATGAAAGTCTTGAATGTTTGATGCGTTGTTGATGTA
1 TTAGTTCAAATATGGTAAATGTGATATGAATGAAAGTCTTGAATGTTTGATGCGTTGTTGATGTA
1891448 TTTGAAC
66 TTTGAAC
1891455 ATATAAAATG
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.31, C:0.05, G:0.24, T:0.41
Consensus pattern (72 bp):
TTAGTTCAAATATGGTAAATGTGATATGAATGAAAGTCTTGAATGTTTGATGCGTTGTTGATGTA
TTTGAAC
Found at i:1892091 original size:49 final size:49
Alignment explanation
Indices: 1892019--1892112 Score: 170
Period size: 49 Copynumber: 1.9 Consensus size: 49
1892009 TCAAAAAGGC
*
1892019 ATAAATAGTGATAAGAGTGTAGACAGTGGAAGACTAAATTTAGCAAAGT
1 ATAAATAGTGATAAGAGTGTAGACAGTGGAAGACCAAATTTAGCAAAGT
*
1892068 ATAAATAGTGATAAGAGTGTAGACAGTGGAAGACCAAGTTTAGCA
1 ATAAATAGTGATAAGAGTGTAGACAGTGGAAGACCAAATTTAGCA
1892113 TTACACAGCA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.44, C:0.07, G:0.26, T:0.23
Consensus pattern (49 bp):
ATAAATAGTGATAAGAGTGTAGACAGTGGAAGACCAAATTTAGCAAAGT
Found at i:1895153 original size:39 final size:39
Alignment explanation
Indices: 1895017--1895156 Score: 187
Period size: 39 Copynumber: 3.6 Consensus size: 39
1895007 TATTCGGATG
*
1895017 ATATCCGGGCTAAGTCCCGAAGGCATGGTGCTAGTGACT
1 ATATCCGGGCTAAATCCCGAAGGCATGGTGCTAGTGACT
*
1895056 ATATCCGGGCTAAGTCCCGAAGGCATGGTGCTAGTGACT
1 ATATCCGGGCTAAATCCCGAAGGCATGGTGCTAGTGACT
* *
1895095 ATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAA-ATCCCGAAGGCA-TGGTGCTAG-TGACT
*
1895135 ATATCC-GGCCAAATCCCGAAGG
1 ATATCCGGGCTAAATCCCGAAGG
1895157 TACTTGGGTT
Statistics
Matches: 93, Mismatches: 4, Indels: 8
0.89 0.04 0.08
Matches are distributed among these distances:
38 1 0.01
39 75 0.81
40 15 0.16
41 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAATCCCGAAGGCATGGTGCTAGTGACT
Found at i:1909207 original size:48 final size:48
Alignment explanation
Indices: 1909030--1909210 Score: 199
Period size: 48 Copynumber: 3.8 Consensus size: 48
1909020 CTTACACATT
* * * **
1909030 AAGTGCCAATATCATGGCCCGAAGCCAACTTAATA-TATCTCGGACCCG
1 AAGTGCCAATATCATGGCCCGAAGCCAAATCAA-AGTAACTCCCACCCG
* * *
1909078 AAGTGCTAATATCATGGCCCGTAGCCAAATC--AGTGAAGC-CCGCACTCG
1 AAGTGCCAATATCATGGCCCGAAGCCAAATCAAAGT-AA-CTCC-CACCCG
** *
1909126 AAGTGCTGATATCATGGCTCGAAGCCAAATCAAAGTAACTCCCACCCG
1 AAGTGCCAATATCATGGCCCGAAGCCAAATCAAAGTAACTCCCACCCG
1909174 AAGTGCCAATATCATGGCCCGAAGCCAAATCAAAGTA
1 AAGTGCCAATATCATGGCCCGAAGCCAAATCAAAGTA
1909211 TCCCTTAATG
Statistics
Matches: 111, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
45 1 0.01
46 1 0.01
47 2 0.02
48 100 0.90
49 4 0.04
50 3 0.03
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.19
Consensus pattern (48 bp):
AAGTGCCAATATCATGGCCCGAAGCCAAATCAAAGTAACTCCCACCCG
Found at i:1911738 original size:27 final size:29
Alignment explanation
Indices: 1911691--1911753 Score: 78
Period size: 27 Copynumber: 2.2 Consensus size: 29
1911681 ATACTTTGAG
1911691 TTGGCTTCGGGTGCAAGATAT-A-TCGAT
1 TTGGCTTCGGGTGCAAGATATCAGTCGAT
* *
1911718 TTGGCTTCGGGT-CATGCATATCAGTTGAT
1 TTGGCTTCGGGTGCAAG-ATATCAGTCGAT
1911747 TTGGCTT
1 TTGGCTT
1911754 TGGCCCATGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 3 0.10
27 16 0.52
28 1 0.03
29 11 0.35
ACGTcount: A:0.17, C:0.16, G:0.29, T:0.38
Consensus pattern (29 bp):
TTGGCTTCGGGTGCAAGATATCAGTCGAT
Found at i:1911762 original size:29 final size:28
Alignment explanation
Indices: 1911715--1911769 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
1911705 AAGATATATC
**
1911715 GATTTGGCTTCGGGTCATGCATATCAGTT
1 GATTTGGCTTCGGCCCATG-ATATCAGTT
*
1911744 GATTTGGCTTTGGCCCATGATATCAG
1 GATTTGGCTTCGGCCCATGATATCAG
1911770 AATTTCAGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 7 0.30
29 16 0.70
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.36
Consensus pattern (28 bp):
GATTTGGCTTCGGCCCATGATATCAGTT
Found at i:1918294 original size:40 final size:40
Alignment explanation
Indices: 1918246--1918673 Score: 838
Period size: 40 Copynumber: 10.7 Consensus size: 40
1918236 GCAAACACAT
* *
1918246 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1918286 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1918326 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1918366 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1918406 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1918446 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1918486 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1918526 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1918566 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1918606 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1918646 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
1918674 TCCAATGCTC
Statistics
Matches: 386, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 386 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:1922173 original size:15 final size:15
Alignment explanation
Indices: 1922153--1922184 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
1922143 TCTTGATCTA
1922153 AATAATATCAAATTT
1 AATAATATCAAATTT
1922168 AATAATATCAAATTT
1 AATAATATCAAATTT
1922183 AA
1 AA
1922185 CTTTTAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (15 bp):
AATAATATCAAATTT
Found at i:1922264 original size:8 final size:8
Alignment explanation
Indices: 1922251--1922276 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
1922241 ACTTTCGCCC
1922251 TTAACATT
1 TTAACATT
1922259 TTAACATT
1 TTAACATT
1922267 TTAACATT
1 TTAACATT
1922275 TT
1 TT
1922277 TACAATTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.54
Consensus pattern (8 bp):
TTAACATT
Found at i:1922285 original size:16 final size:16
Alignment explanation
Indices: 1922251--1922285 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
1922241 ACTTTCGCCC
*
1922251 TTAACATTTTAACATT
1 TTAACATTTTAACAAT
*
1922267 TTAACATTTTTACAAT
1 TTAACATTTTAACAAT
1922283 TTA
1 TTA
1922286 GTCCTTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.51
Consensus pattern (16 bp):
TTAACATTTTAACAAT
Found at i:1925076 original size:69 final size:69
Alignment explanation
Indices: 1924994--1925131 Score: 249
Period size: 69 Copynumber: 2.0 Consensus size: 69
1924984 CTAGGGTGAT
*
1924994 AGTTTGTATATATAGAGTCATTGTTGCCAGGAAAACTGGGGTGACAAGATGAGTAGATTGTGAAA
1 AGTTTGTATATATAGAGTCATTGTTGCCAGGAAAACTGGGGTGACAAAATGAGTAGATTGTGAAA
1925059 GCCA
66 GCCA
* *
1925063 AGTTTGTATATATAGAGTCATTGTTGCCAGGCAAATTGGGGTGACAAAATGAGTAGATTGTGAAA
1 AGTTTGTATATATAGAGTCATTGTTGCCAGGAAAACTGGGGTGACAAAATGAGTAGATTGTGAAA
1925128 GCCA
66 GCCA
1925132 TCATCACCGG
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
69 66 1.00
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.28
Consensus pattern (69 bp):
AGTTTGTATATATAGAGTCATTGTTGCCAGGAAAACTGGGGTGACAAAATGAGTAGATTGTGAAA
GCCA
Found at i:1925477 original size:49 final size:49
Alignment explanation
Indices: 1925405--1925504 Score: 200
Period size: 49 Copynumber: 2.0 Consensus size: 49
1925395 TATGAAATGG
1925405 GACGTATGTATATGTTTGTTACAAGAATGGTATATGAATAAAAATATAT
1 GACGTATGTATATGTTTGTTACAAGAATGGTATATGAATAAAAATATAT
1925454 GACGTATGTATATGTTTGTTACAAGAATGGTATATGAATAAAAATATAT
1 GACGTATGTATATGTTTGTTACAAGAATGGTATATGAATAAAAATATAT
1925503 GA
1 GA
1925505 AATTGGAAAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.41, C:0.04, G:0.19, T:0.36
Consensus pattern (49 bp):
GACGTATGTATATGTTTGTTACAAGAATGGTATATGAATAAAAATATAT
Found at i:1941041 original size:40 final size:40
Alignment explanation
Indices: 1940997--1941258 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
1940987 GCTCCTCGTT
* *
1940997 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
1941037 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
1941077 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
1941116 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
1941155 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
1941194 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
1941235 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
1941259 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:1951769 original size:45 final size:43
Alignment explanation
Indices: 1951639--1951772 Score: 130
Period size: 45 Copynumber: 3.1 Consensus size: 43
1951629 ATGCTATCTC
* * *
1951639 ATATCGATGCCACTGTCCCAGACAGGGTCTTACATGAATCA-A-
1 ATATCGATGCCAC-GTCCCAGACATGGTCTTACACGAAACACAT
* * * * *
1951681 ATAT-GAAGCCGATGTCCCAGGCATGGTCTTATACGTAACCACAT
1 ATATCGATGCC-ACGTCCCAGACATGGTCTTACACG-AAACACAT
1951725 ATATCGATGCCAACGTCCCAGACATGGTCTTACACGAGAACACAT
1 ATATCGATGCC-ACGTCCCAGACATGGTCTTACACGA-AACACAT
1951770 ATA
1 ATA
1951773 GAAATCCTAT
Statistics
Matches: 73, Mismatches: 13, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
41 23 0.32
42 9 0.12
43 1 0.01
44 5 0.07
45 35 0.48
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (43 bp):
ATATCGATGCCACGTCCCAGACATGGTCTTACACGAAACACAT
Found at i:1982570 original size:31 final size:31
Alignment explanation
Indices: 1982532--1982599 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
1982522 TTGCATTCAC
* * * *
1982532 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTAATTCTGTCACCTAATACTG
*
1982563 ATTCTGATTCTAATTCTGTCACCTAATTCTG
1 ATTCTGATTCTAATTCTGTCACCTAATACTG
1982594 ATTCTG
1 ATTCTG
1982600 TCACTTGATT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTAATTCTGTCACCTAATACTG
Found at i:1982571 original size:6 final size:6
Alignment explanation
Indices: 1982532--1982644 Score: 54
Period size: 6 Copynumber: 18.3 Consensus size: 6
1982522 TTGCATTCAC
* * *
1982532 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * * *
1982581 -TCACCTA ATTCTG ATTCTG -TCACTTG ATTCTG ATTCTA ATTCTC ATTTTG
1 AT--TCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
1982631 ATTCT- AGTTCTG AT
1 ATTCTG A-TTCTG AT
1982645 AATGTTTCTT
Statistics
Matches: 79, Mismatches: 17, Indels: 22
0.67 0.14 0.19
Matches are distributed among these distances:
5 5 0.06
6 62 0.78
7 9 0.11
8 3 0.04
ACGTcount: A:0.20, C:0.19, G:0.12, T:0.49
Consensus pattern (6 bp):
ATTCTG
Done.