Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 53 of 230
Found at i:14316554 original size:39 final size:39
Alignment explanation
Indices: 14316496--14316589 Score: 145
Period size: 39 Copynumber: 2.4 Consensus size: 39
14316486 TGCTTTTAGG
* *
14316496 AAAA-CGCCGCTAAAAATGAGCATTAGCTGCGTTTTCCA
1 AAAAGCGCCGCTAAAAATGAGCATTAGCGGCATTTTCCA
14316534 AAAAGCGCCGCTAAAAATGAGCATTAGCGGCATTTTCCA
1 AAAAGCGCCGCTAAAAATGAGCATTAGCGGCATTTTCCA
* *
14316573 AAAAGCGCTGCAAAAAA
1 AAAAGCGCCGCTAAAAA
14316590 CCTAAGCCTA
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
38 4 0.08
39 47 0.92
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.19
Consensus pattern (39 bp):
AAAAGCGCCGCTAAAAATGAGCATTAGCGGCATTTTCCA
Found at i:14316689 original size:41 final size:41
Alignment explanation
Indices: 14316627--14316983 Score: 534
Period size: 41 Copynumber: 8.7 Consensus size: 41
14316617 GTTTTCGAGG
* *
14316627 CTTTAGCGGCATTTTTGAAGAAGCGTCGCTAATGCTCGGGT
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGT
* * * * * *
14316668 CTTTAGTGTCATTTTTTAAGAAGCGCCGCTAATGCCCGGAT
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGT
14316709 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGT
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGT
* *
14316750 CTTTAGCGACGTTTTTGAAGGAGCGCCGCTAATGCTCGGGT
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGT
* * *
14316791 CTTTAGCGGCGTTTTTGAAAAAGCACTGCTAATGCTCGGGT
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGT
14316832 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGT
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGT
*
14316873 CTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTCGGGT
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGT
* * *
14316914 CTTTAGTGGCGTTTTTGAAGAAGTGCCGCTAATTCTCGGGT
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGT
* * *
14316955 CTTTAGCAGCGTTTTTAAAAAAGCGCCGC
1 CTTTAGCGGCGTTTTTGAAGAAGCGCCGC
14316984 AAAAAATATT
Statistics
Matches: 284, Mismatches: 32, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 284 1.00
ACGTcount: A:0.19, C:0.21, G:0.28, T:0.31
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGGT
Found at i:14317106 original size:79 final size:80
Alignment explanation
Indices: 14317002--14317187 Score: 179
Period size: 79 Copynumber: 2.3 Consensus size: 80
14316992 TTTTATTATT
** * *
14317002 TTTTTCCCCCTTCTTTTCCCAAAATCGATTCCCCCCACTCTTT-TTCCCCCCAATTCC-TTTCT-
1 TTTTTCCCCC-TAATTTCCCAAAATCGA-T-CACCC-CT-TTTATTCCCCCCAA-ACCATTTCTC
14317064 CCCCT-ACCCGATTCCCTTTA
60 CCCCTAACCCGATTCCCTTTA
* * ***
14317084 -TTTT-CCCCTAATTTCCCCAAATCG-TCAGCCCTTTTATTTTTCCCAAACCATTTCTCCCCCTA
1 TTTTTCCCCCTAATTTCCCAAAATCGATCACCCCTTTTATTCCCCCCAAACCATTTCTCCCCCTA
14317146 ACCCGATTCCCTTTA
66 ACCCGATTCCCTTTA
*
14317161 TTTTTCCCCCTAATTTCCCTAAATCGA
1 TTTTTCCCCCTAATTTCCCAAAATCGA
14317188 CAGCCCTCTG
Statistics
Matches: 87, Mismatches: 10, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
74 5 0.06
75 14 0.16
76 8 0.09
77 16 0.18
78 4 0.05
79 32 0.37
80 4 0.05
81 4 0.05
ACGTcount: A:0.17, C:0.41, G:0.03, T:0.39
Consensus pattern (80 bp):
TTTTTCCCCCTAATTTCCCAAAATCGATCACCCCTTTTATTCCCCCCAAACCATTTCTCCCCCTA
ACCCGATTCCCTTTA
Found at i:14319573 original size:43 final size:43
Alignment explanation
Indices: 14319526--14319734 Score: 262
Period size: 43 Copynumber: 4.9 Consensus size: 43
14319516 ATTTTTAATT
**
14319526 AAAGCGCTGCTAAAGGTCATAAG-CTTTAGCGGCGTTTGTGGGA
1 AAAGCGCTGCTAAAGGTC-TTGGTCTTTAGCGGCGTTTGTGGGA
* * *
14319569 AAAGCG-TCGCTAAAGGTCTTGTTCTTTAGTGGCGTTTCTGGGA
1 AAAGCGCT-GCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGA
*
14319612 AAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGA
1 AAAGCGCTGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGA
* * ** *
14319655 AAAGCGCCGCTAAAGATCCCGGTCTTTAGCGGCGTTTGTGGAA
1 AAAGCGCTGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGA
*
14319698 AAAGCG-TCGCTAAAGATCTTGGTCTTTAGCGGCGTTT
1 AAAGCGCT-GCTAAAGGTCTTGGTCTTTAGCGGCGTTT
14319735 TTAGAAAAAA
Statistics
Matches: 146, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
42 2 0.01
43 144 0.99
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.29
Consensus pattern (43 bp):
AAAGCGCTGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGA
Found at i:14319577 original size:85 final size:86
Alignment explanation
Indices: 14319466--14319734 Score: 217
Period size: 86 Copynumber: 3.2 Consensus size: 86
14319456 AATTTATGCT
* * * **
14319466 TTTAGTGGCGTTTGT-GAAAAAGCGTCGCTAAAAGTCAATG-T-TATAGCGGCATTTTTAATTAA
1 TTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAAGTC-ATGTTCTATAGCGGCATTTCTAAGAAA
*
14319528 AGCGCTGCTAAAGGTCATAAG-C
65 AGCGCCGCTAAAGGTC-TAAGTC
* * * * * **
14319550 TTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCTTGTTCTTTAGTGGCGTTTCTGGGAAAA
1 TTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAAGTCATGTTCTATAGCGGCATTTCTAAGAAAA
**
14319615 GCGCCGCTAAAGGTCTTGGTC
66 GCGCCGCTAAAGGTCTAAGTC
* ** * * * * *
14319636 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCT-AAAGATCCCGGTCTTTAGCGGCGTTTGT-GGAAA
1 TTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAAG-TCATGTTCTATAGCGGCATTTCTAAG-AA
* * **
14319699 AAGCGTCGCTAAAGATCTTGGTC
64 AAGCGCCGCTAAAGGTCTAAGTC
14319722 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
14319735 TTAGAAAAAA
Statistics
Matches: 155, Mismatches: 24, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
84 16 0.10
85 27 0.17
86 112 0.72
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.30
Consensus pattern (86 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAAGTCATGTTCTATAGCGGCATTTCTAAGAAAA
GCGCCGCTAAAGGTCTAAGTC
Found at i:14319743 original size:43 final size:43
Alignment explanation
Indices: 14319549--14319734 Score: 282
Period size: 43 Copynumber: 4.3 Consensus size: 43
14319539 AGGTCATAAG
* * *
14319549 CTTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCTTGTT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCTTGGT
* * *
14319592 CTTTAGTGGCGTTTCTGGGAAAAGCGCCGCTAAAGGTCTTGGT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCTTGGT
**
14319635 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCCCGGT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCTTGGT
* *
14319678 CTTTAGCGGCGTTTGTGGAAAAAGCGTCGCTAAAGATCTTGGT
1 CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCTTGGT
14319721 CTTTAGCGGCGTTT
1 CTTTAGCGGCGTTT
14319735 TTAGAAAAAA
Statistics
Matches: 130, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 130 1.00
ACGTcount: A:0.19, C:0.19, G:0.32, T:0.30
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCTTGGT
Found at i:14323551 original size:22 final size:22
Alignment explanation
Indices: 14323501--14323554 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 22
14323491 ATCATTTGAT
*
14323501 TTAAAAAAAATAATTATAACTA
1 TTAAAAAATATAATTATAACTA
14323523 TTCAAAAAATATAATT-TGAA-TA
1 TT-AAAAAATATAATTAT-AACTA
14323545 GTTAAAAAAT
1 -TTAAAAAAT
14323555 TAAATGAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
22 12 0.43
23 16 0.57
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (22 bp):
TTAAAAAATATAATTATAACTA
Found at i:14336860 original size:18 final size:18
Alignment explanation
Indices: 14336837--14336871 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
14336827 GAAGATATAA
14336837 TTTTAT-ATTAATATTTAT
1 TTTTATAATTAA-ATTTAT
14336855 TTTTATAATTAAATTTA
1 TTTTATAATTAAATTTA
14336872 AATAAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTTATAATTAAATTTAT
Found at i:14339428 original size:9 final size:9
Alignment explanation
Indices: 14339409--14339443 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
14339399 TTTTAAGCTA
14339409 AAAAAACAGC
1 AAAAAA-AGC
14339419 AAAAAAAGC
1 AAAAAAAGC
*
14339428 AAAAAATGC
1 AAAAAAAGC
14339437 AAAAAAA
1 AAAAAAA
14339444 AGTTACCTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 17 0.74
10 6 0.26
ACGTcount: A:0.77, C:0.11, G:0.09, T:0.03
Consensus pattern (9 bp):
AAAAAAAGC
Found at i:14351975 original size:46 final size:46
Alignment explanation
Indices: 14351908--14352000 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
14351898 ATGACAATGA
14351908 AAACCAACTAAGCATACCTGCTCCAACTCGCTCTCACTCTACCCCC
1 AAACCAACTAAGCATACCTGCTCCAACTCGCTCTCACTCTACCCCC
14351954 AAACCAACTAAGCATACCTGCTCCAACTCGCTCTCACTCTACCCCC
1 AAACCAACTAAGCATACCTGCTCCAACTCGCTCTCACTCTACCCCC
14352000 A
1 A
14352001 CTTGCTCTAC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.29, C:0.45, G:0.06, T:0.19
Consensus pattern (46 bp):
AAACCAACTAAGCATACCTGCTCCAACTCGCTCTCACTCTACCCCC
Found at i:14352403 original size:9 final size:9
Alignment explanation
Indices: 14352389--14352422 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
14352379 GTTTTCGAAT
14352389 TCGAATAAC
1 TCGAATAAC
14352398 TCGAATAAC
1 TCGAATAAC
*
14352407 TCGAATAAT
1 TCGAATAAC
14352416 TCGAATA
1 TCGAATA
14352423 TTAAACTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:14352507 original size:29 final size:31
Alignment explanation
Indices: 14352471--14352531 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
14352461 AAACATTTTT
* *
14352471 ACTTTTCCCTCAAAACTTTTACTCCT-TCCC
1 ACTTTCCCCCCAAAACTTTTACTCCTCTCCC
*
14352501 ACTTTCCCCCCAAAGCTTTTACTCCTCTCCC
1 ACTTTCCCCCCAAAACTTTTACTCCTCTCCC
14352532 CTCCCAACCC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.18, C:0.44, G:0.02, T:0.36
Consensus pattern (31 bp):
ACTTTCCCCCCAAAACTTTTACTCCTCTCCC
Found at i:14352665 original size:19 final size:20
Alignment explanation
Indices: 14352625--14352665 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
14352615 AAAAAACCCT
*
14352625 CAAAACTTTTTATTTTCCCC
1 CAAAACTTTTTATCTTCCCC
14352645 CAAAA-TTTTTA-CTTCCTCC
1 CAAAACTTTTTATCTTCC-CC
14352664 CA
1 CA
14352666 CTTTTCCCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
18 4 0.21
19 10 0.53
20 5 0.26
ACGTcount: A:0.27, C:0.32, G:0.00, T:0.41
Consensus pattern (20 bp):
CAAAACTTTTTATCTTCCCC
Found at i:14352925 original size:13 final size:12
Alignment explanation
Indices: 14352907--14352969 Score: 58
Period size: 12 Copynumber: 5.2 Consensus size: 12
14352897 AGTAATAATT
14352907 TTATTTATATCTA
1 TTATTTATAT-TA
14352920 TTATTTATATTA
1 TTATTTATATTA
* *
14352932 TTAAATTAAATT-
1 TT-ATTTATATTA
*
14352944 TTATATTTTA-TA
1 TTAT-TTATATTA
14352956 TTATTTATATTA
1 TTATTTATATTA
14352968 TT
1 TT
14352970 GAATTGTTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
11 6 0.15
12 17 0.43
13 17 0.43
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (12 bp):
TTATTTATATTA
Found at i:14353997 original size:15 final size:14
Alignment explanation
Indices: 14353966--14354005 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
14353956 ACAAATTTAA
*
14353966 AAATTAGAATTACTT
1 AAATT-GAATTAATT
14353981 AAATTGAATTGAATT
1 AAATTGAATT-AATT
14353996 AAATTGAATT
1 AAATTGAATT
14354006 TTATTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.22
15 18 0.78
ACGTcount: A:0.47, C:0.03, G:0.10, T:0.40
Consensus pattern (14 bp):
AAATTGAATTAATT
Found at i:14357816 original size:3 final size:3
Alignment explanation
Indices: 14357808--14357846 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
14357798 AAGGACCCAA
* * *
14357808 ATT ATT ATT ATT ATT ATC ATT AGT ACT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
14357847 TTTACAAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:14359635 original size:50 final size:48
Alignment explanation
Indices: 14359570--14359767 Score: 189
Period size: 51 Copynumber: 4.0 Consensus size: 48
14359560 AAAGTGAAAG
* * *
14359570 TGATGGTCACGTGTGTAGTACTATATGCAGGCTACTACATGTACCAGAA
1 TGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GAA
* * * *
14359619 TGATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGA
1 TGAT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAA
* * * *
14359668 TAGCTTCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATA
1 T-G-AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CCGA-A
* * * *
14359721 GTGATGGTCACATGTGTAGTACTATGTACAGGTTACTATGTGAACCG
1 -TGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
14359768 GTATCATTAA
Statistics
Matches: 119, Mismatches: 24, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
49 7 0.06
50 38 0.32
51 68 0.57
52 3 0.03
53 2 0.02
54 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (48 bp):
TGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAA
Found at i:14359836 original size:46 final size:43
Alignment explanation
Indices: 14359764--14359861 Score: 117
Period size: 46 Copynumber: 2.2 Consensus size: 43
14359754 TACTATGTGA
*
14359764 ACCGGTATCATTAATTATAAGGTGGTTGCTATGTGCTG-ATCCC
1 ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGAAT-CC
* *
14359807 ACCGGATATCATTGATTACAAAGGGTGGTTGCTGTGTGCTGAATCC
1 ACCGG-TATCATTAATTA-AAA-GGTGGTTGCTATGTGCTGAATCC
14359853 ACCGTGTAT
1 ACCG-GTAT
14359862 TTGTTATTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
43 5 0.11
44 11 0.23
45 2 0.04
46 26 0.55
47 3 0.06
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (43 bp):
ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGAATCC
Found at i:14360007 original size:16 final size:16
Alignment explanation
Indices: 14359986--14360017 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14359976 TGATTGAAAG
*
14359986 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
14360002 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
14360018 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:14362156 original size:16 final size:16
Alignment explanation
Indices: 14362135--14362166 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14362125 GTTTTGTTGC
*
14362135 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
14362151 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
14362167 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:14362452 original size:51 final size:51
Alignment explanation
Indices: 14362394--14362584 Score: 194
Period size: 51 Copynumber: 3.8 Consensus size: 51
14362384 CCGGTTCACA
* *
14362394 TAGTAGCCTGCACATAGTACTACACATGTGGCCATCACTATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGATACACG
* * * *
14362445 TAGTAGCCTGCACATAGTACTACACACGTGA--TTGAAGCTATCC-AGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT-CA-CTATCCGA-TACACG
* * * * * *
14362496 TAGTAGCTTGCACATAGTACTACATATGCGACCTATCA-T-TCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCCGATACACG
*
14362546 TAGTAGCCTACACATAGTACTACACACGTGACCATCACT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
14362585 TTCACTTTCA
Statistics
Matches: 111, Mismatches: 21, Indels: 17
0.74 0.14 0.11
Matches are distributed among these distances:
49 5 0.05
50 37 0.33
51 67 0.60
53 1 0.01
54 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.25
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGATACACG
Found at i:14362560 original size:101 final size:102
Alignment explanation
Indices: 14362392--14362576 Score: 284
Period size: 101 Copynumber: 1.8 Consensus size: 102
14362382 TACCGGTTCA
* * *
14362392 CATAGTAGCCTGCACATAGTACTACACATGTGGCCATCACTATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTACA
14362457 CATAGTACTACACACGTGATTGAAGCTATCCAGTACG
66 CATAGTACTACACACGTGATTGAAGCTATCCAGTACG
* * * *
14362494 CATAGTAGCTTGCACATAGTACTACATATGCGACCTATCA-T-TCTGGTACACGTAGTAGCCTAC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATCCGATACACGTAGTAGCCTAC
14362557 ACATAGTACTACACACGTGA
65 ACATAGTACTACACACGTGA
14362577 CCATCACTTT
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
101 39 0.52
102 32 0.43
103 4 0.05
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTACA
CATAGTACTACACACGTGATTGAAGCTATCCAGTACG
Found at i:14384980 original size:21 final size:21
Alignment explanation
Indices: 14384936--14384977 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
14384926 ATCAAGAAAA
* *
14384936 AAAAAGAAAAAAGAAAAAGGG
1 AAAAACAAAAAACAAAAAGGG
14384957 AAAAACAATAAAACAAAAAGG
1 AAAAACAA-AAAACAAAAAGG
14384978 AAACAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.76, C:0.05, G:0.17, T:0.02
Consensus pattern (21 bp):
AAAAACAAAAAACAAAAAGGG
Found at i:14385441 original size:42 final size:42
Alignment explanation
Indices: 14385394--14385699 Score: 352
Period size: 42 Copynumber: 7.3 Consensus size: 42
14385384 AAGGGAAACA
* *
14385394 TTCATTGCATTTAGAGGCCCCA-GTGTGGAGCTCCATTTACTT
1 TTCATTGCATTTAGAGG-CCTAGGTGTGGAGGTCCATTTACTT
* * *
14385436 TTCATTGCATTTAGAGG-CTCGGGCGTAGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCT-AGGTGTGGAGGTCCATTTACTT
* *
14385478 TTCATTGCATTTAGAGGCCTAGG-GTAGAGGTCCACTTACGTT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTAC-TT
* *
14385520 TT-ATTACATTTAGAGGCCTAGGTGTGGAGTTCCATTTACTT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
* * * *
14385561 TTCATTGCATTTAAAGGCCCAGATGTGTGGAGTTCCATTGACTT
1 TTCATTGCATTTAGAGGCCTAG--GTGTGGAGGTCCATTTACTT
* * *
14385605 TTCATTACATTTAGAGGTCTAGGTGTGGAGGTCCATCTACTT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
* * *
14385647 TTCATTACATTTAAAGG-CTCAGGTGTGGAGGTTCATTTACTT
1 TTCATTGCATTTAGAGGCCT-AGGTGTGGAGGTCCATTTACTT
14385689 TTCATTGCATT
1 TTCATTGCATT
14385700 GTATATGAAG
Statistics
Matches: 229, Mismatches: 26, Indels: 18
0.84 0.10 0.07
Matches are distributed among these distances:
40 1 0.00
41 40 0.17
42 149 0.65
43 2 0.01
44 37 0.16
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.38
Consensus pattern (42 bp):
TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTT
Found at i:14385557 original size:83 final size:81
Alignment explanation
Indices: 14385394--14385699 Score: 326
Period size: 83 Copynumber: 3.6 Consensus size: 81
14385384 AAGGGAAACA
* * * *
14385394 TTCATTGCATTTAGAGGCCCCAGTGTGGAGCTCCATTTACTTTTCATTGCATTTAGAGGCTCGGG
1 TTCATTGCATTTAAAGG-CCCAGGGTGGAGCTCCA-TTACTTTTCATTACATTTAGAGGCT-AGG
* *
14385459 CGTAGAGGTCCATTTACTT
63 TGTGGAGGTCCATTTACTT
* * * *
14385478 TTCATTGCATTTAGAGGCCTAGGGTAGAGGTCCACTTACGTTTT-ATTACATTTAGAGGCCTAGG
1 TTCATTGCATTTAAAGGCCCAGGGTGGAGCTCCA-TTAC-TTTTCATTACATTTAGAGG-CTAGG
*
14385542 TGTGGAGTTCCATTTACTT
63 TGTGGAGGTCCATTTACTT
*
14385561 TTCATTGCATTTAAAGGCCCAGATGTGTGGAGTTCCATTGACTTTTCATTACATTTAGAGGTCTA
1 TTCATTGCATTTAAAGGCCCAG--G-GTGGAGCTCCATT-ACTTTTCATTACATTTAGAGG-CTA
*
14385626 GGTGTGGAGGTCCATCTACTT
61 GGTGTGGAGGTCCATTTACTT
* * * * *
14385647 TTCATTACATTTAAAGGCTCAGGTGTGGAGGTTCATTTACTTTTCATTGCATT
1 TTCATTGCATTTAAAGGCCCAGG-GTGGAGCTCCA-TTACTTTTCATTACATT
14385700 GTATATGAAG
Statistics
Matches: 192, Mismatches: 22, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
83 68 0.35
84 48 0.25
85 9 0.05
86 67 0.35
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.38
Consensus pattern (81 bp):
TTCATTGCATTTAAAGGCCCAGGGTGGAGCTCCATTACTTTTCATTACATTTAGAGGCTAGGTGT
GGAGGTCCATTTACTT
Found at i:14386351 original size:18 final size:17
Alignment explanation
Indices: 14386327--14386371 Score: 63
Period size: 18 Copynumber: 2.6 Consensus size: 17
14386317 AGCATTCTAG
14386327 TTTCTTTTTTTTTCTTT
1 TTTCTTTTTTTTTCTTT
**
14386344 TCTTCTTTTCCTTTCTTT
1 T-TTCTTTTTTTTTCTTT
14386362 TTTCTTTTTT
1 TTTCTTTTTT
14386372 CCATATACAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTCTTTTTTTTTCTTT
Found at i:14386605 original size:51 final size:51
Alignment explanation
Indices: 14386549--14386779 Score: 144
Period size: 50 Copynumber: 4.6 Consensus size: 51
14386539 ATTTTTTTTA
*
14386549 AAAGGAGAAAGTTTAGATTTTTAAAATAAAAATATG-TTTTTTAGTCATATT
1 AAAGGAGAAAGTTTAGATTTTTAAAATAAAAATATGATCTTTTA-TCATATT
* * * ** *
14386600 AAAGGA-AAAGTTTAAATTCTTAAAACAAAGTTTTGATCTTTT-TCAACTATTT
1 AAAGGAGAAAGTTTAGATTTTTAAAATAAAAATATGATCTTTTATC-A-TA-TT
* * * * *
14386652 CGAA--ATAAAGTTTTGATTTTT--AAGAAAAATAGTGATCTTTTA--A-A-A
1 -AAAGGAGAAAGTTTAGATTTTTAAAATAAAAATA-TGATCTTTTATCATATT
* * *
14386697 AAAAGAGAAAGTTTAGATTTTTAAAATAAAAATATG-TGTTTTTAGTCATTTT
1 AAAGGAGAAAGTTTAGATTTTTAAAATAAAAATATGAT-CTTTTA-TCATATT
* *
14386749 AAAGGAAAAAGTTTAAATTTTTTAAAATAAA
1 AAAGGAGAAAGTTTAGA-TTTTTAAAATAAA
14386780 GTTTTGATCT
Statistics
Matches: 135, Mismatches: 26, Indels: 36
0.69 0.13 0.18
Matches are distributed among these distances:
44 2 0.01
46 16 0.12
47 8 0.06
48 9 0.07
49 3 0.02
50 31 0.23
51 23 0.17
52 28 0.21
53 15 0.11
ACGTcount: A:0.45, C:0.04, G:0.12, T:0.39
Consensus pattern (51 bp):
AAAGGAGAAAGTTTAGATTTTTAAAATAAAAATATGATCTTTTATCATATT
Found at i:14386806 original size:151 final size:149
Alignment explanation
Indices: 14386548--14386831 Score: 453
Period size: 151 Copynumber: 1.9 Consensus size: 149
14386538 GATTTTTTTT
*
14386548 AAAAGGAGAAAGTTTAGATTTTTAAAATAAAAATATGTTTTTTAGTCATATTAAAGGAAAAGTTT
1 AAAAAGAGAAAGTTTAGATTTTTAAAATAAAAATATGTTTTTTAGTCATATTAAAGGAAAAGTTT
*
14386613 AAATTCTTAAAACAAAGTTTTGATCTTTTTCAACTATTTCGAAA-TAAAGTTTTGATTTTTAAGA
66 AAATTCTTAAAACAAAGTTTTGATCTTTTTCAACTATCTCGAAATTAAAGTTTTGATTTTTAAGA
14386677 AAAATAGTGATCTTTTAAA
131 AAAATAGTGATCTTTTAAA
*
14386696 AAAAAGAGAAAGTTTAGATTTTTAAAATAAAAATATGTGTTTTTAGTCATTTTAAAGGAAAAAGT
1 AAAAAGAGAAAGTTTAGATTTTTAAAATAAAAATATGT-TTTTTAGTCATATTAAAGG-AAAAGT
* * ****
14386761 TTAAATTTTTTAAAATAAAGTTTTGATCTTTTTCAACTATCTCGAAATTTTTTTTTTGATTTTTA
64 TTAAA-TTCTTAAAACAAAGTTTTGATCTTTTTCAACTATCTCGAAATTAAAGTTTTGATTTTTA
14386826 AGAAAA
128 AGAAAA
14386832 GTAGAGATTT
Statistics
Matches: 123, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
148 37 0.30
149 18 0.15
150 11 0.09
151 38 0.31
152 19 0.15
ACGTcount: A:0.42, C:0.05, G:0.12, T:0.42
Consensus pattern (149 bp):
AAAAAGAGAAAGTTTAGATTTTTAAAATAAAAATATGTTTTTTAGTCATATTAAAGGAAAAGTTT
AAATTCTTAAAACAAAGTTTTGATCTTTTTCAACTATCTCGAAATTAAAGTTTTGATTTTTAAGA
AAAATAGTGATCTTTTAAA
Found at i:14386850 original size:148 final size:144
Alignment explanation
Indices: 14386541--14386875 Score: 431
Period size: 151 Copynumber: 2.3 Consensus size: 144
14386531 AAATTTTGAT
14386541 TTTTTTTAAAAGGAGAAAGTTTAGATTTTTAAAATAAAAATATGTTTTTTAGTCATATTAAAGGA
1 TTTTTTT-AAA-GAGAAAGTTTAGATTTTTAAAATAAAAATATGTTTTTTAGTCATATTAAAGGA
*
14386606 AAAGTTTAAATTCTTAAAACAAAGTTTTGATCTTTTTCAACTATTTCGAAATAAAGTTTTGATTT
64 AAAGTTTAAATTCTTAAAACAAAGTTTTGATCTTTTTCAACTATCTCGAAATAAAGTTTTGATTT
*
14386671 TTAAGAAAAATAGTGA
129 TTAAGAAAAATAGAGA
** *
14386687 TCTTTTAAAAAAAAGAGAAAGTTTAGATTTTTAAAATAAAAATATGTGTTTTTAGTCATTTTAAA
1 T-TTTT---TTAAAGAGAAAGTTTAGATTTTTAAAATAAAAATATGT-TTTTTAGTCATATTAAA
* * ****
14386752 GGAAAAAGTTTAAATTTTTTAAAATAAAGTTTTGATCTTTTTCAACTATCTCGAAATTTTTTTTT
61 GG-AAAAGTTTAAA-TTCTTAAAACAAAGTTTTGATCTTTTTCAACTATCTCGAAA-TAAAGTTT
*
14386817 TGATTTTTAAGAAAAGTAGAGA
123 TGATTTTTAAGAAAAATAGAGA
* *
14386839 TTTTTTTAAAGA-AAACTTT-GATTTTGCAAAATAAAAA
1 TTTTTTTAAAGAGAAAGTTTAGATTTT-TAAAATAAAAA
14386876 ATAAAAAATT
Statistics
Matches: 164, Mismatches: 16, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
146 7 0.04
147 20 0.12
148 38 0.23
149 21 0.13
150 11 0.07
151 42 0.26
152 25 0.15
ACGTcount: A:0.41, C:0.05, G:0.12, T:0.42
Consensus pattern (144 bp):
TTTTTTTAAAGAGAAAGTTTAGATTTTTAAAATAAAAATATGTTTTTTAGTCATATTAAAGGAAA
AGTTTAAATTCTTAAAACAAAGTTTTGATCTTTTTCAACTATCTCGAAATAAAGTTTTGATTTTT
AAGAAAAATAGAGA
Found at i:14390154 original size:31 final size:31
Alignment explanation
Indices: 14390108--14390171 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
14390098 TTTTTTTTGG
* *
14390108 CTCATTTCAGCCCCTAATATT-TTCAGATGTT
1 CTCAGTTCAGCCCCTAACATTATT-AGATGTT
*
14390139 CTCAGTTCAGTCCCTAACATTATTAGATGTT
1 CTCAGTTCAGCCCCTAACATTATTAGATGTT
14390170 CT
1 CT
14390172 ATTAACTCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 27 0.93
32 2 0.07
ACGTcount: A:0.23, C:0.25, G:0.11, T:0.41
Consensus pattern (31 bp):
CTCAGTTCAGCCCCTAACATTATTAGATGTT
Found at i:14396441 original size:20 final size:20
Alignment explanation
Indices: 14396413--14396462 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
14396403 TATTGATCCA
*
14396413 GTATCGATACT-TTTCTTAAG
1 GTATCGATA-TATTTCCTAAG
*
14396433 GTATTGATATATTTCCTAAG
1 GTATCGATATATTTCCTAAG
14396453 GTATCGATAT
1 GTATCGATAT
14396463 TCCTTTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 1 0.04
20 25 0.96
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (20 bp):
GTATCGATATATTTCCTAAG
Found at i:14402088 original size:20 final size:20
Alignment explanation
Indices: 14402052--14402089 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
14402042 TTAATTACCT
*
14402052 TAAAACGAATTTCAAAAAAA
1 TAAAACGAATCTCAAAAAAA
14402072 TAAAACTGAATCT-AAAAA
1 TAAAAC-GAATCTCAAAAA
14402090 TAATTAAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.63, C:0.11, G:0.05, T:0.21
Consensus pattern (20 bp):
TAAAACGAATCTCAAAAAAA
Found at i:14402317 original size:26 final size:26
Alignment explanation
Indices: 14402283--14402335 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
14402273 AATCAAAGCT
*
14402283 TTTTCTACTAACAAAAC-CTAAATGA
1 TTTTCTACTAACAAAACACCAAATGA
**
14402308 TTTTCTTACTTTCAAAACACCAAATGA
1 TTTTC-TACTAACAAAACACCAAATGA
14402335 T
1 T
14402336 CTTTTAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 5 0.22
26 10 0.43
27 8 0.35
ACGTcount: A:0.40, C:0.21, G:0.04, T:0.36
Consensus pattern (26 bp):
TTTTCTACTAACAAAACACCAAATGA
Found at i:14402820 original size:21 final size:21
Alignment explanation
Indices: 14402775--14402821 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
14402765 TTAGATATAT
* *
14402775 TATAATATGAAATTTATATAT
1 TATAATATGAAATTTAGATAG
14402796 TATAATATGAAATTTAGGAT-G
1 TATAATATGAAATTTA-GATAG
14402817 TATAA
1 TATAA
14402822 ATTCATGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.43
Consensus pattern (21 bp):
TATAATATGAAATTTAGATAG
Found at i:14402820 original size:26 final size:21
Alignment explanation
Indices: 14402769--14402811 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
14402759 GATAGCTTAG
14402769 ATATATTATAATATGAAATTT
1 ATATATTATAATATGAAATTT
14402790 ATATATTATAATATGAAATTT
1 ATATATTATAATATGAAATTT
14402811 A
1 A
14402812 GGATGTATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (21 bp):
ATATATTATAATATGAAATTT
Found at i:14415771 original size:46 final size:46
Alignment explanation
Indices: 14415704--14415797 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
14415694 GTCAGATTGT
14415704 ATGGAGTACCAGTCTCCATCATTTCGGATAGAGATCCGCGGTTTAC
1 ATGGAGTACCAGTCTCCATCATTTCGGATAGAGATCCGCGGTTTAC
* *
14415750 ATGGAGTACCAGTCTCCATCATTTTGGATAGAGATCCGTGGTTTAC
1 ATGGAGTACCAGTCTCCATCATTTCGGATAGAGATCCGCGGTTTAC
14415796 AT
1 AT
14415798 CACGATTTTG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.31
Consensus pattern (46 bp):
ATGGAGTACCAGTCTCCATCATTTCGGATAGAGATCCGCGGTTTAC
Found at i:14430070 original size:20 final size:20
Alignment explanation
Indices: 14430003--14430068 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 20
14429993 ACAAGTTACA
*
14430003 AGTATTATAGATAAACTGTT
1 AGTATTATAGATAAACTGTC
* * * **
14430023 AGTATTATGGACAAGCCATC
1 AGTATTATAGATAAACTGTC
*
14430043 AGTATTGTAGATAAACTGTC
1 AGTATTATAGATAAACTGTC
14430063 AGTATT
1 AGTATT
14430069 GTGGACAAGC
Statistics
Matches: 34, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (20 bp):
AGTATTATAGATAAACTGTC
Found at i:14430084 original size:20 final size:20
Alignment explanation
Indices: 14430023--14430089 Score: 80
Period size: 20 Copynumber: 3.4 Consensus size: 20
14430013 ATAAACTGTT
*
14430023 AGTATTATGGACAAGCCATC
1 AGTATTGTGGACAAGCCATC
* * * **
14430043 AGTATTGTAGATAAACTGTC
1 AGTATTGTGGACAAGCCATC
14430063 AGTATTGTGGACAAGCCATC
1 AGTATTGTGGACAAGCCATC
14430083 AGTATTG
1 AGTATTG
14430090 CAAATACACT
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (20 bp):
AGTATTGTGGACAAGCCATC
Found at i:14430089 original size:40 final size:40
Alignment explanation
Indices: 14430003--14430104 Score: 150
Period size: 40 Copynumber: 2.5 Consensus size: 40
14429993 ACAAGTTACA
* *
14430003 AGTATTATAGATAAACTGTTAGTATTATGGACAAGCCATC
1 AGTATTGTAGATAAACTGTCAGTATTATGGACAAGCCATC
*
14430043 AGTATTGTAGATAAACTGTCAGTATTGTGGACAAGCCATC
1 AGTATTGTAGATAAACTGTCAGTATTATGGACAAGCCATC
* * *
14430083 AGTATTGCAAATACACTGTCAG
1 AGTATTGTAGATAAACTGTCAG
14430105 ATCTTCCTCC
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 56 1.00
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (40 bp):
AGTATTGTAGATAAACTGTCAGTATTATGGACAAGCCATC
Found at i:14433310 original size:16 final size:17
Alignment explanation
Indices: 14433291--14433326 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
14433281 ATATTAATGT
*
14433291 TATTTAAT-CTTAAAAA
1 TATTTAATACTAAAAAA
14433307 TATTTAATACTAAAAAA
1 TATTTAATACTAAAAAA
14433324 TAT
1 TAT
14433327 ATAAAAATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (17 bp):
TATTTAATACTAAAAAA
Found at i:14436414 original size:20 final size:17
Alignment explanation
Indices: 14436361--14436416 Score: 67
Period size: 18 Copynumber: 3.2 Consensus size: 17
14436351 ATTAGTATTG
* *
14436361 ATATTATTATTTTAAAT
1 ATATTATTATATTATAT
14436378 ATTATTATTATATTATAT
1 A-TATTATTATATTATAT
*
14436396 ATATTATTATACCTATAT
1 ATATTATTATA-TTATAT
14436414 ATA
1 ATA
14436417 GGTGCGCATA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
17 11 0.32
18 23 0.68
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (17 bp):
ATATTATTATATTATAT
Found at i:14442702 original size:45 final size:45
Alignment explanation
Indices: 14442652--14442882 Score: 134
Period size: 44 Copynumber: 5.2 Consensus size: 45
14442642 CTTGGGTTGC
*
14442652 AGCGAAGCAGGCTAAAAATAGCAGATCTTGCATTCCTGCACCGAT
1 AGCGAAGCAGGCTAAAAATAGCAGATCTTGCCTTCCTGCACCGAT
** * * * * * ****
14442697 AGCGAAGCA-AATCAAAGACACCAG-CCTTGCCTCCCTGGGTTG-T
1 AGCGAAGCAGGCT-AAAAATAGCAGATCTTGCCTTCCTGCACCGAT
* * *
14442740 AGCGGAGCAGGCTAAAAATAGCAGATCTTGCCTTCCTGTACCGAC
1 AGCGAAGCAGGCTAAAAATAGCAGATCTTGCCTTCCTGCACCGAT
* * * * * * **** *
14442785 AGCGAAGCA-GATCGAAGACACCAG-CCTTGCC-TCCTTGGGTTG-C
1 AGCGAAGCAGGCT-AAAAATAGCAGATCTTGCCTTCC-TGCACCGAT
* *
14442828 AGCGAAGCAGGCTAAAAATAGCAGATCTTACCTTCCTGCACCGAC
1 AGCGAAGCAGGCTAAAAATAGCAGATCTTGCCTTCCTGCACCGAT
14442873 AGCGAAGCAG
1 AGCGAAGCAG
14442883 ATCGAAGACA
Statistics
Matches: 129, Mismatches: 47, Indels: 20
0.66 0.24 0.10
Matches are distributed among these distances:
43 37 0.29
44 46 0.36
45 46 0.36
ACGTcount: A:0.30, C:0.28, G:0.24, T:0.18
Consensus pattern (45 bp):
AGCGAAGCAGGCTAAAAATAGCAGATCTTGCCTTCCTGCACCGAT
Found at i:14442736 original size:88 final size:88
Alignment explanation
Indices: 14442585--14443151 Score: 866
Period size: 88 Copynumber: 6.4 Consensus size: 88
14442575 ATGAAGATAA
* * *
14442585 CAGATCTTGCCTTCCTGCACCGACAGTGAAGCAAATCGAAGACACCAGCCTTGCCTCCTTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
14442650 GCAGCGAAGCAGGCTAAAAATAG
66 GCAGCGAAGCAGGCTAAAAATAG
* * * *
14442673 CAGATCTTGCATTCCTGCACCGATAGCGAAGCAAATCAAAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* *
14442738 GTAGCGGAGCAGGCTAAAAATAG
66 GCAGCGAAGCAGGCTAAAAATAG
* *
14442761 CAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCTTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
14442826 GCAGCGAAGCAGGCTAAAAATAG
66 GCAGCGAAGCAGGCTAAAAATAG
*
14442849 CAGATCTTACCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* * *
14442914 GCAGCGGAGTAAGCTAAAAATAG
66 GCAGCGAAGCAGGCTAAAAATAG
* * * *
14442937 TATATCTTGCCTTCTTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTTGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* * *
14443002 CCAGTGGAA-CAAGCTAAAAATAG
66 GCAG-CGAAGCAGGCTAAAAATAG
* *
14443025 CAAATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAAACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* * * *
14443090 GTAGCGGAGTAGGATAAAAATAG
66 GCAGCGAAGCAGGCTAAAAATAG
14443113 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGA
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGA
14443152 TGACCCCAAC
Statistics
Matches: 434, Mismatches: 43, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
87 2 0.00
88 430 0.99
89 2 0.00
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (88 bp):
CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
GCAGCGAAGCAGGCTAAAAATAG
Found at i:14442833 original size:43 final size:42
Alignment explanation
Indices: 14442784--14442919 Score: 112
Period size: 43 Copynumber: 3.1 Consensus size: 42
14442774 CCTGTACCGA
14442784 CAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCTTGGGTTG
1 CAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCC-TGGGTTG
* * * * * * * ****
14442827 CAGCGAAGCAG-GCTAAAAATAGCAGATCTTACCTTCCTGCACCG
1 CAGCGAAGCAGATC-GAAGACACCAG-CCTTGCC-TCCTGGGTTG
14442871 ACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTG
1 -CAGCGAAGCAGATCGAAGACACCAGCCTTGCCT-CCTGGGTTG
14442915 CAGCG
1 CAGCG
14442920 GAGTAAGCTA
Statistics
Matches: 65, Mismatches: 22, Indels: 12
0.66 0.22 0.12
Matches are distributed among these distances:
42 1 0.02
43 24 0.37
44 18 0.28
45 21 0.32
46 1 0.02
ACGTcount: A:0.26, C:0.31, G:0.26, T:0.17
Consensus pattern (42 bp):
CAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCTGGGTTG
Found at i:14443231 original size:44 final size:44
Alignment explanation
Indices: 14443162--14443367 Score: 231
Period size: 44 Copynumber: 4.7 Consensus size: 44
14443152 TGACCCCAAC
* *
14443162 CCTATGTCCCTGGTCAGCAATGGAATAGGTTAAAGATTGTAAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTAAAT
* * *
14443206 CTTATCTCCCTTGTCAGCAGTGGAATAGGTTGAAGATTG-AGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTA-AAT
* * * **
14443250 TCTATCTCCCTGGGT-AGCAGTGGAATAGATTGAAGATTGTAGGT
1 CCTATCTCCCT-GGTCAGCAGTGGAATAGGTTAAAGATTGTAAAT
* * *
14443294 CCTATCTCCCTGGTCAGCACTGGAATAGGTTAAAGATCGTGAA-
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTAAAT
*
14443337 CCTATCTCCCTGAG-CAGCAGTGGAGTAGGTT
1 CCTATCTCCCTG-GTCAGCAGTGGAATAGGTT
14443368 GAAAATAGCA
Statistics
Matches: 136, Mismatches: 21, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
43 31 0.23
44 102 0.75
45 3 0.02
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (44 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTAAAT
Found at i:14443797 original size:44 final size:43
Alignment explanation
Indices: 14443718--14444016 Score: 196
Period size: 44 Copynumber: 6.9 Consensus size: 43
14443708 TGCAATGGCG
* *
14443718 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAG-CAAT
* * * **
14443762 AATCCTATCTCCCTGAAGTTGCAGTGAAGCGGATTAAAACTTT
1 AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCAAT
* * * * * *
14443805 GGATCTTATCTCTCTGAAGTTGCAGAG-AGCAGATCACATC--T
1 -AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCAAT
* * * * * * *
14443846 AGTCCTATCTCCCTAAAGTTGCAGTGGAGCAGACT-AAGTAAGC
1 AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCAA-T
* * * *
14443889 AAGTCTTATC-CTCCTAAAGTTGCAGTGAGGCAGACTGAAGATGGAA-
1 AA-TCTTATCTC-CCTGAAGTTGCAGTGAAGCAGA-TTAA-A-GCAAT
* * *
14443935 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAG-CAAT
* * * *
14443979 AATCCTATCTCCCTAAAGTTGTAGTGAAGCGGATTAAA
1 AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAA
14444017 ACCACAGATT
Statistics
Matches: 196, Mismatches: 45, Indels: 28
0.73 0.17 0.10
Matches are distributed among these distances:
40 21 0.11
41 7 0.04
42 1 0.01
43 15 0.08
44 119 0.61
45 25 0.13
46 4 0.02
47 1 0.01
48 3 0.02
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCAAT
Found at i:14444094 original size:128 final size:128
Alignment explanation
Indices: 14443937--14444170 Score: 326
Period size: 128 Copynumber: 1.8 Consensus size: 128
14443927 AGATGGAAAA
* ** * *
14443937 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCGA-TAATCCTATCTCCCTAAAGTTGT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGAC-ACCAATCCTATCTCCCTAAAGTTGT
* *
14444001 AGTGAAGCGGATTAAAACCACAGATTTTATCTCTTTGAAGTTACAGAGAGTAGATCGCATCCAG
65 AGTGAAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTACAGAGAGTAGATCGCATCCAG
* *
14444065 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGACACCAATCCTATCTCCCTGAGGTTGTA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGACACCAATCCTATCTCCCTAAAGTTGTA
* * * **
14444130 GTGGAGTGGATTGAAACTGCAGATCTTATCTCTCTGAAGTT
66 GTGAAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
14444171 GCAAAGAACA
Statistics
Matches: 91, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
127 1 0.01
128 90 0.99
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (128 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAAGACACCAATCCTATCTCCCTAAAGTTGTA
GTGAAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTACAGAGAGTAGATCGCATCCAG
Found at i:14445581 original size:3 final size:3
Alignment explanation
Indices: 14445555--14445614 Score: 56
Period size: 3 Copynumber: 20.3 Consensus size: 3
14445545 GTTTTTTAGT
*
14445555 TTA TT- TTA TTA GTA TTGA -TA TTA TTA TT- TTCA TTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TT-A TTA TTA TTA TTA
14445598 TTA TATA TTA TTA TTA T
1 TTA T-TA TTA TTA TTA T
14445615 ACCTATATAT
Statistics
Matches: 48, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
2 7 0.15
3 35 0.73
4 6 0.12
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:14446150 original size:18 final size:18
Alignment explanation
Indices: 14446129--14446180 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 18
14446119 TTTTTTATTG
14446129 ATTTATGTTTTCATTTAT
1 ATTTATGTTTTCATTTAT
*
14446147 A-TT-T-TTTT-A-TT-G
1 ATTTATGTTTTCATTTAT
14446159 ATTTATGTTTTCATTTAT
1 ATTTATGTTTTCATTTAT
14446177 ATTT
1 ATTT
14446181 TAAAAGCATA
Statistics
Matches: 26, Mismatches: 2, Indels: 12
0.65 0.05 0.30
Matches are distributed among these distances:
12 1 0.04
13 4 0.15
14 2 0.08
15 8 0.31
16 2 0.08
17 4 0.15
18 5 0.19
ACGTcount: A:0.21, C:0.04, G:0.06, T:0.69
Consensus pattern (18 bp):
ATTTATGTTTTCATTTAT
Found at i:14446153 original size:30 final size:30
Alignment explanation
Indices: 14446117--14446181 Score: 130
Period size: 30 Copynumber: 2.2 Consensus size: 30
14446107 TATTTCCTTC
14446117 ATTTTTTTATTGATTTATGTTTTCATTTAT
1 ATTTTTTTATTGATTTATGTTTTCATTTAT
14446147 ATTTTTTTATTGATTTATGTTTTCATTTAT
1 ATTTTTTTATTGATTTATGTTTTCATTTAT
14446177 ATTTT
1 ATTTT
14446182 AAAAGCATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.20, C:0.03, G:0.06, T:0.71
Consensus pattern (30 bp):
ATTTTTTTATTGATTTATGTTTTCATTTAT
Found at i:14453673 original size:45 final size:45
Alignment explanation
Indices: 14453609--14453702 Score: 161
Period size: 45 Copynumber: 2.1 Consensus size: 45
14453599 AACAGATACT
* *
14453609 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
*
14453654 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTT
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
14453699 CGGT
1 CGGT
14453703 TCACATAGTA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:14459435 original size:19 final size:18
Alignment explanation
Indices: 14459411--14459473 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 18
14459401 TACATGAATT
14459411 CATTTCAATATTCATATCC
1 CATTTCAATATTCATAT-C
14459430 CATTTC-ATCATTTCATATTC
1 CATTTCAAT-A-TTCATA-TC
*
14459450 CATTTCCAAT-CTCATATC
1 CATTT-CAATATTCATATC
14459468 CATTTC
1 CATTTC
14459474 TCATCCTTGT
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
17 1 0.03
18 9 0.24
19 12 0.32
20 12 0.32
21 2 0.05
22 2 0.05
ACGTcount: A:0.27, C:0.29, G:0.00, T:0.44
Consensus pattern (18 bp):
CATTTCAATATTCATATC
Found at i:14459464 original size:27 final size:27
Alignment explanation
Indices: 14459410--14459464 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
14459400 ATACATGAAT
* *
14459410 TCATTTCAATATTCATATCCCATTTCA
1 TCATTTCAATATTCATATCCAATCTCA
*
14459437 TCATTTC-ATATTCCATTTCCAATCTCA
1 TCATTTCAATATT-CATATCCAATCTCA
14459464 T
1 T
14459465 ATCCATTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.45
Consensus pattern (27 bp):
TCATTTCAATATTCATATCCAATCTCA
Found at i:14460209 original size:36 final size:34
Alignment explanation
Indices: 14460169--14460235 Score: 80
Period size: 35 Copynumber: 1.9 Consensus size: 34
14460159 ATTTATTTGT
* * *
14460169 TTTCATTTTAATTCATTATTATATAATATATATGCA
1 TTTCATGTT-ATTCATTATAACAT-ATATATATGCA
*
14460205 TTTCATGTTATTTATTATAACATATATATAT
1 TTTCATGTTATTCATTATAACATATATATAT
14460236 TAAGTTATCA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 8 0.30
35 11 0.41
36 8 0.30
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.54
Consensus pattern (34 bp):
TTTCATGTTATTCATTATAACATATATATATGCA
Found at i:14465072 original size:38 final size:38
Alignment explanation
Indices: 14464973--14465098 Score: 112
Period size: 38 Copynumber: 3.3 Consensus size: 38
14464963 ATGTAAAAAT
* * * *
14464973 AATAGACATGCTTTATCATGTATTCAATTCAATCAATAAC
1 AATAGGCATGC-TTAACATGTATTTAGTTCAA-CAATAAC
* ** * *
14465013 ATTAGATATGCTTAACCTGTA-TTAGGTTCAA-AATTAAT
1 AATAGGCATGCTTAACATGTATTTA-GTTCAACAA-TAAC
*
14465051 AGTAGGCATGCTTAACATGTATTTAGTTCAACAATAAC
1 AATAGGCATGCTTAACATGTATTTAGTTCAACAATAAC
14465089 AATAGGCATG
1 AATAGGCATG
14465099 TTGAACAAGC
Statistics
Matches: 69, Mismatches: 13, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
37 2 0.03
38 40 0.58
39 18 0.26
40 9 0.13
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.34
Consensus pattern (38 bp):
AATAGGCATGCTTAACATGTATTTAGTTCAACAATAAC
Found at i:14466448 original size:43 final size:43
Alignment explanation
Indices: 14466360--14466559 Score: 285
Period size: 43 Copynumber: 4.7 Consensus size: 43
14466350 TGTCAACGTT
* *
14466360 GCTATAGATCAGGACCTTTAGCGGCGC-TTTTACACAAACGCC
1 GCTATAGATCAAGACCTTTAGCGACGCTTTTTACACAAACGCC
*
14466402 GCTATAGATCATGACCTTTAGCGACGCTTTTTACACAAACGCC
1 GCTATAGATCAAGACCTTTAGCGACGCTTTTTACACAAACGCC
* * * * *
14466445 GCTATAGATCAGGATCTTTAGCGACGTTTTTTTCACAAACACC
1 GCTATAGATCAAGACCTTTAGCGACGCTTTTTACACAAACGCC
* *
14466488 GTTATAGATCAAGACCTTTAGCGACGCTTTTTCCACAAACGCC
1 GCTATAGATCAAGACCTTTAGCGACGCTTTTTACACAAACGCC
* *
14466531 ACTATAGCTCAAGACCTTTAGCGACGCTT
1 GCTATAGATCAAGACCTTTAGCGACGCTT
14466560 CAATTACAAA
Statistics
Matches: 141, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
42 25 0.18
43 116 0.82
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (43 bp):
GCTATAGATCAAGACCTTTAGCGACGCTTTTTACACAAACGCC
Found at i:14472360 original size:16 final size:17
Alignment explanation
Indices: 14472324--14472365 Score: 68
Period size: 16 Copynumber: 2.5 Consensus size: 17
14472314 CACTATAATC
14472324 ATTATTTTAATATATTAA
1 ATTA-TTTAATATATTAA
14472342 ATTATTTAATATA-TAA
1 ATTATTTAATATATTAA
14472358 ATTATTTA
1 ATTATTTA
14472366 TAAATAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 11 0.46
17 9 0.38
18 4 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTATTTAATATATTAA
Found at i:14472513 original size:7 final size:7
Alignment explanation
Indices: 14472475--14472594 Score: 52
Period size: 7 Copynumber: 17.3 Consensus size: 7
14472465 AATTAATCTA
*
14472475 AACCCTG
1 AACCCTT
* *
14472482 AATCCTA
1 AACCCTT
14472489 AACCCTT
1 AACCCTT
*
14472496 AACTCTT
1 AACCCTT
*
14472503 AACCCTC
1 AACCCTT
*
14472510 AACCCCT
1 AACCCTT
*
14472517 AACCCCT
1 AACCCTT
*
14472524 AAACCTT
1 AACCCTT
*
14472531 AAACCC-C
1 -AACCCTT
14472538 AACCCTT
1 AACCCTT
*
14472545 AA-TCTAT
1 AACCCT-T
14472552 AA-CCTT
1 AACCCTT
*
14472558 AAACCTT
1 AACCCTT
*
14472565 AA-ACTGT
1 AACCCT-T
14472572 AACCCTT
1 AACCCTT
14472579 AAACCC-T
1 -AACCCTT
*
14472586 AAACCTT
1 AACCCTT
14472593 AA
1 AA
14472595 ACCATAAACT
Statistics
Matches: 86, Mismatches: 19, Indels: 16
0.71 0.16 0.13
Matches are distributed among these distances:
6 16 0.19
7 59 0.69
8 11 0.13
ACGTcount: A:0.37, C:0.38, G:0.02, T:0.24
Consensus pattern (7 bp):
AACCCTT
Found at i:14472562 original size:21 final size:22
Alignment explanation
Indices: 14472538--14472646 Score: 68
Period size: 21 Copynumber: 5.1 Consensus size: 22
14472528 CTTAAACCCC
*
14472538 AACCCTTAATCTATAA-CCTTA
1 AACCCTTAAACTATAACCCTTA
*
14472559 AA-CCTTAAACTGTAACCCTTA
1 AACCCTTAAACTATAACCCTTA
* *
14472580 AACCC-TAAACCT-TAAACCATA
1 AACCCTTAAA-CTATAACCCTTA
* *
14472601 AA--CTGTAAACCATAACCCCTA
1 AACCCT-TAAACTATAACCCTTA
* * * *
14472622 AACCCATAATCCATAAACCTTA
1 AACCCTTAAACTATAACCCTTA
14472644 AAC
1 AAC
14472647 TCTATACCAT
Statistics
Matches: 69, Mismatches: 11, Indels: 15
0.73 0.12 0.16
Matches are distributed among these distances:
19 1 0.01
20 12 0.17
21 35 0.51
22 20 0.29
23 1 0.01
ACGTcount: A:0.43, C:0.31, G:0.02, T:0.24
Consensus pattern (22 bp):
AACCCTTAAACTATAACCCTTA
Found at i:14472580 original size:14 final size:14
Alignment explanation
Indices: 14472473--14472668 Score: 80
Period size: 14 Copynumber: 13.9 Consensus size: 14
14472463 CTAATTAATC
*
14472473 TAAACCCTGAATCC-
1 TAAACCCT-AAACCT
*
14472487 TAAACCCTTAACTCT
1 TAAACCCTAAAC-CT
* *
14472502 T-AACCCTCAACCCC
1 TAAACCCT-AAACCT
*
14472516 TAACCCCTAAACCT
1 TAAACCCTAAACCT
* *
14472530 TAAACCCCAACCCT
1 TAAACCCTAAACCT
*
14472544 T-AA-TCTATAACCT
1 TAAACCCTA-AACCT
*
14472557 TAAACCTTAAA-CT
1 TAAACCCTAAACCT
*
14472570 GT-AACCCTTAAACCC
1 -TAAACCC-TAAACCT
* *
14472585 TAAACCTTAAACCA
1 TAAACCCTAAACCT
** *
14472599 TAAACTGTAAACCA
1 TAAACCCTAAACCT
* *
14472613 TAACCCCTAAACCCA
1 TAAACCCTAAA-CCT
* *
14472628 TAATCCATAAACCT
1 TAAACCCTAAACCT
* * *
14472642 TAAACTCTATACCA
1 TAAACCCTAAACCT
*
14472656 TATACCCTAAACC
1 TAAACCCTAAACC
14472669 AAAAACCTTA
Statistics
Matches: 134, Mismatches: 36, Indels: 24
0.69 0.19 0.12
Matches are distributed among these distances:
12 2 0.01
13 15 0.11
14 90 0.67
15 27 0.20
ACGTcount: A:0.39, C:0.36, G:0.02, T:0.23
Consensus pattern (14 bp):
TAAACCCTAAACCT
Found at i:14472603 original size:35 final size:35
Alignment explanation
Indices: 14472552--14472639 Score: 113
Period size: 35 Copynumber: 2.5 Consensus size: 35
14472542 CTTAATCTAT
* * *
14472552 AACCTTAAACCTTAAACTGTAACCCTTAAACCCTA
1 AACCTTAAACCATAAACTGTAAACCATAAACCCTA
*
14472587 AACCTTAAACCATAAACTGTAAACCATAACCCCTA
1 AACCTTAAACCATAAACTGTAAACCATAAACCCTA
* *
14472622 AACCCATAATCCATAAAC
1 AA-CCTTAAACCATAAAC
14472640 CTTAAACTCT
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
35 33 0.72
36 13 0.28
ACGTcount: A:0.44, C:0.32, G:0.02, T:0.22
Consensus pattern (35 bp):
AACCTTAAACCATAAACTGTAAACCATAAACCCTA
Found at i:14472656 original size:43 final size:42
Alignment explanation
Indices: 14472571--14472668 Score: 117
Period size: 43 Copynumber: 2.3 Consensus size: 42
14472561 CCTTAAACTG
* * *
14472571 TAACCCTTAAACCCTAAACCTTAAACCATAAACTGTAAACCA
1 TAACCCCTAAACCCTAAACCATAAACCATAAACTCTAAACCA
* * *
14472613 TAACCCCTAAACCCATAATCCATAAACCTTAAACTCTATACCA
1 TAACCCCTAAACCC-TAAACCATAAACCATAAACTCTAAACCA
14472656 TATA-CCCTAAACC
1 TA-ACCCCTAAACC
14472669 AAAAACCTTA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
42 13 0.27
43 34 0.71
44 1 0.02
ACGTcount: A:0.43, C:0.34, G:0.01, T:0.22
Consensus pattern (42 bp):
TAACCCCTAAACCCTAAACCATAAACCATAAACTCTAAACCA
Found at i:14472681 original size:7 final size:7
Alignment explanation
Indices: 14472552--14472646 Score: 68
Period size: 7 Copynumber: 13.4 Consensus size: 7
14472542 CTTAATCTAT
14472552 AACCTTA
1 AACCTTA
14472559 AACCTTA
1 AACCTTA
14472566 AA-CTGTA
1 AACCT-TA
*
14472573 ACCCTTA
1 AACCTTA
*
14472580 AACCCTA
1 AACCTTA
14472587 AACCTTA
1 AACCTTA
*
14472594 AACCATA
1 AACCTTA
14472601 AA-CTGTA
1 AACCT-TA
*
14472608 AACCATA
1 AACCTTA
* *
14472615 ACCCCTA
1 AACCTTA
*
14472622 AACCCATA
1 AA-CCTTA
* *
14472630 ATCCATA
1 AACCTTA
14472637 AACCTTA
1 AACCTTA
14472644 AAC
1 AAC
14472647 TCTATACCAT
Statistics
Matches: 69, Mismatches: 14, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
6 3 0.04
7 58 0.84
8 8 0.12
ACGTcount: A:0.44, C:0.32, G:0.02, T:0.22
Consensus pattern (7 bp):
AACCTTA
Found at i:14473037 original size:40 final size:41
Alignment explanation
Indices: 14472993--14473100 Score: 164
Period size: 41 Copynumber: 2.7 Consensus size: 41
14472983 AATGTTTTTT
*
14472993 CGGCGCTTTTACAAAAACGCCGCTAAA-ACCTGAGCATTAG
1 CGGCGCTTCTACAAAAACGCCGCTAAAGACCTGAGCATTAG
* *
14473033 CGGCGCTTCTCCAAAAACGCCGCTAAAGCCCTGAGCATTAG
1 CGGCGCTTCTACAAAAACGCCGCTAAAGACCTGAGCATTAG
* *
14473074 CGCCGCTTCTACAAAAATGCCGCTAAA
1 CGGCGCTTCTACAAAAACGCCGCTAAA
14473101 TCCTTGAAAG
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
40 25 0.41
41 36 0.59
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.19
Consensus pattern (41 bp):
CGGCGCTTCTACAAAAACGCCGCTAAAGACCTGAGCATTAG
Found at i:14473820 original size:6 final size:7
Alignment explanation
Indices: 14473803--14473828 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
14473793 TGAAAAATCT
14473803 AAAAAAG
1 AAAAAAG
14473810 AAAAAAG
1 AAAAAAG
14473817 AAAAAAG
1 AAAAAAG
14473824 AAAAA
1 AAAAA
14473829 CAAGCTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:14477527 original size:5 final size:5
Alignment explanation
Indices: 14477517--14477547 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
14477507 TGGGGGATGA
14477517 GATTG GATTG GATTG GATTG GATTG GATTG G
1 GATTG GATTG GATTG GATTG GATTG GATTG G
14477548 TGTCTGGGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.42, T:0.39
Consensus pattern (5 bp):
GATTG
Found at i:14481616 original size:31 final size:31
Alignment explanation
Indices: 14481581--14481643 Score: 101
Period size: 31 Copynumber: 2.0 Consensus size: 31
14481571 TTTCAAAGTA
14481581 TGTCAAATTT-TTTATTCCCTTCCTTAGTAAG
1 TGTC-AATTTCTTTATTCCCTTCCTTAGTAAG
*
14481612 TGTCAATTTCTTTATTTCCTTCCTTAGTAAG
1 TGTCAATTTCTTTATTCCCTTCCTTAGTAAG
14481643 T
1 T
14481644 CTTTTTGCAC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 5 0.17
31 25 0.83
ACGTcount: A:0.21, C:0.19, G:0.10, T:0.51
Consensus pattern (31 bp):
TGTCAATTTCTTTATTCCCTTCCTTAGTAAG
Found at i:14500599 original size:18 final size:18
Alignment explanation
Indices: 14500576--14500614 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
14500566 TATACATTTA
14500576 CAATATCCATTCCACATT
1 CAATATCCATTCCACATT
14500594 CAATATCCATTCCACATT
1 CAATATCCATTCCACATT
14500612 CAA
1 CAA
14500615 ATCATGAGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.31
Consensus pattern (18 bp):
CAATATCCATTCCACATT
Found at i:14501502 original size:18 final size:19
Alignment explanation
Indices: 14501476--14501511 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
14501466 TAGACTAGAT
*
14501476 TTAACTCCCT-AATTTCAC
1 TTAAATCCCTAAATTTCAC
14501494 TTAAATCCCTAAATTTCA
1 TTAAATCCCTAAATTTCA
14501512 AATTTTTCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.33, C:0.28, G:0.00, T:0.39
Consensus pattern (19 bp):
TTAAATCCCTAAATTTCAC
Found at i:14501896 original size:18 final size:18
Alignment explanation
Indices: 14501873--14501915 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
14501863 TTATTTGTTT
14501873 TATTATAATACT-ATAATA
1 TATTATAATA-TAATAATA
*
14501891 TATTATTATATAATAATA
1 TATTATAATATAATAATA
*
14501909 TAATATA
1 TATTATA
14501916 TTTACTTAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 1 0.05
18 20 0.95
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTATAATATAATAATA
Found at i:14505158 original size:75 final size:75
Alignment explanation
Indices: 14505020--14505307 Score: 244
Period size: 75 Copynumber: 3.8 Consensus size: 75
14505010 TATATTTACA
* * * * ** *
14505020 TGTATATGTTCTTGTATTGAGTTTGGGTATGATTTTTATGTAAGTTTATATGAAATTTGGAAATG
1 TGTATATGTTCTTGTATTGAGTTTAGGTATGACTTTTATATAAGTTTATATGAGATTCAGAAATA
14505085 CAAATATAAT
66 CAAATATAAT
* * *
14505095 TGTATATGTTATTGTTTTGAGTTTAGGTATGACTTTTATATAAGTTTATATGAGGTTCAGAAATA
1 TGTATATGTTCTTGTATTGAGTTTAGGTATGACTTTTATATAAGTTTATATGAGATTCAGAAATA
* *
14505160 TAAATATATT
66 CAAATATAAT
* *** * * * * *
14505170 TGAATATGTTCTTCCGTTAAATTTAGGTATGACTTTTATATAAGTGTGTATGAGACTC-GAATAT
1 TGTATATGTTCTTGTATTGAGTTTAGGTATGACTTTTATATAAGTTTATATGAGATTCAG-A-A-
14505234 ATACAAACT-TATAT
63 ATACAAA-TATA-AT
* * *
14505248 ATGTACATGTT-TATGTATTGAATTTAGGTATGA-TAATTATATAAGTTTA-AGTGAGATTCA
1 -TGTATATGTTCT-TGTATTGAGTTTAGGTATGACT-TTTATATAAGTTTATA-TGAGATTCA
14505308 ATTATGTAAG
Statistics
Matches: 168, Mismatches: 35, Indels: 15
0.77 0.16 0.07
Matches are distributed among these distances:
74 1 0.01
75 111 0.66
76 1 0.01
77 8 0.05
78 5 0.03
79 42 0.25
ACGTcount: A:0.33, C:0.05, G:0.18, T:0.45
Consensus pattern (75 bp):
TGTATATGTTCTTGTATTGAGTTTAGGTATGACTTTTATATAAGTTTATATGAGATTCAGAAATA
CAAATATAAT
Found at i:14515855 original size:25 final size:25
Alignment explanation
Indices: 14515798--14515862 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
14515788 TATTGGCTTG
*
14515798 CAAGAGCTTCCCGTTATATGGCTCA
1 CAAGAGCTTCCCGTTACATGGCTCA
*
14515823 CATA-AGCTTCCTGTTACATGGCTCA
1 CA-AGAGCTTCCCGTTACATGGCTCA
* *
14515848 GAAGAGCTCCCCGTT
1 CAAGAGCTTCCCGTT
14515863 TGTATGCTCG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
24 1 0.03
25 31 0.94
26 1 0.03
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (25 bp):
CAAGAGCTTCCCGTTACATGGCTCA
Found at i:14518611 original size:8 final size:8
Alignment explanation
Indices: 14518598--14518625 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
14518588 TCATCATCCC
14518598 ATATATCT
1 ATATATCT
14518606 ATATATCT
1 ATATATCT
14518614 ATATATCT
1 ATATATCT
14518622 ATAT
1 ATAT
14518626 GTTTCTACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (8 bp):
ATATATCT
Found at i:14528213 original size:17 final size:19
Alignment explanation
Indices: 14528191--14528231 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 19
14528181 GAACAACACC
14528191 GTGTTAATTTGTGT-TC-T
1 GTGTTAATTTGTGTGTCTT
*
14528208 GTGTT-ATTTTTGTGTCTT
1 GTGTTAATTTGTGTGTCTT
14528226 GTGTTA
1 GTGTTA
14528232 TATTGTTAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 7 0.35
17 7 0.35
18 6 0.30
ACGTcount: A:0.10, C:0.05, G:0.24, T:0.61
Consensus pattern (19 bp):
GTGTTAATTTGTGTGTCTT
Found at i:14528221 original size:18 final size:18
Alignment explanation
Indices: 14528198--14528232 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
14528188 ACCGTGTTAA
14528198 TTTGTGT-TCTGTGTTATT
1 TTTGTGTCT-TGTGTTATT
14528216 TTTGTGTCTTGTGTTAT
1 TTTGTGTCTTGTGTTAT
14528233 ATTGTTAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.94
19 1 0.06
ACGTcount: A:0.06, C:0.06, G:0.23, T:0.66
Consensus pattern (18 bp):
TTTGTGTCTTGTGTTATT
Found at i:14530296 original size:19 final size:18
Alignment explanation
Indices: 14530263--14530308 Score: 76
Period size: 19 Copynumber: 2.6 Consensus size: 18
14530253 TAATAAGATT
14530263 TAATA-TTATATTTAATC
1 TAATATTTATATTTAATC
14530280 TAATATTTATAATTTAATC
1 TAATATTTAT-ATTTAATC
14530299 TAATATTTAT
1 TAATATTTAT
14530309 CTTGATAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 5 0.19
18 4 0.15
19 18 0.67
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.54
Consensus pattern (18 bp):
TAATATTTATATTTAATC
Found at i:14533782 original size:28 final size:29
Alignment explanation
Indices: 14533734--14533801 Score: 75
Period size: 28 Copynumber: 2.3 Consensus size: 29
14533724 CTATAAAAAA
* * *
14533734 CATATCATTTCAGTAATTAAT-TTTTATC
1 CATATTATTTCAATAAATAATATTTTATC
*
14533762 CATATTATTTCAATAAATAATAATTTTATT
1 CATATTATTTCAATAAATAAT-ATTTTATC
*
14533792 TATATTATTT
1 CATATTATTT
14533802 GAGTAATTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 18 0.55
30 15 0.45
ACGTcount: A:0.37, C:0.09, G:0.01, T:0.53
Consensus pattern (29 bp):
CATATTATTTCAATAAATAATATTTTATC
Found at i:14534234 original size:16 final size:16
Alignment explanation
Indices: 14534210--14534240 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14534200 CAACTCTGCC
*
14534210 TTTCTTTTTTCTTTTT
1 TTTCCTTTTTCTTTTT
14534226 TTTCCTTTTTCTTTT
1 TTTCCTTTTTCTTTT
14534241 GTGTTTTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTCCTTTTTCTTTTT
Found at i:14537353 original size:21 final size:20
Alignment explanation
Indices: 14537305--14537368 Score: 74
Period size: 21 Copynumber: 2.9 Consensus size: 20
14537295 TAAAAAAAAC
14537305 TTAAAATAAATAGTAATAGAACGAT
1 TTAAAATAAATA--AATA-AA-G-T
14537330 TTAAAATAAATAACATAAAGT
1 TTAAAATAAATAA-ATAAAGT
14537351 TTAAAATAAATAAATAAA
1 TTAAAATAAATAAATAAA
14537369 TATATTGCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
20 5 0.13
21 14 0.37
22 1 0.03
23 3 0.08
24 3 0.08
25 12 0.32
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.28
Consensus pattern (20 bp):
TTAAAATAAATAAATAAAGT
Found at i:14537451 original size:20 final size:19
Alignment explanation
Indices: 14537415--14537452 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
14537405 GGACTAAATC
*
14537415 AGGGTAAAAATGAAATAAG
1 AGGGTAAAAATCAAATAAG
14537434 AGGGTAAAAATCATAATAA
1 AGGGTAAAAATCA-AATAA
14537453 AAATAATAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.58, C:0.03, G:0.21, T:0.18
Consensus pattern (19 bp):
AGGGTAAAAATCAAATAAG
Found at i:14539074 original size:87 final size:87
Alignment explanation
Indices: 14538923--14539512 Score: 865
Period size: 87 Copynumber: 6.8 Consensus size: 87
14538913 GCTAGTGCTT
* * * * *
14538923 AGGAATGCAAGATCTGCTATCTTTAACCAACTCCACTACAACCGATGAAGGTAAGGCTTCGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTT
*
14538988 CGATCTGCTTCGCTGTTAACGA
66 CGATCTGCTTCGCTGTTAACGC
* * *
14539010 AGGAAGGCAAGATCTGCTATCTTTAACTAGCTCCACTGCAACCGATGGAGGCAAGACTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTG-TTT
14539075 TCGATCTGCTTCGCTGTTAACGC
65 TCGATCTGCTTCGCTGTTAACGC
* **
14539098 AGGAAGGCAAGATCTGCTATCTTTAACTAGCTCCACTGTAACCGATGGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTT
*
14539163 CGATCTGCTTCGCTGTTAATGC
66 CGATCTGCTTCGCTGTTAACGC
* * * * **
14539185 AGGGATGTAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGAAGGCAAGGCTTCATTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTT
*
14539250 CGATCTGCTTCGCTGTTAACGA
66 CGATCTGCTTCGCTGTTAACGC
* * *
14539272 ATGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAATGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTG-TTT
* *
14539337 TCGATCTGCTTCGCTATTAATGC
65 TCGATCTGCTTCGCTGTTAACGC
* * *
14539360 AGGAAGACAAGATCTGCTATCTTTAACCCGCTCTACTACAACCGATGGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTT
* * *
14539425 CGATCAGCTTCACTGTTAATGC
66 CGATCTGCTTCGCTGTTAACGC
* *
14539447 AGGAAGGCAAGATCTGTTATCTTCAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTT
14539512 C
66 C
14539513 AATTTTCACT
Statistics
Matches: 452, Mismatches: 49, Indels: 4
0.90 0.10 0.01
Matches are distributed among these distances:
87 290 0.64
88 162 0.36
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (87 bp):
AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTT
CGATCTGCTTCGCTGTTAACGC
Found at i:14539220 original size:175 final size:174
Alignment explanation
Indices: 14538923--14539512 Score: 860
Period size: 175 Copynumber: 3.4 Consensus size: 174
14538913 GCTAGTGCTT
* * * * *
14538923 AGGAATGCAAGATCTGCTATCTTTAACCAACTCCACTACAACCGATGAAGGTAAGGCTTCGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTT
* * * *
14538988 CGATCTGCTTCGCTGTTAACG-AAGGAAGGCAAGATCTGCTATCTTTAACTAGCTCCACTGCAAC
66 CGATCTGCTTCGCTGTTAATGCAGGGAA-GCAAGATCTGCTATCTTTAACCAGCTCCACTACAAC
*
14539052 CGATGGAGGCAAGACTTTGTTTTTCGATCTGCTTCGCTGTTAACGC
130 CGATGGAGGCAAGGCTTTG-TTTTCGATCTGCTTCGCTGTTAACGC
* **
14539098 AGGAAGGCAAGATCTGCTATCTTTAACTAGCTCCACTGTAACCGATGGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTT
* *
14539163 CGATCTGCTTCGCTGTTAATGCAGGGATGTAAGATCTGCTATCTTTAACCAGCTCCACTACAACC
66 CGATCTGCTTCGCTGTTAATGCAGGGAAGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACC
* ** *
14539228 GATGAAGGCAAGGCTTCATTTTCGATCTGCTTCGCTGTTAACGA
131 GATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGC
* * *
14539272 ATGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAATGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTG-TTT
* * *
14539337 TCGATCTGCTTCGCTATTAATGCA-GGAAGACAAGATCTGCTATCTTTAACCCGCTCTACTACAA
65 TCGATCTGCTTCGCTGTTAATGCAGGGAAG-CAAGATCTGCTATCTTTAACCAGCTCCACTACAA
* * *
14539401 CCGATGGAGGCAAGGCTTTGTTTTCGATCAGCTTCACTGTTAATGC
129 CCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGC
* *
14539447 AGGAAGGCAAGATCTGTTATCTTCAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTT
14539512 C
66 C
14539513 AATTTTCACT
Statistics
Matches: 372, Mismatches: 40, Indels: 7
0.89 0.10 0.02
Matches are distributed among these distances:
174 91 0.24
175 277 0.74
176 4 0.01
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (174 bp):
AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTT
CGATCTGCTTCGCTGTTAATGCAGGGAAGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACC
GATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGC
Found at i:14539243 original size:262 final size:262
Alignment explanation
Indices: 14538923--14539512 Score: 957
Period size: 262 Copynumber: 2.3 Consensus size: 262
14538913 GCTAGTGCTT
* * *
14538923 AGGAATGCAAGATCTGCTATCTTTAACCAACTCCACTACAACCGATGAAGGTAAGGCTTCGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGAAGGCAAGGCTTCGTTTT
*
14538988 CGATCTGCTTCGCTGTTAACGAAGGAAGGCAAGATCTGCTATCTTTAACTAGCTCCACTGCAACC
66 CGATCTGCTTCGCTGTTAACGAAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACC
* *
14539053 GATGGAGGCAA-GACTTTGTTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTA
131 GATGGAGGCAATG-CTTTGTTTTTCGATCTGCTTCGCTATTAACGCAGGAAGACAAGATCTGCTA
* ** * *
14539117 TCTTTAACTAGCTCCACTGTAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAA
195 TCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTTCGATCAGCTTCACTGTTAA
14539182 TGC
260 TGC
* * * *
14539185 AGGGATGTAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGAAGGCAAGGCTTCATTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGAAGGCAAGGCTTCGTTTT
*
14539250 CGATCTGCTTCGCTGTTAACGAATGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACC
66 CGATCTGCTTCGCTGTTAACGAAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACC
*
14539315 GATGGAGGCAATGCTTTGTTTTTCGATCTGCTTCGCTATTAATGCAGGAAGACAAGATCTGCTAT
131 GATGGAGGCAATGCTTTGTTTTTCGATCTGCTTCGCTATTAACGCAGGAAGACAAGATCTGCTAT
* *
14539380 CTTTAACCCGCTCTACTACAACCGATGGAGGCAAGGCTTTGTTTTCGATCAGCTTCACTGTTAAT
196 CTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTTCGATCAGCTTCACTGTTAAT
14539445 GC
261 GC
* * * *
14539447 AGGAAGGCAAGATCTGTTATCTTCAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGAAGGCAAGGCTTCGTTTT
14539512 C
66 C
14539513 AATTTTCACT
Statistics
Matches: 302, Mismatches: 25, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
262 301 1.00
263 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (262 bp):
AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGAAGGCAAGGCTTCGTTTT
CGATCTGCTTCGCTGTTAACGAAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACC
GATGGAGGCAATGCTTTGTTTTTCGATCTGCTTCGCTATTAACGCAGGAAGACAAGATCTGCTAT
CTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTTTCGATCAGCTTCACTGTTAAT
GC
Found at i:14540759 original size:21 final size:21
Alignment explanation
Indices: 14540735--14540774 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
14540725 TTAGCCTCTC
14540735 CATTTT-ACTTTTCATTTTTTT
1 CATTTTCA-TTTTCATTTTTTT
14540756 CATTTTCATTTTCATTTTT
1 CATTTTCATTTTCATTTTT
14540775 CATCTCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (21 bp):
CATTTTCATTTTCATTTTTTT
Found at i:14540813 original size:7 final size:7
Alignment explanation
Indices: 14540781--14540813 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
14540771 TTTTCATCTC
14540781 TTTTTAT
1 TTTTTAT
14540788 TTTTTAT
1 TTTTTAT
14540795 TTTTTAT
1 TTTTTAT
14540802 TTTTTAT
1 TTTTTAT
14540809 TTTTT
1 TTTTT
14540814 TAACTTCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:14541215 original size:29 final size:26
Alignment explanation
Indices: 14541183--14541242 Score: 75
Period size: 29 Copynumber: 2.2 Consensus size: 26
14541173 ACTTTTCATA
14541183 TTTTTATTTTGACTTTGATTGATTTTTCT
1 TTTTTATTTTGACTTTGA-T--TTTTTCT
**
14541212 TTTTGCTTTTGACTTTGATTTTTTCT
1 TTTTTATTTTGACTTTGATTTTTTCT
14541238 TTTTT
1 TTTTT
14541243 CCTTTTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 11 0.39
28 1 0.04
29 16 0.57
ACGTcount: A:0.10, C:0.08, G:0.10, T:0.72
Consensus pattern (26 bp):
TTTTTATTTTGACTTTGATTTTTTCT
Found at i:14541703 original size:24 final size:24
Alignment explanation
Indices: 14541676--14541750 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
14541666 AGGACAAGTC
14541676 AATTCTAATCTTTACCAAGCTCAG
1 AATTCTAATCTTTACCAAGCTCAG
***
14541700 AATTCCTAAGAATT-CCTAAG-TC--
1 AATT-CTAATCTTTACC-AAGCTCAG
*
14541722 AATTCTAATCTTTACCGAGCTCAG
1 AATTCTAATCTTTACCAAGCTCAG
14541746 AATTC
1 AATTC
14541751 CTTGTGAGGT
Statistics
Matches: 38, Mismatches: 7, Indels: 12
0.67 0.12 0.21
Matches are distributed among these distances:
21 8 0.21
22 8 0.21
24 13 0.34
25 9 0.24
ACGTcount: A:0.33, C:0.24, G:0.09, T:0.33
Consensus pattern (24 bp):
AATTCTAATCTTTACCAAGCTCAG
Found at i:14555625 original size:19 final size:20
Alignment explanation
Indices: 14555586--14555625 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
14555576 GTAACTACCC
*
14555586 TAACTGACTAACTACTGACT
1 TAACTGACTAACAACTGACT
*
14555606 TAACT-ACTAACAACTTACT
1 TAACTGACTAACAACTGACT
14555625 T
1 T
14555626 TCTTTATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.33
Consensus pattern (20 bp):
TAACTGACTAACAACTGACT
Found at i:14555918 original size:73 final size:72
Alignment explanation
Indices: 14555799--14555973 Score: 228
Period size: 73 Copynumber: 2.4 Consensus size: 72
14555789 CTAATGATCA
* * **
14555799 GGGATTTAGCGGCGTTTTTGAGAAAA-CAACGCAAAAAAACCTAAGCCCAACGACGCTGTTTTCT
1 GGGATTTAGCGGCGTTTTTGA-AAAAGC-GCGCAAAAAAACCTAAGCCCAACGACACCATTTTCT
14555863 GAACTTTCG
64 GAACTTTCG
* *
14555872 GGGATTTAGCAGCGTTTTTGAAAAAGCGCTGCAAAAAAACCTAAGCCCAACGGCACCATTTTCTG
1 GGGATTTAGCGGCGTTTTTGAAAAAGCGC-GCAAAAAAACCTAAGCCCAACGACACCATTTTCTG
*
14555937 AGCTTTCG
65 AACTTTCG
*
14555945 GGGAGTTAGCGGCGTTTTT-AAGAAAGCGC
1 GGGATTTAGCGGCGTTTTTGAA-AAAGCGC
14555974 CGCTAATGCT
Statistics
Matches: 90, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
72 7 0.08
73 83 0.92
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (72 bp):
GGGATTTAGCGGCGTTTTTGAAAAAGCGCGCAAAAAAACCTAAGCCCAACGACACCATTTTCTGA
ACTTTCG
Found at i:14556076 original size:114 final size:114
Alignment explanation
Indices: 14555872--14556221 Score: 495
Period size: 114 Copynumber: 3.1 Consensus size: 114
14555862 TGAACTTTCG
* * * *
14555872 GGGATTTAGCAGCGTTTTTGAAAAAGCGCTGCAAAAAAACCTAAGCCCAACGGCACCATTTTCTG
1 GGGATTTAGCAGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCATTTTCTG
* *
14555937 AGCTTTCGGGGAGTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCA
66 AGCTTTCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCA
* * * * *
14555986 GGGATTTAGTAGCGTTTTTGAGAAAGCACCGCAAAAAAACCTAAGCCTAACGATGCCATTTTCTA
1 GGGATTTAGCAGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCATTTTCTG
* *
14556051 AGCTTTCGGGGATTTAGCGGTGTTTTTAAGGAAGCGCCGCTAATGCTCT
66 AGCTTTCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCA
* * * *
14556100 GGGCTTTAGCGGCGTTTTTTG-GAAAGCGCCGCAAAAAAAACTAAGCCCAACGACGCCGTTTTCT
1 GGGATTTAGCAGCG-TTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCATTTTCT
* ** *
14556164 GAGCTTTTGGGGATTTAATGGCGTTTTTAAGGAAGTGCCGCTAATGCTCA
65 GAGCTTTCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCA
14556214 GGGATTTA
1 GGGATTTA
14556222 AAATAATTTG
Statistics
Matches: 206, Mismatches: 29, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
114 200 0.97
115 6 0.03
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (114 bp):
GGGATTTAGCAGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCATTTTCTG
AGCTTTCGGGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCA
Found at i:14556448 original size:7 final size:7
Alignment explanation
Indices: 14556436--14556585 Score: 52
Period size: 7 Copynumber: 20.4 Consensus size: 7
14556426 GGGGTATGGA
14556436 TTTAGGG
1 TTTAGGG
*
14556443 TTTAGGA
1 TTTAGGG
*
14556450 TTTAAGG
1 TTTAGGG
14556457 TTTAGGG
1 TTTAGGG
*
14556464 GTTA-GG
1 TTTAGGG
* *
14556470 TGTTATGC
1 T-TTAGGG
14556478 TTTAGGGG
1 TTTA-GGG
*
14556486 TTAAGGGG
1 TTTA-GGG
14556494 ATTTAGGG
1 -TTTAGGG
*
14556502 GTTAGGG
1 TTTAGGG
* * *
14556509 GTTATGC
1 TTTAGGG
*
14556516 TTCAGGG
1 TTTAGGG
*
14556523 -GTAGGGG
1 TTTA-GGG
14556530 ATTTAGGG
1 -TTTAGGG
*
14556538 GTTAGGG
1 TTTAGGG
* * *
14556545 GTTATGC
1 TTTAGGG
14556552 TTTAGGG
1 TTTAGGG
*
14556559 GTTAGGGG
1 TTTA-GGG
14556567 ATTTAGGGG
1 -TTTA-GGG
14556576 TTTAGGG
1 TTTAGGG
14556583 TTT
1 TTT
14556586 CAACGGTTAG
Statistics
Matches: 105, Mismatches: 29, Indels: 18
0.69 0.19 0.12
Matches are distributed among these distances:
6 3 0.03
7 67 0.64
8 23 0.22
9 12 0.11
ACGTcount: A:0.17, C:0.03, G:0.43, T:0.37
Consensus pattern (7 bp):
TTTAGGG
Found at i:14556536 original size:36 final size:37
Alignment explanation
Indices: 14556457--14556582 Score: 209
Period size: 36 Copynumber: 3.4 Consensus size: 37
14556447 GGATTTAAGG
*
14556457 TTTAGGGGTTAGGTGTTATGCTTTAGGGGTTAAGGGGA
1 TTTAGGGGTTAGGGGTTATGCTTTAGGGGTT-AGGGGA
*
14556495 TTTAGGGGTTAGGGGTTATGCTTCAGGGG-TAGGGGA
1 TTTAGGGGTTAGGGGTTATGCTTTAGGGGTTAGGGGA
14556531 TTTAGGGGTTAGGGGTTATGCTTTAGGGGTTAGGGGA
1 TTTAGGGGTTAGGGGTTATGCTTTAGGGGTTAGGGGA
14556568 TTTAGGGGTTTAGGG
1 TTTAGGGG-TTAGGG
14556583 TTTCAACGGT
Statistics
Matches: 83, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
36 34 0.41
37 16 0.19
38 33 0.40
ACGTcount: A:0.17, C:0.03, G:0.45, T:0.35
Consensus pattern (37 bp):
TTTAGGGGTTAGGGGTTATGCTTTAGGGGTTAGGGGA
Found at i:14556956 original size:27 final size:26
Alignment explanation
Indices: 14556909--14556962 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 26
14556899 GGATAGGACC
14556909 AAAATATAAGAAAAAATAAAA-TAAA
1 AAAATATAAGAAAAAATAAAACTAAA
14556934 AAAATATAAATGAAACAAA-AAAACTAAA
1 AAAATAT-AA-GAAA-AAATAAAACTAAA
14556962 A
1 A
14556963 TTTATACATG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
25 7 0.28
26 2 0.08
27 8 0.32
28 8 0.32
ACGTcount: A:0.78, C:0.04, G:0.04, T:0.15
Consensus pattern (26 bp):
AAAATATAAGAAAAAATAAAACTAAA
Found at i:14556963 original size:19 final size:18
Alignment explanation
Indices: 14556921--14556963 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
14556911 AATATAAGAA
*
14556921 AAAATAAAATAAAAAAAT
1 AAAATAAAACAAAAAAAT
*
14556939 ATAAATGAAACAAAAAAACT
1 A-AAATAAAACAAAAAAA-T
14556959 AAAAT
1 AAAAT
14556964 TTATACATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 18 0.86
20 2 0.10
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.16
Consensus pattern (18 bp):
AAAATAAAACAAAAAAAT
Found at i:14558296 original size:5 final size:5
Alignment explanation
Indices: 14558286--14558311 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
14558276 TTTAAATTTG
14558286 AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A
14558312 CAAACCAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:14562315 original size:43 final size:43
Alignment explanation
Indices: 14562222--14562322 Score: 107
Period size: 43 Copynumber: 2.3 Consensus size: 43
14562212 CGTTTACAGA
* * *
14562222 AAAAAACGCCGTTAAAGATCATGTTCTTTAGCGGCGCTTTCTT
1 AAAAAACGCCGCTAAAGAACATGCTCTTTAGCGGCGCTTTCTT
* * *
14562265 CACAAACGCCGCTATAGAACATGACT-TTTAGCGGCGCTTT-TAT
1 AAAAAACGCCGCTAAAGAACATG-CTCTTTAGCGGCGCTTTCT-T
*
14562308 AAAAAACGCCACTAA
1 AAAAAACGCCGCTAA
14562323 TTTTGGGATT
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
42 1 0.02
43 44 0.96
44 1 0.02
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.27
Consensus pattern (43 bp):
AAAAAACGCCGCTAAAGAACATGCTCTTTAGCGGCGCTTTCTT
Found at i:14562687 original size:12 final size:12
Alignment explanation
Indices: 14562670--14562730 Score: 56
Period size: 12 Copynumber: 5.3 Consensus size: 12
14562660 TTTTGAACCT
14562670 CTGCTTCTCTCG
1 CTGCTTCTCTCG
* *
14562682 CTGCTTCTTTAG
1 CTGCTTCTCTCG
**
14562694 CTGCAGC-CT--
1 CTGCTTCTCTCG
14562703 CTGCTTCTCTCG
1 CTGCTTCTCTCG
*
14562715 CTACTTCTCTCG
1 CTGCTTCTCTCG
14562727 CTGC
1 CTGC
14562731 AGCCTCTGCT
Statistics
Matches: 37, Mismatches: 9, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
9 5 0.14
10 2 0.05
11 1 0.03
12 29 0.78
ACGTcount: A:0.05, C:0.39, G:0.16, T:0.39
Consensus pattern (12 bp):
CTGCTTCTCTCG
Found at i:14562704 original size:33 final size:33
Alignment explanation
Indices: 14562667--14562742 Score: 125
Period size: 33 Copynumber: 2.3 Consensus size: 33
14562657 TCCTTTTGAA
* *
14562667 CCTCTGCTTCTCTCGCTGCTTCTTTAGCTGCAG
1 CCTCTGCTTCTCTCGCTACTTCTCTAGCTGCAG
*
14562700 CCTCTGCTTCTCTCGCTACTTCTCTCGCTGCAG
1 CCTCTGCTTCTCTCGCTACTTCTCTAGCTGCAG
14562733 CCTCTGCTTC
1 CCTCTGCTTC
14562743 CTTCACTGCA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.05, C:0.41, G:0.16, T:0.38
Consensus pattern (33 bp):
CCTCTGCTTCTCTCGCTACTTCTCTAGCTGCAG
Found at i:14566575 original size:7 final size:7
Alignment explanation
Indices: 14566563--14566590 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
14566553 CTTTGGACAG
14566563 CATAAAA
1 CATAAAA
14566570 CATAAAA
1 CATAAAA
14566577 CATAAAA
1 CATAAAA
14566584 CATAAAA
1 CATAAAA
14566591 TAAGATGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.71, C:0.14, G:0.00, T:0.14
Consensus pattern (7 bp):
CATAAAA
Found at i:14567841 original size:7 final size:7
Alignment explanation
Indices: 14567826--14567891 Score: 59
Period size: 7 Copynumber: 10.0 Consensus size: 7
14567816 AACTATAAAC
*
14567826 CCCTAAA
1 CCCTTAA
14567833 CCCTTAA
1 CCCTTAA
*
14567840 CCC-CAA
1 CCCTTAA
14567846 CCCTTAA
1 CCCTTAA
14567853 CCCTTAA
1 CCCTTAA
14567860 ---TTAA
1 CCCTTAA
*
14567864 ACCTTAA
1 CCCTTAA
*
14567871 CCTTTAA
1 CCCTTAA
14567878 CCCTTAA
1 CCCTTAA
*
14567885 ACCTTAA
1 CCCTTAA
14567892 ACACCAACTC
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
4 4 0.08
6 5 0.10
7 39 0.81
ACGTcount: A:0.35, C:0.38, G:0.00, T:0.27
Consensus pattern (7 bp):
CCCTTAA
Found at i:14567849 original size:13 final size:13
Alignment explanation
Indices: 14567831--14567855 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14567821 TAAACCCCTA
14567831 AACCCTTAACCCC
1 AACCCTTAACCCC
14567844 AACCCTTAACCC
1 AACCCTTAACCC
14567856 TTAATTAAAC
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:0.32, C:0.52, G:0.00, T:0.16
Consensus pattern (13 bp):
AACCCTTAACCCC
Found at i:14567865 original size:32 final size:32
Alignment explanation
Indices: 14567829--14567891 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
14567819 TATAAACCCC
*
14567829 TAAACCCTTAACC-CCAACCCTTAACCCTTAAT
1 TAAA-CCTTAACCTCCAACCCTTAAACCTTAAT
**
14567861 TAAACCTTAACCTTTAACCCTTAAACCTTAA
1 TAAACCTTAACCTCCAACCCTTAAACCTTAA
14567892 ACACCAACTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 8 0.30
32 19 0.70
ACGTcount: A:0.37, C:0.35, G:0.00, T:0.29
Consensus pattern (32 bp):
TAAACCTTAACCTCCAACCCTTAAACCTTAAT
Found at i:14568089 original size:7 final size:7
Alignment explanation
Indices: 14568069--14568114 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
14568059 ATTAATTATA
14568069 AACCCCT
1 AACCCCT
14568076 AAACCCCT
1 -AACCCCT
14568084 AACCCCT
1 AACCCCT
*
14568091 -ACCCTT
1 AACCCCT
*
14568097 AACCCTT
1 AACCCCT
14568104 AACCCC-
1 AACCCCT
14568110 AACCC
1 AACCC
14568115 TTAAACCATA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 10 0.29
7 18 0.51
8 7 0.20
ACGTcount: A:0.30, C:0.54, G:0.00, T:0.15
Consensus pattern (7 bp):
AACCCCT
Found at i:14568100 original size:20 final size:20
Alignment explanation
Indices: 14568072--14568118 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
14568062 AATTATAAAC
* *
14568072 CCCTAAACCCCTAACCCCTA
1 CCCTTAACCCCTAACCCCAA
*
14568092 CCCTTAACCCTTAACCCCAA
1 CCCTTAACCCCTAACCCCAA
14568112 CCCTTAA
1 CCCTTAA
14568119 ACCATAATCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.30, C:0.51, G:0.00, T:0.19
Consensus pattern (20 bp):
CCCTTAACCCCTAACCCCAA
Found at i:14568206 original size:39 final size:39
Alignment explanation
Indices: 14568150--14568226 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 39
14568140 ACCCATATCC
*
14568150 CTTAAACCCTAAATCATAGA-ACATATGTAAACTATAAAT
1 CTTAAACCCTAAATCATA-ACACATATATAAACTATAAAT
* * *
14568189 CTTAAACCCTGATTCATAACATATATATAAACTATAAA
1 CTTAAACCCTAAATCATAACACATATATAAACTATAAA
14568227 GTGTAAACCC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.03
39 32 0.97
ACGTcount: A:0.48, C:0.18, G:0.04, T:0.30
Consensus pattern (39 bp):
CTTAAACCCTAAATCATAACACATATATAAACTATAAAT
Found at i:14572506 original size:17 final size:16
Alignment explanation
Indices: 14572484--14572519 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
14572474 CCATAAAATA
*
14572484 TTTTTTGATTTTTTATT
1 TTTTTTG-TATTTTATT
14572501 TTTTTTGTATTTTATT
1 TTTTTTGTATTTTATT
14572517 TTT
1 TTT
14572520 GTACTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.11, C:0.00, G:0.06, T:0.83
Consensus pattern (16 bp):
TTTTTTGTATTTTATT
Found at i:14580315 original size:21 final size:21
Alignment explanation
Indices: 14580276--14580315 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
14580266 TACTGTAGAG
* *
14580276 TTTTATTTATTAGTATATTAA
1 TTTTATTTATAAATATATTAA
*
14580297 TTTTATTTATAAATTTATT
1 TTTTATTTATAAATATATT
14580316 CCAACATCGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (21 bp):
TTTTATTTATAAATATATTAA
Found at i:14587894 original size:67 final size:67
Alignment explanation
Indices: 14587807--14587957 Score: 166
Period size: 67 Copynumber: 2.3 Consensus size: 67
14587797 CATCAGGACG
*
14587807 TTAAACATGGGAATTA-ATGTGTAAAACCATAGCTCAAATATGACAAC-CAAT-GG-AGTCCACC
1 TTAAACATGGG-GTTACATGTGTAAAACCATAGCTCAAATATGAC--CTC-ATGGGTAGTCCACC
14587868 AAGACA
62 AAGACA
** * * *
14587874 TTAAACATGGGGTTACATGTGTATGACCATAGCTCGACTATGACCTCATGGGTAGTCCACCAGGA
1 TTAAACATGGGGTTACATGTGTAAAACCATAGCTCAAATATGACCTCATGGGTAGTCCACCAAGA
*
14587939 CG
66 CA
*
14587941 TAAAACATGGGGTTACA
1 TTAAACATGGGGTTACA
14587958 CATGTGAAGT
Statistics
Matches: 72, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
65 3 0.04
66 6 0.08
67 63 0.88
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (67 bp):
TTAAACATGGGGTTACATGTGTAAAACCATAGCTCAAATATGACCTCATGGGTAGTCCACCAAGA
CA
Found at i:14600388 original size:53 final size:53
Alignment explanation
Indices: 14600308--14600413 Score: 167
Period size: 53 Copynumber: 2.0 Consensus size: 53
14600298 AGTAGGGCCT
* * *
14600308 TAGCCCATCACAGTATCAGTATCAAATATGCAGTAGGGTCTTAGCCCATCACA
1 TAGCCCATCACAGAATCAGTATCAAATATGCAGTAAGGCCTTAGCCCATCACA
* *
14600361 TAGCCCATCACAGAATGAGTTTCAAATATGCAGTAAGGCCTTAGCCCATCACA
1 TAGCCCATCACAGAATCAGTATCAAATATGCAGTAAGGCCTTAGCCCATCACA
14600414 GAATTAGTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 48 1.00
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (53 bp):
TAGCCCATCACAGAATCAGTATCAAATATGCAGTAAGGCCTTAGCCCATCACA
Found at i:14602805 original size:2 final size:2
Alignment explanation
Indices: 14602792--14602823 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
14602782 TTAAGAATGA
*
14602792 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14602824 CATGGCAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:14603165 original size:3 final size:3
Alignment explanation
Indices: 14603157--14603202 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
14603147 AGTATACCAA
14603157 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
14603203 CGTGCTATTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:14606529 original size:22 final size:22
Alignment explanation
Indices: 14606504--14606580 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 22
14606494 CCAAAATATT
14606504 ATCTCCTAAACTTTAGCATCTA
1 ATCTCCTAAACTTTAGCATCTA
* * * *
14606526 ATCTCCT-AA-TTAAACCAAAATATT
1 ATCTCCTAAACTT-TAGC---ATCTA
14606550 ATCTCCTAAACTTTAGCATCTA
1 ATCTCCTAAACTTTAGCATCTA
14606572 ATCTCCTAA
1 ATCTCCTAA
14606581 TTAAAAGAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
20 2 0.05
21 4 0.10
22 19 0.46
24 10 0.24
25 4 0.10
26 2 0.05
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.35
Consensus pattern (22 bp):
ATCTCCTAAACTTTAGCATCTA
Found at i:14606543 original size:46 final size:46
Alignment explanation
Indices: 14606491--14606585 Score: 190
Period size: 46 Copynumber: 2.1 Consensus size: 46
14606481 ACAAAGATAG
14606491 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
14606537 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
14606583 AAA
1 AAA
14606586 AGAAAATAGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.41, C:0.23, G:0.02, T:0.34
Consensus pattern (46 bp):
AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
Found at i:14610483 original size:101 final size:101
Alignment explanation
Indices: 14610308--14610511 Score: 381
Period size: 101 Copynumber: 2.0 Consensus size: 101
14610298 AGATGCTAGA
* *
14610308 TCTAACCGTGCTATATGTCCCATCCAATCCCATCAGGAAGTGGTGAACTTTTTCCTCTTCTTGTC
1 TCTAACCGTGCTATATGTCCCATCCAATCCCATCAAGAAGTGGTGAACTTTTTCCTCTTCTCGTC
*
14610373 GCTTTTCCAACTCGGCTGATAATTGACAAGTACAAT
66 ACTTTTCCAACTCGGCTGATAATTGACAAGTACAAT
14610409 TCTAACCGTGCTATATGTCCCATCCAATCCCATCAAGAAGTGGTGAACTTTTTCCTCTTCTCGTC
1 TCTAACCGTGCTATATGTCCCATCCAATCCCATCAAGAAGTGGTGAACTTTTTCCTCTTCTCGTC
14610474 ACTTTTCCAACTCGGCTGATAATTGACAAGTACAAT
66 ACTTTTCCAACTCGGCTGATAATTGACAAGTACAAT
14610510 TC
1 TC
14610512 CCGCATTTAC
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
101 100 1.00
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.33
Consensus pattern (101 bp):
TCTAACCGTGCTATATGTCCCATCCAATCCCATCAAGAAGTGGTGAACTTTTTCCTCTTCTCGTC
ACTTTTCCAACTCGGCTGATAATTGACAAGTACAAT
Found at i:14611203 original size:22 final size:22
Alignment explanation
Indices: 14611178--14611254 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 22
14611168 CCAAAATATT
14611178 ATCTCCTAAACTTTAGCATCTA
1 ATCTCCTAAACTTTAGCATCTA
* * * *
14611200 ATCTCCT-AA-TTAAACCAAAATATT
1 ATCTCCTAAACTT-TAGC---ATCTA
14611224 ATCTCCTAAACTTTAGCATCTA
1 ATCTCCTAAACTTTAGCATCTA
14611246 ATCTCCTAA
1 ATCTCCTAA
14611255 TTAAAAGAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
20 2 0.05
21 4 0.10
22 19 0.46
24 10 0.24
25 4 0.10
26 2 0.05
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.35
Consensus pattern (22 bp):
ATCTCCTAAACTTTAGCATCTA
Found at i:14611217 original size:46 final size:46
Alignment explanation
Indices: 14611165--14611259 Score: 190
Period size: 46 Copynumber: 2.1 Consensus size: 46
14611155 ACAAAGATAG
14611165 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
14611211 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
14611257 AAA
1 AAA
14611260 AGAAAATAGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.41, C:0.23, G:0.02, T:0.34
Consensus pattern (46 bp):
AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
Found at i:14613933 original size:22 final size:24
Alignment explanation
Indices: 14613908--14613963 Score: 57
Period size: 26 Copynumber: 2.4 Consensus size: 24
14613898 CTTGTTTAAA
14613908 TTTGATTAATA-A-GTATTTATTT
1 TTTGATTAATATACGTATTTATTT
14613930 TTTG-TATAATATTATCGTATTTATTT
1 TTTGAT-TAATA-TA-CGTATTTATTT
14613956 TTT-ATTAA
1 TTTGATTAA
14613964 ACTTATGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
21 1 0.04
22 9 0.32
24 1 0.04
25 3 0.11
26 14 0.50
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (24 bp):
TTTGATTAATATACGTATTTATTT
Found at i:14618933 original size:43 final size:43
Alignment explanation
Indices: 14618884--14618968 Score: 161
Period size: 43 Copynumber: 2.0 Consensus size: 43
14618874 AGATGGAGAA
14618884 ATGTGGAAATATGAAATTGATATTGGCAAAAGATACATATGAG
1 ATGTGGAAATATGAAATTGATATTGGCAAAAGATACATATGAG
*
14618927 ATGTGGAAATATGATATTGATATTGGCAAAAGATACATATGA
1 ATGTGGAAATATGAAATTGATATTGGCAAAAGATACATATGA
14618969 AATTGATATT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.44, C:0.05, G:0.22, T:0.29
Consensus pattern (43 bp):
ATGTGGAAATATGAAATTGATATTGGCAAAAGATACATATGAG
Found at i:14618967 original size:28 final size:28
Alignment explanation
Indices: 14618935--14618996 Score: 115
Period size: 28 Copynumber: 2.2 Consensus size: 28
14618925 AGATGTGGAA
*
14618935 ATATGATATTGATATTGGCAAAAGATAC
1 ATATGAAATTGATATTGGCAAAAGATAC
14618963 ATATGAAATTGATATTGGCAAAAGATAC
1 ATATGAAATTGATATTGGCAAAAGATAC
14618991 ATATGA
1 ATATGA
14618997 GATGTGGAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.45, C:0.06, G:0.18, T:0.31
Consensus pattern (28 bp):
ATATGAAATTGATATTGGCAAAAGATAC
Found at i:14618973 original size:22 final size:22
Alignment explanation
Indices: 14618905--14618973 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 22
14618895 TGAAATTGAT
*
14618905 ATTGGCAAAAGATACATATGAG
1 ATTGGCAAAAGATACATATGAA
*
14618927 ATGTGG-AAATATGAT--AT-TGAT
1 AT-TGGCAAA-A-GATACATATGAA
14618948 ATTGGCAAAAGATACATATGAA
1 ATTGGCAAAAGATACATATGAA
14618970 ATTG
1 ATTG
14618974 ATATTGGCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
19 3 0.08
20 4 0.11
21 10 0.26
22 14 0.37
23 4 0.11
24 3 0.08
ACGTcount: A:0.43, C:0.06, G:0.22, T:0.29
Consensus pattern (22 bp):
ATTGGCAAAAGATACATATGAA
Done.