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 63 of 290
Found at i:20638839 original size:40 final size:40
Alignment explanation
Indices: 20638789--20638952 Score: 204
Period size: 40 Copynumber: 4.1 Consensus size: 40
20638779 CGTTTGGATA
*
20638789 AAAAACGCCGCTATAGATCGAGCATTAGCGGTGCTTTTTG
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
* * * *
20638829 AAAAACGCCGCTATAGATCGAGCATTAGCTGCGCCTCTTA
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
* *
20638869 AAAAACACCGCTATAGATTGAGCATTAGCGGCGCTTTTTG
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
* * ** * *
20638909 AAAAATGCCGCTATAGGTATA-CATTAGCGGCGTTTTTTT
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
20638948 AAAAA
1 AAAAA
20638953 TTAAGCACCA
Statistics
Matches: 106, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 21 0.20
40 85 0.80
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27
Consensus pattern (40 bp):
AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
Found at i:20638952 original size:80 final size:80
Alignment explanation
Indices: 20638787--20638940 Score: 229
Period size: 80 Copynumber: 1.9 Consensus size: 80
20638777 GACGTTTGGA
* * *
20638787 TAAAAAACGCCGCTATAGATCGAGCATTAGCGGTGCTTTTTGAAAAACGCCGCTATAGATCGAGC
1 TAAAAAACACCGCTATAGATCGAGCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATAGAGC
*
20638852 ATTAGCTGCGCCTCT
66 ATTAGCGGCGCCTCT
* * * *
20638867 TAAAAAACACCGCTATAGATTGAGCATTAGCGGCGCTTTTTGAAAAATGCCGCTATAGGTATA-C
1 TAAAAAACACCGCTATAGATCGAGCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATAGAGC
20638931 ATTAGCGGCG
66 ATTAGCGGCG
20638941 TTTTTTTAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
79 10 0.15
80 56 0.85
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (80 bp):
TAAAAAACACCGCTATAGATCGAGCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATAGAGC
ATTAGCGGCGCCTCT
Found at i:20639046 original size:40 final size:40
Alignment explanation
Indices: 20638991--20639098 Score: 162
Period size: 40 Copynumber: 2.7 Consensus size: 40
20638981 AGCTTTAGTG
*
20638991 GCATTAGCGGCACTTCTTGAAAAACGCTGCTATAGATCGA
1 GCATTAGCGGCACTTCTTGAAAAACGCCGCTATAGATCGA
* ** *
20639031 GCATTAGTGGCACTTCTTGAAAAATACCGCTATAGATTGA
1 GCATTAGCGGCACTTCTTGAAAAACGCCGCTATAGATCGA
*
20639071 GCATTAGCGGCACTTTTTGAAAAACGCC
1 GCATTAGCGGCACTTCTTGAAAAACGCC
20639099 ACAAAAAATT
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (40 bp):
GCATTAGCGGCACTTCTTGAAAAACGCCGCTATAGATCGA
Found at i:20639386 original size:19 final size:19
Alignment explanation
Indices: 20639362--20639420 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 19
20639352 AAGAGATAGT
20639362 ATTAATTTTAAAATTTTGA
1 ATTAATTTTAAAATTTTGA
* * *
20639381 ATTAA--TT-AGA--TAGT
1 ATTAATTTTAAAATTTTGA
20639395 ATTAATTTTAAAATTTTGA
1 ATTAATTTTAAAATTTTGA
20639414 ATTAATT
1 ATTAATT
20639421 ATCATTATAG
Statistics
Matches: 29, Mismatches: 6, Indels: 10
0.64 0.13 0.22
Matches are distributed among these distances:
14 7 0.24
16 4 0.14
17 4 0.14
19 14 0.48
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (19 bp):
ATTAATTTTAAAATTTTGA
Found at i:20639393 original size:33 final size:33
Alignment explanation
Indices: 20639355--20639421 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
20639345 ATTGTAAAAG
20639355 AGATAGTATTAATTTTAAAATTTTGAATTAATT
1 AGATAGTATTAATTTTAAAATTTTGAATTAATT
20639388 AGATAGTATTAATTTTAAAATTTTGAATTAATT
1 AGATAGTATTAATTTTAAAATTTTGAATTAATT
20639421 A
1 A
20639422 TCATTATAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (33 bp):
AGATAGTATTAATTTTAAAATTTTGAATTAATT
Found at i:20639446 original size:7 final size:7
Alignment explanation
Indices: 20639425--20639475 Score: 50
Period size: 7 Copynumber: 7.4 Consensus size: 7
20639415 TTAATTATCA
*
20639425 TTATAGT
1 TTATGGT
*
20639432 TTAGGGT
1 TTATGGT
20639439 TTATGGT
1 TTATGGT
20639446 TTA-GGT
1 TTATGGT
*
20639452 ATATGGT
1 TTATGGT
*
20639459 TTAGGGT
1 TTATGGT
*
20639466 TTAAGGT
1 TTATGGT
20639473 TTA
1 TTA
20639476 AGAGTTACTA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
6 5 0.14
7 31 0.86
ACGTcount: A:0.22, C:0.00, G:0.29, T:0.49
Consensus pattern (7 bp):
TTATGGT
Found at i:20639447 original size:14 final size:14
Alignment explanation
Indices: 20639425--20639475 Score: 68
Period size: 14 Copynumber: 3.7 Consensus size: 14
20639415 TTAATTATCA
*
20639425 TTATAGTTTAGGGT
1 TTATGGTTTAGGGT
20639439 TTATGGTTTA-GGT
1 TTATGGTTTAGGGT
*
20639452 ATATGGTTTAGGGT
1 TTATGGTTTAGGGT
*
20639466 TTAAGGTTTA
1 TTATGGTTTA
20639476 AGAGTTACTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
13 12 0.38
14 20 0.62
ACGTcount: A:0.22, C:0.00, G:0.29, T:0.49
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:20639458 original size:13 final size:13
Alignment explanation
Indices: 20639430--20639463 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
20639420 TATCATTATA
*
20639430 GTTTAGGGTTTATG
1 GTTTA-GGTATATG
20639444 GTTTAGGTATATG
1 GTTTAGGTATATG
20639457 GTTTAGG
1 GTTTAGG
20639464 GTTTAAGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.18, C:0.00, G:0.35, T:0.47
Consensus pattern (13 bp):
GTTTAGGTATATG
Found at i:20639554 original size:21 final size:20
Alignment explanation
Indices: 20639529--20639581 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
20639519 AAGGTTTATT
20639529 GTTTAAGGGTT-GGGGTTTAA
1 GTTTAAGGGTTAGGGG-TTAA
* *
20639549 GATTTAGGGGTTAGTGGTTAA
1 G-TTTAAGGGTTAGGGGTTAA
20639570 GTGTTAAGGGTT
1 GT-TTAAGGGTT
20639582 TAGAGTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
20 2 0.07
21 22 0.81
22 3 0.11
ACGTcount: A:0.21, C:0.00, G:0.40, T:0.40
Consensus pattern (20 bp):
GTTTAAGGGTTAGGGGTTAA
Found at i:20639995 original size:6 final size:6
Alignment explanation
Indices: 20639979--20640032 Score: 54
Period size: 6 Copynumber: 8.3 Consensus size: 6
20639969 GGACCAAATT
* *
20639979 ATAACAA ATAAAA ATAAAA TATAAAA ATAAAA ATGAAAT ACAAAA ACTAAAA
1 ATAA-AA ATAAAA ATAAAA -ATAAAA ATAAAA AT-AAAA ATAAAA A-TAAAA
20640031 AT
1 AT
20640033 TATAATTTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
6 21 0.52
7 19 0.47
ACGTcount: A:0.74, C:0.06, G:0.02, T:0.19
Consensus pattern (6 bp):
ATAAAA
Found at i:20640002 original size:13 final size:13
Alignment explanation
Indices: 20639986--20640010 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20639976 ATTATAACAA
20639986 ATAAAAATAAAAT
1 ATAAAAATAAAAT
20639999 ATAAAAATAAAA
1 ATAAAAATAAAA
20640011 ATGAAATACA
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:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
ATAAAAATAAAAT
Found at i:20640008 original size:19 final size:19
Alignment explanation
Indices: 20639978--20640032 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 19
20639968 AGGACCAAAT
20639978 TATAACAAATAAAAATAAAA
1 TATAA-AAATAAAAATAAAA
*
20639998 TATAAAAATAAAAATGAAA
1 TATAAAAATAAAAATAAAA
*
20640017 TACAAAAACTAAAAAT
1 TATAAAAA-TAAAAAT
20640033 TATAATTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 20 0.62
20 12 0.38
ACGTcount: A:0.73, C:0.05, G:0.02, T:0.20
Consensus pattern (19 bp):
TATAAAAATAAAAATAAAA
Found at i:20647739 original size:14 final size:14
Alignment explanation
Indices: 20647720--20647746 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
20647710 TCCTTGTTTA
20647720 TGATTTATACATAT
1 TGATTTATACATAT
20647734 TGATTTATACATA
1 TGATTTATACATA
20647747 GTGTGTACAT
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:0.37, C:0.07, G:0.07, T:0.48
Consensus pattern (14 bp):
TGATTTATACATAT
Found at i:20649753 original size:42 final size:43
Alignment explanation
Indices: 20649610--20649834 Score: 217
Period size: 43 Copynumber: 5.3 Consensus size: 43
20649600 GAATGGTACT
* * * *
20649610 TTTAGCAGCGTTTGTGAAAAAAAG-ACCGTTAAAGATCATGTTC
1 TTTAGCGGCGTTTGTG-ATAAAAGTGCCGCTAAAGATCATGTTC
* *** *
20649653 TTTAGCGGCGTTTGTAATAAAAGTGTTACTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGATAAAAGTGCCGCTAAAGATCATGTTC
** * *
20649696 TTTAGCGGTATTTGTGATAAAAGTGCTGTTAAAGATCATG-TC
1 TTTAGCGGCGTTTGTGATAAAAGTGCCGCTAAAGATCATGTTC
* **
20649738 TTTAGCGGCGTTTGTGGGT-AAAGCACCGCTAAA-AGTCATGTTC
1 TTTAGCGGCGTTTGT-GATAAAAGTGCCGCTAAAGA-TCATGTTC
*
20649781 TTTAGCGGCGTTT-TTATAAAAGTGCCGCTAAAGATCATGTTC
1 TTTAGCGGCGTTTGTGATAAAAGTGCCGCTAAAGATCATGTTC
* *
20649823 TATAGCGACGTT
1 TTTAGCGGCGTT
20649835 GTCTATAGCG
Statistics
Matches: 147, Mismatches: 29, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
41 2 0.01
42 67 0.46
43 78 0.53
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGATAAAAGTGCCGCTAAAGATCATGTTC
Found at i:20649776 original size:85 final size:85
Alignment explanation
Indices: 20649635--20649834 Score: 233
Period size: 85 Copynumber: 2.4 Consensus size: 85
20649625 GAAAAAAAGA
**** *
20649635 CCGTTAAAGATCATGTTCTTTAGCGGCGTTTGTAATAAAAGTGTTACTAAAGGTCATGTTCTTTA
1 CCGTTAAAGATCATGTTCTTTAGCGGCGTTTGTAATAAAAGCACCACTAAAAGTCATGTTCTTTA
*
20649700 GCGGTATTTGTGATAAAAGTG
66 GCGGCATTT-TGATAAAAGTG
* ** *
20649721 CTGTTAAAGATCATG-TCTTTAGCGGCGTTTGTGGGT-AAAGCACCGCTAAAAGTCATGTTCTTT
1 CCGTTAAAGATCATGTTCTTTAGCGGCGTTTGT-AATAAAAGCACCACTAAAAGTCATGTTCTTT
* *
20649784 AGCGGCGTTTTTATAAAAGTG
65 AGCGGCATTTTGATAAAAGTG
* * *
20649805 CCGCTAAAGATCATGTTCTATAGCGACGTT
1 CCGTTAAAGATCATGTTCTTTAGCGGCGTT
20649835 GTCTATAGCG
Statistics
Matches: 96, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
84 23 0.24
85 58 0.60
86 15 0.16
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (85 bp):
CCGTTAAAGATCATGTTCTTTAGCGGCGTTTGTAATAAAAGCACCACTAAAAGTCATGTTCTTTA
GCGGCATTTTGATAAAAGTG
Found at i:20671696 original size:41 final size:41
Alignment explanation
Indices: 20671636--20671828 Score: 198
Period size: 41 Copynumber: 4.7 Consensus size: 41
20671626 ACCGGACTGT
* * *
20671636 AAACAAGGGCACATTTGTGCAATTCTAGGGTACCAAAGTAC
1 AAACAAGGGCACGTATGTGCAATTCTAGGGTACCGAAGTAC
* **
20671677 AAGCAAGGGCACGTATGTGCAATTC-ATGGGTATTGAAGTAC
1 AAACAAGGGCACGTATGTGCAATTCTA-GGGTACCGAAGTAC
*
20671718 AAACAAGGGCACGTATGTGTAATT-TAGGAGTACCGAAGTAC
1 AAACAAGGGCACGTATGTGCAATTCTAGG-GTACCGAAGTAC
* * *
20671759 AAAC-AGGGCCATGTATGTACAATTC-AGAGGTACTGAAGTAC
1 AAACAAGGG-CACGTATGTGCAATTCTAG-GGTACCGAAGTAC
* * *
20671800 AAACAGGGGCAAGTATGTGTAATT-TAGGG
1 AAACAAGGGCACGTATGTGCAATTCTAGGG
20671829 GGAGGGGTAT
Statistics
Matches: 126, Mismatches: 18, Indels: 17
0.78 0.11 0.11
Matches are distributed among these distances:
40 9 0.07
41 113 0.90
42 4 0.03
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (41 bp):
AAACAAGGGCACGTATGTGCAATTCTAGGGTACCGAAGTAC
Found at i:20671775 original size:82 final size:81
Alignment explanation
Indices: 20671636--20671828 Score: 246
Period size: 82 Copynumber: 2.4 Consensus size: 81
20671626 ACCGGACTGT
* * * * *
20671636 AAACAAGGGCACATTTGTGCAATTCTAGGGTACCAAAGTACAAGCAAGGGCACGTATGTGCAATT
1 AAACAAGGGCACGTATGTGTAATT-TAGGGTACCAAAGTACAAACAAGGGCACGTATGTACAATT
*
20671701 CATG-GGTATTGAAGTAC
65 CA-GAGGTACTGAAGTAC
* *
20671718 AAACAAGGGCACGTATGTGTAATTTAGGAGTACCGAAGTACAAAC-AGGGCCATGTATGTACAAT
1 AAACAAGGGCACGTATGTGTAATTTAGG-GTACCAAAGTACAAACAAGGG-CACGTATGTACAAT
20671782 TCAGAGGTACTGAAGTAC
64 TCAGAGGTACTGAAGTAC
* *
20671800 AAACAGGGGCAAGTATGTGTAATTTAGGG
1 AAACAAGGGCACGTATGTGTAATTTAGGG
20671829 GGAGGGGTAT
Statistics
Matches: 98, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
81 10 0.10
82 88 0.90
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (81 bp):
AAACAAGGGCACGTATGTGTAATTTAGGGTACCAAAGTACAAACAAGGGCACGTATGTACAATTC
AGAGGTACTGAAGTAC
Found at i:20676825 original size:41 final size:41
Alignment explanation
Indices: 20676778--20676946 Score: 221
Period size: 41 Copynumber: 4.1 Consensus size: 41
20676768 ATCGAGCTGT
* *
20676778 AAACAGGGGCACATATGTGTAATTCAGGGGTACTAAAGTAC
1 AAACAGGGGCACGTATGTGCAATTCAGGGGTACTAAAGTAC
* * *
20676819 AGACAGGGGCACGTATGTGCAATTCAGGGGTACAAAAGTAA
1 AAACAGGGGCACGTATGTGCAATTCAGGGGTACTAAAGTAC
* * *
20676860 AAATAGGGGCACGTATCTGCAATTCAGGGGTACTGAAGTAC
1 AAACAGGGGCACGTATGTGCAATTCAGGGGTACTAAAGTAC
* * * * *
20676901 AAACGGGGGCATGCATGTGCAATTCAGGGGTACCAAAGTGC
1 AAACAGGGGCACGTATGTGCAATTCAGGGGTACTAAAGTAC
20676942 AAACA
1 AAACA
20676947 AGGAATAATC
Statistics
Matches: 108, Mismatches: 20, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 108 1.00
ACGTcount: A:0.35, C:0.17, G:0.30, T:0.19
Consensus pattern (41 bp):
AAACAGGGGCACGTATGTGCAATTCAGGGGTACTAAAGTAC
Found at i:20676848 original size:21 final size:21
Alignment explanation
Indices: 20676822--20676889 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 21
20676812 AAAGTACAGA
20676822 CAGGGGCACGTATGTGCAATT
1 CAGGGGCACGTATGTGCAATT
* ** * ** *
20676843 CAGGGGTACAAAAGTAAAAAT
1 CAGGGGCACGTATGTGCAATT
*
20676864 -AGGGGCACGTATCTGCAATT
1 CAGGGGCACGTATGTGCAATT
20676884 CAGGGG
1 CAGGGG
20676890 TACTGAAGTA
Statistics
Matches: 31, Mismatches: 15, Indels: 2
0.65 0.31 0.04
Matches are distributed among these distances:
20 12 0.39
21 19 0.61
ACGTcount: A:0.32, C:0.16, G:0.32, T:0.19
Consensus pattern (21 bp):
CAGGGGCACGTATGTGCAATT
Found at i:20684247 original size:26 final size:26
Alignment explanation
Indices: 20684217--20684271 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
20684207 AAAAGAGTGC
*
20684217 TAATTTAATCTTAAAGGTCCCATGTT
1 TAATTTAATCCTAAAGGTCCCATGTT
20684243 TAATTTAATCCTAAAGGTCCCATGTT
1 TAATTTAATCCTAAAGGTCCCATGTT
20684269 TAA
1 TAA
20684272 AACCCCCACA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (26 bp):
TAATTTAATCCTAAAGGTCCCATGTT
Found at i:20685105 original size:21 final size:22
Alignment explanation
Indices: 20685081--20685121 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
20685071 ACTTGTTCTT
20685081 AATAATAAATAAT-ATTTATTA
1 AATAATAAATAATAATTTATTA
*
20685102 AATAGTAAATAATAATTTAT
1 AATAATAAATAATAATTTAT
20685122 ATTATAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (22 bp):
AATAATAAATAATAATTTATTA
Found at i:20693735 original size:18 final size:19
Alignment explanation
Indices: 20693712--20693747 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
20693702 TCACATGTGA
20693712 AAGTGAAAAA-TGATTTTT
1 AAGTGAAAAAGTGATTTTT
20693730 AAGTGAAAAAGTGATTTT
1 AAGTGAAAAAGTGATTTT
20693748 GGTTATATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.36
Consensus pattern (19 bp):
AAGTGAAAAAGTGATTTTT
Found at i:20699538 original size:16 final size:17
Alignment explanation
Indices: 20699499--20699540 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
20699489 GTGAAATTGA
*
20699499 GTGAAATATATGGATAT
1 GTGAAATATATGGAAAT
20699516 GTGAAATATAT-GAAAT
1 GTGAAATATATGGAAAT
*
20699532 TTGAAATAT
1 GTGAAATAT
20699541 GTTTATGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.45, C:0.00, G:0.19, T:0.36
Consensus pattern (17 bp):
GTGAAATATATGGAAAT
Found at i:20715063 original size:25 final size:26
Alignment explanation
Indices: 20715041--20715105 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
20715031 TATGTGGCAT
*
20715041 GTTATTTGGGAAGCCTTAATGGCGAA
1 GTTATTTGGAAAGCCTTAATGGCGAA
* **
20715067 GTTCTTTGGAAAGCCTTTGTGGC-AA
1 GTTATTTGGAAAGCCTTAATGGCGAA
* *
20715092 ATCATTTGGAAAGC
1 GTTATTTGGAAAGC
20715106 TTGTATTACG
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
25 13 0.41
26 19 0.59
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.32
Consensus pattern (26 bp):
GTTATTTGGAAAGCCTTAATGGCGAA
Found at i:20716124 original size:33 final size:33
Alignment explanation
Indices: 20716077--20716143 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
20716067 TTGGTAAACT
*
20716077 AGATCAGGTATAGGGTGTTATAGAAAATGTGAA
1 AGATCAGGTATAGGGTGTTACAGAAAATGTGAA
*
20716110 AGATTAGGTATAGGGTGTTACAGAAAATGTGAA
1 AGATCAGGTATAGGGTGTTACAGAAAATGTGAA
20716143 A
1 A
20716144 TTTTAAACTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.40, C:0.03, G:0.30, T:0.27
Consensus pattern (33 bp):
AGATCAGGTATAGGGTGTTACAGAAAATGTGAA
Found at i:20723303 original size:873 final size:873
Alignment explanation
Indices: 20721618--20723364 Score: 3494
Period size: 873 Copynumber: 2.0 Consensus size: 873
20721608 AAGCTAAAGC
20721618 CTACTCAATAGTAAAGGAGTTTTTGCTCCCATTGGCTGTTCCATTGTTGTTGTTTCGAGCAGATT
1 CTACTCAATAGTAAAGGAGTTTTTGCTCCCATTGGCTGTTCCATTGTTGTTGTTTCGAGCAGATT
20721683 TGCGACGTGTGATTAAGTCAACAGGGAAGCTTCTTCTTGCTTTCTTGCTGGGATCAGGTAATTCT
66 TGCGACGTGTGATTAAGTCAACAGGGAAGCTTCTTCTTGCTTTCTTGCTGGGATCAGGTAATTCT
20721748 GCTCCCTCCAGTCTTGATGGCCATTTCAATTTATCGGTTGGTTTGACTTGTTTTCAGGGTCATGA
131 GCTCCCTCCAGTCTTGATGGCCATTTCAATTTATCGGTTGGTTTGACTTGTTTTCAGGGTCATGA
20721813 TTTTGGGTTAGCAGGTTTCTCTGCAATTCTTTGCAGTCAAACCCTGATATTAGGAATTGTAACTC
196 TTTTGGGTTAGCAGGTTTCTCTGCAATTCTTTGCAGTCAAACCCTGATATTAGGAATTGTAACTC
20721878 TTACTTTAATTTGATCAATTTTAGTCTTGACCAAAATGGTAATAGTTAAATCTGTTGATTAAATT
261 TTACTTTAATTTGATCAATTTTAGTCTTGACCAAAATGGTAATAGTTAAATCTGTTGATTAAATT
20721943 TTGCTATTAGTACTATATTATGCCTAAAGTTATAGATTTTGTCCATCTACTCTAATTGGATCATT
326 TTGCTATTAGTACTATATTATGCCTAAAGTTATAGATTTTGTCCATCTACTCTAATTGGATCATT
20722008 CTTACTTGTTATTTTTTTTAAATTTCGAAATTTCAGTCCTAATGCAAATGATAGTTGTTAAATCC
391 CTTACTTGTTATTTTTTTTAAATTTCGAAATTTCAGTCCTAATGCAAATGATAGTTGTTAAATCC
20722073 ATTAAGTGATTCTTTTCTGAGTAATACGTGTAAATAATAAGCTGACATGGCATTACACATGCAAT
456 ATTAAGTGATTCTTTTCTGAGTAATACGTGTAAATAATAAGCTGACATGGCATTACACATGCAAT
20722138 AATATGTTTGATATATTAAATTTTAAAAATAGCTGAACTTAATGAATTTAATAGTTACCATTTGA
521 AATATGTTTGATATATTAAATTTTAAAAATAGCTGAACTTAATGAATTTAATAGTTACCATTTGA
20722203 TTAGAACTAAAATTTTCAAATTCTAAAAGTATAGGGACCAAAAATGACCAAATTAAAGTACATAT
586 TTAGAACTAAAATTTTCAAATTCTAAAAGTATAGGGACCAAAAATGACCAAATTAAAGTACATAT
20722268 ACTAAATCCACAACTTATGCAAAGTACAAAGTCTGATAGCAGAATTTCATCATTCTTTGCTAGCG
651 ACTAAATCCACAACTTATGCAAAGTACAAAGTCTGATAGCAGAATTTCATCATTCTTTGCTAGCG
20722333 ATTTAACCCCCTTATTTTTGGCAAACAGTGGCGACAACAGTTGGAACAGCACTGGCGTATCTGAT
716 ATTTAACCCCCTTATTTTTGGCAAACAGTGGCGACAACAGTTGGAACAGCACTGGCGTATCTGAT
20722398 AGTACCGATGAGAGCACTTGGTCAAGATAGTTGGAAGATAGCTGCTGCCCTAATGGGTAGGCATA
781 AGTACCGATGAGAGCACTTGGTCAAGATAGTTGGAAGATAGCTGCTGCCCTAATGGGTAGGCATA
20722463 TTGGCGGAGGTAATTTATTCATTTACTT
846 TTGGCGGAGGTAATTTATTCATTTACTT
20722491 CTACTCAATAGTAAAGGAGTTTTTGCTCCCATTGGCTGTTCCATTGTTGTTGTTTCGAGCAGATT
1 CTACTCAATAGTAAAGGAGTTTTTGCTCCCATTGGCTGTTCCATTGTTGTTGTTTCGAGCAGATT
20722556 TGCGACGTGTGATTAAGTCAACAGGGAAGCTTCTTCTTGCTTTCTTGCTGGGATCAGGTAATTCT
66 TGCGACGTGTGATTAAGTCAACAGGGAAGCTTCTTCTTGCTTTCTTGCTGGGATCAGGTAATTCT
20722621 GCTCCCTCCAGTCTTGATGGCCATTTCAATTTATCGGTTGGTTTGACTTGTTTTCAGGGTCATGA
131 GCTCCCTCCAGTCTTGATGGCCATTTCAATTTATCGGTTGGTTTGACTTGTTTTCAGGGTCATGA
20722686 TTTTGGGTTAGCAGGTTTCTCTGCAATTCTTTGCAGTCAAACCCTGATATTAGGAATTGTAACTC
196 TTTTGGGTTAGCAGGTTTCTCTGCAATTCTTTGCAGTCAAACCCTGATATTAGGAATTGTAACTC
20722751 TTACTTTAATTTGATCAATTTTAGTCTTGACCAAAATGGTAATAGTTAAATCTGTTGATTAAATT
261 TTACTTTAATTTGATCAATTTTAGTCTTGACCAAAATGGTAATAGTTAAATCTGTTGATTAAATT
20722816 TTGCTATTAGTACTATATTATGCCTAAAGTTATAGATTTTGTCCATCTACTCTAATTGGATCATT
326 TTGCTATTAGTACTATATTATGCCTAAAGTTATAGATTTTGTCCATCTACTCTAATTGGATCATT
20722881 CTTACTTGTTATTTTTTTTAAATTTCGAAATTTCAGTCCTAATGCAAATGATAGTTGTTAAATCC
391 CTTACTTGTTATTTTTTTTAAATTTCGAAATTTCAGTCCTAATGCAAATGATAGTTGTTAAATCC
20722946 ATTAAGTGATTCTTTTCTGAGTAATACGTGTAAATAATAAGCTGACATGGCATTACACATGCAAT
456 ATTAAGTGATTCTTTTCTGAGTAATACGTGTAAATAATAAGCTGACATGGCATTACACATGCAAT
20723011 AATATGTTTGATATATTAAATTTTAAAAATAGCTGAACTTAATGAATTTAATAGTTACCATTTGA
521 AATATGTTTGATATATTAAATTTTAAAAATAGCTGAACTTAATGAATTTAATAGTTACCATTTGA
20723076 TTAGAACTAAAATTTTCAAATTCTAAAAGTATAGGGACCAAAAATGACCAAATTAAAGTACATAT
586 TTAGAACTAAAATTTTCAAATTCTAAAAGTATAGGGACCAAAAATGACCAAATTAAAGTACATAT
20723141 ACTAAATCCACAACTTATGCAAAGTACAAAGTCTGATAGCAGAATTTCATCATTCTTTGCTAGCG
651 ACTAAATCCACAACTTATGCAAAGTACAAAGTCTGATAGCAGAATTTCATCATTCTTTGCTAGCG
20723206 ATTTAACCCCCTTATTTTTGGCAAACAGTGGCGACAACAGTTGGAACAGCACTGGCGTATCTGAT
716 ATTTAACCCCCTTATTTTTGGCAAACAGTGGCGACAACAGTTGGAACAGCACTGGCGTATCTGAT
20723271 AGTACCGATGAGAGCACTTGGTCAAGATAGTTGGAAGATAGCTGCTGCCCTAATGGGTAGGCATA
781 AGTACCGATGAGAGCACTTGGTCAAGATAGTTGGAAGATAGCTGCTGCCCTAATGGGTAGGCATA
20723336 TTGGCGGAGGTAATTTATTCATTTACTT
846 TTGGCGGAGGTAATTTATTCATTTACTT
20723364 C
1 C
20723365 CTACAAGCCT
Statistics
Matches: 874, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
873 874 1.00
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.37
Consensus pattern (873 bp):
CTACTCAATAGTAAAGGAGTTTTTGCTCCCATTGGCTGTTCCATTGTTGTTGTTTCGAGCAGATT
TGCGACGTGTGATTAAGTCAACAGGGAAGCTTCTTCTTGCTTTCTTGCTGGGATCAGGTAATTCT
GCTCCCTCCAGTCTTGATGGCCATTTCAATTTATCGGTTGGTTTGACTTGTTTTCAGGGTCATGA
TTTTGGGTTAGCAGGTTTCTCTGCAATTCTTTGCAGTCAAACCCTGATATTAGGAATTGTAACTC
TTACTTTAATTTGATCAATTTTAGTCTTGACCAAAATGGTAATAGTTAAATCTGTTGATTAAATT
TTGCTATTAGTACTATATTATGCCTAAAGTTATAGATTTTGTCCATCTACTCTAATTGGATCATT
CTTACTTGTTATTTTTTTTAAATTTCGAAATTTCAGTCCTAATGCAAATGATAGTTGTTAAATCC
ATTAAGTGATTCTTTTCTGAGTAATACGTGTAAATAATAAGCTGACATGGCATTACACATGCAAT
AATATGTTTGATATATTAAATTTTAAAAATAGCTGAACTTAATGAATTTAATAGTTACCATTTGA
TTAGAACTAAAATTTTCAAATTCTAAAAGTATAGGGACCAAAAATGACCAAATTAAAGTACATAT
ACTAAATCCACAACTTATGCAAAGTACAAAGTCTGATAGCAGAATTTCATCATTCTTTGCTAGCG
ATTTAACCCCCTTATTTTTGGCAAACAGTGGCGACAACAGTTGGAACAGCACTGGCGTATCTGAT
AGTACCGATGAGAGCACTTGGTCAAGATAGTTGGAAGATAGCTGCTGCCCTAATGGGTAGGCATA
TTGGCGGAGGTAATTTATTCATTTACTT
Found at i:20743085 original size:4 final size:4
Alignment explanation
Indices: 20743076--20743107 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
20743066 AAGTTTTATT
20743076 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
20743108 CTTAGTTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:20743154 original size:26 final size:26
Alignment explanation
Indices: 20743125--20743176 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
20743115 TAAATTTTTA
20743125 TGTCAATATTCAGTCCAAGGGATGTG
1 TGTCAATATTCAGTCCAAGGGATGTG
*
20743151 TGTCAATATTCAGTCCAAGTGATGTG
1 TGTCAATATTCAGTCCAAGGGATGTG
20743177 ACCTCGGTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (26 bp):
TGTCAATATTCAGTCCAAGGGATGTG
Found at i:20748420 original size:93 final size:93
Alignment explanation
Indices: 20748313--20748672 Score: 693
Period size: 93 Copynumber: 3.9 Consensus size: 93
20748303 GCCCATAAGT
* * *
20748313 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
20748378 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
20748406 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
20748471 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
20748499 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
20748564 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
20748592 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
20748657 CGAGTTCGGATGCCTA
66 CGAGTTCGGATGCCTA
20748673 ACCATCCTAG
Statistics
Matches: 264, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 264 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:20748427 original size:47 final size:47
Alignment explanation
Indices: 20748359--20748620 Score: 310
Period size: 47 Copynumber: 5.6 Consensus size: 47
20748349 ATCCATAAGT
20748359 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
* * * *
20748406 GAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--TTCA-C
20748452 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
* * * *
20748499 GAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--TTCA-C
20748545 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
20748592 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
20748621 CATTCGCATC
Statistics
Matches: 181, Mismatches: 16, Indels: 36
0.78 0.07 0.15
Matches are distributed among these distances:
42 4 0.02
43 8 0.04
44 2 0.01
45 4 0.02
46 58 0.32
47 87 0.48
48 4 0.02
49 2 0.01
50 8 0.04
51 4 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:20748666 original size:46 final size:46
Alignment explanation
Indices: 20748305--20748666 Score: 370
Period size: 46 Copynumber: 7.8 Consensus size: 46
20748295 TGTAACCCGC
* * *
20748305 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
20748351 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * *
20748401 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
20748444 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * *
20748494 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
20748537 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * *
20748587 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
20748630 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
20748667 TGCCTAACCA
Statistics
Matches: 262, Mismatches: 27, Indels: 54
0.76 0.08 0.16
Matches are distributed among these distances:
42 6 0.02
43 12 0.05
44 3 0.01
45 6 0.02
46 122 0.47
47 87 0.33
48 6 0.02
49 3 0.01
50 11 0.04
51 6 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:20749123 original size:30 final size:30
Alignment explanation
Indices: 20749089--20749148 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
20749079 ATTTAATACG
20749089 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * * *
20749119 AACTTTTGCATAATTACACTTTTGGCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
20749149 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:20756130 original size:46 final size:46
Alignment explanation
Indices: 20756063--20756236 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 46
20756053 TGTAACCCGC
* *
20756063 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
20756109 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * * *
20756159 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
20756202 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
20756237 AATGCTCAAC
Statistics
Matches: 107, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 2 0.02
46 61 0.57
47 28 0.26
48 3 0.03
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:20756182 original size:93 final size:93
Alignment explanation
Indices: 20756071--20756241 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
20756061 GCCCATAAGT
* * *
20756071 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
20756136 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGAATGCCTAGTTACATTTCAC
*
20756164 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
20756229 CGAGTTCGAATGC
66 CGAGTTCGAATGC
20756242 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGAATGCCTAGTTACATTTCAC
Found at i:20756695 original size:30 final size:30
Alignment explanation
Indices: 20756661--20756720 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
20756651 ATTTAATACG
20756661 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
20756691 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
20756721 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:20762901 original size:47 final size:47
Alignment explanation
Indices: 20762847--20763040 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
20762837 TTAGGATGTT
** * *
20762847 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
20762894 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
20762941 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
20762988 ATATGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
20763035 ATGTGA
1 ATGTGA
20763041 AATATGTATG
Statistics
Matches: 131, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 131 1.00
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:20762947 original size:22 final size:22
Alignment explanation
Indices: 20762876--20762947 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
20762866 GTATATATGA
20762876 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
20762898 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
20762923 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
20762945 GAT
1 GAT
20762948 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:20763068 original size:48 final size:48
Alignment explanation
Indices: 20763011--20763146 Score: 211
Period size: 50 Copynumber: 2.8 Consensus size: 48
20763001 GAACATGCAT
20763011 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGC
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGC
* *
20763059 ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATGT
1 ATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATGC
*
20763109 ATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
20763147 GGCGATGTGC
Statistics
Matches: 80, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
47 1 0.01
48 33 0.41
49 4 0.05
50 41 0.51
51 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.30
Consensus pattern (48 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:20763161 original size:50 final size:50
Alignment explanation
Indices: 20763005--20763167 Score: 201
Period size: 50 Copynumber: 3.3 Consensus size: 50
20762995 GAATATGAAC
*
20763005 ATGCATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
1 ATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
*
20763055 ATGC--ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGAT
1 ATGCGTATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGAT
* * *
20763105 AT--GTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGCGAT
1 ATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
*
20763153 GTGCGTATATTGTGG
1 ATGCGTATA-TGTGG
20763168 CCGAACGACC
Statistics
Matches: 98, Mismatches: 6, Indels: 17
0.81 0.05 0.14
Matches are distributed among these distances:
47 1 0.01
48 38 0.39
49 4 0.04
50 49 0.50
51 6 0.06
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (50 bp):
ATGCGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
Found at i:20763343 original size:37 final size:35
Alignment explanation
Indices: 20763293--20763396 Score: 122
Period size: 37 Copynumber: 2.9 Consensus size: 35
20763283 GGAAATATAT
*
20763293 TCCGGGTAAGACCCGATGACTGCGTGTGGAGGTTATG
1 TCCGGGTAAGACCCGAT-ACT-CGTGTGGAGATTATG
*
20763330 TCCGGGTAAGACCCGATA--CGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATACTCGTGTGGAGATTATG
**
20763363 TCCGGGTAAGACTTGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGAT-AC-TCGTGTGGAGATT
20763397 TCGTCTGAGC
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
33 28 0.47
34 1 0.02
36 1 0.02
37 29 0.49
ACGTcount: A:0.21, C:0.17, G:0.34, T:0.28
Consensus pattern (35 bp):
TCCGGGTAAGACCCGATACTCGTGTGGAGATTATG
Found at i:20763365 original size:33 final size:35
Alignment explanation
Indices: 20763293--20763374 Score: 114
Period size: 33 Copynumber: 2.3 Consensus size: 35
20763283 GGAAATATAT
*
20763293 TCCGGGTAAGACCCGATGACTGCGTGTGGAGGTTATG
1 TCCGGGTAAGACCCGATGAC--CGTGTGGAGATTATG
*
20763330 TCCGGGTAAGACCCGAT-A-CGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACCGTGTGGAGATTATG
20763363 TCCGGGTAAGAC
1 TCCGGGTAAGAC
20763375 TTGATAACTT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
33 25 0.58
36 1 0.02
37 17 0.40
ACGTcount: A:0.21, C:0.20, G:0.35, T:0.24
Consensus pattern (35 bp):
TCCGGGTAAGACCCGATGACCGTGTGGAGATTATG
Found at i:20770346 original size:20 final size:21
Alignment explanation
Indices: 20770321--20770359 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
20770311 TGGGCCCGTA
*
20770321 AGCCTATTG-GGCCCAATTTT
1 AGCCTATCGAGGCCCAATTTT
20770341 AGCCTATCGAGGCCCAATT
1 AGCCTATCGAGGCCCAATT
20770360 ACCAAAGTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (21 bp):
AGCCTATCGAGGCCCAATTTT
Found at i:20772634 original size:28 final size:27
Alignment explanation
Indices: 20772573--20772634 Score: 97
Period size: 28 Copynumber: 2.3 Consensus size: 27
20772563 ATTTACTAAA
* *
20772573 ATACCCCTAAGTATGACAATTACCATT
1 ATACCCCTAAGTATGAAAATGACCATT
20772600 ATACCCCTAAGTATGCAAAATGACCATT
1 ATACCCCTAAGTATG-AAAATGACCATT
20772628 ATACCCC
1 ATACCCC
20772635 CAGGGTTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 15 0.47
28 17 0.53
ACGTcount: A:0.37, C:0.29, G:0.08, T:0.26
Consensus pattern (27 bp):
ATACCCCTAAGTATGAAAATGACCATT
Found at i:20772811 original size:27 final size:26
Alignment explanation
Indices: 20772740--20772852 Score: 127
Period size: 27 Copynumber: 4.2 Consensus size: 26
20772730 TGGAGGAAGC
20772740 GTTCTGGTGGCTATGCCACAATTATCT
1 GTTCTGGTGGCTATGCCACAA-TATCT
*
20772767 GTTTCTGGTGGCTATGCCACAGATATTT
1 G-TTCTGGTGGCTATGCCACA-ATATCT
* *
20772795 GTTCTAGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * * *
20772821 ATATCTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
20772848 GTTCT
1 GTTCT
20772853 AGCAGCCATG
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 9 0.12
27 40 0.54
28 24 0.32
29 1 0.01
ACGTcount: A:0.19, C:0.22, G:0.20, T:0.38
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:20775442 original size:22 final size:24
Alignment explanation
Indices: 20775390--20775446 Score: 73
Period size: 22 Copynumber: 2.4 Consensus size: 24
20775380 TTTGAAAGTC
20775390 CGCACACATAGTGCTCTTACTTATT
1 CGCACACATAGTGCTC-TACTTATT
*
20775415 CGCACACATAGTGC-C-ACTTTTT
1 CGCACACATAGTGCTCTACTTATT
*
20775437 CTCACACATA
1 CGCACACATA
20775447 TAGTGCCATT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
22 15 0.50
24 1 0.03
25 14 0.47
ACGTcount: A:0.26, C:0.32, G:0.11, T:0.32
Consensus pattern (24 bp):
CGCACACATAGTGCTCTACTTATT
Found at i:20786719 original size:40 final size:40
Alignment explanation
Indices: 20786675--20786859 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
20786665 GCTACTCGTT
* *
20786675 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* * * *
20786715 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* * *
20786755 CCAATGCCTTCGGG-CTTAGCCC-GAAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTAGCA
* * *
20786794 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TAGCA
*
20786835 CAAA-GCCTTCAGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
20786860 CATCATTCGA
Statistics
Matches: 121, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
38 4 0.03
39 28 0.23
40 75 0.62
41 14 0.12
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
Found at i:20786820 original size:79 final size:80
Alignment explanation
Indices: 20786652--20786806 Score: 201
Period size: 79 Copynumber: 2.0 Consensus size: 80
20786642 CCTTCGAAAT
* * **
20786652 TTAA-CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTAGCA
1 TTAACCCGGATTTAG-TAACTCGTACAAATGCCTTCGGGACATAGCCCGAATATAGTAACTAGCA
20786715 CAAATGCCTTCGGGAC
65 CAAATGCCTTCGGGAC
* * *
20786731 TTAACCCGGATTTAGTAACTCGTACCAATGCCTTCGGG-CTTAGCCCGAA-ATTAGTAACTCGCA
1 TTAACCCGGATTTAGTAACTCGTACAAATGCCTTCGGGACATAGCCCGAATA-TAGTAACTAGCA
20786794 CAAATGCCTTCGG
65 CAAATGCCTTCGG
20786807 ATCTTAGTCC
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
78 1 0.02
79 37 0.56
80 28 0.42
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (80 bp):
TTAACCCGGATTTAGTAACTCGTACAAATGCCTTCGGGACATAGCCCGAATATAGTAACTAGCAC
AAATGCCTTCGGGAC
Found at i:20786843 original size:79 final size:79
Alignment explanation
Indices: 20786703--20786857 Score: 181
Period size: 79 Copynumber: 1.9 Consensus size: 79
20786693 AGCCCGGTTA
* *
20786703 TAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGTACCAATGCCTTC-G
1 TAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTC-TACCAAAGCCTTCAG
*
20786767 GGCTTAGCCCGAAAT
65 GACTTAGCCCGAAAT
* ** * *
20786782 TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACT-TAGCACAAAGCCTTC
1 TAGTAACTAGCACAAATGCCTTCGGGA-CTTAACCCGGATATAGTAACTCTA-C-CAAAGCCTTC
20786845 AGGACTTAGCCCG
63 AGGACTTAGCCCG
20786858 GACATCATTC
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
77 2 0.03
78 4 0.06
79 47 0.73
80 11 0.17
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (79 bp):
TAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTCTACCAAAGCCTTCAGG
ACTTAGCCCGAAAT
Found at i:20792571 original size:79 final size:79
Alignment explanation
Indices: 20792427--20792597 Score: 213
Period size: 79 Copynumber: 2.2 Consensus size: 79
20792417 GAATCACGTA
* * *
20792427 CCTTCGGAATTTAACCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAGT
1 CCTTCGGAACTTAACCGGATATAGCTACTCGTACAAATGCCTTCGGGACATAGCCCGGATATAGT
*
20792492 AACTCGTTCAAATG
66 AACTCGTACAAATG
* * * *
20792506 CCTTCGGGACTTAACCCGGATTTAG-TAACTCGTACCAATGCCTTCGGG-CTTAGCCCGGA-ATT
1 CCTTCGGAACTTAA-CCGGATATAGCT-ACTCGTACAAATGCCTTCGGGACATAGCCCGGATA-T
20792568 AGTAACTCGTACAAATG
63 AGTAACTCGTACAAATG
*
20792585 CCTTCGGATCTTA
1 CCTTCGGAACTTA
20792598 GTCCAGATAT
Statistics
Matches: 79, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
78 1 0.01
79 50 0.63
80 28 0.35
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (79 bp):
CCTTCGGAACTTAACCGGATATAGCTACTCGTACAAATGCCTTCGGGACATAGCCCGGATATAGT
AACTCGTACAAATG
Found at i:20792574 original size:39 final size:40
Alignment explanation
Indices: 20792453--20792644 Score: 203
Period size: 40 Copynumber: 4.8 Consensus size: 40
20792443 GGATATAGCT
* *
20792453 ACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTATAGTA
1 ACTCGTACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* *
20792493 ACTCGTTCAAATGCCTTCGGGACTTAACCCGGATTTAGTA
1 ACTCGTACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
20792533 ACTCGTACCAATGCCTTCGGG-CTTAGCCCGGAATTAGTA
1 ACTCGTACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * * * *
20792572 ACTCGTACAAATGCCTTC-GGATCTTAGTCCAGATATGGTC
1 ACTCGTACAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTA
* * *
20792612 ACTTAGCACAAA-GCCTTCGGTACTTAGCCCGGA
1 AC-TCGTACAAATGCCTTCGGGACTTAGCCCGGA
20792645 CATCATTCGA
Statistics
Matches: 129, Mismatches: 18, Indels: 10
0.82 0.11 0.06
Matches are distributed among these distances:
38 2 0.02
39 33 0.26
40 83 0.64
41 11 0.09
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
ACTCGTACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:20802458 original size:28 final size:28
Alignment explanation
Indices: 20802395--20803301 Score: 1719
Period size: 28 Copynumber: 32.4 Consensus size: 28
20802385 ATATTAAGTC
* *
20802395 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
20802422 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
20802450 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
20802478 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
20802506 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
20802534 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
20802562 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
20802590 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
20802618 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
20802646 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
20802674 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
20802702 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
20802730 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
20802758 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
20802786 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
20802814 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
20802842 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
20802870 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
20802898 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
20802926 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
20802954 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
20802982 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
20803010 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
20803038 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
20803066 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
20803094 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
20803122 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
20803150 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
20803178 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
20803206 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
20803234 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
20803262 CGCACACTTAGTGCTGTACA-ATTTAAACT
1 CGCACACTTAGTGC--TACATAATCAAACT
20803291 CGCACACTTAG
1 CGCACACTTAG
20803302 CGCCAATCTC
Statistics
Matches: 870, Mismatches: 7, Indels: 4
0.99 0.01 0.00
Matches are distributed among these distances:
27 22 0.03
28 827 0.95
29 17 0.02
30 4 0.00
ACGTcount: A:0.35, C:0.28, G:0.11, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:20813015 original size:77 final size:78
Alignment explanation
Indices: 20812896--20813050 Score: 303
Period size: 77 Copynumber: 2.0 Consensus size: 78
20812886 GATCCCTTTT
20812896 TTTCCCTTTCATCATTCTTTTTTTTTCCATTTCTTTATTACTAACTTTTTATTTTGTTATTCATC
1 TTTCCCTTTCATCATTCTTTTTTTTTCCATTTCTTTATTACTAACTTTTTATTTTGTTATTCATC
20812961 CCATGATGCACCA
66 CCATGATGCACCA
20812974 TTTCCCTTTCATCATTC-TTTTTTTTCCATTTCTTTATTACTAACTTTTTATTTTGTTATTCATC
1 TTTCCCTTTCATCATTCTTTTTTTTTCCATTTCTTTATTACTAACTTTTTATTTTGTTATTCATC
20813038 CCATGATGCACCA
66 CCATGATGCACCA
20813051 ACAAAACATG
Statistics
Matches: 77, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
77 60 0.78
78 17 0.22
ACGTcount: A:0.18, C:0.23, G:0.04, T:0.55
Consensus pattern (78 bp):
TTTCCCTTTCATCATTCTTTTTTTTTCCATTTCTTTATTACTAACTTTTTATTTTGTTATTCATC
CCATGATGCACCA
Found at i:20815029 original size:20 final size:21
Alignment explanation
Indices: 20815004--20815042 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
20814994 TAATTTCTTC
*
20815004 TTTTATTCCTATT-TTTATTT
1 TTTTATTCATATTATTTATTT
20815024 TTTTATTCATATTATTTAT
1 TTTTATTCATATTATTTAT
20815043 GATATTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTTATTCATATTATTTATTT
Found at i:20820994 original size:42 final size:42
Alignment explanation
Indices: 20820943--20821057 Score: 124
Period size: 44 Copynumber: 2.7 Consensus size: 42
20820933 CAGATGCCTC
* * * * *
20820943 TGTCTCAGACAGGGTCTTACACGAAATC-AGATACGATGCCGG
1 TGTCCCAGACACGGTCTTACACGAAATCTAAAT-CAAGGCCGG
* *
20820985 TGTCCCAGACATGGTCTTACACGTAAATCTTAAATCAAGGCCTG
1 TGTCCCAGACACGGTCTTACACG-AAATC-TAAATCAAGGCCGG
*
20821029 TGTCCCAGACACGGTCTTACACGATATCT
1 TGTCCCAGACACGGTCTTACACGAAATCT
20821058 CAGATCTATG
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
42 22 0.35
43 9 0.15
44 28 0.45
45 3 0.05
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (42 bp):
TGTCCCAGACACGGTCTTACACGAAATCTAAATCAAGGCCGG
Found at i:20822125 original size:162 final size:162
Alignment explanation
Indices: 20821858--20822833 Score: 1952
Period size: 162 Copynumber: 6.0 Consensus size: 162
20821848 TTTTTGGCTA
20821858 TCATGCATGATAAAATGGCTTCCATTCATTTTATTTTATTAATCATAACATTAAAAATAAGTTTA
1 TCATGCATGATAAAATGGCTTCCATTCATTTTATTTTATTAATCATAACATTAAAAATAAGTTTA
20821923 CCATTTTACCCTTAATGAATTAACATAAAATTTTACCTAACACATGTCCTTTTATGACAAAATGC
66 CCATTTTACCCTTAATGAATTAACATAAAATTTTACCTAACACATGTCCTTTTATGACAAAATGC
20821988 ACTATCAATGGTCAAATTGACATGCAAGTGCT
131 ACTATCAATGGTCAAATTGACATGCAAGTGCT
20822020 TCATGCATGATAAAATGGCTTCCATTCATTTTATTTTATTAATCATAACATTAAAAATAAGTTTA
1 TCATGCATGATAAAATGGCTTCCATTCATTTTATTTTATTAATCATAACATTAAAAATAAGTTTA
20822085 CCATTTTACCCTTAATGAATTAACATAAAATTTTACCTAACACATGTCCTTTTATGACAAAATGC
66 CCATTTTACCCTTAATGAATTAACATAAAATTTTACCTAACACATGTCCTTTTATGACAAAATGC
20822150 ACTATCAATGGTCAAATTGACATGCAAGTGCT
131 ACTATCAATGGTCAAATTGACATGCAAGTGCT
20822182 TCATGCATGATAAAATGGCTTCCATTCATTTTATTTTATTAATCATAACATTAAAAATAAGTTTA
1 TCATGCATGATAAAATGGCTTCCATTCATTTTATTTTATTAATCATAACATTAAAAATAAGTTTA
20822247 CCATTTTACCCTTAATGAATTAACATAAAATTTTACCTAACACATGTCCTTTTATGACAAAATGC
66 CCATTTTACCCTTAATGAATTAACATAAAATTTTACCTAACACATGTCCTTTTATGACAAAATGC
20822312 ACTATCAATGGTCAAATTGACATGCAAGTGCT
131 ACTATCAATGGTCAAATTGACATGCAAGTGCT
20822344 TCATGCATGATAAAATGGCTTCCATTCATTTTATTTTATTAATCATAACATTAAAAATAAGTTTA
1 TCATGCATGATAAAATGGCTTCCATTCATTTTATTTTATTAATCATAACATTAAAAATAAGTTTA
20822409 CCATTTTACCCTTAATGAATTAACATAAAATTTTACCTAACACATGTCCTTTTATGACAAAATGC
66 CCATTTTACCCTTAATGAATTAACATAAAATTTTACCTAACACATGTCCTTTTATGACAAAATGC
20822474 ACTATCAATGGTCAAATTGACATGCAAGTGCT
131 ACTATCAATGGTCAAATTGACATGCAAGTGCT
20822506 TCATGCATGATAAAATGGCTTCCATTCATTTTATTTTATTAATCATAACATTAAAAATAAGTTTA
1 TCATGCATGATAAAATGGCTTCCATTCATTTTATTTTATTAATCATAACATTAAAAATAAGTTTA
20822571 CCATTTTACCCTTAATGAATTAACATAAAATTTTACCTAACACATGTCCTTTTATGACAAAATGC
66 CCATTTTACCCTTAATGAATTAACATAAAATTTTACCTAACACATGTCCTTTTATGACAAAATGC
20822636 ACTATCAATGGTCAAATTGACATGCAAGTGCT
131 ACTATCAATGGTCAAATTGACATGCAAGTGCT
20822668 TCATGCATGATAAAATGGCTTCCATTCATTTTATTTTATTAATCATAACATTAAAAATAAGTTTA
1 TCATGCATGATAAAATGGCTTCCATTCATTTTATTTTATTAATCATAACATTAAAAATAAGTTTA
20822733 CCATTTTACCCTTAATGAATTAACATAAAATTTTACCTAACACATGTCCTTTTATGACAAAATGC
66 CCATTTTACCCTTAATGAATTAACATAAAATTTTACCTAACACATGTCCTTTTATGACAAAATGC
20822798 ACTATCAATGGTCAAATTGACATGCAAGTGCT
131 ACTATCAATGGTCAAATTGACATGCAAGTGCT
20822830 TCAT
1 TCAT
20822834 ACTTTCTTTT
Statistics
Matches: 814, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
162 814 1.00
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.36
Consensus pattern (162 bp):
TCATGCATGATAAAATGGCTTCCATTCATTTTATTTTATTAATCATAACATTAAAAATAAGTTTA
CCATTTTACCCTTAATGAATTAACATAAAATTTTACCTAACACATGTCCTTTTATGACAAAATGC
ACTATCAATGGTCAAATTGACATGCAAGTGCT
Found at i:20824431 original size:29 final size:29
Alignment explanation
Indices: 20824367--20824477 Score: 113
Period size: 29 Copynumber: 3.9 Consensus size: 29
20824357 TACATACATG
20824367 CATATGGCCCACTT-GGCCC--ATC-TCATT
1 CATATGGCCCA-TTAGGCCCAAATCAT-ATT
* *
20824394 CATATGGCCCATCAGGCCCAATTCATATT
1 CATATGGCCCATTAGGCCCAAATCATATT
* **
20824423 CATATGGCCTATTAGGCCCAAATCACCTT
1 CATATGGCCCATTAGGCCCAAATCATATT
* *
20824452 TATATGGCCCGTTAGGCCCAAATCAT
1 CATATGGCCCATTAGGCCCAAATCAT
20824478 GTTATATTCA
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
26 1 0.01
27 16 0.23
29 51 0.74
30 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.28
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAAATCATATT
Found at i:20826178 original size:27 final size:27
Alignment explanation
Indices: 20826140--20826203 Score: 128
Period size: 27 Copynumber: 2.4 Consensus size: 27
20826130 TTGTATTGTA
20826140 TTAGATCGAGAACAAAGAAAATCAGAC
1 TTAGATCGAGAACAAAGAAAATCAGAC
20826167 TTAGATCGAGAACAAAGAAAATCAGAC
1 TTAGATCGAGAACAAAGAAAATCAGAC
20826194 TTAGATCGAG
1 TTAGATCGAG
20826204 GAAAGTATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.48, C:0.14, G:0.20, T:0.17
Consensus pattern (27 bp):
TTAGATCGAGAACAAAGAAAATCAGAC
Found at i:20826533 original size:42 final size:43
Alignment explanation
Indices: 20826433--20826550 Score: 116
Period size: 43 Copynumber: 2.8 Consensus size: 43
20826423 CTGAGACATT
* * *
20826433 GTGTAAGACCGTGTCTGGGACATAGGCCTCGATTGAGATTTAT
1 GTGTAAGACCATGTCTGGGACATAGGCATCGATTGAGATTTAC
* *
20826476 GTATAAGACCATGTCTGGGACATCGGCATCGTATCT-A-ATTT-C
1 GTGTAAGACCATGTCTGGGACATAGGCATCG-AT-TGAGATTTAC
* * * *
20826518 GTGTAAGACCCTGTCTGAGATAGAGGCATCGAT
1 GTGTAAGACCATGTCTGGGACATAGGCATCGAT
20826551 ATTATACTAC
Statistics
Matches: 62, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
41 2 0.03
42 25 0.40
43 31 0.50
44 3 0.05
45 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACATAGGCATCGATTGAGATTTAC
Found at i:20837441 original size:13 final size:14
Alignment explanation
Indices: 20837413--20837446 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
20837403 TAATATTTCA
*
20837413 ATTATTTTTATGTT
1 ATTATATTTATGTT
20837427 ATTATATTT-TGTT
1 ATTATATTTATGTT
20837440 ATTATAT
1 ATTATAT
20837447 GAGATGTGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (14 bp):
ATTATATTTATGTT
Found at i:20837670 original size:50 final size:50
Alignment explanation
Indices: 20837595--20837922 Score: 299
Period size: 50 Copynumber: 6.5 Consensus size: 50
20837585 GTGAGTCACG
20837595 TGTGTAGTACTAAGTGCT-GGCTACTACGTGTACCAGATTGATAGGTTGCA
1 TGTGTAGTACTAAGTG-TAGGCTACTACGTGTACCAGATTGATAGGTTGCA
* * * ** *
20837645 TGTGTAGTACTAAGTGTAGGCTACTATGTGTACCCG-TTAACTTCGAT-CA
1 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGA-TAGGTTGCA
* * * * * ** **
20837694 TGTGTGTAGTACTAAGTGTAGGCTAATACATGTATCAGATGGTTAAATCACA
1 --TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGATAGGTTGCA
* * * *
20837746 TGTGTCGTACTAAGTGCAGGCTACTACATGTACCAGATTGATAGGTCGCA
1 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGATAGGTTGCA
* * **
20837796 TGTGTAGTACTAAGTGTAGGCTACTATGTGTACCCG-TT-A-ACCTTGATCA
1 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGATAGGTTG--CA
* * * *
20837845 TGTGTGTAGTACTAAGTGTAGGCTACTACTTATACCATATTGATAGGTTGTA
1 --TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGATAGGTTGCA
20837897 TGTGTAGTACTAAGTGTAGGCTACTA
1 TGTGTAGTACTAAGTGTAGGCTACTA
20837923 TGCATACCAG
Statistics
Matches: 221, Mismatches: 44, Indels: 26
0.76 0.15 0.09
Matches are distributed among these distances:
47 3 0.01
48 1 0.00
49 10 0.05
50 133 0.60
51 63 0.29
52 6 0.03
53 1 0.00
54 4 0.02
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.34
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGATAGGTTGCA
Found at i:20837778 original size:101 final size:101
Alignment explanation
Indices: 20837594--20837779 Score: 239
Period size: 101 Copynumber: 1.8 Consensus size: 101
20837584 TGTGAGTCAC
* * * ** **
20837594 GTGTGTAGTACTAAGTGCTGGCTACTACGTGTACCAGATTGATAGGTTGCATGTGTAGTACTAAG
1 GTGTGTAGTACTAAGTGCTGGCTAATACATGTACCAGATGGATAAATCACATGTGTAGTACTAAG
* **
20837659 TGTAGGCTACTATGTGTACCCGTTAACTTCGATCAT
66 TGCAGGCTACTACATGTACCCGTTAACTTCGATCAT
* * *
20837695 GTGTGTAGTACTAAGTG-TAGGCTAATACATGTATCAGATGGTTAAATCACATGTGTCGTACTAA
1 GTGTGTAGTACTAAGTGCT-GGCTAATACATGTACCAGATGGATAAATCACATGTGTAGTACTAA
20837759 GTGCAGGCTACTACATGTACC
65 GTGCAGGCTACTACATGTACC
20837780 AGATTGATAG
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
100 1 0.01
101 70 0.99
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (101 bp):
GTGTGTAGTACTAAGTGCTGGCTAATACATGTACCAGATGGATAAATCACATGTGTAGTACTAAG
TGCAGGCTACTACATGTACCCGTTAACTTCGATCAT
Found at i:20837869 original size:151 final size:151
Alignment explanation
Indices: 20837590--20837869 Score: 499
Period size: 151 Copynumber: 1.9 Consensus size: 151
20837580 TCGTTGTGAG
* * * *
20837590 TCACGTGTGTAGTACTAAGTGCTGGCTACTACGTGTACCAGATTGATAGGTTGCATGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGATAGGTCGCATGTGTAGTAC
20837655 TAAGTGTAGGCTACTATGTGTACCCGTTAACTTCGATCATGTGTGTAGTACTAAGTGTAGGCTAA
66 TAAGTGTAGGCTACTATGTGTACCCGTTAACTTCGATCATGTGTGTAGTACTAAGTGTAGGCTAA
20837720 TACATGTATCAGATGGTTAAA
131 TACATGTATCAGATGGTTAAA
*
20837741 TCACATGTGTCGTACTAAGTGCAGGCTACTACATGTACCAGATTGATAGGTCGCATGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGATAGGTCGCATGTGTAGTAC
20837806 TAAGTGTAGGCTACTATGTGTACCCGTTAACCTT-GATCATGTGTGTAGTACTAAGTGTAGGCTA
66 TAAGTGTAGGCTACTATGTGTACCCGTTAA-CTTCGATCATGTGTGTAGTACTAAGTGTAGGCTA
20837870 CTACTTATAC
Statistics
Matches: 123, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
151 120 0.98
152 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (151 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGATAGGTCGCATGTGTAGTAC
TAAGTGTAGGCTACTATGTGTACCCGTTAACTTCGATCATGTGTGTAGTACTAAGTGTAGGCTAA
TACATGTATCAGATGGTTAAA
Found at i:20837900 original size:151 final size:151
Alignment explanation
Indices: 20837590--20837922 Score: 488
Period size: 151 Copynumber: 2.2 Consensus size: 151
20837580 TCGTTGTGAG
* * * *
20837590 TCACGTGTGTAGTACTAAGTGCTGGCTACTACGTGTACCAGATTGATAGGTTGCATGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGATAGGTCGCATGTGTAGTAC
20837655 TAAGTGTAGGCTACTATGTGTACCCGTTAACTTCGATCATGTGTGTAGTACTAAGTGTAGGCTAA
66 TAAGTGTAGGCTACTATGTGTACCCGTTAACTTCGATCATGTGTGTAGTACTAAGTGTAGGCTAA
* * *
20837720 TACATGTATCAGATGGTTAAA
131 TACATATACCAGATGGATAAA
*
20837741 TCACATGTGTCGTACTAAGTGCAGGCTACTACATGTACCAGATTGATAGGTCGCATGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGATAGGTCGCATGTGTAGTAC
20837806 TAAGTGTAGGCTACTATGTGTACCCGTTAACCTT-GATCATGTGTGTAGTACTAAGTGTAGGCTA
66 TAAGTGTAGGCTACTATGTGTACCCGTTAA-CTTCGATCATGTGTGTAGTACTAAGTGTAGGCTA
* * * * **
20837870 CTACTTATACCATATTGATAGG
130 ATACATATACCAGATGGATAAA
*** *
20837892 TTGTATGTGTAGTACTAAGTGTAGGCTACTA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTA
20837923 TGCATACCAG
Statistics
Matches: 162, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
151 159 0.98
152 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.33
Consensus pattern (151 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGATAGGTCGCATGTGTAGTAC
TAAGTGTAGGCTACTATGTGTACCCGTTAACTTCGATCATGTGTGTAGTACTAAGTGTAGGCTAA
TACATATACCAGATGGATAAA
Found at i:20838154 original size:16 final size:16
Alignment explanation
Indices: 20838133--20838164 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
20838123 AGAATGGAGT
20838133 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
20838149 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
20838165 TAAAACAATT
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:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:20841439 original size:15 final size:15
Alignment explanation
Indices: 20841419--20841457 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
20841409 TATGATATTG
20841419 TATCTTGGATTTC-C
1 TATCTTGGATTTCTC
*
20841433 TTATCTTTGATTTCTC
1 -TATCTTGGATTTCTC
20841449 TATCTTGGA
1 TATCTTGGA
20841458 GATCTTGGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 20 0.95
16 1 0.05
ACGTcount: A:0.15, C:0.18, G:0.13, T:0.54
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:20847926 original size:28 final size:28
Alignment explanation
Indices: 20847829--20847942 Score: 119
Period size: 27 Copynumber: 4.2 Consensus size: 28
20847819 AGCATGGCTG
* * *
20847829 CCAG-AACAGATA-TTGTGACAGAGTCA
1 CCAGAAACAGATATTTGTGGCATAGCCA
* * *
20847855 CCAGATACAGATA-TTGTGGTAGAGCCA
1 CCAGAAACAGATATTTGTGGCATAGCCA
*
20847882 CCAG-AACAGATATTTGTGGCGTAGCCA
1 CCAGAAACAGATATTTGTGGCATAGCCA
* *
20847909 TCAGAAACAGATGTTTGTGGCATAGCCA
1 CCAGAAACAGATATTTGTGGCATAGCCA
20847937 CCAGAA
1 CCAGAA
20847943 CGCTTCCTCC
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
26 11 0.15
27 36 0.49
28 26 0.36
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.21
Consensus pattern (28 bp):
CCAGAAACAGATATTTGTGGCATAGCCA
Found at i:20847939 original size:55 final size:53
Alignment explanation
Indices: 20847829--20847943 Score: 133
Period size: 54 Copynumber: 2.1 Consensus size: 53
20847819 AGCATGGCTG
* * *
20847829 CCAGAACAGATATTGTGACAGAGTCACCAGATACAGATATTGTGGTAGAGCCA
1 CCAGAACAGATATTGTGACAGAGCCACCAGAAACAGATATTGTGGCAGAGCCA
* * * *
20847882 CCAGAACAGATATTTGTGGC-GTAGCCATCAGAAACAGATGTTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGACAG-AGCCACCAGAAACAGAT-ATTGTGGCAGAGCCA
20847937 CCAGAAC
1 CCAGAAC
20847944 GCTTCCTCCA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
53 13 0.25
54 20 0.38
55 19 0.37
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (53 bp):
CCAGAACAGATATTGTGACAGAGCCACCAGAAACAGATATTGTGGCAGAGCCA
Found at i:20852421 original size:46 final size:46
Alignment explanation
Indices: 20852371--20852539 Score: 193
Period size: 46 Copynumber: 3.7 Consensus size: 46
20852361 TGAGCATCCA
20852371 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* * * * *
20852417 AACTCGTTGAGTTGGGTCCGAGTTC-GTGA--AATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCG
* *
20852464 AACTCGTTGAGCTGAGTCCGAGTTCACTTATGGATGCGAATGGCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
*
20852510 AGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTA
20852540 GGGGCGGGTT
Statistics
Matches: 100, Mismatches: 14, Indels: 18
0.76 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 55 0.55
47 27 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
Found at i:20852523 original size:93 final size:93
Alignment explanation
Indices: 20852364--20852534 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
20852354 GGATGGTTGA
* *
20852364 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGCTGAGTCCGAGTTCACTTATGGATGCGAATGGCCGAACTCGTTGAGT
*
20852429 TGGGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
20852457 GCATCCGAACTCGTTGAGCTGAGTCCGAGTTCACTTATGGATGCGAATGGCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGCTGAGTCCGAGTTCACTTATGGATGCGAATGGCCGAACTCGTTGAGT
20852522 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
20852535 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGCTGAGTCCGAGTTCACTTATGGATGCGAATGGCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:20857950 original size:46 final size:46
Alignment explanation
Indices: 20857900--20858072 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
20857890 TGGTTGAGCA
20857900 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
20857946 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
20857991 CATCCGAACTCGTTGATTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
20858039 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
20858073 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 60 0.57
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:20858056 original size:93 final size:93
Alignment explanation
Indices: 20857897--20858067 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
20857887 GGATGGTTGA
*
20857897 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
20857962 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
20857990 GCATCCGAACTCGTTGATTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
20858055 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
20858068 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:20859453 original size:31 final size:31
Alignment explanation
Indices: 20859415--20859477 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
20859405 TGGCTTTTGG
20859415 ATCTTTAGGGGGAGCTAAGGTTCAAGTCACA
1 ATCTTTAGGGGGAGCTAAGGTTCAAGTCACA
20859446 ATCTTTAGGGGGAGCTAAGGTTCAAGTCACA
1 ATCTTTAGGGGGAGCTAAGGTTCAAGTCACA
20859477 A
1 A
20859478 GGTATTATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (31 bp):
ATCTTTAGGGGGAGCTAAGGTTCAAGTCACA
Found at i:20860873 original size:27 final size:26
Alignment explanation
Indices: 20860842--20860903 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
20860832 ATTTACTAAA
20860842 ATACCCCTAAGTATGAAAATTACCATT
1 ATACCCCTAAGTAT-AAAATTACCATT
* * * * *
20860869 TTACCCTTAGGTGTAAACTTACCATT
1 ATACCCCTAAGTATAAAATTACCATT
20860895 ATACCCCTA
1 ATACCCCTA
20860904 GGGTTAATTT
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
26 18 0.64
27 10 0.36
ACGTcount: A:0.34, C:0.26, G:0.08, T:0.32
Consensus pattern (26 bp):
ATACCCCTAAGTATAAAATTACCATT
Found at i:20861080 original size:27 final size:26
Alignment explanation
Indices: 20861008--20861121 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 26
20860998 AGAGGAAGCA
*
20861008 TTCTGGTGGCTATGCCACAAATATCTAT
1 TTCTGGTGGCTATGCCAC-AATATCT-G
*
20861036 TTCTGGTAGCTATGCCACAAATATCTG
1 TTCTGGTGGCTATGCCAC-AATATCTG
* *
20861063 TTCTGGTGGCTCTACCACAATATCTG
1 TTCTGGTGGCTATGCCACAATATCTG
* * *
20861089 TATCTGGTGACTCTGTCACAATATCTG
1 T-TCTGGTGGCTATGCCACAATATCTG
20861116 TTCTGG
1 TTCTGG
20861122 CAGCCATGCT
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
26 14 0.18
27 38 0.49
28 25 0.32
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (26 bp):
TTCTGGTGGCTATGCCACAATATCTG
Found at i:20861109 original size:54 final size:54
Alignment explanation
Indices: 20861008--20861121 Score: 142
Period size: 54 Copynumber: 2.1 Consensus size: 54
20860998 AGAGGAAGCA
* *
20861008 TTCTGGTGGCTATGCCACAAATATCTATTTCTGGTAGCTATGCCACAAATATCTG
1 TTCTGGTGGCTATACCACAAATATCTATATCTGGTAGCTATGCCAC-AATATCTG
* * * *
20861063 TTCTGGTGGCTCTACCAC-AATATCTGTATCTGGT-GACTCTGTCACAATATCTG
1 TTCTGGTGGCTATACCACAAATATCTATATCTGGTAG-CTATGCCACAATATCTG
20861116 TTCTGG
1 TTCTGG
20861122 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
53 15 0.29
54 21 0.40
55 16 0.31
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (54 bp):
TTCTGGTGGCTATACCACAAATATCTATATCTGGTAGCTATGCCACAATATCTG
Found at i:20862940 original size:4 final size:4
Alignment explanation
Indices: 20862931--20862955 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
20862921 TTACTATCAA
20862931 TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG T
20862956 GTTTTTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:20863982 original size:17 final size:16
Alignment explanation
Indices: 20863956--20863996 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
20863946 AATAATGTTT
20863956 AAATAGAAATAAAAGTAA
1 AAATA-AAATAAAAGT-A
*
20863974 AAATAAAATAATAGTA
1 AAATAAAATAAAAGTA
20863990 AAATAAA
1 AAATAAA
20863997 CGGACTCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.36
17 9 0.41
18 5 0.23
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (16 bp):
AAATAAAATAAAAGTA
Found at i:20865398 original size:15 final size:15
Alignment explanation
Indices: 20865378--20865411 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
20865368 ACAGAGAACT
*
20865378 ATAATAGTAATAATA
1 ATAATAGAAATAATA
*
20865393 ATAATAGAAATAATC
1 ATAATAGAAATAATA
20865408 ATAA
1 ATAA
20865412 AAATGCTAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (15 bp):
ATAATAGAAATAATA
Found at i:20866058 original size:13 final size:13
Alignment explanation
Indices: 20866040--20866064 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20866030 GGTGCACATG
20866040 GTCGTGTCGCACC
1 GTCGTGTCGCACC
20866053 GTCGTGTCGCAC
1 GTCGTGTCGCAC
20866065 GCCCGTGTGC
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:0.08, C:0.36, G:0.32, T:0.24
Consensus pattern (13 bp):
GTCGTGTCGCACC
Found at i:20868866 original size:16 final size:16
Alignment explanation
Indices: 20868845--20868878 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
20868835 TGTGTAGCAC
20868845 TCCAAAAATCCCGAAA
1 TCCAAAAATCCCGAAA
* *
20868861 TCCAAAAGTCTCGAAA
1 TCCAAAAATCCCGAAA
20868877 TC
1 TC
20868879 TTGAATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.29, G:0.09, T:0.18
Consensus pattern (16 bp):
TCCAAAAATCCCGAAA
Found at i:20870392 original size:29 final size:29
Alignment explanation
Indices: 20870342--20870456 Score: 124
Period size: 29 Copynumber: 4.0 Consensus size: 29
20870332 GCATGACTAT
*
20870342 AATATGATTTGGGCCTAATGGGCCATATG
1 AATATGAATTGGGCCTAATGGGCCATATG
* * * *
20870371 AATGTGAATTGGGCCTAGTGGGCCTTAAG
1 AATATGAATTGGGCCTAATGGGCCATATG
* * *
20870400 AATATGAACTGGGCCAAATGGGCCATTTG
1 AATATGAATTGGGCCTAATGGGCCATATG
* * *
20870429 AATAAG-ATTGGGCCTAGTGGACCATATG
1 AATATGAATTGGGCCTAATGGGCCATATG
20870457 CATGTATGTA
Statistics
Matches: 68, Mismatches: 18, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
28 17 0.25
29 51 0.75
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.27
Consensus pattern (29 bp):
AATATGAATTGGGCCTAATGGGCCATATG
Found at i:20875930 original size:40 final size:40
Alignment explanation
Indices: 20875886--20876153 Score: 455
Period size: 40 Copynumber: 6.7 Consensus size: 40
20875876 GCAAACACAT
* * *
20875886 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
20875926 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
20875966 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCGTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
20876006 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
20876046 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAG
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
20876086 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
20876126 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
20876154 TCCAATGCTC
Statistics
Matches: 215, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 215 1.00
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:20884339 original size:48 final size:48
Alignment explanation
Indices: 20884263--20884447 Score: 271
Period size: 48 Copynumber: 3.9 Consensus size: 48
20884253 ATTTGGGTGA
20884263 TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACAATGT
1 TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACAATGT
* * **
20884311 TATGAGAGCCTGTGTAGGACCACATTTGGAACATGGCATCGACAATGT
1 TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACAATGT
* * * *
20884359 TATGAGAGCCACTTTAAGACCATGTTTGGAACATGACATCAACAATGT
1 TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACAATGT
* * *
20884407 TATGAGAGCCAGAGTAAGACCATGTCTGGGACATGGCATCG
1 TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCG
20884448 GCATCAAGAC
Statistics
Matches: 118, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 118 1.00
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.24
Consensus pattern (48 bp):
TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACAATGT
Found at i:20884462 original size:48 final size:48
Alignment explanation
Indices: 20884410--20884542 Score: 133
Period size: 48 Copynumber: 2.8 Consensus size: 48
20884400 ACAATGTTAT
*
20884410 GAGAGCCAGAGTAAGACCATGTCTGGGACATGGCATCGGCATCAAGAC
1 GAGAGCCAGAGTAAGACCATGTCTGGGACATGGCATCGGCATCAACAC
* * * * * * *
20884458 GAGAGCTA-ATGTAAGGCCATGTCTGGGACATGGTATTGGCCTCGACAT
1 GAGAGCCAGA-GTAAGACCATGTCTGGGACATGGCATCGGCATCAACAC
* * * * *
20884506 GTGAGCCAGTGTAAGACAATGTATGGTACATGGCATC
1 GAGAGCCAGAGTAAGACCATGTCTGGGACATGGCATC
20884543 AGCAATTTAC
Statistics
Matches: 66, Mismatches: 17, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
47 1 0.02
48 65 0.98
ACGTcount: A:0.29, C:0.20, G:0.31, T:0.21
Consensus pattern (48 bp):
GAGAGCCAGAGTAAGACCATGTCTGGGACATGGCATCGGCATCAACAC
Found at i:20884478 original size:96 final size:95
Alignment explanation
Indices: 20884266--20884489 Score: 245
Period size: 96 Copynumber: 2.3 Consensus size: 95
20884256 TGGGTGATAT
* * * * * *
20884266 GAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACAATGTTATGAGAGCCTGTGTAGGAC
1 GAGAGCCAATGTAAGACCATGTTTGGAACATGACATCAACAATGTTATGAGAGCCAGAGTAAGAC
* *
20884331 CACATTTGGAACATGGCATCGACAATGTTAT
66 CACATCTGGAACATGGCATCGACAATG-TAC
* *
20884362 GAGAGCCACTTTAAGACCATGTTTGGAACATGACATCAACAATGTTATGAGAGCCAGAGTAAGAC
1 GAGAGCCAATGTAAGACCATGTTTGGAACATGACATCAACAATGTTATGAGAGCCAGAGTAAGAC
** *
20884427 CATGTCTGGGACATGGCATCGGCATCAA-G-AC
66 CACATCTGGAACATGGCATC-G-A-CAATGTAC
* * * *
20884458 GAGAGCTAATGTAAGGCCATGTCTGGGACATG
1 GAGAGCCAATGTAAGACCATGTTTGGAACATG
20884490 GTATTGGCCT
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
96 101 0.94
97 1 0.01
98 2 0.02
99 3 0.03
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (95 bp):
GAGAGCCAATGTAAGACCATGTTTGGAACATGACATCAACAATGTTATGAGAGCCAGAGTAAGAC
CACATCTGGAACATGGCATCGACAATGTAC
Found at i:20885460 original size:7 final size:7
Alignment explanation
Indices: 20885450--20885497 Score: 69
Period size: 7 Copynumber: 6.6 Consensus size: 7
20885440 ACACGGGTGG
20885450 AGGGTTT
1 AGGGTTT
20885457 AGGGTTT
1 AGGGTTT
20885464 AGGGTTTT
1 AGGG-TTT
20885472 AGGGTTT
1 AGGGTTT
*
20885479 AAGGTTT
1 AGGGTTT
20885486 AGGGTTTT
1 AGGG-TTT
20885494 AGGG
1 AGGG
20885498 GTGCCTCAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
7 23 0.62
8 14 0.38
ACGTcount: A:0.17, C:0.00, G:0.42, T:0.42
Consensus pattern (7 bp):
AGGGTTT
Found at i:20885474 original size:15 final size:14
Alignment explanation
Indices: 20885450--20885497 Score: 69
Period size: 15 Copynumber: 3.3 Consensus size: 14
20885440 ACACGGGTGG
20885450 AGGGTTTAGGGTTT
1 AGGGTTTAGGGTTT
20885464 AGGGTTTTAGGGTTT
1 AGGG-TTTAGGGTTT
*
20885479 AAGGTTTAGGGTTTT
1 AGGGTTTAGGG-TTT
20885494 AGGG
1 AGGG
20885498 GTGCCTCAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
14 11 0.37
15 19 0.63
ACGTcount: A:0.17, C:0.00, G:0.42, T:0.42
Consensus pattern (14 bp):
AGGGTTTAGGGTTT
Found at i:20885475 original size:22 final size:22
Alignment explanation
Indices: 20885450--20885497 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
20885440 ACACGGGTGG
*
20885450 AGGGTTTAGGGTTTAGGGTTTT
1 AGGGTTTAAGGTTTAGGGTTTT
20885472 AGGGTTTAAGGTTTAGGGTTTT
1 AGGGTTTAAGGTTTAGGGTTTT
20885494 AGGG
1 AGGG
20885498 GTGCCTCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.17, C:0.00, G:0.42, T:0.42
Consensus pattern (22 bp):
AGGGTTTAAGGTTTAGGGTTTT
Found at i:20889573 original size:28 final size:28
Alignment explanation
Indices: 20889500--20889575 Score: 98
Period size: 28 Copynumber: 2.7 Consensus size: 28
20889490 AATGGAGTAA
* *
20889500 GTCTATCGAGATAGTAAACATGAGGTAG
1 GTCTATCGGGATAGTAAACACGAGGTAG
* *
20889528 GTCTATCAGGACAGTAAACACGAGGTAG
1 GTCTATCGGGATAGTAAACACGAGGTAG
* *
20889556 GTCTATCGGGGTACTAAACA
1 GTCTATCGGGATAGTAAACA
20889576 GGGGCAAGTT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (28 bp):
GTCTATCGGGATAGTAAACACGAGGTAG
Found at i:20893445 original size:24 final size:24
Alignment explanation
Indices: 20893413--20893460 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
20893403 TCCAAGGTTG
20893413 AAGTATAAAAACTCACCTGACACT
1 AAGTATAAAAACTCACCTGACACT
20893437 AAGTATAAAAACTCACCTGACACT
1 AAGTATAAAAACTCACCTGACACT
20893461 TCTTTGTGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.25, G:0.08, T:0.21
Consensus pattern (24 bp):
AAGTATAAAAACTCACCTGACACT
Found at i:20894648 original size:20 final size:20
Alignment explanation
Indices: 20894623--20894662 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
20894613 GAAATAAGAA
20894623 AGAAAGGCATGCAAATGTAG
1 AGAAAGGCATGCAAATGTAG
20894643 AGAAAGGCATGCAAATGTAG
1 AGAAAGGCATGCAAATGTAG
20894663 TGTGTCGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.10, G:0.30, T:0.15
Consensus pattern (20 bp):
AGAAAGGCATGCAAATGTAG
Found at i:20895106 original size:54 final size:53
Alignment explanation
Indices: 20895048--20895193 Score: 177
Period size: 55 Copynumber: 2.7 Consensus size: 53
20895038 CAAGAAGAGT
* *
20895048 ATATAGTGTAAGACCTAGTTTGGGACTATGGCATCATATAGGAA-AGTGAAGACC
1 ATATAGTGTAAGACCTAGTTTGGGACTATGGCATCATACAGGAATA--GAAAACC
* * * *
20895102 ATATAGTGTAAGACCTAGTCATGGTGGCTATGACATCATACAGGGATAGAAAACC
1 ATATAGTGTAAGACCTAGT-TTGG-GACTATGGCATCATACAGGAATAGAAAACC
* *
20895157 ACATAGTGTAAGACCTAGTTTGGGACTATTGCATCAT
1 ATATAGTGTAAGACCTAGTTTGGGACTATGGCATCAT
20895194 GTGGGGAAAA
Statistics
Matches: 78, Mismatches: 11, Indels: 7
0.81 0.11 0.07
Matches are distributed among these distances:
53 11 0.14
54 22 0.28
55 27 0.35
56 17 0.22
57 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (53 bp):
ATATAGTGTAAGACCTAGTTTGGGACTATGGCATCATACAGGAATAGAAAACC
Found at i:20897392 original size:50 final size:52
Alignment explanation
Indices: 20897283--20897403 Score: 165
Period size: 50 Copynumber: 2.4 Consensus size: 52
20897273 ATGAACAAAT
* * * * *
20897283 GAGTTACTTAATGCATGACTTAATTTAATGATGCTAACTTTAACTAACATGG
1 GAGTTACATAATGCATGACATAATTTAACGATGCAAACTTTAACTAACATGA
* *
20897335 GAATTACATAATGCATGTCATAATTT-ACGATGCAAAC-TTAACTAACATGA
1 GAGTTACATAATGCATGACATAATTTAACGATGCAAACTTTAACTAACATGA
20897385 GAGTTACATAATGCATGAC
1 GAGTTACATAATGCATGAC
20897404 TTTATTAAAT
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
50 29 0.48
51 9 0.15
52 22 0.37
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (52 bp):
GAGTTACATAATGCATGACATAATTTAACGATGCAAACTTTAACTAACATGA
Found at i:20913830 original size:31 final size:31
Alignment explanation
Indices: 20913795--20913905 Score: 132
Period size: 31 Copynumber: 3.5 Consensus size: 31
20913785 TATCAGAACT
* ** *
20913795 AGAATTAGAATCAGAATCAGAATTTGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
* *
20913826 AGAATCAGAATCAGAATTAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
* *
20913857 AGAATCAAAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
20913888 AGAATCAAAAATCAGAAT
1 AGAATC-AGAATCAGAAT
20913906 GTGAATGTAA
Statistics
Matches: 71, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
31 60 0.85
32 11 0.15
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.22
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:20913834 original size:6 final size:6
Alignment explanation
Indices: 20913786--20913905 Score: 59
Period size: 6 Copynumber: 19.3 Consensus size: 6
20913776 AAGAAACATT
* ** *
20913786 ATCAGA A-CTAGA ATTAGA ATCAGA ATCAGA ATTTG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * *
20913835 ATCAGA ATTAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
*
20913886 A-CAGA ATCAAAA ATCAGA AT
1 ATCAGA ATC-AGA ATCAGA AT
20913906 GTGAATGTAA
Statistics
Matches: 84, Mismatches: 18, Indels: 24
0.67 0.14 0.19
Matches are distributed among these distances:
5 6 0.07
6 63 0.75
7 12 0.14
8 3 0.04
ACGTcount: A:0.47, C:0.13, G:0.17, T:0.22
Consensus pattern (6 bp):
ATCAGA
Found at i:20914084 original size:27 final size:26
Alignment explanation
Indices: 20914042--20914143 Score: 105
Period size: 27 Copynumber: 3.8 Consensus size: 26
20914032 GCTCAGGTAT
* *
20914042 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
*
20914069 CAGATATTGTGGCAGAGCCACTAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
* * *
20914095 CAGATATTTATGGCATAGCCATCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
20914123 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
20914144 TTAACAGAAT
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
26 7 0.11
27 47 0.76
28 8 0.13
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.21
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:20914336 original size:22 final size:22
Alignment explanation
Indices: 20914302--20914365 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
20914292 GCAAATACGT
*
20914302 TTAGCACACAGCCATAATCAGG
1 TTAGCACAAAGCCATAATCAGG
* * *
20914324 TTGGCACAGAGCCAT-ATGTAGG
1 TTAGCACAAAGCCATAAT-CAGG
*
20914346 TTAACACAAAGCCATAATCA
1 TTAGCACAAAGCCATAATCA
20914366 AAAGGCTTTA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
21 2 0.06
22 29 0.88
23 2 0.06
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (22 bp):
TTAGCACAAAGCCATAATCAGG
Found at i:20914820 original size:26 final size:27
Alignment explanation
Indices: 20914791--20914985 Score: 248
Period size: 27 Copynumber: 7.3 Consensus size: 27
20914781 GGGGCAAAAT
* * * *
20914791 GGTAATTTTACCCCAC-GAGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
20914817 GGTAATTCCACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
20914844 AGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
20914871 GGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
20914898 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
20914925 GGTAATTCTACTCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
20914952 GATATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
20914979 GATAATT
1 GGTAATT
20914986 TTGTAAATTG
Statistics
Matches: 146, Mismatches: 22, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
26 13 0.09
27 133 0.91
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:20914999 original size:27 final size:27
Alignment explanation
Indices: 20914969--20915369 Score: 221
Period size: 27 Copynumber: 14.9 Consensus size: 27
20914959 CTACCCTACA
** *
20914969 AGGGTATTTCGATAATTTTGTAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
*** * * * *
20914996 AGGGTAAAACGGTAATTCTATAAATCA
1 AGGGTATTTCGATAATTTTACAAATCG
* *
20915023 AGGGTACTTT-GGTAATTTTACAAGTCG
1 AGGGTA-TTTCGATAATTTTACAAATCG
* *
20915050 AGGGTATTTCAATAATTTTACAAGTCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
20915077 AGGGTATTTCAATAATTTTACAAATC-
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
20915103 AGGGGTATTTTGGTAATTTTACAAA-CT
1 A-GGGTATTTCGATAATTTTACAAATCG
* *
20915130 ATGGGTATTTTGATAATTTTACAAA-CC
1 A-GGGTATTTCGATAATTTTACAAATCG
* * *
20915157 AGGGGT-TTTTGGTAATTTTACAAA-CC
1 A-GGGTATTTCGATAATTTTACAAATCG
* * * *
20915183 AGGGTATTTTGGTAATTTTACAAACCA
1 AGGGTATTTCGATAATTTTACAAATCG
* * * *
20915210 AGGGTATTTTGGTAATTTTATAAA-CAA
1 AGGGTATTTCGATAATTTTACAAATC-G
* *
20915237 AGGGTATTT-TAGTAATTTTACAAA-CT
1 AGGGTATTTCGA-TAATTTTACAAATCG
* * ** * *
20915263 AGGGGTATTTTGGTAATTTTGTAAACCA
1 A-GGGTATTTCGATAATTTTACAAATCG
* * *
20915291 AGGGTATTTTGGTAATTTTACAAA-CC
1 AGGGTATTTCGATAATTTTACAAATCG
* * * *
20915317 AGGGGTATTTTGGTAATTTTGCTAATCG
1 A-GGGTATTTCGATAATTTTACAAATCG
*
20915345 AGGGTATTT-TAGTAATTTTACAAAT
1 AGGGTATTTCGA-TAATTTTACAAAT
20915370 TAGGGGTATT
Statistics
Matches: 313, Mismatches: 47, Indels: 28
0.81 0.12 0.07
Matches are distributed among these distances:
25 4 0.01
26 47 0.15
27 258 0.82
28 4 0.01
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAAATCG
Found at i:20915009 original size:81 final size:80
Alignment explanation
Indices: 20914845--20915015 Score: 184
Period size: 81 Copynumber: 2.1 Consensus size: 80
20914835 GGGTATTTTA
* * *
20914845 GTAATTTTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTGCGATAATTCTACC
1 GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAAGGGTATTGCGATAATTCTA-C
* ***
20914910 CTACAGGGGTATTTCG
65 CTAAAGGGGTAAAACG
* * * **
20914926 GTAATTCTACTCTACAGGGGTATTTCGATATTTCTACCCTACAAGGGTATTTCGATAATT-T-TG
1 GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAAGGGTATTGCGATAATTCTACC
20914989 TAAATTGAGGGTAAAACG
66 TAAA--G-GGGTAAAACG
20915007 GTAATTCTA
1 GTAATTCTA
20915016 TAAATCAAGG
Statistics
Matches: 75, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
78 3 0.04
80 2 0.03
81 70 0.93
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (80 bp):
GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAAGGGTATTGCGATAATTCTACC
TAAAGGGGTAAAACG
Found at i:20915066 original size:54 final size:52
Alignment explanation
Indices: 20915006--20915389 Score: 403
Period size: 54 Copynumber: 7.2 Consensus size: 52
20914996 AGGGTAAAAC
* * * * *
20915006 GGTAATTCTATAAATCAAGGGTACTTTGGTAATTTTACAAGTC-GAGGGTATTTC
1 GGTAATTTTACAAA-CAAGGGTATTTTGGTAATTTTACAA-ACAG-GGGTATTTT
** * * ***
20915060 AATAATTTTACAAGTCGAGGGTATTTCAATAATTTTACAAATCAGGGGTATTTT
1 GGTAATTTTACAA-ACAAGGGTATTTTGGTAATTTTACAAA-CAGGGGTATTTT
* *
20915114 GGTAATTTTACAAACTATGGGTATTTTGATAATTTTACAAACCAGGGGT-TTTT
1 GGTAATTTTACAAAC-AAGGGTATTTTGGTAATTTTACAAA-CAGGGGTATTTT
* *
20915167 GGTAATTTTACAAACCAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTT
1 GGTAATTTTACAAACAAGGGTATTTTGGTAATTTTACAAA-CAGGGGTATTTT
* *
20915220 GGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTT
1 GGTAATTTTACAAAC-AAGGGTATTTTGGTAATTTTACAAAC-AGGGGTATTTT
**
20915274 GGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTT
1 GGTAATTTTACAAA-CAAGGGTATTTTGGTAATTTTACAAA-CAGGGGTATTTT
* * * * *
20915328 GGTAATTTTGCTAATCGAGGGTATTTTAGTAATTTTACAAATTAGGGGTATTTT
1 GGTAATTTTAC-AAACAAGGGTATTTTGGTAATTTTACAAA-CAGGGGTATTTT
20915382 GGTAATTT
1 GGTAATTT
20915390 GGTAAACTAA
Statistics
Matches: 284, Mismatches: 36, Indels: 20
0.84 0.11 0.06
Matches are distributed among these distances:
52 29 0.10
53 39 0.14
54 211 0.74
55 5 0.02
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (52 bp):
GGTAATTTTACAAACAAGGGTATTTTGGTAATTTTACAAACAGGGGTATTTT
Found at i:20915289 original size:81 final size:80
Alignment explanation
Indices: 20915024--20915389 Score: 403
Period size: 81 Copynumber: 4.5 Consensus size: 80
20915014 TATAAATCAA
* ** * *** ** * * *
20915024 GGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTACAAGTCGAGGGTATTTCAA
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAG
20915089 TAATTTTACAAATCAG
66 TAATTTTACAAAT-AG
* * * * *
20915105 GGGTATTTTGGTAATTTTACAAACTATGGGTATTTTGATAATTTTACAAACCAGGGGT-TTTTGG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAG
*
20915169 TAATTTTACAAACCA-
66 TAATTTTACAAA-TAG
* *
20915184 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAG
20915249 TAATTTTACAAACTAG
66 TAATTTTACAAA-TAG
** * *
20915265 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAG
* * *
20915330 TAATTTTGCTAATCG
66 TAATTTTACAAATAG
* ** *
20915345 AGGGTATTTTAGTAATTTTACAAATTAGGGGTATTTTGGTAATTT
1 -GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTT
20915390 GGTAAACTAA
Statistics
Matches: 242, Mismatches: 39, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
79 52 0.21
80 37 0.15
81 153 0.63
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.40
Consensus pattern (80 bp):
GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAG
TAATTTTACAAATAG
Found at i:20915376 original size:27 final size:27
Alignment explanation
Indices: 20915089--20915389 Score: 401
Period size: 27 Copynumber: 11.2 Consensus size: 27
20915079 GGTATTTCAA
*
20915089 TAATTTTACAAATCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
* * *
20915116 TAATTTTACAAACTATGGGTATTTTGA
1 TAATTTTACAAACCAGGGGTATTTTGG
20915143 TAATTTTACAAACCAGGGGT-TTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
20915169 TAATTTTACAAACCA-GGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
*
20915195 TAATTTTACAAACCAAGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
* * * *
20915222 TAATTTTATAAACAAAGGGTATTTTAG
1 TAATTTTACAAACCAGGGGTATTTTGG
*
20915249 TAATTTTACAAACTAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
** *
20915276 TAATTTTGTAAACCAAGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
20915303 TAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
* * * *
20915330 TAATTTTGCTAATC-GAGGGTATTTTAG
1 TAATTTTACAAACCAG-GGGTATTTTGG
**
20915357 TAATTTTACAAATTAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
20915384 TAATTT
1 TAATTT
20915390 GGTAAACTAA
Statistics
Matches: 241, Mismatches: 29, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
25 4 0.02
26 42 0.17
27 194 0.80
28 1 0.00
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
TAATTTTACAAACCAGGGGTATTTTGG
Found at i:20917947 original size:30 final size:30
Alignment explanation
Indices: 20917913--20917972 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
20917903 CCCTAGTACG
20917913 AACTTTGGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
* * *
20917943 AACTTTTGCATATTTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
20917973 CGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.27, C:0.27, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:20922196 original size:25 final size:25
Alignment explanation
Indices: 20922168--20922232 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
20922158 ATACACAGGA
* *
20922168 AAATGCTTACACGAGCTGTAATTGT
1 AAATGCTCACACGAGCTGTAACTGT
* *
20922193 AAATGCTCAGACGATCTGTAACTGT
1 AAATGCTCACACGAGCTGTAACTGT
20922218 AAATGCTCACACGAG
1 AAATGCTCACACGAG
20922233 TTGTGAAATT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (25 bp):
AAATGCTCACACGAGCTGTAACTGT
Found at i:20924316 original size:114 final size:113
Alignment explanation
Indices: 20924098--20924327 Score: 336
Period size: 114 Copynumber: 2.0 Consensus size: 113
20924088 TTTTTTTCCC
* *
20924098 TATTCACCAAAAAAAGTAAAAAATATAAAAAAATAACATTGAGCATCCATTTGGAGACAACTAAT
1 TATTCACCAAAAAAAGTAAAAAATATAAAAAAATAACATTGAGCATCCATTTAGAGACAACTAAC
*
20924163 AAGAAATAATGGTAATAAAATGGTCAACGAAGATTAAGTAGAGCCTAG
66 AAGAAATAATGGTAATAAAATGGTCAACGAAGATGAAGTAGAGCCTAG
* * ** * *
20924211 TATTCACCAAAAAAAAATTAAAAAA-ATAAAGAGCTAACATTGAGCATCCATTTAGAGTCAACTG
1 TATTCACC--AAAAAAAGTAAAAAATATAAAAAAATAACATTGAGCATCCATTTAGAGACAACTA
* *
20924275 ACAAGAAATAATGGTAATAAAATGGTCAACGGAGATGAAGTAGAGCTTAG
64 ACAAGAAATAATGGTAATAAAATGGTCAACGAAGATGAAGTAGAGCCTAG
20924325 TAT
1 TAT
20924328 ACCAATATTG
Statistics
Matches: 104, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
113 8 0.08
114 82 0.79
115 14 0.13
ACGTcount: A:0.50, C:0.12, G:0.16, T:0.23
Consensus pattern (113 bp):
TATTCACCAAAAAAAGTAAAAAATATAAAAAAATAACATTGAGCATCCATTTAGAGACAACTAAC
AAGAAATAATGGTAATAAAATGGTCAACGAAGATGAAGTAGAGCCTAG
Found at i:20925600 original size:73 final size:73
Alignment explanation
Indices: 20925523--20925663 Score: 174
Period size: 73 Copynumber: 1.9 Consensus size: 73
20925513 CGGGACGGCG
* ** * * *
20925523 GTTATCAACTAGCTCACTAGAGCAACTTTGTGACAATGATCTATCAATTTTATGGAATGACACCA
1 GTTATCAACTAGCTCACTAGAGCAACATCATGACAATGACCTATCAACTTTATGGAATGAAACCA
20925588 CGATGGTA
66 CGATGGTA
* * * * * *
20925596 GTTATCGACTAGCTCTCTAGAGCGACATCATGACAATGGCCTATCGACTTTATGGAGTGAAACCA
1 GTTATCAACTAGCTCACTAGAGCAACATCATGACAATGACCTATCAACTTTATGGAATGAAACCA
20925661 CGA
66 CGA
20925664 CAATGGTTAT
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
73 56 1.00
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (73 bp):
GTTATCAACTAGCTCACTAGAGCAACATCATGACAATGACCTATCAACTTTATGGAATGAAACCA
CGATGGTA
Found at i:20925673 original size:73 final size:73
Alignment explanation
Indices: 20925522--20925683 Score: 171
Period size: 73 Copynumber: 2.2 Consensus size: 73
20925512 CCGGGACGGC
* ** * * *
20925522 GGTTATCAACTAGCTCACTAGAGCAACTTTGTGACAATGATCTATCAATTTTATGGAATGACACC
1 GGTTATCAACTAGCTCACTAGAGCAACATCATGACAATGACCTATCAACTTTATGGAATGAAACC
***
20925587 ACGATGGT
66 ACGACAAT
* * * * * * *
20925595 AGTTATCGACTAGCTCTCTAGAGCGACATCATGACAATGGCCTATCGACTTTATGGAGTGAAACC
1 GGTTATCAACTAGCTCACTAGAGCAACATCATGACAATGACCTATCAACTTTATGGAATGAAACC
20925660 ACGACAAT
66 ACGACAAT
*
20925668 GGTTATTAACTAGCTC
1 GGTTATCAACTAGCTC
20925684 GTTAGAACAA
Statistics
Matches: 70, Mismatches: 19, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
73 70 1.00
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (73 bp):
GGTTATCAACTAGCTCACTAGAGCAACATCATGACAATGACCTATCAACTTTATGGAATGAAACC
ACGACAAT
Found at i:20931677 original size:23 final size:23
Alignment explanation
Indices: 20931650--20931696 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 23
20931640 CGTGAGTTTC
20931650 TGGATTTGGTTTA-AGGTGATATG
1 TGGATTTGGTTTAGA-GTGATATG
20931673 TGGATTTGGTTTAGAGTGATATG
1 TGGATTTGGTTTAGAGTGATATG
20931696 T
1 T
20931697 CAGTAGCAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 22 0.96
24 1 0.04
ACGTcount: A:0.21, C:0.00, G:0.34, T:0.45
Consensus pattern (23 bp):
TGGATTTGGTTTAGAGTGATATG
Found at i:20945542 original size:31 final size:31
Alignment explanation
Indices: 20945504--20945571 Score: 127
Period size: 31 Copynumber: 2.2 Consensus size: 31
20945494 GAGAATTTTG
20945504 CACAAAAAACTTAAAACAAAAATGAAGGGCC
1 CACAAAAAACTTAAAACAAAAATGAAGGGCC
20945535 CACAAAAAACTTAAAACAAAAATGAAGGGCC
1 CACAAAAAACTTAAAACAAAAATGAAGGGCC
*
20945566 GACAAA
1 CACAAA
20945572 CTCATCAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.59, C:0.19, G:0.13, T:0.09
Consensus pattern (31 bp):
CACAAAAAACTTAAAACAAAAATGAAGGGCC
Found at i:20948786 original size:33 final size:33
Alignment explanation
Indices: 20948744--20948811 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
20948734 CTATCAATAA
20948744 TAATAATAATAATTTTATATCAATTTCGAAATT
1 TAATAATAATAATTTTATATCAATTTCGAAATT
20948777 TAATAATAATAATTTTATATCAATTTCGAAATT
1 TAATAATAATAATTTTATATCAATTTCGAAATT
20948810 TA
1 TA
20948812 TACACTTTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.46
Consensus pattern (33 bp):
TAATAATAATAATTTTATATCAATTTCGAAATT
Found at i:20953211 original size:5 final size:5
Alignment explanation
Indices: 20953201--20953250 Score: 82
Period size: 5 Copynumber: 10.0 Consensus size: 5
20953191 AGCTTGCACC
* *
20953201 AATAT AATAT AATAT AATAT AATAT AACAT TATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
20953251 TTATTTAACT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 41 1.00
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (5 bp):
AATAT
Found at i:20957271 original size:49 final size:50
Alignment explanation
Indices: 20957148--20957276 Score: 156
Period size: 50 Copynumber: 2.6 Consensus size: 50
20957138 CGAGATGTGT
* *
20957148 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCGCAGATATGTGAGAGC
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCGCACATATGCGAGAGC
* * *
20957198 TAGTGTAAGACCTTGTCTGGGACATGGCATCGGC-CTCA-ATGACGATAG-
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCGCACATATG-CGAGAGC
* *
20957246 TCAGTGTAAGACCATGCCTAGGACATGGCAT
1 T-AGTGTAAGACCATGTCTGGGACATGGCAT
20957277 TGACTTAAGA
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
48 4 0.06
49 32 0.46
50 33 0.48
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.23
Consensus pattern (50 bp):
TAGTGTAAGACCATGTCTGGGACATGGCATCGGCGCACATATGCGAGAGC
Found at i:20957312 original size:45 final size:46
Alignment explanation
Indices: 20957251--20957368 Score: 184
Period size: 45 Copynumber: 2.6 Consensus size: 46
20957241 GATAGTCAGT
* *
20957251 GTAAGACCATGCCTAGGACATGGCATTGACTTAAGATATGAGCCA-
1 GTAAGACCATGTCTAGGACATGGCATTGACTTAAGATAAGAGCCAG
20957296 GTAAGACCATGTCTAGGACATGGCATTGACTTAAGATAAGAGCCAG
1 GTAAGACCATGTCTAGGACATGGCATTGACTTAAGATAAGAGCCAG
* *
20957342 TGTAAGATCATGTCTGGGACATGGCAT
1 -GTAAGACCATGTCTAGGACATGGCAT
20957369 CGACATTATA
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
45 43 0.64
47 24 0.36
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (46 bp):
GTAAGACCATGTCTAGGACATGGCATTGACTTAAGATAAGAGCCAG
Found at i:20958986 original size:31 final size:31
Alignment explanation
Indices: 20958948--20959009 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
20958938 TACGCCAGCT
*
20958948 CCTGCTGAAGGGACCGCGCCGGTAGAGAGTG
1 CCTGCTGAAGGGACCGCGCCAGTAGAGAGTG
* * *
20958979 CCTGCTGAATGGACCGTGCCAGTAGATAGTG
1 CCTGCTGAAGGGACCGCGCCAGTAGAGAGTG
20959010 GGCATGTGAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.21, C:0.24, G:0.37, T:0.18
Consensus pattern (31 bp):
CCTGCTGAAGGGACCGCGCCAGTAGAGAGTG
Found at i:20966123 original size:4 final size:4
Alignment explanation
Indices: 20966114--20966138 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
20966104 ATGAAATAAA
20966114 AATT AATT AATT AATT AATT AATT A
1 AATT AATT AATT AATT AATT AATT A
20966139 TGAAAATGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:20979843 original size:25 final size:25
Alignment explanation
Indices: 20979812--20979879 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 25
20979802 AGCTGTAAAT
* *
20979812 GGTAAGCTCCTCCGAGCTGAA-TAGC
1 GGTAAGCTCATACGAGCT-AAGTAGC
*
20979837 GGTAAGCTCATACGAGCTAAGTATC
1 GGTAAGCTCATACGAGCTAAGTAGC
*
20979862 GGTAAGCTCATAAGAGCT
1 GGTAAGCTCATACGAGCT
20979880 GAAATCAGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
24 2 0.05
25 36 0.95
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.22
Consensus pattern (25 bp):
GGTAAGCTCATACGAGCTAAGTAGC
Found at i:20981382 original size:44 final size:44
Alignment explanation
Indices: 20981291--20981416 Score: 135
Period size: 44 Copynumber: 2.9 Consensus size: 44
20981281 CACCTAAATG
* * *
20981291 AATGAGTAAAACCATAGTTGAAAGATGTTATGGCATCAAGACAA
1 AATGAGTAAGACCATAGCTGAAAGATGCTATGGCATCAAGACAA
* *** **
20981335 AATGAGTAAGACCATAACTGAAAGATGCTATGGCATTGTGATGA
1 AATGAGTAAGACCATAGCTGAAAGATGCTATGGCATCAAGACAA
* * * *
20981379 AATGAGTAAGACCGTGGCTAAAAGACGCTATGGCATCA
1 AATGAGTAAGACCATAGCTGAAAGATGCTATGGCATCA
20981417 TGGTAATTAG
Statistics
Matches: 66, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
44 66 1.00
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.22
Consensus pattern (44 bp):
AATGAGTAAGACCATAGCTGAAAGATGCTATGGCATCAAGACAA
Found at i:20981594 original size:27 final size:28
Alignment explanation
Indices: 20981564--20981618 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
20981554 TTAAACACGA
20981564 GGAAGCCCA-TCAAGACACT-AAATACAG
1 GGAAGCCCACT-AAGACACTAAAATACAG
* *
20981591 GGAAGTCCACTAGGACACTAAAATACAG
1 GGAAGCCCACTAAGACACTAAAATACAG
20981619 AGATTTTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 15 0.62
28 9 0.38
ACGTcount: A:0.44, C:0.24, G:0.20, T:0.13
Consensus pattern (28 bp):
GGAAGCCCACTAAGACACTAAAATACAG
Found at i:20982160 original size:20 final size:20
Alignment explanation
Indices: 20982120--20982160 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
20982110 CACCTTAAGG
20982120 ATTAATTTGGTAGAGTCTGT
1 ATTAATTTGGTAGAGTCTGT
20982140 ATTAAGTTTGGTAGAGT-TGT
1 ATTAA-TTTGGTAGAGTCTGT
20982160 A
1 A
20982161 AACACTGCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.27, C:0.02, G:0.27, T:0.44
Consensus pattern (20 bp):
ATTAATTTGGTAGAGTCTGT
Done.