Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 77 of 328
Found at i:21117176 original size:24 final size:22
Alignment explanation
Indices: 21117143--21117190 Score: 69
Period size: 24 Copynumber: 2.1 Consensus size: 22
21117133 TTATTAAAAT
*
21117143 AATTAGAAAATAGAAAATCTATAA
1 AATTACAAAA-AGAAAAT-TATAA
21117167 AATTACAAAAAGAAAATTATAA
1 AATTACAAAAAGAAAATTATAA
21117189 AA
1 AA
21117191 ATATTTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 7 0.30
23 7 0.30
24 9 0.39
ACGTcount: A:0.67, C:0.04, G:0.06, T:0.23
Consensus pattern (22 bp):
AATTACAAAAAGAAAATTATAA
Found at i:21117248 original size:28 final size:28
Alignment explanation
Indices: 21117194--21117250 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
21117184 TATAAAAATA
*
21117194 TTTTAAAAAACTAAAATTTACTAATTTT
1 TTTTAAAAAACTAAAATTTAATAATTTT
21117222 TTTTAAAAAA-TAGAAATTTTAAT-ATTTT
1 TTTTAAAAAACTA-AAA-TTTAATAATTTT
21117250 T
1 T
21117251 AAAATTTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 2 0.08
28 19 0.73
29 5 0.19
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.49
Consensus pattern (28 bp):
TTTTAAAAAACTAAAATTTAATAATTTT
Found at i:21126264 original size:40 final size:40
Alignment explanation
Indices: 21126203--21126464 Score: 438
Period size: 40 Copynumber: 6.6 Consensus size: 40
21126193 AACCCAAGTA
* *
21126203 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* * *
21126242 CCTTCGGGTCTTATCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
21126282 CCTTCGGGACTTGGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
21126322 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
21126362 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
21126402 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
21126442 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
21126465 CATTCGAATA
Statistics
Matches: 209, Mismatches: 12, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
39 11 0.05
40 197 0.94
41 1 0.00
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:21131058 original size:17 final size:18
Alignment explanation
Indices: 21131027--21131060 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21131017 ATAAATTTTA
*
21131027 TATGTTAAATATTAATTT
1 TATGTAAAATATTAATTT
21131045 TATGTAAAAT-TTAATT
1 TATGTAAAATATTAATT
21131061 AGTATTTAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (18 bp):
TATGTAAAATATTAATTT
Found at i:21131186 original size:20 final size:20
Alignment explanation
Indices: 21131126--21131187 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
21131116 GTCCACATAT
21131126 AATTCA-AAAAAATTAATAAA
1 AATTCATAAAAAATT-ATAAA
* *
21131146 AATAT-ATAAAAAAATAAAAA
1 AAT-TCATAAAAAATTATAAA
*
21131166 AATTCATAAAAAATTTTAAA
1 AATTCATAAAAAATTATAAA
21131186 AA
1 AA
21131188 ATTTTATCCA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
19 1 0.03
20 25 0.74
21 8 0.24
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (20 bp):
AATTCATAAAAAATTATAAA
Found at i:21136219 original size:27 final size:27
Alignment explanation
Indices: 21136186--21136580 Score: 228
Period size: 27 Copynumber: 14.7 Consensus size: 27
21136176 TTTCAAATTG
*
21136186 TAAAATTACCAAAGTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* ****
21136213 TAGAATTACCGTTTTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* * **** *
21136240 CAGAATTACCGTTTTACCCTCAATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* ***** *
21136267 TAGAATTACTGTTTTACCCTTGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* * *****
21136294 CAGAATTACTGTTTTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* * *
21136321 CAAAATTACTAAAATACCCTCGGTTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* *
21136348 CAAAATTACCAAAATACCCTCGA-TCA
1 TAAAATTACCAAAATACCCTCGATTTA
* *
21136374 GTAAAATTACCAAAATACCCTAG-TTTG
1 -TAAAATTACCAAAATACCCTCGATTTA
* * * * *
21136401 TAAAATTGCTAAAATACCCTTGGTTTG
1 TAAAATTACCAAAATACCCTCGATTTA
** * *
21136428 TAAAATTACTGAAATACCCTCAATTTG
1 TAAAATTACCAAAATACCCTCGATTTA
*
21136455 TAAAATTACCAAAATACCC-CTAGTTT-
1 TAAAATTACCAAAATACCCTCGA-TTTA
* * *
21136481 GAAAATTACCAAAATACCACT-GGTTTG
1 TAAAATTACCAAAATACC-CTCGATTTA
* * * *
21136508 TGAAATTACCGAAATACCCTCAATTTG
1 TAAAATTACCAAAATACCCTCGATTTA
*
21136535 TAAAATTACCAAAATACCC-CTAGTTT-
1 TAAAATTACCAAAATACCCTCGA-TTTA
*
21136561 GAAAATTACCAAAATACCCT
1 TAAAATTACCAAAATACCCT
21136581 TGACTTTCTA
Statistics
Matches: 309, Mismatches: 49, Indels: 20
0.82 0.13 0.05
Matches are distributed among these distances:
26 65 0.21
27 244 0.79
ACGTcount: A:0.37, C:0.22, G:0.09, T:0.32
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCTCGATTTA
Found at i:21136431 original size:53 final size:53
Alignment explanation
Indices: 21136308--21136593 Score: 290
Period size: 53 Copynumber: 5.3 Consensus size: 53
21136298 ATTACTGTTT
* ** * * **
21136308 TACCCTCGATTTACAAAATTACTAAAATACCCTCGGTTTACAAAATTACCAAAA
1 TACCCTTGATTTGTAAAATTACCAAAATACCCT-AGTTTGTAAAATTACCAAAA
* ** * *
21136362 TACCCTCGATCAGTAAAATTACCAAAATACCCTAGTTTGTAAAATTGCTAAAA
1 TACCCTTGATTTGTAAAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAA
* ** *
21136415 TACCCTTGGTTTGTAAAATTACTGAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTGTAAAATTACCAAAATACCCT-AGTTTGTAAAATTACCAAAA
* * * *
21136469 TACCCCT-AGTTTG-AAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAA
1 TACCCTTGA-TTTGTAAAATTACCAAAATACC-CTAGTTTGTAAAATTACCAAAA
**
21136522 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTG-AAAATTACCAAAA
1 TACCCTTGATTTGTAAAATTACCAAAATA-CCCTAGTTTGTAAAATTACCAAAA
*
21136575 TACCCTTGACTTTCTAAAA
1 TACCCTTGA-TTTGTAAAA
21136594 ATTATGGAAA
Statistics
Matches: 190, Mismatches: 35, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
53 100 0.53
54 88 0.46
55 2 0.01
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (53 bp):
TACCCTTGATTTGTAAAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAA
Found at i:21136433 original size:80 final size:80
Alignment explanation
Indices: 21136322--21136582 Score: 382
Period size: 80 Copynumber: 3.3 Consensus size: 80
21136312 CTCGATTTAC
* * ** * * **
21136322 AAAATTACTAAAATACCCTCGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
1 AAAATTACCAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
21136387 AATA-CCCTAGTTTG
66 AATACCCCTAGTTTG
* * *
21136401 TAAAATTGCTAAAATACCCTTGGTTTGTAAAATTACTGAAATACCCTCAATTTGTAAAATTACCA
1 -AAAATTACCAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCA
21136466 AAATACCCCTAGTTTG
65 AAATACCCCTAGTTTG
*
21136482 AAAATTACCAAAATACCAC-TGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCA
1 AAAATTACCAAAATACC-CTTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCA
21136546 AAATACCCCTAGTTTG
65 AAATACCCCTAGTTTG
21136562 AAAATTACCAAAATACCCTTG
1 AAAATTACCAAAATACCCTTG
21136583 ACTTTCTAAA
Statistics
Matches: 165, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
79 1 0.01
80 153 0.93
81 11 0.07
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (80 bp):
AAAATTACCAAAATACCCTTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
AATACCCCTAGTTTG
Found at i:21136788 original size:27 final size:27
Alignment explanation
Indices: 21136697--21136788 Score: 125
Period size: 27 Copynumber: 3.4 Consensus size: 27
21136687 ACCCTTATTA
*
21136697 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
21136724 GGTAAAGA-GACCGTAAAGCCCCTGTAG
1 GGTAAA-ATGACCGTAAAGCCCCTGTAG
* *
21136751 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
21136778 GGTAAAATGAC
1 GGTAAAATGAC
21136789 AAATGTGCCC
Statistics
Matches: 59, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
27 57 0.97
28 2 0.03
ACGTcount: A:0.35, C:0.21, G:0.26, T:0.18
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:21137665 original size:52 final size:51
Alignment explanation
Indices: 21137587--21137722 Score: 224
Period size: 52 Copynumber: 2.7 Consensus size: 51
21137577 GAGGAAGTGC
21137587 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
*
21137639 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCTGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
21137690 AAAAGGGCTT-TGCCCCAG-TTATT-AAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAG-GGCT
21137723 AGGCCTCCAA
Statistics
Matches: 82, Mismatches: 1, Indels: 5
0.93 0.01 0.06
Matches are distributed among these distances:
48 5 0.06
49 9 0.11
50 8 0.10
51 24 0.29
52 36 0.44
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:21137685 original size:25 final size:26
Alignment explanation
Indices: 21137587--21137722 Score: 190
Period size: 26 Copynumber: 5.3 Consensus size: 26
21137577 GAGGAAGTGC
21137587 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
21137613 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
21137639 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
21137665 AAAAGGGCTT-TGCCCCTGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
21137690 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
21137713 AAAAGAGGCT
1 AAAAG-GGCT
21137723 AGGCCTCCAA
Statistics
Matches: 99, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
23 5 0.05
24 7 0.07
25 29 0.29
26 58 0.59
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:21137963 original size:31 final size:31
Alignment explanation
Indices: 21137928--21138006 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
21137918 CGTTTACAGT
*
21137928 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCAGCCCAATGATATGATTTATGA
*
21137959 AAAGGCTTCAGCCCAGTGATATGATTTATGA
1 AAAGGCTTCAGCCCAATGATATGATTTATGA
21137990 AAAGGCTTCAGCCCAAT
1 AAAGGCTTCAGCCCAAT
21138007 AACCGTTAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAATGATATGATTTATGA
Found at i:21139682 original size:20 final size:21
Alignment explanation
Indices: 21139640--21139685 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
21139630 CCATATGAGT
* *
21139640 AATTATATATATATAATATAA
1 AATTATATATATATAAAAAAA
*
21139661 AATT-TATATTTATAAAAAAA
1 AATTATATATATATAAAAAAA
21139681 AATTA
1 AATTA
21139686 GTAATTGATG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
AATTATATATATATAAAAAAA
Found at i:21142366 original size:24 final size:26
Alignment explanation
Indices: 21142337--21142399 Score: 78
Period size: 24 Copynumber: 2.5 Consensus size: 26
21142327 ATATACGAAG
*
21142337 CAATTTAAAGTAGA-TAATATA-AA-A
1 CAATTTAAAATA-ATTAATATATAACA
21142361 CAATTTAAAATAATTAATATATAACA
1 CAATTTAAAATAATTAATATATAACA
*
21142387 TAATTTAAAATAA
1 CAATTTAAAATAA
21142400 AATAAAGCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 1 0.03
24 18 0.53
25 2 0.06
26 13 0.38
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (26 bp):
CAATTTAAAATAATTAATATATAACA
Found at i:21142684 original size:28 final size:27
Alignment explanation
Indices: 21142652--21142726 Score: 73
Period size: 28 Copynumber: 2.7 Consensus size: 27
21142642 TAAAGACTAA
*
21142652 AAAAATAAATAATGTATATGAAAGATTT
1 AAAAATAAATAATGTATAT-AAAAATTT
* *
21142680 AAAAATGACAGTAA-ATATATAAAAATTT
1 AAAAAT-A-AATAATGTATATAAAAATTT
*
21142708 -AAAACAAATAATGTATATA
1 AAAAATAAATAATGTATATA
21142727 TGTATAAAGG
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
25 4 0.11
26 7 0.18
27 4 0.11
28 13 0.34
29 6 0.16
30 4 0.11
ACGTcount: A:0.60, C:0.03, G:0.08, T:0.29
Consensus pattern (27 bp):
AAAAATAAATAATGTATATAAAAATTT
Found at i:21142757 original size:2 final size:2
Alignment explanation
Indices: 21142750--21142780 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
21142740 AAAATAAGTA
21142750 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
21142781 AATAAGGGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21146001 original size:26 final size:26
Alignment explanation
Indices: 21145965--21146074 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
21145955 CATGAAATTC
21145965 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
21145991 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
21146017 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
21146043 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
21146069 TTATCA
1 TTATCA
21146075 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:21148357 original size:3 final size:3
Alignment explanation
Indices: 21148349--21148538 Score: 111
Period size: 3 Copynumber: 62.7 Consensus size: 3
21148339 GATAAGGTGG
* * * *
21148349 TAA TAA TAA TAA TAA TAA TAA CAA TAA TAA TAG TAA TAA TAG TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
21148397 TAA TAA TACA TTGA TGA TAAA TAA TAA -AA GGAA TAA TAA TAA TAA TAA
1 TAA TAA TA-A -TAA TAA T-AA TAA TAA TAA -TAA TAA TAA TAA TAA TAA
** * *
21148445 TAA TAA TAA TATA TGT TGA TAA CAA TAA TAA T-A TAA -AA TAGGA -AA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TA--A TAA
** ** * * * *
21148490 TAA TTG T-A TGC TAA TAA GAA TAA TAA TAG TAA AAA TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
21148537 TA
1 TA
21148539 TATTAAATTA
Statistics
Matches: 144, Mismatches: 31, Indels: 24
0.72 0.16 0.12
Matches are distributed among these distances:
2 8 0.06
3 125 0.87
4 9 0.06
5 2 0.01
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:21151109 original size:41 final size:41
Alignment explanation
Indices: 21151052--21151134 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
21151042 ATCCCGATCG
* *
21151052 ATATCACCAAACTCATTATACGCTTTGGATATGAAGTTACC
1 ATATCACCAAACTCATTACACACTTTGGATATGAAGTTACC
21151093 ATATCACCAAACTCATTACACACTTTGGATATGAAGTTACC
1 ATATCACCAAACTCATTACACACTTTGGATATGAAGTTACC
21151134 A
1 A
21151135 CACTCTTTTG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.36, C:0.23, G:0.11, T:0.30
Consensus pattern (41 bp):
ATATCACCAAACTCATTACACACTTTGGATATGAAGTTACC
Found at i:21153216 original size:3 final size:3
Alignment explanation
Indices: 21153210--21153430 Score: 94
Period size: 3 Copynumber: 73.0 Consensus size: 3
21153200 TATTATCCAA
** * ** **
21153210 ATT ATT ATT ATT ATT ATT ATT ATT ATT ACC ATT ATT TTT GCT GCT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * ** * * * *
21153258 ATT AGT ATT ATT AGT ATT ATT ACT ACC ACT ATT ATC ATT A-C ATT TTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
21153305 ATGT TTT ATT CCTT TTCT ATT ATT ATTT ATT A-T ATT GTAT ATT ATT
1 AT-T ATT ATT -ATT AT-T ATT ATT A-TT ATT ATT ATT AT-T ATT ATT
* * *
21153351 ATT ATT ATT A-G ATT ATT ATT -TT -TT ATT AACGT ATT ATT ATT TTCT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -A-TT ATT ATT ATT AT-T
* * *
21153396 ACT -TT ATT ATT ATT ATT ATT ATT ATC ATT ACT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
21153431 TTCCTTTTTT
Statistics
Matches: 163, Mismatches: 42, Indels: 26
0.71 0.18 0.11
Matches are distributed among these distances:
2 9 0.06
3 139 0.85
4 14 0.09
5 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.04, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:21154997 original size:25 final size:24
Alignment explanation
Indices: 21154950--21154997 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
21154940 AAAATAAGCC
* *
21154950 TATACGTAAATATATATATACATA
1 TATACGTAAACATATATAAACATA
21154974 TATACGTAAAACATATATAAACAT
1 TATACGT-AAACATATATAAACAT
21154998 TGGTGATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
TATACGTAAACATATATAAACATA
Found at i:21155126 original size:3 final size:3
Alignment explanation
Indices: 21155118--21155207 Score: 148
Period size: 3 Copynumber: 30.0 Consensus size: 3
21155108 AACAAAGCAC
21155118 ATA ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA ATA ATA ATAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA
21155163 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATCA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA
21155208 TGAAAATAAC
Statistics
Matches: 83, Mismatches: 0, Indels: 8
0.91 0.00 0.09
Matches are distributed among these distances:
2 4 0.05
3 74 0.89
4 5 0.06
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:21156968 original size:88 final size:85
Alignment explanation
Indices: 21156769--21157653 Score: 678
Period size: 89 Copynumber: 10.4 Consensus size: 85
21156759 CATGTGACTC
* * * ** *
21156769 GAGGCTCAACTCACCTCTCGTAATATGAGTTGATTCTTGAAAAGTATAAATTGAAAAAAC-ATTA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGAAAAACATAAATT--AGAAACGA--A
*
21156833 ATTGAAAATACCTCGGCGTGTGATCCT
62 ATTGAAAATACCTCAGC--GTG-TCCT
* * * *
21156860 GAGGCTCAATTCACCTCTAGCAATATGAATTAATTTTGGAAAAACATAAATTAAGAAACGAAAGT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGAAAAACATAAATT-AGAAACGAAA-T
*
21156925 TGACAATACCTCAGCGTGTCCTT
64 TGAAAATACCTCAGCGTGTCC-T
* * * *
21156948 GAGGCTCAATTCACCTCTAGCAATATGAATTAATTTTTGGAAAAACATAAATCAAGAAACGAAAG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTT-GAAAAACATAAAT-TAGAAACGAAA-
*
21157013 TTGACAATACCTCAGCGTGTCCT
63 TTGAAAATACCTCAGCGTGTCCT
* * ** ** * * *
21157036 GAGGCTCAACTCACCTTTCGCGATATGAGTTTTTTTTTTTGAAAGGCAGAAATTGGAAAGCAAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAG--TTAATTTTTGAAAAACATAAATTAGAAA-C-GAA
* *
21157101 ATTAAAAATACCTCAGCGTGCCCT
62 ATTGAAAATACCTCAGCGTGTCCT
* * * * * *
21157125 GAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTTTTTGAAGAGCAGAAATTGGAAAGCAGAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTT-A-ATTTTTGAAAAACATAAATTAGAAA-C-GAA
* *
21157190 ATCGAAAATACCTCAGCGTGCCCT
62 ATTGAAAATACCTCAGCGTGTCCT
* *
21157214 GAGGCTCAACTCACTTCTCGCAATATGAGCTAATTTTTGAAAAACATAAATTGGAGAAAACAGAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGAAAAACATAAATT--AG-AAAC-GAA
* *
21157279 ATTGAAATTACCTCAGCATGTCCT
62 ATTGAAAATACCTCAGCGTGTCCT
* * **
21157303 GAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTG-AAAACGGAAATT---------A---
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGAAAAACATAAATTAGAAACGAAATTG
* *
21157355 AAAATACCTCATCGTGACCT
66 AAAATACCTCAGCGTGTCCT
* * *
21157375 GAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTG--AAACATGGAAATTA-AAACAGAA
1 GAGGCTCAACTCACCTCTCGCAATATGAG-TTAATTTTTGAAAAACAT--AAATTAGAAAC-GAA
* *
21157437 ATTGAAAATACCTCAACGTGCCCT
62 ATTGAAAATACCTCAGCGTGTCCT
* *
21157461 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG----AC--AAA-CAG---C--AATTG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGAAAAACATAAATTAGAAACGAAATTG
* *
21157514 AAAATACCTCAGCGTGCCCC
66 AAAATACCTCAGCGTGTCCT
** * * * **
21157534 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTGAAAGACAGAAATT-GAAAGGCTTAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTT-AATTTTTGAAAAACATAAATTAGAAA--CGAAA
*
21157598 TTGAAAATACCTCGGCGTGTGACCT
63 TTGAAAATACCTCAGCGTGT--CCT
*
21157623 GAGGTTCAACTCACCTCTCGCAATATGAGTT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTT
21157654 GAAATTAAAA
Statistics
Matches: 659, Mismatches: 88, Indels: 96
0.78 0.10 0.11
Matches are distributed among these distances:
72 47 0.07
73 59 0.09
74 11 0.02
75 1 0.00
76 1 0.00
78 3 0.00
79 3 0.00
80 4 0.01
83 3 0.00
85 8 0.01
86 46 0.07
87 41 0.06
88 81 0.12
89 274 0.42
90 33 0.05
91 44 0.07
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.27
Consensus pattern (85 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTGAAAAACATAAATTAGAAACGAAATTG
AAAATACCTCAGCGTGTCCT
Found at i:21157553 original size:73 final size:73
Alignment explanation
Indices: 21157428--21157590 Score: 256
Period size: 73 Copynumber: 2.2 Consensus size: 73
21157418 CATGGAAATT
*
21157428 AAAACAGAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
21157493 A-TTTTTG
66 ATTTTTTG
* * **
21157500 ACAAACAGCAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 A-AAACAGAAATTGAAAATACCTCAACGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
21157565 GATTTTTTG
65 GATTTTTTG
21157574 AAAGACAGAAATTGAAA
1 AAA-ACAGAAATTGAAA
21157591 GGCTTAATTG
Statistics
Matches: 82, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
72 1 0.01
73 62 0.76
74 19 0.23
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (73 bp):
AAAACAGAAATTGAAAATACCTCAACGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTG
Found at i:21157674 original size:87 final size:86
Alignment explanation
Indices: 21157509--21157677 Score: 205
Period size: 89 Copynumber: 1.9 Consensus size: 86
21157499 GACAAACAGC
* ** ** *
21157509 AATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTG
1 AATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TAATTA
* *
21157574 AAAGACAGAAATTGAAAGGCTT
65 AAACACAAAAATTGAAAGGCTT
* * *
21157596 AATTGAAAATACCTCGGCGTGTGACCTGAGGTTCAACTCACCTCTCGCAATATGAGTTGA-AATT
1 AATTGAAAATACCTCAGC--GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATAATT
21157660 AAAACACAAAAATTGAAA
64 AAAACACAAAAATTGAAA
21157678 ATACCTCAGC
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
87 34 0.49
89 35 0.51
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.27
Consensus pattern (86 bp):
AATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATAATTAA
AACACAAAAATTGAAAGGCTT
Found at i:21157707 original size:161 final size:159
Alignment explanation
Indices: 21157185--21157731 Score: 674
Period size: 161 Copynumber: 3.4 Consensus size: 159
21157175 AATTGGAAAG
* * * *
21157185 CAGAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGCT-AATT
1 CAGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTT
* *
21157249 TTTGAAAAACATAAATTGGAGAAAACAGAAATTGAAATTACCTCAGCATGT-CCTGAGGCTCAAC
66 TTTGAAAAACAGAAATT---GAAAACAGAAATTGAAAATACCTCAGC-TGTGCCTGAGGCTCAAC
* *
21157313 TCATCTCTCGCAATATGAGTTGATTTTTGAAAA
127 TCACCTCTCGCAATATGAGTTGATTTTTAAAAA
* * * * * *
21157346 CGGAAATTAAAAATACCTCATCGTGACCTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTT
1 CAGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTT
* ** *
21157411 TTTGAAACATGGAAATT-AAAACAGAAATTGAAAATACCTCAAC-GTGCCCTGAGGCTCAACTCA
66 TTTGAAAAACAGAAATTGAAAACAGAAATTGAAAATACCTCAGCTGTG-CCTGAGGCTCAACTCA
*
21157474 CCTCTCGCAATATGAGTTGATTTTTGACAAA
130 CCTCTCGCAATATGAGTTGATTTTT-AAAAA
* ** *
21157505 CAGCAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTT
1 CAGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTT
* * ** * *
21157570 TTTGAAAGACAGAAATTGAAAGGC-TTAATTGAAAATACCTCGGCGTGTGACCTGAGGTTCAACT
66 TTTGAAAAACAGAAATTGAAA-ACAGAAATTGAAAATACCTCAGC-TGTG-CCTGAGGCTCAACT
**
21157634 CACCTCTCGCAATATGAGTTGA-AATTAAAACA
128 CACCTCTCGCAATATGAGTTGATTTTTAAAA-A
*
21157666 CAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTT
1 CAGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTT
21157731 T
66 T
21157732 GAAAAAGTAG
Statistics
Matches: 332, Mismatches: 45, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
156 2 0.01
158 64 0.19
159 72 0.22
160 22 0.07
161 118 0.36
162 54 0.16
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (159 bp):
CAGAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTT
TTTGAAAAACAGAAATTGAAAACAGAAATTGAAAATACCTCAGCTGTGCCTGAGGCTCAACTCAC
CTCTCGCAATATGAGTTGATTTTTAAAAA
Found at i:21157849 original size:126 final size:126
Alignment explanation
Indices: 21157624--21157857 Score: 371
Period size: 126 Copynumber: 1.9 Consensus size: 126
21157614 GTGTGACCTG
*
21157624 AGGTTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCG
1 AGGTTCAACCCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCG
21157689 TGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAA
66 TGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAA
** * * *
21157750 AGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGAAA-ACAGAAATTGAAATTACCTCAGC
1 AGGTTCAACCCACCTCTCGCAATATGAGTTGA-AATTAAAACACAAAAATTGAAAATACCTCAGC
* * *
21157814 GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
65 GTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
21157858 TTGAAGAGCA
Statistics
Matches: 98, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
126 93 0.95
127 5 0.05
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (126 bp):
AGGTTCAACCCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCG
TGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAA
Found at i:21157977 original size:75 final size:73
Alignment explanation
Indices: 21157754--21158318 Score: 789
Period size: 75 Copynumber: 7.6 Consensus size: 73
21157744 ATTAAAAGGT
* *
21157754 TCAACCCACCTCTCGCAATATGAGTTGA-TTCTTGAAAACAGAAATTGAAATTACCTCAGCGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGT
21157818 CCTGAGGC
66 CCTGAGGC
* *
21157826 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAGAGCAGAAATTGAAAATACCTCAGCGTG
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAA-AACAGAAATTGAAATTACCTCAGCGTG
*
21157891 CCCTGAGGC
65 TCCTGAGGC
* * *
21157900 TCAACTCATCTCTCGCAATATGAGTTGATTTTTTTGACAAACATAAATTGAAATTTCCTCAGCGT
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGA-AAACAGAAATTGAAATTACCTCAGCGT
21157965 GTCCTGAGGC
64 GTCCTGAGGC
**
21157975 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAAGACCTCAGCAT
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-ACAGAAATTGAAATTACCTCAGC--
**
21158040 GTGAGAC-GAGGC
62 GTG-TCCTGAGGC
*
21158052 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGACAAAACAGAAATTGAAATTACCTCAGCAT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTG--AAAACAGAAATTGAAATTACCTCAGCGT
21158116 GTCCTGAGGC
64 GTCCTGAGGC
*
21158126 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTAAAATTACCTCAGCGTG
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAACAGAAATTGAAATTACCTCAGCGTG
21158190 TCCTGAGGC
65 TCCTGAGGC
* * *
21158199 TCAACTCACCTTTCGCAATATGAGTTGATTTTTTTGAAGAGCAGAAATTGAAAATACCTCAGCGT
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAA-AACAGAAATTGAAATTACCTCAGCGT
* *
21158264 GCCCCGAGGC
64 GTCCTGAGGC
* *
21158274 TCAACTCACCTCCCGCAATATGAGTTGAATTTTTG-AAACAGAAAT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAAT
21158319 AAAAGCATCA
Statistics
Matches: 443, Mismatches: 36, Indels: 28
0.87 0.07 0.06
Matches are distributed among these distances:
72 35 0.08
73 72 0.16
74 111 0.25
75 163 0.37
76 22 0.05
77 39 0.09
78 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.28
Consensus pattern (73 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGT
CCTGAGGC
Found at i:21158219 original size:224 final size:221
Alignment explanation
Indices: 21157754--21158318 Score: 820
Period size: 224 Copynumber: 2.5 Consensus size: 221
21157744 ATTAAAAGGT
* * *
21157754 TCAACCCACCTCTCGCAATATGAGTTGA--TTCTTGAAA-ACAGAAATTGAAATTACCTCAGCGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCGT
* * *
21157816 GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAGAGCAGAAATTGAAAATA
66 G-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTGAAAATA
* * * *
21157881 CCTCAGCGTGCCCTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTTGACAAACATAA
129 CCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAA
* *
21157946 ATTGAAATTTCCTCAGCGTGTCCTGAGGC
193 ATTAAAATTACCTCAGCGTGTCCTGAGGC
*
21157975 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAAGACCTCAGCAT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAGC--
** *
21158040 GTGAGACGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAAACAGAAATTGAAAT
64 GTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAAACAGAAATTGAAAA
*
21158105 TACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGA
127 TACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGA
21158169 AATTAAAATTACCTCAGCGTGTCCTGAGGC
192 AATTAAAATTACCTCAGCGTGTCCTGAGGC
*
21158199 TCAACTCACCTTTCGCAATATGAGTTGATTTTTTTG-AAGAGCAGAAATTGAAAATACCTCAGCG
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGA-CAGAAATTGAAAATACCTCAGCG
*
21158263 TGCCCCGAGGCTCAACTCACCTCCCGCAATATGAGTTGAATTTTTG--AAACAGAAAT
65 TG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTGAAAAACAGAAAT
21158319 AAAAGCATCA
Statistics
Matches: 312, Mismatches: 24, Indels: 17
0.88 0.07 0.05
Matches are distributed among these distances:
220 10 0.03
221 27 0.09
222 35 0.11
223 19 0.06
224 118 0.38
225 7 0.02
226 96 0.31
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.28
Consensus pattern (221 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCGT
GCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACC
TCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATT
AAAATTACCTCAGCGTGTCCTGAGGC
Found at i:21160557 original size:9 final size:8
Alignment explanation
Indices: 21160491--21160557 Score: 52
Period size: 8 Copynumber: 8.6 Consensus size: 8
21160481 TGGCATTTGA
21160491 TTTT-TTT
1 TTTTCTTT
*
21160498 TTTTGTTT
1 TTTTCTTT
21160506 TTTTC-TT
1 TTTTCTTT
* **
21160513 GTCCCTTT
1 TTTTCTTT
21160521 TTTTCTTT
1 TTTTCTTT
21160529 TTTT-TTT
1 TTTTCTTT
21160536 TTTGT-TTT
1 TTT-TCTTT
21160544 TTTTCTTT
1 TTTTCTTT
21160552 TCTTTC
1 T-TTTC
21160558 ATGACTGTCG
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
7 15 0.31
8 29 0.60
9 4 0.08
ACGTcount: A:0.00, C:0.12, G:0.04, T:0.84
Consensus pattern (8 bp):
TTTTCTTT
Found at i:21165279 original size:31 final size:29
Alignment explanation
Indices: 21165220--21165282 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
21165210 TGTAATAATG
* *
21165220 ATATATACACAATATGGTATTAAGAATAT
1 ATATATACACAATATAGTATTAAAAATAT
21165249 ATATATACACAATATAGTATTTAAAAA-AT
1 ATATATACACAATATAGTA-TTAAAAATAT
21165278 ATATA
1 ATATA
21165283 CATAGGATGG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 25 0.81
30 6 0.19
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.35
Consensus pattern (29 bp):
ATATATACACAATATAGTATTAAAAATAT
Found at i:21165469 original size:3 final size:3
Alignment explanation
Indices: 21165461--21165520 Score: 93
Period size: 3 Copynumber: 20.0 Consensus size: 3
21165451 ATATATGCAT
*
21165461 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AGA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
21165509 AGA ATA AGA ATA
1 ATA ATA ATA ATA
21165521 TCTACAATAA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:21165636 original size:37 final size:37
Alignment explanation
Indices: 21165565--21165636 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 37
21165555 AAATATATAC
* *
21165565 ATATAAAATATTTACAATAATGATGTAAATAAACAAT
1 ATATAAAATATTTACAATAATCATATAAATAAACAAT
21165602 ATATAAAATATTTGA-AATAA-CATATAAATGAAACA
1 ATATAAAATATTT-ACAATAATCATATAAAT-AAACA
21165637 TTTAAATAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 7 0.23
37 23 0.74
38 1 0.03
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.31
Consensus pattern (37 bp):
ATATAAAATATTTACAATAATCATATAAATAAACAAT
Found at i:21167422 original size:160 final size:161
Alignment explanation
Indices: 21167256--21167555 Score: 550
Period size: 160 Copynumber: 1.9 Consensus size: 161
21167246 GACCTGAGGC
*
21167256 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACCCACCT
21167321 CTCGCAATATGAGTTGATTTTTGAAAAAC-G-AATTAAAAGGTTCAACTCACCTCTCGCAATATG
66 CTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGTTCAACTCACCT-TCGCAATATG
21167384 AGTTGATTTTTGAAAAATAGAAATTAAAAGGT
130 AGTTGATTTTTGAAAAATAGAAATTAAAAGGT
* *
21167416 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAAAGGTTCAACCCACCT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACCCACCT
21167481 CTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGTTCAACTCACCTTCGCAATATGA
66 CTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGTTCAACTCACCTTCGCAATATGA
21167546 GTTGATTTTT
131 GTTGATTTTT
21167556 TTGAAACTTA
Statistics
Matches: 135, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
160 91 0.67
161 22 0.16
162 22 0.16
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (161 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACCCACCT
CTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGTTCAACTCACCTTCGCAATATGA
GTTGATTTTTGAAAAATAGAAATTAAAAGGT
Found at i:21167441 original size:106 final size:108
Alignment explanation
Indices: 21167256--21167555 Score: 543
Period size: 106 Copynumber: 2.8 Consensus size: 108
21167246 GACCTGAGGC
*
21167256 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGTTCAACTCACCT
*
21167321 CTCGCAATATGAGTTGATTTTTGAAAAA-CG-AATTAAAAGGT
66 CTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAAAGGT
*
21167362 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAAAGGTTCAACTCACCT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGTTCAACTCACCT
21167427 CTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAAAGGT
66 CTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAAAGGT
*
21167470 TCAACCCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGTTCAACTCACCT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGTTCAACTCACCT
21167535 -TCGCAATATGAGTTGATTTTT
66 CTCGCAATATGAGTTGATTTTT
21167556 TTGAAACTTA
Statistics
Matches: 187, Mismatches: 5, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
106 91 0.49
107 22 0.12
108 74 0.40
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (108 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGTTCAACTCACCT
CTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAAAGGT
Found at i:21167556 original size:54 final size:54
Alignment explanation
Indices: 21167256--21167555 Score: 543
Period size: 54 Copynumber: 5.6 Consensus size: 54
21167246 GACCTGAGGC
*
21167256 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGC
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGT
21167310 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC-G-AATTAAAAGGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGT
*
21167362 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAAAGGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGT
*
21167416 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAAAGGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGT
*
21167470 TCAACCCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGT
21167524 TCAACTCACCT-TCGCAATATGAGTTGATTTTT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTT
21167556 TTGAAACTTA
Statistics
Matches: 239, Mismatches: 5, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
52 49 0.21
53 23 0.10
54 167 0.70
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (54 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGT
Found at i:21167825 original size:74 final size:72
Alignment explanation
Indices: 21167582--21167863 Score: 415
Period size: 72 Copynumber: 3.9 Consensus size: 72
21167572 AAAGTCGATT
* ** *
21167582 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTGAAA
1 TTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
21167646 ACAGAAA
66 ACAGAAA
* ** *
21167653 TTGAAATTACCTCAACGTATCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAA
1 TTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
21167718 ACAGAAA
66 ACAGAAA
* *
21167725 TTAAAATTACCTCAACGTGTCGTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAC
1 TTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGA-
*
21167790 AAACATAAA
64 AAACAGAAA
* *
21167799 TTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAA
1 TTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
21167863 A
66 A
21167864 AGTAGAAATT
Statistics
Matches: 195, Mismatches: 13, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
71 57 0.29
72 71 0.36
73 6 0.03
74 61 0.31
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (72 bp):
TTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
ACAGAAA
Found at i:21167851 original size:146 final size:143
Alignment explanation
Indices: 21167585--21167877 Score: 428
Period size: 146 Copynumber: 2.0 Consensus size: 143
21167575 GTCGATTTTG
* **
21167585 AAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTGAAAACAG
1 AAAATACCTCAACGTGTCGTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTGAAAACAG
* **
21167650 AAATTGAAATTACCTCAACGTATCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG
66 AAATTGAAATTACCTCAACGTATCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTG
21167715 -AAAA-CAGAAATT
130 AAAAAGCAGAAATT
*
21167727 AAAATTACCTCAACGTGTCGTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAA
1 AAAA-TACCTCAACGTGTCGTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--ATTTGA-AA
* * *
21167792 ACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
62 ACAGAAATTGAAATTACCTCAACGTATCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
*
21167857 TTGAAAAAGTAGAAATT
127 TTGAAAAAGCAGAAATT
21167874 AAAA
1 AAAA
21167878 GGTTCAACCA
Statistics
Matches: 134, Mismatches: 11, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
142 4 0.03
143 46 0.34
145 11 0.08
146 62 0.46
147 11 0.08
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.30
Consensus pattern (143 bp):
AAAATACCTCAACGTGTCGTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTGAAAACAG
AAATTGAAATTACCTCAACGTATCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
AAAAGCAGAAATT
Found at i:21168085 original size:127 final size:126
Alignment explanation
Indices: 21167753--21168114 Score: 654
Period size: 125 Copynumber: 2.9 Consensus size: 126
21167743 GTCGTGAGGC
*
21167753 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACATAAATTGAAATTACCTCAGCGTG
1 TCAACTCACCTCTCGCAATATGAGTTGA--TTTTGACAAACAGAAATTGAAATTACCTCAGCGTG
21167818 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGTAGAAATTAAAAGGT
64 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGTAGAAATTAAAAGGT
21167881 TCAAC-CACCTCTCGCAATATGAGTTGATTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTC
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTC
* *
21167945 CTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTGATAAAGTAGAAATTAAAAGGT
66 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGTAGAAATTAAAAGGT
21168006 TCAACTCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCAGCGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATT-TTGACAAACAGAAATTGAAATTACCTCAGCGTGT
*
21168071 CCTGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTGAAA
65 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAA
21168115 CATAAACTAA
Statistics
Matches: 226, Mismatches: 6, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
125 100 0.44
126 24 0.11
127 97 0.43
128 5 0.02
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (126 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTC
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGTAGAAATTAAAAGGT
Found at i:21168178 original size:69 final size:71
Alignment explanation
Indices: 21168006--21168179 Score: 246
Period size: 73 Copynumber: 2.5 Consensus size: 71
21167996 ATTAAAAGGT
** *
21168006 TCAACTCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCAGCGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATT-TTGA-AAACAGAAATAAAAAATACCTCAGCGTGT
*
21168071 CCTGAGGC
64 CCCGAGGC
* *
21168079 TCAACTCACCTTTCGCAATATGAGTTGATTTTG-AAACATAAACTAAAAAATACCTCAGCGTG-C
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAGAAA-TAAAAAATACCTCAGCGTGTC
21168142 CCGAGGC
65 CCGAGGC
21168149 TCAACTCA-CTCTCGCAATATGAGTTGATTTT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTT
21168180 AGGAAAGTAA
Statistics
Matches: 93, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
69 22 0.24
70 23 0.25
71 16 0.17
72 3 0.03
73 29 0.31
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (71 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAACAGAAATAAAAAATACCTCAGCGTGTCC
CGAGGC
Found at i:21168200 original size:70 final size:70
Alignment explanation
Indices: 21168006--21168200 Score: 236
Period size: 73 Copynumber: 2.7 Consensus size: 70
21167996 ATTAAAAGGT
* * *
21168006 TCAACTCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCAGCGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATT-TTGA-AAATAAAAATT-AAAATACCTCAGCGTGT
*
21168071 CCTGAGGC
63 CCCGAGGC
*
21168079 TCAACTCACCTTTCGCAATATGAGTTGATTTTGAAACATAAACTAA--AAAATACCTCAGCGTG-
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAA-ATAAA--AATTAAAATACCTCAGCGTGT
21168141 CCCGAGGC
63 CCCGAGGC
*
21168149 TCAACTCA-CTCTCGCAATATGAGTTGATTTTAGGAAAGTAAAAATTAAAATA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTT--GAAAATAAAAATTAAAATA
21168201 GAATTTGAAT
Statistics
Matches: 108, Mismatches: 7, Indels: 17
0.82 0.05 0.13
Matches are distributed among these distances:
68 2 0.02
69 22 0.20
70 25 0.23
71 21 0.19
72 7 0.06
73 29 0.27
74 2 0.02
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.28
Consensus pattern (70 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAATAAAAATTAAAATACCTCAGCGTGTCCC
GAGGC
Found at i:21168478 original size:126 final size:127
Alignment explanation
Indices: 21168249--21168482 Score: 373
Period size: 126 Copynumber: 1.9 Consensus size: 127
21168239 GACCCGAGGC
* * *
21168249 TCAACTCACCTCTCGCAATATGAGTTGATTCTTCCAAAAATAGAAATTGAAAATACCTCGGCGTG
1 TCAACCCACCTCTCGCAATATGAGTTGATTCTTCCAAAAACAGAAATTGAAAATACCTCAGCGTG
21168314 ATCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTAAAAGGT
66 ATCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTAAAAGGT
* * *
21168376 TCAACCCACCTCTCGCAATATGAGTTGATTCTT-GACAAACAGAAATTGAAATTACCTCAGCGTG
1 TCAACCCACCTCTCGCAATATGAGTTGATTCTTCCAAAAACAGAAATTGAAAATACCTCAGCGTG
* *
21168440 -TCCTGGGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
66 AT-CTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGA
21168483 CAAACAGAAA
Statistics
Matches: 98, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
125 1 0.01
126 65 0.66
127 32 0.33
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (127 bp):
TCAACCCACCTCTCGCAATATGAGTTGATTCTTCCAAAAACAGAAATTGAAAATACCTCAGCGTG
ATCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTAAAAGGT
Found at i:21168509 original size:72 final size:72
Alignment explanation
Indices: 21168376--21168565 Score: 319
Period size: 72 Copynumber: 2.6 Consensus size: 72
21168366 ATTAAAAGGT
* **
21168376 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCAGCGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATT-TTGACAAACAGAAATTGAAATTAAATCAGCGTGT
*
21168441 CCTGGGGC
65 CCTGAGGC
21168449 TCAACTCACCTCTCGCAATATGAGTTGATTTTGACAAACAGAAATTGAAATTAAATCAGCGTGTC
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTGACAAACAGAAATTGAAATTAAATCAGCGTGTC
21168514 CTGAGGC
66 CTGAGGC
*
21168521 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACA-AAATT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTGACAAACAGAAATT
21168566 AAAAGGCTTA
Statistics
Matches: 112, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
71 5 0.04
72 78 0.70
73 29 0.26
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.28
Consensus pattern (72 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTGACAAACAGAAATTGAAATTAAATCAGCGTGTC
CTGAGGC
Found at i:21168683 original size:121 final size:124
Alignment explanation
Indices: 21168446--21168673 Score: 327
Period size: 121 Copynumber: 1.9 Consensus size: 124
21168436 CGTGTCCTGG
* * * * *
21168446 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACAAACAGAAATTGAAATTAAATCAGCGT
1 GGCTCAACTCACCTCTCGCAATATGAGTTCAATTTGACAAACAGAAACTAAAAATAAATCAGCGT
* *
21168511 GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAAAATTAAAA
66 GCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAAAATTAAAA
* * **
21168570 GGCTTAACTCACCTCTCGCAATATGAG-TCAATTT-A-AAACATAAACTAAAAATACCTCAGCGT
1 GGCTCAACTCACCTCTCGCAATATGAGTTCAATTTGACAAACAGAAACTAAAAATAAATCAGCGT
*
21168632 GCCCCGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTT
66 GCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
21168674 TTTTGACAAA
Statistics
Matches: 92, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
121 60 0.65
122 1 0.01
123 5 0.05
124 26 0.28
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (124 bp):
GGCTCAACTCACCTCTCGCAATATGAGTTCAATTTGACAAACAGAAACTAAAAATAAATCAGCGT
GCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAAAATTAAAA
Found at i:21168696 original size:197 final size:200
Alignment explanation
Indices: 21168241--21168749 Score: 712
Period size: 197 Copynumber: 2.6 Consensus size: 200
21168231 CGACATGTGA
* ** * * *
21168241 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTCTTCCAAAAATAGAAATTGAAAATACC
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACAGAAATTGAAATTACC
* * *
21168306 TCGGCGTGAT-CTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTA
66 TCAGCGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGCAAAATTA
* * * * *
21168370 AAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCA
130 AAAGGTTCAACCCACCTCTCGCAATATGAGTTCAATCTTGACAAACAGAAACTAAAAATACCTCA
*
21168435 GCGTGT
195 GCGTGC
* * **
21168441 CCTGGGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTGACAAACAGAAATTGAAATTAAA
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACAGAAATTGAAATTACC
21168504 TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAA-CAAAATTAA
66 TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGCAAAATTAA
* *
21168568 AAGGCTT-AACTCACCTCTCGCAATATGAG-TCAAT-TT-A-AAACATAAACTAAAAATACCTCA
131 AAGG-TTCAACCCACCTCTCGCAATATGAGTTCAATCTTGACAAACAGAAACTAAAAATACCTCA
21168628 GCGTGC
195 GCGTGC
* *
21168634 CCCGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGACAAACATAAATTGAAATTA
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTGACAAACAGAAATTGAAATTA
21168699 CCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
64 CCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
21168750 TTTGAAAAGC
Statistics
Matches: 276, Mismatches: 27, Indels: 15
0.87 0.08 0.05
Matches are distributed among these distances:
193 57 0.21
194 1 0.00
195 2 0.01
196 3 0.01
197 107 0.39
198 72 0.26
200 34 0.12
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (200 bp):
CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACAGAAATTGAAATTACC
TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGCAAAATTAA
AAGGTTCAACCCACCTCTCGCAATATGAGTTCAATCTTGACAAACAGAAACTAAAAATACCTCAG
CGTGC
Found at i:21168731 original size:76 final size:78
Alignment explanation
Indices: 21168605--21168830 Score: 323
Period size: 76 Copynumber: 2.9 Consensus size: 78
21168595 AGTCAATTTA
* * * *
21168605 AAACATAAACTAAAAATACCTCAGCGTGCCCCGAGGTTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACATAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
21168670 TTTTTTTTG-A-C
66 TTTTTTTTGAAGC
* *
21168681 AAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACATAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
21168746 -TTTTTTTGAAAAGC
66 TTTTTTTTG--AAGC
* *
21168760 AGAAGCAAAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCT
1 A-AA-CATAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
21168825 GATTTT
64 GATTTT
21168831 CGAAAACATA
Statistics
Matches: 133, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
75 8 0.06
76 59 0.44
78 1 0.01
79 2 0.02
80 2 0.02
81 58 0.44
82 3 0.02
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (78 bp):
AAACATAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTTTTGAAGC
Found at i:21168804 original size:81 final size:78
Alignment explanation
Indices: 21168617--21168924 Score: 336
Period size: 88 Copynumber: 3.8 Consensus size: 78
21168607 ACATAAACTA
* * ***
21168617 AAAATACCTCAGCGTGCCCCGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTT-TTGAC
1 AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAC
*
21168681 AAA-CATAAATTG
66 AAAGCAAAAATTG
* *
21168693 AAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAA
1 AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAA
21168758 GCAGAAGCAAAAATTG
65 -CA-AAGCAAAAATTG
* *
21168774 AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA-TTTTCGAAAAC
1 AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAC
*
21168838 ATAAATTGAAGAAAATAGAAATTG
66 ----A---AAG--CA-A-AAATTG
* * *
21168862 AAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAA
1 AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAA
21168925 GCATAAATTG
Statistics
Matches: 199, Mismatches: 18, Indels: 18
0.85 0.08 0.08
Matches are distributed among these distances:
76 49 0.25
77 6 0.03
78 2 0.01
79 11 0.06
80 2 0.01
81 58 0.29
82 1 0.01
84 4 0.02
86 1 0.01
87 1 0.01
88 64 0.32
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (78 bp):
AAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAC
AAAGCAAAAATTG
Found at i:21168917 original size:88 final size:88
Alignment explanation
Indices: 21168768--21169025 Score: 414
Period size: 88 Copynumber: 2.9 Consensus size: 88
21168758 GCAGAAGCAA
* *
21168768 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTCG
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
*
21168833 AAAA-CATAAATTGAAGAAAATAG
66 AAAAGCATAAATTGAA-AAAACAG
* * *
21168856 AAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
*
21168921 AAAAGCATAAATTG-AAAAACGG
66 AAAAGCATAAATTGAAAAAACAG
21168943 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCT-TCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT
21169007 GAAAAGCATAAATTGAAAA
65 GAAAAGCATAAATTGAAAA
21169026 TACCTCAACG
Statistics
Matches: 157, Mismatches: 10, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
86 16 0.10
87 64 0.41
88 68 0.43
89 9 0.06
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.26
Consensus pattern (88 bp):
AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
AAAAGCATAAATTGAAAAAACAG
Found at i:21169006 original size:87 final size:87
Alignment explanation
Indices: 21168676--21169025 Score: 468
Period size: 87 Copynumber: 4.1 Consensus size: 87
21168666 TTGATTTTTT
* * * *
21168676 TTGACAAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
21168741 GTTGATTTTTTTGAAAAGC----A
66 GTTGA--TTTTTGAAAAGCATAAA
* *
21168761 --G--AAGCAAAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
* *
21168822 GCTGATTTTCGAAAA-CATAAA
66 GTTGATTTTTGAAAAGCATAAA
* * * *
21168843 TTGAAGAAAATAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTG-A-AAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATAT
21168908 GAGTTGATTTTTGAAAAGCATAAA
64 GAGTTGATTTTTGAAAAGCATAAA
*
21168932 TTGAAAAACGGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCT-TCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
21168996 GTTGATTTTTTGAAAAGCATAAA
66 GTTGA-TTTTTGAAAAGCATAAA
21169019 TTGAAAA
1 TTGAAAA
21169026 TACCTCAACG
Statistics
Matches: 234, Mismatches: 19, Indels: 22
0.85 0.07 0.08
Matches are distributed among these distances:
78 1 0.00
79 9 0.04
81 60 0.26
82 1 0.00
83 1 0.00
84 1 0.00
86 16 0.07
87 68 0.29
88 68 0.29
89 9 0.04
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (87 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTGAAAAGCATAAA
Found at i:21169054 original size:73 final size:74
Alignment explanation
Indices: 21168932--21169159 Score: 269
Period size: 68 Copynumber: 3.2 Consensus size: 74
21168922 AAAGCATAAA
* *
21168932 TTGAAAAACGGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCT-TCGCAATATGA
1 TTGACAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
21168996 GTTGATTTT
66 GTTGATTTT
* * * * * **
21169005 TTGA-AAAGCATAAATTGAAAATACCTCAACGTGTCTTGAGGCTCGACTCATTTCTCGCAATATG
1 TTGACAAA-CAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATG
21169069 A---G---TT
65 AGTTGATTTT
* *
21169073 TTGACAAACAGAAATTGAAATTACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGACAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
21169138 GTTGA--TT
66 GTTGATTTT
*
21169145 TTGAAAAACAGAAAT
1 TTGACAAACAGAAAT
21169160 AAAACATCAA
Statistics
Matches: 130, Mismatches: 18, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
68 54 0.42
69 3 0.02
71 2 0.02
72 19 0.15
73 41 0.32
74 11 0.08
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.28
Consensus pattern (74 bp):
TTGACAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTT
Found at i:21171306 original size:1 final size:1
Alignment explanation
Indices: 21171300--21171349 Score: 64
Period size: 1 Copynumber: 50.0 Consensus size: 1
21171290 ATTTGATTTC
* * * *
21171300 TTTTTTTTTTTCTTGTCTTTTTTTTTTTTTTTTTTTTGTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
21171350 CTTCTTTCAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.00, C:0.04, G:0.04, T:0.92
Consensus pattern (1 bp):
T
Found at i:21171330 original size:23 final size:22
Alignment explanation
Indices: 21171300--21171349 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 22
21171290 ATTTGATTTC
21171300 TTTTTTTTTTTCTTGTCTTTTTT
1 TTTTTTTTTTTCTTGT-TTTTTT
*
21171323 TTTTTTTTTTTTTTGTTTTTTT
1 TTTTTTTTTTTCTTGTTTTTTT
21171345 TTTTT
1 TTTTT
21171350 CTTCTTTCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 11 0.42
23 15 0.58
ACGTcount: A:0.00, C:0.04, G:0.04, T:0.92
Consensus pattern (22 bp):
TTTTTTTTTTTCTTGTTTTTTT
Found at i:21172188 original size:71 final size:72
Alignment explanation
Indices: 21172069--21172484 Score: 414
Period size: 71 Copynumber: 5.6 Consensus size: 72
21172059 AAATTTACTN
* * *
21172069 CTCTCGCAATATAAGTTGATTTTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCT
1 CTCTCGCAATATGAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCT
*
21172134 CAACTCAT
65 CAACTCAC
*
21172142 TTCTCGCAATATGAG-TGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTC
1 CTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTC
21172206 AACTCAC
66 AACTCAC
*
21172213 CTCTCGC-ATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTC
1 CTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTC
21172277 AACTCAC
66 AACTCAC
* ** ** *
21172284 CTCTCGCAATATGAGTTG-ATTTTGACGAACAGAAATTAAAAACAGAAATTGAAAATACCTCAGC
1 CTCTCGCAATATGAGTTGAATTTTGA-AAACAGAAATT-------GAAATT--ACCT-CAAC-GT
* *
21172348 GT-GTGA-GCTGAGACTCAACTCAC
54 GTCTTGAGGCTCA-A--C---TCAC
* * * *
21172371 CTCTCGCAATATGAGTTGATTTTTTGATGAACAGAAATTAAAATTA-CTCAACGTGTCCTGAGGC
1 CTCTCGCAATATGAGTTGA-ATTTTGA-AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGC
21172435 TCAACTCAC
64 TCAACTCAC
*
21172444 CTCTCGCAATATGAGTTG-ATTTTGACGAACAGAAATTGAAA
1 CTCTCGCAATATGAGTTGAATTTTGA-AAACAGAAATTGAAA
21172485 AACAGAAATT
Statistics
Matches: 291, Mismatches: 28, Indels: 50
0.79 0.08 0.14
Matches are distributed among these distances:
70 7 0.02
71 144 0.49
72 23 0.08
73 35 0.12
76 1 0.00
77 3 0.01
78 6 0.02
79 11 0.04
80 1 0.00
81 6 0.02
82 11 0.04
83 3 0.01
84 1 0.00
87 22 0.08
89 17 0.06
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.29
Consensus pattern (72 bp):
CTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTC
AACTCAC
Found at i:21172388 original size:87 final size:86
Alignment explanation
Indices: 21172237--21172413 Score: 268
Period size: 87 Copynumber: 2.0 Consensus size: 86
21172227 TTGATTTTTG
* *
21172237 AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGACTCAACTCACCTCTCGCAATATGAGTTG
21172302 A-TTTTGACGAACAGAAATTA
66 ATTTTTGACGAACAGAAATTA
*
21172322 AAAACAGAAATTGAAAATACCTCAGCGTGTGAGC-TGAGACTCAACTCACCTCTCGCAATATGAG
1 AAAACAGAAATTGAAAATACCTCAACGTGT---CTTGAGACTCAACTCACCTCTCGCAATATGAG
*
21172386 TTGATTTTTTGATGAACAGAAATTA
63 TTGA-TTTTTGACGAACAGAAATTA
21172411 AAA
1 AAA
21172414 TTACTCAACG
Statistics
Matches: 83, Mismatches: 4, Indels: 6
0.89 0.04 0.06
Matches are distributed among these distances:
85 28 0.34
87 33 0.40
88 1 0.01
89 21 0.25
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.27
Consensus pattern (86 bp):
AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGACTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTGACGAACAGAAATTA
Found at i:21172488 original size:14 final size:14
Alignment explanation
Indices: 21172471--21172499 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
21172461 GATTTTGACG
21172471 AACAGAAATTGAAA
1 AACAGAAATTGAAA
21172485 AACAGAAATTGAAA
1 AACAGAAATTGAAA
21172499 A
1 A
21172500 TACCTCAGCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:21172781 original size:72 final size:72
Alignment explanation
Indices: 21172483--21173105 Score: 559
Period size: 72 Copynumber: 8.2 Consensus size: 72
21172473 CAGAAATTGA
* * *
21172483 AAAACAGAAATTGAAAATACCTCAGCGCGTGAGC-TGAGACTCAACTCACCTCTCGCAATATGAG
1 AAAACAGAAATTGAAAATACCTCA--ACGTG-TCTTGAGGCTCAACTCACCTCTCGCAATATGAG
21172547 TT-AATTTTTTTG
63 TTGAA---TTTTG
* *
21172559 ATGAACAGAAATT-AAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 A-AAACAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
21172623 TGATTTTTTTTG
64 TGA---ATTTTG
* * * *
21172635 AAAGACAGAAATTGAGAATACCTCAGCATGTGAAC-CGAGGCTCAACTCACCTCTCGCAATA--A
1 AAA-ACAGAAATTGAAAATACCTCA--ACGTG-TCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
21172697 GTTGATTTTTTTG
62 GTTGA--ATTTTG
**
21172710 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
21172775 AATTTTG
66 AATTTTG
*
21172782 AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
21172847 ATTTTTG
66 AATTTTG
*
21172854 AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
21172919 -ATTTTG
66 AATTTTG
* * * * *
21172925 ACGAACAGAAATTGAAAA-ACAGAAATTGAAAATACCTCAG-CGTGTGA-GCTGAGACTCAACTC
1 A-AAACAGAAATTGAAAATAC-----CT---CA-ACGT--GTC-T-TGAGGCTCA-ACT-----C
*
21172987 ACCTCTCGCAATATGAGTTGATTTTTTTG
46 ACCTCTCGCAATATGAGTTGA--ATTTTG
* *
21173016 ATGAACAGAAATT-AAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 A-AAACAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
21173080 TG-ATTTTG
64 TGAATTTTG
*
21173088 ACGAACAGAAATTGAAAA
1 A-AAACAGAAATTGAAAA
21173106 ACAAAATTGG
Statistics
Matches: 467, Mismatches: 37, Indels: 89
0.79 0.06 0.15
Matches are distributed among these distances:
71 9 0.02
72 196 0.42
73 4 0.01
74 27 0.06
75 68 0.15
76 35 0.07
77 20 0.04
78 29 0.06
79 2 0.00
80 9 0.02
81 6 0.01
82 7 0.01
83 9 0.02
84 1 0.00
87 1 0.00
88 21 0.04
90 4 0.01
91 17 0.04
92 2 0.00
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (72 bp):
AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
AATTTTG
Found at i:21172945 original size:14 final size:14
Alignment explanation
Indices: 21172928--21172956 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
21172918 GATTTTGACG
21172928 AACAGAAATTGAAA
1 AACAGAAATTGAAA
21172942 AACAGAAATTGAAA
1 AACAGAAATTGAAA
21172956 A
1 A
21172957 TACCTCAGCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:21172959 original size:457 final size:455
Alignment explanation
Indices: 21172069--21173331 Score: 1662
Period size: 457 Copynumber: 2.7 Consensus size: 455
21172059 AAATTTACTN
* * *
21172069 CTCTCGCAATATAAGTTGA-TTTTTTGA-AAACAGAAATTGAAAA-TACCTCAACGTGTCTTGAG
1 CTCTCGCAATATGAGTTGATTTTTTTGATGAACAGAAATT-AAAATTACCTCAACGTGTCCTGAG
** *
21172131 GCTCAACTCATTTCTCGCAATATGAG-TGA---ATTTTGAAAACAGAAATTGA-AATTACCTCA-
65 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAACAGAAATTGAGAA-TACCTCAG
* *
21172190 -ACGTG-TCTTGAGGCTCAACTCACCTCTCGCATATGAGTTGA--TTTTTGAAAACAGAAATTGA
129 CACGTGAAC-TGAGGCTCAACTCACCTCTCGCA-ATAAGTTGATTTTTTTGAAAACAGAAATTGA
*
21172251 AATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTGACGAACA
192 AAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTT--------
*
21172315 GAAATTAAAAACAGAAATTGAAAATACCTCAGCGTGTGAGCTGAGACTCAACTCACCTCTCGCAA
249 G------AAAACAGAAATTGAAAATACCTCAGCGTGT---CTGAGGCTCAACTCACCTCTCGCAA
*
21172380 TATGAGTTGATTTTTTGATGAACAGAAATTAAAATTACTCAACGTGTCCTGAGGCTCAACTCACC
305 TATGAGTTGA-TTTTTGATAAACAGAAATTAAAATTACTCAACGTGTCCTGAGGCTCAACTCACC
21172445 TCTCGCAATATGAGTTGATTTTGACGAACAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCG
369 TCTCGCAATATGAGTTGATTTTGACGAACAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCG
21172510 CGTGAGCTGAGACTCAACTCAC
434 CGTGAGCTGAGACTCAACTCAC
*
21172532 CTCTCGCAATATGAGTTAATTTTTTTGATGAACAGAAATTAAAATTACCTCAACGTGTCCTGAGG
1 CTCTCGCAATATGAGTTGATTTTTTTGATGAACAGAAATTAAAATTACCTCAACGTGTCCTGAGG
21172597 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAGAATACCTCAGC
66 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAA-ACAGAAATTGAGAATACCTCAGC
* *
21172662 ATGTGAACCGAGGCTCAACTCACCTCTCGCAATAAGTTGATTTTTTTGAAAACAGAAATTGAAAA
130 ACGTGAACTGAGGCTCAACTCACCTCTCGCAATAAGTTGATTTTTTTGAAAACAGAAATTGAAAA
**
21172727 TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAA
195 TACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAA
* *
21172792 TTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-A
260 TTGAAAATACCTCAGCGTGTC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGATA
* *
21172856 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
324 AACAGAAATTAAAATTA-CTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
21172921 TTTGACGAACAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGTGAGCTGAGACTCAACT
388 TTTGACGAACAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGACTCAACT
21172986 CAC
453 CAC
21172989 CTCTCGCAATATGAGTTGATTTTTTTGATGAACAGAAATTAAAATTACCTCAACGTGTCCTGAGG
1 CTCTCGCAATATGAGTTGATTTTTTTGATGAACAGAAATTAAAATTACCTCAACGTGTCCTGAGG
**
21173054 CTCAACTCACCTCTCGCAATATGAGTTGATTTTGACGAACAGAAATTGAAAAACA-AAATTG-GA
66 CTCAACTCACCTCTCGCAATATGAGTTGATTTT----------TTTTG-AAAACAGAAATTGAG-
* * * *
21173117 AATACCTCAGCGCGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATGA
119 AATACCTCAGCACGTGAACTGAGGCTCAACTCACCTCTCGCAATA--AGTTGATTTTTTTGA-AA
*
21173182 ACAGAAATT-AAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
181 ACAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
* *
21173246 TTTTTTTGATGAACGAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGGCTCAACTCACCTC
244 ---ATTT--TGAA--AACAGAAATTGAAAATACCTCA--GCGTG-TCTGAGGCTCAACTCACCTC
21173311 TCGCAATATGAGTTGATTTTT
299 TCGCAATATGAGTTGATTTTT
21173332 TTGGTAGAAT
Statistics
Matches: 719, Mismatches: 37, Indels: 72
0.87 0.04 0.09
Matches are distributed among these distances:
456 16 0.02
457 218 0.30
458 33 0.05
460 28 0.04
463 17 0.02
464 12 0.02
465 53 0.07
466 50 0.07
467 6 0.01
468 22 0.03
469 64 0.09
470 18 0.03
471 10 0.01
472 26 0.04
473 72 0.10
474 5 0.01
475 4 0.01
477 21 0.03
479 43 0.06
480 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.29
Consensus pattern (455 bp):
CTCTCGCAATATGAGTTGATTTTTTTGATGAACAGAAATTAAAATTACCTCAACGTGTCCTGAGG
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAACAGAAATTGAGAATACCTCAGCA
CGTGAACTGAGGCTCAACTCACCTCTCGCAATAAGTTGATTTTTTTGAAAACAGAAATTGAAAAT
ACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAAT
TGAAAATACCTCAGCGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGATAAA
CAGAAATTAAAATTACTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
GACGAACAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGACTCAACTCAC
Found at i:21173152 original size:162 final size:163
Alignment explanation
Indices: 21172782--21173334 Score: 855
Period size: 162 Copynumber: 3.5 Consensus size: 163
21172772 TTGAATTTTG
* * * *
21172782 AAAACAGAAATTGAAATTACCTCA--ACGTG-TCTTGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAACAGAAATTGAAAATACCTCAGCGCGTGAGC-TGAGACTCAACTCACCTCTCGCAATATGAG
* * *
21172844 TTGA--TTTTTGA-AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTC
65 TTGATTTTTTTGATGAACAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTC
21172906 GCAATATGAGTTGATTTTGACGAACAGAAATTGA
130 GCAATATGAGTTGATTTTGACGAACAGAAATTGA
*
21172940 AAAACAGAAATTGAAAATACCTCAGCGTGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGT
1 AAAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGT
21173005 TGATTTTTTTGATGAACAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCG
66 TGATTTTTTTGATGAACAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCG
21173070 CAATATGAGTTGATTTTGACGAACAGAAATTGA
131 CAATATGAGTTGATTTTGACGAACAGAAATTGA
*
21173103 AAAACA-AAATTGGAAATACCTCAGCGCGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGT
1 AAAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGT
21173167 TGATTTTTTTGATGAACAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCG
66 TGATTTTTTTGATGAACAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCG
****
21173232 CAATATGAGTTGATTTT----TTTTG--A-TGA
131 CAATATGAGTTGATTTTGACGAACAGAAATTGA
* *
21173258 ACGAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 A-AAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAG
21173323 TTGATTTTTTTG
65 TTGATTTTTTTG
21173335 GTAGAATTTG
Statistics
Matches: 370, Mismatches: 17, Indels: 17
0.92 0.04 0.04
Matches are distributed among these distances:
155 4 0.01
156 5 0.01
157 67 0.18
158 24 0.06
160 36 0.10
161 1 0.00
162 145 0.39
163 88 0.24
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.29
Consensus pattern (163 bp):
AAAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTTGATGAACAGAAATTAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCG
CAATATGAGTTGATTTTGACGAACAGAAATTGA
Found at i:21173280 original size:80 final size:81
Alignment explanation
Indices: 21172973--21173333 Score: 307
Period size: 75 Copynumber: 4.5 Consensus size: 81
21172963 AGCGTGTGAG
*
21172973 CTGAGACTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAT----GAACAGAAATTAAAA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGATGAACGAACAGAAATTAAAA
*
21173033 TTACCTCA-ACGTGTC
66 TTACCTCACACGTGAC
* **
21173048 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTGACGAACAGAA-ATTGAAAAAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGATGAAC-GAACA--G-AAATT
** *
21173108 AAAATTGGAAAT-AC-C-TCAGC
62 AAAATT--ACCTCACACGTGA-C
*
21173128 GCGTGA-GCTGAGACTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAT----GAACAGA
1 -C-TGAGGCT----C-A-ACTCACCTCTCGCAATATGAGTTGATTTTTTTTGATGAACGAACAGA
*
21173187 AATTAAAATTACCTCA-ACGTGTC
58 AATTAAAATTACCTCACACGTGAC
21173210 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGATGAACGAACAGAAATTGAAA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGATGAACGAACAGAAATT-AAA
* *
21173275 A-TACCTCAGCGCGTGAG
65 ATTACCTCA-CACGTGAC
21173292 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
21173334 GGTAGAATTT
Statistics
Matches: 230, Mismatches: 20, Indels: 65
0.73 0.06 0.21
Matches are distributed among these distances:
72 6 0.03
75 59 0.26
76 11 0.05
77 4 0.02
78 1 0.00
79 10 0.04
80 24 0.10
81 16 0.07
82 52 0.23
83 10 0.04
84 1 0.00
85 4 0.02
86 1 0.00
87 25 0.11
90 6 0.03
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (81 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGATGAACGAACAGAAATTAAAA
TTACCTCACACGTGAC
Found at i:21173309 original size:82 final size:76
Alignment explanation
Indices: 21173129--21173333 Score: 288
Period size: 82 Copynumber: 2.6 Consensus size: 76
21173119 TACCTCAGCG
* *
21173129 CGTGAGCTGAGACTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGATGAACAGAAATTAA
1 CGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGATGAACAGAAATTAA
21173193 AATTACCTCAA
66 AATTACCTCAA
*
21173204 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGATGAACGAACAGAAA
1 CGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAT----GAACAGAAA
*
21173269 TTGAAAA-TACCTCAGCG
62 TT-AAAATTACCTCA--A
*
21173286 CGTGAGCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 CGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
21173334 GGTAGAATTT
Statistics
Matches: 116, Mismatches: 6, Indels: 9
0.89 0.05 0.07
Matches are distributed among these distances:
75 38 0.33
76 10 0.09
80 18 0.16
81 4 0.03
82 46 0.40
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (76 bp):
CGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGATGAACAGAAATTAA
AATTACCTCAA
Found at i:21185782 original size:33 final size:30
Alignment explanation
Indices: 21185722--21185791 Score: 86
Period size: 33 Copynumber: 2.2 Consensus size: 30
21185712 AAGAAAATAT
*
21185722 ATATATATATATATAAATAATAGTATTAGAA
1 ATATATATATATATAAATAATAATATTA-AA
* *
21185753 ATCATATAGTATATATAACTGATAATATTAAA
1 AT-ATATA-TATATATAAATAATAATATTAAA
21185785 ATATATA
1 ATATATA
21185792 CATAATATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
31 7 0.21
32 9 0.26
33 18 0.53
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.39
Consensus pattern (30 bp):
ATATATATATATATAAATAATAATATTAAA
Found at i:21186013 original size:3 final size:3
Alignment explanation
Indices: 21186005--21186079 Score: 150
Period size: 3 Copynumber: 25.0 Consensus size: 3
21185995 ACAAGGATAT
21186005 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
21186053 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
21186080 GAAACACAAA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 72 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:21186187 original size:3 final size:3
Alignment explanation
Indices: 21186179--21186212 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
21186169 AATGTATTTC
21186179 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
21186213 TTGAAATGCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:21186670 original size:11 final size:11
Alignment explanation
Indices: 21186654--21186683 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
21186644 GAAAAAAAAA
21186654 GAAGAGAGAGG
1 GAAGAGAGAGG
21186665 GAAGAGAGAGG
1 GAAGAGAGAGG
21186676 G-AGAGAGA
1 GAAGAGAGA
21186684 AGGAGGGGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.37
11 12 0.63
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (11 bp):
GAAGAGAGAGG
Found at i:21187228 original size:35 final size:35
Alignment explanation
Indices: 21187188--21187258 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
21187178 GGAGTGTGTG
*
21187188 ATGGTGTTGGTGGCAGACAACATGGGAGAATGGGA
1 ATGGTGCTGGTGGCAGACAACATGGGAGAATGGGA
* *
21187223 ATGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
1 ATGGTGCTGGTGGCAGACAACATGGGAGAATGGGA
21187258 A
1 A
21187259 GAGGCAAGTG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.27, C:0.10, G:0.45, T:0.18
Consensus pattern (35 bp):
ATGGTGCTGGTGGCAGACAACATGGGAGAATGGGA
Found at i:21187910 original size:20 final size:20
Alignment explanation
Indices: 21187887--21187930 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
21187877 GAAAAAAATC
*
21187887 AAATCCAAATTAAAATACTG
1 AAATCCAAAATAAAATACTG
* * *
21187907 AAATTCAAAATAAAGTCCTG
1 AAATCCAAAATAAAATACTG
21187927 AAAT
1 AAAT
21187931 TTAGGATAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.14, G:0.07, T:0.25
Consensus pattern (20 bp):
AAATCCAAAATAAAATACTG
Found at i:21188306 original size:117 final size:117
Alignment explanation
Indices: 21188185--21188410 Score: 416
Period size: 117 Copynumber: 1.9 Consensus size: 117
21188175 TACATCAGTG
* *
21188185 CCATTGAAGATTGTGGACTAAATTTATCAAATAAAAATTAGGATCAAAGTGAAAAAATGAGTAAA
1 CCATTGAAGATTGAGGACCAAATTTATCAAATAAAAATTAGGATCAAAGTGAAAAAATGAGTAAA
*
21188250 TGTTAAGGGCTAATTTTGCCACTATGCGAACCCAACTTTAGGGACACCAATA
66 TGTTAAGGGCTAATTTTGCCACTATGCCAACCCAACTTTAGGGACACCAATA
21188302 CCATTGAAGATTGAGGACCAAATTTATCAAATAAAAATTAGGATCAAAGTGAAAAAATGAGTAAA
1 CCATTGAAGATTGAGGACCAAATTTATCAAATAAAAATTAGGATCAAAGTGAAAAAATGAGTAAA
*
21188367 TGTTAGGGGCTAATTTTGCCACTATGCCAACCCAACTTTAGGGA
66 TGTTAAGGGCTAATTTTGCCACTATGCCAACCCAACTTTAGGGA
21188411 TATGGGTGCT
Statistics
Matches: 105, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
117 105 1.00
ACGTcount: A:0.41, C:0.15, G:0.19, T:0.26
Consensus pattern (117 bp):
CCATTGAAGATTGAGGACCAAATTTATCAAATAAAAATTAGGATCAAAGTGAAAAAATGAGTAAA
TGTTAAGGGCTAATTTTGCCACTATGCCAACCCAACTTTAGGGACACCAATA
Found at i:21191635 original size:2 final size:2
Alignment explanation
Indices: 21191628--21191668 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
21191618 TTTGAAATCG
21191628 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
21191669 TTTAAAAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:21197371 original size:26 final size:26
Alignment explanation
Indices: 21197338--21197447 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
21197328 TGATACAAAT
21197338 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* * * *
21197364 TGACAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
21197390 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
21197416 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
21197442 TGATAA
1 TGATAA
21197448 GAATTTCATG
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:21198958 original size:26 final size:25
Alignment explanation
Indices: 21198918--21198973 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
21198908 TATGTATGGA
**
21198918 AAATTACTGTTATACCCCTAGGAGAT
1 AAATTACTGAAATACCCCTAGG-GAT
* *
21198944 AAATTACTGAAATACCTCTAGGGTT
1 AAATTACTGAAATACCCCTAGGGAT
21198969 AAATT
1 AAATT
21198974 GACCTAAATG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 7 0.27
26 19 0.73
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (25 bp):
AAATTACTGAAATACCCCTAGGGAT
Found at i:21204289 original size:33 final size:33
Alignment explanation
Indices: 21204252--21204318 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
21204242 ACCTCTTTGT
* * *
21204252 TTCACTACCCTCACCAACGTCTGTCTCTCATAA
1 TTCACCACCCTCACCAACATCTGTCGCTCATAA
* * *
21204285 TTCACCATCCTCACCATCATGTGTCGCTCATAA
1 TTCACCACCCTCACCAACATCTGTCGCTCATAA
21204318 T
1 T
21204319 CTCCATCCTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.24, C:0.37, G:0.07, T:0.31
Consensus pattern (33 bp):
TTCACCACCCTCACCAACATCTGTCGCTCATAA
Found at i:21214820 original size:2 final size:2
Alignment explanation
Indices: 21214813--21214850 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
21214803 CGCATCATTC
21214813 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21214851 TACCTTAACC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21215089 original size:2 final size:2
Alignment explanation
Indices: 21215082--21215107 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
21215072 AACATATTTA
21215082 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
21215108 CATCTCATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21216356 original size:43 final size:45
Alignment explanation
Indices: 21216260--21216417 Score: 173
Period size: 43 Copynumber: 3.6 Consensus size: 45
21216250 ATATCGTACA
* ** * * *
21216260 ATGCCAACGTCCCAGATGTGATCTTACATGTAATC--ATATATC-
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAACCAAATATATCG
* * * *
21216302 ATGCCACTGTCCCAGACAGGGTCTTACACG-AATCACATATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAACCAAATATATCG
*
21216345 ATGCCGATGTCCCAGACATGGTCTTACACGTAACCAAATATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAACCAAATATATCG
*
21216390 ATGTCAATGTCCCAGACATGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
21216418 GGAAAATACA
Statistics
Matches: 97, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
41 4 0.04
42 24 0.25
43 32 0.33
44 9 0.09
45 28 0.29
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (45 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAACCAAATATATCG
Found at i:21228449 original size:10 final size:10
Alignment explanation
Indices: 21228428--21228469 Score: 66
Period size: 10 Copynumber: 4.1 Consensus size: 10
21228418 AATGAAATTC
21228428 TAAAAGATAAA
1 TAAAA-ATAAA
*
21228439 TACAAATAAA
1 TAAAAATAAA
21228449 TAAAAATAAA
1 TAAAAATAAA
21228459 TAAAAATAAA
1 TAAAAATAAA
21228469 T
1 T
21228470 CCTAAAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
10 25 0.86
11 4 0.14
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (10 bp):
TAAAAATAAA
Found at i:21233050 original size:22 final size:21
Alignment explanation
Indices: 21233001--21233039 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
21232991 GTCAAAATAG
21233001 AATG-TAA-AAATAATTTAAA
1 AATGATAATAAATAATTTAAA
21233020 AATGATAATAAATGAATTTA
1 AATGATAATAAAT-AATTTA
21233040 TAATATATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 3 0.18
21 4 0.24
22 6 0.35
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (21 bp):
AATGATAATAAATAATTTAAA
Found at i:21233496 original size:3 final size:3
Alignment explanation
Indices: 21233490--21233563 Score: 123
Period size: 3 Copynumber: 24.7 Consensus size: 3
21233480 TATGGTGATG
21233490 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
21233538 ATA ATA ATA ATA A-A TACA ATA ATA AT
1 ATA ATA ATA ATA ATA -ATA ATA ATA AT
21233564 GATATAAAAA
Statistics
Matches: 68, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
2 1 0.01
3 66 0.97
4 1 0.01
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:21241192 original size:45 final size:45
Alignment explanation
Indices: 21241104--21241452 Score: 515
Period size: 45 Copynumber: 7.8 Consensus size: 45
21241094 CTGACATTTC
* * *
21241104 GCCTGCTAGGCTC-GAGGCCCG-ATATCATTTCACCAGCATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAACATTTCACCGGCATTATA
* * ** *
21241147 GCCTGTTAGGCTCGAAA-GCCCAAATAGTATCTCACCGGCATTATA
1 GCCTGCTAGGCTC-AAAGGCCCGAATAACATTTCACCGGCATTATA
* * *
21241192 GCCTGCTAGGCTCAAAGGCTCGAATAATATCTCACCGGCATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAACATTTCACCGGCATTATA
* * *
21241237 GCTTGCTAGGCTCAAAGGCCCGAATAACATGTCACCGGTATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAACATTTCACCGGCATTATA
*
21241282 GCCTGCTAGGCTCAAAGGCCCGAATAACATTTCACCGGTATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAACATTTCACCGGCATTATA
21241327 GCCTGCTAGGCTCAAAGGCCCGAATAACATTTCACCGGCATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAACATTTCACCGGCATTATA
* *
21241372 GCCTACTAGGCTCAAAAGCCCGAATAACATTTCACCGGCATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAACATTTCACCGGCATTATA
21241417 GCCTGCTAGGCTCAAAGGCCCGAATAACATTTCACC
1 GCCTGCTAGGCTCAAAGGCCCGAATAACATTTCACC
21241453 AGTTCTTTCC
Statistics
Matches: 279, Mismatches: 23, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
43 12 0.04
44 7 0.03
45 260 0.93
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
GCCTGCTAGGCTCAAAGGCCCGAATAACATTTCACCGGCATTATA
Found at i:21250743 original size:22 final size:21
Alignment explanation
Indices: 21250694--21250732 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
21250684 GTCAAAATAG
21250694 AATG-TAA-AAATAATTTAAA
1 AATGATAATAAATAATTTAAA
21250713 AATGATAATAAATGAATTTA
1 AATGATAATAAAT-AATTTA
21250733 TAATATATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 3 0.18
21 4 0.24
22 6 0.35
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (21 bp):
AATGATAATAAATAATTTAAA
Found at i:21251185 original size:3 final size:3
Alignment explanation
Indices: 21251177--21251250 Score: 123
Period size: 3 Copynumber: 24.7 Consensus size: 3
21251167 TAATAGTATG
21251177 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
21251225 ATA ATA ATA ATA A-A TACA ATA ATA AT
1 ATA ATA ATA ATA ATA -ATA ATA ATA AT
21251251 GATATAAAAA
Statistics
Matches: 68, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
2 1 0.01
3 66 0.97
4 1 0.01
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:21251882 original size:2 final size:2
Alignment explanation
Indices: 21251875--21251907 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
21251865 AACTCTTCTA
*
21251875 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
21251908 AAAAATAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21259038 original size:18 final size:17
Alignment explanation
Indices: 21259008--21259048 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
21258998 ATTAATTCTG
* *
21259008 AAAAATATTTTTGGGAT
1 AAAAATATATTTGAGAT
21259025 AAAAACTATATTTGAGAT
1 AAAAA-TATATTTGAGAT
21259043 AAAAAT
1 AAAAAT
21259049 GCTTTGAAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.51, C:0.02, G:0.12, T:0.34
Consensus pattern (17 bp):
AAAAATATATTTGAGAT
Found at i:21265978 original size:28 final size:29
Alignment explanation
Indices: 21265921--21265978 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 29
21265911 GATGAAGGTC
21265921 TAGGTATTAAAGTGAGACAAAAAGAAAAT
1 TAGGTATTAAAGTGAGACAAAAAGAAAAT
* *
21265950 TAGGTATCTAAATTGA-A-AAAAATAAAAT
1 TAGGTAT-TAAAGTGAGACAAAAAGAAAAT
21265978 T
1 T
21265979 TAAAGGACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 11 0.42
29 8 0.31
30 7 0.27
ACGTcount: A:0.55, C:0.03, G:0.16, T:0.26
Consensus pattern (29 bp):
TAGGTATTAAAGTGAGACAAAAAGAAAAT
Found at i:21269559 original size:26 final size:26
Alignment explanation
Indices: 21269523--21269575 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
21269513 AATCAGCTGT
21269523 TCATATTTGTTTTATTGAATAAATTC
1 TCATATTTGTTTTATTGAATAAATTC
21269549 TCATATTTGTTTTATTGAATAAATTC
1 TCATATTTGTTTTATTGAATAAATTC
21269575 T
1 T
21269576 ATCTTGTGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.08, G:0.08, T:0.55
Consensus pattern (26 bp):
TCATATTTGTTTTATTGAATAAATTC
Found at i:21271755 original size:19 final size:19
Alignment explanation
Indices: 21271731--21271802 Score: 76
Period size: 19 Copynumber: 3.8 Consensus size: 19
21271721 ATAATAAAAT
21271731 AAAAAGAAAGATAAAAAGA
1 AAAAAGAAAGATAAAAAGA
*
21271750 AAAAAGAAAGATAAAACGA
1 AAAAAGAAAGATAAAAAGA
* * *
21271769 CACATAGAAGGA-AAGAAAGA
1 -AAAAAGAAAGATAA-AAAGA
21271789 AAAAAGAAAG-TAAA
1 AAAAAGAAAGATAAA
21271803 GGAGAAAGTA
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
18 1 0.02
19 29 0.69
20 12 0.29
ACGTcount: A:0.72, C:0.04, G:0.18, T:0.06
Consensus pattern (19 bp):
AAAAAGAAAGATAAAAAGA
Found at i:21275204 original size:15 final size:15
Alignment explanation
Indices: 21275184--21275214 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
21275174 GTTGATAAAG
21275184 TATCACAAAATGCTC
1 TATCACAAAATGCTC
21275199 TATCACAAAATGCTC
1 TATCACAAAATGCTC
21275214 T
1 T
21275215 CGGAAGGGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.26, G:0.06, T:0.29
Consensus pattern (15 bp):
TATCACAAAATGCTC
Found at i:21289281 original size:93 final size:93
Alignment explanation
Indices: 21289169--21289340 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
21289159 GCCCATAAGT
* *
21289169 GAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAG-TTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
21289233 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
21289262 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
21289327 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
21289341 CAAATATCCC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:21289336 original size:46 final size:46
Alignment explanation
Indices: 21289161--21289336 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
21289151 TGTAACCCGC
* *
21289161 CCATAAGTGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACGCTCGCAT
* *
21289207 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
21289257 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
21289300 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
21289337 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 4 0.04
46 66 0.59
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:21289355 original size:46 final size:45
Alignment explanation
Indices: 21289212--21289355 Score: 148
Period size: 46 Copynumber: 3.1 Consensus size: 45
21289202 CGCATCCATA
* *
21289212 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * *
21289260 A-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
21289305 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
21289351 AGTGA
1 AGTGA
21289356 CATGTCACTT
Statistics
Matches: 78, Mismatches: 13, Indels: 12
0.76 0.13 0.12
Matches are distributed among these distances:
43 4 0.05
45 1 0.01
46 37 0.47
47 31 0.40
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:21295673 original size:13 final size:13
Alignment explanation
Indices: 21295655--21295679 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21295645 AAATATCAAG
21295655 AATGATTTAAAAC
1 AATGATTTAAAAC
21295668 AATGATTTAAAA
1 AATGATTTAAAA
21295680 TTTTAAAACT
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:0.56, C:0.04, G:0.08, T:0.32
Consensus pattern (13 bp):
AATGATTTAAAAC
Found at i:21298682 original size:34 final size:34
Alignment explanation
Indices: 21298639--21298704 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
21298629 GAGAACGAGA
21298639 AGCAATCGGAAGTCATCCAACAACTTAGACGTTG
1 AGCAATCGGAAGTCATCCAACAACTTAGACGTTG
*
21298673 AGCAATCGGAAGTCCTCCAACAACTTAGACGT
1 AGCAATCGGAAGTCATCCAACAACTTAGACGT
21298705 CGGTTTGTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.20
Consensus pattern (34 bp):
AGCAATCGGAAGTCATCCAACAACTTAGACGTTG
Found at i:21299154 original size:31 final size:31
Alignment explanation
Indices: 21299119--21299184 Score: 125
Period size: 31 Copynumber: 2.2 Consensus size: 31
21299109 TAATTAAGTT
21299119 ATAAAGCATGAATTTTGGACATCTGTTAGTG
1 ATAAAGCATGAATTTTGGACATCTGTTAGTG
21299150 ATAAAGCATGAATTTTGGACATCTGTTAGTG
1 ATAAAGCATGAATTTTGGACATCTGTTAGTG
21299181 -TAAA
1 ATAAA
21299185 ATAGAATATT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 4 0.11
31 31 0.89
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (31 bp):
ATAAAGCATGAATTTTGGACATCTGTTAGTG
Found at i:21300126 original size:27 final size:25
Alignment explanation
Indices: 21300083--21300138 Score: 60
Period size: 27 Copynumber: 2.2 Consensus size: 25
21300073 AAGACCAATG
21300083 AATTAAATGATAAAAAAGTATAAAACA
1 AATTAAATGATAAAAAA-TAT-AAACA
* *
21300110 AATTAAAAT-ATATAAAATGTAAACA
1 AATT-AAATGATAAAAAATATAAACA
21300135 AATT
1 AATT
21300139 TTAGAATGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 9 0.35
26 2 0.08
27 11 0.42
28 4 0.15
ACGTcount: A:0.64, C:0.04, G:0.05, T:0.27
Consensus pattern (25 bp):
AATTAAATGATAAAAAATATAAACA
Found at i:21300291 original size:24 final size:25
Alignment explanation
Indices: 21300258--21300316 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
21300248 AGATAATATG
* *
21300258 TATATATAAAAGTGTAAAATAAATAA
1 TATATA-AAAAATCTAAAATAAATAA
*
21300284 TATTTAAAAAATCTAAAATAAATAA
1 TATATAAAAAATCTAAAATAAATAA
21300309 TA-ATAAAA
1 TATATAAAA
21300317 TCATTTGAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 5 0.17
25 19 0.66
26 5 0.17
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (25 bp):
TATATAAAAAATCTAAAATAAATAA
Found at i:21300374 original size:25 final size:23
Alignment explanation
Indices: 21300340--21300420 Score: 71
Period size: 26 Copynumber: 3.4 Consensus size: 23
21300330 GTAAAAAGGG
21300340 TTTAAAATAAGGTATATAAGAT-AA
1 TTTAAAATAA-GTATATAAG-TCAA
21300364 TTTTAAAATAAGTAATATATAAGTCAA
1 -TTTAAAATAAG---TATATAAGTCAA
21300391 TTTAAAATAA-TATATAA--CAA
1 TTTAAAATAAGTATATAAGTCAA
21300411 GTTTAAAATA
1 -TTTAAAATA
21300421 TATAATATGT
Statistics
Matches: 51, Mismatches: 0, Indels: 14
0.78 0.00 0.22
Matches are distributed among these distances:
20 3 0.06
21 9 0.18
22 7 0.14
24 1 0.02
25 10 0.20
26 11 0.22
27 10 0.20
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.36
Consensus pattern (23 bp):
TTTAAAATAAGTATATAAGTCAA
Found at i:21300392 original size:27 final size:24
Alignment explanation
Indices: 21300340--21300406 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 24
21300330 GTAAAAAGGG
*
21300340 TTTAAAATAAGGTATATAAGATAA
1 TTTAAAATAAGATATATAAGATAA
21300364 TTTTAAAATAAGTAATATATAAG-TCAA
1 -TTTAAAATAAG--ATATATAAGAT-AA
*
21300391 TTTAAAATAATATATA
1 TTTAAAATAAGATATA
21300407 ACAAGTTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
24 5 0.14
25 11 0.30
26 11 0.30
27 10 0.27
ACGTcount: A:0.54, C:0.01, G:0.07, T:0.37
Consensus pattern (24 bp):
TTTAAAATAAGATATATAAGATAA
Found at i:21300423 original size:20 final size:21
Alignment explanation
Indices: 21300376--21300424 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
21300366 TTAAAATAAG
21300376 TAATATATAAGTCAATTTAAAA
1 TAATATATAAG-CAATTTAAAA
21300398 TAATATATAA-CAAGTTTAAAA
1 TAATATATAAGCAA-TTTAAAA
21300419 T-ATATA
1 TAATATA
21300425 ATATGTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 8 0.31
21 8 0.31
22 10 0.38
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.37
Consensus pattern (21 bp):
TAATATATAAGCAATTTAAAA
Found at i:21300570 original size:25 final size:24
Alignment explanation
Indices: 21300503--21300572 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 24
21300493 AAAAAAACTT
* *
21300503 ATTTGAAATACATAATATACAATA
1 ATTTGAAATAAATAATATAAAATA
* * *
21300527 ACTTAAGAATAAACAATATAAAATA
1 ATTTGA-AATAAATAATATAAAATA
21300552 ATTTGAAATAAATATATATAA
1 ATTTGAAATAAATA-ATATAA
21300573 CAAAACAGTT
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
24 11 0.31
25 25 0.69
ACGTcount: A:0.59, C:0.06, G:0.04, T:0.31
Consensus pattern (24 bp):
ATTTGAAATAAATAATATAAAATA
Found at i:21303522 original size:13 final size:13
Alignment explanation
Indices: 21303504--21303530 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
21303494 TCAGTAATCG
21303504 CACACGGGTGTGT
1 CACACGGGTGTGT
21303517 CACACGGGTGTGT
1 CACACGGGTGTGT
21303530 C
1 C
21303531 CTTGCCGAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.26, G:0.37, T:0.22
Consensus pattern (13 bp):
CACACGGGTGTGT
Found at i:21306931 original size:23 final size:22
Alignment explanation
Indices: 21306888--21306932 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
21306878 GTTAAATTGA
* **
21306888 ATTGTATGTATGTGATTGTATT
1 ATTGTATGTATATGAAAGTATT
21306910 ATTGTCATGTATATGAAAGTATT
1 ATTGT-ATGTATATGAAAGTATT
21306933 CACATATTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.29, C:0.02, G:0.20, T:0.49
Consensus pattern (22 bp):
ATTGTATGTATATGAAAGTATT
Found at i:21307258 original size:26 final size:26
Alignment explanation
Indices: 21307201--21307251 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
21307191 CCCGTTATAT
*
21307201 GGCTCTTCGTGAGCTTCTCGATTAAA
1 GGCTCTTCGTGAGCTTATCGATTAAA
* *
21307227 GGCTCTTTGTGAGCTTATTGATTAA
1 GGCTCTTCGTGAGCTTATCGATTAA
21307252 TGTCTCTCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.39
Consensus pattern (26 bp):
GGCTCTTCGTGAGCTTATCGATTAAA
Found at i:21309125 original size:16 final size:17
Alignment explanation
Indices: 21309106--21309144 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
21309096 TATTTTCTTA
*
21309106 TTTTCTTTTATTTAT-T
1 TTTTATTTTATTTATCT
21309122 TTTTATTTTATTTATCT
1 TTTTATTTTATTTATCT
21309139 TTTTAT
1 TTTTAT
21309145 ATGTTTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTATTTTATTTATCT
Found at i:21309155 original size:27 final size:26
Alignment explanation
Indices: 21309103--21309157 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
21309093 TCTTATTTTC
* *
21309103 TTATTTTCTTTTATTTATTTTTTATT
1 TTATTTTCTTTTATATATTTTATATT
21309129 TTATTTATCTTTT-TATATGTTTATATT
1 TTATTT-TCTTTTATATAT-TTTATATT
21309156 TT
1 TT
21309158 GCCCTAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 10 0.40
27 15 0.60
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (26 bp):
TTATTTTCTTTTATATATTTTATATT
Found at i:21309319 original size:3 final size:3
Alignment explanation
Indices: 21309313--21309356 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
21309303 GTTTGTGTTG
*
21309313 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
21309357 TAAACCATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:21312158 original size:39 final size:39
Alignment explanation
Indices: 21312100--21312175 Score: 134
Period size: 39 Copynumber: 1.9 Consensus size: 39
21312090 GAATGAAAAG
21312100 GTTTGCTGCCAACCCGATGACTACCCCTGAATATGACCA
1 GTTTGCTGCCAACCCGATGACTACCCCTGAATATGACCA
* *
21312139 GTTTGTTGCCAACCTGATGACTACCCCTGAATATGAC
1 GTTTGCTGCCAACCCGATGACTACCCCTGAATATGAC
21312176 AAGTGGTGGG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.26
Consensus pattern (39 bp):
GTTTGCTGCCAACCCGATGACTACCCCTGAATATGACCA
Found at i:21316624 original size:50 final size:50
Alignment explanation
Indices: 21316455--21316737 Score: 161
Period size: 50 Copynumber: 5.9 Consensus size: 50
21316445 ATTGGAGCCA
* * * *
21316455 CAAATTTTATCTCCCTAAAGTTGTAATGGAGCATATCGAAGTTACCATGG
1 CAAATCTTATCTCCTTATAGTTGTAGTGGAGCATATCGAAGTTACCATGG
* * * *
21316505 CGAATCTTACCTCCCTATAGTTGTAGTGG-G-ATAGATTGAAG---CCA---
1 CAAATCTTATCTCCTTATAGTTGTAGTGGAGCAT--ATCGAAGTTACCATGG
* * *
21316549 CAAATTTTATCTCCCTGA-ATTTGTAGTGGAGCATATCGAAGTTACCATGG
1 CAAATCTTATCT-CCTTATAGTTGTAGTGGAGCATATCGAAGTTACCATGG
* * * *
21316599 CAAATCTTATCTTCTTATAGTTGTAGTAGG-GTAGATTGAAG---CCA---
1 CAAATCTTATCTCCTTATAGTTGTAGT-GGAGCATATCGAAGTTACCATGG
** * * * *
21316643 CAGTTTTTATCTCTTTGA-AGTTGCAGTGGAGCATATCGAAGTTATCATGG
1 CAAATCTTATCTCCTT-ATAGTTGTAGTGGAGCATATCGAAGTTACCATGG
* * * *
21316693 CAAATCTTATCTCTCTGA-AGTTGCAGTGGAGCAGATTGAAGTTAC
1 CAAATCTTATCTC-CTTATAGTTGTAGTGGAGCATATCGAAGTTAC
21316738 AAGTCTTATC
Statistics
Matches: 173, Mismatches: 38, Indels: 44
0.68 0.15 0.17
Matches are distributed among these distances:
43 2 0.01
44 52 0.30
45 5 0.03
46 2 0.01
47 11 0.06
48 2 0.01
49 4 0.02
50 92 0.53
51 3 0.02
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (50 bp):
CAAATCTTATCTCCTTATAGTTGTAGTGGAGCATATCGAAGTTACCATGG
Found at i:21316702 original size:94 final size:94
Alignment explanation
Indices: 21316413--21316759 Score: 412
Period size: 94 Copynumber: 3.7 Consensus size: 94
21316403 TATTATGACT
* * * * *
21316413 AATCTTACCTCCTTATAGTTGTAGTAGAGCAAATTGGAGCCACAAATTTTATCTCCCTAAAGTTG
1 AATCTTACCTCCTTATAGTTGTAGTAGGGTAGATTGAAGCCACAAATTTTATCTCCCTGAAGTTG
* *
21316478 TAATGGAGCATATCGAAGTTACCATGGCG
66 TAGTGGAGCATATCGAAGTTACCATGGCA
* *
21316507 AATCTTACCTCCCTATAGTTGTAGT-GGGATAGATTGAAGCCACAAATTTTATCTCCCTGAATTT
1 AATCTTACCTCCTTATAGTTGTAGTAGGG-TAGATTGAAGCCACAAATTTTATCTCCCTGAAGTT
21316571 GTAGTGGAGCATATCGAAGTTACCATGGCA
65 GTAGTGGAGCATATCGAAGTTACCATGGCA
* * ** **
21316601 AATCTTATCTTCTTATAGTTGTAGTAGGGTAGATTGAAGCCACAGTTTTTATCTCTTTGAAGTTG
1 AATCTTACCTCCTTATAGTTGTAGTAGGGTAGATTGAAGCCACAAATTTTATCTCCCTGAAGTTG
* *
21316666 CAGTGGAGCATATCGAAGTTATCATGGCA
66 TAGTGGAGCATATCGAAGTTACCATGGCA
* * * * ** * * *
21316695 AATCTTATCTCTCTGA-AGTTGCAGT-GGAGCAGATTGAAGTTACAAGTCTTATCTACCTGAAGT
1 AATCTTACCTC-CTTATAGTTGTAGTAGG-GTAGATTGAAGCCACAAATTTTATCTCCCTGAAGT
21316758 TG
64 TG
21316760 CAGTAGAGTA
Statistics
Matches: 218, Mismatches: 31, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
93 4 0.02
94 208 0.95
95 6 0.03
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (94 bp):
AATCTTACCTCCTTATAGTTGTAGTAGGGTAGATTGAAGCCACAAATTTTATCTCCCTGAAGTTG
TAGTGGAGCATATCGAAGTTACCATGGCA
Found at i:21316760 original size:44 final size:43
Alignment explanation
Indices: 21316693--21317090 Score: 226
Period size: 44 Copynumber: 8.8 Consensus size: 43
21316683 GTTATCATGG
21316693 CAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGTTA
1 CAAATCTTATCTC-CTGAAGTTGCAGTGGAGCAGATTGAAGTTA
* * * * * *
21316737 CAAGTCTTATCTACCTGAAGTTGCAGTAGAGTAGGTTAAAGATAA
1 CAAATCTTATCT-CCTGAAGTTGCAGTGGAGCAGATTGAAG-TTA
* * * * * *
21316782 CGAGTCTTATCTCCCTGAAGTTGCAGTAGAGGAGACTGAAGATA
1 CAAATCTTATCT-CCTGAAGTTGCAGTGGAGCAGATTGAAGTTA
* * * * * **
21316826 GCAAATCTTATCTCTCTAAATTTGAAGTAGAGCAGATTAAAGCGA
1 -CAAATCTTATCTC-CTGAAGTTGCAGTGGAGCAGATTGAAGTTA
* * * * *
21316871 TAAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTGAAGCTA
1 CAAATCTTATCT-CCTGAAGTTGCAGTGGAGCAGATTGAAGTTA
* ** * * * **
21316915 CTAATCCAATTTCCTTGAAGTTGCAGTGGAGCGGATTAAAGCGA
1 CAAATCTTATCTCC-TGAAGTTGCAGTGGAGCAGATTGAAGTTA
* * * *
21316959 TAAATCTTATAC-CTCTGAAGTTGCAGTAGG-TCGGATT-AAATCTA
1 CAAATCTTAT-CTC-CTGAAGTTGCAGT-GGAGCAGATTGAAGT-TA
**
21317003 CTATAACTACAAATCTCATCTCCTTGAAGTTGCAGTGGAATAGATTGAAGTTA
1 C-A-AA-T-C---T-T-ATCTCC-TGAAGTTGCAGTGGAGCAGATTGAAGTTA
21317056 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
1 CAAATCTTATCT-CCTGAAGTTGCAGTGGAGCAGA
21317091 CTTAAGATAG
Statistics
Matches: 269, Mismatches: 61, Indels: 48
0.71 0.16 0.13
Matches are distributed among these distances:
43 4 0.01
44 146 0.54
45 78 0.29
46 3 0.01
47 1 0.00
48 1 0.00
49 1 0.00
50 1 0.00
51 3 0.01
52 6 0.02
53 22 0.08
54 3 0.01
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (43 bp):
CAAATCTTATCTCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA
Found at i:21316799 original size:45 final size:45
Alignment explanation
Indices: 21316697--21316897 Score: 194
Period size: 45 Copynumber: 4.5 Consensus size: 45
21316687 TCATGGCAAA
* * * *
21316697 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAG-TTACAAG
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGATAACAAG
* * * *
21316741 TCTTATCTACCTGAAGTTGCAGTAGAGTAGGTTAAAGATAACGAG
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGATAACAAG
* * * * *
21316786 TCTTATCTCCCTGAAGTTGCAGTAGAGGAGACTGAAGATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGATAACAAG
* * * *
21316831 TCTTATCTCTCTAAATTTGAAGTAGAGCAGATTAAAGCGAT-A-AA-
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAA--GATAACAAG
*
21316875 CCTTATCTCCCTGAAGTTGCAGT
1 TCTTATCTCCCTGAAGTTGCAGT
21316898 GGAGTAGGTT
Statistics
Matches: 125, Mismatches: 29, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
44 49 0.39
45 73 0.58
47 3 0.02
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGATAACAAG
Found at i:21316822 original size:89 final size:88
Alignment explanation
Indices: 21316694--21316987 Score: 240
Period size: 89 Copynumber: 3.3 Consensus size: 88
21316684 TTATCATGGC
* * * * * *
21316694 AAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-CAAGTCTTATCTAC-CTGAAG
1 AAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGCAAATCTTATCT-CTCTAAAG
* * *
21316757 TTGCAGTAGAGTAGGTTAAA-GAT
65 TTGAAGTAGAGCAGATTAAACGAT
*
21316780 AACGAGTCTTATCTCCCTGAAGTTGCAGTAGAGGAGACTGAAGATAGCAAATCTTATCTCTCTAA
1 AA--A-TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGCAAATCTTATCTCTCTAA
*
21316845 ATTTGAAGTAGAGCAGATTAAAGCGAT
63 AGTTGAAGTAGAGCAGATTAAA-CGAT
* * * ** * * ** * *
21316872 AAACCTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTGAAGCTA-CTAATCCAATTTC-CTTGAAG
1 AAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGCAAATCTTATCTCTC-TAAAG
* * *
21316935 TTGCAGTGGAGCGGATTAAAGCGAT
65 TTGAAGTAGAGCAGATTAAA-CGAT
*
21316960 AAATCTTATAC-CTCTGAAGTTGCAGTAG
1 AAATCTTAT-CTCCCTGAAGTTGCAGTAG
21316988 GTCGGATTAA
Statistics
Matches: 170, Mismatches: 29, Indels: 16
0.79 0.13 0.07
Matches are distributed among these distances:
86 2 0.01
87 1 0.01
88 58 0.34
89 71 0.42
90 33 0.19
92 5 0.03
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (88 bp):
AAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGCAAATCTTATCTCTCTAAAGT
TGAAGTAGAGCAGATTAAACGAT
Found at i:21318522 original size:40 final size:40
Alignment explanation
Indices: 21318460--21318677 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
21318450 AAGCCAAGTA
* * * * *
21318460 CCTTCGGGATTTA-ACCGGATATAGCT-ACTTGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
21318499 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
21318539 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
21318579 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
21318619 CCTTCGGGACTTAGCCCGGGA-CTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCC-GGATATAGTAACTCGCACAAATG
21318659 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
21318678 TTATCATCCG
Statistics
Matches: 165, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
39 14 0.08
40 148 0.90
41 3 0.02
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:21324613 original size:20 final size:20
Alignment explanation
Indices: 21324572--21324613 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
21324562 ATTTCCCACG
* *
21324572 TTGGCCCATTTTCTCATTTT
1 TTGGCCCATTTTCGCATCTT
21324592 TTGGCCCATTTATCGC-TCTT
1 TTGGCCCATTT-TCGCATCTT
21324612 TT
1 TT
21324614 TACTCTCTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.10, C:0.26, G:0.12, T:0.52
Consensus pattern (20 bp):
TTGGCCCATTTTCGCATCTT
Found at i:21326944 original size:46 final size:47
Alignment explanation
Indices: 21326883--21327015 Score: 169
Period size: 48 Copynumber: 2.8 Consensus size: 47
21326873 GTCTCACACC
** *
21326883 CTAAGTGCCAATATCATGACCTGAAGCCAAATCAATGTAACT-CACA
1 CTAAGTGCCAATATCATGACCCAAAGCCAACTCAATGTAACTCCACA
* * *
21326929 CTAAGTGCCAATATCATGGCCCAAATCCAACTCAATGTAACTCGCACC
1 CTAAGTGCCAATATCATGACCCAAAGCCAACTCAATGTAACTC-CACA
* * *
21326977 CGAAGTGCAAATATCATGTCCCAAAGCCAACTCAATGTA
1 CTAAGTGCCAATATCATGACCCAAAGCCAACTCAATGTA
21327016 TCCCCTAATG
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
46 37 0.49
48 38 0.51
ACGTcount: A:0.37, C:0.29, G:0.14, T:0.21
Consensus pattern (47 bp):
CTAAGTGCCAATATCATGACCCAAAGCCAACTCAATGTAACTCCACA
Found at i:21326992 original size:48 final size:46
Alignment explanation
Indices: 21326879--21327015 Score: 175
Period size: 46 Copynumber: 2.9 Consensus size: 46
21326869 GGGAGTCTCA
** *
21326879 CACCCTAAGTGCCAATATCATGACCTGAAGCCAAATCAATGTAACT
1 CACCCTAAGTGCCAATATCATGACCCAAAGCCAACTCAATGTAACT
* * *
21326925 CACACTAAGTGCCAATATCATGGCCCAAATCCAACTCAATGTAACT
1 CACCCTAAGTGCCAATATCATGACCCAAAGCCAACTCAATGTAACT
* * *
21326971 CGCACCCGAAGTGCAAATATCATGTCCCAAAGCCAACTCAATGTA
1 --CACCCTAAGTGCCAATATCATGACCCAAAGCCAACTCAATGTA
21327016 TCCCCTAATG
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
46 40 0.51
48 38 0.49
ACGTcount: A:0.36, C:0.30, G:0.13, T:0.20
Consensus pattern (46 bp):
CACCCTAAGTGCCAATATCATGACCCAAAGCCAACTCAATGTAACT
Found at i:21327894 original size:2 final size:2
Alignment explanation
Indices: 21327887--21327911 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
21327877 GAGACTAGTC
21327887 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
21327912 CATGTCATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21330109 original size:46 final size:46
Alignment explanation
Indices: 21330059--21330230 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
21330049 TGAGCATCCA
21330059 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* * * *
21330105 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCG
* * * *
21330152 AACTCATTGAGTTGATTCCGAGTTCACCTATGGATGCGAATG-CCC
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
*
21330197 AAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 AA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
21330231 GCGGGTTACA
Statistics
Matches: 100, Mismatches: 16, Indels: 20
0.74 0.12 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 7 0.07
46 52 0.52
47 27 0.27
48 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
Found at i:21330211 original size:93 final size:93
Alignment explanation
Indices: 21330052--21330223 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
21330042 GGATGGTTGA
* * *
21330052 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCCAACTCGTTGAGT
21330117 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
21330145 GCATCCGAACTCATTGAGTTGATTCCGAGTTCACCTATGGATGCGAATG-CCCAAGCTCGTTGAG
1 GCATCCAAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCCAA-CTCGTTGAG
21330209 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
21330224 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 4 0.05
93 69 0.95
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCAAACTCATTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCCAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:21332334 original size:23 final size:23
Alignment explanation
Indices: 21332308--21332362 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
21332298 ATATAATAAA
* *
21332308 TATATATATTTTTTATTTTTAAT
1 TATATATATATTTTAGTTTTAAT
*
21332331 TATATTTATATTTTAGTTTTAAT
1 TATATATATATTTTAGTTTTAAT
*
21332354 TTTA-ATATA
1 TATATATATA
21332363 ATCAATTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 4 0.15
23 23 0.85
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (23 bp):
TATATATATATTTTAGTTTTAAT
Found at i:21332420 original size:40 final size:40
Alignment explanation
Indices: 21332376--21332456 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
21332366 AATTTTTATT
21332376 ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
1 ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
** * * * *
21332416 ATATATTTTTTATTTGTTTCTTGTTTTAATATTTGTTTTA
1 ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
21332456 A
1 A
21332457 ATGCATTTGA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.25, C:0.02, G:0.10, T:0.63
Consensus pattern (40 bp):
ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
Done.