Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 27 of 325
Found at i:10055223 original size:7 final size:7
Alignment explanation
Indices: 10055213--10055245 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
10055203 CATAGTACAT
10055213 AATACTA
1 AATACTA
10055220 AATACTA
1 AATACTA
10055227 AATACTA
1 AATACTA
*
10055234 AATACCA
1 AATACTA
10055241 AATAC
1 AATAC
10055246 GAAACGACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.58, C:0.18, G:0.00, T:0.24
Consensus pattern (7 bp):
AATACTA
Found at i:10056339 original size:48 final size:46
Alignment explanation
Indices: 10056254--10056387 Score: 144
Period size: 48 Copynumber: 2.8 Consensus size: 46
10056244 ATGCAAACAT
* ** *
10056254 CATAAATGAAAAAAAATCAAGCAGTATTGAAATTTTAATTATAA-TTG
1 CATAAATGAAAAAATATCAAATAGTATTGAAA-TTTAATTA-AATTTA
*
10056301 CATAAATGAATAAAATACCAAATAGTATTGCAAATTTAATTAAATTTA
1 CATAAATGAA-AAAATATCAAATAGTATTG-AAATTTAATTAAATTTA
* *
10056349 CATAAATTAAAAAAATATCGAATAGTATTGAAAATTTAA
1 CATAAA-TGAAAAAATATCAAATAGTATTG-AAATTTAA
10056388 AATTATCACT
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
47 12 0.16
48 56 0.76
49 6 0.08
ACGTcount: A:0.53, C:0.07, G:0.08, T:0.32
Consensus pattern (46 bp):
CATAAATGAAAAAATATCAAATAGTATTGAAATTTAATTAAATTTA
Found at i:10058979 original size:26 final size:28
Alignment explanation
Indices: 10058929--10058982 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
10058919 GAGCTCATCT
* *
10058929 AAAATCAGTCAGTGTTATAACCTTTTAA
1 AAAACCAGTCAGTGTTACAACCTTTTAA
10058957 AAAACCAGTCAGTG-TACAA-CTTTTAA
1 AAAACCAGTCAGTGTTACAACCTTTTAA
10058983 GTGAGAAGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 7 0.29
27 4 0.17
28 13 0.54
ACGTcount: A:0.41, C:0.17, G:0.11, T:0.31
Consensus pattern (28 bp):
AAAACCAGTCAGTGTTACAACCTTTTAA
Found at i:10070422 original size:84 final size:84
Alignment explanation
Indices: 10070308--10070940 Score: 721
Period size: 84 Copynumber: 7.6 Consensus size: 84
10070298 AGTCGCTTCC
* * * * * ****
10070308 GCTTTAGCGATCTCAAAATCGGCCCATTTTCTTGCTTCAACAGCCTTCTTCTTGGTTTCTTCTGC
1 GCTTTAGCCATCTCCAAATCAGCACATTTTCTTTCTTCAACAGCCTTCTTCTTCAACTCTTCTGC
* * *
10070373 AATCTTTCTTTGCGCCTCT
66 AATCTTCCTTTGCTCCTGT
* ** ** * *
10070392 GCTTCAGCCATCTGTAAATCAGCATGTTTTCGTTCTTCAACTGCCTTCTTCTT-AATCTCTTCTG
1 GCTTTAGCCATCTCCAAATCAGCACATTTTCTTTCTTCAACAGCCTTCTTCTTCAA-CTCTTCTG
10070456 CAATCTT-CTTCTGCTCCTGT
65 CAATCTTCCTT-TGCTCCTGT
* *
10070476 GCTTTAGCCATCTCCAAAGC--CACATGTTTTCTTTCTTCAACAGCCTTCTTCTTCGACTCTTCT
1 GCTTTAGCCATCTCCAAATCAGCACA--TTTTCTTTCTTCAACAGCCTTCTTCTTCAACTCTTCT
* *
10070539 GCAATCTTCCTCTCCTCCTGT
64 GCAATCTTCCTTTGCTCCTGT
* ** *
10070560 GCTTTAGCCATCTCCAAAGCAGCATGTTTTCTTTCTTCAGA-AGCCTTCTTCTTCAATTCTTCTG
1 GCTTTAGCCATCTCCAAATCAGCACATTTTCTTTCTTCA-ACAGCCTTCTTCTTCAACTCTTCTG
*
10070624 CAGTCTTCCTCTT-CTCCTGT
65 CAATCTTCCT-TTGCTCCTGT
* *
10070644 GCTTTAGCAATCTCCAAATCAGCACATTTTCTTTCTTCAACAGCCTTCTTCTTCAATTCTTCTGC
1 GCTTTAGCCATCTCCAAATCAGCACATTTTCTTTCTTCAACAGCCTTCTTCTTCAACTCTTCTGC
*
10070709 AGTCTTCCTTTGCTCCTGT
66 AATCTTCCTTTGCTCCTGT
* *
10070728 GCTTTAGCAATCTCCAAATCAGCACATTTTCTTTCTTCAACAGCCTTCTTCTTCATCTCTTCTGC
1 GCTTTAGCCATCTCCAAATCAGCACATTTTCTTTCTTCAACAGCCTTCTTCTTCAACTCTTCTGC
* * *
10070793 AACCTTCCTCTCCTCCTGT
66 AATCTTCCTTTGCTCCTGT
* * * *
10070812 GCTTTAGCCATCTCCAGATCAGCACATTTTCTATCTTCAACAG-C-T-TTCTT-AGATTTTTC-G
1 GCTTTAGCCATCTCCAAATCAGCACATTTTCTTTCTTCAACAGCCTTCTTCTTCA-ACTCTTCTG
* * *
10070872 ACAAACTTCCTCTGCTCCTTT
65 -CAATCTTCCTTTGCTCCTGT
*
10070893 GCTTTAGCCATCTCCAAATCAGCACATTTTCTTTCTTCAACCGCCTTC
1 GCTTTAGCCATCTCCAAATCAGCACATTTTCTTTCTTCAACAGCCTTC
10070941 CTTGTTTCTT
Statistics
Matches: 477, Mismatches: 55, Indels: 34
0.84 0.10 0.06
Matches are distributed among these distances:
80 2 0.00
81 66 0.14
82 4 0.01
83 8 0.02
84 390 0.82
85 5 0.01
86 2 0.00
ACGTcount: A:0.17, C:0.32, G:0.10, T:0.40
Consensus pattern (84 bp):
GCTTTAGCCATCTCCAAATCAGCACATTTTCTTTCTTCAACAGCCTTCTTCTTCAACTCTTCTGC
AATCTTCCTTTGCTCCTGT
Found at i:10071456 original size:17 final size:17
Alignment explanation
Indices: 10071430--10071464 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
10071420 GGGCAAAGTT
*
10071430 ACCAATTAGGGGAACAA
1 ACCAAATAGGGGAACAA
10071447 ACCAAATAGGGGAACAA
1 ACCAAATAGGGGAACAA
10071464 A
1 A
10071465 TATTGAAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.51, C:0.17, G:0.23, T:0.09
Consensus pattern (17 bp):
ACCAAATAGGGGAACAA
Found at i:10072805 original size:18 final size:18
Alignment explanation
Indices: 10072771--10072808 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
10072761 TCAAAAAATC
10072771 ATAAAAATAAACTTTTTTA
1 ATAAAAATAAAC-TTTTTA
10072790 ATAAAAATATAA-TTTTTA
1 ATAAAAATA-AACTTTTTA
10072808 A
1 A
10072809 AGTAGTCGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
19 9 0.50
20 2 0.11
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (18 bp):
ATAAAAATAAACTTTTTA
Found at i:10080506 original size:23 final size:23
Alignment explanation
Indices: 10080470--10080581 Score: 70
Period size: 23 Copynumber: 4.9 Consensus size: 23
10080460 AGTGTTTTGT
*
10080470 GTTTTT-GGGTTTTATGGTTTTTA
1 GTTTTTAGGG-TTTATGGTTTTCA
*
10080493 GTTTTTAGGGTTTA-GG-ATTCA
1 GTTTTTAGGGTTTATGGTTTTCA
* * * *
10080514 TGATTTTAGGGCTTATGATTTAT-G
1 -GTTTTTAGGGTTTATGGTTT-TCA
* * * *
10080538 GTTTTTAGGGTTCATGATTTACG
1 GTTTTTAGGGTTTATGGTTTTCA
*
10080561 GTTTTTAAGGTTTATGGTTTT
1 GTTTTTAGGGTTTATGGTTTT
10080582 ATGTTTATGG
Statistics
Matches: 68, Mismatches: 15, Indels: 12
0.72 0.16 0.13
Matches are distributed among these distances:
21 3 0.04
22 14 0.21
23 46 0.68
24 4 0.06
25 1 0.01
ACGTcount: A:0.16, C:0.04, G:0.26, T:0.54
Consensus pattern (23 bp):
GTTTTTAGGGTTTATGGTTTTCA
Found at i:10080523 original size:22 final size:23
Alignment explanation
Indices: 10080495--10080549 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
10080485 GGTTTTTAGT
10080495 TTTTAGGGTTTAGGATTCAT-GA
1 TTTTAGGGTTTAGGATTCATGGA
* * * *
10080517 TTTTAGGGCTTATGATTTATGGT
1 TTTTAGGGTTTAGGATTCATGGA
10080540 TTTTAGGGTT
1 TTTTAGGGTT
10080550 CATGATTTAC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 17 0.63
23 10 0.37
ACGTcount: A:0.18, C:0.04, G:0.27, T:0.51
Consensus pattern (23 bp):
TTTTAGGGTTTAGGATTCATGGA
Found at i:10080781 original size:15 final size:16
Alignment explanation
Indices: 10080744--10080784 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 16
10080734 TGTTTATTAA
*
10080744 TTTTAGGGTTTAGTGG
1 TTTTAAGGTTTAGTGG
10080760 -TTT-AGGTTTAG-GG
1 TTTTAAGGTTTAGTGG
10080773 TTTTAAGGTTTA
1 TTTTAAGGTTTA
10080785 TGATTTATGG
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
13 2 0.09
14 10 0.45
15 10 0.45
ACGTcount: A:0.17, C:0.00, G:0.32, T:0.51
Consensus pattern (16 bp):
TTTTAAGGTTTAGTGG
Found at i:10080803 original size:29 final size:29
Alignment explanation
Indices: 10080744--10080805 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
10080734 TGTTTATTAA
* * * *
10080744 TTTTAGGGTTTAGTGGTTTAGGTTTAGGG
1 TTTTAAGGTTTAGTGATTTAGGCTTAAGG
10080773 TTTTAAGGTTTA-TGATTTATGGCTTAAGG
1 TTTTAAGGTTTAGTGATTTA-GGCTTAAGG
10080802 TTTT
1 TTTT
10080806 GGTGGTGGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 6 0.21
29 22 0.79
ACGTcount: A:0.18, C:0.02, G:0.29, T:0.52
Consensus pattern (29 bp):
TTTTAAGGTTTAGTGATTTAGGCTTAAGG
Found at i:10080837 original size:15 final size:15
Alignment explanation
Indices: 10080744--10080872 Score: 72
Period size: 15 Copynumber: 8.7 Consensus size: 15
10080734 TGTTTATTAA
10080744 TTTTAGGGTTTAGTG
1 TTTTAGGGTTTAGTG
* *
10080759 GTTTA-GGTTTAGGG
1 TTTTAGGGTTTAGTG
*
10080773 TTTTAAGGTTTA-TG
1 TTTTAGGGTTTAGTG
* * *
10080787 ATTTATGGCTTAAG-G
1 TTTTA-GGGTTTAGTG
* *
10080802 TTTTGGTGGTGGT-GTTG
1 TTTTAG-GGT-TTAG-TG
10080819 TTTTAGGGTTTAGTG
1 TTTTAGGGTTTAGTG
* *
10080834 TTTTTGGGTTAAG-G
1 TTTTAGGGTTTAGTG
10080848 TTTTAGGGTTTTA-TG
1 TTTTAGGG-TTTAGTG
*
10080863 TCTTAGGGTT
1 TTTTAGGGTT
10080873 ATTGTTTAGT
Statistics
Matches: 84, Mismatches: 20, Indels: 21
0.67 0.16 0.17
Matches are distributed among these distances:
14 28 0.33
15 46 0.55
16 4 0.05
17 6 0.07
ACGTcount: A:0.14, C:0.02, G:0.33, T:0.51
Consensus pattern (15 bp):
TTTTAGGGTTTAGTG
Found at i:10080871 original size:29 final size:29
Alignment explanation
Indices: 10080818--10080873 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
10080808 TGGTGGTGTT
* *
10080818 GTTTTAGGGTTTAGTGTTTTTGGGTTAAG
1 GTTTTAGGGTTTAGTGTCTTAGGGTTAAG
10080847 GTTTTAGGGTTTTA-TGTCTTAGGGTTA
1 GTTTTAGGG-TTTAGTGTCTTAGGGTTA
10080874 TTGTTTAGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.14, C:0.02, G:0.32, T:0.52
Consensus pattern (29 bp):
GTTTTAGGGTTTAGTGTCTTAGGGTTAAG
Found at i:10080879 original size:29 final size:29
Alignment explanation
Indices: 10080816--10080879 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
10080806 GGTGGTGGTG
* *
10080816 TTGTTTTAGGGTTTAGTGTTTTTGGGTTA
1 TTGTTTTAGGGTTTAGTGTCTTAGGGTTA
**
10080845 AGGTTTTAGGGTTTTA-TGTCTTAGGGTTA
1 TTGTTTTAGGG-TTTAGTGTCTTAGGGTTA
10080874 TTGTTT
1 TTGTTT
10080880 AGTGCTTAAG
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
29 24 0.86
30 4 0.14
ACGTcount: A:0.12, C:0.02, G:0.30, T:0.56
Consensus pattern (29 bp):
TTGTTTTAGGGTTTAGTGTCTTAGGGTTA
Found at i:10081007 original size:7 final size:7
Alignment explanation
Indices: 10080997--10081033 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
10080987 GCTTTATTAC
10080997 TTATGGT
1 TTATGGT
*
10081004 TTATGAT
1 TTATGGT
*
10081011 TTATTGT
1 TTATGGT
10081018 TTATGGT
1 TTATGGT
10081025 TTATGGT
1 TTATGGT
10081032 TT
1 TT
10081034 TAAGATTTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.16, C:0.00, G:0.22, T:0.62
Consensus pattern (7 bp):
TTATGGT
Found at i:10081015 original size:21 final size:21
Alignment explanation
Indices: 10080989--10081029 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
10080979 GGTTTAGGGC
10080989 TTTATTACTTATGGTTTATGA
1 TTTATTACTTATGGTTTATGA
**
10081010 TTTATTGTTTATGGTTTATG
1 TTTATTACTTATGGTTTATG
10081030 GTTTTAAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.02, G:0.17, T:0.61
Consensus pattern (21 bp):
TTTATTACTTATGGTTTATGA
Found at i:10081204 original size:14 final size:14
Alignment explanation
Indices: 10081186--10081246 Score: 79
Period size: 14 Copynumber: 4.4 Consensus size: 14
10081176 TTAGAGTTTG
10081186 GGTTTAGGATTTAT
1 GGTTTAGGATTTAT
*
10081200 TGTTTAGGATTTA-
1 GGTTTAGGATTTAT
* *
10081213 GGTTTTAGTATTTAA
1 GG-TTTAGGATTTAT
10081228 GGTTTAGGATTTAT
1 GGTTTAGGATTTAT
10081242 GGTTT
1 GGTTT
10081247 TAGTATTTGT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
13 1 0.03
14 37 0.93
15 2 0.05
ACGTcount: A:0.21, C:0.00, G:0.26, T:0.52
Consensus pattern (14 bp):
GGTTTAGGATTTAT
Found at i:10081296 original size:22 final size:22
Alignment explanation
Indices: 10081244--10081318 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
10081234 GGATTTATGG
* *
10081244 TTTTAGTATTTGTAGAGTTTATTGT
1 TTTTAGTA-TT-TAGGGTTT-TTAT
10081269 TTTTAGTATTTAGGGTTTTTAT
1 TTTTAGTATTTAGGGTTTTTAT
10081291 TTTTAGGGT-TTTA-GGTTTTTAT
1 TTTTA--GTATTTAGGGTTTTTAT
*
10081313 GTTTAG
1 TTTTAG
10081319 GGTTTATTGC
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
20 1 0.02
22 21 0.47
23 11 0.24
24 4 0.09
25 8 0.18
ACGTcount: A:0.17, C:0.00, G:0.21, T:0.61
Consensus pattern (22 bp):
TTTTAGTATTTAGGGTTTTTAT
Found at i:10081319 original size:22 final size:23
Alignment explanation
Indices: 10081277--10081323 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 23
10081267 GTTTTTAGTA
*
10081277 TTTAGGGTTTTTATTTTTAGGGT
1 TTTAGGGTTTTTATGTTTAGGGT
10081300 TTTA-GGTTTTTATGTTTAGGGT
1 TTTAGGGTTTTTATGTTTAGGGT
10081322 TT
1 TT
10081324 ATTGCTTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.13, C:0.00, G:0.26, T:0.62
Consensus pattern (23 bp):
TTTAGGGTTTTTATGTTTAGGGT
Found at i:10081323 original size:15 final size:16
Alignment explanation
Indices: 10081267--10081302 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
10081257 AGAGTTTATT
10081267 GTTTTTAGTATTTAGG
1 GTTTTTAGTATTTAGG
*
10081283 GTTTTTA-TTTTTAGG
1 GTTTTTAGTATTTAGG
10081298 GTTTT
1 GTTTT
10081303 AGGTTTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.14, C:0.00, G:0.22, T:0.64
Consensus pattern (16 bp):
GTTTTTAGTATTTAGG
Found at i:10081367 original size:28 final size:30
Alignment explanation
Indices: 10081336--10081395 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
10081326 TGCTTATAGT
10081336 TTAGGGTTTATAG-TTTA-TATTTTAAGGG
1 TTAGGGTTTATAGTTTTATTATTTTAAGGG
* * *
10081364 TTAGTGTTTATGGTTTTATTATTTTTAGGG
1 TTAGGGTTTATAGTTTTATTATTTTAAGGG
10081394 TT
1 TT
10081396 TAGGAATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 11 0.41
29 4 0.15
30 12 0.44
ACGTcount: A:0.20, C:0.00, G:0.23, T:0.57
Consensus pattern (30 bp):
TTAGGGTTTATAGTTTTATTATTTTAAGGG
Found at i:10081482 original size:22 final size:22
Alignment explanation
Indices: 10081283--10081484 Score: 99
Period size: 22 Copynumber: 9.2 Consensus size: 22
10081273 AGTATTTAGG
*
10081283 GTTTTTATTTTTAGGGTTT-TAG
1 GTTTTTATTTTTAGGGTTTAT-T
*
10081305 GTTTTTATGTTTAGGGTTTATT
1 GTTTTTATTTTTAGGGTTTATT
* * * *
10081327 GCTTATA-GTTTAGGGTTTATA
1 GTTTTTATTTTTAGGGTTTATT
* * *
10081348 GTTTATATTTTAAGGG-TTAGT
1 GTTTTTATTTTTAGGGTTTATT
* ** ***
10081369 GTTTATGGTTTTATTATTT-TT
1 GTTTTTATTTTTAGGGTTTATT
** *** *
10081390 AGGGTTTAGGAATTATGGTTTATT
1 -GTTTTTA-TTTTTAGGGTTTATT
* *
10081414 GTTTTTGTTTTTAGGGTTTAGT
1 GTTTTTATTTTTAGGGTTTATT
*
10081436 GTTTTTATTTTTAAGGTATTA-T
1 GTTTTTATTTTTAGGGT-TTATT
* *
10081458 GTTTTTATGTTTAGGGTTTCTT
1 GTTTTTATTTTTAGGGTTTATT
10081480 GTTTT
1 GTTTT
10081485 AGTGCCTATG
Statistics
Matches: 134, Mismatches: 38, Indels: 16
0.71 0.20 0.09
Matches are distributed among these distances:
21 35 0.26
22 81 0.60
23 16 0.12
24 2 0.01
ACGTcount: A:0.17, C:0.01, G:0.22, T:0.60
Consensus pattern (22 bp):
GTTTTTATTTTTAGGGTTTATT
Found at i:10081603 original size:22 final size:23
Alignment explanation
Indices: 10081578--10081628 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
10081568 GGGATTATAG
*
10081578 TTTTAGAT-T-TGAGTTTCAGGGT
1 TTTTAGATCTATGAGTTT-AGGAT
10081600 TTTTAGATCTATGAGTTTAGGAT
1 TTTTAGATCTATGAGTTTAGGAT
10081623 TTTTAG
1 TTTTAG
10081629 TTTATTGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 8 0.31
23 11 0.42
24 7 0.27
ACGTcount: A:0.22, C:0.04, G:0.24, T:0.51
Consensus pattern (23 bp):
TTTTAGATCTATGAGTTTAGGAT
Found at i:10081735 original size:15 final size:14
Alignment explanation
Indices: 10081717--10081762 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
10081707 GTGTTTGTGA
*
10081717 TTTTATGTTTATGG
1 TTTTTTGTTTATGG
*
10081731 TTTTTGTGTTTATTG
1 TTTTT-TGTTTATGG
*
10081746 TTTTTTATTTATGG
1 TTTTTTGTTTATGG
10081760 TTT
1 TTT
10081763 AGCATATAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 14 0.52
15 13 0.48
ACGTcount: A:0.11, C:0.00, G:0.17, T:0.72
Consensus pattern (14 bp):
TTTTTTGTTTATGG
Found at i:10083944 original size:28 final size:29
Alignment explanation
Indices: 10083889--10083944 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
10083879 GATTTGAAAC
**
10083889 CTTTACTATACATATTTTGAAATGTGAGG
1 CTTTACTATACATATTTTGAAACCTGAGG
10083918 CTTTACTATACATA-TTTGAAACCTGAG
1 CTTTACTATACATATTTTGAAACCTGAG
10083945 TTTAGGAAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 11 0.44
29 14 0.56
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (29 bp):
CTTTACTATACATATTTTGAAACCTGAGG
Found at i:10086727 original size:25 final size:25
Alignment explanation
Indices: 10086676--10086724 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
10086666 AATTTAAATT
10086676 TTATATTAATATTAAATAAATATAA
1 TTATATTAATATTAAATAAATATAA
*
10086701 TTATATTAATCTTAAATAAA-ATAA
1 TTATATTAATATTAAATAAATATAA
10086725 ATTCCCCTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (25 bp):
TTATATTAATATTAAATAAATATAA
Found at i:10087519 original size:17 final size:16
Alignment explanation
Indices: 10087489--10087531 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
10087479 TATTTCCTTC
* *
10087489 CTTTTTCTTTTACTTT
1 CTTTTTCTTCTACTTG
10087505 CTTTTTCCTTCTACTTG
1 CTTTTT-CTTCTACTTG
10087522 C-TTTTCTTCT
1 CTTTTTCTTCT
10087532 CCTTCCCTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 5 0.21
16 10 0.42
17 9 0.38
ACGTcount: A:0.05, C:0.26, G:0.02, T:0.67
Consensus pattern (16 bp):
CTTTTTCTTCTACTTG
Found at i:10097839 original size:27 final size:28
Alignment explanation
Indices: 10097806--10097858 Score: 90
Period size: 27 Copynumber: 1.9 Consensus size: 28
10097796 AACTAAATAT
*
10097806 ATGATGTTTTATACTAT-CTAATTTTAC
1 ATGATGTTTTATACCATACTAATTTTAC
10097833 ATGATGTTTTATACCATACTAATTTT
1 ATGATGTTTTATACCATACTAATTTT
10097859 TAAAATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.51
Consensus pattern (28 bp):
ATGATGTTTTATACCATACTAATTTTAC
Found at i:10100797 original size:21 final size:21
Alignment explanation
Indices: 10100771--10100816 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
10100761 TATATTTAAT
* * *
10100771 TGTTGAGGATTTAGTGGGGGC
1 TGTTGAAGATGTAGTGGGAGC
*
10100792 TGTTGAATATGTAGTGGGAGC
1 TGTTGAAGATGTAGTGGGAGC
10100813 TGTT
1 TGTT
10100817 ACTAGTATAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.17, C:0.04, G:0.41, T:0.37
Consensus pattern (21 bp):
TGTTGAAGATGTAGTGGGAGC
Found at i:10101355 original size:15 final size:15
Alignment explanation
Indices: 10101335--10101364 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10101325 ATGAATCTCT
*
10101335 CTCTTGAGCAGTTGA
1 CTCTTGAACAGTTGA
10101350 CTCTTGAACAGTTGA
1 CTCTTGAACAGTTGA
10101365 ACTACAGTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.33
Consensus pattern (15 bp):
CTCTTGAACAGTTGA
Found at i:10103705 original size:12 final size:12
Alignment explanation
Indices: 10103690--10103715 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10103680 TAAAATAATT
10103690 ATATGCAAAAGG
1 ATATGCAAAAGG
10103702 ATATGCAAAAGG
1 ATATGCAAAAGG
10103714 AT
1 AT
10103716 TTTATAAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.23, T:0.19
Consensus pattern (12 bp):
ATATGCAAAAGG
Found at i:10104746 original size:14 final size:14
Alignment explanation
Indices: 10104729--10104777 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
10104719 ACAAAAAGCA
10104729 AAAAAAAAAAAAAG
1 AAAAAAAAAAAAAG
* *
10104743 AAAAAGAAAGAAAG
1 AAAAAAAAAAAAAG
* *
10104757 AAAAGAAAAATAAG
1 AAAAAAAAAAAAAG
10104771 AAGAAAA
1 AA-AAAA
10104778 TATAAAATAT
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
14 24 0.89
15 3 0.11
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (14 bp):
AAAAAAAAAAAAAG
Found at i:10104766 original size:25 final size:22
Alignment explanation
Indices: 10104721--10104777 Score: 60
Period size: 25 Copynumber: 2.5 Consensus size: 22
10104711 GCAGAGAAAC
*
10104721 AAAAAGCAAAAAAAAAAAAAAG
1 AAAAAGAAAAAAAAAAAAAAAG
*
10104743 AAAAAGAAAGAAAGAAAAGAAAAAT
1 AAAAAGAAA-AAA-AAAA-AAAAAG
*
10104768 AAGAAGAAAA
1 AAAAAGAAAA
10104778 TATAAAATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 8 0.28
23 3 0.10
24 5 0.17
25 13 0.45
ACGTcount: A:0.82, C:0.02, G:0.14, T:0.02
Consensus pattern (22 bp):
AAAAAGAAAAAAAAAAAAAAAG
Found at i:10104771 original size:9 final size:9
Alignment explanation
Indices: 10104715--10104777 Score: 58
Period size: 9 Copynumber: 6.9 Consensus size: 9
10104705 CACTCGGCAG
10104715 AGAAACAAAA
1 AGAAA-AAAA
*
10104725 AG-CAAAAA
1 AGAAAAAAA
10104733 A-AAAAAAA
1 AGAAAAAAA
10104741 AGAAAAAGAA
1 AGAAAAA-AA
*
10104751 AGAAAGAAA
1 AGAAAAAAA
*
10104760 AGAAAAATA
1 AGAAAAAAA
10104769 AGAAGAAAA
1 AGAA-AAAA
10104778 TATAAAATAT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
8 11 0.26
9 19 0.44
10 13 0.30
ACGTcount: A:0.81, C:0.03, G:0.14, T:0.02
Consensus pattern (9 bp):
AGAAAAAAA
Found at i:10106758 original size:190 final size:188
Alignment explanation
Indices: 10106436--10106809 Score: 658
Period size: 190 Copynumber: 2.0 Consensus size: 188
10106426 ACAAGATCTC
* *
10106436 TAAAGAAATATCTGAAATAAAATTAGATAGAATATTTCTTTAATTTCATTTATGTGACGGGCTTC
1 TAAAGAAATATCTGAAATAAAATTAGATAGAATATTGCTTTAATTTCATTTATGTGAAGGGCTTC
*
10106501 TACCAACATTTTGCTTTATCTCTATTTCTCTCATTTTTCTTTAGGTTATATAAGGGCATTGATAC
66 TACCAACATTTTGCTTTATCTCTATTTCTCTCATTTTTCTTAAGGTTATATAAGGGCATTGATAC
10106566 TGTCTGGTTTCTTTTGTCATAAGAGGCGGATATAAGCTTATTGTACAGGGATTCTAAAA
131 TGTCTGGTTTCTTTTGTCATAAGA-GCGGATATAAGCTTATTGTACAGGGATTCTAAAA
**
10106625 TAAAGAAATATCTGAAATAAAAATTAGATAGAATATTGCTTTAATTTCATTTATGTGAAGGTTTT
1 TAAAGAAATATCTGAAAT-AAAATTAGATAGAATATTGCTTTAATTTCATTTATGTGAAGGGCTT
*
10106690 TTACCAACATTTTGCTTTATCTCTATTTCTCTCATTTTTCTTAAGGTTATATAAGGGCATTGATA
65 CTACCAACATTTTGCTTTATCTCTATTTCTCTCATTTTTCTTAAGGTTATATAAGGGCATTGATA
* *
10106755 CTGTCTGGTTTCTTTTGTCATAAGAGCGTATCTAAGCTTATTGTACAGGGATTCT
130 CTGTCTGGTTTCTTTTGTCATAAGAGCGGATATAAGCTTATTGTACAGGGATTCT
10106810 GAGATGACTC
Statistics
Matches: 176, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
189 46 0.26
190 130 0.74
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (188 bp):
TAAAGAAATATCTGAAATAAAATTAGATAGAATATTGCTTTAATTTCATTTATGTGAAGGGCTTC
TACCAACATTTTGCTTTATCTCTATTTCTCTCATTTTTCTTAAGGTTATATAAGGGCATTGATAC
TGTCTGGTTTCTTTTGTCATAAGAGCGGATATAAGCTTATTGTACAGGGATTCTAAAA
Found at i:10107831 original size:6 final size:6
Alignment explanation
Indices: 10107822--10107853 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
10107812 AAAAAGAGAC
10107822 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AA
10107854 TCTTAATAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:10122053 original size:105 final size:105
Alignment explanation
Indices: 10121864--10122069 Score: 313
Period size: 105 Copynumber: 2.0 Consensus size: 105
10121854 ACCGAAGAGC
* * * * *
10121864 TTTCTTTCAAAGGCGTATCTTTGTGCTGGTCATTTTAGCTCATTTCATTTTTAGATTCCTCCTCG
1 TTTCATTCAAAAGCGTATCTTTGTGCCGATCATTTCAGCTCATTTCATTTTTAGATTCCTCCTCG
*
10121929 GCTTCTTGATTTTACTTTGTGATTGTTGAGATGCTTGAGT
66 GCTTCTTGATTTTACTTTGTGATTGCTGAGATGCTTGAGT
* * *
10121969 TTTCATTCAAAAGTGTATCTTTTTGCCGATCATTTCAGCTCATTTCATTTTTAGATTCCTCCTTG
1 TTTCATTCAAAAGCGTATCTTTGTGCCGATCATTTCAGCTCATTTCATTTTTAGATTCCTCCTCG
* *
10122034 GCTTCTTGCTTTTATTTTGTGATTGCTGAGATGCTT
66 GCTTCTTGATTTTACTTTGTGATTGCTGAGATGCTT
10122070 TCAATCTGTT
Statistics
Matches: 90, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
105 90 1.00
ACGTcount: A:0.16, C:0.18, G:0.17, T:0.49
Consensus pattern (105 bp):
TTTCATTCAAAAGCGTATCTTTGTGCCGATCATTTCAGCTCATTTCATTTTTAGATTCCTCCTCG
GCTTCTTGATTTTACTTTGTGATTGCTGAGATGCTTGAGT
Found at i:10127298 original size:17 final size:16
Alignment explanation
Indices: 10127276--10127307 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
10127266 CTGTTGTGTT
10127276 TTATTATTGGTTATTTA
1 TTATTATT-GTTATTTA
10127293 TTATTATTGTTATTT
1 TTATTATTGTTATTT
10127308 TGTTCATATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.22, C:0.00, G:0.09, T:0.69
Consensus pattern (16 bp):
TTATTATTGTTATTTA
Found at i:10129723 original size:32 final size:32
Alignment explanation
Indices: 10129682--10129743 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
10129672 TCGTGTGGCT
*
10129682 TCTACAGCTTGCTCCAATGATTTGATTTTCAC
1 TCTACAGCTTACTCCAATGATTTGATTTTCAC
*
10129714 TCTACAGCTTACTCCGATGATTTGATTTTC
1 TCTACAGCTTACTCCAATGATTTGATTTTC
10129744 CCTCCCCAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.42
Consensus pattern (32 bp):
TCTACAGCTTACTCCAATGATTTGATTTTCAC
Found at i:10133226 original size:2 final size:2
Alignment explanation
Indices: 10133221--10133259 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
10133211 CACACACACA
10133221 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
10133260 ATCATTCATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:10151280 original size:23 final size:21
Alignment explanation
Indices: 10151254--10151298 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 21
10151244 TTTAATGAGC
10151254 AAAACATTAAAATAACTTTAATG
1 AAAACATTAAAATAA--TTAATG
* *
10151277 AAAATATTCAAATAATTAATG
1 AAAACATTAAAATAATTAATG
10151298 A
1 A
10151299 CCAAATTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
23 13 0.65
ACGTcount: A:0.58, C:0.07, G:0.04, T:0.31
Consensus pattern (21 bp):
AAAACATTAAAATAATTAATG
Found at i:10151829 original size:29 final size:28
Alignment explanation
Indices: 10151766--10151829 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 28
10151756 TTGCAATATG
10151766 TATGTTTAAAATGAAATTATAATGATAA
1 TATGTTTAAAATGAAATTATAATGATAA
*
10151794 CACTGTTTAAAATGAAATTATAATGATAA
1 TA-TGTTTAAAATGAAATTATAATGATAA
10151823 TTATGTT
1 -TATGTT
10151830 AATAATTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
28 1 0.03
29 30 0.94
30 1 0.03
ACGTcount: A:0.45, C:0.03, G:0.11, T:0.41
Consensus pattern (28 bp):
TATGTTTAAAATGAAATTATAATGATAA
Found at i:10152085 original size:102 final size:102
Alignment explanation
Indices: 10151972--10152175 Score: 381
Period size: 102 Copynumber: 2.0 Consensus size: 102
10151962 AAGTCAATTT
*
10151972 TTAAAATTTATGATTTAAAAAATATTATTTATTATATAATAGAATTAATGTTTTGAATTTCTTTA
1 TTAAAATTTATGATTTAAAAAATATTATTTATTATATAATAGAATTAATGTTTTGAATTTATTTA
10152037 TAGTTATATAGATTCAACAACGCACTGAAGCATTATA
66 TAGTTATATAGATTCAACAACGCACTGAAGCATTATA
*
10152074 TTAAAATTTATGATTTAAAAAATATTATTTATTATCTAATAGAATTAATGTTTTGAATTTATTTA
1 TTAAAATTTATGATTTAAAAAATATTATTTATTATATAATAGAATTAATGTTTTGAATTTATTTA
*
10152139 TAGTTATATAGATTCAACAATGCACTGAAGCATTATA
66 TAGTTATATAGATTCAACAACGCACTGAAGCATTATA
10152176 AAATTGTAAA
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
102 99 1.00
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (102 bp):
TTAAAATTTATGATTTAAAAAATATTATTTATTATATAATAGAATTAATGTTTTGAATTTATTTA
TAGTTATATAGATTCAACAACGCACTGAAGCATTATA
Found at i:10152430 original size:22 final size:23
Alignment explanation
Indices: 10152405--10152447 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
10152395 AGTTTATACC
*
10152405 ATTTGTTTTG-TATTTTTTAATA
1 ATTTGTTTTGTTATGTTTTAATA
*
10152427 ATTTTTTTTGTTATGTTTTAA
1 ATTTGTTTTGTTATGTTTTAA
10152448 AAAAAATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.70
Consensus pattern (23 bp):
ATTTGTTTTGTTATGTTTTAATA
Found at i:10156518 original size:65 final size:65
Alignment explanation
Indices: 10156437--10156562 Score: 198
Period size: 65 Copynumber: 1.9 Consensus size: 65
10156427 GTCTCTTTAC
* * *
10156437 TTAGAAATTGAGTAAATTAGTATCTTTATATTATACTTATTTTGATGATTTATATAATAATAGAT
1 TTAGAAATTAAGTAAATTAGTATCTTTATATTATACTTATTTGGATAATTTATATAATAATAGAT
* * *
10156502 TTAGAAATTAAGTAAATTAGTCTCTTTGTATTATACTTATTTGGGTAATTTATATAATAAT
1 TTAGAAATTAAGTAAATTAGTATCTTTATATTATACTTATTTGGATAATTTATATAATAAT
10156563 GGTAAATTTA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
65 55 1.00
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.48
Consensus pattern (65 bp):
TTAGAAATTAAGTAAATTAGTATCTTTATATTATACTTATTTGGATAATTTATATAATAATAGAT
Found at i:10165151 original size:184 final size:183
Alignment explanation
Indices: 10164790--10165160 Score: 733
Period size: 184 Copynumber: 2.0 Consensus size: 183
10164780 TTATTCATAA
10164790 GACATTACATAAATATTTATACACATAGTAAGCCTAACTTAGGAAACTCTATACTAGGAAACAGA
1 GACATTACATAAATATTTATACACATAGTAAGCCTAACTTAGGAAACTCTATACTAGGAAACAGA
10164855 CTAACTCTAGGGATGCTGTCTAAAAAACAGCCTTAAAGTTAGGGATAGTAATCAGTAAAATATTT
66 CTAACTCTAGGGATGCTGTCTAAAAAACAGCCTTAAAGTTAGGGATAGTAATCAGTAAAATATTT
10164920 ACAGAATCCTATCTGATACACTTAAATATTCCTTAATTAGTAAACTGTAATCT
131 ACAGAATCCTATCTGATACACTTAAATATTCCTTAATTAGTAAACTGTAATCT
10164973 GACATTACATAAATATTTATACACATAGTAAGCCTAACTTAGGAAACTCTATACTAGGAAACAGA
1 GACATTACATAAATATTTATACACATAGTAAGCCTAACTTAGGAAACTCTATACTAGGAAACAGA
10165038 CTAACTCTAGGGATGCTGTCTAAAAAAACAGCCTTAAAGTTAGGGATAGTAATCAGTAAAATATT
66 CTAACTCTAGGGATGCTGTCT-AAAAAACAGCCTTAAAGTTAGGGATAGTAATCAGTAAAATATT
10165103 TACAGAATCCTATCTGATACACTTAAATATTCCTTAATTAGTAAACTGTAATCT
130 TACAGAATCCTATCTGATACACTTAAATATTCCTTAATTAGTAAACTGTAATCT
10165157 GACA
1 GACA
10165161 CTCCCCCTCA
Statistics
Matches: 187, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
183 86 0.46
184 101 0.54
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.30
Consensus pattern (183 bp):
GACATTACATAAATATTTATACACATAGTAAGCCTAACTTAGGAAACTCTATACTAGGAAACAGA
CTAACTCTAGGGATGCTGTCTAAAAAACAGCCTTAAAGTTAGGGATAGTAATCAGTAAAATATTT
ACAGAATCCTATCTGATACACTTAAATATTCCTTAATTAGTAAACTGTAATCT
Found at i:10167039 original size:33 final size:33
Alignment explanation
Indices: 10167002--10167125 Score: 230
Period size: 33 Copynumber: 3.8 Consensus size: 33
10166992 CTCTGTTTCA
10167002 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
1 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
*
10167035 GGTTGCTGGACGGGAGCTGGAATGTGAGTGTTT
1 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
10167068 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
1 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
*
10167101 GGTTGCTGGACAGTAGCTGGAATGT
1 GGTTGCTGGACAGGAGCTGGAATGT
10167126 CAAGAAGAAA
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 88 1.00
ACGTcount: A:0.18, C:0.10, G:0.43, T:0.30
Consensus pattern (33 bp):
GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
Found at i:10171527 original size:50 final size:50
Alignment explanation
Indices: 10171468--10171589 Score: 219
Period size: 50 Copynumber: 2.5 Consensus size: 50
10171458 CGGATAATTA
* *
10171468 GAAT-CCAAAATAACCTGAATGTTGAAAGGACCTGAACCTGAAACAACTT
1 GAATCCCAAAATGATCTGAATGTTGAAAGGACCTGAACCTGAAACAACTT
10171517 GAATCCCAAAATGATCTGAATGTTGAAAGGACCTGAACCTGAAACAACTT
1 GAATCCCAAAATGATCTGAATGTTGAAAGGACCTGAACCTGAAACAACTT
10171567 GAATCCCAAAATGATCTGAATGT
1 GAATCCCAAAATGATCTGAATGT
10171590 AAATATGTGC
Statistics
Matches: 70, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
49 4 0.06
50 66 0.94
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (50 bp):
GAATCCCAAAATGATCTGAATGTTGAAAGGACCTGAACCTGAAACAACTT
Found at i:10181207 original size:30 final size:31
Alignment explanation
Indices: 10181171--10181228 Score: 109
Period size: 30 Copynumber: 1.9 Consensus size: 31
10181161 TGTAATCAAG
10181171 GAACCCTAAGTTATCTAA-TTTTTATTCCTT
1 GAACCCTAAGTTATCTAATTTTTTATTCCTT
10181201 GAACCCTAAGTTATCTAATTTTTTATTC
1 GAACCCTAAGTTATCTAATTTTTTATTC
10181229 TTTCTCAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
30 18 0.67
31 9 0.33
ACGTcount: A:0.28, C:0.19, G:0.07, T:0.47
Consensus pattern (31 bp):
GAACCCTAAGTTATCTAATTTTTTATTCCTT
Found at i:10190449 original size:93 final size:93
Alignment explanation
Indices: 10190337--10190507 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
10190327 GCCCCTAAGT
* *
10190337 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
10190402 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
10190430 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
10190495 CGAGTTCGGATGC
66 CGAGTTCGGATGC
10190508 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:10190504 original size:46 final size:46
Alignment explanation
Indices: 10190332--10190504 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
10190322 AACCAGCCCC
* * *
10190332 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
10190378 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
10190426 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
10190471 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
10190505 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:10190960 original size:30 final size:30
Alignment explanation
Indices: 10190926--10190985 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
10190916 CCTTAATACG
10190926 AACTTTGGAAAAATTACTA-TTTTGCCCCTA
1 AACTTTGGAAAAATTAC-ACTTTTGCCCCTA
* * *
10190956 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
10190986 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:10194221 original size:19 final size:18
Alignment explanation
Indices: 10194185--10194245 Score: 60
Period size: 15 Copynumber: 3.6 Consensus size: 18
10194175 AGATGACTAT
*
10194185 ATAAAAAAT-TTTAATAA
1 ATAAAAAATATTAAATAA
10194202 ATAAAAAATATTAAAT--
1 ATAAAAAATATTAAATAA
10194218 -TAAAATAATA-TAAATAA
1 ATAAAA-AATATTAAATAA
10194235 ATTAAAAAATA
1 A-TAAAAAATA
10194246 AAAAATGATA
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
15 10 0.27
16 4 0.11
17 9 0.24
18 9 0.24
19 5 0.14
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
ATAAAAAATATTAAATAA
Found at i:10194235 original size:14 final size:14
Alignment explanation
Indices: 10194198--10194248 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
10194188 AAAAATTTTA
10194198 ATAAATAAAA-AAT
1 ATAAATAAAATAAT
10194211 ATTAAATTAAAATAAT
1 A-TAAA-TAAAATAAT
*
10194227 ATAAATAAATTAA-
1 ATAAATAAAATAAT
10194240 A-AAATAAAA
1 ATAAATAAAA
10194249 AATGATATGA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
12 7 0.21
13 2 0.06
14 11 0.33
15 9 0.27
16 4 0.12
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
ATAAATAAAATAAT
Found at i:10194251 original size:19 final size:19
Alignment explanation
Indices: 10194200--10194249 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
10194190 AAATTTTAAT
10194200 AAATAA-AAAATATTAAATTA
1 AAATAATAAAA-A-TAAATTA
*
10194220 AAATAATATAAATAAATTA
1 AAATAATAAAAATAAATTA
10194239 AAA-AATAAAAA
1 AAATAATAAAAA
10194250 ATGATATGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 7 0.26
19 10 0.37
20 7 0.26
21 3 0.11
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (19 bp):
AAATAATAAAAATAAATTA
Found at i:10195411 original size:10 final size:11
Alignment explanation
Indices: 10195391--10195415 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10195381 CTTTTCTTGC
10195391 AAAAACAAAAA
1 AAAAACAAAAA
10195402 AAAAACAAAAA
1 AAAAACAAAAA
10195413 AAA
1 AAA
10195416 GGTTAAATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAACAAAAA
Found at i:10203837 original size:14 final size:14
Alignment explanation
Indices: 10203818--10203846 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
10203808 AAACACCACA
10203818 ACGAACCAATTAAG
1 ACGAACCAATTAAG
10203832 ACGAACCAATTAAG
1 ACGAACCAATTAAG
10203846 A
1 A
10203847 TTTTAGTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.21, G:0.14, T:0.14
Consensus pattern (14 bp):
ACGAACCAATTAAG
Found at i:10207160 original size:16 final size:17
Alignment explanation
Indices: 10207139--10207171 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
10207129 ACTCATTCTA
*
10207139 TATATAATAAT-TTTAT
1 TATATAACAATATTTAT
10207155 TATATAACAATATTTAT
1 TATATAACAATATTTAT
10207172 ATAACATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (17 bp):
TATATAACAATATTTAT
Found at i:10207174 original size:16 final size:15
Alignment explanation
Indices: 10207137--10207183 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
10207127 TAACTCATTC
*
10207137 TATATATAATAATTT
1 TATATATAACAATTT
*
10207152 TATTATATAACAATAT
1 TA-TATATAACAATTT
*
10207168 T-TATATAACATTTT
1 TATATATAACAATTT
10207182 TA
1 TA
10207184 AACGTTGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
14 12 0.46
15 2 0.08
16 12 0.46
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (15 bp):
TATATATAACAATTT
Found at i:10208618 original size:3 final size:3
Alignment explanation
Indices: 10208612--10208640 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
10208602 CCTTCATCAT
10208612 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
10208641 TACAAAACTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:10213989 original size:4 final size:4
Alignment explanation
Indices: 10213982--10214017 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
10213972 AGCATGCATG
* *
10213982 CATA CATA CATA CATT CATA CACA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA
10214018 TGCATCTGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:10217207 original size:6 final size:6
Alignment explanation
Indices: 10217186--10217225 Score: 62
Period size: 6 Copynumber: 6.3 Consensus size: 6
10217176 GGAAGTAAAG
10217186 AAAGTAA AAAGAAA AAAGAA AAAGAA AAAGAA AAAGAA AA
1 AAAG-AA AAAG-AA AAAGAA AAAGAA AAAGAA AAAGAA AA
10217226 GGCAAAGCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
6 22 0.69
7 10 0.31
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (6 bp):
AAAGAA
Found at i:10218541 original size:3 final size:3
Alignment explanation
Indices: 10218530--10218562 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
10218520 AAAGTAGTAG
*
10218530 TGA TAA TGA TGA TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
10218563 AACCAGACCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.30, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:10229988 original size:18 final size:18
Alignment explanation
Indices: 10229967--10230032 Score: 59
Period size: 17 Copynumber: 3.9 Consensus size: 18
10229957 AATCCGCATA
10229967 TATTATTAAATTTTATAT
1 TATTATTAAATTTTATAT
* *
10229985 TATT-TTTAATTTT-TAA
1 TATTATTAAATTTTATAT
*
10230001 T-TTATT-AATTTTTTAT
1 TATTATTAAATTTTATAT
**
10230017 TAAGATTAAATTTTAT
1 TATTATTAAATTTTAT
10230033 TAATTTTATT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
15 8 0.21
16 8 0.21
17 11 0.29
18 11 0.29
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (18 bp):
TATTATTAAATTTTATAT
Found at i:10234602 original size:18 final size:18
Alignment explanation
Indices: 10234581--10234615 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10234571 GTGTTTTTTA
10234581 TTTTTAAAATTTTTTAAT
1 TTTTTAAAATTTTTTAAT
* *
10234599 TTTTTATACTTTTTTAA
1 TTTTTAAAATTTTTTAA
10234616 AGACATTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTTAAAATTTTTTAAT
Found at i:10236197 original size:16 final size:16
Alignment explanation
Indices: 10236176--10236211 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
10236166 GAAATACCGT
*
10236176 TTGAATTTAAATTCTC
1 TTGAATTTAAATTATC
*
10236192 TTGAATTTGAATTATC
1 TTGAATTTAAATTATC
10236208 TTGA
1 TTGA
10236212 TAATTCAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.08, G:0.11, T:0.50
Consensus pattern (16 bp):
TTGAATTTAAATTATC
Found at i:10264238 original size:18 final size:16
Alignment explanation
Indices: 10264201--10264245 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
10264191 TGACATCAAC
*
10264201 TTAAATATTTTTTCCT
1 TTAAATATTTTTTCCA
10264217 TTAAATATTTCATTTCCA
1 TTAAATATTT--TTTCCA
10264235 TTAAA-ATTTTT
1 TTAAATATTTTT
10264246 ATTAAATATG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 2 0.08
16 10 0.38
17 4 0.15
18 10 0.38
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.58
Consensus pattern (16 bp):
TTAAATATTTTTTCCA
Found at i:10269761 original size:19 final size:21
Alignment explanation
Indices: 10269724--10269763 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
10269714 TATTTAAATA
*
10269724 AAATTATTCATATTTTTTTAT
1 AAATTATTCATATTATTTTAT
10269745 AAATT-TTC-TATTATTTTAT
1 AAATTATTCATATTATTTTAT
10269764 TTTTGTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 3 0.17
21 5 0.28
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (21 bp):
AAATTATTCATATTATTTTAT
Found at i:10279503 original size:25 final size:24
Alignment explanation
Indices: 10279475--10279523 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
10279465 AAGAGAATGG
*
10279475 AAAAAAAAAAAGAAGAAAAGTTAAA
1 AAAAAAAAAAAGAA-AAAAATTAAA
* *
10279500 AAAACATAAAAGAAAAAAATTAAA
1 AAAAAAAAAAAGAAAAAAATTAAA
10279524 TTTCTCAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.80, C:0.02, G:0.08, T:0.10
Consensus pattern (24 bp):
AAAAAAAAAAAGAAAAAAATTAAA
Found at i:10288143 original size:21 final size:21
Alignment explanation
Indices: 10288119--10288161 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
10288109 ATTCCCCTTC
10288119 ATACAAGGATTCTAATCCTAT
1 ATACAAGGATTCTAATCCTAT
10288140 ATACAAGGATTCTAATCCTAT
1 ATACAAGGATTCTAATCCTAT
10288161 A
1 A
10288162 CTATGTAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.33
Consensus pattern (21 bp):
ATACAAGGATTCTAATCCTAT
Found at i:10289229 original size:14 final size:16
Alignment explanation
Indices: 10289210--10289245 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
10289200 ACTTTAATTC
10289210 TTAAATAAA-A-ATAA
1 TTAAATAAATATATAA
10289224 TTAAATAAATATATAA
1 TTAAATAAATATATAA
10289240 TTAAAT
1 TTAAAT
10289246 CTTAGTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 9 0.45
15 1 0.05
16 10 0.50
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
TTAAATAAATATATAA
Found at i:10292088 original size:27 final size:27
Alignment explanation
Indices: 10292050--10292104 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
10292040 TTTGGATAAG
10292050 AAAGAATTTCAGTGCTGAAGAAGCGCC
1 AAAGAATTTCAGTGCTGAAGAAGCGCC
10292077 AAAGAATTTCAGTGCTGAAGAAGCGCC
1 AAAGAATTTCAGTGCTGAAGAAGCGCC
10292104 A
1 A
10292105 TCCTTCTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.18
Consensus pattern (27 bp):
AAAGAATTTCAGTGCTGAAGAAGCGCC
Found at i:10292589 original size:55 final size:55
Alignment explanation
Indices: 10292480--10292599 Score: 152
Period size: 55 Copynumber: 2.2 Consensus size: 55
10292470 TCATTTCAGC
* * *
10292480 AAGTAATATTTTAACATAATAACTAATTTAAATATATAAACAATCGAATTAAAAG
1 AAGTAATATTTTAACATAATAACTAATTTAAACATAAAAACAATCGAATCAAAAG
* * * * *
10292535 GAGTAATATTTTAACATGATAATTGATTTAAACATAAAAACAATTG-ATCCAAAAG
1 AAGTAATATTTTAACATAATAACTAATTTAAACATAAAAACAATCGAAT-CAAAAG
10292590 AAGTAATATT
1 AAGTAATATT
10292600 CCAGCACAAC
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 2 0.04
55 53 0.96
ACGTcount: A:0.52, C:0.07, G:0.08, T:0.33
Consensus pattern (55 bp):
AAGTAATATTTTAACATAATAACTAATTTAAACATAAAAACAATCGAATCAAAAG
Found at i:10311375 original size:13 final size:13
Alignment explanation
Indices: 10311357--10311381 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10311347 TATTATAGGA
10311357 AATAAATAAAATC
1 AATAAATAAAATC
10311370 AATAAATAAAAT
1 AATAAATAAAAT
10311382 ATACATGTGT
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:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (13 bp):
AATAAATAAAATC
Found at i:10311479 original size:28 final size:27
Alignment explanation
Indices: 10311436--10311490 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 27
10311426 TTAATTACTT
10311436 TTTATTTAAGTAAAAAGATATTTATTA
1 TTTATTTAAGTAAAAAGATATTTATTA
*
10311463 TTTATTATAAGTTAAAAGATATTTATTA
1 TTTATT-TAAGTAAAAAGATATTTATTA
10311491 ATTAAATAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 6 0.23
28 20 0.77
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (27 bp):
TTTATTTAAGTAAAAAGATATTTATTA
Found at i:10312360 original size:17 final size:18
Alignment explanation
Indices: 10312338--10312373 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
10312328 TAAATGAGTT
10312338 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
10312355 AATTAGGGTATAAATTGG
1 AATTAGGATATAAATTGG
10312373 A
1 A
10312374 GAGAAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:10312916 original size:37 final size:38
Alignment explanation
Indices: 10312816--10312918 Score: 91
Period size: 37 Copynumber: 2.7 Consensus size: 38
10312806 GACCTCCAGT
**
10312816 CGATGAGACACTGGGTGTCACTATTTTACTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAC---TTTACTTCGGATAGAGC
** * ** * *
10312857 CGATGAGGTACTAGGTACCACTTTACTTTGGCTAG-GC
1 CGATGAGACACTGGGTGTCACTTTACTTCGGATAGAGC
10312894 CGATGAGACACTGGGTGTCACTTTA
1 CGATGAGACACTGGGTGTCACTTTA
10312919 TTGCTTCGAA
Statistics
Matches: 48, Mismatches: 14, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
37 20 0.42
38 12 0.25
41 16 0.33
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.31
Consensus pattern (38 bp):
CGATGAGACACTGGGTGTCACTTTACTTCGGATAGAGC
Found at i:10314140 original size:20 final size:22
Alignment explanation
Indices: 10314100--10314146 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
10314090 AGTGCAATTG
10314100 TTATTTTGTTAACACTTTAAAA
1 TTATTTTGTTAACACTTTAAAA
*
10314122 TTATTTTGTTAA-A-TTTAAAT
1 TTATTTTGTTAACACTTTAAAA
10314142 TTATT
1 TTATT
10314147 ACAATGTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 11 0.46
21 1 0.04
22 12 0.50
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.57
Consensus pattern (22 bp):
TTATTTTGTTAACACTTTAAAA
Found at i:10317774 original size:20 final size:20
Alignment explanation
Indices: 10317749--10317786 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
10317739 GCACTTTTAG
*
10317749 TTCTTTTATATATTTATATA
1 TTCTTTTATAAATTTATATA
10317769 TTCTTTTATAAATTTATA
1 TTCTTTTATAAATTTATA
10317787 ATTTTTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (20 bp):
TTCTTTTATAAATTTATATA
Found at i:10319222 original size:20 final size:20
Alignment explanation
Indices: 10319197--10319246 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
10319187 TGGCTTAAAA
10319197 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
10319217 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
10319234 GTGGTAGTGGATT
1 TTGGTAGTGGATT
10319247 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:10323850 original size:20 final size:20
Alignment explanation
Indices: 10323825--10323874 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
10323815 TGGCTTAAAA
10323825 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
10323845 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
10323862 GTGGTAGTGGATT
1 TTGGTAGTGGATT
10323875 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:10336839 original size:28 final size:27
Alignment explanation
Indices: 10336788--10336862 Score: 89
Period size: 28 Copynumber: 2.7 Consensus size: 27
10336778 TTAATGATAT
* *
10336788 TTTAAAATTTTAATTATTAATTAATTTA
1 TTTAAAA-TTTAATAATTAATTAAATTA
*
10336816 GTTTAAAATTAAATAATTAATTAAATTA
1 -TTTAAAATTTAATAATTAATTAAATTA
*
10336844 ATT-AAATTTAATAATTAAT
1 TTTAAAATTTAATAATTAAT
10336863 AATATAAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 15 0.37
27 2 0.05
28 17 0.41
29 7 0.17
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (27 bp):
TTTAAAATTTAATAATTAATTAAATTA
Found at i:10336854 original size:33 final size:31
Alignment explanation
Indices: 10336798--10336896 Score: 85
Period size: 33 Copynumber: 3.0 Consensus size: 31
10336788 TTTAAAATTT
* *
10336798 TAATTATTAATTAATTTAGTTTAA-AATTAAA
1 TAATTATTAATTAATTAAATTTAATAATT-AA
10336829 TAATTAATTAAATTAATTAAATTTAATAATTAA
1 TAATT-ATT-AATTAATTAAATTTAATAATTAA
* *
10336862 TAA-TATAAATTATATGTAATTTTAATTTAATTAA
1 TAATTATTAATTA-AT-TAAATTTAA--TAATTAA
10336896 T
1 T
10336897 TCGATTAAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
30 5 0.09
31 9 0.16
32 12 0.21
33 19 0.33
34 12 0.21
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.48
Consensus pattern (31 bp):
TAATTATTAATTAATTAAATTTAATAATTAA
Found at i:10341222 original size:21 final size:21
Alignment explanation
Indices: 10341196--10341236 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
10341186 ATCTGCTCAA
* *
10341196 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
10341217 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
10341237 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:10353205 original size:24 final size:26
Alignment explanation
Indices: 10353178--10353234 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
10353168 CTTATTTCAT
10353178 TAAAT-AAAAAAATTT-AAAATATAA
1 TAAATCAAAAAAATTTAAAAATATAA
* *
10353202 TAAATCAAATACATTTAAAAATATAA
1 TAAATCAAAAAAATTTAAAAATATAA
10353228 -AAA-CAAA
1 TAAATCAAA
10353235 TATTAAAACA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 9 0.31
25 11 0.38
26 9 0.31
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.26
Consensus pattern (26 bp):
TAAATCAAAAAAATTTAAAAATATAA
Found at i:10353218 original size:25 final size:24
Alignment explanation
Indices: 10353189--10353236 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
10353179 AAATAAAAAA
10353189 ATTT-AAAATATAATAAATCAAATAC
1 ATTTAAAAATATAA-AAA-CAAATAC
10353214 ATTTAAAAATATAAAAACAAATA
1 ATTTAAAAATATAAAAACAAATA
10353237 TTAAAACAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 6 0.27
25 7 0.32
26 9 0.41
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (24 bp):
ATTTAAAAATATAAAAACAAATAC
Found at i:10354292 original size:42 final size:42
Alignment explanation
Indices: 10354245--10354364 Score: 127
Period size: 42 Copynumber: 2.9 Consensus size: 42
10354235 AACAAAAGGC
*
10354245 CATAAGTGCTAAACAGAAACCCGA-AAGGGTTAAACGGAAGCT
1 CATAAGAGCTAAACAGAAACCC-ATAAGGGTTAAACGGAAGCT
* * *
10354287 CATAAGAGCTGAACGGAAACCCATAAGGGTTAAACTGAAGCT
1 CATAAGAGCTAAACAGAAACCCATAAGGGTTAAACGGAAGCT
* * * * *
10354329 CA-AATGAGTTGAACGGAAACCCATTAGGGTTGAACG
1 CATAA-GAGCTAAACAGAAACCCATAAGGGTTAAACG
10354365 TGTAACACCC
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
41 3 0.04
42 65 0.96
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (42 bp):
CATAAGAGCTAAACAGAAACCCATAAGGGTTAAACGGAAGCT
Found at i:10354303 original size:21 final size:21
Alignment explanation
Indices: 10354277--10354364 Score: 70
Period size: 21 Copynumber: 4.2 Consensus size: 21
10354267 GAAAGGGTTA
*
10354277 AACGGAAGCTCATAAGAGCTG
1 AACGGAAGCTCATAAGAGTTG
* * * *
10354298 AACGGAAACCCATAAGGGTTA
1 AACGGAAGCTCATAAGAGTTG
*
10354319 AACTGAAGCTCA-AATGAGTTG
1 AACGGAAGCTCATAA-GAGTTG
* * * *
10354340 AACGGAAACCCATTAGGGTTG
1 AACGGAAGCTCATAAGAGTTG
10354361 AACG
1 AACG
10354365 TGTAACACCC
Statistics
Matches: 50, Mismatches: 15, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
20 2 0.04
21 47 0.94
22 1 0.02
ACGTcount: A:0.39, C:0.18, G:0.26, T:0.17
Consensus pattern (21 bp):
AACGGAAGCTCATAAGAGTTG
Found at i:10355951 original size:15 final size:15
Alignment explanation
Indices: 10355931--10355972 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
10355921 TTACTTACTA
10355931 TAAAATAAATAAATT
1 TAAAATAAATAAATT
* *
10355946 TAAAATTAAT-ACTT
1 TAAAATAAATAAATT
10355960 TAATAATAAATAA
1 TAA-AATAAATAA
10355973 CTTGAATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 6 0.27
15 15 0.68
16 1 0.05
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (15 bp):
TAAAATAAATAAATT
Found at i:10359360 original size:16 final size:17
Alignment explanation
Indices: 10359316--10359361 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
10359306 GCAATGTTAC
*
10359316 TTTTATA-TTCTCACAT
1 TTTTATATTTTTCACAT
*
10359332 TTTCATAATTTTTCA-AT
1 TTTTAT-ATTTTTCACAT
10359349 TTTTATATTTTTC
1 TTTTATATTTTTC
10359362 TTAGATAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
16 12 0.48
17 8 0.32
18 5 0.20
ACGTcount: A:0.24, C:0.13, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTTATATTTTTCACAT
Found at i:10360836 original size:106 final size:105
Alignment explanation
Indices: 10360696--10360885 Score: 301
Period size: 106 Copynumber: 1.8 Consensus size: 105
10360686 TTAAAATAAA
** *
10360696 AAATTTTATATACGTTTTCGTTGGGTCCGATAAATATCGGTAAATTAATTAATGTTTATAAATGA
1 AAATTTTATATACGTTTTCGTTGGGTCCGATAAATATCGGTAAATTAATTAATACTTATAAATAA
10360761 GGGTAAAATTAAAAAAAATAAAATAAAAAAATTGTACTTG
66 GGGTAAAATTAAAAAAAATAAAATAAAAAAATTGTACTTG
* *
10360801 AAATTATTATATACGTTTTCGCTT-GGTCTGATAAATATCGGTAAATTAATTAATACTTATAATT
1 AAATT-TTATATACGTTTTCG-TTGGGTCCGATAAATATCGGTAAATTAATTAATACTTATAAAT
*
10360865 AAGGGTTAAATTAAAAAAAAT
64 AAGGGTAAAATTAAAAAAAAT
10360886 TTAAGAGTTG
Statistics
Matches: 77, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
105 5 0.06
106 70 0.91
107 2 0.03
ACGTcount: A:0.44, C:0.06, G:0.13, T:0.37
Consensus pattern (105 bp):
AAATTTTATATACGTTTTCGTTGGGTCCGATAAATATCGGTAAATTAATTAATACTTATAAATAA
GGGTAAAATTAAAAAAAATAAAATAAAAAAATTGTACTTG
Found at i:10363177 original size:15 final size:15
Alignment explanation
Indices: 10363159--10363209 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
10363149 TAAAATTTAA
*
10363159 AAATTTAAAAAAATT
1 AAATTTATAAAAATT
10363174 AAATTCT-TAAAAA-T
1 AAATT-TATAAAAATT
**
10363188 AAAAATATAAAAATT
1 AAATTTATAAAAATT
10363203 AAATTTA
1 AAATTTA
10363210 GAATTTTCAA
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
13 1 0.04
14 10 0.36
15 16 0.57
16 1 0.04
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (15 bp):
AAATTTATAAAAATT
Found at i:10365355 original size:21 final size:19
Alignment explanation
Indices: 10365329--10365373 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
10365319 TAACTCAAAT
*
10365329 AATTTAAACTATTTAATTCAA
1 AATTTAAA-AATTTAA-TCAA
*
10365350 AATTTAAAAATTTTATCAA
1 AATTTAAAAATTTAATCAA
10365369 AATTT
1 AATTT
10365374 TTAATTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 9 0.41
20 5 0.23
21 8 0.36
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (19 bp):
AATTTAAAAATTTAATCAA
Found at i:10365571 original size:25 final size:24
Alignment explanation
Indices: 10365530--10365594 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 24
10365520 TTATTTCAAG
* *
10365530 AAATTTTTGGTAAAAATAATTATAT
1 AAATTTTT-ATAAAAATAATTAAAT
*
10365555 AAATTTTTATAACAAATTATTAAAT
1 AAATTTTTATAA-AAATAATTAAAT
*
10365580 AATTTTTTTATAAAA
1 AA-ATTTTTATAAAA
10365595 TTAAAAAGTG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
24 3 0.09
25 22 0.65
26 9 0.26
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (24 bp):
AAATTTTTATAAAAATAATTAAAT
Found at i:10377312 original size:32 final size:32
Alignment explanation
Indices: 10377257--10377318 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
10377247 CTGCTTACAA
*
10377257 AAAATTATCTATATATTTTTATTTAAAAAACT
1 AAAATTATCTATATATTTCTATTTAAAAAACT
*
10377289 AAAATTATCTATAT-TTATCTATTTCAAAAA
1 AAAATTATCTATATATT-TCTATTTAAAAAA
10377319 GCATAACTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 2 0.07
32 25 0.93
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (32 bp):
AAAATTATCTATATATTTCTATTTAAAAAACT
Found at i:10385059 original size:6 final size:6
Alignment explanation
Indices: 10385050--10385076 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
10385040 CGAAAACCGT
10385050 CTTTGC CTTTGC CTTTGC CTTTGC CTT
1 CTTTGC CTTTGC CTTTGC CTTTGC CTT
10385077 GTCTTCCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.33, G:0.15, T:0.52
Consensus pattern (6 bp):
CTTTGC
Found at i:10387430 original size:8 final size:8
Alignment explanation
Indices: 10387417--10387443 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
10387407 AAGTTTAAAG
10387417 AAATATAT
1 AAATATAT
10387425 AAATATAT
1 AAATATAT
10387433 AAATATAT
1 AAATATAT
10387441 AAA
1 AAA
10387444 AATGAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
AAATATAT
Found at i:10387446 original size:18 final size:18
Alignment explanation
Indices: 10387417--10387455 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
10387407 AAGTTTAAAG
*
10387417 AAATATATAAATAT--AT
1 AAATATATAAAAATGAAT
10387433 AAATATATAAAAATGAAT
1 AAATATATAAAAATGAAT
10387451 AAATA
1 AAATA
10387456 CTTATGTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 13 0.65
18 7 0.35
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (18 bp):
AAATATATAAAAATGAAT
Found at i:10392294 original size:15 final size:15
Alignment explanation
Indices: 10392274--10392305 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
10392264 GCAAGTCAAG
10392274 TTAAACAAAAATATA
1 TTAAACAAAAATATA
10392289 TTAAACAAAAATATA
1 TTAAACAAAAATATA
10392304 TT
1 TT
10392306 TTCTTTCTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (15 bp):
TTAAACAAAAATATA
Found at i:10397375 original size:9 final size:9
Alignment explanation
Indices: 10397363--10397403 Score: 55
Period size: 9 Copynumber: 4.3 Consensus size: 9
10397353 ATGATTAAAA
10397363 AATTTAATT
1 AATTTAATT
10397372 AATTTAATT
1 AATTTAATT
10397381 AATATTAATT
1 AAT-TTAATT
*
10397391 CAATTCAATT
1 -AATTTAATT
10397401 AAT
1 AAT
10397404 CGTTTAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 15 0.52
10 11 0.38
11 3 0.10
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (9 bp):
AATTTAATT
Found at i:10399221 original size:33 final size:33
Alignment explanation
Indices: 10399183--10399249 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
10399173 TTCATGAAAG
10399183 TATGGTAATTTGTAACCAGAGATGTAAGTGAAC
1 TATGGTAATTTGTAACCAGAGATGTAAGTGAAC
10399216 TATGGTAATTTGTAACCAGAGATGTAAGTGAAC
1 TATGGTAATTTGTAACCAGAGATGTAAGTGAAC
10399249 T
1 T
10399250 CACAGGCCGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.36, C:0.09, G:0.24, T:0.31
Consensus pattern (33 bp):
TATGGTAATTTGTAACCAGAGATGTAAGTGAAC
Found at i:10408570 original size:50 final size:51
Alignment explanation
Indices: 10408461--10408721 Score: 382
Period size: 51 Copynumber: 5.2 Consensus size: 51
10408451 CTGATCACAT
* *
10408461 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATTAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCAC
* *
10408512 TTATCACTTGTCACTGATCAGATAAGAGTAGCT-AAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCAC
* * * *
10408562 TTGTCACTTATCACTGATCAAATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCAC
* *
10408613 TTATCACTTGTCACTGATCAGATAAGAGTAGCT-AAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCAC
* * *
10408663 TTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCAC
*
10408714 TTGTCACT
1 TTATCACT
10408722 GATCAGAAGT
Statistics
Matches: 188, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
50 89 0.47
51 99 0.53
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.33
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCAC
Found at i:10408580 original size:101 final size:101
Alignment explanation
Indices: 10408458--10408721 Score: 465
Period size: 101 Copynumber: 2.6 Consensus size: 101
10408448 ACACTGATCA
* * * * *
10408458 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATTACTTATCACTTGT
1 CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTATCACTTGT
10408523 CACTGATCAGATAAGAGTAGCTAAGCTACCACTTAT
66 CACTGATCAGATAAGAGTAGCTAAGCTACCACTTAT
*
10408559 CATTTGTCACTTATCACTGATCAAATAAGTGTAGCTGAGGCTACCACTTATCACTTATCACTTGT
1 CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTATCACTTGT
10408624 CACTGATCAGATAAGAGTAGCTAAGCTACCACTTAT
66 CACTGATCAGATAAGAGTAGCTAAGCTACCACTTAT
*
10408660 CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTGTCACT
1 CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTATCACT
10408722 GATCAGAAGT
Statistics
Matches: 155, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
101 155 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.33
Consensus pattern (101 bp):
CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTATCACTTGT
CACTGATCAGATAAGAGTAGCTAAGCTACCACTTAT
Found at i:10425028 original size:101 final size:101
Alignment explanation
Indices: 10424923--10425186 Score: 483
Period size: 101 Copynumber: 2.6 Consensus size: 101
10424913 ACACTGATCA
* * * *
10424923 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTATCACTTGT
1 CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTATCACTTGT
10424988 CACTGATCAGATAAGAGTAGCTAAGCTACCACTTAT
66 CACTGATCAGATAAGAGTAGCTAAGCTACCACTTAT
10425024 CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTATCACTTGT
1 CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTATCACTTGT
10425089 CACTGATCAGATAAGAGTAGCTAAGCTACCACTTAT
66 CACTGATCAGATAAGAGTAGCTAAGCTACCACTTAT
*
10425125 CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTGTCACT
1 CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTATCACT
10425187 GATCAGAAGT
Statistics
Matches: 158, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
101 158 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (101 bp):
CATTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTATCACTTGT
CACTGATCAGATAAGAGTAGCTAAGCTACCACTTAT
Found at i:10425035 original size:50 final size:51
Alignment explanation
Indices: 10424926--10425186 Score: 400
Period size: 51 Copynumber: 5.2 Consensus size: 51
10424916 CTGATCACAT
*
10424926 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCAC
* *
10424977 TTATCACTTGTCACTGATCAGATAAGAGTAGCT-AAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCAC
* * *
10425027 TTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCAC
* *
10425078 TTATCACTTGTCACTGATCAGATAAGAGTAGCT-AAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCAC
* * *
10425128 TTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCAC
*
10425179 TTGTCACT
1 TTATCACT
10425187 GATCAGAAGT
Statistics
Matches: 191, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
50 91 0.48
51 100 0.52
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACCACTTATCAC
Found at i:10427285 original size:20 final size:20
Alignment explanation
Indices: 10427240--10427285 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
10427230 TTAAAATAAA
10427240 AATAAAATATGAAATAATTT
1 AATAAAATATGAAATAATTT
*
10427260 ATTAAAATAAT-AAATTAA-TT
1 AATAAAAT-ATGAAA-TAATTT
10427280 AATAAA
1 AATAAA
10427286 GTATTATATC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (20 bp):
AATAAAATATGAAATAATTT
Found at i:10441883 original size:23 final size:21
Alignment explanation
Indices: 10441857--10441916 Score: 57
Period size: 25 Copynumber: 2.7 Consensus size: 21
10441847 ATTTAGAAAC
*
10441857 ATTTATTTTAATGTTTTTTGTA
1 ATTTATTTTAATATTTTTT-TA
*
10441879 TATTTGATTTATTATATTTTTTTA
1 -ATTT-ATTT-TAATATTTTTTTA
*
10441903 ATTTATTTTTATAT
1 ATTTATTTTAATAT
10441917 AAAAAAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 6 0.18
22 4 0.12
23 8 0.24
24 6 0.18
25 9 0.27
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (21 bp):
ATTTATTTTAATATTTTTTTA
Found at i:10441898 original size:24 final size:21
Alignment explanation
Indices: 10441857--10441916 Score: 57
Period size: 24 Copynumber: 2.7 Consensus size: 21
10441847 ATTTAGAAAC
* *
10441857 ATTTATTTTAATGTTTTTTGTA
1 ATTTATTTTTAT-ATTTTTGTA
*
10441879 TATTTGATTTATTATATTTTTTTA
1 -ATTT-ATTT-TTATATTTTTGTA
10441903 ATTTATTTTTATAT
1 ATTTATTTTTATAT
10441917 AAAAAAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
21 6 0.19
22 4 0.12
23 8 0.25
24 11 0.34
25 3 0.09
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (21 bp):
ATTTATTTTTATATTTTTGTA
Found at i:10441917 original size:23 final size:25
Alignment explanation
Indices: 10441857--10441917 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 25
10441847 ATTTAGAAAC
*
10441857 ATTTA-TTTTA-ATGTTTTTTGTAT
1 ATTTATTTTTATATATTTTTTGTAT
*
10441880 ATTTGATTTAT-TATATTTTTT-TA-
1 ATTT-ATTTTTATATATTTTTTGTAT
10441903 ATTTATTTTTATATA
1 ATTTATTTTTATATA
10441918 AAAAAAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
22 5 0.16
23 12 0.39
24 3 0.10
25 11 0.35
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (25 bp):
ATTTATTTTTATATATTTTTTGTAT
Found at i:10442305 original size:5 final size:5
Alignment explanation
Indices: 10442295--10442321 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
10442285 AGTTTTTATA
10442295 ATTTT ATTTT ATTTT ATTTT ATTTT AT
1 ATTTT ATTTT ATTTT ATTTT ATTTT AT
10442322 AACAAAAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
ATTTT
Found at i:10442370 original size:17 final size:18
Alignment explanation
Indices: 10442341--10442380 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
10442331 TAAGTTGTTT
* *
10442341 TATTTTCATAATTTTTAA
1 TATTTTCATAATTATAAA
10442359 TATTTT-ATAATTATAAA
1 TATTTTCATAATTATAAA
10442376 TATTT
1 TATTT
10442381 AATATTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (18 bp):
TATTTTCATAATTATAAA
Found at i:10442947 original size:16 final size:17
Alignment explanation
Indices: 10442922--10442963 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 17
10442912 TTTTAAATAT
*
10442922 TAAAAAATTAT-AATTA
1 TAAAATATTATAAATTA
10442938 TAAAATATTATCAAATTA
1 TAAAATATTAT-AAATTA
10442956 TGAAAATA
1 T-AAAATA
10442964 AAACAACTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 10 0.45
18 6 0.27
19 6 0.27
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (17 bp):
TAAAATATTATAAATTA
Found at i:10447040 original size:40 final size:40
Alignment explanation
Indices: 10446946--10447083 Score: 242
Period size: 40 Copynumber: 3.5 Consensus size: 40
10446936 TGCTACTTTA
*
10446946 TTTTATTATTAATTAAAACTACTCCCCCATACTATTTTG-
1 TTTTATTATTAATTAAAACTATTCCCCCATACTATTTTGT
10446985 TTTTATTATTAATTAAAACTATTCCCCCATACTATTTTGT
1 TTTTATTATTAATTAAAACTATTCCCCCATACTATTTTGT
* *
10447025 TTTTATTATTAATTAAAACCATTCCCCCATACTATTTTAT
1 TTTTATTATTAATTAAAACTATTCCCCCATACTATTTTGT
10447065 TTTTATTATTAATTAAAAC
1 TTTTATTATTAATTAAAAC
10447084 CATACTTTAT
Statistics
Matches: 95, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
39 38 0.40
40 57 0.60
ACGTcount: A:0.33, C:0.17, G:0.01, T:0.49
Consensus pattern (40 bp):
TTTTATTATTAATTAAAACTATTCCCCCATACTATTTTGT
Found at i:10448216 original size:13 final size:13
Alignment explanation
Indices: 10448198--10448222 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10448188 GAGTTTTGAG
10448198 TTCTTCGATCTGC
1 TTCTTCGATCTGC
10448211 TTCTTCGATCTG
1 TTCTTCGATCTG
10448223 TTCCCTATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.28, G:0.16, T:0.48
Consensus pattern (13 bp):
TTCTTCGATCTGC
Found at i:10448269 original size:44 final size:44
Alignment explanation
Indices: 10448205--10448730 Score: 477
Period size: 44 Copynumber: 12.0 Consensus size: 44
10448195 GAGTTCTTCG
* *
10448205 ATCTGCT-TCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
1 ATCTGCTATCTTCAATCTGTTCCCTATAAGCACAGGGATGCCAA
* *
10448248 ATCTGCTGTCTTCAA-CTTGTTCCCTATAAACACAGGGATGCCAA
1 ATCTGCTATCTTCAATC-TGTTCCCTATAAGCACAGGGATGCCAA
*
10448292 ATCTGCTATCTTCAA-CTTGTTCCCTATAAACACAGGGATGCCAA
1 ATCTGCTATCTTCAATC-TGTTCCCTATAAGCACAGGGATGCCAA
*
10448336 ATCTGCTATCTTCAA-CTTGTTCCCTATAAACACAGGGATGCC--
1 ATCTGCTATCTTCAATC-TGTTCCCTATAAGCACAGGGATGCCAA
** * ** * * * *
10448378 ATGCTGAAATCTTCGATCTGCTTCATTGTAAGCACAGGAATGTCAG
1 AT-CTGCTATCTTCAATCTG-TTCCCTATAAGCACAGGGATGCCAA
* *
10448424 ATCTGCTATCTTCGATCTGTTCCTTATAAGCACAGGGATGCCAA
1 ATCTGCTATCTTCAATCTGTTCCCTATAAGCACAGGGATGCCAA
* * *
10448468 ATCTACTGTTTTTCAA-CTTGTTCCCTATAAGCACAGGGATGCC--
1 ATCTGCT-ATCTTCAATC-TGTTCCCTATAAGCACAGGGATGCCAA
** * ** * *
10448511 ATGCTGAAATCTTCGATCTGCTTTACTGTAAGCAC-GGGAATGTCAA
1 AT-CTGCTATCTTCAATCTG-TTCCCTATAAGCACAGGG-ATGCCAA
*
10448557 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
1 ATCTGCTATCTTCAATCTGTTCCCTATAAGCACAGGGATGCCAA
* * *
10448601 ATCTGCTGTTTTCAA-CTTGTTCCATATAAGCACAGGGATGCC--
1 ATCTGCTATCTTCAATC-TGTTCCCTATAAGCACAGGGATGCCAA
** * * * * * *
10448643 ATGC-GAAATCTTCGATCTGCTTCACTCTAAGCACAGGAATGTCAG
1 AT-CTGCTATCTTCAATCTG-TTCCCTATAAGCACAGGGATGCCAA
*
10448688 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCA
1 ATCTGCTATCTTCAATCTGTTCCCTATAAGCACAGGGATGCCA
10448731 TGCTGAAAAC
Statistics
Matches: 401, Mismatches: 59, Indels: 45
0.79 0.12 0.09
Matches are distributed among these distances:
42 12 0.03
43 53 0.13
44 255 0.64
45 77 0.19
46 4 0.01
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (44 bp):
ATCTGCTATCTTCAATCTGTTCCCTATAAGCACAGGGATGCCAA
Found at i:10448527 original size:133 final size:132
Alignment explanation
Indices: 10448278--10448730 Score: 730
Period size: 133 Copynumber: 3.4 Consensus size: 132
10448268 TCCCTATAAA
* * * *
10448278 CACAGGGATGCCAAATCTGCTATCTTC-AACTTGTTCCCTATAAACACAGGGATGCCAAATCTGC
1 CACAGGAATGTCAAATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAAATCTGC
* * * *
10448342 TATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCATTGT
65 TGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGT
10448407 AAG
130 AAG
* * *
10448410 CACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCTTATAAGCACAGGGATGCCAAATCTACT
1 CACAGGAATGTCAAATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCT
*
10448475 GTTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTTACTGT
66 G-TTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGT
10448540 AAG
130 AAG
*
10448543 CACGGGAATGTCAAATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCT
1 CACAGGAATGTCAAATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCT
* *
10448608 GTTTTCAACTTGTTCCATATAAGCACAGGGATGCCATGC-GAAATCTTCGATCTGCTTCACTCTA
66 GTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTA
10448672 AG
131 AG
*
10448674 CACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCA
1 CACAGGAATGTCAAATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCA
10448731 TGCTGAAAAC
Statistics
Matches: 298, Mismatches: 21, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
131 80 0.27
132 92 0.31
133 126 0.42
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (132 bp):
CACAGGAATGTCAAATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCT
GTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTA
AG
Found at i:10448782 original size:87 final size:87
Alignment explanation
Indices: 10448322--10448793 Score: 295
Period size: 88 Copynumber: 5.4 Consensus size: 87
10448312 TCCCTATAAA
* * * * * *
10448322 CACAGGGATGCCAAATCTGCTATCTTC-AACTTGTTCCCTATAAACACAGGGATGCCATGCTGAA
1 CACAGGAATGGCAGATCTGCTATCTTCGATC-TGTTCCATATAAGCACAGGGATGCCATGC-GAA
* * *
10448386 ATCTTCGATCTGCTTCATTGTAAG
64 AACTTCGATCTGCTTCACTCTAAG
* * *
10448410 CACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCTTATAAGCACAGGGATGCCAAAT-CTAC
1 CACAGGAATGGCAGATCTGCTATCTTCGATCTGTTCCATATAAGCACAGGGATGCC--ATGCGA-
**** * * *
10448474 TGTTTTTC-AACTTG-TTCCCTATAAG
63 -AAACTTCGATC-TGCTTCACTCTAAG
* * ** * * *
10448499 CACAGGGAT-GC-CATGCTGAAATCTTCGATCTGCTT-TACTGTAAGCAC-GGGAATGTCAAAT-
1 CACAGGAATGGCAGAT-CTGCTATCTTCGATCTG-TTCCA-TATAAGCACAGGG-ATG-C-CATG
** * * *
10448559 CTGCTATCTTCGATCTG-TTCCCTATAAG
60 C-GAAAACTTCGATCTGCTTCACTCTAAG
* * * * * *
10448587 CACAGGGATGCCAAATCTGCTGTTTTC-AACTTGTTCCATATAAGCACAGGGATGCCATGCGAAA
1 CACAGGAATGGCAGATCTGCTATCTTCGATC-TGTTCCATATAAGCACAGGGATGCCATGCGAAA
*
10448651 TCTTCGATCTGCTTCACTCTAAG
65 ACTTCGATCTGCTTCACTCTAAG
* *
10448674 CACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCATGCTGAAA
1 CACAGGAATGGCAGATCTGCTATCTTCGATCTGTTCCATATAAGCACAGGGATGCCATGC-GAAA
*
10448739 ACTTCGATCTGCTTCACTGTAA-
65 ACTTCGATCTGCTTCACTCTAAG
* * * *
10448761 CTCAGGAA-GGCGATATTTGCTATCTTTGATCTG
1 CACAGGAATGGC-AGATCTGCTATCTTCGATCTG
10448794 CCCCCCGTCT
Statistics
Matches: 303, Mismatches: 57, Indels: 49
0.74 0.14 0.12
Matches are distributed among these distances:
86 17 0.06
87 88 0.29
88 134 0.44
89 53 0.17
90 11 0.04
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (87 bp):
CACAGGAATGGCAGATCTGCTATCTTCGATCTGTTCCATATAAGCACAGGGATGCCATGCGAAAA
CTTCGATCTGCTTCACTCTAAG
Found at i:10449208 original size:205 final size:205
Alignment explanation
Indices: 10448832--10449818 Score: 1572
Period size: 205 Copynumber: 4.8 Consensus size: 205
10448822 CTATTTCTTC
* * * * * * *
10448832 GATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTAACGTAAGCACGTGA
1 GATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCACGTGA
* * * * * *
10448897 AAGCCAAATCAACTATG-ATTCGATTTGCTCCTTGTAAGCATAAGGATGCAAAACCATCTTAGAT
66 AAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTTGGAT
* * *
10448961 CCGCTTCAGCAT-AAA-CATCCGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAG
131 CTGCTTCAG--TGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAG
10449024 ATGCCAAACTTT
194 ATGCCAAACTTT
* * *
10449036 GATTCGTTCTCAGACGATACAGAGATGACAAATCATCTTAGATTTGCTTTC-TCGTAATCACGTG
1 GATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGC-TTCATCGTAATCACGTG
* *
10449100 AAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTATAAACACAAGGATGCCAAACCATCTTGGA
65 AAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTTGGA
* *
10449165 TCTGCTTCAGTGAAATCATCAGAAGGCGAGATCTGCTATGTGTCTGCTCTCCGTCAAAGTGAAGA
130 TCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAGA
*
10449230 TGCCAAACTTC
195 TGCCAAACTTT
10449241 GATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCACGTGA
1 GATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCACGTGA
10449306 AAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTTGGAT
66 AAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTTGGAT
* *
10449371 CTACTTTAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAGAT
131 CTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAGAT
10449436 GCCAAACTTT
196 GCCAAACTTT
*
10449446 GATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCACGTGA
1 GATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCACGTGA
*
10449511 AAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAATGATGCCAAACCATCTTGGAT
66 AAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTTGGAT
* * * *
10449576 TTACTTCAGTGAAATCATCTGAATGCGAGATCTGCTATGTGTCTGCTCTCAATCAAAGTGAAGAT
131 CTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAGAT
10449641 GCCAAACTTT
196 GCCAAACTTT
10449651 GATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCACGTGA
1 GATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCACGTGA
* *
10449716 AAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTATAAACACAAGGATGCCAAACTATCTTGGAT
66 AAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTTGGAT
* *
10449781 CTGCTTCAGT-ATAA-CATCTGAAGGCCAGATCTGTTATG
131 CTGCTTCAGTGA-AATCATCTGAAGGCGAGATCTGCTATG
10449819 CTGCGGCCTA
Statistics
Matches: 731, Mismatches: 46, Indels: 12
0.93 0.06 0.02
Matches are distributed among these distances:
203 1 0.00
204 98 0.13
205 632 0.86
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (205 bp):
GATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAATCACGTGA
AAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTTGGAT
CTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAGAT
GCCAAACTTT
Found at i:10461738 original size:22 final size:22
Alignment explanation
Indices: 10461683--10461739 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
10461673 ATTTACATGG
*
10461683 TATATACATA-A-TAATGTAAA
1 TATATACATATAGTAATATAAA
* *
10461703 AATAAAC-TATTAGTAATATAAA
1 TATATACATA-TAGTAATATAAA
10461725 TATATACATATAGTA
1 TATATACATATAGTA
10461740 TAATAATAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
19 2 0.07
20 5 0.18
21 1 0.04
22 18 0.64
23 2 0.07
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.35
Consensus pattern (22 bp):
TATATACATATAGTAATATAAA
Found at i:10462225 original size:39 final size:40
Alignment explanation
Indices: 10462182--10462335 Score: 258
Period size: 40 Copynumber: 3.9 Consensus size: 40
10462172 GATTCCACTC
* * *
10462182 CCCCCATGCTACTTTG-TTTTATTATTAATTAAAACTACT
1 CCCCCATACTATTTTGTTTTTATTATTAATTAAAACTATT
10462221 CCCCCATACTATTTTG-TTTTATTATTAATTAAAACTATT
1 CCCCCATACTATTTTGTTTTTATTATTAATTAAAACTATT
*
10462260 CCCCCATACTATTTTGTTTTTATTATTAATTAAAACCATT
1 CCCCCATACTATTTTGTTTTTATTATTAATTAAAACTATT
10462300 CCCCCATACTATTTTGTTTTTATTATTAATTAAAAC
1 CCCCCATACTATTTTGTTTTTATTATTAATTAAAAC
10462336 CATACTTTAT
Statistics
Matches: 110, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
39 52 0.47
40 58 0.53
ACGTcount: A:0.30, C:0.20, G:0.03, T:0.47
Consensus pattern (40 bp):
CCCCCATACTATTTTGTTTTTATTATTAATTAAAACTATT
Found at i:10462285 original size:79 final size:79
Alignment explanation
Indices: 10462182--10462335 Score: 256
Period size: 79 Copynumber: 1.9 Consensus size: 79
10462172 GATTCCACTC
* *
10462182 CCCCCATGCTACTTTGTTTTATTATTAATTAAAACTACTCCCCCATACTATTTTG-TTTTATTAT
1 CCCCCATACTACTTTGTTTTATTATTAATTAAAACCACTCCCCCATACTATTTTGTTTTTATTAT
10462246 TAATTAAAACTATT
66 TAATTAAAACTATT
* *
10462260 CCCCCATACTATTTTGTTTTTATTATTAATTAAAACCATTCCCCCATACTATTTTGTTTTTATTA
1 CCCCCATACTACTTTG-TTTTATTATTAATTAAAACCACTCCCCCATACTATTTTGTTTTTATTA
10462325 TTAATTAAAAC
65 TTAATTAAAAC
10462336 CATACTTTAT
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
78 14 0.20
79 37 0.53
80 19 0.27
ACGTcount: A:0.30, C:0.20, G:0.03, T:0.47
Consensus pattern (79 bp):
CCCCCATACTACTTTGTTTTATTATTAATTAAAACCACTCCCCCATACTATTTTGTTTTTATTAT
TAATTAAAACTATT
Done.