Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 5 of 235
Found at i:1235251 original size:17 final size:16
Alignment explanation
Indices: 1235204--1235260 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 16
1235194 TTGAGTCTAT
1235204 TTTTTTATTTATTTTTA
1 TTTTTT-TTTATTTTTA
1235221 TTATTCAATTTTTATTTTTA
1 TT-TT---TTTTTATTTTTA
*
1235241 TTTTTTGTTTATTTGTA
1 TTTTTT-TTTATTTTTA
1235258 TTT
1 TTT
1235261 CCTAGACTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
16 2 0.06
17 14 0.41
18 2 0.06
19 2 0.06
20 12 0.35
21 2 0.06
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.77
Consensus pattern (16 bp):
TTTTTTTTTATTTTTA
Found at i:1236266 original size:26 final size:25
Alignment explanation
Indices: 1236231--1236281 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 25
1236221 TTGATCTAAA
1236231 AAAAAGTAAAAAAATGTATACTTATT
1 AAAAAGTAAAAAAA-GTATACTTATT
1236257 AAAAAGTAAAAAAAGTATACTTATT
1 AAAAAGTAAAAAAAGTATACTTATT
1236282 TTGGTTATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 11 0.44
26 14 0.56
ACGTcount: A:0.59, C:0.04, G:0.08, T:0.29
Consensus pattern (25 bp):
AAAAAGTAAAAAAAGTATACTTATT
Found at i:1236267 original size:25 final size:26
Alignment explanation
Indices: 1236231--1236281 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 26
1236221 TTGATCTAAA
*
1236231 AAAAAGTAAAAAAATGTATACTTATT
1 AAAAAGTAAAAAAAAGTATACTTATT
1236257 AAAAAGT-AAAAAAAGTATACTTATT
1 AAAAAGTAAAAAAAAGTATACTTATT
1236282 TTGGTTATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.71
26 7 0.29
ACGTcount: A:0.59, C:0.04, G:0.08, T:0.29
Consensus pattern (26 bp):
AAAAAGTAAAAAAAAGTATACTTATT
Found at i:1239500 original size:15 final size:16
Alignment explanation
Indices: 1239475--1239504 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1239465 CTTTATGAAT
1239475 AAATAAATAATAATAG
1 AAATAAATAATAATAG
1239491 AAAT-AATAATAATA
1 AAATAAATAATAATA
1239505 ATTTATTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (16 bp):
AAATAAATAATAATAG
Found at i:1240731 original size:30 final size:30
Alignment explanation
Indices: 1240674--1240731 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
1240664 TATAATTTCA
* *
1240674 TTTTATTTTTATTTTAATTTGGCCCTAACC
1 TTTTATTTTTATTTCAATTTAGCCCTAACC
* * *
1240704 TTTTATTTTTGTTTCACTTTAGTCCTAA
1 TTTTATTTTTATTTCAATTTAGCCCTAA
1240732 TGGCCATTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.19, C:0.16, G:0.07, T:0.59
Consensus pattern (30 bp):
TTTTATTTTTATTTCAATTTAGCCCTAACC
Found at i:1240914 original size:29 final size:29
Alignment explanation
Indices: 1240870--1240937 Score: 72
Period size: 28 Copynumber: 2.4 Consensus size: 29
1240860 TAGAGTTTTG
1240870 TTTTTAT-T-TAATTTTAATCCT-TTTTAAA
1 TTTTTATATATAATTTT-AT-CTATTTTAAA
*
1240898 TTTTTATATATAA-TTTATTTATTTTAAA
1 TTTTTATATATAATTTTATCTATTTTAAA
1240926 TATTTTATATAT
1 T-TTTTATATAT
1240938 TATCTATTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
27 1 0.03
28 17 0.49
29 14 0.40
30 3 0.09
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (29 bp):
TTTTTATATATAATTTTATCTATTTTAAA
Found at i:1240917 original size:17 final size:17
Alignment explanation
Indices: 1240897--1241108 Score: 71
Period size: 17 Copynumber: 13.0 Consensus size: 17
1240887 TCCTTTTTAA
1240897 ATTTTTATATATAATTT
1 ATTTTTATATATAATTT
1240914 ATTTATT-T-TA-AA--T
1 ATTT-TTATATATAATTT
* *
1240927 A-TTTTATATATTATCT
1 ATTTTTATATATAATTT
* *
1240943 ATTTTTACTATAAAAATT
1 ATTTTTA-TATATAATTT
* * ***
1240961 ATTTATATATGTAAAAA
1 ATTTTTATATATAATTT
*
1240978 ATTATTATATAT-A-TT
1 ATTTTTATATATAATTT
*
1240993 ATTTTTAT-T-T-ATGT
1 ATTTTTATATATAATTT
*
1241007 ATTATTTATTATATTATTT
1 ATT-TTTA-TATATAATTT
1241026 ATATTTTAT-TATATATTT
1 AT-TTTTATATATA-ATTT
*
1241044 -TATTTATATAT--TTT
1 ATTTTTATATATAATTT
1241058 ATTATTTAT-TAT-ATTAT
1 ATT-TTTATATATAATT-T
* * *
1241075 ATTATTATTTATTATTT
1 ATTTTTATATATAATTT
* *
1241092 ATTATTATGTATAATTT
1 ATTTTTATATATAATTT
1241109 TAAAAATTTG
Statistics
Matches: 148, Mismatches: 24, Indels: 46
0.68 0.11 0.21
Matches are distributed among these distances:
11 2 0.01
12 3 0.02
13 6 0.04
14 9 0.06
15 17 0.11
16 22 0.15
17 56 0.38
18 23 0.16
19 9 0.06
20 1 0.01
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (17 bp):
ATTTTTATATATAATTT
Found at i:1240945 original size:29 final size:28
Alignment explanation
Indices: 1240891--1240946 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
1240881 TTTTAATCCT
*
1240891 TTTTAAATTTTTATATATAATTTATTTA
1 TTTTAAATTTTTATATATAATCTATTTA
*
1240919 TTTTAAATATTTTATATATTATCTATTT
1 TTTTAAAT-TTTTATATATAATCTATTT
1240947 TTACTATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 8 0.32
29 17 0.68
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (28 bp):
TTTTAAATTTTTATATATAATCTATTTA
Found at i:1241016 original size:7 final size:7
Alignment explanation
Indices: 1240979--1241097 Score: 95
Period size: 7 Copynumber: 16.1 Consensus size: 7
1240969 ATGTAAAAAA
1240979 TTATTAT
1 TTATTAT
1240986 ATATATTAT
1 -T-TATTAT
1240995 TT-TTAT
1 TTATTAT
1241001 TTATGTA-
1 TTAT-TAT
1241008 TTATTTAT
1 TTA-TTAT
1241016 TATATTAT
1 T-TATTAT
1241024 TTA-TATT
1 TTATTA-T
1241031 TTATTAT
1 TTATTAT
*
1241038 ATATTTTAT
1 -T-TATTAT
1241047 TTATATATT
1 TTAT-TA-T
1241056 TTATTAT
1 TTATTAT
1241063 TTATTA-
1 TTATTAT
1241069 -TATTAT
1 TTATTAT
1241075 ATTATTAT
1 -TTATTAT
1241083 TTATTAT
1 TTATTAT
1241090 TTATTAT
1 TTATTAT
1241097 T
1 T
1241098 ATGTATAATT
Statistics
Matches: 94, Mismatches: 2, Indels: 31
0.74 0.02 0.24
Matches are distributed among these distances:
5 5 0.05
6 8 0.09
7 38 0.40
8 25 0.27
9 18 0.19
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.68
Consensus pattern (7 bp):
TTATTAT
Found at i:1241027 original size:23 final size:23
Alignment explanation
Indices: 1240978--1241099 Score: 106
Period size: 23 Copynumber: 5.7 Consensus size: 23
1240968 TATGTAAAAA
1240978 ATTA-TTATATA-TA-TTATT-T
1 ATTATTTATATATTATTTATTAT
*
1240997 -TTATTTATGTATTATTTATTAT
1 ATTATTTATATATTATTTATTAT
*
1241019 ATTATTTATATTTTA-TTATATAT
1 ATTATTTATATATTATTTAT-TAT
*
1241042 TTTATTTATATA-T-TTTATTAT
1 ATTATTTATATATTATTTATTAT
1241063 -TTATTATATTATATTA-TTATT-T
1 ATTATT-TA-TATATTATTTATTAT
1241085 ATTATTTAT-TATTAT
1 ATTATTTATATATTAT
1241100 GTATAATTTT
Statistics
Matches: 85, Mismatches: 5, Indels: 24
0.75 0.04 0.21
Matches are distributed among these distances:
18 3 0.04
19 6 0.07
20 12 0.14
21 11 0.13
22 17 0.20
23 36 0.42
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (23 bp):
ATTATTTATATATTATTTATTAT
Found at i:1241083 original size:59 final size:64
Alignment explanation
Indices: 1240979--1241096 Score: 160
Period size: 59 Copynumber: 1.9 Consensus size: 64
1240969 ATGTAAAAAA
*
1240979 TTATTATATATATTATTTTTATTTATGTATTATTTATTATATTATTTA-TATTTTATTATATATT
1 TTATTATATATATTATTATTATTTATGTATTATTTATTATATTATTTATTA-TTTATTATATATT
1241043 TTATT-TATATATT-TTATTATTTAT-TA-TA-TTA-TATTATTATTTATTATTTATTAT
1 TTATTATATATATTATTATTATTTATGTATTATTTATTA-TATTATTTATTATTTATTAT
1241097 TATGTATAAT
Statistics
Matches: 51, Mismatches: 1, Indels: 9
0.84 0.02 0.15
Matches are distributed among these distances:
58 2 0.04
59 20 0.39
60 4 0.08
61 2 0.04
62 10 0.20
63 8 0.16
64 5 0.10
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.68
Consensus pattern (64 bp):
TTATTATATATATTATTATTATTTATGTATTATTTATTATATTATTTATTATTTATTATATATT
Found at i:1253221 original size:45 final size:44
Alignment explanation
Indices: 1253171--1253777 Score: 192
Period size: 45 Copynumber: 13.5 Consensus size: 44
1253161 TTAAACGGGG
* *
1253171 AGCAGATCAAAGATAGCATATTAGACATTAGTGTATTTACATCGA
1 AGCAGATCGAAGATAGCAGATT-GACATTAGTGTATTTACATCGA
* * ** * * *
1253216 AGCAGATCGAAGAT-GACAGATTTGGCGTTTCTGTATTAGACA-GGG
1 AGCAGATCGAAGATAG-CAGA-TTGACATTAGTGTATT-TACATCGA
* *
1253261 AGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTTTACATCGA
1 AGCAGATCGAAGATAGCAGAT-TGACATTAGTGTATTTACATCGA
* *** ** * *
1253306 AGCAGATCGAAGAT-GAAAGATTTGGTGTTTCTGTA-TTAGA-CGGGG
1 AGCAGATCGAAGATAG-CAGA-TTGACATTAGTGTATTTACATC--GA
* * * *
1253351 AGCAGATCAAAGATAGCAGATCTGACATTCGTGTGTTTACATTGA
1 AGCAGATCGAAGATAGCAGAT-TGACATTAGTGTATTTACATCGA
* * * * * * * *
1253396 AGCAGATCGAAGAT-GATAGATTTGGC-GT-CTCTACATTAGA-CGGGG
1 AGCAGATCGAAGATAG-CAGA-TTGACATTAGTGTA-TTTACATC--GA
* *
1253441 AGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTTTACAAT-GA
1 AGCAGATCGAAGATAGCAGAT-TGACATTAGTGTATTTAC-ATCGA
* * * * * * *
1253486 AACAGATTGAAGAT-GACAGATTTGACGTCT-CTGTA-TTAGATGGGG
1 AGCAGATCGAAGATAG-CAGA-TTGACAT-TAGTGTATTTACAT-CGA
* * * * * *
1253531 AGCAGATCAAAGATAGCAGATCTGACACTCGTGTGTTTGCATTGA
1 AGCAGATCGAAGATAGCAGAT-TGACATTAGTGTATTTACATCGA
* * * * * *
1253576 AGCAGATCGAAAAT-GACAGATTTGGCGTCT-CTGTA-TTAGATGGGA
1 AGCAGATCGAAGATAG-CAGA-TTGACAT-TAGTGTATTTACAT-CGA
* * *
1253621 AGCAGATCGAAGATAGCAGATCTGACATTTGTGTGTTTACATCAA
1 AGCAGATCGAAGATAGCAGAT-TGACATTAGTGTATTTACATCGA
* * * * * *
1253666 AGCAGATCGAAAAT-GACAGATTTGGCGTCT-CTGTA-TTAGA-CGGGG
1 AGCAGATCGAAGATAG-CAGA-TTGACAT-TAGTGTATTTACATC--GA
* * * *
1253711 AGTAGGTCGAAGATAGCAGATCTGACATTTGTGTGTTTACATCGA
1 AGCAGATCGAAGATAGCAGAT-TGACATTAGTGTATTTACATCGA
1253756 AGCAGATCGAAGATAGCAGATT
1 AGCAGATCGAAGATAGCAGATT
1253778 TGGCGTCTCT
Statistics
Matches: 398, Mismatches: 112, Indels: 105
0.65 0.18 0.17
Matches are distributed among these distances:
43 6 0.02
44 39 0.10
45 309 0.78
46 40 0.10
47 4 0.01
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (44 bp):
AGCAGATCGAAGATAGCAGATTGACATTAGTGTATTTACATCGA
Found at i:1253262 original size:90 final size:90
Alignment explanation
Indices: 1253143--1253815 Score: 956
Period size: 90 Copynumber: 7.5 Consensus size: 90
1253133 TCGAAGAAGT
* * * * *
1253143 AGATTTGGCGTTTCTGTATTAAACGGGGAGCAGATCAAAGATAGCATAT-TAGACATTAGTGTAT
1 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCAGATCT-GACATTCGTGTGT
1253207 TTACATCGAAGCAGATCGAAGATGAC
65 TTACATCGAAGCAGATCGAAGATGAC
* * *
1253233 AGATTTGGCGTTTCTGTATTAGACAGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTT
1 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCAGATCTGACATTCGTGTGTT
*
1253298 TACATCGAAGCAGATCGAAGATGAA
66 TACATCGAAGCAGATCGAAGATGAC
* *
1253323 AGATTTGGTGTTTCTGTATTAGACGGGGAGCAGATCAAAGATAGCAGATCTGACATTCGTGTGTT
1 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCAGATCTGACATTCGTGTGTT
* *
1253388 TACATTGAAGCAGATCGAAGATGAT
66 TACATCGAAGCAGATCGAAGATGAC
** *
1253413 AGATTTGGCGTCTCTACATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTT
1 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCAGATCTGACATTCGTGTGTT
* *
1253478 TACAAT-GAAACAGATTGAAGATGAC
66 TAC-ATCGAAGCAGATCGAAGATGAC
* * *
1253503 AGATTTGACGTCTCTGTATTAGATGGGGAGCAGATCAAAGATAGCAGATCTGACACTCGTGTGTT
1 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCAGATCTGACATTCGTGTGTT
* * *
1253568 TGCATTGAAGCAGATCGAAAATGAC
66 TACATCGAAGCAGATCGAAGATGAC
* * * *
1253593 AGATTTGGCGTCTCTGTATTAGATGGGAAGCAGATCGAAGATAGCAGATCTGACATTTGTGTGTT
1 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCAGATCTGACATTCGTGTGTT
* *
1253658 TACATCAAAGCAGATCGAAAATGAC
66 TACATCGAAGCAGATCGAAGATGAC
* * * *
1253683 AGATTTGGCGTCTCTGTATTAGACGGGGAGTAGGTCGAAGATAGCAGATCTGACATTTGTGTGTT
1 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCAGATCTGACATTCGTGTGTT
1253748 TACATCGAAGCAGATCGAAGAT-AGC
66 TACATCGAAGCAGATCGAAGATGA-C
* * * *
1253773 AGATTTGGCGTCTCTGTATTTGACGGCGAGTAGATCAAGGATA
1 AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATA
1253816 TTAACATGGT
Statistics
Matches: 530, Mismatches: 49, Indels: 8
0.90 0.08 0.01
Matches are distributed among these distances:
89 3 0.01
90 524 0.99
91 3 0.01
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (90 bp):
AGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCAGATCTGACATTCGTGTGTT
TACATCGAAGCAGATCGAAGATGAC
Found at i:1255247 original size:29 final size:29
Alignment explanation
Indices: 1255215--1255271 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
1255205 TTTTAATCCT
* *
1255215 TTTTAATTTTTTTATATATAATTTATTTA
1 TTTTAAATATTTTATATATAATTTATTTA
*
1255244 TTTTAAATATTTTATATATTATTTATTT
1 TTTTAAATATTTTATATATAATTTATTT
1255272 TTACTATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (29 bp):
TTTTAAATATTTTATATATAATTTATTTA
Found at i:1255341 original size:7 final size:7
Alignment explanation
Indices: 1255304--1255477 Score: 99
Period size: 7 Copynumber: 23.1 Consensus size: 7
1255294 ATGTAAAAAA
1255304 TTATTAT
1 TTATTAT
1255311 ATATATTAT
1 -T-TATTAT
1255320 TT-TTAT
1 TTATTAT
1255326 TTATGTA-
1 TTAT-TAT
1255333 TTATTTAT
1 TTA-TTAT
1255341 TATATTAT
1 T-TATTAT
1255349 TTA-TATT
1 TTATTA-T
1255356 TTATTAT
1 TTATTAT
*
1255363 ATATTTTAT
1 -T-TATTAT
1255372 TTATATATT
1 TTAT-TA-T
1255381 TTATTAT
1 TTATTAT
*
1255388 ATATTA-
1 TTATTAT
*
1255394 -TATCATT
1 TTATTA-T
1255401 TTATTAT
1 TTATTAT
1255408 ATATATTAT
1 -T-TATTAT
*
1255417 TCATTAT
1 TTATTAT
1255424 ATTATT-T
1 -TTATTAT
*
1255431 TTATTTT
1 TTATTAT
1255438 ATTATATAT
1 -TTAT-TAT
1255447 TATATTAT
1 T-TATTAT
1255455 ATTATTAT
1 -TTATTAT
1255463 TTATTAT
1 TTATTAT
1255470 TTATTAT
1 TTATTAT
1255477 T
1 T
1255478 ATGTATAATT
Statistics
Matches: 135, Mismatches: 8, Indels: 47
0.71 0.04 0.25
Matches are distributed among these distances:
5 4 0.03
6 13 0.10
7 45 0.33
8 43 0.32
9 30 0.22
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (7 bp):
TTATTAT
Found at i:1255415 original size:80 final size:80
Alignment explanation
Indices: 1255304--1255479 Score: 236
Period size: 80 Copynumber: 2.2 Consensus size: 80
1255294 ATGTAAAAAA
* *
1255304 TTATTATATA-TATTATTTTTATTTATGTATTATTTATTATATTATTTATATTTTATTATATATT
1 TTATTATATATTATTATTTTTATTTATATATTATTCATTATATTATTTATATTTTATTATATATT
*
1255368 TTATT-TA-TA-TATT
66 ATATTATATTATTA-T
*
1255381 TTATTATATATTA-TATCATTTTATTATATATATTATTCATTATATTATTTTTATTTTATTATAT
1 TTATTATATATTATTAT--TTTTATT-TATATATTATTCATTATATTATTTATATTTTATTATAT
1255445 ATTATATTATATTATTAT
63 ATTATATTATATTATTAT
*
1255463 TTATTATTTATTATTAT
1 TTATTATATATTATTAT
1255480 GTATAATTTT
Statistics
Matches: 86, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
77 13 0.15
78 2 0.02
79 7 0.08
80 42 0.49
81 2 0.02
82 15 0.17
83 5 0.06
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (80 bp):
TTATTATATATTATTATTTTTATTTATATATTATTCATTATATTATTTATATTTTATTATATATT
ATATTATATTATTAT
Found at i:1255488 original size:17 final size:15
Alignment explanation
Indices: 1255303--1255484 Score: 112
Period size: 15 Copynumber: 12.6 Consensus size: 15
1255293 TATGTAAAAA
*
1255303 ATTATTATATATATT
1 ATTATTATATTTATT
1255318 ATT-TT-TATTTATGT
1 ATTATTATATTTAT-T
1255332 ATTATT-TA-TTA-T
1 ATTATTATATTTATT
1255344 ATTATT-TA--TATT
1 ATTATTATATTTATT
1255356 -TTATTATATATT-TT
1 ATTATTATAT-TTATT
1255370 ATT-TATATATTTTATT
1 ATTAT-TATA-TTTATT
*
1255386 ATATATTATA-TCATT
1 AT-TATTATATTTATT
*
1255401 -TTATTATATATATT
1 ATTATTATATTTATT
1255415 ATTCATTATA-TTA-T
1 ATT-ATTATATTTATT
1255429 -TT-TTAT-TTTATT
1 ATTATTATATTTATT
1255441 ATATATTATATTATATT
1 AT-TATTATATT-TATT
1255458 ATTATTTATTATTTATT
1 ATTA-TTA-TATTTATT
1255475 ATTATGTATA
1 ATTAT-TATA
1255485 ATTTTAAAAA
Statistics
Matches: 136, Mismatches: 5, Indels: 51
0.71 0.03 0.27
Matches are distributed among these distances:
11 14 0.10
12 13 0.10
13 16 0.12
14 18 0.13
15 28 0.21
16 18 0.13
17 24 0.18
18 5 0.04
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (15 bp):
ATTATTATATTTATT
Found at i:1255777 original size:29 final size:29
Alignment explanation
Indices: 1255745--1255801 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
1255735 TTTTAATCCT
* *
1255745 TTTTAATTTTTTTATATATAATTTATTTA
1 TTTTAAATATTTTATATATAATTTATTTA
*
1255774 TTTTAAATATTTTATATATTATTTATTT
1 TTTTAAATATTTTATATATAATTTATTT
1255802 TTACTATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (29 bp):
TTTTAAATATTTTATATATAATTTATTTA
Found at i:1255871 original size:7 final size:7
Alignment explanation
Indices: 1255834--1256007 Score: 99
Period size: 7 Copynumber: 23.1 Consensus size: 7
1255824 ATGTAAAAAA
1255834 TTATTAT
1 TTATTAT
1255841 ATATATTAT
1 -T-TATTAT
1255850 TT-TTAT
1 TTATTAT
1255856 TTATGTA-
1 TTAT-TAT
1255863 TTATTTAT
1 TTA-TTAT
1255871 TATATTAT
1 T-TATTAT
1255879 TTA-TATT
1 TTATTA-T
1255886 TTATTAT
1 TTATTAT
*
1255893 ATATTTTAT
1 -T-TATTAT
1255902 TTATATATT
1 TTAT-TA-T
1255911 TTATTAT
1 TTATTAT
*
1255918 ATATTA-
1 TTATTAT
*
1255924 -TATCATT
1 TTATTA-T
1255931 TTATTAT
1 TTATTAT
1255938 ATATATTAT
1 -T-TATTAT
*
1255947 TCATTAT
1 TTATTAT
1255954 ATTATT-T
1 -TTATTAT
*
1255961 TTATTTT
1 TTATTAT
1255968 ATTATATAT
1 -TTAT-TAT
1255977 TATATTAT
1 T-TATTAT
1255985 ATTATTAT
1 -TTATTAT
1255993 TTATTAT
1 TTATTAT
1256000 TTATTAT
1 TTATTAT
1256007 T
1 T
1256008 ATGTATAATT
Statistics
Matches: 135, Mismatches: 8, Indels: 47
0.71 0.04 0.25
Matches are distributed among these distances:
5 4 0.03
6 13 0.10
7 45 0.33
8 43 0.32
9 30 0.22
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (7 bp):
TTATTAT
Found at i:1255945 original size:80 final size:80
Alignment explanation
Indices: 1255834--1256009 Score: 236
Period size: 80 Copynumber: 2.2 Consensus size: 80
1255824 ATGTAAAAAA
* *
1255834 TTATTATATA-TATTATTTTTATTTATGTATTATTTATTATATTATTTATATTTTATTATATATT
1 TTATTATATATTATTATTTTTATTTATATATTATTCATTATATTATTTATATTTTATTATATATT
*
1255898 TTATT-TA-TA-TATT
66 ATATTATATTATTA-T
*
1255911 TTATTATATATTA-TATCATTTTATTATATATATTATTCATTATATTATTTTTATTTTATTATAT
1 TTATTATATATTATTAT--TTTTATT-TATATATTATTCATTATATTATTTATATTTTATTATAT
1255975 ATTATATTATATTATTAT
63 ATTATATTATATTATTAT
*
1255993 TTATTATTTATTATTAT
1 TTATTATATATTATTAT
1256010 GTATAATTTT
Statistics
Matches: 86, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
77 13 0.15
78 2 0.02
79 7 0.08
80 42 0.49
81 2 0.02
82 15 0.17
83 5 0.06
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (80 bp):
TTATTATATATTATTATTTTTATTTATATATTATTCATTATATTATTTATATTTTATTATATATT
ATATTATATTATTAT
Found at i:1256018 original size:17 final size:15
Alignment explanation
Indices: 1255833--1256014 Score: 112
Period size: 15 Copynumber: 12.6 Consensus size: 15
1255823 TATGTAAAAA
*
1255833 ATTATTATATATATT
1 ATTATTATATTTATT
1255848 ATT-TT-TATTTATGT
1 ATTATTATATTTAT-T
1255862 ATTATT-TA-TTA-T
1 ATTATTATATTTATT
1255874 ATTATT-TA--TATT
1 ATTATTATATTTATT
1255886 -TTATTATATATT-TT
1 ATTATTATAT-TTATT
1255900 ATT-TATATATTTTATT
1 ATTAT-TATA-TTTATT
*
1255916 ATATATTATA-TCATT
1 AT-TATTATATTTATT
*
1255931 -TTATTATATATATT
1 ATTATTATATTTATT
1255945 ATTCATTATA-TTA-T
1 ATT-ATTATATTTATT
1255959 -TT-TTAT-TTTATT
1 ATTATTATATTTATT
1255971 ATATATTATATTATATT
1 AT-TATTATATT-TATT
1255988 ATTATTTATTATTTATT
1 ATTA-TTA-TATTTATT
1256005 ATTATGTATA
1 ATTAT-TATA
1256015 ATTTTAAAAA
Statistics
Matches: 136, Mismatches: 5, Indels: 51
0.71 0.03 0.27
Matches are distributed among these distances:
11 14 0.10
12 13 0.10
13 16 0.12
14 18 0.13
15 28 0.21
16 18 0.13
17 24 0.18
18 5 0.04
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (15 bp):
ATTATTATATTTATT
Found at i:1256062 original size:530 final size:530
Alignment explanation
Indices: 1255181--1256241 Score: 2054
Period size: 530 Copynumber: 2.0 Consensus size: 530
1255171 TTAAAATTAA
1255181 TCCTAGAGTTTTGTTTTTATTTAATTTTAATCCTTTTTAATTTTTTTATATATAATTTATTTATT
1 TCCTAGAGTTTTGTTTTTATTTAATTTTAATCCTTTTTAATTTTTTTATATATAATTTATTTATT
1255246 TTAAATATTTTATATATTATTTATTTTTACTATAAACATTATTTATATATGTAAAAAATTATTAT
66 TTAAATATTTTATATATTATTTATTTTTACTATAAACATTATTTATATATGTAAAAAATTATTAT
1255311 ATATATTATTTTTATTTATGTATTATTTATTATATTATTTATATTTTATTATATATTTTATTTAT
131 ATATATTATTTTTATTTATGTATTATTTATTATATTATTTATATTTTATTATATATTTTATTTAT
1255376 ATATTTTATTATATATTATATCATTTTATTATATATATTATTCATTATATTATTTTTATTTTATT
196 ATATTTTATTATATATTATATCATTTTATTATATATATTATTCATTATATTATTTTTATTTTATT
1255441 ATATATTATATTATATTATTATTTATTATTTATTATTATGTATAATTTTAAAAATTTGTAAATTA
261 ATATATTATATTATATTATTATTTATTATTTATTATTATGTATAATTTTAAAAATTTGTAAATTA
1255506 TTATTAAATAATACATATATCATTATTAAATATTTAGTATATTATGTAATATTCTAAAATTTGCT
326 TTATTAAATAATACATATATCATTATTAAATATTTAGTATATTATGTAATATTCTAAAATTTGCT
1255571 ATAAAGTTTTGTTCCTATTTAATATAATATTATTTTTATAAAATATATATTAAATTATTATATCA
391 ATAAAGTTTTGTTCCTATTTAATATAATATTATTTTTAT-AAA-ATATATTAAATTATTATATCA
* **
1255636 TATAGTATTTTTTTTAATTAATTAA-CCATTTTTTTTAAAAAA-TCTCCTTTATTATTTATATAT
454 TATAATATTTTTTAAAATTAATTAACCCATTTTTTTTAAAAAATTCTCCTTTATTATTTATATAT
1255699 TGTTTTAAATAT
519 TGTTTTAAATAT
1255711 TCCTAGAGTTTTGTTTTTATTTAATTTTAATCCTTTTTAATTTTTTTATATATAATTTATTTATT
1 TCCTAGAGTTTTGTTTTTATTTAATTTTAATCCTTTTTAATTTTTTTATATATAATTTATTTATT
1255776 TTAAATATTTTATATATTATTTATTTTTACTATAAACATTATTTATATATGTAAAAAATTATTAT
66 TTAAATATTTTATATATTATTTATTTTTACTATAAACATTATTTATATATGTAAAAAATTATTAT
1255841 ATATATTATTTTTATTTATGTATTATTTATTATATTATTTATATTTTATTATATATTTTATTTAT
131 ATATATTATTTTTATTTATGTATTATTTATTATATTATTTATATTTTATTATATATTTTATTTAT
1255906 ATATTTTATTATATATTATATCATTTTATTATATATATTATTCATTATATTATTTTTATTTTATT
196 ATATTTTATTATATATTATATCATTTTATTATATATATTATTCATTATATTATTTTTATTTTATT
1255971 ATATATTATATTATATTATTATTTATTATTTATTATTATGTATAATTTTAAAAATTTGTAAATTA
261 ATATATTATATTATATTATTATTTATTATTTATTATTATGTATAATTTTAAAAATTTGTAAATTA
1256036 TTATTAAATAATACATATATCATTATTAAATATTTAGTATATTATGTAATATTCTAAAATTTGCT
326 TTATTAAATAATACATATATCATTATTAAATATTTAGTATATTATGTAATATTCTAAAATTTGCT
1256101 ATAAAGTTTTGTTCCTATTTAATATAATATTATTTTTATAAAATATATTAAATTATTATATCATA
391 ATAAAGTTTTGTTCCTATTTAATATAATATTATTTTTATAAAATATATTAAATTATTATATCATA
*
1256166 TAATATTTTTTAAAATTAATTAACCCTTTTTTTTTAAAAAATTCTCCTTTATTATTTATATATTG
456 TAATATTTTTTAAAATTAATTAACCCATTTTTTTTAAAAAATTCTCCTTTATTATTTATATATTG
1256231 TTTTAAATAT
521 TTTTAAATAT
1256241 T
1 T
1256242 TTTAATACCT
Statistics
Matches: 525, Mismatches: 4, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
528 43 0.08
529 19 0.04
530 463 0.88
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.58
Consensus pattern (530 bp):
TCCTAGAGTTTTGTTTTTATTTAATTTTAATCCTTTTTAATTTTTTTATATATAATTTATTTATT
TTAAATATTTTATATATTATTTATTTTTACTATAAACATTATTTATATATGTAAAAAATTATTAT
ATATATTATTTTTATTTATGTATTATTTATTATATTATTTATATTTTATTATATATTTTATTTAT
ATATTTTATTATATATTATATCATTTTATTATATATATTATTCATTATATTATTTTTATTTTATT
ATATATTATATTATATTATTATTTATTATTTATTATTATGTATAATTTTAAAAATTTGTAAATTA
TTATTAAATAATACATATATCATTATTAAATATTTAGTATATTATGTAATATTCTAAAATTTGCT
ATAAAGTTTTGTTCCTATTTAATATAATATTATTTTTATAAAATATATTAAATTATTATATCATA
TAATATTTTTTAAAATTAATTAACCCATTTTTTTTAAAAAATTCTCCTTTATTATTTATATATTG
TTTTAAATAT
Found at i:1260527 original size:22 final size:22
Alignment explanation
Indices: 1260461--1260528 Score: 61
Period size: 22 Copynumber: 3.1 Consensus size: 22
1260451 CATTAGATAC
*
1260461 ATACATATAAAAATA-ATATAT
1 ATACATACAAAAATATATATAT
* *
1260482 ATACATAGCAAATAT-TA-ACAAT
1 ATACATA-CAAAAATATATA-TAT
*
1260504 ATACATACAAAGATATATATAT
1 ATACATACAAAAATATATATAT
1260526 ATA
1 ATA
1260529 TATATATAAC
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
21 14 0.38
22 22 0.59
23 1 0.03
ACGTcount: A:0.57, C:0.09, G:0.03, T:0.31
Consensus pattern (22 bp):
ATACATACAAAAATATATATAT
Found at i:1260819 original size:28 final size:27
Alignment explanation
Indices: 1260756--1260821 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 27
1260746 TATAACACAA
*
1260756 ATAAAGACATAATATTTAATAATAATCT
1 ATAAA-ACATAATATTTAATAATAATAT
**
1260784 -T-AAA-ATAATATTTGCTATATAATAT
1 ATAAAACATAATATTTAATA-ATAATAT
1260809 ATAAAACATAATA
1 ATAAAACATAATA
1260822 ACAAAATATT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
24 11 0.35
25 7 0.23
26 3 0.10
27 4 0.13
28 6 0.19
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.36
Consensus pattern (27 bp):
ATAAAACATAATATTTAATAATAATAT
Found at i:1260946 original size:31 final size:32
Alignment explanation
Indices: 1260906--1260966 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
1260896 ATGTAAAAGA
*
1260906 ATTTATAAAATAACACATAATATAA-AAATATC
1 ATTTATAAAAAAACACATAATA-AATAAATATC
*
1260938 ATTT-TAAAAAAATACATAATAAATAAATA
1 ATTTATAAAAAAACACATAATAAATAAATA
1260967 ATTAATAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 2 0.08
31 20 0.77
32 4 0.15
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (32 bp):
ATTTATAAAAAAACACATAATAAATAAATATC
Found at i:1260960 original size:15 final size:15
Alignment explanation
Indices: 1260910--1260966 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
1260900 AAAAGAATTT
* *
1260910 ATAAAATAACACATA
1 ATAAAAAAATACATA
* *
1260925 ATATAAAAATATCATT
1 ATAAAAAAATA-CATA
*
1260941 TTAAAAAAATACATA
1 ATAAAAAAATACATA
*
1260956 ATAAATAAATA
1 ATAAAAAAATA
1260967 ATTAATAATT
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
15 20 0.62
16 12 0.38
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (15 bp):
ATAAAAAAATACATA
Found at i:1261228 original size:19 final size:19
Alignment explanation
Indices: 1261173--1261229 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
1261163 AAAATAACGA
* *
1261173 AAATATAT-ATGTAAGAA-
1 AAATATATAATATAAAAAT
*
1261190 AAATATATAA-ATAATTAAT
1 AAATATATAATATAA-AAAT
1261209 AAATATATAATATAAAAAT
1 AAATATATAATATAAAAAT
1261228 AA
1 AA
1261230 TGATGTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
17 11 0.33
18 3 0.09
19 15 0.45
20 4 0.12
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.32
Consensus pattern (19 bp):
AAATATATAATATAAAAAT
Found at i:1263481 original size:27 final size:27
Alignment explanation
Indices: 1263451--1263505 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
1263441 TTGACGGTGA
* *
1263451 TAGACTCGTTTGTGTAGTTCTTTTGTT
1 TAGACTCGTTCGTATAGTTCTTTTGTT
1263478 TAGACTCGTTCGTATAGTTCTTTTGTT
1 TAGACTCGTTCGTATAGTTCTTTTGTT
1263505 T
1 T
1263506 CCTAAACATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.13, C:0.13, G:0.20, T:0.55
Consensus pattern (27 bp):
TAGACTCGTTCGTATAGTTCTTTTGTT
Found at i:1265936 original size:202 final size:202
Alignment explanation
Indices: 1265685--1266090 Score: 812
Period size: 202 Copynumber: 2.0 Consensus size: 202
1265675 TATAAAAAAT
1265685 AAAGAATGCATATAAAAATTTGAAATTGATAATACATACGGGAAAGAAATTAAAGTAAACAGTAA
1 AAAGAATGCATATAAAAATTTGAAATTGATAATACATACGGGAAAGAAATTAAAGTAAACAGTAA
1265750 AACAATTTAAAATGAATAATACATAAAAACAAGTTTAAAATAAATAATGTATAAAGCATTTTAAA
66 AACAATTTAAAATGAATAATACATAAAAACAAGTTTAAAATAAATAATGTATAAAGCATTTTAAA
1265815 GTAAAAGATATAAAAAGGTTCAAATAAAGAATGTATAAAAAACTTAAAATAAATAATACTAAAGA
131 GTAAAAGATATAAAAAGGTTCAAATAAAGAATGTATAAAAAACTTAAAATAAATAATACTAAAGA
1265880 AGCCTAA
196 AGCCTAA
1265887 AAAGAATGCATATAAAAATTTGAAATTGATAATACATACGGGAAAGAAATTAAAGTAAACAGTAA
1 AAAGAATGCATATAAAAATTTGAAATTGATAATACATACGGGAAAGAAATTAAAGTAAACAGTAA
1265952 AACAATTTAAAATGAATAATACATAAAAACAAGTTTAAAATAAATAATGTATAAAGCATTTTAAA
66 AACAATTTAAAATGAATAATACATAAAAACAAGTTTAAAATAAATAATGTATAAAGCATTTTAAA
1266017 GTAAAAGATATAAAAAGGTTCAAATAAAGAATGTATAAAAAACTTAAAATAAATAATACTAAAGA
131 GTAAAAGATATAAAAAGGTTCAAATAAAGAATGTATAAAAAACTTAAAATAAATAATACTAAAGA
1266082 AGCCTAA
196 AGCCTAA
1266089 AA
1 AA
1266091 TAAATAAATA
Statistics
Matches: 204, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
202 204 1.00
ACGTcount: A:0.58, C:0.06, G:0.11, T:0.25
Consensus pattern (202 bp):
AAAGAATGCATATAAAAATTTGAAATTGATAATACATACGGGAAAGAAATTAAAGTAAACAGTAA
AACAATTTAAAATGAATAATACATAAAAACAAGTTTAAAATAAATAATGTATAAAGCATTTTAAA
GTAAAAGATATAAAAAGGTTCAAATAAAGAATGTATAAAAAACTTAAAATAAATAATACTAAAGA
AGCCTAA
Found at i:1266115 original size:26 final size:25
Alignment explanation
Indices: 1266056--1266115 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 25
1266046 AATGTATAAA
*
1266056 AAACTTAAAATAAATAATACTAAAG
1 AAACTTAAAATAAATAATACAAAAG
* *
1266081 AAGCCTAAAATAAATAAATACAAAAG
1 AAACTTAAAATAAAT-AATACAAAAG
*
1266107 AAATTTAAA
1 AAACTTAAA
1266116 GGTCAATAAC
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
25 13 0.46
26 15 0.54
ACGTcount: A:0.65, C:0.08, G:0.05, T:0.22
Consensus pattern (25 bp):
AAACTTAAAATAAATAATACAAAAG
Found at i:1268290 original size:88 final size:88
Alignment explanation
Indices: 1268054--1268288 Score: 284
Period size: 88 Copynumber: 2.7 Consensus size: 88
1268044 ACGTGAGCTA
* * * *
1268054 AGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTTTG-AAA-CTTAATTTGAAAAGCAGATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCATAAATTGAAAA--ATATT
*
1268117 TTGAAAATACCCCGACATGTGACCCG
64 TTGAAAATACCCAGACA-GTGACCCG
*
1268143 AGGCTCAACTCACCTCTCGTAATATGAGTTGA--TTTTTGAAAAGCATAAATTGAAAAAATATTA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCATAAATTG-AAAAATATT-
*
1268206 ATTGAAAATACCTCAG-C-GTGCCCCG
64 -TTGAAAATACC-CAGACAGTGACCCG
**
1268231 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGGAATTGAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCATAAATTGAAAA
1268289 TACCCCAGCG
Statistics
Matches: 128, Mismatches: 10, Indels: 16
0.83 0.06 0.10
Matches are distributed among these distances:
87 6 0.05
88 45 0.35
89 41 0.32
90 34 0.27
91 2 0.02
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (88 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCATAAATTGAAAAATATTTT
GAAAATACCCAGACAGTGACCCG
Found at i:1268328 original size:77 final size:75
Alignment explanation
Indices: 1268205--1268348 Score: 225
Period size: 77 Copynumber: 1.9 Consensus size: 75
1268195 AAAAAATATT
* * * *
1268205 AATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 AATTGAAAATACCCCAGCGTGACCCAAGGCTCAACTCACCCCTCGCAATATGAGTTGATTTTTTT
1268270 GAAAAGCAGG
66 GAAAAGCAGG
*
1268280 AATTGAAAATACCCCAGCGTGTGAGCCAAGGCTCAACTCACCCCTCGCAATATGAGTTGATTTTT
1 AATTGAAAATACCCCAGC--GTGACCCAAGGCTCAACTCACCCCTCGCAATATGAGTTGATTTTT
1268345 TTGA
64 TTGA
1268349 TGATAAATTA
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
75 17 0.27
77 45 0.73
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.27
Consensus pattern (75 bp):
AATTGAAAATACCCCAGCGTGACCCAAGGCTCAACTCACCCCTCGCAATATGAGTTGATTTTTTT
GAAAAGCAGG
Found at i:1268405 original size:72 final size:75
Alignment explanation
Indices: 1268228--1268416 Score: 217
Period size: 77 Copynumber: 2.5 Consensus size: 75
1268218 TCAGCGTGCC
* *
1268228 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGGAATTGAAAATACC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAGCAGAAATTAAAAATACC
*
1268293 CCAGCGTGTGAG
65 CCA-CATGTGAG
* * * *
1268305 CCAAGGCTCAACTCACCCCTCGCAATATGAGTTGATTTTTTTG-ATG-ATAAATTAAAAAT-CCC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGCAGAAATTAAAAATACCC
1268367 TCA-ATGTGA-
66 -CACATGTGAG
* * *
1268376 CTTGAGGCTCAACTCACCTCTCGCGATATGAGTTCATTTTT
1 C-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1268417 GAAAAATAAA
Statistics
Matches: 98, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
71 1 0.01
72 39 0.40
73 3 0.03
74 12 0.12
75 2 0.02
77 41 0.42
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (75 bp):
CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGCAGAAATTAAAAATACCC
CACATGTGAG
Found at i:1268562 original size:73 final size:73
Alignment explanation
Indices: 1268429--1268666 Score: 341
Period size: 73 Copynumber: 3.2 Consensus size: 73
1268419 AAAATAAATT
* * * * *
1268429 AAAACACAAAAATTGACAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTAGTAATATGAGT
1 AAAA-ACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
*
1268494 TGAATTTTG
65 TGATTTTTG
*
1268503 AAAAACAGAAATTGAAAATATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1268568 GATTTTTTTG
66 GA--TTTTTG
* * *
1268578 AAAAGCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAGCT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1268643 GATTTTTG
66 GATTTTTG
* *
1268651 AAAAACATAAACTGAA
1 AAAAACAGAAATTGAA
1268667 GAAAACAGAA
Statistics
Matches: 148, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
73 76 0.51
74 4 0.03
75 68 0.46
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (73 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTG
Found at i:1268731 original size:237 final size:234
Alignment explanation
Indices: 1268102--1268751 Score: 776
Period size: 237 Copynumber: 2.7 Consensus size: 234
1268092 TGAAACTTAA
** * * *
1268102 TTTGAAAAGCAGATTTTGAAAATACC-CCGACATGTGACCCGAGGCTCAACTCACCTCTCGTAAT
1 TTTGAAAAGCAGAAATTGAAAATACCTCAG-C--GTGACCTGAGGCTCAACTCACCTCTCGCAAT
* * ** *
1268166 ATGAGTTGATTTTTGAAAAGCATAAATTGAAAAAATATTAATTGAAAATACCTCAGCGTGCCCCG
63 ATGAGTTGATTTTTGAAAAACATAAA-TGAAAAAACAAAAATTG-AAATACCTCAGCGTGCCCTG
* * *
1268231 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGGAATTGAAAATACCCCA
126 AGGCTCAACTCACCTCTCACAATATGAGTTGA--TTTTTGAAAAACAGAAATTGAAAATACCCCA
1268296 GCGTGTGAGCCAAGGCTCAACTCACCCCTCGCAATATGAGTTGATTTT
189 GCGTGT--GCCAAGGCTCAACTCACCCCTCGCAATATGAGTTGATTTT
* * * * ** * *
1268344 TTTG--ATG-ATAAATTAAAAATCCCTCAATGTGACTTGAGGCTCAACTCACCTCTCGCGATATG
1 TTTGAAAAGCAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATG
* * *
1268406 AGTTCATTTTTG-AAAA-ATAAATTAAAACACAAAAATTGACAATACCTCAGCGTGCCCTGAGGC
66 AGTTGATTTTTGAAAAACATAAATGAAAAAACAAAAATTGA-AATACCTCAGCGTGCCCTGAGGC
* * * *
1268469 TCAACTCACCTCT-AGTAATATGAGTTGAATTTTGAAAAACAGAAATTGAAAATATCTCAGCGTG
130 TCAACTCACCTCTCA-CAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCCCAGCGTG
* *
1268533 T-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
194 TGCC-AAGGCTCAACTCACCCCTCGCAATATGAGTTGATTTT
* *
1268574 TTTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATG
1 TTTGAAAAGCAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATG
* * * *
1268639 AGCTGATTTTTGAAAAACATAAACTGAAGAAAACAGAAATTGAAATTACCTCAGCATGTCCTGAG
66 AGTTGATTTTTGAAAAACATAAA-TGAA-AAAACAAAAATTGAAA-TACCTCAGCGTGCCCTGAG
*
1268704 GCTCAACTTACCTCTCACAATATGAGTTGATTTTTGAAAAACAGAAAT
128 GCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAGAAAT
1268752 AAAACATCAG
Statistics
Matches: 345, Mismatches: 50, Indels: 31
0.81 0.12 0.07
Matches are distributed among these distances:
229 2 0.01
230 39 0.11
232 34 0.10
233 57 0.17
234 63 0.18
235 10 0.03
236 8 0.02
237 113 0.33
238 1 0.00
239 11 0.03
240 3 0.01
242 4 0.01
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.28
Consensus pattern (234 bp):
TTTGAAAAGCAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTTGAAAAACATAAATGAAAAAACAAAAATTGAAATACCTCAGCGTGCCCTGAGGCT
CAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCCCAGCGTGTG
CCAAGGCTCAACTCACCCCTCGCAATATGAGTTGATTTT
Found at i:1268735 original size:89 final size:90
Alignment explanation
Indices: 1268577--1268746 Score: 279
Period size: 89 Copynumber: 1.9 Consensus size: 90
1268567 TGATTTTTTT
* * *
1268577 GAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAGC
1 GAAAAGCAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCACAATATGAGC
1268642 TGATTTTTGAAAAACATAAACTGAA
66 TGATTTTTGAAAAACATAAACTGAA
* * *
1268667 GAAAA-CAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTTACCTCTCACAATATGAGT
1 GAAAAGCAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCACAATATGAGC
1268731 TGATTTTTGAAAAACA
66 TGATTTTTGAAAAACA
1268747 GAAATAAAAC
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
89 69 0.93
90 5 0.07
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (90 bp):
GAAAAGCAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCACAATATGAGC
TGATTTTTGAAAAACATAAACTGAA
Found at i:1269123 original size:75 final size:75
Alignment explanation
Indices: 1268991--1269918 Score: 547
Period size: 75 Copynumber: 11.9 Consensus size: 75
1268981 TGTTTCAACT
* *
1268991 ACAAACAATAATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCA-CTTCTCGCAATATGAGT
1 ACAAACAATAATTGAAAATACCTCAGCGTACCCCGAGGCTCAACTCACCTT-TCGCAATATGAGT
1269055 TGATTTTTTTA
65 TGATTTTTTTA
* * *
1269066 ACAAACAATAATTGAAAATACCTCAGCGTTCCCCGAGGCTCAACTCACCTTTAGCAATATGAATT
1 ACAAACAATAATTGAAAATACCTCAGCGTACCCCGAGGCTCAACTCACCTTTCGCAATATGAGTT
*
1269131 GA--TTTTTG
66 GATTTTTTTA
* *** * * * *
1269139 A-AAAC-ATAAATTGAAAA-ACAGAAATCGAAAATACTCAGCATGTCCTGAGGCTCAACTCACCT
1 ACAAACAAT-AATTGAAAATAC----CTC-AGCGTACCCCG-A-G-GCT----C-AA-CTCACCT
* * * *
1269201 CTCGCAGTATAAGTTGA--TTTTTG
51 TTCGCAATATGAGTTGATTTTTTTA
* * * *
1269224 CCAAACAGTAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 ACAAACAATAATTGAAAATACCTCAGCGTACCCCGAGGCTCAACTCACCTTTCGCAATATGAGTT
*
1269289 GATTTTTTTT
66 GATTTTTTTA
** *
1269299 ACAAACAATAATTGAAAATACCTCAGCGTACCCCGAGGCTCAACTCACCCCTCGTAATATGAGTT
1 ACAAACAATAATTGAAAATACCTCAGCGTACCCCGAGGCTCAACTCACCTTTCGCAATATGAGTT
***
1269364 GATTTAGAAAATA
66 GATTT---TTTTA
* * * ** *
1269377 GACATAAAAACAGA-AATTGAAAGTGA-CTCAACACATAAGCCAAGGCTCAACTCACCTTTCGCA
1 -AC----AAACA-ATAATTGAAAAT-ACCTC-A-GCGTACCCCGAGGCTCAACTCACCTTTCGCA
1269440 ATATGAGTTGATATTTTTT-
57 ATATGAGTTGAT-TTTTTTA
** * * ** ** *
1269459 A-TGA-TA-AATTAAAAATACCTCAATGTGA-CTTGAGGCTCAACTCACCTCTT-GCGATATGAG
1 ACAAACAATAATTGAAAATACCTCAGCGT-ACCCCGAGGCTCAACTCACCT-TTCGCAATATGAG
1269519 TTGATTTTTGAAAAATAAATTA
64 TTGA-TTTT------T---TTA
* * * *
1269541 A-AACACAAAAATTGACAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
1 ACAA-ACAATAATTGAAAATACCTCAGCGTACCCCGAGGCTCAACTCACCTTTCGCAATATGAGT
1269605 TGATTTTTTTA
65 TGATTTTTTTA
* * *
1269616 ACAAACAATAATTGAAAATACCTCAGCGTTCCCCGAGGCTCAACTCACCTTTAGCAATATGAATT
1 ACAAACAATAATTGAAAATACCTCAGCGTACCCCGAGGCTCAACTCACCTTTCGCAATATGAGTT
*
1269681 GA--TTTTTG
66 GATTTTTTTA
* *** * * * *
1269689 A-AAAC-ATAAATTGAAAA-ACAGAAATCGAAAATACTCAGCATGTCCTGAGGCTCAACTCACCT
1 ACAAACAAT-AATTGAAAATAC----CTC-AGCGTACCCCG-A-G-GCT----C-AA-CTCACCT
* * *
1269751 CTCGCAGTATGAGTTGA--TTTTTG
51 TTCGCAATATGAGTTGATTTTTTTA
* * * **
1269774 CCAAACAGTAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGCAATATGAGTT
1 ACAAACAATAATTGAAAATACCTCAGCGTACCCCGAGGCTCAACTCACCTTTCGCAATATGAGTT
1269839 GATTTTTTTA
66 GATTTTTTTA
1269849 ACAAACAATAATTGAAAATACCTCAGCGTACCCCGAGGCTCAACTCACCTCTT-GCAATATGAGT
1 ACAAACAATAATTGAAAATACCTCAGCGTACCCCGAGGCTCAACTCACCT-TTCGCAATATGAGT
1269913 TGATTT
65 TGATTT
1269919 AGAAAACAGA
Statistics
Matches: 661, Mismatches: 117, Indels: 150
0.71 0.13 0.16
Matches are distributed among these distances:
71 8 0.01
72 59 0.09
73 62 0.09
74 14 0.02
75 265 0.40
76 16 0.02
77 2 0.00
78 5 0.01
79 10 0.02
80 2 0.00
81 5 0.01
82 11 0.02
83 25 0.04
84 11 0.02
85 132 0.20
86 28 0.04
87 6 0.01
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (75 bp):
ACAAACAATAATTGAAAATACCTCAGCGTACCCCGAGGCTCAACTCACCTTTCGCAATATGAGTT
GATTTTTTTA
Found at i:1269425 original size:233 final size:230
Alignment explanation
Indices: 1268992--1269610 Score: 699
Period size: 233 Copynumber: 2.6 Consensus size: 230
1268982 GTTTCAACTA
*
1268992 CAAACAATAATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTG
1 CAAAC-ATAATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* * * *
1269057 ATTTTTTTAACAAACAATAATTGAAAATACCTCAGCGTTCCCCGAGGCTCAACTCACCTTTAGCA
65 ATTTTTTTTACAAACAATAATTGAAAATACCTCAGCGTACCCCGAGGCTCAACTCACCTCTCGCA
* * * * *
1269122 ATATGAATTGATTTTTGAAAACATAAATTGAAAAACAGAAATCGAAAATACTCAGCATGTCCTGA
130 ATATGAGTTGA-TTTAGAAAACAGAAATTGAAAAACAGAAATCGAAAATACTCAACATGTCCTAA
*
1269187 GGCTCAACTCACCTCTCGCAGTATAAGTTGAT-TTTT
194 GGCTCAACTCACCTCTCGCAATATAAGTTGATATTTT
*
1269223 GCCAAACAGTAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
1 --CAAACA-TAATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
*
1269288 TGATTTTTTTTACAAACAATAATTGAAAATACCTCAGCGTACCCCGAGGCTCAACTCACCCCTCG
63 TGATTTTTTTTACAAACAATAATTGAAAATACCTCAGCGTACCCCGAGGCTCAACTCACCTCTCG
* * * * *
1269353 TAATATGAGTTGATTTAGAAAATAGACA-T-AAAAACAGAAATTGAAAGTGACTCAACACATAAG
128 CAATATGAGTTGATTTAGAAAACAGAAATTGAAAAACAGAAATCGAAAAT-ACTC-A-ACAT--G
* *
1269416 -CC-AAGGCTCAACTCACCTTTCGCAATATGAGTTGATATTTT
188 TCCTAAGGCTCAACTCACCTCTCGCAATATAAGTTGATATTTT
** ** ** * ** * *
1269457 TTATGATAAATTAAAAATACCTCAATGTGACTTGAGGCTCAACTCACCTCTTGCGATATGAGTTG
1 CAAACAT-AATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* * * *
1269522 ATTTTTGAAAAATAAATTAAAACACAAAAATTGACAATACCTCAGCGTGCCCCGAGGCTCAACTC
65 ATTTTT------T---TTACAA-ACAATAATTGAAAATACCTCAGCGTACCCCGAGGCTCAACTC
1269587 ACCTCTCGCAATATGAGTTGATTT
120 ACCTCTCGCAATATGAGTTGATTT
1269611 TTTTAACAAA
Statistics
Matches: 330, Mismatches: 38, Indels: 27
0.84 0.10 0.07
Matches are distributed among these distances:
230 17 0.05
231 6 0.02
232 70 0.21
233 163 0.49
234 6 0.02
235 1 0.00
238 1 0.00
241 5 0.02
242 61 0.18
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.27
Consensus pattern (230 bp):
CAAACATAATTAAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTTTTACAAACAATAATTGAAAATACCTCAGCGTACCCCGAGGCTCAACTCACCTCTCGCAA
TATGAGTTGATTTAGAAAACAGAAATTGAAAAACAGAAATCGAAAATACTCAACATGTCCTAAGG
CTCAACTCACCTCTCGCAATATAAGTTGATATTTT
Found at i:1269443 original size:160 final size:154
Alignment explanation
Indices: 1269226--1269845 Score: 646
Period size: 160 Copynumber: 3.9 Consensus size: 154
1269216 GATTTTTGCC
* *
1269226 AAACAGTAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACAGAAATTG-AAATA-CTCAGCATG--CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
1269291 TTTTTTTTACAAACAATAATTGAAAATACCTCAGCGTACCCCGAGGCTCAACTCACCCCTCGTAA
62 TTTTTTTTACAAACAATAATTGAAAATACCTCAGCGTACCCCGAGGCTCAACTCACCCCTCGCAA
*
1269356 TATGAGTTGA-TTTAGAAAATAGACA-TAA
127 TATGAGTTGATTTTTGAAAATA-A-ATTAA
* * *
1269384 AAACAGAAATTGAAAGTGACTCAACACATAAGCCAAGGCTCAACTCACCTTTCGCAATATGAGTT
1 AAACAGAAATTGAAA-T-ACTC-A-GCAT--GCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
* ** * * ** ** * *
1269449 GATATTTTTTA-TGA-TA-AATTAAAAATACCTCAATGTGA-CTTGAGGCTCAACTCACCTCTTG
60 GATTTTTTTTACAAACAATAATTGAAAATACCTCAGCGT-ACCCCGAGGCTCAACTCACCCCTCG
*
1269510 CGATATGAGTTGATTTTTGAAAAATAAATTAA
124 CAATATGAGTTGATTTTTG-AAAATAAATTAA
* *
1269542 AACACAAAAATTGACAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AA-ACAGAAATTGA-AATA-CTCAGCATG--CCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* * ** *
1269607 ATTTTTTTAACAAACAATAATTGAAAATACCTCAGCGTTCCCCGAGGCTCAACTCACCTTTAGCA
61 ATTTTTTTTACAAACAATAATTGAAAATACCTCAGCGTACCCCGAGGCTCAACTCACCCCTCGCA
*
1269672 ATATGAATTGATTTTTGAAAACATAAATTGAA
126 ATATGAGTTGATTTTTG-AAA-ATAAATT-AA
* *
1269704 AAACAGAAATCGAAAATACTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAGTATGAGTTGA-
1 AAACAGAAATTG-AAATACTCAGCATG-CC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
** * *
1269768 -TTTTTGCCAAACAGTAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCC-CGCAA
63 TTTTTTTACAAACAATAATTGAAAATACCTCAGCGTACCCCGAGGCTCAACTCACC-CCTCGCAA
1269831 TATGAGTTGATTTTT
127 TATGAGTTGATTTTT
1269846 TTAACAAACA
Statistics
Matches: 386, Mismatches: 52, Indels: 48
0.79 0.11 0.10
Matches are distributed among these distances:
155 1 0.00
157 93 0.24
158 99 0.26
159 26 0.07
160 142 0.37
161 19 0.05
162 6 0.02
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (154 bp):
AAACAGAAATTGAAATACTCAGCATGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
TTTTACAAACAATAATTGAAAATACCTCAGCGTACCCCGAGGCTCAACTCACCCCTCGCAATATG
AGTTGATTTTTGAAAATAAATTAA
Found at i:1269619 original size:550 final size:549
Alignment explanation
Indices: 1269007--1270007 Score: 1903
Period size: 550 Copynumber: 1.8 Consensus size: 549
1268997 AATAATTAAA
*
1269007 AATACCTCAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAACAAAC
1 AATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAACAAAC
1269072 AATAATTGAAAATACCTCAGCGTTCCCCGAGGCTCAACTCACCTTTAGCAATATGAATTGATTTT
66 AATAATTGAAAATACCTCAGCGTTCCCCGAGGCTCAACTCACCTTTAGCAATATGAATTGATTTT
1269137 TGAAAACATAAATTGAAAAACAGAAATCGAAAATACTCAGCATGTCCTGAGGCTCAACTCACCTC
131 TGAAAACATAAATTGAAAAACAGAAATCGAAAATACTCAGCATGTCCTGAGGCTCAACTCACCTC
1269202 TCGCAGTATAAGTTGATTTTTGCCAAACAGTAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAA
196 TCGCAGTATAAGTTGATTTTTGCCAAACAGTAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAA
* *
1269267 CTCACCTCTCGCAATATGAGTTGATTTTTTTTACAAACAATAATTGAAAATACCTCAGCGTACCC
261 CTCACCTCCCGCAATATGAGTTGATTTTTTTAACAAACAATAATTGAAAATACCTCAGCGTACCC
* *
1269332 CGAGGCTCAACTCACCCCTCGTAATATGAGTTGATTTAGAAAATAGACATAAAAACAGAAATTGA
326 CGAGGCTCAACTCACCCCTCGCAATATGAGTTGATTTAGAAAACAGACATAAAAACAGAAATTGA
1269397 AAGTGACTCAACACATAAGCCAAGGCTCAACTCACCTTTCGCAATATGAGTTGATATTTTTTATG
391 AAGTGACTCAACACATAAGCCAAGGCTCAACTCACCTTTCGCAATATGAGTTGAT-TTTTTTATG
1269462 ATAAATTAAAAATACCTCAATGTGACTTGAGGCTCAACTCACCTCTTGCGATATGAGTTGATTTT
455 ATAAATTAAAAATACCTCAATGTGACTTGAGGCTCAACTCACCTCTTGCGATATGAGTTGATTTT
1269527 TGAAAAATAAATTAAAACACAAAAATTGAC
520 TGAAAAATAAATTAAAACACAAAAATTGAC
1269557 AATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAACAAAC
1 AATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAACAAAC
1269622 AATAATTGAAAATACCTCAGCGTTCCCCGAGGCTCAACTCACCTTTAGCAATATGAATTGATTTT
66 AATAATTGAAAATACCTCAGCGTTCCCCGAGGCTCAACTCACCTTTAGCAATATGAATTGATTTT
1269687 TGAAAACATAAATTGAAAAACAGAAATCGAAAATACTCAGCATGTCCTGAGGCTCAACTCACCTC
131 TGAAAACATAAATTGAAAAACAGAAATCGAAAATACTCAGCATGTCCTGAGGCTCAACTCACCTC
*
1269752 TCGCAGTATGAGTTGATTTTTGCCAAACAGTAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAA
196 TCGCAGTATAAGTTGATTTTTGCCAAACAGTAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAA
1269817 CTCACCTCCCGCAATATGAGTTGATTTTTTTAACAAACAATAATTGAAAATACCTCAGCGTACCC
261 CTCACCTCCCGCAATATGAGTTGATTTTTTTAACAAACAATAATTGAAAATACCTCAGCGTACCC
* *
1269882 CGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTAGAAAACAGACATAAAAACAGAAATTGA
326 CGAGGCTCAACTCACCCCTCGCAATATGAGTTGATTTAGAAAACAGACATAAAAACAGAAATTGA
* *
1269947 AAGTGACTCAACACGTGAGCCAAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTT
391 AAGTGACTCAACACATAAGCCAAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTT
1270008 GAAAGTAGAA
Statistics
Matches: 441, Mismatches: 10, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
549 6 0.01
550 435 0.99
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (549 bp):
AATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAACAAAC
AATAATTGAAAATACCTCAGCGTTCCCCGAGGCTCAACTCACCTTTAGCAATATGAATTGATTTT
TGAAAACATAAATTGAAAAACAGAAATCGAAAATACTCAGCATGTCCTGAGGCTCAACTCACCTC
TCGCAGTATAAGTTGATTTTTGCCAAACAGTAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAA
CTCACCTCCCGCAATATGAGTTGATTTTTTTAACAAACAATAATTGAAAATACCTCAGCGTACCC
CGAGGCTCAACTCACCCCTCGCAATATGAGTTGATTTAGAAAACAGACATAAAAACAGAAATTGA
AAGTGACTCAACACATAAGCCAAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTATGA
TAAATTAAAAATACCTCAATGTGACTTGAGGCTCAACTCACCTCTTGCGATATGAGTTGATTTTT
GAAAAATAAATTAAAACACAAAAATTGAC
Found at i:1269622 original size:317 final size:307
Alignment explanation
Indices: 1269185--1269918 Score: 858
Period size: 317 Copynumber: 2.4 Consensus size: 307
1269175 AGCATGTCCT
* * * ** **
1269185 GAGGCTCAACTCACCTCTCGCAGTATAAGTTGA--TTTTTGCCAAACAGTAATTGAAAATACCTC
1 GAGGCTCAACTCACCTCCCGCAATATGAGTTGATTTTTTTAACAAACAAAAATTGAAAATACCTC
*
1269248 AGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTACAAACAATAATTG
66 AGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAACAAACAATAATTG
* * * *
1269313 AAAATACCTCAGCGTACCCCGAGGCTCAACTCACCCCTCGTAATATGAGTTGA-TTTAGAAAATA
131 AAAATACCTCAGCGTACCCCGAGGCTCAACTCACCCCTAGCAATATGAATTGATTTTAGAAAACA
* * * *
1269377 GACA-T-AAAAACAGAAATTGAAAGTGACTCAACACATAAG-CC-AAGGCTCAACTCACCTTTCG
196 GAAATTGAAAAACAGAAATCGAAAAT-ACTC-A-ACAT--GTCCTAAGGCTCAACTCACCTCTCG
** * * * **
1269438 CAATATGAGTTGATATTTT-TTATGATA-AATTAAAAATACCTCAATGTGACTT
256 CAATATGAGTTGAT-TTTTGCCA-AACAGAATTAAAAATACCTCAACGTGACCC
** *
1269490 GAGGCTCAACTCACCTCTTGCGATATGAGTTGATTTTTGAAAAATAAATTAA-AACACAAAAATT
1 GAGGCTCAACTCACCTCCCGCAATATGAGTTGA-TTTT------T---TTAACAA-ACAAAAATT
*
1269554 GACAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAACA
55 GAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAACA
* **
1269619 AACAATAATTGAAAATACCTCAGCGTTCCCCGAGGCTCAACTCACCTTTAGCAATATGAATTGAT
120 AACAATAATTGAAAATACCTCAGCGTACCCCGAGGCTCAACTCACCCCTAGCAATATGAATTGAT
* * * *
1269684 TTTTGAAAACATAAATTGAAAAACAGAAATCGAAAATACTCAGCATGTCCTGAGGCTCAACTCAC
185 TTTAGAAAACAGAAATTGAAAAACAGAAATCGAAAATACTCAACATGTCCTAAGGCTCAACTCAC
* * * *
1269749 CTCTCGCAGTATGAGTTGATTTTTGCCAAACAGTAATTGAAAATACCTCAGCGTGCCCC
250 CTCTCGCAATATGAGTTGATTTTTGCCAAACAG-AATTAAAAATACCTCAACGTGACCC
*
1269808 GAGGCTCAACTCACCTCCCGCAATATGAGTTGATTTTTTTAACAAACAATAATTGAAAATACCTC
1 GAGGCTCAACTCACCTCCCGCAATATGAGTTGATTTTTTTAACAAACAAAAATTGAAAATACCTC
* *
1269873 AGCGTACCCCGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTT
66 AGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1269919 AGAAAACAGA
Statistics
Matches: 364, Mismatches: 43, Indels: 41
0.81 0.10 0.09
Matches are distributed among these distances:
305 29 0.08
308 68 0.19
309 2 0.01
311 1 0.00
314 1 0.00
315 1 0.00
316 10 0.03
317 169 0.46
318 61 0.17
319 5 0.01
320 17 0.05
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (307 bp):
GAGGCTCAACTCACCTCCCGCAATATGAGTTGATTTTTTTAACAAACAAAAATTGAAAATACCTC
AGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAACAAACAATAATTG
AAAATACCTCAGCGTACCCCGAGGCTCAACTCACCCCTAGCAATATGAATTGATTTTAGAAAACA
GAAATTGAAAAACAGAAATCGAAAATACTCAACATGTCCTAAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATTTTTGCCAAACAGAATTAAAAATACCTCAACGTGACCC
Found at i:1269823 original size:233 final size:232
Alignment explanation
Indices: 1269550--1270063 Score: 741
Period size: 233 Copynumber: 2.2 Consensus size: 232
1269540 AAAACACAAA
*
1269550 AATTGACAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 AATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
*
1269615 AACAAACAATAATTGAAAATACCTCAGCGTTCCCCGAGGCTCAACTCACCT-TTAGCAATATGAA
66 AACAAACAATAATTGAAAATACCTCAGCGTACCCCGAGGCTCAACTCACCTCTT-GCAATATGAA
* * * * *
1269679 TTGATTTTTGAAAACATAAATTGAAAAACAGAAATCGAAAAT-ACTCAGCA-TG-TCCTGAGGCT
130 TTGA-TTTAGAAAACAGAAA-T-AAAAACAGAAATCGAAAATGACTCAACACTGAGCC-AAGGCT
*
1269741 CAACTCACCTCTCGCAGTATGAGTTGATTTTTGCCAAA-CAG
191 CAACTCACCTCTCGCAATATGAGTTGATTTTTGCCAAAGCAG
*
1269782 TAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGCAATATGAGTTGATTTTTT
1 -AATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
*
1269847 TAACAAACAATAATTGAAAATACCTCAGCGTACCCCGAGGCTCAACTCACCTCTTGCAATATGAG
65 TAACAAACAATAATTGAAAATACCTCAGCGTACCCCGAGGCTCAACTCACCTCTTGCAATATGAA
* * *
1269912 TTGATTTAGAAAACAGACATAAAAACAGAAATTGAAAGTGACTCAACACGTGAGCCAAGGCTCAA
130 TTGATTTAGAAAACAGAAATAAAAACAGAAATCGAAAATGACTCAACAC-TGAGCCAAGGCTCAA
* *** *
1269977 CTCACCTTTCGCAATATGAGTTGATTTTTTTGAAAGTAG
194 CTCACCTCTCGCAATATGAGTTGATTTTTGCCAAAGCAG
* *
1270016 AATTTGAAAATACCTCGGCGTGCTCCGAGGCTCAACTCACCTCTCGCA
1 AA-TTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCA
1270064 GAAATGAAAC
Statistics
Matches: 253, Mismatches: 21, Indels: 13
0.88 0.07 0.05
Matches are distributed among these distances:
230 17 0.07
231 8 0.03
232 12 0.05
233 168 0.66
234 48 0.19
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.26
Consensus pattern (232 bp):
AATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
AACAAACAATAATTGAAAATACCTCAGCGTACCCCGAGGCTCAACTCACCTCTTGCAATATGAAT
TGATTTAGAAAACAGAAATAAAAACAGAAATCGAAAATGACTCAACACTGAGCCAAGGCTCAACT
CACCTCTCGCAATATGAGTTGATTTTTGCCAAAGCAG
Found at i:1275872 original size:14 final size:14
Alignment explanation
Indices: 1275853--1275879 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1275843 TCTATCCGGT
1275853 CTTGCAGTAACCTC
1 CTTGCAGTAACCTC
1275867 CTTGCAGTAACCT
1 CTTGCAGTAACCT
1275880 TTTAAATTCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.33, G:0.15, T:0.30
Consensus pattern (14 bp):
CTTGCAGTAACCTC
Found at i:1279792 original size:18 final size:18
Alignment explanation
Indices: 1279750--1279843 Score: 79
Period size: 17 Copynumber: 5.1 Consensus size: 18
1279740 AAAAAATGAG
1279750 AATTTTT-AAAACACGAA
1 AATTTTTGAAAACACGAA
1279767 AA-TTTTGAAAACACGAA
1 AATTTTTGAAAACACGAA
1279784 AATTTTTG-AAAC-CTGAA
1 AATTTTTGAAAACAC-GAA
*
1279801 TTTATTTTTTAGAAAAACACGAA
1 ---AATTTTT-G-AAAACACGAA
* *
1279824 AAATTTTGGAAACACGAA
1 AATTTTTGAAAACACGAA
1279842 AA
1 AA
1279844 GTTTACAACA
Statistics
Matches: 63, Mismatches: 4, Indels: 19
0.73 0.05 0.22
Matches are distributed among these distances:
16 5 0.08
17 21 0.33
18 16 0.25
19 1 0.02
20 11 0.17
21 1 0.02
23 7 0.11
24 1 0.02
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.30
Consensus pattern (18 bp):
AATTTTTGAAAACACGAA
Found at i:1280096 original size:95 final size:95
Alignment explanation
Indices: 1279981--1280172 Score: 375
Period size: 95 Copynumber: 2.0 Consensus size: 95
1279971 CGATTTTTTT
*
1279981 TTAAAAGGACGTCCCATTTTTAACACGAGCCAATGATATTCACCCAACATAGCGATGAAATCAAC
1 TTAAAAGGACGTCCCATTTTTAACACAAGCCAATGATATTCACCCAACATAGCGATGAAATCAAC
1280046 GACCTTATGTTAAATCGATACGTTGTCTTA
66 GACCTTATGTTAAATCGATACGTTGTCTTA
1280076 TTAAAAGGACGTCCCATTTTTAACACAAGCCAATGATATTCACCCAACATAGCGATGAAATCAAC
1 TTAAAAGGACGTCCCATTTTTAACACAAGCCAATGATATTCACCCAACATAGCGATGAAATCAAC
1280141 GACCTTATGTTAAATCGATACGTTGTCTTA
66 GACCTTATGTTAAATCGATACGTTGTCTTA
1280171 TT
1 TT
1280173 TATTGAAATT
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 96 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (95 bp):
TTAAAAGGACGTCCCATTTTTAACACAAGCCAATGATATTCACCCAACATAGCGATGAAATCAAC
GACCTTATGTTAAATCGATACGTTGTCTTA
Found at i:1280515 original size:15 final size:17
Alignment explanation
Indices: 1280495--1280526 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
1280485 TTAGGAAACG
1280495 TACATAA-A-AAATATA
1 TACATAATATAAATATA
1280510 TACATAATATAAATATA
1 TACATAATATAAATATA
1280527 ATATATACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (17 bp):
TACATAATATAAATATA
Found at i:1281069 original size:11 final size:11
Alignment explanation
Indices: 1281035--1281076 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
1281025 AAATCATTTT
1281035 GAAGAGAGAAA
1 GAAGAGAGAAA
* *
1281046 GAA-AAAAAAA
1 GAAGAGAGAAA
*
1281056 GAAGGGAGAAA
1 GAAGAGAGAAA
1281067 GAAGAGAGAA
1 GAAGAGAGAA
1281077 GGGAGGGGGA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
10 8 0.33
11 16 0.67
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (11 bp):
GAAGAGAGAAA
Found at i:1288316 original size:22 final size:21
Alignment explanation
Indices: 1288283--1288330 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
1288273 TTTTTTCTAT
*
1288283 TTTTTGAATTTTTGAATTATTA
1 TTTTTGAATTTTAGAATTA-TA
*
1288305 TTTTT-AATTTTTAGATTTATA
1 TTTTTGAA-TTTTAGAATTATA
1288326 TTTTT
1 TTTTT
1288331 TAAAAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (21 bp):
TTTTTGAATTTTAGAATTATA
Found at i:1288330 original size:21 final size:22
Alignment explanation
Indices: 1288283--1288330 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
1288273 TTTTTTCTAT
1288283 TTTTTGAATTTTTGAATTATTA
1 TTTTTGAATTTTTGAATTATTA
*
1288305 TTTTT-AATTTTTAGATTTA-TA
1 TTTTTGAATTTTT-GAATTATTA
1288326 TTTTT
1 TTTTT
1288331 TAAAAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (22 bp):
TTTTTGAATTTTTGAATTATTA
Found at i:1288482 original size:29 final size:30
Alignment explanation
Indices: 1288448--1288508 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 30
1288438 TTTCCAATTT
*
1288448 TTATATTTAT-TATTTTGAAATTTTA-AAAA
1 TTATATTTATATATTTAG-AATTTTATAAAA
1288477 TTATATTTATATATTTAGAATTTTATAAAA
1 TTATATTTATATATTTAGAATTTTATAAAA
1288507 TT
1 TT
1288509 TTTAAAATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 17 0.59
30 12 0.41
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (30 bp):
TTATATTTATATATTTAGAATTTTATAAAA
Found at i:1289712 original size:33 final size:33
Alignment explanation
Indices: 1289675--1289742 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
1289665 AGATTACTTT
*
1289675 ATATTTTACATATCATTATATTAAATTATTTAA
1 ATATTTAACATATCATTATATTAAATTATTTAA
**
1289708 ATATTTAATTTATCATTATATTAAATTATTTAA
1 ATATTTAACATATCATTATATTAAATTATTTAA
1289741 AT
1 AT
1289743 CTTATTTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (33 bp):
ATATTTAACATATCATTATATTAAATTATTTAA
Found at i:1289715 original size:17 final size:16
Alignment explanation
Indices: 1289692--1289742 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
1289682 ACATATCATT
1289692 ATATTAAATTATTTAA
1 ATATTAAATTATTTAA
*
1289708 ATATTTAATTTATCATT--
1 ATA-TTAAATTAT--TTAA
1289725 ATATTAAATTATTTAA
1 ATATTAAATTATTTAA
1289741 AT
1 AT
1289743 CTTATTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 10
0.70 0.05 0.25
Matches are distributed among these distances:
14 2 0.07
16 13 0.46
17 11 0.39
19 2 0.07
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (16 bp):
ATATTAAATTATTTAA
Found at i:1289729 original size:25 final size:29
Alignment explanation
Indices: 1289701--1289758 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 29
1289691 TATATTAAAT
1289701 TATTTAAA-TATTT-AAT-TTA-TCATTA
1 TATTTAAATTATTTAAATCTTATTCATTA
*
1289726 TA-TTAAATTATTTAAATCTTATTTATTA
1 TATTTAAATTATTTAAATCTTATTCATTA
1289754 TATTT
1 TATTT
1289759 GATTTTTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
24 5 0.19
25 7 0.26
26 3 0.11
27 3 0.11
28 7 0.26
29 2 0.07
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (29 bp):
TATTTAAATTATTTAAATCTTATTCATTA
Found at i:1289731 original size:16 final size:16
Alignment explanation
Indices: 1289685--1289736 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
1289675 ATATTTTACA
1289685 TATCATTATATTAAAT
1 TATCATTATATTAAAT
*
1289701 TAT--TTAAATATTTAATT
1 TATCATT--ATA-TTAAAT
1289718 TATCATTATATTAAAT
1 TATCATTATATTAAAT
1289734 TAT
1 TAT
1289737 TTAAATCTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
14 2 0.07
16 14 0.48
17 11 0.38
19 2 0.07
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (16 bp):
TATCATTATATTAAAT
Found at i:1292695 original size:27 final size:28
Alignment explanation
Indices: 1292639--1292708 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
1292629 TAAATTGTAC
1292639 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
1292667 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
**
1292694 AGCACGGAGTGTGCG
1 AGCACTAAGTGTGCG
1292709 GACTTAATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.27, C:0.13, G:0.30, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:1292719 original size:27 final size:27
Alignment explanation
Indices: 1292639--1292721 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
1292629 TAAATTGTAC
* * *
1292639 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACGAAGTGTGCGA-CTTGAATATAT
* * *
1292667 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACGAAGTGTGCGACTTGAATATAT
*
1292694 AGCACGGAGTGTGCGGACTT-AATATAT
1 AGCACGAAGTGTGC-GACTTGAATATAT
1292721 A
1 A
1292722 CTTTTGAATC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
27 29 0.59
28 20 0.41
ACGTcount: A:0.30, C:0.12, G:0.27, T:0.31
Consensus pattern (27 bp):
AGCACGAAGTGTGCGACTTGAATATAT
Found at i:1293233 original size:7 final size:7
Alignment explanation
Indices: 1293221--1293310 Score: 171
Period size: 7 Copynumber: 12.7 Consensus size: 7
1293211 GCGTGATCTT
1293221 TTTAGGG
1 TTTAGGG
1293228 TTTAGGG
1 TTTAGGG
1293235 TTTAGGG
1 TTTAGGG
1293242 TTTTAGGG
1 -TTTAGGG
1293250 TTTAGGG
1 TTTAGGG
1293257 TTTAGGG
1 TTTAGGG
1293264 TTTAGGG
1 TTTAGGG
1293271 TTTAGGG
1 TTTAGGG
1293278 TTTAGGG
1 TTTAGGG
1293285 TTTAGGG
1 TTTAGGG
1293292 TTTAGGG
1 TTTAGGG
1293299 TTTAGGG
1 TTTAGGG
1293306 TTTAG
1 TTTAG
1293311 NNNNNNNNNN
Statistics
Matches: 82, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
7 75 0.91
8 7 0.09
ACGTcount: A:0.14, C:0.00, G:0.41, T:0.44
Consensus pattern (7 bp):
TTTAGGG
Found at i:1301594 original size:28 final size:28
Alignment explanation
Indices: 1301529--1301707 Score: 279
Period size: 28 Copynumber: 6.4 Consensus size: 28
1301519 GAGATTGGCG
* * * *
1301529 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
1301558 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
1301586 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
1301614 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
1301642 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
1301670 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
1301697 CTGAGTGTGCG
1 CTAAGTGTGCG
1301708 GACTTAATAT
Statistics
Matches: 143, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
27 24 0.17
28 104 0.73
29 15 0.10
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:1305511 original size:61 final size:62
Alignment explanation
Indices: 1305386--1305512 Score: 141
Period size: 61 Copynumber: 2.1 Consensus size: 62
1305376 TTCTTCATCT
* * * ** * * * *
1305386 TTTTTTAAATACTTAATATTCAATTTCGAATCTTGTATGATAAGTAATATATTAGTTTAGTA
1 TTTTTTAAAGACTTAATACTCAATTTCGAATCTTCTACAATAAGTAAGATAATAATTGAGTA
*
1305448 TTTTTTAAGGACTTAATACTCAATTT-GAATCTTCTACAATAAGTAAGATAATAATCTGA-TA
1 TTTTTTAAAGACTTAATACTCAATTTCGAATCTTCTACAATAAGTAAGATAATAAT-TGAGTA
1305509 TTTT
1 TTTT
1305513 GAATTTTTTT
Statistics
Matches: 54, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
61 29 0.54
62 25 0.46
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.46
Consensus pattern (62 bp):
TTTTTTAAAGACTTAATACTCAATTTCGAATCTTCTACAATAAGTAAGATAATAATTGAGTA
Found at i:1305714 original size:18 final size:18
Alignment explanation
Indices: 1305668--1305723 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 18
1305658 ACAATAAAAG
*
1305668 AAAAA-ATAAAAAGATAT
1 AAAAATATAAAAAAATAT
* *
1305685 AAAAATAAAAAAAAATTT
1 AAAAATATAAAAAAATAT
* *
1305703 AAAAATTTAAAAAATTAT
1 AAAAATATAAAAAAATAT
1305721 AAA
1 AAA
1305724 CAATTGAAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
17 5 0.16
18 26 0.84
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (18 bp):
AAAAATATAAAAAAATAT
Found at i:1311236 original size:42 final size:42
Alignment explanation
Indices: 1311177--1311260 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
1311167 AAAAAAGATA
1311177 AAATTAAATAGTTGAATAACTATTTTGCAACATTTCATAGTT
1 AAATTAAATAGTTGAATAACTATTTTGCAACATTTCATAGTT
1311219 AAATTAAATAGTTGAATAACTATTTTGCAACATTTCATAGTT
1 AAATTAAATAGTTGAATAACTATTTTGCAACATTTCATAGTT
1311261 GAGAGACTAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (42 bp):
AAATTAAATAGTTGAATAACTATTTTGCAACATTTCATAGTT
Found at i:1311758 original size:20 final size:20
Alignment explanation
Indices: 1311720--1311758 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1311710 GATGTGATAC
* *
1311720 ATTAACTAGCCATATTGGAT
1 ATTAACTAGCCACAGTGGAT
1311740 ATTAACTAGCCACAGTGGA
1 ATTAACTAGCCACAGTGGA
1311759 AACCCAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (20 bp):
ATTAACTAGCCACAGTGGAT
Found at i:1314096 original size:50 final size:49
Alignment explanation
Indices: 1314032--1314211 Score: 181
Period size: 49 Copynumber: 3.7 Consensus size: 49
1314022 GAGATGTGTC
*
1314032 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GGAAATGTGAGAGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTCG--ATGTGAGAGTT
* * * * *
1314082 AGTGTAAGACCATGTTTGGGACATGGCGTCGGC-CTCGATTTCGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTCGATGT-GAGAGTT
* * * * *
1314131 AGTGTAGGACCATGTCTGGGGCATGGCATC--AACTTGATG-GATGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTCGATGTGA-GAGTT
*
1314178 AGTGTAAGACCATGTCTAGGACATGGCATCGGCA
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1314212 TTATACCCTA
Statistics
Matches: 104, Mismatches: 20, Indels: 13
0.76 0.15 0.09
Matches are distributed among these distances:
46 2 0.02
47 29 0.28
48 8 0.08
49 33 0.32
50 32 0.31
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTCGATGTGAGAGTT
Found at i:1314156 original size:49 final size:49
Alignment explanation
Indices: 1314029--1314211 Score: 164
Period size: 50 Copynumber: 3.8 Consensus size: 49
1314019 TATGAGATGT
*
1314029 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGAAATGTGAGA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCG-AATGTGAGA
* * * * *
1314079 GTTAGTGTAAGACCATGTTTGGGACATGGCGTCGGC-CTCG-ATTTCGATA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-CGAATGT-GAGA
* * * *
1314128 GTCAGTGTAGGACCATGTCTGGGGCATGGCATC--AACTTG-ATG-GATGA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-CGAATGTGA-GA
*
1314175 G-CTAGTGTAAGACCATGTCTAGGACATGGCATCGGCA
1 GTC-AGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1314212 TTATACCCTA
Statistics
Matches: 107, Mismatches: 19, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
46 3 0.03
47 29 0.27
48 8 0.07
49 33 0.31
50 34 0.32
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.25
Consensus pattern (49 bp):
GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGAATGTGAGA
Found at i:1334393 original size:71 final size:71
Alignment explanation
Indices: 1334277--1334421 Score: 272
Period size: 71 Copynumber: 2.0 Consensus size: 71
1334267 GTGTGCGATT
1334277 TAAACTAGCTTCGGCTACTTGAGGCACTAAGTGTGTGATACCAACTTGGTTTCGGGTAATTGAGA
1 TAAACTAGCTTCGGCTACTTGAGGCACTAAGTGTGTGATACCAACTTGGTTTCGGGTAATTGAGA
1334342 TGGCAC
66 TGGCAC
* *
1334348 TAAACTAGCTTCGGCTACTTGAGGCACTACGTGTGTGATACCAACTTGGTTTCGGGTAATTGGGA
1 TAAACTAGCTTCGGCTACTTGAGGCACTAAGTGTGTGATACCAACTTGGTTTCGGGTAATTGAGA
1334413 TGGCAC
66 TGGCAC
1334419 TAA
1 TAA
1334422 GTGTATGGAA
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.30
Consensus pattern (71 bp):
TAAACTAGCTTCGGCTACTTGAGGCACTAAGTGTGTGATACCAACTTGGTTTCGGGTAATTGAGA
TGGCAC
Found at i:1341186 original size:51 final size:51
Alignment explanation
Indices: 1341126--1341229 Score: 154
Period size: 51 Copynumber: 2.0 Consensus size: 51
1341116 AAGCTTACGA
1341126 AAGCCTGATACTACCATTAAATCAATCAAGAGTTAATCTGCAAAGTTTTTC
1 AAGCCTGATACTACCATTAAATCAATCAAGAGTTAATCTGCAAAGTTTTTC
* * * * * *
1341177 AAGCCTGATAGTATCATTAAATCAATCAATATTTAATTTGCAAATTTTTTC
1 AAGCCTGATACTACCATTAAATCAATCAAGAGTTAATCTGCAAAGTTTTTC
1341228 AA
1 AA
1341230 ACATTCAAGG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (51 bp):
AAGCCTGATACTACCATTAAATCAATCAAGAGTTAATCTGCAAAGTTTTTC
Found at i:1342223 original size:28 final size:28
Alignment explanation
Indices: 1342183--1342259 Score: 93
Period size: 29 Copynumber: 2.7 Consensus size: 28
1342173 AAGATCAGGG
* *
1342183 TTGCTCACGCAAGTTGACATTTATGAAT
1 TTGCTCACACAAGATGACATTTATGAAT
*
1342211 TTGCTCACACAAGCT-ACAATTTTATGAAT
1 TTGCTCACACAAGATGAC-A-TTTATGAAT
*
1342240 TTTCTCACACAAGATGACAT
1 TTGCTCACACAAGATGACAT
1342260 CATAATCAGT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
27 2 0.05
28 15 0.36
29 23 0.55
30 2 0.05
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.34
Consensus pattern (28 bp):
TTGCTCACACAAGATGACATTTATGAAT
Found at i:1344946 original size:28 final size:28
Alignment explanation
Indices: 1344914--1344978 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
1344904 ATTTACTAGA
*
1344914 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
1344942 ATACCCCTATGTGTGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
1344970 ATACCCCTA
1 ATACCCCTA
1344979 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.09, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:1345142 original size:27 final size:27
Alignment explanation
Indices: 1345084--1345173 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
1345074 AGGAAGCGTC
1345084 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
1345112 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
1345139 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
1345168 CTGGTG
1 CTGGTG
1345174 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:1345192 original size:55 final size:56
Alignment explanation
Indices: 1345084--1345198 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
1345074 AGGAAGCGTC
* *
1345084 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
1345139 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
1345195 CTGG
1 CTGG
1345199 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:1345661 original size:19 final size:19
Alignment explanation
Indices: 1345637--1345675 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
1345627 TTTTAATTAT
* *
1345637 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
1345656 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
1345675 T
1 T
1345676 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:1346288 original size:11 final size:10
Alignment explanation
Indices: 1346260--1346293 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
1346250 AGCCTGTAAG
1346260 TATTCTGAAT
1 TATTCTGAAT
*
1346270 TTTTCTGAAT
1 TATTCTGAAT
1346280 ATATTCTGAAT
1 -TATTCTGAAT
1346291 TAT
1 TAT
1346294 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:1352022 original size:19 final size:19
Alignment explanation
Indices: 1351998--1352036 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
1351988 TTAATTATTT
* *
1351998 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
1352017 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
1352036 T
1 T
1352037 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:1352653 original size:11 final size:11
Alignment explanation
Indices: 1352637--1352673 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
1352627 TAAATAATTC
1352637 ATTAATCCTTA
1 ATTAATCCTTA
1352648 ATTAAT-C-TA
1 ATTAATCCTTA
*
1352657 ATTAATCTTTA
1 ATTAATCCTTA
1352668 ATTAAT
1 ATTAAT
1352674 TAATCTTAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
9 8 0.35
10 1 0.04
11 14 0.61
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.49
Consensus pattern (11 bp):
ATTAATCCTTA
Found at i:1352662 original size:20 final size:19
Alignment explanation
Indices: 1352626--1352677 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 19
1352616 TATTTAAACT
* *
1352626 TTAAATAATTCATTAATCC
1 TTAATTAATTAATTAATCC
*
1352645 TTAATTAATCTAATTAATCT
1 TTAATTAAT-TAATTAATCC
1352665 TTAATTAATTAAT
1 TTAATTAATTAAT
1352678 CTTAACCTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (19 bp):
TTAATTAATTAATTAATCC
Found at i:1352675 original size:15 final size:16
Alignment explanation
Indices: 1352649--1352680 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
1352639 TAATCCTTAA
1352649 TTAATCTAATTAATCT
1 TTAATCTAATTAATCT
1352665 TTAAT-TAATTAATCT
1 TTAATCTAATTAATCT
1352680 T
1 T
1352681 AACCTTAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (16 bp):
TTAATCTAATTAATCT
Found at i:1354563 original size:39 final size:39
Alignment explanation
Indices: 1354514--1354593 Score: 126
Period size: 39 Copynumber: 2.1 Consensus size: 39
1354504 GAGATTCTCT
*
1354514 AAATGCCGAGTTC-GACCCTAACTTTGAGGTTTACCTAAA
1 AAATGCCGAGTCCAG-CCCTAACTTTGAGGTTTACCTAAA
*
1354553 AAATGCCGAGTCCAGTCCTAACTTTGAGGTTTACCTAAA
1 AAATGCCGAGTCCAGCCCTAACTTTGAGGTTTACCTAAA
1354592 AA
1 AA
1354594 GTTAAACACT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
39 37 0.97
40 1 0.03
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.28
Consensus pattern (39 bp):
AAATGCCGAGTCCAGCCCTAACTTTGAGGTTTACCTAAA
Found at i:1355484 original size:215 final size:215
Alignment explanation
Indices: 1355110--1355541 Score: 837
Period size: 215 Copynumber: 2.0 Consensus size: 215
1355100 AGTGTAGTTC
*
1355110 ACTGACTATGAATAATGCGGACTTAATATGCCACCGGTACTCCACGGAACTCCTCTGTCAACCAC
1 ACTGACTATGAATAATGCGGACTTAAAATGCCACCGGTACTCCACGGAACTCCTCTGTCAACCAC
*
1355175 AAAATCCGAACCCCATGCATATGCAATATGTCACACAATCTCATACATAATCATATCTCAATACT
66 AAAATCCCAACCCCATGCATATGCAATATGTCACACAATCTCATACATAATCATATCTCAATACT
*
1355240 TTTCACATTCATTTGACATGCTTAGCATGTCCTCAATAATCACATGCTTTCAGTAAATAGAAATA
131 TTTCACATTCATTTGACATGCTCAGCATGTCCTCAATAATCACATGCTTTCAGTAAATAGAAATA
1355305 GTGTTCCAATCTTTCGAATT
196 GTGTTCCAATCTTTCGAATT
1355325 ACTGACTATGAATAATGCGGACTTAAAATGCCACCGGTACTCCACGGAACTCCTCTGTCAACCAC
1 ACTGACTATGAATAATGCGGACTTAAAATGCCACCGGTACTCCACGGAACTCCTCTGTCAACCAC
1355390 AAAATCCCAACCCCATGCATATGCAATATGTCACACAATCTCATACATAATCATATCTCAATACT
66 AAAATCCCAACCCCATGCATATGCAATATGTCACACAATCTCATACATAATCATATCTCAATACT
1355455 TTTCACATTCATTTGACATGCTCAGCATGTCCTCAATAATCACATGCTTTCAGTAAATAGAAATA
131 TTTCACATTCATTTGACATGCTCAGCATGTCCTCAATAATCACATGCTTTCAGTAAATAGAAATA
1355520 GTGTTCCAATCTTTCGAATT
196 GTGTTCCAATCTTTCGAATT
1355540 AC
1 AC
1355542 CATTGTGTTG
Statistics
Matches: 214, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
215 214 1.00
ACGTcount: A:0.33, C:0.26, G:0.11, T:0.29
Consensus pattern (215 bp):
ACTGACTATGAATAATGCGGACTTAAAATGCCACCGGTACTCCACGGAACTCCTCTGTCAACCAC
AAAATCCCAACCCCATGCATATGCAATATGTCACACAATCTCATACATAATCATATCTCAATACT
TTTCACATTCATTTGACATGCTCAGCATGTCCTCAATAATCACATGCTTTCAGTAAATAGAAATA
GTGTTCCAATCTTTCGAATT
Found at i:1356256 original size:12 final size:12
Alignment explanation
Indices: 1356239--1356265 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
1356229 ATAAGTAGAT
1356239 ATTAATGATTAA
1 ATTAATGATTAA
1356251 ATTAATGATTAA
1 ATTAATGATTAA
1356263 ATT
1 ATT
1356266 CTTTCATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.44
Consensus pattern (12 bp):
ATTAATGATTAA
Found at i:1358872 original size:25 final size:24
Alignment explanation
Indices: 1358838--1358977 Score: 128
Period size: 24 Copynumber: 5.8 Consensus size: 24
1358828 TTAGGGTTAC
* *
1358838 CGATTCTCAGCTCGAAAGAGCTTAT
1 CGATT-TCAGCTCGTATGAGCTTAT
1358863 CGATATTCAGCT-GTATGAGCTTAT
1 CGAT-TTCAGCTCGTATGAGCTTAT
* *
1358887 CGATATTTAGCTCGTATGAGCTTAC
1 CGAT-TTCAGCTCGTATGAGCTTAT
1358912 CG--TT-AGCTCGTATGAGCTTAT
1 CGATTTCAGCTCGTATGAGCTTAT
* * * *
1358933 CGATTACAGCTCGTAAGAGCATAC
1 CGATTTCAGCTCGTATGAGCTTAT
1358957 CGA-TTCAAAGCTCGTATGAGC
1 CGATTTC--AGCTCGTATGAGC
1358978 ATACATGTAC
Statistics
Matches: 97, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
21 18 0.19
22 2 0.02
23 3 0.03
24 38 0.39
25 35 0.36
26 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (24 bp):
CGATTTCAGCTCGTATGAGCTTAT
Found at i:1358887 original size:24 final size:24
Alignment explanation
Indices: 1358846--1358936 Score: 109
Period size: 21 Copynumber: 3.9 Consensus size: 24
1358836 ACCGATTCTC
* *
1358846 AGCTCGAAAGAGCTTATCGATATT
1 AGCTCGTATGAGCTTATCGATATT
1358870 CAGCT-GTATGAGCTTATCGATATTT
1 -AGCTCGTATGAGCTTATCGATA-TT
*
1358895 AGCTCGTATGAGCTTACCG---TT
1 AGCTCGTATGAGCTTATCGATATT
1358916 AGCTCGTATGAGCTTATCGAT
1 AGCTCGTATGAGCTTATCGAT
1358937 TACAGCTCGT
Statistics
Matches: 58, Mismatches: 4, Indels: 10
0.81 0.06 0.14
Matches are distributed among these distances:
21 20 0.34
24 19 0.33
25 19 0.33
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (24 bp):
AGCTCGTATGAGCTTATCGATATT
Found at i:1358917 original size:21 final size:23
Alignment explanation
Indices: 1358871--1358977 Score: 103
Period size: 25 Copynumber: 4.6 Consensus size: 23
1358861 ATCGATATTC
* *
1358871 AGCT-GTATGAGCTTATCGATATTT
1 AGCTCGTATGAGCTTACCG--ATTA
1358895 AGCTCGTATGAGCTTACCG-TT-
1 AGCTCGTATGAGCTTACCGATTA
*
1358916 AGCTCGTATGAGCTTATCGATTA
1 AGCTCGTATGAGCTTACCGATTA
* *
1358939 CAGCTCGTAAGAGCATACCGATTCAA
1 -AGCTCGTATGAGCTTACCGATT--A
1358965 AGCTCGTATGAGC
1 AGCTCGTATGAGC
1358978 ATACATGTAC
Statistics
Matches: 71, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
21 18 0.25
22 4 0.06
24 23 0.32
25 25 0.35
26 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (23 bp):
AGCTCGTATGAGCTTACCGATTA
Found at i:1366947 original size:39 final size:40
Alignment explanation
Indices: 1366852--1367074 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
1366842 TTGAATGATG
*
1366852 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
1366890 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
1366931 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
1366970 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
1367009 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
1367048 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
1367075 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 93 0.57
40 59 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:1367038 original size:79 final size:81
Alignment explanation
Indices: 1366852--1367074 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
1366842 TTGAATGATG
* * *
1366852 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATATCCGGGCTAAGACCCGAAGGCAT
*
1366914 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
1366931 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATATCCGGGCTAAGACCCGAAGGCAT
*
1366992 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * * *
1367009 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
1367073 TG
66 TG
1367075 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:1367096 original size:79 final size:79
Alignment explanation
Indices: 1366852--1367107 Score: 217
Period size: 79 Copynumber: 3.3 Consensus size: 79
1366842 TTGAATGATG
* * * *
1366852 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
1366913 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
1366931 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
1366995 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
1367009 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
1367072 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
1367089 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
1367108 TACGTGATTT
Statistics
Matches: 153, Mismatches: 14, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
77 1 0.01
78 46 0.30
79 69 0.45
80 36 0.24
81 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:1370434 original size:40 final size:40
Alignment explanation
Indices: 1370359--1370544 Score: 320
Period size: 40 Copynumber: 4.7 Consensus size: 40
1370349 TTTCCAAACC
* * *
1370359 CAAATACCTTCGGGATTTAG-CCGGATATAGCAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1370398 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1370438 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
1370478 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
1370518 CAAATGCCTTTGGGACTTAGCCCGGAT
1 CAAATGCCTTCGGGACTTAGCCCGGAT
1370545 CTTCTGAATA
Statistics
Matches: 141, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
39 18 0.13
40 123 0.87
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:1373055 original size:18 final size:18
Alignment explanation
Indices: 1373032--1373066 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1373022 TACTTACTTC
*
1373032 TTACTATTCACGCATTCT
1 TTACTATTCACACATTCT
1373050 TTACTATTCACACATTC
1 TTACTATTCACACATTC
1373067 CTTATAGACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.29, G:0.03, T:0.43
Consensus pattern (18 bp):
TTACTATTCACACATTCT
Found at i:1378126 original size:13 final size:13
Alignment explanation
Indices: 1378108--1378136 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1378098 GGTTGTTTAT
1378108 TAAACTAATTAAC
1 TAAACTAATTAAC
1378121 TAAACTAATTAAC
1 TAAACTAATTAAC
1378134 TAA
1 TAA
1378137 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:1396401 original size:22 final size:22
Alignment explanation
Indices: 1396370--1396423 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
1396360 ACAAAGTTGA
1396370 TGTCGTGACACACCAGATCCTG
1 TGTCGTGACACACCAGATCCTG
*
1396392 TGTCGCGACACACCAGATCCTG
1 TGTCGTGACACACCAGATCCTG
1396414 TGTCGTGACA
1 TGTCGTGACA
1396424 TCAAAGGTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.22, C:0.31, G:0.24, T:0.22
Consensus pattern (22 bp):
TGTCGTGACACACCAGATCCTG
Found at i:1399336 original size:5 final size:5
Alignment explanation
Indices: 1399323--1399352 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
1399313 ATATGATTGT
*
1399323 ATGAT ATGAC ATGAC ATGAC ATGAC ATGAC
1 ATGAC ATGAC ATGAC ATGAC ATGAC ATGAC
1399353 TGTATGATGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (5 bp):
ATGAC
Found at i:1399595 original size:18 final size:18
Alignment explanation
Indices: 1399572--1399620 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
1399562 AAGACTTATA
1399572 TACTGTTACTGCACTGAT
1 TACTGTTACTGCACTGAT
*
1399590 TACTGTTACTGCACTGTT
1 TACTGTTACTGCACTGAT
*
1399608 TATTGTTACTGCA
1 TACTGTTACTGCA
1399621 ATGGGCCAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.43
Consensus pattern (18 bp):
TACTGTTACTGCACTGAT
Found at i:1406098 original size:32 final size:32
Alignment explanation
Indices: 1406057--1406119 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
1406047 AAAAAAATAC
1406057 TTTACTATTTCTAAGTTTACAATTCCACCATA
1 TTTACTATTTCTAAGTTTACAATTCCACCATA
1406089 TTTACTATTTCTAAGTTTACAATTCCACCAT
1 TTTACTATTTCTAAGTTTACAATTCCACCAT
1406120 TAAATATTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.30, C:0.22, G:0.03, T:0.44
Consensus pattern (32 bp):
TTTACTATTTCTAAGTTTACAATTCCACCATA
Found at i:1414891 original size:37 final size:37
Alignment explanation
Indices: 1414841--1414914 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
1414831 ATGCACTGTT
*
1414841 GAGTGTTTCTAAATCCATCTGCACAAAAGAAGAGATA
1 GAGTGTTTCTAAATCCATCTACACAAAAGAAGAGATA
* * *
1414878 GAGTGTTTCTAAATCCATTTATACAAAAGAGGAGATA
1 GAGTGTTTCTAAATCCATCTACACAAAAGAAGAGATA
1414915 TCATTACGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.27
Consensus pattern (37 bp):
GAGTGTTTCTAAATCCATCTACACAAAAGAAGAGATA
Found at i:1424870 original size:279 final size:279
Alignment explanation
Indices: 1424370--1424927 Score: 1116
Period size: 279 Copynumber: 2.0 Consensus size: 279
1424360 TGGTATAATG
1424370 ACATGTATAGGCTAACTTTGCCAATGTTGGTATTTAAATGGTTGTTTGTAATCTAGCCATTGGAA
1 ACATGTATAGGCTAACTTTGCCAATGTTGGTATTTAAATGGTTGTTTGTAATCTAGCCATTGGAA
1424435 TGACTAGTAATGGATTGATATGGTATATTTATAAGGTTATACCCTGGTAATTACATATGTGTTTA
66 TGACTAGTAATGGATTGATATGGTATATTTATAAGGTTATACCCTGGTAATTACATATGTGTTTA
1424500 GTATGGTTTGATTGAATTATGTTAACATATATGTCTATAAAAGGTAAGATTATAAACATGATTGC
131 GTATGGTTTGATTGAATTATGTTAACATATATGTCTATAAAAGGTAAGATTATAAACATGATTGC
1424565 ATATGATGATATATCATGGTAGATGTTAGAAGTGTCTTGGTTATAATATTTGAATTGGTGGGTAT
196 ATATGATGATATATCATGGTAGATGTTAGAAGTGTCTTGGTTATAATATTTGAATTGGTGGGTAT
1424630 ATGTTTGCAAATATTAGTA
261 ATGTTTGCAAATATTAGTA
1424649 ACATGTATAGGCTAACTTTGCCAATGTTGGTATTTAAATGGTTGTTTGTAATCTAGCCATTGGAA
1 ACATGTATAGGCTAACTTTGCCAATGTTGGTATTTAAATGGTTGTTTGTAATCTAGCCATTGGAA
1424714 TGACTAGTAATGGATTGATATGGTATATTTATAAGGTTATACCCTGGTAATTACATATGTGTTTA
66 TGACTAGTAATGGATTGATATGGTATATTTATAAGGTTATACCCTGGTAATTACATATGTGTTTA
1424779 GTATGGTTTGATTGAATTATGTTAACATATATGTCTATAAAAGGTAAGATTATAAACATGATTGC
131 GTATGGTTTGATTGAATTATGTTAACATATATGTCTATAAAAGGTAAGATTATAAACATGATTGC
1424844 ATATGATGATATATCATGGTAGATGTTAGAAGTGTCTTGGTTATAATATTTGAATTGGTGGGTAT
196 ATATGATGATATATCATGGTAGATGTTAGAAGTGTCTTGGTTATAATATTTGAATTGGTGGGTAT
1424909 ATGTTTGCAAATATTAGTA
261 ATGTTTGCAAATATTAGTA
1424928 TAGGTTGTTG
Statistics
Matches: 279, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
279 279 1.00
ACGTcount: A:0.32, C:0.07, G:0.21, T:0.40
Consensus pattern (279 bp):
ACATGTATAGGCTAACTTTGCCAATGTTGGTATTTAAATGGTTGTTTGTAATCTAGCCATTGGAA
TGACTAGTAATGGATTGATATGGTATATTTATAAGGTTATACCCTGGTAATTACATATGTGTTTA
GTATGGTTTGATTGAATTATGTTAACATATATGTCTATAAAAGGTAAGATTATAAACATGATTGC
ATATGATGATATATCATGGTAGATGTTAGAAGTGTCTTGGTTATAATATTTGAATTGGTGGGTAT
ATGTTTGCAAATATTAGTA
Found at i:1425807 original size:23 final size:24
Alignment explanation
Indices: 1425764--1425811 Score: 73
Period size: 23 Copynumber: 2.0 Consensus size: 24
1425754 TAATGGCCGA
1425764 TAGTGGTCCGACGGTGGTTGGTGG
1 TAGTGGTCCGACGGTGGTTGGTGG
1425788 TAGTGGT-CGACGG-GGTTTGGTGG
1 TAGTGGTCCGACGGTGG-TTGGTGG
1425811 T
1 T
1425812 GGCCCGAGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 2 0.09
23 14 0.61
24 7 0.30
ACGTcount: A:0.08, C:0.10, G:0.50, T:0.31
Consensus pattern (24 bp):
TAGTGGTCCGACGGTGGTTGGTGG
Found at i:1425813 original size:20 final size:23
Alignment explanation
Indices: 1425764--1425818 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 23
1425754 TAATGGCCGA
1425764 TAGTGGTCCGACGGTGGTTGGTGG
1 TAGTGGTCCGACGGTGGTT-GTGG
1425788 TAGTGGT-CGACGG-GGTT-TGG
1 TAGTGGTCCGACGGTGGTTGTGG
* *
1425808 TGGTGGCCCGA
1 TAGTGGTCCGA
1425819 GGCTATTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
20 8 0.29
21 3 0.11
22 4 0.14
23 6 0.21
24 7 0.25
ACGTcount: A:0.09, C:0.15, G:0.49, T:0.27
Consensus pattern (23 bp):
TAGTGGTCCGACGGTGGTTGTGG
Found at i:1427015 original size:15 final size:15
Alignment explanation
Indices: 1427004--1427037 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
1426994 TATTATTTTC
1427004 ATGTTAATTATTAAT
1 ATGTTAATTATTAAT
*
1427019 ATGTTAATTATTATT
1 ATGTTAATTATTAAT
1427034 ATGT
1 ATGT
1427038 AGTGGGTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (15 bp):
ATGTTAATTATTAAT
Found at i:1427489 original size:67 final size:67
Alignment explanation
Indices: 1427381--1427516 Score: 209
Period size: 67 Copynumber: 2.0 Consensus size: 67
1427371 CATGATTTTG
* * *
1427381 TGCTAAAAATAAGCAACCAAATCACCTCCATTTCCACATATTGTGGTCGGCCAAGCAATGGCGAA
1 TGCTAAAAATAAGCAACCAAATCACCTCCACTTCCACATATTGTGGTCGGCCAAGCAATAGAGAA
1427446 GA
66 GA
* * * *
1427448 TGCTATAAATTAGCAGCCAAATCACCTCCCCTTCCACATATTGTGGTCGGCCAAGCAATAGAGAA
1 TGCTAAAAATAAGCAACCAAATCACCTCCACTTCCACATATTGTGGTCGGCCAAGCAATAGAGAA
1427513 GA
66 GA
1427515 TG
1 TG
1427517 GAGGGATTCC
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (67 bp):
TGCTAAAAATAAGCAACCAAATCACCTCCACTTCCACATATTGTGGTCGGCCAAGCAATAGAGAA
GA
Found at i:1434226 original size:163 final size:163
Alignment explanation
Indices: 1433956--1434282 Score: 496
Period size: 163 Copynumber: 2.0 Consensus size: 163
1433946 AGGTCTTTTC
* * *
1433956 CATATTATTTTTAGAAATTGATTTAATTTCAAAAAACCATAGAGAAAAATATTTTCGATTTACCT
1 CATATTATTTTTAGAAATTGATTTAACTTCAAAAAACCATAGACAAAAATATTTTAGATTTACCT
* * *
1434021 CACTTGAAATTTCAGAACTCAATTTCAAGCCAAAATTCCAAAACTATCCTCGAAACTTTTAGACC
66 CACTTGAAATTTCAGAACTCAATTTCAAGCCAAAAATCCAAAACTATCCTCGAAACATCTAGACC
* *
1434086 TAATTTCGAGATGTGACAAAGAGAACCAAGAAG
131 CAATTTCGAGATCTGACAAAGAGAACCAAGAAG
* * *
1434119 CATATTATTTTTATAAATTGATTTAACTTCAAAAACCCATAGACAAATATATTTTTAG-TTTACC
1 CATATTATTTTTAGAAATTGATTTAACTTCAAAAAACCATAGACAAAAATA-TTTTAGATTTACC
* *
1434183 TCACTTTGAATTTTC-GAACTCAATTTCAATCCAAAAATCCAAAACTATCCTCGAAACATCTAGA
65 TCAC-TTGAAATTTCAGAACTCAATTTCAAGCCAAAAATCCAAAACTATCCTCGAAACATCTAGA
*
1434247 CCCAATTTTGAGATCTGACAAAGAGAACCAAGAAG
129 CCCAATTTCGAGATCTGACAAAGAGAACCAAGAAG
1434282 C
1 C
1434283 CTAAAGACTT
Statistics
Matches: 148, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
163 134 0.91
164 14 0.09
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (163 bp):
CATATTATTTTTAGAAATTGATTTAACTTCAAAAAACCATAGACAAAAATATTTTAGATTTACCT
CACTTGAAATTTCAGAACTCAATTTCAAGCCAAAAATCCAAAACTATCCTCGAAACATCTAGACC
CAATTTCGAGATCTGACAAAGAGAACCAAGAAG
Found at i:1439743 original size:27 final size:27
Alignment explanation
Indices: 1439712--1439889 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
1439702 TAAATTGTAC
1439712 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
1439739 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
1439765 ATGAACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
1439793 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
1439821 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
1439848 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
1439875 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
1439890 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:1439855 original size:82 final size:81
Alignment explanation
Indices: 1439713--1439868 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
1439703 AAATTGTACA
* *
1439713 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGAACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGAACTAAGTGT
1439778 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
** * *
1439794 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GAACTAAGT
*
1439858 GTGCGAGTTGA
64 GTGCGAATTGA
1439869 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGAACTAAGTGT
GCGAATTGACCATGCG
Found at i:1439880 original size:82 final size:81
Alignment explanation
Indices: 1439709--1439889 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
1439699 GATTAAATTG
* *
1439709 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGAACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGAACTAA
1439774 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** * *
1439790 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GAACT
* **
1439854 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
1439872 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
1439890 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGAACTAA
GTGTGCGAATTGACCA
Found at i:1441106 original size:100 final size:100
Alignment explanation
Indices: 1440933--1441132 Score: 373
Period size: 100 Copynumber: 2.0 Consensus size: 100
1440923 CGTGCAGGGA
1440933 GATATCCAAGTCGTAATGGGAAAAGGTCAGTGTAGTCGACCCCTGCAACATGGGAGACTTTGACT
1 GATATCCAAGTCGTAATGGGAAAAGGTCAGTGTAGTCGACCCCTGCAACATGGGAGACTTTGACT
1440998 AATAAACTGTACTAATTGGCCCAACCAAAAATTCT
66 AATAAACTGTACTAATTGGCCCAACCAAAAATTCT
* *
1441033 GATATCCCAGTCGTAATGGGAAAAGGTCAGTGTAGTCGACCCCTGTAACATGGGAGACTTTGACT
1 GATATCCAAGTCGTAATGGGAAAAGGTCAGTGTAGTCGACCCCTGCAACATGGGAGACTTTGACT
*
1441098 AATAAACTGTACTAATTGGCCCGACCAAAAATTCT
66 AATAAACTGTACTAATTGGCCCAACCAAAAATTCT
1441133 AGAAAAAAAT
Statistics
Matches: 97, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 97 1.00
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.24
Consensus pattern (100 bp):
GATATCCAAGTCGTAATGGGAAAAGGTCAGTGTAGTCGACCCCTGCAACATGGGAGACTTTGACT
AATAAACTGTACTAATTGGCCCAACCAAAAATTCT
Found at i:1447904 original size:27 final size:26
Alignment explanation
Indices: 1447874--1448049 Score: 163
Period size: 27 Copynumber: 6.5 Consensus size: 26
1447864 AATTGTACAG
1447874 CACTAAGTGTGCGATTTGACTATGTTA
1 CACTAAGTGTGCGATTTGACTATG-TA
** * *
1447901 CACTAAGTGTGCGAAATGAATATGATG
1 CACTAAGTGTGCGATTTGACTATG-TA
* * **
1447928 CACTAAGTGTGCGAATTGACCATGCGG
1 CACTAAGTGTGCGATTTGACTATG-TA
1447955 CACTAAGTGTGCGAGTTTGACTATGTA
1 CACTAAGTGTGCGA-TTTGACTATGTA
* *
1447982 GCACTAAGTGTGCGATTTGATTACGTA
1 -CACTAAGTGTGCGATTTGACTATGTA
* * *
1448009 GCACTAAGTGTGCGAGTTGATTATATA
1 -CACTAAGTGTGCGATTTGACTATGTA
*
1448036 GCACTGAGTGTGCG
1 -CACTAAGTGTGCG
1448050 GACTCAATAT
Statistics
Matches: 127, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
27 105 0.83
28 22 0.17
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (26 bp):
CACTAAGTGTGCGATTTGACTATGTA
Found at i:1447933 original size:54 final size:54
Alignment explanation
Indices: 1447872--1448049 Score: 191
Period size: 54 Copynumber: 3.3 Consensus size: 54
1447862 TAAATTGTAC
*
1447872 AGCACTAAGTGTGCGATTTGACTATGTTACACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATG-TACACTAAGTGTGCGAATTGAATATGAT
* * ** * *
1447927 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATG-TACACTAAGTGTGCGA-ATTGAATATGAT
* * * *
1447981 AGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGATTTGACTATGTA-CACTAAGTGTGCGAATTGAATATGAT
*
1448035 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
1448050 GACTCAATAT
Statistics
Matches: 102, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
54 60 0.59
55 42 0.41
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATTTGACTATGTACACTAAGTGTGCGAATTGAATATGAT
Found at i:1447987 original size:82 final size:81
Alignment explanation
Indices: 1447873--1448028 Score: 226
Period size: 82 Copynumber: 1.9 Consensus size: 81
1447863 AAATTGTACA
*
1447873 GCACTAAGTGTGCGATTTGACTATGTTACACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTTACACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
1447937 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
1447954 GCACTAAGTGTGCGAGTTTGACTATG-TAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTTA-CACTAAGTGTGCGAAATGAATACGTAGCACTAAGT
*
1448018 GTGCGAGTTGA
64 GTGCGAATTGA
1448029 TTATATAGCA
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
81 17 0.25
82 49 0.73
83 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTTACACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:1448040 original size:82 final size:81
Alignment explanation
Indices: 1447869--1448049 Score: 222
Period size: 82 Copynumber: 2.2 Consensus size: 81
1447859 GATTAAATTG
*
1447869 TACAGCACTAAGTGTGCGATTTGACTATGTTACACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTTACACTAAGTGTGCGAAATGAATACGATGCACTAA
1447934 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
1447950 TGCGGCACTAAGTGTGCGAGTTTGACTATG-TAGCACTAAGTGTGCGATTTGATTACG-TAGCAC
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTTA-CACTAAGTGTGCGAAATGAATACGAT-GCAC
* **
1448013 TAAGTGTGCGAGTTGATTA
63 TAAGTGTGCGAATTGACCA
* *
1448032 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
1448050 GACTCAATAT
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
81 20 0.24
82 64 0.76
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTTACACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:1449768 original size:50 final size:50
Alignment explanation
Indices: 1449693--1449792 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
1449683 CCATTATCGA
1449693 TGAGCACGTTTGGTATTATGTAGCCCTTGTAGTGAGTCGTGATATGCCGC
1 TGAGCACGTTTGGTATTATGTAGCCCTTGTAGTGAGTCGTGATATGCCGC
1449743 TGAGCACGTTTGGTATTATGTAGCCCTTGTAGTGAGTCGTGATATGCCGC
1 TGAGCACGTTTGGTATTATGTAGCCCTTGTAGTGAGTCGTGATATGCCGC
1449793 GCTTTCACCG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.18, C:0.18, G:0.30, T:0.34
Consensus pattern (50 bp):
TGAGCACGTTTGGTATTATGTAGCCCTTGTAGTGAGTCGTGATATGCCGC
Found at i:1455448 original size:42 final size:42
Alignment explanation
Indices: 1455402--1455532 Score: 112
Period size: 42 Copynumber: 3.1 Consensus size: 42
1455392 ATATTTACAG
1455402 CACGATACAAATGCATGAATTTTGAAAACGAGATTTTCGGAT
1 CACGATACAAATGCATGAATTTTGAAAACGAGATTTTCGGAT
* * * * * *
1455444 CACGA-CCAAAT--ATTTACTTTGTGTTAGAA-GAAATATTTAC--AA
1 CACGATACAAATGCA-TGAATTT-TG--AAAACGAGAT-TTT-CGGAT
1455486 CACGATACAAATGCATGAATTTTGAAAACGAGATTTTCGGAT
1 CACGATACAAATGCATGAATTTTGAAAACGAGATTTTCGGAT
1455528 CACGA
1 CACGA
1455533 CCAAATATTT
Statistics
Matches: 65, Mismatches: 12, Indels: 24
0.64 0.12 0.24
Matches are distributed among these distances:
39 1 0.02
40 6 0.09
41 13 0.20
42 25 0.38
43 13 0.20
44 6 0.09
45 1 0.02
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (42 bp):
CACGATACAAATGCATGAATTTTGAAAACGAGATTTTCGGAT
Found at i:1455482 original size:84 final size:84
Alignment explanation
Indices: 1455382--1455548 Score: 316
Period size: 84 Copynumber: 2.0 Consensus size: 84
1455372 AAATAAGCAA
*
1455382 GTTAGAAAAAATATTTACAGCACGATACAAATGCATGAATTTTGAAAACGAGATTTTCGGATCAC
1 GTTAGAAAAAATATTTACAACACGATACAAATGCATGAATTTTGAAAACGAGATTTTCGGATCAC
1455447 GACCAAATATTTACTTTGT
66 GACCAAATATTTACTTTGT
*
1455466 GTTAGAAGAAATATTTACAACACGATACAAATGCATGAATTTTGAAAACGAGATTTTCGGATCAC
1 GTTAGAAAAAATATTTACAACACGATACAAATGCATGAATTTTGAAAACGAGATTTTCGGATCAC
1455531 GACCAAATATTTACTTTG
66 GACCAAATATTTACTTTG
1455549 AACAAAGAAA
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 81 1.00
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.31
Consensus pattern (84 bp):
GTTAGAAAAAATATTTACAACACGATACAAATGCATGAATTTTGAAAACGAGATTTTCGGATCAC
GACCAAATATTTACTTTGT
Found at i:1455943 original size:21 final size:23
Alignment explanation
Indices: 1455901--1455943 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1455891 AGTATTTCGG
*
1455901 AGTATGTACATGAGACAATATAA
1 AGTATATACATGAGACAATATAA
1455924 AGTATATACATG-GA-AATATA
1 AGTATATACATGAGACAATATA
1455944 CAAGAAGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 2 0.11
23 11 0.58
ACGTcount: A:0.49, C:0.07, G:0.16, T:0.28
Consensus pattern (23 bp):
AGTATATACATGAGACAATATAA
Found at i:1455954 original size:23 final size:23
Alignment explanation
Indices: 1455907--1455956 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
1455897 TCGGAGTATG
*
1455907 TACATGAGACAATATAAAGTATA
1 TACATGAGACAATATAAAGAATA
1455930 TACATG-GA-AATATACAAGAAGTA
1 TACATGAGACAATATA-AAGAA-TA
1455953 TACA
1 TACA
1455957 ACTAATAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 6 0.25
22 6 0.25
23 12 0.50
ACGTcount: A:0.52, C:0.10, G:0.14, T:0.24
Consensus pattern (23 bp):
TACATGAGACAATATAAAGAATA
Found at i:1455988 original size:11 final size:11
Alignment explanation
Indices: 1455972--1456001 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
1455962 TAACATTAAG
1455972 AATATATATAT
1 AATATATATAT
*
1455983 AATATAAATAT
1 AATATATATAT
1455994 AATATATA
1 AATATATA
1456002 CAATATACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AATATATATAT
Found at i:1456452 original size:13 final size:13
Alignment explanation
Indices: 1456406--1456456 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
1456396 AAAAATGTAA
1456406 TTTTTT-TTATAT
1 TTTTTTATTATAT
*
1456418 TTGTTTTGTATATAT
1 TT-TTTTAT-TATAT
*
1456433 ATTTTTATTATAT
1 TTTTTTATTATAT
1456446 TTTTTTATTAT
1 TTTTTTATTAT
1456457 GATGTATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
12 2 0.06
13 19 0.58
14 6 0.18
15 6 0.18
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.75
Consensus pattern (13 bp):
TTTTTTATTATAT
Found at i:1456522 original size:17 final size:17
Alignment explanation
Indices: 1456502--1456540 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
1456492 GAAAAAAATA
*
1456502 AAAATAA-AAATAAGAGT
1 AAAATAATAAAGAAGA-T
1456519 AAAATAATAAAGAAGAT
1 AAAATAATAAAGAAGAT
1456536 AAAAT
1 AAAAT
1456541 CGCCTTTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.18
Consensus pattern (17 bp):
AAAATAATAAAGAAGAT
Found at i:1457341 original size:36 final size:35
Alignment explanation
Indices: 1457271--1457340 Score: 86
Period size: 37 Copynumber: 1.9 Consensus size: 35
1457261 GATTAAACAA
* **
1457271 TAATTTTAGAATTTTAAAAAATATTTTTGAAAAAT
1 TAATTTTAAAATTTTAAAAAATATTAGTGAAAAAT
*
1457306 TAATTTTAAAGATTTTAAATAATTATTAGTGAAAA
1 TAATTTTAAA-ATTTTAAA-AAATATTAGTGAAAA
1457341 TAATCAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 9 0.31
36 8 0.28
37 12 0.41
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (35 bp):
TAATTTTAAAATTTTAAAAAATATTAGTGAAAAAT
Found at i:1469164 original size:24 final size:24
Alignment explanation
Indices: 1469134--1469188 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
1469124 CTGTGGAGAT
* *
1469134 TGATGATGCTT-TGGTGATTGAAGA
1 TGATGATACTTCTGATGA-TGAAGA
*
1469158 TGATGATATTTCTGATGATGAAGA
1 TGATGATACTTCTGATGATGAAGA
1469182 TGATGAT
1 TGATGAT
1469189 CTTGAAGACG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 22 0.81
25 5 0.19
ACGTcount: A:0.29, C:0.04, G:0.29, T:0.38
Consensus pattern (24 bp):
TGATGATACTTCTGATGATGAAGA
Found at i:1474002 original size:15 final size:15
Alignment explanation
Indices: 1473982--1474012 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
1473972 ATCGACAATA
1473982 TAGATGGCGGTTTGT
1 TAGATGGCGGTTTGT
1473997 TAGATGGCGGTTTGT
1 TAGATGGCGGTTTGT
1474012 T
1 T
1474013 CATGTGGTTG
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:0.13, C:0.06, G:0.39, T:0.42
Consensus pattern (15 bp):
TAGATGGCGGTTTGT
Found at i:1474207 original size:29 final size:29
Alignment explanation
Indices: 1474174--1474234 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
1474164 TGGTGGTTGA
* * *
1474174 AAGCGGATGGTCTGTTAGAGGTCAAAAGT
1 AAGCGGATGGTCTGCTAGAGGGCAAAAAT
*
1474203 AAGCGGATGGTTTGCTAGAGGGCAAAAAT
1 AAGCGGATGGTCTGCTAGAGGGCAAAAAT
1474232 AAG
1 AAG
1474235 TAGTGTGAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.34, C:0.10, G:0.34, T:0.21
Consensus pattern (29 bp):
AAGCGGATGGTCTGCTAGAGGGCAAAAAT
Found at i:1476343 original size:21 final size:21
Alignment explanation
Indices: 1476311--1476351 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
1476301 AGGCTCGAGG
1476311 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
1476332 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
1476352 CCAAATGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Done.