Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 128 of 168
Found at i:37237318 original size:24 final size:24
Alignment explanation
Indices: 37237285--37237330 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
37237275 TTTTATATTA
37237285 ATATTAATATTAAATAAATATAATT
1 ATATTAATATTAAATAAA-ATAATT
37237310 ATATT-ATATTAAATAAAATAA
1 ATATTAATATTAAATAAAATAA
37237331 AGATCCCCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 4 0.19
24 12 0.57
25 5 0.24
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (24 bp):
ATATTAATATTAAATAAAATAATT
Found at i:37237799 original size:21 final size:19
Alignment explanation
Indices: 37237765--37237808 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
37237755 TAATACAAAA
*
37237765 TTTAAAATTATTATTATATT
1 TTTAAAAATATTA-TATATT
*
37237785 TTTAAAAATATTTATGTATT
1 TTTAAAAATA-TTATATATT
37237805 TTTA
1 TTTA
37237809 TTTTTTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (19 bp):
TTTAAAAATATTATATATT
Found at i:37246572 original size:82 final size:81
Alignment explanation
Indices: 37246472--37246627 Score: 197
Period size: 82 Copynumber: 1.9 Consensus size: 81
37246462 AAGTCCTAAT
* * *
37246472 TTTTCTAAATTCAAAATTCACATCCTAGATAGCGTTCAGATTAATCTATTTATATTCT-ATTAAA
1 TTTTCTAAATTCAAAATTCACATCCTAGATAGCATTCAGATT-ATCTATTTACATT-TGATCAAA
37246536 CACATGCAAGGTAATTTG
64 CACATGCAAGGTAATTTG
* * *** * *
37246554 TTTTCTAAGTTCAAAATTCATATCCTTTTTAGCATTCTGATTATCTATTTACATTTGATCAATCA
1 TTTTCTAAATTCAAAATTCACATCCTAGATAGCATTCAGATTATCTATTTACATTTGATCAAACA
37246619 CATGCAAGG
66 CATGCAAGG
37246628 CAAATGATGC
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
80 1 0.02
81 27 0.43
82 35 0.56
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.41
Consensus pattern (81 bp):
TTTTCTAAATTCAAAATTCACATCCTAGATAGCATTCAGATTATCTATTTACATTTGATCAAACA
CATGCAAGGTAATTTG
Found at i:37249619 original size:23 final size:23
Alignment explanation
Indices: 37249589--37249636 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
37249579 GACTTTTGCT
37249589 TACCATGAAGAACCTGTACACAG
1 TACCATGAAGAACCTGTACACAG
37249612 TACCATGAAGAACCTGTACACAG
1 TACCATGAAGAACCTGTACACAG
37249635 TA
1 TA
37249637 ACATAAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.40, C:0.25, G:0.17, T:0.19
Consensus pattern (23 bp):
TACCATGAAGAACCTGTACACAG
Found at i:37258466 original size:28 final size:27
Alignment explanation
Indices: 37258400--37258469 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 27
37258390 CTTGAATCTC
* * *
37258400 AAACCCAAAATCATGAACCCTAAATCT
1 AAACCCAAAATCCTGAACCCAAAACCT
*
37258427 AGAATCTC-AAATCCTGAACCCAAAACCTT
1 A-AA-CCCAAAATCCTGAACCCAAAACC-T
37258456 AAACCCAAAATCCT
1 AAACCCAAAATCCT
37258470 AAACTTAATC
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
27 3 0.09
28 27 0.79
29 4 0.12
ACGTcount: A:0.46, C:0.31, G:0.04, T:0.19
Consensus pattern (27 bp):
AAACCCAAAATCCTGAACCCAAAACCT
Found at i:37258472 original size:14 final size:14
Alignment explanation
Indices: 37258400--37258473 Score: 55
Period size: 14 Copynumber: 5.3 Consensus size: 14
37258390 CTTGAATCTC
*
37258400 AAACCCAAAATCAT
1 AAACCCAAAATCCT
* *
37258414 GAACCCTAAAT-CT
1 AAACCCAAAATCCT
*
37258427 AGAATCTC-AAATCCT
1 A-AA-CCCAAAATCCT
*
37258442 GAACCCAAAA-CCTT
1 AAACCCAAAATCC-T
37258456 AAACCCAAAATCCT
1 AAACCCAAAATCCT
37258470 AAAC
1 AAAC
37258474 TTAATCACCG
Statistics
Matches: 46, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
13 5 0.11
14 35 0.76
15 6 0.13
ACGTcount: A:0.47, C:0.31, G:0.04, T:0.18
Consensus pattern (14 bp):
AAACCCAAAATCCT
Found at i:37258505 original size:49 final size:49
Alignment explanation
Indices: 37258452--37258557 Score: 117
Period size: 49 Copynumber: 2.2 Consensus size: 49
37258442 GAACCCAAAA
* * * *
37258452 CCTTAAACCCAAAATCCTAAA-CTTAATCACCGAACTCGTAACCCCGAAC
1 CCTTAAACCCAAAA-CCAAAACCTCAAACACCAAACTCGTAACCCCGAAC
* * * *
37258501 CCTTAAACTCTAAACCAAAACCTCAAACCCCAAACTCGTAACCCTGAAC
1 CCTTAAACCCAAAACCAAAACCTCAAACACCAAACTCGTAACCCCGAAC
37258550 CC-TAAACC
1 CCTTAAACC
37258558 TAAATCTTGA
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
48 10 0.21
49 37 0.79
ACGTcount: A:0.40, C:0.39, G:0.05, T:0.17
Consensus pattern (49 bp):
CCTTAAACCCAAAACCAAAACCTCAAACACCAAACTCGTAACCCCGAAC
Found at i:37264359 original size:16 final size:16
Alignment explanation
Indices: 37264338--37264371 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
37264328 TAACACAAAT
*
37264338 TTAAAAGTTAAAAAAA
1 TTAAAAATTAAAAAAA
*
37264354 TTAAAAATTAAAATAA
1 TTAAAAATTAAAAAAA
37264370 TT
1 TT
37264372 TTTTTTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (16 bp):
TTAAAAATTAAAAAAA
Found at i:37266378 original size:36 final size:37
Alignment explanation
Indices: 37266324--37266406 Score: 132
Period size: 36 Copynumber: 2.2 Consensus size: 37
37266314 GTTGACGGAA
37266324 GAGATATTGAGATAGAGGAGGTCGATGGAAGCGATGTT
1 GAGATATT-AGATAGAGGAGGTCGATGGAAGCGATGTT
* *
37266362 GAGATATTA-ATAGAGGAGGTGGATGGAAGGGATGTT
1 GAGATATTAGATAGAGGAGGTCGATGGAAGCGATGTT
37266398 GAGATATTA
1 GAGATATTA
37266407 TAGTTATTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
36 34 0.79
37 1 0.02
38 8 0.19
ACGTcount: A:0.34, C:0.02, G:0.39, T:0.25
Consensus pattern (37 bp):
GAGATATTAGATAGAGGAGGTCGATGGAAGCGATGTT
Found at i:37266780 original size:22 final size:22
Alignment explanation
Indices: 37266721--37266780 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
37266711 TTTTTCTGTA
37266721 AAAAT-CTAAGTTTTT-CCTAT
1 AAAATCCTAAGTTTTTCCCTAT
* * * **
37266741 AAAAACTTAGGTAATTCCCTAT
1 AAAATCCTAAGTTTTTCCCTAT
37266763 AAAATCCTAAGTTTTTCC
1 AAAATCCTAAGTTTTTCC
37266781 TTTTTATAGA
Statistics
Matches: 28, Mismatches: 10, Indels: 2
0.70 0.25 0.05
Matches are distributed among these distances:
20 4 0.14
21 6 0.21
22 18 0.64
ACGTcount: A:0.37, C:0.18, G:0.07, T:0.38
Consensus pattern (22 bp):
AAAATCCTAAGTTTTTCCCTAT
Found at i:37267054 original size:21 final size:22
Alignment explanation
Indices: 37267029--37267070 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
37267019 TTTACTTTTT
*
37267029 AAAAATAATTTTATTT-TTTTCC
1 AAAAA-AACTTTATTTATTTTCC
37267051 AAAAAAACTTTATTTATTTT
1 AAAAAAACTTTATTTATTTT
37267071 AGATGAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.52
Consensus pattern (22 bp):
AAAAAAACTTTATTTATTTTCC
Found at i:37267967 original size:14 final size:14
Alignment explanation
Indices: 37267947--37267987 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
37267937 ATTTGTTTAA
37267947 TAGAAAATGACTTTC
1 TAGAAAATGA-TTTC
37267962 -AGAAAATGATTTC
1 TAGAAAATGATTTC
*
37267975 TAAAAAATGATTT
1 TAGAAAATGATTT
37267988 ACTTTTCTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 4 0.17
14 20 0.83
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.34
Consensus pattern (14 bp):
TAGAAAATGATTTC
Found at i:37269194 original size:2 final size:2
Alignment explanation
Indices: 37269187--37269230 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
37269177 TAATCGTTTG
37269187 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
37269229 TA
1 TA
37269231 CTCATTATAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:37269727 original size:41 final size:41
Alignment explanation
Indices: 37269671--37269773 Score: 143
Period size: 41 Copynumber: 2.5 Consensus size: 41
37269661 TGATTCGATA
* * * *
37269671 CACCGGCTTTTAGCCTGCTAGACCTATAGTCCGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACCTAAAGTCCGAAATATAT
* * *
37269712 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAATATTT
1 CACCGGCATTAAGCCTGCTAGACCTAAAGTCCGAAATATAT
37269753 CACCGGCATTAAGCCTGCTAG
1 CACCGGCATTAAGCCTGCTAG
37269774 GCACATAGCC
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACCTAAAGTCCGAAATATAT
Found at i:37269787 original size:41 final size:40
Alignment explanation
Indices: 37269671--37269787 Score: 119
Period size: 41 Copynumber: 2.9 Consensus size: 40
37269661 TGATTCGATA
* * *
37269671 CACCGGCTTTTAGCCTGCTAGACCTATAGTCC-GAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACC-ATAG-CCTGAAATATAT
* * * *
37269712 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAATATTT
1 CACCGGCATTAAGCCTGCTAGAC-CATAGCCTGAAATATAT
*
37269753 CACCGGCATTAAGCCTGCTAGGCACATAGCCTGAA
1 CACCGGCATTAAGCCTGCTAGAC-CATAGCCTGAA
37269788 TAACTCAAAT
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
40 1 0.02
41 61 0.98
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (40 bp):
CACCGGCATTAAGCCTGCTAGACCATAGCCTGAAATATAT
Found at i:37271210 original size:15 final size:15
Alignment explanation
Indices: 37271190--37271243 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
37271180 ATACTACAAA
37271190 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
37271205 ATATTTATAATTGTAAT
1 ATATTTATTA-T-TAAT
*
37271222 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
37271239 ATATT
1 ATATT
37271244 AATACCGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 14 0.44
16 1 0.03
17 7 0.22
18 1 0.03
19 9 0.28
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:37271211 original size:31 final size:31
Alignment explanation
Indices: 37271173--37271248 Score: 82
Period size: 34 Copynumber: 2.4 Consensus size: 31
37271163 GGCATATTTT
37271173 AATATTTATACTACA-AAATATTTATTATTAA
1 AATATTTATACTA-ATAAATATTTATTATTAA
* *
37271204 TATATTTATAATTGTAATAAATATTTATTATTAA
1 AATATTTAT-A--CTAATAAATATTTATTATTAA
*
37271238 AATATTAATAC
1 AATATTTATAC
37271249 CGAATATTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
31 8 0.22
32 1 0.03
33 2 0.06
34 25 0.69
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.47
Consensus pattern (31 bp):
AATATTTATACTAATAAATATTTATTATTAA
Found at i:37275389 original size:41 final size:41
Alignment explanation
Indices: 37275332--37275437 Score: 212
Period size: 41 Copynumber: 2.6 Consensus size: 41
37275322 TGAGTGATAA
37275332 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
37275373 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
37275414 TTCAGACTTTACGTCTAGCAGGCT
1 TTCAGACTTTACGTCTAGCAGGCT
37275438 AAGTGCCGGT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 65 1.00
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (41 bp):
TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
Found at i:37275445 original size:41 final size:41
Alignment explanation
Indices: 37275332--37275449 Score: 202
Period size: 41 Copynumber: 2.9 Consensus size: 41
37275322 TGAGTGATAA
*
37275332 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
1 TTCAGACTTTACGTCTAGCAGGCTAGATGCCGGTGAAATGT
*
37275373 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
1 TTCAGACTTTACGTCTAGCAGGCTAGATGCCGGTGAAATGT
37275414 TTCAGACTTTACGTCTAGCAGGCTA-AGTGCCGGTGA
1 TTCAGACTTTACGTCTAGCAGGCTAGA-TGCCGGTGA
37275450 TCTGAATCAG
Statistics
Matches: 75, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
40 1 0.01
41 74 0.99
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (41 bp):
TTCAGACTTTACGTCTAGCAGGCTAGATGCCGGTGAAATGT
Found at i:37275478 original size:41 final size:41
Alignment explanation
Indices: 37275428--37275537 Score: 166
Period size: 41 Copynumber: 2.7 Consensus size: 41
37275418 GACTTTACGT
*
37275428 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
* * *
37275469 CTAGTAGGCTAAGTGCCGGTGATATGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
* *
37275510 CTAGCAGTCTAAGTGCTGGTGATCTGAA
1 CTAGCAGGCTAAGTGCCGGTGATCTGAA
37275538 GATGTTAAAT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 61 1.00
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.25
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
Found at i:37275486 original size:82 final size:82
Alignment explanation
Indices: 37275332--37275490 Score: 187
Period size: 82 Copynumber: 1.9 Consensus size: 82
37275322 TGAGTGATAA
* ** * * *
37275332 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGTTTCAGACTTTACGTCTAGCAGGCT
1 TTCAGACTTTACGTCTAGCAGGCTAGATGCCGGTGAAATGAATCAGACTATAAGCCTAGCAGGCT
*
37275397 TGATGCCGGTGAAATGT
66 AGATGCCGGTGAAATGT
** * *
37275414 TTCAGACTTTACGTCTAGCAGGCTA-AGTGCCGGTGATCTGAATCAGGCTATAAGCCTAGTAGGC
1 TTCAGACTTTACGTCTAGCAGGCTAGA-TGCCGGTGAAATGAATCAGACTATAAGCCTAGCAGGC
37275478 TA-AGTGCCGGTGA
65 TAGA-TGCCGGTGA
37275491 TATGAATCAG
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
81 2 0.03
82 62 0.97
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (82 bp):
TTCAGACTTTACGTCTAGCAGGCTAGATGCCGGTGAAATGAATCAGACTATAAGCCTAGCAGGCT
AGATGCCGGTGAAATGT
Found at i:37283244 original size:41 final size:41
Alignment explanation
Indices: 37283187--37283292 Score: 203
Period size: 41 Copynumber: 2.6 Consensus size: 41
37283177 AATGAGATAA
*
37283187 TTCAGACTTTACGTCTAGTAGGCTTGATGCCGGTGAAATGT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
37283228 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
37283269 TTCAGACTTTACGTCTAGCAGGCT
1 TTCAGACTTTACGTCTAGCAGGCT
37283293 AAGTGCCGGT
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 64 1.00
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (41 bp):
TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
Found at i:37283300 original size:41 final size:41
Alignment explanation
Indices: 37283187--37283304 Score: 193
Period size: 41 Copynumber: 2.9 Consensus size: 41
37283177 AATGAGATAA
* *
37283187 TTCAGACTTTACGTCTAGTAGGCTTGATGCCGGTGAAATGT
1 TTCAGACTTTACGTCTAGCAGGCTAGATGCCGGTGAAATGT
*
37283228 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
1 TTCAGACTTTACGTCTAGCAGGCTAGATGCCGGTGAAATGT
37283269 TTCAGACTTTACGTCTAGCAGGCTA-AGTGCCGGTGA
1 TTCAGACTTTACGTCTAGCAGGCTAGA-TGCCGGTGA
37283305 TCTGAATCAG
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
40 1 0.01
41 73 0.99
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.31
Consensus pattern (41 bp):
TTCAGACTTTACGTCTAGCAGGCTAGATGCCGGTGAAATGT
Found at i:37283333 original size:41 final size:41
Alignment explanation
Indices: 37283283--37283392 Score: 175
Period size: 41 Copynumber: 2.7 Consensus size: 41
37283273 GACTTTACGT
*
37283283 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
* *
37283324 CTAGTAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
* *
37283365 CTAGCAGTCTAAGTGCTGGTGATCTGAA
1 CTAGCAGGCTAAGTGCCGGTGATCTGAA
37283393 GATGTTAAAT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 63 1.00
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.25
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAAC
Found at i:37285096 original size:58 final size:59
Alignment explanation
Indices: 37285025--37285156 Score: 176
Period size: 58 Copynumber: 2.2 Consensus size: 59
37285015 CATTCTTTTT
* *
37285025 TTTTTCATTTTCATTTTGGAGAAAACCACATTCATTTCTAAATGATTC-CATTTATCCA
1 TTTTTCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTCACATTTATCCA
* * * * *
37285083 TTTTTCATTTTCATTTTGGAGAAAACTATAATCATTTCCGAATGTTTCACATTTCTCCA
1 TTTTTCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTCACATTTATCCA
37285142 TTTTCTCCATTTTCA
1 TTTT-T-CATTTTCA
37285157 CCATTTCTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
58 42 0.66
59 13 0.20
60 1 0.02
61 8 0.12
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.47
Consensus pattern (59 bp):
TTTTTCATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTCACATTTATCCA
Found at i:37288154 original size:32 final size:32
Alignment explanation
Indices: 37288113--37288181 Score: 120
Period size: 32 Copynumber: 2.2 Consensus size: 32
37288103 ATTAAGAAAA
37288113 ACATTAGTAACTTTTGTGCAATTTTTTCAATG
1 ACATTAGTAACTTTTGTGCAATTTTTTCAATG
*
37288145 ACATTAGTAACTTTTGTGCAATTTTTTCCATG
1 ACATTAGTAACTTTTGTGCAATTTTTTCAATG
*
37288177 TCATT
1 ACATT
37288182 GACACATAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.26, C:0.14, G:0.12, T:0.48
Consensus pattern (32 bp):
ACATTAGTAACTTTTGTGCAATTTTTTCAATG
Found at i:37288234 original size:13 final size:14
Alignment explanation
Indices: 37288207--37288236 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
37288197 TAATTATTTT
37288207 ACCTTGAACCTCGA
1 ACCTTGAACCTCGA
37288221 ACCTTGAA-CTCGA
1 ACCTTGAACCTCGA
37288234 ACC
1 ACC
37288237 CTAAATATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.30, C:0.37, G:0.13, T:0.20
Consensus pattern (14 bp):
ACCTTGAACCTCGA
Found at i:37289877 original size:28 final size:29
Alignment explanation
Indices: 37289819--37289887 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 29
37289809 TACATTTTAG
* *
37289819 AATTATAAGAAAACATAAAAAATCAATAA
1 AATTATAAGAAAAAATAAAAAATCAACAA
* * *
37289848 AATTATAA-AAAAAATTAAAATTTAACAA
1 AATTATAAGAAAAAATAAAAAATCAACAA
*
37289876 AATTATTAGAAA
1 AATTATAAGAAA
37289888 TTAATTAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
28 22 0.67
29 11 0.33
ACGTcount: A:0.67, C:0.04, G:0.03, T:0.26
Consensus pattern (29 bp):
AATTATAAGAAAAAATAAAAAATCAACAA
Found at i:37290988 original size:14 final size:15
Alignment explanation
Indices: 37290956--37290994 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
37290946 AATTCAAGTT
37290956 GAGTCAAATTGAATC
1 GAGTCAAATTGAATC
*
37290971 GAGTCAAATTG-TTC
1 GAGTCAAATTGAATC
*
37290985 GAGTTAAATT
1 GAGTCAAATT
37290995 AAAAAAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (15 bp):
GAGTCAAATTGAATC
Found at i:37291224 original size:20 final size:20
Alignment explanation
Indices: 37291201--37291272 Score: 57
Period size: 20 Copynumber: 3.8 Consensus size: 20
37291191 CTTTTTATAC
37291201 AATTTT-TAGAAATTTTTAAA
1 AATTTTATA-AAATTTTTAAA
* *
37291221 AATTTTATATATTTTTTAAA
1 AATTTTATAAAATTTTTAAA
37291241 AA--TT-TAAAA--TTTAAA
1 AATTTTATAAAATTTTTAAA
*
37291256 ATTTTTATAAATATTTT
1 AATTTTATAAA-ATTTT
37291273 GAATTTTAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 13
0.69 0.09 0.22
Matches are distributed among these distances:
15 7 0.17
17 5 0.12
18 6 0.15
19 1 0.03
20 17 0.43
21 4 0.10
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (20 bp):
AATTTTATAAAATTTTTAAA
Found at i:37291612 original size:20 final size:21
Alignment explanation
Indices: 37291568--37291612 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
37291558 TTAAAATACT
* *
37291568 TTTAAAATAAATTTTTTTATT
1 TTTAAAATAAATTTTTTAATG
37291589 TTTAAAATAAA-TTTTTAATG
1 TTTAAAATAAATTTTTTAATG
37291609 TTTA
1 TTTA
37291613 TTTTAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (21 bp):
TTTAAAATAAATTTTTTAATG
Found at i:37291694 original size:18 final size:18
Alignment explanation
Indices: 37291671--37291711 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
37291661 TCCCGGGCCG
37291671 GGCCTGGGCAAAATTTCA
1 GGCCTGGGCAAAATTTCA
37291689 GGCCTGGGCAAAATTTCA
1 GGCCTGGGCAAAATTTCA
*
37291707 TGCCT
1 GGCCT
37291712 ATATTTCGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (18 bp):
GGCCTGGGCAAAATTTCA
Found at i:37296608 original size:207 final size:206
Alignment explanation
Indices: 37295878--37296906 Score: 1463
Period size: 207 Copynumber: 5.0 Consensus size: 206
37295868 TAGTATAGCT
* * * * *
37295878 TGCGACAAATCTTCAATCATACGCCTCATCTTTGACAACTCTATTTCTTGGCTTTGATTTTCTCT
1 TGCGACAATTCTTCTATCATGCGCCTCATCTCTGACAACTCTATTTGTTGGCTTTGATTTTCTCT
* * * *
37295943 TCCTTGACCTCTTATATG-CCTATTCATGGCTTAAAAGTGATTTCTAATATAAGTCATAGGATCT
66 TCCTTGACCTCTTGTATGTCC-AGTCATGGCTTAAAAGTGATTTCCAATATAAGTCATAAGATCT
* * * *
37296007 AATTAAGCTCTGATACCAAAACTGATGTGGTAAATTATTTGGTTGAGTGAAAAACCTAAATAGCT
130 AATT-AGCTCTGATACCAAAAATGATGTGGTAAATTATTAGGTTGAGTGGAAAATCTAAATAGCT
37296072 AAAAAAATTAAAA
194 AAAAAAATTAAAA
* * * *
37296085 TGTGTCAATTCTTCTATCAT-AGCCTCATCTTTGACAACTCTATTTGTTGGCTTTGATTTTCTCT
1 TGCGACAATTCTTCTATCATGCGCCTCATCTCTGACAACTCTATTTGTTGGCTTTGATTTTCTCT
* *
37296149 TCCTTGACCTCTTGTATGTCCAATCATGGCTTAAAAGTGATTTTCAATATAAGTCATAAGATCTA
66 TCCTTGACCTCTTGTATGTCCAGTCATGGCTTAAAAGTGATTTCCAATATAAGTCATAAGATCTA
*
37296214 ATTAGACTCTGATA-CAAAAATTGATGCT-GTAAATTATTAGGTTGAGTGGAAAATCTAAATAGT
131 ATTAG-CTCTGATACCAAAAA-TGATG-TGGTAAATTATTAGGTTGAGTGGAAAATCTAAATAGC
37296277 TAAAAAAAATTAAAA
193 T-AAAAAAATTAAAA
* * *
37296292 TGCGACAATTTTTCTATCATACGCCTCATCTCTGACAACTCTATTTTTTGGCTTTGATTTTCTCT
1 TGCGACAATTCTTCTATCATGCGCCTCATCTCTGACAACTCTATTTGTTGGCTTTGATTTTCTCT
* * *
37296357 TACTTTACCTCTTGTATGTCCAGTCATGGCTTAAAAGTGATTTCCAATATAAGTCCTAAGATCTA
66 TCCTTGACCTCTTGTATGTCCAGTCATGGCTTAAAAGTGATTTCCAATATAAGTCATAAGATCTA
37296422 ATTATGCTCTGATACCAAAAATGATGTGGTAAATTATTAGGTTGAGTGGAAAATCTAAATAGCTA
131 ATTA-GCTCTGATACCAAAAATGATGTGGTAAATTATTAGGTTGAGTGGAAAATCTAAATAGCTA
*
37296487 AAAAAATTAGAA
195 AAAAAATTAAAA
* ** * * *
37296499 TGGGACAATTCTTCTATCATGCATCTCATCCCTGACAACTTTATTTGTTGGTTTTGATTTTCTCT
1 TGCGACAATTCTTCTATCATGCGCCTCATCTCTGACAACTCTATTTGTTGGCTTTGATTTTCTCT
* * * * *
37296564 TCCTTAACCTCTTGTATGTTCAGTCATGGCTTAAAAGCGATTTCCAATATAAGTCTTAGGATCTA
66 TCCTTGACCTCTTGTATGTCCAGTCATGGCTTAAAAGTGATTTCCAATATAAGTCATAAGATCTA
* * * *
37296629 ATTAGACTTTGATATCAAAATTGATGTGGTAAATTATTTGGTTGAGTGGAAAATCTAAATAGCTA
131 ATTAG-CTCTGATACCAAAAATGATGTGGTAAATTATTAGGTTGAGTGGAAAATCTAAATAGCTA
37296694 AAAAAATTAAAA
195 AAAAAATTAAAA
* * *
37296706 TGCAACAATTCTTCTATCATGGGCCTCATCTCTGACAACTCTATTTGTTGGCTTTGATTTTCTTT
1 TGCGACAATTCTTCTATCATGCGCCTCATCTCTGACAACTCTATTTGTTGGCTTTGATTTTCTCT
* * * *
37296771 TCCTTGACCTCTTGTATGTCCAGTCATAGCTTAAAAGTGATTTCCAATAGAAGTCCTAAGATCTG
66 TCCTTGACCTCTTGTATGTCCAGTCATGGCTTAAAAGTGATTTCCAATATAAGTCATAAGATCTA
* * * * *
37296836 ATTAGGGTTTGATACAAAAAATGATGCGGTAAATTATTAGGTTGAGTGGAAAGTCTAAATAGCTA
131 ATTA-GCTCTGATACCAAAAATGATGTGGTAAATTATTAGGTTGAGTGGAAAATCTAAATAGCTA
37296901 AAAAAA
195 AAAAAA
37296907 ACAGGAGATA
Statistics
Matches: 738, Mismatches: 73, Indels: 22
0.89 0.09 0.03
Matches are distributed among these distances:
205 7 0.01
206 148 0.20
207 422 0.57
208 154 0.21
209 7 0.01
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (206 bp):
TGCGACAATTCTTCTATCATGCGCCTCATCTCTGACAACTCTATTTGTTGGCTTTGATTTTCTCT
TCCTTGACCTCTTGTATGTCCAGTCATGGCTTAAAAGTGATTTCCAATATAAGTCATAAGATCTA
ATTAGCTCTGATACCAAAAATGATGTGGTAAATTATTAGGTTGAGTGGAAAATCTAAATAGCTAA
AAAAATTAAAA
Found at i:37305350 original size:23 final size:21
Alignment explanation
Indices: 37305306--37305351 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
37305296 AACCTTTTGA
* *
37305306 ATTTATATATATTTTTAGATT
1 ATTTATATATATTTTAAAATT
37305327 ATTTATATATATATTTGAAAATT
1 ATTTATATATAT-TTT-AAAATT
37305350 AT
1 AT
37305352 CAATATCTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 12 0.57
22 3 0.14
23 6 0.29
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (21 bp):
ATTTATATATATTTTAAAATT
Found at i:37307175 original size:50 final size:50
Alignment explanation
Indices: 37307060--37307387 Score: 417
Period size: 50 Copynumber: 6.6 Consensus size: 50
37307050 GATAATAACA
* ** *
37307060 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * **
37307111 TATCC-ATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 T-GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
37307161 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
37307211 TGCCAATGCCATGTCCCAGACATGGTCTTACATGTGACCTCTCATCTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * ** ** *
37307261 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTTGTAAC-A
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
** * *
37307310 CCCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTTTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
37307360 TGCCAACGCCATGTCCCAGACATGGTCT
1 TGCCAACGCCATGTCCCAGACATGGTCT
37307388 NNNNNNNNNN
Statistics
Matches: 240, Mismatches: 34, Indels: 7
0.85 0.12 0.02
Matches are distributed among these distances:
49 41 0.17
50 167 0.70
51 30 0.12
52 2 0.01
ACGTcount: A:0.21, C:0.32, G:0.22, T:0.25
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:37307361 original size:149 final size:151
Alignment explanation
Indices: 37307060--37307387 Score: 471
Period size: 149 Copynumber: 2.2 Consensus size: 151
37307050 GATAATAACA
** * * *
37307060 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGGTATCCATGCCATGT
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCATCTCAGTACCCATGCCATGT
* ** ***
37307125 CCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTT
66 CCCAGACATGGTCTTACAGGGGACCTCTCATAACGACCCCAACGCCATGTCCCAGACATGGTCTT
*
37307190 ACATGGGACCTCTCATCTCGG
131 ACATGGGACCTCTCATATCGG
* * *
37307211 TGCCAATGCCATGTCCCAGACATGGTCTTACATGTGA-CCTCTCATCTCAGTGCCCATGCCATGT
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCATCTCAGTACCCATGCCATGT
**
37307275 CCCAGACATGGTCTTACAGGGGACCTCTTGTAAC-ACCCCAACGCCATGTCCCAGACATGGTCTT
66 CCCAGACATGGTCTTACAGGGGACCTCTCATAACGACCCCAACGCCATGTCCCAGACATGGTCTT
*
37307339 ACATGGGACCTTTCATATCGG
131 ACATGGGACCTCTCATATCGG
*
37307360 TGCCAACGCCATGTCCCAGACATGGTCT
1 TGCCAAAGCCATGTCCCAGACATGGTCT
37307388 NNNNNNNNNN
Statistics
Matches: 158, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
149 73 0.46
150 50 0.32
151 35 0.22
ACGTcount: A:0.21, C:0.32, G:0.22, T:0.25
Consensus pattern (151 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCATCTCAGTACCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCATAACGACCCCAACGCCATGTCCCAGACATGGTCTT
ACATGGGACCTCTCATATCGG
Found at i:37311263 original size:41 final size:41
Alignment explanation
Indices: 37311178--37311268 Score: 121
Period size: 41 Copynumber: 2.2 Consensus size: 41
37311168 ATATTTTCCC
* * *
37311178 TCACCGGCACTTAGCCTGCTGGATGTATAGTCCGATTCAAT
1 TCACCGGCACTTAGCCTGCTAGACGTATAGTCCGAATCAAT
*
37311219 TCACCGGCACTTAGCCTGCTAGACGTATAGTCTGAAT-AATT
1 TCACCGGCACTTAGCCTGCTAGACGTATAGTCCGAATCAA-T
*
37311260 TCACTGGCA
1 TCACCGGCA
37311269 ATAAATCCGA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
40 2 0.05
41 42 0.95
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGACGTATAGTCCGAATCAAT
Found at i:37318564 original size:41 final size:41
Alignment explanation
Indices: 37318513--37318656 Score: 173
Period size: 41 Copynumber: 3.5 Consensus size: 41
37318503 TTTAAACAGA
* * ** *
37318513 TTCACTGGCACTTCA-CCTGATAGGCTTATAGTTTAATTCCG
1 TTCACCGGCACTT-AGCCTGCTAGGCTTATAGCCTAATTCAG
* *
37318554 TTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTAATTCAG
* * *
37318595 TTCACCGGCACTTAGCCTGCTAGGCTTGTAGCCTGATTCAA
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTAATTCAG
*
37318636 CTCACCGGCACTTAGCCTGCT
1 TTCACCGGCACTTAGCCTGCT
37318657 GGACGTATNN
Statistics
Matches: 91, Mismatches: 11, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
40 1 0.01
41 90 0.99
ACGTcount: A:0.19, C:0.31, G:0.20, T:0.30
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTAATTCAG
Found at i:37320420 original size:13 final size:13
Alignment explanation
Indices: 37320402--37320427 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37320392 ATCAACATCA
37320402 AATAAATTCATAG
1 AATAAATTCATAG
37320415 AATAAATTCATAG
1 AATAAATTCATAG
37320428 TTGCTGGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.31
Consensus pattern (13 bp):
AATAAATTCATAG
Found at i:37323148 original size:108 final size:108
Alignment explanation
Indices: 37322788--37323190 Score: 634
Period size: 108 Copynumber: 3.7 Consensus size: 108
37322778 AATTTGGCTA
* *
37322788 AACGTGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACACAAAATATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
* *
37322853 TTATTTTG-AAATTGTTGAAAAGGATATTTAGCTC-TTTGGTTG
66 TTATTTTGAAAATTTTTGAAAAGGATATTTAG-TCATTTGGTCG
* * *
37322895 AACGAGAAAAATCGACACTCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTG
1 AACGAG--AAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTG
*
37322960 CCTTATTTTTTTAAAAGTTTTT-AAAAGGATATTTAG-CTATTTGGTCG
64 CCTTA--TTTTGAAAA-TTTTTGAAAAGGATATTTAGTC-ATTTGGTCG
37323007 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
*
37323072 TTATTTTGAAAATTTTTGAAAAGGATATTAAGTCATTTGGTCG
66 TTATTTTGAAAATTTTTGAAAAGGATATTTAGTCATTTGGTCG
37323115 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
1 AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
37323180 TTATTTTGAAA
66 TTATTTTGAAA
37323191 TATATATTTT
Statistics
Matches: 273, Mismatches: 13, Indels: 19
0.90 0.04 0.06
Matches are distributed among these distances:
107 10 0.04
108 106 0.39
109 59 0.22
110 60 0.22
111 4 0.01
112 30 0.11
113 4 0.01
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (108 bp):
AACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATTGCC
TTATTTTGAAAATTTTTGAAAAGGATATTTAGTCATTTGGTCG
Found at i:37323211 original size:219 final size:217
Alignment explanation
Indices: 37322766--37323190 Score: 660
Period size: 219 Copynumber: 2.0 Consensus size: 217
37322756 AAAATTCAAG
* *
37322766 AGGAGATTTAGCAATTTGGCTAAACGTGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
1 AGGATATTTAGCAATTTGGCTAAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
* *
37322831 TTTCCAAACACAAAATATTGCCTTATTTTGAAATTGTTGAAAAGGATATTTAGCTCTTTGGTTGA
66 TTTCCAAACACAAAATATTGCCTTATTTTGAAATTGTTGAAAAGGATATTAAGCTCTTTGGTCGA
* *
37322896 ACGAGAAAAATCGACACTCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGC
131 ACGAG-AAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGC
* *
37322961 CTTATTTTTTTAAAAGTTTTTAAA
195 CTTA-TTTTTGAAAAATTTTTAAA
* *
37322985 AGGATATTTAGCTATTTGG-TCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGA
1 AGGATATTTAGCAATTTGGCT-AAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGA
* *
37323049 ATTTCCAAACGCAAAATATTGCCTTATTTTGAAAATTTTTGAAAAGGATATTAAG-TCATTTGGT
65 ATTTCCAAACACAAAATATTGCCTTATTTTG-AAATTGTTGAAAAGGATATTAAGCTC-TTTGGT
*
37323113 CGAACGAG-AAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAATATT
128 CGAACGAGAAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATT
37323177 GCCTTA-TTTTGAAA
193 GCCTTATTTTTGAAA
37323191 TATATATTTT
Statistics
Matches: 191, Mismatches: 12, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
216 7 0.04
218 60 0.31
219 90 0.47
220 34 0.18
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.30
Consensus pattern (217 bp):
AGGATATTTAGCAATTTGGCTAAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
TTTCCAAACACAAAATATTGCCTTATTTTGAAATTGTTGAAAAGGATATTAAGCTCTTTGGTCGA
ACGAGAAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAAAACATTGCC
TTATTTTTGAAAAATTTTTAAA
Found at i:37325554 original size:46 final size:46
Alignment explanation
Indices: 37325488--37325746 Score: 193
Period size: 46 Copynumber: 5.8 Consensus size: 46
37325478 TAGGATAGTG
* *
37325488 TCTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT
1 TCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAAT
** * *
37325534 TCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGA-C---AA-
1 TCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAAT
** * * * * *
37325575 GGTGCAATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTG--GT
1 TCTTCAATCTGCTCCACTGTAATC-TCAGGGAGATAAGAT-C-TGAAAT
* * *
37325621 T-TT-AATCCGCTCCACTGTAATCTCAGGGAGATAGGAT-T-ACCA-
1 TCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGA-AAT
* *
37325663 GCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT
1 TCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAAT
** * *
37325709 TCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGA
1 TCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGA
37325747 CCTGGTGCAA
Statistics
Matches: 163, Mismatches: 34, Indels: 32
0.71 0.15 0.14
Matches are distributed among these distances:
40 1 0.01
41 27 0.17
42 2 0.01
43 3 0.02
44 58 0.36
45 5 0.03
46 67 0.41
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.30
Consensus pattern (46 bp):
TCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGAAAT
Found at i:37325639 original size:44 final size:43
Alignment explanation
Indices: 37325448--37326286 Score: 214
Period size: 44 Copynumber: 19.0 Consensus size: 43
37325438 GTCTTGTTGC
* * * * **
37325448 TTCAATCCACTCCACTGCACT-TCAGGGAGATAGGATAGT-GT
1 TTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATCCTGGT
* * * *
37325489 CTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT-CTGAAATT
1 -TTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATCCTG---GT
** ** * **
37325535 CTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGA-CAAGG-
1 -TTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATCCTGGT
* * *
37325577 TGCAATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTGGT
1 TTCAATCTACTCCACTGTAATC-TCAGGGAGATAAGATCC-TGGT
* ** * * *
37325621 TTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACC-AGC
1 TTCAATCTACTCCACTGTAATCTCAGGGAGATAAGA-T-CCTGGT
* * *
37325665 TTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT-CTGAAATT
1 TTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATCCTG---GT
** ** *
37325710 CTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGA-CCTGG-
1 -TTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATCCTGGT
* * * * **
37325752 TGCAATCTACTCTACTGTAA-CTTCAGAGAGATAAGCTCCTTTAT
1 TTCAATCTACTCCACTGTAATC-TCAGGGAGATAAGATCC-TGGT
* * * * * ***
37325796 TTTAATCCACTCCACTGTAA-CTTCAGAGAGATAGGATTACTAAC
1 TTCAATCTACTCCACTGTAATC-TCAGGGAGATAAGA-TCCTGGT
* * *
37325840 TTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCT
1 TTCAATCTACTCCACTGTAATCTCAGGGAGATAAGA-TCCTGG-T
** * * **
37325885 TCAATCTGATGTGATCTACTCTGCTGTAA-CTTCAGAGAGATAAGATCTTTTAT
1 T---TC--A----ATCTACTCCACTGTAATC-TCAGGGAGATAAGATC-CTGGT
* *
37325938 TTCAATCCACTACACTGTAATCTCAGGGAGATAAGAT-CTGG-
1 TTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATCCTGGT
* * * *
37325979 TACGATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTGGT
1 TTCAATCTACTCCACTGTAATC-TCAGGGAGATAAGATCC-TGGT
* ** * * *
37326023 TTTAATCCGCTCCACTGTAATATCAGGGAGATAGGATTACCAT-CT
1 TTCAATCTACTCCACTGTAATCTCAGGGAGATAAGA-T-CC-TGGT
* * * * *
37326068 TT-GATCTGCTCCGCTATAATCTAATCTCAGGGAAATAAGA-CCTGG-
1 TTCAATCTACT-C-C---ACTGTAATCTCAGGGAGATAAGATCCTGGT
** * ** *
37326113 CGCGATCTACTCTGCTGTAA-CTTCAGAGAGATAAGATCCTTGGT
1 TTCAATCTACTCCACTGTAATC-TCAGGGAGATAAGATCC-TGGT
* ** * * *
37326157 TTTAATCCGCTCCACTGTAATATCAGGGAGATAGGATTACCAT-CT
1 TTCAATCTACTCCACTGTAATCTCAGGGAGATAAGA-T-CC-TGGT
* * * * ***
37326202 TT-GATCTGCTCCGCTATAATCTCAGGGAGATAAGATCTACAATT
1 TTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATC--CTGGT
** *
37326246 CTTCGGTCTGCTCCACTGTAATCTCAGGGAGATAAGA-CCTG
1 -TTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATCCTG
37326287 TATAATGAAC
Statistics
Matches: 580, Mismatches: 153, Indels: 127
0.67 0.18 0.15
Matches are distributed among these distances:
40 4 0.01
41 97 0.17
42 24 0.04
43 26 0.04
44 235 0.41
45 21 0.04
46 117 0.20
48 3 0.01
49 18 0.03
50 3 0.01
53 4 0.01
54 28 0.05
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (43 bp):
TTCAATCTACTCCACTGTAATCTCAGGGAGATAAGATCCTGGT
Found at i:37325647 original size:85 final size:85
Alignment explanation
Indices: 37325546--37325815 Score: 285
Period size: 87 Copynumber: 3.1 Consensus size: 85
37325536 TTCGGTCTGT
*
37325546 TCCACTGTAATCTCAGGGAAATAAGACAAGGTGCAATCTACTCTACTGTAACTTCAGAGAGATAA
1 TCCACTGTAATCTCAGGGAAATAAGACCAGGTGCAATCTACTCTACTGTAACTTCAGAGAGATAA
*
37325611 GATCCTTGGTTTTAATCCGC
66 GATCCTTGATTTTAATCCGC
* * * * * ** *
37325631 TCCACTGTAATCTCAGGGAGATAGGATTACCAGCTTCAATCTGCTCCGCTGTAA-TCTCAGGGAG
1 TCCACTGTAATCTCAGGGAAATA--A-GACCAGGTGCAATCTACTCTACTGTAACT-TCAGAGAG
** * *
37325695 ATAAGAT-C-TGAAATTCTTCGGTCTGT
62 ATAAGATCCTTG--ATT-TT-AATCCGC
*
37325721 TCCACTGTAATCTCAGGGAAATAAGACCTGGTGCAATCTACTCTACTGTAACTTCAGAGAGATAA
1 TCCACTGTAATCTCAGGGAAATAAGACCAGGTGCAATCTACTCTACTGTAACTTCAGAGAGATAA
* * *
37325786 GCTCCTTTATTTTAATCCAC
66 GATCCTTGATTTTAATCCGC
37325806 TCCACTGTAA
1 TCCACTGTAA
37325816 CTTCAGAGAG
Statistics
Matches: 144, Mismatches: 30, Indels: 22
0.73 0.15 0.11
Matches are distributed among these distances:
85 34 0.24
86 4 0.03
87 39 0.27
88 39 0.27
89 3 0.02
90 25 0.17
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.30
Consensus pattern (85 bp):
TCCACTGTAATCTCAGGGAAATAAGACCAGGTGCAATCTACTCTACTGTAACTTCAGAGAGATAA
GATCCTTGATTTTAATCCGC
Found at i:37325785 original size:175 final size:175
Alignment explanation
Indices: 37325451--37326286 Score: 772
Period size: 175 Copynumber: 4.7 Consensus size: 175
37325441 TTGTTGCTTC
* * ** *
37325451 AATCCACTCCACTGCACT-TCAGGGAGATAGGA-TA-GTGTCTTCGATCTGCTCCGCTGTAATCT
1 AATCCACTCCACTGTAATCTCAGGGAGATAGGATTACCAG-CTTCAATCTGCTCCGCTGTAATCT
**
37325513 CAGGGAGATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACAAGGT
65 CAGGGAGATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGT
37325578 GCAATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTGGTTTT
130 GCAATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTGGTTTT
*
37325624 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACCAGCTTCAATCTGCTCCGCTGTAATCTC
1 AATCCACTCCACTGTAATCTCAGGGAGATAGGATTACCAGCTTCAATCTGCTCCGCTGTAATCTC
37325689 AGGGAGATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTG
66 AGGGAGATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTG
* **
37325754 CAATCTACTCTACTGTAACTTCAGAGAGATAAGCTCCTTTATTTT
131 CAATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTGGTTTT
* * *
37325799 AATCCACTCCACTGTAA-CTTCAGAGAGATAGGATTACTAACTTCAATCTGCTCCGCTGTAATCT
1 AATCCACTCCACTGTAATC-TCAGGGAGATAGGATTACCAGCTTCAATCTGCTCCGCTGTAATCT
** * * * * * *
37325863 CAGGGAGATAAGATTTCTG-GCTTCAATCTGATGTGATCTACTCTGCTGTAA-CTTCAGAGAGAT
65 CAGGGAGATAAGA--TCTGAAATTC-TTC-GGTCTG-T-T-C-C-ACTGTAATC-TCAGGGAAAT
* ** * * * **
37325926 AAGATCTTTTATTTCAATCCACTAC-ACTGTAA-TCTCAGGGAGATAAGAT-C-TGG-TAC
120 AAGA-C--CTGGTGCAATCTACT-CTACTGTAACT-TCAGAGAGATAAGATCCTTGGTTTT
* * * * * * * * * *
37325982 GATCTACTCTACTGTAA-CTTCAGAGAGATAAGA-T-CCTTGGTTTTAATCCGCTCCACTGTAAT
1 AATCCACTCCACTGTAATC-TCAGGGAGATAGGATTACC--AGCTTCAATCTGCTCCGCTGTAAT
* * * * * * * *
37326044 ATCAGGGAGATAGGAT-T-ACCA-TCTTTGATCTGCTCCGCTATAATCTAATCTCAGGGAAATAA
63 CTCAGGGAGATAAGATCTGA-AATTCTTCGGTCTG-TTC-C---ACTGTAATCTCAGGGAAATAA
* * *
37326106 GACCTGGCGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTGGTTTT
122 GACCTGGTGCAATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTGGTTTT
* * * ** *
37326160 AATCCGCTCCACTGTAATATCAGGGAGATAGGATTACCATCTTTGATCTGCTCCGCTATAATCTC
1 AATCCACTCCACTGTAATCTCAGGGAGATAGGATTACCAGCTTCAATCTGCTCCGCTGTAATCTC
* *
37326225 AGGGAGATAAGATCT-ACAATTCTTCGGTCTGCTCCACTGTAATCTCAGGGAGATAAGACCTG
66 AGGGAGATAAGATCTGA-AATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTG
37326287 TATAATGAAC
Statistics
Matches: 532, Mismatches: 95, Indels: 70
0.76 0.14 0.10
Matches are distributed among these distances:
173 15 0.03
174 16 0.03
175 254 0.48
176 8 0.02
177 10 0.02
178 85 0.16
179 9 0.02
180 15 0.03
181 3 0.01
182 3 0.01
183 79 0.15
184 2 0.00
185 2 0.00
186 30 0.06
187 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (175 bp):
AATCCACTCCACTGTAATCTCAGGGAGATAGGATTACCAGCTTCAATCTGCTCCGCTGTAATCTC
AGGGAGATAAGATCTGAAATTCTTCGGTCTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGTG
CAATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTGGTTTT
Found at i:37326039 original size:85 final size:85
Alignment explanation
Indices: 37325897--37326055 Score: 246
Period size: 85 Copynumber: 1.9 Consensus size: 85
37325887 AATCTGATGT
* * * *
37325897 GATCTACTCTGCTGTAACTTCAGAGAGATAAGATCTTTTATTTCAATCCACTACACTGTAATCTC
1 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTGATTTCAATCCACTACACTGTAATATC
37325962 AGGGAGATAAGATCTGGTAC
66 AGGGAGATAAGATCTGGTAC
* * * *
37325982 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTGGTTTTAATCCGCTCCACTGTAATATC
1 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTGATTTCAATCCACTACACTGTAATATC
37326047 AGGGAGATA
66 AGGGAGATA
37326056 GGATTACCAT
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
85 66 1.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.31
Consensus pattern (85 bp):
GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTGATTTCAATCCACTACACTGTAATATC
AGGGAGATAAGATCTGGTAC
Found at i:37326125 original size:134 final size:134
Alignment explanation
Indices: 37325955--37326223 Score: 493
Period size: 134 Copynumber: 2.0 Consensus size: 134
37325945 CACTACACTG
* * *
37325955 TAATCTCAGGGAGATAAGATCTGGTACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTT
1 TAATCTCAGGGAAATAAGACCTGGCACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTT
37326020 GGTTTTAATCCGCTCCACTGTAATATCAGGGAGATAGGATTACCATCTTTGATCTGCTCCGCTAT
66 GGTTTTAATCCGCTCCACTGTAATATCAGGGAGATAGGATTACCATCTTTGATCTGCTCCGCTAT
37326085 AATC
131 AATC
* *
37326089 TAATCTCAGGGAAATAAGACCTGGCGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTT
1 TAATCTCAGGGAAATAAGACCTGGCACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTT
37326154 GGTTTTAATCCGCTCCACTGTAATATCAGGGAGATAGGATTACCATCTTTGATCTGCTCCGCTAT
66 GGTTTTAATCCGCTCCACTGTAATATCAGGGAGATAGGATTACCATCTTTGATCTGCTCCGCTAT
37326219 AATC
131 AATC
37326223 T
1 T
37326224 CAGGGAGATA
Statistics
Matches: 130, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
134 130 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (134 bp):
TAATCTCAGGGAAATAAGACCTGGCACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTT
GGTTTTAATCCGCTCCACTGTAATATCAGGGAGATAGGATTACCATCTTTGATCTGCTCCGCTAT
AATC
Found at i:37326258 original size:46 final size:44
Alignment explanation
Indices: 37326165--37326282 Score: 155
Period size: 46 Copynumber: 2.6 Consensus size: 44
37326155 GTTTTAATCC
* * * *
37326165 GCTCCACTGTAATATCAGGGAGATAGGATTACCATCTTTGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTACAATCTTCGATCT
* * *
37326209 GCTCCGCTATAATCTCAGGGAGATAAGATCTACAATTCTTCGGTCT
1 GCTCCACTGTAATCTCAGGGAGATAAGAT-TACAA-TCTTCGATCT
37326255 GCTCCACTGTAATCTCAGGGAGATAAGA
1 GCTCCACTGTAATCTCAGGGAGATAAGA
37326283 CCTGTATAAT
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 25 0.40
45 4 0.06
46 34 0.54
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (44 bp):
GCTCCACTGTAATCTCAGGGAGATAAGATTACAATCTTCGATCT
Found at i:37338032 original size:109 final size:106
Alignment explanation
Indices: 37337834--37338150 Score: 463
Period size: 109 Copynumber: 2.9 Consensus size: 106
37337824 AAAATTCAAT
* * * * *
37337834 AGGATATTTAGCAATTTGGCTAAACGTGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAA
1 AGGATATTTAGCTATTTGGTTGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCAAA
37337899 TTTCCAAACGCAAAATATTGCCTTATTTTGAAATTGTTGAAA
66 TTTCCAAACGCAAAATATTGCCTTATTTTGAAATT-TTGAAA
*
37337941 AGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGACACCCAGTACCTTAGGGCACGTTCCTCA
1 AGGATATTTAGCTATTTGGTTGAACGAG--AAATCGAAACCCAGTACCTTAGGGCACGTTCCTCA
* * * *
37338006 AATTTCCAAACGCAAAACATTACCTTATTTTTTAAAAGTTTTTAAA
64 AATTTCCAAACGCAAAATATTGCCTTA--TTTTGAAA-TTTTGAAA
*
37338052 AGGATATTTAGCTATTTGGTCGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCAAA
1 AGGATATTTAGCTATTTGGTTGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCAAA
* *
37338117 TTTCCAAACGCAAGATATTGTCTTATTTTGAAAT
66 TTTCCAAACGCAAAATATTGCCTTATTTTGAAAT
37338151 ATATTTTTTT
Statistics
Matches: 188, Mismatches: 17, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
106 1 0.01
107 31 0.16
109 115 0.61
111 39 0.21
112 2 0.01
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.31
Consensus pattern (106 bp):
AGGATATTTAGCTATTTGGTTGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCAAA
TTTCCAAACGCAAAATATTGCCTTATTTTGAAATTTTGAAA
Found at i:37338917 original size:25 final size:27
Alignment explanation
Indices: 37338886--37338935 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
37338876 AGTGAAACAT
37338886 AAAAAT-A-TGTAT-TTATAATAAATAA
1 AAAAATAAGTGTATATTATAA-AAATAA
37338911 AAAAATAAGTGTATATTATAAAAAT
1 AAAAATAAGTGTATATTATAAAAAT
37338936 GTATTTGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 6 0.27
26 1 0.05
27 9 0.41
28 6 0.27
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (27 bp):
AAAAATAAGTGTATATTATAAAAATAA
Found at i:37341093 original size:51 final size:50
Alignment explanation
Indices: 37341038--37341138 Score: 184
Period size: 51 Copynumber: 2.0 Consensus size: 50
37341028 TATTACAGCC
37341038 CCTCTCTTTTCTTTAATCCCTTGTCCTCTCTTTTTTTTTAATCCCTTGTGT
1 CCTCTCTTTTCTTTAATCCCTTGTCCTCTC-TTTTTTTTAATCCCTTGTGT
*
37341089 CCTCTCTTTTCTTTAATCTCTTGTCCTCTCTTTTTTTTAATCCCTTGTGT
1 CCTCTCTTTTCTTTAATCCCTTGTCCTCTCTTTTTTTTAATCCCTTGTGT
37341139 TAGGTATTCA
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
50 20 0.41
51 29 0.59
ACGTcount: A:0.08, C:0.29, G:0.06, T:0.57
Consensus pattern (50 bp):
CCTCTCTTTTCTTTAATCCCTTGTCCTCTCTTTTTTTTAATCCCTTGTGT
Found at i:37341098 original size:26 final size:24
Alignment explanation
Indices: 37341038--37341136 Score: 144
Period size: 24 Copynumber: 4.0 Consensus size: 24
37341028 TATTACAGCC
37341038 CCTCTCTTTTCTTTAATCCCTTGT
1 CCTCTCTTTTCTTTAATCCCTTGT
*
37341062 CCTCTCTTTTTTTTTAATCCCTTGTGT
1 CCTCTC-TTTTCTTTAATCCC-T-TGT
*
37341089 CCTCTCTTTTCTTTAATCTCTTGT
1 CCTCTCTTTTCTTTAATCCCTTGT
*
37341113 CCTCTCTTTTTTTTAATCCCTTGT
1 CCTCTCTTTTCTTTAATCCCTTGT
37341137 GTTAGGTATT
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
24 31 0.46
25 14 0.21
26 13 0.19
27 9 0.13
ACGTcount: A:0.08, C:0.29, G:0.05, T:0.58
Consensus pattern (24 bp):
CCTCTCTTTTCTTTAATCCCTTGT
Found at i:37348206 original size:26 final size:26
Alignment explanation
Indices: 37348174--37348285 Score: 152
Period size: 26 Copynumber: 4.3 Consensus size: 26
37348164 TTTACCCTAG
* * * *
37348174 TAAAATTTTAATAATTTTACTCCCGG
1 TAAAATTTTGATGATTTTACCCCCGA
*
37348200 TAAAATTTTGATGATTTTACCCCCAA
1 TAAAATTTTGATGATTTTACCCCCGA
*
37348226 TAAAATTTTGACGATTTTACCCCCGA
1 TAAAATTTTGATGATTTTACCCCCGA
* *
37348252 TAAAATTTTGACGATTTTATCCCCGA
1 TAAAATTTTGATGATTTTACCCCCGA
37348278 TAAAATTT
1 TAAAATTT
37348286 CGAGAAAATT
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.34, C:0.18, G:0.09, T:0.39
Consensus pattern (26 bp):
TAAAATTTTGATGATTTTACCCCCGA
Found at i:37351455 original size:7 final size:7
Alignment explanation
Indices: 37351443--37351468 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
37351433 TGTCGTTTAA
37351443 AGTCTAG
1 AGTCTAG
37351450 AGTCTAG
1 AGTCTAG
37351457 AGTCTAG
1 AGTCTAG
37351464 AGTCT
1 AGTCT
37351469 TCCAAACGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (7 bp):
AGTCTAG
Found at i:37352716 original size:26 final size:26
Alignment explanation
Indices: 37352686--37352738 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
37352676 ATGGAGTTGG
37352686 TGGATTATAGGGTTCTGCAAACATGA
1 TGGATTATAGGGTTCTGCAAACATGA
*
37352712 TGGATTATAGGGTTGTGCAAACATGA
1 TGGATTATAGGGTTCTGCAAACATGA
37352738 T
1 T
37352739 AACATCTTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.30, C:0.09, G:0.28, T:0.32
Consensus pattern (26 bp):
TGGATTATAGGGTTCTGCAAACATGA
Found at i:37360539 original size:25 final size:27
Alignment explanation
Indices: 37360511--37360579 Score: 79
Period size: 25 Copynumber: 2.6 Consensus size: 27
37360501 AGCCTGGATA
*
37360511 AGCTTCCCGTTATTTGGCTC-ACA-TG
1 AGCTTCCCGTTATTTGGCTCGACAGAG
* * *
37360536 AGCTTCCTGTTATATGGCTCGAGAGAG
1 AGCTTCCCGTTATTTGGCTCGACAGAG
37360563 AGCTTCCCGATTATTTG
1 AGCTTCCCG-TTATTTG
37360580 CTTTAATGAG
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
25 18 0.51
26 2 0.06
27 9 0.26
28 6 0.17
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (27 bp):
AGCTTCCCGTTATTTGGCTCGACAGAG
Found at i:37365776 original size:21 final size:21
Alignment explanation
Indices: 37365751--37365791 Score: 73
Period size: 21 Copynumber: 1.9 Consensus size: 21
37365741 TTGGATGACA
37365751 AAAAACATAAATTTAAAAAAAT
1 AAAAACA-AAATTTAAAAAAAT
37365773 AAAAACAAAATTTAAAAAA
1 AAAAACAAAATTTAAAAAA
37365792 GGAAAGAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.20
Consensus pattern (21 bp):
AAAAACAAAATTTAAAAAAAT
Found at i:37374526 original size:10 final size:10
Alignment explanation
Indices: 37374506--37374608 Score: 57
Period size: 10 Copynumber: 9.9 Consensus size: 10
37374496 GCCCATTTTT
37374506 ATTTT-AAAA
1 ATTTTAAAAA
37374515 ATTTTAAAAA
1 ATTTTAAAAA
**
37374525 ATTAAAAAAA
1 ATTTTAAAAA
37374535 GTATTTTAAAAA
1 --ATTTTAAAAA
*
37374547 TATTTT-TAAA
1 -ATTTTAAAAA
**
37374557 ATTAAAAAAA
1 ATTTTAAAAA
**
37374567 ATTAAAAAAA
1 ATTTTAAAAA
**
37374577 ATTAAAAAAA
1 ATTTTAAAAA
37374587 GTATTTTAAAAA
1 --ATTTTAAAAA
37374599 TATTTTAAAA
1 -ATTTTAAAA
37374609 TTAAAAAAAA
Statistics
Matches: 78, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
9 8 0.10
10 38 0.49
11 16 0.21
12 16 0.21
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (10 bp):
ATTTTAAAAA
Found at i:37374543 original size:31 final size:32
Alignment explanation
Indices: 37374505--37374658 Score: 108
Period size: 32 Copynumber: 5.0 Consensus size: 32
37374495 GGCCCATTTT
37374505 TATTTTAAAAAT-TTTAAAAAATTAAAAAAAG
1 TATTTTAAAAATATTTAAAAAATTAAAAAAAG
**
37374536 TATTTTAAAAATATTTTTAAAATTAAAAAAA-
1 TATTTTAAAAATATTTAAAAAATTAAAAAAAG
* * * **
37374567 -A-TTAAAAAAAATTAAAAAAAGTATTTTAAAAA-
1 TATTTTAAAAATATT-TAAAAA--ATTAAAAAAAG
* **
37374599 TATTTTAAAATTA-AAAAAAAATT-AAAAAAG
1 TATTTTAAAAATATTTAAAAAATTAAAAAAAG
* * *
37374629 TATGTAAAAAATATTT-TAAAATTAAAAAAA
1 TATTTTAAAAATATTTAAAAAATTAAAAAAA
37374659 TATATATATA
Statistics
Matches: 94, Mismatches: 20, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
29 15 0.16
30 23 0.24
31 18 0.19
32 30 0.32
33 1 0.01
34 7 0.07
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.34
Consensus pattern (32 bp):
TATTTTAAAAATATTTAAAAAATTAAAAAAAG
Found at i:37374558 original size:11 final size:11
Alignment explanation
Indices: 37374505--37374608 Score: 60
Period size: 11 Copynumber: 9.9 Consensus size: 11
37374495 GGCCCATTTT
37374505 TATTTT-AAAA
1 TATTTTAAAAA
37374515 -ATTTTAAAAA
1 TATTTTAAAAA
**
37374525 -ATTAAAAAAA
1 TATTTTAAAAA
37374535 GTATTTTAAAAA
1 -TATTTTAAAAA
*
37374547 TATTTT-TAAA
1 TATTTTAAAAA
37374557 -A--TTAAAAA
1 TATTTTAAAAA
* * *
37374565 AAATTAAAAAA
1 TATTTTAAAAA
* **
37374576 AATTAAAAAAA
1 TATTTTAAAAA
37374587 GTATTTTAAAAA
1 -TATTTTAAAAA
37374599 TATTTTAAAA
1 TATTTTAAAA
37374609 TTAAAAAAAA
Statistics
Matches: 74, Mismatches: 12, Indels: 15
0.73 0.12 0.15
Matches are distributed among these distances:
7 2 0.03
8 3 0.04
9 7 0.09
10 15 0.20
11 31 0.42
12 16 0.22
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:37374569 original size:52 final size:51
Alignment explanation
Indices: 37374511--37374649 Score: 192
Period size: 52 Copynumber: 2.7 Consensus size: 51
37374501 TTTTTATTTT
37374511 AAAAATTTTAAAAAATTAAAAAAAGTATTTTAAAAATATTTTTAAAATTAAA
1 AAAAATTTTAAAAAATTAAAAAAAGTATTTTAAAAATA-TTTTAAAATTAAA
**
37374563 AAAAATTAAAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAA
1 AAAAATTTTAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAA
* *
37374614 AAAAA-ATTAAAAAAGTATGTAAAAAA-TATTTTAAAA
1 AAAAATTTTAAAAAA-T-T-AAAAAAAGTATTTTAAAA
37374650 TTAAAAAAAT
Statistics
Matches: 78, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
50 6 0.08
51 19 0.24
52 47 0.60
53 6 0.08
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (51 bp):
AAAAATTTTAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTAAA
Found at i:37374592 original size:41 final size:40
Alignment explanation
Indices: 37374505--37374631 Score: 121
Period size: 42 Copynumber: 3.1 Consensus size: 40
37374495 GGCCCATTTT
* * ** *
37374505 TATTTTAAAAATTTTAAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTTTAAAATTATAAAAAATTAAAAAAA--ATTAAAAAAG
*
37374547 TATTTTTAAAATTAAAAAAAATTAAAAAAAATTAAAAAAAG
1 TATTTTTAAAATTATAAAAAATTAAAAAAAATT-AAAAAAG
* **
37374588 TA-TTTTAAAAATATTTTAAAATTAAAAAAAAATTAAAAAAG
1 TATTTTTAAAATTA-TAAAAAATT-AAAAAAAATTAAAAAAG
37374629 TAT
1 TAT
37374632 GTAAAAAATA
Statistics
Matches: 71, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
40 13 0.18
41 21 0.30
42 37 0.52
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (40 bp):
TATTTTTAAAATTATAAAAAATTAAAAAAAATTAAAAAAG
Found at i:37374639 original size:41 final size:42
Alignment explanation
Indices: 37374564--37374658 Score: 158
Period size: 41 Copynumber: 2.3 Consensus size: 42
37374554 AAAATTAAAA
* *
37374564 AAAATT-AAAAAAAATTAAAAAAAGTATTTTAAAAATATTTT
1 AAAATTAAAAAAAAATTAAAAAAAGTATGTAAAAAATATTTT
37374605 AAAATTAAAAAAAAATT-AAAAAAGTATGTAAAAAATATTTT
1 AAAATTAAAAAAAAATTAAAAAAAGTATGTAAAAAATATTTT
37374646 AAAATTAAAAAAA
1 AAAATTAAAAAAA
37374659 TATATATATA
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
41 41 0.80
42 10 0.20
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.29
Consensus pattern (42 bp):
AAAATTAAAAAAAAATTAAAAAAAGTATGTAAAAAATATTTT
Found at i:37384075 original size:24 final size:24
Alignment explanation
Indices: 37384043--37384090 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
37384033 GCAAAAAAAG
37384043 ATAGGCAGTGGATTTGGTTAGCTT
1 ATAGGCAGTGGATTTGGTTAGCTT
37384067 ATAGGCAGTGGATTTGGTTAGCTT
1 ATAGGCAGTGGATTTGGTTAGCTT
37384091 GAAAACCACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.21, C:0.08, G:0.33, T:0.38
Consensus pattern (24 bp):
ATAGGCAGTGGATTTGGTTAGCTT
Found at i:37399221 original size:31 final size:31
Alignment explanation
Indices: 37399153--37399221 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 31
37399143 ATATTAGAAT
*
37399153 TAAAATTTCAAAATTTGAAAAGTAGATAAAC
1 TAAAATTTCAAAATTTGAAAAGTAAATAAAC
*
37399184 TAAAATTT-AACAATTTG-AAAGATAAATGAAC
1 TAAAATTTCAA-AATTTGAAAAG-TAAATAAAC
*
37399215 TCAAATT
1 TAAAATT
37399222 GATTAAATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 6 0.18
31 27 0.82
ACGTcount: A:0.54, C:0.07, G:0.09, T:0.30
Consensus pattern (31 bp):
TAAAATTTCAAAATTTGAAAAGTAAATAAAC
Found at i:37403964 original size:18 final size:17
Alignment explanation
Indices: 37403859--37403993 Score: 95
Period size: 18 Copynumber: 8.0 Consensus size: 17
37403849 AATACTAAGA
*
37403859 ATTTTATCAAATTATAT
1 ATTTTATTAAATTATAT
37403876 ATTTTTATTAAA-T-TAT
1 A-TTTTATTAAATTATAT
*
37403892 A-TTTAAT-AATTAT-T
1 ATTTTATTAAATTATAT
* *
37403906 ATTTTAAATTATATTTTAT
1 ATTTT--ATTAAATTATAT
* * *
37403925 AGTATTA-TATATTAT-G
1 A-TTTTATTAAATTATAT
*
37403941 ATTTTAGTAAATTCATAT
1 ATTTTATTAAATT-ATAT
37403959 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
37403976 ATTTTTATTAAATTATAT
1 A-TTTTATTAAATTATAT
37403994 TTAATAATAA
Statistics
Matches: 93, Mismatches: 12, Indels: 25
0.72 0.09 0.19
Matches are distributed among these distances:
13 2 0.02
14 8 0.09
15 8 0.09
16 10 0.11
17 18 0.19
18 42 0.45
19 2 0.02
20 3 0.03
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.57
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:37404239 original size:46 final size:44
Alignment explanation
Indices: 37404157--37404245 Score: 124
Period size: 46 Copynumber: 2.0 Consensus size: 44
37404147 ACCTCTATTA
* * *
37404157 CATTCAACCAAATACAAGAATACCATTACGGCTCTATTCCATTC
1 CATTCAACCAAACAAAAGAATACCATTACGCCTCTATTCCATTC
*
37404201 CATTCAACCAAACAAAAGATTTACCTATTACGCCTCTATTCCATT
1 CATTCAACCAAACAAAAGA-ATACC-ATTACGCCTCTATTCCATT
37404246 ACGCATCTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 17 0.44
45 4 0.10
46 18 0.46
ACGTcount: A:0.36, C:0.29, G:0.06, T:0.29
Consensus pattern (44 bp):
CATTCAACCAAACAAAAGAATACCATTACGCCTCTATTCCATTC
Found at i:37404248 original size:16 final size:16
Alignment explanation
Indices: 37404227--37404279 Score: 70
Period size: 16 Copynumber: 3.3 Consensus size: 16
37404217 AGATTTACCT
*
37404227 ATTACGCCTCTATTCC
1 ATTACGCATCTATTCC
*
37404243 ATTACGCATCTATTTC
1 ATTACGCATCTATTCC
* *
37404259 ATTACACATCTGTTCC
1 ATTACGCATCTATTCC
37404275 ATTAC
1 ATTAC
37404280 AGCGAACCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.25, C:0.30, G:0.06, T:0.40
Consensus pattern (16 bp):
ATTACGCATCTATTCC
Found at i:37405868 original size:398 final size:394
Alignment explanation
Indices: 37405124--37406294 Score: 1961
Period size: 398 Copynumber: 3.0 Consensus size: 394
37405114 TACCACCGAT
37405124 CGGATCCGTGGCGCAATGGTAGCGCGTCTGACTCCAGATCAGAAGGTTGCGTGTTCGATTCACGT
1 CGGATCCGTGGCGCAATGGTAGCGCGTCTGACTCCAGATCAGAAGGTTGCGTGTTCGATTCACGT
* * * *
37405189 CGGGTTCAAACTCCTGAAACGGTCGGATCTATTTTTTTTCCTCTTCAGATATGGCCGATCTGGGT
66 CGGGTTCAAAATCCTGATACAGTCGGATCTTTTTTTTTTCCTCTTC-GATATGGCCGATCTGGGT
37405254 TAAACTCGACCCGAGTCGTTCCTGAAAGAATAAGGGAATCCCTGCCTGCCGTCCGTTGATTAGAG
130 TAAACTCGACCCGAGTCGTTCCTGAAAGAATAAGGGAATCCCTGCCTGCCGTCCGTTGATTAGAG
* * *
37405319 GTGGGTGAGGAAGTAAAGACTGTGATTCCTGATTCACTGTTGAAGAAGATTAAGGGGAATGAAGA
195 GTGGGTGAGGAAGTTAAGACTGTGATTCCTGATTCACTGTTGAAGAAGAATAAGAGGAATGAAGA
* *
37405384 ATGGGAGCTTGCTAAAAAGCAGGAACGCGAAGCTGCAGAGAGGAAGAAAGTCGAGAACCGCAAGC
260 ATGGGAGCTTGCTAAAAAGCAGGAACTCGAAGCTGCAAAGAGGAAGAAAGTCGAGAACCGCAAGC
* * * *
37405449 ACATTTACTGAAGAGCTATGCAGTGTGCAAAAGAGTGTGAGACTCAGGTATATTTAAAGGTGAAA
325 TCATTTACTCAAGAGCTATGCAGTATGCAAAAGAGTGTGAGGCTCAGGTATATTTAAAGGTGAAA
*
37405514 TCTAA
390 ACTAA
37405519 CGGATCCGTGGCGCAATGGTAGCGCGTCTGACTCCAGATCAGAAGGTTGCGTGTTCGATTCACGT
1 CGGATCCGTGGCGCAATGGTAGCGCGTCTGACTCCAGATCAGAAGGTTGCGTGTTCGATTCACGT
* *
37405584 CGGGTTCAAAATCCTGATACAGTCGGTTCTTTTTTTTTTTTGCCTCTTCGTATATGGCCGATCTC
66 CGGGTTCAAAATCCTGATACAGTCGGATC--TTTTTTTTTT-CCTCTTCG-ATATGGCCGATCTG
*
37405649 GGCTAAACTCGACCCGAGTCGTTCCTGAAAGAATAAGGGAATCCCTGCCTGCCGTCCGTTGATTA
127 GGTTAAACTCGACCCGAGTCGTTCCTGAAAGAATAAGGGAATCCCTGCCTGCCGTCCGTTGATTA
** *
37405714 GAGGTGGGTGAGGAAGTTAAGACTGTGATTCCTGATTCAAAGTTGAAGAAGAATGAGAGGAATGA
192 GAGGTGGGTGAGGAAGTTAAGACTGTGATTCCTGATTCACTGTTGAAGAAGAATAAGAGGAATGA
* * *
37405779 AAAATGGGAGCTTGCTAAAAAGCAGGAATTCGAAGCTGCAAAGAGGAAGAATGTCGAGAACCGCA
257 AGAATGGGAGCTTGCTAAAAAGCAGGAACTCGAAGCTGCAAAGAGGAAGAAAGTCGAGAACCGCA
* * * * *
37405844 AGCTCATTTACTCAAGAACTATGCAGTATGCGAAAGAGAGTGAGGGTCAGGTATATTTGAAGGTG
322 AGCTCATTTACTCAAGAGCTATGCAGTATGCAAAAGAGTGTGAGGCTCAGGTATATTTAAAGGTG
37405909 AAAACTAA
387 AAAACTAA
*
37405917 TGGATCCGTGGCGCAATGGTAGCGCGTCTGACTCCAGATCAGAAGGTTGCGTGTTCGATTCACGT
1 CGGATCCGTGGCGCAATGGTAGCGCGTCTGACTCCAGATCAGAAGGTTGCGTGTTCGATTCACGT
*
37405982 CGGGTTCAAAATCCTG-TAGCAGTCGGATC-TATTTTTTTCCTCTTCGGATATGGCCGATCTGGG
66 CGGGTTCAAAATCCTGATA-CAGTCGGATCTTTTTTTTTTCCTCTTC-GATATGGCCGATCTGGG
* *
37406045 TTAAACTCGACCCAAGTCGTTCCTGCAAGAATAAGGGAATCCCTGCCTGCCGTCCGTTGATTAGA
129 TTAAACTCGACCCGAGTCGTTCCTGAAAGAATAAGGGAATCCCTGCCTGCCGTCCGTTGATTAGA
37406110 GGTGGGTGAGGAAGTTAAGACTGTGATTCCTGATTCACTGTTGAAGAAGAATAAGAGGAATGAAG
194 GGTGGGTGAGGAAGTTAAGACTGTGATTCCTGATTCACTGTTGAAGAAGAATAAGAGGAATGAAG
37406175 AA-GGGAGCTTGCTAAAAAGCAGGAACTCGAAGCTGCAAAGAGGAAGAAAGTCGAGAACCGCAAG
259 AATGGGAGCTTGCTAAAAAGCAGGAACTCGAAGCTGCAAAGAGGAAGAAAGTCGAGAACCGCAAG
*
37406239 CTCATTTACTCAAGAGCTATGCAGTATGCAAAAGAGTATGAGGCTCAGGTATATTT
324 CTCATTTACTCAAGAGCTATGCAGTATGCAAAAGAGTGTGAGGCTCAGGTATATTT
37406295 GCTGGTCTTC
Statistics
Matches: 724, Mismatches: 46, Indels: 14
0.92 0.06 0.02
Matches are distributed among these distances:
393 111 0.15
394 147 0.20
395 99 0.14
397 12 0.02
398 355 0.49
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.25
Consensus pattern (394 bp):
CGGATCCGTGGCGCAATGGTAGCGCGTCTGACTCCAGATCAGAAGGTTGCGTGTTCGATTCACGT
CGGGTTCAAAATCCTGATACAGTCGGATCTTTTTTTTTTCCTCTTCGATATGGCCGATCTGGGTT
AAACTCGACCCGAGTCGTTCCTGAAAGAATAAGGGAATCCCTGCCTGCCGTCCGTTGATTAGAGG
TGGGTGAGGAAGTTAAGACTGTGATTCCTGATTCACTGTTGAAGAAGAATAAGAGGAATGAAGAA
TGGGAGCTTGCTAAAAAGCAGGAACTCGAAGCTGCAAAGAGGAAGAAAGTCGAGAACCGCAAGCT
CATTTACTCAAGAGCTATGCAGTATGCAAAAGAGTGTGAGGCTCAGGTATATTTAAAGGTGAAAA
CTAA
Found at i:37408989 original size:18 final size:18
Alignment explanation
Indices: 37408966--37409005 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
37408956 CATAGAATAA
*
37408966 TTTA-TTTAATATTTAAAT
1 TTTATTTTAATA-GTAAAT
37408984 TTTATTTTAATAGTAAAT
1 TTTATTTTAATAGTAAAT
37409002 TTTA
1 TTTA
37409006 AAAATAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (18 bp):
TTTATTTTAATAGTAAAT
Found at i:37414007 original size:2 final size:2
Alignment explanation
Indices: 37414000--37414031 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
37413990 AACTTTGACC
37414000 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
37414032 AGAGCTCACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:37432482 original size:16 final size:16
Alignment explanation
Indices: 37432461--37432492 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
37432451 GCAAATAGGT
37432461 CTAGAATATTGATTGG
1 CTAGAATATTGATTGG
*
37432477 CTAGAATTTTGATTGG
1 CTAGAATATTGATTGG
37432493 ACCCGATCCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.06, G:0.25, T:0.41
Consensus pattern (16 bp):
CTAGAATATTGATTGG
Found at i:37433887 original size:25 final size:25
Alignment explanation
Indices: 37433771--37433883 Score: 111
Period size: 25 Copynumber: 4.5 Consensus size: 25
37433761 GACACACCAC
* * *
37433771 AGCTCGTATGAGCTTATTGATTTAT
1 AGCTTGTATGAGCTTACTGATTCAT
* * * **
37433796 AGCTCGTATGAGCTTCCCGATTTGT
1 AGCTTGTATGAGCTTACTGATTCAT
* *
37433821 AGCTTGTATGAGCTTCCTGATTCAC
1 AGCTTGTATGAGCTTACTGATTCAT
*
37433846 AGCTTGTGA-GAGCATACTGATTCAT
1 AGCTTGT-ATGAGCTTACTGATTCAT
37433871 AGCTTGTATGAGC
1 AGCTTGTATGAGC
37433884 ATACATGAAT
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
24 1 0.01
25 72 0.97
26 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (25 bp):
AGCTTGTATGAGCTTACTGATTCAT
Found at i:37438381 original size:13 final size:13
Alignment explanation
Indices: 37438363--37438394 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
37438353 AAGAATAGAA
37438363 AAAGAAACAAAAC
1 AAAGAAACAAAAC
37438376 AAAGAAACAAAAC
1 AAAGAAACAAAAC
*
37438389 AGAGAA
1 AAAGAA
37438395 GGAAAGAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.75, C:0.12, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAGAAACAAAAC
Found at i:37438382 original size:30 final size:30
Alignment explanation
Indices: 37438346--37438417 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 30
37438336 TAAATAAATA
*
37438346 AAAGAAAAAGAATAGAAAAAGAAACAAAAC
1 AAAGAAAAAGAACAGAAAAAGAAACAAAAC
* * * **
37438376 AAAGAAACAA-AACAGAGAAGGAAAGAAAGG
1 AAAGAAA-AAGAACAGAAAAAGAAACAAAAC
37438406 AAAGAAAAAGAA
1 AAAGAAAAAGAA
37438418 GAAAAATTAG
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
29 2 0.06
30 30 0.88
31 2 0.06
ACGTcount: A:0.74, C:0.06, G:0.19, T:0.01
Consensus pattern (30 bp):
AAAGAAAAAGAACAGAAAAAGAAACAAAAC
Found at i:37441084 original size:16 final size:16
Alignment explanation
Indices: 37441063--37441099 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
37441053 TTGGTTCGCT
37441063 GTAATGAAATAGAGGC
1 GTAATGAAATAGAGGC
*
37441079 GTAATGGAATAGAGGC
1 GTAATGAAATAGAGGC
37441095 GTAAT
1 GTAAT
37441100 AGTAATTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.41, C:0.05, G:0.32, T:0.22
Consensus pattern (16 bp):
GTAATGAAATAGAGGC
Found at i:37441145 original size:45 final size:44
Alignment explanation
Indices: 37441081--37441173 Score: 118
Period size: 44 Copynumber: 2.1 Consensus size: 44
37441071 ATAGAGGCGT
* *
37441081 AATGGAATAGAGGCGTAATAGTAATTCAAT-TGTTTGGTTGTATGG
1 AATGGAATAGAGACGTAATAGT-ATTC-ATGTGTTTGGTTGAATGG
*
37441126 AATGGAATAGA-ACTGTAATAGTATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAGAC-GTAATAGTATTCATGTGTTTGGTTGAATGG
37441170 AATG
1 AATG
37441174 ATGTTGTAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
43 1 0.02
44 23 0.53
45 19 0.44
ACGTcount: A:0.31, C:0.04, G:0.28, T:0.37
Consensus pattern (44 bp):
AATGGAATAGAGACGTAATAGTATTCATGTGTTTGGTTGAATGG
Found at i:37441987 original size:14 final size:15
Alignment explanation
Indices: 37441958--37441988 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
37441948 TGACAAAATC
37441958 AAAATGTATTTAAAA
1 AAAATGTATTTAAAA
37441973 AAAATGTATTTAAAA
1 AAAATGTATTTAAAA
37441988 A
1 A
37441989 TGTCAATGCA
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:0.61, C:0.00, G:0.06, T:0.32
Consensus pattern (15 bp):
AAAATGTATTTAAAA
Found at i:37442276 original size:22 final size:24
Alignment explanation
Indices: 37442250--37442294 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
37442240 ATAAAAATGT
*
37442250 ATGAACATATAAAT-TT-TAAAAC
1 ATGAAAATATAAATATTATAAAAC
37442272 ATGAAAATATAAATATTATAAAA
1 ATGAAAATATAAATATTATAAAA
37442295 AATATGAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 13 0.65
23 2 0.10
24 5 0.25
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.31
Consensus pattern (24 bp):
ATGAAAATATAAATATTATAAAAC
Found at i:37442301 original size:26 final size:25
Alignment explanation
Indices: 37442238--37442302 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 25
37442228 TATGTACATG
* *
37442238 TTATAAAAATGTATGAACATATAAAT
1 TTATAAAAA-ATATGAAAATATAAAT
*
37442264 TT-T--AAAACATGAAAATATAAAT
1 TTATAAAAAATATGAAAATATAAAT
37442286 ATTATAAAAAATATGAA
1 -TTATAAAAAATATGAA
37442303 TGTATATAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
22 13 0.42
23 5 0.16
24 1 0.03
25 1 0.03
26 11 0.35
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.32
Consensus pattern (25 bp):
TTATAAAAAATATGAAAATATAAAT
Found at i:37442312 original size:19 final size:18
Alignment explanation
Indices: 37442275--37442319 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
37442265 TTAAAACATG
37442275 AAAATATAAATATTATAA
1 AAAATATAAATATTATAA
* *
37442293 AAAATATGAATGTATATAA
1 AAAATATAAATAT-TATAA
*
37442312 AATATATA
1 AAAATATA
37442320 TAAACTATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (18 bp):
AAAATATAAATATTATAA
Found at i:37443053 original size:15 final size:15
Alignment explanation
Indices: 37443033--37443068 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
37443023 AATCTGTTTA
37443033 TTCTTTTCTT-GTATT
1 TTCTTTT-TTCGTATT
37443048 TTCTTTTTTCGTATT
1 TTCTTTTTTCGTATT
37443063 TTCTTT
1 TTCTTT
37443069 AACTTTTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 2 0.10
15 18 0.90
ACGTcount: A:0.06, C:0.14, G:0.06, T:0.75
Consensus pattern (15 bp):
TTCTTTTTTCGTATT
Found at i:37443491 original size:18 final size:18
Alignment explanation
Indices: 37443468--37443597 Score: 79
Period size: 18 Copynumber: 7.0 Consensus size: 18
37443458 TTATTATTAA
37443468 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
*
37443486 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAAAT
* ****
37443504 CT-TAATATTAAATATTCTT
1 ATATAAT-TT-AATAAAAAT
*
37443523 ATATGAATTTACT-AAAAT
1 ATAT-AATTTAATAAAAAT
*
37443541 CATA-ATATATAATACTATAAA-
1 -ATATA-ATTTAATA--A-AAAT
*
37443562 ATATAATTTAATCAAAAT
1 ATATAATTTAATAAAAAT
37443580 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
37443598 TTTAATATTA
Statistics
Matches: 84, Mismatches: 16, Indels: 24
0.68 0.13 0.19
Matches are distributed among these distances:
17 8 0.10
18 44 0.52
19 12 0.14
20 12 0.14
21 5 0.06
22 3 0.04
ACGTcount: A:0.54, C:0.05, G:0.01, T:0.41
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:37443514 original size:47 final size:46
Alignment explanation
Indices: 37443462--37443612 Score: 121
Period size: 47 Copynumber: 3.2 Consensus size: 46
37443452 TTACAATTAT
37443462 TATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAA
1 TATTAAATATAATTTAATAAAAATATATAATTTAATAAAATT-TTAA
** * ** * * *
37443509 TATTAAATAT--TCTT-ATATGAATTTACTAAAATCATAATA-TATAA
1 TATTAAATATAAT-TTAATAAAAATATA-TAATTTAATAAAATTTTAA
*
37443553 TACTATAAAATATAATTTAATCAAAATATATAATTTAATAAAAATTTTAA
1 TA-T-T-AAATATAATTTAATAAAAATATATAATTTAAT-AAAATTTTAA
*
37443603 TATTAGATAT
1 TATTAAATAT
37443613 TCTTATATGA
Statistics
Matches: 76, Mismatches: 18, Indels: 20
0.67 0.16 0.18
Matches are distributed among these distances:
44 5 0.07
45 11 0.14
46 12 0.16
47 21 0.28
48 9 0.12
49 12 0.16
50 6 0.08
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.42
Consensus pattern (46 bp):
TATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTTTAA
Found at i:37443582 original size:94 final size:94
Alignment explanation
Indices: 37443466--37443666 Score: 368
Period size: 94 Copynumber: 2.1 Consensus size: 94
37443456 AATTATTATT
37443466 AAATATAATTTAATAAAAATATATAATTTAAT-AAAATTCTTAATATTAAATATTCTTATATGAA
1 AAATATAATTTAATAAAAATATATAATTTAATAAAAATT-TTAATATTAAATATTCTTATATGAA
37443530 TTTACTAAAATCATAATATATAATACTATA
65 TTTACTAAAATCATAATATATAATACTATA
* *
37443560 AAATATAATTTAATCAAAATATATAATTTAATAAAAATTTTAATATTAGATATTCTTATATGAAT
1 AAATATAATTTAATAAAAATATATAATTTAATAAAAATTTTAATATTAAATATTCTTATATGAAT
37443625 TTACTAAAATCATAATATATAATACTATA
66 TTACTAAAATCATAATATATAATACTATA
37443654 AAATATAATTTAA
1 AAATATAATTTAA
37443667 AATAATTATT
Statistics
Matches: 104, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
94 98 0.94
95 6 0.06
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.41
Consensus pattern (94 bp):
AAATATAATTTAATAAAAATATATAATTTAATAAAAATTTTAATATTAAATATTCTTATATGAAT
TTACTAAAATCATAATATATAATACTATA
Found at i:37443688 original size:117 final size:117
Alignment explanation
Indices: 37443560--37443790 Score: 437
Period size: 117 Copynumber: 2.0 Consensus size: 117
37443550 TAATACTATA
*
37443560 AAATATAATTTAATCAAAATATATAATTTAATAAAAATT-TTAATATTAGATATTCTTATATGAA
1 AAATATAATTTAATCAAAATATATAATTTAAT-AAAATTCTTAATATTAAATATTCTTATATGAA
37443624 TTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATT
65 TTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATT
37443677 AAATATAATTTAATCAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAAT
1 AAATATAATTTAATCAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAAT
37443742 TTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATT
66 TTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATT
37443791 TACTTTATTA
Statistics
Matches: 112, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
116 6 0.05
117 106 0.95
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (117 bp):
AAATATAATTTAATCAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAAT
TTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATT
Found at i:37443700 original size:18 final size:17
Alignment explanation
Indices: 37443679--37443713 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
37443669 TAATTATTAA
37443679 ATATAATTTAATCAAAAT
1 ATATAATTTAAT-AAAAT
37443697 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
37443714 TCTTAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:37443743 original size:56 final size:54
Alignment explanation
Indices: 37443562--37443744 Score: 174
Period size: 56 Copynumber: 3.2 Consensus size: 54
37443552 ATACTATAAA
*
37443562 ATATAATTTAATCAAAATATATAATTTAATAAAAATTTTAATATTAGATATTCTT
1 ATATAATTTAATCAAAATATATAATTTAAT-AAAATTTTAATATTAAATATTCTT
* * * *
37443617 ATATGAATTTACT-AAAATCATAATATATAATACTATAAAA-TATAAT-TTAAAATAATTATT
1 ATAT-AATTTAATCAAAAT-AT-ATA-AT-TTA--ATAAAATTTTAATATT-AAAT-ATTCTT
37443677 AAATATAATTTAATCAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTT
1 --ATATAATTTAATCAAAATATATAATTTAATAAAATT-TTAATATTAAATATTCTT
37443734 ATATGAATTTA
1 ATAT-AATTTA
37443745 CTAAAATCAT
Statistics
Matches: 103, Mismatches: 9, Indels: 31
0.72 0.06 0.22
Matches are distributed among these distances:
55 13 0.13
56 21 0.20
57 9 0.09
58 14 0.14
59 14 0.14
60 12 0.12
61 11 0.11
62 9 0.09
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (54 bp):
ATATAATTTAATCAAAATATATAATTTAATAAAATTTTAATATTAAATATTCTT
Found at i:37443765 original size:56 final size:55
Alignment explanation
Indices: 37443588--37443765 Score: 166
Period size: 56 Copynumber: 3.1 Consensus size: 55
37443578 ATATATAATT
*
37443588 TAATAAAAATTTTAATATTAGATATTCTTATATGAATTTACTAAAATCATAATATA
1 TAAT-AAAATTTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATA
* * * * *
37443644 TAATACTATAAAATATAAT-TTAAAATAATTATTAAATAT-AATTTAATCAAAAT-AT-ATAATT
1 T-A-A-TA-AAATTTTAATATT-AAAT-ATTCTT--ATATGAATTTACT-AAAATCATAAT-ATA
37443705 TAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATA
1 TAATAAAATT-TTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATA
37443761 TAATA
1 TAATA
37443766 CTATAAAATA
Statistics
Matches: 96, Mismatches: 11, Indels: 30
0.70 0.08 0.22
Matches are distributed among these distances:
55 9 0.09
56 17 0.18
57 12 0.12
58 14 0.15
59 15 0.16
60 8 0.08
61 12 0.12
62 9 0.09
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (55 bp):
TAATAAAATTTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATA
Found at i:37443772 original size:61 final size:60
Alignment explanation
Indices: 37443571--37443774 Score: 213
Period size: 61 Copynumber: 3.4 Consensus size: 60
37443561 AATATAATTT
* *
37443571 AATCAAAATATATAATTTAATAAAAATTTTAATATTAGATATTCTTATATGAATTTACTAA
1 AATCAAAATATATAATCTAAT-AAAATTTTAATATTAAATATTCTTATATGAATTTACTAA
* * ** * * * **
37443632 AATCATAATATATAATACT-ATAAAA-TATAAT-TTAAA-ATAATTAT-TAAATATAATTT
1 AATCAAAATATATAAT-CTAATAAAATTTTAATATTAAATATTCTTATATGAATTTACTAA
*
37443688 AATCAAAATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAA
1 AATCAAAATATATAATCTAATAAAATT-TTAATATTAAATATTCTTATATGAATTTACTAA
*
37443749 AATCATAATATATAATACT-ATAAAAT
1 AATCAAAATATATAAT-CTAATAAAAT
37443775 ATAATTTAAA
Statistics
Matches: 112, Mismatches: 23, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
55 1 0.01
56 28 0.25
57 7 0.06
58 8 0.07
59 10 0.09
60 10 0.09
61 46 0.41
62 2 0.02
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.41
Consensus pattern (60 bp):
AATCAAAATATATAATCTAATAAAATTTTAATATTAAATATTCTTATATGAATTTACTAA
Found at i:37444726 original size:39 final size:37
Alignment explanation
Indices: 37444670--37444799 Score: 163
Period size: 39 Copynumber: 3.4 Consensus size: 37
37444660 AATAAATATA
37444670 TTTATTTTTTTAATTTTAAAATATTTTTTACATACTTT
1 TTTATTTTTTTAATTTTAAAATATTTTTTA-ATACTTT
*
37444708 TTTATTTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTT
1 TTTATTTTTTT-AATTTTAAAATATTTTT-TAATAC---TTT
*
37444750 TTTATTTTTTTAATTTTAAAATATTTTTTTAA-ATTTT
1 TTTATTTTTTTAATTTTAAAATA-TTTTTTAATACTTT
*
37444787 TTTAATTTTTTAA
1 TTTATTTTTTTAA
37444800 AATAAAAATG
Statistics
Matches: 82, Mismatches: 4, Indels: 13
0.83 0.04 0.13
Matches are distributed among these distances:
37 15 0.18
38 11 0.13
39 21 0.26
40 2 0.02
41 14 0.17
42 19 0.23
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (37 bp):
TTTATTTTTTTAATTTTAAAATATTTTTTAATACTTT
Found at i:37444759 original size:9 final size:9
Alignment explanation
Indices: 37444745--37444797 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
37444735 TTAAAATACT
*
37444745 TTTTTTTTA
1 TTTTTTTAA
37444754 TTTTTTTAA
1 TTTTTTTAA
***
37444763 TTTTAAAATA
1 TTTTTTTA-A
37444773 TTTTTTTAAA
1 TTTTTTT-AA
37444783 TTTTTTTAA
1 TTTTTTTAA
37444792 TTTTTT
1 TTTTTT
37444798 AAAATAAAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
9 21 0.60
10 13 0.37
11 1 0.03
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:37444794 original size:19 final size:19
Alignment explanation
Indices: 37444745--37444802 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 19
37444735 TTAAAATACT
*
37444745 TTTTTTTTATTTTTTT-AA
1 TTTTTTTAATTTTTTTAAA
***
37444763 TTTTAAAATATTTTTTTAAA
1 TTTTTTTA-ATTTTTTTAAA
*
37444783 TTTTTTTAATTTTTTAAAA
1 TTTTTTTAATTTTTTTAAA
37444802 T
1 T
37444803 AAAAATGGGC
Statistics
Matches: 30, Mismatches: 8, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
18 4 0.13
19 19 0.63
20 7 0.23
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTTTTTAATTTTTTTAAA
Found at i:37446518 original size:13 final size:13
Alignment explanation
Indices: 37446500--37446525 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
37446490 TCCAGATTTG
37446500 AGCAAAAGCAAAA
1 AGCAAAAGCAAAA
37446513 AGCAAAAGCAAAA
1 AGCAAAAGCAAAA
37446526 CAAAATCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.15, G:0.15, T:0.00
Consensus pattern (13 bp):
AGCAAAAGCAAAA
Found at i:37452118 original size:89 final size:89
Alignment explanation
Indices: 37452018--37452196 Score: 358
Period size: 89 Copynumber: 2.0 Consensus size: 89
37452008 TAAAATAAAA
37452018 ATTAAAAGTGATACGATATGATAAAATGAATAAAGAAGACAATTATGTGAAAAAAAATCAAAGCA
1 ATTAAAAGTGATACGATATGATAAAATGAATAAAGAAGACAATTATGTGAAAAAAAATCAAAGCA
37452083 AATAAAATTATAAGTACCTCAATT
66 AATAAAATTATAAGTACCTCAATT
37452107 ATTAAAAGTGATACGATATGATAAAATGAATAAAGAAGACAATTATGTGAAAAAAAATCAAAGCA
1 ATTAAAAGTGATACGATATGATAAAATGAATAAAGAAGACAATTATGTGAAAAAAAATCAAAGCA
37452172 AATAAAATTATAAGTACCTCAATT
66 AATAAAATTATAAGTACCTCAATT
37452196 A
1 A
37452197 AAATTTTGTT
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 90 1.00
ACGTcount: A:0.55, C:0.08, G:0.12, T:0.25
Consensus pattern (89 bp):
ATTAAAAGTGATACGATATGATAAAATGAATAAAGAAGACAATTATGTGAAAAAAAATCAAAGCA
AATAAAATTATAAGTACCTCAATT
Found at i:37453497 original size:29 final size:30
Alignment explanation
Indices: 37453434--37453498 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
37453424 TTACAATACA
* * *
37453434 ATAACGTAAGTGACTAAAATGTAACATTTC
1 ATAACATAAGTGACTAAAATATAACATATC
*
37453464 A-AACATAAGTGAGTAAAATATAACATAT-
1 ATAACATAAGTGACTAAAATATAACATATC
37453492 ATAACAT
1 ATAACAT
37453499 GAGATAAACA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 1 0.03
29 28 0.93
30 1 0.03
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.28
Consensus pattern (30 bp):
ATAACATAAGTGACTAAAATATAACATATC
Found at i:37458994 original size:122 final size:122
Alignment explanation
Indices: 37458777--37459022 Score: 483
Period size: 122 Copynumber: 2.0 Consensus size: 122
37458767 TATGGCCGCT
*
37458777 AATAATGTCATATACCTGATTCACTAATCTAGGGTTTAGGGTTTAAGGTGTTGATTTCTGGAAAA
1 AATAATGTCATATACCTGATTCACTAATCTAGGGTTTAGGGTTTAAGGGGTTGATTTCTGGAAAA
37458842 TGTGAAATTTTGTTATGAGAAATTGTGCCAATAATTTTTGTTATTATTTTTTGCTGC
66 TGTGAAATTTTGTTATGAGAAATTGTGCCAATAATTTTTGTTATTATTTTTTGCTGC
37458899 AATAATGTCATATACCTGATTCACTAATCTAGGGTTTAGGGTTTAAGGGGTTGATTTCTGGAAAA
1 AATAATGTCATATACCTGATTCACTAATCTAGGGTTTAGGGTTTAAGGGGTTGATTTCTGGAAAA
37458964 TGTGAAATTTTGTTATGAGAAATTGTGCCAATAATTTTTGTTATTATTTTTTGCTGC
66 TGTGAAATTTTGTTATGAGAAATTGTGCCAATAATTTTTGTTATTATTTTTTGCTGC
37459021 AA
1 AA
37459023 ATTTTCCTTA
Statistics
Matches: 123, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
122 123 1.00
ACGTcount: A:0.28, C:0.09, G:0.20, T:0.43
Consensus pattern (122 bp):
AATAATGTCATATACCTGATTCACTAATCTAGGGTTTAGGGTTTAAGGGGTTGATTTCTGGAAAA
TGTGAAATTTTGTTATGAGAAATTGTGCCAATAATTTTTGTTATTATTTTTTGCTGC
Found at i:37462219 original size:19 final size:18
Alignment explanation
Indices: 37462184--37462235 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 18
37462174 TAAATTATTA
37462184 TTTAATAATTACAATAT-TT
1 TTTAA-AATTA-AATATGTT
37462203 GTTTAAAATTAATATATGTT
1 -TTTAAAATTAA-ATATGTT
*
37462223 TTTAATATTAAAT
1 TTTAAAATTAAAT
37462236 GAAGAGTAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
18 3 0.10
19 19 0.66
20 7 0.24
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (18 bp):
TTTAAAATTAAATATGTT
Found at i:37466705 original size:21 final size:21
Alignment explanation
Indices: 37466676--37466717 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
37466666 ATCGAGGTAA
* *
37466676 CCAACTTAAACTATTACCTTC
1 CCAAATTAAAATATTACCTTC
*
37466697 CCAAATTAAAATATTGCCTTC
1 CCAAATTAAAATATTACCTTC
37466718 AATTTTACAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.29, G:0.02, T:0.33
Consensus pattern (21 bp):
CCAAATTAAAATATTACCTTC
Found at i:37469961 original size:19 final size:19
Alignment explanation
Indices: 37469932--37469992 Score: 56
Period size: 20 Copynumber: 3.3 Consensus size: 19
37469922 AAAAAAAAAC
* *
37469932 ATTTTAATTTTCCTATTATT
1 ATTTTATTTTTACTATT-TT
37469952 A-TTTATTTTTTACTATTTT
1 ATTTTA-TTTTTACTATTTT
*
37469971 ATTTTATTTTCA-T-TTTT
1 ATTTTATTTTTACTATTTT
37469988 ATTTT
1 ATTTT
37469993 TGCAGGAAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
17 9 0.25
18 1 0.03
19 12 0.33
20 14 0.39
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (19 bp):
ATTTTATTTTTACTATTTT
Found at i:37469962 original size:20 final size:20
Alignment explanation
Indices: 37469939--37469980 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
37469929 AACATTTTAA
*
37469939 TTTTCCTATTATTA-TTTATT
1 TTTTACTATT-TTATTTTATT
37469959 TTTTACTATTTTATTTTATT
1 TTTTACTATTTTATTTTATT
37469979 TT
1 TT
37469981 CATTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTACTATTTTATTTTATT
Found at i:37483975 original size:25 final size:26
Alignment explanation
Indices: 37483947--37484005 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
37483937 TTTTTTTATT
*
37483947 AAAATAATATAA-AAAATTAATTACG
1 AAAATAATATAACAAAATTAATTACA
* * *
37483972 AAAATGATATAACTAAATTAATTATA
1 AAAATAATATAACAAAATTAATTACA
37483998 AAAATAAT
1 AAAATAAT
37484006 CGTTTTCTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 11 0.39
26 17 0.61
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (26 bp):
AAAATAATATAACAAAATTAATTACA
Found at i:37485471 original size:29 final size:29
Alignment explanation
Indices: 37485421--37485477 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
37485411 AGCCCCGTGA
* *
37485421 CAAGTGGTATCCGAGCTGTTGGTTCGAAC
1 CAAGTGATATCCGAGCTATTGGTTCGAAC
* *
37485450 CAAGTGATATCTGAGTTATTGGTTCGAA
1 CAAGTGATATCCGAGCTATTGGTTCGAA
37485478 GGCACCGCTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.32
Consensus pattern (29 bp):
CAAGTGATATCCGAGCTATTGGTTCGAAC
Found at i:37495156 original size:26 final size:27
Alignment explanation
Indices: 37495127--37495180 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
37495117 TTTTTAATTA
*
37495127 AATTTGACTATCAACCTTTCA-AAAAG
1 AATTTGACCATCAACCTTTCAGAAAAG
* *
37495153 AATTTGACCATCAATCTTTTAGAAAAG
1 AATTTGACCATCAACCTTTCAGAAAAG
37495180 A
1 A
37495181 GTCAAAATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 18 0.75
27 6 0.25
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.31
Consensus pattern (27 bp):
AATTTGACCATCAACCTTTCAGAAAAG
Found at i:37503011 original size:45 final size:46
Alignment explanation
Indices: 37502938--37503029 Score: 168
Period size: 45 Copynumber: 2.0 Consensus size: 46
37502928 ATACAAAAGC
*
37502938 ATTTAATATGCAATTGAAAAAATGATCTATATTAGTGGCAGTTTAG
1 ATTTAATATGCAATGGAAAAAATGATCTATATTAGTGGCAGTTTAG
37502984 ATTTAATAT-CAATGGAAAAAATGATCTATATTAGTGGCAGTTTAG
1 ATTTAATATGCAATGGAAAAAATGATCTATATTAGTGGCAGTTTAG
37503029 A
1 A
37503030 AGAAGGATTC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
45 36 0.80
46 9 0.20
ACGTcount: A:0.40, C:0.07, G:0.17, T:0.36
Consensus pattern (46 bp):
ATTTAATATGCAATGGAAAAAATGATCTATATTAGTGGCAGTTTAG
Found at i:37510858 original size:21 final size:20
Alignment explanation
Indices: 37510820--37510859 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
37510810 GAAAGTAGTC
*
37510820 AAAAAAAGAACAGGTGAGAG
1 AAAAAAAGAACAAGTGAGAG
*
37510840 AAAAAAAGAATCAATTGAGA
1 AAAAAAAGAA-CAAGTGAGA
37510860 ATGGGGGAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.62, C:0.05, G:0.23, T:0.10
Consensus pattern (20 bp):
AAAAAAAGAACAAGTGAGAG
Found at i:37512118 original size:19 final size:19
Alignment explanation
Indices: 37512076--37512121 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
37512066 TAGAACTTTT
*
37512076 TTTTGAAATTTTTATAAATA
1 TTTTGAAA-TTTTAAAAATA
37512096 TTTTGAAA-TTTAAAAATTA
1 TTTTGAAATTTTAAAAA-TA
37512115 TTTTGAA
1 TTTTGAA
37512122 TTATTTTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 7 0.29
19 9 0.38
20 8 0.33
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (19 bp):
TTTTGAAATTTTAAAAATA
Found at i:37523211 original size:16 final size:16
Alignment explanation
Indices: 37523190--37523223 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
37523180 TACAATCAAG
37523190 ATCATTTAATCTTA-CA
1 ATCATTTAA-CTTATCA
37523206 ATCATTTAACTTATCA
1 ATCATTTAACTTATCA
37523222 AT
1 AT
37523224 TCATGTCACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.38, C:0.18, G:0.00, T:0.44
Consensus pattern (16 bp):
ATCATTTAACTTATCA
Found at i:37526383 original size:25 final size:25
Alignment explanation
Indices: 37526355--37526419 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
37526345 GATATTTGGT
*
37526355 TCTCACGAGCTTCCCAATTAATGGC
1 TCTCACGAACTTCCCAATTAATGGC
** *
37526380 TCTCTTGAACTTCCCAATTTATGGC
1 TCTCACGAACTTCCCAATTAATGGC
*
37526405 TCAT-ATGAACTTCCC
1 TC-TCACGAACTTCCC
37526420 GATATACAGC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
25 33 0.97
26 1 0.03
ACGTcount: A:0.23, C:0.31, G:0.12, T:0.34
Consensus pattern (25 bp):
TCTCACGAACTTCCCAATTAATGGC
Found at i:37526431 original size:25 final size:25
Alignment explanation
Indices: 37526385--37526475 Score: 76
Period size: 25 Copynumber: 3.6 Consensus size: 25
37526375 ATGGCTCTCT
* * **
37526385 TGAACTTCCCAATTTATGGCTCATA
1 TGAACTTCCCGATATACAGCTCATA
37526410 TGAACTTCCCGATATACAGCTCGAT-
1 TGAACTTCCCGATATACAGCTC-ATA
* * * *
37526435 TGAGCTTCCCGTTATACAACTCACA
1 TGAACTTCCCGATATACAGCTCATA
* *
37526460 TGAGCTTCCCGTTATA
1 TGAACTTCCCGATATA
37526476 TGGCTCAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
24 1 0.02
25 53 0.95
26 2 0.04
ACGTcount: A:0.26, C:0.27, G:0.14, T:0.32
Consensus pattern (25 bp):
TGAACTTCCCGATATACAGCTCATA
Found at i:37526468 original size:50 final size:49
Alignment explanation
Indices: 37526404--37526501 Score: 115
Period size: 50 Copynumber: 2.0 Consensus size: 49
37526394 CAATTTATGG
* * **
37526404 CTCATATGAACTTCCCGATATACAGCTCGATTGAGCTTCCCGTTATACAA
1 CTCACATGAACTTCCCGATATACAGCTCAAAAGAGCTTCCCGTT-TACAA
* * **
37526454 CTCACATGAGCTTCCCGTTATATGGCTCAAAAGAGCTTCCCGTTTACA
1 CTCACATGAACTTCCCGATATACAGCTCAAAAGAGCTTCCCGTTTACA
37526502 TGCTCGTATG
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
49 4 0.10
50 36 0.90
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.30
Consensus pattern (49 bp):
CTCACATGAACTTCCCGATATACAGCTCAAAAGAGCTTCCCGTTTACAA
Found at i:37526482 original size:25 final size:24
Alignment explanation
Indices: 37526403--37526506 Score: 93
Period size: 25 Copynumber: 4.2 Consensus size: 24
37526393 CCAATTTATG
* *
37526403 GCTCATATGAACTTCCCGATATACA
1 GCTCA-ATGAGCTTCCCGTTATACA
*
37526428 GCTCGATTGAGCTTCCCGTTATACA
1 GCTC-AATGAGCTTCCCGTTATACA
* **
37526453 ACTCACATGAGCTTCCCGTTATATG
1 GCTCA-ATGAGCTTCCCGTTATACA
*
37526478 GCTCAAAAGAGCTTCCCGTT-TACA
1 GCTC-AATGAGCTTCCCGTTATACA
37526502 TGCTC
1 -GCTC
37526507 GTATGAGCAT
Statistics
Matches: 64, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
24 3 0.05
25 59 0.92
26 2 0.03
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (24 bp):
GCTCAATGAGCTTCCCGTTATACA
Found at i:37526514 original size:25 final size:24
Alignment explanation
Indices: 37526403--37526519 Score: 92
Period size: 25 Copynumber: 4.7 Consensus size: 24
37526393 CCAATTTATG
* *
37526403 GCTCATATGAACTTCCCGATATACA
1 GCTCATATGAGCTTCCCG-TTTACA
37526428 GCTCGAT-TGAGCTTCCCGTTATACA
1 GCTC-ATATGAGCTTCCCGTT-TACA
* * **
37526453 ACTCACATGAGCTTCCCGTTATATG
1 GCTCATATGAGCTTCCCGTT-TACA
* *
37526478 GCTCAAAAGAGCTTCCCGTTTACA
1 GCTCATATGAGCTTCCCGTTTACA
*
37526502 TGCTCGTATGAGCATTCC
1 -GCTCATATGAGC-TTCC
37526520 TAAATAGGAA
Statistics
Matches: 73, Mismatches: 14, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
24 4 0.05
25 63 0.86
26 6 0.08
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (24 bp):
GCTCATATGAGCTTCCCGTTTACA
Found at i:37529394 original size:18 final size:18
Alignment explanation
Indices: 37529373--37529408 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
37529363 TAAAAATTTG
*
37529373 TTTTCATTTAATTGAATT
1 TTTTAATTTAATTGAATT
*
37529391 TTTTAATTTAATTTAATT
1 TTTTAATTTAATTGAATT
37529409 AAAATATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (18 bp):
TTTTAATTTAATTGAATT
Found at i:37536212 original size:24 final size:25
Alignment explanation
Indices: 37536185--37536233 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
37536175 GATATTTGTG
37536185 AATAAAATATTATTA-TATGATTAT
1 AATAAAATATTATTATTATGATTAT
* *
37536209 AATAATATATTATTATTATTATTAT
1 AATAAAATATTATTATTATGATTAT
37536234 TAACTAATGC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (25 bp):
AATAAAATATTATTATTATGATTAT
Found at i:37537256 original size:21 final size:20
Alignment explanation
Indices: 37537227--37537290 Score: 58
Period size: 21 Copynumber: 3.1 Consensus size: 20
37537217 GGCTTTGCCG
37537227 ATCAGGCACTTTATGTGTCGT
1 ATCAGGCAC-TTATGTGTCGT
* **
37537248 ATCAAGCACCTCGTGTGTCGT
1 ATCAGGCA-CTTATGTGTCGT
*
37537269 -TACAGGCACTTAAGTGTCGT
1 AT-CAGGCACTTATGTGTCGT
37537289 AT
1 AT
37537291 GCTGATCAGG
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
20 10 0.30
21 22 0.67
22 1 0.03
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.33
Consensus pattern (20 bp):
ATCAGGCACTTATGTGTCGT
Found at i:37544849 original size:34 final size:35
Alignment explanation
Indices: 37544765--37544856 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 35
37544755 AGAGTTTTTT
* *
37544765 TAAAATTAATTAAATTAGGGTTTATGGGTTTTAAA
1 TAAAATAAATTAAATTAGGGTTTATGGATTTTAAA
*
37544800 TAAAAAAAATTAAATTAGGGTTTATGGATTTTAAA
1 TAAAATAAATTAAATTAGGGTTTATGGATTTTAAA
37544835 T-AAATAAATTAAATTAGGGTTT
1 TAAAATAAATTAAATTAGGGTTT
37544857 TTAAAAAAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
34 20 0.38
35 33 0.62
ACGTcount: A:0.45, C:0.00, G:0.15, T:0.40
Consensus pattern (35 bp):
TAAAATAAATTAAATTAGGGTTTATGGATTTTAAA
Found at i:37545176 original size:126 final size:126
Alignment explanation
Indices: 37544951--37545218 Score: 344
Period size: 126 Copynumber: 2.1 Consensus size: 126
37544941 AGAAGGATTT
* * * *
37544951 TTTTTCTACAGTAGTTTTAGAAAAATTAATTTTGAGAAGACAATTCTGAAAAGATAATGTTAAAA
1 TTTTTCTACAGTAGTTCTAGAAAAATTAATTTTGAGAAGACAATTCTAAAAAAATAATGTCAAAA
* * * *
37545016 ACGCTTCAAATAGGATGCATAATCAGCAAAATTACTGAAAAAAGCTCCCACGTGGCCGCTC
66 ACACTTCAAACAAGATGCATAATCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
** *
37545077 TTTTTCTACAGTAGTTCCT-GTAAAAA-TAATTTTGAGAAGACGGTTCTAAAAAAATAGTGTCAA
1 TTTTTCTACAGTAGTT-CTAG-AAAAATTAATTTTGAGAAGACAATTCTAAAAAAATAATGTCAA
* * * * *
37545140 AAACATTTCAAGCAAGATGCACT-GTTAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGCTC
64 AAACACTTCAAACAAGATGCA-TAATCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
37545203 TTTTTCTACAGTAGTT
1 TTTTTCTACAGTAGTT
37545219 TTAGCTTGGC
Statistics
Matches: 123, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
126 116 0.94
127 7 0.06
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCTAGAAAAATTAATTTTGAGAAGACAATTCTAAAAAAATAATGTCAAAA
ACACTTCAAACAAGATGCATAATCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
Found at i:37546864 original size:40 final size:40
Alignment explanation
Indices: 37546820--37546924 Score: 183
Period size: 40 Copynumber: 2.6 Consensus size: 40
37546810 GTTTGGACAA
* *
37546820 AAAACGCCGCTAAAAATTGAGCATTAGCGGCGCTTCTCAT
1 AAAACGCCGCTAAAAATCGAGCATTAGCAGCGCTTCTCAT
37546860 AAAACGCCGCTAAAAATCGAGCATTAGCAGCGCTTCTCAT
1 AAAACGCCGCTAAAAATCGAGCATTAGCAGCGCTTCTCAT
*
37546900 AAAACGCCGCTAAAGATCGAGCATT
1 AAAACGCCGCTAAAAATCGAGCATT
37546925 CACTAAAAAT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 62 1.00
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (40 bp):
AAAACGCCGCTAAAAATCGAGCATTAGCAGCGCTTCTCAT
Found at i:37547069 original size:41 final size:40
Alignment explanation
Indices: 37547011--37547203 Score: 269
Period size: 41 Copynumber: 4.7 Consensus size: 40
37547001 CCTTTTAGGC
37547011 CTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCAGG
1 CTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCAGG
*
37547051 CTTTTAGCGGCATTTTTAAAAAAGCGCCGCTAATGCTCAGAG
1 C-TTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCAG-G
* *
37547093 CTTTAGCGGCATTTTCAAAAAAGCGCCGCTAATGCTCAGAG
1 CTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCAG-G
* ** * * *
37547134 CTTTAGTGGCGTTTTCCAAGAAGCGCCGCTAATGTTCGGGG
1 CTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTC-AGG
37547175 CTTTAGCGGCGTTTTTAAAAAAGCGCCGC
1 CTTTAGCGGCGTTTTTAAAAAAGCGCCGC
37547204 AAAAACATTT
Statistics
Matches: 138, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
40 1 0.01
41 134 0.97
42 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (40 bp):
CTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCAGG
Done.