Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 107 of 187
Found at i:31373846 original size:8 final size:8
Alignment explanation
Indices: 31373833--31373871 Score: 51
Period size: 8 Copynumber: 4.5 Consensus size: 8
31373823 ATATATACTA
31373833 AATAAAAT
1 AATAAAAT
31373841 AATAAAATAAT
1 AAT--AA-AAT
31373852 AATAAAAT
1 AATAAAAT
31373860 AATAAAAT
1 AATAAAAT
31373868 AATA
1 AATA
31373872 TTTAAAAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
8 18 0.64
9 2 0.07
10 2 0.07
11 6 0.21
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
AATAAAAT
Found at i:31373857 original size:19 final size:19
Alignment explanation
Indices: 31373833--31373871 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
31373823 ATATATACTA
31373833 AATAAAATAATAAAATAAT
1 AATAAAATAATAAAATAAT
31373852 AATAAAATAATAAAATAAT
1 AATAAAATAATAAAATAAT
31373871 A
1 A
31373872 TTTAAAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (19 bp):
AATAAAATAATAAAATAAT
Found at i:31373871 original size:11 final size:11
Alignment explanation
Indices: 31373838--31373864 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
31373828 TACTAAATAA
31373838 AATAATAAAAT
1 AATAATAAAAT
31373849 AATAATAAAAT
1 AATAATAAAAT
31373860 AATAA
1 AATAA
31373865 AATAATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (11 bp):
AATAATAAAAT
Found at i:31375271 original size:40 final size:40
Alignment explanation
Indices: 31375222--31375361 Score: 137
Period size: 40 Copynumber: 3.5 Consensus size: 40
31375212 AACACACCAG
* *
31375222 TTTGGCACCCAGTGCCTCATCAGATAATTCGAAATAAAAA
1 TTTGACACCCAGTGCCTCATCAGATAATTCGAAGTAAAAA
* * * **
31375262 TTTGACACCCAGTGTCTCATCGGCTAAACCGAAGT--AAA
1 TTTGACACCCAGTGCCTCATCAGATAATTCGAAGTAAAAA
*
31375300 TTAG-CACCCAGTGCCTCATC-GAATATATTCGAAGTAATAAA
1 TTTGACACCCAGTGCCTCATCAG-ATA-ATTCGAAGTAA-AAA
*
31375341 -TTGACACCCAGTGTCTCATCA
1 TTTGACACCCAGTGCCTCATCA
31375362 ACTCGAAGTC
Statistics
Matches: 79, Mismatches: 14, Indels: 12
0.75 0.13 0.11
Matches are distributed among these distances:
36 1 0.01
37 17 0.22
38 13 0.16
40 30 0.38
41 18 0.23
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.26
Consensus pattern (40 bp):
TTTGACACCCAGTGCCTCATCAGATAATTCGAAGTAAAAA
Found at i:31376317 original size:25 final size:22
Alignment explanation
Indices: 31376261--31376313 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
31376251 TTTTCTTTTC
31376261 TTTATT-TCATTTACTTTTTTAT
1 TTTATTAT-ATTTACTTTTTTAT
31376283 TTTATTATATTTACTTTTTTA-
1 TTTATTATATTTACTTTTTTAT
31376304 -TTATTATATT
1 TTTATTATATT
31376314 ATATATATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 10 0.33
22 19 0.63
23 1 0.03
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.72
Consensus pattern (22 bp):
TTTATTATATTTACTTTTTTAT
Found at i:31376334 original size:29 final size:28
Alignment explanation
Indices: 31376279--31376335 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
31376269 ATTTACTTTT
* ***
31376279 TTATTTTATTATATTTACTTTTTTATTA
1 TTATATTATTATATTTACTTAAATATTA
31376307 TTATATTATATATATTTACTTAAATATTA
1 TTATATTAT-TATATTTACTTAAATATTA
31376336 AGTAATACAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (28 bp):
TTATATTATTATATTTACTTAAATATTA
Found at i:31377935 original size:31 final size:34
Alignment explanation
Indices: 31377879--31377942 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 34
31377869 ACAAAAAAGA
**
31377879 CAAAATGATTTGAACTCTAAATTGACCT-AAATC
1 CAAAATGATCCGAACTCTAAATTGACCTGAAATC
31377912 CAAAATGATCCGAAC-C-AAATTGACCTGAAAT
1 CAAAATGATCCGAACTCTAAATTGACCTGAAAT
31377943 TTTTAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 10 0.36
32 5 0.18
33 13 0.46
ACGTcount: A:0.44, C:0.20, G:0.11, T:0.25
Consensus pattern (34 bp):
CAAAATGATCCGAACTCTAAATTGACCTGAAATC
Found at i:31382813 original size:32 final size:33
Alignment explanation
Indices: 31382776--31382842 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 33
31382766 CTTTAGGGAT
* *
31382776 TTAAGTTTTTGTTACATG-ATTTTAGGAATAAG
1 TTAAGTGTTTGTGACATGTATTTTAGGAATAAG
* * *
31382808 TTAAGTGTTTGTGGCATGTTTTTTAGGAGTAAG
1 TTAAGTGTTTGTGACATGTATTTTAGGAATAAG
31382841 TT
1 TT
31382843 TTGCAGGTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.25, C:0.03, G:0.24, T:0.48
Consensus pattern (33 bp):
TTAAGTGTTTGTGACATGTATTTTAGGAATAAG
Found at i:31383068 original size:412 final size:412
Alignment explanation
Indices: 31382273--31383505 Score: 2316
Period size: 412 Copynumber: 3.0 Consensus size: 412
31382263 GATAACAAAT
* *
31382273 CCTATTAAGACAACCAGTGTTTTTAATAT--A-GATGTTGAGGATGTGCCTTAGACTTGCTTAAT
1 CCTATTAAGACAGCCAGTGTTTTTAATATAAATGTTGTTGAGGATGTGCCTTAGACTTGCTTAAT
*
31382335 AATATGTCTGTAGACCAGGTCTTTAGGGATTTAAGTTTTTGTTACATGATTTTAGGAATAAGTTA
66 AACATGTCTGTAGACCAGGTCTTTAGGGATTTAAGTTTTTGTTACATGATTTTAGGAATAAGTTA
*
31382400 AGTGTTTGTGACATGTTTTTTTAGGAGTAAGTTTTGCAGGTTTTTGTTA--TTTTTTTTGCTATA
131 AGTGTTTGTGGCATG-TTTTTTAGGAGTAAGTTTTGCAGGTTTTTGTTATTTTTTTTTTGCTATA
* * *
31382463 TAATATGAACAATACAACAGATTATAGTGTTCTTTCAATATATCTTTCTTTAATATTTTTTGTGT
195 TAATATGAACAATTCAACAAATTATAGTGTTATTTCAATATATCTTTCTTTAATATTTTTTGTGT
31382528 TTTATATTGTTGCTAAAATACCAACAATTGGTATTAGAGGTTTTCTCTTAAGGGATCTATGAGTT
260 TTTATATTGTTGCTAAAATACCAACAATTGGTATTAGAGGTTTTCTCTTAAGGGATCTATGAGTT
31382593 GAGAGAAACAAATAAGCTTTAGACATGGAAGTTGACACAACGTTTTCTCATATTGTTCCATCAAT
325 GAGAGAAACAAATAAGCTTTAGACATGGAAGTTGACACAACGTTTTCTCATATTGTTCCATCAAT
31382658 TTTTGATGGTGGTAACTATCAAG
390 TTTTGATGGTGGTAACTATCAAG
31382681 CCTATTAAGACAGCCAGTGTTTTTAATATAAATGTTGTTGAGGATGTGCCTTAGACTTGCTTAAT
1 CCTATTAAGACAGCCAGTGTTTTTAATATAAATGTTGTTGAGGATGTGCCTTAGACTTGCTTAAT
31382746 AACATGTCTGTAGACCAGGTCTTTAGGGATTTAAGTTTTTGTTACATGATTTTAGGAATAAGTTA
66 AACATGTCTGTAGACCAGGTCTTTAGGGATTTAAGTTTTTGTTACATGATTTTAGGAATAAGTTA
31382811 AGTGTTTGTGGCATGTTTTTTAGGAGTAAGTTTTGCAGGTTTTTGTTATTTTTTTTTTGCTATAT
131 AGTGTTTGTGGCATGTTTTTTAGGAGTAAGTTTTGCAGGTTTTTGTTATTTTTTTTTTGCTATAT
31382876 AATATGAACAATTCAACAAATTATAGTGTTATTTCAATATATCTTTCTTTAATATTTTTTGTGTT
196 AATATGAACAATTCAACAAATTATAGTGTTATTTCAATATATCTTTCTTTAATATTTTTTGTGTT
31382941 TTATATTGTTGCTAAAATACCAACAATTGGTATTAGAGGTTTTCTCTTAAGGGATCTATGAGTTG
261 TTATATTGTTGCTAAAATACCAACAATTGGTATTAGAGGTTTTCTCTTAAGGGATCTATGAGTTG
31383006 AGAGAAACAAATAAGCTTTAGACATGGAAGTTGACACAACGTTTTCTCATATTGTTCCATCAATT
326 AGAGAAACAAATAAGCTTTAGACATGGAAGTTGACACAACGTTTTCTCATATTGTTCCATCAATT
31383071 TTTGATGGTGGTAACTATCAAG
391 TTTGATGGTGGTAACTATCAAG
31383093 CCTATTAAGACAGCCAGTGTTTTTAATATAAATGTTGTTGAGGATGTGCCTTAGACTTGCTTAAT
1 CCTATTAAGACAGCCAGTGTTTTTAATATAAATGTTGTTGAGGATGTGCCTTAGACTTGCTTAAT
31383158 AACATGTCTGTAGACCAGGTCTTTAGGGATTTAAGTTTTTGTTACATGATTTTAGGAATAAGTTA
66 AACATGTCTGTAGACCAGGTCTTTAGGGATTTAAGTTTTTGTTACATGATTTTAGGAATAAGTTA
31383223 AGTGTTTGTGGCATGTTTTTTAGGAGTAAGTTTTGCAGGTTTTTGTTATTTTTTTTTTGCTATAT
131 AGTGTTTGTGGCATGTTTTTTAGGAGTAAGTTTTGCAGGTTTTTGTTATTTTTTTTTTGCTATAT
31383288 AATATGAACAATTCAACAAATTATAGTGTTATTTCAATATATCTTTCTTTAATATTTTTTGTGTT
196 AATATGAACAATTCAACAAATTATAGTGTTATTTCAATATATCTTTCTTTAATATTTTTTGTGTT
31383353 TTATATTGTTGCTAAAATACCAACAATTGGTATTAGAGGTTTTCTCTTAAGGGATCTATGAGTTG
261 TTATATTGTTGCTAAAATACCAACAATTGGTATTAGAGGTTTTCTCTTAAGGGATCTATGAGTTG
* *
31383418 AGAGAAACACATAAGCTTTAGACATGGAAGTTGACATAACGTTTTCTCATATTGTTCCA-CTAAT
326 AGAGAAACAAATAAGCTTTAGACATGGAAGTTGACACAACGTTTTCTCATATTGTTCCATC-AAT
*
31383482 TTTTGATGGTGGTAACTGTCAAG
390 TTTTGATGGTGGTAACTATCAAG
31383505 C
1 C
31383506 TTGGGTTGTT
Statistics
Matches: 809, Mismatches: 10, Indels: 8
0.98 0.01 0.01
Matches are distributed among these distances:
408 28 0.03
410 34 0.04
411 110 0.14
412 637 0.79
ACGTcount: A:0.29, C:0.11, G:0.18, T:0.42
Consensus pattern (412 bp):
CCTATTAAGACAGCCAGTGTTTTTAATATAAATGTTGTTGAGGATGTGCCTTAGACTTGCTTAAT
AACATGTCTGTAGACCAGGTCTTTAGGGATTTAAGTTTTTGTTACATGATTTTAGGAATAAGTTA
AGTGTTTGTGGCATGTTTTTTAGGAGTAAGTTTTGCAGGTTTTTGTTATTTTTTTTTTGCTATAT
AATATGAACAATTCAACAAATTATAGTGTTATTTCAATATATCTTTCTTTAATATTTTTTGTGTT
TTATATTGTTGCTAAAATACCAACAATTGGTATTAGAGGTTTTCTCTTAAGGGATCTATGAGTTG
AGAGAAACAAATAAGCTTTAGACATGGAAGTTGACACAACGTTTTCTCATATTGTTCCATCAATT
TTTGATGGTGGTAACTATCAAG
Found at i:31383225 original size:32 final size:33
Alignment explanation
Indices: 31383188--31383254 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 33
31383178 CTTTAGGGAT
* *
31383188 TTAAGTTTTTGTTACATG-ATTTTAGGAATAAG
1 TTAAGTGTTTGTGACATGTATTTTAGGAATAAG
* * *
31383220 TTAAGTGTTTGTGGCATGTTTTTTAGGAGTAAG
1 TTAAGTGTTTGTGACATGTATTTTAGGAATAAG
31383253 TT
1 TT
31383255 TTGCAGGTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.25, C:0.03, G:0.24, T:0.48
Consensus pattern (33 bp):
TTAAGTGTTTGTGACATGTATTTTAGGAATAAG
Found at i:31388756 original size:17 final size:17
Alignment explanation
Indices: 31388734--31388778 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
31388724 CTTTGTTCTC
*
31388734 AAAAAACAAAAAGATATA
1 AAAAAACAAAAAAAT-TA
*
31388752 AAAAAAGAAAAAAATT-
1 AAAAAACAAAAAAATTA
31388768 AAAAAACAAAA
1 AAAAAACAAAA
31388779 TGCAAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 10 0.42
17 1 0.04
18 13 0.54
ACGTcount: A:0.82, C:0.04, G:0.04, T:0.09
Consensus pattern (17 bp):
AAAAAACAAAAAAATTA
Found at i:31392510 original size:27 final size:26
Alignment explanation
Indices: 31392480--31392557 Score: 68
Period size: 27 Copynumber: 2.9 Consensus size: 26
31392470 CACCAAAATG
31392480 ATCCAGTCAGAGTATGCCACAAAGACA
1 ATCCA-TCAGAGTATGCCACAAAGACA
* * * *
31392507 ATCCAATCAGAAT-TCACCACAAAGGCT
1 ATCC-ATCAGAGTAT-GCCACAAAGACA
*
31392534 ATCTATACAGAGTATGCCACAAAG
1 ATCCAT-CAGAGTATGCCACAAAG
31392558 GCTGGCAGGA
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
26 3 0.08
27 35 0.88
28 2 0.05
ACGTcount: A:0.41, C:0.26, G:0.15, T:0.18
Consensus pattern (26 bp):
ATCCATCAGAGTATGCCACAAAGACA
Found at i:31394582 original size:97 final size:96
Alignment explanation
Indices: 31394399--31394616 Score: 244
Period size: 97 Copynumber: 2.2 Consensus size: 96
31394389 AGGGTGTTAC
*
31394399 ATAAC-TCTTTTATTTATATAAATAAAATAATAAATATGTAATTATATAATAAAAATATATTTTA
1 ATAACTTC-TTTATTTATATATATAAAATAATAAATATGTAATTATATAATAAAAATATATTTTA
31394463 TATAAATCATTATGTTAAAA-ATATTTTTAATTA
65 TATAAATCATTATGTTAAAATATA-TTTT-ATTA
* * * * *
31394496 ATAACTTCTTTATTTATATATATAAATTAGTAAATATGTAATTTTATAATGAAATTATATTTTTT
1 ATAACTTCTTTATTTATATATATAAAATAATAAATATGTAATTATATAAT-AAA-AATATATTTT
** *
31394561 ATATTTATCATTGTGTT-AAATATATTTTATTA
64 ATATAAATCATTATGTTAAAATATATTTTATTA
* ** *
31394593 TTAACTAATTTGTTTGATATATAT
1 ATAACTTCTTTATTT-ATATATAT
31394617 TTTTATTTAT
Statistics
Matches: 103, Mismatches: 13, Indels: 9
0.82 0.10 0.07
Matches are distributed among these distances:
97 58 0.56
98 20 0.19
99 25 0.24
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (96 bp):
ATAACTTCTTTATTTATATATATAAAATAATAAATATGTAATTATATAATAAAAATATATTTTAT
ATAAATCATTATGTTAAAATATATTTTATTA
Found at i:31394587 original size:99 final size:97
Alignment explanation
Indices: 31394399--31394588 Score: 256
Period size: 97 Copynumber: 1.9 Consensus size: 97
31394389 AGGGTGTTAC
31394399 ATAACTCTTTTATTTATATAAATAAAATAATAAATATGTAATTATATAATAAAAATATATTTTAT
1 ATAACTCTTTTATTTATATAAATAAAATAATAAATATGTAATTATATAATAAAAATATATTTTAT
31394464 ATAAATCATTATGTTAAAAATATTTTTAATTA
66 ATAAATCATTATGTTAAAAATATTTTTAATTA
* * * * * *
31394496 ATAACT-TCTTTATTTATATATATAAATTAGTAAATATGTAATTTTATAATGAAATTATATTTTT
1 ATAACTCT-TTTATTTATATAAATAAAATAATAAATATGTAATTATATAAT-AAA-AATATATTT
** * *
31394560 TATATTTATCATTGTGTTAAATATATTTT
63 TATATAAATCATTATGTTAAAAATATTTT
31394589 ATTATTAACT
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
96 1 0.01
97 44 0.55
98 3 0.04
99 32 0.40
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.49
Consensus pattern (97 bp):
ATAACTCTTTTATTTATATAAATAAAATAATAAATATGTAATTATATAATAAAAATATATTTTAT
ATAAATCATTATGTTAAAAATATTTTTAATTA
Found at i:31394797 original size:28 final size:28
Alignment explanation
Indices: 31394766--31394820 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
31394756 AACATAATGA
31394766 TATATAA-TATATATTTT-TATTATATAAT
1 TATATAATTAT-TATTTTAT-TTATATAAT
31394794 TATATAATTATTATTTTATTTATATAA
1 TATATAATTATTATTTTATTTATATAA
31394821 ATGAAAGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
28 21 0.84
29 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (28 bp):
TATATAATTATTATTTTATTTATATAAT
Found at i:31400231 original size:16 final size:16
Alignment explanation
Indices: 31400210--31400246 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
31400200 TTTGGTTTGC
31400210 TGTATTGGATTAAAGG
1 TGTATTGGATTAAAGG
*
31400226 TGTATTGGATTAGAGG
1 TGTATTGGATTAAAGG
31400242 TGTAT
1 TGTAT
31400247 GCAAATCAAC
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:0.27, C:0.00, G:0.32, T:0.41
Consensus pattern (16 bp):
TGTATTGGATTAAAGG
Found at i:31405798 original size:22 final size:21
Alignment explanation
Indices: 31405769--31405810 Score: 75
Period size: 22 Copynumber: 2.0 Consensus size: 21
31405759 AAAGGTGTAA
31405769 GAAATGAAACAGGAAGAGGCT
1 GAAATGAAACAGGAAGAGGCT
31405790 GAAAGTGAAACAGGAAGAGGC
1 GAAA-TGAAACAGGAAGAGGC
31405811 CGATGGATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.48, C:0.10, G:0.36, T:0.07
Consensus pattern (21 bp):
GAAATGAAACAGGAAGAGGCT
Found at i:31407162 original size:11 final size:13
Alignment explanation
Indices: 31407146--31407178 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
31407136 ATTTCACAGA
31407146 AAAATTTCG-T-G
1 AAAATTTCGTTCG
31407157 AAAATTTCGTTCG
1 AAAATTTCGTTCG
31407170 AAAATTTCG
1 AAAATTTCG
31407179 ACGTTTGGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.45
12 1 0.05
13 10 0.50
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (13 bp):
AAAATTTCGTTCG
Found at i:31407960 original size:51 final size:51
Alignment explanation
Indices: 31407912--31408409 Score: 434
Period size: 51 Copynumber: 9.8 Consensus size: 51
31407902 TATTGATGAA
*
31407912 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGT
* * * * * * * * * *
31407963 CACATGTATAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT-TTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAA-ATGATGGT
* *
31408014 CACGTGTGTACTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGT
* * * * * * * * * *
31408065 CACATGTATAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT-TTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAA-ATGATGGT
* *
31408116 CACGTGTGTACTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGT
* * * * * * * * * *
31408167 CACATGTATAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT-TTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAA-ATGATGGT
* *
31408218 CACGTGTGTACTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGT
* * * * * *
31408269 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGA-AAA-GCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATG--ATGGT
* * *** *
31408320 CATGTGTGTAGTACTATATGAAGGCTACTACGTGAA-C-AGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA-TAAATGATGGT
* *
31408370 CACGTGTGTAGTACTATGTGAAGGCTACTAAGTGTATCGA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA
31408410 ATGATAAAAG
Statistics
Matches: 343, Mismatches: 91, Indels: 25
0.75 0.20 0.05
Matches are distributed among these distances:
49 2 0.01
50 43 0.13
51 294 0.86
52 4 0.01
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGT
Found at i:31408088 original size:102 final size:102
Alignment explanation
Indices: 31407912--31408355 Score: 816
Period size: 102 Copynumber: 4.4 Consensus size: 102
31407902 TATTGATGAA
*
31407912 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTATAGTAC
1 CACGTGTGTACTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTATAGTAC
31407977 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
31408014 CACGTGTGTACTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTATAGTAC
1 CACGTGTGTACTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTATAGTAC
31408079 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
31408116 CACGTGTGTACTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTATAGTAC
1 CACGTGTGTACTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTATAGTAC
31408181 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
*
31408218 CACGTGTGTACTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTACTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTATAGTAC
* *
31408283 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
66 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
* * * *
31408320 CATGTGTGTAGTACTATATGAAGGCTACTACGTGAA
1 CACGTGTGTACTACTGTGTGAAGGCTACTACGTGAA
31408356 CAGTAAAACT
Statistics
Matches: 334, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
102 334 1.00
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (102 bp):
CACGTGTGTACTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTATAGTAC
TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
Found at i:31408669 original size:37 final size:38
Alignment explanation
Indices: 31408600--31408672 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 38
31408590 ATGTGTGGAA
* **
31408600 TTGAATTGAATATTGACTTGAAAATGGCAAAGTGAATT
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
*
31408638 TTGAATTGAATAGTGA-TTGAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAA
31408673 ATTATGAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 16 0.52
38 15 0.48
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.32
Consensus pattern (38 bp):
TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
Found at i:31411715 original size:28 final size:28
Alignment explanation
Indices: 31411652--31411724 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 28
31411642 ATATGATAGC
* * *
31411652 CTGTCAAGATTATCTTATATGTGGAAGT
1 CTGTCAGGACTATCTTATATGGGGAAGT
* * *
31411680 CCGCCAGGAGTATCTTATATGGGGAAGT
1 CTGTCAGGACTATCTTATATGGGGAAGT
*
31411708 TTGTCAGGACTATCTTA
1 CTGTCAGGACTATCTTA
31411725 CGTGTATGAC
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (28 bp):
CTGTCAGGACTATCTTATATGGGGAAGT
Found at i:31414105 original size:18 final size:18
Alignment explanation
Indices: 31414092--31414136 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
31414082 ATAGAAGAAA
31414092 AAGAAGAAGGAGAAGGAG
1 AAGAAGAAGGAGAAGGAG
*
31414110 AAGGAGAAGGAGAAGGAG
1 AAGAAGAAGGAGAAGGAG
31414128 AAGAAGAAG
1 AAGAAGAAG
31414137 AAATGGACAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (18 bp):
AAGAAGAAGGAGAAGGAG
Found at i:31414138 original size:6 final size:6
Alignment explanation
Indices: 31414096--31414136 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
31414086 AAGAAAAAGA
*
31414096 AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGAAGA AGAAG
1 AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGAAG
31414137 AAATGGACAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (6 bp):
AGAAGG
Found at i:31428082 original size:13 final size:14
Alignment explanation
Indices: 31428059--31428087 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
31428049 TGACGAGGCT
31428059 CTTTCGCTTCTTTG
1 CTTTCGCTTCTTTG
31428073 CTTT-GCTTCTTTG
1 CTTTCGCTTCTTTG
31428086 CT
1 CT
31428088 GATGGTTCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.00, C:0.28, G:0.14, T:0.59
Consensus pattern (14 bp):
CTTTCGCTTCTTTG
Found at i:31431281 original size:22 final size:22
Alignment explanation
Indices: 31431253--31431295 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
31431243 ATTTTACTAG
31431253 TTTACTAGAATAAGGAAATTAA
1 TTTACTAGAATAAGGAAATTAA
31431275 TTTACTAGAATAAGGAAATTA
1 TTTACTAGAATAAGGAAATTA
31431296 TTTTCCCAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.05, G:0.14, T:0.33
Consensus pattern (22 bp):
TTTACTAGAATAAGGAAATTAA
Found at i:31437192 original size:53 final size:53
Alignment explanation
Indices: 31437129--31437234 Score: 185
Period size: 53 Copynumber: 2.0 Consensus size: 53
31437119 GGAAAAATCA
31437129 GCAAACCGAGGTGTTTCATGAATTTGACTTACCTCGGAGATATGCTCAGCAGG
1 GCAAACCGAGGTGTTTCATGAATTTGACTTACCTCGGAGATATGCTCAGCAGG
* * *
31437182 GCAAACCGAGGTGTTTCATGAATTTGACTTTCCTCGGAGTTATGCTTAGCAGG
1 GCAAACCGAGGTGTTTCATGAATTTGACTTACCTCGGAGATATGCTCAGCAGG
31437235 AAAATTCTCA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (53 bp):
GCAAACCGAGGTGTTTCATGAATTTGACTTACCTCGGAGATATGCTCAGCAGG
Found at i:31440449 original size:15 final size:16
Alignment explanation
Indices: 31440418--31440452 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
31440408 AGAAGATCCC
*
31440418 AATGCAATTGAATCTA
1 AATGCAAATGAATCTA
31440434 AATGCAAATG-ATCTA
1 AATGCAAATGAATCTA
31440449 AATG
1 AATG
31440453 AATGAATGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.29
Consensus pattern (16 bp):
AATGCAAATGAATCTA
Found at i:31448755 original size:9 final size:9
Alignment explanation
Indices: 31448741--31448767 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
31448731 CTGGAATGTA
31448741 GTGAACTGG
1 GTGAACTGG
31448750 GTGAACTGG
1 GTGAACTGG
31448759 GTGAACTGG
1 GTGAACTGG
31448768 TAAGCTTCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.44, T:0.22
Consensus pattern (9 bp):
GTGAACTGG
Found at i:31449302 original size:34 final size:34
Alignment explanation
Indices: 31449199--31449303 Score: 120
Period size: 35 Copynumber: 3.0 Consensus size: 34
31449189 GGAGCGGCAT
*
31449199 CGTGTAAAAGATATACAGGTCCTACAGGGCGACAC
1 CGTGTAAAAG-TATACAAGTCCTACAGGGCGACAC
*
31449234 CGTGTAAATAGTATACAAGTCCTACAGGGTGACAC
1 CGTGTAAA-AGTATACAAGTCCTACAGGGCGACAC
** ** * *
31449269 TTTGTAAAAGTATACATTTCCTTCGGGGCGACAC
1 CGTGTAAAAGTATACAAGTCCTACAGGGCGACAC
31449303 C
1 C
31449304 TCAAAAGGAT
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
34 21 0.36
35 36 0.61
36 2 0.03
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (34 bp):
CGTGTAAAAGTATACAAGTCCTACAGGGCGACAC
Found at i:31457091 original size:25 final size:25
Alignment explanation
Indices: 31457039--31457109 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 25
31457029 TACCGATTCT
* **
31457039 AGCTCTTATGAGCTTACCAATACTC
1 AGCTCATATGAGCTTACCGTTACTC
*
31457064 AGCTCGTATGAGCTTACCGTTA-TGC
1 AGCTCATATGAGCTTACCGTTACT-C
* *
31457089 AGCTCAAAGGAGCTTACCGTT
1 AGCTCATATGAGCTTACCGTT
31457110 TATCCCTTGT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
24 1 0.03
25 38 0.97
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (25 bp):
AGCTCATATGAGCTTACCGTTACTC
Found at i:31460385 original size:29 final size:28
Alignment explanation
Indices: 31460349--31460426 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
31460339 TCATGAGATT
31460349 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
31460379 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
31460406 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
31460427 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:31460644 original size:174 final size:174
Alignment explanation
Indices: 31460379--31460706 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
31460369 AAATTGTACA
*
31460379 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
31460444 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
31460509 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
31460553 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
31460618 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
31460683 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
31460707 ACCTTGAGTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:31472158 original size:18 final size:18
Alignment explanation
Indices: 31472132--31472170 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
31472122 TTTCTTCAAC
* *
31472132 TTCTTTTTCAAATTTCTT
1 TTCTGTTTCAAATTCCTT
*
31472150 TTCTGTTTCACATTCCTT
1 TTCTGTTTCAAATTCCTT
31472168 TTC
1 TTC
31472171 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.03, T:0.62
Consensus pattern (18 bp):
TTCTGTTTCAAATTCCTT
Found at i:31474525 original size:22 final size:23
Alignment explanation
Indices: 31474500--31474559 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
31474490 TGGACTGAAT
31474500 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
31474522 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
31474544 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
31474560 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:31474527 original size:4 final size:4
Alignment explanation
Indices: 31474509--31474542 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
31474499 TATAAAAATT
31474509 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
31474543 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:31476470 original size:18 final size:17
Alignment explanation
Indices: 31476417--31476476 Score: 57
Period size: 18 Copynumber: 3.4 Consensus size: 17
31476407 GCACTCTTTC
*
31476417 TTTTCTTTCTCCAATCTTT
1 TTTTCTTT-TTCAAT-TTT
*
31476436 TTCTCTTTTTCAATTTT
1 TTTTCTTTTTCAATTTT
**
31476453 TGTTTCTTTTTCTGTTTT
1 T-TTTCTTTTTCAATTTT
31476471 TTTTCT
1 TTTTCT
31476477 CTCGTCACTC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
17 9 0.26
18 19 0.54
19 7 0.20
ACGTcount: A:0.07, C:0.18, G:0.03, T:0.72
Consensus pattern (17 bp):
TTTTCTTTTTCAATTTT
Found at i:31477420 original size:14 final size:14
Alignment explanation
Indices: 31477401--31477435 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
31477391 CTAGCTCTCT
*
31477401 TTTTTTTTTCACAA
1 TTTTTTTTTCAAAA
31477415 TTTTTTTTTCAAAA
1 TTTTTTTTTCAAAA
31477429 TTTTTTT
1 TTTTTTT
31477436 ACAACTTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTTTTTTCAAAA
Found at i:31477495 original size:12 final size:12
Alignment explanation
Indices: 31477477--31477523 Score: 69
Period size: 12 Copynumber: 3.9 Consensus size: 12
31477467 TGGAAACTAG
31477477 TTTTTTTTCGAAA
1 TTTTTTTTCG-AA
31477490 TTTTTTTT-GAA
1 TTTTTTTTCGAA
*
31477501 TTTTTTTTCGAG
1 TTTTTTTTCGAA
31477513 TTTTTTTTCGA
1 TTTTTTTTCGA
31477524 GAAACTAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
11 10 0.31
12 14 0.44
13 8 0.25
ACGTcount: A:0.15, C:0.06, G:0.11, T:0.68
Consensus pattern (12 bp):
TTTTTTTTCGAA
Found at i:31486090 original size:37 final size:37
Alignment explanation
Indices: 31486048--31486119 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
31486038 TCCCATGTTC
*
31486048 TTTCTTACTTATATAACCTTTACCACTCTTTTTTTAG
1 TTTCTTACTTAGATAACCTTTACCACTCTTTTTTTAG
31486085 TTTCTTACTTAGATAACCTTTACCACTCTTTTTTT
1 TTTCTTACTTAGATAACCTTTACCACTCTTTTTTT
31486120 TTTGTTCTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.21, C:0.22, G:0.03, T:0.54
Consensus pattern (37 bp):
TTTCTTACTTAGATAACCTTTACCACTCTTTTTTTAG
Found at i:31486196 original size:14 final size:14
Alignment explanation
Indices: 31486158--31486196 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
31486148 ATTTTAAGAG
31486158 AAAACATACAAAGGA
1 AAAACATA-AAAGGA
*
31486173 TAAA-ATAAAAGGA
1 AAAACATAAAAGGA
31486186 AAAACATAAAA
1 AAAACATAAAA
31486197 ATTCTTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 9 0.43
14 9 0.43
15 3 0.14
ACGTcount: A:0.72, C:0.08, G:0.10, T:0.10
Consensus pattern (14 bp):
AAAACATAAAAGGA
Found at i:31487351 original size:15 final size:15
Alignment explanation
Indices: 31487288--31487356 Score: 54
Period size: 15 Copynumber: 4.7 Consensus size: 15
31487278 AATATTTTAA
*
31487288 AATAAAA-AAAACTT
1 AATAAAATAAAATTT
*
31487302 AATAACAATACAA-TT
1 AATAA-AATAAAATTT
* * *
31487317 AA-AAATTGATATTGT
1 AATAAAATAAAATT-T
31487332 AATAAAATAAAATTT
1 AATAAAATAAAATTT
31487347 AATAAAATAA
1 AATAAAATAA
31487357 TTTAAATAAT
Statistics
Matches: 42, Mismatches: 8, Indels: 9
0.71 0.14 0.15
Matches are distributed among these distances:
13 3 0.07
14 8 0.19
15 20 0.48
16 11 0.26
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.29
Consensus pattern (15 bp):
AATAAAATAAAATTT
Found at i:31488937 original size:32 final size:32
Alignment explanation
Indices: 31488901--31488962 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
31488891 AGCTTTTGGT
31488901 TTTTTCATGTAGTCAAAGAGTTGAACAATGGA
1 TTTTTCATGTAGTCAAAGAGTTGAACAATGGA
* *
31488933 TTTTTCGTGTTGTCAAAGAGTTGAACAATG
1 TTTTTCATGTAGTCAAAGAGTTGAACAATG
31488963 AAAATAGATG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.37
Consensus pattern (32 bp):
TTTTTCATGTAGTCAAAGAGTTGAACAATGGA
Found at i:31489920 original size:29 final size:28
Alignment explanation
Indices: 31489888--31489948 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 28
31489878 TTGGGTTTTT
*
31489888 TGGCCCA-TTCAGATAAATAATGTTTTAAA
1 TGGCCCATTTC-G-TAAATAATGTTGTAAA
*
31489917 TGGCCTATTTTCGTAAATAATGTTGTAAA
1 TGGCCCA-TTTCGTAAATAATGTTGTAAA
31489946 TGG
1 TGG
31489949 GCTTTTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 24 0.86
30 1 0.04
31 3 0.11
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (28 bp):
TGGCCCATTTCGTAAATAATGTTGTAAA
Found at i:31491552 original size:68 final size:68
Alignment explanation
Indices: 31491454--31491852 Score: 428
Period size: 68 Copynumber: 5.9 Consensus size: 68
31491444 ACAATTTGAA
* * * * **
31491454 CCCATGTTTAACGTTCT-GACGAACTCTATTGGTTGTCAGAGTTGAGCTATGGTCTTACACCTTG
1 CCCATGTTTAACATCCTGGA-GGACTCTATTGGTTGTCATAGCCGAGCTATGGTCTTACACCTTG
31491518 TAAC
65 TAAC
* * * *
31491522 CCCATGTTTAACATCCTGGAGGACTTTATTGGTT-TCCATAACCGAGCAATGGTTTTACACCTTG
1 CCCATGTTTAACATCCTGGAGGACTCTATTGGTTGT-CATAGCCGAGCTATGGTCTTACACCTTG
31491586 TAAC
65 TAAC
* * * * * *
31491590 CTCATGTTTAACTTCCTGAAGGACTCTATTGGTTGCCATAACCGAGCTATGGACTTACACCTTGT
1 CCCATGTTTAACATCCTGGAGGACTCTATTGGTTGTCATAGCCGAGCTATGGTCTTACACCTTGT
31491655 AAC
66 AAC
* *
31491658 CCCATGTTTAACGTCCTGGCGGACTCTATTGGTTG-CTATAGCCGAGCTATGGTCTTACACCTTG
1 CCCATGTTTAACATCCTGGAGGACTCTATTGGTTGTC-ATAGCCGAGCTATGGTCTTACACCTTG
31491722 TAAC
65 TAAC
** * ** * *
31491726 CCCATGTTTAACATTTTGGCGGACTCTATTTTATTGTCATAGTCGAGCTATGGTCTTACACTTTG
1 CCCATGTTTAACATCCTGGAGGACTCTA-TTGGTTGTCATAGCCGAGCTATGGTCTTACACCTTG
31491791 TAAC
65 TAAC
* * * *** * *
31491795 CACATATTTAA-TTCTCTATTGGACTCTATTGGTTGCCATAGTCGAGCTATGGTCTTAC
1 CCCATGTTTAACATC-CTGGAGGACTCTATTGGTTGTCATAGCCGAGCTATGGTCTTAC
31491853 TCATTAAACT
Statistics
Matches: 282, Mismatches: 42, Indels: 14
0.83 0.12 0.04
Matches are distributed among these distances:
67 2 0.01
68 225 0.80
69 54 0.19
70 1 0.00
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.36
Consensus pattern (68 bp):
CCCATGTTTAACATCCTGGAGGACTCTATTGGTTGTCATAGCCGAGCTATGGTCTTACACCTTGT
AAC
Found at i:31493600 original size:16 final size:17
Alignment explanation
Indices: 31493569--31493604 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
31493559 TTAATTAACT
31493569 TCAATTAAATTTTTTTC
1 TCAATTAAATTTTTTTC
31493586 TCAATTAAATTTTTTTC
1 TCAATTAAATTTTTTTC
31493603 TC
1 TC
31493605 GACCAAATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.14, G:0.00, T:0.58
Consensus pattern (17 bp):
TCAATTAAATTTTTTTC
Found at i:31493612 original size:17 final size:17
Alignment explanation
Indices: 31493575--31493613 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
31493565 AACTTCAATT
**
31493575 AAATTTTTTTCTCAATT
1 AAATTTTTTTCTCAACC
*
31493592 AAATTTTTTTCTCGACC
1 AAATTTTTTTCTCAACC
31493609 AAATT
1 AAATT
31493614 CTAATTTTGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.15, G:0.03, T:0.51
Consensus pattern (17 bp):
AAATTTTTTTCTCAACC
Found at i:31497799 original size:33 final size:33
Alignment explanation
Indices: 31497762--31497825 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
31497752 TGTGAACCAT
*
31497762 AGCTGAACTAGGGTTAAGGAAAATGGCCACTGC
1 AGCTGAACTAGGGTTAAGGAAAACGGCCACTGC
*
31497795 AGCTGAACTAGGGTTAAGGACAACGGCCACT
1 AGCTGAACTAGGGTTAAGGAAAACGGCCACT
31497826 CTAATTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.33, C:0.20, G:0.30, T:0.17
Consensus pattern (33 bp):
AGCTGAACTAGGGTTAAGGAAAACGGCCACTGC
Found at i:31498880 original size:5 final size:5
Alignment explanation
Indices: 31498870--31498900 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
31498860 ATTATATATA
31498870 TTATT TTATT TTATT TTATT TTACTT TTATT
1 TTATT TTATT TTATT TTATT TTA-TT TTATT
31498901 AACTTTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (5 bp):
TTATT
Found at i:31501689 original size:30 final size:30
Alignment explanation
Indices: 31501617--31501689 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 30
31501607 TCTCAAATGA
* *
31501617 CACACGGCCGTGTCACCAGGTCGTGCGTGT
1 CACACGGCCGTGTCACCAAGCCGTGCGTGT
** *
31501647 CACACGATCGTGTCACCAAGCCGTGTGTGT
1 CACACGGCCGTGTCACCAAGCCGTGCGTGT
31501677 CACACGGCCGTGT
1 CACACGGCCGTGT
31501690 GATAGCCCGT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.16, C:0.33, G:0.30, T:0.21
Consensus pattern (30 bp):
CACACGGCCGTGTCACCAAGCCGTGCGTGT
Found at i:31502195 original size:16 final size:15
Alignment explanation
Indices: 31502170--31502200 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
31502160 TGATAGGTCC
31502170 CTGATGAGCTTCCAA
1 CTGATGAGCTTCCAA
31502185 CTGATTGAGCTTCCAA
1 CTGA-TGAGCTTCCAA
31502201 TAATCTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (15 bp):
CTGATGAGCTTCCAA
Found at i:31510790 original size:17 final size:16
Alignment explanation
Indices: 31510770--31510812 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
31510760 ATCTACAAGA
31510770 TAAATATTAAATTAAAT
1 TAAATATTAAATT-AAT
*
31510787 TAAATATTAAATTTAT
1 TAAATATTAAATTAAT
31510803 TAAAATATTA
1 T-AAATATTA
31510813 TTATTTTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 3 0.12
17 21 0.88
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TAAATATTAAATTAAT
Found at i:31513944 original size:49 final size:49
Alignment explanation
Indices: 31513885--31514013 Score: 213
Period size: 49 Copynumber: 2.6 Consensus size: 49
31513875 AGAAAGAATA
31513885 TTTTATTTTTTATGTAATTTATTTGTCATGTGTGTTTTAGGTTTATTAG
1 TTTTATTTTTTATGTAATTTATTTGTCATGTGTGTTTTAGGTTTATTAG
* * *
31513934 TTTTAATTTTTATGTAATTTATTTTTCATATGTGTTTTAGGTTTATTAG
1 TTTTATTTTTTATGTAATTTATTTGTCATGTGTGTTTTAGGTTTATTAG
* *
31513983 ATTTATTTTTTATGTAATTTATTTGGCATGT
1 TTTTATTTTTTATGTAATTTATTTGTCATGT
31514014 TATTTTTATT
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 72 1.00
ACGTcount: A:0.21, C:0.02, G:0.14, T:0.63
Consensus pattern (49 bp):
TTTTATTTTTTATGTAATTTATTTGTCATGTGTGTTTTAGGTTTATTAG
Found at i:31514002 original size:16 final size:16
Alignment explanation
Indices: 31513935--31514006 Score: 58
Period size: 16 Copynumber: 4.4 Consensus size: 16
31513925 GTTTATTAGT
*
31513935 TTTAATTTTTATGTAA
1 TTTATTTTTTATGTAA
**
31513951 TTTATTTTTCATATGTGT
1 TTTATTTTT--TATGTAA
**
31513969 TTTA-GGTTTAT-TAGA
1 TTTATTTTTTATGTA-A
31513984 TTTATTTTTTATGTAA
1 TTTATTTTTTATGTAA
31514000 TTTATTT
1 TTTATTT
31514007 GGCATGTTAT
Statistics
Matches: 42, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
14 1 0.02
15 7 0.17
16 21 0.50
17 4 0.10
18 9 0.21
ACGTcount: A:0.24, C:0.01, G:0.10, T:0.65
Consensus pattern (16 bp):
TTTATTTTTTATGTAA
Found at i:31516531 original size:33 final size:33
Alignment explanation
Indices: 31516484--31516546 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
31516474 TAGGCCCATG
* *
31516484 TCCACCACATTACTCAAGTCCTCCCGGCTCGAA
1 TCCACCACAGTACTCAACTCCTCCCGGCTCGAA
* * *
31516517 TCCACCGCAGTACTCCACTCGTCCCGGCTC
1 TCCACCACAGTACTCAACTCCTCCCGGCTC
31516547 AAGTTCATCG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 25 1.00
ACGTcount: A:0.19, C:0.46, G:0.14, T:0.21
Consensus pattern (33 bp):
TCCACCACAGTACTCAACTCCTCCCGGCTCGAA
Found at i:31517041 original size:48 final size:48
Alignment explanation
Indices: 31516804--31517040 Score: 325
Period size: 49 Copynumber: 4.9 Consensus size: 48
31516794 GTATTTATTT
* * *
31516804 AATTAGATTA-ATTGCAATATTAAAACTTGGAACAAACTTTGTGGACATA
1 AATTAGA-TACATTACAACATTAAAACTTGGAACAAACTTTGT-GATATA
*
31516853 AATTAGATACATTACAACATTAAAACTTGGAACAAACTTTGTGGTCATA
1 AATTAGATACATTACAACATTAAAACTTGGAACAAACTTTGTGAT-ATA
*
31516902 AATTAGATTCATTACAACATTAAAACTTGGAACAAACTTTGTGATCATA
1 AATTAGATACATTACAACATTAAAACTTGGAACAAACTTTGTGAT-ATA
* * *
31516951 AATTAGATACATTACAACATTAAAACTTGGAAAAAAATTTGTAATATA
1 AATTAGATACATTACAACATTAAAACTTGGAACAAACTTTGTGATATA
* *
31516999 AATTAGATGCATTACAACATTAAAA-TGAGGAACAAACTTTGT
1 AATTAGATACATTACAACATTAAAACT-TGGAACAAACTTTGT
31517041 AGTTTAAATT
Statistics
Matches: 171, Mismatches: 14, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
47 1 0.01
48 42 0.25
49 128 0.75
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (48 bp):
AATTAGATACATTACAACATTAAAACTTGGAACAAACTTTGTGATATA
Found at i:31518225 original size:15 final size:16
Alignment explanation
Indices: 31518205--31518243 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
31518195 CTATCAGGAG
*
31518205 CACATTTCCATA-TTC
1 CACATTTCCACATTTC
31518220 CACATTTCCACATTTC
1 CACATTTCCACATTTC
31518236 CACATTTC
1 CACATTTC
31518244 ATAACAAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.26, C:0.36, G:0.00, T:0.38
Consensus pattern (16 bp):
CACATTTCCACATTTC
Found at i:31518230 original size:8 final size:8
Alignment explanation
Indices: 31518205--31518243 Score: 62
Period size: 8 Copynumber: 5.0 Consensus size: 8
31518195 CTATCAGGAG
31518205 CACATTTC
1 CACATTTC
*
31518213 CATA-TTC
1 CACATTTC
31518220 CACATTTC
1 CACATTTC
31518228 CACATTTC
1 CACATTTC
31518236 CACATTTC
1 CACATTTC
31518244 ATAACAAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.26, C:0.36, G:0.00, T:0.38
Consensus pattern (8 bp):
CACATTTC
Found at i:31519389 original size:20 final size:20
Alignment explanation
Indices: 31519364--31519420 Score: 78
Period size: 21 Copynumber: 2.8 Consensus size: 20
31519354 GACTATCAAT
31519364 GGTTCTTGAGCTCCATACAC
1 GGTTCTTGAGCTCCATACAC
* *
31519384 GGTTCTTAAGCCACCATACAC
1 GGTTCTTGAG-CTCCATACAC
*
31519405 GTTTCTTGAGCTCCAT
1 GGTTCTTGAGCTCCAT
31519421 GTTCTTCACC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 14 0.45
21 17 0.55
ACGTcount: A:0.21, C:0.30, G:0.18, T:0.32
Consensus pattern (20 bp):
GGTTCTTGAGCTCCATACAC
Found at i:31521129 original size:27 final size:27
Alignment explanation
Indices: 31521072--31521141 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
31521062 CTGGTGCGTG
* *
31521072 CCGCCTATTAGATAGGGGTCACCAATG
1 CCGCCTATCAGATAGGGGTCACCAATA
* ***
31521099 CCGCCTACCAGATAGGGGTCACTGGTA
1 CCGCCTATCAGATAGGGGTCACCAATA
31521126 CCGCCTATCAGATAGG
1 CCGCCTATCAGATAGG
31521142 CACCACCCCC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.24, C:0.29, G:0.27, T:0.20
Consensus pattern (27 bp):
CCGCCTATCAGATAGGGGTCACCAATA
Found at i:31522669 original size:88 final size:87
Alignment explanation
Indices: 31522566--31522732 Score: 262
Period size: 88 Copynumber: 1.9 Consensus size: 87
31522556 TTCAATTTAT
* * * *
31522566 TATAAACATAGCACAACCTGGTCTTATACCAATTATTGGAAAAATTAATTTAGTGAGCAGTGTTT
1 TATAAACATAACACAACCTGGTCTAATACCAATTATTGGAAAAATCAATTTA-TGAGCAATGTTT
* *
31522631 TTAGGTATAGAAGAATTTTATAC
65 TTAGGCACAGAAGAATTTTATAC
*
31522654 TATAAACATAACACAACCTGGTCTAATAGCAATTATTGGAAAAATCAATTTATGAGCAATGTTTT
1 TATAAACATAACACAACCTGGTCTAATACCAATTATTGGAAAAATCAATTTATGAGCAATGTTTT
31522719 TAGGCACAGAAGAA
66 TAGGCACAGAAGAA
31522733 GTTAAATTTT
Statistics
Matches: 72, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
87 24 0.33
88 48 0.67
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.32
Consensus pattern (87 bp):
TATAAACATAACACAACCTGGTCTAATACCAATTATTGGAAAAATCAATTTATGAGCAATGTTTT
TAGGCACAGAAGAATTTTATAC
Found at i:31526599 original size:14 final size:15
Alignment explanation
Indices: 31526580--31526610 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
31526570 ACCTAGACGC
31526580 TAAACTCTAAA-TTA
1 TAAACTCTAAACTTA
31526594 TAAACTCTAAACTTA
1 TAAACTCTAAACTTA
31526609 TA
1 TA
31526611 CACCAGACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.35
Consensus pattern (15 bp):
TAAACTCTAAACTTA
Found at i:31527779 original size:30 final size:30
Alignment explanation
Indices: 31527743--31527810 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
31527733 AGTTTCATTT
* *
31527743 CAGTCACTCAAC-TTTTAAAAAATAATAAAA
1 CAGTCACT-AACGTTATAAAAAATAACAAAA
*
31527773 CAGTCACTAACGTTATAAAAAATGACAAAA
1 CAGTCACTAACGTTATAAAAAATAACAAAA
31527803 CAGTCACT
1 CAGTCACT
31527811 GATTAATAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 3 0.09
30 31 0.91
ACGTcount: A:0.50, C:0.19, G:0.07, T:0.24
Consensus pattern (30 bp):
CAGTCACTAACGTTATAAAAAATAACAAAA
Found at i:31528058 original size:3 final size:3
Alignment explanation
Indices: 31528050--31528077 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
31528040 ATGTCTTTGC
31528050 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
31528078 GGCTCTTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:31530190 original size:38 final size:39
Alignment explanation
Indices: 31530146--31530230 Score: 127
Period size: 38 Copynumber: 2.2 Consensus size: 39
31530136 AAAATTTATA
*
31530146 TTTAATACAATAAAATATTTATTATATTTAT-TTGTGTT
1 TTTAATACAATAAAATATTTATTATATTTATGTAGTGTT
**
31530184 TTTAATATGATAAAATATTTATTATATTTATGGTAGTGTT
1 TTTAATACAATAAAATATTTATTATATTTAT-GTAGTGTT
31530224 TTTAATA
1 TTTAATA
31530231 TAAATATTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
38 29 0.69
40 13 0.31
ACGTcount: A:0.36, C:0.01, G:0.08, T:0.54
Consensus pattern (39 bp):
TTTAATACAATAAAATATTTATTATATTTATGTAGTGTT
Found at i:31531947 original size:34 final size:34
Alignment explanation
Indices: 31531855--31531963 Score: 132
Period size: 34 Copynumber: 3.2 Consensus size: 34
31531845 GTTCTTTTTT
* *
31531855 AAAAATTAATTAAATTAGGGTTTAAG-G-GTTTAA
1 AAAAATAAATTAAATTAGGGTTT-AGTGTTTTTAA
* *
31531888 AATAAATTAATTAAATAAGGGTTTAGTGTTTTTAA
1 AA-AAATAAATTAAATTAGGGTTTAGTGTTTTTAA
*
31531923 AAAAATAAATTAAATTAGGGTTTAGTTTTTTTAA
1 AAAAATAAATTAAATTAGGGTTTAGTGTTTTTAA
*
31531957 AATAATA
1 AAAAATA
31531964 TTGTGTTTAG
Statistics
Matches: 67, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
33 4 0.06
34 56 0.84
35 7 0.10
ACGTcount: A:0.46, C:0.00, G:0.14, T:0.40
Consensus pattern (34 bp):
AAAAATAAATTAAATTAGGGTTTAGTGTTTTTAA
Found at i:31532213 original size:126 final size:126
Alignment explanation
Indices: 31532014--31532334 Score: 473
Period size: 126 Copynumber: 2.6 Consensus size: 126
31532004 ATAAGGATTT
31532014 TTTTTCTACAGTAGTTCCT-AAAAAATAATTTTGAGAATACGGTTCTGAACAAATAGTGTAAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAATACGGTTCTGAACAAATAGTGTAAAAA
* *
31532078 ACGCTTCAAGCAAGATACATTGTCAGCAAAATTACTAAAAAAAGCACCCACGTGGACGCTC
66 ATGCTTCAAGCAAGATACACTGTCAGCAAAATTACTAAAAAAAGCACCCACGTGGACGCTC
* *
31532139 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAATACGGTTCTGAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAATACGGTTCTGAACAAATAGTGTAAAAA
* * * * ** * * *
31532204 ATGCTTCAAGTAGGATGCACTGTTAGCAAAATTACTGGAAAAAGCTCCTATGTGGACGCTC
66 ATGCTTCAAGCAAGATACACTGTCAGCAAAATTACTAAAAAAAGCACCCACGTGGACGCTC
** * * *
31532265 TTTTTCTACAACAGTTCTTGAAAAAATTATTTTGAGAAGACGGTTCTGAACAAATAGTGTAAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAATACGGTTCTGAACAAATAGTGTAAAAA
31532330 ATGCT
66 ATGCT
31532335 CCAAAAAAGC
Statistics
Matches: 175, Mismatches: 20, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
125 19 0.11
126 156 0.89
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.30
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAATACGGTTCTGAACAAATAGTGTAAAAA
ATGCTTCAAGCAAGATACACTGTCAGCAAAATTACTAAAAAAAGCACCCACGTGGACGCTC
Found at i:31532501 original size:126 final size:125
Alignment explanation
Indices: 31532353--31532622 Score: 443
Period size: 126 Copynumber: 2.2 Consensus size: 125
31532343 GCTCACACGT
* *
31532353 TCTTTTTCTATAGTAGTTCCTGAAAAAATTATTTTGAGAAGACGGTTCTAAACAAATAGTGTCAA
1 TCTTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAACAAATAGTGTCAA
* * * *
31532418 AAATGCTTCAAGCAGGATGCACTATCAGCAAAATT-ATTGAAAAAAGCTCCCACGTGGACGC
66 AAACGCTTCAAGCAGGATGCACTATCAGCAAAATTGA-TG-AAAAAGCTCCCACATCGACAC
*
31532479 TCTTTTTCTACAATAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAACAAATAGTGTCAA
1 TCTTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAACAAATAGTGTCAA
*
31532544 AAACGCTTCAAGCAGGATGCACTATCAGCAAATTTGATGAAAAAGCTCCCACATCGACAC
66 AAACGCTTCAAGCAGGATGCACTATCAGCAAAATTGATGAAAAAGCTCCCACATCGACAC
31532604 TCTTTTTCTACAGTAGTTC
1 TCTTTTTCTACAGTAGTTC
31532623 ATGTTTGGCC
Statistics
Matches: 134, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
125 36 0.27
126 97 0.72
127 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (125 bp):
TCTTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAACAAATAGTGTCAA
AAACGCTTCAAGCAGGATGCACTATCAGCAAAATTGATGAAAAAGCTCCCACATCGACAC
Found at i:31532515 original size:216 final size:216
Alignment explanation
Indices: 31532137--31532546 Score: 669
Period size: 216 Copynumber: 1.9 Consensus size: 216
31532127 ACGTGGACGC
*
31532137 TCTTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAATACGGTTCTGAAAAAATAGTGTCAA
1 TCTTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAA
* * * * * *
31532202 AAATGCTTCAAGTAGGATGCACTGTTAGCAAAATTACTGGAAAAAGCTCCTATGTGGACGCTCTT
66 AAATGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTT
* * *
31532267 TTTCTACAACAGTTCTTGAAAAAATTATTTTGAGAAGACGGTTCTGAACAAATAGTGTAAAAAAT
131 TTTCTACAACAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAACAAATAGTGTAAAAAAT
31532332 GCTCCAAAAAAGCTCACACGT
196 GCTCCAAAAAAGCTCACACGT
* *
31532353 TCTTTTTCTATAGTAGTTCCTGAAAAAATTATTTTGAGAAGACGGTTCT-AAACAAATAGTGTCA
1 TCTTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAA-AAATAGTGTCA
*
31532417 AAAATGCTTCAAGCAGGATGCACTATCAGCAAAATTATTGAAAAAAGCTCCCACGTGGACGCTCT
65 AAAATGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCT
* *
31532482 TTTTCTACAATAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAACAAATAGTGTCAAAAA
130 TTTTCTACAACAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAACAAATAGTGTAAAAAA
31532547 CGCTTCAAGC
Statistics
Matches: 178, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
215 3 0.02
216 175 0.98
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.30
Consensus pattern (216 bp):
TCTTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAA
AAATGCTTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTT
TTTCTACAACAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTAAACAAATAGTGTAAAAAAT
GCTCCAAAAAAGCTCACACGT
Found at i:31535897 original size:21 final size:21
Alignment explanation
Indices: 31535872--31535912 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
31535862 TTCAACTTCC
*
31535872 GACGGGGGTTCTGGTTGCTCT
1 GACGGGGGTTCTAGTTGCTCT
*
31535893 GACGGGGGTTGTAGTTGCTC
1 GACGGGGGTTCTAGTTGCTC
31535913 CAGTTGTGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.07, C:0.17, G:0.44, T:0.32
Consensus pattern (21 bp):
GACGGGGGTTCTAGTTGCTCT
Found at i:31536131 original size:18 final size:18
Alignment explanation
Indices: 31536108--31536143 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
31536098 AAAAAGAAAT
*
31536108 ATATAAGGGTTAGGATAC
1 ATATAAGGGATAGGATAC
31536126 ATATAAGGGATAGGATAC
1 ATATAAGGGATAGGATAC
31536144 GCACCTGGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.28, T:0.25
Consensus pattern (18 bp):
ATATAAGGGATAGGATAC
Found at i:31539777 original size:22 final size:21
Alignment explanation
Indices: 31539747--31539794 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
31539737 ATTAACGAAC
31539747 AAAA-TATTTAAATATAAATAA
1 AAAATTATTTAAATATAAA-AA
*
31539768 AAAATTATTTATATATAAAAA
1 AAAATTATTTAAATATAAAAA
31539789 ATAAAT
1 A-AAAT
31539795 ATAAAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
AAAATTATTTAAATATAAAAA
Found at i:31539798 original size:13 final size:13
Alignment explanation
Indices: 31539780--31539805 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31539770 AATTATTTAT
31539780 ATATAAAAAATAA
1 ATATAAAAAATAA
31539793 ATATAAAAAATAA
1 ATATAAAAAATAA
31539806 TTCATATTGA
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:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
ATATAAAAAATAA
Found at i:31545372 original size:31 final size:31
Alignment explanation
Indices: 31545334--31545393 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
31545324 CACTAATTAT
31545334 TTATGGTCCAACGATGTCCATAATTCCTTAA
1 TTATGGTCCAACGATGTCCATAATTCCTTAA
31545365 TTATGGTCCAACGATGTCCATAATTCCTT
1 TTATGGTCCAACGATGTCCATAATTCCTT
31545394 CATTCTTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (31 bp):
TTATGGTCCAACGATGTCCATAATTCCTTAA
Found at i:31545627 original size:13 final size:14
Alignment explanation
Indices: 31545609--31545637 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
31545599 CTGTTGCCAA
31545609 GTCTTGA-AATTTT
1 GTCTTGAGAATTTT
31545622 GTCTTGAGAATTTT
1 GTCTTGAGAATTTT
31545636 GT
1 GT
31545638 AGGTTTCTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.21, C:0.07, G:0.21, T:0.52
Consensus pattern (14 bp):
GTCTTGAGAATTTT
Found at i:31546341 original size:87 final size:86
Alignment explanation
Indices: 31546237--31546533 Score: 240
Period size: 87 Copynumber: 3.5 Consensus size: 86
31546227 ATTAAACGAT
* * *
31546237 GGGATTAAATCCCGAAACAAATTGTATTTAATTTTAATTTCTCGTTTTTGGCAACATAATCAAAA
1 GGGAATAAATCCCGAAACAAATT-TATTTAATTTTAATTTCTCG-TTTTGGAAACAAAATCAAAA
* * * *
31546302 -TGTAATAAATCAC-TTGAACGGC
64 TTGGAATAAAAC-CGTTAAACAGC
** * * *
31546324 GGGAATAAATCTTGAAACATATTTTATTTTAATTTTAA-TACTCGTTTTGGAAATAAAATCAAAA
1 GGGAATAAATCCCGAAACA-AATTTA-TTTAATTTTAATTTCTCGTTTTGGAAACAAAATCAAAA
31546388 TTGGAATAAAACCTGTTAAACAGC
64 TTGGAATAAAACC-GTTAAACAGC
* * *
31546412 GGGAATAAATCCCGAAACAGATCTTATTTAACTTTAATTTC-C-TGTTTGGAAATAAAATAACAA
1 GGGAATAAATCCCGAAACAAAT-TTATTTAATTTTAATTTCTCGT-TTTGGAAACAAAAT--CAA
*
31546475 AA-TGAAATAAAAACCG-T-----GC
62 AATTGGAAT-AAAACCGTTAAACAGC
* *
31546494 GGGAATAAATCCCGAAACGAATTTTATTTACTTTTAATTT
1 GGGAATAAATCCCGAAAC-AAATTTATTTAATTTTAATTT
31546534 GGAAACAAAA
Statistics
Matches: 175, Mismatches: 23, Indels: 29
0.77 0.10 0.13
Matches are distributed among these distances:
82 35 0.20
83 2 0.01
86 19 0.11
87 59 0.34
88 49 0.28
89 11 0.06
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (86 bp):
GGGAATAAATCCCGAAACAAATTTATTTAATTTTAATTTCTCGTTTTGGAAACAAAATCAAAATT
GGAATAAAACCGTTAAACAGC
Found at i:31546422 original size:88 final size:87
Alignment explanation
Indices: 31546134--31546486 Score: 221
Period size: 87 Copynumber: 4.1 Consensus size: 87
31546124 AATTAAATCA
** * * * *
31546134 AAATAAAATATGTTAAACAACGGGAATAAATCCCGAAATAGATTTTATTTCA-TTTAAT-T-CTA
1 AAATAAAACCTGTTAAACAGCGGGAATAAATCCCGAAACAGATCTTATTTAACTTTAATCTCCT-
* *
31546196 ATTTGG-AA-AAAAT--AAAATA
65 GTTTGGAAATAAAATACAAAATG
* * * * * * *
31546215 AAATATAATCTTATTAAAC-GATGGGATTAAATCCCGAAACAAAT-TGTATTTAATTTTAATTTC
1 AAATA-AAACCTGTTAAACAG-CGGGAATAAATCCCGAAACAGATCT-TATTTAACTTTAA--TC
* * * * *
31546278 TCGTTTTTGGCAACATAAT-CAAAATG
61 TCCTGTTTGGAAATAAAATACAAAATG
* * * * ** * * *
31546304 TAATAAATCAC--TTGAACGGCGGGAATAAATCTTGAAACATATTTTATTTTAATTTTAATACTC
1 AAATAAAAC-CTGTTAAACAGCGGGAATAAATCCCGAAACAGATCTTA-TTTAACTTTAAT-CTC
*
31546367 GT-TTTGGAAATAAAAT-CAAAATTG
63 CTGTTTGGAAATAAAATACAAAA-TG
* *
31546391 GAATAAAACCTGTTAAACAGCGGGAATAAATCCCGAAACAGATCTTATTTAACTTTAATTTCCTG
1 AAATAAAACCTGTTAAACAGCGGGAATAAATCCCGAAACAGATCTTATTTAACTTTAATCTCCTG
31546456 TTTGGAAATAAAATAACAAAATG
66 TTTGGAAATAAAAT-ACAAAATG
31546479 AAATAAAA
1 AAATAAAA
31546487 ACCGTGCGGG
Statistics
Matches: 213, Mismatches: 37, Indels: 37
0.74 0.13 0.13
Matches are distributed among these distances:
81 6 0.03
82 34 0.16
83 5 0.02
85 1 0.00
86 27 0.13
87 67 0.31
88 59 0.28
89 14 0.07
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (87 bp):
AAATAAAACCTGTTAAACAGCGGGAATAAATCCCGAAACAGATCTTATTTAACTTTAATCTCCTG
TTTGGAAATAAAATACAAAATG
Found at i:31549423 original size:19 final size:19
Alignment explanation
Indices: 31549401--31549453 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 19
31549391 AAATCAGAAA
*
31549401 CAAAGTTCAAAATAATTTT
1 CAAAATTCAAAATAATTTT
31549420 CAAATATTCAAAATAAATTTT
1 CAAA-ATTCAAAAT-AATTTT
31549441 -AAAATTCAAAATA
1 CAAAATTCAAAATA
31549454 TCTATAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
18 1 0.03
19 13 0.42
20 11 0.35
21 6 0.19
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (19 bp):
CAAAATTCAAAATAATTTT
Found at i:31549429 original size:20 final size:18
Alignment explanation
Indices: 31549406--31549453 Score: 69
Period size: 20 Copynumber: 2.5 Consensus size: 18
31549396 AGAAACAAAG
31549406 TTCAAAATAATTTTCAAATA
1 TTCAAAATAATTTT-AAA-A
31549426 TTCAAAATAAATTTTAAAA
1 TTCAAAAT-AATTTTAAAA
31549445 TTCAAAATA
1 TTCAAAATA
31549454 TCTATAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 1 0.04
19 9 0.33
20 11 0.41
21 6 0.22
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (18 bp):
TTCAAAATAATTTTAAAA
Found at i:31549507 original size:19 final size:19
Alignment explanation
Indices: 31549406--31549507 Score: 59
Period size: 19 Copynumber: 5.4 Consensus size: 19
31549396 AGAAACAAAG
* * *
31549406 TTCAAAATAATTTTCAAATA
1 TTCAAAAT-ATTATAAAATT
*
31549426 TTCAAAATAAATTTTAAAA--
1 TTCAAAAT--ATTATAAAATT
*
31549445 TTCAAAATATCTATAAAAAT
1 TTCAAAATAT-TATAAAATT
* **
31549465 TCCAAAAT-TTAT-ATTTT
1 TTCAAAATATTATAAAATT
*
31549482 TTTAAAATATTATAAAATT
1 TTCAAAATATTATAAAATT
31549501 TTCAAAA
1 TTCAAAA
31549508 AATCTAAAAA
Statistics
Matches: 65, Mismatches: 11, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
17 10 0.15
18 13 0.20
19 18 0.28
20 15 0.23
21 9 0.14
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (19 bp):
TTCAAAATATTATAAAATT
Found at i:31549521 original size:30 final size:29
Alignment explanation
Indices: 31549485--31549553 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 29
31549475 ATATTTTTTT
** *
31549485 AAAATATTATAAAATTTTCAAAAAATCTAA
1 AAAATATTATAAAAGGTTAAAAAAAT-TAA
31549515 AAAATA-TATAAAAAGGTTAAAAAAATTAA
1 AAAATATTAT-AAAAGGTTAAAAAAATTAA
31549544 AAAA-ATTATA
1 AAAATATTATA
31549554 CCATAATAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
28 2 0.06
29 13 0.38
30 19 0.56
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (29 bp):
AAAATATTATAAAAGGTTAAAAAAATTAA
Found at i:31549543 original size:9 final size:9
Alignment explanation
Indices: 31549504--31549551 Score: 51
Period size: 9 Copynumber: 5.0 Consensus size: 9
31549494 TAAAATTTTC
31549504 AAAAAATCTA
1 AAAAAAT-TA
31549514 AAAAATATATA
1 AAAAA-AT-TA
**
31549525 AAAAGGTTA
1 AAAAAATTA
31549534 AAAAAATTA
1 AAAAAATTA
31549543 AAAAAATTA
1 AAAAAATTA
31549552 TACCATAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
9 18 0.56
10 6 0.19
11 8 0.25
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.23
Consensus pattern (9 bp):
AAAAAATTA
Found at i:31549663 original size:16 final size:16
Alignment explanation
Indices: 31549642--31549673 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
31549632 TTTGAAAAAA
31549642 ATTTCAAATATATATG
1 ATTTCAAATATATATG
*
31549658 ATTTCAAATTTATATG
1 ATTTCAAATATATATG
31549674 CACTAATATA
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:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (16 bp):
ATTTCAAATATATATG
Found at i:31551932 original size:17 final size:18
Alignment explanation
Indices: 31551899--31551990 Score: 64
Period size: 17 Copynumber: 4.9 Consensus size: 18
31551889 AATAATTTTT
31551899 TAATAATTATAAATTTAA
1 TAATAATTATAAATTTAA
*
31551917 TAATACTTAT-AATTTAA
1 TAATAATTATAAATTTAA
*
31551934 TAA-AATTTGTGATAATTATAA
1 TAATAA-TTAT-A-AATT-TAA
* *
31551955 TTTAATAATCATATATTTAA
1 --TAATAATTATAAATTTAA
*
31551975 AAATAATTAT-AATTTA
1 TAATAATTATAAATTTA
31551991 CATTTATTAT
Statistics
Matches: 57, Mismatches: 9, Indels: 17
0.69 0.11 0.20
Matches are distributed among these distances:
16 1 0.02
17 18 0.32
18 17 0.30
20 7 0.12
21 6 0.11
22 1 0.02
23 5 0.09
24 2 0.04
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (18 bp):
TAATAATTATAAATTTAA
Found at i:31551936 original size:26 final size:25
Alignment explanation
Indices: 31551907--31551962 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
31551897 TTTAATAATT
*
31551907 ATAAATTTAATAATACTTATAATTTA
1 ATAAATTT-ATAATAATTATAATTTA
* *
31551933 ATAAAATTTGTGATAATTATAATTTA
1 AT-AAATTTATAATAATTATAATTTA
31551959 ATAA
1 ATAA
31551963 TCATATATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 2 0.08
26 18 0.69
27 6 0.23
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.45
Consensus pattern (25 bp):
ATAAATTTATAATAATTATAATTTA
Found at i:31551969 original size:16 final size:17
Alignment explanation
Indices: 31551945--31551990 Score: 60
Period size: 15 Copynumber: 2.8 Consensus size: 17
31551935 AAAATTTGTG
*
31551945 ATAATTATAATTTAATA
1 ATAATTATAATTTAAAA
*
31551962 ATCA-TAT-ATTTAAAA
1 ATAATTATAATTTAAAA
31551977 ATAATTATAATTTA
1 ATAATTATAATTTA
31551991 CATTTATTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 10 0.42
16 6 0.25
17 8 0.33
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (17 bp):
ATAATTATAATTTAAAA
Found at i:31552538 original size:13 final size:13
Alignment explanation
Indices: 31552520--31552545 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31552510 AAATGATTAC
31552520 AATAATTAAAAAT
1 AATAATTAAAAAT
31552533 AATAATTAAAAAT
1 AATAATTAAAAAT
31552546 TAAACGCGTA
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:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AATAATTAAAAAT
Found at i:31552802 original size:11 final size:11
Alignment explanation
Indices: 31552786--31552822 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
31552776 AGTAGACATC
31552786 TACTTCATTTA
1 TACTTCATTTA
31552797 TACTTC--TTA
1 TACTTCATTTA
*
31552806 TACTTTATTTA
1 TACTTCATTTA
31552817 TACTTC
1 TACTTC
31552823 TTATACCTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 8 0.36
11 14 0.64
ACGTcount: A:0.24, C:0.19, G:0.00, T:0.57
Consensus pattern (11 bp):
TACTTCATTTA
Found at i:31552815 original size:20 final size:20
Alignment explanation
Indices: 31552786--31552828 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
31552776 AGTAGACATC
31552786 TACTTCATTTATACTTCTTA
1 TACTTCATTTATACTTCTTA
*
31552806 TACTTTATTTATACTTCTTA
1 TACTTCATTTATACTTCTTA
31552826 TAC
1 TAC
31552829 CTATAAATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.26, C:0.19, G:0.00, T:0.56
Consensus pattern (20 bp):
TACTTCATTTATACTTCTTA
Found at i:31554973 original size:14 final size:14
Alignment explanation
Indices: 31554954--31554981 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
31554944 TTTGTTTGGT
31554954 GGAAAATATTTTCC
1 GGAAAATATTTTCC
31554968 GGAAAATATTTTCC
1 GGAAAATATTTTCC
31554982 TTAATTTCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (14 bp):
GGAAAATATTTTCC
Found at i:31556899 original size:14 final size:15
Alignment explanation
Indices: 31556877--31556953 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
31556867 CATCCAAACA
31556877 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
31556891 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
31556906 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
31556926 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
31556940 ACGGAAAA-CATTTT
1 CCAGAAAATCATTTT
31556954 ACTGGCAAAC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 22 0.44
15 14 0.28
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:31556918 original size:20 final size:20
Alignment explanation
Indices: 31556893--31556932 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
31556883 AATATTTTCC
*
31556893 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
31556913 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
31556933 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:31556938 original size:34 final size:35
Alignment explanation
Indices: 31556881--31556947 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
31556871 CAAACACCAG
*
31556881 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
31556916 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
31556948 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:31556954 original size:14 final size:14
Alignment explanation
Indices: 31556916--31556955 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
31556906 ACAGAAAAGT
*
31556916 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
31556930 AAATCATTTTACGG
1 AAAACATTTTACAG
31556944 AAAACATTTTAC
1 AAAACATTTTAC
31556956 TGGCAAACAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:31563861 original size:73 final size:73
Alignment explanation
Indices: 31563776--31564066 Score: 548
Period size: 73 Copynumber: 4.0 Consensus size: 73
31563766 ATGTGATGTT
31563776 TTCATGAGGGGGAGTAAATACACACTGTACTCTTTTTCCCTTAACCGAGATTTTGTCCCATTGAG
1 TTCATGAGGGGGAGTAAATACACACTGTACTCTTTTTCCCTTAACCGAGATTTTGTCCCATTGAG
31563841 TTTTCCTA
66 TTTTCCTA
31563849 TTCATGAGGGGGAGTAAATACACACTGTACTCTTTTTCCCTTAACCGAGATTTTGTCCCATTGAG
1 TTCATGAGGGGGAGTAAATACACACTGTACTCTTTTTCCCTTAACCGAGATTTTGTCCCATTGAG
31563914 TTTTCCTA
66 TTTTCCTA
31563922 TTCATGAGGGGGAGTAAATACACACTGTACTCTTTTTCCCTTAACCGAGATTTTGTCCCATTGAG
1 TTCATGAGGGGGAGTAAATACACACTGTACTCTTTTTCCCTTAACCGAGATTTTGTCCCATTGAG
31563987 TTTTCCTA
66 TTTTCCTA
* *
31563995 TTCATGAGGGGGAGTAAATACACACTGTACTCTTTTTCCCTTAACC-AAAGTTTTGTCCCATTAA
1 TTCATGAGGGGGAGTAAATACACACTGTACTCTTTTTCCCTTAACCGAGA-TTTTGTCCCATTGA
31564059 GTTTTCCT
65 GTTTTCCT
31564067 GGTAAGGTTT
Statistics
Matches: 215, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
72 2 0.01
73 213 0.99
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (73 bp):
TTCATGAGGGGGAGTAAATACACACTGTACTCTTTTTCCCTTAACCGAGATTTTGTCCCATTGAG
TTTTCCTA
Found at i:31564234 original size:12 final size:12
Alignment explanation
Indices: 31564217--31564246 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
31564207 AAAATTTTAT
31564217 TTATAAATGTAA
1 TTATAAATGTAA
31564229 TTATAAATGTAA
1 TTATAAATGTAA
31564241 TTATAA
1 TTATAA
31564247 GAATAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (12 bp):
TTATAAATGTAA
Found at i:31568737 original size:15 final size:15
Alignment explanation
Indices: 31568717--31568748 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
31568707 CATTTCACTA
*
31568717 TTATATCTTTTGTAT
1 TTATATCTTTTATAT
31568732 TTATATCTTTTATAT
1 TTATATCTTTTATAT
31568747 TT
1 TT
31568749 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.06, G:0.03, T:0.69
Consensus pattern (15 bp):
TTATATCTTTTATAT
Found at i:31571925 original size:37 final size:35
Alignment explanation
Indices: 31571874--31571944 Score: 90
Period size: 37 Copynumber: 2.0 Consensus size: 35
31571864 ATTCCAAAAG
*
31571874 TAATATTATCTTAATAGT-TTAATATTAAATTTAATT
1 TAATATTATATTAATAGTATT-ATATT-AATTTAATT
*
31571910 TAATACTTATATTAATAGTATTTTATTAATTTAAT
1 TAATA-TTATATTAATAGTATTATATTAATTTAAT
31571945 ATGATTCTCG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 13 0.42
37 16 0.52
38 2 0.06
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (35 bp):
TAATATTATATTAATAGTATTATATTAATTTAATT
Found at i:31579666 original size:25 final size:25
Alignment explanation
Indices: 31579555--31579666 Score: 77
Period size: 25 Copynumber: 4.5 Consensus size: 25
31579545 TCCAATTTCA
* * *
31579555 GCTTTTATGAGCTTCTCGATATACAT
1 GCTTGTATGAGCTTCCCG-TTTACAT
* *
31579581 -CTCGTATGAGCTTCCCG-TTACTT
1 GCTTGTATGAGCTTCCCGTTTACAT
** * *
31579604 AGCTCATATGAGCTTCCCATTATTCA-
1 -GCTTGTATGAGCTTCCCGTT-TACAT
* *
31579630 GCTTGGAAGAGCTTCCCGTTTACAT
1 GCTTGTATGAGCTTCCCGTTTACAT
31579655 GCTTGTATGAGC
1 GCTTGTATGAGC
31579667 GTGCATGTAC
Statistics
Matches: 64, Mismatches: 17, Indels: 11
0.70 0.18 0.12
Matches are distributed among these distances:
23 4 0.06
24 3 0.05
25 54 0.84
26 1 0.02
27 2 0.03
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.37
Consensus pattern (25 bp):
GCTTGTATGAGCTTCCCGTTTACAT
Found at i:31590628 original size:18 final size:18
Alignment explanation
Indices: 31590592--31590630 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
31590582 TTCAAAACTA
*
31590592 TGGGCACACATGCCCGTG
1 TGGGCACACATGCCAGTG
* *
31590610 TGGGCCCACATGCTAGTG
1 TGGGCACACATGCCAGTG
31590628 TGG
1 TGG
31590631 CTTAGCTGTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.15, C:0.28, G:0.36, T:0.21
Consensus pattern (18 bp):
TGGGCACACATGCCAGTG
Found at i:31592552 original size:7 final size:8
Alignment explanation
Indices: 31592531--31592559 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
31592521 GAAGAAGTAA
31592531 TGAAAAAG
1 TGAAAAAG
31592539 TGAAAAAG
1 TGAAAAAG
31592547 TGAAAAAG
1 TGAAAAAG
31592555 TGAAA
1 TGAAA
31592560 CCTTTGGAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.24, T:0.14
Consensus pattern (8 bp):
TGAAAAAG
Found at i:31601007 original size:17 final size:18
Alignment explanation
Indices: 31600985--31601022 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
31600975 TCCTTGAACT
31600985 ATAGT-CCAAA-TTCTAAA
1 ATAGTCCCAAACTTC-AAA
31601002 ATAGTCCCAAACTTCAAA
1 ATAGTCCCAAACTTCAAA
31601020 ATA
1 ATA
31601023 TTTTAATTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.26
18 11 0.58
19 3 0.16
ACGTcount: A:0.47, C:0.21, G:0.05, T:0.26
Consensus pattern (18 bp):
ATAGTCCCAAACTTCAAA
Found at i:31602800 original size:19 final size:19
Alignment explanation
Indices: 31602778--31602834 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 19
31602768 AAAAACGAAG
* *
31602778 TATTTAAAATATTACATTA
1 TATTTAAAATAATACATCA
* *
31602797 TATTTAATATAATATATCA
1 TATTTAAAATAATACATCA
* *
31602816 TATTTAATATTATACATCA
1 TATTTAAAATAATACATCA
31602835 AAATATTTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.47
Consensus pattern (19 bp):
TATTTAAAATAATACATCA
Found at i:31604067 original size:12 final size:13
Alignment explanation
Indices: 31604043--31604071 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
31604033 GGGCTATAAC
31604043 TATTGCATTTATT
1 TATTGCATTTATT
31604056 TATTGC-TTTATT
1 TATTGCATTTATT
31604068 TATT
1 TATT
31604072 CATGTATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:31612938 original size:19 final size:20
Alignment explanation
Indices: 31612901--31612938 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
31612891 AGGGTTAGAT
*
31612901 TTAGTGTTAGTTTACTTTAA
1 TTAGTGTTAGTTCACTTTAA
*
31612921 TTAGT-TTAGTTCATTTTA
1 TTAGTGTTAGTTCACTTTA
31612939 TTATCTTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.24, C:0.05, G:0.13, T:0.58
Consensus pattern (20 bp):
TTAGTGTTAGTTCACTTTAA
Found at i:31614920 original size:43 final size:43
Alignment explanation
Indices: 31614859--31615102 Score: 335
Period size: 43 Copynumber: 5.7 Consensus size: 43
31614849 AAAAACGCTA
* *** * *
31614859 CTAAAGAACATGATCTTTAATAGCGCTTTACCCACAAACACTG
1 CTAAAGAACATGACCTTTAGCGGCGCTTTACCCACAAACGCCG
* * *
31614902 CTAAAGATCATGACCTTTAGCGGCGCTTTACCTACAAATGCCG
1 CTAAAGAACATGACCTTTAGCGGCGCTTTACCCACAAACGCCG
31614945 CTAAAGAACATGACCTTTAGCGGCGCTTTACCCACAAACGCCG
1 CTAAAGAACATGACCTTTAGCGGCGCTTTACCCACAAACGCCG
* *
31614988 CTAAAGAACCTGACCTTTAGCGGCGCTTTAACCACAAACGCCG
1 CTAAAGAACATGACCTTTAGCGGCGCTTTACCCACAAACGCCG
* * *
31615031 CTAAAGAACATGACCTTTAGCGGCGCTTTGCCCACACACGCTG
1 CTAAAGAACATGACCTTTAGCGGCGCTTTACCCACAAACGCCG
* * *
31615074 TTAAAGAATATGATCTTTAGCGGCGCTTT
1 CTAAAGAACATGACCTTTAGCGGCGCTTT
31615103 TATCACAAAC
Statistics
Matches: 179, Mismatches: 22, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 179 1.00
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (43 bp):
CTAAAGAACATGACCTTTAGCGGCGCTTTACCCACAAACGCCG
Found at i:31619849 original size:41 final size:41
Alignment explanation
Indices: 31619789--31620040 Score: 308
Period size: 41 Copynumber: 6.2 Consensus size: 41
31619779 GCATTAGCGG
* **
31619789 CGCTAAAGCCCTGAGCATTAGTGGCGCTAACTCAAAAACGC
1 CGCTAAAGCCCTGAGCATTAGCGGCGCTTCCTCAAAAACGC
** * *
31619830 CGCTAAATTCCTGATCATTAGCGGGGCTTCCTCAAAAACGC
1 CGCTAAAGCCCTGAGCATTAGCGGCGCTTCCTCAAAAACGC
* * * *
31619871 CACTAAAGCCCTAAACATTAGCGGCGCTTCCTTAAAAACGC
1 CGCTAAAGCCCTGAGCATTAGCGGCGCTTCCTCAAAAACGC
* * *
31619912 CACTAAAACCCTGATCATTAGCGGCGCTTCCTCAAAAACGC
1 CGCTAAAGCCCTGAGCATTAGCGGCGCTTCCTCAAAAACGC
* *
31619953 CGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTC-AAAACGT
1 CGCTAAAGCCCTGAGCATTAGCGGCGCTTCCTCAAAAACGC
* * * * *
31619993 CGCTAAAGCCCTGAGCATTAGCTGTGTTTTCTCAAAAACGT
1 CGCTAAAGCCCTGAGCATTAGCGGCGCTTCCTCAAAAACGC
31620034 CGCTAAA
1 CGCTAAA
31620041 ACCCCGAAAG
Statistics
Matches: 184, Mismatches: 26, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
40 36 0.20
41 148 0.80
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (41 bp):
CGCTAAAGCCCTGAGCATTAGCGGCGCTTCCTCAAAAACGC
Found at i:31621542 original size:16 final size:15
Alignment explanation
Indices: 31621515--31621544 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
31621505 TTAATTTTTT
31621515 AAAATTTAAAAATTC
1 AAAATTTAAAAATTC
31621530 AAAATTATAAAAATT
1 AAAATT-TAAAAATT
31621545 GTTTTTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAATTTAAAAATTC
Found at i:31621724 original size:16 final size:18
Alignment explanation
Indices: 31621703--31621735 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
31621693 ATACAAATTC
31621703 AAAAA-TTAAA-AGAGAT
1 AAAAATTTAAATAGAGAT
31621719 AAAAATTTAAATAGAGA
1 AAAAATTTAAATAGAGA
31621736 GCTAAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 5 0.33
18 5 0.33
ACGTcount: A:0.67, C:0.00, G:0.12, T:0.21
Consensus pattern (18 bp):
AAAAATTTAAATAGAGAT
Found at i:31623681 original size:20 final size:20
Alignment explanation
Indices: 31623658--31623781 Score: 83
Period size: 20 Copynumber: 6.2 Consensus size: 20
31623648 CACTCGATCC
*
31623658 AAATATGCTACAATCGATTT
1 AAATATGTTACAATCGATTT
* *
31623678 AAATATGTTTCAATTGATTT
1 AAATATGTTACAATCGATTT
* *
31623698 AAATCA-GTTACAAGCAATTT
1 AAAT-ATGTTACAATCGATTT
*
31623718 AAACCA-GTTACAATCGATTT
1 AAA-TATGTTACAATCGATTT
* * * *
31623738 AAATCTTTTTCAAAT-TATTT
1 AAATATGTTAC-AATCGATTT
* **
31623758 AAATCTACTACAATCGATTT
1 AAATATGTTACAATCGATTT
31623778 AAAT
1 AAAT
31623782 TTATTTCATC
Statistics
Matches: 80, Mismatches: 19, Indels: 10
0.73 0.17 0.09
Matches are distributed among these distances:
19 3 0.04
20 73 0.91
21 4 0.05
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.39
Consensus pattern (20 bp):
AAATATGTTACAATCGATTT
Found at i:31623770 original size:60 final size:60
Alignment explanation
Indices: 31623666--31623780 Score: 153
Period size: 60 Copynumber: 1.9 Consensus size: 60
31623656 CCAAATATGC
*
31623666 TACAATCGATTTAAATATGTTTCAATTGATTTAAATCAGTTACAAGCAATTTAAACCAGT
1 TACAATCGATTTAAATATGTTTCAATTGATTTAAATCAGCTACAAGCAATTTAAACCAGT
* * * *
31623726 TACAATCGATTTAAATCTTTTTCAAATT-ATTTAAATCTA-CTACAATCGATTTAAA
1 TACAATCGATTTAAATATGTTTC-AATTGATTTAAATC-AGCTACAAGCAATTTAAA
31623781 TTTATTTCAT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
60 43 0.90
61 5 0.10
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.39
Consensus pattern (60 bp):
TACAATCGATTTAAATATGTTTCAATTGATTTAAATCAGCTACAAGCAATTTAAACCAGT
Found at i:31626568 original size:71 final size:71
Alignment explanation
Indices: 31626469--31626601 Score: 205
Period size: 71 Copynumber: 1.9 Consensus size: 71
31626459 GTTTCATCAC
*
31626469 TTTTTGTATGTGTAGATGGGTGCAGTGGTGAACTAATATCACTTTTTGTATGTAATTGTAGGTTT
1 TTTTTGTATGTGTAGATGGGTGCAGTGGTGAACTAATATAACTTTTTGTATGTAATTGTAGGTTT
31626534 TGCACT
66 TGCACT
** * *
31626540 TTTTTGTATGTGTA-ATTGGGTGTGGTGGTGGAGTAATATAACTTTTTGTATGTAATTGTAGG
1 TTTTTGTATGTGTAGA-TGGGTGCAGTGGTGAACTAATATAACTTTTTGTATGTAATTGTAGG
31626602 ATGATATAAT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
70 1 0.02
71 55 0.98
ACGTcount: A:0.21, C:0.05, G:0.28, T:0.46
Consensus pattern (71 bp):
TTTTTGTATGTGTAGATGGGTGCAGTGGTGAACTAATATAACTTTTTGTATGTAATTGTAGGTTT
TGCACT
Found at i:31640705 original size:5 final size:5
Alignment explanation
Indices: 31640697--31640725 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
31640687 CAACTCAAAG
31640697 ATGTA ATGTA ATGTA ATGTA ATGTA ATGT
1 ATGTA ATGTA ATGTA ATGTA ATGTA ATGT
31640726 TTCCATTAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (5 bp):
ATGTA
Found at i:31646641 original size:35 final size:35
Alignment explanation
Indices: 31646602--31646682 Score: 162
Period size: 35 Copynumber: 2.3 Consensus size: 35
31646592 TTAATTTATT
31646602 AATATGTGATTTTTCACTATGTAGGAGGACCATTG
1 AATATGTGATTTTTCACTATGTAGGAGGACCATTG
31646637 AATATGTGATTTTTCACTATGTAGGAGGACCATTG
1 AATATGTGATTTTTCACTATGTAGGAGGACCATTG
31646672 AATATGTGATT
1 AATATGTGATT
31646683 AATGTGAATG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 46 1.00
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.38
Consensus pattern (35 bp):
AATATGTGATTTTTCACTATGTAGGAGGACCATTG
Found at i:31649060 original size:27 final size:27
Alignment explanation
Indices: 31649029--31649098 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
31649019 TGGCAGGTTG
*
31649029 CCCCATTTTTACTATCCTTG-TGGACTA
1 CCCCATTTTTACTATCC-TGACGGACTA
* * *
31649056 TCCCATGTTTACTGTCCTGACGGACTA
1 CCCCATTTTTACTATCCTGACGGACTA
*
31649083 CCCCGTTTTTACTATC
1 CCCCATTTTTACTATC
31649099 ACAGTGGACA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.17, C:0.31, G:0.13, T:0.39
Consensus pattern (27 bp):
CCCCATTTTTACTATCCTGACGGACTA
Found at i:31661228 original size:12 final size:13
Alignment explanation
Indices: 31661211--31661239 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
31661201 GAAAAAGTTA
31661211 AAAAATTT-AACC
1 AAAAATTTCAACC
31661223 AAAAATTTCAACC
1 AAAAATTTCAACC
31661236 AAAA
1 AAAA
31661240 GCAACTTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.62, C:0.17, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAAATTTCAACC
Found at i:31670402 original size:20 final size:20
Alignment explanation
Indices: 31670360--31670401 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
31670350 TGGAAAATGA
*
31670360 TTTCTGGAGAATGTTTTACT
1 TTTCTGGAGAATGATTTACT
31670380 TTTCTGGA-AATGATTTACT
1 TTTCTGGAGAATGATTTACT
31670399 TTT
1 TTT
31670402 TTGGTGTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.21, C:0.10, G:0.17, T:0.52
Consensus pattern (20 bp):
TTTCTGGAGAATGATTTACT
Found at i:31670507 original size:18 final size:18
Alignment explanation
Indices: 31670481--31670523 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
31670471 AAAAATTATT
*
31670481 TTTACATATATTAATAAA
1 TTTATATATATTAATAAA
31670499 TTTATATATATTAATAAA
1 TTTATATATATTAATAAA
31670517 TTTATAT
1 TTTATAT
31670524 TTTAAATTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTATATATATTAATAAA
Found at i:31676370 original size:31 final size:31
Alignment explanation
Indices: 31676332--31676395 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
31676322 TAAAAAAAGT
31676332 TTGAAACTACATGAAATAAAAAAAATACATA
1 TTGAAACTACATGAAATAAAAAAAATACATA
* *
31676363 TTGAAACTCCATGAAATAAAAAAAATATATA
1 TTGAAACTACATGAAATAAAAAAAATACATA
31676394 TT
1 TT
31676396 AAAATATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.58, C:0.09, G:0.06, T:0.27
Consensus pattern (31 bp):
TTGAAACTACATGAAATAAAAAAAATACATA
Found at i:31679308 original size:18 final size:18
Alignment explanation
Indices: 31679287--31679329 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
31679277 ACAATTTAAA
*
31679287 ATATAAATTTATTTATAT
1 ATATAAATTTATTAATAT
31679305 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
*
31679323 ATGTAAA
1 ATATAAA
31679330 AACAACTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
ATATAAATTTATTAATAT
Done.