Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 339 of 345
Found at i:101189542 original size:19 final size:20
Alignment explanation
Indices: 101189518--101189559 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
101189508 TTTTAATTTT
101189518 TTTAATAATAT-AATCATAA
1 TTTAATAATATAAATCATAA
*
101189537 TTTAATAATATAAATTATAA
1 TTTAATAATATAAATCATAA
101189557 TTT
1 TTT
101189560 GATAGAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
TTTAATAATATAAATCATAA
Found at i:101189584 original size:16 final size:16
Alignment explanation
Indices: 101189539--101189588 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
101189529 AATCATAATT
*
101189539 TAATAAT-ATAAATTA
1 TAATAATGATAAATAA
*
101189554 TAAT-TTGATAGAATAA
1 TAATAATGATA-AATAA
101189570 TAATAATGATAAATAA
1 TAATAATGATAAATAA
101189586 TAA
1 TAA
101189589 ATATCTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 1 0.03
15 7 0.24
16 16 0.55
17 5 0.17
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (16 bp):
TAATAATGATAAATAA
Found at i:101189715 original size:16 final size:16
Alignment explanation
Indices: 101189694--101189748 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
101189684 TTAATTTAAT
101189694 TTAATTATATTTATAA
1 TTAATTATATTTATAA
101189710 TTAATTA-A-TT-TAA
1 TTAATTATATTTATAA
101189723 -TAA-TATATTTTATAA
1 TTAATTATA-TTTATAA
101189738 TTAAATTATAT
1 TT-AATTATAT
101189749 ATATTTTCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 13
0.71 0.00 0.29
Matches are distributed among these distances:
11 2 0.06
12 4 0.12
13 3 0.09
14 4 0.12
15 4 0.12
16 8 0.25
17 3 0.09
18 4 0.12
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TTAATTATATTTATAA
Found at i:101189735 original size:28 final size:26
Alignment explanation
Indices: 101189684--101189741 Score: 82
Period size: 28 Copynumber: 2.2 Consensus size: 26
101189674 ACACTTGACT
101189684 TTAATTTAATTTAATTATATTTATAA
1 TTAATTTAATTTAATTATATTTATAA
101189710 TTAA-TTAATTTAATAATATATTTTATAA
1 TTAATTTAATTTAAT--TATA-TTTATAA
101189738 TTAA
1 TTAA
101189742 ATTATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
25 10 0.34
26 4 0.14
27 4 0.14
28 11 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
TTAATTTAATTTAATTATATTTATAA
Found at i:101189738 original size:20 final size:22
Alignment explanation
Indices: 101189711--101189765 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
101189701 TATTTATAAT
*
101189711 TAATTAATTTAATAATATATTTTA
1 TAATTAAATT-AT-ATATATTTTA
101189735 TAATTAAATTATATATATTTTCA
1 TAATTAAATTATATATATTTT-A
*
101189758 TGATTAAA
1 TAATTAAA
101189766 ATCTAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 9 0.32
23 10 0.36
24 9 0.32
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (22 bp):
TAATTAAATTATATATATTTTA
Found at i:101190223 original size:19 final size:19
Alignment explanation
Indices: 101190187--101190223 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
101190177 GGTCTAGGTA
**
101190187 TCTAATACTAATCTAATAC
1 TCTAATACTAATAGAATAC
101190206 TCTAATACTAATAGAATA
1 TCTAATACTAATAGAATA
101190224 GAAAAAATAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.16, G:0.03, T:0.35
Consensus pattern (19 bp):
TCTAATACTAATAGAATAC
Found at i:101190232 original size:14 final size:14
Alignment explanation
Indices: 101190215--101190242 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
101190205 CTCTAATACT
101190215 AATAGAATAGAAAA
1 AATAGAATAGAAAA
101190229 AATAGAATAGAAAA
1 AATAGAATAGAAAA
101190243 TACTAATATA
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:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (14 bp):
AATAGAATAGAAAA
Found at i:101193124 original size:24 final size:24
Alignment explanation
Indices: 101193097--101193144 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
101193087 ATCGGTACTT
*
101193097 GATTTGTAGGTATTGATTTTTGGG
1 GATTTGTAGGTATTGATATTTGGG
101193121 GATTTGTAGGTATTGATATTTGGG
1 GATTTGTAGGTATTGATATTTGGG
101193145 CTGCAAGGCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.48
Consensus pattern (24 bp):
GATTTGTAGGTATTGATATTTGGG
Found at i:101194777 original size:4 final size:4
Alignment explanation
Indices: 101194768--101194796 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
101194758 AGCAAACGTG
101194768 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
101194797 TAGAAAAGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:101196944 original size:25 final size:25
Alignment explanation
Indices: 101196889--101196944 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
101196879 ATAAAAATTT
* *
101196889 AATT-TAAGTTTTTAAAAATTATAA
1 AATTATAAGTTATTAAAAATGATAA
* *
101196913 AAATATAAGTTATTAAAAATGATGA
1 AATTATAAGTTATTAAAAATGATAA
101196938 AATTATA
1 AATTATA
101196945 TCTTTGCTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 3 0.12
25 23 0.88
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (25 bp):
AATTATAAGTTATTAAAAATGATAA
Found at i:101198819 original size:22 final size:23
Alignment explanation
Indices: 101198793--101198861 Score: 70
Period size: 22 Copynumber: 3.0 Consensus size: 23
101198783 GATATTTTGA
*
101198793 ATATTTTAT-TTAATTAAATAAT
1 ATATTTTATAATAATTAAATAAT
* *
101198815 ATA-TTAATAATAATTAAATTAT
1 ATATTTTATAATAATTAAATAAT
* *
101198837 ATATTTTTATAATATTTTAATAAT
1 ATA-TTTTATAATAATTAAATAAT
101198861 A
1 A
101198862 AAATGATAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
21 4 0.11
22 17 0.46
24 16 0.43
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
ATATTTTATAATAATTAAATAAT
Found at i:101201930 original size:28 final size:28
Alignment explanation
Indices: 101201888--101201952 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
101201878 TCAGTGTACG
*
101201888 AAATATTGAGAATGACACTTAATGTGCG
1 AAATATTGAGAATGACACTTAATGTGCA
* *
101201916 AGATATTGAGAATGACACTTAGTGTGCA
1 AAATATTGAGAATGACACTTAATGTGCA
101201944 AAATATTGA
1 AAATATTGA
101201953 ATGATTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (28 bp):
AAATATTGAGAATGACACTTAATGTGCA
Found at i:101202068 original size:39 final size:39
Alignment explanation
Indices: 101202025--101202134 Score: 157
Period size: 39 Copynumber: 2.8 Consensus size: 39
101202015 GACTTTATAA
101202025 TGGTGTTATATCCGGGTTAAGTCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGTTAAGTCCCGAAGGCATTCGTGC
* * * *
101202064 TGGTGTTATATTCGGGTTATGCCCCGAAGGCTTTCGTGC
1 TGGTGTTATATCCGGGTTAAGTCCCGAAGGCATTCGTGC
* *
101202103 TGGTGTTATATCCGGGCTAAAGTCCCGCAGGC
1 TGGTGTTATATCCGGG-TTAAGTCCCGAAGGC
101202135 TTTGTGATAG
Statistics
Matches: 61, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 50 0.82
40 11 0.18
ACGTcount: A:0.16, C:0.22, G:0.31, T:0.31
Consensus pattern (39 bp):
TGGTGTTATATCCGGGTTAAGTCCCGAAGGCATTCGTGC
Found at i:101202156 original size:39 final size:39
Alignment explanation
Indices: 101202091--101202242 Score: 171
Period size: 39 Copynumber: 3.9 Consensus size: 39
101202081 TATGCCCCGA
** * *
101202091 AGGCTTTCGTGCTGGTGTTATATCCGGGC-TAAAGTCCCGC
1 AGGC-TTCGTGCTGGAATTGTATCCGGACTTAAAGT-CCGC
* * * *
101202131 AGGCTTTGTGATAGAATTGTATCCGGACTTAAGGTCCGC
1 AGGCTTCGTGCTGGAATTGTATCCGGACTTAAAGTCCGC
* *
101202170 AGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGTCTGC
1 AGGCTTCGTGCTGGAATTGTATCCGGACTTAAAGTCCGC
* *
101202209 AAGCTTCGTGCTGGAATTGTATCCGGGCTTAAAG
1 AGGCTTCGTGCTGGAATTGTATCCGGACTTAAAG
101202243 ACCTCCGGGC
Statistics
Matches: 96, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
39 87 0.91
40 9 0.09
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (39 bp):
AGGCTTCGTGCTGGAATTGTATCCGGACTTAAAGTCCGC
Found at i:101202251 original size:16 final size:16
Alignment explanation
Indices: 101202230--101202261 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
101202220 TGGAATTGTA
101202230 TCCGGGCTTAAAGACC
1 TCCGGGCTTAAAGACC
101202246 TCCGGGCTTAAAGACC
1 TCCGGGCTTAAAGACC
101202262 CGAAGGCAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.31, G:0.25, T:0.19
Consensus pattern (16 bp):
TCCGGGCTTAAAGACC
Found at i:101207172 original size:2 final size:2
Alignment explanation
Indices: 101207165--101207196 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
101207155 CTAGATTTAA
101207165 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
101207197 GTTTAAATAT
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):
AT
Found at i:101207573 original size:20 final size:21
Alignment explanation
Indices: 101207543--101207586 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
101207533 AAAAACTTCA
**
101207543 ATTTATAATAATTTTTTAAAT
1 ATTTATAATAATTTAATAAAT
101207564 ATTT-TAATAATTTAATAAAT
1 ATTTATAATAATTTAATAAAT
101207584 ATT
1 ATT
101207587 AATATTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTTATAATAATTTAATAAAT
Found at i:101207600 original size:15 final size:18
Alignment explanation
Indices: 101207548--101207594 Score: 51
Period size: 20 Copynumber: 2.6 Consensus size: 18
101207538 CTTCAATTTA
**
101207548 TAATAATTTTTTAAATATTT
1 TAATAATTTAATAAATA--T
101207568 TAATAATTTAATAAATAT
1 TAATAATTTAATAAATAT
101207586 TAAT-ATTTA
1 TAATAATTTA
101207595 TAATATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 5 0.20
18 5 0.20
20 15 0.60
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATAATTTAATAAATAT
Found at i:101207602 original size:17 final size:18
Alignment explanation
Indices: 101207557--101207602 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
101207547 ATAATAATTT
*
101207557 TTTA-AATATTTTAATAA
1 TTTATAATATATTAATAA
101207574 TTTAATAA-ATATTAAT-A
1 TTT-ATAATATATTAATAA
101207591 TTTATAATATAT
1 TTTATAATATAT
101207603 ATAAAATGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
16 4 0.16
17 11 0.44
18 8 0.32
19 2 0.08
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
TTTATAATATATTAATAA
Found at i:101212383 original size:2 final size:2
Alignment explanation
Indices: 101212376--101212412 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
101212366 TTTTCCAGGT
101212376 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
101212413 TATCTTAGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:101212704 original size:2 final size:2
Alignment explanation
Indices: 101212697--101212730 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
101212687 AGAGATTTTG
101212697 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
101212731 TTCACTTTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:101213389 original size:2 final size:2
Alignment explanation
Indices: 101213377--101213406 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
101213367 TTTTACATGC
*
101213377 AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
101213407 GATAGATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:101221110 original size:20 final size:20
Alignment explanation
Indices: 101221062--101221109 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
101221052 TAATTGTTTG
* *
101221062 TAAAATTTAATTTAAATATA
1 TAAAATATATTTTAAATATA
*
101221082 TAAACTATATTTTAAATAT-
1 TAAAATATATTTTAAATATA
101221101 TAAAA-ATAT
1 TAAAATATAT
101221110 AACCATTACA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 4 0.17
19 4 0.17
20 16 0.67
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
TAAAATATATTTTAAATATA
Found at i:101224218 original size:27 final size:27
Alignment explanation
Indices: 101224180--101224234 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
101224170 AACCAAAAAT
101224180 AATTTTCTTACTTTCAGTAGGAAACTA
1 AATTTTCTTACTTTCAGTAGGAAACTA
101224207 AATTTTCTTACTTTCAGTAGGAAACTA
1 AATTTTCTTACTTTCAGTAGGAAACTA
101224234 A
1 A
101224235 GTCCCTCTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.40
Consensus pattern (27 bp):
AATTTTCTTACTTTCAGTAGGAAACTA
Found at i:101224675 original size:16 final size:17
Alignment explanation
Indices: 101224647--101224678 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
101224637 AATATTATTT
101224647 ATTAAATTAATTTTCTA
1 ATTAAATTAATTTTCTA
101224664 ATTAAA-TAATTTTCT
1 ATTAAATTAATTTTCT
101224679 CAACCCAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTAAATTAATTTTCTA
Found at i:101228330 original size:11 final size:11
Alignment explanation
Indices: 101228314--101228338 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
101228304 TTATATATAC
101228314 TAATAAAATAA
1 TAATAAAATAA
101228325 TAATAAAATAA
1 TAATAAAATAA
101228336 TAA
1 TAA
101228339 AATATCATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:101229573 original size:18 final size:20
Alignment explanation
Indices: 101229537--101229573 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
101229527 TTTAAAAATA
*
101229537 AAAAAATATAGAATCTATTT
1 AAAAAATATAAAATCTATTT
101229557 AAAAAAT-TAAAAT-TATT
1 AAAAAATATAAAATCTATT
101229574 AACATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 4 0.25
19 5 0.31
20 7 0.44
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (20 bp):
AAAAAATATAAAATCTATTT
Found at i:101230048 original size:21 final size:20
Alignment explanation
Indices: 101230000--101230045 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
101229990 TAACTTAAAT
* *
101230000 TATTTTAGTATTTTATTTAA
1 TATTTTATTTTTTTATTTAA
101230020 TATTTTATTTTTTTAATTT-A
1 TATTTTATTTTTTT-ATTTAA
101230040 TATTTT
1 TATTTT
101230046 TATCAAATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (20 bp):
TATTTTATTTTTTTATTTAA
Found at i:101235255 original size:205 final size:205
Alignment explanation
Indices: 101234925--101235302 Score: 580
Period size: 205 Copynumber: 1.8 Consensus size: 205
101234915 CCCAAGTGTC
* * * ** *
101234925 AGAGTTGGTTACCATTCTAAAGCATTACTCTTCTATCTGAATGTGACTTTTCATAGCTGCTTGGC
1 AGAGTTAGTTACCATTCCAAAGCATTACTCATCTATCTGAACATGACTCTTCATAGCTGCTTGGC
* * * *
101234990 TACCAAGATTCTTCCAAACTCGCATGTTATGATTTTACTTCGATTATGATATCTTTTCATTGTGG
66 TACCAAGATGCTTCCAAACTCACATGTTATGATTTTACTTCGATTATGATATCCTTTCATTGTGA
101235055 GTGGATTTGTAGTCAGGGTAGTTGGATTTATGAAACATTGTTAATTCAAGTTTCTTAGTTCGAGG
131 GTGGATTTGTAGTCAGGGTAGTTGGATTTATGAAACATTGTTAATTCAAGTTTCTTAGTTCGAGG
101235120 TCTGGGTGAA
196 TCTGGGTGAA
* * * *
101235130 AGAGTTAGTTATCATTCCAAAGCTTTACTCATCTATTTGAACATGACTCTTCATTGCTGCTTGG-
1 AGAGTTAGTTACCATTCCAAAGCATTACTCATCTATCTGAACATGACTCTTCATAGCTGCTTGGC
* *
101235194 TAATCAAGATGC-TCACAAACTCACATGTTATGATTTTACTTTGATTATGATATCCTTTCATTGT
66 T-ACCAAGATGCTTC-CAAACTCACATGTTATGATTTTACTTCGATTATGATATCCTTTCATTGT
101235258 GAGTGGATTTGTAGTCAGGGTAGTTGGATTTATGAAACATTGTTA
129 GAGTGGATTTGTAGTCAGGGTAGTTGGATTTATGAAACATTGTTA
101235303 GTTATCATTC
Statistics
Matches: 155, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
204 3 0.02
205 152 0.98
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (205 bp):
AGAGTTAGTTACCATTCCAAAGCATTACTCATCTATCTGAACATGACTCTTCATAGCTGCTTGGC
TACCAAGATGCTTCCAAACTCACATGTTATGATTTTACTTCGATTATGATATCCTTTCATTGTGA
GTGGATTTGTAGTCAGGGTAGTTGGATTTATGAAACATTGTTAATTCAAGTTTCTTAGTTCGAGG
TCTGGGTGAA
Found at i:101235407 original size:166 final size:166
Alignment explanation
Indices: 101235133--101235468 Score: 636
Period size: 166 Copynumber: 2.0 Consensus size: 166
101235123 GGGTGAAAGA
*
101235133 GTTAGTTATCATTCCAAAGCTTTACTCATCTATTTGAACATGACTCTTCATTGCTGCTTGGTAAT
1 GTTAGTTATCATTCCAAAGCTTTACTCATCTATCTGAACATGACTCTTCATTGCTGCTTGGTAAT
101235198 CAAGATGCTCACAAACTCACATGTTATGATTTTACTTTGATTATGATATCCTTTCATTGTGAGTG
66 CAAGATGCTCACAAACTCACATGTTATGATTTTACTTTGATTATGATATCCTTTCATTGTGAGTG
101235263 GATTTGTAGTCAGGGTAGTTGGATTTATGAAACATT
131 GATTTGTAGTCAGGGTAGTTGGATTTATGAAACATT
* *
101235299 GTTAGTTATCATTCTAAAGCTTTACTCATCTATCTGAACATGACTTTTCATTGCTGCTTGGTAAT
1 GTTAGTTATCATTCCAAAGCTTTACTCATCTATCTGAACATGACTCTTCATTGCTGCTTGGTAAT
*
101235364 CAAGATGCTCACAAACTCACATGTTATGATTTTTCTTTGATTATGATATCCTTTCATTGTGAGTG
66 CAAGATGCTCACAAACTCACATGTTATGATTTTACTTTGATTATGATATCCTTTCATTGTGAGTG
101235429 GATTTGTAGTCAGGGTAGTTGGATTTATGAAACATT
131 GATTTGTAGTCAGGGTAGTTGGATTTATGAAACATT
101235465 GTTA
1 GTTA
101235469 ATTCAAGCTC
Statistics
Matches: 166, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
166 166 1.00
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (166 bp):
GTTAGTTATCATTCCAAAGCTTTACTCATCTATCTGAACATGACTCTTCATTGCTGCTTGGTAAT
CAAGATGCTCACAAACTCACATGTTATGATTTTACTTTGATTATGATATCCTTTCATTGTGAGTG
GATTTGTAGTCAGGGTAGTTGGATTTATGAAACATT
Found at i:101237191 original size:216 final size:216
Alignment explanation
Indices: 101236815--101237466 Score: 1196
Period size: 216 Copynumber: 3.0 Consensus size: 216
101236805 TTGAACCTGA
*
101236815 TCTAGTTTAGAGGAGTCATCTGTTTTCCATGTCATAAAACAATTAATTTATCATCTGTTCTCCAA
1 TCTAGTTTAGAGGAGTCATCTGTTTTCCATGTCATAAAACAATTAATTTATCATCTGTTTTCCAA
* *
101236880 AAGACTTGATATTTAAACTTTGTGCCATTTAGTTATAGATGTATAAGTTGAGCATAATTCATTTT
66 AAGACTTAATATTTTAACTTTGTGCCATTTAGTTATAGATGTATAAGTTGAGCATAATTCATTTT
*
101236945 ATTATCCTTCCAATCTAAATTAGGTTTAAATTTAAATAATTTTATGAAATGGCTTAGATCAAATG
131 ATTATCCTTCCAATCTAAATTAGATTTAAATTTAAATAATTTTATGAAATGGCTTAGATCAAATG
101237010 TCTGAAACCTAAACTGATGTC
196 TCTGAAACCTAAACTGATGTC
* *
101237031 TCTAGTTTAGAGGAGTCATCTGTTTTCCATATCATAAAACAATTAGTTTATCATCTGTTTTCCAA
1 TCTAGTTTAGAGGAGTCATCTGTTTTCCATGTCATAAAACAATTAATTTATCATCTGTTTTCCAA
*
101237096 AAGACTTAATATTTTAACTTTGTGCCATCTAGTTATAGATGTATAAGTTGAGCATAATTCATTTT
66 AAGACTTAATATTTTAACTTTGTGCCATTTAGTTATAGATGTATAAGTTGAGCATAATTCATTTT
101237161 ATTATCCTTCCAATCTAAATTAGATTTAAATTTAAATAATTTTATGAAATGGCTTAGATCAAATG
131 ATTATCCTTCCAATCTAAATTAGATTTAAATTTAAATAATTTTATGAAATGGCTTAGATCAAATG
101237226 TCTGAAACCTAAACTGATGTC
196 TCTGAAACCTAAACTGATGTC
* ** *
101237247 TCTAGTTTATAGGAGTCATCTGTTTAACATGTCATAAAACAATTAATTTATCATCTCTTTTCCAA
1 TCTAGTTTAGAGGAGTCATCTGTTTTCCATGTCATAAAACAATTAATTTATCATCTGTTTTCCAA
101237312 AAGACTTAATATTTTAACTTTGTGCCATTTAGTTATAGATGTATAAGTTGAGCATAATTCATTTT
66 AAGACTTAATATTTTAACTTTGTGCCATTTAGTTATAGATGTATAAGTTGAGCATAATTCATTTT
101237377 ATTATCCTTCCAATCTAAATTAGATTTAAATTTAAATAATTTTATGAAATGGCTTAGATCAAATG
131 ATTATCCTTCCAATCTAAATTAGATTTAAATTTAAATAATTTTATGAAATGGCTTAGATCAAATG
*
101237442 TTTGAAACCTAAACTGATGTC
196 TCTGAAACCTAAACTGATGTC
101237463 TCTA
1 TCTA
101237467 ATCTATTGGT
Statistics
Matches: 421, Mismatches: 15, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
216 421 1.00
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (216 bp):
TCTAGTTTAGAGGAGTCATCTGTTTTCCATGTCATAAAACAATTAATTTATCATCTGTTTTCCAA
AAGACTTAATATTTTAACTTTGTGCCATTTAGTTATAGATGTATAAGTTGAGCATAATTCATTTT
ATTATCCTTCCAATCTAAATTAGATTTAAATTTAAATAATTTTATGAAATGGCTTAGATCAAATG
TCTGAAACCTAAACTGATGTC
Found at i:101241223 original size:26 final size:26
Alignment explanation
Indices: 101241161--101241224 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 26
101241151 AGTTCTTCAT
**
101241161 TGCTTTTGAAATGTGCTTTTGAGAAG
1 TGCTTTTGAAAAATGCTTTTGAGAAG
* *
101241187 TGCTGTGGAAAAATGCTTTTGAGAAG
1 TGCTTTTGAAAAATGCTTTTGAGAAG
*
101241213 TGTTTTTGAAAA
1 TGCTTTTGAAAA
101241225 GTTTGGTTTA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.28, C:0.06, G:0.27, T:0.39
Consensus pattern (26 bp):
TGCTTTTGAAAAATGCTTTTGAGAAG
Found at i:101241226 original size:13 final size:13
Alignment explanation
Indices: 101241161--101241226 Score: 69
Period size: 13 Copynumber: 5.1 Consensus size: 13
101241151 AGTTCTTCAT
*
101241161 TGCTTTTGAAATG
1 TGCTTTTGAAAAG
*
101241174 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
* * *
101241187 TGCTGTGGAAAAA
1 TGCTTTTGAAAAG
*
101241200 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
*
101241213 TGTTTTTGAAAAG
1 TGCTTTTGAAAAG
101241226 T
1 T
101241227 TTGGTTTAAA
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 41 1.00
ACGTcount: A:0.27, C:0.06, G:0.27, T:0.39
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:101241800 original size:18 final size:18
Alignment explanation
Indices: 101241777--101241811 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
101241767 AGCTTTTCTT
101241777 CCAGAAATGCTTTTGAAG
1 CCAGAAATGCTTTTGAAG
*
101241795 CCAGAAGTGCTTTTGAA
1 CCAGAAATGCTTTTGAA
101241812 AAGTAATGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (18 bp):
CCAGAAATGCTTTTGAAG
Found at i:101243854 original size:35 final size:35
Alignment explanation
Indices: 101243815--101243884 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
101243805 CTTTCTTCTC
101243815 TCTTTATTCTCCCTTCAACAATCGTTTTGTAATAA
1 TCTTTATTCTCCCTTCAACAATCGTTTTGTAATAA
101243850 TCTTTATTCTCCCTTCAACAATCGTTTTGTAATAA
1 TCTTTATTCTCCCTTCAACAATCGTTTTGTAATAA
101243885 AAACGATTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.26, C:0.23, G:0.06, T:0.46
Consensus pattern (35 bp):
TCTTTATTCTCCCTTCAACAATCGTTTTGTAATAA
Found at i:101260181 original size:53 final size:53
Alignment explanation
Indices: 101260120--101260265 Score: 213
Period size: 53 Copynumber: 2.7 Consensus size: 53
101260110 TGCGCTCGTT
* *
101260120 TAAGACCATAGCTGGGCTATGGCATTGGTGTAATGTGATAATGTGACTCCGTA
1 TAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACTCCGTA
*
101260173 TAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATTCCGTA
1 TAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACTCCGTA
* *
101260226 TAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 TAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
101260266 ACCGTGTAAG
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
52 1 0.01
53 77 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (53 bp):
TAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACTCCGTA
Found at i:101273706 original size:12 final size:14
Alignment explanation
Indices: 101273676--101273719 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
101273666 TTATACATGT
*
101273676 TTAAAAAATTTTAA
1 TTAAAAAATTATAA
101273690 TTAAAAAATTAT-A
1 TTAAAAAATTATAA
101273703 -T--AAAATTATAA
1 TTAAAAAATTATAA
101273714 TTAAAA
1 TTAAAA
101273720 TGATATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
10 8 0.32
11 1 0.04
12 2 0.08
13 1 0.04
14 13 0.52
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
TTAAAAAATTATAA
Found at i:101273725 original size:22 final size:23
Alignment explanation
Indices: 101273680--101273725 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
101273670 ACATGTTTAA
* *
101273680 AAAATTTTAATTAAAAAATTATAT
1 AAAATTATAATT-AAAAATGATAT
101273704 AAAATTATAATT-AAAATGATAT
1 AAAATTATAATTAAAAATGATAT
101273726 TTTTTACATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 9 0.45
24 11 0.55
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (23 bp):
AAAATTATAATTAAAAATGATAT
Found at i:101273774 original size:12 final size:13
Alignment explanation
Indices: 101273757--101273785 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
101273747 TATTTAAAAG
101273757 TATTTTATT-AAT
1 TATTTTATTAAAT
101273769 TATTTTATTAAAT
1 TATTTTATTAAAT
101273782 TATT
1 TATT
101273786 AATCATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
TATTTTATTAAAT
Found at i:101280048 original size:18 final size:18
Alignment explanation
Indices: 101280025--101280059 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
101280015 CTCTTGTTCT
101280025 TCTTCTTCGTCGGCGTCG
1 TCTTCTTCGTCGGCGTCG
*
101280043 TCTTCTTCGTCGTCGTC
1 TCTTCTTCGTCGGCGTC
101280060 ATCGTTATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.00, C:0.34, G:0.23, T:0.43
Consensus pattern (18 bp):
TCTTCTTCGTCGGCGTCG
Found at i:101280301 original size:11 final size:11
Alignment explanation
Indices: 101280269--101280304 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
101280259 CTCATAGTTT
*
101280269 GTTTTTTTTTT
1 GTTTTTTTTTG
*
101280280 TTTTTTTTTTG
1 GTTTTTTTTTG
101280291 GTTTTTTTTTG
1 GTTTTTTTTTG
101280302 GTT
1 GTT
101280305 CTTGGGCCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (11 bp):
GTTTTTTTTTG
Found at i:101281418 original size:17 final size:17
Alignment explanation
Indices: 101281386--101281418 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
101281376 AAAAAGCATA
101281386 TACTAAATATATAATAC
1 TACTAAATATATAATAC
101281403 TACTATAATATA-AATA
1 TACTA-AATATATAATA
101281419 TTAAAATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (17 bp):
TACTAAATATATAATAC
Found at i:101283390 original size:22 final size:22
Alignment explanation
Indices: 101283339--101283399 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 22
101283329 TATTGTTTCC
* *
101283339 ACTATTTTGGTGTTGTTTTGCT
1 ACTATTTTGCTGTTATTTTGCT
* *
101283361 GCTGTTTTGCTGTTATTTTGCT
1 ACTATTTTGCTGTTATTTTGCT
* **
101283383 ATTATTTTATTGTTATT
1 ACTATTTTGCTGTTATT
101283400 GTTTAGATAT
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.11, C:0.08, G:0.18, T:0.62
Consensus pattern (22 bp):
ACTATTTTGCTGTTATTTTGCT
Found at i:101283825 original size:20 final size:20
Alignment explanation
Indices: 101283794--101283834 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
101283784 TCGCAAAATA
*
101283794 AAATTGTTTAATTTAATTTTT
1 AAATTGTTTAATAT-ATTTTT
101283815 AAATT-TTTAATATATTTTT
1 AAATTGTTTAATATATTTTT
101283834 A
1 A
101283835 TTATTTTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
20 7 0.37
21 5 0.26
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (20 bp):
AAATTGTTTAATATATTTTT
Found at i:101286453 original size:49 final size:49
Alignment explanation
Indices: 101286396--101286495 Score: 155
Period size: 49 Copynumber: 2.0 Consensus size: 49
101286386 TAATCGATTA
* * *
101286396 TATCTTTAAAAAGTTGATTATAGTTTTATACATTACCGAATAATTTAGT
1 TATCTTTAAAAAGTTGATAATAATTTTATACATTACCAAATAATTTAGT
* *
101286445 TATCTTTAAACAGTTGATAATAATTTTATACATTATCAAATAATTTAGT
1 TATCTTTAAAAAGTTGATAATAATTTTATACATTACCAAATAATTTAGT
101286494 TA
1 TA
101286496 GATGTAAGAT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (49 bp):
TATCTTTAAAAAGTTGATAATAATTTTATACATTACCAAATAATTTAGT
Found at i:101299124 original size:27 final size:27
Alignment explanation
Indices: 101299064--101299124 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 27
101299054 AATAATATCT
*
101299064 AAAT-TATATTTATATAAAAATTAATA
1 AAATATATATTTATATAAAAATTAAGA
* **
101299090 AAAAATATATTTATAT-ATTATTAAGA
1 AAATATATATTTATATAAAAATTAAGA
101299116 CAAATATAT
1 -AAATATAT
101299125 GATAAATTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 10 0.36
27 18 0.64
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (27 bp):
AAATATATATTTATATAAAAATTAAGA
Found at i:101299227 original size:12 final size:12
Alignment explanation
Indices: 101299210--101299248 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
101299200 AATATGTAAT
101299210 TTTATTATTTTA
1 TTTATTATTTTA
*
101299222 TTTATT-TTTAA
1 TTTATTATTTTA
*
101299233 ATTATTATTTTA
1 TTTATTATTTTA
101299245 TTTA
1 TTTA
101299249 AATTTAAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
11 9 0.41
12 13 0.59
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTATTATTTTA
Found at i:101299240 original size:23 final size:24
Alignment explanation
Indices: 101299193--101299263 Score: 90
Period size: 23 Copynumber: 2.9 Consensus size: 24
101299183 CACAATTGTA
*
101299193 TTATTTAAATATGTAATTTTATTATT
1 TTATTTAAAT-T-TAAATTTATTATT
**
101299219 TTATTTATTTTTAAA-TTATTATT
1 TTATTTAAATTTAAATTTATTATT
101299242 TTATTTAAATTTAAATTTATTA
1 TTATTTAAATTTAAATTTATTA
101299264 ATATTTAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
23 21 0.54
24 9 0.23
25 1 0.03
26 8 0.21
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.63
Consensus pattern (24 bp):
TTATTTAAATTTAAATTTATTATT
Found at i:101309521 original size:16 final size:17
Alignment explanation
Indices: 101309492--101309524 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
101309482 TATTAAATAA
*
101309492 GTGTAAATTTTGTGTAT
1 GTGTAAATTATGTGTAT
101309509 GTGT-AATTATGTGTAT
1 GTGTAAATTATGTGTAT
101309525 TCGGTTATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (17 bp):
GTGTAAATTATGTGTAT
Found at i:101310510 original size:26 final size:26
Alignment explanation
Indices: 101310480--101310534 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
101310470 GTATTTGGCC
101310480 ATGATGCTTAGATTGTTTTGGAAACT
1 ATGATGCTTAGATTGTTTTGGAAACT
101310506 ATGATGCTTAGATTGTTTTGGAAACT
1 ATGATGCTTAGATTGTTTTGGAAACT
101310532 ATG
1 ATG
101310535 TTATATATCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.27, C:0.07, G:0.24, T:0.42
Consensus pattern (26 bp):
ATGATGCTTAGATTGTTTTGGAAACT
Found at i:101315146 original size:21 final size:21
Alignment explanation
Indices: 101315100--101315173 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
101315090 AAAACACACT
101315100 AACAGAAGCTCAT--AA--TG
1 AACAGAAGCTCATAAAAGCTG
* *
101315117 AATAGAAGCTCATAAAAGCTT
1 AACAGAAGCTCATAAAAGCTG
101315138 AACAGAAGCTCATAAAAGCTG
1 AACAGAAGCTCATAAAAGCTG
101315159 AACAGAAGCTCATAA
1 AACAGAAGCTCATAA
101315174 GAGTTGATCC
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
17 12 0.24
19 2 0.04
21 35 0.71
ACGTcount: A:0.49, C:0.18, G:0.16, T:0.18
Consensus pattern (21 bp):
AACAGAAGCTCATAAAAGCTG
Found at i:101315403 original size:2 final size:2
Alignment explanation
Indices: 101315396--101315427 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
101315386 TTCATTTCCA
101315396 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
101315428 CATGTAATAC
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):
AT
Found at i:101324814 original size:15 final size:15
Alignment explanation
Indices: 101324803--101324844 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
101324793 ACTATATCTT
*
101324803 TTATTATAATATATA
1 TTATAATAATATATA
101324818 TTATAATAATA-ATTA
1 TTATAATAATATA-TA
101324833 TTATATATAATA
1 TTATA-ATAATA
101324845 ATAATAATGC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 1 0.04
15 17 0.71
16 6 0.25
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TTATAATAATATATA
Found at i:101324819 original size:12 final size:12
Alignment explanation
Indices: 101324804--101324841 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
101324794 CTATATCTTT
101324804 TATTATAATATA
1 TATTATAATATA
101324816 TATTATAATA-A
1 TATTATAATATA
*
101324827 TAATTATTATATA
1 T-ATTATAATATA
101324840 TA
1 TA
101324842 ATAATAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
11 2 0.09
12 19 0.83
13 2 0.09
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TATTATAATATA
Found at i:101324969 original size:254 final size:241
Alignment explanation
Indices: 101324442--101325069 Score: 614
Period size: 254 Copynumber: 2.5 Consensus size: 241
101324432 TCAGACTTAG
* * * * *
101324442 ATTATATAATGTTATATTATATCATATAATATAATATATACAATATTAATAGTTTATGTATATGC
1 ATTATATAATGTTATATCATATCATATCATAT-ATATATACTACATTAATAGTTT-TATATATGC
* * * * *
101324507 ATCAATGATTAAACATTATAATATAATGTAATACTATATATTTTTATTATATTCTATAATATGAT
64 ATCAATGATTAAACATTATAATATCATGTAATACTATAT-CTTTTATTATAATCTATATTATAAT
* * *
101324572 AGTAGTACATTATATAATAAATATTATAATATATTATTGTTTATTATTATATTGGTTAAAATACG
128 AATAGTACATTATATAATAAATATTATAATATATTATTATATATTATTATATTGGTTAAAATACG
* * * * *
101324637 CTTTAAGTCTTTATACTTTTCATATATTTAAAAGTAGCCCTTCTGCTAT
193 CTGTAAGTCTCTATACATTTCATATATTTAAAAGTAACCCTTCTACTAT
101324686 ATTATATAATGTTATATCACATCATATCATATCATATCATATAGTATATACTACATTAATAGTTT
1 ATTATATAATG-----T----T-ATATCATATCATATCATATA-TATATACTACATTAATAG-TT
* * *
101324751 TTATATATGCATCAATGGTTAAACATTATAATATCACGTAATACTATATCTTTTATTATAATATA
54 TTATATATGCATCAATGATTAAACATTATAATATCATGTAATACTATATCTTTTATTATAATCTA
* * * *
101324816 TATTATAATAATAATTATTATATATAATAATAATAATGCATTCT-ATGTTACTTATTATATATTA
119 TATTATAATAAT-AGTA-CAT-TAT-ATAAT-A-AAT--ATTATAAT-ATA-TTATTATATATTA
* * * * * *
101324880 TTATTTTTTGTTAAAATATGCTGTAAGTCTCTATACATTTCGTATATTTGAAAGTTAACCCTTTT
174 TTA-TATTGGTTAAAATACGCTGTAAGTCTCTATACATTTCATATATTTAAAAG-TAACCCTTCT
101324945 ACTAT
237 ACTAT
101324950 ATTATATAATGTTATATCATATCATATCATATAT-TA-A-TAGC--T--TA----TATATATGCA
1 ATTATATAATGTTATATCATATCATATCATATATATATACTA-CATTAATAGTTTTATATATGCA
*
101325004 TCGATGATTAAACATTATAATATCATGTAATACTATATCTTTTTTATTATAATCTATATTATAAT
65 TCAATGATTAAACATTATAATATCATGTAATACTATATC--TTTTATTATAATCTATATTATAAT
101325069 A
128 A
101325070 GTTATATATT
Statistics
Matches: 322, Mismatches: 35, Indels: 54
0.78 0.09 0.13
Matches are distributed among these distances:
242 46 0.14
244 35 0.11
247 2 0.01
249 2 0.01
250 2 0.01
251 2 0.01
252 2 0.01
253 25 0.08
254 100 0.31
255 6 0.02
256 3 0.01
257 5 0.02
258 1 0.00
259 4 0.01
260 2 0.01
261 6 0.02
262 14 0.04
263 42 0.13
264 23 0.07
ACGTcount: A:0.39, C:0.09, G:0.06, T:0.46
Consensus pattern (241 bp):
ATTATATAATGTTATATCATATCATATCATATATATATACTACATTAATAGTTTTATATATGCAT
CAATGATTAAACATTATAATATCATGTAATACTATATCTTTTATTATAATCTATATTATAATAAT
AGTACATTATATAATAAATATTATAATATATTATTATATATTATTATATTGGTTAAAATACGCTG
TAAGTCTCTATACATTTCATATATTTAAAAGTAACCCTTCTACTAT
Found at i:101325123 original size:30 final size:28
Alignment explanation
Indices: 101325048--101325124 Score: 93
Period size: 30 Copynumber: 2.6 Consensus size: 28
101325038 ATATCTTTTT
* *
101325048 TATTATAATCTATATTATAATAGTTATA
1 TATTATAATATATTTTATAATAGTTATA
101325076 TATTTATTAATAT-TTTTAGTAATAGTTATA
1 TA-TTA-TAATATATTTTA-TAATAGTTATA
101325106 TATTATAATATTATTTTAT
1 TATTATAATA-TATTTTAT
101325125 GTATTAATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
28 7 0.17
29 12 0.29
30 23 0.55
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (28 bp):
TATTATAATATATTTTATAATAGTTATA
Found at i:101325999 original size:18 final size:18
Alignment explanation
Indices: 101325978--101326260 Score: 176
Period size: 18 Copynumber: 15.3 Consensus size: 18
101325968 GAACAATTAT
101325978 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAG
* * *
101325996 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAGTCAG
* * **
101326014 TTATTCAATAATAACCAG
1 TTATTCAGTAACAGTCAG
*
101326032 TTATTCAGTATTGATCAATTGATCGG
1 TTATTCAGTA---A-C-A--G-TCAG
* *
101326058 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* *
101326076 TTATTTAGTAA-AATCAG
1 TTATTCAGTAACAGTCAG
* * * *
101326093 ATATTCAGTAGCAATTAAG
1 TTATTCAGTAAC-AGTCAG
*
101326112 TTATTCAGTAACAGTCAT
1 TTATTCAGTAACAGTCAG
* *
101326130 TTATTCAGTGACAATCAG
1 TTATTCAGTAACAGTCAG
* *
101326148 TTATTCAGTAA-TGATCAT
1 TTATTCAGTAACAG-TCAG
* *
101326166 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAG
101326184 TTATTCAGTAACAGTCTA-
1 TTATTCAGTAACAGTC-AG
* *
101326202 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* *
101326220 TTATTCGGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* * *
101326238 TTATTCAGAAATAATCAG
1 TTATTCAGTAACAGTCAG
101326256 TTATT
1 TTATT
101326261 TTATACATTT
Statistics
Matches: 201, Mismatches: 50, Indels: 28
0.72 0.18 0.10
Matches are distributed among these distances:
17 13 0.06
18 156 0.78
19 16 0.08
21 2 0.01
22 1 0.00
23 2 0.01
26 11 0.05
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAG
Found at i:101326193 original size:72 final size:72
Alignment explanation
Indices: 101326058--101326260 Score: 198
Period size: 72 Copynumber: 2.8 Consensus size: 72
101326048 AATTGATCGG
* * * * ** *
101326058 TTATCCAGTAACAGTCAATTATTTAGTAA-AATCAGA-TATTCAGTAGCAATTAAGTTATTCAGT
1 TTATCCAGTAACAATCAATTATTCAGTAACAGTCA-ATTATTCAGAAATAA-TCAGTTATTCAGT
101326121 AACAGTC-A
64 AACAGTCTA
* * * * * * *
101326129 TTTATTCAGTGACAATCAGTTATTCAGTAA-TGATCATTTATTCAGTAATATTCAGTTATTCAGT
1 -TTATCCAGTAACAATCAATTATTCAGTAACAG-TCAATTATTCAGAAATAATCAGTTATTCAGT
101326193 AACAGTCTA
64 AACAGTCTA
* *
101326202 TTATCCAGTAACAGTCAATTATTCGGTAACAGTCAATTATTCAGAAATAATCAGTTATT
1 TTATCCAGTAACAATCAATTATTCAGTAACAGTCAATTATTCAGAAATAATCAGTTATT
101326261 TTATACATTT
Statistics
Matches: 106, Mismatches: 21, Indels: 8
0.79 0.16 0.06
Matches are distributed among these distances:
72 91 0.86
73 15 0.14
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.37
Consensus pattern (72 bp):
TTATCCAGTAACAATCAATTATTCAGTAACAGTCAATTATTCAGAAATAATCAGTTATTCAGTAA
CAGTCTA
Found at i:101326483 original size:45 final size:45
Alignment explanation
Indices: 101326413--101326525 Score: 172
Period size: 45 Copynumber: 2.5 Consensus size: 45
101326403 AAATCCGGAA
* * *
101326413 CAATAACAGTAACAGTAGCAATATTCAACACACAAAGTGCTGAAT
1 CAATAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAAT
* *
101326458 CAATAACGGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
1 CAATAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAAT
*
101326503 CAGTAACAGTAACAGTAACAGTA
1 CAATAACAGTAACAGTAACAGTA
101326526 ACAGTAGTCG
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 61 1.00
ACGTcount: A:0.45, C:0.20, G:0.16, T:0.19
Consensus pattern (45 bp):
CAATAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAAT
Found at i:101326514 original size:6 final size:6
Alignment explanation
Indices: 101326503--101326531 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
101326493 AGTGCCGAAT
101326503 CAGTAA CAGTAA CAGTAA CAGTAA CAGTA
1 CAGTAA CAGTAA CAGTAA CAGTAA CAGTA
101326532 GTCGGCACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.17
Consensus pattern (6 bp):
CAGTAA
Found at i:101326521 original size:51 final size:50
Alignment explanation
Indices: 101326415--101326558 Score: 149
Period size: 45 Copynumber: 3.0 Consensus size: 50
101326405 ATCCGGAACA
* * * *
101326415 ATAACAGTAACAGTAGCAATATTCAACACACAAAGTGCTGAATC----A-
1 ATAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAAC
*
101326460 ATAACGGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAAC
1 ATAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAAC
* * *
101326510 AGTAACAGTAACAGTAACAGTAGTCGGCACA-TAAGTGCCTG-ATCAGTAA
1 A-TAACAGTAACAGTAACAGTATTCGACACACAAAGTGCC-GAATCAGTAA
101326559 GCCGGCAAAA
Statistics
Matches: 83, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
45 39 0.47
49 1 0.01
50 16 0.19
51 27 0.33
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.19
Consensus pattern (50 bp):
ATAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAAC
Found at i:101326792 original size:2 final size:2
Alignment explanation
Indices: 101326785--101326812 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
101326775 ATTCAATTCA
101326785 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
101326813 CTCAATTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:101327866 original size:15 final size:15
Alignment explanation
Indices: 101327846--101327877 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
101327836 CTTTTCTATC
101327846 TTAATTCATACTTTA
1 TTAATTCATACTTTA
101327861 TTAATTCATACTTTA
1 TTAATTCATACTTTA
101327876 TT
1 TT
101327878 TCTACTCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.12, G:0.00, T:0.56
Consensus pattern (15 bp):
TTAATTCATACTTTA
Found at i:101328318 original size:5 final size:5
Alignment explanation
Indices: 101328310--101328342 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
101328300 TTTATATAAT
101328310 ATATA ATATA ATATA ATATA ATATA ATATA ATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATA
101328343 ACAATTTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:101328483 original size:42 final size:40
Alignment explanation
Indices: 101328427--101328506 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 40
101328417 ATAATTACCA
* *
101328427 TACAATTATTAAAATAATATTATAATATTATTAATATAAAT
1 TACAATTAATAAAATAATAATATAATATTATTAA-ATAAAT
* *
101328468 TACAATATAATAAAATAATAATATAGTCTTATTAAATAA
1 TACAAT-TAATAAAATAATAATATAATATTATTAAATAA
101328507 TACATTCATG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 10 0.29
42 24 0.71
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (40 bp):
TACAATTAATAAAATAATAATATAATATTATTAAATAAAT
Found at i:101330537 original size:15 final size:16
Alignment explanation
Indices: 101330509--101330538 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
101330499 TTTGAGCAAT
101330509 ATTTTATATAATTTTG
1 ATTTTATATAATTTTG
101330525 ATTTTAT-TAATTTT
1 ATTTTATATAATTTT
101330539 AGAGTAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (16 bp):
ATTTTATATAATTTTG
Found at i:101336911 original size:11 final size:11
Alignment explanation
Indices: 101336860--101336911 Score: 50
Period size: 11 Copynumber: 4.7 Consensus size: 11
101336850 TAAAAATTGT
*
101336860 AATAATAATAA
1 AATAATAACAA
*
101336871 AATAGTAACAA
1 AATAATAACAA
* * *
101336882 TATAAGAACGA
1 AATAATAACAA
*
101336893 AATGATAACAA
1 AATAATAACAA
101336904 AATAATAA
1 AATAATAA
101336912 AATAAAAATA
Statistics
Matches: 30, Mismatches: 11, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.65, C:0.06, G:0.08, T:0.21
Consensus pattern (11 bp):
AATAATAACAA
Found at i:101338106 original size:2 final size:2
Alignment explanation
Indices: 101338099--101338141 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
101338089 AAATTTACGT
101338099 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
101338141 T
1 T
101338142 TTCTTCTTTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:101347296 original size:23 final size:22
Alignment explanation
Indices: 101347252--101347297 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
101347242 GAGTTAAAAT
*
101347252 TTAATTAACATGTTATATTAAC
1 TTAATTAACATGTTATAATAAC
101347274 TTAATTAATCATGATT-TAATAAC
1 TTAATTAA-CATG-TTATAATAAC
101347297 T
1 T
101347298 GTATGCTTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 8 0.38
23 11 0.52
24 2 0.10
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.46
Consensus pattern (22 bp):
TTAATTAACATGTTATAATAAC
Found at i:101348001 original size:22 final size:21
Alignment explanation
Indices: 101347966--101348018 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
101347956 ATATGTATAC
* * *
101347966 TAATATTATTTAAATTTAATTA
1 TAATAATATATAAAATT-ATTA
101347988 TAATAATATATAAAATTATTA
1 TAATAATATATAAAATTATTA
*
101348009 TCA-AATATAT
1 TAATAATATAT
101348019 TTTTAATATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 7 0.26
21 6 0.22
22 14 0.52
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
TAATAATATATAAAATTATTA
Found at i:101350251 original size:20 final size:19
Alignment explanation
Indices: 101350183--101350263 Score: 58
Period size: 20 Copynumber: 4.2 Consensus size: 19
101350173 GTATTGTTAT
101350183 TTTTTAATAAAAATTTTATAA
1 TTTTTAAT--AAATTTTATAA
* **
101350204 -TTGTAA-ACTTTTTATAA
1 TTTTTAATAAATTTTATAA
*
101350221 CTTTTTTATAAATTTTATAA
1 -TTTTTAATAAATTTTATAA
* *
101350241 TTTTATAATAATTTTTAAAA
1 TTTT-TAATAAATTTTATAA
101350261 TTT
1 TTT
101350264 AGAAGGGCTT
Statistics
Matches: 46, Mismatches: 10, Indels: 9
0.71 0.15 0.14
Matches are distributed among these distances:
17 9 0.20
19 8 0.17
20 29 0.63
ACGTcount: A:0.40, C:0.02, G:0.01, T:0.57
Consensus pattern (19 bp):
TTTTTAATAAATTTTATAA
Found at i:101352930 original size:18 final size:16
Alignment explanation
Indices: 101352902--101352941 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
101352892 CAATTTTTGT
*
101352902 TAAATTATAATTCTTAA
1 TAAATTATAATTATT-A
101352919 TAAATGTATAATTATTA
1 TAAAT-TATAATTATTA
101352936 TAAATT
1 TAAATT
101352942 CTATTTTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 11 0.52
18 9 0.43
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (16 bp):
TAAATTATAATTATTA
Found at i:101372813 original size:48 final size:49
Alignment explanation
Indices: 101372740--101372865 Score: 166
Period size: 49 Copynumber: 2.6 Consensus size: 49
101372730 TTCTAAAAAT
* * * *
101372740 AATATTATTTTAATAGATTTAATATTTAATTTAATTTAATACTTAT-TTG
1 AATAGTATTTTATTA-ATTTAATATTAAATTTAATATAATACTTATCTTG
*
101372789 AATAGTATTTTATTAATTTAATATTAAATTTAATATAATATTTATCTTG
1 AATAGTATTTTATTAATTTAATATTAAATTTAATATAATACTTATCTTG
*
101372838 -ATAAGTATTATATTAATTTAATATTAAA
1 AAT-AGTATTTTATTAATTTAATATTAAA
101372866 GTGATTAAGT
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
48 29 0.42
49 40 0.58
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (49 bp):
AATAGTATTTTATTAATTTAATATTAAATTTAATATAATACTTATCTTG
Found at i:101372820 original size:12 final size:11
Alignment explanation
Indices: 101372763--101372824 Score: 53
Period size: 12 Copynumber: 5.8 Consensus size: 11
101372753 TAGATTTAAT
101372763 ATTTAAT-TTA
1 ATTTAATATTA
101372773 ATTTAATACTT-
1 ATTTAATA-TTA
*
101372784 ATTTGAATAGT-
1 ATTT-AATATTA
101372795 ATTT--TATTA
1 ATTTAATATTA
101372804 ATTTAATATTAA
1 ATTTAATATT-A
101372816 ATTTAATAT
1 ATTTAATAT
101372825 AATATTTATC
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
8 3 0.07
9 4 0.09
10 7 0.16
11 13 0.30
12 16 0.37
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (11 bp):
ATTTAATATTA
Found at i:101374532 original size:16 final size:18
Alignment explanation
Indices: 101374513--101374554 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
101374503 GACAACTTAC
101374513 ATATAATTT-ATAAT-TA
1 ATATAATTTCATAATATA
*
101374529 ATATAACTTTCATAGTATA
1 ATATAA-TTTCATAATATA
101374548 ATATAAT
1 ATATAAT
101374555 AATTAAGTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 6 0.27
17 3 0.14
18 5 0.23
19 8 0.36
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (18 bp):
ATATAATTTCATAATATA
Found at i:101374778 original size:20 final size:20
Alignment explanation
Indices: 101374746--101374783 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
101374736 TGTTTCACAT
101374746 TCATATAACTAATATTTATA
1 TCATATAACTAATATTTATA
*
101374766 TCAT-TAACATAATTTTTA
1 TCATATAAC-TAATATTTA
101374784 ACTTAATAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (20 bp):
TCATATAACTAATATTTATA
Found at i:101375287 original size:18 final size:18
Alignment explanation
Indices: 101375264--101375304 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
101375254 TACTTTTCTC
101375264 TTTCTA-TCACAATTCCAA
1 TTTCTATTCACAATT-CAA
*
101375282 TTTCTATTCATAATTCAA
1 TTTCTATTCACAATTCAA
101375300 TTTCT
1 TTTCT
101375305 TTTACTCATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.29, C:0.22, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTCTATTCACAATTCAA
Found at i:101375478 original size:39 final size:40
Alignment explanation
Indices: 101375435--101375543 Score: 107
Period size: 38 Copynumber: 2.8 Consensus size: 40
101375425 GATAGTTTGG
*
101375435 AGTAATAGTTGACACCCAGTGTCTCATCG-GCCTAGCCGA
1 AGTAATAGTTGACACCCAGTGTCTCATCGAACCTAGCCGA
** ** * *
101375474 AGTAA-AGTTGGTACCCAGTACCTCATCGAATCTATCCGA
1 AGTAATAGTTGACACCCAGTGTCTCATCGAACCTAGCCGA
*
101375513 AGAAATA-TAGTGACACCCAGTGTCTCATCGA
1 AGTAATAGT--TGACACCCAGTGTCTCATCGA
101375544 CTCGAGGTCG
Statistics
Matches: 54, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
38 19 0.35
39 17 0.31
40 1 0.02
41 17 0.31
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (40 bp):
AGTAATAGTTGACACCCAGTGTCTCATCGAACCTAGCCGA
Found at i:101376838 original size:3 final size:3
Alignment explanation
Indices: 101376830--101376904 Score: 93
Period size: 3 Copynumber: 25.7 Consensus size: 3
101376820 TTAATTTAAA
* *
101376830 AAT AAT AAT AAT AAT AAT -TT AAT AA- AA- AAT ACT AAT AATT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT
*
101376873 AAT AAT AAT AAT GAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
101376905 AATCTTAGAT
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
2 5 0.08
3 55 0.87
4 3 0.05
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:101378447 original size:18 final size:18
Alignment explanation
Indices: 101378421--101378465 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
101378411 GAACACCTAC
*
101378421 AAGCTCATCTAAAACTGT
1 AAGCTCATCCAAAACTGT
*
101378439 GAA-CTCATCCAAAATTGT
1 -AAGCTCATCCAAAACTGT
101378457 AAGCTCATC
1 AAGCTCATC
101378466 AAATGTGCGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 19 0.83
19 2 0.09
ACGTcount: A:0.38, C:0.24, G:0.11, T:0.27
Consensus pattern (18 bp):
AAGCTCATCCAAAACTGT
Found at i:101379138 original size:26 final size:26
Alignment explanation
Indices: 101379109--101379162 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
101379099 CTTCACGCTT
101379109 AAGATTGTAGTTGTTAACTTACTGCA
1 AAGATTGTAGTTGTTAACTTACTGCA
*
101379135 AAGATTGTAGTTGTTAACTTGCTGCA
1 AAGATTGTAGTTGTTAACTTACTGCA
101379161 AA
1 AA
101379163 CTTTCGGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.37
Consensus pattern (26 bp):
AAGATTGTAGTTGTTAACTTACTGCA
Found at i:101380239 original size:109 final size:107
Alignment explanation
Indices: 101380114--101380777 Score: 721
Period size: 107 Copynumber: 6.2 Consensus size: 107
101380104 TTGGTATACT
* *
101380114 AAATACGAGTTTAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCTAGTACAACAAA
1 AAATACAAGTTTAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAA-AAA
*
101380179 AAAAAAGTTCGATTTTTTTTCAAAAAAATTTTTTTTGCTCTTTAA
65 AAAAAA-TTCGATTTTTTTTCAAAAAAATTTTTTTT-CTCTCTAA
* *
101380224 AAATACAAG-TTAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAATAC-AATAA
1 AAATACAAGTTTAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAAAAA
* * **
101380287 AAAAATTCAAATTTTTTGTCAAAAAAA---AATTTCTCTCTAA
66 AAAAATTC-GATTTTTTTTCAAAAAAATTTTTTTTCTCTCTAA
* * *
101380327 AAATACAAGTTTTAAAAAAAAA-ATT-GATGCTGGCCTGTCAATGGCCGGCACCCAGTACAACAA
1 AAATACAAG-TTTAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAAAA
**
101380390 AAAAAATTCGATTTTTTTTCAAAAAAA---AATTTCTCTCTAA
65 AAAAAATTCGATTTTTTTTCAAAAAAATTTTTTTTCTCTCTAA
* * *
101380430 AAATACGAGTTTAAAAAAAAAAATTTTTGGGTGCTAGCCTGTCAATGGCCGGCACCCAGTGCAAA
1 AAATACAAGTTT--AAAAAAAAA-TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAA
* * * * *
101380495 AAGAAAAAGTCAATTTTTTTTCAAAAAATATTTTTTTGCTCTCTTA
63 AAAAAAAATTCGATTTTTTTTCAAAAAA-ATTTTTTTTCTCTCTAA
** * * *
101380541 AAATACTTGTTTTAAAAAAAAATTTTGGGTGCTGGCCTATCAATGGACGGCTCCCAGTAC--AAA
1 AAATACAAG-TTTAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAAAA
*
101380604 AAAAAATTTGAATTTTTTTTCAAAAAAATTTTTTTTTCTCTCTAA
65 AAAAAATTCG-ATTTTTTTTCAAAAAAA-TTTTTTTTCTCTCTAA
* * * * * * *
101380649 AAATACGAGTTTTAAAAAAAAA-ATT-GGTTCTGGCCTATCAATTGCCGGCACCTAGTACAATAA
1 AAATACAAG-TTTAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAAAA
* ** *
101380712 AAAAAA-TCGAATTTTTTTCAAAAAAAAATTTTTTCTCTAT-A
65 AAAAAATTCGATTTTTTTTCAAAAAAATTTTTTTTCTCTCTAA
**
101380753 AAATACGACTTTTAAAAAAAAATTT
1 AAATAC-AAGTTTAAAAAAAAATTT
101380778 GGTGCTAACA
Statistics
Matches: 474, Mismatches: 60, Indels: 45
0.82 0.10 0.08
Matches are distributed among these distances:
102 3 0.01
103 84 0.18
104 44 0.09
105 23 0.05
106 49 0.10
107 95 0.20
108 60 0.13
109 80 0.17
110 17 0.04
111 16 0.03
112 3 0.01
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (107 bp):
AAATACAAGTTTAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAAAAA
AAAAATTCGATTTTTTTTCAAAAAAATTTTTTTTCTCTCTAA
Found at i:101380511 original size:107 final size:106
Alignment explanation
Indices: 101380114--101380833 Score: 709
Period size: 103 Copynumber: 6.8 Consensus size: 106
101380104 TTGGTATACT
*
101380114 AAATACGAGTTT-AAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCTAGTACAACAA
1 AAATACGAGTTTAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAC-A
* ** *
101380178 AAAAAAAGTTCGATTTTTTTTCAAAAAAATTTTTTTTGCTCTTTAA
65 AAAAAAA-TTCAATTTTTTTTCAAAAAAA--TAATTT-CTCTCTAA
* * *
101380224 AAATACAAG-TT-AAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAATACAA-TA
1 AAATACGAGTTTAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAACAA
*
101380286 AAAAAATTCAAATTTTTTGTCAAAAAAA-AATTTCTCTCTAA
66 AAAAAATTC-AATTTTTTTTCAAAAAAATAATTTCTCTCTAA
* *
101380327 AAATACAAGTTTTAAAAAAAAAA--TT-GATGCTGGCCTGTCAATGGCCGGCACCCAGTACAACA
1 AAATACGAG-TTTAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAACA
*
101380389 AAAAAAATTCGATTTTTTTTCAAAAAAA-AATTTCTCTCTAA
65 AAAAAAATTCAATTTTTTTTCAAAAAAATAATTTCTCTCTAA
* *
101380430 AAATACGAGTTTAAAAAAAAAAATTTTTGGGTGCTAGCCTGTCAATGGCCGGCACCCAGTGCAA-
1 AAATACGAGTTT-AAAAAAAAAA-TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAC
* ** *
101380494 AAAGAAAAAGTCAATTTTTTTTCAAAAAATATTTTTTTGCTCTCTTA
64 AAA-AAAAATTCAATTTTTTTTCAAAAAA-A-TAATTT-CTCTCTAA
** * * * *
101380541 AAATACTTGTTTTAAAAAAAAATTTTGGGTGCTGGCCTATCAATGGACGGCTCCCAGTACAA-AA
1 AAATACGAGTTTAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAACAA
* * **
101380605 AAAAATTTGAATTTTTTTTCAAAAAAATTTTTTTTTCTCTCTAA
66 AAAAAATTCAATTTTTTTTCAAAAAAA---TAATTTCTCTCTAA
* * * * *
101380649 AAATACGAGTTTTAAAAAAAAAA--TT-GGTTCTGGCCTATCAATTGCCGGCACCTAGTACAATA
1 AAATACGAG-TTTAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAACA
*
101380711 AAAAAAA-TCGAA-TTTTTTTCAAAAAAA-AATTTTTTCTCTATA
65 AAAAAAATTC-AATTTTTTTTCAAAAAAATAA-TTTCTCTCTA-A
* * ** *
101380753 AAATACGACTTTTAAAAAAAAA-TTT--G-G-T-G-CTAAC-A-GGCCGACACCCAGTACAACAA
1 AAATACGAGTTTAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAACAA
**
101380809 AAAAAATTCAAAATTTTTTCAAAAA
66 AAAAAATTCAATTTTTTTTCAAAAA
101380834 TTTTTTTTTT
Statistics
Matches: 528, Mismatches: 57, Indels: 62
0.82 0.09 0.10
Matches are distributed among these distances:
97 25 0.05
98 15 0.03
99 4 0.01
100 1 0.00
101 1 0.00
102 3 0.01
103 118 0.22
104 26 0.05
105 2 0.00
106 63 0.12
107 90 0.17
108 37 0.07
109 106 0.20
110 20 0.04
111 17 0.03
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.31
Consensus pattern (106 bp):
AAATACGAGTTTAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAACAA
AAAAAATTCAATTTTTTTTCAAAAAAATAATTTCTCTCTAA
Found at i:101381073 original size:12 final size:12
Alignment explanation
Indices: 101381056--101381081 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
101381046 TTAGAGAGTA
101381056 AAAAAAAATTTG
1 AAAAAAAATTTG
101381068 AAAAAAAATTTG
1 AAAAAAAATTTG
101381080 AA
1 AA
101381082 TTTTTTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (12 bp):
AAAAAAAATTTG
Found at i:101381187 original size:112 final size:110
Alignment explanation
Indices: 101380916--101381494 Score: 541
Period size: 112 Copynumber: 5.2 Consensus size: 110
101380906 TGTTTTCAAA
* *
101380916 TTTTTTTTAAAACTCGTATTTTTAGAGAGCAAAAAAATTTTTTTTGAAAAAAAATTTGAA-TTTT
1 TTTTTTTTAAAACTCGTATTTTTAAAGAGCAAAAAAAATTTTTTTG--AAAAAATTTGAATTTTT
** * * *
101380980 TTTTGTCATGCTGGGTGCCGACCATTGACAGGCCAGCA-CC-TAAAT
64 TTTTGTTGTACTGGGTGTCGACCATTGACAGGCCAGCACCCAAAAAT
* * * ***
101381025 TTTTTTTTAAAACTCGTATTTTTAGAGAGTAAAAAAAA-ATTTGAAAAAAAATTTGAATTTTTTT
1 TTTTTTTTAAAACTCGTATTTTTAAAGAGCAAAAAAAATTTTTTTGAAAAAATTTGAATTTTTTT
*
101381089 TTGTTGTACTGGGTGTCGACCATTGACAGACCAGCACCCAAAAAAACT
66 TTGTTGTACTGGGTGTCGACCATTGACAGGCCAGCACCC--AAAAA-T
* **
101381137 TTTTTTTTAAAACTAGTATTTTTTTAGAGCAAAAAAAATTTTTTTGAAAAAAAATTAT-AATTTT
1 TTTTTTTTAAAACTCGTATTTTTAAAGAGCAAAAAAAATTTTTTTG--AAAAAATT-TGAATTTT
* * * ***
101381201 TTTTTGTTGTACTGGGTGTTGGCCATTGACAGGCTAGCACCCAATTTTT
63 TTTTTGTTGTACTGGGTGTCGACCATTGACAGGCCAGCACCCAA-AAAT
* * * * * *
101381250 TTTTTTTTAAAAGTTGTATTTTTAAATAGCAAAAAAAA---ATTTGAAAAAAAATTAAATTTTTT
1 TTTTTTTTAAAACTCGTATTTTTAAAGAGCAAAAAAAATTTTTTTG-AAAAAATTTGAA-TTTTT
* *
101381312 TTTTGTTGTACTGGGT-TCTGAGCATTGACAGGCCTGCACCC-AAAAT
64 TTTTGTTGTACTGGGTGTC-GACCATTGACAGGCCAGCACCCAAAAAT
* * * * *
101381358 TTTTTTTT-TAACTCGTATTGTTAAAGAGCAACAAAAATTTTTTTTGAAAAAAAAATCGAATTTT
1 TTTTTTTTAAAACTCGTATTTTTAAAGAGCAA-AAAAAATTTTTTTG--AAAAAATTTGAATTTT
* * ** *
101381422 TTTTGTGTTGTGCTGGGTGCCGGTCATTGACAGGCCAGCACCCAAAAAAAA
63 TTTT-TGTTGTACTGGGTGTCGACCATTGACAGGCCAGCACCC--AAAAAT
*
101381473 TTTTTTTTGAAACTCGTATTTT
1 TTTTTTTTAAAACTCGTATTTT
101381495 GTATACCAAT
Statistics
Matches: 386, Mismatches: 59, Indels: 43
0.79 0.12 0.09
Matches are distributed among these distances:
106 12 0.03
107 55 0.14
108 20 0.05
109 48 0.12
110 43 0.11
111 15 0.04
112 77 0.20
113 40 0.10
115 64 0.17
116 12 0.03
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (110 bp):
TTTTTTTTAAAACTCGTATTTTTAAAGAGCAAAAAAAATTTTTTTGAAAAAATTTGAATTTTTTT
TTGTTGTACTGGGTGTCGACCATTGACAGGCCAGCACCCAAAAAT
Found at i:101381232 original size:222 final size:218
Alignment explanation
Indices: 101380916--101381494 Score: 700
Period size: 225 Copynumber: 2.6 Consensus size: 218
101380906 TGTTTTCAAA
*
101380916 TTTTTTTTAAAACTCGTATTTTTAGAGAGCAAAAAAATTTTTTTTGAAAAAAAATTTGAA-TTTT
1 TTTTTTTTAAAACTCGTATTTTTAAAGAGCAAAAAAATTTTTTTTGAAAAAAAATTT-AATTTTT
** * *
101380980 TTTTGTCATGCTGGGTGCCGACCATTGACAGGCCAGCACCTAA-ATTTTTTTTTAAAACTCGTAT
65 TTTTGTTGTGCTGGGTGCCGGCCATTGACAGGCCAGCACCCAATATTTTTTTTTAAAACTCGTAT
* * *
101381044 TTTTAGAGAGTAAAAAAAAATTTGAAAAAAAATTTGAA-TTTTTTTTTGTTGTACTGGGTGTC-G
130 TTTTAAAGAGCAAAAAAAAATTTGAAAAAAAA-TTAAATTTTTTTTTTGTTGTACTGGGT-TCTG
101381107 ACCATTGACAGACCAGCACCCAAAAAAACT
193 ACCATTGACAGACCAGCACCC---AAAA-T
* ** *
101381137 TTTTTTTTAAAACTAGTATTTTTTTAGAGCAAAAAAAATTTTTTTGAAAAAAAATTATAATTTTT
1 TTTTTTTTAAAACTCGTATTTTTAAAGAGCAAAAAAATTTTTTTTGAAAAAAAATT-TAATTTTT
* ** * * * *
101381202 TTTTGTTGTACTGGGTGTTGGCCATTGACAGGCTAGCACCCAATTTTTTTTTTTTTAAAAGTTGT
65 TTTTGTTGTGCTGGGTGCCGGCCATTGACAGGCCAGCACCCAA--TATTTTTTTTTAAAACTCGT
*
101381267 ATTTTTAAATAGCAAAAAAAAATTTGAAAAAAAATTAAATTTTTTTTTTGTTGTACTGGGTTCTG
128 ATTTTTAAAGAGCAAAAAAAAATTTGAAAAAAAATTAAATTTTTTTTTTGTTGTACTGGGTTCTG
* * *
101381332 AGCATTGACAGGCCTGCACCCAAAAT
193 ACCATTGACAGACCAGCACCCAAAAT
* * **
101381358 TTTTTTTT-TAACTCGTATTGTTAAAGAGCAACAAAAATTTTTTTTGAAAAAAAAATCGAATTTT
1 TTTTTTTTAAAACTCGTATTTTTAAAGAGCAA-AAAAATTTTTTTTG-AAAAAAAATTTAATTTT
* * * *
101381422 TTTTGTGTTGTGCTGGGTGCCGGTCATTGACAGGCCAGCACCCAAAAAAAATTTTTTTTGAAACT
64 TTTT-TGTTGTGCTGGGTGCCGGCCATTGACAGGCCAGCACCC---AATATTTTTTTTTAAAACT
101381487 CGTATTTT
125 CGTATTTT
101381495 GTATACCAAT
Statistics
Matches: 304, Mismatches: 41, Indels: 24
0.82 0.11 0.07
Matches are distributed among these distances:
220 18 0.06
221 86 0.28
222 86 0.28
223 19 0.06
224 6 0.02
225 89 0.29
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (218 bp):
TTTTTTTTAAAACTCGTATTTTTAAAGAGCAAAAAAATTTTTTTTGAAAAAAAATTTAATTTTTT
TTTGTTGTGCTGGGTGCCGGCCATTGACAGGCCAGCACCCAATATTTTTTTTTAAAACTCGTATT
TTTAAAGAGCAAAAAAAAATTTGAAAAAAAATTAAATTTTTTTTTTGTTGTACTGGGTTCTGACC
ATTGACAGACCAGCACCCAAAAT
Found at i:101384539 original size:109 final size:111
Alignment explanation
Indices: 101384264--101385197 Score: 731
Period size: 109 Copynumber: 8.3 Consensus size: 111
101384254 ATTGGCATAC
* * *
101384264 AAAATACGAG-TTT-AAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCTGGCACCCAGTACAAC
1 AAAATACAAGTTTTAAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAC
* * *
101384327 AAAAAACAAAATTTGATTTTTTTTTCAAAAAAATTTTTTTTGCTCTTTA
66 AAAAAA-AAAATTCGA-ATTTTTTTC-AAAAAATTTTTTTTGCTCTCTA
* * * *
101384376 AAAAAACAAG--TTAAAAAAAAAAATTTTGGGTTCTGGCCTGTCAATGGCCGGCACCCAATAAAA
1 AAAATACAAGTTTTAAAAAAAAAAA-TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAA
** *
101384439 CAAAAAAAAAATTCGAATTTTTTTC-AAATTTTTTTTTTACTCTCTA
65 CAAAAAAAAAATTCGAATTTTTTTCAAAAAATTTTTTTTGCTCTCTA
* * * ** *
101384485 AAAATACAAGTTTTAAAAAAAAAAAATT-AGTGCTGGCTTGTCAATGGCTTGCACCTAAG-ACAA
1 AAAATACAAGTTTTAAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACC-CAGTACAA
* * *** *
101384548 CAAAAAGAAAATTCAAATTATTTTTCAAAAACA-AAATTTTGTTCTCTA
65 CAAAAAAAAAATTCGAATT-TTTTTCAAAAA-ATTTTTTTTGCTCTCTA
* * * * *
101384596 AAAATACGAGCTTTAAAAAAAAAATTTTTGGATGCTGGCCTGTCACTGGCCGGCACCCAGTACAA
1 AAAATACAAGTTTTAAAAAAAAAA-ATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAA
101384661 C--AAAAAAAATTCGAAATTTTTTTCAAAAAATTTTTTTTGCTCTCTA
65 CAAAAAAAAAATTCG-AATTTTTTTCAAAAAATTTTTTTTGCTCTCTA
* * *
101384707 AAAATACGAGTTTT--AAAAAAAATTTTGGGTGCTGGCCTGTCAATGACCGGCACCCAGTACAAC
1 AAAATACAAGTTTTAAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAC
**
101384770 -AAAAAAAAATT-GAATTTTTTAAAAAAAATTTTGAATTTT--T-T-TA
66 AAAAAAAAAATTCGAATTTTTTTCAAAAAATTTT---TTTTGCTCTCTA
* *
101384813 AAAA-AAAATTTTGCTCTCTAAAAATATAAGTTTAAAAAAAAAATTTTTGGGTGCTGGCTTGTCA
1 AAAATACAA----G---T-T-----T-T-A----AAAAAAAAAA-TT-TGGGTGCTGGCCTGTCA
** * *
101384877 ATGGCCGGCACCC---ACTGCAAAAAAAAAAGTC-AATTTTTTTTACAAAAAATATTTTTTGCTC
45 ATGGCCGGCACCCAGTACAACAAAAAAAAAATTCGAA-TTTTTTT-CAAAAAATTTTTTTTGCTC
*
101384938 TCTG
108 TCTA
** ** ** ** *
101384942 AAAATACTTGTTTTAAAAAAAAACTTTTTTTTTTGTGCTGGCCTGTCAATGGTTGGCACCCAATA
1 AAAATACAAGTTTTAAAAAAAAA----AATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTA
* *
101385007 CAAC--AAAAAGAATTCGAATTTTCTTTCAAAAATTTTTTTTTGCTCTCTA
62 CAACAAAAAAAAAATTCGAATTTT-TTTCAAAAAATTTTTTTTGCTCTCTA
* ** * * *
101385056 AAAAT--AAGATTTTTAAAAAAAAAA-TTAAGTGTTGGCCTATTAATGGCCGGCACCCAGTACAA
1 AAAATACAAG-TTTTAAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAA
* *
101385118 C-AAAAAAAAATTCAAATTTTTTTTAAAAAATTTTTTTTGCTCTCTA
65 CAAAAAAAAAATTCGAATTTTTTTCAAAAAATTTTTTTTGCTCTCTA
*
101385164 AAAATACGAGTTTT-AAAAAAAAAATTTGGGTGCT
1 AAAATACAAGTTTTAAAAAAAAAAATTTGGGTGCT
101385198 TGCTTGTGGA
Statistics
Matches: 654, Mismatches: 105, Indels: 129
0.74 0.12 0.15
Matches are distributed among these distances:
105 2 0.00
106 6 0.01
107 19 0.03
108 110 0.17
109 113 0.17
110 16 0.02
111 111 0.17
112 35 0.05
113 106 0.16
114 40 0.06
115 6 0.01
116 4 0.01
117 1 0.00
118 1 0.00
119 1 0.00
122 1 0.00
123 1 0.00
125 7 0.01
126 21 0.03
127 9 0.01
128 38 0.06
129 5 0.01
130 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (111 bp):
AAAATACAAGTTTTAAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAC
AAAAAAAAAATTCGAATTTTTTTCAAAAAATTTTTTTTGCTCTCTA
Found at i:101384619 original size:111 final size:111
Alignment explanation
Indices: 101384264--101385188 Score: 464
Period size: 108 Copynumber: 8.2 Consensus size: 111
101384254 ATTGGCATAC
* * * * *
101384264 AAAATACGAG-TTT-AAAAAAAAAT-TTTGGGTGCTGGCCTGTCAATGGCTGGCACCCAGTACAA
1 AAAATACGAGTTTTAAAAAAAAAATAATTAGATGCTGGCCTGTCAATGGCCGGCACCAAGTACAA
* ** *** *
101384326 CAAAAAACAAAATTTGATTTTTTTTTCAAAAAAATTTTTTTTGCTCTTTA
66 C--AAAA-AAAATTCGAAATTTTTTTC-AAAAAATAAATTTTGCTCTCTA
* * * * * * * *
101384376 AAAAAACAAG-TTAAAAAAAAAAAT-TTTGGGTTCTGGCCTGTCAATGGCCGGCACCCAA-TAAA
1 AAAATACGAGTTTTAAAAAAAAAATAATTAGATGCTGGCCTGTCAATGGCCGGCA-CCAAGTACA
** *** *
101384438 ACAAAAAAAAAATTCG-AATTTTTTTC-AAATTTTTTTTTTACTCTCTA
65 AC--AAAAAAAATTCGAAATTTTTTTCAAAAAATAAATTTTGCTCTCTA
* * **
101384485 AAAATACAAGTTTTAAAAAAAAAA-AATTAG-TGCTGGCTTGTCAATGGCTTGCACCTAAG-ACA
1 AAAATACGAGTTTTAAAAAAAAAATAATTAGATGCTGGCCTGTCAATGGCCGGCACC-AAGTACA
*
101384547 ACAAAAAGAAAATTC-AAATTATTTTTCAAAAACA-AAATTTTGTTCTCTA
65 AC-AAAA-AAAATTCGAAATT-TTTTTCAAAAA-ATAAATTTTGCTCTCTA
* ** * * *
101384596 AAAATACGAGCTTTAAAAAAAAAATTTTTGGATGCTGGCCTGTCACTGGCCGGCACCCAGTACAA
1 AAAATACGAGTTTTAAAAAAAAAATAATTAGATGCTGGCCTGTCAATGGCCGGCACCAAGTACAA
***
101384661 CAAAAAAAATTCGAAATTTTTTTCAAAAAATTTTTTTTGCTCTCTA
66 CAAAAAAAATTCGAAATTTTTTTCAAAAAATAAATTTTGCTCTCTA
* * * * *
101384707 AAAATACGAGTTTT--AAAAAAAAT-TTTGGGTGCTGGCCTGTCAATGACCGGCACCCAGTACAA
1 AAAATACGAGTTTTAAAAAAAAAATAATTAGATGCTGGCCTGTCAATGGCCGGCACCAAGTACAA
** * ** ****
101384769 CAAAAAAAAATT-G-AATTTTTTAAAAAAAATTTTGAATTTTTTTAAAAA
66 C-AAAAAAAATTCGAAATTTTTTTCAAAAAA---TAAATTTTGCTCTCTA
** * ** * * *
101384817 AAAATTTTGCTCTCTAAAAATATAAGTTTAAAAAAAAAATTTTTGGGTGCTGGCTTGTCAATGGC
1 AAAA----------TACGA--GT---TTTAAAAAAAAAATAATTAGATGCTGGCCTGTCAATGGC
* * * * * ** *
101384882 CGGCACCCACTGCAA-AAAAAAAAGTC-AATTTTTTTTACAAAAAATATTTTTTGCTCTCTG
51 CGGCACCAAGTACAACAAAAAAAATTCGAAATTTTTTT-CAAAAAATAAATTTTGCTCTCTA
** * ** * **
101384942 AAAATACTTGTTTTAAAAAAAAACTTTTTTTTTTG-TGCTGGCCTGTCAATGGTTGGCACCCAA-
1 AAAATACGAGTTTTAAAAAAAAA----ATAATTAGATGCTGGCCTGTCAATGGCCGGCA-CCAAG
* * ***
101385005 TACAACAAAAAGAATTCG-AATTTTCTTTCAAAAATTTTTTTTTGCTCTCTA
61 TACAACAAAAAAAATTCGAAATTTT-TTTCAAAAAATAAATTTTGCTCTCTA
* * * * * * *
101385056 AAAATAAGATTTTTAAAAAAAAAAT--TAAG-TGTTGGCCTATTAATGGCCGGCACCCAGTACAA
1 AAAATACGAGTTTTAAAAAAAAAATAATTAGATGCTGGCCTGTCAATGGCCGGCACCAAGTACAA
* ***
101385118 CAAAAAAAAATTC-AAATTTTTTTTAAAAAATTTTTTTTGCTCTCTA
66 C-AAAAAAAATTCGAAATTTTTTTCAAAAAATAAATTTTGCTCTCTA
101385164 AAAATACGAGTTTTAAAAAAAAAAT
1 AAAATACGAGTTTTAAAAAAAAAAT
101385189 TTGGGTGCTT
Statistics
Matches: 646, Mismatches: 115, Indels: 108
0.74 0.13 0.12
Matches are distributed among these distances:
107 17 0.03
108 118 0.18
109 97 0.15
110 46 0.07
111 85 0.13
112 31 0.05
113 99 0.15
114 65 0.10
115 5 0.01
120 3 0.00
122 1 0.00
125 13 0.02
126 9 0.01
127 16 0.02
128 41 0.06
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.33
Consensus pattern (111 bp):
AAAATACGAGTTTTAAAAAAAAAATAATTAGATGCTGGCCTGTCAATGGCCGGCACCAAGTACAA
CAAAAAAAATTCGAAATTTTTTTCAAAAAATAAATTTTGCTCTCTA
Found at i:101384619 original size:222 final size:221
Alignment explanation
Indices: 101384292--101385187 Score: 644
Period size: 222 Copynumber: 4.0 Consensus size: 221
101384282 AAAATTTTGG
* ** * *
101384292 GTGCTGGCCTGTCAATGGCTGGCACCCAGTACAACAAAAAACAAAATTTGATTTTTTTTTCAAAA
1 GTGCTGGCCTGTCAATGGCTGGCACCAAGTACAACAAAAAACAAAATTCAAATTATTTTTCAAAA
* * * *
101384357 AAATTTTTTTTGCTCTTTAAAAAAACAAGTTAAAAAAAAAAATTTTGGGTTCTGGCCTGTCAATG
66 AAAATTTTGTTGCTC-TTAAAAAAACAAGTTAAAAAAAAAAATTTTGGATGCTGGCCTGTCAATG
**
101384422 GCCGGCACCCAATAAAACAAAAAAAAAATTCG-AATTTTTTTC-AAATTTTTTTTTTACTCTCTA
130 GCCGGCACCCAATAAAAC--AAAAAAAATTCGAAATTTTTTTCAAAAAATTTTTTTTACTCTCTA
101384485 AAAATACAAGTTTTAAAAAAAAAAAATTA
193 AAAATACAAGTTTTAAAAAAAAAAAATTA
* * *
101384514 GTGCTGGCTTGTCAATGGCTTGCACCTAAG-ACAAC-AAAAAGAAAATTCAAATTATTTTTCAAA
1 GTGCTGGCCTGTCAATGGCTGGCACC-AAGTACAACAAAAAACAAAATTCAAATTATTTTTC-AA
* * *
101384577 AACAAAATTTTGTT-CTC-TAAAAATACGAGCTTTAAAAAAAAAATTTTTGGATGCTGGCCTGTC
64 AA-AAAATTTTGTTGCTCTTAAAAAAACAAG--TTAAAAAAAAAAATTTTGGATGCTGGCCTGTC
* * * *
101384640 ACTGGCCGGCACCCAGTACAACAAAAAAAATTCGAAATTTTTTTCAAAAAATTTTTTTTGCTCTC
126 AATGGCCGGCACCCAATAAAACAAAAAAAATTCGAAATTTTTTTCAAAAAATTTTTTTTACTCTC
* ** *
101384705 TAAAAATACGAGTTTT--AAAAAAAATTTTGG
191 TAAAAATACAAGTTTTAAAAAAAAAAAATT-A
* * * * *
101384735 GTGCTGGCCTGTCAATGACCGGCACCCAGTACAACAAAAAAAAATTGAATTTTTTAAAAAAAATT
1 GTGCTGGCCTGTCAATGGCTGGCACCAAGTACAACAAAAAACAA---AA----TT----CAAA--
* *** ** * * * *
101384800 TTGAATTTTTTTAAAAAAAAATT-TTGCTCTCTAAAAATATAAGTTTAAAAAAAAAATTTTTGGG
53 TT-ATTTTTCAAAAA-AAATTTTGTTGCTCT-TAAAAAAACAAG-TTAAAAAAAAAAATTTTGGA
* * ** * *
101384864 TGCTGGCTTGTCAATGGCCGGCACCCACTGCAA-AAAAAAAAGTC-AATTTTTTTTACAAAAAAT
114 TGCTGGCCTGTCAATGGCCGGCACCCAATAAAACAAAAAAAATTCGAAATTTTTTT-CAAAAAAT
* * * ** *** *
101384927 ATTTTTTGCTCTCTGAAAATACTTGTTTTAAAAAAAAACTTTTTTTTTT
178 TTTTTTTACTCTCTAAAAATACAAGTTTTAAAAAAAAA-----AAATTA
* * *
101384976 GTGCTGGCCTGTCAATGGTTGGCACCCAA-TACAAC--AAAA-AGAATTCGAATT-TTCTTTC-A
1 GTGCTGGCCTGTCAATGGCTGGCA-CCAAGTACAACAAAAAACAAAATTCAAATTATT-TTTCAA
** * * ** * ** * * *
101385035 AAAATTTTTTTTTGCTCTCTAAAAATAAGATTTTTAAAAAAAAAA-TTAAG-TGTTGGCCTATTA
64 AAAAAATTTTGTTGCTCT-TAAAAA-AACAAGTTAAAAAAAAAAATTTTGGATGCTGGCCTGTCA
* * * *
101385098 ATGGCCGGCACCCAGTACAACAAAAAAAAATTC-AAATTTTTTTTAAAAAATTTTTTTTGCTCTC
127 ATGGCCGGCACCCAATAAAAC-AAAAAAAATTCGAAATTTTTTTCAAAAAATTTTTTTTACTCTC
*
101385162 TAAAAATACGAGTTTTAAAAAAAAAA
191 TAAAAATACAAGTTTTAAAAAAAAAA
101385188 TTTGGGTGCT
Statistics
Matches: 543, Mismatches: 89, Indels: 89
0.75 0.12 0.12
Matches are distributed among these distances:
220 34 0.06
221 84 0.15
222 169 0.31
223 59 0.11
224 5 0.01
225 4 0.01
227 2 0.00
229 2 0.00
231 2 0.00
233 3 0.01
234 12 0.02
235 57 0.10
236 54 0.10
237 17 0.03
238 1 0.00
239 4 0.01
241 27 0.05
242 7 0.01
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (221 bp):
GTGCTGGCCTGTCAATGGCTGGCACCAAGTACAACAAAAAACAAAATTCAAATTATTTTTCAAAA
AAAATTTTGTTGCTCTTAAAAAAACAAGTTAAAAAAAAAAATTTTGGATGCTGGCCTGTCAATGG
CCGGCACCCAATAAAACAAAAAAAATTCGAAATTTTTTTCAAAAAATTTTTTTTACTCTCTAAAA
ATACAAGTTTTAAAAAAAAAAAATTA
Found at i:101384796 original size:21 final size:21
Alignment explanation
Indices: 101384770--101384822 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
101384760 CCAGTACAAC
101384770 AAAAAAAAATTGAATTTTTTA
1 AAAAAAAAATTGAATTTTTTA
** *
101384791 AAAAAAATTTTGAATTTTTTT
1 AAAAAAAAATTGAATTTTTTA
101384812 AAAAAAAAATT
1 AAAAAAAAATT
101384823 TTGCTCTCTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.40
Consensus pattern (21 bp):
AAAAAAAAATTGAATTTTTTA
Found at i:101384818 original size:128 final size:127
Alignment explanation
Indices: 101384662--101384904 Score: 330
Period size: 128 Copynumber: 1.9 Consensus size: 127
101384652 CCAGTACAAC
*** * *
101384662 AAAAAAAATTCGAAATTTTTTTCAAAAAATTTTTTTTGCTCTCTAAAAATACGAGTTT-TAAAAA
1 AAAAAAAATTCGAAATTTTTTT-AAAAAA-AAATTTTGCTCTCTAAAAATACAAGTTTAAAAAAA
*
101384726 AAA-TTTTGGGTGCTGGCCTGTCAATGACCGGCACCCAGTACAACAAAAAAAAATTGAATTTTTT
64 AAATTTTTGGGTGCTGGCCTGTCAATGACCGGCACCCACTACAA-AAAAAAAAATTGAATTTTTT
* *
101384790 AAAAAAAATTTTG-AATTTTTTTAAAAAAAAATTTTGCTCTCTAAAAATATAAGTTTAAAAAAAA
1 AAAAAAAA-TTCGAAATTTTTTTAAAAAAAAATTTTGCTCTCTAAAAATACAAGTTTAAAAAAAA
* * *
101384854 AATTTTTGGGTGCTGGCTTGTCAATGGCCGGCACCCACTGCAAAAAAAAAA
65 AATTTTTGGGTGCTGGCCTGTCAATGACCGGCACCCACTACAAAAAAAAAA
101384905 GTCAATTTTT
Statistics
Matches: 101, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
126 23 0.23
127 22 0.22
128 53 0.52
129 3 0.03
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (127 bp):
AAAAAAAATTCGAAATTTTTTTAAAAAAAAATTTTGCTCTCTAAAAATACAAGTTTAAAAAAAAA
ATTTTTGGGTGCTGGCCTGTCAATGACCGGCACCCACTACAAAAAAAAAAATTGAATTTTTT
Found at i:101384870 original size:349 final size:346
Alignment explanation
Indices: 101384473--101385151 Score: 841
Period size: 349 Copynumber: 1.9 Consensus size: 346
101384463 CAAATTTTTT
**
101384473 TTTTACTCTCTAAAAATACAAGTTTTAAAAAAAAAAAATTAGTGCTGGCTTGTCAATGGCTTGCA
1 TTTTACTCTCTAAAAATACAAGTTTTAAAAAAAAAAAATTAGTGCTGGCTTGTCAATGGCCGGCA
* * *
101384538 CCTA-AGACAACAAAAAGAAAATTCAAATTATTTTT-CAAAAACA-AAATTTTGTTCTCTAAAAA
66 CCCACAG-C-A-AAAAA-AAAAGTC-AATTATTTTTACAAAAA-ATAAATTTTGCTCTCTAAAAA
* *
101384600 TACGAGCTTTAAAAAAAAA-ATTTTTGGATGCTGGCCTGTCACTGGCCGGCACCCAGTACAACAA
125 TACGAGCTTTAAAAAAAAATATTTTTGG-TGCTGGCCTGTCAATGGCCGGCACCCAATACAACAA
*
101384664 AAAAAATTCGAAATTTT-TTTCAAAAAATTTTTTTTGCTCTCTAAAAATACGAGTTTTAAAAAAA
189 AAAAAATTCG-AATTTTCTTTCAAAAAATTTTTTTTGCTCTCTAAAAATAAGAGTTTTAAAAAAA
** ** * *
101384728 ATTTTGGGTGCTGGCCTGTCAATGACCGGCACCCAGTACAACAAAAAAAAATT-GAATTTTTTAA
253 AAATTAAGTGCTGGCCTATCAATGACCGGCACCCAGTACAACAAAAAAAAATTCAAATTTTTTAA
101384792 AAAAAATTTTGAATTTTTTTAAAAAAAAA
318 AAAAAATTTTGAATTTTTTTAAAAAAAAA
* * ** *
101384821 TTTTGCTCTCTAAAAATATAAG-TTTAAAAAAAAAATTTTTGGGTGCTGGCTTGTCAATGGCCGG
1 TTTTACTCTCTAAAAATACAAGTTTTAAAAAAAAAA-AATT-AGTGCTGGCTTGTCAATGGCCGG
* * ** * *
101384885 CACCCACTGCAAAAAAAAAAGTCAATTTTTTTTACAAAAAATATTTTTTGCTCTCTGAAAATACT
64 CACCCACAGCAAAAAAAAAAGTCAATTATTTTTACAAAAAATAAATTTTGCTCTCTAAAAATACG
* * * * **
101384950 TGTTTTAAAAAAAAACTTTTTTTTTTGTGCTGGCCTGTCAATGGTTGGCACCCAATACAACAAAA
129 AGCTTTAAAAAAAAA---TATTTTTGGTGCTGGCCTGTCAATGGCCGGCACCCAATACAACAAAA
* * *
101385015 AGAATTCGAATTTTCTTTCAAAAATTTTTTTTTGCTCTCTAAAAATAAGATTTTTAAAAAAAAAA
191 AAAATTCGAATTTTCTTTCAAAAAATTTTTTTTGCTCTCTAAAAATAAGAGTTTTAAAAAAAAAA
* * * **
101385080 TTAAGTGTTGGCCTATTAATGGCCGGCACCCAGTACAACAAAAAAAAATTCAAATTTTTTTTAAA
256 TTAAGTGCTGGCCTATCAATGACCGGCACCCAGTACAACAAAAAAAAATTCAAATTTTTTAAAAA
101385145 AAATTTT
321 AAATTTT
101385152 TTTTGCTCTC
Statistics
Matches: 281, Mismatches: 39, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
345 10 0.04
346 43 0.15
347 18 0.06
348 29 0.10
349 156 0.56
350 25 0.09
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.34
Consensus pattern (346 bp):
TTTTACTCTCTAAAAATACAAGTTTTAAAAAAAAAAAATTAGTGCTGGCTTGTCAATGGCCGGCA
CCCACAGCAAAAAAAAAAGTCAATTATTTTTACAAAAAATAAATTTTGCTCTCTAAAAATACGAG
CTTTAAAAAAAAATATTTTTGGTGCTGGCCTGTCAATGGCCGGCACCCAATACAACAAAAAAAAT
TCGAATTTTCTTTCAAAAAATTTTTTTTGCTCTCTAAAAATAAGAGTTTTAAAAAAAAAATTAAG
TGCTGGCCTATCAATGACCGGCACCCAGTACAACAAAAAAAAATTCAAATTTTTTAAAAAAAATT
TTGAATTTTTTTAAAAAAAAA
Found at i:101384916 original size:128 final size:128
Alignment explanation
Indices: 101384695--101384931 Score: 329
Period size: 128 Copynumber: 1.9 Consensus size: 128
101384685 AAAAAATTTT
* *
101384695 TTTTGCTCTCTAAAAATACGAGTTTTAAAAAAAATTTTGGGTGCTGGCCTGTCAATGACCGGCAC
1 TTTTGCTCTCTAAAAATACAAGTTTAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGACCGGCAC
* * *
101384760 CCAGTACAACAAAAAAAAATTGAATTTTTTA-AAAAAA-ATTTTGAATTTTTTTAAAAAAAAA
66 CCACTACAACAAAAAAAAAGTCAATTTTTTACAAAAAATATTTTGAATTTTTTTAAAAAAAAA
* * *
101384821 TTTTGCTCTCTAAAAATATAAGTTTAAAAAAAAAATTTTTGGGTGCTGGCTTGTCAATGGCCGGC
1 TTTTGCTCTCTAAAAATACAAGTTT-AAAAAAAAA-TTTTGGGTGCTGGCCTGTCAATGACCGGC
*
101384886 ACCCACTGC-A-AAAAAAAAAGTCAATTTTTTTTACAAAAAATATTTT
64 ACCCACTACAACAAAAAAAAAGTCAA--TTTTTTACAAAAAATATTTT
101384932 TTGCTCTCTG
Statistics
Matches: 96, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
126 35 0.36
127 9 0.09
128 41 0.43
129 6 0.06
130 5 0.05
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (128 bp):
TTTTGCTCTCTAAAAATACAAGTTTAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGACCGGCAC
CCACTACAACAAAAAAAAAGTCAATTTTTTACAAAAAATATTTTGAATTTTTTTAAAAAAAAA
Found at i:101385230 original size:92 final size:95
Alignment explanation
Indices: 101385114--101385290 Score: 297
Period size: 92 Copynumber: 1.9 Consensus size: 95
101385104 GGCACCCAGT
* *
101385114 ACAACAAAAAAAAATTCAAATTTTTTTTAAAAAATTTTTTTTGCTCTCTAAAAATACGAGTTTT-
1 ACAACAAAAAAAAATTCAAATTTTTTTCAAAAAATTTTTTTTGCTCTCTAAAAATACGAATTTTC
101385178 AAAAAAAAAA-TTTGGGTGCTTGCTTGTGG
66 AAAAAAAAAATTTTGGGTGCTTGCTTGTGG
* *
101385207 ACAAC-AAAAAAAATTCAATTTTTTTTCAAAAAGTTTTTTTTGCTCTCTAAAAATACGAATTTTC
1 ACAACAAAAAAAAATTCAAATTTTTTTCAAAAAATTTTTTTTGCTCTCTAAAAATACGAATTTTC
101385271 AAAAAAAAAATTTTGGGTGC
66 AAAAAAAAAATTTTGGGTGC
101385291 AAAAAAAATT
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
92 54 0.69
93 15 0.19
94 9 0.12
ACGTcount: A:0.42, C:0.11, G:0.10, T:0.37
Consensus pattern (95 bp):
ACAACAAAAAAAAATTCAAATTTTTTTCAAAAAATTTTTTTTGCTCTCTAAAAATACGAATTTTC
AAAAAAAAAATTTTGGGTGCTTGCTTGTGG
Found at i:101385534 original size:110 final size:111
Alignment explanation
Indices: 101385317--101385567 Score: 310
Period size: 110 Copynumber: 2.2 Consensus size: 111
101385307 TTTTTTTCAA
* *
101385317 TTTTTTTTTTAAACTGGTATTTTTAAAGAGCAAAAAAAATTTTTTTGAAAAAAATTTCGAATTTT
1 TTTTTTTTTTAAACTCGTATTTTTAAAGAGCAAAAAAAA-TTTTTTGAAAAAAATATCGAA-TTT
* * * *
101385382 TTTTTTGTTGTACTGGGTGCCAGCCATTGACAGGCCAGCACCCAAATT
64 TCTTTTGTCGTACTGGGTACCAGCCATTGACAAGCCAGCACCCAAATT
**
101385430 TTTTTTTTTTAAAACTCGTATTTTTAGGGAGCAAAAAGAAA-TTTTTGAAAAAAA-ATCGAA-TT
1 TTTTTTTTTT-AAACTCGTATTTTTAAAGAGCAAAAA-AAATTTTTTGAAAAAAATATCGAATTT
* *
101385492 TCTTTTGTCGTACTGGGTACCGGCCATTGACAAGCCAGCACCCAAAAAAAT
64 TCTTTTGTCGTACTGGGTACCAGCCATTGACAAGCCAGCACCC---AAATT
*
101385543 TATTTTTTTTAAACTCGTATGTTTT
1 TTTTTTTTTTAAACTCGTAT-TTTT
101385568 GTAACGTCCC
Statistics
Matches: 121, Mismatches: 11, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
110 40 0.33
112 15 0.12
113 40 0.33
114 23 0.19
115 3 0.02
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.39
Consensus pattern (111 bp):
TTTTTTTTTTAAACTCGTATTTTTAAAGAGCAAAAAAAATTTTTTGAAAAAAATATCGAATTTTC
TTTTGTCGTACTGGGTACCAGCCATTGACAAGCCAGCACCCAAATT
Found at i:101386207 original size:18 final size:18
Alignment explanation
Indices: 101386186--101386468 Score: 144
Period size: 18 Copynumber: 15.3 Consensus size: 18
101386176 GAACAATTAT
* *
101386186 TTATTCAGTAACAGTCAG
1 TTATTCAGTAATAATCAG
*
101386204 TTATTC-GATAATAATCAA
1 TTATTCAG-TAATAATCAG
* *
101386222 TTATTCAATAATAACCAG
1 TTATTCAGTAATAATCAG
*
101386240 TTATTCAGTATCGATCAATTGATCGG
1 TTATTCAGTA---AT--A---ATCAG
* * * *
101386266 TTATCCAGTAACAGTCAA
1 TTATTCAGTAATAATCAG
101386284 TTATTCAGTAA-AATCAG
1 TTATTCAGTAATAATCAG
* * *
101386301 ATATTCAGTAACAATTAAG
1 TTATTCAGTAATAA-TCAG
* *
101386320 TTATTCAGTAACAGTCA-
1 TTATTCAGTAATAATCAG
* *
101386337 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAATAATCAG
* *
101386356 TTATTCAGTAATGATCAA
1 TTATTCAGTAATAATCAG
*
101386374 TTATTCAGTAATATTCAG
1 TTATTCAGTAATAATCAG
*
101386392 TTATTCAGTAATAGTCTA-
1 TTATTCAGTAATAATC-AG
* * * * *
101386410 ATATCCAGTAACAGTCAA
1 TTATTCAGTAATAATCAG
* * * *
101386428 TTA-TCCGATAACAGTCAA
1 TTATTCAG-TAATAATCAG
101386446 TTATTCAGTAATAATCAG
1 TTATTCAGTAATAATCAG
101386464 TTATT
1 TTATT
101386469 TTATACCTTT
Statistics
Matches: 205, Mismatches: 42, Indels: 36
0.72 0.15 0.13
Matches are distributed among these distances:
17 20 0.10
18 147 0.72
19 21 0.10
21 3 0.01
23 2 0.01
26 12 0.06
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAATAATCAG
Found at i:101386401 original size:72 final size:71
Alignment explanation
Indices: 101386267--101386468 Score: 212
Period size: 72 Copynumber: 2.8 Consensus size: 71
101386257 ATTGATCGGT
* * *
101386267 TATCCAGTAACAGTCAATTATTCAGTAAAATCAGA-TATTCAGTAACAATTAAGTTATTCAGTAA
1 TATCCAGTAACAATCAATTATTCAGTAAAATCA-ATTATTCAGTAA-TATTCAGTTATTCAGTAA
*
101386331 CAGTC-AT
64 CAGTCTAA
* * * *
101386338 TCATTCAGTGACAATCAGTTATTCAGTAATGATCAATTATTCAGTAATATTCAGTTATTCAGTAA
1 T-ATCCAGTAACAATCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATTCAGTAA
*
101386403 TAGTCTAA
64 CAGTCTAA
* * * *
101386411 TATCCAGTAACAGTCAATTA-TCCGATAACAGTCAATTATTCAGTAATAATCAGTTATT
1 TATCCAGTAACAATCAATTATTCAG-TAA-AATCAATTATTCAGTAATATTCAGTTATT
101386469 TTATACCTTT
Statistics
Matches: 108, Mismatches: 18, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
71 4 0.04
72 88 0.81
73 16 0.15
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.35
Consensus pattern (71 bp):
TATCCAGTAACAATCAATTATTCAGTAAAATCAATTATTCAGTAATATTCAGTTATTCAGTAACA
GTCTAA
Found at i:101386796 original size:45 final size:45
Alignment explanation
Indices: 101386659--101386786 Score: 229
Period size: 45 Copynumber: 2.8 Consensus size: 45
101386649 TAACAGTACG
* **
101386659 GTAACAATATCCGACACACAAAGTGTTGAATCGGTAACGGTAACA
1 GTAACAATATTCGACACACAAAGTGCCGAATCGGTAACGGTAACA
101386704 GTAACAATATTCGACACACAAAGTGCCGAATCGGTAACGGTAACA
1 GTAACAATATTCGACACACAAAGTGCCGAATCGGTAACGGTAACA
101386749 GTAACAATATTCGACACACAAAGTGCCGAATCGGTAAC
1 GTAACAATATTCGACACACAAAGTGCCGAATCGGTAAC
101386787 AGTCGCAGTA
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 80 1.00
ACGTcount: A:0.40, C:0.22, G:0.20, T:0.19
Consensus pattern (45 bp):
GTAACAATATTCGACACACAAAGTGCCGAATCGGTAACGGTAACA
Found at i:101388519 original size:2 final size:2
Alignment explanation
Indices: 101388512--101388541 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
101388502 TGTTTTACTT
101388512 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
101388542 ATAACAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:101389342 original size:111 final size:107
Alignment explanation
Indices: 101389214--101389643 Score: 344
Period size: 111 Copynumber: 3.7 Consensus size: 107
101389204 GGGTCATTAC
* *
101389214 ATTTTTAGAGAGCAAAAAAAAAATTTTGAAAAAAAAATTCGAATTTTTTTTGTTGTACTGGGTGC
1 ATTTTTAGAGA--AAAAAAAAATTTTTG-AAAAAAAATTCGAATTTTTTTTGTTGTACTGGGTGT
* *
101389279 CGGCCATTGACAGGCCAGCACCTAATTTTTTTTTTTTAAAACCCGT
63 CGGCCATTGACAGGCCAGCACC-AAATTTTTTTTTTTAAAACTCGT
*** *
101389325 ATTTTTAGAGATAAAAAATTTTTTTTGAAAAAAAATTCG-ATTTTTTTTGAAAAAAAATTCGATT
1 ATTTTTAGAGA-AAAAAAAAATTTTTGAAAAAAAATTCGAATTTTTTTTG--------TT-G-TA
* *** * ** * **
101389389 TTTTTTGTTGTAC-TGGGTGTC-GGCCATTGACAGGCCAGCACCCAAATTTTTTTTTAAAACTCG
55 CTGGGTGTCGGCCAT---TGACAGGCCA--G-CA--CCA--A---ATTTTTTTTTTTAAAACTCG
101389452 T
107 T
* * *
101389453 ATTTTTAGAGAGCAAAAAAAATTTTTGAAAAAAAATTTGATTTTTTTTTGTTGTACTGGGTGTCG
1 ATTTTTAGAGA-AAAAAAAAATTTTTGAAAAAAAATTCGAATTTTTTTTGTTGTACTGGGTGTCG
101389518 GCCATTGACAGGCCAGCACCCAAATTTTTTTTTTTAAAACTCGT
65 GCCATTGACAGGCCAGCA-CCAAATTTTTTTTTTTAAAACTCGT
*
101389562 ATTTTTAGAGAGCAAAAAAAAATTTTTTGAAAAAAAATTCGATTTTTTTTTGTTGTACTGGGTGT
1 ATTTTTAGAGA--AAAAAAAAA-TTTTTGAAAAAAAATTCGAATTTTTTTTGTTGTACTGGGTGT
101389627 CGGCCATTGACAGGCCA
63 CGGCCATTGACAGGCCA
101389644 AAACTAAAAA
Statistics
Matches: 250, Mismatches: 41, Indels: 56
0.72 0.12 0.16
Matches are distributed among these distances:
108 10 0.04
109 42 0.17
110 19 0.08
111 69 0.28
112 1 0.00
114 3 0.01
115 2 0.01
116 3 0.01
117 5 0.02
118 11 0.04
119 12 0.05
120 5 0.02
121 3 0.01
122 2 0.01
123 1 0.00
124 2 0.01
125 1 0.00
128 50 0.20
129 9 0.04
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.39
Consensus pattern (107 bp):
ATTTTTAGAGAAAAAAAAAATTTTTGAAAAAAAATTCGAATTTTTTTTGTTGTACTGGGTGTCGG
CCATTGACAGGCCAGCACCAAATTTTTTTTTTTAAAACTCGT
Found at i:101389370 original size:22 final size:22
Alignment explanation
Indices: 101389342--101389395 Score: 108
Period size: 22 Copynumber: 2.5 Consensus size: 22
101389332 GAGATAAAAA
101389342 ATTTTTTTTGAAAAAAAATTCG
1 ATTTTTTTTGAAAAAAAATTCG
101389364 ATTTTTTTTGAAAAAAAATTCG
1 ATTTTTTTTGAAAAAAAATTCG
101389386 ATTTTTTTTG
1 ATTTTTTTTG
101389396 TTGTACTGGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.35, C:0.04, G:0.09, T:0.52
Consensus pattern (22 bp):
ATTTTTTTTGAAAAAAAATTCG
Found at i:101389501 original size:130 final size:131
Alignment explanation
Indices: 101389237--101389500 Score: 410
Period size: 128 Copynumber: 2.0 Consensus size: 131
101389227 AAAAAAAAAA
*
101389237 TTTTGAAAAAAAAATTCGAATTTTTTTTGTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCT
1 TTTTGAAAAAAAAATTCGAATTTTTTTTGTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC
* * **
101389302 AATTTTTTTTTTTTAAAACCCGTATTTTTAGAGATAAAAAATTTTTTTTGAAAAAAAATTCGATT
66 AA-TATTTTTTTTTAAAACCCGTATTTTTAGAGACAAAAAATAATTTTTGAAAAAAAATTCGATT
101389367 TT
130 TT
*
101389369 TTTTG-AAAAAAAATTCG-ATTTTTTTTGTTGTACTGGGTGTCGGCCATTGACAGGCCAGCACCC
1 TTTTGAAAAAAAAATTCGAATTTTTTTTGTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC
* *
101389432 AA-ATTTTTTTTTAAAACTCGTATTTTTAGAGAGCAAAAAA-AATTTTTGAAAAAAAATTTGATT
66 AATATTTTTTTTTAAAACCCGTATTTTTAGAGA-CAAAAAATAATTTTTGAAAAAAAATTCGATT
101389495 TT
130 TT
101389497 TTTT
1 TTTT
101389501 TGTTGTACTG
Statistics
Matches: 123, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
128 54 0.44
129 6 0.05
130 46 0.37
131 12 0.10
132 5 0.04
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (131 bp):
TTTTGAAAAAAAAATTCGAATTTTTTTTGTTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC
AATATTTTTTTTTAAAACCCGTATTTTTAGAGACAAAAAATAATTTTTGAAAAAAAATTCGATTT
T
Found at i:101389513 original size:107 final size:110
Alignment explanation
Indices: 101389367--101389643 Score: 508
Period size: 111 Copynumber: 2.5 Consensus size: 110
101389357 AAATTCGATT
101389367 TTTTTTGAAAAAAAATTCGA-TTTTTTTTGTTGTACTGGGTGTCGGCCATTGACAGGCCAGCACC
1 TTTTTTGAAAAAAAATTCGATTTTTTTTTGTTGTACTGGGTGTCGGCCATTGACAGGCCAGCACC
101389431 CAAA-TTTTTTTTTAAAACTCGTATTTTTAGAGAGC-AAAAAAAA
66 CAAATTTTTTTTTTAAAACTCGTATTTTTAGAGAGCAAAAAAAAA
*
101389474 -TTTTTGAAAAAAAATTTGATTTTTTTTTGTTGTACTGGGTGTCGGCCATTGACAGGCCAGCACC
1 TTTTTTGAAAAAAAATTCGATTTTTTTTTGTTGTACTGGGTGTCGGCCATTGACAGGCCAGCACC
101389538 CAAATTTTTTTTTTTAAAACTCGTATTTTTAGAGAGCAAAAAAAAA
66 CAAA-TTTTTTTTTTAAAACTCGTATTTTTAGAGAGCAAAAAAAAA
101389584 TTTTTTGAAAAAAAATTCGATTTTTTTTTGTTGTACTGGGTGTCGGCCATTGACAGGCCA
1 TTTTTTGAAAAAAAATTCGATTTTTTTTTGTTGTACTGGGTGTCGGCCATTGACAGGCCA
101389644 AAACTAAAAA
Statistics
Matches: 163, Mismatches: 2, Indels: 6
0.95 0.01 0.04
Matches are distributed among these distances:
106 18 0.11
107 48 0.29
109 31 0.19
110 8 0.05
111 58 0.36
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.39
Consensus pattern (110 bp):
TTTTTTGAAAAAAAATTCGATTTTTTTTTGTTGTACTGGGTGTCGGCCATTGACAGGCCAGCACC
CAAATTTTTTTTTTAAAACTCGTATTTTTAGAGAGCAAAAAAAAA
Found at i:101389880 original size:2 final size:2
Alignment explanation
Indices: 101389873--101389911 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
101389863 ATTTTAGTTT
101389873 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
101389912 TTGTCTCTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:101390091 original size:22 final size:22
Alignment explanation
Indices: 101390050--101390093 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
101390040 TTAAAAATTA
*
101390050 AAAATATTTTTATATGTTTTTT
1 AAAATATTTTTATATATTTTTT
* *
101390072 AAAATATTTTTTTTTATTTTTT
1 AAAATATTTTTATATATTTTTT
101390094 GAATTATTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (22 bp):
AAAATATTTTTATATATTTTTT
Found at i:101395672 original size:533 final size:533
Alignment explanation
Indices: 101394666--101395735 Score: 2140
Period size: 533 Copynumber: 2.0 Consensus size: 533
101394656 GAATTTACAA
101394666 TACAAGGAAGTAAAAAGGAACTCACCAGAAAATTTAGTATAGTAATCTACTCAACAGGTTCTTTG
1 TACAAGGAAGTAAAAAGGAACTCACCAGAAAATTTAGTATAGTAATCTACTCAACAGGTTCTTTG
101394731 CCTTTGTTGCTGAGACTTTCTTTAGTTTCTTGAGCTAAAAGAGAGACAAACATATCTATCAGATC
66 CCTTTGTTGCTGAGACTTTCTTTAGTTTCTTGAGCTAAAAGAGAGACAAACATATCTATCAGATC
101394796 ATCATACTATCGAAACTTAACATGCATGCATGAATCAGTAACATCCAACCCAATCAGTATCATGT
131 ATCATACTATCGAAACTTAACATGCATGCATGAATCAGTAACATCCAACCCAATCAGTATCATGT
101394861 AACTCAGAATCAAAAAGTTTCCTTCCTCAAGAACAATTTAAAACTTATGCATGCTGTAACACCCC
196 AACTCAGAATCAAAAAGTTTCCTTCCTCAAGAACAATTTAAAACTTATGCATGCTGTAACACCCC
101394926 GAACCTGAGACCGTTGCCGGTGTCGGACACGAGGGGTTAACAAGCCAAAACCACTTATGGCACCG
261 GAACCTGAGACCGTTGCCGGTGTCGGACACGAGGGGTTAACAAGCCAAAACCACTTATGGCACCG
101394991 ACCAATTTGACATTCCCAGGCAAGCTGGAAAACTGCGTCGCTGTCGCCTTAAAAAGCATATCTCG
326 ACCAATTTGACATTCCCAGGCAAGCTGGAAAACTGCGTCGCTGTCGCCTTAAAAAGCATATCTCG
101395056 AGTTTCACAACTCGGAAACTGATTCTGTAAATTTTACCTGAATTTAGACTCATATATCCATCCAT
391 AGTTTCACAACTCGGAAACTGATTCTGTAAATTTTACCTGAATTTAGACTCATATATCCATCCAT
101395121 GGATTTATTTCTAGAATTTTTGGTCGGGCCAATTGGTACAGTTTATTAGTTAAAGTCGCCCATGT
456 GGATTTATTTCTAGAATTTTTGGTCGGGCCAATTGGTACAGTTTATTAGTTAAAGTCGCCCATGT
101395186 TACAGGGGTCGAC
521 TACAGGGGTCGAC
101395199 TACAAGGAAGTAAAAAGGAACTCACCAGAAAATTTAGTATAGTAATCTACTCAACAGGTTCTTTG
1 TACAAGGAAGTAAAAAGGAACTCACCAGAAAATTTAGTATAGTAATCTACTCAACAGGTTCTTTG
101395264 CCTTTGTTGCTGAGACTTTCTTTAGTTTCTTGAGCTAAAAGAGAGACAAACATATCTATCAGATC
66 CCTTTGTTGCTGAGACTTTCTTTAGTTTCTTGAGCTAAAAGAGAGACAAACATATCTATCAGATC
101395329 ATCATACTATCGAAACTTAACATGCATGCATGAATCAGTAACATCCAACCCAATCAGTATCATGT
131 ATCATACTATCGAAACTTAACATGCATGCATGAATCAGTAACATCCAACCCAATCAGTATCATGT
101395394 AACTCAGAATCAAAAAGTTTCCTTCCTCAAGAACAATTTAAAACTTATGCATGCTGTAACACCCC
196 AACTCAGAATCAAAAAGTTTCCTTCCTCAAGAACAATTTAAAACTTATGCATGCTGTAACACCCC
101395459 GAACCTGAGACCGTTGCCGGTGTCGGACACGAGGGGTTAACAAGCCAAAACCACTTATGGCACCG
261 GAACCTGAGACCGTTGCCGGTGTCGGACACGAGGGGTTAACAAGCCAAAACCACTTATGGCACCG
101395524 ACCAATTTGACATTCCCAGGCAAGCTGGAAAACTGCGTCGCTGTCGCCTTAAAAAGCATATCTCG
326 ACCAATTTGACATTCCCAGGCAAGCTGGAAAACTGCGTCGCTGTCGCCTTAAAAAGCATATCTCG
101395589 AGTTTCACAACTCGGAAACTGATTCTGTAAATTTTACCTGAATTTAGACTCATATATCCATCCAT
391 AGTTTCACAACTCGGAAACTGATTCTGTAAATTTTACCTGAATTTAGACTCATATATCCATCCAT
101395654 GGATTTATTTCTAGAATTTTTGGTCGGGCCAATTGGTACAGTTTATTAGTTAAAGTCGCCCATGT
456 GGATTTATTTCTAGAATTTTTGGTCGGGCCAATTGGTACAGTTTATTAGTTAAAGTCGCCCATGT
101395719 TACAGGGGTCGAC
521 TACAGGGGTCGAC
101395732 TACA
1 TACA
101395736 CTGACCTTCG
Statistics
Matches: 537, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
533 537 1.00
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (533 bp):
TACAAGGAAGTAAAAAGGAACTCACCAGAAAATTTAGTATAGTAATCTACTCAACAGGTTCTTTG
CCTTTGTTGCTGAGACTTTCTTTAGTTTCTTGAGCTAAAAGAGAGACAAACATATCTATCAGATC
ATCATACTATCGAAACTTAACATGCATGCATGAATCAGTAACATCCAACCCAATCAGTATCATGT
AACTCAGAATCAAAAAGTTTCCTTCCTCAAGAACAATTTAAAACTTATGCATGCTGTAACACCCC
GAACCTGAGACCGTTGCCGGTGTCGGACACGAGGGGTTAACAAGCCAAAACCACTTATGGCACCG
ACCAATTTGACATTCCCAGGCAAGCTGGAAAACTGCGTCGCTGTCGCCTTAAAAAGCATATCTCG
AGTTTCACAACTCGGAAACTGATTCTGTAAATTTTACCTGAATTTAGACTCATATATCCATCCAT
GGATTTATTTCTAGAATTTTTGGTCGGGCCAATTGGTACAGTTTATTAGTTAAAGTCGCCCATGT
TACAGGGGTCGAC
Found at i:101396959 original size:39 final size:39
Alignment explanation
Indices: 101396846--101397040 Score: 221
Period size: 39 Copynumber: 4.9 Consensus size: 39
101396836 CTCGTTCAAA
* * * *
101396846 CGCCTTCGGGACATAGCCCGGTTATGATAACCCGCACAAAT
1 CGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCAC-AAT
* *
101396887 -GCCTTCGGGACTTAACCCGGATATCACAACTCGCACAAT
1 CGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAAT
* *
101396926 CGCCTTCGGGCTTAGCCCGGATATCATATCTCGCACATT
1 CGCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAAT
* * * *
101396965 TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACATT
1 CGCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAAT
* * *
101397004 TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CGCCTTCGGGCTTAGCCCGGATATCATAACTCGCACA
101397041 TTCATACACA
Statistics
Matches: 139, Mismatches: 14, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
39 100 0.72
40 39 0.28
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.24
Consensus pattern (39 bp):
CGCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAAT
Found at i:101397009 original size:78 final size:79
Alignment explanation
Indices: 101396846--101397042 Score: 254
Period size: 78 Copynumber: 2.5 Consensus size: 79
101396836 CTCGTTCAAA
* * * * * **
101396846 CGCCTTCGGGACATAGCCCGGTTATGATAACCCGCACAAATGCCTTCGGGACTTAACCCGGATAT
1 CGCCTTCGGG-CTTAGCCCGGATATCATATCTCGCACATTTGCCTTCGGGACTTAACCCGGATAT
101396911 CACAACTCGCACAAT
65 CACAACTCGCACAAT
*
101396926 CGCCTTCGGGCTTAGCCCGGATATCATATCTCGCACATTTGCCTTCGGG-CTTAGCCCGGATATC
1 CGCCTTCGGGCTTAGCCCGGATATCATATCTCGCACATTTGCCTTCGGGACTTAACCCGGATATC
* *
101396990 ACAATTCGCACATT
66 ACAACTCGCACAAT
* *
101397004 TGCCTTCGGGCTTAGCCCGGATATCACAAT-TCGCACATT
1 CGCCTTCGGGCTTAGCCCGGATATCA-TATCTCGCACATT
101397043 CATACACATC
Statistics
Matches: 104, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
78 60 0.58
79 34 0.33
80 10 0.10
ACGTcount: A:0.23, C:0.32, G:0.20, T:0.25
Consensus pattern (79 bp):
CGCCTTCGGGCTTAGCCCGGATATCATATCTCGCACATTTGCCTTCGGGACTTAACCCGGATATC
ACAACTCGCACAAT
Found at i:101397041 original size:39 final size:39
Alignment explanation
Indices: 101396886--101397042 Score: 244
Period size: 39 Copynumber: 4.0 Consensus size: 39
101396876 CCCGCACAAA
* * *
101396886 TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAAT
1 TGCCTTCGGG-CTTAGCCCGGATATCACAATTCGCACATT
* *
101396926 CGCCTTCGGGCTTAGCCCGGATATCA-TATCTCGCACATT
1 TGCCTTCGGGCTTAGCCCGGATATCACAAT-TCGCACATT
101396965 TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACATT
1 TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACATT
101397004 TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACATT
1 TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACATT
101397043 CATACACATC
Statistics
Matches: 108, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
38 1 0.01
39 96 0.89
40 11 0.10
ACGTcount: A:0.22, C:0.32, G:0.20, T:0.27
Consensus pattern (39 bp):
TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACATT
Found at i:101401965 original size:54 final size:54
Alignment explanation
Indices: 101401889--101402021 Score: 160
Period size: 54 Copynumber: 2.5 Consensus size: 54
101401879 ACAGCGACCG
* * * * * *
101401889 TATACTTATACGATTTTAAGAATTTTACAATTCACCGATTTAAGATCGCGACCT
1 TATACTTATAAGATTTTCAGAATCTTACAATTCACCAATTTAAGATCGCAACCA
* * * **
101401943 TTTATTTATAAGATTTTCAGAATCTTACAGTTTGCCAATTTAAGATCGCAACCA
1 TATACTTATAAGATTTTCAGAATCTTACAATTCACCAATTTAAGATCGCAACCA
101401997 TATACTTATAAGATTTTC-GAATCTT
1 TATACTTATAAGATTTTCAGAATCTT
101402022 TCGGTTTGCG
Statistics
Matches: 66, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
53 7 0.11
54 59 0.89
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.40
Consensus pattern (54 bp):
TATACTTATAAGATTTTCAGAATCTTACAATTCACCAATTTAAGATCGCAACCA
Found at i:101406016 original size:16 final size:17
Alignment explanation
Indices: 101405992--101406027 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
101405982 TTTAGCTTCG
101405992 TTTCACATTAT-TTTTA
1 TTTCACATTATCTTTTA
*
101406008 TTTCTCATTATCTTTTA
1 TTTCACATTATCTTTTA
101406025 TTT
1 TTT
101406028 ATTATATGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.19, C:0.14, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTCACATTATCTTTTA
Found at i:101412599 original size:2 final size:2
Alignment explanation
Indices: 101412592--101412622 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
101412582 ATTAGCCAAG
*
101412592 AT AT AT AT AT AT AT AG AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
101412623 ATAGCTTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:101414076 original size:14 final size:16
Alignment explanation
Indices: 101414046--101414078 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
101414036 TATAAATATC
101414046 ATTATAATTATAAAAA
1 ATTATAATTATAAAAA
101414062 ATTAT-ATTA-AAAAA
1 ATTATAATTATAAAAA
101414076 ATT
1 ATT
101414079 TCGCCTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 4 0.24
16 5 0.29
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
ATTATAATTATAAAAA
Found at i:101416081 original size:23 final size:23
Alignment explanation
Indices: 101416055--101416099 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
101416045 TATACTAAAA
**
101416055 ATATATATTTTTTATTCTTAATC
1 ATATATACATTTTATTCTTAATC
* *
101416078 ATATTTACATTTTATTTTTAAT
1 ATATATACATTTTATTCTTAAT
101416100 TTTAATATAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (23 bp):
ATATATACATTTTATTCTTAATC
Found at i:101417220 original size:20 final size:20
Alignment explanation
Indices: 101417195--101417237 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
101417185 ATCTTTTCCT
101417195 TTATAGCAATTGTTTGAGCA
1 TTATAGCAATTGTTTGAGCA
101417215 TTATAGCAATTGTTTGAGCA
1 TTATAGCAATTGTTTGAGCA
101417235 TTA
1 TTA
101417238 ACAACTCTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (20 bp):
TTATAGCAATTGTTTGAGCA
Found at i:101417704 original size:20 final size:20
Alignment explanation
Indices: 101417679--101417719 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
101417669 AAGGGCACAC
* *
101417679 GCCCGTGTGGCTTGGGACAT
1 GCCCGTGTGGCCTGGAACAT
101417699 GCCCGTGTGGCCTGGAACAT
1 GCCCGTGTGGCCTGGAACAT
101417719 G
1 G
101417720 GCCATGGGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.12, C:0.27, G:0.39, T:0.22
Consensus pattern (20 bp):
GCCCGTGTGGCCTGGAACAT
Found at i:101427927 original size:37 final size:38
Alignment explanation
Indices: 101427858--101427934 Score: 129
Period size: 37 Copynumber: 2.1 Consensus size: 38
101427848 TCTATGAGTG
101427858 TTTACATGCAGCACTCTAAATCACTCACTGGTTTAGCT
1 TTTACATGCAGCACTCTAAATCACTCACTGGTTTAGCT
**
101427896 TTTACATGCAGCACTC-CGATCACTCACTGGTTTAGCT
1 TTTACATGCAGCACTCTAAATCACTCACTGGTTTAGCT
101427933 TT
1 TT
101427935 CACTCAATTG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
37 21 0.57
38 16 0.43
ACGTcount: A:0.23, C:0.27, G:0.14, T:0.35
Consensus pattern (38 bp):
TTTACATGCAGCACTCTAAATCACTCACTGGTTTAGCT
Found at i:101427984 original size:28 final size:28
Alignment explanation
Indices: 101427953--101428011 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
101427943 TGCTGAAAGT
101427953 TTAAACGAGCTTCTCATTGCCTTTCGCC
1 TTAAACGAGCTTCTCATTGCCTTTCGCC
* *
101427981 TTAAACGAGCTTCTCCTTTCCTTTCGCC
1 TTAAACGAGCTTCTCATTGCCTTTCGCC
101428009 TTA
1 TTA
101428012 CTCGTAGAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.17, C:0.32, G:0.12, T:0.39
Consensus pattern (28 bp):
TTAAACGAGCTTCTCATTGCCTTTCGCC
Found at i:101430627 original size:15 final size:14
Alignment explanation
Indices: 101430592--101430641 Score: 50
Period size: 15 Copynumber: 3.6 Consensus size: 14
101430582 TTTTTCAAAC
101430592 TTTATTTT--TAAT
1 TTTATTTTGGTAAT
*
101430604 TTCTCTTTTGGTAAT
1 TT-TATTTTGGTAAT
*
101430619 TTTAATTTTGGTTAT
1 TTT-ATTTTGGTAAT
101430634 TTTATTTT
1 TTTATTTT
101430642 ATTTTTAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
12 2 0.06
13 5 0.16
14 6 0.19
15 18 0.58
ACGTcount: A:0.18, C:0.04, G:0.08, T:0.70
Consensus pattern (14 bp):
TTTATTTTGGTAAT
Found at i:101438053 original size:15 final size:15
Alignment explanation
Indices: 101438019--101438062 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
101438009 ATTAAGCCAA
101438019 AAATAATTATAAAAAT
1 AAAT-ATTATAAAAAT
*
101438035 -AATATTATTAAAAT
1 AAATATTATAAAAAT
*
101438049 AAATAGTATAAAAA
1 AAATATTATAAAAA
101438063 ATATGTATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (15 bp):
AAATATTATAAAAAT
Done.