Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold247
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: 4737410
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 25 of 29
Found at i:3933256 original size:12 final size:12
Alignment explanation
Indices: 3933241--3933272 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
3933231 AACCATCAAA
3933241 GATGATAAAGAT
1 GATGATAAAGAT
*
3933253 GATGATAATGAT
1 GATGATAAAGAT
3933265 GATGATAA
1 GATGATAA
3933273 GGTTGACTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.25, T:0.28
Consensus pattern (12 bp):
GATGATAAAGAT
Found at i:3934178 original size:51 final size:51
Alignment explanation
Indices: 3934102--3934237 Score: 182
Period size: 51 Copynumber: 2.7 Consensus size: 51
3934092 TACATTTTCA
* * * * * *
3934102 ATGTACCGATACATGTATGAATGTATTGATACATTCTATCTTTTTACCGAG
1 ATGTATCGATACATTTTTCAATGTATCGATACATTCTATCTTTTTACCCAG
* *
3934153 ATGTATCGATACATTTTTCAATGTATCGATACATTTTGTCTTTTTACCCAG
1 ATGTATCGATACATTTTTCAATGTATCGATACATTCTATCTTTTTACCCAG
* *
3934204 ATGTATTGATACATTTTTCAATGTATCGCTACAT
1 ATGTATCGATACATTTTTCAATGTATCGATACAT
3934238 CTAGTTAAAA
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 75 1.00
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (51 bp):
ATGTATCGATACATTTTTCAATGTATCGATACATTCTATCTTTTTACCCAG
Found at i:3940276 original size:16 final size:16
Alignment explanation
Indices: 3940251--3940286 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
3940241 AAAGGCTTTC
3940251 AAAA-TTTTAATAGAA
1 AAAAGTTTTAATAGAA
*
3940266 AAAAGTTTTAATAGAG
1 AAAAGTTTTAATAGAA
3940282 AAAAG
1 AAAAG
3940287 GTTGATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.58, C:0.00, G:0.14, T:0.28
Consensus pattern (16 bp):
AAAAGTTTTAATAGAA
Found at i:3943651 original size:17 final size:17
Alignment explanation
Indices: 3943629--3943662 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
3943619 TTTATCAAAG
3943629 GGGAGAAATTT-TTTTAA
1 GGGAG-AATTTCTTTTAA
3943646 GGGAGAATTTCTTTTAA
1 GGGAGAATTTCTTTTAA
3943663 ACGATTTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.32, C:0.03, G:0.24, T:0.41
Consensus pattern (17 bp):
GGGAGAATTTCTTTTAA
Found at i:3944260 original size:19 final size:20
Alignment explanation
Indices: 3944236--3944288 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
3944226 ATCGATACAA
3944236 TGTATCGATACATGCTC-AT
1 TGTATCGATACATGCTCAAT
* *
3944255 TGTATCGATACTTACTCAAT
1 TGTATCGATACATGCTCAAT
*
3944275 TATATCGATACATG
1 TGTATCGATACATG
3944289 AAACTGGCAG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATGCTCAAT
Found at i:3946705 original size:4 final size:4
Alignment explanation
Indices: 3946696--3946721 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
3946686 ATTTAAGTTA
3946696 TAAC TAAC TAAC TAAC TAAC TAAC TA
1 TAAC TAAC TAAC TAAC TAAC TAAC TA
3946722 TATATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (4 bp):
TAAC
Found at i:3947964 original size:33 final size:34
Alignment explanation
Indices: 3947908--3947976 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 34
3947898 GTTACAAGCT
**
3947908 ATGTATCGATACATTTCTTCATGTATCGATA-AA
1 ATGTATCGATACATTTCAGCATGTATCGATACAA
3947941 ATGTATCGATACATTGT-AGCATGTATCGATACAA
1 ATGTATCGATACATT-TCAGCATGTATCGATACAA
3947975 AT
1 AT
3947977 AGTGATAGGG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
33 27 0.84
34 5 0.16
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.36
Consensus pattern (34 bp):
ATGTATCGATACATTTCAGCATGTATCGATACAA
Found at i:3952619 original size:79 final size:80
Alignment explanation
Indices: 3952441--3952644 Score: 279
Period size: 79 Copynumber: 2.6 Consensus size: 80
3952431 GTATTTTGAA
* * *
3952441 ATTGGAGTATCCCCTCGAAAATAACGGGGTTAGAGTATCCCCAATTGTGAAAAAATCGATGATTT
1 ATTGGAGTATCCCCTCGAAAATAATGGGGTTGGAGTATCCCCAATTGTGAAAAAATCAATGATTT
*
3952506 AGAAATAAAGTCGAG
66 AGAAATAAAGCCGAG
* * * * *
3952521 ATTGAAGTAT-CCCTACGAAAATAATGAGGTTGGAGTATCCCCGATTGTG-AGAAATTAAT-ATT
1 ATTGGAGTATCCCCT-CGAAAATAATGGGGTTGGAGTATCCCCAATTGTGAAAAAATCAATGA-T
3952583 TTAGAAATAAAGCCGAG
64 TTAGAAATAAAGCCGAG
*
3952600 GTTGGAGTATCCCCTCGAAAATAATGGGGTTGGAGTATCCCCAAT
1 ATTGGAGTATCCCCTCGAAAATAATGGGGTTGGAGTATCCCCAAT
3952645 AAAATAACAG
Statistics
Matches: 108, Mismatches: 13, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
78 1 0.01
79 64 0.59
80 43 0.40
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.26
Consensus pattern (80 bp):
ATTGGAGTATCCCCTCGAAAATAATGGGGTTGGAGTATCCCCAATTGTGAAAAAATCAATGATTT
AGAAATAAAGCCGAG
Found at i:3952632 original size:28 final size:28
Alignment explanation
Indices: 3952599--3952668 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
3952589 ATAAAGCCGA
** **
3952599 GGTTGGAGTATCCCCTCGAAAATAATGG
1 GGTTGGAGTATCCCCAAGAAAATAACAG
*
3952627 GGTTGGAGTATCCCCAATAAAATAACAG
1 GGTTGGAGTATCCCCAAGAAAATAACAG
3952655 GGTTGGAGTATCCC
1 GGTTGGAGTATCCC
3952669 TGATTGTGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (28 bp):
GGTTGGAGTATCCCCAAGAAAATAACAG
Found at i:3952741 original size:52 final size:50
Alignment explanation
Indices: 3952657--3952773 Score: 119
Period size: 51 Copynumber: 2.3 Consensus size: 50
3952647 AATAACAGGG
* ** * * *
3952657 TTGGAGTATCCCTGATTGTGAAAATTGGTGTTTCAGAAATAAAATC-GGA
1 TTGGAGTATCCCCGATTAAGAAAATAGATGTTTCAGAAATAAAACCGGGA
** *
3952706 GTTAGGAGTATCCCCGATTAAGAAAAATAGATGTTTTGGAAATGAAACCGGGA
1 -TT-GGAGTATCCCCGATTAAG-AAAATAGATGTTTCAGAAATAAAACCGGGA
3952759 TTGGAGTATCCCCGA
1 TTGGAGTATCCCCGA
3952774 GATGAAAAAT
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
50 2 0.04
51 28 0.51
52 22 0.40
53 3 0.05
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (50 bp):
TTGGAGTATCCCCGATTAAGAAAATAGATGTTTCAGAAATAAAACCGGGA
Found at i:3955167 original size:13 final size:13
Alignment explanation
Indices: 3955120--3955149 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
3955110 GTAAACCCAG
3955120 AATGTATCGATAC
1 AATGTATCGATAC
*
3955133 AATGTATTGATAC
1 AATGTATCGATAC
3955146 AATG
1 AATG
3955150 AACAATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:3955458 original size:61 final size:59
Alignment explanation
Indices: 3955384--3955594 Score: 191
Period size: 61 Copynumber: 3.6 Consensus size: 59
3955374 CTGCTCTTTA
*
3955384 AGGACTAGGAAGTGCCACCACCTTGTGTGGGCATTAAAAGGAGAAGGCATCCAGCTCCTTG
1 AGGACTAGGAAGTGCCACCAACTTGTGTGGGC-TTAAAAGGA-AAGGCATCCAGCTCCTTG
* * * * *
3955445 AGGAATAGGAAGTGCCACCAACTTATGTGGGCTT---A-TAAAGGCATCCTGCTCTTTG
1 AGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTAAAAGGAAAGGCATCCAGCTCCTTG
* * * * ** **
3955500 AAGACTAAAGAAGTGCCACCAACTTGTGTGGGCTTTAAAGGGAAAAGGCGTCTTGCTTTTTG
1 AGGACT-AGGAAGTGCCACCAACTTGTGTGGGC-TTAAAAGG-AAAGGCATCCAGCTCCTTG
*
3955562 AGGACTA--AAGGTGCCACCAACTCGTGTGGGCTT
1 AGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTT
3955595 TGAAAAGAAA
Statistics
Matches: 125, Mismatches: 17, Indels: 18
0.78 0.11 0.11
Matches are distributed among these distances:
55 20 0.16
56 25 0.20
57 3 0.02
59 4 0.03
60 22 0.18
61 30 0.24
62 21 0.17
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.24
Consensus pattern (59 bp):
AGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTAAAAGGAAAGGCATCCAGCTCCTTG
Found at i:3955488 original size:55 final size:55
Alignment explanation
Indices: 3955427--3955540 Score: 158
Period size: 55 Copynumber: 2.1 Consensus size: 55
3955417 TTAAAAGGAG
* *
3955427 AAGGCATCCAGCTCCTTGAGGAAT-AGGAAGTGCCACCAACTTATGTGGGCTTATA
1 AAGGCATCCAGCTCCTTGAAGAATAAAGAAGTGCCACCAACTTATGTGGGCTT-TA
* * * *
3955482 AAGGCATCCTGCTCTTTGAAGACTAAAGAAGTGCCACCAACTTGTGTGGGCTTTA
1 AAGGCATCCAGCTCCTTGAAGAATAAAGAAGTGCCACCAACTTATGTGGGCTTTA
3955537 AAGG
1 AAGG
3955541 GAAAAGGCGT
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
55 26 0.50
56 26 0.50
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (55 bp):
AAGGCATCCAGCTCCTTGAAGAATAAAGAAGTGCCACCAACTTATGTGGGCTTTA
Found at i:3955591 original size:60 final size:62
Alignment explanation
Indices: 3955481--3955630 Score: 214
Period size: 61 Copynumber: 2.4 Consensus size: 62
3955471 GTGGGCTTAT
* * * * * *
3955481 AAAGGCATCCTGCTCTTTGAAGACTAAAGAAGTGCCACCAACTTGTGTGGGCTTT-AAAGGGA
1 AAAGGCGTCCTGCTTTTTGAGGACTAAAG-AGTGCCACCAACTCGTGTGGGCTTTGAAAAGAA
*
3955543 AAAGGCGTCTTGCTTTTTGAGGACTAAAG-GTGCCACCAACTCGTGTGGGCTTTGAAAAGAA
1 AAAGGCGTCCTGCTTTTTGAGGACTAAAGAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAA
3955604 AAAGGCGTCCTGCTTTTTGAGGACTAA
1 AAAGGCGTCCTGCTTTTTGAGGACTAA
3955631 GAGGGCTAAA
Statistics
Matches: 79, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
60 23 0.29
61 31 0.39
62 25 0.32
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.26
Consensus pattern (62 bp):
AAAGGCGTCCTGCTTTTTGAGGACTAAAGAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAA
Found at i:3955594 original size:116 final size:115
Alignment explanation
Indices: 3955374--3955594 Score: 275
Period size: 117 Copynumber: 1.9 Consensus size: 115
3955364 AAGGGCAGTT
* * *
3955374 CTGCTCTTTAAGGACTAGGAAGTGCCACCACCTTGTGTGGGCATTAAAAGGAGAAGGCATCCAGC
1 CTGCTCTTTAAGGACTAAGAAGTGCCACCAACTTGTGTGGGCATTAAAAGGAAAAGGCATCCAGC
*
3955439 TCCTTGAGGAATAGGAAGTGCCACCAACTTATGTGGGCTTATAAAGGCATC
66 TCCTTGAGGAATA-GAAGTGCCACCAACTCATGTGGGCTTATAAAGGCATC
* * * **
3955490 CTGCTCTTTGAA-GACTAAAGAAGTGCCACCAACTTGTGTGGGCTTTAAAGGGAAAAGGCGTCTT
1 CTGCTCTTT-AAGGACT-AAGAAGTGCCACCAACTTGTGTGGGCATTAAAAGGAAAAGGCATCCA
** * *
3955554 GCTTTTTGAGGACTA-AAGGTGCCACCAACTCGTGTGGGCTT
64 GCTCCTTGAGGAATAGAA-GTGCCACCAACTCATGTGGGCTT
3955595 TGAAAAGAAA
Statistics
Matches: 89, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
115 2 0.02
116 34 0.38
117 53 0.60
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (115 bp):
CTGCTCTTTAAGGACTAAGAAGTGCCACCAACTTGTGTGGGCATTAAAAGGAAAAGGCATCCAGC
TCCTTGAGGAATAGAAGTGCCACCAACTCATGTGGGCTTATAAAGGCATC
Found at i:3956116 original size:41 final size:42
Alignment explanation
Indices: 3956030--3956131 Score: 117
Period size: 41 Copynumber: 2.5 Consensus size: 42
3956020 GTCCCACTTT
*
3956030 TTGAGGACAAA-G-GAAAAGATAATGAAATAGGTCTTGCTCC
1 TTGAGGACAAAGGAGAAAAGATAAAGAAATAGGTCTTGCTCC
*
3956070 TTGAGGACAAAGGAGAAAAGA-AAAGCAA-AGTGTCTTGC-CTC
1 TTGAGGACAAAGGAGAAAAGATAAAGAAATAG-GTCTTGCTC-C
3956111 TTGAGGACAAAGTGA-AAAAGA
1 TTGAGGACAAAG-GAGAAAAGA
3956132 GTGCGTCCTG
Statistics
Matches: 55, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
40 14 0.25
41 32 0.58
42 9 0.16
ACGTcount: A:0.43, C:0.12, G:0.26, T:0.19
Consensus pattern (42 bp):
TTGAGGACAAAGGAGAAAAGATAAAGAAATAGGTCTTGCTCC
Found at i:3956361 original size:61 final size:60
Alignment explanation
Indices: 3956266--3956611 Score: 367
Period size: 61 Copynumber: 5.9 Consensus size: 60
3956256 AAGGAAGTGT
* * * **
3956266 GTCCTACTCTTTGAGGATTG-AAGAGTGCCACCAACTCGCATGGGCTTTGAAAAGATAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAG-GTGCCACCAACTTGTGTGGGCTTTGAAAAGA-AAGGC
* * **
3956327 GTCCTGCCCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAA-TT
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG--AAAAGAAAGGC
* * * * *
3956388 ATCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTAGGCTTT-----TAAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAGGC
*
3956443 GTCCTACTCTTTCGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-----GAAAGGC
1 GTCCTGCTCTTT-GAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAGGC
* *
3956499 GTCCTGCTCTTTGTGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAA-GC
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG--AAAAGAAAGGC
* *
3956560 ATCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAA
1 GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAA
3956612 GGTGTCCTAC
Statistics
Matches: 245, Mismatches: 28, Indels: 26
0.82 0.09 0.09
Matches are distributed among these distances:
54 3 0.01
55 45 0.18
56 51 0.21
59 3 0.01
61 128 0.52
62 9 0.04
63 6 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (60 bp):
GTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAGGC
Found at i:3956524 original size:172 final size:171
Alignment explanation
Indices: 3956266--3956843 Score: 710
Period size: 172 Copynumber: 3.4 Consensus size: 171
3956256 AAGGAAGTGT
* * **
3956266 GTCCTACTCTTTGAGGATTG-AAGAGTGCCACCAACTCGCATGGGCTTTGAAAAGATAAGGCGTC
1 GTCCTACTCTTTGAGGACTGAAAG-GTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCGTC
* * *
3956330 CTGCCCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAATTATCCTAC
59 CTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAATCATCCTGC
* *
3956395 TCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTAGGCTTTTAAAGGC
124 TCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGC
3956443 GTCCTACTCTTTCGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTC
1 GTCCTACTCTTT-GAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTC
* *
3956508 TTTGTGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAGCATCCTGCTCTTTG
65 TTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAATCATCCTGCTCTTTG
* *
3956573 AGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGT
130 AGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGC
* * * *
3956615 GTCCTACTCTTTGAGGACT-AAAGG-GCGA--AA--------GG---AGAGA-GCGTCTTGCTCT
1 GTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCT
* * * * *
3956664 TTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAAAAAAATGCGTCCTGCTTTTTG
66 TTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAT-CATCCTGCTCTTTG
3956728 AGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGC
130 AGGACTGAAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGC
*
3956770 ATCC-AGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTC
1 GTCCTA-CTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTC
3956834 TTTGAGGACT
65 TTTGAGGACT
3956844 AAAGGGCAAA
Statistics
Matches: 350, Mismatches: 30, Indels: 48
0.82 0.07 0.11
Matches are distributed among these distances:
154 13 0.04
155 110 0.31
156 8 0.02
157 3 0.01
159 4 0.01
167 4 0.01
169 3 0.01
170 8 0.02
171 27 0.08
172 125 0.36
173 2 0.01
177 12 0.03
178 28 0.08
179 3 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (171 bp):
GTCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCT
TTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAATCATCCTGCTCTTTGA
GGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGC
Found at i:3956540 original size:55 final size:55
Alignment explanation
Indices: 3956389--3956633 Score: 337
Period size: 55 Copynumber: 4.3 Consensus size: 55
3956379 AAAGAAATTA
* *
3956389 TCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTAGGCTTTTAAAGGCG
1 TCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
3956444 TCCTACTCTTTCGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTACTCTTT-GAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * * * *
3956500 TCCTGCTCTTTGTGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAGCA
1 TCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTG---AAAG---GCG
* *
3956561 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
3956616 TCCTACTCTTTGAGGACT
1 TCCTACTCTTTGAGGACT
3956634 AAAGGGCGAA
Statistics
Matches: 170, Mismatches: 13, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
55 64 0.38
56 51 0.30
58 8 0.05
61 47 0.28
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.29
Consensus pattern (55 bp):
TCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:3956541 original size:27 final size:27
Alignment explanation
Indices: 3956458--3956541 Score: 73
Period size: 29 Copynumber: 3.1 Consensus size: 27
3956448 ACTCTTTCGA
3956458 GGACTGAAAGGTGCCACCAACTTGTGT
1 GGACTGAAAGGTGCCACCAACTTGTGT
* * ** *
3956485 GGGCTTTGAAAGGCGTCCTGC-TCTT-TGT
1 GGAC--TGAAAGGTG-CCACCAACTTGTGT
*
3956513 GGACTGGAAGGTGCCACCAACTTGTGT
1 GGACTGAAAGGTGCCACCAACTTGTGT
3956540 GG
1 GG
3956542 GCTTTGCAAA
Statistics
Matches: 41, Mismatches: 11, Indels: 10
0.66 0.18 0.16
Matches are distributed among these distances:
25 3 0.07
26 10 0.24
27 8 0.20
28 6 0.15
29 11 0.27
30 3 0.07
ACGTcount: A:0.19, C:0.21, G:0.33, T:0.26
Consensus pattern (27 bp):
GGACTGAAAGGTGCCACCAACTTGTGT
Found at i:3956765 original size:29 final size:29
Alignment explanation
Indices: 3956733--3956823 Score: 75
Period size: 29 Copynumber: 3.2 Consensus size: 29
3956723 TTTTGAGGAC
3956733 TAAAAGGTGCCACCAACTTGTGTGGGCTT
1 TAAAAGGTGCCACCAACTTGTGTGGGCTT
* * * *
3956762 TAAAA-G-G-CATCCAGCTCTTTGAGGAC--
1 TAAAAGGTGCCA-CCAACT-TGTGTGGGCTT
*
3956788 TGAAAGGTGCCACCAACTTGTGTGGGCTT
1 TAAAAGGTGCCACCAACTTGTGTGGGCTT
*
3956817 TGAAAGG
1 TAAAAGG
3956824 CGTCCTGCTC
Statistics
Matches: 46, Mismatches: 9, Indels: 14
0.67 0.13 0.20
Matches are distributed among these distances:
26 6 0.13
27 13 0.28
28 13 0.28
29 14 0.30
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (29 bp):
TAAAAGGTGCCACCAACTTGTGTGGGCTT
Found at i:3956780 original size:155 final size:156
Alignment explanation
Indices: 3956497--3956794 Score: 451
Period size: 155 Copynumber: 1.9 Consensus size: 156
3956487 GCTTTGAAAG
* * * *
3956497 GCGTCCTGCTCTTTGTGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAGCAT
1 GCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAAAAAAAGCAT
* **
3956562 CCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTACTCTTT
66 CCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTACTCTTT
3956627 GAGGACT-AAAGGGCGAAAGGAGAGA
131 GAGGACTGAAAGGGCGAAAGGAGAGA
* *
3956652 GCGTCTTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAAAAAAATGCG
1 GCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAAAAAAA-GCA
*
3956716 TCCTGCTTTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCC-AGCTC
65 TCCTGCTCTTTGAGGACTGAAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTA-CTC
3956779 TTTGAGGACTGAAAGG
128 TTTGAGGACTGAAAGG
3956795 TGCCACCAAC
Statistics
Matches: 129, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
154 13 0.10
155 111 0.86
156 5 0.04
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (156 bp):
GCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAAAAAAAGCAT
CCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTACTCTTT
GAGGACTGAAAGGGCGAAAGGAGAGA
Found at i:3956808 original size:55 final size:55
Alignment explanation
Indices: 3956652--3956848 Score: 254
Period size: 55 Copynumber: 3.5 Consensus size: 55
3956642 AAAGGAGAGA
* *
3956652 GCGTCTTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAAAAAAAT
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT------AAAAG
* *
3956713 GCGTCCTGCTTTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * *
3956768 GCATCCAGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
3956823 GCGTCCTGCTCTTTGAGGACT-AAAGG
1 GCGTCCTGCTCTTTGAGGACTGAAAGG
3956849 GCAAAAGGAG
Statistics
Matches: 124, Mismatches: 11, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
54 5 0.04
55 73 0.59
60 3 0.02
61 43 0.35
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (55 bp):
GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
Found at i:3956818 original size:210 final size:203
Alignment explanation
Indices: 3956441--3957240 Score: 798
Period size: 210 Copynumber: 3.8 Consensus size: 203
3956431 GCTTTTAAAG
*
3956441 GCGTCCTACTCTTTCGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTG
1 GCGTCCTACTCTTT-GAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTG
* * *
3956505 CTCTTTGTGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAGCATCCTGCTCT
64 CTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTT---AAAAG---GCATCCAGCTCT
* *
3956570 TTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTACTCTTTGAGGACTA
122 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTACTCTTTGAGGACTA
*
3956635 AAGGGCGAAAGGAGAGA
187 AAGGGCAAAAGGAGAGA
* * *
3956652 GCGTCTTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAAAAAAATGCGT
1 GCGTCCTACTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT------AAAAGGCGT
*
3956717 CCTGCTTTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCAGCTCTTT
60 CCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCAGCTCTTT
*
3956782 GAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAAA
124 GAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTACTCTTTGAGGACTAAA
3956847 GGGCAAAAGGAGAGA
189 GGGCAAAAGGAGAGA
*
3956862 GCGTCCTACTCTTTAAGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGC
1 GCGTCCTACTCTTTGAGGACT-GGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGC
* *
3956926 TCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTACTA-CTCTTTGAGGA
65 TCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCAT-CCAGCTCTTTGAGGA
** ** ** ** * *
3956990 CT-AAAGGGTGAAAGGAGA-GGGTGTCTTGCTTTTTGAGGACTAGGAAGTGCC-ACCAACTTGTG
129 CTGAAA-GGTGCCACCA-ACTTGTGT-GGGC--TTTGA--A--AGG-CGT-CCTA-C-TCTT-TG
* * **
3957052 TGGGCT-----TTAAAAGGAGA-A
180 AGGACTAAAGGGCAAAAGGAGAGA
* * * * *
3957070 GGCGTCCTGCTCTTTGAGGATTGGGAAGTGCCAACAATTTGTGTGGGCTTTAAAAGGCGTCCTGC
1 -GCGTCCTACTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGC
* *
3957135 TCTTTGAGGACTAAAGAAGTGCCACCAACTTGTGTGGGTTTTAAAAGGAAAAGGCATCCTGCTCT
65 TCTTTGAGGACTAAAG--GTGCCACCAACTTGTGTGGGCTTT------AAAAGGCATCCAGCTCT
* *
3957200 TTGAGGACT-AAAGGTGCCACCACCTCGTGTGGGCTTTGAAA
122 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAA
3957241 AGAAAAAAAC
Statistics
Matches: 501, Mismatches: 53, Indels: 72
0.80 0.08 0.12
Matches are distributed among these distances:
202 3 0.01
203 59 0.12
204 29 0.06
206 5 0.01
208 4 0.01
209 82 0.16
210 167 0.33
211 44 0.09
212 3 0.01
213 13 0.03
214 6 0.01
215 2 0.00
216 60 0.12
217 24 0.05
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (203 bp):
GCGTCCTACTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
CTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCAGCTCTTTGAGGACT
GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTACTCTTTGAGGACTAAAGGGCAAA
AGGAGAGA
Found at i:3956961 original size:54 final size:54
Alignment explanation
Indices: 3956862--3956996 Score: 218
Period size: 54 Copynumber: 2.5 Consensus size: 54
3956852 AAAGGAGAGA
*
3956862 GCGTCCTACTCTTTAAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTACTCTTTGAGGACTA--AAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
*
3956917 GCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTACTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
*
3956971 GCGTACTACTCTTTGAGGACTAAAGG
1 GCGTCCTACTCTTTGAGGACTAAAGG
3956997 GTGAAAGGAG
Statistics
Matches: 75, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
53 2 0.03
54 53 0.71
55 20 0.27
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (54 bp):
GCGTCCTACTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
Found at i:3957004 original size:148 final size:149
Alignment explanation
Indices: 3956713--3957150 Score: 621
Period size: 148 Copynumber: 2.9 Consensus size: 149
3956703 AAAAAAAAAT
* * *
3956713 GCGTCCTGCTTTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCAGC
1 GCGTCCTGCTTTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGC
*
3956777 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGA
65 TCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGA
3956842 CTAAAGGGCAAAAGGAGAGA
130 CTAAAGGGCAAAAGGAGAGA
* * *
3956862 GCGTCCTACTCTTTAAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
1 GCGTCCTGCTTTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
* *
3956927 CTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTACTACTCTTTGAGGAC
66 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGAC
** *
3956991 TAAAGGGTGAAAGGAGAGG
131 TAAAGGGCAAAAGGAGAGA
* *
3957010 GTGTCTTGCTTTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGT
1 GCGTCCTGCTTTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTT---A--A-AAGGCGT
* * * *
3957075 CCTGCTCTTTGAGGATTGGGAA-GTGCCAACAATTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
60 CCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
3957139 TGAGGACTAAAG
124 TGAGGACTAAAG
3957151 AAGTGCCACC
Statistics
Matches: 257, Mismatches: 23, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
148 111 0.43
149 67 0.26
150 2 0.01
151 1 0.00
153 1 0.00
154 23 0.09
155 50 0.19
156 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.27
Consensus pattern (149 bp):
GCGTCCTGCTTTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCT
CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGAC
TAAAGGGCAAAAGGAGAGA
Found at i:3957097 original size:61 final size:61
Alignment explanation
Indices: 3957016--3957270 Score: 301
Period size: 61 Copynumber: 4.3 Consensus size: 61
3957006 GAGGGTGTCT
* *
3957016 TGCTTTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCC
1 TGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
* * * *
3957077 TGCTCTTTGAGGATTGGGAAGTGCCAACAATTTGTGTGGGCTTT------AAAAGGCGTCC
1 TGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
* * *
3957132 TGCTCTTTGAGGACTAAAGAAGTGCCACCAACTTGTGTGGGTTTTAAAAGGAAAAGGCATCC
1 TGCTCTTTGAGGACT-AGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
* * * **
3957194 TGCTCTTTGAGGACTA--AAGGTGCCACCACCTCGTGTGGGCTTTGAAAAGAAAAAAACGTCC
1 TGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCGTCC
3957255 TGCTCTTTGAGGACTA
1 TGCTCTTTGAGGACTA
3957271 AGAGGGCTAA
Statistics
Matches: 165, Mismatches: 20, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
55 24 0.15
56 24 0.15
59 2 0.01
60 21 0.13
61 69 0.42
62 25 0.15
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (61 bp):
TGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
Found at i:3957242 original size:117 final size:115
Alignment explanation
Indices: 3957016--3957242 Score: 312
Period size: 117 Copynumber: 1.9 Consensus size: 115
3957006 GAGGGTGTCT
* * * *
3957016 TGCTTTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCT
1 TGCTCTTTGAGGACTAAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCT
* * * *
3957081 CTTTGAGGATTGGGAAGTGCCAACAATTTGTGTGGGCTTTAAAAGGCGTCC
66 CTTTGAGGACT-GAAAGTGCCAACAACTCGTGTGGGCTTTAAAAGGCGTCC
*
3957132 TGCTCTTTGAGGACTAAAGAAGTGCCACCAACTTGTGTGGGTTTTAAAAGGAAAAGGCATCCTGC
1 TGCTCTTTGAGGACT-AAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGC
* *
3957197 TCTTTGAGGACT-AAAGGTGCCACCACCTCGTGTGGGCTTTGAAAAG
65 TCTTTGAGGACTGAAA-GTGCCAACAACTCGTGTGGGCTTT-AAAAG
3957243 AAAAAAACGT
Statistics
Matches: 97, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
115 2 0.02
116 34 0.35
117 61 0.63
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (115 bp):
TGCTCTTTGAGGACTAAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCT
CTTTGAGGACTGAAAGTGCCAACAACTCGTGTGGGCTTTAAAAGGCGTCC
Found at i:3960282 original size:51 final size:51
Alignment explanation
Indices: 3960216--3960334 Score: 184
Period size: 51 Copynumber: 2.3 Consensus size: 51
3960206 TGAAAATAAT
*
3960216 GGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATATTAGAAATAAGGCC
1 GGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATATTAGAAATAAAGCC
* * * *
3960267 GGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCT
1 GGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATATTAGAAATAAAGCC
*
3960318 AGGGTTGGAGTATCCCC
1 GGGGTTGGAGTATCCCC
3960335 TCGGAAATAA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.27
Consensus pattern (51 bp):
GGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATATTAGAAATAAAGCC
Found at i:3960421 original size:28 final size:28
Alignment explanation
Indices: 3960319--3960421 Score: 161
Period size: 28 Copynumber: 3.7 Consensus size: 28
3960309 AATAAAGCTA
***
3960319 GGGTTGGAGTATCCCCTCGGAAATAACG
1 GGGTTGGAGTATCCCCGATGAAATAACG
*
3960347 GGGTTGGAGTATCCTCGATGAAATAACG
1 GGGTTGGAGTATCCCCGATGAAATAACG
*
3960375 GGGTTGGAGTATCCTCGATGAAATAACG
1 GGGTTGGAGTATCCCCGATGAAATAACG
3960403 GGGTTGGAGTATCCCCGAT
1 GGGTTGGAGTATCCCCGAT
3960422 TGTGAGAAAT
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 70 1.00
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.24
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCGATGAAATAACG
Found at i:3960472 original size:51 final size:51
Alignment explanation
Indices: 3960404--3960573 Score: 286
Period size: 51 Copynumber: 3.3 Consensus size: 51
3960394 GAAATAACGG
*
3960404 GGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGGCTGA
1 GGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGGCTGA
3960455 GGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGGCTGA
1 GGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGGCTGA
* * * *
3960506 GGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAACAAAGCTGG
1 GGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGGCTGA
*
3960557 GGTTGGAGTATCCCCGA
1 GGTTGAAGTATCCCCGA
3960574 AATAATGGGA
Statistics
Matches: 113, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 113 1.00
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (51 bp):
GGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGGCTGA
Found at i:3960620 original size:28 final size:26
Alignment explanation
Indices: 3960558--3960626 Score: 95
Period size: 25 Copynumber: 2.6 Consensus size: 26
3960548 CAAAGCTGGG
*
3960558 GTTGGAGTATCCCCGAAATAATGGGA
1 GTTGGAGTATCCCCGAAATAATCGGA
*
3960584 -TTGGAGTATCCCGATGAAATAATCGGA
1 GTTGGAGTATCCC--CGAAATAATCGGA
3960611 GTTGGAGTATCCCCGA
1 GTTGGAGTATCCCCGA
3960627 TTGTGGAGAT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
25 12 0.32
26 2 0.05
27 11 0.30
28 12 0.32
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (26 bp):
GTTGGAGTATCCCCGAAATAATCGGA
Found at i:3960804 original size:155 final size:155
Alignment explanation
Indices: 3960644--3960985 Score: 399
Period size: 155 Copynumber: 2.2 Consensus size: 155
3960634 GATTTGGTGT
* *
3960644 TTTAGAAATAAAATCGAGGTTGGAGTATCCCCTCGAAAATAACAGGATTGAAGAATCCTCGATTA
1 TTTAGAAATAAAATCGAGGTTGGAGTATCCCCTCGAAAATAACAGGACTGAAGAATCCCCG---A
* * **
3960709 TGAAGAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAACCCCT-A-AAAAAATGGGGTTGG
63 TGAAAAATTGATGTTTTAGAAATAAAACCGAGGTTGGAGTAACCCCTCAGAAAAAACAGGGTTGG
*
3960772 AGTATCCCCGATTATGAGAAA-TTAAT-A
128 AGTATCCCCGATTATGA-AAAGTCAATGA
* ** * * * *
3960799 TTTAGAAA-AAAAGCCGAGGTTGGAGTATCCCCTCGGGAATAACGGGGCTGGAGTATCCCCGATG
1 TTTAGAAATAAAA-TCGAGGTTGGAGTATCCCCTCGAAAATAACAGGACTGAAGAATCCCCGATG
** *
3960863 AAAAATTGATGTTTTAGAAATAAAACCGAGGTTGGAGTGTCCCCTCAGAAATAACAGGGTTGGAG
65 AAAAATTGATGTTTTAGAAATAAAACCGAGGTTGGAGTAACCCCTCAGAAAAAACAGGGTTGGAG
* * *
3960928 TATCCCCGATTGTGAAAAGTCAGTGT
130 TATCCCCGATTATGAAAAGTCAATGA
*
3960954 TTTGGAAATAAAATCG-GAGTTGGAGTATCCCC
1 TTTAGAAATAAAATCGAG-GTTGGAGTATCCCC
3960986 GATTATGGGA
Statistics
Matches: 158, Mismatches: 22, Indels: 14
0.81 0.11 0.07
Matches are distributed among these distances:
152 44 0.28
153 4 0.03
154 36 0.23
155 70 0.44
156 4 0.03
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (155 bp):
TTTAGAAATAAAATCGAGGTTGGAGTATCCCCTCGAAAATAACAGGACTGAAGAATCCCCGATGA
AAAATTGATGTTTTAGAAATAAAACCGAGGTTGGAGTAACCCCTCAGAAAAAACAGGGTTGGAGT
ATCCCCGATTATGAAAAGTCAATGA
Found at i:3960822 original size:76 final size:77
Alignment explanation
Indices: 3960611--3960985 Score: 384
Period size: 79 Copynumber: 4.8 Consensus size: 77
3960601 AATAATCGGA
* * * * *
3960611 GTTGGAGTATCCCCGATTGTGGAGATTTGGTGTTTTAGAAATAAAATCGAGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTAT-GAAAATTGATGTTTTAGAAATAAAACCGAGGTTGGAGTATCCCC
3960676 TCGAAAATAACAGG
65 TC-AAAATAACAGG
* * * * * *
3960690 ATTGAAGAATCCTCGATTATGAAGAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAACCCC
1 GTTGGAGTATCCCCGATTATGAA-AATTGATGTTTTAGAAATAAAACCGAGGTTGGAGTATCCCC
* **
3960755 T-AAAAAAATGGG
65 TCAAAATAACAGG
* *
3960767 GTTGGAGTATCCCCGATTATGAGAAATTAAT-ATTTAGAAA-AAAAGCCGAGGTTGGAGTATCCC
1 GTTGGAGTATCCCCGATTATGA-AAATTGATGTTTTAGAAATAAAA-CCGAGGTTGGAGTATCCC
** *
3960830 CTCGGGAATAACGGG
64 CTC-AAAATAACAGG
* * *
3960845 GCTGGAGTATCCCCGATGA--AAAATTGATGTTTTAGAAATAAAACCGAGGTTGGAGTGTCCCCT
1 GTTGGAGTATCCCCGATTATGAAAATTGATGTTTTAGAAATAAAACCGAGGTTGGAGTATCCCCT
3960908 CAGAAATAACAGG
66 CA-AAATAACAGG
* * * * *
3960921 GTTGGAGTATCCCCGATTGTGAAAAGTCAGTGTTTTGGAAATAAAATCG-GAGTTGGAGTATCCC
1 GTTGGAGTATCCCCGATTATGAAAATTGA-TGTTTTAGAAATAAAACCGAG-GTTGGAGTATCCC
3960985 C
64 C
3960986 GATTATGGGA
Statistics
Matches: 242, Mismatches: 42, Indels: 24
0.79 0.14 0.08
Matches are distributed among these distances:
75 11 0.05
76 79 0.33
77 36 0.15
78 34 0.14
79 82 0.34
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (77 bp):
GTTGGAGTATCCCCGATTATGAAAATTGATGTTTTAGAAATAAAACCGAGGTTGGAGTATCCCCT
CAAAATAACAGG
Found at i:3960976 original size:51 final size:49
Alignment explanation
Indices: 3960921--3961097 Score: 176
Period size: 51 Copynumber: 3.5 Consensus size: 49
3960911 AAATAACAGG
*
3960921 GTTGGAGTATCCCCGATTGTGAAAAGTCAGTGTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAA-T-AGTGTTTTGGAAATAAAATCGGA
* * **
3960972 GTTGGAGTATCCCCGATTATGGGAAATGGGTGTTTTAAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTAT-GAAAAT-AGTGTTTTGGAAATAAAATCGGA
* * * * * * *
3961023 GTTGGAATATCCCCGATTAAGAAAAATTGATGTCTTGGAAATGAAACCGGG
1 GTTGGAGTATCCCCGATTATG-AAAATAG-TGTTTTGGAAATAAAATCGGA
*
3961074 GTTGGAGTATCCCCGA-GATGAAAA
1 GTTGGAGTATCCCCGATTATGAAAA
3961098 ATCTAGAAAT
Statistics
Matches: 104, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
49 4 0.04
50 4 0.04
51 92 0.88
52 4 0.04
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.27
Consensus pattern (49 bp):
GTTGGAGTATCCCCGATTATGAAAATAGTGTTTTGGAAATAAAATCGGA
Found at i:3962624 original size:13 final size:13
Alignment explanation
Indices: 3962606--3962631 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3962596 CAATTTTTGG
3962606 TGTATCGATACAT
1 TGTATCGATACAT
3962619 TGTATCGATACAT
1 TGTATCGATACAT
3962632 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3962643 original size:32 final size:33
Alignment explanation
Indices: 3962586--3962649 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
3962576 TACAAGCCAA
**
3962586 TGTATCGATACAATTTTTGGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
3962619 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
3962650 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:3962656 original size:19 final size:18
Alignment explanation
Indices: 3962586--3962656 Score: 62
Period size: 19 Copynumber: 4.0 Consensus size: 18
3962576 TACAAGCCAA
3962586 TGTATCGATACAATTTTTGG
1 TGTATCGATACAA--TTTGG
3962606 TGTATCGATAC-A--T--
1 TGTATCGATACAATTTGG
*
3962619 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
3962638 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
3962657 CTACTGCCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 1 0.02
18 1 0.02
19 17 0.40
20 11 0.26
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:3964550 original size:20 final size:19
Alignment explanation
Indices: 3964525--3964599 Score: 105
Period size: 20 Copynumber: 3.8 Consensus size: 19
3964515 AAAAATGCCT
*
3964525 AAATGTATCGATACATTGTA
1 AAATGTATCGATACAATG-A
3964545 AAATGTATCGATACAATGA
1 AAATGTATCGATACAATGA
*
3964564 GCAATGTATCGATACAATGCA
1 -AAATGTATCGATACAATG-A
3964585 AAATGTATCGATACA
1 AAATGTATCGATACA
3964600 TCTGGGTAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 1 0.02
20 48 0.96
21 1 0.02
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.28
Consensus pattern (19 bp):
AAATGTATCGATACAATGA
Found at i:3965385 original size:41 final size:41
Alignment explanation
Indices: 3965327--3965426 Score: 118
Period size: 41 Copynumber: 2.4 Consensus size: 41
3965317 ATCCCACTTT
* *
3965327 TTGAGGACAAAGG-AAAA-GAGAATGAAATAG-GTCTTGC-TC
1 TTGAGGACAAAGGAAAAAGGA-AAAGAAA-AGTGTCCTGCTTC
3965366 ATTGAGGACAAAGGAAAAAGGAAAAGAAAAGTGTCCTGCTTC
1 -TTGAGGACAAAGGAAAAAGGAAAAGAAAAGTGTCCTGCTTC
3965408 TTGAGGACAAAGTGAAAAA
1 TTGAGGACAAAG-GAAAAA
3965427 AAGTACGTCC
Statistics
Matches: 53, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
40 15 0.28
41 28 0.53
42 10 0.19
ACGTcount: A:0.45, C:0.10, G:0.27, T:0.18
Consensus pattern (41 bp):
TTGAGGACAAAGGAAAAAGGAAAAGAAAAGTGTCCTGCTTC
Found at i:3965463 original size:35 final size:32
Alignment explanation
Indices: 3965377--3965464 Score: 88
Period size: 35 Copynumber: 2.6 Consensus size: 32
3965367 TTGAGGACAA
3965377 AGGAAAAAGGAAAAGAAAAGTGTCCTGCTTCTTG
1 AGGAAAAA-GAAAA-AAAAGTGTCCTGCTTCTTG
* *
3965411 AGGACAAAGTGAAAAAAAGTACGTCCTGCTT-TTCG
1 AGGAAAAAG-AAAAAAAAGT--GTCCTGCTTCTT-G
3965446 AGGATAAAAGAAAAAAAAG
1 AGGA-AAAAGAAAAAAAAG
3965465 GGAAAACGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
33 7 0.16
34 12 0.27
35 22 0.49
36 4 0.09
ACGTcount: A:0.47, C:0.11, G:0.24, T:0.18
Consensus pattern (32 bp):
AGGAAAAAGAAAAAAAAGTGTCCTGCTTCTTG
Found at i:3965529 original size:42 final size:43
Alignment explanation
Indices: 3965421--3965625 Score: 186
Period size: 43 Copynumber: 4.7 Consensus size: 43
3965411 AGGACAAAGT
* * *
3965421 GAAAA-AAAGTACGTCCTGCT-TTTCGAGGATAAAAGAAAAAAAAGG
1 GAAAATAAAGTGCGTCCTGCTCTTT-GAGGACAAAAG--AAAAGA-G
* *
3965466 GAAAACGAAA-TGCATCCTGCTCTTTGAGGACAAAAG-AAAGAG
1 GAAAA-TAAAGTGCGTCCTGCTCTTTGAGGACAAAAGAAAAGAG
* *
3965508 GAAAATAAAGTGCGTCTTGCTCTTTGAGGACAAAAGAGAAAATAAG
1 GAAAATAAAGTGCGTCCTGCTCTTTGAGGAC-AAA-AGAAAA-GAG
* * * *
3965554 G-GAATGAAGTGTGTCCTGCTCTTTGAGGACAAAGGAAAAGAG
1 GAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAAGAAAAGAG
* *
3965596 GAAAATAAAGTGCATCCTGCCCTTTGAGGA
1 GAAAATAAAGTGCGTCCTGCTCTTTGAGGA
3965626 TTAAAAAGTG
Statistics
Matches: 132, Mismatches: 19, Indels: 20
0.77 0.11 0.12
Matches are distributed among these distances:
41 3 0.02
42 28 0.21
43 35 0.27
44 5 0.04
45 33 0.25
46 22 0.17
47 6 0.05
ACGTcount: A:0.41, C:0.14, G:0.25, T:0.20
Consensus pattern (43 bp):
GAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAAGAAAAGAG
Found at i:3965579 original size:45 final size:43
Alignment explanation
Indices: 3965416--3965625 Score: 171
Period size: 45 Copynumber: 4.8 Consensus size: 43
3965406 TCTTGAGGAC
* * *
3965416 AAAGTGAAAA-AAAGTACGTCCTGCT-TTTCGAGGATAAAAGAAAAA
1 AAAG-GAAAATAAAGTGCGTCCTGCTCTTT-GAGGA-CAAA-AAGAA
* *
3965461 AAAGGGAAAACGAAA-TGCATCCTGCTCTTTGAGGAC-AAAAGAA
1 AAA-GGAAAA-TAAAGTGCGTCCTGCTCTTTGAGGACAAAAAGAA
* *
3965504 AGAGGAAAATAAAGTGCGTCTTGCTCTTTGAGGACAAAAGAGAAA
1 AAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAA-AG-AA
* * * *
3965549 ATAAGG-GAATGAAGTGTGTCCTGCTCTTTGAGGAC-AAAGGAA
1 A-AAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAAAGAA
* *
3965591 AAGAGGAAAATAAAGTGCATCCTGCCCTTTGAGGA
1 AA-AGGAAAATAAAGTGCGTCCTGCTCTTTGAGGA
3965626 TTAAAAAGTG
Statistics
Matches: 135, Mismatches: 19, Indels: 24
0.76 0.11 0.13
Matches are distributed among these distances:
41 4 0.03
42 31 0.23
43 33 0.24
44 7 0.05
45 36 0.27
46 18 0.13
47 6 0.04
ACGTcount: A:0.41, C:0.13, G:0.25, T:0.20
Consensus pattern (43 bp):
AAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAAAGAA
Found at i:3965785 original size:62 final size:61
Alignment explanation
Indices: 3965607--3965785 Score: 263
Period size: 61 Copynumber: 2.9 Consensus size: 61
3965597 AAAATAAAGT
*
3965607 GCATCCTGCCCTTTGAGGATTA-AAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAA
1 GCATCCTGCTCTTTGAGGATTAGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAA
* * * *
3965668 GCATCCTGCTCTTTGAGGATTGGAAAA-TACCACCAACTTGTGTGAGCTTTGAAAGGAAAA
1 GCATCCTGCTCTTTGAGGATTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA
* *
3965728 GGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1 -GCATCCTGCTCTTTGAGGATTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
3965786 TGTCCTGCTC
Statistics
Matches: 104, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
60 9 0.09
61 65 0.62
62 30 0.29
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.26
Consensus pattern (61 bp):
GCATCCTGCTCTTTGAGGATTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA
Found at i:3965804 original size:56 final size:56
Alignment explanation
Indices: 3965610--3965806 Score: 164
Period size: 61 Copynumber: 3.3 Consensus size: 56
3965600 ATAAAGTGCA
* * * * * *
3965610 TCCTGCCCTTTGAGGATTA-AAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGGAAAAGCA
1 TCCTGCTCTTTGAGGACTAGAAAA-TACCACCAACTTGTGTGAGCTTT---AA--AAAGGCG
* *
3965671 TCCTGCTCTTTGAGGATTGGAAAATACCACCAACTTGTGTGAGCTTTGAAAGGAAAAGGCG
1 TCCTGCTCTTTGAGGACTAGAAAATACCACCAACTTGTGTGAGCTTT---A--AAAAGGCG
* * *
3965732 TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGTG
1 TCCTGCTCTTTGAGGACTAGAAAA-TACCACCAACTTGTGTGAGCTTTAAAAAGGCG
*
3965788 TCCTGCTCTTTAAGGACTA
1 TCCTGCTCTTTGAGGACTA
3965807 AAGGGCGAAA
Statistics
Matches: 120, Mismatches: 12, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
56 25 0.21
61 69 0.57
62 25 0.21
63 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (56 bp):
TCCTGCTCTTTGAGGACTAGAAAATACCACCAACTTGTGTGAGCTTTAAAAAGGCG
Found at i:3965886 original size:94 final size:95
Alignment explanation
Indices: 3965729--3965902 Score: 296
Period size: 94 Copynumber: 1.8 Consensus size: 95
3965719 AAAGGAAAAG
* **
3965729 GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGTCCTGC
1 GCGTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGC
3965794 TCTTTAAGGACTAAAGGGCGAAAGGAGAGA
66 TCTTTAAGGACTAAAGGGCGAAAGGAGAGA
*
3965824 GCGTCCTACTCTTTGAGGACT-GGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGC
1 GCGTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGC
*
3965888 TCTTTGAGGACTAAA
66 TCTTTAAGGACTAAA
3965903 AAAAATGCCA
Statistics
Matches: 74, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
94 54 0.73
95 20 0.27
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (95 bp):
GCGTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGC
TCTTTAAGGACTAAAGGGCGAAAGGAGAGA
Found at i:3965987 original size:55 final size:55
Alignment explanation
Indices: 3965827--3966101 Score: 358
Period size: 55 Copynumber: 5.0 Consensus size: 55
3965817 GGAGAGAGCG
* * *
3965827 TCCTACTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
1 TCCTACTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
* * *
3965882 TCCTGCTCTTTGAGGACTAAAAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTACTCTTTGAGGACT--AGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
* * * * *
3965939 TCTTGCTCTTTGAAGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTACTCTTTGAGGACTAGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
* * *
3965994 TCCTACTTTTTGTA-GACTGGAAAATGCCACCAACTTGTGTGAGCTTTGAAAGGCA
1 TCCTACTCTTTG-AGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
3966049 TCCTACTCTTTGAGGACT-GAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGG
1 TCCTACTCTTTGAGGACTAG-AAAATGCCACCAACTTGTGTGGGCTTTGAAAGG
3966102 AAACGGCGTC
Statistics
Matches: 195, Mismatches: 18, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
54 5 0.03
55 137 0.70
56 5 0.03
57 48 0.25
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (55 bp):
TCCTACTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
Found at i:3966044 original size:28 final size:28
Alignment explanation
Indices: 3966013--3966099 Score: 65
Period size: 28 Copynumber: 3.1 Consensus size: 28
3966003 TTGTAGACTG
3966013 GAAAATGCCACCAACTTGTGTGAGCTTT
1 GAAAATGCCACCAACTTGTGTGAGCTTT
* * ***
3966041 G-AAA-GGCATCCTACTCT-T-TGAGGACT
1 GAAAATGCCA-CCAACT-TGTGTGAGCTTT
*
3966067 GAAAAATGCCACCAACTTGTGTGGGCTTT
1 G-AAAATGCCACCAACTTGTGTGAGCTTT
3966096 GAAA
1 GAAA
3966100 GGAAACGGCG
Statistics
Matches: 41, Mismatches: 11, Indels: 14
0.62 0.17 0.21
Matches are distributed among these distances:
26 9 0.22
27 10 0.24
28 14 0.34
29 8 0.20
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (28 bp):
GAAAATGCCACCAACTTGTGTGAGCTTT
Found at i:3967117 original size:9 final size:9
Alignment explanation
Indices: 3967103--3967156 Score: 65
Period size: 9 Copynumber: 6.0 Consensus size: 9
3967093 AAGCAGATTC
3967103 TTTTTCTTT
1 TTTTTCTTT
*
3967112 TTTTTCTCT
1 TTTTTCTTT
3967121 TTTTTCTTT
1 TTTTTCTTT
* *
3967130 GTTTTGTTT
1 TTTTTCTTT
3967139 TTTTT-TTGT
1 TTTTTCTT-T
3967148 TTTTTCTTT
1 TTTTTCTTT
3967157 GTTGTTTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
8 2 0.05
9 34 0.89
10 2 0.05
ACGTcount: A:0.00, C:0.09, G:0.06, T:0.85
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:3967123 original size:11 final size:10
Alignment explanation
Indices: 3967103--3967180 Score: 50
Period size: 11 Copynumber: 7.0 Consensus size: 10
3967093 AAGCAGATTC
3967103 TTTTTCTTTT
1 TTTTTCTTTT
3967113 TTTTCTCTTTT
1 TTTT-TCTTTT
*
3967124 TTCTTTGTTTTGT
1 TT-TTT-CTTT-T
*
3967137 TTTTTTTTTGT
1 TTTTTCTTT-T
3967148 TTTTTCTTTGT
1 TTTTTCTTT-T
3967159 TGTTTT-TTTGGT
1 T-TTTTCTTT--T
3967171 TTTTTCTTTT
1 TTTTTCTTTT
3967181 GAAAAAGAAT
Statistics
Matches: 59, Mismatches: 2, Indels: 14
0.79 0.03 0.19
Matches are distributed among these distances:
10 5 0.08
11 33 0.56
12 18 0.31
13 3 0.05
ACGTcount: A:0.00, C:0.08, G:0.09, T:0.83
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:3967134 original size:27 final size:26
Alignment explanation
Indices: 3967104--3967167 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 26
3967094 AGCAGATTCT
3967104 TTTTCTTTTTTTTCTCTTTTTTCTTTG
1 TTTT-TTTTTTTTCTCTTTTTTCTTTG
* *
3967131 TTTTGTTTTTTTTTTGTTTTTTCTTTG
1 TTTT-TTTTTTTTCTCTTTTTTCTTTG
*
3967158 TTGTTTTTTT
1 TTTTTTTTTT
3967168 GGTTTTTTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
26 6 0.18
27 27 0.82
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.84
Consensus pattern (26 bp):
TTTTTTTTTTTTCTCTTTTTTCTTTG
Found at i:3967141 original size:34 final size:35
Alignment explanation
Indices: 3967103--3967181 Score: 101
Period size: 34 Copynumber: 2.3 Consensus size: 35
3967093 AAGCAGATTC
*
3967103 TTTTTCTTTT-TTTTCTCTTTTTTCTTTGTTTT-GT
1 TTTTTCTTTTGTTTTCTCTTTGTTCTTT-TTTTGGT
* *
3967137 TTTTT-TTTTGTTTTTTCTTTGTTGTTTTTTTGGT
1 TTTTTCTTTTGTTTTCTCTTTGTTCTTTTTTTGGT
3967171 TTTTTCTTTTG
1 TTTTTCTTTTG
3967182 AAAAAGAATG
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
33 8 0.21
34 26 0.67
35 5 0.13
ACGTcount: A:0.00, C:0.08, G:0.10, T:0.82
Consensus pattern (35 bp):
TTTTTCTTTTGTTTTCTCTTTGTTCTTTTTTTGGT
Found at i:3967168 original size:22 final size:23
Alignment explanation
Indices: 3967132--3967179 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
3967122 TTTTCTTTGT
*
3967132 TTTGTT-TTTTTTTTGTTTTTTC
1 TTTGTTGTTTTTTTGGTTTTTTC
3967154 TTTGTTGTTTTTTTGGTTTTTTC
1 TTTGTTGTTTTTTTGGTTTTTTC
3967177 TTT
1 TTT
3967180 TGAAAAAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.00, C:0.04, G:0.12, T:0.83
Consensus pattern (23 bp):
TTTGTTGTTTTTTTGGTTTTTTC
Found at i:3973918 original size:21 final size:21
Alignment explanation
Indices: 3973889--3973933 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
3973879 AAGTTTTTAT
*
3973889 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
3973909 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
3973931 TTT
1 TTT
3973934 CAACCTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:3976190 original size:32 final size:33
Alignment explanation
Indices: 3976133--3976196 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
3976123 TACAAGCCAA
**
3976133 TGTATCGATACAATTTTTGGTGTATCAATACAT
1 TGTATCGATACAATACTTGGTGTATCAATACAT
*
3976166 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCAATACA
3976197 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCAATACAT
Found at i:3978718 original size:13 final size:13
Alignment explanation
Indices: 3978700--3978725 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3978690 ATAATTACCC
3978700 TGTATCGATACAA
1 TGTATCGATACAA
3978713 TGTATCGATACAA
1 TGTATCGATACAA
3978726 AGAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3982663 original size:21 final size:21
Alignment explanation
Indices: 3982634--3982678 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
3982624 AAGTTTTTAT
*
3982634 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
3982654 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
3982676 TTT
1 TTT
3982679 CAACCTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:3984916 original size:13 final size:13
Alignment explanation
Indices: 3984898--3984923 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3984888 CAATTTTTGG
3984898 TGTATCGATACAT
1 TGTATCGATACAT
3984911 TGTATCGATACAT
1 TGTATCGATACAT
3984924 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3984935 original size:32 final size:33
Alignment explanation
Indices: 3984878--3984941 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
3984868 TACAAGCCAA
**
3984878 TGTATCGATACAATTTTTGGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
3984911 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
3984942 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:3984948 original size:19 final size:18
Alignment explanation
Indices: 3984878--3984948 Score: 62
Period size: 19 Copynumber: 4.0 Consensus size: 18
3984868 TACAAGCCAA
3984878 TGTATCGATACAATTTTTGG
1 TGTATCGATACAA--TTTGG
3984898 TGTATCGATAC-A--T--
1 TGTATCGATACAATTTGG
*
3984911 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
3984930 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
3984949 CTACTGCCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 1 0.02
18 1 0.02
19 17 0.40
20 11 0.26
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:3993180 original size:78 final size:79
Alignment explanation
Indices: 3993056--3993386 Score: 310
Period size: 78 Copynumber: 4.2 Consensus size: 79
3993046 TGGAGATAAC
* ** * * * * *
3993056 AACGGGGCT-GAGTATCCCTAATTATGGAAAATTGGTATTCAAAAAATAAAATCGGGGTTGGAGT
1 AACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATATTTAGAAAATAAAACCGGGGTTGGAGT
* * *
3993120 GTCCCCTTGGAAAT
66 ATCCCCTCGAAAAT
* * * * * *
3993134 AACAGGGTTGGAGTATCCCTGATTAT-AAAAATTGGTATTTTGAAAATAAAATCGGGGTTTGAGT
1 AACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATATTTAGAAAATAAAACCGGGGTTGGAGT
*
3993198 ATCCCCTCAAAAAT
66 ATCCCCTCGAAAAT
* * * ** *
3993212 AACGGGGTTGGAGTAACCCCGATTGTGAAAAAATCGATGATTTAG-AAATAAGGCCGGGGTTGAA
1 AACGGGGTTGGAGTATCCCCGATTATG-AAAAATTGAT-ATTTAGAAAATAAAACCGGGGTTGGA
*
3993276 GTATCCCCACGAAAAT
64 GTATCCCCTCGAAAAT
* * * * * *
3993292 AACGGGGTTGGAGTATCCCCGATTGTGAGAAATTAATATTTTAG-AAATAAAGCCGAGGATGGAG
1 AACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATA-TTTAGAAAATAAAACCGGGGTTGGAG
* *
3993356 TATGCCCTTGAAAAT
65 TATCCCCTCGAAAAT
3993371 AACGGGGTTGGAGTAT
1 AACGGGGTTGGAGTAT
3993387 TCCCAATGAA
Statistics
Matches: 211, Mismatches: 37, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
78 73 0.35
79 71 0.34
80 62 0.29
81 5 0.02
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (79 bp):
AACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATATTTAGAAAATAAAACCGGGGTTGGAGT
ATCCCCTCGAAAAT
Found at i:3993380 original size:79 final size:79
Alignment explanation
Indices: 3993099--3993386 Score: 312
Period size: 80 Copynumber: 3.6 Consensus size: 79
3993089 GGTATTCAAA
** * * * * * *
3993099 AAATAAAATCGGGGTTGGAGTGTCCCCTTGGAAATAACAGGGTTGGAGTATCCCTGATTAT-AAA
1 AAATAAAGCCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAA
*
3993163 AATTGGTATTTT-G
66 AATTGATATTTTAG
** * * *
3993176 AAAATAAAATCGGGGTTTGAGTATCCCCTCAAAAATAACGGGGTTGGAGTAACCCCGATTGTGAA
1 -AAATAAAGCCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTG-A
*
3993241 AAAATCGATGA-TTTAG
64 AAAATTGAT-ATTTTAG
* * * *
3993257 AAATAAGGCCGGGGTTGAAGTATCCCCACGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGA
1 AAATAAAGCCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAA
*
3993322 AATTAATATTTTAG
66 AATTGATATTTTAG
* * * *
3993336 AAATAAAGCCGAGGATGGAGTATGCCCTTGAAAATAACGGGGTTGGAGTAT
1 AAATAAAGCCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTAT
3993387 TCCCAATGAA
Statistics
Matches: 176, Mismatches: 29, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
78 53 0.30
79 56 0.32
80 65 0.37
81 2 0.01
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (79 bp):
AAATAAAGCCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAA
AATTGATATTTTAG
Found at i:3993384 original size:28 final size:28
Alignment explanation
Indices: 3993351--3993414 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
3993341 AAGCCGAGGA
* *
3993351 TGGAGTATGCCC-TTGAAAATAACGGGGT
1 TGGAGTATGCCCAATG-AAATAACAGGGT
* *
3993379 TGGAGTATTCCCAATGAAATAATAGGGT
1 TGGAGTATGCCCAATGAAATAACAGGGT
3993407 TGGAGTAT
1 TGGAGTAT
3993415 CCCCCATTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 29 0.94
29 2 0.06
ACGTcount: A:0.31, C:0.11, G:0.30, T:0.28
Consensus pattern (28 bp):
TGGAGTATGCCCAATGAAATAACAGGGT
Found at i:3993399 original size:107 final size:107
Alignment explanation
Indices: 3993266--3993465 Score: 253
Period size: 107 Copynumber: 1.9 Consensus size: 107
3993256 GAAATAAGGC
* * * * *
3993266 CGGGGTTGAAGTATCCCCACGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATTAATAT
1 CGGGGTTGAAGTATCCCAACGAAAATAACAGGGTTGGAGTATCCCCCATTGTGAAAAATGAATAT
3993331 TTTAGAAAT-AAAGCCGAGGA-TGGAGTATGCCCTTGAAAATAA
66 TTTAGAAATGAAA-CCG-GGATTGGAGTATGCCCTTGAAAATAA
* * * * *
3993373 CGGGGTTGGAGTATTCCCAATG-AAATAATAGGGTTGGAGTATCCCCCATTGTGAAAAATGGATG
1 CGGGGTTGAAGTA-TCCCAACGAAAATAACAGGGTTGGAGTATCCCCCATTGTGAAAAATGAATA
*
3993437 TTTTGGAAATGAAACCGGGATTGGAGTAT
65 TTTTAGAAATGAAACCGGGATTGGAGTAT
3993466 CCCCGAGATG
Statistics
Matches: 79, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
106 3 0.04
107 67 0.85
108 9 0.11
ACGTcount: A:0.33, C:0.14, G:0.28, T:0.26
Consensus pattern (107 bp):
CGGGGTTGAAGTATCCCAACGAAAATAACAGGGTTGGAGTATCCCCCATTGTGAAAAATGAATAT
TTTAGAAATGAAACCGGGATTGGAGTATGCCCTTGAAAATAA
Found at i:3995677 original size:13 final size:13
Alignment explanation
Indices: 3995661--3995691 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
3995651 ATACAATGAG
3995661 CAATGTATCGATA
1 CAATGTATCGATA
3995674 CAATGTATCGATA
1 CAATGTATCGATA
3995687 CAATG
1 CAATG
3995692 AGTAATGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:3995684 original size:33 final size:33
Alignment explanation
Indices: 3995642--3995711 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 33
3995632 TATATTGTAA
3995642 AATGTATCGATACAATGAGCAATGTATCGATAC
1 AATGTATCGATACAATGAGCAATGTATCGATAC
* *
3995675 AATGTATCGATACAATGAGTAATGTATCGGTAC
1 AATGTATCGATACAATGAGCAATGTATCGATAC
3995708 AATG
1 AATG
3995712 CAAAATGTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.29
Consensus pattern (33 bp):
AATGTATCGATACAATGAGCAATGTATCGATAC
Found at i:3995700 original size:20 final size:19
Alignment explanation
Indices: 3995642--3995728 Score: 78
Period size: 20 Copynumber: 4.7 Consensus size: 19
3995632 TATATTGTAA
3995642 AATGTATCGATACAATGAG
1 AATGTATCGATACAATGAG
3995661 CAATGTATCGATAC------
1 -AATGTATCGATACAATGAG
3995675 AATGTATCGATACAATGAG
1 AATGTATCGATACAATGAG
* *
3995694 TAATGTATCGGTACAATGCAA
1 -AATGTATCGATACAATG-AG
*
3995715 AATGTATCAATACA
1 AATGTATCGATACA
3995729 TCTGGGTAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 16
0.73 0.05 0.21
Matches are distributed among these distances:
13 13 0.24
20 41 0.75
21 1 0.02
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (19 bp):
AATGTATCGATACAATGAG
Found at i:3996082 original size:61 final size:61
Alignment explanation
Indices: 3995984--3996257 Score: 382
Period size: 61 Copynumber: 4.6 Consensus size: 61
3995974 GAAAAGGGTG
* *
3995984 AAAGGAGAGGGCGTCCTGCTCTTTGAGGACTAAGAAGTGCCACCAACTTGTGTGGGCTTTA
1 AAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAGAAGTGCCACCAACTTGTGTGGGCTTTA
* *
3996045 AAAGGAGAAGGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTT-
1 AAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAGAAGTGCCACCAACTTGTGTGGGCTTTA
3996105 -----AAAAGGCGTCCTGCTCTTTGAGGACTAAAGAAGTGCCACCAACTTGTGTGGGCTTTA
1 AAAGGAAAAGGCGTCCTGCTCTTTGAGGACT-AAGAAGTGCCACCAACTTGTGTGGGCTTTA
* * * *
3996162 AAGGGAAAAGGCGTCCTACTCTTTGAGGACTAA-AGGTGCCACCAACTCGTGTGGGCTTTGA
1 AAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAGAAGTGCCACCAACTTGTGTGGGCTTT-A
* * *
3996223 AAAGAAAAAGGCATCCTGCTCTTTAAGGACTAAGA
1 AAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAGA
3996258 GGGCTAAATT
Statistics
Matches: 192, Mismatches: 12, Indels: 17
0.87 0.05 0.08
Matches are distributed among these distances:
55 25 0.13
56 28 0.15
60 24 0.12
61 89 0.46
62 26 0.14
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.24
Consensus pattern (61 bp):
AAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAGAAGTGCCACCAACTTGTGTGGGCTTTA
Found at i:3996215 original size:116 final size:116
Alignment explanation
Indices: 3995993--3996226 Score: 391
Period size: 117 Copynumber: 2.0 Consensus size: 116
3995983 GAAAGGAGAG
*
3995993 GGCGTCCTGCTCTTTGAGGACTAAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
1 GGCGTCCTGCTCTTTGAGGACTAAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* *
3996058 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTT-AAAA
66 TCCTACTCTTTGAGGACTA-GAAGTGCCACCAACTCGTGTGGGCTTTGAAAA
*
3996109 GGCGTCCTGCTCTTTGAGGACTAAAGAAGTGCCACCAACTTGTGTGGGCTTTAAAGGGAAAAGGC
1 GGCGTCCTGCTCTTTGAGGACT-AAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
3996174 GTCCTACTCTTTGAGGACTA-AAGGTGCCACCAACTCGTGTGGGCTTTGAAAA
65 GTCCTACTCTTTGAGGACTAGAA-GTGCCACCAACTCGTGTGGGCTTTGAAAA
3996226 G
1 G
3996227 AAAAAGGCAT
Statistics
Matches: 111, Mismatches: 4, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
115 2 0.02
116 45 0.41
117 64 0.58
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (116 bp):
GGCGTCCTGCTCTTTGAGGACTAAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
TCCTACTCTTTGAGGACTAGAAGTGCCACCAACTCGTGTGGGCTTTGAAAA
Found at i:3996700 original size:40 final size:41
Alignment explanation
Indices: 3996656--3996755 Score: 123
Period size: 41 Copynumber: 2.4 Consensus size: 41
3996646 GTCCCACTTT
* * *
3996656 TTGAGGACAAAGGAAAAGAG-AATGAAATAG-GTCTTGCTCC
1 TTGAGGACAAAGGAAAAAAGAAAAGAAA-AGTGTCTTACTCC
* *
3996696 TTGAGGACAAAGGAAAAAAGAAAAGGAAAGTGTCTTACTTC
1 TTGAGGACAAAGGAAAAAAGAAAAGAAAAGTGTCTTACTCC
3996737 TTGAGGACAAAGTGAAAAA
1 TTGAGGACAAAG-GAAAAA
3996756 GAGTACGTCC
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
40 21 0.40
41 25 0.48
42 6 0.12
ACGTcount: A:0.45, C:0.10, G:0.26, T:0.19
Consensus pattern (41 bp):
TTGAGGACAAAGGAAAAAAGAAAAGAAAAGTGTCTTACTCC
Found at i:3996987 original size:60 final size:61
Alignment explanation
Indices: 3996893--3997031 Score: 167
Period size: 60 Copynumber: 2.3 Consensus size: 61
3996883 AGGAAGTATG
*
3996893 TCCTGCTCTTTGAGGACTGAAAACTGCCACCAACTCGTGTGGGCTCTG-AAAAGA-AAAGGCA
1 TCCTGCTCTTTAAGGACTGAAAACTGCCACCAACTCGTGTGGGCTCTGCAAAA-ACAAA-GCA
* * ** * *
3996954 TCCTGC-CTTTTAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAAACAAAGCA
1 TCCTGCTCTTTAAGGACTGAAAACTGCCACCAACTCGTGTGGGCTCTGCAAAAACAAAGCA
*
3997014 TCTTGCTCTTTAAGGACT
1 TCCTGCTCTTTAAGGACT
3997032 AAAGGGCGAA
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
60 44 0.66
61 23 0.34
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.26
Consensus pattern (61 bp):
TCCTGCTCTTTAAGGACTGAAAACTGCCACCAACTCGTGTGGGCTCTGCAAAAACAAAGCA
Found at i:3997143 original size:61 final size:55
Alignment explanation
Indices: 3997076--3997249 Score: 197
Period size: 55 Copynumber: 3.1 Consensus size: 55
3997066 GGATTGGAAA
*
3997076 GTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGTGTCCTA-CTATTTGAGGACTAAAAG
1 GTGCCACCAACTTGTGTGGGCTTT----A-A-AAGGCGTCC-AGCTATTTGAGGACTAAAAG
* * * *
3997137 GTGCCACCAACTTATGTAGGCTTTAAAAGGCGTCCAGCTCTTTGAGGACTGAAAG
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCAGCTATTTGAGGACTAAAAG
* * * *
3997192 GTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAAAGG
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCAGCTATTTGAGGACTAAAAG
3997247 GTG
1 GTG
3997250 AAAGGAGAGA
Statistics
Matches: 101, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
54 1 0.01
55 76 0.75
56 1 0.01
57 1 0.01
61 22 0.22
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (55 bp):
GTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCAGCTATTTGAGGACTAAAAG
Found at i:3997334 original size:94 final size:94
Alignment explanation
Indices: 3997173--3997409 Score: 370
Period size: 94 Copynumber: 2.5 Consensus size: 94
3997163 AAGGCGTCCA
* *
3997173 GCTCTTTGAGGACT--GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTG
1 GCTCTTTGAGGACTAGGAAA--TGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTA
*
3997236 AGGACTAAAGGGTGAAAGGAGAGAGCGACAT
64 AGGACTAAAGGGAGAAAGGAGAGAGCGACAT
3997267 GCTCTTTGAGGACTAGGAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTAAG
1 GCTCTTTGAGGACTAGGAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTAAG
* *
3997332 GACTAAAGGGAGAAAGGAGAGAGCGTCCT
66 GACTAAAGGGAGAAAGGAGAGAGCGACAT
* * *
3997361 GCTCTTTGAGGACTAGGAAGTACCACCAACTTATGTGGGCTTTAAAAGG
1 GCTCTTTGAGGACTAGGAAATGCCACCAACTTGTGTGGGCTTTAAAAGG
3997410 AGAAGGCGTC
Statistics
Matches: 133, Mismatches: 8, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
94 129 0.97
96 4 0.03
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (94 bp):
GCTCTTTGAGGACTAGGAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTAAG
GACTAAAGGGAGAAAGGAGAGAGCGACAT
Found at i:3997439 original size:61 final size:61
Alignment explanation
Indices: 3997344--3997552 Score: 238
Period size: 61 Copynumber: 3.5 Consensus size: 61
3997334 CTAAAGGGAG
*
3997344 AAAGGAG-AGAGCGTCCTGCTCTTTGAGGACTAGGAAGTACCACCAACTTATGTGGGCTTTA
1 AAAGGAGAAG-GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTATGTGGGCTTTA
*
3997405 AAAGGAGAAGGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACTAACTTATGTGGGCTTT-
1 AAAGGAGAAGGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTATGTGGGCTTTA
* ** *
3997465 --A--A-AAGGCGTCCTGCTCTTTGAGGACCA--AAGGTGCCACCAACTCGTGTGAGCTTTGA
1 AAAGGAGAAGGCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTATGTGGGCTTT-A
* * * *
3997521 AAAGAAAAAGGCATCTTGCTCTTTGAGGACTA
1 AAAGGAGAAGGCGTCCTGCTCTTTGAGGACTA
3997553 AGAGGGCTAA
Statistics
Matches: 129, Mismatches: 10, Indels: 18
0.82 0.06 0.11
Matches are distributed among these distances:
53 2 0.02
54 20 0.16
55 24 0.19
56 1 0.01
58 2 0.02
60 1 0.01
61 77 0.60
62 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (61 bp):
AAAGGAGAAGGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTATGTGGGCTTTA
Found at i:3998019 original size:13 final size:13
Alignment explanation
Indices: 3998001--3998029 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
3997991 AAATAGTACC
3998001 CAATGTATCGATA
1 CAATGTATCGATA
3998014 CAATGTATCGATA
1 CAATGTATCGATA
3998027 CAA
1 CAA
3998030 GAAATGTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:3999050 original size:13 final size:13
Alignment explanation
Indices: 3999032--3999056 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3999022 ATTACTCAAA
3999032 TGTATCGATACAT
1 TGTATCGATACAT
3999045 TGTATCGATACA
1 TGTATCGATACA
3999057 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3999103 original size:51 final size:53
Alignment explanation
Indices: 3999045--3999192 Score: 187
Period size: 52 Copynumber: 2.9 Consensus size: 53
3999035 ATCGATACAT
*** *
3999045 TGTATCGATACACTGAT-CTTTGTATCGCTACATGCAGGC-AATTTGCCCAGA
1 TGTATCGATACACTGATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
** *
3999096 TGTATCGATACA-TTTTAAAATGTATGGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTGATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
* *
3999148 TGTATCGATACACT-ATTAAATGTATCGATACACGCAGGCAAATTT
1 TGTATCGATACACTGATAAAATGTATCGATACATGCAGGCAAATTT
3999193 TCATATTTCG
Statistics
Matches: 83, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
50 2 0.02
51 29 0.35
52 51 0.61
53 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (53 bp):
TGTATCGATACACTGATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:3999158 original size:52 final size:52
Alignment explanation
Indices: 3999065--3999192 Score: 197
Period size: 52 Copynumber: 2.5 Consensus size: 52
3999055 CACTGATCTT
* *
3999065 TGTATCGCTACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATT-AAA
*
3999116 TGTATGGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
*
3999168 TGTATCGATACACGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
3999193 TCATATTTCG
Statistics
Matches: 70, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
51 17 0.24
52 50 0.71
53 3 0.04
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:4006478 original size:10 final size:9
Alignment explanation
Indices: 4006450--4006477 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
4006440 CCTAATCTTC
4006450 ACAAAAAAA
1 ACAAAAAAA
4006459 ACAAAAAAA
1 ACAAAAAAA
4006468 ACAAAAAAA
1 ACAAAAAAA
4006477 A
1 A
4006478 AAAGGAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (9 bp):
ACAAAAAAA
Found at i:4007475 original size:31 final size:31
Alignment explanation
Indices: 4007437--4007673 Score: 315
Period size: 31 Copynumber: 7.6 Consensus size: 31
4007427 TTTAAAAAAA
4007437 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
*
4007468 AAAGTCCACGACTCAGTGGCAATCTCTGCTC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
*
4007499 AAAGTCCACGACGCAGTGGC-ATC-CTTCTC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
4007528 TTTAAAGTCCACGACTCAGTGGCAATCTCTTCTC
1 ---AAAGTCCACGACTCAGTGGCAATCTCTTCTC
* *
4007562 AAAGTCCATGACTCAGTGGCAATCTCTGCTC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
*
4007593 AAAGTCCACGACGCAGTGGC-ATC-CTTCTC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
*
4007622 TTTAAAGTCCACGACTCAGTGGC-AT-TTTGTCTC
1 ---AAAGTCCACGACTCAGTGGCAATCTCT-TCTC
4007655 AAAGTCCACGACTCAGTGG
1 AAAGTCCACGACTCAGTGG
4007674 TATTTTTTCT
Statistics
Matches: 185, Mismatches: 11, Indels: 21
0.85 0.05 0.10
Matches are distributed among these distances:
29 10 0.05
30 25 0.14
31 96 0.52
32 41 0.22
33 7 0.04
34 6 0.03
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCAATCTCTTCTC
Found at i:4007550 original size:63 final size:61
Alignment explanation
Indices: 4007437--4007673 Score: 295
Period size: 63 Copynumber: 3.8 Consensus size: 61
4007427 TTTAAAAAAA
4007437 AAAGTCCACGACTCAGTGGCAATC-TCTTCTCAAAGTCCACGACTCAGTGGCAATCTCTGCTC
1 AAAGTCCACGACTCAGTGGCAATCTTC-TCTCAAAGTCCACGACTCAGTGGCAATCTCT-CTC
* *
4007499 AAAGTCCACGACGCAGTGGC-ATCCTTCTCTTTAAAGTCCACGACTCAGTGGCAATCTCTTCTC
1 AAAGTCCACGACTCAGTGGCAAT-CTTCTC-TCAAAGTCCACGACTCAGTGGCAATCTC-TCTC
* * *
4007562 AAAGTCCATGACTCAGTGGCAATC-TCTGCTCAAAGTCCACGACGCAGTGGC-ATCCTTCTCTTT
1 AAAGTCCACGACTCAGTGGCAATCTTCT-CTCAAAGTCCACGACTCAGTGGCAAT-C-TCTC-TC
* *
4007625 AAAGTCCACGACTCAGTGGC-ATTTTGTCTCAAAGTCCACGACTCAGTGG
1 AAAGTCCACGACTCAGTGGCAATCTTCTCTCAAAGTCCACGACTCAGTGG
4007674 TATTTTTTCT
Statistics
Matches: 154, Mismatches: 11, Indels: 20
0.83 0.06 0.11
Matches are distributed among these distances:
61 4 0.03
62 71 0.46
63 76 0.49
64 3 0.02
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (61 bp):
AAAGTCCACGACTCAGTGGCAATCTTCTCTCAAAGTCCACGACTCAGTGGCAATCTCTCTC
Found at i:4007555 original size:94 final size:94
Alignment explanation
Indices: 4007437--4007673 Score: 433
Period size: 94 Copynumber: 2.5 Consensus size: 94
4007427 TTTAAAAAAA
4007437 AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCAATCTCTGCTCAAA
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCAATCTCTGCTCAAA
4007502 GTCCACGACGCAGTGGCATCCTTCTCTTT
66 GTCCACGACGCAGTGGCATCCTTCTCTTT
*
4007531 AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCATGACTCAGTGGCAATCTCTGCTCAAA
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCAATCTCTGCTCAAA
4007596 GTCCACGACGCAGTGGCATCCTTCTCTTT
66 GTCCACGACGCAGTGGCATCCTTCTCTTT
*
4007625 AAAGTCCACGACTCAGTGGC-AT-TTTGTCTCAAAGTCCACGACTCAGTGG
1 AAAGTCCACGACTCAGTGGCAATCTCT-TCTCAAAGTCCACGACTCAGTGG
4007674 TATTTTTTCT
Statistics
Matches: 139, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
92 2 0.01
93 24 0.17
94 113 0.81
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (94 bp):
AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCAATCTCTGCTCAAA
GTCCACGACGCAGTGGCATCCTTCTCTTT
Found at i:4007780 original size:34 final size:33
Alignment explanation
Indices: 4007736--4007924 Score: 236
Period size: 34 Copynumber: 5.4 Consensus size: 33
4007726 CTCTTTCCCT
4007736 TTTTAAAGCCCACAACTCCGTGGCACCTTTTTC
1 TTTTAAAGCCCACAACTCCGTGGCACCTTTTTC
4007769 TGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 T-TTTAAAGCCCACAACTCCGTGGCAC-CTTTTT--C
*
4007806 TTTTCAAAGCCCACAACTCCGTGGCACTTTTTTC
1 TTTT-AAAGCCCACAACTCCGTGGCACCTTTTTC
4007840 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 TTTTAAAGCCCACAACTCCGTGGCAC-CTTTTT--C
* * *
4007876 TTTT-AAGTCCACAACTCCGTGGCATCTTTCTCCC
1 TTTTAAAGCCCACAACTCCGTGGCACCTTT-T-TC
4007910 TTCTTAAAGCCCACA
1 TT-TTAAAGCCCACA
4007925 CAAGTCGGTG
Statistics
Matches: 138, Mismatches: 6, Indels: 21
0.84 0.04 0.13
Matches are distributed among these distances:
33 23 0.17
34 42 0.30
35 28 0.20
36 21 0.15
37 24 0.17
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.33
Consensus pattern (33 bp):
TTTTAAAGCCCACAACTCCGTGGCACCTTTTTC
Found at i:4007873 original size:70 final size:69
Alignment explanation
Indices: 4007718--4007924 Score: 308
Period size: 71 Copynumber: 2.9 Consensus size: 69
4007708 CTACAACTTT
* *
4007718 GTGGCACTCTCTTTCCCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCAC
1 GTGGCACTCTTTTTCCC-TTTTAAAGCCCACAACTCCGTGGCACTTTTTTCT-TTTAAAGCCCAC
4007783 AACTCC
64 AACTCC
4007789 GTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACA
1 GTGGCACTCTTTTTCCCTTTT-AAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACA
4007854 ACTCC
65 ACTCC
* **
4007859 GTGGCACTCTTTTTCCCTTTT-AAGTCCACAACTCCGTGGCATCTTTCTCCCTTCTTAAAGCCCA
1 GTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCA-CTTT-TTTCTT-TTAAAGCCCA
4007923 CA
63 CA
4007925 CAAGTCGGTG
Statistics
Matches: 127, Mismatches: 5, Indels: 8
0.91 0.04 0.06
Matches are distributed among these distances:
68 19 0.15
69 4 0.03
70 47 0.37
71 57 0.45
ACGTcount: A:0.19, C:0.35, G:0.12, T:0.34
Consensus pattern (69 bp):
GTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAA
CTCC
Found at i:4007945 original size:104 final size:102
Alignment explanation
Indices: 4007736--4007924 Score: 274
Period size: 104 Copynumber: 1.8 Consensus size: 102
4007726 CTCTTTCCCT
**
4007736 TTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTT
1 TTTTAAAGCCCACAACTCCGTGGCACCTTTTTCCCTTTAAAGCCCACAACTCCGTGGCACTCTTT
* *
4007801 TTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTC
66 CTCCCTTTTCAAAGCCCACAACTCCGTGGCAC--TCTTC
* *
4007840 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCA-TCTT
1 TTTTAAAGCCCACAACTCCGTGGCAC-CTTTTTCCCTTTAAAGCCCACAACTCCGTGGCACTCTT
4007904 TCTCCCTTCTT-AAAGCCCACA
65 TCTCCCTT-TTCAAAGCCCACA
4007925 CAAGTCGGTG
Statistics
Matches: 78, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
104 47 0.60
105 31 0.40
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.33
Consensus pattern (102 bp):
TTTTAAAGCCCACAACTCCGTGGCACCTTTTTCCCTTTAAAGCCCACAACTCCGTGGCACTCTTT
CTCCCTTTTCAAAGCCCACAACTCCGTGGCACTCTTC
Found at i:4007952 original size:104 final size:102
Alignment explanation
Indices: 4007740--4007957 Score: 262
Period size: 104 Copynumber: 2.1 Consensus size: 102
4007730 TTCCCTTTTT
** *
4007740 AAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCCCTTTAAAGCCCACAACTCCGTGGCACTCTTTCTCC
* **
4007805 CTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTT
66 CTTTTCAAAGCCCACAACTCCGTGGCAC--TCTTCTTCC
* *
4007844 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCA-TCTTTCTC
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCCCTTTAAAGCCCACAACTCCGTGGCACTCTTTCTC
* *
4007908 CCTTCTT-AAAGCCCACACAAGTCGGTGGCAAC-CTTCTTCC
65 CCTT-TTCAAAG-CC-CACAACTCCGTGGC-ACTCTTCTTCC
4007948 AAAGCCCACA
1 AAAGCCCACA
4007958 CAAGTCGGTG
Statistics
Matches: 99, Mismatches: 10, Indels: 10
0.83 0.08 0.08
Matches are distributed among these distances:
104 52 0.53
105 33 0.33
106 12 0.12
107 2 0.02
ACGTcount: A:0.22, C:0.35, G:0.13, T:0.30
Consensus pattern (102 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCCCTTTAAAGCCCACAACTCCGTGGCACTCTTTCTCC
CTTTTCAAAGCCCACAACTCCGTGGCACTCTTCTTCC
Found at i:4007954 original size:33 final size:32
Alignment explanation
Indices: 4007907--4007985 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 32
4007897 GCATCTTTCT
4007907 CCCTTCTTAAAGCCCACACAAGTCGGTGGCAA
1 CCCTTCTTAAAGCCCACACAAGTCGGTGGCAA
4007939 -CCTTCTTCCAAAGCCCACACAAGTCGGTGGCAA
1 CCCTTCTT--AAAGCCCACACAAGTCGGTGGCAA
4007972 CCCTTC-T-AAGCCCA
1 CCCTTCTTAAAGCCCA
4007986 ATATAGCTGG
Statistics
Matches: 44, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
30 7 0.16
31 7 0.16
33 25 0.57
34 5 0.11
ACGTcount: A:0.27, C:0.38, G:0.16, T:0.19
Consensus pattern (32 bp):
CCCTTCTTAAAGCCCACACAAGTCGGTGGCAA
Found at i:4008042 original size:49 final size:48
Alignment explanation
Indices: 4007978--4008443 Score: 628
Period size: 49 Copynumber: 9.8 Consensus size: 48
4007968 GCAACCCTTC
* * *
4007978 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CTTCATCTT
4008027 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA---C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTCATCTT
* * * *
4008070 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATTATCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACT-TCATCTT
*
4008119 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CTTCATCTT
* *
4008168 TAAGTCCAATGTAGCTGACCTTGAATCAGCACATTGGCACCTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTCATCTT
* *
4008216 TAAGTCCAATGTAGCTGGCGTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CTTCATCTT
* *
4008265 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTCATCTT
4008313 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA---C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTCATCTT
* * *
4008356 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C--TT-CATCTT
*
4008408 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
4008444 ACATCCTTTT
Statistics
Matches: 371, Mismatches: 29, Indels: 31
0.86 0.07 0.07
Matches are distributed among these distances:
43 78 0.21
45 2 0.01
47 1 0.00
48 90 0.24
49 163 0.44
50 2 0.01
52 35 0.09
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.30
Consensus pattern (48 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACTTCATCTT
Found at i:4008242 original size:97 final size:91
Alignment explanation
Indices: 4008165--4008452 Score: 378
Period size: 97 Copynumber: 3.0 Consensus size: 91
4008155 GCACCTTCAT
* * *
4008165 CTTTAAGTCCAATGTAGCTGACCTTGAATCAGCACATTGGCACCTCATCTTTAAGTCCAATGTAG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAGTCCAATGTAG
* *
4008230 CTGGCGTTGACTCAGCACATTGGCACCTTC
66 CTGGCCTTGAATCAGCACATTGGCA----C
* * *
4008260 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGTCCAATGT
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAGTCCAATGT
4008325 AGCTGGCCTTGAATCAGCACATTGGCAC
64 AGCTGGCCTTGAATCAGCACATTGGCAC
* *
4008353 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC---T-CATCTTTAAGTCCAAT
*
4008418 GTAGCTGGCCTTGAATCAGCACATTGACATC
62 GTAGCTGGCCTTGAATCAGCACATTGGCA-C
4008449 CTTT
1 CTTT
4008453 TTCATCATCT
Statistics
Matches: 176, Mismatches: 10, Indels: 11
0.89 0.05 0.06
Matches are distributed among these distances:
91 41 0.23
93 1 0.01
94 1 0.01
95 42 0.24
96 5 0.03
97 86 0.49
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (91 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAGTCCAATGTAG
CTGGCCTTGAATCAGCACATTGGCAC
Found at i:4008489 original size:56 final size:52
Alignment explanation
Indices: 4008353--4008491 Score: 161
Period size: 52 Copynumber: 2.6 Consensus size: 52
4008343 ACATTGGCAC
* *
4008353 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCCAT
* * *
4008405 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACA-CC-TTTTC--CAT
* * * *
4008461 CTTTAAGCCCAATATCGTTGGCCGTGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
4008492 ACATATTGGC
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
52 37 0.51
53 2 0.03
54 5 0.07
56 28 0.39
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (52 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCCAT
Found at i:4009356 original size:33 final size:33
Alignment explanation
Indices: 4009319--4009385 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
4009309 TTCAACGATT
4009319 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
4009352 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
4009385 T
1 T
4009386 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:4009357 original size:13 final size:13
Alignment explanation
Indices: 4009339--4009363 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4009329 CATAAAATGT
4009339 TGTATCGATACAA
1 TGTATCGATACAA
4009352 TGTATCGATACA
1 TGTATCGATACA
4009364 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4009444 original size:13 final size:13
Alignment explanation
Indices: 4009426--4009450 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4009416 ATTACTCAAA
4009426 TGTATCGATACAT
1 TGTATCGATACAT
4009439 TGTATCGATACA
1 TGTATCGATACA
4009451 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4014618 original size:13 final size:13
Alignment explanation
Indices: 4014600--4014630 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
4014590 ACATTTCTTC
4014600 ATGTATCGATACA
1 ATGTATCGATACA
4014613 ATGTATCGATACA
1 ATGTATCGATACA
*
4014626 TTGTA
1 ATGTA
4014631 GCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4014618 original size:33 final size:33
Alignment explanation
Indices: 4014580--4014646 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
4014570 GTTACAAGCT
**
4014580 ATGTATCGATACATT-TCTTCATGTATCGATACA
1 ATGTATCGATACATTGT-AGCATGTATCGATACA
4014613 ATGTATCGATACATTGTAGCATGTATCGATACA
1 ATGTATCGATACATTGTAGCATGTATCGATACA
4014646 A
1 A
4014647 ATAGTGATAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (33 bp):
ATGTATCGATACATTGTAGCATGTATCGATACA
Found at i:4014734 original size:13 final size:13
Alignment explanation
Indices: 4014716--4014742 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4014706 TACAATGAAC
4014716 ATGTATCGATACA
1 ATGTATCGATACA
4014729 ATGTATCGATACA
1 ATGTATCGATACA
4014742 A
1 A
4014743 AGCAGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4014757 original size:33 final size:32
Alignment explanation
Indices: 4014697--4014761 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
4014687 CAATTTGTCG
*
4014697 ATGTATCGATACAATGAACATGTATCGATACA
1 ATGTATCGATACAAAGAACATGTATCGATACA
*
4014729 ATGTATCGATACAAAGCAGCATGTATCGATACA
1 ATGTATCGATACAAAG-AACATGTATCGATACA
4014762 TCTGGGTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (32 bp):
ATGTATCGATACAAAGAACATGTATCGATACA
Found at i:4019802 original size:2 final size:2
Alignment explanation
Indices: 4019795--4019831 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
4019785 TTAAAAGTTT
4019795 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4019832 ACAAAATTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:4024616 original size:73 final size:74
Alignment explanation
Indices: 4024516--4024697 Score: 197
Period size: 81 Copynumber: 2.4 Consensus size: 74
4024506 AATCAACAGG
* * * * * *
4024516 TTAATAGTCATATAAAATATTATAAAAAG-G-TGGGAGATTTAACATGCTATATTAAATTATCAA
1 TTAATAGTGA-ATAAATTAATAAAAAAAGAGATGGGAAATTTAACATGCTATACTAAATTATC-A
4024579 AATGAGCATAT
64 AATGAGCATAT
**
4024590 TTAATAGTGAATAAATTAATAAAAAAATTATAAAGAGATGGGAAATTTAGTATGCTATACTAAAT
1 TTAATAGTGAATAAATTAAT----AAA--A-AAAGAGATGGGAAATTTAACATGCTATACTAAAT
4024655 TATCAAATGAGCATAT
59 TATCAAATGAGCATAT
4024671 TTAATAGTGAATAAATTAATAAAAAAA
1 TTAATAGTGAATAAATTAATAAAAAAA
4024698 TATAATAAAA
Statistics
Matches: 91, Mismatches: 8, Indels: 18
0.78 0.07 0.15
Matches are distributed among these distances:
73 8 0.09
74 12 0.13
75 1 0.01
77 5 0.05
79 1 0.01
80 4 0.04
81 33 0.36
82 27 0.30
ACGTcount: A:0.50, C:0.05, G:0.13, T:0.32
Consensus pattern (74 bp):
TTAATAGTGAATAAATTAATAAAAAAAGAGATGGGAAATTTAACATGCTATACTAAATTATCAAA
TGAGCATAT
Found at i:4024696 original size:82 final size:82
Alignment explanation
Indices: 4024529--4024732 Score: 311
Period size: 82 Copynumber: 2.5 Consensus size: 82
4024519 ATAGTCATAT
* * ** *
4024529 AAAATATTATAAAAAGGTGGGAGATTTAACATGCTATATTAAATTATCAAAATGAGCATATTTAA
1 AAAAAATTATAAAAAGATGGGAGATTTAGTATGCTATACTAAATTATCAAAATGAGCATATTTAA
4024594 TAGTGAATAAATTAATA
66 TAGTGAATAAATTAATA
* *
4024611 AAAAAATTATAAAGAGATGGGAAATTTAGTATGCTATACTAAATTATC-AAATGAGCATATTTAA
1 AAAAAATTATAAAAAGATGGGAGATTTAGTATGCTATACTAAATTATCAAAATGAGCATATTTAA
4024675 TAGTGAATAAATTAATA
66 TAGTGAATAAATTAATA
*
4024692 AAAAAATATAATAAAAAGATGGGAGATTTAGTATGTTATAC
1 AAAAAAT-T-ATAAAAAGATGGGAGATTTAGTATGCTATAC
4024733 ACAGGCAGAA
Statistics
Matches: 110, Mismatches: 10, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
81 40 0.36
82 42 0.38
83 28 0.25
ACGTcount: A:0.50, C:0.04, G:0.14, T:0.32
Consensus pattern (82 bp):
AAAAAATTATAAAAAGATGGGAGATTTAGTATGCTATACTAAATTATCAAAATGAGCATATTTAA
TAGTGAATAAATTAATA
Found at i:4025391 original size:2 final size:2
Alignment explanation
Indices: 4025384--4025414 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4025374 GTTGAAGAAA
4025384 AT AT AT AT AT AT AT AT 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
4025415 GATTAAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4025600 original size:2 final size:2
Alignment explanation
Indices: 4025593--4025624 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
4025583 TTTTAACCTA
*
4025593 AT AT AT AT AT AT AT AT AT AT AG AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4025625 CACATCCAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:4026161 original size:2 final size:2
Alignment explanation
Indices: 4026156--4026197 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
4026146 CATTTACATT
* *
4026156 TA TA TA TA TA TA TA TA TG TA TA TA T- TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4026197 T
1 T
4026198 TATGGAGTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (2 bp):
TA
Found at i:4026198 original size:6 final size:6
Alignment explanation
Indices: 4026147--4026198 Score: 50
Period size: 6 Copynumber: 8.5 Consensus size: 6
4026137 GAATCCACAC
* * * * *
4026147 ATTTAC ATTTAT ATATAT ATATAT ATGTAT ATATTAT ATATAT ATTTAT
1 ATTTAT ATTTAT ATTTAT ATTTAT ATTTAT AT-TTAT ATTTAT ATTTAT
4026196 ATT
1 ATT
4026199 ATGGAGTGTA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
6 34 0.87
7 5 0.13
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (6 bp):
ATTTAT
Found at i:4026466 original size:15 final size:14
Alignment explanation
Indices: 4026432--4026471 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 14
4026422 CAAATCGGGG
4026432 ATATACTTATAAATAT
1 ATATA-TTA-AAATAT
4026448 ATATATTAAAATAAT
1 ATATATTAAAAT-AT
4026463 ATATATTAA
1 ATATATTAA
4026472 TTTTACGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 4 0.17
15 14 0.61
16 5 0.22
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATATTAAAATAT
Found at i:4030429 original size:2 final size:2
Alignment explanation
Indices: 4030424--4030454 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
4030414 TGTGTGTGTG
*
4030424 TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4030455 TTAAAGGTTG
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:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:4032590 original size:3 final size:3
Alignment explanation
Indices: 4032584--4032626 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
4032574 ACTAAAGAAG
4032584 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
4032627 AAAATAAGCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:4038008 original size:156 final size:152
Alignment explanation
Indices: 4037777--4038206 Score: 416
Period size: 156 Copynumber: 2.8 Consensus size: 152
4037767 CAATAACCTT
* * * * *
4037777 AAAGGATTCGAAAATGATCATAAAATGGTGAACCTCTCCTAAATGCACAACTTTGGCATAAAAAC
1 AAAGGA-TCGAAAATAATCATAAAAGGGTGAACCTATCCTAAATG-A-ACCTTTTGCAT-AAAAC
* *
4037842 ATCTTGGTGACTACATCACACTAGGTTCAAAGGGAAATTACCAAAATGCCTTT-AGAAAACACCT
62 ATCTTAGTGACTACATCAGACTAGGTTCAAAGGGAAATTACCAAAATGCCTTTAAG-AAACACCT
4037906 TCATCTTAAAAGCATCCTAGTGACCTTA
126 TCATCTTAAAAGCATCCTAGTGA-CTTA
* * *
4037934 AAAGTACTCGAAAATTATCATAGAAGGGTGAACCTATCCTAAATGTAACCTTTTGCATATAAACA
1 AAAGGA-TCGAAAATAATCATAAAAGGGTGAACCTATCCTAAATG-AACCTTTTGCATA-AAACA
* * * ** * **
4037999 TCTTAGTGACTACATCAGACTCGATTTTAAA-AAAAATTACCAAAATGCCTTTAAGGATTACCTT
63 TCTTAGTGACTACATCAGACTAG-GTTCAAAGGGAAATTACCAAAATGCCTTTAAGAAACACCTT
* ** * *
4038063 TATCTTGGAAGCATGCTAGTGACTTT
127 CATCTTAAAAGCATCCTAGTGACTTA
* * *
4038089 AAAGGATACGAAAATAATCATAAAAGGGTAAACCTATCCTACATGCACACTTTTGGCATAAAAGC
1 AAAGGAT-CGAAAATAATCATAAAAGGGTGAACCTATCCTAAATGAAC-CTTTT-GCATAAAA-C
* * * * * *
4038154 ATC-TCGATAACTACTTCAGACTTGGTTCTAGGGGAAATTACCAAAATGCCTTT
62 ATCTTAG-TGACTACATCAGACTAGGTTCAAAGGGAAATTACCAAAATGCCTTT
4038207 TGGGAACTAC
Statistics
Matches: 224, Mismatches: 40, Indels: 19
0.79 0.14 0.07
Matches are distributed among these distances:
154 3 0.01
155 55 0.25
156 119 0.53
157 47 0.21
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (152 bp):
AAAGGATCGAAAATAATCATAAAAGGGTGAACCTATCCTAAATGAACCTTTTGCATAAAACATCT
TAGTGACTACATCAGACTAGGTTCAAAGGGAAATTACCAAAATGCCTTTAAGAAACACCTTCATC
TTAAAAGCATCCTAGTGACTTA
Found at i:4039684 original size:9 final size:9
Alignment explanation
Indices: 4039672--4039700 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
4039662 AAAAAAAATC
4039672 AAAAATTAA
1 AAAAATTAA
4039681 AAAAATTAA
1 AAAAATTAA
4039690 AAAAATTAA
1 AAAAATTAA
4039699 AA
1 AA
4039701 TTAAAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
AAAAATTAA
Found at i:4043623 original size:20 final size:19
Alignment explanation
Indices: 4043598--4043672 Score: 69
Period size: 20 Copynumber: 3.7 Consensus size: 19
4043588 AAAAACCTAG
4043598 AATGTATCGATACAATGAAT
1 AATGTATCGATACAAT-AAT
*
4043618 AATGTATCGATACAAATAGT
1 AATGTATCGATAC-AATAAT
* * *
4043638 AAATATATCGATACATTTATT
1 -AATGTATCGATACA-ATAAT
*
4043659 TATGTATCGATACA
1 AATGTATCGATACA
4043673 TTTTCTTTCC
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
20 28 0.61
21 18 0.39
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.35
Consensus pattern (19 bp):
AATGTATCGATACAATAAT
Found at i:4043767 original size:21 final size:20
Alignment explanation
Indices: 4043720--4043769 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
4043710 CATTTTAGGC
*
4043720 ATGTATAGATACATTCACTT
1 ATGTATCGATACATTCACTT
*
4043740 ATGTATCGATACATTTACTTT
1 ATGTATCGATACATTCAC-TT
*
4043761 TTGTATCGA
1 ATGTATCGA
4043770 AACAAAATGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTCACTT
Found at i:4043837 original size:21 final size:21
Alignment explanation
Indices: 4043811--4043866 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
4043801 GTTGGGACCT
4043811 TGTATCAATACATTCAAGAAA
1 TGTATCAATACATTCAAGAAA
4043832 TGTATCAATACATTCAAGAAA
1 TGTATCAATACATTCAAGAAA
*
4043853 TGTATCGATACATT
1 TGTATCAATACATT
4043867 TAGACAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (21 bp):
TGTATCAATACATTCAAGAAA
Found at i:4046945 original size:13 final size:13
Alignment explanation
Indices: 4046927--4046951 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4046917 ATAATGCACA
4046927 GTATCGATACATT
1 GTATCGATACATT
4046940 GTATCGATACAT
1 GTATCGATACAT
4046952 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:4046964 original size:20 final size:22
Alignment explanation
Indices: 4046939--4046991 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
4046929 ATCGATACAT
*
4046939 TGTATCGATACATGAC-CA-AA
1 TGTATCGATACATGACAAAGAA
*
4046959 TGTATCGATAC-TTACAAAGAA
1 TGTATCGATACATGACAAAGAA
4046980 TGTATCGATACA
1 TGTATCGATACA
4046992 GGTGTTTGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 3 0.11
20 12 0.43
21 13 0.46
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (22 bp):
TGTATCGATACATGACAAAGAA
Found at i:4047069 original size:13 final size:13
Alignment explanation
Indices: 4047051--4047076 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4047041 TACACACAAG
4047051 ATGTATCGATACA
1 ATGTATCGATACA
4047064 ATGTATCGATACA
1 ATGTATCGATACA
4047077 TCCCAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4047094 original size:33 final size:32
Alignment explanation
Indices: 4047033--4047096 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
4047023 CTTAACTGTT
4047033 TGTATCGATACACACAAGATGTATCGATACAA
1 TGTATCGATACACACAAGATGTATCGATACAA
*
4047065 TGTATCGATACATCCCAA-ATTGTATCGATACA
1 TGTATCGATACA-CACAAGA-TGTATCGATACA
4047097 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 13 0.45
33 16 0.55
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACACAAGATGTATCGATACAA
Found at i:4051813 original size:13 final size:13
Alignment explanation
Indices: 4051795--4051820 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4051785 TACAGCAAGT
4051795 ATGTATCGATACA
1 ATGTATCGATACA
4051808 ATGTATCGATACA
1 ATGTATCGATACA
4051821 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4054438 original size:13 final size:13
Alignment explanation
Indices: 4054416--4054453 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
4054406 CAGCATTCTC
4054416 TGTATCGATACAT
1 TGTATCGATACAT
*
4054429 TGTATTGATACAT
1 TGTATCGATACAT
4054442 TGTATCGATACA
1 TGTATCGATACA
4054454 AAGGGTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4054619 original size:21 final size:21
Alignment explanation
Indices: 4054586--4054627 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
4054576 AAATTTCTTG
4054586 TTTTTCACTTCAAAATACATCAT
1 TTTTTCAC-TCAAAAT-CATCAT
4054609 TTTTTCA-TCAAAATCATCA
1 TTTTTCACTCAAAATCATCA
4054628 ACAAAAACAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.26
21 7 0.37
23 7 0.37
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.43
Consensus pattern (21 bp):
TTTTTCACTCAAAATCATCAT
Found at i:4056412 original size:105 final size:105
Alignment explanation
Indices: 4056292--4056504 Score: 372
Period size: 105 Copynumber: 2.0 Consensus size: 105
4056282 TAAGGGGGAG
** *
4056292 AAAGAAACTTGTGATTAAAAGAAATTGTTGAATTGTGGAATTGTTAAATTGCTTTATTAAGGGGG
1 AAAGAAACTTGTGATTAAAAGAAATTGTTGAATTACGAAATTGTTAAATTGCTTTATTAAGGGGG
*
4056357 AGAAATTTTTTGATTAAGGGGGAGAGAAATGGAAAATGAA
66 AGAAATTTTTTGATTAAGGGGGAGAGAAAAGGAAAATGAA
**
4056397 AAAGAAACTTGTGATTAAGGGAAATTGTTGAATTACGAAATTGTTAAATTGCTTTATTAAGGGGG
1 AAAGAAACTTGTGATTAAAAGAAATTGTTGAATTACGAAATTGTTAAATTGCTTTATTAAGGGGG
4056462 AGAAATTTTTTGATTAAGGGGGAGAGAAAAGGAAAATGAA
66 AGAAATTTTTTGATTAAGGGGGAGAGAAAAGGAAAATGAA
4056502 AAA
1 AAA
4056505 TCTTGATATT
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
105 102 1.00
ACGTcount: A:0.41, C:0.02, G:0.26, T:0.30
Consensus pattern (105 bp):
AAAGAAACTTGTGATTAAAAGAAATTGTTGAATTACGAAATTGTTAAATTGCTTTATTAAGGGGG
AGAAATTTTTTGATTAAGGGGGAGAGAAAAGGAAAATGAA
Done.