Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1
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: 8764944
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.31
Warning! 632878 characters in sequence are not A, C, G, or T
File 14 of 52
Found at i:2209701 original size:28 final size:29
Alignment explanation
Indices: 2209669--2209730 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 29
2209659 GACTTTATAT
*
2209669 ATTTATTAGATT-ATTATACAATAATAAA
1 ATTTATTAAATTAATTATACAATAATAAA
* *
2209697 ATTTA-TAAATTAATTATATAATCATAAA
1 ATTTATTAAATTAATTATACAATAATAAA
2209725 ATTTAT
1 ATTTAT
2209731 ATATTTATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 5 0.17
28 24 0.83
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (29 bp):
ATTTATTAAATTAATTATACAATAATAAA
Found at i:2209702 original size:36 final size:35
Alignment explanation
Indices: 2209662--2209771 Score: 117
Period size: 36 Copynumber: 3.3 Consensus size: 35
2209652 AACAATAGAC
2209662 TTTATATATTTATTAGATTATTATACAATAATAAAA
1 TTTATATATTTATTAGATTATTATA-AATAATAAAA
*
2209698 TTTATA-A---ATTA-ATTA-TAT-AATCATAAAA
1 TTTATATATTTATTAGATTATTATAAATAATAAAA
**
2209726 TTTATATATTTATTAGAAAATTATATAATAATAAAA
1 TTTATATATTTATTAGATTATTATA-AATAATAAAA
2209762 TTTATTATAT
1 TTTA-TATAT
2209772 ATCTATTATA
Statistics
Matches: 61, Mismatches: 4, Indels: 17
0.74 0.05 0.21
Matches are distributed among these distances:
28 15 0.25
29 1 0.02
30 3 0.05
31 4 0.07
32 8 0.13
33 2 0.03
34 3 0.05
35 1 0.02
36 19 0.31
37 5 0.08
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (35 bp):
TTTATATATTTATTAGATTATTATAAATAATAAAA
Found at i:2209712 original size:64 final size:64
Alignment explanation
Indices: 2209641--2209766 Score: 191
Period size: 64 Copynumber: 2.0 Consensus size: 64
2209631 ATTAATTAAT
* * **
2209641 ATTAATTATATAA-CAATAGACTTTATATATTTATTAGATTATTATACAATAATAAAATTTATAA
1 ATTAATTATATAATC-ATAAAATTTATATATTTATTAGAAAATTATACAATAATAAAATTTATAA
*
2209705 ATTAATTATATAATCATAAAATTTATATATTTATTAGAAAATTATATAATAATAAAATTTAT
1 ATTAATTATATAATCATAAAATTTATATATTTATTAGAAAATTATACAATAATAAAATTTAT
2209767 TATATATCTA
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
64 55 0.98
65 1 0.02
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.44
Consensus pattern (64 bp):
ATTAATTATATAATCATAAAATTTATATATTTATTAGAAAATTATACAATAATAAAATTTATAA
Found at i:2209731 original size:28 final size:28
Alignment explanation
Indices: 2209681--2209740 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
2209671 TTATTAGATT
2209681 ATTATACAATAATAAAATTTATAAATTA
1 ATTATACAATAATAAAATTTATAAATTA
* * * *
2209709 ATTATATAATCATAAAATTTATATATTT
1 ATTATACAATAATAAAATTTATAAATTA
2209737 ATTA
1 ATTA
2209741 GAAAATTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (28 bp):
ATTATACAATAATAAAATTTATAAATTA
Found at i:2209770 original size:20 final size:20
Alignment explanation
Indices: 2209703--2209772 Score: 60
Period size: 20 Copynumber: 3.7 Consensus size: 20
2209693 TAAAATTTAT
* *
2209703 AAATTAATTATATAATCATA
1 AAATTTATTATATAATAATA
* *
2209723 AAATTTA-TATAT-TTATTA
1 AAATTTATTATATAATAATA
2209741 GAAA---ATTATATAATAATA
1 -AAATTTATTATATAATAATA
2209759 AAATTTATTATATA
1 AAATTTATTATATA
2209773 TCTATTATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
16 1 0.03
17 8 0.21
18 7 0.18
19 8 0.21
20 14 0.37
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (20 bp):
AAATTTATTATATAATAATA
Found at i:2209971 original size:18 final size:18
Alignment explanation
Indices: 2209950--2209989 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
2209940 ATTAATATTT
2209950 ATATAAATTTAAATAAAA
1 ATATAAATTTAAATAAAA
**
2209968 ATATATGTTTAAATAAAA
1 ATATAAATTTAAATAAAA
2209986 ATAT
1 ATAT
2209990 TTTTTTATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (18 bp):
ATATAAATTTAAATAAAA
Found at i:2210422 original size:13 final size:13
Alignment explanation
Indices: 2210394--2210432 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
2210384 ATATTAAAAC
2210394 ATAATTACTAATAAA
1 ATAATTA-T-ATAAA
2210409 ATAATTATATAAA
1 ATAATTATATAAA
2210422 ATAATT-TATAA
1 ATAATTATATAA
2210433 TTCAATTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.21
13 11 0.46
14 1 0.04
15 7 0.29
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (13 bp):
ATAATTATATAAA
Found at i:2211627 original size:17 final size:17
Alignment explanation
Indices: 2211605--2211642 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
2211595 TTGTTGAGTT
2211605 TTTTCTTTCT-TTCTTTC
1 TTTTCTTTCTCTTC-TTC
*
2211622 TTTTCTTTTTCTTCTTC
1 TTTTCTTTCTCTTCTTC
2211639 TTTT
1 TTTT
2211643 GTTTATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTCTTTCTCTTCTTC
Found at i:2216011 original size:114 final size:115
Alignment explanation
Indices: 2215805--2216015 Score: 284
Period size: 114 Copynumber: 1.8 Consensus size: 115
2215795 TTAGCTCAAC
** * ** *
2215805 ATAATTAAATAAAATAGGCTCCAAATGAATTAATTAAATATGCACATAGGTCCTATTTTATCTAA
1 ATAATTAAATAAAATAGAATCCAAATAAATTAATTAAATAAACACATAGGACCTATTTTATCTAA
* *
2215870 CATATATTTTTATAAGGCTTGATTTTAAATTATATAATTTATGACCCAAT
66 CATATATTTTTATAAGACTTGACTTTAAATTATATAATTTATGACCCAAT
*
2215920 ATAATTAAATAAAATATAAT-CAAATAAATTAATTAAATAAACACAT-GGACCTATTTTATCTAA
1 ATAATTAAATAAAATAGAATCCAAATAAATTAATTAAATAAACACATAGGACCTATTTTATCTAA
* *
2215983 TATATATTTTTCATACA-ACTTGGCTTTAAATTA
66 CATATATTTTT-ATA-AGACTTGACTTTAAATTA
2216016 ATATGACCTA
Statistics
Matches: 83, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
113 26 0.31
114 39 0.47
115 18 0.22
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.39
Consensus pattern (115 bp):
ATAATTAAATAAAATAGAATCCAAATAAATTAATTAAATAAACACATAGGACCTATTTTATCTAA
CATATATTTTTATAAGACTTGACTTTAAATTATATAATTTATGACCCAAT
Found at i:2216189 original size:205 final size:206
Alignment explanation
Indices: 2215824--2216220 Score: 525
Period size: 205 Copynumber: 1.9 Consensus size: 206
2215814 TAAAATAGGC
* * * *
2215824 TCCAAATGAATTAATTAAATATGCACATAGGTCCTATTTTATCTAACATATATTTTTATAAGGCT
1 TCCAAATGAATTAATTAAATAAGCACATAAGACCTATTTTATCTAACATATATTTTTATAAGACT
** * * * *
2215889 TGATTTTAAATTATATAATTTATGACCCAATATAATTAAATAAAATATAATCAAATAAATTAATT
66 TGACCTTAAATGAAATAATTTATGACCCAATATAATTAAATAAAATAGAACCAAATAAATTAATT
* *
2215954 AAATAAACACATGGACCTATTTTATCTAATATATATTTTTCATACA-ACTTGGCTTTAAATTAAT
131 AAACAAACACATGGACCTATTTTATCTAATATATATTTTT-ATA-AGACTTGGCCTTAAATTAAT
2216018 ATGACCTAATATG
194 ATGACCTAATATG
* * *
2216031 TCCAAATTAATTAATTAAATAAGCACGTAAGACCTATTTTATCT-A-ATATTTTTTTATAAGACT
1 TCCAAATGAATTAATTAAATAAGCACATAAGACCTATTTTATCTAACATATATTTTTATAAGAC-
* **
2216094 TTG-CCTTAAATGAAATAATTTATGACCTAATATAATTAAATAAAATAGGCCCAAATAAATTAAT
65 TTGACCTTAAATGAAATAATTTATGACCCAATATAATTAAATAAAATAGAACCAAATAAATTAAT
** * *
2216158 TAAACAAACA-ATGGGATTTATTTTGTCTAATATATATTTTTATAAGACTTGTCCTTAAATTAA
130 TAAACAAACACAT-GGACCTATTTTATCTAATATATATTTTTATAAGACTTGGCCTTAAATTAA
2216221 ATAATTTACA
Statistics
Matches: 165, Mismatches: 22, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
203 1 0.01
204 20 0.12
205 101 0.61
206 4 0.02
207 39 0.24
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.39
Consensus pattern (206 bp):
TCCAAATGAATTAATTAAATAAGCACATAAGACCTATTTTATCTAACATATATTTTTATAAGACT
TGACCTTAAATGAAATAATTTATGACCCAATATAATTAAATAAAATAGAACCAAATAAATTAATT
AAACAAACACATGGACCTATTTTATCTAATATATATTTTTATAAGACTTGGCCTTAAATTAATAT
GACCTAATATG
Found at i:2219375 original size:13 final size:13
Alignment explanation
Indices: 2219357--2219387 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2219347 ACATTTCTTC
2219357 ATGTATCGATACA
1 ATGTATCGATACA
2219370 ATGTATCGATACA
1 ATGTATCGATACA
*
2219383 TTGTA
1 ATGTA
2219388 CCATGTATCG
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:2219375 original size:33 final size:33
Alignment explanation
Indices: 2219337--2219403 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 33
2219327 GTTACAAACT
2219337 ATGTATCCATACATT-T-CTTCATGTATCGATACA
1 ATGTATCCATACATTGTAC--CATGTATCGATACA
*
2219370 ATGTATCGATACATTGTACCATGTATCGATACA
1 ATGTATCCATACATTGTACCATGTATCGATACA
2219403 A
1 A
2219404 ATAGTGATAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 29 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (33 bp):
ATGTATCCATACATTGTACCATGTATCGATACA
Found at i:2219490 original size:13 final size:13
Alignment explanation
Indices: 2219472--2219497 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2219462 TACAATAACT
2219472 TGTATCGATACAA
1 TGTATCGATACAA
2219485 TGTATCGATACAA
1 TGTATCGATACAA
2219498 AGCAATATGT
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:2220093 original size:15 final size:15
Alignment explanation
Indices: 2220059--2220106 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
2220049 AAGATTTCTC
*
2220059 CCCTTAAAAGGAAGTTT
1 CCCTTAAAA--AAATTT
2220076 CCCTTAAAAAAATTT
1 CCCTTAAAAAAATTT
*
2220091 CCCTAAAAAAAATTT
1 CCCTTAAAAAAATTT
2220106 C
1 C
2220107 TCCCCCTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 20 0.69
17 9 0.31
ACGTcount: A:0.44, C:0.21, G:0.06, T:0.29
Consensus pattern (15 bp):
CCCTTAAAAAAATTT
Found at i:2226142 original size:13 final size:13
Alignment explanation
Indices: 2226124--2226154 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2226114 ACATTTCTTC
2226124 ATGTATCGATACA
1 ATGTATCGATACA
2226137 ATGTATCGATACA
1 ATGTATCGATACA
*
2226150 TTGTA
1 ATGTA
2226155 CCATGTATCG
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:2226142 original size:33 final size:33
Alignment explanation
Indices: 2226104--2226170 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 33
2226094 GTTACAAACT
2226104 ATGTATCCATACATT-T-CTTCATGTATCGATACA
1 ATGTATCCATACATTGTAC--CATGTATCGATACA
*
2226137 ATGTATCGATACATTGTACCATGTATCGATACA
1 ATGTATCCATACATTGTACCATGTATCGATACA
2226170 A
1 A
2226171 ATAGTGATAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 29 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (33 bp):
ATGTATCCATACATTGTACCATGTATCGATACA
Found at i:2226243 original size:19 final size:20
Alignment explanation
Indices: 2226199--2226252 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 20
2226189 CTGCCAGTTG
**
2226199 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGAA
2226219 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
2226238 CATGTATCGATACAA
1 CATGTATCGATACAA
2226253 AGCAATATGC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:2226268 original size:20 final size:19
Alignment explanation
Indices: 2226219--2226270 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
2226209 TACAATTGTC
* *
2226219 CATGTATCGATACAATGAA
1 CATGCATCGATACAAAGAA
*
2226238 CATGTATCGATACAAAGCAA
1 CATGCATCGATACAAAG-AA
*
2226258 TATGCATCGATAC
1 CATGCATCGATAC
2226271 TTCTGGTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.25
Consensus pattern (19 bp):
CATGCATCGATACAAAGAA
Found at i:2230105 original size:197 final size:194
Alignment explanation
Indices: 2229773--2230163 Score: 566
Period size: 197 Copynumber: 2.0 Consensus size: 194
2229763 TCATATAAGG
* *
2229773 TATACAAATCACGAAGTAATAAAGTATATATATCAATGATTAAGTAAAAATATAAGCATTAAAGA
1 TATACAAATCACGAAGTAATAAAGTATATATACCAATGATTAAGTAAAAAAATAAGCATTAAAGA
* * *
2229838 TCATACAACAATTCAAATTTCTTGTATTTATTTGAAAAATTTTAAGCACAATCAAGATTATAAGT
66 TCATACAACAATTCAAAGTTCATGTATTTATTTGAAAAATTTTAAGCACAATCAAGATCATAAGT
* * * * *
2229903 AAAGAAGACATTCTAATTGTTGTCTATATGCATAATTAATATCTATTATTTAAATTTTAGTTCA
131 AAAGAAAACATTCAAATTGCTGTCTATATGCATAATTAATATCTACTATTGAAATTTTAGTTCA
* * * *
2229967 TATACAAATCATGAAGTAATAAAGTACATGTATACCAATTATTAAGTAAAAAAAATAAGCATTTA
1 TATACAAATCACGAAGTAATAAAGT--ATATATACCAATGATTAAGT-AAAAAAATAAGCATTAA
* * * * *
2230032 AGATCATACAACAGTTCAAAGTTCATGTATTTATTTGGAAACTTTTATGCACAATCAAGATCATG
63 AGATCATACAACAATTCAAAGTTCATGTATTTATTTGAAAAATTTTAAGCACAATCAAGATCATA
* *
2230097 AGTAAAGAAAACATTCAAATTGCTGTCTATATGCATAATTGATATTTACTATTGAAATTTTAGTT
128 AGTAAAGAAAACATTCAAATTGCTGTCTATATGCATAATTAATATCTACTATTGAAATTTTAGTT
2230162 CA
193 CA
2230164 AATGCGTACT
Statistics
Matches: 173, Mismatches: 21, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
194 24 0.14
196 17 0.10
197 132 0.76
ACGTcount: A:0.43, C:0.11, G:0.10, T:0.35
Consensus pattern (194 bp):
TATACAAATCACGAAGTAATAAAGTATATATACCAATGATTAAGTAAAAAAATAAGCATTAAAGA
TCATACAACAATTCAAAGTTCATGTATTTATTTGAAAAATTTTAAGCACAATCAAGATCATAAGT
AAAGAAAACATTCAAATTGCTGTCTATATGCATAATTAATATCTACTATTGAAATTTTAGTTCA
Found at i:2235317 original size:21 final size:21
Alignment explanation
Indices: 2235271--2235346 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
2235261 ATTATTATCC
* *
2235271 AATGTATCGATACATTGTA-G
1 AATGTATCGATACATTCTACA
*
2235291 AATGTATCGATACATTCCACA
1 AATGTATCGATACATTCTACA
*
2235312 AATGTATTGATACATTCTACA
1 AATGTATCGATACATTCTACA
2235333 AATGTATCGATACA
1 AATGTATCGATACA
2235347 GGGTCCCAAC
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
20 17 0.35
21 32 0.65
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (21 bp):
AATGTATCGATACATTCTACA
Found at i:2235407 original size:19 final size:18
Alignment explanation
Indices: 2235383--2235453 Score: 89
Period size: 19 Copynumber: 4.1 Consensus size: 18
2235373 TTTTAGCGAT
2235383 TTGTATCGATACATAAGTA
1 TTGTATCGATACATAA-TA
2235402 TTGTATCGATAC---A-A
1 TTGTATCGATACATAATA
2235416 -TGTATCGATACATAAGTA
1 TTGTATCGATACATAA-TA
2235434 TTGTATCGATACATAATA
1 TTGTATCGATACATAATA
2235452 TT
1 TT
2235454 ATCTACTAGC
Statistics
Matches: 46, Mismatches: 0, Indels: 13
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.24
14 1 0.02
16 2 0.04
18 5 0.11
19 27 0.59
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (18 bp):
TTGTATCGATACATAATA
Found at i:2235420 original size:32 final size:32
Alignment explanation
Indices: 2235384--2235446 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
2235374 TTTAGCGATT
2235384 TGTATCGATACATAAGTATTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
2235416 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
2235447 TAATATTATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:2235421 original size:13 final size:13
Alignment explanation
Indices: 2235403--2235427 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2235393 ACATAAGTAT
2235403 TGTATCGATACAA
1 TGTATCGATACAA
2235416 TGTATCGATACA
1 TGTATCGATACA
2235428 TAAGTATTGT
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:2235516 original size:13 final size:13
Alignment explanation
Indices: 2235498--2235523 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2235488 CATTTTTCTG
2235498 TGTATCGATACAT
1 TGTATCGATACAT
2235511 TGTATCGATACAT
1 TGTATCGATACAT
2235524 CTATTCTTTG
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:2235541 original size:34 final size:33
Alignment explanation
Indices: 2235478--2235544 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 33
2235468 GCCAAGGGAA
*
2235478 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATTATTCTGTGTATCGATACAT
*
2235511 TGTATCGATACATCTATTCTTTGTATCGATACAT
1 TGTATCGATACAT-TATTCTGTGTATCGATACAT
2235545 CTAGAAACTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 13 0.42
34 18 0.58
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATTATTCTGTGTATCGATACAT
Found at i:2237947 original size:51 final size:51
Alignment explanation
Indices: 2237891--2237988 Score: 148
Period size: 51 Copynumber: 1.9 Consensus size: 51
2237881 AATTCTCCGC
2237891 AATCGGGGATA-TCCCAACTCCGATTTTATTT-TCAAAACACT-AATTTTCTAT
1 AATCGGGGATACT-CCAACTCCGATTTTATTTCT-AAAACA-TAAATTTTCTAT
2237942 AATCGGGGATACTCCAACTCCGATTTTATTTCTAAAACATAAATTTT
1 AATCGGGGATACTCCAACTCCGATTTTATTTCTAAAACATAAATTTT
2237989 TCATCGATGA
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
50 1 0.02
51 41 0.93
52 2 0.05
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (51 bp):
AATCGGGGATACTCCAACTCCGATTTTATTTCTAAAACATAAATTTTCTAT
Found at i:2238191 original size:51 final size:51
Alignment explanation
Indices: 2238131--2238298 Score: 194
Period size: 52 Copynumber: 3.3 Consensus size: 51
2238121 ATCTCCGAGG
* * *
2238131 GGATACTCCAACCCCGGTTTTATTTCCAAATCA-TCGATTTTCCACAATCAA
1 GGATACTCCAACCCCGGTTTTATTTCCAAAACACT-AATTTTCCACAATCGA
* * ** *
2238182 GGATACTCCAACCCCGGCTTTATTTTCAAAACACTAATTTTCCTTTAATCGG
1 GGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTCC-ACAATCGA
* * * *
2238234 GGATACTCCAACTCCGATTTTATTTCCAAAAACACTAATTTTTCACAATTGA
1 GGATACTCCAACCCCGGTTTTATTTCC-AAAACACTAATTTTCCACAATCGA
2238286 GGATACTCCAACC
1 GGATACTCCAACC
2238299 TCGTTATTTC
Statistics
Matches: 96, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
51 37 0.39
52 44 0.46
53 15 0.16
ACGTcount: A:0.30, C:0.27, G:0.10, T:0.32
Consensus pattern (51 bp):
GGATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTCCACAATCGA
Found at i:2243981 original size:28 final size:28
Alignment explanation
Indices: 2243941--2244005 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
2243931 TAGGTTTGGA
2243941 TTATTAGCTAAATATAACTCATCCAAGT
1 TTATTAGCTAAATATAACTCATCCAAGT
*
2243969 TTATTAGCTAAATATACCTCATCCAAGT
1 TTATTAGCTAAATATAACTCATCCAAGT
*
2243997 ATATTAGCT
1 TTATTAGCT
2244006 CTAGAGCATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (28 bp):
TTATTAGCTAAATATAACTCATCCAAGT
Found at i:2245070 original size:47 final size:45
Alignment explanation
Indices: 2245008--2245112 Score: 124
Period size: 45 Copynumber: 2.2 Consensus size: 45
2244998 AAATAATCAG
*
2245008 ATATATTT-AATATAAATTATTATTATATTAAAATTTATATAAATATATA
1 ATAT-TTTAAATA-AAATTA-TATTA-ATT-AAATTTACATAAATATATA
*
2245057 ATATTTTAAATAAAATTATATTACTTAAATTTACATAAATATATA
1 ATATTTTAAATAAAATTATATTAATTAAATTTACATAAATATATA
2245102 A-ATTATTAAAT
1 ATATT-TTAAAT
2245113 TTAAAACTCA
Statistics
Matches: 52, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
44 3 0.06
45 25 0.48
46 2 0.04
47 5 0.10
48 9 0.17
49 8 0.15
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (45 bp):
ATATTTTAAATAAAATTATATTAATTAAATTTACATAAATATATA
Found at i:2245094 original size:25 final size:26
Alignment explanation
Indices: 2245017--2245117 Score: 75
Period size: 27 Copynumber: 3.8 Consensus size: 26
2245007 GATATATTTA
* **
2245017 ATATAAATTATTATTATATTAAA-ATTT
1 ATATAAATTATTA-AAT-TTAAATAAAT
2245044 ATATAAA-TATATAATATTTTAAATAAA-
1 ATATAAATTAT-TAA-A-TTTAAATAAAT
* *
2245071 AT-TATATTACTTAAATTTACATAAAT
1 ATATAAATTA-TTAAATTTAAATAAAT
2245097 ATATAAATTATTAAATTTAAA
1 ATATAAATTATTAAATTTAAA
2245118 ACTCATAAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 17
0.71 0.08 0.20
Matches are distributed among these distances:
25 9 0.15
26 19 0.32
27 28 0.47
28 3 0.05
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (26 bp):
ATATAAATTATTAAATTTAAATAAAT
Found at i:2245437 original size:23 final size:22
Alignment explanation
Indices: 2245410--2245459 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 22
2245400 TATGTCATTT
2245410 TTAAATTAATATTA-AAATTTTAA
1 TTAAATTAATATTACAAA--TTAA
2245433 TTAAATTAATATTACAAATTAA
1 TTAAATTAATATTACAAATTAA
2245455 TTAAA
1 TTAAA
2245460 CATTAATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
22 9 0.35
23 14 0.54
24 3 0.12
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
TTAAATTAATATTACAAATTAA
Found at i:2245645 original size:53 final size:55
Alignment explanation
Indices: 2245557--2245671 Score: 173
Period size: 53 Copynumber: 2.1 Consensus size: 55
2245547 AAAAATTTCA
2245557 AAAATTACTCACATACATCTAACATCGACTAACAACAAATAATTTTTGTTTTACAT
1 AAAATTACTCACATA-ATCTAACATCGACTAACAACAAATAATTTTTGTTTTACAT
* *
2245613 ATAATTACTCACAT-ATCT-ACATCCG-CTAACAACAAATAATTTTTGTTTTAGAT
1 AAAATTACTCACATAATCTAACAT-CGACTAACAACAAATAATTTTTGTTTTACAT
2245666 AAAATT
1 AAAATT
2245672 TTTTTAATTC
Statistics
Matches: 55, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
53 36 0.65
54 6 0.11
56 13 0.24
ACGTcount: A:0.42, C:0.18, G:0.04, T:0.36
Consensus pattern (55 bp):
AAAATTACTCACATAATCTAACATCGACTAACAACAAATAATTTTTGTTTTACAT
Found at i:2246542 original size:3 final size:3
Alignment explanation
Indices: 2246534--2246560 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
2246524 CTTTATATTG
2246534 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
2246561 TAAATTAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2246694 original size:13 final size:14
Alignment explanation
Indices: 2246669--2246708 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
2246659 AATTTTTAAT
2246669 AACTAATTATATAA
1 AACTAATTATATAA
* *
2246683 AAC-AATTCTATAT
1 AACTAATTATATAA
2246696 AACTAATTATATA
1 AACTAATTATATA
2246709 TAAAAATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.38
Consensus pattern (14 bp):
AACTAATTATATAA
Found at i:2246708 original size:14 final size:14
Alignment explanation
Indices: 2246667--2246711 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
2246657 TTAATTTTTA
2246667 ATAACTAATTATAT
1 ATAACTAATTATAT
* *
2246681 AAAAC-AATTCTAT
1 ATAACTAATTATAT
2246694 ATAACTAATTATAT
1 ATAACTAATTATAT
2246708 ATAA
1 ATAA
2246712 AAATAAATAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
13 11 0.42
14 15 0.58
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (14 bp):
ATAACTAATTATAT
Found at i:2246870 original size:20 final size:20
Alignment explanation
Indices: 2246845--2246898 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
2246835 ATAAAATTTT
2246845 TAAAATTTTAAAATATTAAA
1 TAAAATTTTAAAATATTAAA
*
2246865 TAAAA--TTAAAATATTATA
1 TAAAATTTTAAAATATTAAA
*
2246883 -AAAATGTATAAAATAT
1 TAAAAT-TTTAAAATAT
2246899 AATAAATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
17 4 0.14
18 12 0.41
20 13 0.45
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
TAAAATTTTAAAATATTAAA
Found at i:2247093 original size:24 final size:24
Alignment explanation
Indices: 2247070--2247128 Score: 70
Period size: 21 Copynumber: 2.6 Consensus size: 24
2247060 AATTTTTAAT
*
2247070 TTTTAATTTTATTTTTAT-AATAA
1 TTTTAATTTTATTATTATCAATAA
**
2247093 --TTAATTTTATTATTATCGTTAA
1 TTTTAATTTTATTATTATCAATAA
2247115 TTTTAATTTTATTA
1 TTTTAATTTTATTA
2247129 AAATTAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 15 0.50
22 3 0.10
24 12 0.40
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (24 bp):
TTTTAATTTTATTATTATCAATAA
Found at i:2247096 original size:21 final size:21
Alignment explanation
Indices: 2247072--2247142 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 21
2247062 TTTTTAATTT
2247072 TTAATTTTATTTTTATAATAA
1 TTAATTTTATTTTTATAATAA
* **
2247093 TTAATTTTA---TTATTATCG
1 TTAATTTTATTTTTATAATAA
*
2247111 TTAATTTTAATTTTATTAA-AA
1 TTAATTTTATTTTTA-TAATAA
2247132 TTAATTTTATT
1 TTAATTTTATT
2247143 ATCGATCTAT
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
18 15 0.38
21 22 0.56
22 2 0.05
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (21 bp):
TTAATTTTATTTTTATAATAA
Found at i:2251379 original size:22 final size:22
Alignment explanation
Indices: 2251351--2251397 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
2251341 AAGAGCTAAA
2251351 AGATCTGTGGGTTTCTACTTCT
1 AGATCTGTGGGTTTCTACTTCT
2251373 AGATCTGTGGGTTTCTACTTCT
1 AGATCTGTGGGTTTCTACTTCT
2251395 AGA
1 AGA
2251398 CGTTGTCGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.17, C:0.17, G:0.23, T:0.43
Consensus pattern (22 bp):
AGATCTGTGGGTTTCTACTTCT
Found at i:2253698 original size:2 final size:2
Alignment explanation
Indices: 2253691--2253720 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2253681 TATGAATCTT
2253691 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2253721 ATGTATTTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2253731 original size:6 final size:6
Alignment explanation
Indices: 2253722--2253750 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
2253712 ATATATATAA
2253722 TGTATT TGTATT TGTATT TGTATT TGTAT
1 TGTATT TGTATT TGTATT TGTATT TGTAT
2253751 GCTTTACCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.66
Consensus pattern (6 bp):
TGTATT
Found at i:2253924 original size:3 final size:3
Alignment explanation
Indices: 2253916--2253960 Score: 58
Period size: 3 Copynumber: 15.0 Consensus size: 3
2253906 ATACAAAAAG
2253916 ATT ATT ATTT ATT ATT ATT ATT -TT -TT ATT ATT ATT CATT ATT ATT
1 ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT
2253961 TTGTTGGTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.10
3 29 0.74
4 6 0.15
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:2253931 original size:10 final size:10
Alignment explanation
Indices: 2253916--2253961 Score: 55
Period size: 10 Copynumber: 5.0 Consensus size: 10
2253906 ATACAAAAAG
2253916 ATTATTATTT
1 ATTATTATTT
2253926 ATTATTA-TT
1 ATTATTATTT
2253935 A-T-TT-TTT
1 ATTATTATTT
*
2253942 ATTATTATTC
1 ATTATTATTT
2253952 ATTATTATTT
1 ATTATTATTT
2253962 TGTTGGTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
7 5 0.17
8 2 0.07
9 5 0.17
10 18 0.60
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (10 bp):
ATTATTATTT
Found at i:2253934 original size:13 final size:13
Alignment explanation
Indices: 2253916--2253960 Score: 72
Period size: 13 Copynumber: 3.5 Consensus size: 13
2253906 ATACAAAAAG
2253916 ATTATTATTTATT
1 ATTATTATTTATT
*
2253929 ATTATTATTTTTT
1 ATTATTATTTATT
*
2253942 ATTATTATTCATT
1 ATTATTATTTATT
2253955 ATTATT
1 ATTATT
2253961 TTGTTGGTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (13 bp):
ATTATTATTTATT
Found at i:2256617 original size:16 final size:16
Alignment explanation
Indices: 2256604--2256645 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 16
2256594 TTTTTATTAC
2256604 ATATTTATTATATTTA
1 ATATTTATTATATTTA
2256620 ATATTTATTTAATATTTA
1 ATATTTA-TT-ATATTTA
2256638 ATTATTTA
1 A-TATTTA
2256646 ATTAAATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.30
17 2 0.09
18 8 0.35
19 6 0.26
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATATTTATTATATTTA
Found at i:2258741 original size:46 final size:46
Alignment explanation
Indices: 2258692--2258784 Score: 116
Period size: 46 Copynumber: 2.0 Consensus size: 46
2258682 TTAATGTATT
*
2258692 AAAATATATATAAAAATAAATAATACT-TTAAATATAATTATTATATA
1 AAAATATA-ATAAAAATAAATAA-ACTATTAAATATAATTACTATATA
* * * *
2258739 AAAATATAATATAAATATATAAATTATTAAATATATTTACTATATA
1 AAAATATAATAAAAATAAATAAACTATTAAATATAATTACTATATA
2258785 GTATTTTTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
45 2 0.05
46 30 0.75
47 8 0.20
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (46 bp):
AAAATATAATAAAAATAAATAAACTATTAAATATAATTACTATATA
Found at i:2258756 original size:19 final size:18
Alignment explanation
Indices: 2258721--2258773 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
2258711 ATAATACTTT
*
2258721 AAATATAATTATTATATAA
1 AAATATAATTA-AATATAA
*
2258740 AAATATAATATAAATATAT
1 AAATATAAT-TAAATATAA
2258759 AAAT-T-ATTAAATATA
1 AAATATAATTAAATATA
2258774 TTTACTATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 8 0.26
17 2 0.06
18 1 0.03
19 18 0.58
20 2 0.06
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AAATATAATTAAATATAA
Found at i:2259821 original size:17 final size:16
Alignment explanation
Indices: 2259795--2259834 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
2259785 ATTATTATTT
*
2259795 TATTTCAAAATTTTAAA
1 TATTTTAAAATTTT-AA
*
2259812 TATTTTAAAATTTTTA
1 TATTTTAAAATTTTAA
2259828 TATTTTA
1 TATTTTA
2259835 TTAATTATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (16 bp):
TATTTTAAAATTTTAA
Found at i:2268747 original size:17 final size:17
Alignment explanation
Indices: 2268721--2268788 Score: 50
Period size: 17 Copynumber: 3.9 Consensus size: 17
2268711 AAATTTACTT
2268721 TTTTTA-ATTATAATTA
1 TTTTTATATTATAATTA
*
2268737 TTTTTATATTACAAATT-
1 TTTTTATATTA-TAATTA
* **
2268754 TTTTTATCTTCGAATTA
1 TTTTTATATTATAATTA
*
2268771 TTATTTATTTTATCAATT
1 TT-TTTATATTAT-AATT
2268789 TAAAAAGTAA
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
16 10 0.25
17 15 0.38
18 11 0.28
19 4 0.10
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.62
Consensus pattern (17 bp):
TTTTTATATTATAATTA
Found at i:2268753 original size:18 final size:17
Alignment explanation
Indices: 2268732--2268778 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
2268722 TTTTAATTAT
2268732 AATTATTTTTATATTACA
1 AATTATTTTTATATT-CA
* *
2268750 AATT-TTTTTATCTTCG
1 AATTATTTTTATATTCA
2268766 AATTATTATTTAT
1 AATTATT-TTTAT
2268779 TTTATCAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 5 0.20
17 11 0.44
18 9 0.36
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (17 bp):
AATTATTTTTATATTCA
Found at i:2273515 original size:20 final size:20
Alignment explanation
Indices: 2273451--2273521 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
2273441 AAAAAGATAG
* * *
2273451 AATGTATCGATACATTGAAG
1 AATGTTTCGATACATTAAAA
* *
2273471 AATGTTTCGATACATTCATA
1 AATGTTTCGATACATTAAAA
* *
2273491 CATGTTTTGATACATTAAAA
1 AATGTTTCGATACATTAAAA
*
2273511 AATGTATCGAT
1 AATGTTTCGAT
2273522 GCATCTGGGC
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (20 bp):
AATGTTTCGATACATTAAAA
Found at i:2274812 original size:28 final size:30
Alignment explanation
Indices: 2274719--2274829 Score: 118
Period size: 31 Copynumber: 3.7 Consensus size: 30
2274709 GGCTTTTAAA
* * *
2274719 AAAAAGGTGCCACTAACTTGTGTGGGCTTT
1 AAAAGGGTGCCACCAACTTGTGTGAGCTTT
* *
2274749 AAAAGGGTTTCCACCGACTTGTGTGAGCTTT
1 AAAAGGG-TGCCACCAACTTGTGTGAGCTTT
*
2274780 GAAAGGGTGCCACCAAC-T-TGTGAGCTTT
1 AAAAGGGTGCCACCAACTTGTGTGAGCTTT
* **
2274808 AAAAGGATGCCACTGACTTGTG
1 AAAAGGGTGCCACCAACTTGTG
2274830 GGCTTTGAAA
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
28 23 0.35
29 2 0.03
30 16 0.24
31 25 0.38
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (30 bp):
AAAAGGGTGCCACCAACTTGTGTGAGCTTT
Found at i:2274834 original size:28 final size:28
Alignment explanation
Indices: 2274720--2274859 Score: 120
Period size: 28 Copynumber: 4.9 Consensus size: 28
2274710 GCTTTTAAAA
2274720 AAAAGG-TGCCACTAACTTGTGTGGGCTTT
1 AAAAGGATGCCACTAAC-T-TGTGGGCTTT
* * **
2274749 AAAAGGGTTTCCACCGACTTGTGTGAGCTTT
1 AAAA-GGATGCCACTAACTTGTG-G-GCTTT
* * * *
2274780 GAAAGGGTGCCACCAACTTGTGAGCTTT
1 AAAAGGATGCCACTAACTTGTGGGCTTT
*
2274808 AAAAGGATGCCACTGACTTGTGGGCTTT
1 AAAAGGATGCCACTAACTTGTGGGCTTT
* * *
2274836 GAAATGATGCCATTAACTTGTGGG
1 AAAAGGATGCCACTAACTTGTGGG
2274860 TAGTTCTTGA
Statistics
Matches: 90, Mismatches: 17, Indels: 9
0.78 0.15 0.08
Matches are distributed among these distances:
28 48 0.53
29 8 0.09
30 19 0.21
31 15 0.17
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (28 bp):
AAAAGGATGCCACTAACTTGTGGGCTTT
Found at i:2274854 original size:56 final size:59
Alignment explanation
Indices: 2274721--2274857 Score: 147
Period size: 56 Copynumber: 2.4 Consensus size: 59
2274711 CTTTTAAAAA
* * * *
2274721 AAAGG-TGCCACTAACTTGTGTGGGCTTTAAAAGGGTTTCCACCGACTTGTGTGAGCTTTG
1 AAAGGATGCCACCAAC-T-TGTGAGCTTTAAAAGGGATGCCACCGACTTGTGTGAGCTTTG
* *
2274781 AAAGGGTGCCACCAACTTGTGAGCTTTAAAA-GGATGCCACTGACTTGTG-G-GCTTTG
1 AAAGGATGCCACCAACTTGTGAGCTTTAAAAGGGATGCCACCGACTTGTGTGAGCTTTG
* **
2274837 AAATGATGCCATTAACTTGTG
1 AAAGGATGCCACCAACTTGTG
2274858 GGTAGTTCTT
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
56 23 0.34
57 1 0.01
58 15 0.22
59 13 0.19
60 6 0.09
61 9 0.13
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (59 bp):
AAAGGATGCCACCAACTTGTGAGCTTTAAAAGGGATGCCACCGACTTGTGTGAGCTTTG
Found at i:2280779 original size:20 final size:20
Alignment explanation
Indices: 2280754--2280808 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
2280744 TTTTCACAAT
*
2280754 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGCTCA
2280774 TTGTATCGATACATTGCTCA
1 TTGTATCGATACATTGCTCA
2280794 TTGTATCGATACATT
1 TTGTATCGATACATT
2280809 TTATAACGTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.25, C:0.16, G:0.15, T:0.44
Consensus pattern (20 bp):
TTGTATCGATACATTGCTCA
Found at i:2283399 original size:28 final size:28
Alignment explanation
Indices: 2283368--2283440 Score: 101
Period size: 28 Copynumber: 2.6 Consensus size: 28
2283358 TTACGTCATC
* * *
2283368 GGGGATACTCCAATCCTATTATTTTTGA
1 GGGGATACTCCAACCCCATTATTTTCGA
2283396 GGGGATACTCCAACCCCATTATTTTCGA
1 GGGGATACTCCAACCCCATTATTTTCGA
**
2283424 GGAAATACTCCAACCCC
1 GGGGATACTCCAACCCC
2283441 GACTTTATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.29
Consensus pattern (28 bp):
GGGGATACTCCAACCCCATTATTTTCGA
Found at i:2283412 original size:135 final size:135
Alignment explanation
Indices: 2283263--2283544 Score: 449
Period size: 135 Copynumber: 2.1 Consensus size: 135
2283253 TCACAATTGA
* ** *
2283263 GGATACTCCAACCCCGTTATTTTCGAGGGGATACTCTAACCCC-AGCTTTATATCTAAAATATTG
1 GGATACTCCAACCCCATTATTTTCGAGGAAATACTCCAACCCCGA-CTTTATATCTAAAATATTG
* * *
2283327 ATTTTTCATAATCGGGGGTACTCCAACCCTGTTACGTCATCGGGGATACTCCAATCCTATTATTT
65 ATTTTTCATAATCGGGAGTACTCCAACCCCGTTACGTCATCAGGGATACTCCAATCCTATTATTT
** *
2283392 TTGAGG
130 CCGAAG
2283398 GGATACTCCAACCCCATTATTTTCGAGGAAATACTCCAACCCCGACTTTATATCTAAAATATTGA
1 GGATACTCCAACCCCATTATTTTCGAGGAAATACTCCAACCCCGACTTTATATCTAAAATATTGA
*
2283463 TTTTTCATAATCGGGAGTACTCCAACCCCGTTATGTCATCAGGGATACTCCAATCCTATTATTTC
66 TTTTTCATAATCGGGAGTACTCCAACCCCGTTACGTCATCAGGGATACTCCAATCCTATTATTTC
2283528 CGAAG
131 CGAAG
2283533 GGATACTCCAAC
1 GGATACTCCAAC
2283545 ATCGATTTTA
Statistics
Matches: 135, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
135 134 0.99
136 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.32
Consensus pattern (135 bp):
GGATACTCCAACCCCATTATTTTCGAGGAAATACTCCAACCCCGACTTTATATCTAAAATATTGA
TTTTTCATAATCGGGAGTACTCCAACCCCGTTACGTCATCAGGGATACTCCAATCCTATTATTTC
CGAAG
Found at i:2283476 original size:107 final size:106
Alignment explanation
Indices: 2283365--2283625 Score: 278
Period size: 107 Copynumber: 2.4 Consensus size: 106
2283355 CTGTTACGTC
** *
2283365 ATCGGGGATACTCCAATCCTATTATTTTTGAGGGGATACTCCAACCCCATTATTTTCG-AGGAAA
1 ATCGGGGATACTCCAATCCCGTTATTTTTGA-GGGATACTCCAACCCCATTATTTCCGAAGG-AA
* * ** *
2283429 TACTCCAACCCCGACTTTATAT-CTAAAATA-TTGATTTTTCATA
64 TACTCCAACACCGACTTTAT-TCCTAAAACACCAG-TTTTTCACA
* ** * * * *
2283472 ATC-GGGAGTACTCCAACCCCGTTATGTCATCAGGGATACTCCAATCCTATTATTTCCGAAGGGA
1 ATCGGGGA-TACTCCAATCCCGTTAT-TTTTGAGGGATACTCCAACCCCATTATTTCCGAAGGAA
* *
2283536 TACTCCAACATCGATTTTATTCCTAAAACACCAGTTTTTCACA
64 TACTCCAACACCGACTTTATTCCTAAAACACCAGTTTTTCACA
*
2283579 ATCGGGGATACTCCAATCCCGTTATTTTCGAGGGATACTCCAACCCC
1 ATCGGGGATACTCCAATCCCGTTATTTTTGAGGGATACTCCAACCCC
2283626 GATTTTATTT
Statistics
Matches: 124, Mismatches: 24, Indels: 13
0.77 0.15 0.08
Matches are distributed among these distances:
106 21 0.17
107 92 0.74
108 11 0.09
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (106 bp):
ATCGGGGATACTCCAATCCCGTTATTTTTGAGGGATACTCCAACCCCATTATTTCCGAAGGAATA
CTCCAACACCGACTTTATTCCTAAAACACCAGTTTTTCACA
Found at i:2283524 original size:28 final size:28
Alignment explanation
Indices: 2283475--2283544 Score: 68
Period size: 28 Copynumber: 2.5 Consensus size: 28
2283465 TTTCATAATC
* **
2283475 GGGAGTACTCCAACCCCGTTATGTCATCA
1 GGGA-TACTCCAACCCCATTATGTCAGAA
* * * *
2283504 GGGATACTCCAATCCTATTATTTCCGAA
1 GGGATACTCCAACCCCATTATGTCAGAA
2283532 GGGATACTCCAAC
1 GGGATACTCCAAC
2283545 ATCGATTTTA
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 29 0.88
29 4 0.12
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.26
Consensus pattern (28 bp):
GGGATACTCCAACCCCATTATGTCAGAA
Found at i:2283634 original size:78 final size:79
Alignment explanation
Indices: 2283504--2283672 Score: 225
Period size: 78 Copynumber: 2.2 Consensus size: 79
2283494 TATGTCATCA
* *
2283504 GGGATACTCCAATCCTATTATTTCCGAAGGGATACTCCAACATCGATTTTATTCCTAAAACACCA
1 GGGATACTCCAATCCCATTATTTCCGAAGGGATACTCCAACACCGATTTTATTCCTAAAACACCA
*
2283569 GTTTT-TCACAATCG
66 ATTTTCT-ACAATCG
* * * * *
2283583 GGGATACTCCAATCCCGTTATTTTCG-AGGGATACTCCAACCCCGATTTTATTTCTAAAATACCA
1 GGGATACTCCAATCCCATTATTTCCGAAGGGATACTCCAACACCGATTTTATTCCTAAAACACCA
2283647 ATTTTCTACAATCG
66 ATTTTCTACAATCG
* *
2283661 AGGATATTCCAA
1 GGGATACTCCAA
2283673 CTCCGGTTTT
Statistics
Matches: 79, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
78 55 0.70
79 24 0.30
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (79 bp):
GGGATACTCCAATCCCATTATTTCCGAAGGGATACTCCAACACCGATTTTATTCCTAAAACACCA
ATTTTCTACAATCG
Found at i:2283672 original size:51 final size:51
Alignment explanation
Indices: 2283606--2283726 Score: 156
Period size: 51 Copynumber: 2.4 Consensus size: 51
2283596 CCCGTTATTT
*
2283606 TCGAGGGATACTCCAACCCCGATTTTA-TTTCTAAAATACCAATTT-TCTACAA
1 TCGA-GGATACTCCAACCCCGATTTTATTTTC-AAAACACCAATTTCTC-ACAA
* * *
2283658 TCGAGGATATTCCAACTCCGGTTTTATTTTCAAAACACCAATTTCTCACAA
1 TCGAGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTCTCACAA
*
2283709 TCGGGGATACTCCAACCC
1 TCGAGGATACTCCAACCC
2283727 TGTTATTTCT
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
51 50 0.83
52 10 0.17
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.31
Consensus pattern (51 bp):
TCGAGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTCTCACAA
Found at i:2283751 original size:79 final size:79
Alignment explanation
Indices: 2283660--2283805 Score: 195
Period size: 79 Copynumber: 1.8 Consensus size: 79
2283650 TTCTACAATC
* * **
2283660 GAGGATATTCCAACTCCGGTTTTATTT-TCAAAACACCAATTTCTCACAATCGGGGATACTCCAA
1 GAGGATACTCCAACCCCGACTTTATTTCT-AAAACACCAATTTCTCACAATCGGGGATACTCCAA
2283724 CCCTGTTATTTCTGA
65 CCCTGTTATTTCTGA
* *** *
2283739 GAGGATACTCCAACCCCGACTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCTAAC
1 GAGGATACTCCAACCCCGACTTTATTTCTAAAACACCAATTTCTCACAATCGGGGATACTCCAAC
2283804 CC
66 CC
2283806 CGATTTTATT
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
79 56 0.98
80 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.32
Consensus pattern (79 bp):
GAGGATACTCCAACCCCGACTTTATTTCTAAAACACCAATTTCTCACAATCGGGGATACTCCAAC
CCTGTTATTTCTGA
Found at i:2283805 original size:51 final size:51
Alignment explanation
Indices: 2283741--2283856 Score: 155
Period size: 51 Copynumber: 2.3 Consensus size: 51
2283731 ATTTCTGAGA
* *
2283741 GGATACTCCAACCCCGACTTTA-TTTCTAAAATATTGA-TTTCTCACAATCGG
1 GGATACTCCAACCCCGACTTTATTTTC-AAAATACTGATTTTCT-ACAATCAG
* * *
2283792 GGATACTCTAACCCCGATTTTATTTTCAAAATACTGATTTTCTATAATCAG
1 GGATACTCCAACCCCGACTTTATTTTCAAAATACTGATTTTCTACAATCAG
2283843 GGATACTCCAACCC
1 GGATACTCCAACCC
2283857 TATTATTTTC
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
51 48 0.84
52 9 0.16
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (51 bp):
GGATACTCCAACCCCGACTTTATTTTCAAAATACTGATTTTCTACAATCAG
Found at i:2283813 original size:130 final size:128
Alignment explanation
Indices: 2283532--2283932 Score: 434
Period size: 130 Copynumber: 3.1 Consensus size: 128
2283522 TATTTCCGAA
* * *
2283532 GGGATACTCCAACATCGATTTTA-TTCCTAAAACACCAGTTTTTCACAATCGGGGATACTCCAAT
1 GGGATACTCCAACACCGATTTTATTTTC-AAAACACCA-ATTTTCACAATCGGGGATACTCCAA-
**
2283596 CCC-GTTATTTTCGAG-GGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTCTACAAT
63 CCCTGTTATTTTCGAGAGGATACTCCAACCCCGATTTTATTTCTAAAATACTGATTTTC-ACAAT
2283659 CG
127 CG
* * * *
2283661 AGGATATTCCAACTCCGGTTTTATTTTCAAAACACCAATTTCTCACAATCGGGGATACTCCAACC
1 GGGATACTCCAACACCGATTTTATTTTCAAAACACCAATTT-TCACAATCGGGGATACTCCAACC
* *
2283726 CTGTTA-TTTCTGAGAGGATACTCCAACCCCGACTTTATTTCTAAAATATTGATTTCTCACAATC
65 CTGTTATTTTC-GAGAGGATACTCCAACCCCGATTTTATTTCTAAAATACTGATTT-TCACAATC
2283790 G
128 G
* * * ** * *
2283791 GGGATACTCTAACCCCGATTTTATTTTCAAAATACTGATTTTCTATAATCAGGGATACTCCAACC
1 GGGATACTCCAACACCGATTTTATTTTCAAAACACCAATTTTC-ACAATCGGGGATACTCCAACC
* * * * * *
2283856 CTATTATTTTCGA-AGGAATACTCCAATCTCGATTTTTTTATTTCTAGAACACTGATTTTTCATA
65 CTGTTATTTTCGAGAGG-ATACTCCAACCCCGA---TTTTATTTCTAAAATACTGA-TTTTCACA
2283920 ATCG
125 ATCG
2283924 GGGATACTC
1 GGGATACTC
2283933 TAGCCCTGTT
Statistics
Matches: 230, Mismatches: 29, Indels: 22
0.82 0.10 0.08
Matches are distributed among these distances:
128 10 0.04
129 60 0.26
130 118 0.51
131 6 0.03
133 33 0.14
134 3 0.01
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (128 bp):
GGGATACTCCAACACCGATTTTATTTTCAAAACACCAATTTTCACAATCGGGGATACTCCAACCC
TGTTATTTTCGAGAGGATACTCCAACCCCGATTTTATTTCTAAAATACTGATTTTCACAATCG
Found at i:2286597 original size:43 final size:43
Alignment explanation
Indices: 2286568--2286657 Score: 137
Period size: 43 Copynumber: 2.1 Consensus size: 43
2286558 TTGGTTGAGG
**
2286568 GGGTATGGTGATAGGGTGAGAATATGGCATGTTTGGGTAGCGA
1 GGGTATGGTGATAGGGTGAGAATATGGCATAATTGGGTAGCGA
*
2286611 GGGTATGGTGATAGGGTGAGAATATGGCAT-GTTCGGGTAGCGA
1 GGGTATGGTGATAGGGTGAGAATATGGCATAATT-GGGTAGCGA
2286654 GGGT
1 GGGT
2286658 TAGGTGCTTG
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
42 2 0.04
43 43 0.96
ACGTcount: A:0.22, C:0.06, G:0.46, T:0.27
Consensus pattern (43 bp):
GGGTATGGTGATAGGGTGAGAATATGGCATAATTGGGTAGCGA
Found at i:2286605 original size:21 final size:21
Alignment explanation
Indices: 2286579--2286648 Score: 54
Period size: 21 Copynumber: 3.3 Consensus size: 21
2286569 GGTATGGTGA
2286579 TAGGGTGAGAATATGGCATGT
1 TAGGGTGAGAATATGGCATGT
* ** *
2286600 TTGGGTAGCGAGGGTATGG--TGA
1 TAGGGT---GAGAATATGGCATGT
2286622 TAGGGTGAGAATATGGCATGT
1 TAGGGTGAGAATATGGCATGT
*
2286643 TCGGGT
1 TAGGGT
2286649 AGCGAGGGTT
Statistics
Matches: 35, Mismatches: 9, Indels: 10
0.65 0.17 0.19
Matches are distributed among these distances:
19 8 0.23
21 12 0.34
22 7 0.20
24 8 0.23
ACGTcount: A:0.23, C:0.06, G:0.43, T:0.29
Consensus pattern (21 bp):
TAGGGTGAGAATATGGCATGT
Found at i:2294716 original size:1 final size:1
Alignment explanation
Indices: 2294710--2294736 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
2294700 AAAGTGTTTG
2294710 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
2294737 TTTTAATGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:2294765 original size:21 final size:21
Alignment explanation
Indices: 2294741--2294797 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
2294731 AAAAAATTTT
2294741 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
2294762 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
2294783 AATGTATCGATACAT
1 AATGTATCGATACAT
2294798 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:2294877 original size:19 final size:19
Alignment explanation
Indices: 2294853--2294920 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
2294843 AATTCAACAA
2294853 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
2294872 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
2294887 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
2294904 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
2294921 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:2294892 original size:13 final size:13
Alignment explanation
Indices: 2294874--2294898 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2294864 ACATAAGTTT
2294874 TGTATCGATACAA
1 TGTATCGATACAA
2294887 TGTATCGATACA
1 TGTATCGATACA
2294899 TAAGTATTGT
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:2294896 original size:32 final size:32
Alignment explanation
Indices: 2294855--2294917 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2294845 TTCAACAATT
*
2294855 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
2294887 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
2294918 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:2294978 original size:13 final size:13
Alignment explanation
Indices: 2294960--2294985 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2294950 CATTTTTCTG
2294960 TGTATCGATACAT
1 TGTATCGATACAT
2294973 TGTATCGATACAT
1 TGTATCGATACAT
2294986 GGATCTTTGT
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:2294982 original size:33 final size:33
Alignment explanation
Indices: 2294940--2295006 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2294930 GCCAAGGAAA
***
2294940 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
2294973 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
2295006 T
1 T
2295007 TGGAAATTTT
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:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:2297525 original size:28 final size:27
Alignment explanation
Indices: 2297458--2297530 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
2297448 CTTCACAATC
* *
2297458 GGGGACACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCATA
*
2297485 GGGGATACTCCAACCCCGTTATTTC-TGA
1 GGGGATACTCCAACCCCGTTA-ATCAT-A
2297513 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
2297531 ACTTTATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
27 21 0.51
28 20 0.49
ACGTcount: A:0.23, C:0.34, G:0.22, T:0.21
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCATA
Found at i:2297625 original size:53 final size:52
Alignment explanation
Indices: 2297513--2297785 Score: 239
Period size: 52 Copynumber: 5.2 Consensus size: 52
2297503 TTATTTCTGA
* ** * * * * *
2297513 GGGGATACTCCAACCCCGACTTTATTTTCAAAATATCGATTTTTC-ATAATC
1 GGGGATACTCCAATCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATC
* * * *
2297564 GGGGATACTCTAACCCCGGTTTCATTTTCACAACACCAATTTCTCCTTTAATC
1 GGGGATACTCCAATCCCGGTTTTATTTTCAAAACACCAATTT-TCCTTTAATC
* * * * * **
2297617 GGGGATACTCCAATTCCGATTTTATTTCCAAAAATACCAATTTTTC-ACAATC
1 GGGGATACTCCAATCCCGGTTTTATTTTC-AAAACACCAATTTTCCTTTAATC
* *
2297669 GGGGATACTCCAATCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATC
1 GGGGATACTCCAATCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATC
* * * * *
2297721 GGGGATACTCCAA-CTCCGATTTTATTTCCAAAAATACCAATTTTTC-ATAATC
1 GGGGATACTCCAATC-CCGGTTTTATTTTC-AAAACACCAATTTTCCTTTAATC
*
2297773 GAGGATACTCCAA
1 GGGGATACTCCAA
2297786 CCTCGTTATT
Statistics
Matches: 178, Mismatches: 38, Indels: 11
0.78 0.17 0.05
Matches are distributed among these distances:
51 48 0.27
52 76 0.43
53 43 0.24
54 11 0.06
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (52 bp):
GGGGATACTCCAATCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATC
Found at i:2297679 original size:52 final size:51
Alignment explanation
Indices: 2297349--2297786 Score: 296
Period size: 51 Copynumber: 8.4 Consensus size: 51
2297339 AATTCTCCAC
* * * * **
2297349 AATCGAGGATATTCCAACTCCGATTTTACTTTCAAAACATTAA-TTTTCTAT
1 AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAATACCAATTTTTC-AT
* * *
2297400 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCAC
1 AATCGGGGATACTCCAACTCCGATTTTATTTTC--AAAATACCAATTT-TTCAT
* * * ** ***
2297454 AATCGGGGACACTCCAACCCCG--TTAATCATCGGGGATACTCCAACCCCGTTATTTC-T
1 AATCGGGGATACTCCAACTCCGATTTTATTTTC-AAAATA--CCAA-----TT-TTTCAT
* * * * *
2297511 GA--GGGGATACTCCAACCCCGACTTTATTTTCAAAATATCGATTTTTCAT
1 AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAATACCAATTTTTCAT
* * * * * * * *
2297560 AATCGGGGATACTCTAACCCCGGTTTCATTTTCACAACACCAATTTCTCCTTT
1 AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAATACCAATTT-TTC-AT
* * *
2297613 AATCGGGGATACTCCAATTCCGATTTTATTTCCAAAAATACCAATTTTTCAC
1 AATCGGGGATACTCCAACTCCGATTTTATTTTC-AAAATACCAATTTTTCAT
* ** * *
2297665 AATCGGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTT
1 AATCGGGGATACTCCAACTCC-GATTTTATTTTCAAAATACCAATTTTTC-AT
*
2297717 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCAT
1 AATCGGGGATACTCCAACTCCGATTTTATTTTC-AAAATACCAATTTTTCAT
*
2297769 AATCGAGGATACTCCAAC
1 AATCGGGGATACTCCAAC
2297787 CTCGTTATTT
Statistics
Matches: 298, Mismatches: 65, Indels: 47
0.73 0.16 0.11
Matches are distributed among these distances:
48 4 0.01
49 4 0.01
51 81 0.27
52 79 0.27
53 58 0.19
54 36 0.12
55 20 0.07
56 3 0.01
57 7 0.02
58 5 0.02
59 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.33
Consensus pattern (51 bp):
AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAATACCAATTTTTCAT
Found at i:2297696 original size:105 final size:104
Alignment explanation
Indices: 2297349--2297787 Score: 429
Period size: 104 Copynumber: 4.2 Consensus size: 104
2297339 AATTCTCCAC
* * * * * * ** *
2297349 AATCGAGGATATTCCAACTCCGATTTTACTTTCAAAACATTAATTTT-CTATAATCGGGGATACT
1 AATCGGGGATACTCCAACCCCGGTTTCATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
* *
2297413 CCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCAC
66 CCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCAT
* ***** * * ** * *
2297454 AATCGGGGACACTCCAACCCC-GTTAATCATCGGGGATACTCCAA--CCCCGTTATTTCTGAGGG
1 AATCGGGGATACTCCAACCCCGGTT--TCATTTTCAAAACACCAATTTTCCTTTA-ATC---GGG
* * * * *
2297516 GATACTCCAACCCCGACTTTATTTTC-AAAATATCGATTTTTCAT
60 GATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCAT
* *
2297560 AATCGGGGATACTCTAACCCCGGTTTCATTTTCACAACACCAATTTCTCCTTTAATCGGGGATAC
1 AATCGGGGATACTCCAACCCCGGTTTCATTTTCAAAACACCAATTT-TCCTTTAATCGGGGATAC
* *
2297625 TCCAATTCCGATTTTATTTCCAAAAATACCAATTTTTCAC
65 TCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCAT
* * * *
2297665 AATCGGGGATACTCCAATCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGGGATACT
1 AATCGGGGATACTCCAACCCCGGTTTCATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
2297730 CCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCAT
66 CCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCAT
*
2297769 AATCGAGGATACTCCAACC
1 AATCGGGGATACTCCAACC
2297788 TCGTTATTTC
Statistics
Matches: 263, Mismatches: 59, Indels: 25
0.76 0.17 0.07
Matches are distributed among these distances:
104 100 0.38
105 85 0.32
106 32 0.12
107 15 0.06
108 5 0.02
109 26 0.10
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.33
Consensus pattern (104 bp):
AATCGGGGATACTCCAACCCCGGTTTCATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
CCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCAT
Found at i:2297806 original size:28 final size:28
Alignment explanation
Indices: 2297770--2297846 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
2297760 ATTTTTCATA
* * *
2297770 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
2297798 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
2297826 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
2297847 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:2297912 original size:107 final size:107
Alignment explanation
Indices: 2297404--2297925 Score: 305
Period size: 104 Copynumber: 4.9 Consensus size: 107
2297394 TTCTATAATC
* * * * * *
2297404 GGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGACACTCC
1 GGGGATACTCCAACCCCGACTTTATTTCC-AAAAATACCAATTTC-TCATAATCGAGGATACTCC
* * *
2297469 AACCCCGTTA-ATCATCGGGGATACTCCAACCCCGTTATTTCTGA
64 AACCCCGTTATTTCA-CGGGGATACTCCAACCCCGTTACTTCCGA
* * * * * *
2297513 GGGGATACTCCAACCCCGACTTTATTTTC-AAAATATCGATTTTTCATAATCGGGGATACTCTAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCATAATCGAGGATACTCCAA
* * * *
2297577 CCCCGGTTTCATTTTCAC----A-ACACCAATTTCTCCTTTA-AT-C--
66 CCCC-G-TT-A-TTTCACGGGGATACTCCAA---CCCCGTTACTTCCGA
** * * * *
2297617 GGGGATACTCCAATTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGGGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCATAATCGAGGATACTCCAA
** * * ** * *
2297682 TCCTGGTTTTATTTTCA-----AAACGCCAATTTTCCTTTA-AT-C--
66 -CCCCG--TTA-TTTCACGGGGATACTCCAA--CCCCGTTACTTCCGA
* * *
2297721 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCATAATCGAGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCATAATCGAGGATACTCCAA
*
2297786 CCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGA
66 CCCCGTTATTTCA-CGGGGATACTCCAACCCCGTTACTTCCGA
* * *** * * *
2297829 GGGGATACTCCAACCCCGGCTTTA-TTCCCAAAATATTGATTTCTCATAATTGGGGGTACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCATAATCGAGGATACTCCAA
*
2297893 CCCCGTTATTTTCGA-GGGGATACTCCAATCCCG
66 CCCCGTTA-TTTC-ACGGGGATACTCCAACCCCG
2297926 ATTTTTTTTC
Statistics
Matches: 338, Mismatches: 51, Indels: 50
0.77 0.12 0.11
Matches are distributed among these distances:
100 5 0.01
101 3 0.01
103 4 0.01
104 105 0.31
105 52 0.15
106 36 0.11
107 68 0.20
108 33 0.10
109 28 0.08
110 1 0.00
111 3 0.01
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.31
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCATAATCGAGGATACTCCAA
CCCCGTTATTTCACGGGGATACTCCAACCCCGTTACTTCCGA
Found at i:2297979 original size:78 final size:79
Alignment explanation
Indices: 2297800--2298001 Score: 219
Period size: 78 Copynumber: 2.6 Consensus size: 79
2297790 GTTATTTCAT
* * *
2297800 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGATTTATTCCCAAAATAT
* * * *
2297865 TGATTTCTCATAAT
66 CGATTCCTCACAAC
* * * * ** *
2297879 TGGGGGTACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCC-GATTTTTTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGATTTATTCCCAAAAT-A
2297942 TCGATTCCTCACAAC
65 TCGATTCCTCACAAC
* * * *
2297957 CGGGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAACCC
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCC
2298002 TGTTATTATC
Statistics
Matches: 101, Mismatches: 21, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
77 3 0.03
78 57 0.56
79 41 0.41
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.28
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGATTTATTCCCAAAATAT
CGATTCCTCACAAC
Found at i:2303533 original size:1 final size:1
Alignment explanation
Indices: 2303527--2303551 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
2303517 ACATTTAAAA
2303527 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
2303552 CCAAACACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:2304660 original size:25 final size:25
Alignment explanation
Indices: 2304632--2304689 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
2304622 AAAAGTGATG
*
2304632 AAAAAAAAAA-AAAAACAAAAAAAC
1 AAAAAAAAAACAAAAAAAAAAAAAC
* *
2304656 AAAAAAAAAACAAAAAAAACAACAC
1 AAAAAAAAAACAAAAAAAAAAAAAC
*
2304681 AGAAAAAAA
1 AAAAAAAAA
2304690 GGTGCAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 10 0.34
25 19 0.66
ACGTcount: A:0.88, C:0.10, G:0.02, T:0.00
Consensus pattern (25 bp):
AAAAAAAAAACAAAAAAAAAAAAAC
Found at i:2304677 original size:20 final size:19
Alignment explanation
Indices: 2304632--2304673 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
2304622 AAAAGTGATG
2304632 AAAAA-AAAAAAAAAACAA
1 AAAAACAAAAAAAAAACAA
2304650 AAAAACAAAAAAAAAACAA
1 AAAAACAAAAAAAAAACAA
2304669 AAAAA
1 AAAAA
2304674 ACAACACAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (19 bp):
AAAAACAAAAAAAAAACAA
Found at i:2304689 original size:1 final size:1
Alignment explanation
Indices: 2304632--2304674 Score: 59
Period size: 1 Copynumber: 43.0 Consensus size: 1
2304622 AAAAGTGATG
* * *
2304632 AAAAAAAAAAAAAAACAAAAAAACAAAAAAAAAACAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2304675 CAACACAGAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:2304958 original size:15 final size:15
Alignment explanation
Indices: 2304928--2304971 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
2304918 GTTCTTTTCC
*
2304928 AAACACAAAA-AAAA
1 AAACAAAAAAGAAAA
*
2304942 AAAGAAAAAAGAAAA
1 AAACAAAAAAGAAAA
*
2304957 AAACAAAACAGAAAA
1 AAACAAAAAAGAAAA
2304972 TCTCGGTGAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
14 8 0.32
15 17 0.68
ACGTcount: A:0.84, C:0.09, G:0.07, T:0.00
Consensus pattern (15 bp):
AAACAAAAAAGAAAA
Found at i:2306072 original size:63 final size:62
Alignment explanation
Indices: 2305998--2306399 Score: 311
Period size: 63 Copynumber: 6.4 Consensus size: 62
2305988 AATTTCTTCT
* * *
2305998 CAAAGTCCACGACTCAGTGGCATCTTTCCTTCTTAAAGTCCATAATTTAGTGGCATCTCTTTC
1 CAAAGTCCACGACTCCGTGGCACCTTTCCTT-TTAAAGTCCACAATTTAGTGGCATCTCTTTC
* * *
2306061 CAAAGTCCACGACTCCGTGGCACCTTTTTCTTTTCAAAGTCCACAACTCT-GTGGCA-CTCTTTT
1 CAAAGTCCACGACTCCGTGGCACC-TTTCCTTTT-AAAGTCCACAA-TTTAGTGGCATCTCTTTC
* * * * * ** *
2306124 TAAAGCCCACAACTCCGTGGCA-C---CCTTTT-AAGCCCACAACTCCGTGGCACTCTTTTTCC
1 CAAAGTCCACGACTCCGTGGCACCTTTCCTTTTAAAGTCCACAATTTAGTGGCA-TCTCTTT-C
* * * * * * * *
2306183 TTCTAAGTCCACAACTTCGTGGCACCTTTTTCTTTTTAAAGTCCACGACTCAGTGGCAATTTC-T
1 --CAAAGTCCACGACTCCGTGGCACC--TTTCCTTTTAAAGTCCACAATTTAGTGGC-ATCTCTT
2306247 TC
61 TC
* *
2306249 TCAAAGTCCACGACTCAGTGGCATCTTTCCTTCTTAAAGTCCACAATTTAGTGGCATCTCTTTC
1 -CAAAGTCCACGACTCCGTGGCACCTTTCCTT-TTAAAGTCCACAATTTAGTGGCATCTCTTTC
* * *
2306313 CAAAGTCCACGACTCCGTGGCACCTTTTTCTTTTCAAAGTCCACAACTCT-GTGGCA-CTCTTTT
1 CAAAGTCCACGACTCCGTGGCACC-TTTCCTTTT-AAAGTCCACAA-TTTAGTGGCATCTCTTTC
* * * *
2306376 TAAAGCCCACAACTCTGTGGCACC
1 CAAAGTCCACGACTCCGTGGCACC
2306400 CTTTTAAGCC
Statistics
Matches: 272, Mismatches: 45, Indels: 44
0.75 0.12 0.12
Matches are distributed among these distances:
56 15 0.06
58 10 0.04
61 18 0.07
62 2 0.01
63 109 0.40
64 67 0.25
65 24 0.09
66 1 0.00
67 7 0.03
68 18 0.07
69 1 0.00
ACGTcount: A:0.22, C:0.31, G:0.14, T:0.32
Consensus pattern (62 bp):
CAAAGTCCACGACTCCGTGGCACCTTTCCTTTTAAAGTCCACAATTTAGTGGCATCTCTTTC
Found at i:2306099 original size:34 final size:34
Alignment explanation
Indices: 2306055--2306822 Score: 531
Period size: 34 Copynumber: 24.0 Consensus size: 34
2306045 TAGTGGCATC
* *
2306055 TCTTTCCAAAGTCCACGACTCCGTGGCACCTTTT
1 TCTTTTCAAAGTCCACAACTCCGTGGCACCTTTT
*
2306089 TCTTTTCAAAGTCCACAACTCTGTGGCA-C----
1 TCTTTTCAAAGTCCACAACTCCGTGGCACCTTTT
* *
2306118 TCTTTTTAAAGCCCACAACTCCGTGGCACC----
1 TCTTTTCAAAGTCCACAACTCCGTGGCACCTTTT
*
2306148 -CTTTT--AAGCCCACAACTCCGTGGCACTCTTTT
1 TCTTTTCAAAGTCCACAACTCCGTGGCAC-CTTTT
* * *
2306180 TC-CTTCTAAGTCCACAACTTCGTGGCACCTTTT
1 TCTTTTCAAAGTCCACAACTCCGTGGCACCTTTT
* * * *
2306213 TCTTTTTAAAGTCCACGACTCAGTGGCA---ATT
1 TCTTTTCAAAGTCCACAACTCCGTGGCACCTTTT
* * * *
2306244 TCTTCTCAAAGTCCACGACTCAGTGGCATC-TTT
1 TCTTTTCAAAGTCCACAACTCCGTGGCACCTTTT
* * ** *
2306277 CCTTCTT-AAAGTCCACAATTTAGTGGCA----TC
1 TCTT-TTCAAAGTCCACAACTCCGTGGCACCTTTT
* *
2306307 TCTTTCCAAAGTCCACGACTCCGTGGCACCTTTT
1 TCTTTTCAAAGTCCACAACTCCGTGGCACCTTTT
*
2306341 TCTTTTCAAAGTCCACAACTCTGTGGCA-C----
1 TCTTTTCAAAGTCCACAACTCCGTGGCACCTTTT
* * *
2306370 TCTTTTTAAAGCCCACAACTCTGTGGCACC----
1 TCTTTTCAAAGTCCACAACTCCGTGGCACCTTTT
*
2306400 -CTTTT--AAGCCCACAACTCCGTGGCACTCTTTT
1 TCTTTTCAAAGTCCACAACTCCGTGGCAC-CTTTT
* *
2306432 TC-CTTCTAAGTCCACAACTCCGTGGCACC----
1 TCTTTTCAAAGTCCACAACTCCGTGGCACCTTTT
*
2306461 -CTTTT--AAGCCCACAACTCCGTGGCACTCTTTT
1 TCTTTTCAAAGTCCACAACTCCGTGGCAC-CTTTT
* *
2306493 TC-CTTCTAAGTCCACAACTCCGTGGCACC----
1 TCTTTTCAAAGTCCACAACTCCGTGGCACCTTTT
*
2306522 -CTTTT--AAGCCCACAACTCCGTGGCACTCTTTT
1 TCTTTTCAAAGTCCACAACTCCGTGGCAC-CTTTT
* * * * *
2306554 TC-CTTCTAATTCCACAACTTCGTGGTACCTTTT
1 TCTTTTCAAAGTCCACAACTCCGTGGCACCTTTT
*
2306587 TCTTTTTAAAGTCCACAACTCCGTGGCACTCTTTT
1 TCTTTTCAAAGTCCACAACTCCGTGGCAC-CTTTT
* *
2306622 TC-CTTCTAAGTCCACAACTCCGTGGCACTCTTTT
1 TCTTTTCAAAGTCCACAACTCCGTGGCAC-CTTTT
* *
2306656 CCCCTTTT-AAAGTCCACAACCCCGTGGCACCTTGTT
1 --TCTTTTCAAAGTCCACAACTCCGTGGCACCTT-TT
* *
2306692 CCTTTT--AAGTCCACGACTCCGTGGCACC---T
1 TCTTTTCAAAGTCCACAACTCCGTGGCACCTTTT
*
2306721 TCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTT
1 TCTTTTCAAAGTCCACAACTCCGTGGCAC-CTTTT
* *
2306756 TCCTTTTTAAAGTCCACAACTTCGTGGCACCTTGTT
1 T-CTTTTCAAAGTCCACAACTCCGTGGCACCTT-TT
* *
2306792 TCTTTT--AAGTCCACAACTTCGTGGCATCTTT
1 TCTTTTCAAAGTCCACAACTCCGTGGCACCTTT
2306823 CACCCTTTTT
Statistics
Matches: 602, Mismatches: 73, Indels: 120
0.76 0.09 0.15
Matches are distributed among these distances:
27 81 0.13
28 6 0.01
29 72 0.12
30 23 0.04
31 47 0.08
32 10 0.02
33 88 0.15
34 202 0.34
35 20 0.03
36 51 0.08
37 2 0.00
ACGTcount: A:0.20, C:0.33, G:0.13, T:0.33
Consensus pattern (34 bp):
TCTTTTCAAAGTCCACAACTCCGTGGCACCTTTT
Found at i:2306407 original size:252 final size:252
Alignment explanation
Indices: 2305962--2306465 Score: 963
Period size: 252 Copynumber: 2.0 Consensus size: 252
2305952 CTTCGAATAC
2305962 CTTTTTAAAATCCACGACTCAGTGGCAATTTCTTCTCAAAGTCCACGACTCAGTGGCATCTTTCC
1 CTTTTTAAAATCCACGACTCAGTGGCAATTTCTTCTCAAAGTCCACGACTCAGTGGCATCTTTCC
*
2306027 TTCTTAAAGTCCATAATTTAGTGGCATCTCTTTCCAAAGTCCACGACTCCGTGGCACCTTTTTCT
66 TTCTTAAAGTCCACAATTTAGTGGCATCTCTTTCCAAAGTCCACGACTCCGTGGCACCTTTTTCT
2306092 TTTCAAAGTCCACAACTCTGTGGCACTCTTTTTAAAGCCCACAACTCCGTGGCACCCTTTTAAGC
131 TTTCAAAGTCCACAACTCTGTGGCACTCTTTTTAAAGCCCACAACTCCGTGGCACCCTTTTAAGC
* *
2306157 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTTCGTGGCACCTTTTT
196 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCCTTTT
*
2306214 CTTTTTAAAGTCCACGACTCAGTGGCAATTTCTTCTCAAAGTCCACGACTCAGTGGCATCTTTCC
1 CTTTTTAAAATCCACGACTCAGTGGCAATTTCTTCTCAAAGTCCACGACTCAGTGGCATCTTTCC
2306279 TTCTTAAAGTCCACAATTTAGTGGCATCTCTTTCCAAAGTCCACGACTCCGTGGCACCTTTTTCT
66 TTCTTAAAGTCCACAATTTAGTGGCATCTCTTTCCAAAGTCCACGACTCCGTGGCACCTTTTTCT
*
2306344 TTTCAAAGTCCACAACTCTGTGGCACTCTTTTTAAAGCCCACAACTCTGTGGCACCCTTTTAAGC
131 TTTCAAAGTCCACAACTCTGTGGCACTCTTTTTAAAGCCCACAACTCCGTGGCACCCTTTTAAGC
2306409 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCCTTTT
196 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCCTTTT
2306466 AAGCCCACAA
Statistics
Matches: 247, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
252 247 1.00
ACGTcount: A:0.22, C:0.31, G:0.14, T:0.33
Consensus pattern (252 bp):
CTTTTTAAAATCCACGACTCAGTGGCAATTTCTTCTCAAAGTCCACGACTCAGTGGCATCTTTCC
TTCTTAAAGTCCACAATTTAGTGGCATCTCTTTCCAAAGTCCACGACTCCGTGGCACCTTTTTCT
TTTCAAAGTCCACAACTCTGTGGCACTCTTTTTAAAGCCCACAACTCCGTGGCACCCTTTTAAGC
CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCCTTTT
Found at i:2306765 original size:100 final size:97
Alignment explanation
Indices: 2306067--2306817 Score: 577
Period size: 95 Copynumber: 7.9 Consensus size: 97
2306057 TTTCCAAAGT
* * * *
2306067 CCACGACTCCGTGGCAC-CTTTTT-CTTTTCAAAGTCCACAACTCTGTGGCA-C-TCTT--TTTA
1 CCACAACTCCGTGGCACTCTTTTTCCTTTT--AAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
*
2306126 AAGCCCACAACTCCGTGGCACC--CTTTT-AAGC
64 AAGTCCACAACTCCGTGGCACCTTCTTTTCAAGC
* * * *
2306157 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTTCGTGGCACCTTTTTCTTTTTAA
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTT-A
* * ** * *
2306222 AGTCCACGACTCAGTGGCAATTTCTTCTCAAAGT
65 AGTCCACAACTCCGTGGCACCTTCTTTTC-AAGC
* * * ** *
2306256 CCACGACTCAGTGGCA-TC--TTTCCTTCTTAAAGTCCACAATTTAGTGGCATCTCT-TTCC---
1 CCACAACTCCGTGGCACTCTTTTTCCTT-TT-AAGTCCACAACTCCGTGGCACCT-TGTTCCTTT
* * *
2306314 AAAGTCCACGACTCCGTGGCACCTTTTTCTTTTCAAAGT
63 TAAGTCCACAACTCCGTGGCACC---TTCTTTTC-AAGC
* * * *
2306353 CCACAACTCTGTGGCACTC---TT--TTTAAAGCCCACAACTCTGTGGCA-C-----CCTTTTAA
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAA
* * *
2306407 GCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGT
66 GTCCACAACTCCGTGGCAC-CTTCTT--TTC-AAGC
* * *
2306443 CCACAACTCCGTGGCA--C-----CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTA
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCAC-CTTGTTCCTTTTA
2306501 AGTCCACAACTCCGTGGCACC--CTTTT-AAGC
65 AGTCCACAACTCCGTGGCACCTTCTTTTCAAGC
* * * * * *
2306531 CCACAACTCCGTGGCACTCTTTTTCCTTCTAATTCCACAACTTCGTGGTACCTTTTTCTTTTTAA
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTT-A
* *
2306596 AGTCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGT
65 AGTCCACAACTCCGTGGCAC-CTTCTT--TTC-AAGC
* *
2306633 CCACAACTCCGTGGCACTCTTTTCCCCTTTTAAAGTCCACAACCCCGTGGCACCTTGTTCCTTTT
1 CCACAACTCCGTGGCACTCTTTT-TCCTTTT-AAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
*
2306698 AAGTCCACGACTCCGTGGCACCTTCTTTTCAAAGC
64 AAGTCCACAACTCCGTGGCACCTTCTTTTC-AAGC
* *
2306733 CCACAACTCCGTGGCACTCTTTTTCCTTTTTAAAGTCCACAACTTCGTGGCACCTTGTTTCTTTT
1 CCACAACTCCGTGGCACTCTTTTTCC-TTTT-AAGTCCACAACTCCGTGGCACCTTGTTCCTTTT
*
2306798 AAGTCCACAACTTCGTGGCA
64 AAGTCCACAACTCCGTGGCA
2306818 TCTTTCACCC
Statistics
Matches: 539, Mismatches: 71, Indels: 92
0.77 0.10 0.13
Matches are distributed among these distances:
87 2 0.00
88 46 0.09
90 79 0.15
91 8 0.01
92 10 0.02
93 16 0.03
94 34 0.06
95 87 0.16
96 8 0.01
97 33 0.06
98 29 0.05
99 20 0.04
100 84 0.16
102 31 0.06
103 25 0.05
104 27 0.05
ACGTcount: A:0.20, C:0.33, G:0.13, T:0.33
Consensus pattern (97 bp):
CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAA
GTCCACAACTCCGTGGCACCTTCTTTTCAAGC
Found at i:2306842 original size:69 final size:67
Alignment explanation
Indices: 2306063--2306822 Score: 680
Period size: 61 Copynumber: 11.9 Consensus size: 67
2306053 TCTCTTTCCA
* *
2306063 AAGTCCACGACTCCGTGGCACCTTTTTCTTTTCAAAGTCCACAACTCTGTGGCACTC---TT--T
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTT-AAAGTCCACAACTCCGTGGCACTCTTTTTCCT
*
2306123 TTA
65 TTT
* *
2306126 AAGCCCACAACTCCGTGGCACC-----CTTTT-AAGCCCACAACTCCGTGGCACTCTTTTTCCTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTTAAAGTCCACAACTCCGTGGCACTCTTTTTCCTT
*
2306185 CT
66 TT
* * * * *
2306187 AAGTCCACAACTTCGTGGCACCTTTTTCTTTTTAAAGTCCACGACTCAGTGGCAAT-TTCTT-C-
1 AAGTCCACAACTCCGTGGCACCTTTTTC-TTTTAAAGTCCACAACTCCGTGGCACTCTTTTTCCT
**
2306249 TCA
65 TTT
* * * * * ** *
2306252 AAGTCCACGACTCAGTGGCATC-TTTCCTTCTTAAAGTCCACAATTTAGTGGCA-TCTCTTTCC-
1 AAGTCCACAACTCCGTGGCACCTTTTTCTT-TTAAAGTCCACAACTCCGTGGCACTCTTTTTCCT
*
2306314 --A
65 TTT
* *
2306315 AAGTCCACGACTCCGTGGCACCTTTTTCTTTTCAAAGTCCACAACTCTGTGGCACTC---TT--T
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTT-AAAGTCCACAACTCCGTGGCACTCTTTTTCCT
*
2306375 TTA
65 TTT
* * *
2306378 AAGCCCACAACTCTGTGGCACC-----CTTTT-AAGCCCACAACTCCGTGGCACTCTTTTTCCTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTTAAAGTCCACAACTCCGTGGCACTCTTTTTCCTT
*
2306437 CT
66 TT
*
2306439 AAGTCCACAACTCCGTGGCACC-----CTTTT-AAGCCCACAACTCCGTGGCACTCTTTTTCCTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTTAAAGTCCACAACTCCGTGGCACTCTTTTTCCTT
*
2306498 CT
66 TT
*
2306500 AAGTCCACAACTCCGTGGCACC-----CTTTT-AAGCCCACAACTCCGTGGCACTCTTTTTCCTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTTAAAGTCCACAACTCCGTGGCACTCTTTTTCCTT
*
2306559 CT
66 TT
* * *
2306561 AATTCCACAACTTCGTGGTACCTTTTTCTTTTTAAAGTCCACAACTCCGTGGCACTCTTTTTCCT
1 AAGTCCACAACTCCGTGGCACCTTTTTC-TTTTAAAGTCCACAACTCCGTGGCACTCTTTTTCCT
*
2306626 TCT
65 TTT
* * *
2306629 AAGTCCACAACTCCGTGGCACTCTTTTCCCCTTTTAAAGTCCACAACCCCGTGGCAC-CTTGTTC
1 AAGTCCACAACTCCGTGGCAC-CTTTT--TCTTTTAAAGTCCACAACTCCGTGGCACTCTTTTTC
2306693 CTTTT
63 CTTTT
* *
2306698 AAGTCCACGACTCCGTGGCACC---TTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCT
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTT-AAAGTCCACAACTCCGTGGCACTCTTTTTCC-
2306760 TTTT
64 TTTT
* *
2306764 AAAGTCCACAACTTCGTGGCACCTTGTTTCTTTT-AAGTCCACAACTTCGTGGCA-TCTTT
1 -AAGTCCACAACTCCGTGGCACCTT-TTTCTTTTAAAGTCCACAACTCCGTGGCACTCTTT
2306823 CACCCTTTTT
Statistics
Matches: 594, Mismatches: 59, Indels: 83
0.81 0.08 0.11
Matches are distributed among these distances:
56 42 0.07
58 10 0.02
59 4 0.01
61 163 0.27
62 2 0.00
63 71 0.12
64 71 0.12
65 31 0.05
66 7 0.01
67 32 0.05
68 75 0.13
69 53 0.09
70 25 0.04
71 8 0.01
ACGTcount: A:0.20, C:0.33, G:0.13, T:0.33
Consensus pattern (67 bp):
AAGTCCACAACTCCGTGGCACCTTTTTCTTTTAAAGTCCACAACTCCGTGGCACTCTTTTTCCTT
TT
Found at i:2306861 original size:32 final size:32
Alignment explanation
Indices: 2306833--2307022 Score: 287
Period size: 32 Copynumber: 5.9 Consensus size: 32
2306823 CACCCTTTTT
2306833 AAAGCCCACACAAGTCGGTGGCAACCCTTCCC
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCCC
*
2306865 AAAGCCCACACAAGTCGGTGACAACCCTTCCC
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCCC
2306897 AAAGCCCACACAAGTCGGTGGCAACCC--CCTC
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCC-C
*
2306928 AAAGCCCACACAAGTCGGTGGCAACCC-TCTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCTTC-CC
* * *
2306960 AAAGCCCACACAAGTTGGTGGCAACCATTCTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCTTC-CC
2306993 AAAGCCCACACAAGTCGGTGGCAACCCTTC
1 AAAGCCCACACAAGTCGGTGGCAACCCTTC
2307023 TAAGCCCAAT
Statistics
Matches: 147, Mismatches: 7, Indels: 7
0.91 0.04 0.04
Matches are distributed among these distances:
30 2 0.01
31 28 0.19
32 83 0.56
33 34 0.23
ACGTcount: A:0.29, C:0.38, G:0.18, T:0.14
Consensus pattern (32 bp):
AAAGCCCACACAAGTCGGTGGCAACCCTTCCC
Found at i:2306942 original size:95 final size:96
Alignment explanation
Indices: 2306833--2307019 Score: 306
Period size: 95 Copynumber: 2.0 Consensus size: 96
2306823 CACCCTTTTT
*
2306833 AAAGCCCACACAAGTCGGTGGCAACCCT-TCCCAAAGCCCACACAAGTCGGTGACAACCCTTC-C
1 AAAGCCCACACAAGTCGGTGGCAACCCTCT-CCAAAGCCCACACAAGTCGGTGACAACCATTCTC
2306896 CAAAGCCCACACAAGTCGGTGGCAACCCCCTC
65 CAAAGCCCACACAAGTCGGTGGCAACCCCCTC
* * * *
2306928 AAAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCACACAAGTTGGTGGCAACCATTCTCT
1 AAAGCCCACACAAGTCGGTGGCAACCCTCTCCAAAGCCCACACAAGTCGGTGACAACCATTCTCC
2306993 AAAGCCCACACAAGTCGGTGGCAACCC
66 AAAGCCCACACAAGTCGGTGGCAACCC
2307020 TTCTAAGCCC
Statistics
Matches: 85, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
95 56 0.66
96 29 0.34
ACGTcount: A:0.30, C:0.38, G:0.19, T:0.13
Consensus pattern (96 bp):
AAAGCCCACACAAGTCGGTGGCAACCCTCTCCAAAGCCCACACAAGTCGGTGACAACCATTCTCC
AAAGCCCACACAAGTCGGTGGCAACCCCCTC
Found at i:2306964 original size:63 final size:62
Alignment explanation
Indices: 2306832--2307030 Score: 285
Period size: 63 Copynumber: 3.1 Consensus size: 62
2306822 TCACCCTTTT
*
2306832 TAAAGCCCACACAAGTCGGTGGCAACCCTTCC-CAAAGCCCACACAAGTCGGTGACAACCCTTCC
1 TAAAGCCCACACAAGTCGGTGGCAACCC--CCTCAAAGCCCACACAAGTCGGTGGCAACCCTT-C
*
2306896 CAAAGCCCACACAAGTCGGTGGCAACCCCCTCAAAGCCCACACAAGTCGGTGGCAACCCTCTC
1 TAAAGCCCACACAAGTCGGTGGCAACCCCCTCAAAGCCCACACAAGTCGGTGGCAACCCT-TC
* **
2306959 TAAAGCCCACACAAGTTGGTGGCAACCATTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTTC
1 TAAAGCCCACACAAGTCGGTGGCAACC-CCCTC-AAAGCCCACACAAGTCGGTGGCAACCCTTC
2307023 T-AAGCCCA
1 TAAAGCCCA
2307031 ATATAGCTAG
Statistics
Matches: 125, Mismatches: 6, Indels: 9
0.89 0.04 0.06
Matches are distributed among these distances:
62 2 0.02
63 61 0.49
64 34 0.27
65 28 0.22
ACGTcount: A:0.30, C:0.38, G:0.18, T:0.15
Consensus pattern (62 bp):
TAAAGCCCACACAAGTCGGTGGCAACCCCCTCAAAGCCCACACAAGTCGGTGGCAACCCTTC
Found at i:2307138 original size:43 final size:43
Alignment explanation
Indices: 2307072--2307537 Score: 365
Period size: 43 Copynumber: 10.0 Consensus size: 43
2307062 TCTTCATCTT
* *
2307072 TAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTC
* * *
2307115 CAAGCCCAATATCGTTGGCCTTGAATCAGCATATTGGCATCTTCATC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-C--C-TC
* * * *
2307162 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
1 --TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTC
*
2307207 TAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-C--C-TC
* * * *
2307254 TTTAAGTCCAATGTAGCTGGCCCTGAATCAGCACATTGGCACCTC
1 --TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTC
* * *
2307299 TAAGCCCAATATCGTTGGCCTTAAATCAGCATATTGGCACCCTCATC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA--C-C-TC
* * * * *
2307346 TTTTAAGCCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTT
1 ---TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTC
2307392 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-C-----C-TC
* *
2307442 TTTAAGTCCAATATCGCTGGCCTTGAATTAGCATATTGGCGCCTTTGTCATC
1 --TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC-AC-----C-TC
* *
2307494 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCT
1 --TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT
2307538 TCATCTTTAA
Statistics
Matches: 350, Mismatches: 44, Indels: 56
0.78 0.10 0.12
Matches are distributed among these distances:
43 136 0.39
44 3 0.01
45 5 0.01
46 7 0.02
47 6 0.02
48 3 0.01
49 68 0.19
50 37 0.11
51 1 0.00
52 84 0.24
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (43 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTC
Found at i:2307181 original size:92 final size:92
Alignment explanation
Indices: 2307021--2307547 Score: 685
Period size: 92 Copynumber: 5.6 Consensus size: 92
2307011 TGGCAACCCT
* *
2307021 TCTAAGCCCAATATAGCTAGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
1 TCTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
*
2307086 CTGGCCTTGAATCAGCATATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
* *
2307113 TCCAAGCCCAATATCGTTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
1 TCTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
2307178 CTGGCCTTGAATCAGCACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
* * *
2307205 TTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
1 TCTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
*
2307270 CTGGCCCTGAATCAGCACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
* * * * * *
2307297 TCTAAGCCCAATATCGTTGGCCTTAAATCAGCATATTGGCACCCTCATCTTTTAAGCCCAATGTC
1 TCTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATC-TTTAAGTCCAATGTA
*
2307362 GTTGGCCTTGAATCAGCACATTGGCACC
65 GCTGGCCTTGAATCAGCACATTGGCACC
* * * *
2307390 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTTAAGTCCAATA
1 TCTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA--TCT-TCATCTTTAAGTCCAATG
* * * *
2307455 TCGCTGGCCTTGAATTAGCATATTGGCGCCTTTGTC
63 TAGCTGGCCTTGAATCAGCACATTGGC-AC-----C
* * * *
2307491 ATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAA
1 -TC--TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAA
2307548 CATTCCTAAG
Statistics
Matches: 382, Mismatches: 40, Indels: 17
0.87 0.09 0.04
Matches are distributed among these distances:
92 215 0.56
93 76 0.20
95 35 0.09
96 6 0.02
101 11 0.03
102 2 0.01
104 37 0.10
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (92 bp):
TCTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
CTGGCCTTGAATCAGCACATTGGCACC
Found at i:2307467 original size:52 final size:52
Alignment explanation
Indices: 2307389--2307538 Score: 264
Period size: 52 Copynumber: 2.9 Consensus size: 52
2307379 ACATTGGCAC
2307389 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCAT
* *
2307441 CTTTAAGTCCAATATCGCTGGCCTTGAATTAGCATATTGGCGCCTTTGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCAT
* *
2307493 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
2307539 CATCTTTAAC
Statistics
Matches: 92, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 92 1.00
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (52 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCAT
Found at i:2308427 original size:19 final size:19
Alignment explanation
Indices: 2308388--2308471 Score: 108
Period size: 19 Copynumber: 4.7 Consensus size: 19
2308378 TTTCAACAAT
2308388 TTGTATCGATACATAAAGTG
1 TTGTATCGATACAT-AAGTG
2308408 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
2308427 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
*
2308441 -TGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
2308459 TTGTATCGATACA
1 TTGTATCGATACA
2308472 ATATAAGCTA
Statistics
Matches: 58, Mismatches: 0, Indels: 13
0.82 0.00 0.18
Matches are distributed among these distances:
13 11 0.19
15 2 0.03
17 2 0.03
19 29 0.50
20 14 0.24
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:2308446 original size:13 final size:13
Alignment explanation
Indices: 2308428--2308452 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2308418 ACATAAGTGT
2308428 TGTATCGATACAA
1 TGTATCGATACAA
2308441 TGTATCGATACA
1 TGTATCGATACA
2308453 TAAGTTTTGT
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:2308450 original size:32 final size:32
Alignment explanation
Indices: 2308409--2308473 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
2308399 CATAAAGTGT
2308409 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
2308441 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
2308473 T
1 T
2308474 ATAAGCTACT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:2308532 original size:13 final size:13
Alignment explanation
Indices: 2308514--2308538 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2308504 ATTACTCAAA
2308514 TGTATCGATACAT
1 TGTATCGATACAT
2308527 TGTATCGATACA
1 TGTATCGATACA
2308539 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:2308589 original size:32 final size:32
Alignment explanation
Indices: 2308547--2308622 Score: 143
Period size: 32 Copynumber: 2.4 Consensus size: 32
2308537 CACTGATCTT
*
2308547 TGTATTGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGA
2308579 TGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGA
2308611 TGTATCGATACA
1 TGTATCGATACA
2308623 CTATGAAATG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.28
Consensus pattern (32 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:2342539 original size:164 final size:165
Alignment explanation
Indices: 2342324--2342790 Score: 606
Period size: 164 Copynumber: 2.8 Consensus size: 165
2342314 ATTACAGGAT
* * * ** * *
2342324 TTTTCTACTCCGTGAATTTTTTTGGGAGGATTTTTCTTAATTTTTAATTTTTAAAATTCATAAAA
1 TTTTCTACTCCGTAAATTTTTTCGAGAGGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAA
* * *
2342389 TATCATTATTTATTTTATATTAATTCAGTTTTCAAAACTTCAATCATTTTCATTCATTTTTTATT
66 CATCATTATTTATTTTATATTAATTCAGTTTTCAAAAATTCATTCATTTTCATTCATTTTTTATT
*
2342454 TTTTTCCTTGAAACTTT-TTTTT-TGAAATACGGTG
131 TTTTTCCTTGAAACTTTCTTTTTCT-AAATACGGTA
* *
2342488 TTTTCTACTCCGTAAATTTTTTCGAGAGAATTTTTATTGGTTTTCAATTTTTAAAATTCATCAAA
1 TTTTCTACTCCGTAAATTTTTTCGAGAGGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAA
* *
2342553 CATCATTATTTATTTTATATAAATTTC-GTTTTCAAAAATTCATTCATTTTCA-TGAGTTTTTT-
66 CATCATTATTTATTTTATATTAA-TTCAGTTTTCAAAAATTCATTCATTTTCATTCA-TTTTTTA
2342615 TATTTTTTCCTTGAAACTTTCCTTTTTCCTAAATACGGTA
129 T-TTTTTTCCTTGAAACTTT-CTTTTT-CTAAATACGGTA
* * * *
2342655 TTTTCTACTGCATAAATTTTTTCGAG-GTGATTTTTCTAGGTTTTCAATTTTTAGAATTCATCAA
1 TTTTCTACTCCGTAAATTTTTTCGAGAG-GATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAA
* * *
2342719 ACATCATCATTTGA-TTCATATTAATTCAGTTTTCAAAAATTCATTCATTTTCATTCATTTTTGA
65 ACATCATTATTT-ATTTTATATTAATTCAGTTTTCAAAAATTCATTCATTTTCATTCATTTTT-T
2342783 ATTTTTTT
128 ATTTTTTT
2342791 TTGAAATCCC
Statistics
Matches: 264, Mismatches: 26, Indels: 22
0.85 0.08 0.07
Matches are distributed among these distances:
163 3 0.01
164 124 0.47
165 3 0.01
166 9 0.03
167 114 0.43
168 10 0.04
169 1 0.00
ACGTcount: A:0.27, C:0.13, G:0.08, T:0.52
Consensus pattern (165 bp):
TTTTCTACTCCGTAAATTTTTTCGAGAGGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAA
CATCATTATTTATTTTATATTAATTCAGTTTTCAAAAATTCATTCATTTTCATTCATTTTTTATT
TTTTTCCTTGAAACTTTCTTTTTCTAAATACGGTA
Found at i:2344656 original size:159 final size:162
Alignment explanation
Indices: 2344400--2344697 Score: 453
Period size: 160 Copynumber: 1.9 Consensus size: 162
2344390 GGCATAATTG
*
2344400 AATTTTAATCATTATTTTTAATCTTTTATATTCCTAAGGGCATCCGTAGGGGTATAAAAGATTTT
1 AATTTTAATCATTATTTCTAATCTTTTATATTCCTAAGGGCATCCGTAGGGGTATAAAAGATTTT
*
2344465 TAAAAACTTTTTCTATCTTTTCGGACTTCCATTAAGGTACAAAATGATATTTTC-AAAAATAAAT
66 TAAAAACTTTTTCTATCTTTTCGGACTTCCATTAAGGTACAAAATGATATTTTCGAAAAAGAAAT
2344529 AAAATTAAATTAACACTCTCATAATCGAGATA
131 AAAATTAAATTAACACTCTCATAATCGAGATA
* * *
2344561 AATTTTAATCATT-TTTCTAATCTTTTATATTCCTATGGGTATCCTTAGGGGTATAAAAGA-TTT
1 AATTTTAATCATTATTTCTAATCTTTTATATTCCTAAGGGCATCCGTAGGGGTATAAAAGATTTT
* * * * *
2344624 TAAAAAC-TTTTCATATCTTTTC-GAGTTTCCATTAAGGTTCGAAATGATATTTTCGAGAAAGGA
66 TAAAAACTTTTTC-TATCTTTTCGGA-CTTCCATTAAGGTACAAAATGATATTTTCGAAAAAGAA
2344687 ATAAAATTAAA
129 ATAAAATTAAA
2344698 CATAACAATA
Statistics
Matches: 124, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
158 7 0.06
159 45 0.36
160 59 0.48
161 13 0.10
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.40
Consensus pattern (162 bp):
AATTTTAATCATTATTTCTAATCTTTTATATTCCTAAGGGCATCCGTAGGGGTATAAAAGATTTT
TAAAAACTTTTTCTATCTTTTCGGACTTCCATTAAGGTACAAAATGATATTTTCGAAAAAGAAAT
AAAATTAAATTAACACTCTCATAATCGAGATA
Found at i:2345688 original size:155 final size:154
Alignment explanation
Indices: 2345333--2346079 Score: 651
Period size: 156 Copynumber: 4.8 Consensus size: 154
2345323 CACCGAATCT
* * *
2345333 GCTTTTATGCCGAAGGTGGGCATTTAAGATAGGTTCATCGCATTTCTAGTCTTTTTAATTCCTTT
1 GCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCATTTCTAGTCTTTTTAAGTCCTTT
* * * * * * * *
2345398 CGGGTTGCCGGGGTACTTTTACGTTGAAGGTATAC-CTATAGGGGCATTTTCATACTTTCTTAGA
66 AGGGGTGCCAGGATACTTTTACGTCGAAGGTAT-CTC-CTAGGGGCATTTTCATAATTTTTTAGA
** ** * *
2345462 ACTGAGTCCTAGGTTGTCATCGGGTCT
129 ACCAAGTCCTAGGTCATCAT-AGGTCC
* * * **
2345489 GATTTTATGCCGAAGGTAGGCATTCAGGATAGGTTCATTGCATTTCTAGTCTTTTTAAGTCCTTT
1 GCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCATTTCTAGTCTTTTTAAGTCCTTT
** * * * * * *
2345554 AGGGGTATCGGGATACTTTCACGTCAAAGGTATCCCCTAGGGGCATTTTCGTAATTTTTTCGAAC
66 AGGGGTGCCAGGATACTTTTACGTCGAAGGTATCTCCTAGGGGCATTTTCATAATTTTTTAGAAC
* **
2345619 CAATTCCTAGGTTGTCACTAGGTCC
131 CAAGTCCTAGGTCATCA-TAGGTCC
* * * * ** * **
2345644 GCTTTTATGCCAAAGGTGGGTAGTTAGGGTAGGTTTGTCCCATTTCAAACCTTTTTAAGTGCC-T
1 GCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCATTTCTAGTCTTTTTAAGT-CCTT
* * * * *
2345708 TAGGGGTGCCAAGATATTTTTACGTCGAAGGTATCTTCTAGTGGCATTTTTATAATTTTTCTAGA
65 TAGGGGTGCCAGGATACTTTTACGTCGAAGGTATCTCCTAGGGGCATTTTCATAATTTTT-TAGA
* * * *
2345773 ATCGAGTCCTATGTCATTGC-CAGGTCC
129 ACCAAGTCCTAGGTCA-T-CATAGGTCC
* ** * *
2345800 ACTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCTTTTTATGAGTCCTTTTAAGTCCTT
1 GCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCATTTCT-AGTCTTTTTAAGTCCTT
* * * * * * ** *
2345865 CAGGGTTGCCATGATACTTTTACATCGAAGGTATACTCGTAGGGACATTTTTGTAA-GTTTTAGA
65 TAGGGGTGCCAGGATACTTTTACGTCGAAGGTAT-CTCCTAGGGGCATTTTCATAATTTTTTAGA
* * *
2345929 ACCAATTCCTAGGTCATCATCGGACC
129 ACCAAGTCCTAGGTCATCATAGGTCC
** *
2345955 TGCTTTTATGCTAAAGGTGGGCATTTAAGATAGGTTCATCCCATTTCTA-TCTTTTTTTAAGTCC
1 -GCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCATTTCTAGTC--TTTTTAAGTCC
* ** * *
2346019 TTTAAGGGTATCAGG-TACTTTTACGTCGAAGGTATCTCCTAGGGACGTTTTCATAATTTTT
63 TTTAGGGGTGCCAGGATACTTTTACGTCGAAGGTATCTCCTAGGGGCATTTTCATAATTTTT
2346080 CTTGAACTTA
Statistics
Matches: 467, Mismatches: 110, Indels: 29
0.77 0.18 0.05
Matches are distributed among these distances:
154 20 0.04
155 166 0.36
156 220 0.47
157 44 0.09
158 17 0.04
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (154 bp):
GCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCCATTTCTAGTCTTTTTAAGTCCTTT
AGGGGTGCCAGGATACTTTTACGTCGAAGGTATCTCCTAGGGGCATTTTCATAATTTTTTAGAAC
CAAGTCCTAGGTCATCATAGGTCC
Found at i:2347136 original size:19 final size:21
Alignment explanation
Indices: 2347093--2347144 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
2347083 TTCAATGATT
*
2347093 TGTATCGATACATTCAGTAAA
1 TGTATCGATACATTAAGTAAA
2347114 TGTATCGATACA-TAAGT-AA
1 TGTATCGATACATTAAGTAAA
2347133 TGTATCGATACA
1 TGTATCGATACA
2347145 GTGTATCGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 14 0.47
20 4 0.13
21 12 0.40
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (21 bp):
TGTATCGATACATTAAGTAAA
Found at i:2347215 original size:13 final size:13
Alignment explanation
Indices: 2347197--2347222 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2347187 ATTTGTAGAA
2347197 TGTATCGATACAT
1 TGTATCGATACAT
2347210 TGTATCGATACAT
1 TGTATCGATACAT
2347223 CGATCTTTGT
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:2349641 original size:51 final size:51
Alignment explanation
Indices: 2349585--2349876 Score: 219
Period size: 51 Copynumber: 5.6 Consensus size: 51
2349575 TTAAGTTTCT
* *
2349585 CAATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACAC
* * * * * *
2349636 TAATTTTCCACAATCGGGGATACTCCAACTCCGATTTTATTTTTGAGACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACAC
* * * * ***** * *
2349687 CAA-TTTTCATAATCGGGGGTACTCCAACCCTGTTATTTCATCGGGGATACTC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCG--ATTTTATTTCTAAAACAC
** *** * * *
2349739 CAATCCCGTT-ATTTTCGAGGTGATACTCCAACCTCGATTTTATTTCTAAAATAT
1 CAAT--TTTTCACAATCG-GG-GATACTCCAACCCCGATTTTATTTCTAAAACAC
* * * * *
2349793 TAATTTTTCACAATCGGAGATATTCCAACTCCGATTTTATTTCCAAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACAC
*
2349844 CAATTTCTCACAATCGGGGATACTCCAACCCCG
1 CAATTTTTCACAATCGGGGATACTCCAACCCCG
2349877 CTATTTTCGC
Statistics
Matches: 177, Mismatches: 56, Indels: 16
0.71 0.22 0.06
Matches are distributed among these distances:
50 24 0.14
51 100 0.56
52 17 0.10
53 4 0.02
54 16 0.09
55 4 0.02
56 12 0.07
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (51 bp):
CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACAC
Found at i:2349737 original size:28 final size:26
Alignment explanation
Indices: 2349698--2349771 Score: 87
Period size: 28 Copynumber: 2.7 Consensus size: 26
2349688 AATTTTCATA
*
2349698 ATCGGGGGTACTCCAACCCTGTTATTT
1 ATCGGGGATACTCCAACCC-GTTATTT
2349725 CATCGGGGATACTCCAATCCCGTTATTT
1 -ATCGGGGATACTCCAA-CCCGTTATTT
2349753 -TCGAGGTGATACTCCAACC
1 ATCG-GG-GATACTCCAACC
2349772 TCGATTTTAT
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
26 3 0.07
27 4 0.10
28 32 0.76
29 3 0.07
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (26 bp):
ATCGGGGATACTCCAACCCGTTATTT
Found at i:2355372 original size:90 final size:91
Alignment explanation
Indices: 2355219--2355396 Score: 261
Period size: 90 Copynumber: 2.0 Consensus size: 91
2355209 CTTTCCATGA
* *
2355219 GGCAAGGTGCAGCCCACACACTCCCAATCGTATCCCCTTTTTCTCAACCACTAGATGGTATTGAT
1 GGCAAGGTGCAGCCCACACACTCCCAATCATATCCCCTTTATCTCAACCACTAGATGGTATTGAT
* * *
2355284 GCATCATAAAGCCTGATTTCCTTTAG
66 GCATCACAAAGCCTAATATCCTTTAG
* * *
2355310 GGCAAGGTGCAGCCCACATATTCCCAATTATAT-CCCTTTCATC-CAACCACTAGATGGTATTGA
1 GGCAAGGTGCAGCCCACACACTCCCAATCATATCCCCTTT-ATCTCAACCACTAGATGGTATTGA
2355373 TGCATCACAAAGCCTAATATCCTT
65 TGCATCACAAAGCCTAATATCCTT
2355397 GGGGAAAGGA
Statistics
Matches: 78, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
90 47 0.60
91 31 0.40
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (91 bp):
GGCAAGGTGCAGCCCACACACTCCCAATCATATCCCCTTTATCTCAACCACTAGATGGTATTGAT
GCATCACAAAGCCTAATATCCTTTAG
Found at i:2355737 original size:36 final size:35
Alignment explanation
Indices: 2355685--2355761 Score: 100
Period size: 36 Copynumber: 2.2 Consensus size: 35
2355675 CCACCACTGT
* *
2355685 TTGATTATATCTGGTCAAACTCTTTTCATCCCTCGG
1 TTGACTATATCCGGTCAAACT-TTTTCATCCCTCGG
* * *
2355721 TTGACTATATCCGGTCAAACTTTTTCTTCTCTCGT
1 TTGACTATATCCGGTCAAACTTTTTCATCCCTCGG
2355756 TTGACT
1 TTGACT
2355762 GTATTGGTGT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
35 17 0.47
36 19 0.53
ACGTcount: A:0.18, C:0.25, G:0.13, T:0.44
Consensus pattern (35 bp):
TTGACTATATCCGGTCAAACTTTTTCATCCCTCGG
Found at i:2355760 original size:35 final size:36
Alignment explanation
Indices: 2355652--2355761 Score: 109
Period size: 35 Copynumber: 3.1 Consensus size: 36
2355642 ATCATCATTC
* * **
2355652 GACTGTATCTGGTCAAACTCTTCCCA-CCACT-GTTT
1 GACTATATCCGGTCAAACTCTTTTCATCC-CTCGTTT
* * *
2355687 GATTATATCTGGTCAAACTCTTTTCATCCCTCGGTT
1 GACTATATCCGGTCAAACTCTTTTCATCCCTCGTTT
* *
2355723 GACTATATCCGGTCAAACT-TTTTCTTCTCTCGTTT
1 GACTATATCCGGTCAAACTCTTTTCATCCCTCGTTT
2355758 GACT
1 GACT
2355762 GTATTGGTGT
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
35 41 0.65
36 22 0.35
ACGTcount: A:0.19, C:0.27, G:0.14, T:0.40
Consensus pattern (36 bp):
GACTATATCCGGTCAAACTCTTTTCATCCCTCGTTT
Found at i:2356085 original size:43 final size:43
Alignment explanation
Indices: 2355994--2356697 Score: 554
Period size: 43 Copynumber: 16.3 Consensus size: 43
2355984 GATACTTTAA
* * *
2355994 TCTTAAGTCTACCTGTCGGCTATGA-CCTGGAGACTT-TTGCAC
1 TCTTAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTCTT-CAC
* * *
2356036 -CTTTAAGTCTGTCTGTCGGTTTTAACCCTAGAGACTTCTTCAC
1 TC-TTAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTCTTCAC
* * *
2356079 TCTTAAGTCTGCCTGTCGGCTTTGA-CCTGTGAGGCTTCCTCAC
1 TCTTAAGTCTGCCTGTCGGCTTTGACCCT-AGAGACTTCTTCAC
* * * * *
2356122 TTTTAAGTCTGCTTGTCAGCTTTGACCCTGGAGACTTCCTTTA-
1 TCTTAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTT-CTTCAC
* * * *
2356165 TCCTTAAGTTTGTCTGTCGGCTTTGACCTTGGAGACTTTCTT-AC
1 T-CTTAAGTCTGCCTGTCGGCTTTGACCCTAGAGAC-TTCTTCAC
* * * *
2356209 -CTTTAAATCTGCCTGTCGGCTTTGACCTTGGAGACTTTCTTTAC
1 TC-TTAAGTCTGCCTGTCGGCTTTGACCCTAGAGAC-TTCTTCAC
* * * *
2356253 CCTTATGTCTGCCTATCGTCTTTGACCCTAGAGACTTCATT-A-
1 TCTTAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTC-TTCAC
* * * * * *
2356295 TCCTTAAGTCTACCTGTCAGCTTTGACCTTGGAGACTTTTGTTA-
1 T-CTTAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTCT-TCAC
* * * *
2356339 TCCTTAAATCTGCCTGTCAGCTTTGACCTTGGAGACTTCCTT-AC
1 T-CTTAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTT-CTTCAC
* * * * * *
2356383 CCTTAAGTCTGCCTATCGACTTTGACCTTGGAGACTTTCTTTA-
1 TCTTAAGTCTGCCTGTCGGCTTTGACCCTAGAGAC-TTCTTCAC
* * * * * *
2356426 TCTTTAAGTCTGCCTATTGACTTTGACTCTAGAGACTTCCTTTAT
1 TC-TTAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTT-CTTCAC
* *
2356471 TCTTAAGTCTGCTTGTCAGCTTTGACCCTAGAGACTTCTTCAC
1 TCTTAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTCTTCAC
* * * *
2356514 CCTTAAGTCAGCCTGTAGGCTTTGACCCTAGAGACTTATTTC-C
1 TCTTAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTT-CTTCAC
* * *
2356557 CCTTAAGTTTGCCTGTCGGCTTTGACCCTAGAGACTTCTTCGC
1 TCTTAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTCTTCAC
* * *
2356600 TCTAAAGTTTGCCTGCCGGCTTTGACCCTAGAGACTTCTTC-C
1 TCTTAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTCTTCAC
* * * * *
2356642 CCTTTAAGTCTACCTGTCGGCTTTGACCCTAGAGATTTCCTCGC
1 TC-TTAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTCTTCAC
*
2356686 CCTTAAGTCTGC
1 TCTTAAGTCTGC
2356698 ATATCCGCTC
Statistics
Matches: 549, Mismatches: 85, Indels: 55
0.80 0.12 0.08
Matches are distributed among these distances:
41 1 0.00
42 28 0.05
43 333 0.61
44 181 0.33
45 6 0.01
ACGTcount: A:0.17, C:0.27, G:0.18, T:0.38
Consensus pattern (43 bp):
TCTTAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTCTTCAC
Found at i:2356193 original size:87 final size:85
Alignment explanation
Indices: 2355995--2356676 Score: 561
Period size: 87 Copynumber: 7.9 Consensus size: 85
2355985 ATACTTTAAT
* * * * * *
2355995 CTTAAGTCTACCTGTCGGCTATGACCTGGAGACTT--TTGCACCTTTAAGTCTGTCTGTCGGTTT
1 CTTAAGTCTGCCTGTCGGCTTTGACCTTGAGACTTCCTT--ACCTTTAAGTCTGCCTGTCAGCTT
* * *
2356058 TAACCCTAGAGACTTCTTCA-C
64 TGACCCTGGAGACTTCTTTATC
* * * *
2356079 TCTTAAGTCTGCCTGTCGGCTTTGACCTGTGAGGCTTCCTCACTTTTAAGTCTGCTTGTCAGCTT
1 -CTTAAGTCTGCCTGTCGGCTTTGACCT-TGAGACTTCCTTACCTTTAAGTCTGCCTGTCAGCTT
2356144 TGACCCTGGAGACTTCCTTTATC
64 TGACCCTGGAGACTT-CTTTATC
* * * * *
2356167 CTTAAGTTTGTCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTTAAATCTGCCTGTCGGCTTT
1 CTTAAGTCTGCCTGTCGGCTTTGACCTT-GAGACTTCCTTACCTTTAAGTCTGCCTGTCAGCTTT
* *
2356232 GACCTTGGAGACTTTCTTTACC
65 GACCCTGGAGAC-TTCTTTATC
* * * * * *
2356254 CTTATGTCTGCCTATCGTCTTTGACCCTAGAGACTTCATTATCC-TTAAGTCTACCTGTCAGCTT
1 CTTAAGTCTGCCTGTCGGCTTTGA-CCTTGAGACTTCCTTA-CCTTTAAGTCTGCCTGTCAGCTT
* *
2356318 TGACCTTGGAGACTTTTGTTATC
64 TGACCCTGGAGACTTCT-TTATC
* * * *
2356341 CTTAAATCTGCCTGTCAGCTTTGACCTTGGAGACTTCCTTACCCTTAAGTCTGCCTATC-GACTT
1 CTTAAGTCTGCCTGTCGGCTTTGACCTT-GAGACTTCCTTACCTTTAAGTCTGCCTGTCAG-CTT
*
2356405 TGACCTTGGAGACTTTCTTTATC
64 TGACCCTGGAGAC-TTCTTTATC
* * * * * * *
2356428 TTTAAGTCTGCCTATTGACTTTGACTCTAGAGACTTCCTTTA-TTCTTAAGTCTGCTTGTCAGCT
1 CTTAAGTCTGCCTGTCGGCTTTGAC-CTTGAGACTTCC-TTACCT-TTAAGTCTGCCTGTCAGCT
* * *
2356492 TTGACCCTAGAGACTTCTTCACC
63 TTGACCCTGGAGACTTCTTTATC
* * * ** * * * *
2356515 CTTAAGTCAGCCTGTAGGCTTTGACCCTAGAGACTTATTTCCCCTTAAGTTTGCCTGTCGGCTTT
1 CTTAAGTCTGCCTGTCGGCTTTGA-CCTTGAGACTTCCTTACCTTTAAGTCTGCCTGTCAGCTTT
* **
2356580 GACCCTAGAGACTTC-TTCGC
65 GACCCTGGAGACTTCTTTATC
* * * * * * *
2356600 TCTAAAGTTTGCCTGCCGGCTTTGACCCTAGAGACTT-CTTCCCCTTTAAGTCTACCTGTCGGCT
1 -CTTAAGTCTGCCTGTCGGCTTTGA-CCTTGAGACTTCCTT-ACCTTTAAGTCTGCCTGTCAGCT
*
2356664 TTGACCCTAGAGA
63 TTGACCCTGGAGA
2356677 TTTCCTCGCC
Statistics
Matches: 488, Mismatches: 87, Indels: 43
0.79 0.14 0.07
Matches are distributed among these distances:
85 29 0.06
86 147 0.30
87 266 0.55
88 45 0.09
89 1 0.00
ACGTcount: A:0.17, C:0.27, G:0.18, T:0.38
Consensus pattern (85 bp):
CTTAAGTCTGCCTGTCGGCTTTGACCTTGAGACTTCCTTACCTTTAAGTCTGCCTGTCAGCTTTG
ACCCTGGAGACTTCTTTATC
Found at i:2356316 original size:174 final size:170
Alignment explanation
Indices: 2355995--2356676 Score: 659
Period size: 174 Copynumber: 3.9 Consensus size: 170
2355985 ATACTTTAAT
* * * * * *
2355995 CTTAAGTCTACCTGTCGGCTATGACC-TGGAGACTTTTGCACCTTTAAGTCTGTCTGTCGGTTTT
1 CTTAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTT-TACCCTTAAGTCTGCCTGTCGGCTTT
* * * * * *
2356059 AACCCTAGAGACTTCTTCACTCTTAAGTCTGCCTGTCGGCTTTGA-CCTGTGAGGCTTCCTCA-C
65 GACCCTAGAGACTTCTTCACCCTTAAGTCTGCCTATCGGCTTTGACCCT-AGAGACTT-CTTATC
* * * *
2356122 TTTTAAGTCTGCTTGTCAGCTTTGACCCTGGAGACTTCCTTTATC
128 -CTTAAGTCTACCTGTCAGCTTTGACCCTAGAGACTT-CTTTATC
* * * *
2356167 CTTAAGTTTGTCTGTCGGCTTTGACCTTGGAGACTTTCTTACCTTTAAATCTGCCTGTCGGCTTT
1 CTTAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTT-TTACCCTTAAGTCTGCCTGTCGGCTTT
* * * * *
2356232 GACCTTGGAGACTTTCTTTACCCTTATGTCTGCCTATCGTCTTTGACCCTAGAGACTTCATTATC
65 GACCCTAGAGAC-TTCTTCACCCTTAAGTCTGCCTATCGGCTTTGACCCTAGAGACTTC-TTATC
* * *
2356297 CTTAAGTCTACCTGTCAGCTTTGACCTTGGAGACTTTTGTTATC
128 CTTAAGTCTACCTGTCAGCTTTGACCCTAGAGACTTCT-TTATC
* * * * *
2356341 CTTAAATCTGCCTGTCAGCTTTGACCTTGGAGACTTCCTTACCCTTAAGTCTGCCTATCGACTTT
1 CTTAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTT-TTTACCCTTAAGTCTGCCTGTCGGCTTT
* * * * * * * *
2356406 GACCTTGGAGACTTTCTTTATCTTTAAGTCTGCCTATTGACTTTGACTCTAGAGACTTCCTTTAT
65 GACCCTAGAGAC-TTCTTCACCCTTAAGTCTGCCTATCGGCTTTGACCCTAGAGACTT-C-TTAT
* * * * *
2356471 TCTTAAGTCTGCTTGTCAGCTTTGACCCTAGAGACTTCTTCACC
127 CCTTAAGTCTACCTGTCAGCTTTGACCCTAGAGACTTCTTTATC
* * * * * *
2356515 CTTAAGTCAGCCTGTAGGCTTTGACCCTAGAGACTTATTTCCCCTTAAGTTTGCCTGTCGGCTTT
1 CTTAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTT-TTTACCCTTAAGTCTGCCTGTCGGCTTT
* * * * ** **
2356580 GACCCTAGAGACTTCTTCGCTCTAAAGTTTGCCTGCCGGCTTTGACCCTAGAGACTTCTTCCCCT
65 GACCCTAGAGACTTCTTCACCCTTAAGTCTGCCTATCGGCTTTGACCCTAGAGACTTCTTATCC-
*
2356645 TTAAGTCTACCTGTCGGCTTTGACCCTAGAGA
129 TTAAGTCTACCTGTCAGCTTTGACCCTAGAGA
2356677 TTTCCTCGCC
Statistics
Matches: 420, Mismatches: 80, Indels: 20
0.81 0.15 0.04
Matches are distributed among these distances:
171 3 0.01
172 52 0.12
173 76 0.18
174 247 0.59
175 42 0.10
ACGTcount: A:0.17, C:0.27, G:0.18, T:0.38
Consensus pattern (170 bp):
CTTAAGTCTGCCTGTCGGCTTTGACCTTGGAGACTTTTTACCCTTAAGTCTGCCTGTCGGCTTTG
ACCCTAGAGACTTCTTCACCCTTAAGTCTGCCTATCGGCTTTGACCCTAGAGACTTCTTATCCTT
AAGTCTACCTGTCAGCTTTGACCCTAGAGACTTCTTTATC
Found at i:2356720 original size:86 final size:85
Alignment explanation
Indices: 2356472--2356725 Score: 222
Period size: 86 Copynumber: 3.0 Consensus size: 85
2356462 TTCCTTTATT
* * * * * * * * ** **
2356472 CTTAAGTCTGCTTGTCAGCTTTGACCCTAGAGACTTCTTCACCCTTAAGTCAGCCTGTAGGCTTT
1 CTTAAGTCTACCTGTCGGCTTTGACCCTAGAGACTTCCTCGCCCTAAAGTCTGCATGCCGGCTCA
* *
2356537 GACCCTAGAGACTTATTTCCC
66 GACCCGAGAGACTT-CTTCCC
* * * * * * **
2356558 CTTAAGTTTGCCTGTCGGCTTTGACCCTAGAGACTTCTTCGCTCTAAAGTTTGCCTGCCGGCTTT
1 CTTAAGTCTACCTGTCGGCTTTGACCCTAGAGACTTCCTCGCCCTAAAGTCTGCATGCCGGCTCA
*
2356623 GACCCTAGAGACTTCTTCCC
66 GACCCGAGAGACTTCTTCCC
* * *
2356643 CTTTAAGTCTACCTGTCGGCTTTGACCCTAGAGATTTCCTCGCCCTTAAGTCTGCATATCC-GCT
1 C-TTAAGTCTACCTGTCGGCTTTGACCCTAGAGACTTCCTCGCCCTAAAGTCTGCAT-GCCGGCT
* *
2356707 CAGTCCCGGGAGACTTCTT
64 CAGACCCGAGAGACTTCTT
2356726 TTATCAACTG
Statistics
Matches: 141, Mismatches: 25, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
85 6 0.04
86 133 0.94
87 2 0.01
ACGTcount: A:0.17, C:0.30, G:0.19, T:0.33
Consensus pattern (85 bp):
CTTAAGTCTACCTGTCGGCTTTGACCCTAGAGACTTCCTCGCCCTAAAGTCTGCATGCCGGCTCA
GACCCGAGAGACTTCTTCCC
Found at i:2356720 original size:129 final size:129
Alignment explanation
Indices: 2356489--2356725 Score: 311
Period size: 129 Copynumber: 1.8 Consensus size: 129
2356479 CTGCTTGTCA
*
2356489 GCTTTGACCCTAGAGACTTCTTCACCCTTAAGTCAGCCTGTAGGCTTTGACCCTAGAGACTTATT
1 GCTTTGACCCTAGAGACTTCTTCACCCTTAAGTCAGCCTGTAGGCTTTGACCCTAGAGACTTATC
* * * * ** *
2356554 TCCCCTTAAGTTTGCCTGTCGGCTTTGACCCTAGAGACTTCTTCGCTCTAAAGTTTGCCTGCCG
66 TCCCCTTAAGTCTGCATATCCGCTCAGACCCGAGAGACTTCTTCGCTCTAAAGTTTGCCTGCCG
*
2356618 GCTTTGACCCTAGAGACTTCTTC-CCCTTTAAGTCTA-CCTGTCGGCTTTGACCCTAGAGA-TT-
1 GCTTTGACCCTAGAGACTTCTTCACCC-TTAAGTC-AGCCTGTAGGCTTTGACCCTAGAGACTTA
* *
2356679 TCCTCGCCCTTAAGTCTGCATATCCGCTCAGTCCCGGGAGACTTCTT
64 T-CTC-CCCTTAAGTCTGCATATCCGCTCAGACCCGAGAGACTTCTT
2356726 TTATCAACTG
Statistics
Matches: 93, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
127 1 0.01
128 7 0.08
129 84 0.90
130 1 0.01
ACGTcount: A:0.17, C:0.31, G:0.19, T:0.33
Consensus pattern (129 bp):
GCTTTGACCCTAGAGACTTCTTCACCCTTAAGTCAGCCTGTAGGCTTTGACCCTAGAGACTTATC
TCCCCTTAAGTCTGCATATCCGCTCAGACCCGAGAGACTTCTTCGCTCTAAAGTTTGCCTGCCG
Found at i:2356739 original size:129 final size:129
Alignment explanation
Indices: 2356489--2356770 Score: 306
Period size: 129 Copynumber: 2.2 Consensus size: 129
2356479 CTGCTTGTCA
*
2356489 GCTTTGACCCTAGAGACTTCTTCACCCTTAAGTCAGCCTGTAGGCTTTGACCCTAGAGACTTATT
1 GCTTTGACCCTAGAGACTTCTTCACCCTTAAGTCAGCCTGTAGGCTTTGACCCTAGAGACTTATC
* * * * ** * *
2356554 TCCCCTTAAGTTTGCCTGTCGGCTTTGACCCTAGAGACTTCTTCGCTCTAAAGTTTGC-CTGCCG
66 TCCCCTTAAGTCTGCATATCCGCTCAGACCCGAGAGACTTCTTCGATCTAAAGTTTGCTC-GCCG
*
2356618 GCTTTGACCCTAGAGACTTCTTC-CCCTTTAAGTCTA-CCTGTCGGCTTTGACCCTAGAGA-TT-
1 GCTTTGACCCTAGAGACTTCTTCACCC-TTAAGTC-AGCCTGTAGGCTTTGACCCTAGAGACTTA
* * ** *
2356679 TCCTCGCCCTTAAGTCTGCATATCCGCTCAGTCCCGGGAGACTTCTTTTATC-AACTGTTTGCTC
64 T-CTC-CCCTTAAGTCTGCATATCCGCTCAGACCCGAGAGACTTCTTCGATCTAA-AGTTTGCTC
*
2356743 GTCG
126 GCCG
* *
2356747 GCTTAGACCCGAGAGACTTCTTCA
1 GCTTTGACCCTAGAGACTTCTTCA
2356771 TCTTTCACCT
Statistics
Matches: 128, Mismatches: 18, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
127 1 0.01
128 9 0.07
129 116 0.91
130 2 0.02
ACGTcount: A:0.18, C:0.30, G:0.19, T:0.33
Consensus pattern (129 bp):
GCTTTGACCCTAGAGACTTCTTCACCCTTAAGTCAGCCTGTAGGCTTTGACCCTAGAGACTTATC
TCCCCTTAAGTCTGCATATCCGCTCAGACCCGAGAGACTTCTTCGATCTAAAGTTTGCTCGCCG
Found at i:2356981 original size:42 final size:42
Alignment explanation
Indices: 2356714--2357491 Score: 121
Period size: 42 Copynumber: 18.3 Consensus size: 42
2356704 GCTCAGTCCC
* * * **
2356714 GGGAGACTTCTTTTATCAACTGTTTGCTCGTCGGCTTAGACCC
1 GGGAGACTTC-TTTATCAACCGTCTGCCCGTCGGCTTAGACTT
* * *** ** * * *
2356757 GAGAGACTTCTTCATCTTTCACCTGCCAGTCGACTTAGAC-C
1 GGGAGACTTCTTTATCAACCGTCTGCCCGTCGGCTTAGACTT
* * * * * * ** * *
2356798 GAGAGATTTTTTTCATCCACCGTTTGCCTGTCGGCCCAGTCCT
1 GGGAGACTTCTTT-ATCAACCGTCTGCCCGTCGGCTTAGACTT
* ** * * *
2356841 GGGAGACTTTCTTTATTAGTCGTTTGTCCATCGGCTTAGACTT
1 GGGAGAC-TTCTTTATCAACCGTCTGCCCGTCGGCTTAGACTT
* * * * * **
2356884 GAGAGACTT-TTTCATCCACCGTCTGCCCGTCAGCTCAGTCGC
1 GGGAGACTTCTTT-ATCAACCGTCTGCCCGTCGGCTTAGACTT
* * * *
2356926 GGGACATTTTCTTTATCAACCTTCTGCCTGTCGGCTTAGACTT
1 GGGAGA-CTTCTTTATCAACCGTCTGCCCGTCGGCTTAGACTT
*** * ** * *
2356969 GGGAGACTTCTTTATCTTTCGTCTACTTGTTGGCTTAGACTC
1 GGGAGACTTCTTTATCAACCGTCTGCCCGTCGGCTTAGACTT
* * *** * * * **
2357011 AGGAGACTTCTTCATCTTTCGTCTACTCGTTGGCTTAGACCC
1 GGGAGACTTCTTTATCAACCGTCTGCCCGTCGGCTTAGACTT
* ** * * * ** ** * * *
2357053 GAGAGGTTTCTTCATCCACCGAATCTACCTATTAGCTCAGTCCT
1 GGGAGACTTCTTTATCAACCG--TCTGCCCGTCGGCTTAGACTT
* * ** * **
2357097 AGGAGACTTCTTTTATCAACCATCTGCTTGTCGACTTAGACCC
1 GGGAGACTTC-TTTATCAACCGTCTGCCCGTCGGCTTAGACTT
** * * *
2357140 AAGAGACTTCTTTATTCATA--GACTGCCCATCGGCTTAGTCTT
1 GGGAGACTTCTTTA-TCA-ACCGTCTGCCCGTCGGCTTAGACTT
*** * * * **
2357182 GAGG-GACTTCATTTATCAATTATCTGTCCATCGGTTTAGACCC
1 G-GGAGACTTC-TTTATCAACCGTCTGCCCGTCGGCTTAGACTT
* * * * *** * * * * *
2357225 AGGAAACTTCTTCATCCATTTTTTGCCTGTCGACTTAGTCTC
1 GGGAGACTTCTTTATCAACCGTCTGCCCGTCGGCTTAGACTT
* * * * * *
2357267 GGGAGACTTCCTTTATCAATCATTTGCCCGTCAGCTTAGAGTC
1 GGGAGACTT-CTTTATCAACCGTCTGCCCGTCGGCTTAGACTT
* * * * ** * * * *
2357310 GAGAAACTTCTTCATCCATAGTCTGCCCGTCGACTCAGTCCT
1 GGGAGACTTCTTTATCAACCGTCTGCCCGTCGGCTTAGACTT
* * ** * **
2357352 GGGAGACTTCCTTTATCAATCATCTATCCGTCGACTTAGACCC
1 GGGAGACTT-CTTTATCAACCGTCTGCCCGTCGGCTTAGACTT
* * * * * * *
2357395 GAGAGACTT-TTTCATCCATCGTCTGCCCATCGGCTCAGTCTC
1 GGGAGACTTCTTT-ATCAACCGTCTGCCCGTCGGCTTAGACTT
* *
2357437 GGGATACTTTCTTTATCAACCGTCTGCCTAGT-GGCTTAGACTT
1 GGGAGAC-TTCTTTATCAACCGTCTGCC-CGTCGGCTTAGACTT
2357480 GGGAGACTTCTT
1 GGGAGACTTCTT
2357492 CATCCATAGT
Statistics
Matches: 516, Mismatches: 197, Indels: 45
0.68 0.26 0.06
Matches are distributed among these distances:
41 18 0.03
42 251 0.49
43 206 0.40
44 33 0.06
45 8 0.02
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.34
Consensus pattern (42 bp):
GGGAGACTTCTTTATCAACCGTCTGCCCGTCGGCTTAGACTT
Found at i:2357262 original size:85 final size:85
Alignment explanation
Indices: 2357098--2357701 Score: 421
Period size: 85 Copynumber: 7.1 Consensus size: 85
2357088 CTCAGTCCTA
* * * * * * * * *
2357098 GGAGACTTCTTTTATCAACCATCTG-CTTGTCGACTTAGACCCAAGAGACTTCTTTATTCATAGA
1 GGAGACTTCCTTTATCAATCATCTGTC-CGTCGGCTTAGACCCGAGAAACTTCTTCATCCATAGT
* *
2357162 CTGCCCATCGGCTTAGTCTTG
65 CTGCCCGTCGACTTAGTCTTG
* * * * **
2357183 AGG-GACTTCATTTATCAATTATCTGTCCATCGGTTTAGACCC-AGGAAACTTCTTCATCCATTT
1 -GGAGACTTCCTTTATCAATCATCTGTCCGTCGGCTTAGACCCGA-GAAACTTCTTCATCCATAG
* * *
2357246 TTTGCCTGTCGACTTAGTCTCG
64 TCTGCCCGTCGACTTAGTCTTG
* * * **
2357268 GGAGACTTCCTTTATCAATCATTTGCCCGTCAGCTTAGAGTCGAGAAACTTCTTCATCCATAGTC
1 GGAGACTTCCTTTATCAATCATCTGTCCGTCGGCTTAGACCCGAGAAACTTCTTCATCCATAGTC
* *
2357333 TGCCCGTCGACTCAGTCCTG
66 TGCCCGTCGACTTAGTCTTG
* * * * *
2357353 GGAGACTTCCTTTATCAATCATCTATCCGTCGACTTAGACCCGAGAGACTTTTTCATCCATCGTC
1 GGAGACTTCCTTTATCAATCATCTGTCCGTCGGCTTAGACCCGAGAAACTTCTTCATCCATAGTC
* * * *
2357418 TGCCCATCGGCTCAGTCTCG
66 TGCCCGTCGACTTAGTCTTG
* * * * ** * *
2357438 GGATACTTTCTTTATCAACCGTCTG-CCTAGT-GGCTTAGACTTGGGAGACTTCTTCATCCATAG
1 GGAGACTTCCTTTATCAATCATCTGTCC--GTCGGCTTAGACCCGAGAAACTTCTTCATCCATAG
* * * * ***
2357501 TTTGCTCGTCAACTCAGTCCCA
64 TCTGCCCGTCGACTTAGTCTTG
* * * * * * * * * * *
2357523 GGAAACTTCCTTTATCAACCGTCTGCCCATCGACTTAAACTCGGGAGACGTT-TTCATCCATTGT
1 GGAGACTTCCTTTATCAATCATCTGTCCGTCGGCTTAGACCCGAGAAAC-TTCTTCATCCATAGT
* * **
2357587 TTGCCCATCGA-TTCAGTCCCG
65 CTGCCCGTCGACTT-AGTCTTG
* * ** * * * *
2357608 GGAGACTTCCTTTATCAATCGTCTGCCCGTCAACTTAGACCCGGGAGACTCCTTCATCCATAGTT
1 GGAGACTTCCTTTATCAATCATCTGTCCGTCGGCTTAGACCCGAGAAACTTCTTCATCCATAGTC
*
2357673 TGCCCGTCGACTTAGTCTCG
66 TGCCCGTCGACTTAGTCTTG
2357693 GGAGACTTC
1 GGAGACTTC
2357702 TGTCACAACG
Statistics
Matches: 418, Mismatches: 88, Indels: 25
0.79 0.17 0.05
Matches are distributed among these distances:
84 8 0.02
85 398 0.95
86 12 0.03
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.32
Consensus pattern (85 bp):
GGAGACTTCCTTTATCAATCATCTGTCCGTCGGCTTAGACCCGAGAAACTTCTTCATCCATAGTC
TGCCCGTCGACTTAGTCTTG
Found at i:2357393 original size:255 final size:254
Alignment explanation
Indices: 2357088--2357700 Score: 630
Period size: 255 Copynumber: 2.4 Consensus size: 254
2357078 TACCTATTAG
* * * ** *
2357088 CTCAGTCCTAGGAGACTTCTTTTATCAACCATCTGCTTGTCGACTTAGACCCAAGAGACTTCTTT
1 CTCAGTCCTGGGAGACTTCCTTTATCAATCATCT-CCCGTCGACTTAGACCCGAGAGACTTCTTT
* * * **
2357153 ATTCATAGACTGCCCATCGGCTTAGTCTTGAGG-GAC-TTCATTTATCAATTATCTGTCC-A-TC
65 ATCCATAGTCTGCCCATCGGCTTAGTCTCG-GGAGACTTTC-TTTATCAACCATCTG-CCTAGT-
* ** * * * * *
2357214 GGTTTAGACCCAGGAAACTTCTTCATCCATTTTTTGC-CTGTCGACTTAGTCTCGGGAGACTTCC
126 GGCTTAGACCCAGGAAACTTCTTCATCCATAGTTTGCTC-GTCAACTCAGTCCCAGGAAACTTCC
* * * * * *
2357278 TTTATCAATCATTTGCCCGTC-AGCTTAGAGTCGAGAAAC-TTCTTCATCCATAGTCTGCCCGTC
190 TTTATCAACCATCTGCCCATCGA-CTTAAACTCGAGAAACGTT-TTCATCCATAGTCTGCCCATC
2357341 GA
253 GA
*
2357343 CTCAGTCCTGGGAGACTTCCTTTATCAATCATCTATCCGTCGACTTAGACCCGAGAGACTT-TTT
1 CTCAGTCCTGGGAGACTTCCTTTATCAATCATCT-CCCGTCGACTTAGACCCGAGAGACTTCTTT
* * * *
2357407 CATCCATCGTCTGCCCATCGGCTCAGTCTCGGGATACTTTCTTTATCAACCGTCTGCCTAGTGGC
65 -ATCCATAGTCTGCCCATCGGCTTAGTCTCGGGAGACTTTCTTTATCAACCATCTGCCTAGTGGC
*** *
2357472 TTAGACTTGGGAGACTTCTTCATCCATAGTTTGCTCGTCAACTCAGTCCCAGGAAACTTCCTTTA
129 TTAGACCCAGGAAACTTCTTCATCCATAGTTTGCTCGTCAACTCAGTCCCAGGAAACTTCCTTTA
* * * * *
2357537 TCAACCGTCTGCCCATCGACTTAAACTCGGGAGACGTTTTCATCCATTGTTTGCCCATCGA
194 TCAACCATCTGCCCATCGACTTAAACTCGAGAAACGTTTTCATCCATAGTCTGCCCATCGA
* * * * * * *
2357598 TTCAGTCCCGGGAGACTTCCTTTATCAATCGTCTGCCCGTCAACTTAGACCCGGGAGACTCCTTC
1 CTCAGTCCTGGGAGACTTCCTTTATCAATCATCT-CCCGTCGACTTAGACCCGAGAGACTTCTTT
* * *
2357663 ATCCATAGTTTGCCCGTCGACTTAGTCTCGGGAGACTT
65 ATCCATAGTCTGCCCATCGGCTTAGTCTCGGGAGACTT
2357701 CTGTCACAAC
Statistics
Matches: 294, Mismatches: 55, Indels: 18
0.80 0.15 0.05
Matches are distributed among these distances:
254 7 0.02
255 277 0.94
256 10 0.03
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.32
Consensus pattern (254 bp):
CTCAGTCCTGGGAGACTTCCTTTATCAATCATCTCCCGTCGACTTAGACCCGAGAGACTTCTTTA
TCCATAGTCTGCCCATCGGCTTAGTCTCGGGAGACTTTCTTTATCAACCATCTGCCTAGTGGCTT
AGACCCAGGAAACTTCTTCATCCATAGTTTGCTCGTCAACTCAGTCCCAGGAAACTTCCTTTATC
AACCATCTGCCCATCGACTTAAACTCGAGAAACGTTTTCATCCATAGTCTGCCCATCGA
Done.