Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009021.1 Hibiscus syriacus cultivar Beakdansim tig00112411_pilon, whole genome shotgun sequence
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: 1242735
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 5
Found at i:1110 original size:16 final size:16
Alignment explanation
Indices: 1089--1120 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1079 TAGCGACAAT
1089 TCTTAACCTATTAATA
1 TCTTAACCTATTAATA
1105 TCTTAACCTATTAATA
1 TCTTAACCTATTAATA
1121 ATGCACACTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.44
Consensus pattern (16 bp):
TCTTAACCTATTAATA
Found at i:1346 original size:19 final size:19
Alignment explanation
Indices: 1324--1366 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
1314 AAAAAATAGG
*
1324 TAAAGTATAAAAAAATTAC
1 TAAAATATAAAAAAATTAC
* * *
1343 TAAAATATTAAATAATTAT
1 TAAAATATAAAAAAATTAC
1362 TAAAA
1 TAAAA
1367 ATTGGCAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (19 bp):
TAAAATATAAAAAAATTAC
Found at i:7227 original size:2 final size:2
Alignment explanation
Indices: 7222--7262 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
7212 TCTCTGTCCG
7222 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
7263 TTCTGTGTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:11415 original size:20 final size:20
Alignment explanation
Indices: 11392--11443 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
11382 AACGCGATCC
11392 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
11412 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
11432 CCAAAATCGCAA
1 CCAGAATCGCAA
11444 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:11524 original size:20 final size:20
Alignment explanation
Indices: 11499--11692 Score: 76
Period size: 20 Copynumber: 9.7 Consensus size: 20
11489 GATTTTCCAT
* *
11499 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
11519 AATCGCAACGCGAACACATA
1 AATCGCAACGCGAACACATA
* *
11539 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
11559 AATCGCAACGTGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* ****
11579 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGAACACATA
* * *
11599 AATCGCAATGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
11619 TATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
** *
11639 AATCGCAACGATAATACATAA
1 AATCGCAACGCGAACACAT-A
* *
11660 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
11680 AATCGCAACGCGA
1 AATCGCAACGCGA
11693 TATTTAAAGC
Statistics
Matches: 139, Mismatches: 28, Indels: 15
0.76 0.15 0.08
Matches are distributed among these distances:
19 3 0.02
20 120 0.86
21 15 0.11
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:11544 original size:40 final size:39
Alignment explanation
Indices: 11495--11692 Score: 200
Period size: 40 Copynumber: 5.0 Consensus size: 39
11485 TTGCGATTTT
* ** *
11495 CCAT-AATCGCAACGCGAATATGAAAATCGCAACGCGAA
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
* *
11533 CACATAAATCGCAACGCGTATCCGTAAATCGCAACGTGTAT
1 C-CATAAATCGCAACGCGTATCCGTAAATCGCAACGCG-AA
* ** * *
11574 CCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTAT
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCG-AA
* * **
11614 CCGTATATCGCAACGCGTATCCGTAAATCGCAACGATAA
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
*
11653 TACATAAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -CCAT-AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
11693 TATTTAAAGC
Statistics
Matches: 132, Mismatches: 23, Indels: 7
0.81 0.14 0.04
Matches are distributed among these distances:
38 1 0.01
39 4 0.03
40 94 0.71
41 33 0.25
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.19
Consensus pattern (39 bp):
CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
Found at i:11582 original size:60 final size:60
Alignment explanation
Indices: 11499--11691 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
11489 GATTTTCCAT
* ** * *
11499 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* * *** *
11559 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* **
11619 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGTA
11680 AATCGCAACGCG
1 AATCGCAACGCG
11692 ATATTTAAAG
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 80 0.72
61 31 0.28
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
Found at i:12130 original size:31 final size:32
Alignment explanation
Indices: 12069--12137 Score: 104
Period size: 33 Copynumber: 2.2 Consensus size: 32
12059 TTCACTTAGA
12069 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTC-GTCGTTGCGAT
* *
12102 TTTCATTTCGCGTTGCTATTC-TCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCGTCGTTGCGAT
12133 TTTCA
1 TTTCA
12138 AGTTATTTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
31 15 0.44
33 19 0.56
ACGTcount: A:0.12, C:0.22, G:0.19, T:0.48
Consensus pattern (32 bp):
TTTCATTTCGCGTTACGATTCGTCGTTGCGAT
Found at i:12256 original size:20 final size:20
Alignment explanation
Indices: 12217--12269 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
12207 AGAAGAGTCG
*
12217 CAACGAGATAAATGAAAATCA
1 CAACGAGA-GAATGAAAATCA
* *
12238 CAACGAGAGAATGACAATCG
1 CAACGAGAGAATGAAAATCA
12258 CAACGAGAGAAT
1 CAACGAGAGAAT
12270 CGCAACGCGA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 21 0.72
21 8 0.28
ACGTcount: A:0.51, C:0.17, G:0.21, T:0.11
Consensus pattern (20 bp):
CAACGAGAGAATGAAAATCA
Found at i:12270 original size:14 final size:14
Alignment explanation
Indices: 12253--12309 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
12243 AGAGAATGAC
12253 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
12267 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
12286 AATCGCAACGAGAG
1 AATCGCAACGAGAG
12300 AATCGCAACG
1 AATCGCAACG
12310 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:12284 original size:33 final size:33
Alignment explanation
Indices: 12233--12325 Score: 132
Period size: 33 Copynumber: 2.8 Consensus size: 33
12223 GATAAATGAA
* * *
12233 AATCACAACGAGAGAATGACAATCGCAACGAGAG
1 AATCGCAACGCGA-AATGAAAATCGCAACGAGAG
12267 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
**
12300 AATCGCAACGCGAAACCAAAATCGCA
1 AATCGCAACGCGAAATGAAAATCGCA
12326 TTGCGATTTT
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 43 0.80
34 11 0.20
ACGTcount: A:0.46, C:0.24, G:0.22, T:0.09
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAGAG
Found at i:12343 original size:19 final size:19
Alignment explanation
Indices: 12321--12418 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
12311 GAAACCAAAA
*
12321 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
12340 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
12354 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
12373 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
12387 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
12406 TCGCGTTGCGATT
1 TCGCGTTGCGATT
12419 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:12362 original size:14 final size:14
Alignment explanation
Indices: 12343--12432 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
12333 TTTCATTTCG
12343 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
12357 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
12376 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
12390 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
12407 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
12423 CGTTGCGATT
1 CGTTGCGATT
12433 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:12368 original size:33 final size:33
Alignment explanation
Indices: 12326--12440 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
12316 CAAAATCGCA
12326 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
12359 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
12392 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
12425 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
12441 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:14451 original size:183 final size:185
Alignment explanation
Indices: 14130--14598 Score: 899
Period size: 183 Copynumber: 2.6 Consensus size: 185
14120 TAGATTGCTT
*
14130 AGTAAATTT-ATCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
14194 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
14259 GTATATTCTTTAACACTGTGAAATATATTTGTCTTTG-TTT-TCTTTTGGTTGAA
131 GTATATTCTTTAACACTGTGAAATATATTTGTCTTTGTTTTGTCTTTTGGTTGAA
14312 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
14377 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
*
14442 GTGTATTCTTTAACACTGTGAAATATATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTATATTCTTTAACACTGTGAAATATATTTGTCTTTGTTTTGTCTTTTGGTTGAA
14497 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
14562 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTT
14599 ATCCATTCAA
Statistics
Matches: 282, Mismatches: 2, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
182 9 0.03
183 155 0.55
184 3 0.01
185 115 0.41
ACGTcount: A:0.23, C:0.13, G:0.18, T:0.46
Consensus pattern (185 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTATATTCTTTAACACTGTGAAATATATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:14532 original size:92 final size:93
Alignment explanation
Indices: 14130--14598 Score: 885
Period size: 93 Copynumber: 5.1 Consensus size: 93
14120 TAGATTGCTT
*
14130 AGTAAATTT-ATCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
14194 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
14222 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTATATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
14286 TTTGTCTTTG-TTT-TCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
14312 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
14377 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
14405 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
14469 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
14497 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
14562 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
14590 AGTAAATTT
1 AGTAAATTT
14599 ATCCATTCAA
Statistics
Matches: 369, Mismatches: 3, Indels: 9
0.97 0.01 0.02
Matches are distributed among these distances:
90 74 0.20
91 15 0.04
92 116 0.31
93 164 0.44
ACGTcount: A:0.23, C:0.13, G:0.18, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:14681 original size:19 final size:19
Alignment explanation
Indices: 14641--14769 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
14631 ATAGTTACTT
* *
14641 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
14661 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
14680 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
14699 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
14713 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
14732 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
14746 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
14765 TCGCA
1 TCGCA
14770 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:14720 original size:33 final size:32
Alignment explanation
Indices: 14677--14769 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
14667 CGCGAAACCA
**
14677 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
14709 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
14742 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
14770 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:14767 original size:52 final size:52
Alignment explanation
Indices: 14641--14769 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
14631 ATAGTTACTT
**
14641 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
14693 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
14746 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
14770 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:14787 original size:19 final size:19
Alignment explanation
Indices: 14765--14899 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
14755 GAAACCAAAA
*
14765 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
14784 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
14800 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
14817 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
14833 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
14850 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
14869 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
14889 TCGTGTTGCGA
1 TCGCGTTGCGA
14900 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:14806 original size:14 final size:14
Alignment explanation
Indices: 14787--14843 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
14777 TTTCATTTCG
14787 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
14801 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
14818 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
14834 CGTTGCGATT
1 CGTTGCGATT
14844 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:14812 original size:33 final size:33
Alignment explanation
Indices: 14770--14862 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
14760 CAAAATCGCA
*
14770 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
14803 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
14836 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
14863 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:16810 original size:14 final size:14
Alignment explanation
Indices: 16791--16822 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
16781 GTTTAATTGA
16791 TTGTAAAAGATGAT
1 TTGTAAAAGATGAT
*
16805 TTGTAAAAGTTGAT
1 TTGTAAAAGATGAT
16819 TTGT
1 TTGT
16823 GTAATTGATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TTGTAAAAGATGAT
Found at i:16941 original size:19 final size:19
Alignment explanation
Indices: 16917--17015 Score: 145
Period size: 19 Copynumber: 5.4 Consensus size: 19
16907 TATGTTGAAG
16917 GCAATGCGAAATGAAAATC
1 GCAATGCGAAATGAAAATC
16936 GCAATGCGAAATGAAAATC
1 GCAATGCGAAATGAAAATC
*
16955 GCAA--CG--A-GAGAATC
1 GCAATGCGAAATGAAAATC
16969 GCAATGCGAAATGAAAATC
1 GCAATGCGAAATGAAAATC
16988 GCAATGCGGAAATGAAAATC
1 GCAATGC-GAAATGAAAATC
17008 GCAATGCG
1 GCAATGCG
17016 TTTATAATTT
Statistics
Matches: 72, Mismatches: 2, Indels: 12
0.84 0.02 0.14
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 37 0.51
20 19 0.26
ACGTcount: A:0.44, C:0.17, G:0.24, T:0.14
Consensus pattern (19 bp):
GCAATGCGAAATGAAAATC
Found at i:17068 original size:19 final size:19
Alignment explanation
Indices: 17044--17317 Score: 363
Period size: 19 Copynumber: 15.4 Consensus size: 19
17034 GATTATCTCG
17044 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
17063 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
17082 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
17096 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
17115 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
17134 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
17153 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
17172 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
17191 TTGCGA--TTC-TGTCG--
1 TTGCGATTTTCATTTCGCA
17205 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
17224 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
17243 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
17257 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
17277 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
17291 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
17310 TTGCGATT
1 TTGCGATT
17318 GTATTTTCCG
Statistics
Matches: 228, Mismatches: 6, Indels: 42
0.83 0.02 0.15
Matches are distributed among these distances:
14 29 0.13
16 24 0.11
17 21 0.09
18 3 0.01
19 139 0.61
20 12 0.05
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:17084 original size:52 final size:52
Alignment explanation
Indices: 17022--17289 Score: 446
Period size: 52 Copynumber: 5.0 Consensus size: 52
17012 TGCGTTTATA
*
17022 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
17074 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
17126 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
*
17183 ATTTCGCATTGCGATTCTGTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
17235 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
17288 AT
1 AT
17290 GTTGGGATTT
Statistics
Matches: 206, Mismatches: 4, Indels: 11
0.93 0.02 0.05
Matches are distributed among these distances:
52 130 0.63
53 17 0.08
54 7 0.03
55 8 0.04
57 44 0.21
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.47
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:17173 original size:109 final size:102
Alignment explanation
Indices: 17044--17284 Score: 185
Period size: 109 Copynumber: 2.3 Consensus size: 102
17034 GATTATCTCG
17044 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA-TTC-TTTCG-TTGCGATTTT
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TTTCG--TTGCGATTTCATTTCGATTGCGATTTT
*
17106 CATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
61 CATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCA
*
17153 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA-TTC-TGTCG-TTGCGATTTT
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TTTCG--TTGCGATTTCATTTCGATTGCGATTTT
* * * * *
17215 CATTTCGCATTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCG
61 CATTTCGCATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCA
17257 TTGCGATTTTCATTTCCGCATTGCGATT
1 TTGCGATTTTCATTT-CGCATTGCGATT
17285 TTCATGTTGG
Statistics
Matches: 122, Mismatches: 6, Indels: 14
0.86 0.04 0.10
Matches are distributed among these distances:
102 7 0.06
103 6 0.05
104 20 0.16
105 11 0.09
107 2 0.02
109 76 0.62
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.47
Consensus pattern (102 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTCATTTCGATTGCGATTTTCATTT
CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
Found at i:19790 original size:24 final size:24
Alignment explanation
Indices: 19756--19802 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
19746 CTGAAACATC
19756 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
19780 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
19803 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:20503 original size:20 final size:20
Alignment explanation
Indices: 20475--20803 Score: 396
Period size: 20 Copynumber: 16.4 Consensus size: 20
20465 AAATTTAAGT
* * * *
20475 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
20495 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
20515 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
20535 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
20555 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
20575 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
20595 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
20615 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
20635 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
20655 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
20675 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
20695 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
20715 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
20735 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
20755 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
20775 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
20795 GTTGCGATT
1 GTTGCGATT
20804 ATGGAAAATC
Statistics
Matches: 273, Mismatches: 28, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.02
20 263 0.96
21 5 0.02
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:21329 original size:21 final size:21
Alignment explanation
Indices: 21305--21397 Score: 118
Period size: 21 Copynumber: 4.4 Consensus size: 21
21295 TCCAAGTTCG
*
21305 CGTTGCGATTTATTTCAAATT
1 CGTTGCGATTTATTCCAAATT
21326 CGTTGCGATTTATTCCAAATT
1 CGTTGCGATTTATTCCAAATT
* *
21347 CGTTGCGA--TAGTCCAAGTT
1 CGTTGCGATTTATTCCAAATT
*
21366 CGCGTTGCGATTTATTCCAAGTT
1 --CGTTGCGATTTATTCCAAATT
21389 CGTTGCGAT
1 CGTTGCGAT
21398 AGTACCACGA
Statistics
Matches: 64, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
19 9 0.14
21 45 0.70
23 10 0.16
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.40
Consensus pattern (21 bp):
CGTTGCGATTTATTCCAAATT
Found at i:22038 original size:110 final size:110
Alignment explanation
Indices: 21826--22045 Score: 352
Period size: 110 Copynumber: 2.0 Consensus size: 110
21816 TTGGGAATTG
* * *
21826 TATTTAAGGCTTGGCTTTCCCACTTTCTTGATGAGTGATAGAGAACAAGGGGACTCTCGGGCGCC
1 TATTTAAGGCTTGGCTTTCCCACTTCCTTAATGAGTGATAGAGAACAAGGGGACTCTCGCGCGCC
* *
21891 GCCGCCGCCGCCGTCCGTCTCGTCTCGGGTCGTGGTCGTGGTCGT
66 GCCGCCGCCGCCGTCCGTCTCGTCTCGGCTAGTGGTCGTGGTCGT
21936 TATTTAAGGCTTGGCTTTCCCACTTCCTTAATGAGTGATAGAGAACAAGGGGGACTCTCGCGCGC
1 TATTTAAGGCTTGGCTTTCCCACTTCCTTAATGAGTGATAGAGAACAA-GGGGACTCTCGCGCGC
* * *
22001 CGCCGCCGCCGCCGTCTGTCTTGTCTCGTCTAG-GGTCGTGGTCGT
65 CGCCGCCGCCGCCGTCCGTCTCGTCTCGGCTAGTGGTCGTGGTCGT
22046 GGTCATACGT
Statistics
Matches: 101, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
110 58 0.57
111 43 0.43
ACGTcount: A:0.14, C:0.28, G:0.30, T:0.28
Consensus pattern (110 bp):
TATTTAAGGCTTGGCTTTCCCACTTCCTTAATGAGTGATAGAGAACAAGGGGACTCTCGCGCGCC
GCCGCCGCCGCCGTCCGTCTCGTCTCGGCTAGTGGTCGTGGTCGT
Found at i:22161 original size:19 final size:19
Alignment explanation
Indices: 22137--22214 Score: 75
Period size: 19 Copynumber: 3.9 Consensus size: 19
22127 TCGTTGCGAT
*
22137 TTTGGACTATCGCAACGAA
1 TTTGGAATATCGCAACGAA
22156 TTTGGAATAAATCGCAACGCGAA
1 TTTGGAAT--ATCGCAA--CGAA
* * *
22179 CTTCGACTATCGCAACGAA
1 TTTGGAATATCGCAACGAA
*
22198 TTTGGAAAATCGCAACG
1 TTTGGAATATCGCAACG
22215 CGAACGAACT
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
19 24 0.51
21 14 0.30
23 9 0.19
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.23
Consensus pattern (19 bp):
TTTGGAATATCGCAACGAA
Found at i:22219 original size:40 final size:42
Alignment explanation
Indices: 22141--22219 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
22131 TGCGATTTTG
22141 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
22183 GACTATCGCAACGAATTTGG-A-AAATCGCAACGCGAAC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
22220 GAACTTGGAC
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
40 16 0.43
41 1 0.03
42 20 0.54
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.19
Consensus pattern (42 bp):
GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
Found at i:22227 original size:25 final size:25
Alignment explanation
Indices: 22192--22243 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
22182 CGACTATCGC
*
22192 AACGAATTTGGAAAATCGCAACGCG
1 AACGAACTTGGAAAATCGCAACGCG
** *
22217 AACGAACTTGGACTATCGCAATGCG
1 AACGAACTTGGAAAATCGCAACGCG
22242 AA
1 AA
22244 TATGTAAATC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.17
Consensus pattern (25 bp):
AACGAACTTGGAAAATCGCAACGCG
Found at i:22311 original size:21 final size:21
Alignment explanation
Indices: 22279--22333 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
22269 AATTTGGAAA
*
22279 ATCGCAACGCGAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
** *
22300 ATTTCAATGCGAACTTGGACT
1 ATCGCAATGCGAACTTCGACT
22321 ATCGCAATGCGAA
1 ATCGCAATGCGAA
22334 TATGTAAATC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (21 bp):
ATCGCAATGCGAACTTCGACT
Found at i:23769 original size:76 final size:76
Alignment explanation
Indices: 23688--23839 Score: 277
Period size: 76 Copynumber: 2.0 Consensus size: 76
23678 GCTGCCAAAC
*
23688 TCTTAAAATTGATATTTATTTTGTTTAATTTCGTCGATTTTGAGAGGTAGCTAAAAAGTTTATCG
1 TCTTAAAACTGATATTTATTTTGTTTAATTTCGTCGATTTTGAGAGGTAGCTAAAAAGTTTATCG
23753 CATAAAAGTGA
66 CATAAAAGTGA
* *
23764 TCTTAAAACTGATATTTGTTTTGTTTAATTTCGTCGATTTTGAGAGGTGGCTAAAAAGTTTATCG
1 TCTTAAAACTGATATTTATTTTGTTTAATTTCGTCGATTTTGAGAGGTAGCTAAAAAGTTTATCG
23829 CATAAAAGTGA
66 CATAAAAGTGA
23840 ATCATTTAAA
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 73 1.00
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (76 bp):
TCTTAAAACTGATATTTATTTTGTTTAATTTCGTCGATTTTGAGAGGTAGCTAAAAAGTTTATCG
CATAAAAGTGA
Found at i:23913 original size:12 final size:12
Alignment explanation
Indices: 23896--23923 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
23886 GTTTAAAGCA
23896 ACATCGTTTTGG
1 ACATCGTTTTGG
23908 ACATCGTTTTGG
1 ACATCGTTTTGG
23920 ACAT
1 ACAT
23924 AAATAGTCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.39
Consensus pattern (12 bp):
ACATCGTTTTGG
Found at i:29663 original size:16 final size:15
Alignment explanation
Indices: 29623--29664 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
29613 AGAGAATTAG
29623 GATTTTAAAGATTTAT
1 GATTTTAAA-ATTTAT
*
29639 GA-GTTAAAATTCTAT
1 GATTTTAAAATT-TAT
29654 GATTTTAAAAT
1 GATTTTAAAAT
29665 GTTTTGTGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 3 0.14
15 10 0.45
16 9 0.41
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.45
Consensus pattern (15 bp):
GATTTTAAAATTTAT
Found at i:29971 original size:17 final size:17
Alignment explanation
Indices: 29949--29983 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
29939 TACGCTGACG
29949 AATGCCACGTGCAAACC
1 AATGCCACGTGCAAACC
29966 AATGCCACGTGCAAACC
1 AATGCCACGTGCAAACC
29983 A
1 A
29984 TAGTTGAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.34, G:0.17, T:0.11
Consensus pattern (17 bp):
AATGCCACGTGCAAACC
Found at i:33492 original size:30 final size:30
Alignment explanation
Indices: 33456--33524 Score: 122
Period size: 30 Copynumber: 2.3 Consensus size: 30
33446 TGTTGAGTAT
33456 TCTGATGATGAGGGT-TGGGAGGAAGATGAC
1 TCTGATGATGAGGGTGT-GGAGGAAGATGAC
33486 TCTGATGATGAGGGTGTGGAGGAAGATGAC
1 TCTGATGATGAGGGTGTGGAGGAAGATGAC
33516 TCTGATGAT
1 TCTGATGAT
33525 TATCTTGATG
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
30 37 0.97
31 1 0.03
ACGTcount: A:0.26, C:0.07, G:0.41, T:0.26
Consensus pattern (30 bp):
TCTGATGATGAGGGTGTGGAGGAAGATGAC
Found at i:35808 original size:41 final size:40
Alignment explanation
Indices: 35708--35808 Score: 96
Period size: 41 Copynumber: 2.5 Consensus size: 40
35698 GTAATTTGGT
* * * *
35708 GGCGTTTATAGCAAAAACGCCGTAATATAGTTATTTATAGT
1 GGCGTTTAT-GAAAAAACGCCGTAAAATAGTTACTTATAGC
* * *
35749 GGCGTTTTCTCAACAAACGCCGTAAAATAGTAGTACTT-TAGC
1 GGCG-TTTATGAAAAAACGCCGTAAAATAGT--TACTTATAGC
35791 GGCGTTTATGAAAAAACG
1 GGCGTTTATGAAAAAACG
35809 TCGCAACAAT
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
41 32 0.68
42 11 0.23
43 4 0.09
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.30
Consensus pattern (40 bp):
GGCGTTTATGAAAAAACGCCGTAAAATAGTTACTTATAGC
Found at i:36495 original size:22 final size:22
Alignment explanation
Indices: 36467--36508 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
36457 GTTTTTTTGC
36467 TTTCGAATA-GAAAAGTAATAGT
1 TTTCGAATAGGAAAA-TAATAGT
36489 TTTCGAATAGGAAAATAATA
1 TTTCGAATAGGAAAATAATA
36509 CCTTTTGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.48, C:0.05, G:0.17, T:0.31
Consensus pattern (22 bp):
TTTCGAATAGGAAAATAATAGT
Found at i:36514 original size:23 final size:22
Alignment explanation
Indices: 36467--36514 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
36457 GTTTTTTTGC
*
36467 TTTCGAATAGAAAAGTAATAGT
1 TTTCGAATAGAAAAGTAATACT
36489 TTTCGAATAGGAAAA-TAATACCT
1 TTTCGAATA-GAAAAGTAATA-CT
36512 TTT
1 TTT
36515 GAAAACTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.42, C:0.08, G:0.15, T:0.35
Consensus pattern (22 bp):
TTTCGAATAGAAAAGTAATACT
Found at i:37871 original size:29 final size:30
Alignment explanation
Indices: 37801--37859 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
37791 AATTTAAGGC
37801 AAAATGGTTTTTGGACTTGAATTGAATTTAA
1 AAAAT-GTTTTTGGACTTGAATTGAATTTAA
37832 AAAATGTTTTTGGACTT-AATTGAATTTA
1 AAAATGTTTTTGGACTTGAATTGAATTTA
37860 TTCAAAGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 11 0.39
30 12 0.43
31 5 0.18
ACGTcount: A:0.36, C:0.03, G:0.17, T:0.44
Consensus pattern (30 bp):
AAAATGTTTTTGGACTTGAATTGAATTTAA
Found at i:37995 original size:36 final size:36
Alignment explanation
Indices: 37955--38026 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
37945 ATTGCCCAGG
* * *
37955 GGGTATAGATTCCCCCTCAGGGGGTACAGATACCCC
1 GGGTACAGATACCCCCCCAGGGGGTACAGATACCCC
37991 GGGTACAGATACCCCCCCAGGGGGTACAGATACCCC
1 GGGTACAGATACCCCCCCAGGGGGTACAGATACCCC
38027 CCTGCAGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.24, C:0.33, G:0.28, T:0.15
Consensus pattern (36 bp):
GGGTACAGATACCCCCCCAGGGGGTACAGATACCCC
Found at i:37996 original size:15 final size:15
Alignment explanation
Indices: 37976--38005 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
37966 CCCCCTCAGG
37976 GGGTACAGATACCCC
1 GGGTACAGATACCCC
37991 GGGTACAGATACCCC
1 GGGTACAGATACCCC
38006 CCCAGGGGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.33, G:0.27, T:0.13
Consensus pattern (15 bp):
GGGTACAGATACCCC
Found at i:38028 original size:21 final size:21
Alignment explanation
Indices: 37949--38028 Score: 91
Period size: 21 Copynumber: 4.1 Consensus size: 21
37939 TTCAAGATTG
* *
37949 CCCAGGGGGTATAGATTCCCC
1 CCCAGGGGGTACAGATACCCC
*
37970 CTCAGGGGGTACAGATA---C
1 CCCAGGGGGTACAGATACCCC
37988 CCC---GGGTACAGATACCCC
1 CCCAGGGGGTACAGATACCCC
38006 CCCAGGGGGTACAGATACCCC
1 CCCAGGGGGTACAGATACCCC
38027 CC
1 CC
38029 TGCAGGTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
15 11 0.22
18 7 0.14
21 31 0.63
ACGTcount: A:0.23, C:0.36, G:0.28, T:0.14
Consensus pattern (21 bp):
CCCAGGGGGTACAGATACCCC
Found at i:38101 original size:19 final size:20
Alignment explanation
Indices: 38064--38103 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
38054 CAGAATGTCT
38064 AGGGGGTACCGATTCCCCCC
1 AGGGGGTACCGATTCCCCCC
38084 AGGGGGTACCGATTCCCCCC
1 AGGGGGTACCGATTCCCCCC
38104 TGTTCAACAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.15, C:0.40, G:0.30, T:0.15
Consensus pattern (20 bp):
AGGGGGTACCGATTCCCCCC
Found at i:38165 original size:21 final size:21
Alignment explanation
Indices: 38139--38181 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
38129 ATTTGAATAT
*
38139 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
38160 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
38181 T
1 T
38182 CTATTCTGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:38247 original size:20 final size:22
Alignment explanation
Indices: 38209--38248 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
38199 TTTGAGTATA
38209 AAAATCATCCCCAAACGGCTCC
1 AAAATCATCCCCAAACGGCTCC
38231 AAAA-CATCCCC-AACGGCT
1 AAAATCATCCCCAAACGGCT
38249 ATATACGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.40, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAATCATCCCCAAACGGCTCC
Found at i:38444 original size:34 final size:32
Alignment explanation
Indices: 38405--38474 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
38395 TTTTGTAAAG
* *
38405 GGGAAAGGTTCTAGCTTATCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
38439 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
38471 GGGA
1 GGGA
38475 GTTTGTAAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 11 0.33
33 1 0.03
34 21 0.64
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:41151 original size:29 final size:30
Alignment explanation
Indices: 41081--41139 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
41071 AATTTAAGGC
41081 AAAATGGTTTTTGGACTTGAATTGAATTTAA
1 AAAAT-GTTTTTGGACTTGAATTGAATTTAA
41112 AAAATGTTTTTGGACTT-AATTGAATTTA
1 AAAATGTTTTTGGACTTGAATTGAATTTA
41140 TTCAAAGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 11 0.39
30 12 0.43
31 5 0.18
ACGTcount: A:0.36, C:0.03, G:0.17, T:0.44
Consensus pattern (30 bp):
AAAATGTTTTTGGACTTGAATTGAATTTAA
Found at i:41254 original size:21 final size:21
Alignment explanation
Indices: 41229--41294 Score: 105
Period size: 21 Copynumber: 3.1 Consensus size: 21
41219 TTCAAGATTG
* *
41229 CCCAGGGGGTATAGATTCCCC
1 CCCAGGGGGTACAGATACCCC
41250 CCCAGGGGGTACAGATACCCCC
1 CCCAGGGGGTACAGATA-CCCC
41272 CCCAGGGGGTACAGATACCCC
1 CCCAGGGGGTACAGATACCCC
41293 CC
1 CC
41295 TGCAGGTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
21 21 0.50
22 21 0.50
ACGTcount: A:0.21, C:0.39, G:0.27, T:0.12
Consensus pattern (21 bp):
CCCAGGGGGTACAGATACCCC
Found at i:41271 original size:22 final size:22
Alignment explanation
Indices: 41229--41294 Score: 107
Period size: 22 Copynumber: 3.0 Consensus size: 22
41219 TTCAAGATTG
* *
41229 CCCAGGGGGTATAGAT-TCCCC
1 CCCAGGGGGTACAGATACCCCC
41250 CCCAGGGGGTACAGATACCCCC
1 CCCAGGGGGTACAGATACCCCC
41272 CCCAGGGGGTACAGATACCCCC
1 CCCAGGGGGTACAGATACCCCC
41294 C
1 C
41295 TGCAGGTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
21 15 0.36
22 27 0.64
ACGTcount: A:0.21, C:0.39, G:0.27, T:0.12
Consensus pattern (22 bp):
CCCAGGGGGTACAGATACCCCC
Found at i:41368 original size:20 final size:21
Alignment explanation
Indices: 41328--41371 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
41318 AACAGAATGT
41328 CCAGGGGGTACCGATTCCCCC
1 CCAGGGGGTACCGATTCCCCC
41349 CCAGGGGGTACCGATTCCCCC
1 CCAGGGGGTACCGATTCCCCC
41370 CC
1 CC
41372 TGTTCAATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.14, C:0.45, G:0.27, T:0.14
Consensus pattern (21 bp):
CCAGGGGGTACCGATTCCCCC
Found at i:41433 original size:21 final size:21
Alignment explanation
Indices: 41407--41449 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
41397 ATTTGAATAT
*
41407 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
41428 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
41449 T
1 T
41450 CTATTCTGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:41750 original size:34 final size:32
Alignment explanation
Indices: 41711--41780 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
41701 TTTTGTAAAG
* *
41711 GGGAAAGGTTCTAGCTTATCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
41745 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
41777 GGGA
1 GGGA
41781 GTTTGTAAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 11 0.33
33 1 0.03
34 21 0.64
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:43994 original size:44 final size:44
Alignment explanation
Indices: 43891--44121 Score: 232
Period size: 44 Copynumber: 5.2 Consensus size: 44
43881 CATATATTTA
* ** *
43891 GCGGCGTTTGTAT-CTGAAAAACGCCGCTAAATATTA-ACACTTTT
1 GCGGCGTTTGTATCCT-AAAAACGCCGCTATATACCAGAC-CTATT
*
43935 AACGGCGTTTGTATCCTAAAAACGCCGCTATATACCAGACCTATT
1 -GCGGCGTTTGTATCCTAAAAACGCCGCTATATACCAGACCTATT
* *
43980 GCGGCGTTTGTATCCTAAAAACGCTGCTATATACCAGACCTATA
1 GCGGCGTTTGTATCCTAAAAACGCCGCTATATACCAGACCTATT
* ** * ** * *
44024 GCGACACTTGTATCCTAAACACGGTGCTATATACCAGTCCTATA
1 GCGGCGTTTGTATCCTAAAAACGCCGCTATATACCAGACCTATT
* * * **
44068 GCGGCGTTTGTACCCTGAAAACGCCGCTAAATACCAGATATATT
1 GCGGCGTTTGTATCCTAAAAACGCCGCTATATACCAGACCTATT
*
44112 GCGGTGTTTG
1 GCGGCGTTTG
44122 CATAAAAAAA
Statistics
Matches: 156, Mismatches: 28, Indels: 5
0.83 0.15 0.03
Matches are distributed among these distances:
44 119 0.76
45 33 0.21
46 4 0.03
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (44 bp):
GCGGCGTTTGTATCCTAAAAACGCCGCTATATACCAGACCTATT
Found at i:57594 original size:18 final size:18
Alignment explanation
Indices: 57567--57607 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
57557 TACATAAGTG
57567 ATGT-TGTGACATATGTC
1 ATGTGTGTGACATATGTC
57584 ATGTGTGTGACATATGTC
1 ATGTGTGTGACATATGTC
57602 ATGTGT
1 ATGTGT
57608 ACATATGTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.22, C:0.10, G:0.27, T:0.41
Consensus pattern (18 bp):
ATGTGTGTGACATATGTC
Found at i:57624 original size:18 final size:17
Alignment explanation
Indices: 57570--57620 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 17
57560 ATAAGTGATG
57570 TTGTG-ACATATGTCAT
1 TTGTGTACATATGTCAT
*
57586 GTGTGTGACATATGTCA-
1 TTGTGT-ACATATGTCAT
*
57603 -TGTGTACATATGTGAT
1 TTGTGTACATATGTCAT
57619 TT
1 TT
57621 TGTGGCATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
15 9 0.31
16 9 0.31
17 1 0.03
18 10 0.34
ACGTcount: A:0.24, C:0.10, G:0.24, T:0.43
Consensus pattern (17 bp):
TTGTGTACATATGTCAT
Found at i:74561 original size:4 final size:4
Alignment explanation
Indices: 74547--74644 Score: 124
Period size: 4 Copynumber: 24.5 Consensus size: 4
74537 ATTATTATTT
* * * * *
74547 TCTC CCTC TCTC TCTC TCTC TCCC TCCC TCTC TCTC TCTC TCCC TCCC
1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC
* * *
74595 TCTC TCTC TCTC CCTC TCTC TCTC CCTC TCTC TCCC TCTC TCTC TCTC
1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC
74643 TC
1 TC
74645 CCCTTCTAAT
Statistics
Matches: 82, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 82 1.00
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (4 bp):
TCTC
Found at i:74565 original size:10 final size:10
Alignment explanation
Indices: 74547--74644 Score: 124
Period size: 10 Copynumber: 9.8 Consensus size: 10
74537 ATTATTATTT
*
74547 TCTCCCTCTC
1 TCTCTCTCTC
74557 TCTCTCTCTC
1 TCTCTCTCTC
* *
74567 TCCCTCCCTC
1 TCTCTCTCTC
74577 TCTCTCTCTC
1 TCTCTCTCTC
* *
74587 TCCCTCCCTC
1 TCTCTCTCTC
74597 TCTCTCTCTC
1 TCTCTCTCTC
*
74607 CCTCTCTCTC
1 TCTCTCTCTC
*
74617 TCCCTCTCTC
1 TCTCTCTCTC
*
74627 TCCCTCTCTC
1 TCTCTCTCTC
74637 TCTCTCTC
1 TCTCTCTC
74645 CCCTTCTAAT
Statistics
Matches: 75, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 75 1.00
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (10 bp):
TCTCTCTCTC
Found at i:74574 original size:22 final size:22
Alignment explanation
Indices: 74548--74636 Score: 124
Period size: 22 Copynumber: 4.0 Consensus size: 22
74538 TTATTATTTT
*
74548 CTCCCTCTCTCTCTCTCTCTCC
1 CTCCCTCTCTCTCCCTCTCTCC
*
74570 CTCCCTCTCTCTCTCTCTCCCTCC
1 CTCCCTCTCTCTC-C-CTCTCTCC
* *
74594 CTCTCTCTCTCTCCCTCTCTCT
1 CTCCCTCTCTCTCCCTCTCTCC
74616 CTCCCTCTCTCTCCCTCTCTC
1 CTCCCTCTCTCTCCCTCTCTC
74637 TCTCTCTCCC
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
22 39 0.66
23 1 0.02
24 19 0.32
ACGTcount: A:0.00, C:0.60, G:0.00, T:0.40
Consensus pattern (22 bp):
CTCCCTCTCTCTCCCTCTCTCC
Found at i:74579 original size:20 final size:19
Alignment explanation
Indices: 74547--74646 Score: 143
Period size: 18 Copynumber: 5.3 Consensus size: 19
74537 ATTATTATTT
74547 TCTCCCT-CTCTCTCTCTC
1 TCTCCCTCCTCTCTCTCTC
74565 TCTCCCTCCCTCTCTCTCTC
1 TCTCCCT-CCTCTCTCTCTC
74585 TCTCCCTCC-CTCTCTCTC
1 TCTCCCTCCTCTCTCTCTC
*
74603 TCTCCCT-CTCTCTCTCCC
1 TCTCCCTCCTCTCTCTCTC
*
74621 TCTCTCTCCCTCTCTCTCTC
1 TCTCCCT-CCTCTCTCTCTC
74641 TCTCCC
1 TCTCCC
74647 CTTCTAATTC
Statistics
Matches: 73, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
17 1 0.01
18 37 0.51
19 2 0.03
20 33 0.45
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (19 bp):
TCTCCCTCCTCTCTCTCTC
Found at i:75478 original size:59 final size:59
Alignment explanation
Indices: 75358--75471 Score: 156
Period size: 60 Copynumber: 1.9 Consensus size: 59
75348 AATAATCGGT
* ** * *
75358 GATCATTTTATAACTTTTATAATTAGAGGACTCAACAAAGTAGTGTCTAATAATTAAAG
1 GATCACTTTATAACTTTTATAATTAGAGGACTCAACAAAACAATATCTAATAATTAAAG
* *
75417 GATCACTTTATAACTTTTAATAATTAGATGACTCAACAAAACAATATCTTATAAT
1 GATCACTTTATAACTTTT-ATAATTAGAGGACTCAACAAAACAATATCTAATAAT
75472 CAAGGATAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
59 17 0.36
60 30 0.64
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.36
Consensus pattern (59 bp):
GATCACTTTATAACTTTTATAATTAGAGGACTCAACAAAACAATATCTAATAATTAAAG
Found at i:75975 original size:16 final size:15
Alignment explanation
Indices: 75931--75977 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
75921 AGAATTTAAA
75931 AATATTTTATATT-TTT
1 AATA-TTTA-ATTATTT
75947 AATATTTAA-TATTT
1 AATATTTAATTATTT
75961 AATATATTAATTATTT
1 AATAT-TTAATTATTT
75977 A
1 A
75978 TAATTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 1 0.04
14 9 0.32
15 8 0.29
16 10 0.36
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
AATATTTAATTATTT
Found at i:76027 original size:16 final size:17
Alignment explanation
Indices: 75991--76035 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
75981 TTTTATAGGA
75991 TAAAAATAATATTATTG
1 TAAAAATAATATTATTG
76008 TAAAAAT-ATAATTATT-
1 TAAAAATAAT-ATTATTG
76024 T-AAAATAATATT
1 TAAAAATAATATT
76036 TAACTTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 8 0.31
16 5 0.19
17 13 0.50
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (17 bp):
TAAAAATAATATTATTG
Found at i:84139 original size:22 final size:23
Alignment explanation
Indices: 84114--84166 Score: 56
Period size: 21 Copynumber: 2.4 Consensus size: 23
84104 TAAAACGATT
*
84114 GAAAATGTGCC-AAAAGGCAG-A
1 GAAAACGTGCCGAAAAGGCAGAA
* *
84135 GGAAACGTGCCGTAAAGGCAGAA
1 GAAAACGTGCCGAAAAGGCAGAA
*
84158 GAAAGCGTG
1 GAAAACGTG
84167 TCATAAAGGT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
21 9 0.36
22 8 0.32
23 8 0.32
ACGTcount: A:0.42, C:0.15, G:0.34, T:0.09
Consensus pattern (23 bp):
GAAAACGTGCCGAAAAGGCAGAA
Found at i:84173 original size:23 final size:22
Alignment explanation
Indices: 84120--84175 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
84110 GATTGAAAAT
*
84120 GTGCCA-AAAGGCAGAGGAAAC
1 GTGCCATAAAGGCAGAAGAAAC
*
84141 GTGCCGTAAAGGCAGAAGAAAGC
1 GTGCCATAAAGGCAGAAGAAA-C
*
84164 GTGTCATAAAGG
1 GTGCCATAAAGG
84176 TATAATTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 5 0.17
22 13 0.45
23 11 0.38
ACGTcount: A:0.39, C:0.16, G:0.34, T:0.11
Consensus pattern (22 bp):
GTGCCATAAAGGCAGAAGAAAC
Found at i:84777 original size:25 final size:25
Alignment explanation
Indices: 84749--84800 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
84739 TGTTAGATTT
84749 TTAACTAATATTTAATC-TGTAAACA
1 TTAAC-AATATTTAATCTTGTAAACA
* * *
84774 TTAACATTGTTTAATCTTTTAAACA
1 TTAACAATATTTAATCTTGTAAACA
84799 TT
1 TT
84801 TTAGCCAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.38, C:0.12, G:0.04, T:0.46
Consensus pattern (25 bp):
TTAACAATATTTAATCTTGTAAACA
Found at i:85065 original size:33 final size:31
Alignment explanation
Indices: 85011--85091 Score: 99
Period size: 32 Copynumber: 2.5 Consensus size: 31
85001 TAAAATAATA
* *
85011 ATTAAATTTATCAAATTATTATGAAAACGATC
1 ATTAAATTTATCAAGTAATTAT-AAAACGATC
* * *
85043 GTTAAATTTTATCGAGTAATTATAAAATGATC
1 ATTAAA-TTTATCAAGTAATTATAAAACGATC
85075 ATTAAATTTATCAAGTA
1 ATTAAATTTATCAAGTA
85092 TTTACATTTA
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
31 10 0.24
32 18 0.44
33 13 0.32
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.40
Consensus pattern (31 bp):
ATTAAATTTATCAAGTAATTATAAAACGATC
Found at i:88330 original size:22 final size:22
Alignment explanation
Indices: 88303--88344 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
88293 ATTTAGAAAA
* *
88303 AATATTCTAATATTTTTTAATT
1 AATATTATAACATTTTTTAATT
88325 AATATTATAACATTTTTTAA
1 AATATTATAACATTTTTTAA
88345 ACTAAATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (22 bp):
AATATTATAACATTTTTTAATT
Found at i:89790 original size:36 final size:36
Alignment explanation
Indices: 89727--89858 Score: 185
Period size: 36 Copynumber: 3.7 Consensus size: 36
89717 AAAGATGAAC
* * * *
89727 ACTTGAAACGAAAGTG-CGATACATCCTTCTGTTCG
1 ACTTGAATCGGAAGTGTCGATGCTTCCTTCTGTTCG
*
89762 ACTTAAATCGGAAGTGTCGATGCTTCCTTCTGTTCG
1 ACTTGAATCGGAAGTGTCGATGCTTCCTTCTGTTCG
* * *
89798 ATTTGAATCGGAAGTGCCGATGCTTCCTTCCGTTCG
1 ACTTGAATCGGAAGTGTCGATGCTTCCTTCTGTTCG
89834 ACTTGAATCGGAAGTGTCGATGCTT
1 ACTTGAATCGGAAGTGTCGATGCTT
89859 TCTTTCGTTC
Statistics
Matches: 85, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
35 13 0.15
36 72 0.85
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.33
Consensus pattern (36 bp):
ACTTGAATCGGAAGTGTCGATGCTTCCTTCTGTTCG
Found at i:103046 original size:15 final size:16
Alignment explanation
Indices: 103022--103051 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
103012 AAATATCTTT
103022 TTAATATTTTTTTAAA
1 TTAATATTTTTTTAAA
103038 TTAAT-TTTTTTTAA
1 TTAATATTTTTTTAA
103052 TCCTCAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTAATATTTTTTTAAA
Found at i:108772 original size:16 final size:16
Alignment explanation
Indices: 108751--108783 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
108741 TAATAAATAG
*
108751 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
108767 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
108783 A
1 A
108784 ATTTTTTGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.58, C:0.21, G:0.12, T:0.09
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:108874 original size:16 final size:16
Alignment explanation
Indices: 108853--108913 Score: 104
Period size: 16 Copynumber: 3.8 Consensus size: 16
108843 TAAAAAATAA
108853 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
108869 ACGAACATAAACGGAC
1 ACGAACATAAACGAAC
*
108885 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
108901 ACGAACATAAACG
1 ACGAACATAAACG
108914 TTGGAGACCC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 41 1.00
ACGTcount: A:0.54, C:0.23, G:0.15, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:109669 original size:10 final size:10
Alignment explanation
Indices: 109654--109701 Score: 51
Period size: 10 Copynumber: 4.4 Consensus size: 10
109644 ATAAATGAAT
109654 GAACATAAAC
1 GAACATAAAC
109664 GAACATAATCGAAC
1 GAACAT-A---AAC
109678 GAACATAAAC
1 GAACATAAAC
*
109688 GAACATAATC
1 GAACATAAAC
109698 GAAC
1 GAAC
109702 GAACATAACC
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
10 22 0.67
11 1 0.03
13 1 0.03
14 9 0.27
ACGTcount: A:0.54, C:0.21, G:0.12, T:0.12
Consensus pattern (10 bp):
GAACATAAAC
Found at i:109678 original size:14 final size:14
Alignment explanation
Indices: 109661--109716 Score: 75
Period size: 14 Copynumber: 4.3 Consensus size: 14
109651 AATGAACATA
109661 AACGAACATAATCG
1 AACGAACATAATCG
109675 AACGAACAT-A---
1 AACGAACATAATCG
109685 AACGAACATAATCG
1 AACGAACATAATCG
*
109699 AACGAACATAACCG
1 AACGAACATAATCG
109713 AACG
1 AACG
109717 TTCACGAACG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
10 9 0.24
11 1 0.03
13 1 0.03
14 26 0.70
ACGTcount: A:0.52, C:0.23, G:0.14, T:0.11
Consensus pattern (14 bp):
AACGAACATAATCG
Found at i:109726 original size:24 final size:24
Alignment explanation
Indices: 109641--109715 Score: 116
Period size: 24 Copynumber: 3.1 Consensus size: 24
109631 TATTGGGTTA
*
109641 AACATAAAT-GAATGAACATAAACG
1 AACAT-AATCGAACGAACATAAACG
109665 AACATAATCGAACGAACATAAACG
1 AACATAATCGAACGAACATAAACG
*
109689 AACATAATCGAACGAACATAACCG
1 AACATAATCGAACGAACATAAACG
109713 AAC
1 AAC
109716 GTTCACGAAC
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
23 3 0.06
24 45 0.94
ACGTcount: A:0.55, C:0.20, G:0.12, T:0.13
Consensus pattern (24 bp):
AACATAATCGAACGAACATAAACG
Found at i:112160 original size:29 final size:29
Alignment explanation
Indices: 112124--112182 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
112114 TTCGATTGTC
112124 GATTATTAACCTTTATTTCTCACTGGCTT
1 GATTATTAACCTTTATTTCTCACTGGCTT
112153 GATTATTAACCTTTATTTCTCACTGGCTT
1 GATTATTAACCTTTATTTCTCACTGGCTT
112182 G
1 G
112183 CTTGCCTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.47
Consensus pattern (29 bp):
GATTATTAACCTTTATTTCTCACTGGCTT
Found at i:115571 original size:14 final size:14
Alignment explanation
Indices: 115552--115588 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
115542 GACCCACTTA
115552 AACAACTTTAAGCT
1 AACAACTTTAAGCT
115566 AACAACTTTAAGCT
1 AACAACTTTAAGCT
115580 AACAACTTT
1 AACAACTTT
115589 GAATCAAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.43, C:0.22, G:0.05, T:0.30
Consensus pattern (14 bp):
AACAACTTTAAGCT
Found at i:124549 original size:15 final size:15
Alignment explanation
Indices: 124512--124550 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
124502 AGTAATTAAC
124512 ATATTAAATAAAATT
1 ATATTAAATAAAATT
*
124527 AT-TATAAATAATATT
1 ATAT-TAAATAAAATT
124542 ATATTAAAT
1 ATATTAAAT
124551 TATAAAGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 1 0.05
15 19 0.90
16 1 0.05
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATATTAAATAAAATT
Found at i:125593 original size:20 final size:21
Alignment explanation
Indices: 125568--125607 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
125558 AGTATGTCCA
125568 GGGGGTATCGATTC-CCCCTG
1 GGGGGTATCGATTCTCCCCTG
*
125588 GGGGGTATCGGTTCTCCCCT
1 GGGGGTATCGATTCTCCCCT
125608 AAAGGAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.07, C:0.30, G:0.35, T:0.28
Consensus pattern (21 bp):
GGGGGTATCGATTCTCCCCTG
Found at i:126258 original size:15 final size:15
Alignment explanation
Indices: 126240--126274 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
126230 CGAGGGTATT
*
126240 GTAGTCTTTCGAGAC
1 GTAGTCCTTCGAGAC
*
126255 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGAGAC
126270 GTAGT
1 GTAGT
126275 GGTCCTATGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.17, C:0.20, G:0.31, T:0.31
Consensus pattern (15 bp):
GTAGTCCTTCGAGAC
Found at i:133828 original size:6 final size:6
Alignment explanation
Indices: 133819--133861 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
133809 TGTTACACGT
* * *
133819 ATTACC ATTACC ATTACC AATACC ATTACC AATACC AATACC A
1 ATTACC ATTACC ATTACC ATTACC ATTACC ATTACC ATTACC A
133862 CGACCACGAC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.42, C:0.33, G:0.00, T:0.26
Consensus pattern (6 bp):
ATTACC
Found at i:133836 original size:12 final size:12
Alignment explanation
Indices: 133819--133861 Score: 68
Period size: 12 Copynumber: 3.6 Consensus size: 12
133809 TGTTACACGT
*
133819 ATTACCATTACC
1 ATTACCAATACC
133831 ATTACCAATACC
1 ATTACCAATACC
133843 ATTACCAATACC
1 ATTACCAATACC
*
133855 AATACCA
1 ATTACCA
133862 CGACCACGAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.42, C:0.33, G:0.00, T:0.26
Consensus pattern (12 bp):
ATTACCAATACC
Found at i:133844 original size:18 final size:18
Alignment explanation
Indices: 133821--133861 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
133811 TTACACGTAT
*
133821 TACCATTACCATTACCAA
1 TACCATTACCAATACCAA
133839 TACCATTACCAATACCAA
1 TACCATTACCAATACCAA
133857 TACCA
1 TACCA
133862 CGACCACGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.41, C:0.34, G:0.00, T:0.24
Consensus pattern (18 bp):
TACCATTACCAATACCAA
Found at i:133867 original size:18 final size:18
Alignment explanation
Indices: 133828--133867 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
133818 TATTACCATT
* **
133828 ACCATTACCAATACCATT
1 ACCAATACCAATACCACG
133846 ACCAATACCAATACCACG
1 ACCAATACCAATACCACG
133864 ACCA
1 ACCA
133868 CGACCACGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.38, G:0.03, T:0.17
Consensus pattern (18 bp):
ACCAATACCAATACCACG
Found at i:134433 original size:21 final size:21
Alignment explanation
Indices: 134407--134480 Score: 121
Period size: 21 Copynumber: 3.5 Consensus size: 21
134397 GTCGTGGTAA
134407 TCGAAGTTCGCATTGTGATAG
1 TCGAAGTTCGCATTGTGATAG
134428 TCGAAGTTCGCATTGTGATAG
1 TCGAAGTTCGCATTGTGATAG
* **
134449 TCAAAGTTTACATTGTGATAG
1 TCGAAGTTCGCATTGTGATAG
134470 TCGAAGTTCGC
1 TCGAAGTTCGC
134481 GTTGCGAATC
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.34
Consensus pattern (21 bp):
TCGAAGTTCGCATTGTGATAG
Found at i:140467 original size:16 final size:16
Alignment explanation
Indices: 140432--140467 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
140422 TATTGGATTG
*
140432 CAATACTTCGACCAAG
1 CAATACTTCGACCAAA
*
140448 CAATACTTCGATCAAA
1 CAATACTTCGACCAAA
140464 CAAT
1 CAAT
140468 GCTTTCCACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.42, C:0.28, G:0.08, T:0.22
Consensus pattern (16 bp):
CAATACTTCGACCAAA
Found at i:142471 original size:24 final size:23
Alignment explanation
Indices: 142445--142502 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 23
142435 TGTAAATAAA
*
142445 ATAATAATAATAATG-CTAATAATA
1 ATAATAA-AATAACGAC-AATAATA
142469 ATAATTAAAATAACGACAATAATA
1 ATAA-TAAAATAACGACAATAATA
142493 ATATATAAAA
1 ATA-ATAAAA
142503 AAGACCCGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
24 25 0.83
25 5 0.17
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.29
Consensus pattern (23 bp):
ATAATAAAATAACGACAATAATA
Found at i:142860 original size:43 final size:43
Alignment explanation
Indices: 142794--143120 Score: 127
Period size: 43 Copynumber: 7.4 Consensus size: 43
142784 ATAACTCGGT
* *
142794 TCCTACACGATGAGGACGGCTGGTTATCTAGGGG-TGACACGGC
1 TCCTACGCGATGAGGA-GTCTGGTTATCTAGGGGATGACACGGC
* *
142837 TCCTACGCGATGAGGAGATCTGG---TC-GGGGGATGACACGAC
1 TCCTACGCGATGAGGAG-TCTGGTTATCTAGGGGATGACACGGC
* * * ** * * *
142877 TCATACGTGATGAAGAGTTCTGGCCATCTTTAGGAAGGGCGATAACATGGT
1 TCCTACGCGATGAGGAG-TCTGGTTATC--T----AGGG-GATGACACGGC
* *
142928 TCCTACGTGATGAGGACGTCTAGTTATCTAGGGG-TGACACGGC
1 TCCTACGCGATGAGGA-GTCTGGTTATCTAGGGGATGACACGGC
* *
142971 TCCTACGCGATGAGGAGATCTGG---TC-GGGGGATGACACGAC
1 TCCTACGCGATGAGGAG-TCTGGTTATCTAGGGGATGACACGGC
* * * ** * * *
143011 TCATACGTGATGAAGAGTTCTGGCCATCTTTAGGAAGGGCGATAACATGGT
1 TCCTACGCGATGAGGAG-TCTGGTTATC--T----AGGG-GATGACACGGC
* * **
143062 TCCTACGTGATGAGGACGTCTAGTTATCTAGGGG-TGACACGAT
1 TCCTACGCGATGAGGA-GTCTGGTTATCTAGGGGATGACACGGC
*
143105 TCCTACGTGATGAGGA
1 TCCTACGCGATGAGGA
143121 CGGCTGGCCA
Statistics
Matches: 214, Mismatches: 42, Indels: 56
0.69 0.13 0.18
Matches are distributed among these distances:
39 8 0.04
40 58 0.27
42 2 0.01
43 70 0.33
44 2 0.01
45 8 0.04
49 2 0.01
50 6 0.03
51 56 0.26
52 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.33, T:0.24
Consensus pattern (43 bp):
TCCTACGCGATGAGGAGTCTGGTTATCTAGGGGATGACACGGC
Found at i:142889 original size:40 final size:41
Alignment explanation
Indices: 142824--143033 Score: 124
Period size: 40 Copynumber: 4.9 Consensus size: 41
142814 TGGTTATCTA
*
142824 GGGG-TGACACGGCTCCTACGCGATGAGGAGATCTGGTC-G
1 GGGGATGACACGGCTCCTACGTGATGAGGAGATCTGGTCTG
* * * *
142863 GGGGATGACACGACTCATACGTGATGAAGAGTTCTGGCCATCTTTAGG
1 GGGGATGACACGGCTCCTACGTGATGAGGAGATCTGG---TC--T--G
* * * * *
142911 AAGGGCGATAACATGGTTCCTACGTGATGAGGACG-TCTAGTTATCTA
1 --GGG-GATGACACGGCTCCTACGTGATGAGGA-GATCT-G--GTCTG
*
142958 GGGG-TGACACGGCTCCTACGCGATGAGGAGATCTGGTC-G
1 GGGGATGACACGGCTCCTACGTGATGAGGAGATCTGGTCTG
* * * *
142997 GGGGATGACACGACTCATACGTGATGAAGAGTTCTGG
1 GGGGATGACACGGCTCCTACGTGATGAGGAGATCTGG
143034 CCATCTTTAG
Statistics
Matches: 129, Mismatches: 24, Indels: 35
0.69 0.13 0.19
Matches are distributed among these distances:
39 8 0.06
40 56 0.43
42 2 0.02
43 26 0.20
44 1 0.01
45 3 0.02
48 1 0.01
49 1 0.01
50 3 0.02
51 26 0.20
52 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.35, T:0.22
Consensus pattern (41 bp):
GGGGATGACACGGCTCCTACGTGATGAGGAGATCTGGTCTG
Found at i:142954 original size:134 final size:134
Alignment explanation
Indices: 142683--143120 Score: 680
Period size: 134 Copynumber: 3.3 Consensus size: 134
142673 AGTTCGGGTC
* * ** * * * **
142683 ATCTAAGGGTGACACGATTCCTACATGATGAGGAAATATGGTCGAGGGATGACACTTTCTCATAC
1 ATCTAGGGGTGACACGACTCCTACGCGATGAGGAGATCTGGTCGGGGGATGACAC-GACTCATAC
* **
142748 GTGATGAAGAGTTCTTGGCCATCTTTAGGAAGGGTGATAAC-TCGGTTCCTACACGATGAGGACG
65 GTGATGAAGAGTTC-TGGCCATCTTTAGGAAGGGCGATAACAT-GGTTCCTACGTGATGAGGACG
* *
142812 GCTGGTT
128 TCTAGTT
*
142819 ATCTAGGGGTGACACGGCTCCTACGCGATGAGGAGATCTGGTCGGGGGATGACACGACTCATACG
1 ATCTAGGGGTGACACGACTCCTACGCGATGAGGAGATCTGGTCGGGGGATGACACGACTCATACG
142884 TGATGAAGAGTTCTGGCCATCTTTAGGAAGGGCGATAACATGGTTCCTACGTGATGAGGACGTCT
66 TGATGAAGAGTTCTGGCCATCTTTAGGAAGGGCGATAACATGGTTCCTACGTGATGAGGACGTCT
142949 AGTT
131 AGTT
*
142953 ATCTAGGGGTGACACGGCTCCTACGCGATGAGGAGATCTGGTCGGGGGATGACACGACTCATACG
1 ATCTAGGGGTGACACGACTCCTACGCGATGAGGAGATCTGGTCGGGGGATGACACGACTCATACG
143018 TGATGAAGAGTTCTGGCCATCTTTAGGAAGGGCGATAACATGGTTCCTACGTGATGAGGACGTCT
66 TGATGAAGAGTTCTGGCCATCTTTAGGAAGGGCGATAACATGGTTCCTACGTGATGAGGACGTCT
143083 AGTT
131 AGTT
* *
143087 ATCTAGGGGTGACACGATTCCTACGTGATGAGGA
1 ATCTAGGGGTGACACGACTCCTACGCGATGAGGA
143121 CGGCTGGCCA
Statistics
Matches: 283, Mismatches: 18, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
134 214 0.76
135 22 0.08
136 47 0.17
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.25
Consensus pattern (134 bp):
ATCTAGGGGTGACACGACTCCTACGCGATGAGGAGATCTGGTCGGGGGATGACACGACTCATACG
TGATGAAGAGTTCTGGCCATCTTTAGGAAGGGCGATAACATGGTTCCTACGTGATGAGGACGTCT
AGTT
Found at i:143239 original size:31 final size:28
Alignment explanation
Indices: 143147--143242 Score: 106
Period size: 28 Copynumber: 3.3 Consensus size: 28
143137 GGAGTTATGA
* * *
143147 TTTCAAGAGAAACCGATTCAAAGATTTG
1 TTTCAAAAGAAACAGACTCAAAGATTTG
143175 TTTCAAAAGAAACAGACTCAAAGATTTG
1 TTTCAAAAGAAACAGACTCAAAGATTTG
143203 TTTCAAGAA-AAACA-AGCTCAAAGATAATGTG
1 TTTCAA-AAGAAACAGA-CTCAAAGAT--T-TG
143234 TTTCAAAAG
1 TTTCAAAAG
143243 CAACTGTCTC
Statistics
Matches: 59, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
27 1 0.02
28 45 0.76
29 2 0.03
30 3 0.05
31 8 0.14
ACGTcount: A:0.45, C:0.14, G:0.16, T:0.26
Consensus pattern (28 bp):
TTTCAAAAGAAACAGACTCAAAGATTTG
Found at i:143433 original size:66 final size:63
Alignment explanation
Indices: 143244--143426 Score: 152
Period size: 66 Copynumber: 2.8 Consensus size: 63
143234 TTTCAAAAGC
* ** * *
143244 AACTGTCTCGAAAGAGACAAAATTCGTTTCAAATGAAAC-AACTCAAAAGATGACGTTTAAAGGG
1 AACTGTCTC-AAAGAGACAAAATTCATTTCAAGGGAAACGATCTC-AAAGATGATGTTTAAAGGG
* * ** * * * * * * *
143308 AATTGTCTCAAGCGAGACAAAATTTGTTTTTAAGGGAGACGTTCTCAAATATCGGTGTTTCATGG
1 AACTGTCTCAA-AGAGACAAAA-TTCATTTCAAGGGAAACGATCTCAAAGAT-GATGTTTAAAGG
143373 G
63 G
143374 AAACTGTCTCAAATGAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGATG
1 -AACTGTCTCAAA-GAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGATG
143427 TTTGTTTTGT
Statistics
Matches: 90, Mismatches: 23, Indels: 11
0.73 0.19 0.09
Matches are distributed among these distances:
63 2 0.02
64 17 0.19
65 17 0.19
66 35 0.39
67 19 0.21
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.26
Consensus pattern (63 bp):
AACTGTCTCAAAGAGACAAAATTCATTTCAAGGGAAACGATCTCAAAGATGATGTTTAAAGGG
Found at i:143879 original size:40 final size:40
Alignment explanation
Indices: 143835--143914 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
143825 GTTTTAATAG
143835 AAACGATCTCAAAGGTGGGTATTTTCAAAAGAAGTTGTCT
1 AAACGATCTCAAAGGTGGGTATTTTCAAAAGAAGTTGTCT
143875 AAACGATCTCAAAGGTGGGTATTTTCAAAAGAAGTTGTCT
1 AAACGATCTCAAAGGTGGGTATTTTCAAAAGAAGTTGTCT
143915 CGAGAGACAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (40 bp):
AAACGATCTCAAAGGTGGGTATTTTCAAAAGAAGTTGTCT
Found at i:143967 original size:63 final size:64
Alignment explanation
Indices: 143896--144020 Score: 171
Period size: 64 Copynumber: 2.0 Consensus size: 64
143886 AAGGTGGGTA
* * *
143896 TTTTCAAAAGAAGTTG-TCTCGAGAGACAAAATTTTGTTTCAAAGGAAACAAACTCAAAGATTT
1 TTTTCAAAAGAAATTGTTCTCAAGAGACAAAATTTTGTTTCAAAAGAAACAAACTCAAAGATTT
* * * * *
143959 TTTTCAAAAGAAATTGTTTTTAAGAGATAAAATTTTGTTTTAAAAGAAACAGACTCAAAGAT
1 TTTTCAAAAGAAATTGTTCTCAAGAGACAAAATTTTGTTTCAAAAGAAACAAACTCAAAGAT
144021 GGATCACATC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
63 15 0.28
64 38 0.72
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (64 bp):
TTTTCAAAAGAAATTGTTCTCAAGAGACAAAATTTTGTTTCAAAAGAAACAAACTCAAAGATTT
Found at i:144260 original size:64 final size:64
Alignment explanation
Indices: 144181--144393 Score: 191
Period size: 67 Copynumber: 3.3 Consensus size: 64
144171 TTTCAAAATG
* * * *
144181 AACATATTCAAAGATTTACTT-CAAGAGAAACTGTCTCAAGAGATACAAAATTCAT-TTT-AAGA
1 AACAGATTCAAAGATTT-CTTCCAAAAGAAACTATCTCAAGAGAGACAAAATT-ATGTTTCAA-A
144243 GA
63 GA
* * * *
144245 AACAGATTCAAAGATTTTTTCCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAAAGA
1 AACAGATTCAAAGATTTCTTCCAAAAGAAACTATCTCAAGAGAGACAAAATTATGTTT-CAAAGA
* * * * * *
144310 AACAGACTCAAAGATTTTTGTTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAAA
1 AACAGATTCAAAGA--TTTCTTCCAAAAGAAACTATCTCAAGAGAGACAAAATTATGTTT-CAAA
144375 GA
63 GA
*
144377 AACCA-ACTCAAAGATTT
1 AA-CAGATTCAAAGATTT
144394 TTTTACAAAA
Statistics
Matches: 131, Mismatches: 11, Indels: 13
0.85 0.07 0.08
Matches are distributed among these distances:
63 3 0.02
64 45 0.34
65 19 0.15
66 2 0.02
67 60 0.46
68 2 0.02
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.30
Consensus pattern (64 bp):
AACAGATTCAAAGATTTCTTCCAAAAGAAACTATCTCAAGAGAGACAAAATTATGTTTCAAAGA
Found at i:144353 original size:67 final size:65
Alignment explanation
Indices: 144242--144432 Score: 273
Period size: 67 Copynumber: 3.0 Consensus size: 65
144232 TCATTTTAAG
* *
144242 AGAAACAGATTCAAAGATTTTTTCCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAA
1 AGAAACAGACTCAAAGATTTTTTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAA
144307 AGAAACAGACTCAAAGATTTTTGTTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCC
1 AGAAACAGACTCAAAGA-TTTT-TTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCC
144372 AA
64 AA
* * * *
144374 AGAAACCA-ACTCAAAGATTTTTTT--ACA-AAATTGTCTCAAGAGAGACAAAACTTTGTTTC
1 AGAAA-CAGACTCAAAGATTTTTTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTC
144433 AGACTCAAAG
Statistics
Matches: 117, Mismatches: 6, Indels: 9
0.89 0.05 0.07
Matches are distributed among these distances:
62 29 0.25
63 2 0.02
65 19 0.16
66 8 0.07
67 57 0.49
68 2 0.02
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.31
Consensus pattern (65 bp):
AGAAACAGACTCAAAGATTTTTTTCAAAAGAAATTATCTTAAGAGAGACAAAATTTTGTTTCCAA
Found at i:144461 original size:52 final size:53
Alignment explanation
Indices: 144382--144485 Score: 183
Period size: 52 Copynumber: 2.0 Consensus size: 53
144372 AAAGAAACCA
*
144382 ACTCAAAGATTTTTTTACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAG
1 ACTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAG
*
144435 ACTCAAAGA-TTTTTCACGAAATTGTCTCAAGAGAGACAAAACTTTGTTTCA
1 ACTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCA
144486 AAATAAATAG
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
52 40 0.82
53 9 0.18
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (53 bp):
ACTCAAAGATTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAG
Found at i:144536 original size:29 final size:30
Alignment explanation
Indices: 144477--144663 Score: 160
Period size: 27 Copynumber: 6.5 Consensus size: 30
144467 GAGACAAAAC
* * *
144477 TTTGTTTCAAAATAAATAGACTCAAAGATT
1 TTTGTTTCAAAAGAAACAAACTCAAAGATT
* *
144507 TTTGTTTCAAACGAAAC-AACTCAAAAATT
1 TTTGTTTCAAAAGAAACAAACTCAAAGATT
* * *
144536 TTTATTT-AAAAGGAACAAACTCCAAGATT
1 TTTGTTTCAAAAGAAACAAACTCAAAGATT
* *
144565 TTT-ATTCAAAAGGAACAAACTCAAAGA--
1 TTTGTTTCAAAAGAAACAAACTCAAAGATT
* *
144592 TTT-TTTCAAGAGGAACAAACTCAAAGA--
1 TTTGTTTCAAAAGAAACAAACTCAAAGATT
* *
144619 TTT-TTTCAAGAGGAACAAACTCAAAGATT
1 TTTGTTTCAAAAGAAACAAACTCAAAGATT
*
144648 TTT-TCCTCAAAAGAAA
1 TTTGT-TTCAAAAGAAA
144664 TTGTCTTTAA
Statistics
Matches: 135, Mismatches: 17, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
27 52 0.39
28 9 0.07
29 52 0.39
30 22 0.16
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.30
Consensus pattern (30 bp):
TTTGTTTCAAAAGAAACAAACTCAAAGATT
Found at i:144607 original size:27 final size:27
Alignment explanation
Indices: 144546--144652 Score: 178
Period size: 27 Copynumber: 3.9 Consensus size: 27
144536 TTTATTTAAA
* *
144546 AGGAACAAACTCCAAGATTTTTATTCAAA
1 AGGAACAAACTCAAAGA-TTTT-TTCAAG
144575 AGGAACAAACTCAAAGATTTTTTCAAG
1 AGGAACAAACTCAAAGATTTTTTCAAG
144602 AGGAACAAACTCAAAGATTTTTTCAAG
1 AGGAACAAACTCAAAGATTTTTTCAAG
144629 AGGAACAAACTCAAAGATTTTTTC
1 AGGAACAAACTCAAAGATTTTTTC
144653 CTCAAAAGAA
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
27 56 0.74
28 4 0.05
29 16 0.21
ACGTcount: A:0.44, C:0.16, G:0.13, T:0.27
Consensus pattern (27 bp):
AGGAACAAACTCAAAGATTTTTTCAAG
Found at i:144644 original size:54 final size:56
Alignment explanation
Indices: 144496--144652 Score: 194
Period size: 54 Copynumber: 2.8 Consensus size: 56
144486 AAATAAATAG
* * * * * *
144496 ACTCAAAGATTTTTGTTTCAAACGAAAC-AACTCAAAAATTTTTATTTAAAAGGAACAA
1 ACTCAAAGATTTTT-ATTCAAAAGGAACAAACTCAAAGA-TTTT-TTCAAGAGGAACAA
*
144554 ACTCCAAGATTTTTATTCAAAAGGAACAAACTCAAAGATTTTTTCAAGAGGAACAA
1 ACTCAAAGATTTTTATTCAAAAGGAACAAACTCAAAGATTTTTTCAAGAGGAACAA
*
144610 ACTCAAAGA-TTTT-TTCAAGAGGAACAAACTCAAAGATTTTTTC
1 ACTCAAAGATTTTTATTCAAAAGGAACAAACTCAAAGATTTTTTC
144653 CTCAAAAGAA
Statistics
Matches: 89, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
54 29 0.33
55 4 0.04
56 20 0.22
57 14 0.16
58 22 0.25
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.30
Consensus pattern (56 bp):
ACTCAAAGATTTTTATTCAAAAGGAACAAACTCAAAGATTTTTTCAAGAGGAACAA
Found at i:144986 original size:36 final size:36
Alignment explanation
Indices: 144902--145005 Score: 124
Period size: 36 Copynumber: 3.0 Consensus size: 36
144892 GAGAAAATGA
* * *
144902 TGTCTCAAGCGAGACGAAATTTG-CTTTA-AGATAT
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAT
* **
144936 AGTCTCAAATGAGACAAAATTTGTTTTTAGAGAAAT
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAT
*
144972 TGTCTCAAGCGAGACAAAGTTTGTTTTT-GAGAAA
1 TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAA
145006 ACGATCTCAA
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
34 19 0.33
35 10 0.17
36 29 0.50
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.33
Consensus pattern (36 bp):
TGTCTCAAGCGAGACAAAATTTGTTTTTAGAGAAAT
Found at i:145033 original size:36 final size:36
Alignment explanation
Indices: 144903--145021 Score: 111
Period size: 36 Copynumber: 3.4 Consensus size: 36
144893 AGAAAATGAT
* * * *
144903 GTCTCAAGCGAGACGAAATTTG-CTTTA-AGATATA-
1 GTCTCAAGTGAGACAAAATTTGTTTTTAGAGA-AAAC
* **
144937 GTCTCAAATGAGACAAAATTTGTTTTTAGAGAAATT
1 GTCTCAAGTGAGACAAAATTTGTTTTTAGAGAAAAC
* *
144973 GTCTCAAGCGAGACAAAGTTTGTTTTT-GAGAAAAC
1 GTCTCAAGTGAGACAAAATTTGTTTTTAGAGAAAAC
145008 GATCTCAAGTGAGA
1 G-TCTCAAGTGAGA
145022 TCAACTTTGT
Statistics
Matches: 69, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
34 19 0.28
35 12 0.17
36 38 0.55
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (36 bp):
GTCTCAAGTGAGACAAAATTTGTTTTTAGAGAAAAC
Found at i:145090 original size:102 final size:104
Alignment explanation
Indices: 144973--145205 Score: 287
Period size: 105 Copynumber: 2.2 Consensus size: 104
144963 TAGAGAAATT
* *
144973 GTCTCAAGCGAGACAAAGTTTGTTTTTG-AG-AA-AACGATCTCAA-GTGAGATCAACTTTGTTT
1 GTCTCAAGCGAGACAAAATTTG-TTTTGAAGAAACAACAATCT-AAGGTGAGATCAACTTTGTTT
* *
145034 A-ATGTGAAACAAATTCGAAATTTGGATCTCAAAGGGAAAAG
64 ATA-GTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
* * *
145075 GTCTCAAGCGAGACAAAATTTGTTTTGAAAGAAACAACAATCTAAGGTGAGATTAATTTTGTTTT
1 GTCTCAAGCGAGACAAAATTTGTTTTG-AAGAAACAACAATCTAAGGTGAGATCAACTTTGTTTA
* * *
145140 TAGTGAATCAAATTCAAAATTTGTATCTCAAAGGAAAAAT
65 TAGTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
**
145180 GTCTCAAGCGAGACGCAATTTGTTTT
1 GTCTCAAGCGAGACAAAATTTGTTTT
145206 AAAATTCTCA
Statistics
Matches: 113, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
101 5 0.04
102 21 0.19
103 2 0.02
104 4 0.04
105 80 0.71
106 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.31
Consensus pattern (104 bp):
GTCTCAAGCGAGACAAAATTTGTTTTGAAGAAACAACAATCTAAGGTGAGATCAACTTTGTTTAT
AGTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
Found at i:145679 original size:4 final size:4
Alignment explanation
Indices: 145670--145711 Score: 70
Period size: 4 Copynumber: 11.0 Consensus size: 4
145660 TTTATGTATC
145670 ATGT ATGT ATG- -TGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
145712 GTATACTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.06
4 34 0.94
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:146919 original size:12 final size:11
Alignment explanation
Indices: 146891--146928 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
146881 CCTCTTTTTG
*
146891 TTCTTTGCTTT
1 TTCTTTGATTT
146902 TTCTTTGATTT
1 TTCTTTGATTT
146913 TTGCTTTGATTT
1 TT-CTTTGATTT
146925 TTCT
1 TTCT
146929 CTTTGCTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 14 0.56
12 11 0.44
ACGTcount: A:0.05, C:0.13, G:0.11, T:0.71
Consensus pattern (11 bp):
TTCTTTGATTT
Found at i:146932 original size:13 final size:12
Alignment explanation
Indices: 146886--146933 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
146876 TTTGTCCTCT
146886 TTTTGTTCTTTG-
1 TTTT-TTCTTTGA
*
146898 CTTTTTCTTTGA
1 TTTTTTCTTTGA
*
146910 TTTTTGCTTTGA
1 TTTTTTCTTTGA
146922 TTTTTCTCTTTG
1 TTTTT-TCTTTG
146934 CTCTTTGTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
11 7 0.23
12 18 0.60
13 5 0.17
ACGTcount: A:0.04, C:0.12, G:0.12, T:0.71
Consensus pattern (12 bp):
TTTTTTCTTTGA
Found at i:150663 original size:16 final size:16
Alignment explanation
Indices: 150642--150678 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
150632 GTATTGGATT
150642 GCAATACTTCGACCAA
1 GCAATACTTCGACCAA
*
150658 GCAATACTTCGATCAA
1 GCAATACTTCGACCAA
150674 GCAAT
1 GCAAT
150679 GCTTTCCACG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.38, C:0.27, G:0.14, T:0.22
Consensus pattern (16 bp):
GCAATACTTCGACCAA
Found at i:150886 original size:4 final size:4
Alignment explanation
Indices: 150877--150916 Score: 80
Period size: 4 Copynumber: 10.0 Consensus size: 4
150867 GTCCTTTATG
150877 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
150917 GAGATCAAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:152674 original size:3 final size:3
Alignment explanation
Indices: 152661--152722 Score: 56
Period size: 3 Copynumber: 20.7 Consensus size: 3
152651 GTAATATGTA
** *
152661 AAT AA- AAT AAT AAT AAT AAT GCT AAT AAT AAT AATT AA- AAT AAC
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT
*
152705 GAT AAT AAT AAT ATAT AA
1 AAT AAT AAT AAT A-AT AA
152723 AAAAGACCCG
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
2 4 0.09
3 37 0.79
4 6 0.13
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:152723 original size:24 final size:23
Alignment explanation
Indices: 152661--152724 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 23
152651 GTAATATGTA
* *
152661 AATAA-AATAATAATAATAATGCT
1 AATAATAATAATAA-AATAACGAT
152684 AATAATAATAATTAAAATAACGAT
1 AATAATAATAA-TAAAATAACGAT
152708 AATAATAATATATAAAA
1 AATAATAATA-ATAAAA
152725 AAGACCCGGA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
23 5 0.14
24 27 0.75
25 4 0.11
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (23 bp):
AATAATAATAATAAAATAACGAT
Found at i:155603 original size:17 final size:17
Alignment explanation
Indices: 155577--155610 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
155567 AGACTTTGTT
155577 TTTGGATTTTCCAGGAA
1 TTTGGATTTTCCAGGAA
* *
155594 TTTGGTTTTTCTAGGAA
1 TTTGGATTTTCCAGGAA
155611 ACCAATGCCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.09, G:0.24, T:0.47
Consensus pattern (17 bp):
TTTGGATTTTCCAGGAA
Found at i:158911 original size:2 final size:2
Alignment explanation
Indices: 158904--158942 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
158894 TAAAAATAAT
158904 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
158943 GTAAATGTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:159930 original size:14 final size:14
Alignment explanation
Indices: 159908--160089 Score: 116
Period size: 14 Copynumber: 12.4 Consensus size: 14
159898 ATATCCGTAC
* *
159908 ATGTGTATGTGTGT
1 ATGTATATGTATGT
159922 ATGTATATGTATGT
1 ATGTATATGTATGT
* *
159936 ATGTATATATATAT
1 ATGTATATGTATGT
* * *
159950 ATATATATATATAT
1 ATGTATATGTATGT
* * *
159964 ATATATATATATAT
1 ATGTATATGTATGT
*
159978 ATGTATGTAAGTATGT
1 ATGTA--TATGTATGT
*
159994 AAGTAAGTATGTATGT
1 ATGT-A-TATGTATGT
* *
160010 ATGTATATATATAT
1 ATGTATATGTATGT
*
160024 ATG--TATGTAAGT
1 ATGTATATGTATGT
*
160036 ATGAAAGTATGTATGT
1 ATG-TA-TATGTATGT
160052 ATGTATGTATGTATGT
1 ATGTA--TATGTATGT
160068 ATGTATGTATGTATGT
1 ATGTA--TATGTATGT
160084 ATGTAT
1 ATGTAT
160090 GAATGAGGAT
Statistics
Matches: 141, Mismatches: 19, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
12 9 0.06
14 66 0.47
15 2 0.01
16 63 0.45
17 1 0.01
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.47
Consensus pattern (14 bp):
ATGTATATGTATGT
Found at i:159934 original size:4 final size:4
Alignment explanation
Indices: 159911--160090 Score: 156
Period size: 4 Copynumber: 46.5 Consensus size: 4
159901 TCCGTACATG
* * * *
159911 TGTA TGTG TGTA TGTA --TA TGTA TGTA TGTA --TA TATA TATA TATA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * * * * * * * *
159955 TATA TATA TATA TATA TATA TATA TGTA TGTA AGTA TGTA AGTA AGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * * * *
160003 TGTA TGTA TGTA --TA TATA TATA TGTA TGTA AGTA TGAA AGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
160049 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG
160091 AATGAGGATG
Statistics
Matches: 156, Mismatches: 14, Indels: 12
0.86 0.08 0.07
Matches are distributed among these distances:
2 6 0.04
4 150 0.96
ACGTcount: A:0.34, C:0.00, G:0.19, T:0.47
Consensus pattern (4 bp):
TGTA
Found at i:159946 original size:2 final size:2
Alignment explanation
Indices: 159925--159979 Score: 83
Period size: 2 Copynumber: 27.5 Consensus size: 2
159915 TGTGTGTATG
* * *
159925 TA TA TG TA TG TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
159967 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
159980 GTATGTAAGT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (2 bp):
TA
Found at i:163224 original size:18 final size:17
Alignment explanation
Indices: 163175--163236 Score: 61
Period size: 18 Copynumber: 3.5 Consensus size: 17
163165 AATCACAAAA
* *
163175 AAAAATAGTAATAATAG
1 AAAAATAATAATAATAT
**
163192 AAATAATAAGGATAATAT
1 AAA-AATAATAATAATAT
163210 AAAGAATAATAATAATAAT
1 AAA-AATAATAATAAT-AT
163229 AAAAATAA
1 AAAAATAA
163237 AAATGGTAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
17 3 0.08
18 28 0.78
19 5 0.14
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (17 bp):
AAAAATAATAATAATAT
Done.