Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007725.1 Hibiscus syriacus cultivar Beakdansim tig00109972_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: 3026330
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 14
Found at i:1099 original size:41 final size:44
Alignment explanation
Indices: 1019--1099 Score: 98
Period size: 41 Copynumber: 1.9 Consensus size: 44
1009 TATATTCACT
* *
1019 TTAATATTTTATATATGCTCATCTCATATAAAATGTTTATATCG
1 TTAATATTGTATATATGCTCATCTCATATAAAATATTTATATCG
*
1063 TTAATATATGTATATAT-CT-ATC-C-TATAATATATTTAT
1 TTAATAT-TGTATATATGCTCATCTCATATAAAATATTTAT
1100 TATTATACAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
41 12 0.36
42 1 0.03
43 3 0.09
44 9 0.27
45 8 0.24
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.49
Consensus pattern (44 bp):
TTAATATTGTATATATGCTCATCTCATATAAAATATTTATATCG
Found at i:4354 original size:15 final size:16
Alignment explanation
Indices: 4334--4371 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
4324 TCCTATGGTA
4334 GAAGAAGAA-TCAGAT
1 GAAGAAGAAGTCAGAT
4349 GAAGAA-AAGTCAGAT
1 GAAGAAGAAGTCAGAT
4364 GAAGAAGA
1 GAAGAAGA
4372 GGTTCAAACC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 2 0.10
15 18 0.86
16 1 0.05
ACGTcount: A:0.55, C:0.05, G:0.29, T:0.11
Consensus pattern (16 bp):
GAAGAAGAAGTCAGAT
Found at i:7180 original size:2 final size:2
Alignment explanation
Indices: 7175--7232 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
7165 TCTCTCTCTC
7175 TA TA TA TA TA TA 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 TA TA TA TA TA TA
7217 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
7233 CTCGAAGAAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8483 original size:17 final size:15
Alignment explanation
Indices: 8454--8501 Score: 53
Period size: 17 Copynumber: 3.1 Consensus size: 15
8444 TAAGATAAAT
8454 TTAAAT-AAAAAAAA
1 TTAAATAAAAAAAAA
*
8468 TTAAACTAATAAAAAAT
1 TTAAA-TAA-AAAAAAA
*
8485 TTAAATAAAAGAAAA
1 TTAAATAAAAAAAAA
8500 TT
1 TT
8502 TAAGTTTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 5 0.18
15 8 0.29
16 4 0.14
17 11 0.39
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (15 bp):
TTAAATAAAAAAAAA
Found at i:8499 original size:16 final size:15
Alignment explanation
Indices: 8450--8504 Score: 76
Period size: 16 Copynumber: 3.5 Consensus size: 15
8440 ATTATAAGAT
8450 AAATTTAAATAAAAA
1 AAATTTAAATAAAAA
8465 AAA-TTAAACTAATAAA
1 AAATTTAAA-TAA-AAA
8481 AAATTTAAATAAAAGA
1 AAATTTAAATAAAA-A
8497 AAATTTAA
1 AAATTTAA
8505 GTTTTAAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.14
15 8 0.22
16 18 0.50
17 5 0.14
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (15 bp):
AAATTTAAATAAAAA
Found at i:9119 original size:24 final size:22
Alignment explanation
Indices: 9092--9140 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
9082 TACATATTTA
*
9092 AAATATATGATAATTTAAAAAGAT
1 AAATATAT-AAAATTTAAAAA-AT
*
9116 AAATTTATAAAATTTAAAAAAT
1 AAATATATAAAATTTAAAAAAT
9138 AAA
1 AAA
9141 AATAACTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 5 0.22
23 11 0.48
24 7 0.30
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (22 bp):
AAATATATAAAATTTAAAAAAT
Found at i:23211 original size:42 final size:43
Alignment explanation
Indices: 23152--23267 Score: 112
Period size: 42 Copynumber: 2.7 Consensus size: 43
23142 TATACAAATT
* *
23152 CCACT-AGAGTACCAAACTATTACGATGTTTCTGA-TCGACACA
1 CCACTAAG-GTACCAAACTATTACGATGTTTCTGAGTCAAAACA
* * ** ** * *
23194 CCATTAAGGTATCAAACTATTGTGACATTT-TTAGTCAAAACG
1 CCACTAAGGTACCAAACTATTACGATGTTTCTGAGTCAAAACA
23236 CCACTAAGGTACCAAACTATTACGATGTTTCT
1 CCACTAAGGTACCAAACTATTACGATGTTTCT
23268 TCAAAAACAT
Statistics
Matches: 55, Mismatches: 16, Indels: 5
0.72 0.21 0.07
Matches are distributed among these distances:
41 2 0.04
42 50 0.91
43 3 0.05
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (43 bp):
CCACTAAGGTACCAAACTATTACGATGTTTCTGAGTCAAAACA
Found at i:27872 original size:223 final size:225
Alignment explanation
Indices: 27434--27880 Score: 864
Period size: 223 Copynumber: 2.0 Consensus size: 225
27424 GGCAGTCAGA
27434 GAGCTTACCCACGGTGGAGCTACAGAGGGGTAGTGAGAAACACAGTTGCTTGGGCTTTGTTCAAA
1 GAGCTTACCCACGGTGGAGCTACAGAGGGGTAGTGAGAAACACAGTTGCTTGGGCTTTGTTCAAA
27499 ATGGGGCGAGGACTCCAATGGTGGTGGCAGTGTAATAAAATGACGATGGAAGCGACCGAAAATGA
66 ATGGGGCGAGGACTCCAATGGTGGTGGCAGTGTAATAAAATGACGATGGAAGCGACCGAAAATGA
27564 TGAAAATCGAGGCAAAAGTTTATTTCTCCAGTGAAGCTTTGAACGCTTCCTTACGACGAATGGAG
131 TGAAAATCGAGGCAAAAGTTTATTTCTCCAGTGAAGCTTTGAACGCTTCCTTACGACGAATGGAG
27629 ACCACCCTCACCAATAGGCCACTAGCGTTG
196 ACCACCCTCACCAATAGGCCACTAGCGTTG
27659 GAGCTTACCCACGGTGGAGCTACAGAGGGGTAGTGAGAAACACAGTTGCTTGGGCTTTGTTCAAA
1 GAGCTTACCCACGGTGGAGCTACAGAGGGGTAGTGAGAAACACAGTTGCTTGGGCTTTGTTCAAA
27724 AT-GGG-GAGGACTCCAATGGTGGTGGCAGTGTAATAAAATGACGATGGAAGCGACCGAAAATGA
66 ATGGGGCGAGGACTCCAATGGTGGTGGCAGTGTAATAAAATGACGATGGAAGCGACCGAAAATGA
27787 TGAAAAATCGAGGCAAAAGTTTATTTCTCCAGTGAAGCTTTGAACGCTTCCTTACGACGAATGGA
131 TG-AAAATCGAGGCAAAAGTTTATTTCTCCAGTGAAGCTTTGAACGCTTCCTTACGACGAATGGA
27852 GACCACCCTCA-CAATAGGCCACTAGCGTT
195 GACCACCCTCACCAATAGGCCACTAGCGTT
27881 TTGATCAGAA
Statistics
Matches: 221, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
223 78 0.35
224 76 0.34
225 67 0.30
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (225 bp):
GAGCTTACCCACGGTGGAGCTACAGAGGGGTAGTGAGAAACACAGTTGCTTGGGCTTTGTTCAAA
ATGGGGCGAGGACTCCAATGGTGGTGGCAGTGTAATAAAATGACGATGGAAGCGACCGAAAATGA
TGAAAATCGAGGCAAAAGTTTATTTCTCCAGTGAAGCTTTGAACGCTTCCTTACGACGAATGGAG
ACCACCCTCACCAATAGGCCACTAGCGTTG
Found at i:28685 original size:29 final size:29
Alignment explanation
Indices: 28503--28710 Score: 148
Period size: 29 Copynumber: 7.2 Consensus size: 29
28493 TATAGGACCA
** * * *
28503 GTTCTGATTTTGCATGAAATTTATTTCAC
1 GTTCTGATTTTGCATGGGATTAATTCCCC
* * * * * *
28532 GCTCTGTTTTTGTATGAGATTTATTCACC
1 GTTCTGATTTTGCATGGGATTAATTCCCC
* * * * * *
28561 TTTCTGATTCTGCATGGGCTTTATTCACT
1 GTTCTGATTTTGCATGGGATTAATTCCCC
* * * * *
28590 GTTATGATTCTGTATGGGATTTATTCTCC
1 GTTCTGATTTTGCATGGGATTAATTCCCC
* * * *
28619 GTTCTTATTCTACATGGGATTAATT-CTC
1 GTTCTGATTTTGCATGGGATTAATTCCCC
*
28647 GTTCTGATTTTGCATGGGATTATTTCCCC
1 GTTCTGATTTTGCATGGGATTAATTCCCC
* *
28676 GTTTTGATTTTGCATTGGATTAATTCCCC
1 GTTCTGATTTTGCATGGGATTAATTCCCC
28705 GTTCTG
1 GTTCTG
28711 TTTCTGTTTG
Statistics
Matches: 141, Mismatches: 37, Indels: 2
0.78 0.21 0.01
Matches are distributed among these distances:
28 22 0.16
29 119 0.84
ACGTcount: A:0.17, C:0.17, G:0.18, T:0.48
Consensus pattern (29 bp):
GTTCTGATTTTGCATGGGATTAATTCCCC
Found at i:30236 original size:21 final size:21
Alignment explanation
Indices: 30185--30340 Score: 84
Period size: 21 Copynumber: 7.5 Consensus size: 21
30175 ATTATTACTA
30185 TCGCAATGCGATTTT-CCAATT
1 TCGCAATGCGATTTTCCCAA-T
**
30206 TCGCGTTGCGATTTTCCCAAT
1 TCGCAATGCGATTTTCCCAAT
* *** *
30227 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGATTTTCCCAAT
** ** *
30248 TCGCAATGCGATACTGACTA-
1 TCGCAATGCGATTTTCCCAAT
* *
30268 TCGCAATGCAATTTTCCTAAT
1 TCGCAATGCGATTTTCCCAAT
* * **
30289 TCGCATTGCGA-TTTACGTAT
1 TCGCAATGCGATTTTCCCAAT
* **
30309 TCGCATTGCGATTTTCATAAT
1 TCGCAATGCGATTTTCCCAAT
*
30330 TCGTAATGCGA
1 TCGCAATGCGA
30341 ATACGTAAAT
Statistics
Matches: 99, Mismatches: 33, Indels: 6
0.72 0.24 0.04
Matches are distributed among these distances:
20 30 0.30
21 65 0.66
22 4 0.04
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.35
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCCAAT
Found at i:30354 original size:41 final size:41
Alignment explanation
Indices: 30248--30355 Score: 105
Period size: 41 Copynumber: 2.6 Consensus size: 41
30238 ATTTGGAAAA
*
30248 TCGCAATGCGATACTGAC-T-ATCGCAATGCAATTTTCCTAAT
1 TCGCAATGCGATA-T-ACGTAATCGCAATGCAATTTTCATAAT
* * * * *
30289 TCGCATTGCGATTTACGTATTCGCATTGCGATTTTCATAAT
1 TCGCAATGCGATATACGTAATCGCAATGCAATTTTCATAAT
*
30330 TCGTAATGCGA-ATACGTAAATCGCAA
1 TCGCAATGCGATATACGT-AATCGCAA
30356 CGCGGTTAAG
Statistics
Matches: 53, Mismatches: 11, Indels: 6
0.76 0.16 0.09
Matches are distributed among these distances:
39 2 0.04
40 7 0.13
41 44 0.83
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (41 bp):
TCGCAATGCGATATACGTAATCGCAATGCAATTTTCATAAT
Found at i:30393 original size:21 final size:21
Alignment explanation
Indices: 30227--30422 Score: 113
Period size: 20 Copynumber: 9.6 Consensus size: 21
30217 TTTTCCCAAT
** *
30227 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTACGTAAA
*
30248 TCGCAATGCG-A-TAC-TGACTA
1 TCGCAATGCGAATTACGT-A-AA
* * *
30268 TCGCAATGC-AATTTTCCTAAT
1 TCGCAATGCGAA-TTACGTAAA
* * *
30289 TCGCATTGCGATTTACGT-AT
1 TCGCAATGCGAATTACGTAAA
* * * * *
30309 TCGCATTGCGATTTTCATAAT
1 TCGCAATGCGAATTACGTAAA
*
30330 TCGTAATGCGAA-TACGTAAA
1 TCGCAATGCGAATTACGTAAA
* * *
30350 TCGCAACGCG-GTTAAGTAAA
1 TCGCAATGCGAATTACGTAAA
*
30370 TCGCAATGCGAATTACGAAAA
1 TCGCAATGCGAATTACGTAAA
30391 TCGCAATGCGAA-TAC-TAAA
1 TCGCAATGCGAATTACGTAAA
*
30410 TCGCAATGTGAAT
1 TCGCAATGCGAAT
30423 CTGACTATCG
Statistics
Matches: 135, Mismatches: 29, Indels: 23
0.72 0.16 0.12
Matches are distributed among these distances:
19 16 0.12
20 62 0.46
21 52 0.39
22 4 0.03
23 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (21 bp):
TCGCAATGCGAATTACGTAAA
Found at i:30985 original size:18 final size:18
Alignment explanation
Indices: 30962--31028 Score: 88
Period size: 18 Copynumber: 3.9 Consensus size: 18
30952 TAGTTTCGAG
30962 AATGAAAATCGCAACGCA
1 AATGAAAATCGCAACGCA
30980 AATGAAAATCGCAACG--
1 AATGAAAATCGCAACGCA
*
30996 -A-GAGAATCGCAACGCGA
1 AATGAAAATCGCAACGC-A
31013 AATGAAAATCGCAACG
1 AATGAAAATCGCAACG
31029 AGATAATCGC
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
14 12 0.29
15 1 0.02
18 17 0.40
19 12 0.29
ACGTcount: A:0.48, C:0.21, G:0.21, T:0.10
Consensus pattern (18 bp):
AATGAAAATCGCAACGCA
Found at i:31005 original size:14 final size:14
Alignment explanation
Indices: 30983--31041 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
30973 CAACGCAAAT
30983 GAAAATCGCAACGA
1 GAAAATCGCAACGA
*
30997 GAGAATCGCAACGCGAAA
1 GAAAATCGCAA--CG--A
31015 TGAAAATCGCAACGA
1 -GAAAATCGCAACGA
*
31030 GATAATCGCAAC
1 GAAAATCGCAAC
31042 ACGAAACCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
14 21 0.57
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.27
ACGTcount: A:0.46, C:0.22, G:0.22, T:0.10
Consensus pattern (14 bp):
GAAAATCGCAACGA
Found at i:31021 original size:33 final size:33
Alignment explanation
Indices: 30968--31058 Score: 139
Period size: 33 Copynumber: 2.8 Consensus size: 33
30958 CGAGAATGAA
30968 AATCGCAACGC-AAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
*
31000 AATCGCAACGCGAAATGAAAATCGCAACGAGAT
1 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
* **
31033 AATCGCAACACGAAACCAAAATCGCA
1 AATCGCAACGCGAAATGAAAATCGCA
31059 TTGCGATTTT
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
32 11 0.20
33 43 0.80
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.10
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAGAG
Found at i:31095 original size:26 final size:26
Alignment explanation
Indices: 31059--31111 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
31049 CAAAATCGCA
31059 TTGCGATTTTCATTTCGCGTTGCGAT
1 TTGCGATTTTCATTTCGCGTTGCGAT
* *
31085 TTGCGATTTTCATTTTGTGTTGCGAT
1 TTGCGATTTTCATTTCGCGTTGCGAT
31111 T
1 T
31112 CTCTCGTTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.11, C:0.15, G:0.23, T:0.51
Consensus pattern (26 bp):
TTGCGATTTTCATTTCGCGTTGCGAT
Found at i:31150 original size:20 final size:21
Alignment explanation
Indices: 31110--31173 Score: 78
Period size: 20 Copynumber: 3.1 Consensus size: 21
31100 TGTGTTGCGA
* **
31110 TTCTCTCGTTGCGATAGTCAT
1 TTCTCACGTTGCGATTTTCAT
31131 TTC-CACGTTGCGATTTTCA-
1 TTCTCACGTTGCGATTTTCAT
*
31150 TTCTCTCGTTGCGATTTTCAT
1 TTCTCACGTTGCGATTTTCAT
31171 TTC
1 TTC
31174 AACCAAAAGA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
19 3 0.08
20 28 0.76
21 6 0.16
ACGTcount: A:0.12, C:0.25, G:0.16, T:0.47
Consensus pattern (21 bp):
TTCTCACGTTGCGATTTTCAT
Found at i:32975 original size:24 final size:24
Alignment explanation
Indices: 32948--32996 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
32938 AAAGTAAATT
*
32948 TATTCATT-TGCTGCCAATTGAAAC
1 TATTC-TTCTGCTGCAAATTGAAAC
*
32972 TATTCTTCTTCTGCAAATTGAAAC
1 TATTCTTCTGCTGCAAATTGAAAC
32996 T
1 T
32997 TGAATGAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 2 0.09
24 20 0.91
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.41
Consensus pattern (24 bp):
TATTCTTCTGCTGCAAATTGAAAC
Found at i:33434 original size:41 final size:41
Alignment explanation
Indices: 33359--33446 Score: 104
Period size: 41 Copynumber: 2.1 Consensus size: 41
33349 GACTCGCCTG
* * *
33359 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCTA
1 TCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCCTA
* * * *
33400 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC-CTA
33442 TCATC
1 TCATC
33447 GTTGAAGAGG
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
41 32 0.84
42 6 0.16
ACGTcount: A:0.22, C:0.38, G:0.17, T:0.24
Consensus pattern (41 bp):
TCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCCTA
Found at i:34836 original size:14 final size:14
Alignment explanation
Indices: 34817--34852 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
34807 ATTGTTTAAT
34817 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
34831 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
34845 TGATTTGT
1 TGATTTGT
34853 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:35010 original size:32 final size:32
Alignment explanation
Indices: 34958--35044 Score: 122
Period size: 32 Copynumber: 2.7 Consensus size: 32
34948 AAAAATGACT
* * *
34958 ATCGCAATGCG-AATAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATAAAATCGCAACGACAAA
34989 ATCGCAACGCGAAATAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATAAAATCGCAACGACAAA
*
35021 ATCGCAACGCGAAACTAAATTCGC
1 ATCGCAACGCGAAA-TAAAATCGC
35045 GTTGCGATTT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
31 10 0.20
32 32 0.64
33 8 0.16
ACGTcount: A:0.45, C:0.24, G:0.18, T:0.13
Consensus pattern (32 bp):
ATCGCAACGCGAAATAAAATCGCAACGACAAA
Found at i:35011 original size:18 final size:18
Alignment explanation
Indices: 34988--35044 Score: 59
Period size: 14 Copynumber: 3.3 Consensus size: 18
34978 GCAACGAGAG
34988 AATCGCAACGCGAAATAA
1 AATCGCAACGCGAAATAA
*
35006 AATCGCAA--CG--ACAA
1 AATCGCAACGCGAAATAA
35020 AATCGCAACGCGAAACTAA
1 AATCGCAACGCGAAA-TAA
*
35039 ATTCGC
1 AATCGC
35045 GTTGCGATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 9
0.72 0.07 0.21
Matches are distributed among these distances:
14 11 0.35
16 4 0.13
18 9 0.29
19 7 0.23
ACGTcount: A:0.46, C:0.26, G:0.16, T:0.12
Consensus pattern (18 bp):
AATCGCAACGCGAAATAA
Found at i:35023 original size:14 final size:14
Alignment explanation
Indices: 34972--35029 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
34962 CAATGCGAAT
*
34972 AAAATCGCAACGAG
1 AAAATCGCAACGAC
* *
34986 AGAATCGCAACGCGAAAT
1 AAAATCGCAA--CG--AC
35004 AAAATCGCAACGAC
1 AAAATCGCAACGAC
35018 AAAATCGCAACG
1 AAAATCGCAACG
35030 CGAAACTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.61
16 4 0.11
18 10 0.28
ACGTcount: A:0.48, C:0.24, G:0.19, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:35062 original size:19 final size:19
Alignment explanation
Indices: 35040--35157 Score: 85
Period size: 19 Copynumber: 6.7 Consensus size: 19
35030 CGAAACTAAA
35040 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
35059 TTCGCTTTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
35074 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
35092 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
35107 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* **
35125 TTCGCATTGCGATAGTCAT
1 TTCGCGTTGCGATTTTCAT
35144 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
35158 AGACATTAAG
Statistics
Matches: 74, Mismatches: 14, Indels: 21
0.68 0.13 0.19
Matches are distributed among these distances:
14 17 0.23
16 6 0.08
17 6 0.08
19 35 0.47
20 10 0.14
ACGTcount: A:0.12, C:0.25, G:0.20, T:0.43
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:35086 original size:33 final size:33
Alignment explanation
Indices: 35044--35137 Score: 170
Period size: 33 Copynumber: 2.8 Consensus size: 33
35034 ACTAAATTCG
*
35044 CGTTGCGATTTTCATTTCGCTTTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
*
35077 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
35110 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
35138 AGTCATTTCC
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.12, C:0.24, G:0.19, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
Found at i:35156 original size:20 final size:20
Alignment explanation
Indices: 35110--35203 Score: 68
Period size: 20 Copynumber: 4.7 Consensus size: 20
35100 GCGATTCTCT
**
35110 CGTTGCGATTTTCATTT-CG
1 CGTTGCGATAGTCATTTCCG
*
35129 CATTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
* **
35149 CGTTGCGATAGACA-TTAAG
1 CGTTGCGATAGTCATTTCCG
*
35168 ATGATTGCGA-ACGTCATTTCCG
1 -CG-TTGCGATA-GTCATTTCCG
*
35190 TGTTGCGATAGTCA
1 CGTTGCGATAGTCA
35204 AATGATTGCC
Statistics
Matches: 58, Mismatches: 11, Indels: 11
0.73 0.14 0.14
Matches are distributed among these distances:
19 17 0.29
20 26 0.45
21 12 0.21
22 3 0.05
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:38467 original size:20 final size:20
Alignment explanation
Indices: 38437--38608 Score: 181
Period size: 20 Copynumber: 8.7 Consensus size: 20
38427 GATTCTGTAT
*
38437 TATCTCGTTGCGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
* *
38457 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* *
38477 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
38497 TATCGCGTTGCGA-A--CA-
1 TATCGCGTTGCGATAGTCAG
** *
38513 TATCGCGTTGCGATTTTGCAT
1 TATCGCGTTGCGATAGT-CAG
38534 TATCGCGTTGCGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
* ** *
38554 TATCGCATTGCGATTTTGCAT
1 TATCGCGTTGCGATAGT-CAG
38575 TATCGCGTTGCGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
*
38595 TATCGCATTGCGAT
1 TATCGCGTTGCGAT
38609 TTTCCAAATT
Statistics
Matches: 129, Mismatches: 17, Indels: 12
0.82 0.11 0.08
Matches are distributed among these distances:
16 13 0.10
17 2 0.02
19 1 0.01
20 82 0.64
21 31 0.24
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.31
Consensus pattern (20 bp):
TATCGCGTTGCGATAGTCAG
Found at i:38537 original size:21 final size:20
Alignment explanation
Indices: 38513--38647 Score: 114
Period size: 21 Copynumber: 6.7 Consensus size: 20
38503 GTTGCGAACA
*
38513 TATCGCGTTGCGATTTTGCAT
1 TATCGCATTGCGATTTT-CAT
* ** *
38534 TATCGCGTTGCGATAGTCAG
1 TATCGCATTGCGATTTTCAT
38554 TATCGCATTGCGATTTTGCAT
1 TATCGCATTGCGATTTT-CAT
* ** *
38575 TATCGCGTTGCGATAGTCAG
1 TATCGCATTGCGATTTTCAT
38595 TATCGCATTGCGATTTTCCA-
1 TATCGCATTGCGATTTT-CAT
*
38615 AATTCGCATTGCGATTTTCCA-
1 TA-TCGCATTGCGATTTT-CAT
38636 T-TCGCATTGCGA
1 TATCGCATTGCGA
38648 ATTGGGAAAA
Statistics
Matches: 95, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
19 11 0.12
20 33 0.35
21 51 0.54
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.37
Consensus pattern (20 bp):
TATCGCATTGCGATTTTCAT
Found at i:38629 original size:41 final size:41
Alignment explanation
Indices: 38458--38611 Score: 201
Period size: 41 Copynumber: 3.9 Consensus size: 41
38448 GATAGTCAGA
* * * *** *
38458 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGT-CAGT
1 ATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTGCATT
*
38498 ATCGCGTTGCGA-A--CA-TATCGCGTTGCGATTTTGCATT
1 ATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTGCATT
38535 ATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTGCATT
1 ATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTGCATT
38576 ATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTT
1 ATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTT
38612 CCAAATTCGC
Statistics
Matches: 103, Mismatches: 6, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
36 13 0.13
37 17 0.17
38 1 0.01
39 1 0.01
40 14 0.14
41 57 0.55
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.32
Consensus pattern (41 bp):
ATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTGCATT
Found at i:38689 original size:21 final size:22
Alignment explanation
Indices: 38637--38689 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
38627 GATTTTCCAT
38637 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
38658 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
38679 TCGCATTGCGA
1 TCGCATTGCGA
38690 TAGTAATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:40118 original size:19 final size:20
Alignment explanation
Indices: 40080--40120 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
40070 GATTTAATAA
* *
40080 ATTATATTTAAATGTTTATT
1 ATTATATTTAAATATATATT
40100 ATTA-ATTTAAATATATATT
1 ATTATATTTAAATATATATT
40119 AT
1 AT
40121 GACTTATAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
ATTATATTTAAATATATATT
Found at i:45087 original size:23 final size:23
Alignment explanation
Indices: 45047--45092 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
45037 CAAAGACAGT
*
45047 GATAAACATGACATAAAGGCATA
1 GATAAACATGACACAAAGGCATA
* *
45070 GATAAACATGTCACAAAGTCATA
1 GATAAACATGACACAAAGGCATA
45093 ATCATTCTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.20
Consensus pattern (23 bp):
GATAAACATGACACAAAGGCATA
Found at i:45770 original size:10 final size:10
Alignment explanation
Indices: 45755--45779 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
45745 TAACACCCTC
45755 GTTCTGCGTT
1 GTTCTGCGTT
45765 GTTCTGCGTT
1 GTTCTGCGTT
45775 GTTCT
1 GTTCT
45780 TAAATTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.20, G:0.28, T:0.52
Consensus pattern (10 bp):
GTTCTGCGTT
Found at i:51307 original size:17 final size:17
Alignment explanation
Indices: 51266--51310 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
51256 CCCTACTTGA
51266 TTAAATATTTAATAAAT
1 TTAAATATTTAATAAAT
** **
51283 TTTTATATTTTTTAAAT
1 TTAAATATTTAATAAAT
51300 TTAAATATTTA
1 TTAAATATTTA
51311 TTTTTACATG
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTAAATATTTAATAAAT
Found at i:51962 original size:15 final size:15
Alignment explanation
Indices: 51939--51970 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
51929 TATAAAATAT
51939 AAAGAAAAAAATTAA
1 AAAGAAAAAAATTAA
*
51954 AAAGTAAAAAATTAA
1 AAAGAAAAAAATTAA
51969 AA
1 AA
51971 TTTCTAAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (15 bp):
AAAGAAAAAAATTAA
Found at i:52179 original size:31 final size:31
Alignment explanation
Indices: 52141--52200 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
52131 TCTTTGTCCC
52141 ATGCTAACACACTCTG-GGATTCGGTTAATTT
1 ATGCTAACACACTCTGTGG-TTCGGTTAATTT
**
52172 ATGCTAACAGTCTCTGTGGTTCGGTTAAT
1 ATGCTAACACACTCTGTGGTTCGGTTAAT
52201 CTAACCATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 24 0.92
32 2 0.08
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (31 bp):
ATGCTAACACACTCTGTGGTTCGGTTAATTT
Found at i:52284 original size:64 final size:66
Alignment explanation
Indices: 52205--52333 Score: 217
Period size: 64 Copynumber: 2.0 Consensus size: 66
52195 GTTAATCTAA
* *
52205 CCATCAGTAAAATTTACCTTTTTAATTCCAAAAA-TAATCTTTCAAAAATATTAAA-TAAAAAAA
1 CCATCAGTAAAATTTACCTTTTTAATTCCAAAAATTAATATTTCAAAAACATTAAATTAAAAAAA
52268 T
66 T
*
52269 CCATCAGTATAATTTACCTTTTTAATTCCAAAAATTAATATTTCAAAAACATTAAATTAAAAAAA
1 CCATCAGTAAAATTTACCTTTTTAATTCCAAAAATTAATATTTCAAAAACATTAAATTAAAAAAA
52334 AAAGTTAAAC
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
64 33 0.55
65 19 0.32
66 8 0.13
ACGTcount: A:0.50, C:0.14, G:0.02, T:0.35
Consensus pattern (66 bp):
CCATCAGTAAAATTTACCTTTTTAATTCCAAAAATTAATATTTCAAAAACATTAAATTAAAAAAA
T
Found at i:53647 original size:22 final size:22
Alignment explanation
Indices: 53617--53661 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
53607 ACAACTCGAT
53617 TGGAGGATTTAATTTATTTTAA
1 TGGAGGATTTAATTTATTTTAA
*
53639 TGGATGATTTAATTTATTTTAA
1 TGGAGGATTTAATTTATTTTAA
53661 T
1 T
53662 TAAATAGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.31, C:0.00, G:0.16, T:0.53
Consensus pattern (22 bp):
TGGAGGATTTAATTTATTTTAA
Found at i:53963 original size:29 final size:30
Alignment explanation
Indices: 53926--54108 Score: 132
Period size: 30 Copynumber: 6.4 Consensus size: 30
53916 ATATTAAAAA
* *
53926 TTTATTTTTATTTTAAATTATTATATATAT
1 TTTATTTTTATCTTAAATTATTAAATATAT
*
53956 TTTATTTTTATCTTAACCTTA--AAATATAT
1 TTTATTTTTATCTTAA-ATTATTAAATATAT
* *
53985 TTTATTTTTATTTTAACTT-TTAAA-A-A-
1 TTTATTTTTATCTTAAATTATTAAATATAT
* * *
54011 --TA-TTTTATGTTAACTTATTACATATAT
1 TTTATTTTTATCTTAAATTATTAAATATAT
* * * *
54038 TATATTCTTAACTTAAATTATTAAATATCT
1 TTTATTTTTATCTTAAATTATTAAATATAT
* * * * *
54068 TCTAGTCTTATCTTAAATTGTTAAATATAA
1 TTTATTTTTATCTTAAATTATTAAATATAT
*
54098 TTTATCTTTAT
1 TTTATTTTTAT
54109 TATTATTTTT
Statistics
Matches: 121, Mismatches: 22, Indels: 20
0.74 0.13 0.12
Matches are distributed among these distances:
23 13 0.11
24 6 0.05
25 1 0.01
26 1 0.01
27 1 0.01
28 4 0.03
29 27 0.22
30 65 0.54
31 3 0.02
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (30 bp):
TTTATTTTTATCTTAAATTATTAAATATAT
Found at i:54016 original size:23 final size:24
Alignment explanation
Indices: 53990--54052 Score: 74
Period size: 23 Copynumber: 2.6 Consensus size: 24
53980 TATATTTTAT
53990 TTTTATTTTAACTT-TTAAAAATA
1 TTTTATTTTAACTTATTAAAAATA
* * *
54013 TTTTATGTTAACTTATTACATATA
1 TTTTATTTTAACTTATTAAAAATA
*
54037 TTATATTCTTAACTTA
1 TTTTATT-TTAACTTA
54053 AATTATTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
23 13 0.39
24 12 0.36
25 8 0.24
ACGTcount: A:0.35, C:0.08, G:0.02, T:0.56
Consensus pattern (24 bp):
TTTTATTTTAACTTATTAAAAATA
Found at i:54143 original size:29 final size:30
Alignment explanation
Indices: 54106--54162 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
54096 AATTTATCTT
*
54106 TATTATTATTTTTATT-TTTATTTTAAAACA
1 TATTATTATTTTT-TTCTTAATTTTAAAACA
54136 TATT-TTATTTTTTTCTTAATTTTAAAA
1 TATTATTATTTTTTTCTTAATTTTAAAA
54163 TATTATAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 2 0.08
29 19 0.76
30 4 0.16
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.65
Consensus pattern (30 bp):
TATTATTATTTTTTTCTTAATTTTAAAACA
Found at i:56358 original size:19 final size:18
Alignment explanation
Indices: 56320--56360 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
56310 AATAATTCAT
56320 AAATAATGTCATTCTAAA
1 AAATAATGTCATTCTAAA
*
56338 AAATAAT-TGCATTCTTAA
1 AAATAATGT-CATTCTAAA
56356 AAATA
1 AAATA
56361 CAAAAACTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 1 0.05
18 20 0.95
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.34
Consensus pattern (18 bp):
AAATAATGTCATTCTAAA
Found at i:56471 original size:20 final size:20
Alignment explanation
Indices: 56434--56471 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
56424 TGCCTAGACT
56434 ATATTCAAAATTTATTTTTG
1 ATATTCAAAATTTATTTTTG
*
56454 ATATTTAAAGATTT-TTTT
1 ATATTCAAA-ATTTATTTT
56472 GTTAAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (20 bp):
ATATTCAAAATTTATTTTTG
Found at i:56591 original size:11 final size:12
Alignment explanation
Indices: 56569--56600 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
56559 GAATTTAAAA
56569 AAATATTTTTTT
1 AAATATTTTTTT
56581 AAATATTTTTTT
1 AAATATTTTTTT
56593 AAA-ATTTT
1 AAATATTTT
56601 AAAAAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.25
12 15 0.75
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
AAATATTTTTTT
Found at i:57343 original size:22 final size:22
Alignment explanation
Indices: 57318--57359 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
57308 ATATACGGTG
* *
57318 TGAACATTACCGTAAACAGTAA
1 TGAACAGTACCATAAACAGTAA
*
57340 TGAACAGTACCATGAACAGT
1 TGAACAGTACCATAAACAGT
57360 GCTACAGTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (22 bp):
TGAACAGTACCATAAACAGTAA
Found at i:58160 original size:31 final size:31
Alignment explanation
Indices: 58114--58234 Score: 170
Period size: 31 Copynumber: 3.9 Consensus size: 31
58104 CGAAGGACCT
* * *
58114 GTCCATAGATTCCGAAGAACCTAGGTAAACA
1 GTCCATATATCCCGAAGAACATAGGTAAACA
58145 GTCCATATATCCCGAAGAACATAGGTAAACA
1 GTCCATATATCCCGAAGAACATAGGTAAACA
* *
58176 GTCCATATGTCCTGAAGAACATAGGTAAACA
1 GTCCATATATCCCGAAGAACATAGGTAAACA
* * *
58207 GTCCATTTGTTCCGAAGAACATAGGTAA
1 GTCCATATATCCCGAAGAACATAGGTAA
58235 CCCTCGACTC
Statistics
Matches: 82, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 82 1.00
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (31 bp):
GTCCATATATCCCGAAGAACATAGGTAAACA
Found at i:61578 original size:130 final size:130
Alignment explanation
Indices: 61145--61621 Score: 509
Period size: 129 Copynumber: 3.7 Consensus size: 130
61135 CTTGAAGACA
* * * * * * * * * *
61145 AGTGAAGCAAATCAACTTTGATTCAATCTTTCCTGAAGATCAGGGGAGTGAATCAACATTTTCAT
1 AGTGAAACAAATCTACCTCGATTCAATCTTCCCTGAAAAACAGTGGAGTGAATCAACATTTCCAG
* * *
61210 ATCTGATCTACCCTGAAGAGTAGTGGAGGAGATCCC-TTTTCATAA-TTGATCTTCCCTGAGGAG
66 ATCTGATCTACCCTGAAGAGCAGCGGAGAAGATCCCTTTTTCA-AATTTGATCTTCCCTGAGGAG
61273 C
130 C
* * * ** **
61274 AAT-AGAACAAATCTGCCTCGATTCAATCTTCCCTAAAAAACAGTGGAGTGAATCAATGTTTTTA
1 AGTGA-AACAAATCTACCTCGATTCAATCTTCCCTGAAAAACAGTGGAGTGAATCAACATTTCCA
* *
61338 GATCTGATCTACCCTCAAGAGCAGCGGAGAAAATCCCTTTTT-AAGATTTGATCTT-CCTGAGGA
65 GATCTGATCTACCCTGAAGAGCAGCGGAGAAGATCCCTTTTTCAA-ATTTGATCTTCCCTGAGGA
*
61401 AC
129 GC
* * *
61403 AGTGGAACAAATCTACCTCGATTCAATCTTCCTTGAAAAGA-AGTGGAGTTAATCAACATTTCCA
1 AGTGAAACAAATCTACCTCGATTCAATCTTCCCTGAAAA-ACAGTGGAGTGAATCAACATTTCCA
* * * * * *
61467 -ACTATGGTCTACCCTGAATAACAGCAGAGCAGATCCCTTTTTCAAATTTGATCTTCCCTGAGGA
65 GA-TCTGATCTACCCTGAAGAGCAGCGGAGAAGATCCCTTTTTCAAATTTGATCTTCCCTGAGGA
61531 GC
129 GC
* * * * *
61533 AGTGAAATAAATCTACTTCGATTCACTCTTCCCTGAAAAACAGTGGAATGAATCAACGTTTCCAG
1 AGTGAAACAAATCTACCTCGATTCAATCTTCCCTGAAAAACAGTGGAGTGAATCAACATTTCCAG
* *
61598 AACTGATCTACCTTGAAGAGCAGC
66 ATCTGATCTACCCTGAAGAGCAGC
61622 ATAGCATATC
Statistics
Matches: 283, Mismatches: 54, Indels: 21
0.79 0.15 0.06
Matches are distributed among these distances:
128 3 0.01
129 184 0.65
130 95 0.34
131 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (130 bp):
AGTGAAACAAATCTACCTCGATTCAATCTTCCCTGAAAAACAGTGGAGTGAATCAACATTTCCAG
ATCTGATCTACCCTGAAGAGCAGCGGAGAAGATCCCTTTTTCAAATTTGATCTTCCCTGAGGAGC
Found at i:66031 original size:42 final size:42
Alignment explanation
Indices: 65951--66031 Score: 126
Period size: 42 Copynumber: 1.9 Consensus size: 42
65941 TTATTCACCT
* * *
65951 TTAAAATTTTATAAATTTATCTTCTATCATAAAGTTTTACTC
1 TTAAAATTTTATAAATTTATCATCTACCATAAAATTTTACTC
*
65993 TTAAAATTTTATAAATTTATCATCTACCTTAAAATTTTA
1 TTAAAATTTTATAAATTTATCATCTACCATAAAATTTTA
66032 GGTCTCTCGA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.38, C:0.11, G:0.01, T:0.49
Consensus pattern (42 bp):
TTAAAATTTTATAAATTTATCATCTACCATAAAATTTTACTC
Found at i:70383 original size:29 final size:30
Alignment explanation
Indices: 70350--70415 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
70340 TCCTATTTTC
*
70350 ATCACTCAACT-TTTAATCTG-ATCAATTTG
1 ATCACTCAACTATATAATC-GAATCAATTTG
* *
70379 ATCACTAAACTATATAATCGAATCATTTTG
1 ATCACTCAACTATATAATCGAATCAATTTG
*
70409 CTCACTC
1 ATCACTC
70416 GACCATTTTC
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
29 11 0.37
30 19 0.63
ACGTcount: A:0.33, C:0.23, G:0.06, T:0.38
Consensus pattern (30 bp):
ATCACTCAACTATATAATCGAATCAATTTG
Found at i:81990 original size:30 final size:29
Alignment explanation
Indices: 81920--82023 Score: 113
Period size: 29 Copynumber: 3.6 Consensus size: 29
81910 ACATTTAAGG
* *
81920 TAAGAATAAATTATTTTTTTAAGTTAATAA
1 TAAGAATAAAATATATTTTTAAGTTAA-AA
*
81950 -AA-AATTAAAATATATTTTATAAATTAAAA
1 TAAGAA-TAAAATATATTTT-TAAGTTAAAA
*
81979 TAAGAATAAAATATATTTTTAAGTTAAGA
1 TAAGAATAAAATATATTTTTAAGTTAAAA
* *
82008 TAAAAATAATATATAT
1 TAAGAATAAAATATAT
82024 ATATATATAT
Statistics
Matches: 63, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
28 2 0.03
29 37 0.59
30 22 0.35
31 2 0.03
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (29 bp):
TAAGAATAAAATATATTTTTAAGTTAAAA
Found at i:82396 original size:20 final size:21
Alignment explanation
Indices: 82371--82463 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
82361 TTTTCCCAAT
*
82371 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
82391 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
82412 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
82432 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
82453 TCGCAATGCGA
1 TCGCAATGCGA
82464 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:82416 original size:41 final size:41
Alignment explanation
Indices: 82371--82463 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
82361 TTTTCCCAAT
82371 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
82412 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
82453 TCGCAATGCGA
1 TCGCAATGCGA
82464 TACTGACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:82476 original size:41 final size:41
Alignment explanation
Indices: 82390--82524 Score: 132
Period size: 41 Copynumber: 3.3 Consensus size: 41
82380 GAATAAGTAA
* *
82390 ATCGCAACGCGAATTGGGAAAATCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTG-ACT
82431 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
* * ** * * *
82472 ATCGCAATGCGATAAT-ACAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTGACT
*
82513 TTCGCAACGCGA
1 ATCGCAACGCGA
82525 TACTGACTTT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
40 4 0.05
41 74 0.93
42 2 0.03
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.19
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
Found at i:82477 original size:20 final size:19
Alignment explanation
Indices: 82452--82566 Score: 86
Period size: 20 Copynumber: 5.7 Consensus size: 19
82442 AATTGGGAAA
*
82452 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACT-ACT
* * *
82472 ATCGCAATGCGATAATACAAA
1 ATCGCAACGCGATACTAC--T
*
82493 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATAC-TACT
*
82513 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACT-ACT
* *
82533 TTCGCAACGCGATAATACAT
1 ATCGCAACGCGATACTAC-T
*
82553 AATCGCAATGCGAT
1 -ATCGCAACGCGAT
82567 TTTCAAAGCG
Statistics
Matches: 78, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
19 5 0.06
20 47 0.60
21 23 0.29
22 3 0.04
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.23
Consensus pattern (19 bp):
ATCGCAACGCGATACTACT
Found at i:82762 original size:22 final size:22
Alignment explanation
Indices: 82734--82777 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
82724 CACTCTCTCA
82734 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
82756 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
82778 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:84419 original size:18 final size:18
Alignment explanation
Indices: 84398--84442 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
84388 TCCACTTCGG
*
84398 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
84416 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
84434 GAGCCATCA
1 GAGCCATCA
84443 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:84972 original size:19 final size:20
Alignment explanation
Indices: 84918--84984 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
84908 TAGTTTACTT
* *
84918 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
84938 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
84958 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
84977 TCGCAACG
1 TCGCAACG
84985 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:84992 original size:14 final size:14
Alignment explanation
Indices: 84973--85062 Score: 63
Period size: 14 Copynumber: 5.9 Consensus size: 14
84963 ATGCGAAATG
*
84973 AAAATCGCAACGAC
1 AAAATCGCAACGAA
84987 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAA
*
85003 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAA
* *
85019 AAAATCTCAATGTGAA
1 AAAATCGCAA--CGAA
*
85035 ATGAAATCGCAACGAT
1 A--AAATCGCAACGAA
85051 AAAATCGCAACG
1 AAAATCGCAACG
85063 CGAAATGAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
14 29 0.48
16 14 0.23
18 17 0.28
ACGTcount: A:0.48, C:0.21, G:0.17, T:0.14
Consensus pattern (14 bp):
AAAATCGCAACGAA
Found at i:85015 original size:32 final size:33
Alignment explanation
Indices: 84957--85079 Score: 196
Period size: 32 Copynumber: 3.8 Consensus size: 33
84947 GGAAATGGCT
84957 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
84990 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
* * *
85022 ATCTCAATGTGAAATG-AAATCGCAACGATAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
85054 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
85080 TGCGATTTGT
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
32 58 0.70
33 25 0.30
ACGTcount: A:0.47, C:0.20, G:0.18, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:85125 original size:19 final size:19
Alignment explanation
Indices: 85110--85175 Score: 80
Period size: 20 Copynumber: 3.5 Consensus size: 19
85100 GCGATTTTGT
*
85110 CGTTGCGAT-TTCATTTCG
1 CGTTGCGATAGTCATTTCG
* *
85128 CATTGCGATAGCCATTTCCG
1 CGTTGCGATAGTCATTT-CG
*
85148 CGTTGCGATAGTCATTTTG
1 CGTTGCGATAGTCATTTCG
85167 CGTTGCGAT
1 CGTTGCGAT
85176 TTTAAGTTTC
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
18 8 0.20
19 15 0.38
20 17 0.43
ACGTcount: A:0.15, C:0.23, G:0.24, T:0.38
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:87062 original size:14 final size:14
Alignment explanation
Indices: 87043--87078 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
87033 ATTGTTTAAT
87043 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
87057 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
87071 TGATTTGT
1 TGATTTGT
87079 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:87204 original size:14 final size:14
Alignment explanation
Indices: 87185--87238 Score: 63
Period size: 14 Copynumber: 3.5 Consensus size: 14
87175 CGAAATGGCT
87185 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
87199 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAAA
87218 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
87232 ATCGCAA
1 ATCGCAA
87239 TGCGATTTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 18 0.51
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 11 0.31
ACGTcount: A:0.48, C:0.20, G:0.20, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:87319 original size:20 final size:20
Alignment explanation
Indices: 87262--87319 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
87252 TCGCATTGCG
* *
87262 ATTTTCTCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAGCC
87282 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
87302 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
87320 TCAAATGAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:87578 original size:14 final size:14
Alignment explanation
Indices: 87559--87613 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
87549 TCATTTCGCA
87559 TTGCGATTCTATCG
1 TTGCGATTCTATCG
*
87573 TTGCGATTTGCATTTCG
1 TTGCGA-TT-C-TATCG
87590 CATTGCGATTCTATCG
1 --TTGCGATTCTATCG
87606 TTGCGATT
1 TTGCGATT
87614 TGCATTTCGC
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 14 0.41
15 2 0.06
16 5 0.15
17 5 0.15
18 2 0.06
19 6 0.18
ACGTcount: A:0.15, C:0.20, G:0.22, T:0.44
Consensus pattern (14 bp):
TTGCGATTCTATCG
Found at i:87587 original size:33 final size:33
Alignment explanation
Indices: 87550--87631 Score: 164
Period size: 33 Copynumber: 2.5 Consensus size: 33
87540 TTGCCTTTTT
87550 CATTTCGCATTGCGATTCTATCGTTGCGATTTG
1 CATTTCGCATTGCGATTCTATCGTTGCGATTTG
87583 CATTTCGCATTGCGATTCTATCGTTGCGATTTG
1 CATTTCGCATTGCGATTCTATCGTTGCGATTTG
87616 CATTTCGCATTGCGAT
1 CATTTCGCATTGCGAT
87632 GGTCAAATGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.16, C:0.22, G:0.21, T:0.41
Consensus pattern (33 bp):
CATTTCGCATTGCGATTCTATCGTTGCGATTTG
Found at i:88463 original size:24 final size:24
Alignment explanation
Indices: 88412--88465 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
88402 GTATTCGAAA
* * *
88412 TTTGATCTTGGTCAATACCCTGAC
1 TTTGATATTGGTCAATACACGGAC
*
88436 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
88460 TTTGAT
1 TTTGAT
88466 GATGTTTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:90987 original size:33 final size:33
Alignment explanation
Indices: 90945--91038 Score: 161
Period size: 33 Copynumber: 2.8 Consensus size: 33
90935 GGAAATTACT
90945 ATCGCAATGCGAAATGAAAATCACAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCACAACGAGAGA
* *
90978 ATCGCAATGCGAAATGAAAATCACAATGAGGGA
1 ATCGCAATGCGAAATGAAAATCACAACGAGAGA
*
91011 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCACAACG
91039 CGAATTTAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCACAACGAGAGA
Found at i:91034 original size:19 final size:19
Alignment explanation
Indices: 90945--91042 Score: 72
Period size: 19 Copynumber: 5.7 Consensus size: 19
90935 GGAAATTACT
90945 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
90964 ATCACAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
90978 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* **
90997 ATCACAAT--G--A-GGGA
1 ATCGCAATGCGAAATGAAA
91011 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
91030 ATCGCAACGCGAA
1 ATCGCAATGCGAA
91043 TTTAATTTCG
Statistics
Matches: 58, Mismatches: 11, Indels: 20
0.65 0.12 0.22
Matches are distributed among these distances:
14 18 0.31
15 2 0.03
16 3 0.05
17 3 0.05
18 2 0.03
19 30 0.52
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:91060 original size:19 final size:20
Alignment explanation
Indices: 91038--91080 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
91028 AAATCGCAAC
91038 GCGAATTT-AATTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
* *
91057 GCGATTTTCATTTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
91077 GCGA
1 GCGA
91081 TTCTCTCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (20 bp):
GCGAATTTCAATTTCGCGTT
Found at i:91065 original size:14 final size:14
Alignment explanation
Indices: 91066--91099 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
91056 TGCGATTTTC
91066 ATTTTCGCGTTGCG
1 ATTTTCGCGTTGCG
* *
91080 ATTCTCTCGTTGCG
1 ATTTTCGCGTTGCG
91094 ATTTTC
1 ATTTTC
91100 ATTTCGCATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.24, G:0.21, T:0.47
Consensus pattern (14 bp):
ATTTTCGCGTTGCG
Found at i:91240 original size:14 final size:14
Alignment explanation
Indices: 91221--91257 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
91211 CATCAATTAA
91221 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
91235 ACAAATCACCTTTT
1 ACAAATCAACTTTT
91249 ACAAATCAA
1 ACAAATCAA
91258 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:92681 original size:21 final size:21
Alignment explanation
Indices: 92615--92681 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
92605 GTGAATCGGG
*
92615 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
92635 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
92657 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
92678 CTCT
1 CTCT
92682 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:92700 original size:42 final size:41
Alignment explanation
Indices: 92615--92737 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
92605 GTGAATCGGG
* * * * *
92615 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
92657 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * *
92699 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGATAGG
92738 CGAGTCGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.06
42 58 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:94770 original size:20 final size:19
Alignment explanation
Indices: 94739--94799 Score: 68
Period size: 20 Copynumber: 3.1 Consensus size: 19
94729 TCTTTTGGTT
94739 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* *
94758 GATAATGAGAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
**
94779 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
94798 GA
1 GA
94800 GAATCGCAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 4 0.11
20 29 0.83
21 2 0.06
ACGTcount: A:0.44, C:0.18, G:0.25, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:94821 original size:33 final size:34
Alignment explanation
Indices: 94764--94839 Score: 118
Period size: 33 Copynumber: 2.3 Consensus size: 34
94754 ACGAGATAAT
*
94764 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGCGGAAATGACTATCGCAACCA
*
94798 GAGAATCGCAACGC-GAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGGAAATGACTATCGCAACCA
*
94831 GACAATCGC
1 GAGAATCGC
94840 GAAATAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
33 25 0.64
34 14 0.36
ACGTcount: A:0.37, C:0.26, G:0.25, T:0.12
Consensus pattern (34 bp):
GAGAATCGCAACGCGGAAATGACTATCGCAACCA
Found at i:94861 original size:19 final size:19
Alignment explanation
Indices: 94837--94879 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
94827 ACCAGACAAT
94837 CGCGAAATAAAAATCGCAA
1 CGCGAAATAAAAATCGCAA
*
94856 CGCGAAATGAAAATCGCAA
1 CGCGAAATAAAAATCGCAA
*
94875 TGCGA
1 CGCGA
94880 TTTTGGTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.47, C:0.21, G:0.21, T:0.12
Consensus pattern (19 bp):
CGCGAAATAAAAATCGCAA
Found at i:94897 original size:19 final size:19
Alignment explanation
Indices: 94875--94922 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
94865 AAAATCGCAA
*
94875 TGCGATTTTGGTTT-CGCGT
1 TGCGATTTT-ATTTCCGCGT
*
94894 TGCGATAGTTATTTCCGCGT
1 TGCGAT-TTTATTTCCGCGT
94914 TGCGATTTT
1 TGCGATTTT
94923 CATTCTCGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.10, C:0.17, G:0.27, T:0.46
Consensus pattern (19 bp):
TGCGATTTTATTTCCGCGT
Found at i:95525 original size:20 final size:20
Alignment explanation
Indices: 95440--95533 Score: 82
Period size: 20 Copynumber: 4.7 Consensus size: 20
95430 CGCTATGTAA
* * *
95440 ATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATAGTCAGT
*
95460 ATCGCATTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * * *
95480 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTCAGT
*
95501 ATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATAGTCAGT
95521 ATCGCATTGCGAT
1 ATCGCATTGCGAT
95534 TTTCCCAATT
Statistics
Matches: 60, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
19 3 0.05
20 43 0.72
21 12 0.20
22 2 0.03
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:96238 original size:23 final size:21
Alignment explanation
Indices: 96184--96239 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 21
96174 AAACTACGTA
96184 TTTAAAATATAAATTAAACTAT
1 TTTAAAAT-TAAATTAAACTAT
96206 TTTAATAATTAAATTTATAA-TATT
1 TTTAA-AATTAAA-TTA-AACTA-T
96230 TTTAAAATTA
1 TTTAAAATTA
96240 TATATGAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
22 9 0.30
23 13 0.43
24 8 0.27
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
TTTAAAATTAAATTAAACTAT
Found at i:97176 original size:29 final size:29
Alignment explanation
Indices: 97130--97186 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
97120 ATTAATATTA
*
97130 TTTTTCATTAATGAAATAAATTTTATTTG
1 TTTTTCATTAATGAAATAAATTTGATTTG
* *
97159 TTTTTCGTTAAT-AGAATAACTTTGATTT
1 TTTTTCATTAATGA-AATAAATTTGATTT
97187 TAAAAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 1 0.04
29 23 0.96
ACGTcount: A:0.32, C:0.05, G:0.09, T:0.54
Consensus pattern (29 bp):
TTTTTCATTAATGAAATAAATTTGATTTG
Found at i:119472 original size:29 final size:29
Alignment explanation
Indices: 119425--119586 Score: 197
Period size: 29 Copynumber: 5.7 Consensus size: 29
119415 TCCACATTCG
*
119425 AAAATTCCCAAAATGTCACCTTTTTCA-A
1 AAAATTCCCAGAATGTCACCTTTTTCACA
*
119453 AATAATTCCCAGAATATCACCTTTTTCA-A
1 AA-AATTCCCAGAATGTCACCTTTTTCACA
*
119482 AATAATTCCCAGAATATCA-CTTTTT-ACA
1 AA-AATTCCCAGAATGTCACCTTTTTCACA
* * *
119510 AAAATTCACAAAATGTCACATTTTTCACA
1 AAAATTCCCAGAATGTCACCTTTTTCACA
* *
119539 AAAATTCTCAGAATGTCACCTTTTTCATA
1 AAAATTCCCAGAATGTCACCTTTTTCACA
*
119568 AAAATTCTCAGAATGTCAC
1 AAAATTCCCAGAATGTCAC
119587 TGGATCGAGT
Statistics
Matches: 120, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
27 14 0.12
28 16 0.13
29 90 0.75
ACGTcount: A:0.40, C:0.22, G:0.05, T:0.33
Consensus pattern (29 bp):
AAAATTCCCAGAATGTCACCTTTTTCACA
Found at i:119512 original size:58 final size:57
Alignment explanation
Indices: 119425--119586 Score: 195
Period size: 56 Copynumber: 2.8 Consensus size: 57
119415 TCCACATTCG
* * * *
119425 AAAATTCCCAAAATGTCACCTTTTTCAAAATAATTCCCAGAATATCACCTTTTTCA-A
1 AAAATTCCCAGAATGTCACCTTTTTCAAAA-AATTCACAGAATGTCACATTTTTCACA
* *
119482 AATAATTCCCAGAATATCA-CTTTTT-ACAAAAATTCACAAAATGTCACATTTTTCACA
1 AA-AATTCCCAGAATGTCACCTTTTTCA-AAAAATTCACAGAATGTCACATTTTTCACA
* *
119539 AAAATTCTCAGAATGTCACCTTTTTCATAAAAATTCTCAGAATGTCAC
1 AAAATTCCCAGAATGTCACCTTTTTCA-AAAAATTCACAGAATGTCAC
119587 TGGATCGAGT
Statistics
Matches: 89, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
56 36 0.40
57 20 0.22
58 33 0.37
ACGTcount: A:0.40, C:0.22, G:0.05, T:0.33
Consensus pattern (57 bp):
AAAATTCCCAGAATGTCACCTTTTTCAAAAAATTCACAGAATGTCACATTTTTCACA
Found at i:119574 original size:85 final size:85
Alignment explanation
Indices: 119425--119587 Score: 240
Period size: 85 Copynumber: 1.9 Consensus size: 85
119415 TCCACATTCG
* *
119425 AAAATTCCCAAAATGTCACCTTTTTCAAAATAATTCCCAGAATATCACCTTTTTCAAAATAATTC
1 AAAATTCACAAAATGTCACATTTTTCAAAATAATTCCCAGAATATCACCTTTTTCAAAATAATTC
119490 CCAGAATATCACTTTTTACA
66 CCAGAATATCACTTTTTACA
* *
119510 AAAATTCACAAAATGTCACATTTTTCACAAA-AATTCTCAGAATGTCACCTTTTTCATAAA-AAT
1 AAAATTCACAAAATGTCACATTTTTCA-AAATAATTCCCAGAATATCACCTTTTTCA-AAATAAT
* *
119573 TCTCAGAATGTCACT
64 TCCCAGAATATCACT
119588 GGATCGAGTC
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
85 64 0.91
86 6 0.09
ACGTcount: A:0.39, C:0.22, G:0.05, T:0.34
Consensus pattern (85 bp):
AAAATTCACAAAATGTCACATTTTTCAAAATAATTCCCAGAATATCACCTTTTTCAAAATAATTC
CCAGAATATCACTTTTTACA
Found at i:119623 original size:17 final size:17
Alignment explanation
Indices: 119601--119633 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
119591 TCGAGTCAGG
*
119601 TCAACGGGTCGGGTCGA
1 TCAACGAGTCGGGTCGA
119618 TCAACGAGTCGGGTCG
1 TCAACGAGTCGGGTCG
119634 GGTCAGGCCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.24, G:0.39, T:0.18
Consensus pattern (17 bp):
TCAACGAGTCGGGTCGA
Found at i:119672 original size:19 final size:19
Alignment explanation
Indices: 119645--119690 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
119635 GTCAGGCCGA
* * *
119645 TCAACCCGGTTCGGACCGG
1 TCAAACCGGTTCAGAACGG
119664 TCAAACCGGTTCAGAACGG
1 TCAAACCGGTTCAGAACGG
*
119683 CCAAACCG
1 TCAAACCG
119691 ATCATAACAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.26, C:0.35, G:0.26, T:0.13
Consensus pattern (19 bp):
TCAAACCGGTTCAGAACGG
Found at i:138776 original size:36 final size:36
Alignment explanation
Indices: 138729--138805 Score: 145
Period size: 36 Copynumber: 2.1 Consensus size: 36
138719 AAAGGTTAAA
*
138729 AACAATATATAAATAGGAAATGTGAAGATAATGGTC
1 AACAATATATAAATAGGAAATATGAAGATAATGGTC
138765 AACAATATATAAATAGGAAATATGAAGATAATGGTC
1 AACAATATATAAATAGGAAATATGAAGATAATGGTC
138801 AACAA
1 AACAA
138806 AGATAATGAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.53, C:0.06, G:0.17, T:0.23
Consensus pattern (36 bp):
AACAATATATAAATAGGAAATATGAAGATAATGGTC
Found at i:149109 original size:22 final size:24
Alignment explanation
Indices: 149071--149128 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
149061 GGCATGTGAA
* * *
149071 ATATGTCCCTAAGGA-C-CTATGC
1 ATATGTCCCGAAAGACCACTATCC
149093 ATATGTCCCGAAAGACCACTATCC
1 ATATGTCCCGAAAGACCACTATCC
*
149117 ATATGTTCCGAA
1 ATATGTCCCGAA
149129 GAACATAGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 13 0.43
23 1 0.03
24 16 0.53
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.26
Consensus pattern (24 bp):
ATATGTCCCGAAAGACCACTATCC
Found at i:149158 original size:30 final size:30
Alignment explanation
Indices: 149114--149202 Score: 90
Period size: 30 Copynumber: 2.9 Consensus size: 30
149104 AAGACCACTA
*
149114 TCCATATGTTCCGAAGAACATAGGTAACTG
1 TCCATATGTCCCGAAGAACATAGGTAACTG
* * *
149144 TCCATTTGTCCCGAAGGACATAGGTAAACTA
1 TCCATATGTCCCGAAGAACATAGGT-AACTG
* * *
149175 TTCATATGTCTCGAA-AGACATAAGTAAC
1 TCCATATGTCCCGAAGA-ACATAGGTAAC
149203 CCTCAATTCT
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
30 25 0.52
31 23 0.48
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (30 bp):
TCCATATGTCCCGAAGAACATAGGTAACTG
Found at i:151808 original size:348 final size:342
Alignment explanation
Indices: 151135--151825 Score: 1112
Period size: 348 Copynumber: 2.0 Consensus size: 342
151125 TTGAAAAATT
* *
151135 ATGGCTAATACTACAAGAGTTGCAATATTCATCAAGATTTTGAAATTCGGTTCCATGGTCACTCC
1 ATGGCTAATACCACAAGAGTTGCAATATTCATCAAGATTTTAAAATTCGGTTCCATGGTCACTCC
* *
151200 TAACACTAGAAATTGAATAACCTTTTTCATTTTGGTTTATTTTAGAAACTGTGATGAATTTATCT
66 TAACACTAGAAATTGAATAACCTTTTTCATTTTGATTTATTTTAGAAAATGTGATGAATTTATCT
* *
151265 AAAGCTTCATCCTTAGAACTTAAAAGGAGAACCCACATGAATCTAGAGTAATCATCAACAAAAAA
131 AAAACTTCATCCTTAGAACTTAAAAAGAGAACCCACATGAATCTAGAGTAATCATCAACAAAAAA
*
151330 AAAACCATATTATTTTCCACCCAAGCTAATAGTCCTAATAAGCCCAAATAAATCCATGTGAATCA
196 AAAACCATATTATTTTCCACCCAAGCTAATAGTCCTAATAAGCCCAAATAAATCCACGTGAATCA
151395 TTTGCAATACTTTACTAAAGGAAACATAATTAATGAATTTAAATGAAACTATTTTATGCTTACCC
261 TTTGCAATACTTTACTAAAGGAAACATAATTAATGAATTTAAATGAAACTATTTTATGCTTACCC
151460 TTTACACATACATCACA
326 TTTACACATACATCACA
*
151477 ATGGCTAATACCACAAGAGTTGCAATATTCATCAAAATCAAGATTTTAAAATTTGGTTCCATGGT
1 ATGGCTAATACCACAAGAGTTGCAATA-T--TC---ATCAAGATTTTAAAATTCGGTTCCATGGT
*
151542 CACTCCTAACACTAGAAATTGAGTAACCTTTTTCATTTTGATTTATTTTAGAAAATGTGATGAAT
60 CACTCCTAACACTAGAAATTGAATAACCTTTTTCATTTTGATTTATTTTAGAAAATGTGATGAAT
* ** *
151607 TTATCTAAAACTTCATCCTTAGAACTTAAAAATAGAACCCATGTGAATTTAGAGTAATCATCAAC
125 TTATCTAAAACTTCATCCTTAGAACTTAAAAAGAGAACCCACATGAATCTAGAGTAATCATCAAC
* * * * * *
151672 AAACACAAAAGCATATTATTTTTCACCCAAGCTAGTAGTCCTAATAGGCCCAAATAAATCCACGT
190 AAAAAAAAAACCATATTATTTTCCACCCAAGCTAATAGTCCTAATAAGCCCAAATAAATCCACGT
* * * *
151737 GAATCATTTGCAATACTTTACTAAAGGAAACATCATTAATGGATTTAAATGAAACTCTTTTATGT
255 GAATCATTTGCAATACTTTACTAAAGGAAACATAATTAATGAATTTAAATGAAACTATTTTATGC
*
151802 TTACCCTTTACACATGCATCACA
320 TTACCCTTTACACATACATCACA
151825 A
1 A
151826 ATTTTGTCTA
Statistics
Matches: 319, Mismatches: 24, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
342 26 0.08
343 1 0.00
345 2 0.01
348 290 0.91
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.32
Consensus pattern (342 bp):
ATGGCTAATACCACAAGAGTTGCAATATTCATCAAGATTTTAAAATTCGGTTCCATGGTCACTCC
TAACACTAGAAATTGAATAACCTTTTTCATTTTGATTTATTTTAGAAAATGTGATGAATTTATCT
AAAACTTCATCCTTAGAACTTAAAAAGAGAACCCACATGAATCTAGAGTAATCATCAACAAAAAA
AAAACCATATTATTTTCCACCCAAGCTAATAGTCCTAATAAGCCCAAATAAATCCACGTGAATCA
TTTGCAATACTTTACTAAAGGAAACATAATTAATGAATTTAAATGAAACTATTTTATGCTTACCC
TTTACACATACATCACA
Found at i:152992 original size:24 final size:24
Alignment explanation
Indices: 152960--153011 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
152950 AAGTTGGCTA
152960 CTTCTTCTTCTTCATCAGAGCATT
1 CTTCTTCTTCTTCATCAGAGCATT
*
152984 CTTCTTCTTCTTCATTAGAGCATT
1 CTTCTTCTTCTTCATCAGAGCATT
153008 CTTC
1 CTTC
153012 ATCGCTCCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.15, C:0.29, G:0.08, T:0.48
Consensus pattern (24 bp):
CTTCTTCTTCTTCATCAGAGCATT
Found at i:154907 original size:32 final size:32
Alignment explanation
Indices: 154858--154928 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 32
154848 ACTTAATAGG
*
154858 AGTATCGGTACTTCAGTGTATTTTTACACACT
1 AGTATCAGTACTTCAGTGTATTTTTACACACT
*
154890 AGTATCAGTA-TTGCAGTGTATTTTTACACATT
1 AGTATCAGTACTT-CAGTGTATTTTTACACACT
*
154922 GGTATCA
1 AGTATCA
154929 ATACCTGTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
31 2 0.06
32 33 0.94
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.41
Consensus pattern (32 bp):
AGTATCAGTACTTCAGTGTATTTTTACACACT
Found at i:159191 original size:3 final size:3
Alignment explanation
Indices: 159183--159207 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
159173 TTCTCTAACT
159183 TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
159208 ACTACATCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:160229 original size:30 final size:31
Alignment explanation
Indices: 160193--160250 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
160183 CCTGAATTAA
* *
160193 AATTTT-AAAATGATAGGCTTTTATTTGGGT
1 AATTTTAAAAATGATAAGCTCTTATTTGGGT
*
160223 AATTTTAAAAATGTTAAGCTCTTATTTG
1 AATTTTAAAAATGATAAGCTCTTATTTG
160251 ATCCCTTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 6 0.25
31 18 0.75
ACGTcount: A:0.33, C:0.05, G:0.16, T:0.47
Consensus pattern (31 bp):
AATTTTAAAAATGATAAGCTCTTATTTGGGT
Found at i:169275 original size:20 final size:22
Alignment explanation
Indices: 169231--169276 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
169221 TAAAACTCTA
*
169231 TAACTCTTGCATTAATGCTTTG
1 TAACTCTTGCATTAATACTTTG
169253 TAACTCTTGCATTAA-AC-TTG
1 TAACTCTTGCATTAATACTTTG
169273 TAAC
1 TAAC
169277 AACTCAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.30
21 1 0.04
22 15 0.65
ACGTcount: A:0.28, C:0.20, G:0.11, T:0.41
Consensus pattern (22 bp):
TAACTCTTGCATTAATACTTTG
Found at i:172154 original size:22 final size:22
Alignment explanation
Indices: 172126--172199 Score: 139
Period size: 22 Copynumber: 3.4 Consensus size: 22
172116 TGTTACAGAC
172126 TTGAATTTCAAAAATTGATTGT
1 TTGAATTTCAAAAATTGATTGT
*
172148 TTAAATTTCAAAAATTGATTGT
1 TTGAATTTCAAAAATTGATTGT
172170 TTGAATTTCAAAAATTGATTGT
1 TTGAATTTCAAAAATTGATTGT
172192 TTGAATTT
1 TTGAATTT
172200 TAATAAAATA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.36, C:0.04, G:0.12, T:0.47
Consensus pattern (22 bp):
TTGAATTTCAAAAATTGATTGT
Found at i:181736 original size:38 final size:36
Alignment explanation
Indices: 181687--181966 Score: 121
Period size: 38 Copynumber: 7.5 Consensus size: 36
181677 TTTAAAAAGT
181687 TTTTGAAAACATTTTTTAAAAACATATATATTATATAG
1 TTTTGAAAACA-TTTTT-AAAACATATATATTATATAG
*
181725 TTTTGAAAACA-TTTT--GA-A-A-ATA-TATATAG
1 TTTTGAAAACATTTTTAAAACATATATATTATATAG
* * *
181754 TTTTTAAAACATTTTGAAAATATATATATTATATAG
1 TTTTGAAAACATTTTTAAAACATATATATTATATAG
* * *
181790 TTTTTTTAAAACATTTTGAAAATATATATATATAATATATAG
1 --TTTTGAAAACATTTT-TAAA-ACATATATAT--TATATAG
* * * * *
181832 TTTTTAAAATATTTTTTTGAAAACTATATAATTTTGAAAATAT
1 TTTTGAAAACA--TTTTT-AAAAC-ATAT-ATATT--ATATAG
** * * *
181875 TTTTTGAAAATATTTTTTGAAA-ATATATAATATATAAG
1 TTTTGAAAAC-A-TTTTTAAAACATATATATTATAT-AG
* *
181913 TTTT-AAAATATTTTT-GAACATATATATTATATAGG
1 TTTTGAAAACATTTTTAAAACATATATATTATATA-G
*
181948 TTTTTAGAAAATATTTTTA
1 -TTTT-GAAAACATTTTTA
181967 TTATTATTAT
Statistics
Matches: 192, Mismatches: 22, Indels: 55
0.71 0.08 0.20
Matches are distributed among these distances:
29 17 0.09
30 6 0.03
31 1 0.01
32 2 0.01
33 2 0.01
34 4 0.02
35 21 0.11
36 16 0.08
37 6 0.03
38 42 0.22
39 6 0.03
40 24 0.12
41 2 0.01
42 21 0.11
43 21 0.11
44 1 0.01
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (36 bp):
TTTTGAAAACATTTTTAAAACATATATATTATATAG
Found at i:181755 original size:29 final size:29
Alignment explanation
Indices: 181718--181781 Score: 119
Period size: 29 Copynumber: 2.2 Consensus size: 29
181708 ACATATATAT
181718 TATATAGTTTTGAAAACATTTTGAAAATA
1 TATATAGTTTTGAAAACATTTTGAAAATA
*
181747 TATATAGTTTTTAAAACATTTTGAAAATA
1 TATATAGTTTTGAAAACATTTTGAAAATA
181776 TATATA
1 TATATA
181782 TTATATAGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.44
Consensus pattern (29 bp):
TATATAGTTTTGAAAACATTTTGAAAATA
Found at i:181781 original size:67 final size:68
Alignment explanation
Indices: 181684--181819 Score: 206
Period size: 67 Copynumber: 2.0 Consensus size: 68
181674 TTTTTTAAAA
*
181684 AGTTTTTGAAAACATTTTTTAAAAACATATATATTATATAG-TTTTGAAAACATTTTGAAAATAT
1 AGTTTTTGAAAACA-TTTTTGAAAACATATATATTATATAGTTTTTGAAAACATTTTGAAAATAT
181748 ATAT
65 ATAT
* *
181752 AGTTTTT-AAAACA-TTTTGAAAATATATATATTATATAGTTTTTTTAAAACATTTTGAAAATAT
1 AGTTTTTGAAAACATTTTTGAAAACATATATATTATATAG-TTTTTGAAAACATTTTGAAAATAT
181815 ATAT
65 ATAT
181819 A
1 A
181820 TATAATATAT
Statistics
Matches: 63, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
65 23 0.37
67 33 0.52
68 7 0.11
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.46
Consensus pattern (68 bp):
AGTTTTTGAAAACATTTTTGAAAACATATATATTATATAGTTTTTGAAAACATTTTGAAAATATA
TAT
Found at i:181841 original size:67 final size:63
Alignment explanation
Indices: 181692--181843 Score: 171
Period size: 67 Copynumber: 2.3 Consensus size: 63
181682 AAAGTTTTTG
*
181692 AAAACATTTTTTAAAAACATATATATTATATAGTTTTGAAAACATTTTGAAAATATATATAGTTT
1 AAAACA-TTTTT-AAAATATATATATTATATAGTTTTGAAAACATTTTGAAAATATATATA--TT
*
181757 TT
62 AT
* *
181759 AAAACATTTTGAAAATATATATATTATATAGTTTTTTTAAAACATTTTGAAAATATATATA-TAT
1 AAAACATTTTTAAAATATATATATTATATAG--TTTTGAAAACATTTTGAAAATATATATATTAT
*
181823 AATATATAGTTTTTAAAATAT
1 AA-A-ACA-TTTTTAAAATAT
181844 TTTTTTGAAA
Statistics
Matches: 74, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
64 4 0.05
65 20 0.27
66 6 0.08
67 44 0.59
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.45
Consensus pattern (63 bp):
AAAACATTTTTAAAATATATATATTATATAGTTTTGAAAACATTTTGAAAATATATATATTAT
Found at i:181848 original size:13 final size:13
Alignment explanation
Indices: 181832--181900 Score: 86
Period size: 13 Copynumber: 5.0 Consensus size: 13
181822 TAATATATAG
181832 TTTTT-AAAATATT
1 TTTTTGAAAATA-T
181845 TTTTTGAAAACTAT
1 TTTTTGAAAA-TAT
181859 ATAATTTTGAAAATAT
1 -T--TTTTGAAAATAT
181875 TTTTTGAAAATAT
1 TTTTTGAAAATAT
181888 TTTTTGAAAATAT
1 TTTTTGAAAATAT
181901 ATAATATATA
Statistics
Matches: 51, Mismatches: 0, Indels: 10
0.84 0.00 0.16
Matches are distributed among these distances:
13 30 0.59
14 5 0.10
15 4 0.08
16 3 0.06
17 9 0.18
ACGTcount: A:0.41, C:0.01, G:0.06, T:0.52
Consensus pattern (13 bp):
TTTTTGAAAATAT
Found at i:181860 original size:42 final size:38
Alignment explanation
Indices: 181744--181965 Score: 183
Period size: 38 Copynumber: 5.7 Consensus size: 38
181734 CATTTTGAAA
*
181744 ATATATATAGTTTTTAAAACA-TTTTGAAAATATATAT
1 ATATATATAGTTTTTAAAATATTTTTGAAAATATATAT
*
181781 AT-TATATAGTTTTTTTAAAACA-TTTTGAAAATATATATAT
1 ATATATATAG--TTTTTAAAATATTTTTG-AAA-ATATATAT
181821 ATAATATATAGTTTTTAAAATATTTTTTTGAAAACTATATA-
1 AT-ATATATAGTTTTTAAAATA--TTTTTGAAAA-TATATAT
* * *
181862 ATTTTGAAAATATTTTTTGAAAATATTTTTTGAAAATATATA-
1 A-TAT--ATATAGTTTTT-AAAATA-TTTTTGAAAATATATAT
*
181904 ATATATA-AG-TTTTAAAATATTTTTGAACATATATAT
1 ATATATATAGTTTTTAAAATATTTTTGAAAATATATAT
*
181940 -TATATA-GGTTTTTAGAAAATATTTTT
1 ATATATATAGTTTTT--AAAATATTTTT
181966 ATTATTATTA
Statistics
Matches: 158, Mismatches: 9, Indels: 35
0.78 0.04 0.17
Matches are distributed among these distances:
35 22 0.14
36 17 0.11
37 6 0.04
38 28 0.18
39 5 0.03
40 20 0.13
41 5 0.03
42 24 0.15
43 25 0.16
44 6 0.04
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (38 bp):
ATATATATAGTTTTTAAAATATTTTTGAAAATATATAT
Found at i:181972 original size:3 final size:3
Alignment explanation
Indices: 181959--182015 Score: 50
Period size: 3 Copynumber: 19.3 Consensus size: 3
181949 TTTTAGAAAA
*
181959 TAT TTT TAT TAT TAT TAT TATT TAT TA- TAT ATAT T-T T-T TAT T-T
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT -TAT TAT TAT TAT TAT
182002 TACT TAT TAT TAT T
1 TA-T TAT TAT TAT T
182016 TTTTCCTTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
2 8 0.17
3 29 0.63
4 9 0.20
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:181984 original size:16 final size:16
Alignment explanation
Indices: 181959--182012 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
181949 TTTTAGAAAA
181959 TATT-TTTATTATTAT
1 TATTATTTATTATTAT
181974 TATTATTTATTA-TAT
1 TATTATTTATTATTAT
*
181989 ATATTTTTTATT-TTACT
1 -TATTATTTATTATTA-T
182006 TATTATT
1 TATTATT
182013 ATTTTTTCCT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
15 7 0.21
16 25 0.76
17 1 0.03
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (16 bp):
TATTATTTATTATTAT
Found at i:183044 original size:4 final size:4
Alignment explanation
Indices: 183035--183059 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
183025 TTAGTTTAAA
183035 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
183060 TTATTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:184080 original size:31 final size:29
Alignment explanation
Indices: 184038--184134 Score: 81
Period size: 29 Copynumber: 3.3 Consensus size: 29
184028 AAATATAAAA
*
184038 TTTG-AAAGTTTAGTAACT-AAAGTGTAAAT
1 TTTGAAAAGTTTAGGAACTAAAAG-GT-AAT
*
184067 GTTTGAAAAGTTTAGGGACTAAAAGGTAAT
1 -TTTGAAAAGTTTAGGAACTAAAAGGTAAT
* * * *
184097 TTTCAAAAGTTTAGGGACCAAAAGTTTAAT
1 TTTGAAAAGTTTAGGAACTAAAAG-GTAAT
*
184127 TTTTAAAA
1 TTTGAAAA
184135 TTTTGGTGTT
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
29 22 0.38
30 18 0.31
31 14 0.24
32 4 0.07
ACGTcount: A:0.41, C:0.05, G:0.19, T:0.35
Consensus pattern (29 bp):
TTTGAAAAGTTTAGGAACTAAAAGGTAAT
Found at i:184112 original size:29 final size:30
Alignment explanation
Indices: 184056--184134 Score: 97
Period size: 29 Copynumber: 2.6 Consensus size: 30
184046 TTTAGTAACT
* *
184056 AAAGTGTAAATGTTTGAAAAGTTTAGGGACTA
1 AAAGTGT-AAT-TTTCAAAAGTTTAGGGACCA
184088 AAAG-GTAATTTTCAAAAGTTTAGGGACCA
1 AAAGTGTAATTTTCAAAAGTTTAGGGACCA
* *
184117 AAAGTTTAATTTTTAAAA
1 AAAGTGTAATTTTCAAAA
184135 TTTTGGTGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
29 22 0.52
30 14 0.33
31 2 0.05
32 4 0.10
ACGTcount: A:0.43, C:0.05, G:0.19, T:0.33
Consensus pattern (30 bp):
AAAGTGTAATTTTCAAAAGTTTAGGGACCA
Found at i:185338 original size:20 final size:20
Alignment explanation
Indices: 185302--185340 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
185292 TGGAAAATAA
*
185302 TGTTAGAGTGATGAATTTGG
1 TGTTAGAATGATGAATTTGG
185322 TGTTAGAATG-TGAAATTTG
1 TGTTAGAATGATG-AATTTG
185341 ACTATTTTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.28, C:0.00, G:0.31, T:0.41
Consensus pattern (20 bp):
TGTTAGAATGATGAATTTGG
Found at i:187099 original size:12 final size:13
Alignment explanation
Indices: 187071--187104 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
187061 AAGTACGGAT
*
187071 TATGAAAATGAAA
1 TATGAAAGTGAAA
187084 TATGAAAGTG-AA
1 TATGAAAGTGAAA
187096 TATGAAAGT
1 TATGAAAGT
187105 TTTGTATTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.53, C:0.00, G:0.21, T:0.26
Consensus pattern (13 bp):
TATGAAAGTGAAA
Found at i:187198 original size:39 final size:39
Alignment explanation
Indices: 187134--187216 Score: 112
Period size: 39 Copynumber: 2.1 Consensus size: 39
187124 AAAAAGAATA
* *
187134 TGATATGATTATTATGTATGGTATTGTTTATCATGACTT
1 TGATATGACTATTATGTATGATATTGTTTATCATGACTT
* * **
187173 TGATATGACTATTCTTTATGATATTGTTTATCATGGTTT
1 TGATATGACTATTATGTATGATATTGTTTATCATGACTT
187212 TGATA
1 TGATA
187217 AAATCATGAG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.25, C:0.06, G:0.17, T:0.52
Consensus pattern (39 bp):
TGATATGACTATTATGTATGATATTGTTTATCATGACTT
Found at i:190544 original size:16 final size:16
Alignment explanation
Indices: 190519--190549 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
190509 AGCTTCTAAT
*
190519 TTTTTTAGTTCAAGTC
1 TTTTTGAGTTCAAGTC
190535 TTTTTGAGTTCAAGT
1 TTTTTGAGTTCAAGT
190550 TTAAATATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.10, G:0.16, T:0.55
Consensus pattern (16 bp):
TTTTTGAGTTCAAGTC
Found at i:190745 original size:10 final size:10
Alignment explanation
Indices: 190726--190757 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
190716 AAAAACAAAA
190726 TTTTTT-GGT
1 TTTTTTCGGT
190735 TTTTTTCGGT
1 TTTTTTCGGT
190745 TTTTTTCGGT
1 TTTTTTCGGT
190755 TTT
1 TTT
190758 CAGCCGGTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 6 0.27
10 16 0.73
ACGTcount: A:0.00, C:0.06, G:0.19, T:0.75
Consensus pattern (10 bp):
TTTTTTCGGT
Found at i:197774 original size:20 final size:20
Alignment explanation
Indices: 197744--197792 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
197734 TTTGAGCTCA
*
197744 AAGAG-AAAACACTAGAGCC
1 AAGAGTAAAACACCAGAGCC
197763 AAGAGTAAAACACCAGAGCC
1 AAGAGTAAAACACCAGAGCC
197783 AAGAGTAAAA
1 AAGAGTAAAA
197793 TAGTAGCCTG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
19 5 0.18
20 23 0.82
ACGTcount: A:0.55, C:0.18, G:0.20, T:0.06
Consensus pattern (20 bp):
AAGAGTAAAACACCAGAGCC
Found at i:218611 original size:14 final size:16
Alignment explanation
Indices: 218592--218623 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
218582 CGGGTCTTTC
218592 TTCA-TTTCTAT-ATT
1 TTCATTTTCTATGATT
218606 TTCATTTTCTATGATT
1 TTCATTTTCTATGATT
218622 TT
1 TT
218624 ATCGGTTGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.25
15 7 0.44
16 5 0.31
ACGTcount: A:0.19, C:0.12, G:0.03, T:0.66
Consensus pattern (16 bp):
TTCATTTTCTATGATT
Found at i:220225 original size:15 final size:14
Alignment explanation
Indices: 220205--220235 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
220195 TTTGGAGTAG
220205 ACATTTAACTCGTAC
1 ACATTTAACTC-TAC
220220 ACATTTAACTCTAC
1 ACATTTAACTCTAC
220234 AC
1 AC
220236 TTTTGCACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.35, C:0.29, G:0.03, T:0.32
Consensus pattern (14 bp):
ACATTTAACTCTAC
Found at i:221043 original size:15 final size:15
Alignment explanation
Indices: 221023--221053 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
221013 TATCGATGAA
221023 TTTTATATAAATAAT
1 TTTTATATAAATAAT
*
221038 TTTTATTTAAATAAT
1 TTTTATATAAATAAT
221053 T
1 T
221054 AGAATTTTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTTATATAAATAAT
Found at i:221739 original size:56 final size:56
Alignment explanation
Indices: 221665--221846 Score: 228
Period size: 56 Copynumber: 3.3 Consensus size: 56
221655 AAGAATATTA
* * * *
221665 AAATCGAATATATTTATCAGTTGTTGTCATTAATAAGTATAAAAATAGGGGTCCCG
1 AAATCGAATATATCTATCAGTTGTTGACATTAAGAAGCATAAAAATAGGGGTCCCG
* * **
221721 AAATCGAATATATCTATCAGTTGTTGCCATTAAGAAACATAAAAATAGGACTCCCG
1 AAATCGAATATATCTATCAGTTGTTGACATTAAGAAGCATAAAAATAGGGGTCCCG
* *
221777 AAATCGAATATA--TATCAGTTATT-ACTATTAAGAAGCATAAAAATAAGGG-CTCCG
1 AAATCGAATATATCTATCAGTTGTTGAC-ATTAAGAAGCATAAAAATAGGGGTC-CCG
221831 AAATCGAATATATCTA
1 AAATCGAATATATCTA
221847 GAAAATAGGA
Statistics
Matches: 109, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
53 2 0.02
54 44 0.40
56 63 0.58
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.30
Consensus pattern (56 bp):
AAATCGAATATATCTATCAGTTGTTGACATTAAGAAGCATAAAAATAGGGGTCCCG
Found at i:221890 original size:2 final size:2
Alignment explanation
Indices: 221883--221907 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
221873 TTGCACATAG
221883 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
221908 GGAAAGGGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:222283 original size:56 final size:56
Alignment explanation
Indices: 222218--222324 Score: 137
Period size: 56 Copynumber: 1.9 Consensus size: 56
222208 ACATATTTTG
* *
222218 TAATAATTCAATCAAACTCCCGATCTCAT-TTTTAAGAAGTCG-AGTTGAATATTCTC
1 TAATAATTCAATCAAAC-CCCGAACTCATATTTT-AGAAGTAGAAGTTGAATATTCTC
* * *
222274 TAATTATTCAATTAAACCCCGAACTCATATTTTAGATGTAGAAGTTGAATA
1 TAATAATTCAATCAAACCCCGAACTCATATTTTAGAAGTAGAAGTTGAATA
222325 AGATTAAAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
55 16 0.36
56 28 0.64
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (56 bp):
TAATAATTCAATCAAACCCCGAACTCATATTTTAGAAGTAGAAGTTGAATATTCTC
Found at i:226051 original size:22 final size:21
Alignment explanation
Indices: 226017--226065 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
226007 ATAACTATTT
226017 AAAAAATTAAAT-AAAAATACA
1 AAAAAATTAAATAAAAAAT-CA
*
226038 AAAAACATTTAATAAAAAATCA
1 AAAAA-ATTAAATAAAAAATCA
226060 AAAAAA
1 AAAAAA
226066 ATTAGGTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 6 0.24
22 13 0.52
23 6 0.24
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (21 bp):
AAAAAATTAAATAAAAAATCA
Found at i:226555 original size:18 final size:18
Alignment explanation
Indices: 226505--226557 Score: 52
Period size: 21 Copynumber: 2.7 Consensus size: 18
226495 TTAACTAATT
226505 TATTATTTTTAATAAATAA
1 TATTA-TTTTAATAAATAA
* *
226524 TAAAATATTATTAATTAATAA
1 T--ATTATT-TTAATAAATAA
226545 TATTATTTTAATA
1 TATTATTTTAATA
226558 CAAAAAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 7
0.71 0.11 0.18
Matches are distributed among these distances:
18 5 0.19
19 6 0.22
20 2 0.07
21 14 0.52
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TATTATTTTAATAAATAA
Done.