Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01012879.1 Kokia drynarioides strain JFW-HI SEQ_127893, 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: 82685
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:6590 original size:59 final size:59
Alignment explanation
Indices: 6509--6672 Score: 186
Period size: 59 Copynumber: 2.8 Consensus size: 59
6499 CATCCGAGGG
* ** * * * * * *
6509 AAAAATGGCAAATTTTAAAAGTTTCGGGGTCAAAAATTGAAATTTT-AGAGGTTCGGGTT
1 AAAAATGG-AATTTTTGGAAGTTTTGGGGTCAAAAATGGAATTTTTCAAAGGTTAGGGGT
*
6568 CAAAAATGGAATTTTTGGAAGTTTTGGGGTCAAAAATGGAATTTTTCAAAGTTTAGGGGT
1 -AAAAATGGAATTTTTGGAAGTTTTGGGGTCAAAAATGGAATTTTTCAAAGGTTAGGGGT
* * *
6628 AAAGATAGAATTTTTGGAAGTTTTGGGGTCGAAAATGGAATTTTT
1 AAAAATGGAATTTTTGGAAGTTTTGGGGTCAAAAATGGAATTTTT
6673 GGACTATCAA
Statistics
Matches: 90, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
59 73 0.81
60 17 0.19
ACGTcount: A:0.35, C:0.05, G:0.26, T:0.35
Consensus pattern (59 bp):
AAAAATGGAATTTTTGGAAGTTTTGGGGTCAAAAATGGAATTTTTCAAAGGTTAGGGGT
Found at i:6602 original size:29 final size:30
Alignment explanation
Indices: 6509--6675 Score: 167
Period size: 30 Copynumber: 5.6 Consensus size: 30
6499 CATCCGAGGG
* ** *
6509 AAAAATGGCAAATTTTAAAAGTTTCGGGGTC
1 AAAAATGG-AATTTTTGGAAGTTTTGGGGTC
* * * * * *
6540 AAAAATTGAAATTTTAG-AGGTTCGGGTTC
1 AAAAATGGAATTTTTGGAAGTTTTGGGGTC
6569 AAAAATGGAATTTTTGGAAGTTTTGGGGTC
1 AAAAATGGAATTTTTGGAAGTTTTGGGGTC
** *
6599 AAAAATGGAATTTTTCAAAGTTTAGGGGT-
1 AAAAATGGAATTTTTGGAAGTTTTGGGGTC
* *
6628 AAAGATAGAATTTTTGGAAGTTTTGGGGTC
1 AAAAATGGAATTTTTGGAAGTTTTGGGGTC
*
6658 GAAAATGGAATTTTTGGA
1 AAAAATGGAATTTTTGGA
6676 CTATCAATGG
Statistics
Matches: 113, Mismatches: 21, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
29 48 0.42
30 58 0.51
31 7 0.06
ACGTcount: A:0.35, C:0.05, G:0.26, T:0.34
Consensus pattern (30 bp):
AAAAATGGAATTTTTGGAAGTTTTGGGGTC
Found at i:7235 original size:17 final size:17
Alignment explanation
Indices: 7213--7293 Score: 110
Period size: 17 Copynumber: 4.8 Consensus size: 17
7203 GACATTAATT
*
7213 TAAATTTAAATTTATAA
1 TAAATTTAAATTTAAAA
*
7230 TAAATTTAAATTTCAAA
1 TAAATTTAAATTTAAAA
*
7247 TTAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
*
7264 TAAACTTT-ATTTTAAAA
1 TAAA-TTTAAATTTAAAA
7281 TAAATTTAAATTT
1 TAAATTTAAATTT
7294 TGTTGGGCCC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
16 3 0.05
17 49 0.89
18 3 0.05
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:7236 original size:23 final size:22
Alignment explanation
Indices: 7209--7293 Score: 84
Period size: 23 Copynumber: 3.8 Consensus size: 22
7199 TTTGGACATT
*
7209 AATTTAAATTTAAATTTATAATA
1 AATTTAAATTTAAATTTAT-TTA
*
7232 AATTTAAATTTCAAATTAATTTA
1 AATTTAAATTT-AAATTTATTTA
*
7255 AATTTAAA-ATAAACTTTATTTTA
1 AATTTAAATTTAAA-TTTA-TTTA
*
7278 AA-ATAAATTTAAATTT
1 AATTTAAATTTAAATTT
7294 TGTTGGGCCC
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
21 3 0.06
22 11 0.21
23 31 0.60
24 7 0.13
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
AATTTAAATTTAAATTTATTTA
Found at i:7264 original size:7 final size:6
Alignment explanation
Indices: 7209--7293 Score: 67
Period size: 6 Copynumber: 14.8 Consensus size: 6
7199 TTTGGACATT
7209 AATTTA AATTTA AATTTA TAA--TA AATTTA AATTTCA AA-TT- AATTTA
1 AATTTA AATTTA AATTTA -AATTTA AATTTA AATTT-A AATTTA AATTTA
* * *
7255 AATTTA AA-ATA AACTTT- ATTTTA AA-ATA AATTTA AATTT
1 AATTTA AATTTA AA-TTTA AATTTA AATTTA AATTTA AATTT
7294 TGTTGGGCCC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
4 4 0.06
5 15 0.24
6 38 0.60
7 6 0.10
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (6 bp):
AATTTA
Found at i:11186 original size:30 final size:29
Alignment explanation
Indices: 11128--11559 Score: 252
Period size: 30 Copynumber: 14.6 Consensus size: 29
11118 AACTTTTTAG
* **
11128 AAATCACATTTCAACCCCCAAACTTTTCCA
1 AAATCACATTTTAACCCTTAAAC-TTTCCA
* *
11158 AAATCACATTTTTACCTTTAAATCTTTCCA
1 AAATCACATTTTAACCCTTAAA-CTTTCCA
* *
11188 AAATTACATTTTAACCCTTAAACTTTTCTA
1 AAATCACATTTTAACCCTTAAAC-TTTCCA
** *
11218 AAAT-AGCA-TTTGGCCCCTAAACTTCTCCA
1 AAATCA-CATTTTAACCCTTAAACTT-TCCA
** *
11247 AAATTGCATTTTGACCC-TAAACCTTTCCA
1 AAATCACATTTTAACCCTTAAA-CTTTCCA
* * *
11276 AAATTACATTTCAACCCCTAAACTTATCCA
1 AAATCACATTTTAACCCTTAAACTT-TCCA
* * * **
11306 AATTAACATTTAAACCCCCAAACTTTTCCA
1 AAATCACATTTTAACCCTTAAAC-TTTCCA
* *
11336 AAATTACATTTTGACACC-TAAACTTTTCCA
1 AAATCACATTTTAAC-CCTTAAAC-TTTCCA
**
11366 AAATTGCATTTTAACCCTTAAGATTCTTT--A
1 AAATCACATTTTAACCCTTAA-A--CTTTCCA
* * * *
11396 AAATTAC-TTTTGACTCCTAAAATTTTCCA
1 AAATCACATTTTAAC-CCTTAAACTTTCCA
* * * * *
11425 AAATTACATTCTGACCGTCAAACTTCTCCA
1 AAATCACATTTTAACCCTTAAACTT-TCCA
* ***
11455 AAATAACATTTTAACCCACGAACTTTTCCA
1 AAATCACATTTTAACCCTTAAAC-TTTCCA
11485 AAAGT-ACATTTTAACCC-TAAACTTCTCCA
1 AAA-TCACATTTTAACCCTTAAACTT-TCCA
** *
11514 AAATCACATTTTAACCCCGAAACCTTCCCA
1 AAATCACATTTTAACCCTTAAA-CTTTCCA
*
11544 AAATCACGTTTTAACC
1 AAATCACATTTTAACC
11560 TCAAGCTTCT
Statistics
Matches: 328, Mismatches: 48, Indels: 52
0.77 0.11 0.12
Matches are distributed among these distances:
27 3 0.01
28 5 0.02
29 93 0.28
30 211 0.64
31 12 0.04
32 3 0.01
33 1 0.00
ACGTcount: A:0.36, C:0.27, G:0.03, T:0.34
Consensus pattern (29 bp):
AAATCACATTTTAACCCTTAAACTTTCCA
Found at i:11250 original size:89 final size:87
Alignment explanation
Indices: 11141--11642 Score: 371
Period size: 89 Copynumber: 5.7 Consensus size: 87
11131 TCACATTTCA
* * * *
11141 ACCCCCAAACTTTTCCAAAATCACATTTTTACCTTTAAATCTTTCCAAAATTACATTTTAACCCT
1 ACCCCTAAACTTTTCCAAAATTACATTTTGACC-CTAAA-CTTTCCAAAATTACATTTTAACCCT
*
11206 TAAACTTTTCTAAAA-TAGCATTTG
64 TAAACTTTTCCAAAAGTA-CATTTG
* * * * *
11230 GCCCCTAAACTTCTCCAAAATTGCATTTTGACCCTAAACCTTTCCAAAATTACATTTCAACCCCT
1 ACCCCTAAACTTTTCCAAAATTACATTTTGACCCTAAA-CTTTCCAAAATTACATTTTAACCCTT
* * *
11295 AAACTTATCC-AAATTAACATTTAA
65 AAACTTTTCCAAAAGT-ACATTT-G
* *
11319 ACCCCCAAACTTTTCCAAAATTACATTTTGACACCTAAACTTTTCCAAAATTGCATTTTAACCCT
1 ACCCCTAAACTTTTCCAAAATTACATTTTGAC-CCTAAAC-TTTCCAAAATTACATTTTAACCCT
* * *
11384 TAAGA-TTCTT-TAAAATTACTTTTG
64 TAA-ACTT-TTCCAAAAGTACATTTG
* * * * * *
11408 ACTCCTAAAATTTTCCAAAATTACATTCTGACCGTCAAACTTCTCCAAAATAACATTTTAACCCA
1 ACCCCTAAACTTTTCCAAAATTACATTTTGACCCT-AAACTT-TCCAAAATTACATTTTAACCCT
** *
11473 CGAACTTTTCCAAAAGTACATTTT
64 TAAACTTTTCCAAAAGTACATTTG
* * * * * * * *
11497 AACCCTAAACTTCTCCAAAATCACATTTTAACCCCGAAACCTTCCCAAAATCACGTTTTAA-CCT
1 ACCCCTAAACTTTTCCAAAATTACATTTTGA-CCCTAAA-CTTTCCAAAATTACATTTTAACCCT
* * * *
11561 CAAGCTTCTCC---A-TA-TTTTG
64 TAAACTTTTCCAAAAGTACATTTG
* * * * *
11580 ACCCC-AAACTTATCCAAACTTACATTTCT-ACCCCTAAACTTTTCTAAAATTACGTTTTGACCC
1 ACCCCTAAACTTTTCCAAAATTACATTT-TGA-CCCTAAAC-TTTCCAAAATTACATTTTAACCC
11643 CCTATTCTGC
Statistics
Matches: 331, Mismatches: 65, Indels: 40
0.76 0.15 0.09
Matches are distributed among these distances:
81 1 0.00
82 43 0.13
83 10 0.03
84 2 0.01
85 1 0.00
87 3 0.01
88 59 0.18
89 163 0.49
90 42 0.13
91 7 0.02
ACGTcount: A:0.34, C:0.28, G:0.04, T:0.34
Consensus pattern (87 bp):
ACCCCTAAACTTTTCCAAAATTACATTTTGACCCTAAACTTTCCAAAATTACATTTTAACCCTTA
AACTTTTCCAAAAGTACATTTG
Found at i:11264 original size:59 final size:59
Alignment explanation
Indices: 11113--11643 Score: 349
Period size: 59 Copynumber: 9.1 Consensus size: 59
11103 CCCATTAGGT
* * * ** * *
11113 CCCTAAACTTTT-TAGAAATCACATTTCAACCCCCAAACTTTTCCAAAATCACATTTTTAC
1 CCCTAAACTTTTCCA-AAATTACATTTTAACCCTTAAACTTTTCCAAAATTACA-TTTGAC
** * *
11173 CTTTAAA-TCTTTCCAAAATTACATTTTAACCCTTAAACTTTTCTAAAA-TAGCATTTGGC
1 CCCTAAACT-TTTCCAAAATTACATTTTAACCCTTAAACTTTTCCAAAATTA-CATTTGAC
* * * * *
11232 CCCTAAACTTCTCCAAAATTGCATTTTGACCC-TAAACCTTTCCAAAATTACATTTCAAC
1 CCCTAAACTTTTCCAAAATTACATTTTAACCCTTAAACTTTTCCAAAATTACATTT-GAC
* * **
11291 CCCTAAACTTATCC-AAATTAACATTTAAACCCCCAAACTTTTCCAAAATTACATTTTGAC
1 CCCTAAACTTTTCCAAAATT-ACATTTTAACCCTTAAACTTTTCCAAAATTACA-TTTGAC
* * * *
11351 ACCTAAACTTTTCCAAAATTGCATTTTAACCCTTAAGA-TTCTT-TAAAATTACTTTTGAC
1 CCCTAAACTTTTCCAAAATTACATTTTAACCCTTAA-ACTT-TTCCAAAATTACATTTGAC
* * * * * * * * *
11410 TCCTAAAATTTTCCAAAATTACATTCTGACCGTCAAACTTCTCCAAAATAACATTTTAAC
1 CCCTAAACTTTTCCAAAATTACATTTTAACCCTTAAACTTTTCCAAAATTACA-TTTGAC
* * * * *
11470 CCAC-GAACTTTTCCAAAAGTACATTTTAACCC-TAAACTTCTCCAAAATCACATTTTAAC
1 CC-CTAAACTTTTCCAAAATTACATTTTAACCCTTAAACTTTTCCAAAATTACA-TTTGAC
* * * * * * * * *
11529 CCCGAAACCTTCCCAAAATCACGTTTTAA-CCTCAAGCTTCTCC---A-TA-TTTTGAC
1 CCCTAAACTTTTCCAAAATTACATTTTAACCCTTAAACTTTTCCAAAATTACATTTGAC
* * * * *
11582 CCC-AAACTTATCCAAACTTACATTTCT-ACCCCTAAACTTTTCTAAAATTACGTTTTGAC
1 CCCTAAACTTTTCCAAAATTACATTT-TAACCCTTAAACTTTTCCAAAATTAC-ATTTGAC
11641 CCC
1 CCC
11644 CTATTCTGCG
Statistics
Matches: 367, Mismatches: 78, Indels: 53
0.74 0.16 0.11
Matches are distributed among these distances:
52 17 0.05
53 18 0.05
55 1 0.00
56 2 0.01
57 2 0.01
58 28 0.08
59 165 0.45
60 121 0.33
61 13 0.04
ACGTcount: A:0.34, C:0.28, G:0.04, T:0.34
Consensus pattern (59 bp):
CCCTAAACTTTTCCAAAATTACATTTTAACCCTTAAACTTTTCCAAAATTACATTTGAC
Found at i:11416 original size:119 final size:118
Alignment explanation
Indices: 11184--11531 Score: 320
Period size: 119 Copynumber: 2.9 Consensus size: 118
11174 TTTAAATCTT
* * * * *
11184 TCCAAAATTACATTTTAACCCTTAAACTTTTCTAAAA-TAGCA-TTTGGCCCCTAAACTTCTCCA
1 TCCAAAATTACA-TTTAACCCTCAAACTTTTCCAAAATTA-CATTTTGACACCTAAACTTTTCCA
* *
11247 AAATTGCATTTTGACCC-TAAACCTTTCCAAAATTACATTTCAACCCCTAAACTTA
64 AAATTGCATTTTAACCCTTAAACCTTT-CAAAATTACATTTCAACCCCTAAAATTA
*
11302 TCC-AAATTAACATTTAAACCCCCAAACTTTTCCAAAATTACATTTTGACACCTAAACTTTTCCA
1 TCCAAAATT-ACATTT-AACCCTCAAACTTTTCCAAAATTACATTTTGACACCTAAACTTTTCCA
* ** * *
11366 AAATTGCATTTTAACCCTTAAGATTCTTT-AAAATTAC-TTTTGACTCCTAAAATTT
64 AAATTGCATTTTAACCCTTAA-A-CCTTTCAAAATTACATTTCAACCCCTAAAATTA
* * * * *
11421 TCCAAAATTACATTCTGACCGTCAAACTTCTCCAAAATAACATTTT-A-ACCCACGAACTTTTCC
1 TCCAAAATTACATT-TAACCCTCAAACTTTTCCAAAATTACATTTTGACACCTA--AACTTTTCC
* * * *
11484 AAAAGTACATTTTAACCC-TAAA-CTTCTCCAAAATCACATTTTAACCCC
63 AAAATTGCATTTTAACCCTTAAACCTT-T-CAAAATTACATTTCAACCCC
11532 GAAACCTTCC
Statistics
Matches: 191, Mismatches: 24, Indels: 29
0.78 0.10 0.12
Matches are distributed among these distances:
115 3 0.02
116 1 0.01
117 13 0.07
118 37 0.19
119 115 0.60
120 17 0.09
121 1 0.01
122 4 0.02
ACGTcount: A:0.36, C:0.26, G:0.04, T:0.34
Consensus pattern (118 bp):
TCCAAAATTACATTTAACCCTCAAACTTTTCCAAAATTACATTTTGACACCTAAACTTTTCCAAA
ATTGCATTTTAACCCTTAAACCTTTCAAAATTACATTTCAACCCCTAAAATTA
Found at i:11643 original size:30 final size:29
Alignment explanation
Indices: 11143--11643 Score: 249
Period size: 30 Copynumber: 17.1 Consensus size: 29
11133 ACATTTCAAC
* * *
11143 CCCCAAACTTTTCCAAAATCACATTTTTA
1 CCCCAAACTTATCCAAAATTACATTTTGA
** *
11172 CCTTTAAATCTT-TCCAAAATTACATTTTAA
1 CC-CCAAA-CTTATCCAAAATTACATTTTGA
* * * *
11202 CCCTTAAACTTTTCTAAAA-TAGCA-TTTGG
1 CCC-CAAACTTATCCAAAATTA-CATTTTGA
* *
11231 CCCCTAAACTTCTCCAAAATTGCATTTTGA
1 CCCC-AAACTTATCCAAAATTACATTTTGA
* **
11261 CCCTAAACCTT-TCCAAAATTACATTTCAA
1 CCCCAAA-CTTATCCAAAATTACATTTTGA
**
11290 CCCCTAAACTTATCC-AAATTAACATTTAAA
1 CCCC-AAACTTATCCAAAATT-ACATTTTGA
*
11320 CCCCCAAACTTTTCCAAAATTACATTTTGA
1 -CCCCAAACTTATCCAAAATTACATTTTGA
* * * *
11350 CACCTAAACTTTTCCAAAATTGCATTTTAA
1 C-CCCAAACTTATCCAAAATTACATTTTGA
* * **
11380 CCCTTAAGA-TTCTTTAAAATTAC-TTTTGA
1 CCC-CAA-ACTTATCCAAAATTACATTTTGA
* * * *
11409 CTCCTAAAATTTTCCAAAATTACATTCTGA
1 C-CCCAAACTTATCCAAAATTACATTTTGA
* * * *
11439 CCGTCAAACTTCTCCAAAATAACATTTTAA
1 CC-CCAAACTTATCCAAAATTACATTTTGA
* * * *
11469 CCCACGAACTTTTCCAAAAGTACATTTTAA
1 CCC-CAAACTTATCCAAAATTACATTTTGA
* * * *
11499 CCCTAAACTTCTCCAAAATCACATTTTAA
1 CCCCAAACTTATCCAAAATTACATTTTGA
* * * *
11528 CCCCGAAACCTT-CCCAAAATCACGTTTTAA
1 CCCC-AAA-CTTATCCAAAATTACATTTTGA
* * *
11558 CCTCAAGCTTCTCC---A-T--ATTTTGA
1 CCCCAAACTTATCCAAAATTACATTTTGA
*
11581 CCCCAAACTTATCCAAACTTACATTTCT-A
1 CCCCAAACTTATCCAAAATTACATTT-TGA
* * *
11610 CCCCTAAACTTTTCTAAAATTACGTTTTGA
1 CCCC-AAACTTATCCAAAATTACATTTTGA
11640 CCCC
1 CCCC
11644 CTATTCTGCG
Statistics
Matches: 370, Mismatches: 68, Indels: 67
0.73 0.13 0.13
Matches are distributed among these distances:
23 16 0.04
26 1 0.00
27 1 0.00
28 4 0.01
29 118 0.32
30 214 0.58
31 16 0.04
ACGTcount: A:0.34, C:0.28, G:0.04, T:0.34
Consensus pattern (29 bp):
CCCCAAACTTATCCAAAATTACATTTTGA
Found at i:13557 original size:20 final size:20
Alignment explanation
Indices: 13532--13573 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
13522 ATTAACAAAC
13532 ATCACTAGCATGAGTGAGCA
1 ATCACTAGCATGAGTGAGCA
13552 ATCACTAGCATGAGTGAGCA
1 ATCACTAGCATGAGTGAGCA
13572 AT
1 AT
13574 GGGTCGCAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.21
Consensus pattern (20 bp):
ATCACTAGCATGAGTGAGCA
Found at i:15409 original size:12 final size:12
Alignment explanation
Indices: 15388--15426 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
15378 CCAAAAAGAG
15388 ATGCAGGAACAA
1 ATGCAGGAACAA
*
15400 ATGCAAGAACAA
1 ATGCAGGAACAA
* *
15412 TTACAGGAACAA
1 ATGCAGGAACAA
15424 ATG
1 ATG
15427 ACAATGATGT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.51, C:0.15, G:0.21, T:0.13
Consensus pattern (12 bp):
ATGCAGGAACAA
Found at i:23453 original size:211 final size:209
Alignment explanation
Indices: 22997--23512 Score: 753
Period size: 211 Copynumber: 2.5 Consensus size: 209
22987 TCGTAGGGAA
** * * * * *
22997 GAGTGAAACTTCAAAAGTCCATCTTCCTGATGAGATACTAAGGAGTGGGTCAGAGTAATAAAGCA
1 GAGTGAAACTTCAAAAACCCATCTTCCTGATGAGATACTGAGAAGTGGGTCAAAGCAATAAAGCG
** * * *
23062 ATCATCTTCCTGATAAGATACAGAGAAGTGGACCAAATTCTTCTTCCTGATGAGATACAGAGAAG
66 ATTGTCTTCCTGATGAGATACAGAGAAGT-GAACAAATTCGTCTTCCTGATGAGATACAGAGAAG
* * * *
23127 AGGATTAAAACAATTGATGCGATCATCTTCCTGATGAGATATAGAGAAGTAGACTAAATCGATGA
130 AGGATTAAAACAAGTGATGCAATCATCTTCCTAATGAGATACAGAGAAGTAGACTAAATCGATGA
23192 AGCAAAGCTCAATGT
195 AGCAAAGCTCAATGT
* * *
23207 GAGTGAAACTTCAAAAACCCATCTTCTTGATGAGATATTGAGAAGTAGGTCAAAGCAATAAAGCG
1 GAGTGAAACTTCAAAAACCCATCTTCCTGATGAGATACTGAGAAGTGGGTCAAAGCAATAAAGCG
*
23272 GTTGTCTTCCTGATGAGATACAGAGAAGTGATACAAATTCGTCTTCCTGATGAGATACAGAGAAG
66 ATTGTCTTCCTGATGAGATACAGAGAAGTGA-ACAAATTCGTCTTCCTGATGAGATACAGAGAAG
* *
23337 CGGATTAAAAACAAGTGATGCAATTATCTTCCTAATGAGATACAGAGAAGTAGACTAAATCGATG
130 AGGATT-AAAACAAGTGATGCAATCATCTTCCTAATGAGATACAGAGAAGTAGACTAAATCGATG
23402 AAGCAAAGCTCAATGT
194 AAGCAAAGCTCAATGT
** * ** *
23418 TTGTGAAACTTCGAACCCCCATCTTCCTAATGAGATACTGAGAAGTGGGTCAAAGCAATAAAGCG
1 GAGTGAAACTTCAAAAACCCATCTTCCTGATGAGATACTGAGAAGTGGGTCAAAGCAATAAAGCG
23483 ATTGTCTTCCTGATGAGATACAGAGAAGTG
66 ATTGTCTTCCTGATGAGATACAGAGAAGTG
23513 GATTAAAACA
Statistics
Matches: 272, Mismatches: 32, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
209 2 0.01
210 116 0.43
211 154 0.57
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (209 bp):
GAGTGAAACTTCAAAAACCCATCTTCCTGATGAGATACTGAGAAGTGGGTCAAAGCAATAAAGCG
ATTGTCTTCCTGATGAGATACAGAGAAGTGAACAAATTCGTCTTCCTGATGAGATACAGAGAAGA
GGATTAAAACAAGTGATGCAATCATCTTCCTAATGAGATACAGAGAAGTAGACTAAATCGATGAA
GCAAAGCTCAATGT
Found at i:23602 original size:173 final size:173
Alignment explanation
Indices: 23312--23689 Score: 528
Period size: 173 Copynumber: 2.2 Consensus size: 173
23302 ATACAAATTC
* *
23312 GTCTTCCTGATGAGATACAGAGAAGCGGATTAAAAACAAGTGATGCAATTATCTTCCTAATGAGA
1 GTCTTCCTGATGAGATACAGAGAAGTGGATTAAAAACAAGTGATGCAATCATCTTCCTAATGAGA
**** *
23377 TACAGAGAAGTAGACTAAATCGATGAAGCAAAGCTCAATGTTTGTGAAACTTCGAACCCCCATCT
66 TACAGAGAAGTAGACTAAATCGATGAAGCAAAGCTCAATACGAGTGAAACTTCGAACCCCCATAT
* * *
23442 TCCTAATGAGATACTGAGAAGTGGGTCAAAGCAATAAAGCGATT
131 TCCTAATGAGACACTGAGAAGTGGGTCAAAACAATAAAGCG-GT
** * *
23486 GTCTTCCTGATGAGATACAGAGAAGTGGATT-AAAACAAGTGATGCTGTCATCTTCTTGATGAGA
1 GTCTTCCTGATGAGATACAGAGAAGTGGATTAAAAACAAGTGATGCAATCATCTTCCTAATGAGA
* *
23550 TACAGAGAAGTAGAAC-AAATTGATGAAG-AGAAGCTTAATACGAGTGAAACTTCGAACCCCCAT
66 TACAGAGAAGTAG-ACTAAATCGATGAAGCA-AAGCTCAATACGAGTGAAACTTCGAACCCCCAT
*
23613 ATTCCTGATGAGACACTGAGAAGTGGGTCAAAACAATAAAGCGGT
129 ATTCCTAATGAGACACTGAGAAGTGGGTCAAAACAATAAAGCGGT
23658 GTCATATTCCTGATGAGATACAGAGAAGTGGA
1 GTC---TTCCTGATGAGATACAGAGAAGTGGA
23690 CCAAATCCAT
Statistics
Matches: 182, Mismatches: 17, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
172 5 0.03
173 119 0.65
174 32 0.18
175 26 0.14
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.24
Consensus pattern (173 bp):
GTCTTCCTGATGAGATACAGAGAAGTGGATTAAAAACAAGTGATGCAATCATCTTCCTAATGAGA
TACAGAGAAGTAGACTAAATCGATGAAGCAAAGCTCAATACGAGTGAAACTTCGAACCCCCATAT
TCCTAATGAGACACTGAGAAGTGGGTCAAAACAATAAAGCGGT
Found at i:23768 original size:48 final size:48
Alignment explanation
Indices: 23697--23821 Score: 200
Period size: 48 Copynumber: 2.6 Consensus size: 48
23687 GGACCAAATC
* *
23697 CATCTTCCTGATGAGATACAGAGAAGT-GGATC-ACAATAATGAAGCAGT
1 CATCTTCCTGATGAGATACAGAGAAGTAGG-TCGA-AACAATAAAGCAGT
23745 CATCTTCCTGATGAGATACAGAGAAGTAGGTCGAAACAATAAAGCAGT
1 CATCTTCCTGATGAGATACAGAGAAGTAGGTCGAAACAATAAAGCAGT
23793 CATCTTCCTGATGAGATACAGAGAAGTAG
1 CATCTTCCTGATGAGATACAGAGAAGTAG
23822 ACCAAGGGAG
Statistics
Matches: 73, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
48 70 0.96
49 3 0.04
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (48 bp):
CATCTTCCTGATGAGATACAGAGAAGTAGGTCGAAACAATAAAGCAGT
Found at i:25184 original size:29 final size:29
Alignment explanation
Indices: 25005--25171 Score: 126
Period size: 29 Copynumber: 5.7 Consensus size: 29
24995 CCCAGTAGGT
*
25005 CCCTAAACTTTT-TAGAAATCACATTTTAA
1 CCCTAAACTTTTCTA-AAATTACATTTTAA
* * **
25034 CCCTCAAACTTTTCCAAAATCACATTTTGT
1 CCCT-AAACTTTTCTAAAATTACATTTTAA
* * * * *
25064 CGCAAAAC-CTTCTCAAAATCACATTTT-G
1 CCCTAAACTTTTCT-AAAATTACATTTTAA
* *
25092 GCCTCAAACTTCTCTAAAATTACATTTTAA
1 CCCT-AAACTTTTCTAAAATTACATTTTAA
* * *
25122 CCCTAAAC-TTCCCAAAATTACATTTTTA
1 CCCTAAACTTTTCTAAAATTACATTTTAA
25150 CGCCTAAACTTTTCTAAAATTA
1 C-CCTAAACTTTTCTAAAATTA
25172 TGTTTTGACC
Statistics
Matches: 108, Mismatches: 22, Indels: 15
0.74 0.15 0.10
Matches are distributed among these distances:
28 21 0.19
29 48 0.44
30 38 0.35
31 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.04, T:0.35
Consensus pattern (29 bp):
CCCTAAACTTTTCTAAAATTACATTTTAA
Found at i:34492 original size:15 final size:16
Alignment explanation
Indices: 34465--34497 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
34455 AAAATTAAGC
34465 TTAAAAATAAATTTAA
1 TTAAAAATAAATTTAA
34481 TTAAAAAT-AATTTAA
1 TTAAAAATAAATTTAA
34496 TT
1 TT
34498 TGAGAACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TTAAAAATAAATTTAA
Found at i:35206 original size:14 final size:12
Alignment explanation
Indices: 35177--35201 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35167 TTAAATAAAA
35177 AATAGCATTCAT
1 AATAGCATTCAT
35189 AATAGCATTCAT
1 AATAGCATTCAT
35201 A
1 A
35202 TAATAACAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (12 bp):
AATAGCATTCAT
Found at i:39229 original size:16 final size:16
Alignment explanation
Indices: 39208--39245 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
39198 TTTTCTTTTA
39208 TTTCTTAAGTAAGATT
1 TTTCTTAAGTAAGATT
39224 TTTCTTAAGTAAGATT
1 TTTCTTAAGTAAGATT
39240 TTTCTT
1 TTTCTT
39246 TTATTTCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.26, C:0.08, G:0.11, T:0.55
Consensus pattern (16 bp):
TTTCTTAAGTAAGATT
Found at i:46150 original size:6 final size:6
Alignment explanation
Indices: 46139--46177 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
46129 TATAGCAAAA
46139 TTTCTT TTTCTT TTT-TT TTTCTT TTTC-T TTTCTT TTTCT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCT
46178 CATTCAACAG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 10 0.32
6 21 0.68
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTCTT
Found at i:46161 original size:17 final size:17
Alignment explanation
Indices: 46139--46177 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
46129 TATAGCAAAA
*
46139 TTTCTTTTTCTTTTTTT
1 TTTCTTTTTCTTTTCTT
46156 TTTCTTTTTCTTTTCTT
1 TTTCTTTTTCTTTTCTT
46173 TTTCT
1 TTTCT
46178 CATTCAACAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTCTTTTTCTTTTCTT
Found at i:46176 original size:11 final size:11
Alignment explanation
Indices: 46139--46177 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
46129 TATAGCAAAA
46139 TTTCTTTTTCTT
1 TTTC-TTTTCTT
*
46151 TTTTTTTTCTT
1 TTTCTTTTCTT
46162 TTTCTTTTCTT
1 TTTCTTTTCTT
46173 TTTCT
1 TTTCT
46178 CATTCAACAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 22 0.88
12 3 0.12
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTCTTTTCTT
Found at i:58495 original size:21 final size:20
Alignment explanation
Indices: 58470--58512 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
58460 ATGAATATCT
58470 TTCTTTTCTTCTCCTTTCTTC
1 TTCTTTTCTTCTCCTTT-TTC
*
58491 TTCTTTTCTTCTCGTTTTTC
1 TTCTTTTCTTCTCCTTTTTC
58511 TT
1 TT
58513 AATTCTTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.00, C:0.28, G:0.02, T:0.70
Consensus pattern (20 bp):
TTCTTTTCTTCTCCTTTTTC
Found at i:58508 original size:11 final size:10
Alignment explanation
Indices: 58467--58508 Score: 50
Period size: 11 Copynumber: 4.1 Consensus size: 10
58457 GTCATGAATA
58467 TCTT-TCTTT
1 TCTTCTCTTT
*
58476 TCTTCTCCTT
1 TCTTCTCTTT
58486 TCTTCTTCTTT
1 TCTTC-TCTTT
58497 TCTTCTCGTTT
1 TCTTCTC-TTT
58508 T
1 T
58509 TCTTAATTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 4 0.14
10 11 0.39
11 13 0.46
ACGTcount: A:0.00, C:0.29, G:0.02, T:0.69
Consensus pattern (10 bp):
TCTTCTCTTT
Found at i:59730 original size:48 final size:47
Alignment explanation
Indices: 59643--59744 Score: 109
Period size: 48 Copynumber: 2.2 Consensus size: 47
59633 AAGGAGGAAG
* * * * *
59643 ATGTGGCCATTTTTGGCAAATATGTGGTAGTTCATCTGCAAACTGACT
1 ATGTGACCACTTTTAGCAAATATGTGGCAGTTCATCTGCAAAATGA-T
* *
59691 ATGTGACCACTTTTAGCAATTATGTGGCAGTT-TTACTGCAAAATGAT
1 ATGTGACCACTTTTAGCAAATATGTGGCAGTTCAT-CTGCAAAATGAT
59738 -TGTGACC
1 ATGTGACC
59745 GTTTTACGGT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
46 7 0.15
47 2 0.04
48 37 0.80
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (47 bp):
ATGTGACCACTTTTAGCAAATATGTGGCAGTTCATCTGCAAAATGAT
Found at i:61783 original size:18 final size:19
Alignment explanation
Indices: 61760--61803 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
61750 TTAGGCGTGG
61760 GAATGAAGAGA-GAATTGA-
1 GAATGAAGAGATG-ATTGAT
61778 GAATG-AGAGATGATTGAT
1 GAATGAAGAGATGATTGAT
61796 GAATGAAG
1 GAATGAAG
61804 GGAAGATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 10 0.43
18 11 0.48
19 2 0.09
ACGTcount: A:0.45, C:0.00, G:0.34, T:0.20
Consensus pattern (19 bp):
GAATGAAGAGATGATTGAT
Found at i:64439 original size:69 final size:69
Alignment explanation
Indices: 64314--64664 Score: 326
Period size: 69 Copynumber: 5.1 Consensus size: 69
64304 GTAGCATTCG
* * * * * *
64314 TGTCATATTAGGGTTCGCAAGTGAAGAGCCACAACCTCCAATATAGTTAGTAAGAGCAATGCTCC
1 TGTCATATTAAGGTTCGCAGGCGAAGAGTCACAACCTCCAATATAGTTAGCAAGAGCAAAGCTCC
64379 CAGC
66 CAGC
* * * * * * *
64383 TGTCATATTAAGGTTCACATGCGAAGAGTCACAACCTCTAATACAATTAGCGAGAGCAAAGCTCT
1 TGTCATATTAAGGTTCGCAGGCGAAGAGTCACAACCTCCAATATAGTTAGCAAGAGCAAAGCTCC
64448 CAGC
66 CAGC
* * * * * **** * *
64452 TATCATATTAAGGTTCGTAGGCGAATAGCCACAACCTTCAATATAGTTAATGGGAACAAAGCTTC
1 TGTCATATTAAGGTTCGCAGGCGAAGAGTCACAACCTCCAATATAGTTAGCAAGAGCAAAGCTCC
*
64517 CAGT
66 CAGC
* * * ** *
64521 TGCCATATTAAGGTTCGCATGCAAAGAGTTGCAACCTCCAATACAGTTA-CTAAGAGCAAAGCTC
1 TGTCATATTAAGGTTCGCAGGCGAAGAGTCACAACCTCCAATATAGTTAGC-AAGAGCAAAGCTC
* *
64585 CTAAC
65 CCAGC
* ** ** *
64590 TATCATATTAAGGTTCATAGGTAAAGAGTCGCAACCTCCAATATAGTTAGCAAGAGCAAAGCTCC
1 TGTCATATTAAGGTTCGCAGGCGAAGAGTCACAACCTCCAATATAGTTAGCAAGAGCAAAGCTCC
*
64655 CAGT
66 CAGC
64659 TGTCAT
1 TGTCAT
64665 TTTCAAAAAT
Statistics
Matches: 220, Mismatches: 60, Indels: 4
0.77 0.21 0.01
Matches are distributed among these distances:
69 219 1.00
70 1 0.00
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (69 bp):
TGTCATATTAAGGTTCGCAGGCGAAGAGTCACAACCTCCAATATAGTTAGCAAGAGCAAAGCTCC
CAGC
Found at i:64658 original size:138 final size:138
Alignment explanation
Indices: 64337--64660 Score: 400
Period size: 138 Copynumber: 2.3 Consensus size: 138
64327 TTCGCAAGTG
* * *
64337 AAGAGCCACAACCTCCAATATAGTTAGTAAGAGCAATGCTCCCAGCTGTCATATTAAGGTTCACA
1 AAGAGCCACAACCTCCAATATAGTTAGTAAGAGCAAAGCTCCCAGTTGCCATATTAAGGTTCACA
* * * *
64402 TGCGAAGAGTCACAACCTCTAATACAATTAGCGAGAGCAAAGCTCTCAGCTATCATATTAAGGTT
66 TGCAAAGAGTCACAACCTCCAATACAATTAGCAAGAGCAAAGCTCTCAACTATCATATTAAGGTT
* *
64467 CGTAGGCG
131 CATAGGCA
* * * ** * * *
64475 AATAGCCACAACCTTCAATATAGTTAATGGGAACAAAGCTTCCAGTTGCCATATTAAGGTTCGCA
1 AAGAGCCACAACCTCCAATATAGTTAGTAAGAGCAAAGCTCCCAGTTGCCATATTAAGGTTCACA
** *
64540 TGCAAAGAGTTGCAACCTCCAATACAGTTA-CTAAGAGCAAAGCTC-CTAACTATCATATTAAGG
66 TGCAAAGAGTCACAACCTCCAATACAATTAGC-AAGAGCAAAGCTCTC-AACTATCATATTAAGG
*
64603 TTCATAGGTA
129 TTCATAGGCA
* * *
64613 AAGAGTCGCAACCTCCAATATAGTTAGCAAGAGCAAAGCTCCCAGTTG
1 AAGAGCCACAACCTCCAATATAGTTAGTAAGAGCAAAGCTCCCAGTTG
64661 TCATTTTCAA
Statistics
Matches: 153, Mismatches: 31, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
137 2 0.01
138 151 0.99
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.24
Consensus pattern (138 bp):
AAGAGCCACAACCTCCAATATAGTTAGTAAGAGCAAAGCTCCCAGTTGCCATATTAAGGTTCACA
TGCAAAGAGTCACAACCTCCAATACAATTAGCAAGAGCAAAGCTCTCAACTATCATATTAAGGTT
CATAGGCA
Found at i:65095 original size:56 final size:56
Alignment explanation
Indices: 64917--65176 Score: 215
Period size: 56 Copynumber: 4.7 Consensus size: 56
64907 TCATTTTCAA
* ** * * ** *
64917 AAATTTCCACAAGTATAAAACAGCTCATGGATCCACATCCTAGTTGATTATTTTAG
1 AAATTTTCACAAGTATAAAACAGCTCGCGAATCCACATCCCAACTGATTGTTTTAG
* * * ** * ** * *
64973 AAATATTCACTAGTGTAAAACAG---G-G-ATTGATATCTAAACTGATTATCTTAG
1 AAATTTTCACAAGTATAAAACAGCTCGCGAATCCACATCCCAACTGATTGTTTTAG
*
65024 AAAATTTTCACAAGTATAAAACAGCTCGCGAATCCACATTCCAACTGATTGTTTTAG
1 -AAATTTTCACAAGTATAAAACAGCTCGCGAATCCACATCCCAACTGATTGTTTTAG
* * * * *
65081 AAATTTTCACAAGTATAAAAAAGATCGTGGATCCACATCCCAATTGATTGTTTTAG
1 AAATTTTCACAAGTATAAAACAGCTCGCGAATCCACATCCCAACTGATTGTTTTAG
* * * * *
65137 AAATTTCCACAAGTGTAAAACAGCTTGCGGATTCACATCC
1 AAATTTTCACAAGTATAAAACAGCTCGCGAATCCACATCC
65177 TAGTTAGTCA
Statistics
Matches: 161, Mismatches: 37, Indels: 12
0.77 0.18 0.06
Matches are distributed among these distances:
51 18 0.11
52 21 0.13
55 1 0.01
56 103 0.64
57 18 0.11
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (56 bp):
AAATTTTCACAAGTATAAAACAGCTCGCGAATCCACATCCCAACTGATTGTTTTAG
Found at i:73016 original size:121 final size:121
Alignment explanation
Indices: 72802--73044 Score: 459
Period size: 121 Copynumber: 2.0 Consensus size: 121
72792 CTCCGACTAA
72802 CAATCATCCAAGTAAGTCTCTGTTTGCAACTTTACTCCCATTTTTGCCAGGGCGTGTGCAACCCC
1 CAATCATCCAAGTAAGTCTCTGTTTGCAACTTTACTCCCATTTTTGCCAGGGCGTGTGCAACCCC
*
72867 ATTTCCTGCTCTTGAGACTTTCCGAAATACACGTGGAGCAAATTTATTTTTCAGTT
66 ATTTCCTGCTCTTGAGACCTTCCGAAATACACGTGGAGCAAATTTATTTTTCAGTT
* *
72923 CAATCATCCAAGTAAGTCTCTGTTTGCAACTTTATTCCCATTTTTGCTAGGGCGTGTGCAACCCC
1 CAATCATCCAAGTAAGTCTCTGTTTGCAACTTTACTCCCATTTTTGCCAGGGCGTGTGCAACCCC
72988 ATTTCCTGCTCTTGAGACCTTCCGAAATACACGTGGAGCAAATTTATTTTTCAGTT
66 ATTTCCTGCTCTTGAGACCTTCCGAAATACACGTGGAGCAAATTTATTTTTCAGTT
73044 C
1 C
73045 TTTGATGTCC
Statistics
Matches: 119, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
121 119 1.00
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.35
Consensus pattern (121 bp):
CAATCATCCAAGTAAGTCTCTGTTTGCAACTTTACTCCCATTTTTGCCAGGGCGTGTGCAACCCC
ATTTCCTGCTCTTGAGACCTTCCGAAATACACGTGGAGCAAATTTATTTTTCAGTT
Found at i:76012 original size:193 final size:194
Alignment explanation
Indices: 75653--76092 Score: 528
Period size: 193 Copynumber: 2.3 Consensus size: 194
75643 GAAATTGACG
* * * **
75653 CGATGGCTGAGGTACCGCATATGTTACAAGTCCTCGACAGCTCGTGTGAGCAGCATCGTGAGTCG
1 CGATGGCTGGGGTACCGCATATGTTACGAGTCCTTGACAGCTCGTGTGAGCAAAATCGTGAGTCG
**
75718 GGAAATGAGAAATGAATCCAAGATTTGGATTACAGGCCCTACGATGGCTGAGATTTATGCATAAG
66 AAAAATGAGAAATGAATCCAAGA-TTGGATTACAGGCCCTACGATGGCTGAGATTTATGCATAAG
* * *
75783 TGCATATTCTTGACAGCTCGTATGAGCAGCATCGTTAGGGAATAG-TTATATGCACAAATACCGT
130 TGCATATTCTCGACAGCTCATATGAGCAGCATCGTTAGGGAATAGTTTATA-G-ACAAACACCGT
**
75847 TT
193 AC
* *
75849 CGATGGTTGGGGTACCGCATATGTTTCGAGTCCTTGACAGCTCGTGTGAGCAAAATCGTGAGTCG
1 CGATGGCTGGGGTACCGCATATGTTACGAGTCCTTGACAGCTCGTGTGAGCAAAATCGTGAGTCG
* * * * * * * *
75914 AAAAAT-ATATATGAATCCTAA-A-TGGATTATAGGCCCTATGATGGTTGGGATTTATGCTTAAT
66 AAAAATGAGAAATGAATCC-AAGATTGGATTACAGGCCCTACGATGGCTGAGATTTATGCATAAG
* * * * *
75976 TGCATATTCTCGATAGTTCATGTGAGCGGCATCGTTAGGGAATAGTTTATAGACAGACACCGTAC
130 TGCATATTCTCGACAGCTCATATGAGCAGCATCGTTAGGGAATAGTTTATAGACAAACACCGTAC
** * * *
76041 CGATGGCTGGGGTACAACATACGTTGCGAGTCCTTGACAACTCGTGTGAGCA
1 CGATGGCTGGGGTACCGCATATGTTACGAGTCCTTGACAGCTCGTGTGAGCA
76093 GCATCGGGTA
Statistics
Matches: 209, Mismatches: 33, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
192 55 0.26
193 74 0.35
194 5 0.02
195 11 0.05
196 64 0.31
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (194 bp):
CGATGGCTGGGGTACCGCATATGTTACGAGTCCTTGACAGCTCGTGTGAGCAAAATCGTGAGTCG
AAAAATGAGAAATGAATCCAAGATTGGATTACAGGCCCTACGATGGCTGAGATTTATGCATAAGT
GCATATTCTCGACAGCTCATATGAGCAGCATCGTTAGGGAATAGTTTATAGACAAACACCGTAC
Found at i:79922 original size:192 final size:194
Alignment explanation
Indices: 79486--79930 Score: 467
Period size: 193 Copynumber: 2.3 Consensus size: 194
79476 GAAACCGACA
* * **
79486 CGATGGCTGAGG-TACTGCATATGTTGCGAGTCCTCGATAGCTCGTATGAGCAGCATTGTGAGTC
1 CGATGGCTG-GGATAC-GCATATATTGCGAGTCCTCGATAGCTCGTGTGAGCAGCATCATGAGTC
** *
79550 GAGAAATGAGAAATGAATCCAATATTTGGATTATAGGCCTTACGATGGCTGGGATTTATGCATAA
64 GAGAAATGAGAAATGAATCC-ATAAGTGGATTATAGGCCTTACGATGGCTGGAATTTATGCATAA
* ** * ** *
79615 GTGCATATTATTGACAGCTCATGTAAGTGGCATCATTAGGGAACTGTTATATTCACAGATATCGT
128 GTGCATATTATAGACAGCTCATGTAAGCAGCATCATTAGGGAACAGTTATACACACAGACATCGT
79680 AT
193 AT
* * *
79682 CGATGGCTGGGGTACTGCATATGTTGCGAGTCCTCAATAGCTCGTGTGAGCAGCATCATGAGTCG
1 CGATGGCTGGGATAC-GCATATATTGCGAGTCCTCGATAGCTCGTGTGAGCAGCATCATGAGTCG
* * *
79747 AGAAA-GA-AATATGAATCC-TAAGTGGATTATAGG-CTCTATGATGGCTTGAATTTATGCTTAA
65 AGAAATGAGAA-ATGAATCCATAAGTGGATTATAGGCCT-TACGATGGCTGGAATTTATGCATAA
* * * * * * * * *
79808 TTGTATATTCTAGACAGCTCGTGTGAGCAGCATCGTTAGGGGACAGTT-TACAGATAGACA-CTG
128 GTGCATATTATAGACAGCTCATGTAAGCAGCATCATTAGGGAACAGTTATACACACAGACATC-G
79871 TA-
192 TAT
*
79873 CTGATGGCTGGGATAC-CATATACATTGCGAGTCCTCGATAGCTCGTGTGAGTAGCATC
1 C-GATGGCTGGGATACGCATAT--ATTGCGAGTCCTCGATAGCTCGTGTGAGCAGCATC
79931 GGGTAATGGT
Statistics
Matches: 212, Mismatches: 30, Indels: 18
0.82 0.12 0.07
Matches are distributed among these distances:
190 5 0.02
191 2 0.01
192 57 0.27
193 71 0.33
194 2 0.01
195 12 0.06
196 63 0.30
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (194 bp):
CGATGGCTGGGATACGCATATATTGCGAGTCCTCGATAGCTCGTGTGAGCAGCATCATGAGTCGA
GAAATGAGAAATGAATCCATAAGTGGATTATAGGCCTTACGATGGCTGGAATTTATGCATAAGTG
CATATTATAGACAGCTCATGTAAGCAGCATCATTAGGGAACAGTTATACACACAGACATCGTAT
Found at i:81755 original size:18 final size:18
Alignment explanation
Indices: 81732--81768 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
81722 ACAATTCATA
81732 TCACTTTCAATTCCAATT
1 TCACTTTCAATTCCAATT
* *
81750 TCACTTTCACTTTCAATT
1 TCACTTTCAATTCCAATT
81768 T
1 T
81769 TGATCACAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.24, C:0.27, G:0.00, T:0.49
Consensus pattern (18 bp):
TCACTTTCAATTCCAATT
Done.