Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001298.1 Hibiscus syriacus cultivar Beakdansim tig00002537_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: 153744
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:701 original size:18 final size:18
Alignment explanation
Indices: 678--744 Score: 71
Period size: 20 Copynumber: 3.5 Consensus size: 18
668 TGAAACTTAA
*
678 ATCGCAACACGAATGACT
1 ATCGCAACGCGAATGACT
*
696 ATCGCAACGCGAAAATAACT
1 ATCGCAACGCG--AATGACT
*
716 ATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAA--TGACT
736 ATCGCAACG
1 ATCGCAACG
745 AGAGAATCGC
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
18 12 0.30
20 28 0.70
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.19
Consensus pattern (18 bp):
ATCGCAACGCGAATGACT
Found at i:1026 original size:19 final size:20
Alignment explanation
Indices: 1002--1048 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
992 TAGTTTACTT
1002 TCGCAACGCG-AAATGACTA
1 TCGCAACGCGAAAATGACTA
1021 TCGCAACGCGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
1041 TCGCAACG
1 TCGCAACG
1049 AGAGAATCGC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 10 0.37
20 17 0.63
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:1115 original size:20 final size:20
Alignment explanation
Indices: 1090--1157 Score: 118
Period size: 20 Copynumber: 3.4 Consensus size: 20
1080 GCGATTCTTT
**
1090 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
1110 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
1130 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
1150 CGTTGCGA
1 CGTTGCGA
1158 AAGTAAACTA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.18, C:0.21, G:0.26, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:1326 original size:18 final size:18
Alignment explanation
Indices: 1303--1350 Score: 96
Period size: 18 Copynumber: 2.7 Consensus size: 18
1293 ATTTCTAAGC
1303 AATCTAAGTGAAATGGTT
1 AATCTAAGTGAAATGGTT
1321 AATCTAAGTGAAATGGTT
1 AATCTAAGTGAAATGGTT
1339 AATCTAAGTGAA
1 AATCTAAGTGAA
1351 TTACGAGTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.31
Consensus pattern (18 bp):
AATCTAAGTGAAATGGTT
Found at i:3079 original size:20 final size:20
Alignment explanation
Indices: 3056--3162 Score: 101
Period size: 20 Copynumber: 5.5 Consensus size: 20
3046 TCTGAAACTT
*
3056 AAAATCGCAACACGAAAATG
1 AAAATCGCAACGCGAAAATG
*
3076 AAAATCGCAACACGAAAATG
1 AAAATCGCAACGCGAAAATG
** ** *
3096 ACTATCGCAACGCGAATTTT
1 AAAATCGCAACGCGAAAATG
**
3116 ACTATCGCAACGCG-AAATG
1 AAAATCGCAACGCGAAAATG
* *
3135 AAAATCGGAACGCGAAACT-
1 AAAATCGCAACGCGAAAATG
3154 AAAATCGCA
1 AAAATCGCA
3163 TTGCGATTCT
Statistics
Matches: 72, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
19 21 0.29
20 51 0.71
ACGTcount: A:0.46, C:0.22, G:0.17, T:0.15
Consensus pattern (20 bp):
AAAATCGCAACGCGAAAATG
Found at i:3146 original size:19 final size:19
Alignment explanation
Indices: 3119--3162 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
3109 GAATTTTACT
3119 ATCGCAACGCGAAA-TGAAA
1 ATCGCAACGCGAAACT-AAA
*
3138 ATCGGAACGCGAAACTAAA
1 ATCGCAACGCGAAACTAAA
3157 ATCGCA
1 ATCGCA
3163 TTGCGATTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 21 0.95
20 1 0.05
ACGTcount: A:0.45, C:0.23, G:0.20, T:0.11
Consensus pattern (19 bp):
ATCGCAACGCGAAACTAAA
Found at i:3767 original size:20 final size:20
Alignment explanation
Indices: 3742--3823 Score: 103
Period size: 20 Copynumber: 4.1 Consensus size: 20
3732 GTGCTTTGAA
3742 AATCGCGTTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
*
3762 AATCGCGTTGCGATAGTTAG
1 AATCGCGTTGCGATAGTCAG
* *
3782 AATCGCGTTGCGAT-TTACAT
1 AATCGCGTTGCGATAGT-CAG
* *
3802 ATTCGCATTGCGATAGTCAG
1 AATCGCGTTGCGATAGTCAG
3822 AA
1 AA
3824 AATCGCAACG
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
19 1 0.02
20 49 0.96
21 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (20 bp):
AATCGCGTTGCGATAGTCAG
Found at i:3836 original size:22 final size:22
Alignment explanation
Indices: 3811--3866 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 22
3801 TATTCGCATT
3811 GCGATAGTCAGAAAATCGCAAC
1 GCGATAGTCAGAAAATCGCAAC
* ** *
3833 GCGA-ATTTGGAAAATCGCAAT
1 GCGATAGTCAGAAAATCGCAAC
3854 GCGATAGTCAGAA
1 GCGATAGTCAGAA
3867 TCGCGTGCGA
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
21 17 0.65
22 9 0.35
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (22 bp):
GCGATAGTCAGAAAATCGCAAC
Found at i:4465 original size:15 final size:15
Alignment explanation
Indices: 4428--4457 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4418 CTAAATAAAG
*
4428 AAAATTAAAACTATA
1 AAAATTAAAAATATA
4443 AAAATTAAAAATATA
1 AAAATTAAAAATATA
4458 TATATTAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAATTAAAAATATA
Found at i:4492 original size:15 final size:15
Alignment explanation
Indices: 4472--4502 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4462 TTAATAGCCT
4472 TAAATATAAATATTA
1 TAAATATAAATATTA
*
4487 TAAATATAGATATTA
1 TAAATATAAATATTA
4502 T
1 T
4503 TAATGTAATT
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:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (15 bp):
TAAATATAAATATTA
Found at i:4580 original size:96 final size:94
Alignment explanation
Indices: 4479--4652 Score: 210
Period size: 94 Copynumber: 1.8 Consensus size: 94
4469 CCTTAAATAT
* * * * * *
4479 AAATATTATA-AATATAGATATTATTAATGTAATTTCATCATAATTAATATATT-AGGGATCAAA
1 AAATATCATATAATATAGACATTA-AAAGGTAATTTAAGCATAA-TAA-ATATTCA-GGATCAAA
*
4542 ATATAAA-TATCAAAAAAATTATATACTAATTTA
62 ATAAAAATTAT-AAAAAAATTATATACTAATTTA
*
4575 AAATATCATATAATATAGACATTAAAAGGTAATTTAAGCATAATAAATATTCAGGATTAAAATAA
1 AAATATCATATAATATAGACATTAAAAGGTAATTTAAGCATAATAAATATTCAGGATCAAAATAA
4640 AAATTATAAAAAA
66 AAATTATAAAAAA
4653 GGTAGGAACT
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
94 24 0.36
95 7 0.10
96 24 0.36
97 12 0.18
ACGTcount: A:0.54, C:0.05, G:0.06, T:0.34
Consensus pattern (94 bp):
AAATATCATATAATATAGACATTAAAAGGTAATTTAAGCATAATAAATATTCAGGATCAAAATAA
AAATTATAAAAAAATTATATACTAATTTA
Found at i:5446 original size:23 final size:23
Alignment explanation
Indices: 5420--5463 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
5410 GAACATAACG
*
5420 GTGGAGTAGTTGGAGTAGAGGCA
1 GTGGAGCAGTTGGAGTAGAGGCA
5443 GTGGAGCAGTTGGAGTAGAGG
1 GTGGAGCAGTTGGAGTAGAGG
5464 AACGGCTGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.25, C:0.05, G:0.50, T:0.20
Consensus pattern (23 bp):
GTGGAGCAGTTGGAGTAGAGGCA
Found at i:6602 original size:45 final size:45
Alignment explanation
Indices: 6373--7185 Score: 1004
Period size: 45 Copynumber: 18.5 Consensus size: 45
6363 ATCTTGCTCG
* * *
6373 GAAGG-CTTACAGATGACCCAAAGGATTT---AACATCTTGCACT
1 GAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACT
* * *
6414 GGAGGTCTTACAGATGACCCGAAGGATTTT--AAACATCTTGCATT
1 GAAGGTCTTACAGATGACCCGAAGG-TTTTGAAAACATCATGCACT
* ** * * * *
6458 GGAGGTCTTATGGATGACCCGGAGGATTT---AACATCTTGCATT
1 GAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACT
* * *
6500 GGAGGTCTTACAGATGACACGGAGGATTTT--AAACAT-ACTGCACT
1 GAAGGTCTTACAGATGACCCGAAGG-TTTTGAAAACATCA-TGCACT
* *
6544 GTAGGTCTTACAGATGACCCGAAGGTTTTGAAAATATCATGCACT
1 GAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACT
*
6589 GAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCATT
1 GAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACT
* * * *
6634 GAAGGTCTTACAGATGACTCGAAGATTTTGGAAATATCATGCACT
1 GAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACT
*
6679 GAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACATCGTGCACT
1 GAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACT
*
6724 GAAGGTCTTACAGATGACCCGAAGGTTTT-AAAA-ATCATGCAAT
1 GAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACT
* *
6767 AAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACATCTTGCACT
1 GAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACT
* * *
6812 GAAGGTCTTACAGATGACCTGAAAGTTTTGAAAATATCATGCACT
1 GAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACT
*
6857 GAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCATT
1 GAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACT
* * * *
6902 GAAGGTCTTACAGATGACTCAAAGGTTTTGGAAATATCATGCACT
1 GAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACT
*
6947 GAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACATCGTGCACT
1 GAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACT
* *
6992 GAAGGTCTTACAGATGACCAGAAGGTTTTG-AAA-ATCATGCAAT
1 GAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACT
*
7035 GAAGGTCTTACAGATGACCCGAAGG-TTTGAAAACATCTTGCACT
1 GAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACT
* * * *
7079 GAAGGTCTTACAAATGACCCGAAAG-TTTGGAAACATCATGCACC
1 GAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACT
* * * *
7123 GAAGGTCTTACAGATGGCCCTG-AGGTCTT---ATCATCTTGCACT
1 GAAGGTCTTACAGATGACCC-GAAGGTTTTGAAAACATCATGCACT
*
7165 GTAGGTCTTACAGATGACCCG
1 GAAGGTCTTACAGATGACCCG
7186 GAGGCTTTAA
Statistics
Matches: 682, Mismatches: 75, Indels: 30
0.87 0.10 0.04
Matches are distributed among these distances:
41 5 0.01
42 85 0.12
43 84 0.12
44 144 0.21
45 363 0.53
46 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.27
Consensus pattern (45 bp):
GAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACT
Found at i:6882 original size:268 final size:267
Alignment explanation
Indices: 6408--7138 Score: 1143
Period size: 268 Copynumber: 2.7 Consensus size: 267
6398 TTTAACATCT
* * * * **
6408 TGCACTGGAGGTCTTACAGATGACCCGAAGGATTTT--AAACATCTTGCATTGGAGGTCTTATGG
1 TGCACTGAAGGTCTTACAGATGACCCGAAGG-TTTTGAAAACATCGTGCACTGAAGGTCTTACAG
* * * * * * * *
6471 ATGACCCGGAGGATTTAACATCTTGCATTGGAGGTCTTACAGATGACACGGAGGATTTT--AAAC
65 ATGACCCGAAGGTTTTAAAATCATGCAATGAAGGTCTTACAGATGACCCGAAGG-TTTTGAAAAC
* *
6534 ATAC-TGCACTGTAGGTCTTACAGATGACCCGAAGGTTTTGAAAATATCATGCACTGAAGGTCTT
129 AT-CTTGCACTGAAGGTCTTACAGATGACCCGAAAGTTTTGAAAATATCATGCACTGAAGGTCTT
*
6598 ACAGATGACCCGAAGGTTTTGAAAACATCATGCATTGAAGGTCTTACAGATGACTCGAAGATTTT
193 ACAGATGACCCGAAGGTTTTGAAAACATCATGCATTGAAGGTCTTACAGATGACTCAAAGATTTT
6663 GGAAATATCA
258 GGAAATATCA
6673 TGCACTGAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACATCGTGCACTGAAGGTCTTACAGA
1 TGCACTGAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACATCGTGCACTGAAGGTCTTACAGA
*
6738 TGACCCGAAGGTTTTAAAAATCATGCAATAAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACA
66 TGACCCGAAGGTTTT-AAAATCATGCAATGAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACA
*
6803 TCTTGCACTGAAGGTCTTACAGATGACCTGAAAGTTTTGAAAATATCATGCACTGAAGGTCTTAC
130 TCTTGCACTGAAGGTCTTACAGATGACCCGAAAGTTTTGAAAATATCATGCACTGAAGGTCTTAC
*
6868 AGATGACCCGAAGGTTTTGAAAACATCATGCATTGAAGGTCTTACAGATGACTCAAAGGTTTTGG
195 AGATGACCCGAAGGTTTTGAAAACATCATGCATTGAAGGTCTTACAGATGACTCAAAGATTTTGG
6933 AAATATCA
260 AAATATCA
6941 TGCACTGAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACATCGTGCACTGAAGGTCTTACAGA
1 TGCACTGAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACATCGTGCACTGAAGGTCTTACAGA
*
7006 TGACCAGAAGGTTTTGAAAATCATGCAATGAAGGTCTTACAGATGACCCGAAGG-TTTGAAAACA
66 TGACCCGAAGGTTTT-AAAATCATGCAATGAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACA
* * * *
7070 TCTTGCACTGAAGGTCTTACAAATGACCCGAAAG-TTTGGAAACATCATGCACCGAAGGTCTTAC
130 TCTTGCACTGAAGGTCTTACAGATGACCCGAAAGTTTTGAAAATATCATGCACTGAAGGTCTTAC
7134 AGATG
195 AGATG
7139 GCCCTGAGGT
Statistics
Matches: 432, Mismatches: 28, Indels: 11
0.92 0.06 0.02
Matches are distributed among these distances:
264 4 0.01
265 30 0.07
266 72 0.17
267 74 0.17
268 252 0.58
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.27
Consensus pattern (267 bp):
TGCACTGAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACATCGTGCACTGAAGGTCTTACAGA
TGACCCGAAGGTTTTAAAATCATGCAATGAAGGTCTTACAGATGACCCGAAGGTTTTGAAAACAT
CTTGCACTGAAGGTCTTACAGATGACCCGAAAGTTTTGAAAATATCATGCACTGAAGGTCTTACA
GATGACCCGAAGGTTTTGAAAACATCATGCATTGAAGGTCTTACAGATGACTCAAAGATTTTGGA
AATATCA
Found at i:7150 original size:20 final size:21
Alignment explanation
Indices: 7125--7180 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
7115 CATGCACCGA
*
7125 AGGTCTTACAGATGGCCCTG-
1 AGGTCTTACAGATGGCACTGT
** *
7145 AGGTCTTATCATCTTGCACTGT
1 AGGTCTTA-CAGATGGCACTGT
7167 AGGTCTTACAGATG
1 AGGTCTTACAGATG
7181 ACCCGGAGGC
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
20 8 0.30
21 11 0.41
22 8 0.30
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.32
Consensus pattern (21 bp):
AGGTCTTACAGATGGCACTGT
Found at i:8523 original size:55 final size:55
Alignment explanation
Indices: 8431--8536 Score: 151
Period size: 55 Copynumber: 1.9 Consensus size: 55
8421 ATCACTGGTT
* * *
8431 CGTAAAACATTTGACAATATATTCATCATTTCATGTGGCTTTTGCATAGATGTTC
1 CGTAAAACATTTGACAATACATTAATCATTTCATGTGGCTTCTGCATAGATGTTC
* *
8486 CGTAAAACATTTGACAATACATTAAT-ATTTTCTTGTGGCTTCTGCCTAGAT
1 CGTAAAACATTTGACAATACATTAATCA-TTTCATGTGGCTTCTGCATAGAT
8537 TTCTCATCAC
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
54 1 0.02
55 44 0.98
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (55 bp):
CGTAAAACATTTGACAATACATTAATCATTTCATGTGGCTTCTGCATAGATGTTC
Found at i:10991 original size:68 final size:72
Alignment explanation
Indices: 10874--11011 Score: 212
Period size: 68 Copynumber: 2.0 Consensus size: 72
10864 ATATAATAAT
*
10874 ATAATAGGCTAGCTGAATATTATCCATAAAGCCGGGGCAATTAACCAATTGCTTTAGAGGGA-AA
1 ATAACAGGCTAGCTGAATATTATCCATAAAGCCGGGGCAATTAACCAATTGCTTTAGAGGGATAA
10938 CTCAATC
66 CTCAATC
* * *
10945 ATAACAGGCTAGCTG-A-A-TATCCATAAAGTCGGGGCTATTAACCAATTGCTTTAGGGGGATAA
1 ATAACAGGCTAGCTGAATATTATCCATAAAGCCGGGGCAATTAACCAATTGCTTTAGAGGGATAA
11007 CTCAA
66 CTCAA
11012 GCTTTATTGT
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
68 39 0.63
69 8 0.13
70 1 0.02
71 14 0.23
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (72 bp):
ATAACAGGCTAGCTGAATATTATCCATAAAGCCGGGGCAATTAACCAATTGCTTTAGAGGGATAA
CTCAATC
Found at i:12126 original size:19 final size:19
Alignment explanation
Indices: 12104--12143 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
12094 TTTCCTTTGT
*
12104 TTATCACATTT-TCAATTAA
1 TTATC-CATTTATCAATAAA
12123 TTATCCATTTATCAATAAA
1 TTATCCATTTATCAATAAA
12142 TT
1 TT
12144 CTCGAATTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.47
Consensus pattern (19 bp):
TTATCCATTTATCAATAAA
Found at i:14736 original size:20 final size:18
Alignment explanation
Indices: 14698--14736 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
14688 CTTTTTGTCC
14698 ATTTATGAAAACTTTTCA
1 ATTTATGAAAACTTTTCA
*
14716 ATTTGATGAACACTCTTTCA
1 ATTT-ATGAAAACT-TTTCA
14736 A
1 A
14737 ATCAACACCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 8 0.44
20 6 0.33
ACGTcount: A:0.36, C:0.15, G:0.08, T:0.41
Consensus pattern (18 bp):
ATTTATGAAAACTTTTCA
Found at i:16204 original size:2 final size:2
Alignment explanation
Indices: 16197--16295 Score: 198
Period size: 2 Copynumber: 49.5 Consensus size: 2
16187 AAAAATGAAG
16197 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
16239 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
16281 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
16296 TTAAACATGA
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 97 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:16637 original size:15 final size:15
Alignment explanation
Indices: 16617--16647 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
16607 TTAATAGCCT
16617 TAAATATAAATATTA
1 TAAATATAAATATTA
*
16632 TAAATATAAGTATTA
1 TAAATATAAATATTA
16647 T
1 T
16648 TAATGTAATT
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:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (15 bp):
TAAATATAAATATTA
Found at i:19963 original size:118 final size:118
Alignment explanation
Indices: 19690--19936 Score: 327
Period size: 118 Copynumber: 2.1 Consensus size: 118
19680 TAATATGACT
* * * *
19690 GGTTAATTACTGAAAACACTATCAACCATAATAACATAACAAGTAGCGATTATTTAACGTAATAG
1 GGTTAATTACTGAAAATATTATCAACCATTATAACATAACAAATAGCGATTATTTAACGTAATAG
* ** *
19755 TTAGCATTTTTTTAAAGCTAACGGAGCCTTAGAAATCCGACGATAACAAAATA
66 GTAGCACCTGTTTAAAGCTAACGGAGCCTTAGAAATCCGACGATAACAAAATA
* *
19808 GGTTAATTACTGAAAATATTATCAACCATTATAACATAACAAATAGCGCTTATTTAATGTAATAG
1 GGTTAATTACTGAAAATATTATCAACCATTATAACATAACAAATAGCGATTATTTAACGTAATAG
* * * *
19873 GTAGCGCCTGTTTAAAGCTGATA-GG-GCTTTAGAAATCTGACGATAATAAAATA
66 GTAGCACCTGTTTAAAGCT-A-ACGGAGCCTTAGAAATCCGACGATAACAAAATA
*
19926 TGTTAATTACT
1 GGTTAATTACT
19937 TAATTTGGTT
Statistics
Matches: 112, Mismatches: 15, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
118 108 0.96
119 3 0.03
120 1 0.01
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (118 bp):
GGTTAATTACTGAAAATATTATCAACCATTATAACATAACAAATAGCGATTATTTAACGTAATAG
GTAGCACCTGTTTAAAGCTAACGGAGCCTTAGAAATCCGACGATAACAAAATA
Found at i:20239 original size:109 final size:110
Alignment explanation
Indices: 20048--20273 Score: 337
Period size: 109 Copynumber: 2.1 Consensus size: 110
20038 TGACAATATT
* * * *
20048 GATACTTGTACATTTACGCCTATTTTTATTATACCGGTAGAAACGTTTATCGTGTACATTATTAA
1 GATACTTGGACATTTAAGCCTATTTTTATTATACCAGTAGAAACGTTTATCATGTACATTATTAA
* * **
20113 TTTATCTATTACTTTAAAGTAATAGGTTCCGAAATTA-ATTTATC
66 TTTACCTATTACTTTAAAGTAATAGGTTCCAAAATTATAAGTATC
* *
20157 GATACTTGGACATTTAAGCCTATTTTTATTATACCAGTAGAAATGTTTATCATGTACATTGTTAA
1 GATACTTGGACATTTAAGCCTATTTTTATTATACCAGTAGAAACGTTTATCATGTACATTATTAA
* *
20222 TTTACCTATTACTTTAAAGTAATATGTTTCAAAATTATAAGTATC
66 TTTACCTATTACTTTAAAGTAATAGGTTCCAAAATTATAAGTATC
20267 GATACTT
1 GATACTT
20274 TGTATACGAG
Statistics
Matches: 104, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
109 92 0.88
110 12 0.12
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.43
Consensus pattern (110 bp):
GATACTTGGACATTTAAGCCTATTTTTATTATACCAGTAGAAACGTTTATCATGTACATTATTAA
TTTACCTATTACTTTAAAGTAATAGGTTCCAAAATTATAAGTATC
Found at i:20363 original size:131 final size:128
Alignment explanation
Indices: 20157--20407 Score: 380
Period size: 131 Copynumber: 1.9 Consensus size: 128
20147 TTAATTTATC
* *
20157 GATACTTGGACATTTAAGCCTATTTTTATTATACCAGTAGAAATGTTTATCATGTACATTGTTAA
1 GATACTTGGACATTTAAGCATATTTTCATTATACCAGTAGAAATGTTTATCATGTACATTGTTAA
*
20222 TTTACCTATTACTTTAAAGTAATATG-TTTCAAAATTATAAGTATCGATACTTTGTATACGAGTA
66 TTTACCTATTAATTT--AGTAATA-GATTTCAAAATTATAAGTATCGATACTTT-TATACGAGTA
20286 TT
127 TT
* *
20288 GATACTTGGACATTTACA-CATATTTTCATTATACCGGTAGAAATGTTTATCGTGTACATTGTTA
1 GATACTTGGACATTTA-AGCATATTTTCATTATACCAGTAGAAATGTTTATCATGTACATTGTTA
* *
20352 ATTTACCTATTAATTTAGTATTAGATTTCAAAATTATAAGTATTGATACTTTTATA
65 ATTTACCTATTAATTTAGTAATAGATTTCAAAATTATAAGTATCGATACTTTTATA
20408 TATGTGTATC
Statistics
Matches: 111, Mismatches: 7, Indels: 7
0.89 0.06 0.06
Matches are distributed among these distances:
128 5 0.05
129 32 0.29
131 73 0.66
132 1 0.01
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.43
Consensus pattern (128 bp):
GATACTTGGACATTTAAGCATATTTTCATTATACCAGTAGAAATGTTTATCATGTACATTGTTAA
TTTACCTATTAATTTAGTAATAGATTTCAAAATTATAAGTATCGATACTTTTATACGAGTATT
Found at i:20402 original size:239 final size:238
Alignment explanation
Indices: 19964--20402 Score: 639
Period size: 240 Copynumber: 1.8 Consensus size: 238
19954 TATCAACATA
* * *
19964 TTATCATGTACATTGTTAATTTATCTATTACTTTAAAGTAATATGTTTCGAAATTATAAGTATTA
1 TTATCATGTACATTGTTAATTTACCTATTACTTTAAAGTAATATGTTTCAAAATTATAAGTATCA
* * * *
20029 ATACTTATATGACAATATTGATACTTGTACATTTACGCCTATTTTTATTATACCGGTAGAAACGT
66 ATACTTATATGACAATATTGATACTTGGACATTTACACATATTTTCATTATACCGGTAGAAACGT
* * * * **
20094 TTATCGTGTACATTATTAATTTATCTATTACTTTAAAGTAATAGGTTCCGAAATTAATTTATCGA
131 TTATCGTGTACATTATTAATTTACCTATTAATTT-AAGTAATAGATTCCAAAATTAAAGTATCGA
20159 TACTTGGACATTTAAGCCTATTTTTATTATACCAGTAGAAATGT
195 TACTTGGACATTTAAGCCTATTTTTATTATACCAGTAGAAATGT
*
20203 TTATCATGTACATTGTTAATTTACCTATTACTTTAAAGTAATATGTTTCAAAATTATAAGTATCG
1 TTATCATGTACATTGTTAATTTACCTATTACTTTAAAGTAATATGTTTCAAAATTATAAGTATCA
* * *
20268 ATACTTTGTAT-ACGAGTATTGATACTTGGACATTTACACATATTTTCATTATACCGGTAGAAAT
66 ATAC-TTATATGAC-AATATTGATACTTGGACATTTACACATATTTTCATTATACCGGTAGAAAC
* * * *
20332 GTTTATCGTGTACATTGTTAATTTACCTATTAATTT-AGTATTAGATTTCAAAATTATAAGTATT
129 GTTTATCGTGTACATTATTAATTTACCTATTAATTTAAGTAATAGATTCCAAAATTA-AAGTATC
20396 GATACTT
193 GATACTT
20403 TTATATATGT
Statistics
Matches: 176, Mismatches: 21, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
238 16 0.09
239 78 0.44
240 82 0.47
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.44
Consensus pattern (238 bp):
TTATCATGTACATTGTTAATTTACCTATTACTTTAAAGTAATATGTTTCAAAATTATAAGTATCA
ATACTTATATGACAATATTGATACTTGGACATTTACACATATTTTCATTATACCGGTAGAAACGT
TTATCGTGTACATTATTAATTTACCTATTAATTTAAGTAATAGATTCCAAAATTAAAGTATCGAT
ACTTGGACATTTAAGCCTATTTTTATTATACCAGTAGAAATGT
Found at i:21899 original size:23 final size:22
Alignment explanation
Indices: 21867--21945 Score: 149
Period size: 22 Copynumber: 3.5 Consensus size: 22
21857 GGGTATATTA
21867 GTCCTTCGGGACGTATCCAGTG
1 GTCCTTCGGGACGTATCCAGTG
21889 GTCCTTTCGGGACGTATCCAGTG
1 GTCC-TTCGGGACGTATCCAGTG
21912 GTCCTTCGGGACGTATCCAGTG
1 GTCCTTCGGGACGTATCCAGTG
21934 GTCCTTCGGGAC
1 GTCCTTCGGGAC
21946 ATAGTGGTTC
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
22 34 0.61
23 22 0.39
ACGTcount: A:0.13, C:0.28, G:0.32, T:0.28
Consensus pattern (22 bp):
GTCCTTCGGGACGTATCCAGTG
Found at i:21953 original size:18 final size:20
Alignment explanation
Indices: 21867--21962 Score: 106
Period size: 22 Copynumber: 4.5 Consensus size: 20
21857 GGGTATATTA
21867 GTCCTTCGGGACGTATCCAGTG
1 GTCCTTCGGGACG-AT-CAGTG
21889 GTCCTTTCGGGACGTATCCAGTG
1 GTCC-TTCGGGACG-AT-CAGTG
21912 GTCCTTCGGGACGTATCCAGTG
1 GTCCTTCGGGACG-AT-CAGTG
21934 GTCCTTCGGGAC-AT-AGTG
1 GTCCTTCGGGACGATCAGTG
*
21952 GTTCTTCGGGA
1 GTCCTTCGGGA
21963 TAAATACTGA
Statistics
Matches: 72, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
18 14 0.19
20 2 0.03
22 34 0.47
23 22 0.31
ACGTcount: A:0.14, C:0.25, G:0.32, T:0.29
Consensus pattern (20 bp):
GTCCTTCGGGACGATCAGTG
Found at i:22630 original size:2 final size:2
Alignment explanation
Indices: 22623--22664 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
22613 AATGTTTTAA
22623 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22665 GTGTGTAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24464 original size:2 final size:2
Alignment explanation
Indices: 24457--24500 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
24447 ACTGGAAAGA
24457 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24499 AT
1 AT
24501 GGATAGCTTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26644 original size:21 final size:20
Alignment explanation
Indices: 26620--26658 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
26610 AGAATGTGTA
26620 GGGGAAACAGATTCCCCCTGG
1 GGGGAAAC-GATTCCCCCTGG
* *
26641 GGGGTATCGATTCCCCCT
1 GGGGAAACGATTCCCCCT
26659 AAATGAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.18, C:0.31, G:0.31, T:0.21
Consensus pattern (20 bp):
GGGGAAACGATTCCCCCTGG
Found at i:28770 original size:23 final size:23
Alignment explanation
Indices: 28702--28759 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
28692 ACATCTTATA
*
28702 TGGCACTACGGTGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
* *
28725 CGGCACTTCGATGCAATTCTACG
1 TGGCACTTCGGTGCAATTCTACG
28748 TGGCACTTCGGT
1 TGGCACTTCGGT
28760 CCATTTATAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.19, C:0.28, G:0.26, T:0.28
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTCTACG
Found at i:29097 original size:20 final size:20
Alignment explanation
Indices: 29072--29144 Score: 128
Period size: 20 Copynumber: 3.6 Consensus size: 20
29062 CAAAGGGATA
29072 CACCGATGCACCAATCCATG
1 CACCGATGCACCAATCCATG
29092 CACCGATGCACCAATCCATG
1 CACCGATGCACCAATCCATG
*
29112 CACAGATGCACCAATCCATG
1 CACCGATGCACCAATCCATG
*
29132 CATCGATGCACCA
1 CACCGATGCACCA
29145 TTGAATAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.32, C:0.38, G:0.15, T:0.15
Consensus pattern (20 bp):
CACCGATGCACCAATCCATG
Found at i:29187 original size:65 final size:64
Alignment explanation
Indices: 29116--29274 Score: 166
Period size: 65 Copynumber: 2.5 Consensus size: 64
29106 TCCATGCACA
*
29116 GATGCACCAATCCATGCATCGATGCAC-C-A-TTGAATAAATTGAACATCGAATGCATTTTATGC
1 GATGCA-CAATCCATGCATCGATGCACTCAAGTTGAATAAA---AACATCGAATGCATTTGATGC
29178 ATC
62 ATC
* ** *
29181 GATGCACACA-CCATGCATCGATGTACTCAAGGTTTTATGAAAACATCGAATGCATTTGATGCAT
1 GATGCACA-ATCCATGCATCGATGCACTCAA-GTTGAATAAAAACATCGAATGCATTTGATGCAT
29245 C
64 C
*
29246 GATGCACAAGT-CATGCATCAATGCACTCA
1 GATGCACAA-TCCATGCATCGATGCACTCA
29275 GGCTATTTTG
Statistics
Matches: 80, Mismatches: 7, Indels: 14
0.79 0.07 0.14
Matches are distributed among these distances:
64 18 0.22
65 55 0.69
66 1 0.01
68 6 0.08
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.26
Consensus pattern (64 bp):
GATGCACAATCCATGCATCGATGCACTCAAGTTGAATAAAAACATCGAATGCATTTGATGCATC
Found at i:29287 original size:65 final size:64
Alignment explanation
Indices: 29157--29316 Score: 200
Period size: 65 Copynumber: 2.5 Consensus size: 64
29147 GAATAAATTG
* * *
29157 AACATCGAATGCATTTTATGCATCGATGCACACACCATGCATCGATGTACTCAAGGTTTTATGAA
1 AACATCGAATGCATTTCATGCATCGATGCACACACCATGCATCAATGCACTCAAGGTTTTATG-A
* *
29222 AACATCGAATGCATTTGATGCATCGATGCACA-AGTCATGCATCAATGCACTC-AGGCTATTT-T
1 AACATCGAATGCATTTCATGCATCGATGCACACA-CCATGCATCAATGCACTCAAGG-T-TTTAT
29284 GA
63 GA
* *
29286 AACATCAAATGCACTTCATGCATCGATGCAC
1 AACATCGAATGCATTTCATGCATCGATGCAC
29317 TCTTAGTGCA
Statistics
Matches: 85, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
64 33 0.39
65 49 0.58
66 3 0.04
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.28
Consensus pattern (64 bp):
AACATCGAATGCATTTCATGCATCGATGCACACACCATGCATCAATGCACTCAAGGTTTTATGA
Found at i:36635 original size:21 final size:21
Alignment explanation
Indices: 36593--36635 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
36583 ACTCCGGGAG
* *
36593 CTAGTTCTTCACGAGCTGCTC
1 CTAGCTCTTCACGAGCTCCTC
* *
36614 CTAGCTCTTCTCGTGCTCCTC
1 CTAGCTCTTCACGAGCTCCTC
36635 C
1 C
36636 ACTGGCACTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.09, C:0.40, G:0.16, T:0.35
Consensus pattern (21 bp):
CTAGCTCTTCACGAGCTCCTC
Found at i:37371 original size:16 final size:16
Alignment explanation
Indices: 37350--37399 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
37340 AGAAGTGTAA
37350 AAGTGTAAAAGGGGAG
1 AAGTGTAAAAGGGGAG
* * *
37366 AAGTGTTAAA--GTAA
1 AAGTGTAAAAGGGGAG
37380 AAGTGTAAAAGGGGAG
1 AAGTGTAAAAGGGGAG
37396 AAGT
1 AAGT
37400 ATTAAAGTAA
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
14 11 0.42
16 15 0.58
ACGTcount: A:0.46, C:0.00, G:0.36, T:0.18
Consensus pattern (16 bp):
AAGTGTAAAAGGGGAG
Found at i:37380 original size:30 final size:30
Alignment explanation
Indices: 37346--37409 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
37336 GGGGAGAAGT
*
37346 GTAAAAGTGTAAAAGGGGAGAAGTGTTAAA
1 GTAAAAGTGTAAAAGGGGAGAAGTATTAAA
37376 GTAAAAGTGTAAAAGGGGAGAAGTATTAAA
1 GTAAAAGTGTAAAAGGGGAGAAGTATTAAA
37406 GTAA
1 GTAA
37410 GGGGGAGTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.48, C:0.00, G:0.31, T:0.20
Consensus pattern (30 bp):
GTAAAAGTGTAAAAGGGGAGAAGTATTAAA
Found at i:37406 original size:16 final size:16
Alignment explanation
Indices: 37350--37406 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 16
37340 AGAAGTGTAA
*
37350 AAGTGTAAAAGGGGAG
1 AAGTGTTAAAGGGGAG
* *
37366 AAGTGTTAAA--GTAA
1 AAGTGTTAAAGGGGAG
*
37380 AAGTGTAAAAGGGGAG
1 AAGTGTTAAAGGGGAG
*
37396 AAGTATTAAAG
1 AAGTGTTAAAG
37407 TAAGGGGGAG
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
14 11 0.35
16 20 0.65
ACGTcount: A:0.47, C:0.00, G:0.33, T:0.19
Consensus pattern (16 bp):
AAGTGTTAAAGGGGAG
Found at i:37407 original size:24 final size:24
Alignment explanation
Indices: 37336--37407 Score: 72
Period size: 30 Copynumber: 2.8 Consensus size: 24
37326 AACAAAAAGG
*
37336 GGGGAGAAGTGTAAAAGTGTAAAA
1 GGGGAGAAGTATAAAAGTGTAAAA
37360 GGGGAGAAGTGTTAAAGTAAAAGTGTAAAA
1 GGGGAGAA--G-T--A-TAAAAGTGTAAAA
*
37390 GGGGAGAAGTATTAAAGT
1 GGGGAGAAGTATAAAAGT
37408 AAGGGGGAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
24 14 0.35
25 1 0.03
26 1 0.03
27 2 0.05
28 1 0.03
30 21 0.52
ACGTcount: A:0.44, C:0.00, G:0.36, T:0.19
Consensus pattern (24 bp):
GGGGAGAAGTATAAAAGTGTAAAA
Found at i:37871 original size:65 final size:64
Alignment explanation
Indices: 37799--37958 Score: 207
Period size: 65 Copynumber: 2.5 Consensus size: 64
37789 GAATAAATTG
* *
37799 AACATCGAATGCATTTTATGCATCGATGCACATA-CCATGCATCGATACACTCAGGGT-TTTATG
1 AACATCGAATGCATTTCATGCATCGATGCACA-AGCCATGCATCGATACACTCAGGCTATTT-TG
37862 AA
64 -A
* * * * *
37864 AATATCGAATACATTTGATGCATCGATGCACAAGTCATGCATCGATGCACTCAGGCTATTTTGA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATACACTCAGGCTATTTTGA
*
37928 AACATCGAATGCACTTCATGCATCGATGCAC
1 AACATCGAATGCATTTCATGCATCGATGCAC
37959 TCTTAGTGCA
Statistics
Matches: 83, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
64 29 0.35
65 51 0.61
66 3 0.04
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (64 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATACACTCAGGCTATTTTGA
Found at i:37958 original size:17 final size:19
Alignment explanation
Indices: 37930--37978 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
37920 TATTTTGAAA
37930 CATCGAATGCACT-TCA-TG
1 CATCG-ATGCACTCTCAGTG
*
37948 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTCAGTG
*
37967 CACCGATGCACT
1 CATCGATGCACT
37979 AAGGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTCAGTG
Found at i:39391 original size:34 final size:34
Alignment explanation
Indices: 39348--39414 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
39338 TGTAAAAGGA
*
39348 AAGGTTCTAGTTGAGCCCT-TGAAAAGCTAGGGAT
1 AAGGTTCTAGTTGAG-CCTGTGAAAAACTAGGGAT
*
39382 AAGGTTCTAGTTTAGCCTGTGAAAAACTAGGGA
1 AAGGTTCTAGTTGAGCCTGTGAAAAACTAGGGA
39415 GTTGTAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 3 0.10
34 27 0.90
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.27
Consensus pattern (34 bp):
AAGGTTCTAGTTGAGCCTGTGAAAAACTAGGGAT
Found at i:40186 original size:198 final size:199
Alignment explanation
Indices: 39654--40497 Score: 1087
Period size: 198 Copynumber: 4.3 Consensus size: 199
39644 AATCCCAACA
*
39654 CGATACATTTTGTGTGCAAATTGTTTGAAAATCATACTGGAATAAAAGTAT-TGATACCTATA-A
1 CGATACATTTTGCGTGCAAATTGTTTGAAAATCATACTGGAATAAAAGTATCT-ATACCTATATA
* * *
39717 AAAATATTGATACTTGGTATTTACGCCTATTATCAATATACCAATAAATTTTTACCGTTTACATT
65 AAAATATCGATACTTGGTATTTACGCCTATTATCATTATACCAATAAACTTTTACCGTTTACATT
* * * *
39782 GTTAA-TTACCTATTACTTTAAAGTAACATGTTTTCGAAATTCCAAATATCAATATTTTATATAT
130 GTTAATTTACCTATTACTTTAAAGTAATA-GGTTTCGAAATTCCAAATATCGATACTTTATATAT
39846 ATGTAT
194 ATGTAT
* * * * *
39852 CAATACATTTTGCGTGCAAATTGTTTGAGAAGT-ATACTGGAATAAAAATATTTATACATATATA
1 CGATACATTTTGCGTGCAAATTGTTTGA-AAATCATACTGGAATAAAAGTATCTATACCTATATA
* * ** *
39916 AAAGTATCGATACTTGGTATTTACGCCTATTATCATTATAGCGGTAGACTTTTACCGTTTACATT
65 AAAATATCGATACTTGGTATTTACGCCTATTATCATTATACCAATAAACTTTTACCGTTTACATT
** * * ** *
39981 GTTAATTTATATATTACTTTAAAATAATAGGTTTCAAAATTTTAAATATCGATACTTTATATATG
130 GTTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTCCAAATATCGATACTTTATATATA
40046 TGTAT
195 TGTAT
* * *
40051 CGATACATTTTGTGTGCAAATTGTTTGAAAATCATACTAGAATAAAAATATCTATACCTATA-AA
1 CGATACATTTTGCGTGCAAATTGTTTGAAAATCATACTGGAATAAAAGTATCTATACCTATATAA
* * ** * *
40115 AAATATTGATACTTGGTATTTACGCCTATTACCATTATACCGGTAGACTTTTACCGTTTACATTA
66 AAATATCGATACTTGGTATTTACGCCTATTATCATTATACCAATAAACTTTTACCGTTTACATTG
* * *
40180 TTAATTTACCTATTACTTTAAAGTAAAATGTTTCGAAATTCCAAGTATCGATACTTTATATATAT
131 TTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTCCAAATATCGATACTTTATATATAT
40245 GTAT
196 GTAT
* *
40249 TGATACATTTTGCGTGCAAATTGTTTGAGAAA-CATACTGGAAT---AGTATCCATACCTATATA
1 CGATACATTTTGCGTGCAAATTGTTTGA-AAATCATACTGGAATAAAAGTATCTATACCTATATA
* * * * *
40310 AAGAGTATCGATAGTTGGTATTTACGCATAGTATCATTATACCAATAAATTTTTACCGTTTACAT
65 AA-AATATCGATACTTGGTATTTACGCCTATTATCATTATACCAATAAACTTTTACCGTTTACAT
* * *
40375 TGTTAATTTATCTATTACTTTAAAGTAATA-GTTTCTGAAATTTCAAGTATCGATACTTTATATA
129 TGTTAATTTACCTATTACTTTAAAGTAATAGGTTTC-GAAATTCCAAATATCGATACTTTATATA
*
40439 TGTGTAT
193 TATGTAT
* * * * *
40446 TGATAAATTTTGCATGCAAATTGTTTGAGAATCATATTGGAATAAAAGTATC
1 CGATACATTTTGCGTGCAAATTGTTTGAAAATCATACTGGAATAAAAGTATC
40498 CATATCGGCA
Statistics
Matches: 564, Mismatches: 69, Indels: 24
0.86 0.11 0.04
Matches are distributed among these distances:
195 14 0.02
196 10 0.02
197 148 0.26
198 211 0.37
199 156 0.28
200 25 0.04
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (199 bp):
CGATACATTTTGCGTGCAAATTGTTTGAAAATCATACTGGAATAAAAGTATCTATACCTATATAA
AAATATCGATACTTGGTATTTACGCCTATTATCATTATACCAATAAACTTTTACCGTTTACATTG
TTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTCCAAATATCGATACTTTATATATAT
GTAT
Found at i:40525 original size:397 final size:395
Alignment explanation
Indices: 39654--40501 Score: 1216
Period size: 397 Copynumber: 2.1 Consensus size: 395
39644 AATCCCAACA
* ** **
39654 CGATACATTTTGTGTGCAAATTGTTTGAAAATCATACTGGAATAAAAGTATTGATACCTATAAAA
1 CGATAAATTTTGCATGCAAATTGTTTGAAAATCATACTGGAATAAAAGTATCCATACCTATAAAA
* * *
39719 AATATTGATACTTGGTATTTACGCCTATTATCAATATACCAATAAATTTTTACCGTTTACATTGT
66 AATATTGATACTTGGTATTTACGCCTATTACCAATATACCAATAAACTTTTACCGTTTACATTAT
* *
39784 TAATTACCTATTACTTTAAAGTAACATGTTTTCGAAATTCCAAATATCAATATTTTATATATATG
131 TAATTACCTATTACTTTAAAGTAAAATGTTTTCGAAATTCCAAATATCAATACTTTATATATATG
** **
39849 TATCAATACATTTTGCGTGCAAATTGTTTGAGAAGTATACTGGAATAAAAATATTTATACATATA
196 TATCAATACATTTTGCGTGCAAATTGTTTGAGAAACATACTGGAAT--AAATATCCATACATATA
* * * ** *
39914 TAAAAGTATCGATACTTGGTATTTACGCCTATTATCATTATAGCGGTAGACTTTTACCGTTTACA
259 TAAAAGTATCGATACTTGGTATTTACGCATAGTATCATTATACCAATAAACTTTTACCGTTTACA
*
39979 TTGTTAATTTATATATTACTTTAAAATAATAGGTTTCAAAATTTTAAATATCGATACTTTATATA
324 TTGTTAATTTATATATTACTTTAAAATAATAGGTTTCAAAATTTCAAATATCGATACTTTATATA
40044 TGTGTAT
389 TGTGTAT
* ** * * *
40051 CGATACATTTTGTGTGCAAATTGTTTGAAAATCATACTAGAATAAAAATATCTATACCTATAAAA
1 CGATAAATTTTGCATGCAAATTGTTTGAAAATCATACTGGAATAAAAGTATCCATACCTATAAAA
* ** *
40116 AATATTGATACTTGGTATTTACGCCTATTACCATTATACCGGTAGACTTTTACCGTTTACATTAT
66 AATATTGATACTTGGTATTTACGCCTATTACCAATATACCAATAAACTTTTACCGTTTACATTAT
* *
40181 TAATTTACCTATTACTTTAAAGTAAAATG-TTTCGAAATTCCAAGTATCGATACTTTATATATAT
131 TAA-TTACCTATTACTTTAAAGTAAAATGTTTTCGAAATTCCAAATATCAATACTTTATATATAT
** * *
40245 GTATTGATACATTTTGCGTGCAAATTGTTTGAGAAACATACTGGAAT-AGTATCCATACCTATAT
195 GTATCAATACATTTTGCGTGCAAATTGTTTGAGAAACATACTGGAATAAATATCCATACATATAT
* *
40309 AAAGAGTATCGATAGTTGGTATTTACGCATAGTATCATTATACCAATAAATTTTTACCGTTTACA
260 AAA-AGTATCGATACTTGGTATTTACGCATAGTATCATTATACCAATAAACTTTTACCGTTTACA
* * * *
40374 TTGTTAATTTATCTATTACTTTAAAGTAATA-GTTTCTGAAATTTCAAGTATCGATACTTTATAT
324 TTGTTAATTTATATATTACTTTAAAATAATAGGTTTC-AAAATTTCAAATATCGATACTTTATAT
40438 ATGTGTAT
388 ATGTGTAT
* * *
40446 TGATAAATTTTGCATGCAAATTGTTTGAGAATCATATTGGAATAAAAGTATCCATA
1 CGATAAATTTTGCATGCAAATTGTTTGAAAATCATACTGGAATAAAAGTATCCATA
40502 TCGGCATAAG
Statistics
Matches: 403, Mismatches: 45, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
394 21 0.05
395 161 0.40
397 197 0.49
398 24 0.06
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (395 bp):
CGATAAATTTTGCATGCAAATTGTTTGAAAATCATACTGGAATAAAAGTATCCATACCTATAAAA
AATATTGATACTTGGTATTTACGCCTATTACCAATATACCAATAAACTTTTACCGTTTACATTAT
TAATTACCTATTACTTTAAAGTAAAATGTTTTCGAAATTCCAAATATCAATACTTTATATATATG
TATCAATACATTTTGCGTGCAAATTGTTTGAGAAACATACTGGAATAAATATCCATACATATATA
AAAGTATCGATACTTGGTATTTACGCATAGTATCATTATACCAATAAACTTTTACCGTTTACATT
GTTAATTTATATATTACTTTAAAATAATAGGTTTCAAAATTTCAAATATCGATACTTTATATATG
TGTAT
Found at i:43202 original size:22 final size:21
Alignment explanation
Indices: 43177--43218 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
43167 CTCGTGATTT
43177 GAATATAAGCTATGGGCTTTTG
1 GAATATAAGCT-TGGGCTTTTG
* *
43199 GAATTTTAGCTTGGGCTTTT
1 GAATATAAGCTTGGGCTTTT
43219 ATAGTTACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.21, C:0.10, G:0.26, T:0.43
Consensus pattern (21 bp):
GAATATAAGCTTGGGCTTTTG
Found at i:44786 original size:2 final size:2
Alignment explanation
Indices: 44779--44842 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
44769 TATACAAATT
44779 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
44821 TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
44843 AACACCAAAG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:53785 original size:115 final size:111
Alignment explanation
Indices: 53642--53847 Score: 295
Period size: 115 Copynumber: 1.8 Consensus size: 111
53632 ATTCAAAAAT
*
53642 AAATAAAAGCAGTGCATTTTTTTTAAATTGAAATTGCCATTATGATTAATAAAAGAAAATAAAGA
1 AAATAAAAGCAGTGCATTTTTTTTAAATTGAAACTGCCATTATGATTAATAAAAGAAAATAAAGA
**
53707 GTACTAGCAGGCCGCCACTCCTAACAACGATCATCTCTAGAACTTA
66 GTACTAGCAGGCCAACACTCCTAACAACGATCATCTCTAGAACTTA
* * * *
53753 AAATAAATGCAGTGTATTTGTTTTTTGAAAATTTAAACTGCCATTGTGATTAATAAAAGAAAATA
1 AAATAAAAGCAGTGCA-TT-TTTTTT--AAATTGAAACTGCCATTATGATTAATAAAAGAAAATA
**
53818 AAGAGTGTTAGCAGGCCAACACTCCTAACA
62 AAGAGTACTAGCAGGCCAACACTCCTAACA
53848 GCAGTTCAGA
Statistics
Matches: 82, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
111 14 0.17
112 2 0.02
113 6 0.07
115 60 0.73
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (111 bp):
AAATAAAAGCAGTGCATTTTTTTTAAATTGAAACTGCCATTATGATTAATAAAAGAAAATAAAGA
GTACTAGCAGGCCAACACTCCTAACAACGATCATCTCTAGAACTTA
Found at i:56779 original size:2 final size:2
Alignment explanation
Indices: 56772--56817 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
56762 CTAACTCATA
56772 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
56814 AT AT
1 AT AT
56818 TGGATATTCC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:61137 original size:16 final size:17
Alignment explanation
Indices: 61102--61140 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
61092 AATGTATTCA
* *
61102 TTTCAATATTAATTTGT
1 TTTCAAAATTAATTTAT
61119 TTTCAAAATT-ATTTAT
1 TTTCAAAATTAATTTAT
61135 TTTCAA
1 TTTCAA
61141 TCATGTCACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.33, C:0.08, G:0.03, T:0.56
Consensus pattern (17 bp):
TTTCAAAATTAATTTAT
Found at i:61697 original size:21 final size:21
Alignment explanation
Indices: 61671--61710 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
61661 GACTATCGCA
61671 TTGCGATTTCCCAAATTCGTG
1 TTGCGATTTCCCAAATTCGTG
* *
61692 TTGCGATTTTCCTAATTCG
1 TTGCGATTTCCCAAATTCG
61711 CAATGCGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.42
Consensus pattern (21 bp):
TTGCGATTTCCCAAATTCGTG
Found at i:61717 original size:21 final size:21
Alignment explanation
Indices: 61666--61718 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
61656 ATTCTGACTA
61666 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
** * *
61687 TCGTGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
*
61708 TCGCAATGCGA
1 TCGCATTGCGA
61719 ATACGTAAAT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:61733 original size:20 final size:20
Alignment explanation
Indices: 61708--61837 Score: 142
Period size: 20 Copynumber: 6.7 Consensus size: 20
61698 TTTTCCTAAT
61708 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* * *
61728 TCGCAACGCGATTAAGTAAA
1 TCGCAATGCGAATACGTAAA
*
61748 TCGCAATGCGAATACGGAAAA
1 TCGCAATGCGAATAC-GTAAA
*
61769 TCGCAATGTGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* * * *
61789 TCGCAAT----TTTCATAAT
1 TCGCAATGCGAATACGTAAA
61805 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
61825 TCGCAATGCGAAT
1 TCGCAATGCGAAT
61838 CTGACTATCG
Statistics
Matches: 88, Mismatches: 17, Indels: 10
0.77 0.15 0.09
Matches are distributed among these distances:
16 12 0.14
20 58 0.66
21 18 0.20
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:61788 original size:41 final size:40
Alignment explanation
Indices: 61708--61795 Score: 122
Period size: 41 Copynumber: 2.2 Consensus size: 40
61698 TTTTCCTAAT
* *
61708 TCGCAATGCGAATACGTAAATCGCAACGCGATTAAGTAAA
1 TCGCAATGCGAATACGAAAATCGCAACGCGAATAAGTAAA
* * *
61748 TCGCAATGCGAATACGGAAAATCGCAATGTGAATACGTAAA
1 TCGCAATGCGAATAC-GAAAATCGCAACGCGAATAAGTAAA
61789 TCGCAAT
1 TCGCAAT
61796 TTTCATAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 15 0.36
41 27 0.64
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.20
Consensus pattern (40 bp):
TCGCAATGCGAATACGAAAATCGCAACGCGAATAAGTAAA
Found at i:62511 original size:20 final size:20
Alignment explanation
Indices: 62470--62552 Score: 123
Period size: 20 Copynumber: 4.2 Consensus size: 20
62460 TCGCGTTGCG
**
62470 ATTCTCTCGTTGCGATAGTC
1 ATTCTCTCGTTGCGATTTTC
*
62490 ATT-TCCGCGTTGCGATTTTC
1 ATTCT-CTCGTTGCGATTTTC
62510 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
62530 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
62550 ATT
1 ATT
62553 TCAACCAAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
19 1 0.02
20 55 0.96
21 1 0.02
ACGTcount: A:0.12, C:0.24, G:0.17, T:0.47
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:63459 original size:15 final size:16
Alignment explanation
Indices: 63434--63463 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
63424 TTATTTAACA
63434 ATTACTATTGTTTGTT
1 ATTACTATTGTTTGTT
63450 ATTA-TATTGTTTGT
1 ATTACTATTGTTTGT
63464 AGATTTGGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.20, C:0.03, G:0.13, T:0.63
Consensus pattern (16 bp):
ATTACTATTGTTTGTT
Found at i:64468 original size:94 final size:93
Alignment explanation
Indices: 64247--64524 Score: 401
Period size: 94 Copynumber: 3.1 Consensus size: 93
64237 TAGATTGCTT
* * *
64247 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAA-T-TGT-TT-ATTAACATTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
64308 ATTTGTCTTTTGTTTTATCTTTTGGTTGA
66 ATTTGTC-TTTGTTTTGTCTTTTGGTTGA
64337 AGT--A--TATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
64398 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
* * * * *
64427 AGTAAATTTGTTCGTTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAAT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
64492 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
64520 AGTAA
1 AGTAA
64525 TGCAATCCAT
Statistics
Matches: 170, Mismatches: 9, Indels: 15
0.88 0.05 0.08
Matches are distributed among these distances:
86 26 0.15
87 1 0.01
88 4 0.02
89 21 0.12
90 32 0.19
92 1 0.01
93 6 0.04
94 79 0.46
ACGTcount: A:0.22, C:0.12, G:0.18, T:0.48
Consensus pattern (93 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGA
Found at i:64640 original size:20 final size:20
Alignment explanation
Indices: 64615--64657 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
64605 TTTTGGTTGA
64615 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
64635 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
64655 AAT
1 AAT
64658 CGCAACGCGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.51, C:0.14, G:0.23, T:0.12
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:64677 original size:33 final size:33
Alignment explanation
Indices: 64619--64717 Score: 135
Period size: 33 Copynumber: 2.9 Consensus size: 33
64609 GGTTGAAATG
* *
64619 AAAATCGCAACGAGAGAATGAAAATCGCAACGAG
1 AAAATCGCAACGCGA-AATGAAAATCGCAACGAC
*
64653 AGAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAAATCGCAACGCGAAATGAAAATCGCAACGAC
**
64686 AAAATCGCAACGCGAAACCAAAAATCGCAACG
1 AAAATCGCAACGCGAAA-TGAAAATCGCAACG
64718 CGAAACTATA
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
33 33 0.57
34 25 0.43
ACGTcount: A:0.48, C:0.23, G:0.20, T:0.08
Consensus pattern (33 bp):
AAAATCGCAACGCGAAATGAAAATCGCAACGAC
Found at i:64709 original size:20 final size:20
Alignment explanation
Indices: 64686--64723 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
64676 TCGCAACGAC
64686 AAAATCGCAACGCGAAACCA
1 AAAATCGCAACGCGAAACCA
64706 AAAATCGCAACGCGAAAC
1 AAAATCGCAACGCGAAAC
64724 TATAATCGCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.29, G:0.16, T:0.05
Consensus pattern (20 bp):
AAAATCGCAACGCGAAACCA
Found at i:64785 original size:33 final size:33
Alignment explanation
Indices: 64747--64826 Score: 124
Period size: 33 Copynumber: 2.4 Consensus size: 33
64737 CGATTTTTGG
* * *
64747 TTTCGCGTTGCGATTTTGTCATTGTGATTTTCA
1 TTTCGCGTTGCGATTCTCTCATTGCGATTTTCA
*
64780 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCATTGCGATTTTCA
64813 TTTCGCGTTGCGAT
1 TTTCGCGTTGCGAT
64827 AGTCATTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.10, C:0.20, G:0.23, T:0.47
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCATTGCGATTTTCA
Found at i:64823 original size:19 final size:19
Alignment explanation
Indices: 64772--64850 Score: 69
Period size: 19 Copynumber: 4.3 Consensus size: 19
64762 TTGTCATTGT
64772 GATTTTCATTTCGCGTTGC
1 GATTTTCATTTCGCGTTGC
*
64791 GA--TTC---TCTCGTTGC
1 GATTTTCATTTCGCGTTGC
64805 GATTTTCATTTCGCGTTGC
1 GATTTTCATTTCGCGTTGC
** *
64824 GATAGTCATTTTTCACGTTGC
1 GATTTTCA--TTTCGCGTTGC
64845 GATTTT
1 GATTTT
64851 AAGTTCCAGA
Statistics
Matches: 46, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
14 10 0.22
16 3 0.07
17 3 0.07
19 16 0.35
21 14 0.30
ACGTcount: A:0.13, C:0.20, G:0.20, T:0.47
Consensus pattern (19 bp):
GATTTTCATTTCGCGTTGC
Found at i:65327 original size:21 final size:21
Alignment explanation
Indices: 65303--65369 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
65293 TCATTCCTCG
65303 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
65324 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
65345 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
65366 AGAG
1 AGAG
65370 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:65327 original size:42 final size:42
Alignment explanation
Indices: 65251--65369 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
65241 GACTCGCATG
* * * * * * *
65251 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
65293 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
65335 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
65370 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.06
42 58 0.91
43 2 0.03
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:66736 original size:14 final size:14
Alignment explanation
Indices: 66717--66752 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
66707 ATTGTTTAAT
66717 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
66731 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
66745 TGATTTGT
1 TGATTTGT
66753 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:66875 original size:19 final size:19
Alignment explanation
Indices: 66859--66905 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
66849 AAAAATGACT
*
66859 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
66878 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
66897 ATCGCAACG
1 ATCGCAACG
66906 AGGGAATCGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.45, C:0.21, G:0.21, T:0.13
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:66934 original size:19 final size:19
Alignment explanation
Indices: 66910--66953 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
66900 GCAACGAGGG
*
66910 AATCGCAACGCGAAACTAA
1 AATCGCAACACGAAACTAA
*
66929 AATCGCAATACGAAACTAA
1 AATCGCAACACGAAACTAA
*
66948 ATTCGC
1 AATCGC
66954 GTTGCGATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.45, C:0.25, G:0.14, T:0.16
Consensus pattern (19 bp):
AATCGCAACACGAAACTAA
Found at i:66971 original size:19 final size:19
Alignment explanation
Indices: 66949--67095 Score: 81
Period size: 19 Copynumber: 8.5 Consensus size: 19
66939 CGAAACTAAA
66949 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
66968 TTCGCTTTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
66983 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* *
67001 TTCGCATTACGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
67016 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
67034 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
67049 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* **
67067 TTCGCATTGCGATAGTCAT
1 TTCGCGTTGCGATTTTCAT
67086 TTCCGCGTTG
1 TT-CGCGTTG
67096 TGATAGACAT
Statistics
Matches: 92, Mismatches: 20, Indels: 31
0.64 0.14 0.22
Matches are distributed among these distances:
14 25 0.27
16 9 0.10
17 9 0.10
19 43 0.47
20 6 0.07
ACGTcount: A:0.12, C:0.24, G:0.19, T:0.44
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:66995 original size:33 final size:33
Alignment explanation
Indices: 66953--67079 Score: 227
Period size: 33 Copynumber: 3.8 Consensus size: 33
66943 ACTAAATTCG
* *
66953 CGTTGCGATTTTCATTTCGCTTTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
*
66986 CGTTGCGATTTTCATTTCGCATTACGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
67019 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
67052 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
67080 AGTCATTTCC
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 90 1.00
ACGTcount: A:0.13, C:0.24, G:0.18, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:67059 original size:14 final size:14
Alignment explanation
Indices: 67010--67061 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
67000 TTTCGCATTA
67010 CGATTCTCTCGTTG
1 CGATTCTCTCGTTG
*
67024 CGATTTTCATTTCGCATTG
1 CGA--TTC-TCTCG--TTG
67043 CGATTCTCTCGTTG
1 CGATTCTCTCGTTG
67057 CGATT
1 CGATT
67062 TTCATTTCGC
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
14 11 0.35
16 7 0.23
17 7 0.23
19 6 0.19
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (14 bp):
CGATTCTCTCGTTG
Found at i:67106 original size:20 final size:19
Alignment explanation
Indices: 67064--67106 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
67054 TTGCGATTTT
*
67064 CATTTCGCATTGCGATAGT
1 CATTTCGCATTGCGATAGA
* *
67083 CATTTCCGCGTTGTGATAGA
1 CATTT-CGCATTGCGATAGA
67103 CATT
1 CATT
67107 AAGATGATTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (19 bp):
CATTTCGCATTGCGATAGA
Found at i:70554 original size:20 final size:20
Alignment explanation
Indices: 70531--70882 Score: 241
Period size: 20 Copynumber: 17.3 Consensus size: 20
70521 AGAATCTCGT
*
70531 TGCGATTTAC-TAAATCGTAA
1 TGCGA-TTACGTAAATCGCAA
70551 TGCGATTACGTAAATCG-AA
1 TGCGATTACGTAAATCGCAA
* *
70570 GTGCGAATTAGGAAAATCGCAA
1 -TGCG-ATTACGTAAATCGCAA
70592 TGCGATTACGTAAATCGCAA
1 TGCGATTACGTAAATCGCAA
* *
70612 TGCGAATTAGGAAAATCGCAA
1 TGCG-ATTACGTAAATCGCAA
70633 TGCGATTACGTAAATCGCAA
1 TGCGATTACGTAAATCGCAA
*
70653 TGCGATTATGTAAATCGCAA
1 TGCGATTACGTAAATCGCAA
*
70673 TGCGAATACGT-AATCGCAA
1 TGCGATTACGTAAATCGCAA
* *
70692 TGCGATTTACGT-AATCACAT
1 TGCGA-TTACGTAAATCGCAA
* * * * *
70712 TACGATTTTCCTAATTCGCAT
1 TGCGA-TTACGTAAATCGCAA
*
70733 TGCGATTTACGT-AATCGCAT
1 TGCGA-TTACGTAAATCGCAA
* * * *
70753 TGCGATTTTCCTAATTCGCAT
1 TGCGA-TTACGTAAATCGCAA
*
70774 TGCGATTTACGT-AATCGCAT
1 TGCGA-TTACGTAAATCGCAA
* * * * *
70794 TGCGATTTTCCTAATTGGCAT
1 TGCGA-TTACGTAAATCGCAA
* *
70815 TGCGATTTACGT-ATTCGCAT
1 TGCGA-TTACGTAAATCGCAA
* *
70835 TGCGAATTAGGAAAATCGCAA
1 TGCG-ATTACGTAAATCGCAA
* ** *
70856 CGCGAATTTGGGAAATCGCAA
1 TGCG-ATTACGTAAATCGCAA
70877 TGCGAT
1 TGCGAT
70883 AGTCAGAATC
Statistics
Matches: 277, Mismatches: 44, Indels: 22
0.81 0.13 0.06
Matches are distributed among these distances:
19 19 0.07
20 147 0.53
21 109 0.39
22 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.30
Consensus pattern (20 bp):
TGCGATTACGTAAATCGCAA
Found at i:70594 original size:41 final size:41
Alignment explanation
Indices: 70542--70696 Score: 244
Period size: 41 Copynumber: 3.8 Consensus size: 41
70532 GCGATTTACT
*
70542 AAATCGTAATGCGATTACGTAAATCG-AAGTGCGAATTAGGA
1 AAATCGCAATGCGATTACGTAAATCGCAA-TGCGAATTAGGA
70583 AAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGA
1 AAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGA
* *
70624 AAATCGCAATGCGATTACGTAAATCGCAATGCG-ATTATGT
1 AAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGA
*
70664 AAATCGCAATGCGAATACGT-AATCGCAATGCGA
1 AAATCGCAATGCGATTACGTAAATCGCAATGCGA
70697 TTTACGTAAT
Statistics
Matches: 108, Mismatches: 4, Indels: 5
0.92 0.03 0.04
Matches are distributed among these distances:
39 12 0.11
40 24 0.22
41 70 0.65
42 2 0.02
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (41 bp):
AAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGA
Found at i:70596 original size:61 final size:59
Alignment explanation
Indices: 70531--70759 Score: 205
Period size: 61 Copynumber: 3.8 Consensus size: 59
70521 AGAATCTCGT
* *
70531 TGCGATTTACTAAATCGTAATGCGATTACGTAAATCG-AAGTGCGAATTAGGAAAATCGCAA
1 TGCGA-TTACTAAATCGCAATGCGATTACGTAAATCGCAA-TGCG-ATTACGAAAATCGCAA
* * *
70592 TGCGATTACGTAAATCGCAATGCGAATTAGGAAAATCGCAATGCGATTACGTAAATCGCAA
1 TGCGATTAC-TAAATCGCAATGCG-ATTACGTAAATCGCAATGCGATTACGAAAATCGCAA
* * * * *
70653 TGCGATTATGTAAATCGCAATGCGAATACGT-AATCGCAATGCGATTTACG-TAATCACAT
1 TGCGATTA-CTAAATCGCAATGCGATTACGTAAATCGCAATGCGA-TTACGAAAATCGCAA
* * * * *
70712 TACGATTTTCCTAATTCGCATTGCGATTTACGT-AATCGCATTGCGATT
1 TGCGA--TTACTAAATCGCAATGCGA-TTACGTAAATCGCAATGCGATT
70760 TTCCTAATTC
Statistics
Matches: 141, Mismatches: 19, Indels: 17
0.80 0.11 0.10
Matches are distributed among these distances:
59 23 0.16
60 28 0.20
61 73 0.52
62 15 0.11
63 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.29
Consensus pattern (59 bp):
TGCGATTACTAAATCGCAATGCGATTACGTAAATCGCAATGCGATTACGAAAATCGCAA
Found at i:70743 original size:41 final size:41
Alignment explanation
Indices: 70686--70839 Score: 263
Period size: 41 Copynumber: 3.8 Consensus size: 41
70676 GAATACGTAA
* * *
70686 TCGCAATGCGATTTACGTAATCACATTACGATTTTCCTAAT
1 TCGCATTGCGATTTACGTAATCGCATTGCGATTTTCCTAAT
70727 TCGCATTGCGATTTACGTAATCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATTTACGTAATCGCATTGCGATTTTCCTAAT
70768 TCGCATTGCGATTTACGTAATCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATTTACGTAATCGCATTGCGATTTTCCTAAT
* *
70809 TGGCATTGCGATTTACGTATTCGCATTGCGA
1 TCGCATTGCGATTTACGTAATCGCATTGCGA
70840 ATTAGGAAAA
Statistics
Matches: 108, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 108 1.00
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (41 bp):
TCGCATTGCGATTTACGTAATCGCATTGCGATTTTCCTAAT
Found at i:70854 original size:82 final size:82
Alignment explanation
Indices: 70684--70860 Score: 246
Period size: 82 Copynumber: 2.2 Consensus size: 82
70674 GCGAATACGT
70684 AATCGCAATGCGATTTACGTAATCACATTACGATTTTCCTAATTCGCATTGCGATTTACGTAATC
1 AATCGCAATGCGATTTACGTAATCACATTACGATTTTCCTAATTCGCATTGCGATTTACGTAATC
* * *
70749 GCATTGCGATTTTCCTA
66 GCATTGCGAATTACCAA
* * * * * *
70766 ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTTCCTAATTGGCATTGCGATTTACGTATTC
1 AATCGCAATGCGATTTACGTAATCACATTACGATTTTCCTAATTCGCATTGCGATTTACGTAATC
**
70831 GCATTGCGAATTAGGAA
66 GCATTGCGAATTACCAA
*
70848 AATCGCAACGCGA
1 AATCGCAATGCGA
70861 ATTTGGGAAA
Statistics
Matches: 81, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
82 81 1.00
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (82 bp):
AATCGCAATGCGATTTACGTAATCACATTACGATTTTCCTAATTCGCATTGCGATTTACGTAATC
GCATTGCGAATTACCAA
Found at i:70860 original size:21 final size:21
Alignment explanation
Indices: 70836--70881 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
70826 TATTCGCATT
70836 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* * *
70857 GCGAATTTGGGAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
70878 GCGA
1 GCGA
70882 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:77061 original size:37 final size:39
Alignment explanation
Indices: 76982--77062 Score: 105
Period size: 38 Copynumber: 2.1 Consensus size: 39
76972 TAACAATTTG
* *
76982 TAAAATATTTATATATTTTATTTAAAAAATTTAAATTCA
1 TAAAATATTTATATATTTTATTTAAAAAATTAAAAATCA
*
77021 TAAAAT-TTATATATATTTT-TTTACAAAATTAAAAAT-A
1 TAAAATATT-TATATATTTTATTTAAAAAATTAAAAATCA
77058 TAAAA
1 TAAAA
77063 AGTTTAATGA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
37 6 0.16
38 16 0.42
39 16 0.42
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (39 bp):
TAAAATATTTATATATTTTATTTAAAAAATTAAAAATCA
Found at i:86159 original size:39 final size:39
Alignment explanation
Indices: 86105--86185 Score: 153
Period size: 39 Copynumber: 2.1 Consensus size: 39
86095 CTGATACATA
86105 GTCTCTCATCCTAAACGGTGGTATTCTATTTCTCTCTTC
1 GTCTCTCATCCTAAACGGTGGTATTCTATTTCTCTCTTC
*
86144 GTCTCTCATCCTAAACGGTGGTATTCTATTTCTTTCTTC
1 GTCTCTCATCCTAAACGGTGGTATTCTATTTCTCTCTTC
86183 GTC
1 GTC
86186 GATACTAGTA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.15, C:0.27, G:0.14, T:0.44
Consensus pattern (39 bp):
GTCTCTCATCCTAAACGGTGGTATTCTATTTCTCTCTTC
Found at i:92396 original size:113 final size:113
Alignment explanation
Indices: 92077--92743 Score: 927
Period size: 113 Copynumber: 5.9 Consensus size: 113
92067 GATAGCGTCG
* *
92077 AGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATAAGTTCTTCT
1 AGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
* * * *
92141 CATTATAAACT-T-CTCTGGA-AATGTTGATTCATCGAGCGATGAATTCG
66 CATTATGAACTCTAC-CT-GACAATGTTGATCCATCGAGTGATGAATTCA
* * * * *
92188 AGTAAAAGGTTGAACAAATTCTTCTCATTATGAA---CTTCTTCATTCTTCAGATAAATTCTTCT
1 AGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
* * * * *
92250 CATTATGAACTCTAACTGGCAATGTTAATCCATCGAGTAATGAATTAA
66 CATTATGAACTCTACCTGACAATGTTGATCCATCGAGTGATGAATTCA
* * *
92298 AGCAAAATGTTGAACAAGTTCTTCTCATTATGAACTTCTTATTCCTTCTTTAGATGAGTTCTTCT
1 AGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
* *
92363 CATTATGAACTCTACCTGACAATGTTGATCCATCAAGTGATGAATTCG
66 CATTATGAACTCTACCTGACAATGTTGATCCATCGAGTGATGAATTCA
*
92411 AGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCT
1 AGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
* *
92476 CATTATGAACTCTACCTGGCAATGTTGATCCATCGAATGATGAATTCA
66 CATTATGAACTCTACCTGACAATGTTGATCCATCGAGTGATGAATTCA
* * *
92524 AGCGAAAA-GTTGAACAAGTTCTTCTTATTATGAACTTATTCTTCCTTCTTCAGATGATTTCTTC
1 AGC-AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
* * *
92588 TCATTATGAACTCTACCTGGCAATGTTGATCCATCGAATGATGAATTTA
65 TCATTATGAACTCTACCTGACAATGTTGATCCATCGAGTGATGAATTCA
* *
92637 AGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCT
1 AGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
* * * *
92702 CATTATGAACTCTACCTAACAATGCTGATCCATTGAATGATG
66 CATTATGAACTCTACCTGACAATGTTGATCCATCGAGTGATG
92744 GATTTGAATC
Statistics
Matches: 502, Mismatches: 45, Indels: 16
0.89 0.08 0.03
Matches are distributed among these distances:
108 7 0.01
109 29 0.06
110 56 0.11
111 33 0.07
112 4 0.01
113 369 0.74
114 4 0.01
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (113 bp):
AGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
CATTATGAACTCTACCTGACAATGTTGATCCATCGAGTGATGAATTCA
Found at i:97285 original size:32 final size:32
Alignment explanation
Indices: 97235--97298 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
97225 GAAATGATTG
*
97235 TTATGCTTATCTAGTAGAGATACTTCTCGTTT
1 TTATGCTCATCTAGTAGAGATACTTCTCGTTT
*
97267 TTATGCTCATCTCA-TAGAGATACTTCTTGTTT
1 TTATGCTCATCT-AGTAGAGATACTTCTCGTTT
97299 CCAGACTCTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 28 0.97
33 1 0.03
ACGTcount: A:0.22, C:0.17, G:0.14, T:0.47
Consensus pattern (32 bp):
TTATGCTCATCTAGTAGAGATACTTCTCGTTT
Found at i:97804 original size:8 final size:8
Alignment explanation
Indices: 97744--97806 Score: 81
Period size: 8 Copynumber: 7.8 Consensus size: 8
97734 CTTGGTTCAA
*
97744 TTTTTTCA
1 TTTTTTCC
97752 TTTTTTCC
1 TTTTTTCC
97760 TTTTTTCC
1 TTTTTTCC
97768 TTTTTTCC
1 TTTTTTCC
*
97776 TGTTTTTCT
1 T-TTTTTCC
**
97785 TTTTTTAT
1 TTTTTTCC
97793 TTTTTTCC
1 TTTTTTCC
97801 TTTTTT
1 TTTTTT
97807 TTCAAGTATA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
8 42 0.86
9 7 0.14
ACGTcount: A:0.03, C:0.16, G:0.02, T:0.79
Consensus pattern (8 bp):
TTTTTTCC
Found at i:101402 original size:23 final size:22
Alignment explanation
Indices: 101376--101439 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 22
101366 CAGCTCATAT
101376 AATTGCACCTAAGTGCCACGTAG
1 AATTGCACCT-AGTGCCACGTAG
* **
101399 AATTGCACCGGAGTGCCGTGTAG
1 AATTGCACC-TAGTGCCACGTAG
101422 AATTGCACCGTAGTGCCA
1 AATTGCACC-TAGTGCCA
101440 TATAATAATG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.22
Consensus pattern (22 bp):
AATTGCACCTAGTGCCACGTAG
Found at i:101583 original size:103 final size:103
Alignment explanation
Indices: 101455--101672 Score: 418
Period size: 103 Copynumber: 2.1 Consensus size: 103
101445 TAATGTCCAT
101455 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
101520 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
*
101558 AATGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
*
101623 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
101661 AAGGACCACATA
1 AAGGACCACATA
101673 GACCCTCTAC
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 112 1.00
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.25
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:102237 original size:21 final size:21
Alignment explanation
Indices: 102213--102255 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
102203 TCATATTCGT
*
102213 TTGAGGGGGTATCGATTCCCC
1 TTGAAGGGGTATCGATTCCCC
* *
102234 TTGAATGGGTATTGATTCCCC
1 TTGAAGGGGTATCGATTCCCC
102255 T
1 T
102256 AGTCCAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.21, G:0.28, T:0.35
Consensus pattern (21 bp):
TTGAAGGGGTATCGATTCCCC
Found at i:108323 original size:23 final size:22
Alignment explanation
Indices: 108292--108360 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 22
108282 CACCACAGCT
*
108292 CATATAATTGCACCTAAGTGCCA
1 CATAGAATTGCACCT-AGTGCCA
* * * *
108315 CGTAGAATTGCACCGGAGTACCG
1 CATAGAATTGCACC-TAGTGCCA
108338 CATAGAATTGCACCGTAGTGCCA
1 CATAGAATTGCACC-TAGTGCCA
108361 TATAATAATG
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (22 bp):
CATAGAATTGCACCTAGTGCCA
Found at i:108505 original size:103 final size:103
Alignment explanation
Indices: 108376--108593 Score: 400
Period size: 103 Copynumber: 2.1 Consensus size: 103
108366 TAATGTCCAT
108376 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
*
108441 GACCTCACACATGTTCCAAATAATACATATATATCCCG
66 GACCTCACACATGTTCCAAAGAATACATATATATCCCG
*
108479 AATGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
* *
108544 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACCTCACACATGTTCCAAAGAATACATATATATCCCG
108582 AAGGACCACATA
1 AAGGACCACATA
108594 GACCCTCTAC
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 110 1.00
ACGTcount: A:0.37, C:0.25, G:0.12, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
GACCTCACACATGTTCCAAAGAATACATATATATCCCG
Found at i:109113 original size:19 final size:20
Alignment explanation
Indices: 109076--109113 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
109066 TTTTTTATTA
*
109076 TGGGGGAATCGGTTCCCCCC
1 TGGGGGAATCGATTCCCCCC
*
109096 TGGGGGTATCGATTCCCC
1 TGGGGGAATCGATTCCCC
109114 TCTAGCGTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.32, G:0.34, T:0.24
Consensus pattern (20 bp):
TGGGGGAATCGATTCCCCCC
Found at i:109165 original size:21 final size:21
Alignment explanation
Indices: 109141--109183 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
109131 TCATATTCGT
*
109141 TTGAGGGGGTATCGATTCCCC
1 TTGAAGGGGTATCGATTCCCC
*
109162 TTGAATGGGTATCGATTCCCC
1 TTGAAGGGGTATCGATTCCCC
109183 T
1 T
109184 AGCCCAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.23, G:0.28, T:0.33
Consensus pattern (21 bp):
TTGAAGGGGTATCGATTCCCC
Found at i:109981 original size:30 final size:30
Alignment explanation
Indices: 109946--110004 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
109936 CTTATGGGCC
*
109946 ATATTGCTTGTCTGGACTGCAGCTTCTTCT
1 ATATTGCTTGTCTAGACTGCAGCTTCTTCT
*
109976 ATATTGCTTTTCTAGACTGCAGCTTCTTC
1 ATATTGCTTGTCTAGACTGCAGCTTCTTC
110005 CATGACATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.15, C:0.24, G:0.17, T:0.44
Consensus pattern (30 bp):
ATATTGCTTGTCTAGACTGCAGCTTCTTCT
Found at i:114078 original size:3 final size:3
Alignment explanation
Indices: 114070--114119 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
114060 AATTATTTAT
* * *
114070 TAA TAA TAA TAA TAA TAA -AA TAA TTA TAA TAA TAA TAA TTA TAA AAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
114117 TAA
1 TAA
114120 AATCGGGATA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:114098 original size:20 final size:20
Alignment explanation
Indices: 114070--114107 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
114060 AATTATTTAT
114070 TAATAATAATAATAATAAAA
1 TAATAATAATAATAATAAAA
*
114090 TAATTATAATAATAATAA
1 TAATAATAATAATAATAA
114108 TTATAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
TAATAATAATAATAATAAAA
Found at i:143482 original size:21 final size:21
Alignment explanation
Indices: 143388--143482 Score: 136
Period size: 21 Copynumber: 4.5 Consensus size: 21
143378 GTTTCCAGAT
* *
143388 TCGCAACGCGAACTTCAACTA
1 TCGCAATGCGAACTTCGACTA
*
143409 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTCGACTA
*
143430 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTCGACTA
*
143451 TCGCAACGCGAACTTCGACTA
1 TCGCAATGCGAACTTCGACTA
*
143472 TCGCATTGCGA
1 TCGCAATGCGA
143483 TTTACATATT
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 67 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (21 bp):
TCGCAATGCGAACTTCGACTA
Found at i:143524 original size:21 final size:21
Alignment explanation
Indices: 143498--143608 Score: 150
Period size: 21 Copynumber: 5.3 Consensus size: 21
143488 ATATTCGCAA
* *
143498 TGCGATAATCGAAGTTTGCGT
1 TGCGATAGTCGAAGTTTGCAT
* *
143519 TGCGATAGTTGAAGTTCGCAT
1 TGCGATAGTCGAAGTTTGCAT
* *
143540 TTCGATAGTCAAAGTTTGCAT
1 TGCGATAGTCGAAGTTTGCAT
*
143561 TGCGATAGTCGAAGTTCGCAT
1 TGCGATAGTCGAAGTTTGCAT
*
143582 TGCGATAGTCGAAGTTTGCGT
1 TGCGATAGTCGAAGTTTGCAT
143603 TGCGAT
1 TGCGAT
143609 TTTCCAAATT
Statistics
Matches: 77, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 77 1.00
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.33
Consensus pattern (21 bp):
TGCGATAGTCGAAGTTTGCAT
Found at i:143546 original size:42 final size:42
Alignment explanation
Indices: 143491--143608 Score: 182
Period size: 42 Copynumber: 2.8 Consensus size: 42
143481 GATTTACATA
* * *
143491 TTCGCAATGCGATAATCGAAGTTTGCGTTGCGATAGTTGAAG
1 TTCGCATTGCGATAGTCGAAGTTTGCGTTGCGATAGTCGAAG
* * *
143533 TTCGCATTTCGATAGTCAAAGTTTGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCGAAGTTTGCGTTGCGATAGTCGAAG
143575 TTCGCATTGCGATAGTCGAAGTTTGCGTTGCGAT
1 TTCGCATTGCGATAGTCGAAGTTTGCGTTGCGAT
143609 TTTCCAAATT
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 67 1.00
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (42 bp):
TTCGCATTGCGATAGTCGAAGTTTGCGTTGCGATAGTCGAAG
Found at i:143684 original size:21 final size:21
Alignment explanation
Indices: 143646--143711 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
143636 ACTTCGACTA
* ** *
143646 TCGCATTGCGATAGTCCAAGT
1 TCGCGTTGCGATTTTCCAAAT
143667 TCGCGTTGCGATTTTCCAAAT
1 TCGCGTTGCGATTTTCCAAAT
143688 T--CGTTGCGATTTATTCCAAAT
1 TCGCGTTGCGA-TT-TTCCAAAT
143709 TCG
1 TCG
143712 TAACGACTGG
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
19 8 0.22
20 2 0.05
21 27 0.73
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.36
Consensus pattern (21 bp):
TCGCGTTGCGATTTTCCAAAT
Found at i:143694 original size:19 final size:21
Alignment explanation
Indices: 143670--143712 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
143660 TCCAAGTTCG
143670 CGTTGCGA-TT-TTCCAAATT
1 CGTTGCGATTTATTCCAAATT
143689 CGTTGCGATTTATTCCAAATT
1 CGTTGCGATTTATTCCAAATT
143710 CGT
1 CGT
143713 AACGACTGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 8 0.36
20 2 0.09
21 12 0.55
ACGTcount: A:0.21, C:0.21, G:0.16, T:0.42
Consensus pattern (21 bp):
CGTTGCGATTTATTCCAAATT
Found at i:144453 original size:21 final size:21
Alignment explanation
Indices: 144427--144561 Score: 154
Period size: 21 Copynumber: 6.4 Consensus size: 21
144417 ATTTTGGACT
144427 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
*
144448 ATCGCAACGCGAACTTT-GACT--
1 ATCGCAA--CGAA-TTTGGAATAA
*
144469 ATCGCAACGAACTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
* *
144490 ATCGCAACACGAACTTGGACT--
1 ATCGC-A-ACGAATTTGGAATAA
144511 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
144532 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
144553 ATCGCAACG
1 ATCGCAACG
144562 CGAACTTCGA
Statistics
Matches: 98, Mismatches: 6, Indels: 20
0.79 0.05 0.16
Matches are distributed among these distances:
18 2 0.02
19 18 0.18
20 1 0.01
21 54 0.55
22 1 0.01
23 19 0.19
24 3 0.03
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.21
Consensus pattern (21 bp):
ATCGCAACGAATTTGGAATAA
Found at i:144485 original size:42 final size:42
Alignment explanation
Indices: 144420--144601 Score: 228
Period size: 42 Copynumber: 4.3 Consensus size: 42
144410 CATTGCGATT
*
144420 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
* *
144462 TTTGACTATCGCAACGAACTTGGAATAAATCGCAACACGAAC
1 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
* *
144504 TTGGACTATCGCAACGAATTTGGAATAAATCGCAA--CGAAT
1 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
* * *
144544 TTGGAATAAATCGCAACGCGAACTTCGACT--ATCGCAACGCGAAC
1 TTGGACT--ATCGCAA--CGAACTTGGAATAAATCGCAACGCGAAC
144588 TTGGACTATCGCAA
1 TTGGACTATCGCAA
144602 TGCGATAGTC
Statistics
Matches: 122, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
40 10 0.08
42 93 0.76
44 19 0.16
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.22
Consensus pattern (42 bp):
TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
Found at i:144517 original size:63 final size:63
Alignment explanation
Indices: 144448--144601 Score: 215
Period size: 63 Copynumber: 2.4 Consensus size: 63
144438 TTTGGAATAA
*
144448 ATCGCAACGCGAACTTTGACTATCGCAACGAACTTGGAATAAATCGCAACACGAACTTGGACT
1 ATCGCAACGCGAACTTTGACTATCGCAACGAACTTGGAATAAATCGCAACACGAACTTCGACT
* * *
144511 ATCGCAA--CGAA-TTTGGAATAAATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGAC
1 ATCGCAACGCGAACTTT-GACT--ATCGCAACGAACTTGGAATAAATCGCAACACGAACTTCGAC
144573 T
63 T
*
144574 ATCGCAACGCGAACTTGGACTATCGCAA
1 ATCGCAACGCGAACTTTGACTATCGCAA
144602 TGCGATAGTC
Statistics
Matches: 79, Mismatches: 6, Indels: 12
0.81 0.06 0.12
Matches are distributed among these distances:
60 3 0.04
61 7 0.09
63 60 0.76
65 7 0.09
66 2 0.03
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (63 bp):
ATCGCAACGCGAACTTTGACTATCGCAACGAACTTGGAATAAATCGCAACACGAACTTCGACT
Found at i:144577 original size:21 final size:21
Alignment explanation
Indices: 144420--144606 Score: 147
Period size: 21 Copynumber: 8.9 Consensus size: 21
144410 CATTGCGATT
*
144420 TTGGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
*
144439 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
*
144462 TTTGACTATCGCAA--CGAAC
1 TTGGACTATCGCAACGCGAAC
* *
144481 TTGGAATAAATCGCAACACGAAC
1 TTGGACT--ATCGCAACGCGAAC
*
144504 TTGGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
* *
144523 TTGGAATAAATCGCAA--CGAAT
1 TTGGACT--ATCGCAACGCGAAC
*
144544 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
*
144567 TTCGACTATCGCAACGCGAAC
1 TTGGACTATCGCAACGCGAAC
*
144588 TTGGACTATCGCAATGCGA
1 TTGGACTATCGCAACGCGA
144607 TAGTCGAAGT
Statistics
Matches: 142, Mismatches: 14, Indels: 22
0.80 0.08 0.12
Matches are distributed among these distances:
19 26 0.18
21 87 0.61
23 29 0.20
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.22
Consensus pattern (21 bp):
TTGGACTATCGCAACGCGAAC
Found at i:148206 original size:7 final size:7
Alignment explanation
Indices: 148196--148265 Score: 58
Period size: 7 Copynumber: 10.3 Consensus size: 7
148186 CCCAAACCTA
148196 AAACTCT
1 AAACTCT
148203 AAACTCT
1 AAACTCT
*
148210 AAACTAT
1 AAACTCT
148217 -AAC-CT
1 AAACTCT
*
148222 AAA-TCCC
1 AAACT-CT
148229 AAAC-CTT
1 AAACTC-T
*
148236 AAACTAT
1 AAACTCT
148243 AAACTCT
1 AAACTCT
148250 AAACTCT
1 AAACTCT
*
148257 AAACCCT
1 AAACTCT
148264 AA
1 AA
148266 GATATAAACC
Statistics
Matches: 50, Mismatches: 7, Indels: 12
0.72 0.10 0.17
Matches are distributed among these distances:
5 1 0.02
6 6 0.12
7 43 0.86
ACGTcount: A:0.47, C:0.29, G:0.00, T:0.24
Consensus pattern (7 bp):
AAACTCT
Found at i:148210 original size:47 final size:46
Alignment explanation
Indices: 148136--148260 Score: 119
Period size: 47 Copynumber: 2.7 Consensus size: 46
148126 ATTACACTCT
* * * * *
148136 AAACCCTAAACTTAAAAC-ATAATCTCTAATCTATAAATTATAAACCC
1 AAACCC-AAACCTAAAACTCTAAACTCTAAACTATAAACTA-AAACCC
* * *
148183 TAACCCAAACCTAAAACTCTAAACTCTAAACTATAACCTAAATCCC
1 AAACCCAAACCTAAAACTCTAAACTCTAAACTATAAACTAAAACCC
*
148229 AAACCTTAAA-CTATAAACTCTAAACTCTAAAC
1 AAACC-CAAACCTA-AAACTCTAAACTCTAAAC
148261 CCTAAGATAT
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
46 22 0.34
47 43 0.66
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.25
Consensus pattern (46 bp):
AAACCCAAACCTAAAACTCTAAACTCTAAACTATAAACTAAAACCC
Found at i:148218 original size:40 final size:41
Alignment explanation
Indices: 148159--148265 Score: 130
Period size: 40 Copynumber: 2.7 Consensus size: 41
148149 AAAACATAAT
* * *
148159 CTCTAATCTATAAATTATAAACCCTAA-CCCAAACCTAAAA
1 CTCTAAACTCTAAACTATAAACCCTAATCCCAAACCTAAAA
*
148199 CTCTAAACTCTAAACTAT-AA-CCTAAATCCCAAACCTTAAA
1 CTCTAAACTCTAAACTATAAACCCT-AATCCCAAACCTAAAA
* *
148239 CTATAAACTCTAAACTCTAAACCCTAA
1 CTCTAAACTCTAAACTATAAACCCTAA
148266 GATATAAACC
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
38 3 0.05
39 4 0.07
40 43 0.75
41 4 0.07
42 3 0.05
ACGTcount: A:0.46, C:0.29, G:0.00, T:0.25
Consensus pattern (41 bp):
CTCTAAACTCTAAACTATAAACCCTAATCCCAAACCTAAAA
Found at i:148265 original size:14 final size:14
Alignment explanation
Indices: 148131--148280 Score: 73
Period size: 14 Copynumber: 11.1 Consensus size: 14
148121 GCTAGATTAC
148131 ACTCTAAACCCTAA
1 ACTCTAAACCCTAA
* *
148145 ACT-TAAAACATAA
1 ACTCTAAACCCTAA
* * **
148158 TCTCTAATCTATAA
1 ACTCTAAACCCTAA
* *
148172 ATTATAAACCCT-A
1 ACTCTAAACCCTAA
*
148185 AC-CCAAA-CCTAAA
1 ACTCTAAACCCT-AA
*
148198 ACTCTAAACTCTAA
1 ACTCTAAACCCTAA
*
148212 ACTAT-AA-CCTAA
1 ACTCTAAACCCTAA
* *
148224 A-TCCCAAACCTTAA
1 ACT-CTAAACCCTAA
* *
148238 ACTATAAACTCTAA
1 ACTCTAAACCCTAA
148252 ACTCTAAACCCTAA
1 ACTCTAAACCCTAA
*
148266 GA-TATAAACCCTAA
1 -ACTCTAAACCCTAA
148280 A
1 A
148281 GCCTTAATCC
Statistics
Matches: 97, Mismatches: 29, Indels: 21
0.66 0.20 0.14
Matches are distributed among these distances:
11 4 0.04
12 8 0.08
13 20 0.21
14 61 0.63
15 4 0.04
ACGTcount: A:0.47, C:0.27, G:0.01, T:0.25
Consensus pattern (14 bp):
ACTCTAAACCCTAA
Done.