Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007969.1 Hibiscus syriacus cultivar Beakdansim tig00110406_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: 177975
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
File 1 of 2
Found at i:23163 original size:18 final size:19
Alignment explanation
Indices: 23140--23202 Score: 76
Period size: 18 Copynumber: 3.3 Consensus size: 19
23130 ATAAAAAATA
23140 AATATAATTATAAT-TAAT
1 AATATAATTATAATATAAT
23158 AATATAATTTATTAAATATAAT
1 AATATAA-TTA-T-AATATAAT
*
23180 AA-ATAATTAAAATATAAT
1 AATATAATTATAATATAAT
23198 AATAT
1 AATAT
23203 GTAAATATAG
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
18 17 0.44
19 5 0.13
20 4 0.10
21 7 0.18
22 6 0.15
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AATATAATTATAATATAAT
Found at i:23198 original size:14 final size:14
Alignment explanation
Indices: 23149--23225 Score: 55
Period size: 16 Copynumber: 5.0 Consensus size: 14
23139 AAATATAATT
23149 ATAATTAATAATATA
1 ATAATTAA-AATATA
*
23164 ATTTATTAAATATAATAA
1 A-TAATTAAA-AT-AT-A
23182 ATAATTAAAATATA
1 ATAATTAAAATATA
*
23196 ATAATATGTAAATATA
1 ATAAT-T-AAAATATA
* *
23212 GTAACTAAAATATA
1 ATAATTAAAATATA
23226 TATTTTATAT
Statistics
Matches: 50, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
14 13 0.26
15 6 0.12
16 20 0.40
17 9 0.18
18 2 0.04
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.38
Consensus pattern (14 bp):
ATAATTAAAATATA
Found at i:23201 original size:26 final size:25
Alignment explanation
Indices: 23130--23202 Score: 62
Period size: 26 Copynumber: 3.0 Consensus size: 25
23120 TTAAGTAGAT
*
23130 ATAAAAAAT-AAATATAAT--TATA
1 ATAAATAATAAAATATAATAATATA
* * * *
23152 ATTAATAATATAATTTATTAAATATA
1 ATAAATAATAAAATATAAT-AATATA
23178 ATAAATAATTAAAATATAATAATAT
1 ATAAATAA-TAAAATATAATAATAT
23203 GTAAATATAG
Statistics
Matches: 37, Mismatches: 9, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
22 7 0.19
23 6 0.16
26 16 0.43
27 8 0.22
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (25 bp):
ATAAATAATAAAATATAATAATATA
Found at i:29434 original size:2 final size:2
Alignment explanation
Indices: 29427--29462 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
29417 TGTGTTTTCT
29427 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
29463 ATTTTATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:30106 original size:122 final size:122
Alignment explanation
Indices: 29858--30164 Score: 325
Period size: 122 Copynumber: 2.5 Consensus size: 122
29848 ACTAAAACTT
* * * * *
29858 ATAGTTTAGATACTAATTGCGTTAAGTTTTTAATTGTGGGTAATAAAATTAAACAAAAACTAAAC
1 ATAGTTTAGGTACTAATTGCGTTAAATTTTTAACTGTGGGTACTAAAATGAAACAAAAACTAAAC
* ******* * * * * *
29923 ATTAGATATGAATTTATTTTTTTTTTAAAAGTATAGGTACTAAAAGGACTAAAACTT
66 ATTAGACATGAATTTATGAAAAAATTAAAAGTATAGGTAATAAAAGAACCAAAAATG
* *
29980 ATAGTTTAGGTACTAATTGCATTAAATTTTTAACTGTGTGGTACTAAAATGAAACAAAAATTAAA
1 ATAGTTTAGGTACTAATTGCGTTAAATTTTTAACTGTG-GGTACTAAAATGAAACAAAAACTAAA
** *
30045 TGTTAGACATG-ATTT-TGAAAAAATTAAAAGTTTAGGTAATAAAACGAACCAAAAATG
65 CATTAGACATGAATTTATGAAAAAATTAAAAGTATAGGTAATAAAA-GAACCAAAAATG
* * * *
30102 ATAG-TTAGGTACTAAATGTGTT-AAGTTTTAACGGTGGGTACTAAAATGAAACAAAAACTAAAC
1 ATAGTTTAGGTACTAATTGCGTTAAATTTTTAACTGTGGGTACTAAAATGAAACAAAAACTAAAC
30165 TTTAAGTTAG
Statistics
Matches: 153, Mismatches: 30, Indels: 7
0.81 0.16 0.04
Matches are distributed among these distances:
119 25 0.16
120 12 0.08
121 35 0.23
122 50 0.33
123 31 0.20
ACGTcount: A:0.44, C:0.07, G:0.15, T:0.34
Consensus pattern (122 bp):
ATAGTTTAGGTACTAATTGCGTTAAATTTTTAACTGTGGGTACTAAAATGAAACAAAAACTAAAC
ATTAGACATGAATTTATGAAAAAATTAAAAGTATAGGTAATAAAAGAACCAAAAATG
Found at i:30110 original size:121 final size:119
Alignment explanation
Indices: 29947--30163 Score: 292
Period size: 121 Copynumber: 1.8 Consensus size: 119
29937 TATTTTTTTT
* * * * * * *
29947 TTAAAAGTATAGGTACTAAAAGGACTAAAACTTATAGTTTAGGTACTAATTGCATTAAATTTTTA
1 TTAAAAGTATAGGTAATAAAAGAACCAAAAATGATAGTTTAGGTACTAAATGCATT-AAGTTTTA
* *
30012 ACTGTGTGGTACTAAAATGAAACAAAAATTAAATGTTAGACATGATTTTGAAAAAA
65 ACGGTG-GGTACTAAAATGAAACAAAAACTAAATGTTAGACATGATTTTGAAAAAA
* **
30068 TTAAAAGTTTAGGTAATAAAACGAACCAAAAATGATAG-TTAGGTACTAAATGTGTTAAGTTTTA
1 TTAAAAGTATAGGTAATAAAA-GAACCAAAAATGATAGTTTAGGTACTAAATGCATTAAGTTTTA
30132 ACGGTGGGTACTAAAATGAAACAAAAACTAAA
65 ACGGTGGGTACTAAAATGAAACAAAAACTAAA
30164 CTTTAAGTTA
Statistics
Matches: 83, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
119 25 0.30
120 12 0.14
121 34 0.41
122 12 0.14
ACGTcount: A:0.46, C:0.08, G:0.16, T:0.30
Consensus pattern (119 bp):
TTAAAAGTATAGGTAATAAAAGAACCAAAAATGATAGTTTAGGTACTAAATGCATTAAGTTTTAA
CGGTGGGTACTAAAATGAAACAAAAACTAAATGTTAGACATGATTTTGAAAAAA
Found at i:30195 original size:119 final size:120
Alignment explanation
Indices: 29948--30272 Score: 320
Period size: 119 Copynumber: 2.7 Consensus size: 120
29938 ATTTTTTTTT
* * * * * * ** *
29948 TAAAAGTATAGGTACTAAAAGGACTAAAACTTATAGTTTAGGTACTAATTGCATTAAATTTTTAA
1 TAAAAGTTTAGGTAATAAAAGAACTAAAAATAATAGTTTAGGTACTAAATGTGTT-AAGTTTTAA
* * ** *
30013 CTGTGTGGTACTAAAATGAAACAAAAATTAAATGTTAGACATGATTTTGAAAAAAT
65 CGGTGTGGTACTAAAATGAAACAAAAACTAAATGTTAGACATGATTTAAAAAAAAA
* *
30069 TAAAAGTTTAGGTAATAAAACGAACCAAAAATGATAG-TTAGGTACTAAATGTGTTAAGTTTTAA
1 TAAAAGTTTAGGTAATAAAA-GAACTAAAAATAATAGTTTAGGTACTAAATGTGTTAAGTTTTAA
** *
30133 CGGTG-GGTACTAAAATGAAACAAAAACTAAACT-TTA-AGTTAGGTTTAAAAAAAAA
65 CGGTGTGGTACTAAAATGAAACAAAAACTAAA-TGTTAGACAT-GATTTAAAAAAAAA
* * * *
30188 TAAAAGTTTAAGTATTAAAATGAGCTAAAAATAATAGTTTA-ATGACTAAATGTGTTAAGTTTTA
1 TAAAAGTTTAGGTAATAAAA-GAACTAAAAATAATAGTTTAGGT-ACTAAATGTGTTAAGTTTTA
** *
30252 ACGGCAT-GTACTAGAATGAAA
64 ACGGTGTGGTACTAAAATGAAA
30273 TTAAAGTTAA
Statistics
Matches: 170, Mismatches: 28, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
118 2 0.01
119 70 0.41
120 53 0.31
121 33 0.19
122 12 0.07
ACGTcount: A:0.46, C:0.07, G:0.16, T:0.31
Consensus pattern (120 bp):
TAAAAGTTTAGGTAATAAAAGAACTAAAAATAATAGTTTAGGTACTAAATGTGTTAAGTTTTAAC
GGTGTGGTACTAAAATGAAACAAAAACTAAATGTTAGACATGATTTAAAAAAAAA
Found at i:30300 original size:120 final size:119
Alignment explanation
Indices: 30019--30303 Score: 283
Period size: 119 Copynumber: 2.4 Consensus size: 119
30009 TTAACTGTGT
* * ** * *
30019 GGTACTAAAATGAAACAAAAA-TTAAATGTT-AGACATGATTTTGAAAAAATTAAAAGTTTAGGT
1 GGTACTAAAATGAAACAAAAACTAAAAT-TTAAG-TATGATTTAAAAAAAAATAAAAGTTTAAGT
* **
30082 AATAAAACGAACCAAAAATGATAGTTAGGTACTAAATGTGTTAAGTTTTAACGGTG
64 AATAAAACGAACCAAAAATAATAGTTAGGTACTAAATGTGTTAAGTTTTAACGGCA
* *
30138 GGTACTAAAATGAAACAAAAACTAAACTTTAAGT-TAGGTTTAAAAAAAAATAAAAGTTTAAGTA
1 GGTACTAAAATGAAACAAAAACTAAAATTTAAGTAT-GATTTAAAAAAAAATAAAAGTTTAAGTA
* * * * *
30202 TTAAAATGAGCTAAAAATAATAGTTTA-ATGACTAAATGTGTTAAGTTTTAACGGCA
65 ATAAAACGAACCAAAAATAATAG-TTAGGT-ACTAAATGTGTTAAGTTTTAACGGCA
* * ** **
30258 TGTACTAGAATGAAATTAAAGTTAAATATTTAA-TATGATTTAAAAA
1 GGTACTAAAATGAAACAAAAACTAAA-ATTTAAGTATGATTTAAAAA
30304 TGCATAATAT
Statistics
Matches: 135, Mismatches: 24, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
118 1 0.01
119 65 0.48
120 63 0.47
121 6 0.04
ACGTcount: A:0.48, C:0.06, G:0.15, T:0.31
Consensus pattern (119 bp):
GGTACTAAAATGAAACAAAAACTAAAATTTAAGTATGATTTAAAAAAAAATAAAAGTTTAAGTAA
TAAAACGAACCAAAAATAATAGTTAGGTACTAAATGTGTTAAGTTTTAACGGCA
Found at i:35581 original size:21 final size:20
Alignment explanation
Indices: 35495--35652 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
35485 AAATGACCAA
**
35495 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
35514 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
35534 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
35554 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * * *
35575 GAAAATCGCGATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
35596 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
35616 CAATAATCGCAACGCGAATAT
1 CAA-AATCGCAACGCGATTTT
*
35637 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
35653 ACACATAAAT
Statistics
Matches: 102, Mismatches: 31, Indels: 11
0.71 0.22 0.08
Matches are distributed among these distances:
19 16 0.16
20 42 0.41
21 44 0.43
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:35645 original size:20 final size:20
Alignment explanation
Indices: 35620--35814 Score: 122
Period size: 20 Copynumber: 9.7 Consensus size: 20
35610 GATTTTCAAT
*
35620 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATACGAA
*
35640 AATCGCAACGCGAACAC-ATA
1 AATCGCAACGCGAATACGA-A
* * *
35660 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGAA
* * *
35680 AATCGCAACGTGTATCCGTAA
1 AATCGCAACGCGAATACG-AA
* ** *
35701 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGAATACGAA
* * * *
35721 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGAATACGAA
* * * *
35741 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGAA
** *
35761 AATCGCAACGATAATACATAA
1 AATCGCAACGCGAATAC-GAA
* * *
35782 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGAA
35802 AATCGCAACGCGA
1 AATCGCAACGCGA
35815 TATTTAAAGC
Statistics
Matches: 140, Mismatches: 31, Indels: 8
0.78 0.17 0.04
Matches are distributed among these distances:
19 1 0.01
20 109 0.78
21 30 0.21
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAATACGAA
Found at i:35703 original size:61 final size:61
Alignment explanation
Indices: 35620--35813 Score: 248
Period size: 61 Copynumber: 3.2 Consensus size: 61
35610 GATTTTCAAT
* ** *
35620 AATCGCAACGCGAATATG-AAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* * *** *
35680 AATCGCAACGTGTATCCGTAAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* **
35741 TATCGCAACGCGTATCCGT-AAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGTA
35802 AATCGCAACGCG
1 AATCGCAACGCG
35814 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 20, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
60 28 0.25
61 84 0.75
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (61 bp):
AATCGCAACGCGTATCCGTAAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
Found at i:35710 original size:81 final size:80
Alignment explanation
Indices: 35620--35814 Score: 239
Period size: 81 Copynumber: 2.4 Consensus size: 80
35610 GATTTTCAAT
* * *
35620 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTAAATCG
1 AATCGCAACGCGTATACGTAAATCGCAACGCGAAC-CATAAATCGCAACGCGTATCCGTAAATCG
* * *
35685 CAACG-TGTATCCGTAA
65 CAACGAT-AATACATAA
** * * * *
35701 AATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTATATCGCAACGCGTATCCGTAAATCG
1 AATCGCAACGCGTATACGTAAATCGCAACGCG-AACCATAAATCGCAACGCGTATCCGTAAATCG
35766 CAACGATAATACATAA
65 CAACGATAATACATAA
*
35782 AATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 AATCGCAACGCGTATACGTAAATCGCAACGCGA
35815 TATTTAAAGC
Statistics
Matches: 98, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
80 1 0.01
81 94 0.96
82 3 0.03
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.19
Consensus pattern (80 bp):
AATCGCAACGCGTATACGTAAATCGCAACGCGAACCATAAATCGCAACGCGTATCCGTAAATCGC
AACGATAATACATAA
Found at i:35711 original size:41 final size:41
Alignment explanation
Indices: 35659--35811 Score: 211
Period size: 41 Copynumber: 3.8 Consensus size: 41
35649 GCGAACACAT
35659 AAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTA
1 AAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTA
** * *
35700 AAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT-
1 AAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTA
* * * *
35740 ATATCGCAACGCGTATCCGTAAATCGCAACGAT-AATACATA
1 AAATCGCAACGCGTATCCGTAAATCGCAACG-TGTATCCGTA
35781 AAATCGCAACGCGTATCCGTAAATCGCAACG
1 AAATCGCAACGCGTATCCGTAAATCGCAACG
35812 CGATATTTAA
Statistics
Matches: 97, Mismatches: 13, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
40 31 0.32
41 66 0.68
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.21
Consensus pattern (41 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTA
Found at i:36237 original size:33 final size:33
Alignment explanation
Indices: 36195--36265 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
36185 TTCACTTAGA
36195 TTTCATTTCGCGTTAAGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTAAGATTCTCTCGTTGCGAT
***
36228 TTTCATTTCGCGTTGTTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTAAGATTCTCTCGTTGCGAT
36261 TTTCA
1 TTTCA
36266 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.13, C:0.21, G:0.17, T:0.49
Consensus pattern (33 bp):
TTTCATTTCGCGTTAAGATTCTCTCGTTGCGAT
Found at i:36421 original size:19 final size:19
Alignment explanation
Indices: 36397--36441 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
36387 GCAACGAGAG
**
36397 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAACCAA
36416 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACCAA
36435 AATCGCA
1 AATCGCA
36442 TTGCGATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.47, C:0.27, G:0.18, T:0.09
Consensus pattern (19 bp):
AATCGCAACGCGAAACCAA
Found at i:36459 original size:19 final size:19
Alignment explanation
Indices: 36437--36567 Score: 103
Period size: 19 Copynumber: 7.7 Consensus size: 19
36427 GAAACCAAAA
*
36437 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
36456 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
36470 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
36489 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
36503 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
36522 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
36536 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
36555 TCGCGTTGCGATT
1 TCGCGTTGCGATT
36568 CTCTCGTTGC
Statistics
Matches: 89, Mismatches: 8, Indels: 30
0.70 0.06 0.24
Matches are distributed among these distances:
14 30 0.34
16 8 0.09
17 9 0.10
19 42 0.47
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:36478 original size:14 final size:14
Alignment explanation
Indices: 36459--36581 Score: 93
Period size: 14 Copynumber: 7.7 Consensus size: 14
36449 TTTCATTTCG
36459 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
36473 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
36492 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
36506 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
36525 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
36539 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
36556 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
36572 CGTTGCGATT
1 CGTTGCGATT
36582 TTCATTTCAA
Statistics
Matches: 90, Mismatches: 4, Indels: 30
0.73 0.03 0.24
Matches are distributed among these distances:
14 38 0.42
15 1 0.01
16 11 0.12
17 11 0.12
18 1 0.01
19 28 0.31
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:36484 original size:33 final size:33
Alignment explanation
Indices: 36442--36589 Score: 278
Period size: 33 Copynumber: 4.5 Consensus size: 33
36432 CAAAATCGCA
36442 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
36475 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
36508 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
36541 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
36574 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
36590 AACCAAAAGA
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 111 1.00
ACGTcount: A:0.09, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:38490 original size:92 final size:93
Alignment explanation
Indices: 38284--38661 Score: 726
Period size: 92 Copynumber: 4.1 Consensus size: 93
38274 TAGATTGCTT
*
38284 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
38349 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
38377 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
38441 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
38469 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
38533 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
38561 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTG-AATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
38625 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
38653 AGTAAATTT
1 AGTAAATTT
38662 ATCCATTCAA
Statistics
Matches: 283, Mismatches: 1, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
91 4 0.01
92 218 0.77
93 61 0.22
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.47
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:38745 original size:19 final size:19
Alignment explanation
Indices: 38705--38781 Score: 83
Period size: 19 Copynumber: 4.3 Consensus size: 19
38695 TAGTTTACTT
* *
38705 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
38725 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
38744 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
38758 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
38777 TCGCA
1 TCGCA
38782 TTGCGATTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
14 10 0.21
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 19 0.40
20 13 0.27
ACGTcount: A:0.45, C:0.30, G:0.16, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:38799 original size:19 final size:18
Alignment explanation
Indices: 38777--38895 Score: 101
Period size: 19 Copynumber: 6.8 Consensus size: 18
38767 GAAACCAAAA
*
38777 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTC-TT
38796 TCGCGTTGCGA--TTCTT
1 TCGCGTTGCGATTTTCTT
*
38812 T--CGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTT-CTT
* *
38829 TCGCATTGCGA--TTCTG
1 TCGCGTTGCGATTTTCTT
38845 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTC-TT
*
38862 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTT-CTT
38881 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
38896 AAGTTTCGTG
Statistics
Matches: 81, Mismatches: 8, Indels: 22
0.73 0.07 0.20
Matches are distributed among these distances:
14 15 0.19
16 10 0.12
17 10 0.12
19 46 0.57
ACGTcount: A:0.09, C:0.19, G:0.24, T:0.47
Consensus pattern (18 bp):
TCGCGTTGCGATTTTCTT
Found at i:38818 original size:14 final size:14
Alignment explanation
Indices: 38799--38855 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
38789 TTTCATTTCG
38799 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
*
38813 CGTTGCGATTTTGGTTT
1 CGTTGCGA--TT-CTTT
*
38830 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
38846 CGTTGCGATT
1 CGTTGCGATT
38856 TTCATTTCGC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 16 0.46
16 6 0.17
17 7 0.20
19 6 0.17
ACGTcount: A:0.09, C:0.19, G:0.26, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:38824 original size:33 final size:33
Alignment explanation
Indices: 38782--38874 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
38772 CAAAATCGCA
*
38782 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
** *
38815 TTGCGATTTTGGTTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
38848 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
38875 TTGGTTTCGC
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:38903 original size:20 final size:19
Alignment explanation
Indices: 38777--38911 Score: 96
Period size: 19 Copynumber: 7.6 Consensus size: 19
38767 GAAACCAAAA
*
38777 TCGCATTGCGATTTTCA-TT
1 TCGCGTTGCGATTTT-AGTT
*
38796 TCGCGTTGCGA--TT-CTT
1 TCGCGTTGCGATTTTAGTT
*
38812 T--CGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTAGTT
* *
38829 TCGCATTGCGATTCT-G--
1 TCGCGTTGCGATTTTAGTT
38845 T--CGTTGCGATTTTCA-TT
1 TCGCGTTGCGATTTT-AGTT
*
38862 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTAGTT
38881 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTT-AGTT
*
38901 TCGTGTTGCGA
1 TCGCGTTGCGA
38912 AAGTAAACTA
Statistics
Matches: 93, Mismatches: 9, Indels: 27
0.72 0.07 0.21
Matches are distributed among these distances:
14 18 0.19
16 6 0.06
17 6 0.06
18 1 0.01
19 49 0.53
20 13 0.14
ACGTcount: A:0.10, C:0.19, G:0.25, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTAGTT
Found at i:40826 original size:14 final size:14
Alignment explanation
Indices: 40807--40842 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
40797 ATTGTTTAAT
40807 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
40821 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
40835 TGATTTGT
1 TGATTTGT
40843 GTAATTGATG
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:41005 original size:19 final size:19
Alignment explanation
Indices: 40949--41007 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 19
40939 AAAAATGACT
40949 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
40968 ATCACAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
40982 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
41001 ATCGCAA
1 ATCGCAA
41008 CGAGAGAATC
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
14 9 0.29
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 16 0.52
ACGTcount: A:0.47, C:0.19, G:0.20, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:41039 original size:33 final size:33
Alignment explanation
Indices: 40949--41025 Score: 145
Period size: 33 Copynumber: 2.3 Consensus size: 33
40939 AAAAATGACT
*
40949 ATCGCAATGCGAAATGAAAATCACAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
40982 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
41015 ATCGCAATGCG
1 ATCGCAATGCG
41026 TTTATAATTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.44, C:0.19, G:0.23, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:41078 original size:19 final size:19
Alignment explanation
Indices: 41054--41447 Score: 444
Period size: 19 Copynumber: 22.4 Consensus size: 19
41044 GATTATCTCG
41054 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
41073 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
41092 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
41106 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
41125 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
41144 TTGCGATTTCCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
41163 TTGCGATTTCCATTTCGCA
1 TTGCGATTTTCATTTCGCA
41182 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
41201 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
41220 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
41234 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
41253 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
41272 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
41286 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
41306 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
*
41320 TTGGGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
41339 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
41353 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
41373 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
41387 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
41407 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
41421 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
41440 TTGCGATT
1 TTGCGATT
41448 GTATTTTCCG
Statistics
Matches: 325, Mismatches: 12, Indels: 76
0.79 0.03 0.18
Matches are distributed among these distances:
14 58 0.18
16 35 0.11
17 27 0.08
18 8 0.02
19 161 0.50
20 36 0.11
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:41088 original size:52 final size:51
Alignment explanation
Indices: 41032--41447 Score: 347
Period size: 52 Copynumber: 7.9 Consensus size: 51
41022 TGCGTTTATA
41032 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATT-TCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
41084 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATT-TCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
41136 ATTTCGCATTGCGATTTCCATTTCGCATTGCGATTTCCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTT-C---TCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
* * * * *
41193 ATTTCGCATTGCGATTT-TCATTTCGCA-TTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTTCTCGTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTC
* * * * *
41245 ATTTCGCATTGCGATTT-TCATTTCGCA-TTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTTCTCGTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTC
*
41297 ATTTCCGCATTGCGATTT-TCATGTTGGGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTT-CGCATTGCGATTTCTC--GTTGCGATTTTCATTTCGCATTGCGATT-T-TC
* * *
41352 GTTGCG-ATTTTC-ATTTC-CGCATTGCGATTTTCA--T-G--TTGCGATTTTC
1 ATTTCGCA-TTGCGATTTCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
* *
41398 ATTTCCGCATTGCGATTT-TCATGTTGGGATTTTCATTTCGCGTTGCGATT
1 ATTT-CGCATTGCGATTTCTC--GTTGCGATTTTCATTTCGCATTGCGATT
41448 GTATTTTCCG
Statistics
Matches: 311, Mismatches: 23, Indels: 59
0.79 0.06 0.15
Matches are distributed among these distances:
46 4 0.01
47 6 0.02
48 25 0.08
50 10 0.03
51 8 0.03
52 138 0.44
53 51 0.16
54 10 0.03
55 13 0.04
57 46 0.15
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (51 bp):
ATTTCGCATTGCGATTTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:41290 original size:33 final size:33
Alignment explanation
Indices: 41073--41447 Score: 348
Period size: 34 Copynumber: 10.8 Consensus size: 33
41063 TCATTTCGCA
*
41073 TTGCGATTTTCATTTCGCATTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
41106 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
* *
41142 CATTGCGATTTCCATTTCGCATTGCGATTTCCATTTCG
1 --TTGCGATTTTCATTTCGCATTGCGA-TT-C-TCTCG
*
41180 CATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 --TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
* * * * *
41218 CATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCA
1 --TTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCG
41253 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
41286 TTGCGATTTTCATTTCCGCATTGCGATTTTCAT-G
1 TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
*
41320 TTGGGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
41353 TTGCGATTTTCATTTCCGCATTGCGATTTTCAT-G
1 TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
*
41387 TTGCGATTTTCATTTCCGCATTGCGATTTTCAT-G
1 TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
* *
41421 TTGGGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
41448 GTATTTTCCG
Statistics
Matches: 304, Mismatches: 20, Indels: 36
0.84 0.06 0.10
Matches are distributed among these distances:
31 9 0.03
32 6 0.02
33 91 0.30
34 92 0.30
35 7 0.02
36 5 0.02
37 5 0.02
38 74 0.24
39 6 0.02
40 9 0.03
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:41390 original size:14 final size:14
Alignment explanation
Indices: 41373--41433 Score: 59
Period size: 14 Copynumber: 3.9 Consensus size: 14
41363 CATTTCCGCA
41373 TTGCGATTTTCATG
1 TTGCGATTTTCATG
41387 TTGCGATTTTCATTTCCG
1 TTGCGATTTTCA--T--G
41405 CATTGCGATTTTCATG
1 --TTGCGATTTTCATG
*
41421 TTGGGATTTTCAT
1 TTGCGATTTTCAT
41434 TTCGCGTTGC
Statistics
Matches: 40, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
14 24 0.60
16 2 0.05
18 2 0.05
20 12 0.30
ACGTcount: A:0.15, C:0.16, G:0.20, T:0.49
Consensus pattern (14 bp):
TTGCGATTTTCATG
Found at i:43745 original size:12 final size:12
Alignment explanation
Indices: 43728--43752 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
43718 TCTTCGGGGA
43728 CTTTTTCTTCTT
1 CTTTTTCTTCTT
43740 CTTTTTCTTCTT
1 CTTTTTCTTCTT
43752 C
1 C
43753 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:43960 original size:24 final size:24
Alignment explanation
Indices: 43926--43972 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
43916 CTGAAACATC
43926 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
43950 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
43973 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:44676 original size:20 final size:20
Alignment explanation
Indices: 44648--45038 Score: 450
Period size: 20 Copynumber: 19.4 Consensus size: 20
44638 AAATTTCAGT
* * * *
44648 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
44668 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
44688 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
44708 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
44728 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
44748 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
44768 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
44788 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
44808 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
44828 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
44848 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* * *
44868 GTTGCGATTTTATGTATTA-TC
1 GTTGCGA-TTTACGGA-TACGC
44889 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
44909 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
44929 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
44949 GTTGCGATTTTACGGATACAC
1 GTTGCGA-TTTACGGATACGC
44970 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
44990 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
45010 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
45030 GTTGCGATT
1 GTTGCGATT
45039 ATTGAAAATC
Statistics
Matches: 323, Mismatches: 36, Indels: 24
0.84 0.09 0.06
Matches are distributed among these distances:
19 7 0.02
20 278 0.86
21 36 0.11
22 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:45057 original size:81 final size:81
Alignment explanation
Indices: 44653--45057 Score: 398
Period size: 81 Copynumber: 5.0 Consensus size: 81
44643 TCAGTGTTGT
* * * * * * *
44653 GATTTACAGATTCTCGTTGCGATTTACGGATTA-TCGTTGCGATTTACAGATTCTCGTTGCGATT
1 GATTTACGGATACGCGTTGCGATTTACGGA-TACGCGTTGCGATTTACGGATACGCGTTGCGATT
* *
44717 TACGGATTATCG--TTGC
65 TA-TGAATATCGCATTGC
*
44733 GATTTACGGATACGCGTTGCGATTTACGGATTA-TCGTTGCGATTTACGGATACGCGTTGCGATT
1 GATTTACGGATACGCGTTGCGATTTACGGA-TACGCGTTGCGATTTACGGATACGCGTTGCGATT
* *
44797 TACGGATA-CGCATTGC
65 TATGAATATCGCATTGC
*
44813 GATTTACGGATACGCGTTGCGATTTACGGATACACGTTGCGATTTACGGATACGCGTTGCGATTT
1 GATTTACGGATACGCGTTGCGATTTACGGATACGCGTTGCGATTTACGGATACGCGTTGCGA-TT
*
44878 TATGTATTATCG--TTGC
65 TATG-AATATCGCATTGC
* * **
44894 GATTTACGGATACGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTT
1 GATTTACGGATACGCGTTGCGATTTACGGATACGCGTTGCGATTTACGGATACGCGTTGCGA-TT
* * * *
44959 TACGGATA-CACGTTGC
65 TATGAATATCGCATTGC
* * * ** *
44975 GATTTACGGATACGCGTTGCGATTTATGTG-TTCGCGTTGCGATTTTCATATTCGCGTTGCGA-T
1 GATTTACGGATACGCGTTGCGATTTACG-GATACGCGTTGCGATTTACGGATACGCGTTGCGATT
* *
45038 TATTGAAAATCGCAATGC
65 TA-TGAATATCGCATTGC
45056 GA
1 GA
45058 ATTTGTACTA
Statistics
Matches: 278, Mismatches: 36, Indels: 21
0.83 0.11 0.06
Matches are distributed among these distances:
78 2 0.01
79 9 0.03
80 127 0.46
81 135 0.49
82 3 0.01
83 2 0.01
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (81 bp):
GATTTACGGATACGCGTTGCGATTTACGGATACGCGTTGCGATTTACGGATACGCGTTGCGATTT
ATGAATATCGCATTGC
Found at i:50417 original size:21 final size:21
Alignment explanation
Indices: 50366--50418 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
50356 ATTATGACTA
50366 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
50387 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
50408 TCGCAATGCGA
1 TCGCAATGCGA
50419 ATAAGTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:50438 original size:41 final size:42
Alignment explanation
Indices: 50393--50516 Score: 99
Period size: 41 Copynumber: 3.0 Consensus size: 42
50383 AATTTCGCGT
* * *
50393 TGCGATTTTCCCAATTCGCAATGCGAA-TAAGTAAATCGCAA
1 TGCGATTTTCCAAAATCGCAATGCGAATTAAGAAAATCGCAA
* ** **
50434 TGCGAATTTGGAAAATCGCAATGCGAATTTGGAAAATCGCAA
1 TGCGATTTTCCAAAATCGCAATGCGAATTAAGAAAATCGCAA
** * ** **
50476 TGCGATACT-GACTATCGCAATGCGAATTTGGAAAATCGCAA
1 TGCGATTTTCCAAAATCGCAATGCGAATTAAGAAAATCGCAA
50517 CTCGGTACTG
Statistics
Matches: 69, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
41 52 0.75
42 17 0.25
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (42 bp):
TGCGATTTTCCAAAATCGCAATGCGAATTAAGAAAATCGCAA
Found at i:50451 original size:21 final size:21
Alignment explanation
Indices: 50408--50516 Score: 134
Period size: 21 Copynumber: 5.3 Consensus size: 21
50398 TTTTCCCAAT
** *
50408 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTTGGAAAA
50428 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTTGGAAAA
50449 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTTGGAAAA
* **
50470 TCGCAATGCG-ATACT-GACTA
1 TCGCAATGCGAAT-TTGGAAAA
50490 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTTGGAAAA
50511 TCGCAA
1 TCGCAA
50517 CTCGGTACTG
Statistics
Matches: 76, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
20 28 0.37
21 48 0.63
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAATTTGGAAAA
Found at i:50526 original size:41 final size:41
Alignment explanation
Indices: 50448--50577 Score: 165
Period size: 41 Copynumber: 3.2 Consensus size: 41
50438 AATTTGGAAA
50448 ATCGCAATGCGAATTTGGAAAATCGCAA-TGCGATACTGACT
1 ATCGCAATGCGAATTTGGAAAATCGCAACT-CGATACTGACT
*
50489 ATCGCAATGCGAATTTGGAAAATCGCAACTCGGTACTGACT
1 ATCGCAATGCGAATTTGGAAAATCGCAACTCGATACTGACT
* * ** *
50530 ATCGCAACGCG-ATAATACAAAATCGCAACGCGATACTGACT
1 ATCGCAATGCGAAT-TTGGAAAATCGCAACTCGATACTGACT
*
50571 TTCGCAA
1 ATCGCAA
50578 CTCGATACTT
Statistics
Matches: 79, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
40 2 0.03
41 76 0.96
42 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (41 bp):
ATCGCAATGCGAATTTGGAAAATCGCAACTCGATACTGACT
Found at i:50535 original size:20 final size:20
Alignment explanation
Indices: 50510--50618 Score: 85
Period size: 20 Copynumber: 5.4 Consensus size: 20
50500 AATTTGGAAA
*
50510 ATCGCAACTCGGTACTGACT
1 ATCGCAACTCGATACTGACT
* * *
50530 ATCGCAACGCGATAAT-ACAAA
1 ATCGCAACTCGATACTGAC--T
*
50551 ATCGCAACGCGATACTGACT
1 ATCGCAACTCGATACTGACT
* * *
50571 TTCGCAACTCGATACTTAAT
1 ATCGCAACTCGATACTGACT
* * *
50591 TTCGCAACTCAATACTGCCT
1 ATCGCAACTCGATACTGACT
*
50611 TTCGCAAC
1 ATCGCAAC
50619 GAGATAATAC
Statistics
Matches: 72, Mismatches: 14, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
19 2 0.03
20 53 0.74
21 15 0.21
22 2 0.03
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (20 bp):
ATCGCAACTCGATACTGACT
Found at i:50555 original size:62 final size:63
Alignment explanation
Indices: 50425--50562 Score: 142
Period size: 62 Copynumber: 2.2 Consensus size: 63
50415 GCGAATAAGT
* * *
50425 AAATCGCAATGCGAATTTGGAAAATCGCAATGCGAATTTGGAAAATCGCAATGCGATACTGAC
1 AAATCGCAATGCGAATTTGGAAAATCGCAATGCGAATCTGGAAAATCGCAACGCGATAATGAC
* * **
50488 -TATCGCAATGCGAATTTGGAAAATCGCAACT-CG-GTACT-GACTATCGCAACGCGATAAT-AC
1 AAATCGCAATGCGAATTTGGAAAATCGCAA-TGCGAAT-CTGGAAAATCGCAACGCGATAATGAC
*
50548 AAAATCGCAACGCGA
1 -AAATCGCAATGCGA
50563 TACTGACTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 9
0.77 0.11 0.11
Matches are distributed among these distances:
60 2 0.03
61 17 0.27
62 42 0.68
63 1 0.02
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (63 bp):
AAATCGCAATGCGAATTTGGAAAATCGCAATGCGAATCTGGAAAATCGCAACGCGATAATGAC
Found at i:50578 original size:41 final size:41
Alignment explanation
Indices: 50466--50644 Score: 155
Period size: 41 Copynumber: 4.4 Consensus size: 41
50456 GCGAATTTGG
* * * **
50466 AAAATCGCAATGCGATACTGACTATCGCAATGCGA-ATTTGG
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGATA-ATAC
* *
50507 AAAATCGCAACTCGGTACTGACTATCGCAACGCGATAATAC
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * * *
50548 AAAATCGCAACGCGATACTGACTTTCGCAACTCGATACT-T
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
** * * * * *
50588 AATTTCGCAACTCAATACTGCCTTTCGCAACGAGATAATAC
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* *
50629 ATAATCGCAATGCGAT
1 AAAATCGCAACGCGAT
50645 TTTCAAAGCG
Statistics
Matches: 108, Mismatches: 28, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
40 31 0.29
41 76 0.70
42 1 0.01
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.24
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:50626 original size:81 final size:81
Alignment explanation
Indices: 50466--50644 Score: 218
Period size: 81 Copynumber: 2.2 Consensus size: 81
50456 GCGAATTTGG
* **
50466 AAAATCGCAATGCGATACTGACTATCGCAATGCGAATTTGGAAAATCGCAACTCGGTACTGACTA
1 AAAATCGCAATGCGATACTGACTATCGCAATGCGAACTT-GAAAATCGCAACTCAATACTGACTA
*
50531 TCGCAACGCGATAATAC
65 TCGCAACGAGATAATAC
* * ** *
50548 AAAATCGCAACGCGATACTGACTTTCGCAACT-CGATACTT-AATTTCGCAACTCAATACTGCCT
1 AAAATCGCAATGCGATACTGACTATCGCAA-TGCGA-ACTTGAAAATCGCAACTCAATACTGACT
*
50611 TTCGCAACGAGATAATAC
64 ATCGCAACGAGATAATAC
*
50629 ATAATCGCAATGCGAT
1 AAAATCGCAATGCGAT
50645 TTTCAAAGCG
Statistics
Matches: 83, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
81 48 0.58
82 31 0.37
83 4 0.05
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.24
Consensus pattern (81 bp):
AAAATCGCAATGCGATACTGACTATCGCAATGCGAACTTGAAAATCGCAACTCAATACTGACTAT
CGCAACGAGATAATAC
Found at i:50839 original size:22 final size:22
Alignment explanation
Indices: 50812--50854 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
50802 ACTCTCTCAG
*
50812 CCATCTTCGACGAAATCCGTCC
1 CCATCTCCGACGAAATCCGTCC
*
50834 CCATCTCCGGCGAAATCCGTC
1 CCATCTCCGACGAAATCCGTC
50855 TATCTCCATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.42, G:0.16, T:0.21
Consensus pattern (22 bp):
CCATCTCCGACGAAATCCGTCC
Found at i:51157 original size:20 final size:20
Alignment explanation
Indices: 51134--51176 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
51124 GATAGTCAAA
51134 TTCGCGTTGCGATTTTCATT
1 TTCGCGTTGCGATTTTCATT
*
51154 TTCGTGTTGCGATTTTCATT
1 TTCGCGTTGCGATTTTCATT
51174 TTC
1 TTC
51177 AGAAACTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.09, C:0.19, G:0.19, T:0.53
Consensus pattern (20 bp):
TTCGCGTTGCGATTTTCATT
Found at i:52518 original size:18 final size:18
Alignment explanation
Indices: 52497--52544 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
52487 TCCACTTCGG
52497 GAGCCATCACCTCACCCA
1 GAGCCATCACCTCACCCA
*
52515 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
52533 GAGCCATCACCT
1 GAGCCATCACCT
52545 GATCGACCCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.27, C:0.46, G:0.12, T:0.15
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:53145 original size:19 final size:20
Alignment explanation
Indices: 53091--53157 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
53081 TAGTTTACTT
* *
53091 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
53111 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
53131 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
53150 TCGCAACG
1 TCGCAACG
53158 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:53265 original size:20 final size:20
Alignment explanation
Indices: 53219--53305 Score: 113
Period size: 20 Copynumber: 4.4 Consensus size: 20
53209 GCGATTTTGT
**
53219 CGTTGCGATTTTCATTT-CG
1 CGTTGCGATAGTCATTTCCG
* *
53238 CATTGCGATAGCCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
53258 CTTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
53278 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTCCG
53298 CGTTGCGA
1 CGTTGCGA
53306 AAGTAAGTTT
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
19 13 0.22
20 46 0.78
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:53316 original size:20 final size:20
Alignment explanation
Indices: 53276--53331 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
53266 TAGTCATTTC
* * *
53276 CGCGTTGCGATAGTCATTTT
1 CGCGTTGCGAAAGTAAGTTT
53296 CGCGTTGCGAAAGTAAGTTT
1 CGCGTTGCGAAAGTAAGTTT
*
53316 CGTGTTGCGAAAGTAA
1 CGCGTTGCGAAAGTAA
53332 ACTATTCTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (20 bp):
CGCGTTGCGAAAGTAAGTTT
Found at i:53323 original size:40 final size:40
Alignment explanation
Indices: 53232--53325 Score: 102
Period size: 40 Copynumber: 2.4 Consensus size: 40
53222 TGCGATTTTC
* * * *
53232 ATTT-CGCATTGCGATAGCCATTTCCGCTTTGCGATAGTC
1 ATTTCCGCGTTGCGATAGCCATTTCCGCGTTGCGAAAGTA
* *
53271 ATTTCCGCGTTGCGATAGTCATTTTCGCGTTGCGAAAGTA
1 ATTTCCGCGTTGCGATAGCCATTTCCGCGTTGCGAAAGTA
*
53311 AGTTT-CGTGTTGCGA
1 A-TTTCCGCGTTGCGA
53326 AAGTAAACTA
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
39 4 0.09
40 39 0.85
41 3 0.07
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.36
Consensus pattern (40 bp):
ATTTCCGCGTTGCGATAGCCATTTCCGCGTTGCGAAAGTA
Found at i:53759 original size:40 final size:42
Alignment explanation
Indices: 53670--53759 Score: 112
Period size: 40 Copynumber: 2.2 Consensus size: 42
53660 CCCGACTCAC
* * *
53670 CTGTCATTCCTCAAGAGTCCCCTCAAATCGTTCAAGAGGCCC
1 CTGTCATCCCTCAAGAGTCCCCTCAAACCGTTCAAGAGGCCA
* * *
53712 CTATCATCCCTCAAGAGTCCCC-C-CACCGTTCAATAGGCCA
1 CTGTCATCCCTCAAGAGTCCCCTCAAACCGTTCAAGAGGCCA
53752 CTGTCATC
1 CTGTCATC
53760 GTTGAAGAGG
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
40 20 0.49
41 1 0.02
42 20 0.49
ACGTcount: A:0.23, C:0.39, G:0.14, T:0.23
Consensus pattern (42 bp):
CTGTCATCCCTCAAGAGTCCCCTCAAACCGTTCAAGAGGCCA
Found at i:55203 original size:14 final size:14
Alignment explanation
Indices: 55169--55207 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
55159 TTGATTGTTT
55169 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
55183 AAATGATTTGTAAA
1 AATTGATTTGTAAA
**
55197 TGTTGATTTGT
1 AATTGATTTGT
55208 TTAATTGGTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:55353 original size:14 final size:14
Alignment explanation
Indices: 55334--55387 Score: 63
Period size: 14 Copynumber: 3.5 Consensus size: 14
55324 GAAACTGACT
55334 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
55348 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAAA
55367 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
55381 ATCGCAA
1 ATCGCAA
55388 TGCGATTTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 18 0.51
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 11 0.31
ACGTcount: A:0.48, C:0.20, G:0.20, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:55443 original size:20 final size:20
Alignment explanation
Indices: 55420--55486 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
55410 GTTTTTCTAG
*
55420 TTGCGATAGCCATTTTCGCT
1 TTGCGATAGCCATTTTCGCA
***
55440 TTGCGATTTTTCA-TTTCGCA
1 TTGCGA-TAGCCATTTTCGCA
* *
55460 TTGCGATAGCAATTTTCGCG
1 TTGCGATAGCCATTTTCGCA
55480 TTGCGAT
1 TTGCGAT
55487 TTCCCCGTTG
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
19 2 0.06
20 31 0.86
21 3 0.08
ACGTcount: A:0.16, C:0.21, G:0.21, T:0.42
Consensus pattern (20 bp):
TTGCGATAGCCATTTTCGCA
Found at i:55724 original size:20 final size:20
Alignment explanation
Indices: 55699--55747 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
55689 TTGAAGATGA
*
55699 TTGCGATTTTCAGAATCTCG
1 TTGCGATTTTCAGAATCGCG
***
55719 TTGCGAAAGTCAGAATCGCG
1 TTGCGATTTTCAGAATCGCG
55739 TTGCG-TTTT
1 TTGCGATTTT
55748 TGTATTATCT
Statistics
Matches: 22, Mismatches: 7, Indels: 1
0.73 0.23 0.03
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.37
Consensus pattern (20 bp):
TTGCGATTTTCAGAATCGCG
Found at i:55819 original size:20 final size:21
Alignment explanation
Indices: 55775--55826 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
55765 ATAGTCAGTA
*
55775 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
**
55796 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
55816 TCGCATTGCGA
1 TCGCATTGCGA
55827 ATTAGGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:58459 original size:149 final size:149
Alignment explanation
Indices: 58279--58583 Score: 592
Period size: 149 Copynumber: 2.0 Consensus size: 149
58269 AGAGTCGAGG
58279 GTCTACGCGGTTCTTAGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACA
1 GTCTACGCGGTTCTTAGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACA
*
58344 TACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATT
66 TACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATT
58409 ATATGGCACTACGGTGCAA
131 ATATGGCACTACGGTGCAA
58428 GTCTACGCGGTTCTTAGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACA
1 GTCTACGCGGTTCTTAGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACA
58493 TACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATT
66 TACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATT
58558 ATATGGCACTACGGTGCAA
131 ATATGGCACTACGGTGCAA
*
58577 TTCTACG
1 GTCTACG
58584 GGGCACTTCG
Statistics
Matches: 154, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 154 1.00
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (149 bp):
GTCTACGCGGTTCTTAGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACA
TACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATT
ATATGGCACTACGGTGCAA
Found at i:58606 original size:23 final size:23
Alignment explanation
Indices: 58562--58606 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
58552 ATCATTATAT
*
58562 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
58585 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
58607 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:61895 original size:21 final size:21
Alignment explanation
Indices: 61865--61909 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
61855 GATTTCTGGG
* *
61865 CAAGGGGAATCGGTACCCATT
1 CAAGGAGAATCGATACCCATT
*
61886 CAAGGAGAATCGATACCCCTT
1 CAAGGAGAATCGATACCCATT
61907 CAA
1 CAA
61910 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.27, G:0.22, T:0.18
Consensus pattern (21 bp):
CAAGGAGAATCGATACCCATT
Found at i:63569 original size:149 final size:149
Alignment explanation
Indices: 63384--63688 Score: 574
Period size: 149 Copynumber: 2.0 Consensus size: 149
63374 AGAGTCGAGG
63384 GTCTACGCGGTTCTTAGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACA
1 GTCTACGCGGTTCTTAGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACA
* *
63449 TACTTGATCCCTAGCATATGTATATAATTCTTAAAGAATTCTATGTGGTCCTTATGGATATTATT
66 TACTTGATCCCTAGCATATGTATATAATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATT
63514 ATATGGCACTACGGTGCAA
131 ATATGGCACTACGGTGCAA
63533 GTCTACGCGGTTCTTAGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACA
1 GTCTACGCGGTTCTTAGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACA
*
63598 TACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATT
66 TACTTGATCCCTAGCATATGTATATAATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATT
63663 ATATGGCACTACGGTGCAA
131 ATATGGCACTACGGTGCAA
*
63682 TTCTACG
1 GTCTACG
63689 GGGCACTTCG
Statistics
Matches: 152, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
149 152 1.00
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.34
Consensus pattern (149 bp):
GTCTACGCGGTTCTTAGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACA
TACTTGATCCCTAGCATATGTATATAATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATT
ATATGGCACTACGGTGCAA
Found at i:63711 original size:23 final size:23
Alignment explanation
Indices: 63667--63711 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
63657 ATCATTATAT
*
63667 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
63690 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
63712 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:64963 original size:24 final size:24
Alignment explanation
Indices: 64912--64965 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
64902 GTATTCAAAA
* *
64912 TTTGTTATTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCAGAC
* *
64936 TTTGATATTGGTCAATACTCAGAT
1 TTTGATATTGGTCAATACCCAGAC
64960 TTTGAT
1 TTTGAT
64966 GATGTTTCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.43
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCAGAC
Found at i:65157 original size:12 final size:12
Alignment explanation
Indices: 65140--65164 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
65130 ATATAATCTT
65140 GAAGAAGAAAAA
1 GAAGAAGAAAAA
65152 GAAGAAGAAAAA
1 GAAGAAGAAAAA
65164 G
1 G
65165 TCCCTGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:67472 original size:19 final size:19
Alignment explanation
Indices: 67450--67514 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 19
67440 AGAAATTACT
67450 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
67469 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
67483 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
67502 ATCGCAACGCGAA
1 ATCGCAATGCGAA
67515 TTTAATTTCG
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
14 9 0.25
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 21 0.58
ACGTcount: A:0.43, C:0.20, G:0.25, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:67532 original size:19 final size:19
Alignment explanation
Indices: 67510--67551 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
67500 AAATCGCAAC
67510 GCGAATTTAATTTCGCGTT
1 GCGAATTTAATTTCGCGTT
* *
67529 GCGATTTTCATTTCGCGTT
1 GCGAATTTAATTTCGCGTT
67548 GCGA
1 GCGA
67552 TTCTCTCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.17, C:0.19, G:0.24, T:0.40
Consensus pattern (19 bp):
GCGAATTTAATTTCGCGTT
Found at i:67552 original size:19 final size:19
Alignment explanation
Indices: 67519--67585 Score: 81
Period size: 19 Copynumber: 3.8 Consensus size: 19
67509 CGCGAATTTA
67519 ATTTCGCGTTGCGATTTTC
1 ATTTCGCGTTGCGATTTTC
67538 ATTTCGCGTTGCGA--TTC
1 ATTTCGCGTTGCGATTTTC
*
67555 ---TCTCGTTGCGATTTTC
1 ATTTCGCGTTGCGATTTTC
*
67571 ATTTCGCATTGCGAT
1 ATTTCGCGTTGCGAT
67586 AGTACTTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
14 10 0.25
16 3 0.08
17 3 0.08
19 24 0.60
ACGTcount: A:0.12, C:0.22, G:0.21, T:0.45
Consensus pattern (19 bp):
ATTTCGCGTTGCGATTTTC
Found at i:67711 original size:14 final size:14
Alignment explanation
Indices: 67692--67728 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
67682 CATTAATTAA
67692 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
67706 ACAAATCACCTTTT
1 ACAAATCAACTTTT
67720 ACAAATCAA
1 ACAAATCAA
67729 TTAAATAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:69143 original size:21 final size:21
Alignment explanation
Indices: 69077--69143 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
69067 GTGAATCGGG
*
69077 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
69097 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
69119 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
69140 CTCT
1 CTCT
69144 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:69162 original size:42 final size:41
Alignment explanation
Indices: 69077--69185 Score: 103
Period size: 42 Copynumber: 2.6 Consensus size: 41
69067 GTGAATCGGG
* *
69077 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCAACGATGACAGAGGC
* * *
69119 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGAGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCAACG-ATGACAGAGGC
* * * *
69161 CTCTTCAACGATAGGAGTGGACTCT
1 CTCTTGAACGGTGGGAGGGGACTCT
69186 TGAAGGATGA
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
41 4 0.07
42 48 0.86
43 4 0.07
ACGTcount: A:0.23, C:0.20, G:0.34, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCAACGATGACAGAGGC
Found at i:71237 original size:14 final size:14
Alignment explanation
Indices: 71218--71273 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
71208 GGAAATGACT
71218 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
71232 ATCGCAACGCGAAATGA
1 ATCGCAA--CGAGA-GA
71249 CTATCGCAACGAGAGA
1 --ATCGCAACGAGAGA
71265 ATCGCAACG
1 ATCGCAACG
71274 CGAAATGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 16 0.46
16 6 0.17
17 6 0.17
19 7 0.20
ACGTcount: A:0.39, C:0.25, G:0.25, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:71251 original size:33 final size:33
Alignment explanation
Indices: 71194--71292 Score: 171
Period size: 33 Copynumber: 3.0 Consensus size: 33
71184 ACGAGATAAT
71194 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACGA
71228 GAGAATCGCAACGCGAAATGACTATCGCAACGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
**
71261 GAGAATCGCAACGCGAAATGAAAATCGCAACG
1 GAGAATCGCAACGCGAAATGACTATCGCAACG
71293 CGAAATGACT
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
33 49 0.78
34 14 0.22
ACGTcount: A:0.40, C:0.23, G:0.25, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Found at i:71256 original size:19 final size:18
Alignment explanation
Indices: 71169--71366 Score: 123
Period size: 19 Copynumber: 11.1 Consensus size: 18
71159 TCTTTTGGTT
*
71169 GAAATGAAAATCGCAACGA
1 GAAATG-AAATCGCAACGC
71188 GATAATGAGAATCGCAACGC
1 GA-AATGA-AATCGCAACGC
*
71208 GGAAATGACTATCGCAA--C
1 -GAAATGA-AATCGCAACGC
*
71226 GAGA-G-AATCGCAACGC
1 GAAATGAAATCGCAACGC
*
71242 GAAATGACTATCGCAA--C
1 GAAATGA-AATCGCAACGC
*
71259 GAGA-G-AATCGCAACGC
1 GAAATGAAATCGCAACGC
71275 GAAATGAAAATCGCAACGC
1 GAAATG-AAATCGCAACGC
* * *
71294 GAAATGACTATTGCAA--T
1 GAAATGA-AATCGCAACGC
*
71311 GAGA-G-AATCGCAACGC
1 GAAATGAAATCGCAACGC
*
71327 GAAATGAAAACCGCAACGC
1 GAAATG-AAATCGCAACGC
*
71346 GAAATGAAAATCGCAATGC
1 GAAATG-AAATCGCAACGC
71365 GA
1 GA
71367 TTTTGGTTTC
Statistics
Matches: 139, Mismatches: 21, Indels: 38
0.70 0.11 0.19
Matches are distributed among these distances:
14 20 0.14
16 14 0.10
17 13 0.09
18 2 0.01
19 62 0.45
20 26 0.19
21 2 0.01
ACGTcount: A:0.43, C:0.21, G:0.24, T:0.13
Consensus pattern (18 bp):
GAAATGAAATCGCAACGC
Found at i:71296 original size:52 final size:52
Alignment explanation
Indices: 71231--71361 Score: 217
Period size: 52 Copynumber: 2.5 Consensus size: 52
71221 GCAACGAGAG
71231 AATCGCAACGCGAAATGACTATCGCAACGAGAGAATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGACTATCGCAACGAGAGAATCGCAACGCGAAATGAA
* *
71283 AATCGCAACGCGAAATGACTATTGCAATGAGAGAATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGACTATCGCAACGAGAGAATCGCAACGCGAAATGAA
* **
71335 AACCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGACTATCGCAA
71362 TGCGATTTTG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (52 bp):
AATCGCAACGCGAAATGACTATCGCAACGAGAGAATCGCAACGCGAAATGAA
Found at i:71342 original size:85 final size:87
Alignment explanation
Indices: 71177--71344 Score: 259
Period size: 85 Copynumber: 2.0 Consensus size: 87
71167 TTGAAATGAA
*
71177 AATCGCAACGAGATAATGAGAATCGCAACGCGGAAATGACTATCGCAACGAGAGAATCGCAACGC
1 AATCGCAACGAGATAATGAAAATCGCAACGCGGAAATGACTATCGCAACGAGAGAATCGCAACGC
** *
71242 GAAATGACTATCGCAACGAGAG
66 GAAATGAAAACCGCAACGAGAG
* * *
71264 AATCGCAACGCGA-AATGAAAATCGCAACGC-GAAATGACTATTGCAATGAGAGAATCGCAACGC
1 AATCGCAACGAGATAATGAAAATCGCAACGCGGAAATGACTATCGCAACGAGAGAATCGCAACGC
71327 GAAATGAAAACCGCAACG
66 GAAATGAAAACCGCAACG
71345 CGAAATGAAA
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
85 46 0.62
86 16 0.22
87 12 0.16
ACGTcount: A:0.42, C:0.22, G:0.24, T:0.12
Consensus pattern (87 bp):
AATCGCAACGAGATAATGAAAATCGCAACGCGGAAATGACTATCGCAACGAGAGAATCGCAACGC
GAAATGAAAACCGCAACGAGAG
Found at i:71985 original size:21 final size:20
Alignment explanation
Indices: 71959--72016 Score: 80
Period size: 21 Copynumber: 2.9 Consensus size: 20
71949 CGATAGTAAG
*
71959 ATTCGCATTGCGATTTTCCT
1 ATTCGCATTGCGATTTACCT
*
71979 AATTCGCATTGCGATTTACGT
1 -ATTCGCATTGCGATTTACCT
*
72000 ATTCGCGTTGCGATTTA
1 ATTCGCATTGCGATTTA
72017 TGAAAATCGC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 16 0.47
21 18 0.53
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.41
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACCT
Found at i:72005 original size:20 final size:20
Alignment explanation
Indices: 71941--72016 Score: 82
Period size: 20 Copynumber: 3.8 Consensus size: 20
71931 GCTATGTAAA
* *
71941 TCGCATTGCGATAGTAAG-AT
1 TCGCATTGCGAT-TTACGTAT
* *
71961 TCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATTTACGT-AT
71982 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
*
72002 TCGCGTTGCGATTTA
1 TCGCATTGCGATTTA
72017 TGAAAATCGC
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
19 1 0.02
20 28 0.60
21 18 0.38
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.38
Consensus pattern (20 bp):
TCGCATTGCGATTTACGTAT
Found at i:72027 original size:41 final size:41
Alignment explanation
Indices: 71933--72150 Score: 124
Period size: 41 Copynumber: 5.3 Consensus size: 41
71923 CGAATGGCGC
* *
71933 TATGTAAATCGCATTGCGATAGTAAG-ATTCGCATTGCGATT
1 TATGAAAATCGCATTGCGAT-GTACGTATTCGCATTGCGATT
** * * *
71974 T-TCCTAATTCGCATTGCGATTTACGTATTCGCGTTGCGATT
1 TAT-GAAAATCGCATTGCGATGTACGTATTCGCATTGCGATT
** * * * *
72015 TATGAAAATCGCAACGCGA-ATACGTAAATCGCAATGCGAAT
1 TATGAAAATCGCATTGCGATGTACGT-ATTCGCATTGCGATT
* *
72056 TAGGAAAATTGCATTGCGATAGT-CAGTA-TCGCATTGCGATT
1 TATGAAAATCGCATTGCGAT-GTAC-GTATTCGCATTGCGATT
* * * * * * *
72097 T-TCCAAATTCGCATTGTGATTTACTTATTCACATTGCGAAT
1 TAT-GAAAATCGCATTGCGATGTACGTATTCGCATTGCGATT
**
72138 TGGGAAAATCGCA
1 TATGAAAATCGCA
72151 ACGCGAAATT
Statistics
Matches: 132, Mismatches: 34, Indels: 22
0.70 0.18 0.12
Matches are distributed among these distances:
40 12 0.09
41 114 0.86
42 3 0.02
43 3 0.02
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (41 bp):
TATGAAAATCGCATTGCGATGTACGTATTCGCATTGCGATT
Found at i:72177 original size:21 final size:22
Alignment explanation
Indices: 72128--72178 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
72118 TACTTATTCA
72128 CATTGCG-AATTGGGAAAATCG
1 CATTGCGAAATTGGGAAAATCG
**
72149 CAACGCGAAATT-GGAAAATCG
1 CATTGCGAAATTGGGAAAATCG
72170 CATTGCGAA
1 CATTGCGAA
72179 TCTAGAAACT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.20
Consensus pattern (22 bp):
CATTGCGAAATTGGGAAAATCG
Found at i:72196 original size:123 final size:123
Alignment explanation
Indices: 71943--72199 Score: 324
Period size: 123 Copynumber: 2.1 Consensus size: 123
71933 TATGTAAATC
* * *
71943 GCATTGCGATAGTAAGATTCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGTATTCGCGT
1 GCATTGCGATAGTAAGATTCGCATTGCGATTTTCCAAATTCGCATTGCGATTTACGTATTCACAT
* * * *
72008 TGCGATTTATGAAAATCGCAACGCGAATACGTAAATCGCAATGCGAATTAGGAAAATT
66 TGCGAATTAGGAAAATCGCAACGCGAATACGAAAATCGCAATGCGAATTAGGAAAACT
* * *
72066 GCATTGCGATAGTCAG-TATCGCATTGCGATTTTCCAAATTCGCATTGTGATTTACTTATTCACA
1 GCATTGCGATAGTAAGAT-TCGCATTGCGATTTTCCAAATTCGCATTGCGATTTACGTATTCACA
* ** *
72130 TTGCGAATTGGGAAAATCGCAACGCGAAATTGGAAAATCGCATTGCGAATCTA-G-AAACT
65 TTGCGAATTAGGAAAATCGCAACGCG-AATACGAAAATCGCAATGCGAAT-TAGGAAAACT
72189 G-ATTTGCGATA
1 GCA-TTGCGATA
72200 ATGGAGATCG
Statistics
Matches: 116, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
122 2 0.02
123 92 0.79
124 20 0.17
125 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (123 bp):
GCATTGCGATAGTAAGATTCGCATTGCGATTTTCCAAATTCGCATTGCGATTTACGTATTCACAT
TGCGAATTAGGAAAATCGCAACGCGAATACGAAAATCGCAATGCGAATTAGGAAAACT
Found at i:88185 original size:20 final size:20
Alignment explanation
Indices: 88141--88178 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
88131 CATACACATT
* *
88141 TAAACGATCGTAAATGAACA
1 TAAACGAACGTAAACGAACA
88161 TAAACGAACGTAAACGAA
1 TAAACGAACGTAAACGAA
88179 AGTAAACATT
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:0.53, C:0.16, G:0.16, T:0.16
Consensus pattern (20 bp):
TAAACGAACGTAAACGAACA
Found at i:89964 original size:21 final size:21
Alignment explanation
Indices: 89940--89999 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
89930 AACTTTGAAA
89940 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
89961 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
89975 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
89996 AAAT
1 AAAT
90000 ATTTCTTTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
14 5 0.17
15 4 0.13
16 4 0.13
19 4 0.13
20 4 0.13
21 9 0.30
ACGTcount: A:0.32, C:0.05, G:0.20, T:0.43
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:90046 original size:36 final size:36
Alignment explanation
Indices: 89932--90051 Score: 172
Period size: 35 Copynumber: 3.3 Consensus size: 36
89922 TGGTAACCAA
89932 CTTTGAAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTG-AAAAATGGTTTTCAAAGTTTGGTAAATGTTT
*
89969 CTTTG-AAAATGGTTTTCAAAGTTTGGTAAATATTT
1 CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
* *
90004 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAAT-GGTTTTCAAAGTTTGGTAAATGTTT
*
90041 -GTTGAAAAATG
1 CTTTGAAAAATG
90052 ATAATGGGAT
Statistics
Matches: 76, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
35 35 0.46
36 14 0.18
37 27 0.36
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.43
Consensus pattern (36 bp):
CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:90051 original size:72 final size:69
Alignment explanation
Indices: 89905--90048 Score: 184
Period size: 72 Copynumber: 2.1 Consensus size: 69
89895 TGAAACTATT
*
89905 AAAATGGTTTTCAAGTTTGGTAACCAACTTTGAAAAAATGGTTTTCAAAGTTTGGTAAATGTTTC
1 AAAATGGTTTTCAAGTTTGGTAAACAACTTTGAAAAAATGGTTTTCAAAGTTTGGTAAATGTTTC
*
89970 TTTG
66 GTTG
* * * *
89974 AAAATGGTTTTCAAAGTTTGGTAAATATTTCTTTG-AAAAATAGTTTTTCAAAGTTTGGTAGATG
1 AAAATGGTTTTC-AAGTTTGGTAAACA--ACTTTGAAAAAAT-GGTTTTCAAAGTTTGGTAAATG
90038 TTT-GTTG
62 TTTCGTTG
90045 AAAA
1 AAAA
90049 ATGATAATGG
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
69 12 0.18
70 12 0.18
71 13 0.20
72 28 0.43
ACGTcount: A:0.33, C:0.06, G:0.19, T:0.42
Consensus pattern (69 bp):
AAAATGGTTTTCAAGTTTGGTAAACAACTTTGAAAAAATGGTTTTCAAAGTTTGGTAAATGTTTC
GTTG
Found at i:94483 original size:21 final size:21
Alignment explanation
Indices: 94459--94519 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
94449 AACTTTGAAA
94459 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
94480 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
94494 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
94515 AAATG
1 AAATG
94520 TTTCTTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 4 0.13
16 4 0.13
19 4 0.13
20 4 0.13
21 10 0.32
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:94550 original size:37 final size:37
Alignment explanation
Indices: 94451--94569 Score: 174
Period size: 35 Copynumber: 3.3 Consensus size: 37
94441 TGGTAACCAA
94451 CTTTGAAAAA-ATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATA-GGTTTTCAAAGTTTGGTAAATGTTT
94488 CTTTG-AAAAT-GGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATAGGTTTTCAAAGTTTGGTAAATGTTT
* *
94523 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAATAGGTTTTCAAAGTTTGGTAAATGTTT
*
94560 -GTTGAAAAAT
1 CTTTGAAAAAT
94570 GATAATGGGA
Statistics
Matches: 76, Mismatches: 3, Indels: 7
0.88 0.03 0.08
Matches are distributed among these distances:
35 30 0.39
36 18 0.24
37 28 0.37
ACGTcount: A:0.32, C:0.05, G:0.19, T:0.44
Consensus pattern (37 bp):
CTTTGAAAAATAGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:100475 original size:25 final size:24
Alignment explanation
Indices: 100415--100485 Score: 88
Period size: 25 Copynumber: 2.9 Consensus size: 24
100405 GAGTCGAGGG
* * *
100415 TTCTACGCGATCCTTTGAGACAAA
1 TTCTACGCGGTCCTTCGGGACAAA
* *
100439 GTCTACGTGGTCCTTCGGGACAATA
1 TTCTACGCGGTCCTTCGGGACAA-A
100464 TTCTACGCGGTCCTTCGGGACA
1 TTCTACGCGGTCCTTCGGGACA
100486 TATCTATGTG
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
24 18 0.46
25 21 0.54
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.28
Consensus pattern (24 bp):
TTCTACGCGGTCCTTCGGGACAAA
Found at i:100502 original size:23 final size:23
Alignment explanation
Indices: 100440--100528 Score: 76
Period size: 24 Copynumber: 3.7 Consensus size: 23
100430 TGAGACAAAG
100440 TCTACGTGGTC-CTTCGGGACAATAT
1 TCTACGTGG-CACTTCGGG-C-ATAT
*
100465 TCTACGCGGTC-CTTCGGGACATA-
1 TCTACGTGG-CACTTCGGG-CATAT
* *
100488 TCTATGTGGCACTTCGATGCATAT
1 TCTACGTGGCACTTCG-GGCATAT
100512 TCTACGTGGCACTTCGG
1 TCTACGTGGCACTTCGG
100529 TGCAAATTAT
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
22 1 0.02
23 16 0.29
24 19 0.35
25 19 0.35
ACGTcount: A:0.18, C:0.26, G:0.25, T:0.31
Consensus pattern (23 bp):
TCTACGTGGCACTTCGGGCATAT
Found at i:101302 original size:23 final size:23
Alignment explanation
Indices: 101276--101363 Score: 113
Period size: 23 Copynumber: 3.8 Consensus size: 23
101266 CACCAAAGCT
* *
101276 CGTATAAATGCACAGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* *
101299 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * *
101322 CATAGAATTGCACCGTAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
101345 CGTAGAAATGCACCGAAGT
1 CGTAGAAATGCACCGAAGT
101364 ACCATATAAG
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 57 1.00
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.19
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:101503 original size:103 final size:103
Alignment explanation
Indices: 101376--101698 Score: 610
Period size: 103 Copynumber: 3.1 Consensus size: 103
101366 CATATAAGGT
*
101376 TGTCCCTAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGT
1 TGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGT
101441 CTCAAAAGACCTCACACATGTTCCAAAGAATACATATA
66 CTCAAAAGACCTCACACATGTTCCAAAGAATACATATA
101479 TGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGT
1 TGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGT
101544 CTCAAAAGACCTCACACATGTTCCAAAGAATACATATA
66 CTCAAAAGACCTCACACATGTTCCAAAGAATACATATA
*
101582 TGTCCCGAAGGACCACATATAATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGT
1 TGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGT
*
101647 CTCAAAAGACTTCACACATGTTCCAAAGAATACATATA
66 CTCAAAAGACCTCACACATGTTCCAAAGAATACATATA
*
101685 TGTCCCCAAGGACC
1 TGTCCCGAAGGACC
101699 GCGTAAACTC
Statistics
Matches: 216, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 216 1.00
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (103 bp):
TGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGT
CTCAAAAGACCTCACACATGTTCCAAAGAATACATATA
Found at i:102045 original size:2 final size:2
Alignment explanation
Indices: 102038--102073 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
102028 ATTCATCTTC
102038 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
102074 TTTCCTATAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:103114 original size:20 final size:23
Alignment explanation
Indices: 103091--103167 Score: 106
Period size: 24 Copynumber: 3.4 Consensus size: 23
103081 CTTGAAGTGT
*
103091 ATCGATGCATAC-T-ACA-GTGC
1 ATCGATGCATTCTTAACATGTGC
103111 ATCGATGCATTCTTTAACATGTGC
1 ATCGATGCATTC-TTAACATGTGC
103135 ATCGATGCATTCTTTAACATGTGC
1 ATCGATGCATTC-TTAACATGTGC
103159 ATCGATGCA
1 ATCGATGCA
103168 CTACCCATGC
Statistics
Matches: 52, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
20 11 0.21
22 1 0.02
23 3 0.06
24 37 0.71
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.32
Consensus pattern (23 bp):
ATCGATGCATTCTTAACATGTGC
Found at i:103139 original size:24 final size:24
Alignment explanation
Indices: 103107--103167 Score: 122
Period size: 24 Copynumber: 2.5 Consensus size: 24
103097 GCATACTACA
103107 GTGCATCGATGCATTCTTTAACAT
1 GTGCATCGATGCATTCTTTAACAT
103131 GTGCATCGATGCATTCTTTAACAT
1 GTGCATCGATGCATTCTTTAACAT
103155 GTGCATCGATGCA
1 GTGCATCGATGCA
103168 CTACCCATGC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (24 bp):
GTGCATCGATGCATTCTTTAACAT
Found at i:103228 original size:64 final size:63
Alignment explanation
Indices: 103155--103295 Score: 160
Period size: 64 Copynumber: 2.2 Consensus size: 63
103145 TCTTTAACAT
* * *
103155 GTGCATCGATGCACTACC-CATGCATCGATACACAAATTACCTTCGATGTTTTCAT-TTTAAAGG
1 GTGCATCGATGCACT-CCTCATGCATCAATACACAAATTACATTCGATG-TTTCATCTTTAAAGA
* * * * * *
103218 GATGCATCGATGCACTCCTTATGCATCAATGCACCATTTGCATTCGATGTTTCTTCTTTAAAGA
1 G-TGCATCGATGCACTCCTCATGCATCAATACACAAATTACATTCGATGTTTCATCTTTAAAGA
103282 GTGCATCGATGCAC
1 GTGCATCGATGCAC
103296 ATTCAATGTG
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
63 21 0.32
64 45 0.68
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (63 bp):
GTGCATCGATGCACTCCTCATGCATCAATACACAAATTACATTCGATGTTTCATCTTTAAAGA
Found at i:106502 original size:19 final size:19
Alignment explanation
Indices: 106478--106514 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
106468 TATTATGTTT
106478 ATTTAATAAAAAAATAATG
1 ATTTAATAAAAAAATAATG
*
106497 ATTTAATTAAAAAATAAT
1 ATTTAATAAAAAAATAAT
106515 ATATAAAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (19 bp):
ATTTAATAAAAAAATAATG
Found at i:106575 original size:14 final size:15
Alignment explanation
Indices: 106558--106593 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
106548 TATAAAATAA
106558 AATTATAT-TTTTTT
1 AATTATATATTTTTT
106572 AATTATATATTTTTT
1 AATTATATATTTTTT
*
106587 TATTATA
1 AATTATA
106594 AACCCGAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
AATTATATATTTTTT
Found at i:106582 original size:16 final size:15
Alignment explanation
Indices: 106561--106593 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
106551 AAAATAAAAT
106561 TATATTTTTTTAATTA
1 TATATTTTTTT-ATTA
106577 TATATTTTTTTATTA
1 TATATTTTTTTATTA
106592 TA
1 TA
106594 AACCCGAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TATATTTTTTTATTA
Found at i:110076 original size:14 final size:14
Alignment explanation
Indices: 110059--110089 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
110049 TTATTCATTA
*
110059 AAAAATATTTTTAT
1 AAAAATATTTTAAT
110073 AAAAATATTTTAAT
1 AAAAATATTTTAAT
110087 AAA
1 AAA
110090 TAATCATAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AAAAATATTTTAAT
Found at i:110843 original size:29 final size:30
Alignment explanation
Indices: 110801--110874 Score: 114
Period size: 29 Copynumber: 2.4 Consensus size: 30
110791 CCTAAACCCG
*
110801 AACCCGACCCGAATATTACACTTAAAAAA-
1 AACCCGACCCGAATATCACACTTAAAAAAC
110830 AACCCGACCCGAATATCACACTTAAAAAACCC
1 AACCCGACCCGAATATCACACTTAAAAAA--C
110862 AACCCGACCCGAA
1 AACCCGACCCGAA
110875 CAAAATAAAG
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
29 28 0.68
32 13 0.32
ACGTcount: A:0.45, C:0.35, G:0.08, T:0.12
Consensus pattern (30 bp):
AACCCGACCCGAATATCACACTTAAAAAAC
Found at i:111077 original size:32 final size:31
Alignment explanation
Indices: 111041--111115 Score: 105
Period size: 32 Copynumber: 2.3 Consensus size: 31
111031 TTTTCACCCT
* *
111041 AAAACCGAAGCCGACCCGAATATTACACTTAA
1 AAAACCG-ACCCGACCCGAATATCACACTTAA
111073 AAAACCCGACCCGACCCGAATATCACACTTAA
1 AAAA-CCGACCCGACCCGAATATCACACTTAA
111105 AAAACCCGACC
1 AAAA-CCGACC
111116 TGAACAAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
32 37 0.93
33 3 0.08
ACGTcount: A:0.43, C:0.35, G:0.11, T:0.12
Consensus pattern (31 bp):
AAAACCGACCCGACCCGAATATCACACTTAA
Found at i:124934 original size:23 final size:22
Alignment explanation
Indices: 124890--124938 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 22
124880 AAAATTATGG
* *
124890 TAAAATTTTAAGAATACGAAAT
1 TAAAATTCTAAGAATACAAAAT
**
124912 ATAAAATTCTAAGAATGTAAAAT
1 -TAAAATTCTAAGAATACAAAAT
124935 TAAA
1 TAAA
124939 TAATTGATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.57, C:0.04, G:0.08, T:0.31
Consensus pattern (22 bp):
TAAAATTCTAAGAATACAAAAT
Found at i:125455 original size:13 final size:13
Alignment explanation
Indices: 125437--125469 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
125427 ACCTGCAATT
125437 TTAAAAATTAAAA
1 TTAAAAATTAAAA
125450 TTAAAAA-TAAAA
1 TTAAAAATTAAAA
*
125462 CTAAAAAT
1 TTAAAAAT
125470 CGGAGGGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (13 bp):
TTAAAAATTAAAA
Found at i:130006 original size:103 final size:103
Alignment explanation
Indices: 129827--130039 Score: 345
Period size: 103 Copynumber: 2.1 Consensus size: 103
129817 GGGTCTACGC
* * **
129827 GGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAGGTCTTTTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
* * *
129892 CCTTGGCATATGTATATGATTCTTAAGGAATGATATGT
66 CCCTAGCATATGTATATGATTCTAAAGGAATGATATGT
*
129930 GGTCCTTCGGGGCATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
*
129995 CCCTAGTATATGTATATGATTCTAAAGGAATGATATGT
66 CCCTAGCATATGTATATGATTCTAAAGGAATGATATGT
130033 GGTCCTT
1 GGTCCTT
130040 ATGGACATTA
Statistics
Matches: 101, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
103 101 1.00
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.37
Consensus pattern (103 bp):
GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
CCCTAGCATATGTATATGATTCTAAAGGAATGATATGT
Found at i:130122 original size:23 final size:23
Alignment explanation
Indices: 130063--130123 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
130053 TATGGCATTA
* *
130063 CGGTGCAATTCTACGCGGCACTC
1 CGGTGCAATTATATGCGGCACTC
* *
130086 CGGTGCAATTATATGTGGCACTT
1 CGGTGCAATTATATGCGGCACTC
*
130109 TGGTGCAATTATATG
1 CGGTGCAATTATATG
130124 AGCTGTGGTG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.31
Consensus pattern (23 bp):
CGGTGCAATTATATGCGGCACTC
Found at i:134447 original size:19 final size:19
Alignment explanation
Indices: 134423--134469 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
134413 ATGCAATTAG
134423 TGCATCGATGCATAAGGCA
1 TGCATCGATGCATAAGGCA
134442 TGCATCGATGCATAAGGCA
1 TGCATCGATGCATAAGGCA
134461 TGCATCGAT
1 TGCATCGAT
134470 ACATCCCAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (19 bp):
TGCATCGATGCATAAGGCA
Found at i:135504 original size:103 final size:103
Alignment explanation
Indices: 135284--135496 Score: 336
Period size: 103 Copynumber: 2.1 Consensus size: 103
135274 GGGTCTACGC
* **
135284 GGTCCTTCGGGACATATATGTATTCTTTGGAACAGGTGTGAGGTCTTTTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACAGGTGTGAAGTCTGGTGAGACACATACTTGAT
* * *
135349 CCTTGGCACATGTATATGATTCTTAAGGAATGATATGT
66 CCCTAGCACATGTATATGATTCTAAAGGAATGATATGT
*
135387 GGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTGAT
1 GGTCCTTCGGGACATATATGTATTCTTTGGAACAGGTGTGAAGTCTGGTGAGACACATACTTGAT
** *
135452 CCCTATTATATGTATATGATTCTAAAGGAATGATATGT
66 CCCTAGCACATGTATATGATTCTAAAGGAATGATATGT
135490 GGTCCTT
1 GGTCCTT
135497 ATGGACATTA
Statistics
Matches: 100, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
103 100 1.00
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (103 bp):
GGTCCTTCGGGACATATATGTATTCTTTGGAACAGGTGTGAAGTCTGGTGAGACACATACTTGAT
CCCTAGCACATGTATATGATTCTAAAGGAATGATATGT
Found at i:135579 original size:23 final size:23
Alignment explanation
Indices: 135521--135580 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
135511 ATGGAACTAC
* *
135521 GGTGCAATTCTACGTGGCACTCT
1 GGTGCAATTATATGTGGCACTCT
*
135544 GGTGCAATTATATGTGGCACTTT
1 GGTGCAATTATATGTGGCACTCT
*
135567 GGTGTAATTATATG
1 GGTGCAATTATATG
135581 AGTTGTGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.22, C:0.15, G:0.27, T:0.37
Consensus pattern (23 bp):
GGTGCAATTATATGTGGCACTCT
Found at i:136490 original size:28 final size:29
Alignment explanation
Indices: 136434--136490 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
136424 ATATTTTTTG
* *
136434 TGGGTTAAATGTTTAAGAATTTAGATTTA
1 TGGGTTAAATGTTTAACAATTGAGATTTA
* *
136463 TGGGTT-AATGTTTAACCATTGAGGTTTA
1 TGGGTTAAATGTTTAACAATTGAGATTTA
136491 GTGATGTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 18 0.75
29 6 0.25
ACGTcount: A:0.30, C:0.04, G:0.23, T:0.44
Consensus pattern (29 bp):
TGGGTTAAATGTTTAACAATTGAGATTTA
Found at i:137999 original size:14 final size:14
Alignment explanation
Indices: 137980--138019 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
137970 TTAATATTAA
*
137980 AAATAAAAATAAAG
1 AAATAAAAACAAAG
137994 AAAT-AAAACAAAG
1 AAATAAAAACAAAG
*
138007 AAAAAAAAACAAA
1 AAATAAAAACAAA
138020 CGCTCACGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.82, C:0.05, G:0.05, T:0.07
Consensus pattern (14 bp):
AAATAAAAACAAAG
Found at i:142205 original size:78 final size:78
Alignment explanation
Indices: 142073--142229 Score: 260
Period size: 78 Copynumber: 2.0 Consensus size: 78
142063 CGAGGTTTTT
* * *
142073 TGGGTTTAAGTTTCTATTCAAGTGATGAATAGGAAATTTTGAAAAGGAAGATTCAATTTTTTGAA
1 TGGGTTTAAGTTTCGATTCAAGGGATGAAGAGGAAATTTTGAAAAGGAAGATTCAATTTTTTGAA
142138 GAACAAAAACCAA
66 GAACAAAAACCAA
* * *
142151 TGGGTTTAAGTTTCGATTCAAGGGATGAAGAGGAAATTTTGAAAATGAATATTCAATTTTTTGTA
1 TGGGTTTAAGTTTCGATTCAAGGGATGAAGAGGAAATTTTGAAAAGGAAGATTCAATTTTTTGAA
142216 GAACAAAAACCAA
66 GAACAAAAACCAA
142229 T
1 T
142230 AATCACTTTT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 73 1.00
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.32
Consensus pattern (78 bp):
TGGGTTTAAGTTTCGATTCAAGGGATGAAGAGGAAATTTTGAAAAGGAAGATTCAATTTTTTGAA
GAACAAAAACCAA
Found at i:145300 original size:24 final size:24
Alignment explanation
Indices: 145240--145301 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 24
145230 TAGCATAGAT
**
145240 GAACGAACATGCGCGAACATAAAC
1 GAACGAACATAAGCGAACATAAAC
* * ** *
145264 AAATGAATGTAAGTGAACATAAAC
1 GAACGAACATAAGCGAACATAAAC
145288 GAACGAACATAAGC
1 GAACGAACATAAGC
145302 AAATGGATAA
Statistics
Matches: 26, Mismatches: 12, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.50, C:0.18, G:0.19, T:0.13
Consensus pattern (24 bp):
GAACGAACATAAGCGAACATAAAC
Found at i:146930 original size:210 final size:211
Alignment explanation
Indices: 146614--147215 Score: 948
Period size: 209 Copynumber: 2.8 Consensus size: 211
146604 ATTTAAGAAT
* *
146614 TAAATTGAACAAATATGAAATTAAAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATATATTAAACAACACA-A---A--AG
* * *
146679 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAATAATACTAAATTATA
60 GGATCAAATCGAAATAATTTTAAATTCTGAGGTTAAAATTAATACAAAAATAGTACTAAATTATA
*
146744 CCCATTTAAAAA-TATATGGGCCAATTTAAAAATATAAATAAGTAATAAGTATGAGTCAATTTTA
125 CCCATTTAAAAAGT-TATGGGCCAATTTAAAAATATAAATAAGTAATAAGTATGAGTCAATTTCA
146808 GATGCAAATAAAATTTGGAGGAC
189 GATGCAAATAAAATTTGGAGGAC
*
146831 TAAATTGAACAAATATGAAATTACAAAT-AAAATTTAAATATATTAAACAACACAAAAGTGATCA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATATATTAAACAACACAAAAGGGATCA
*
146895 AATCGAAATAATTTTAAATTCTGAGATTAAAATTAATACAAAAA-AGTACTAAATTATACCCATT
66 AATCGAAATAATTTTAAATTCTGAGGTTAAAATTAATACAAAAATAGTACTAAATTATACCCATT
* * *
146959 TAAAAAGTTAT-GGCCAATTTAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAGGTGCAA
131 TAAAAAGTTATGGGCCAATTTAAAAATATAAATAAGTAATAAGTATGAGTCAATTTCAGATGCAA
147023 ATAAAATTTGGAGGAC
196 ATAAAATTTGGAGGAC
*
147039 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATATACTAAACAACACAAAAGGGATCA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATATATTAAACAACACAAAAGGGATCA
* *
147104 AATCGAAATAATTTTAAATTTTGAGGTTAAAATTAATACAAAAAT-GTACTAAATTATACTCATT
66 AATCGAAATAATTTTAAATTCTGAGGTTAAAATTAATACAAAAATAGTACTAAATTATACCCATT
*
147168 TAAAAAGTTATGGGTCAA-TTAATAAATATAAATAAGTAATAAGT-TGAG
131 TAAAAAGTTATGGGCCAATTTAA-AAATATAAATAAGTAATAAGTATGAG
147216 AAAAAAATTA
Statistics
Matches: 361, Mismatches: 19, Indels: 18
0.91 0.05 0.05
Matches are distributed among these distances:
208 93 0.26
209 140 0.39
210 74 0.20
212 1 0.00
215 1 0.00
216 25 0.07
217 27 0.07
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.30
Consensus pattern (211 bp):
TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATATATTAAACAACACAAAAGGGATCA
AATCGAAATAATTTTAAATTCTGAGGTTAAAATTAATACAAAAATAGTACTAAATTATACCCATT
TAAAAAGTTATGGGCCAATTTAAAAATATAAATAAGTAATAAGTATGAGTCAATTTCAGATGCAA
ATAAAATTTGGAGGAC
Found at i:147311 original size:22 final size:21
Alignment explanation
Indices: 147254--147311 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 21
147244 TATATAATAT
*
147254 AAACTATATAGTTTA-TATAT
1 AAACTATATAGTTTATTATAC
*
147274 AAAGTATAT-GTATTATGTATAC
1 AAACTATATAGT-TTAT-TATAC
147296 AAACTATATAGTTTAT
1 AAACTATATAGTTTAT
147312 ATTTTATCTA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 2 0.06
20 11 0.35
22 16 0.52
23 2 0.06
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.43
Consensus pattern (21 bp):
AAACTATATAGTTTATTATAC
Found at i:147351 original size:27 final size:27
Alignment explanation
Indices: 147329--147389 Score: 95
Period size: 27 Copynumber: 2.2 Consensus size: 27
147319 CTATATAGTT
*
147329 TATATATATTATGTATAAAATATAAAC
1 TATATATATCATGTATAAAATATAAAC
*
147356 TATATATATCATGTATAAACTATAATAC
1 TATATATATCATGTATAAAATATAA-AC
147384 TATATA
1 TATATA
147390 GTTTATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 23 0.74
28 8 0.26
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.41
Consensus pattern (27 bp):
TATATATATCATGTATAAAATATAAAC
Found at i:147558 original size:20 final size:20
Alignment explanation
Indices: 147250--147559 Score: 101
Period size: 20 Copynumber: 15.2 Consensus size: 20
147240 TATATATATA
147250 ATATAAACTATATAGTTTAT
1 ATATAAACTATATAGTTTAT
*
147270 ATATAAAGTATAT-GTATTATGT
1 ATATAAACTATATAGT-TTA--T
*
147292 ATACAAACTATATAGTTTAT
1 ATATAAACTATATAGTTTAT
* * *
147312 ATTTTATCTATATAGTTTAT
1 ATATAAACTATATAGTTTAT
* *
147332 ATAT--A-T-TAT-GTATAAA
1 ATATAAACTATATAGT-TTAT
*
147348 ATATAAACTATATATATCATGTAT
1 ATATAAACTATATA-GT--T-TAT
147372 AAACTATAATACTATATAGTTTAT
1 --A-TATAA-ACTATATAGTTTAT
* **
147396 ATATGAACTAT-T-GAACTAT
1 ATATAAACTATATAG-TTTAT
* *
147415 ATAGAAACTACATAG--TAT
1 ATATAAACTATATAGTTTAT
* * *
147433 ACATAAATTATATATGAATTAT
1 ATATAAACTATATA-G-TTTAT
* *
147455 ATATAAACTATACAATTTAT
1 ATATAAACTATATAGTTTAT
* * *
147475 ATTTATA-TACTAT-GTATA-
1 ATATAAACTA-TATAGTTTAT
* *
147493 ATTATAAATTA-ATA-TATATT
1 A-TATAAACTATATAGTTTA-T
* *
147513 GTATAAATTATATAGTTTATT
1 ATATAAACTATATAGTTTA-T
*
147534 AATATAAATTATATAGTTTAT
1 -ATATAAACTATATAGTTTAT
147555 ATATA
1 ATATA
147560 TAGTATATAT
Statistics
Matches: 217, Mismatches: 40, Indels: 66
0.67 0.12 0.20
Matches are distributed among these distances:
15 2 0.01
16 9 0.04
17 1 0.00
18 22 0.10
19 34 0.16
20 65 0.30
21 11 0.05
22 49 0.23
23 4 0.02
24 4 0.02
25 1 0.00
26 1 0.00
27 6 0.03
28 8 0.04
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.44
Consensus pattern (20 bp):
ATATAAACTATATAGTTTAT
Found at i:147559 original size:13 final size:13
Alignment explanation
Indices: 147504--147569 Score: 50
Period size: 13 Copynumber: 5.3 Consensus size: 13
147494 TTATAAATTA
*
147504 ATATATATTGTAT
1 ATATATATAGTAT
* *
147517 AAATTATATAGTTT
1 ATA-TATATAGTAT
*
147531 AT-TA-ATA-TAA
1 ATATATATAGTAT
*
147541 AT-TATATAGTTT
1 ATATATATAGTAT
147553 ATATATATAGTAT
1 ATATATATAGTAT
147566 ATAT
1 ATAT
147570 GGTTTAGGGT
Statistics
Matches: 40, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
10 5 0.12
11 6 0.15
12 5 0.12
13 15 0.38
14 9 0.22
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (13 bp):
ATATATATAGTAT
Found at i:147634 original size:20 final size:20
Alignment explanation
Indices: 147609--147646 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
147599 TTATATAAAC
147609 TACATACTATAATTTATATT
1 TACATACTATAATTTATATT
*
147629 TACATACTATATTTTATA
1 TACATACTATAATTTATA
147647 CTATTTATAT
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:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (20 bp):
TACATACTATAATTTATATT
Found at i:147683 original size:33 final size:33
Alignment explanation
Indices: 147636--147727 Score: 120
Period size: 33 Copynumber: 2.9 Consensus size: 33
147626 ATTTACATAC
*
147636 TATATTT-TATACTATTTATATAAACTATAGTT
1 TATATTTGTATACTATATATATAAACTATAGTT
*
147668 TATATTTGTATACTATATATATGAACTATAGTT
1 TATATTTGTATACTATATATATAAACTATAGTT
* *
147701 TACATATG-A-ACTATATATATAAA-TATA
1 TATATTTGTATACTATATATATAAACTATA
147728 TATTCTAAGG
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
30 4 0.07
31 13 0.24
32 8 0.15
33 29 0.54
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.47
Consensus pattern (33 bp):
TATATTTGTATACTATATATATAAACTATAGTT
Found at i:147684 original size:20 final size:20
Alignment explanation
Indices: 147612--147684 Score: 65
Period size: 20 Copynumber: 3.4 Consensus size: 20
147602 TATAAACTAC
*
147612 ATACTATAATTTATATTTAC
1 ATACTATAATTTATATTTAT
*
147632 ATACTATATTTTATACTATTTAT
1 ATACTATA-ATT-TA-TATTTAT
* *
147655 ATAAACTATAGTTTATATTTGT
1 AT--ACTATAATTTATATTTAT
147677 ATACTATA
1 ATACTATA
147685 TATATGAACT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
20 14 0.32
21 2 0.05
22 10 0.23
23 10 0.23
24 2 0.05
25 6 0.14
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.51
Consensus pattern (20 bp):
ATACTATAATTTATATTTAT
Found at i:147780 original size:20 final size:20
Alignment explanation
Indices: 147757--147798 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
147747 ATATATGAAC
147757 TATAGTTTACATA-TAAACTA
1 TATAGTTTACATACT-AACTA
*
147777 TATAGTTTATATACTAACTA
1 TATAGTTTACATACTAACTA
147797 TA
1 TA
147799 GTTTAGATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 19 0.95
21 1 0.05
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.43
Consensus pattern (20 bp):
TATAGTTTACATACTAACTA
Found at i:147786 original size:38 final size:38
Alignment explanation
Indices: 147744--147818 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
147734 AAGGTTAATA
147744 TTTATATA-TGAACTATAGTTTACATATAAACTATATAG
1 TTTATATACT-AACTATAGTTTACATATAAACTATATAG
* * *
147782 TTTATATACTAACTATAGTTTAGATATGAACTGTATA
1 TTTATATACTAACTATAGTTTACATATAAACTATATA
147819 TATAAATTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 32 0.97
39 1 0.03
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.43
Consensus pattern (38 bp):
TTTATATACTAACTATAGTTTACATATAAACTATATAG
Done.