Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008391.1 Hibiscus syriacus cultivar Beakdansim tig00111156_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: 685102
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
File 1 of 3
Found at i:3440 original size:24 final size:24
Alignment explanation
Indices: 3412--3463 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
3402 TGATACGAGG
*
3412 ATGACTTATTATGAGAAACCTCGA
1 ATGACTTATGATGAGAAACCTCGA
*
3436 ATGACTTGTGATGAGAAACCTCGA
1 ATGACTTATGATGAGAAACCTCGA
3460 ATGA
1 ATGA
3464 TTTGGAAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (24 bp):
ATGACTTATGATGAGAAACCTCGA
Found at i:21675 original size:2 final size:2
Alignment explanation
Indices: 21670--21695 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
21660 ACGTGTTATT
21670 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
21696 CAAAAAAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:29601 original size:9 final size:9
Alignment explanation
Indices: 29587--29615 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
29577 CAATTTAATA
29587 TTTTAAATT
1 TTTTAAATT
29596 TTTTAAATT
1 TTTTAAATT
29605 TTTTAAATT
1 TTTTAAATT
29614 TT
1 TT
29616 GATAATTTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTTAAATT
Found at i:30546 original size:41 final size:42
Alignment explanation
Indices: 30478--30557 Score: 101
Period size: 41 Copynumber: 1.9 Consensus size: 42
30468 CTAGCCGAGT
*
30478 CGAGTTTAAATATTGTTAAGCTCGACTCG-ACTCGAAAATTCA
1 CGAGATTAAATATTGTTAAGCTCGACTCGAACTC-AAAATTCA
* * *
30520 CGAGATTAAA-ATTTTTAAGTTTGACTCGAACTCAAAAT
1 CGAGATTAAATATTGTTAAGCTCGACTCGAACTCAAAAT
30558 CATGAATTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
41 20 0.61
42 13 0.39
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (42 bp):
CGAGATTAAATATTGTTAAGCTCGACTCGAACTCAAAATTCA
Found at i:37495 original size:11 final size:10
Alignment explanation
Indices: 37481--37548 Score: 50
Period size: 11 Copynumber: 6.8 Consensus size: 10
37471 GAAGAGATAT
37481 AGAAAAAACAC
1 AGAAAAAA-AC
*
37492 AGAAAAAAAA
1 AGAAAAAAAC
*
37502 AG-TAAAAAC
1 AGAAAAAAAC
37511 AGAAAAAAA-
1 AGAAAAAAAC
* *
37520 AGAGAAAAAT
1 AGAAAAAAAC
* *
37530 AAAAAAGAAAA
1 AGAAAA-AAAC
37541 AGAAAAAA
1 AGAAAAAA
37549 GGAGAGAGAA
Statistics
Matches: 45, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
9 15 0.33
10 14 0.31
11 16 0.36
ACGTcount: A:0.81, C:0.04, G:0.12, T:0.03
Consensus pattern (10 bp):
AGAAAAAAAC
Found at i:37514 original size:19 final size:18
Alignment explanation
Indices: 37485--37598 Score: 74
Period size: 19 Copynumber: 6.1 Consensus size: 18
37475 AGATATAGAA
37485 AAAACACAGAAAAAAAAAG
1 AAAA-ACAGAAAAAAAAAG
37504 TAAAAACAGAAAAAAAAGAG
1 -AAAAACAGAAAAAAAA-AG
* *
37524 AAAAATAAAAAAGAAAAAG
1 AAAAACAGAAAA-AAAAAG
* *
37543 AAAAA-AGGAGAGAGAAAATG
1 AAAAACA-GA-A-AAAAAAAG
37563 AGAAAA-AG--AAAAAAAG
1 A-AAAACAGAAAAAAAAAG
*
37579 AAAAAAAGAAAAAAGAAAG
1 AAAAACAGAAAAAA-AAAG
37598 A
1 A
37599 GGAAAATAGA
Statistics
Matches: 77, Mismatches: 7, Indels: 21
0.73 0.07 0.20
Matches are distributed among these distances:
15 4 0.05
16 9 0.12
18 5 0.06
19 35 0.45
20 18 0.23
21 6 0.08
ACGTcount: A:0.78, C:0.03, G:0.17, T:0.03
Consensus pattern (18 bp):
AAAAACAGAAAAAAAAAG
Found at i:37527 original size:8 final size:8
Alignment explanation
Indices: 37516--37594 Score: 58
Period size: 8 Copynumber: 9.9 Consensus size: 8
37506 AAAACAGAAA
37516 AAAAAGAG
1 AAAAAGAG
*
37524 -AAAA-AT
1 AAAAAGAG
37530 AAAAA-AG
1 AAAAAGAG
*
37537 AAAAAGAA
1 AAAAAGAG
37545 AAAAGGAGAG
1 AAAA--AGAG
37555 AGAAAATGAG
1 A-AAAA-GAG
*
37565 AAAAAGAA
1 AAAAAGAG
*
37573 AAAAAGAA
1 AAAAAGAG
37581 AAAAAGA-
1 AAAAAGAG
37588 AAAAAGA
1 AAAAAGA
37595 AAGAGGAAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
6 1 0.02
7 21 0.35
8 22 0.37
9 5 0.08
10 8 0.13
11 3 0.05
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (8 bp):
AAAAAGAG
Found at i:37538 original size:13 final size:13
Alignment explanation
Indices: 37494--37549 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
37484 AAAAACACAG
*
37494 AAAAA-AAAAGTA
1 AAAAAGAAAAATA
37506 AAAACAG-AAAA-A
1 AAAA-AGAAAAATA
*
37518 AAAGAGAAAAATA
1 AAAAAGAAAAATA
*
37531 AAAAAGAAAAAGA
1 AAAAAGAAAAATA
37544 AAAAAG
1 AAAAAG
37550 GAGAGAGAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
11 2 0.06
12 12 0.33
13 22 0.61
ACGTcount: A:0.82, C:0.02, G:0.12, T:0.04
Consensus pattern (13 bp):
AAAAAGAAAAATA
Found at i:37541 original size:14 final size:14
Alignment explanation
Indices: 37515--37596 Score: 69
Period size: 13 Copynumber: 5.7 Consensus size: 14
37505 AAAAACAGAA
*
37515 AAAAAAGAGAAAAAT
1 AAAAAAGA-AAAAAG
37530 AAAAAAG-AAAAAG
1 AAAAAAGAAAAAAG
* * *
37543 AAAAAAGGAGAGAG
1 AAAAAAGAAAAAAG
*
37557 -AAAATGAGAAAAAG
1 AAAAAAGA-AAAAAG
37571 AAAAAAAGAAAAAAAG
1 -AAAAAAG-AAAAAAG
37587 AAAAAAGAAA
1 AAAAAAGAAA
37597 GAGGAAAATA
Statistics
Matches: 54, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
13 17 0.31
14 11 0.20
15 14 0.26
16 11 0.20
17 1 0.02
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.02
Consensus pattern (14 bp):
AAAAAAGAAAAAAG
Found at i:37603 original size:14 final size:14
Alignment explanation
Indices: 37515--37604 Score: 58
Period size: 15 Copynumber: 6.3 Consensus size: 14
37505 AAAAACAGAA
**
37515 AAAAAAGAGAAAAAT
1 AAAAAAGA-AAAAGG
37530 AAAAAAGAAAAA-G
1 AAAAAAGAAAAAGG
* *
37543 AAAAAAG-GAGAGAG
1 AAAAAAGAAAAAG-G
* *
37557 AAAATGAGAAAAAGA
1 AAAA-AAGAAAAAGG
*
37572 AAAAAAGAAAAAAAG
1 AAAAAAG-AAAAAGG
*
37587 AAAAAAGAAAGAGG
1 AAAAAAGAAAAAGG
37601 AAAA
1 AAAA
37605 TAGACAGATC
Statistics
Matches: 58, Mismatches: 12, Indels: 11
0.72 0.15 0.14
Matches are distributed among these distances:
12 2 0.03
13 7 0.12
14 20 0.34
15 26 0.45
16 3 0.05
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (14 bp):
AAAAAAGAAAAAGG
Found at i:38276 original size:28 final size:28
Alignment explanation
Indices: 38236--38297 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
38226 GCGAGAAGAC
*
38236 ACCTGAAACACATTACCTCCCCAAATTA
1 ACCTGAAACACATTACCTCCCCAAATCA
* * *
38264 ACCTGAAACACATTATCTTCCCAAGTCA
1 ACCTGAAACACATTACCTCCCCAAATCA
38292 ACCTGA
1 ACCTGA
38298 GCCTTTTATC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.37, C:0.34, G:0.06, T:0.23
Consensus pattern (28 bp):
ACCTGAAACACATTACCTCCCCAAATCA
Found at i:39667 original size:43 final size:42
Alignment explanation
Indices: 39614--40043 Score: 371
Period size: 43 Copynumber: 10.0 Consensus size: 42
39604 AGAAACGAGT
*
39614 TTGAGGGACCATCGTGATATGTAGGGGTTCCTTGAAGAAAAGC
1 TTGAGGGACCATCGTGATATGTAGGGGTTCCTTGATGAAAA-C
* * * *
39657 TTGAGAGACCATCGTGATATGTAGGGGTTTCTTGA-GGACAC
1 TTGAGGGACCATCGTGATATGTAGGGGTTCCTTGATGAAAAC
* *
39698 GTTTGAGGGACCATCGTGATATGTAGGGGTTCCTTGATCACACAC
1 --TTGAGGGACCATCGTGATATGTAGGGGTTCCTTGATGA-AAAC
* * * * *
39743 TTGAGGGACCAACGAGATATGTAGGGGTTCTTTGGTGATAAC
1 TTGAGGGACCATCGTGATATGTAGGGGTTCCTTGATGAAAAC
* ** * * * * * *
39785 -TAAGAAACTAAGCTTGATTTTTAGGGGTTTCTTGATGAAAAGC
1 TTGAGGGAC-CATCGTGATATGTAGGGGTTCCTTGATGAAAA-C
** * * *
39828 TTGAGAAACCATCGTGATATGTAGGGGTTTCTTGAGGATAAC
1 TTGAGGGACCATCGTGATATGTAGGGGTTCCTTGATGAAAAC
* *
39870 TTTGAGGGACCATCGTGATATGTAGGGGTTCCTTAAAGAAAATC
1 -TTGAGGGACCATCGTGATATGTAGGGGTTCCTTGATGAAAA-C
* * * * **
39914 TTGAGAGACCATCGTGATATGTAGGGGGTTTCTTGAGGACGAGT
1 TTGAGGGACCATCGTGATATGTA-GGGGTTCCTTGATGA-AAAC
* * *
39958 TTGAGGGACTATCATGATATGTAGGGGTTCCTTGATGACACAC
1 TTGAGGGACCATCGTGATATGTAGGGGTTCCTTGATGA-AAAC
* * *
40001 TTGAGGGACCAAT-GAGATATGTAGGGGTTCCTTGGTGACAAC
1 TTGAGGGACC-ATCGTGATATGTAGGGGTTCCTTGATGAAAAC
40043 T
1 T
40044 AAGAAACTGA
Statistics
Matches: 311, Mismatches: 64, Indels: 25
0.78 0.16 0.06
Matches are distributed among these distances:
41 6 0.02
42 31 0.10
43 227 0.73
44 42 0.14
45 5 0.02
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.30
Consensus pattern (42 bp):
TTGAGGGACCATCGTGATATGTAGGGGTTCCTTGATGAAAAC
Found at i:39762 original size:86 final size:87
Alignment explanation
Indices: 39612--40034 Score: 454
Period size: 86 Copynumber: 4.9 Consensus size: 87
39602 TAAGAAACGA
*
39612 GTTTGAGGGACCATCGTGATATGTAGGGGTTCCTTGAAGAAAAGCTTGAGAGACCATCGTGATAT
1 GTTTGAGGGACCATCGTGATATGTAGGGGTTCCTTGATGAAAAGCTTGAGAGACCATCGTGATAT
*
39677 GTAGGGGTTTCTTGAGGA-CAC
66 GTAGGGGTTTCTTGAGGATAAC
* * * * *
39698 GTTTGAGGGACCATCGTGATATGTAGGGGTTCCTTGATCACACA-CTTGAGGGACCAACGAGATA
1 GTTTGAGGGACCATCGTGATATGTAGGGGTTCCTTGATGA-AAAGCTTGAGAGACCATCGTGATA
39762 TGTAGGGG-TTCTTTG-GTGATAAC
65 TGTAGGGGTTTC-TTGAG-GATAAC
* ** * * * * * * *
39785 ---TAAGAAACTAAGCTTGATTTTTAGGGGTTTCTTGATGAAAAGCTTGAGAAACCATCGTGATA
1 GTTTGAGGGAC-CATCGTGATATGTAGGGGTTCCTTGATGAAAAGCTTGAGAGACCATCGTGATA
39847 TGTAGGGGTTTCTTGAGGATAAC
65 TGTAGGGGTTTCTTGAGGATAAC
* * *
39870 -TTTGAGGGACCATCGTGATATGTAGGGGTTCCTTAAAGAAAATCTTGAGAGACCATCGTGATAT
1 GTTTGAGGGACCATCGTGATATGTAGGGGTTCCTTGATGAAAAGCTTGAGAGACCATCGTGATAT
**
39934 GTAGGGGGTTTCTTGAGGACGA-
66 GTA-GGGGTTTCTTGAGGATAAC
* * * * *
39956 GTTTGAGGGACTATCATGATATGTAGGGGTTCCTTGATGACACA-CTTGAGGGACCAAT-GAGAT
1 GTTTGAGGGACCATCGTGATATGTAGGGGTTCCTTGATGA-AAAGCTTGAGAGACC-ATCGTGAT
*
40019 ATGTAGGGGTTCCTTG
64 ATGTAGGGGTTTCTTG
40035 GTGACAACTA
Statistics
Matches: 278, Mismatches: 45, Indels: 28
0.79 0.13 0.08
Matches are distributed among these distances:
84 7 0.03
85 59 0.21
86 129 0.46
87 79 0.28
88 4 0.01
ACGTcount: A:0.26, C:0.13, G:0.30, T:0.30
Consensus pattern (87 bp):
GTTTGAGGGACCATCGTGATATGTAGGGGTTCCTTGATGAAAAGCTTGAGAGACCATCGTGATAT
GTAGGGGTTTCTTGAGGATAAC
Found at i:39843 original size:128 final size:128
Alignment explanation
Indices: 39614--40077 Score: 457
Period size: 128 Copynumber: 3.6 Consensus size: 128
39604 AGAAACGAGT
* * ** * * * * * * *
39614 TTGAGGGACCATCGTGATATGTAGGGGTTCCTTGAAGAAAAGCTTGAGAGAC-CATCGTGATATG
1 TTGAGGGACCAACGAGATATGTAGGGGTTCCTTGGTGAAAA-C-TAAGAAACTAAGCTTGATTTT
* *
39678 TAGGGGTTTCTTGAGGACACGTTTGAGGGACCATCGTGATATGTAGGGGTTCCTTGATCACACAC
64 TAGGGGTTTCTTGAGGACAAGTTTGAGGGACCATCGTGATATGTAGGGGTTCCTTGATGACACAC
* *
39743 TTGAGGGACCAACGAGATATGTAGGGGTTCTTTGGTGATAACTAAGAAACTAAGCTTGATTTTTA
1 TTGAGGGACCAACGAGATATGTAGGGGTTCCTTGGTGAAAACTAAGAAACTAAGCTTGATTTTTA
* * * ** * * *
39808 GGGGTTTCTTGATGAAAAGCTTGAGAAACCATCGTGATATGTAGGGGTTTCTTGAGGATA-AC
66 GGGGTTTCTTGAGGACAAGTTTGAGGGACCATCGTGATATGTAGGGGTTCCTTGATGACACAC
* * *** * * * * * *
39870 TTTGAGGGACCATCGTGATATGTAGGGGTTCCTTAAAGAAAATCTTGAGAGAC-CATCGTGATAT
1 -TTGAGGGACCAACGAGATATGTAGGGGTTCCTTGGTGAAAA-C-TAAGAAACTAAGCTTGATTT
* * * *
39934 GTAGGGGGTTTCTTGAGGACGAGTTTGAGGGACTATCATGATATGTAGGGGTTCCTTGATGACAC
63 TTA-GGGGTTTCTTGAGGACAAGTTTGAGGGACCATCGTGATATGTAGGGGTTCCTTGATGACAC
39999 AC
127 AC
* * * *
40001 TTGAGGGACCAATGAGATATGTAGGGGTTCCTTGGTGACAACTAAGAAACTGAGCTTGATTTTCA
1 TTGAGGGACCAACGAGATATGTAGGGGTTCCTTGGTGAAAACTAAGAAACTAAGCTTGATTTTTA
* *
40066 AGAGTTTCTTGA
66 GGGGTTTCTTGA
40078 TGAGTAAGTC
Statistics
Matches: 263, Mismatches: 65, Indels: 15
0.77 0.19 0.04
Matches are distributed among these distances:
127 8 0.03
128 110 0.42
129 54 0.21
130 89 0.34
131 2 0.01
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.30
Consensus pattern (128 bp):
TTGAGGGACCAACGAGATATGTAGGGGTTCCTTGGTGAAAACTAAGAAACTAAGCTTGATTTTTA
GGGGTTTCTTGAGGACAAGTTTGAGGGACCATCGTGATATGTAGGGGTTCCTTGATGACACAC
Found at i:40075 original size:258 final size:257
Alignment explanation
Indices: 39613--40080 Score: 803
Period size: 258 Copynumber: 1.8 Consensus size: 257
39603 AAGAAACGAG
*
39613 TTTGAGGGACCATCGTGATATGTAGGGGTTCCTTGAAGAAAAGCTTGAGAGACCATCGTGATATG
1 TTTGAGGGACCATCGTGATATGTAGGGGTTCCTTAAAGAAAAGCTTGAGAGACCATCGTGATATG
*
39678 TAGGGGTTTCTTGAGGACACGTTTGAGGGACCATCGTGATATGTAGGGGTTCCTTGATCACACAC
66 TAGGGGTTTCTTGAGGACACGTTTGAGGGACCATCATGATATGTAGGGGTTCCTTGATCACACAC
* * *
39743 TTGAGGGACCAACGAGATATGTAGGGGTTCTTTGGTGATAACTAAGAAACTAAGCTTGATTTTTA
131 TTGAGGGACCAACGAGATATGTAGGGGTTCCTTGGTGACAACTAAGAAACTAAGCTTGATTTTCA
* *
39808 GGGGTTTCTTGATGAAAAGCTTGAGAAACCATCGTGATATGTAGGGGTTTCTTGAGGATAAC
196 AGAGTTTCTTGATGAAAAGCTTGAGAAACCATCGTGATATGTAGGGGTTTCTTGAGGATAAC
*
39870 TTTGAGGGACCATCGTGATATGTAGGGGTTCCTTAAAGAAAATCTTGAGAGACCATCGTGATATG
1 TTTGAGGGACCATCGTGATATGTAGGGGTTCCTTAAAGAAAAGCTTGAGAGACCATCGTGATATG
* *
39935 TAGGGGGTTTCTTGAGGACGA-GTTTGAGGGACTATCATGATATGTAGGGGTTCCTTGATGACAC
66 TA-GGGGTTTCTTGAGGAC-ACGTTTGAGGGACCATCATGATATGTAGGGGTTCCTTGATCACAC
* *
39999 ACTTGAGGGACCAATGAGATATGTAGGGGTTCCTTGGTGACAACTAAGAAACTGAGCTTGATTTT
129 ACTTGAGGGACCAACGAGATATGTAGGGGTTCCTTGGTGACAACTAAGAAACTAAGCTTGATTTT
40064 CAAGAGTTTCTTGATGA
194 CAAGAGTTTCTTGATGA
40081 GTAAGTCATT
Statistics
Matches: 197, Mismatches: 12, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
257 65 0.33
258 131 0.66
259 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.30
Consensus pattern (257 bp):
TTTGAGGGACCATCGTGATATGTAGGGGTTCCTTAAAGAAAAGCTTGAGAGACCATCGTGATATG
TAGGGGTTTCTTGAGGACACGTTTGAGGGACCATCATGATATGTAGGGGTTCCTTGATCACACAC
TTGAGGGACCAACGAGATATGTAGGGGTTCCTTGGTGACAACTAAGAAACTAAGCTTGATTTTCA
AGAGTTTCTTGATGAAAAGCTTGAGAAACCATCGTGATATGTAGGGGTTTCTTGAGGATAAC
Found at i:40323 original size:90 final size:90
Alignment explanation
Indices: 40165--40504 Score: 592
Period size: 90 Copynumber: 3.8 Consensus size: 90
40155 AGCAAGATGA
*
40165 TAAGTCCTTCGGGCCATCCATAAGACCTTCGGTGCATGATGTTTTCAAATGAGATTTTAGAAACT
1 TAAGTCCTTCGGGCCATCCATAAGACCTTCGGTGCAGGATGTTTTCAAATGAGATTTTAGAAACT
40230 AAGCCTTCGGGGGTTTCTTGATTTG
66 AAGCCTTCGGGGGTTTCTTGATTTG
*
40255 TAAGACCTTCGGGCCATCCATAAGACCTTCGGTGCAGGATGTTTTCAAATGAGATTTTAGAAACT
1 TAAGTCCTTCGGGCCATCCATAAGACCTTCGGTGCAGGATGTTTTCAAATGAGATTTTAGAAACT
*
40320 AAGCCTTCAGGGGTTTCTTGATTTG
66 AAGCCTTCGGGGGTTTCTTGATTTG
* * *
40345 TAAGTCCTTCGGGCCATCTATAAGACCTTCAGTGCAGGATGTTTTCAAATGAGATTGTAGAAACT
1 TAAGTCCTTCGGGCCATCCATAAGACCTTCGGTGCAGGATGTTTTCAAATGAGATTTTAGAAACT
40410 AAGCCTTCGGGGGTTTCTTGATTTG
66 AAGCCTTCGGGGGTTTCTTGATTTG
* * *
40435 TAAGTCCTTTGGGCCATCCATAAGACCTTCGG-GCAGGATGTTTTCAAATCAGTTTTTAGAAACT
1 TAAGTCCTTCGGGCCATCCATAAGACCTTCGGTGCAGGATGTTTTCAAATGAGATTTTAGAAACT
40499 AAGCCT
66 AAGCCT
40505 CATTTTCAGG
Statistics
Matches: 236, Mismatches: 14, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
89 35 0.15
90 201 0.85
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (90 bp):
TAAGTCCTTCGGGCCATCCATAAGACCTTCGGTGCAGGATGTTTTCAAATGAGATTTTAGAAACT
AAGCCTTCGGGGGTTTCTTGATTTG
Found at i:40688 original size:42 final size:42
Alignment explanation
Indices: 40623--40736 Score: 133
Period size: 42 Copynumber: 2.7 Consensus size: 42
40613 AAGGGTTTCT
40623 TGATGAGTAAGTCCTTCAAGCCA-TCAGTAAGTCTCTCGAGCA
1 TGATGAGTAAGTCCTTCAAGCCATTCA-TAAGTCTCTCGAGCA
* ** * *
40665 TGATGTGTAAGTCCTTCGGGCCATTTATAAGTCTTTCGAGCA
1 TGATGAGTAAGTCCTTCAAGCCATTCATAAGTCTCTCGAGCA
* * *
40707 AGATGA-TAAGTCATTCAAGCCATCCATAAG
1 TGATGAGTAAGTCCTTCAAGCCATTCATAAG
40737 ACTTTCGGGC
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
41 19 0.32
42 38 0.64
43 2 0.03
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (42 bp):
TGATGAGTAAGTCCTTCAAGCCATTCATAAGTCTCTCGAGCA
Found at i:40940 original size:36 final size:36
Alignment explanation
Indices: 40856--40968 Score: 156
Period size: 36 Copynumber: 3.1 Consensus size: 36
40846 TTTTCCTAAG
* * ** *
40856 AACAAATTTTGTCTCACTTGAGACAATATTTACTTTA
1 AACAAATTTTGTCTCCCTTGAGACAGT-TTCCCTTGA
40893 AAC-AATCTTTGTCTCCCTTGAGACAGTTTCCCTTGA
1 AACAAAT-TTTGTCTCCCTTGAGACAGTTTCCCTTGA
40929 AACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGA
1 AACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGA
40965 AACA
1 AACA
40969 TCAATCTTTG
Statistics
Matches: 69, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
36 45 0.65
37 24 0.35
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (36 bp):
AACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGA
Found at i:46632 original size:16 final size:16
Alignment explanation
Indices: 46606--46644 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
46596 ATTGATTACT
46606 ATTTACGTGAATAGTGA
1 ATTT-CGTGAATAGTGA
46623 ATTTCGTGAATAGTGA
1 ATTTCGTGAATAGTGA
*
46639 AATTCG
1 ATTTCG
46645 ATCGGCGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.36
Consensus pattern (16 bp):
ATTTCGTGAATAGTGA
Found at i:46642 original size:17 final size:17
Alignment explanation
Indices: 46606--46639 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
46596 ATTGATTACT
46606 ATTTACGTGAATAGTGA
1 ATTTACGTGAATAGTGA
46623 ATTT-CGTGAATAGTGA
1 ATTTACGTGAATAGTGA
46639 A
1 A
46640 ATTCGATCGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.35
Consensus pattern (17 bp):
ATTTACGTGAATAGTGA
Found at i:51681 original size:13 final size:15
Alignment explanation
Indices: 51663--51694 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
51653 TATATGATGT
51663 TATATG-TTAAA-AA
1 TATATGTTTAAATAA
51676 TATATGTTTAAATAA
1 TATATGTTTAAATAA
51691 TATA
1 TATA
51695 CAAATTTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 5 0.29
15 6 0.35
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (15 bp):
TATATGTTTAAATAA
Found at i:60979 original size:21 final size:21
Alignment explanation
Indices: 60955--60994 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
60945 ATCAATACTT
60955 ATTCATCAGGTATCGATATAC
1 ATTCATCAGGTATCGATATAC
**
60976 ATTCATTGGGTATCGATAT
1 ATTCATCAGGTATCGATAT
60995 TGTTAGTGGA
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:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (21 bp):
ATTCATCAGGTATCGATATAC
Found at i:61493 original size:44 final size:44
Alignment explanation
Indices: 61413--61496 Score: 105
Period size: 44 Copynumber: 1.9 Consensus size: 44
61403 TTTCTCCTAT
* * * * *
61413 TAGTGTTGAGGCACTTTAGTATTAGTGCAAATGCACTTCCATAC
1 TAGTGTCGAGGCACTTTAGAATCAATGCAAAGGCACTTCCATAC
**
61457 TAGTGTCGAGGCACTTTAGAATCAATGTTAAGGCACTTCC
1 TAGTGTCGAGGCACTTTAGAATCAATGCAAAGGCACTTCC
61497 GTTATTCGAT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
44 33 1.00
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.32
Consensus pattern (44 bp):
TAGTGTCGAGGCACTTTAGAATCAATGCAAAGGCACTTCCATAC
Found at i:64220 original size:18 final size:18
Alignment explanation
Indices: 64199--64252 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 18
64189 CTTTCATCAA
*
64199 CATTTTTTAAAATTCTTT
1 CATTTTTAAAAATTCTTT
64217 CA---TTAAAAATTCTTT
1 CATTTTTAAAAATTCTTT
*
64232 CATTTTTCAAAATTCTTT
1 CATTTTTAAAAATTCTTT
64250 CAT
1 CAT
64253 CAAACATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
15 14 0.45
18 17 0.55
ACGTcount: A:0.31, C:0.15, G:0.00, T:0.54
Consensus pattern (18 bp):
CATTTTTAAAAATTCTTT
Found at i:64227 original size:15 final size:15
Alignment explanation
Indices: 64207--64235 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
64197 AACATTTTTT
64207 AAAATTCTTTCATTA
1 AAAATTCTTTCATTA
64222 AAAATTCTTTCATT
1 AAAATTCTTTCATT
64236 TTTCAAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.14, G:0.00, T:0.48
Consensus pattern (15 bp):
AAAATTCTTTCATTA
Found at i:64267 original size:24 final size:25
Alignment explanation
Indices: 64232--64280 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
64222 AAAATTCTTT
*
64232 CATTTTTCAAAATTCT-TTCATCAAA
1 CATTTTTCAAAA-CCTATTCATCAAA
64257 CATTTTT-AAAACCTATTCATCAAA
1 CATTTTTCAAAACCTATTCATCAAA
64281 TTTTTCTCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 2 0.09
24 13 0.59
25 7 0.32
ACGTcount: A:0.39, C:0.20, G:0.00, T:0.41
Consensus pattern (25 bp):
CATTTTTCAAAACCTATTCATCAAA
Found at i:65484 original size:40 final size:40
Alignment explanation
Indices: 65270--65484 Score: 95
Period size: 40 Copynumber: 5.3 Consensus size: 40
65260 ATTAGGACTT
* * * *
65270 AACGTCCTTCAGAGGAATGAGTGAGATCATC-CCGTGACTC
1 AACGTCCTTCAGAGAAAAGAGTGAGATCATCACC-AGATTC
* * * * *
65310 AATGTCTTTTAGA-AGAAAGAGTGAAATCATCACCAGATTT
1 AACGTCCTTCAGAGA-AAAGAGTGAGATCATCACCAGATTC
* * *
65350 AACATCCTTCAGCA-AAAGGAGTG-GATCACCTACCA-ATTATGAC
1 AACGTCCTTCAG-AGAAAAGAGTGAGATCATC-ACCAGA-T-T--C
* * * * * *
65393 TTAACATCCTTAAGAG-GAA-AGTAAGATCGTC-CCACGACTC
1 --AACGTCCTTCAGAGAAAAGAGTGAGATCATCACCA-GATTC
* *
65433 AGCGTCTTTCAGAGAAAAGAGTGAGATCATCACCAGATTC
1 AACGTCCTTCAGAGAAAAGAGTGAGATCATCACCAGATTC
65473 AACGTCCTTCAG
1 AACGTCCTTCAG
65485 TAAGAGGAGT
Statistics
Matches: 124, Mismatches: 34, Indels: 34
0.65 0.18 0.18
Matches are distributed among these distances:
38 10 0.08
39 8 0.06
40 72 0.58
41 8 0.06
42 4 0.03
43 3 0.02
44 8 0.06
45 11 0.09
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (40 bp):
AACGTCCTTCAGAGAAAAGAGTGAGATCATCACCAGATTC
Found at i:65723 original size:125 final size:125
Alignment explanation
Indices: 65260--65730 Score: 441
Period size: 125 Copynumber: 3.7 Consensus size: 125
65250 TTGACCCTAG
* * * * * * * * *
65260 ATTAGGACTTAACGTCCTTCAGAGGAATGAGTGAGATCATCCCGTGACTCAATGTCTTTTAGA-A
1 ATTACGACTTAACATCCATAAGAGGAAGGAGTAAGATCTTCCCATGACTCAACGTCTTTTAGAGA
* * * *
65324 GAAAGAGTGAAATCATCACCAGATTTAACATCCTTCAGCAAAAGGAGT-GGATCACCTACCA
66 -AAAGAGTGAGATCATCACCAGATTCAACATCCTTCAACAAAAGGAGTAAG-TCACCTACCA
* * * * * *
65385 ATTATGACTTAACATCCTTAAGAGGAA--AGTAAGATCGTCCCACGACTCAGCGTCTTTCAGAGA
1 ATTACGACTTAACATCCATAAGAGGAAGGAGTAAGATCTTCCCATGACTCAACGTCTTTTAGAGA
* ** * **
65448 AAAGAGTGAGATCATCACCAGATTCAACGTCCTTCAGTAAGAGGAGTGGGTCACCTACCA
66 AAAGAGTGAGATCATCACCAGATTCAACATCCTTCAACAAAAGGAGTAAGTCACCTACCA
* * * * * *
65508 ATTATGACTTACAACTTAGCGTCATTCAGATGAAGGAGTAAGATCGTT-CCATAACTTAACGTCT
1 ATTACGACTT--AAC--ATC--CA-TAAGAGGAAGGAGTAAGATC-TTCCCATGACTCAACGTCT
* * * *
65572 TTTAGAGGAAATAGTGAGATCGTCACCAGATTCAACATCCTTCAACAAAAGGAGTAAGTTACCTA
58 TTTAGAGAAAAGAGTGAGATCATCACCAGATTCAACATCCTTCAACAAAAGGAGTAAGTCACCTA
65637 CCA
123 CCA
* * *
65640 ATTACGACTTAGA-GTCCATAAGAGGAAGGAGTAAGATTTTCCCATGACTTAACGTCTTTTAGAG
1 ATTACGACTTA-ACATCCATAAGAGGAAGGAGTAAGATCTTCCCATGACTCAACGTCTTTTAGAG
* *
65704 AAAATAGTGAGATCATCACCAAATTCA
65 AAAAGAGTGAGATCATCACCAGATTCA
65731 TCGTACTTAA
Statistics
Matches: 287, Mismatches: 45, Indels: 28
0.80 0.12 0.08
Matches are distributed among these distances:
123 89 0.31
124 5 0.02
125 90 0.31
126 2 0.01
127 2 0.01
128 1 0.00
129 1 0.00
130 8 0.03
131 1 0.00
132 87 0.30
133 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.25
Consensus pattern (125 bp):
ATTACGACTTAACATCCATAAGAGGAAGGAGTAAGATCTTCCCATGACTCAACGTCTTTTAGAGA
AAAGAGTGAGATCATCACCAGATTCAACATCCTTCAACAAAAGGAGTAAGTCACCTACCA
Found at i:66430 original size:13 final size:13
Alignment explanation
Indices: 66412--66463 Score: 54
Period size: 13 Copynumber: 3.9 Consensus size: 13
66402 CTGTTTTATT
66412 TTTATTATTTTTA
1 TTTATTATTTTTA
*
66425 TTTATTATTATTA
1 TTTATTATTTTTA
66438 -TTATTATATATTATA
1 TTTATTAT-T-TT-TA
66453 TTTATT-TTTTT
1 TTTATTATTTTT
66464 TTCTTTTTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
12 8 0.24
13 15 0.45
14 2 0.06
15 3 0.09
16 5 0.15
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTATTATTTTTA
Found at i:66430 original size:19 final size:19
Alignment explanation
Indices: 66406--66463 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 19
66396 TTTTGTCTGT
66406 TTTATTTTTATTATTTTTA
1 TTTATTTTTATTATTTTTA
*
66425 TTTATTATTATTATTATTATA
1 TTTATTTTTATTATT-TT-TA
*
66446 TATTATATTTATT-TTTTT
1 T-TTATTTTTATTATTTTT
66464 TTCTTTTTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
19 15 0.45
20 4 0.12
21 5 0.15
22 9 0.27
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTATTTTTATTATTTTTA
Found at i:66432 original size:3 final size:3
Alignment explanation
Indices: 66407--66451 Score: 54
Period size: 3 Copynumber: 14.3 Consensus size: 3
66397 TTTGTCTGTT
* *
66407 TTA TTT TTA TTA TTT TTA TTTA TTA TTA TTA TTA TTA TATA TTA T
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA T-TA TTA T
66452 ATTTATTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
3 30 0.83
4 6 0.17
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:66432 original size:16 final size:16
Alignment explanation
Indices: 66405--66459 Score: 69
Period size: 16 Copynumber: 3.5 Consensus size: 16
66395 TTTTTGTCTG
66405 TTTTATTT-TTATTAT
1 TTTTATTTATTATTAT
66420 TTTTATTTATTATTAT
1 TTTTATTTATTATTAT
*
66436 TATTA-TTATATATTAT
1 TTTTATTTAT-TATTAT
*
66452 ATTTATTT
1 TTTTATTT
66460 TTTTTTCTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
15 12 0.35
16 20 0.59
17 2 0.06
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTATTTATTATTAT
Found at i:71807 original size:18 final size:19
Alignment explanation
Indices: 71784--71825 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
71774 ACATAAGCAT
71784 AAATAACCAAAAT-AT-CCA
1 AAATAACC-AAATCATCCCA
*
71802 AAATAATCAAATCATCCCA
1 AAATAACCAAATCATCCCA
71821 AAATA
1 AAATA
71826 TGAAATCCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 4 0.19
18 9 0.43
19 8 0.38
ACGTcount: A:0.60, C:0.21, G:0.00, T:0.19
Consensus pattern (19 bp):
AAATAACCAAATCATCCCA
Found at i:71807 original size:28 final size:29
Alignment explanation
Indices: 71753--71807 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
71743 TATATCCATT
* *
71753 ATAAGTAACCAAAAATATCCAACATAAGC
1 ATAAATAACCAAAAATATCCAAAATAAGC
71782 ATAAATAACC-AAAATATCCAAAATAA
1 ATAAATAACCAAAAATATCCAAAATAA
71808 TCAAATCATC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 15 0.62
29 9 0.38
ACGTcount: A:0.60, C:0.18, G:0.04, T:0.18
Consensus pattern (29 bp):
ATAAATAACCAAAAATATCCAAAATAAGC
Found at i:74445 original size:15 final size:15
Alignment explanation
Indices: 74427--74479 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 15
74417 CAAATGCTAG
74427 AAATTTAAAGGA-AA
1 AAATTTAAAGGACAA
* * *
74441 AAAATTAAAGTACAT
1 AAATTTAAAGGACAA
*
74456 AAATTTAAAAGACAA
1 AAATTTAAAGGACAA
*
74471 AAATGTAAA
1 AAATTTAAA
74480 TAGAAGAAAA
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
14 10 0.33
15 20 0.67
ACGTcount: A:0.64, C:0.04, G:0.09, T:0.23
Consensus pattern (15 bp):
AAATTTAAAGGACAA
Found at i:74571 original size:33 final size:33
Alignment explanation
Indices: 74533--74610 Score: 88
Period size: 31 Copynumber: 2.4 Consensus size: 33
74523 AGAACAAAAA
74533 TAAAATAAAATAAAAAGGGGAAAATATAAATAAC
1 TAAAAT-AAATAAAAAGGGGAAAATATAAATAAC
* * * *
74567 -AAAATAAAT-AAAATGTGTAAATGTAAATAAC
1 TAAAATAAATAAAAAGGGGAAAATATAAATAAC
74598 TAAAATTAAATAA
1 TAAAA-TAAATAA
74611 TGAAAATAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
31 18 0.49
32 8 0.22
33 10 0.27
34 1 0.03
ACGTcount: A:0.65, C:0.03, G:0.09, T:0.23
Consensus pattern (33 bp):
TAAAATAAATAAAAAGGGGAAAATATAAATAAC
Found at i:74597 original size:84 final size:83
Alignment explanation
Indices: 74469--74716 Score: 257
Period size: 85 Copynumber: 2.9 Consensus size: 83
74459 TTTAAAAGAC
* * * ** **
74469 AAAAATGTAAATAGA-AGAAAAATAAAGTGCTTAAATGTAAATAACAAAACTAAAAGAACAAAAA
1 AAAAATATAAATA-ACAAAAAAATAAAATGAGTAAATGTAAATAACAAAA-TAAAAGAATGAAAA
74533 TAAAATAAAATAAAAAGGGG
64 TAAAATAAAATAAAAAGGGG
* * *
74553 -AAAATATAAATAACAAAATAAATAAAATGTGTAAATGTAAATAACTAAAATTAAATAATGAAAA
1 AAAAATATAAATAACAAAA-AAATAAAATGAGTAAATGTAAATAAC-AAAATAAAAGAATGAAAA
*
74617 TAAAATAAAGTAAAAAGGGG
64 TAAAATAAAATAAAAAGGGG
* * * * * * * *
74637 CAAAAATGTAATTAACAAAAAATTAAAGTGAGTAAATATAAAGAACAAAAATGAAAGAGTGAAAA
1 -AAAAATATAAATAACAAAAAAATAAAATGAGTAAATGTAAATAAC-AAAATAAAAGAATGAAAA
74702 TAAAATAAAATAAAA
64 TAAAATAAAATAAAA
74717 TAAAAAAGGA
Statistics
Matches: 137, Mismatches: 22, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
82 1 0.01
83 14 0.10
84 52 0.38
85 54 0.39
86 16 0.12
ACGTcount: A:0.65, C:0.04, G:0.12, T:0.19
Consensus pattern (83 bp):
AAAAATATAAATAACAAAAAAATAAAATGAGTAAATGTAAATAACAAAATAAAAGAATGAAAATA
AAATAAAATAAAAAGGGG
Found at i:74707 original size:85 final size:84
Alignment explanation
Indices: 74468--74716 Score: 279
Period size: 84 Copynumber: 2.9 Consensus size: 84
74458 ATTTAAAAGA
** * **
74468 CAAAAATGTAAATAGA-AGAAAAATAAAGTGCTTAAATGTAAATAACAAAACTAAAAGAACAAAA
1 CAAAAATGTAAATA-ACA-AAAAATAAAGTGAGTAAATGTAAATAACAAAAATAAAAGAATGAAA
74532 ATAAAATAAAATAAAAAGGGG
64 ATAAAATAAAATAAAAAGGGG
* * * * * *
74553 --AAAATATAAATAACAAAATAAATAAAATGTGTAAATGTAAATAACTAAAATTAAATAATGAAA
1 CAAAAATGTAAATAAC-AAA-AAATAAAGTGAGTAAATGTAAATAACAAAAATAAAAGAATGAAA
*
74616 ATAAAATAAAGTAAAAAGGGG
64 ATAAAATAAAATAAAAAGGGG
* * * * *
74637 CAAAAATGTAATTAACAAAAAATTAAAGTGAGTAAATATAAAGAACAAAAATGAAAGAGTGAAAA
1 CAAAAATGTAAATAACAAAAAA-TAAAGTGAGTAAATGTAAATAACAAAAATAAAAGAATGAAAA
74702 TAAAATAAAATAAAA
65 TAAAATAAAATAAAA
74717 TAAAAAAGGA
Statistics
Matches: 136, Mismatches: 22, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
82 1 0.01
83 13 0.10
84 59 0.43
85 51 0.38
86 12 0.09
ACGTcount: A:0.65, C:0.04, G:0.12, T:0.19
Consensus pattern (84 bp):
CAAAAATGTAAATAACAAAAAATAAAGTGAGTAAATGTAAATAACAAAAATAAAAGAATGAAAAT
AAAATAAAATAAAAAGGGG
Found at i:76466 original size:44 final size:44
Alignment explanation
Indices: 76411--76517 Score: 135
Period size: 44 Copynumber: 2.4 Consensus size: 44
76401 GCTGATTTAG
* * * *
76411 CTCCTTCTATGATAGAATCTAG-TAAAAGGTAAATGTTGATCCAA
1 CTCCTTCTATGATGGAATCTAGCAAAAAGGGAAA-ATTGATCCAA
* *
76455 CTCCTTATATGATGGAATCTAGCAAAAAGGGAAAATTGATCCAC
1 CTCCTTCTATGATGGAATCTAGCAAAAAGGGAAAATTGATCCAA
*
76499 CTCATTCTATGATGGAATC
1 CTCCTTCTATGATGGAATC
76518 AAACAAAAGT
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
44 45 0.83
45 9 0.17
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.30
Consensus pattern (44 bp):
CTCCTTCTATGATGGAATCTAGCAAAAAGGGAAAATTGATCCAA
Found at i:76966 original size:116 final size:110
Alignment explanation
Indices: 76686--77000 Score: 359
Period size: 110 Copynumber: 2.8 Consensus size: 110
76676 GAAAGATCCA
* * * ***
76686 AAGTCGAACAAGTTCTTCTCATTGGGAACTTCTTCTCCCTAATTGGACGAGTTCTTCTCATTATG
1 AAGTCGAACAAGCTCTTCTCATTAGGAACTTCTTCTCCCTCATCAAAC-AGTTCTTCTCATTATG
** *
76751 AACCCTTCCACTGGAAATACTGATCCAACTCCTTCTCTGATGAA-C
65 AACCCTTCCACTGGAAATGTTGATCCAACTCCTTCTATGATGAACC
* * * *
76796 GAGTCGAACAAGCTCTTCTCATTAGGAA-TTGGTTCTCTCTCATCAAACAAGTTCTTGTCATTAT
1 AAGTCGAACAAGCTCTTCTCATTAGGAACTT-CTTCTCCCTCATCAAAC-AGTTCTTCTCATTAT
*
76860 GAATCCTTCCACTGGAAATGTTGATCCAAC-CCTTTCTATGATGGATGAGCC
64 GAACCCTTCCACTGGAAATGTTGATCCAACTCC-TTCTATGAT-GA--A-CC
* *
76911 AAGGTCGAATAAGCTCTTCTCATTAGGAACTTCTTCTCCCTCATCAAACACGTTCTTCTCATTAG
1 AA-GTCGAACAAGCTCTTCTCATTAGGAACTTCTTCTCCCTCATCAAACA-GTTCTTCTCATTAT
76976 GAACCCTTCC-CTTGGAAATGTTGAT
64 GAACCCTTCCAC-TGGAAATGTTGAT
77001 AGGATTATCC
Statistics
Matches: 172, Mismatches: 22, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
109 4 0.02
110 85 0.49
111 2 0.01
113 1 0.01
115 4 0.02
116 74 0.43
117 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.33
Consensus pattern (110 bp):
AAGTCGAACAAGCTCTTCTCATTAGGAACTTCTTCTCCCTCATCAAACAGTTCTTCTCATTATGA
ACCCTTCCACTGGAAATGTTGATCCAACTCCTTCTATGATGAACC
Found at i:77377 original size:20 final size:19
Alignment explanation
Indices: 77341--77381 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
77331 CTTGTTAGAT
77341 AATATTTTTCTTGTTTAAA
1 AATATTTTTCTTGTTTAAA
*
77360 AATATTTTTCTTCTTTTAAA
1 AATATTTTTCTT-GTTTAAA
77380 AA
1 AA
77382 GTTTGTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.56
Consensus pattern (19 bp):
AATATTTTTCTTGTTTAAA
Found at i:78621 original size:12 final size:12
Alignment explanation
Indices: 78595--78647 Score: 54
Period size: 13 Copynumber: 4.3 Consensus size: 12
78585 GTATCTGAAA
78595 GAAAA-GAATAT
1 GAAAATGAATAT
*
78606 GAAAATGAATAC
1 GAAAATGAATAT
*
78618 GAAAGTGAAATAT
1 GAAAATG-AATAT
*
78631 GAAAATAAAATAT
1 GAAAAT-GAATAT
78644 GAAA
1 GAAA
78648 TGTTTAGAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
11 5 0.15
12 11 0.32
13 18 0.53
ACGTcount: A:0.62, C:0.02, G:0.17, T:0.19
Consensus pattern (12 bp):
GAAAATGAATAT
Found at i:78634 original size:13 final size:13
Alignment explanation
Indices: 78601--78647 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
78591 GAAAGAAAAG
78601 AATATGAAAATG-
1 AATATGAAAATGA
* *
78613 AATACGAAAGTGA
1 AATATGAAAATGA
*
78626 AATATGAAAATAA
1 AATATGAAAATGA
78639 AATATGAAA
1 AATATGAAA
78648 TGTTTAGAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
12 10 0.34
13 19 0.66
ACGTcount: A:0.62, C:0.02, G:0.15, T:0.21
Consensus pattern (13 bp):
AATATGAAAATGA
Found at i:81187 original size:102 final size:104
Alignment explanation
Indices: 80971--81156 Score: 261
Period size: 102 Copynumber: 1.8 Consensus size: 104
80961 CGTGGGTAAT
** *
80971 AGTATCGATAC-TCACCCGTTGGGTATCGATACTCAGGTGAGTATCGATACCAAATCAGATTTAA
1 AGTATCGATACTTCACCCGTTGGGTATCGATACTCACATGAGTATCGATAACAAATCAGATTTAA
* *
81035 TGTTTTGAAAAATACTTAGGTATCAATACTCCTATGGAG
66 TGTTTTCAAAAATACTCAGGTATCAATACTCCTATGGAG
* * * *
81074 AGTATCGATACTTTA-CC-TTGGGTATCGATACTCCCATGAGTATCGATAACAAATCAGCTTTGA
1 AGTATCGATACTTCACCCGTTGGGTATCGATACTCACATGAGTATCGATAACAAATCAGATTTAA
81137 TGTTTTCAAAAATACCTCAG
66 TGTTTTCAAAAATA-CTCAG
81157 TATTGATATT
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
102 53 0.74
103 17 0.24
104 2 0.03
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.32
Consensus pattern (104 bp):
AGTATCGATACTTCACCCGTTGGGTATCGATACTCACATGAGTATCGATAACAAATCAGATTTAA
TGTTTTCAAAAATACTCAGGTATCAATACTCCTATGGAG
Found at i:82066 original size:50 final size:50
Alignment explanation
Indices: 81991--82091 Score: 184
Period size: 50 Copynumber: 2.0 Consensus size: 50
81981 AAGTTTCCCC
* *
81991 CAACCCACGTGAAAATCAGCTAAAAATCGTCTCAAATCAGCCATGTTTTT
1 CAACCCACGTGAAAATCAGCTAAAAATCCTCTCAAATCAGCAATGTTTTT
82041 CAACCCACGTGAAAATCAGCTAAAAATCCTCTCAAATCAGCAATGTTTTT
1 CAACCCACGTGAAAATCAGCTAAAAATCCTCTCAAATCAGCAATGTTTTT
82091 C
1 C
82092 TTTAATGGTA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.37, C:0.27, G:0.11, T:0.26
Consensus pattern (50 bp):
CAACCCACGTGAAAATCAGCTAAAAATCCTCTCAAATCAGCAATGTTTTT
Found at i:83299 original size:3 final size:3
Alignment explanation
Indices: 83280--83401 Score: 137
Period size: 3 Copynumber: 41.7 Consensus size: 3
83270 TTTTTATCCA
* *
83280 TAT TATT TAT TAA TAT TAT TAT TAT TAT TA- TAT TAT TAC TAT TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
83325 TAT T-T TA- TAT TAT TAT TAT TAC TAT TAT TAT TA- TAT TAT TAA TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
83370 ATAT TAT TAT TAT CAT TA- TAC TAT TAT TAT TA
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
83402 AATATATTAA
Statistics
Matches: 101, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
2 10 0.10
3 85 0.84
4 6 0.06
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:83323 original size:39 final size:37
Alignment explanation
Indices: 83280--83410 Score: 171
Period size: 36 Copynumber: 3.5 Consensus size: 37
83270 TTTTTATCCA
83280 TATTATTTATTAATATTATTATTATTATTATATTATTAC
1 TATTA-TTATTAATA-TATTATTATTATTATATTATTAC
* *
83319 TATTATTATT-TTATATTATTATTATTACTATTATTAT
1 TATTATTATTAATATATTATTATTATTA-TATTATTAC
83356 TA-TATTATTAATATA-TATTATTATTATCATTA-TAC
1 TATTATTATTAATATATTATTATTATTAT-ATTATTAC
83391 TATTATTATTAAATATATTA
1 TATTATTATT-AATATATTA
83411 AATACATATA
Statistics
Matches: 82, Mismatches: 4, Indels: 13
0.83 0.04 0.13
Matches are distributed among these distances:
35 5 0.06
36 43 0.52
37 22 0.27
38 7 0.09
39 5 0.06
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (37 bp):
TATTATTATTAATATATTATTATTATTATATTATTAC
Found at i:86045 original size:17 final size:17
Alignment explanation
Indices: 86023--86059 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
86013 TTAAAACTCG
86023 ATAATAAAATAAATAAT
1 ATAATAAAATAAATAAT
* *
86040 ATAATATAATATATAAT
1 ATAATAAAATAAATAAT
86057 ATA
1 ATA
86060 TATATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
ATAATAAAATAAATAAT
Found at i:86060 original size:2 final size:2
Alignment explanation
Indices: 86038--86092 Score: 82
Period size: 2 Copynumber: 29.5 Consensus size: 2
86028 AAAATAAATA
86038 AT AT A- AT AT A- AT AT AT A- 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
86077 AT -T AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
86093 ATTGACTCTT
Statistics
Matches: 49, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
1 4 0.08
2 45 0.92
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:86074 original size:23 final size:22
Alignment explanation
Indices: 86030--86092 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 22
86020 TCGATAATAA
*
86030 AATAAATAATATAATATAATATAT
1 AATATATAATAT-ATAT-ATATAT
86054 AATATATATATATATATATATAT
1 AATATATA-ATATATATATATAT
*
86077 ATTATAT-ATATATATA
1 AATATATAATATATATA
86093 ATTGACTCTT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
21 9 0.25
23 12 0.33
24 11 0.31
25 4 0.11
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
AATATATAATATATATATATAT
Found at i:90540 original size:3 final size:3
Alignment explanation
Indices: 90527--90610 Score: 140
Period size: 3 Copynumber: 29.3 Consensus size: 3
90517 CCAGTCCCTA
90527 TAT TA- TAT TAT TAT TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
90573 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT T-T TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
90611 CCGTGTTGTA
Statistics
Matches: 77, Mismatches: 0, Indels: 8
0.91 0.00 0.09
Matches are distributed among these distances:
2 8 0.10
3 69 0.90
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:91393 original size:22 final size:22
Alignment explanation
Indices: 91342--91400 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
91332 ACGCGATTCT
91342 GACTATCGCATTGCGATTTTCC
1 GACTATCGCATTGCGATTTTCC
* * * *
91364 AAAT-TCGCGTTGCGATTTTTC
1 GACTATCGCATTGCGATTTTCC
*
91385 GACTATCGCAATGCGA
1 GACTATCGCATTGCGA
91401 ATATGTAAAT
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
21 17 0.61
22 11 0.39
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (22 bp):
GACTATCGCATTGCGATTTTCC
Found at i:91435 original size:20 final size:20
Alignment explanation
Indices: 91385--91542 Score: 156
Period size: 20 Copynumber: 7.9 Consensus size: 20
91375 GCGATTTTTC
* *
91385 GACTATCGCAATGCGAATAT
1 GACTATCGCAACGCGATTAT
* * *
91405 GTA-AATTGCAATGCGATTAT
1 G-ACTATCGCAACGCGATTAT
* *
91425 GACTATCGCAATGCGATTCT
1 GACTATCGCAACGCGATTAT
* *
91445 GACTATCGCAACGAGATTCT
1 GACTATCGCAACGCGATTAT
* *
91465 GACTATCGCAACGCAATGAT
1 GACTATCGCAACGCGATTAT
*
91485 GACTATCGCAACGCGATGAT
1 GACTATCGCAACGCGATTAT
**
91505 GACTATCGCAACGCGATGCT
1 GACTATCGCAACGCGATTAT
* *
91525 AACTATCGCAATGCGATT
1 GACTATCGCAACGCGATT
91543 TTCAAAGCGC
Statistics
Matches: 119, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
19 1 0.01
20 117 0.98
21 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (20 bp):
GACTATCGCAACGCGATTAT
Found at i:91487 original size:60 final size:60
Alignment explanation
Indices: 91423--91535 Score: 172
Period size: 60 Copynumber: 1.9 Consensus size: 60
91413 CAATGCGATT
* ** * *
91423 ATGACTATCGCAATGCGATTCTGACTATCGCAACGAGATTCTGACTATCGCAACGCAATG
1 ATGACTATCGCAACGCGATGATGACTATCGCAACGAGATGCTAACTATCGCAACGCAATG
*
91483 ATGACTATCGCAACGCGATGATGACTATCGCAACGCGATGCTAACTATCGCAA
1 ATGACTATCGCAACGCGATGATGACTATCGCAACGAGATGCTAACTATCGCAA
91536 TGCGATTTTC
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 47 1.00
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (60 bp):
ATGACTATCGCAACGCGATGATGACTATCGCAACGAGATGCTAACTATCGCAACGCAATG
Found at i:91541 original size:40 final size:40
Alignment explanation
Indices: 91412--91542 Score: 172
Period size: 40 Copynumber: 3.3 Consensus size: 40
91402 TATGTAAATT
* * *
91412 GCAATGCGATTATGACTATCGCAATGCGATTCTGACTATC
1 GCAACGCGATTATGACTATCGCAACGCGATGCTGACTATC
* * * *
91452 GCAACGAGATTCTGACTATCGCAACGCAATGATGACTATC
1 GCAACGCGATTATGACTATCGCAACGCGATGCTGACTATC
* *
91492 GCAACGCGATGATGACTATCGCAACGCGATGCTAACTATC
1 GCAACGCGATTATGACTATCGCAACGCGATGCTGACTATC
*
91532 GCAATGCGATT
1 GCAACGCGATT
91543 TTCAAAGCGC
Statistics
Matches: 76, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 76 1.00
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.24
Consensus pattern (40 bp):
GCAACGCGATTATGACTATCGCAACGCGATGCTGACTATC
Found at i:91732 original size:22 final size:22
Alignment explanation
Indices: 91707--91763 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
91697 CTCACTCTAA
* *
91707 GGCGACATCCGTCCCCATCTCC
1 GGCGAAATCCGTCCCAATCTCC
*
91729 GGCGAAATCAGTCCCAATCTCC
1 GGCGAAATCCGTCCCAATCTCC
*
91751 GGCAAAATCCGTC
1 GGCGAAATCCGTC
91764 TATCTCCATC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.23, C:0.40, G:0.19, T:0.18
Consensus pattern (22 bp):
GGCGAAATCCGTCCCAATCTCC
Found at i:92205 original size:20 final size:20
Alignment explanation
Indices: 92156--92229 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 20
92146 GCGATTTTAG
* *
92156 TTTCGCGTTGCGATAGTCAA
1 TTTCGTGTTGCGATAGTCAT
* *
92176 ATTCGCGTTGCGATAGTCAT
1 TTTCGTGTTGCGATAGTCAT
* ** *
92196 TTTTGTGTTGCGATTTTTAT
1 TTTCGTGTTGCGATAGTCAT
92216 TTTCGTGTTGCGAT
1 TTTCGTGTTGCGAT
92230 TTTAAGTTTC
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.15, C:0.15, G:0.24, T:0.46
Consensus pattern (20 bp):
TTTCGTGTTGCGATAGTCAT
Found at i:92239 original size:20 final size:20
Alignment explanation
Indices: 92200--92239 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
92190 AGTCATTTTT
* *
92200 GTGTTGCGATTTTTATTTTC
1 GTGTTGCGATTTTAAGTTTC
92220 GTGTTGCGATTTTAAGTTTC
1 GTGTTGCGATTTTAAGTTTC
92240 AGAAACTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.12, C:0.10, G:0.23, T:0.55
Consensus pattern (20 bp):
GTGTTGCGATTTTAAGTTTC
Found at i:93983 original size:18 final size:18
Alignment explanation
Indices: 93957--94006 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
93947 TTTACTCGTA
93957 ATTTCACTTAGATTAACC
1 ATTTCACTTAGATTAACC
*
93975 ATTTTACTTAGATTAACC
1 ATTTCACTTAGATTAACC
93993 ATTTCACTTAGATT
1 ATTTCACTTAGATT
94007 GCTTAGTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.32, C:0.18, G:0.06, T:0.44
Consensus pattern (18 bp):
ATTTCACTTAGATTAACC
Found at i:94178 original size:20 final size:20
Alignment explanation
Indices: 94153--94240 Score: 131
Period size: 20 Copynumber: 4.4 Consensus size: 20
94143 TAGTTTACTT
*
94153 TCGCAACACGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
*
94173 TCGCAACGCGAAAATAACTA
1 TCGCAACGCGAAAATGACTA
94193 TCGCAACGCGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
**
94213 TCGCAACGCGAATTTGACTA
1 TCGCAACGCGAAAATGACTA
*
94233 TCTCAACG
1 TCGCAACG
94241 AAAGAATCGC
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 62 1.00
ACGTcount: A:0.39, C:0.26, G:0.17, T:0.18
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:94308 original size:20 final size:19
Alignment explanation
Indices: 94283--94349 Score: 91
Period size: 20 Copynumber: 3.5 Consensus size: 19
94273 GCGATTCTCT
94283 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTC-AATTCG
*
94303 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCA-ATTCG
94323 CGTTGCGATAGTC-ATTCG
1 CGTTGCGATAGTCAATTCG
*
94341 TGTTGCGAT
1 CGTTGCGAT
94350 TTTAAGTTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
18 12 0.28
19 1 0.02
20 30 0.70
ACGTcount: A:0.18, C:0.19, G:0.27, T:0.36
Consensus pattern (19 bp):
CGTTGCGATAGTCAATTCG
Found at i:94930 original size:21 final size:21
Alignment explanation
Indices: 94836--94942 Score: 92
Period size: 21 Copynumber: 5.1 Consensus size: 21
94826 CCCGACTCAT
94836 CTGTCATCGTTCAAGAGGCCTC
1 CTGTCATCGTTCAAGAGGCC-C
**
94858 CCCT-ATCGTTCAAGAGGCCC
1 CTGTCATCGTTCAAGAGGCCC
* ** *
94878 CTATCATCCCTCAAGAGTCCC
1 CTGTCATCGTTCAAGAGGCCC
* *
94899 CT-TCAACCGTTCAAGAGGCCA
1 CTGTC-ATCGTTCAAGAGGCCC
* *
94920 CTGTCATCGTTGAAGAGGTCC
1 CTGTCATCGTTCAAGAGGCCC
94941 CT
1 CT
94943 CCCAACATTC
Statistics
Matches: 66, Mismatches: 16, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
20 5 0.08
21 57 0.86
22 4 0.06
ACGTcount: A:0.21, C:0.35, G:0.20, T:0.24
Consensus pattern (21 bp):
CTGTCATCGTTCAAGAGGCCC
Found at i:96378 original size:14 final size:14
Alignment explanation
Indices: 96341--96402 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 14
96331 TTGCTTGTTT
*
96341 AATTGATTTATAAA
1 AATTGATTTGTAAA
*
96355 AATTTATTTGTAAA
1 AATTGATTTGTAAA
* *
96369 AGTTGATTTGTTTAA
1 AATTGATTTG-TAAA
* *
96384 TATTGATGTGTAAA
1 AATTGATTTGTAAA
96398 TAATT
1 -AATT
96403 CTTATTTGTG
Statistics
Matches: 36, Mismatches: 10, Indels: 3
0.73 0.20 0.06
Matches are distributed among these distances:
14 23 0.64
15 13 0.36
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:96526 original size:20 final size:20
Alignment explanation
Indices: 96501--96554 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
96491 AGGTACACTT
*
96501 TCGCAATGCTAAA-CTCAAAA
1 TCGCAATGCGAAAGC-CAAAA
96521 TCGCAATGCGAAAGCCAAAA
1 TCGCAATGCGAAAGCCAAAA
*
96541 TCGCAACGCGAAAG
1 TCGCAATGCGAAAG
96555 TCAATTCGCG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.43, C:0.26, G:0.19, T:0.13
Consensus pattern (20 bp):
TCGCAATGCGAAAGCCAAAA
Found at i:96570 original size:19 final size:20
Alignment explanation
Indices: 96548--96590 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
96538 AAATCGCAAC
*
96548 GCGAAAGTC-AATTCGCGTT
1 GCGAAAGTCTAATACGCGTT
* *
96567 GCGATAGTCTAATACGCTTT
1 GCGAAAGTCTAATACGCGTT
96587 GCGA
1 GCGA
96591 TTTTCTCGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (20 bp):
GCGAAAGTCTAATACGCGTT
Found at i:96606 original size:34 final size:34
Alignment explanation
Indices: 96563--96699 Score: 139
Period size: 34 Copynumber: 3.9 Consensus size: 34
96553 AGTCAATTCG
* * *
96563 CGTTGCGATAGTCTAATACGCTTTGCGATTTTCT
1 CGTTGCGATAGTCAAATACCCGTTGCGATTTTCT
*
96597 CGTTGCGATAGTCAAATACCCGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATACCCGTTGCGAT--T----TTCT
* *** *
96637 CGTTGTGATAGTCAAATTTGCGTTGTGATTTTCT
1 CGTTGCGATAGTCAAATACCCGTTGCGATTTTCT
96671 CGTTGCGATAGTCAAATACCCGTTGCGAT
1 CGTTGCGATAGTCAAATACCCGTTGCGAT
96700 AATCAAATTC
Statistics
Matches: 82, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
34 53 0.65
36 1 0.01
38 1 0.01
40 27 0.33
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.36
Consensus pattern (34 bp):
CGTTGCGATAGTCAAATACCCGTTGCGATTTTCT
Found at i:96622 original size:20 final size:20
Alignment explanation
Indices: 96597--96804 Score: 179
Period size: 20 Copynumber: 11.0 Consensus size: 20
96587 GCGATTTTCT
* *
96597 CGTTGCGATAGTCAAATACC
1 CGTTGCGATAGTCAAATTCG
*
96617 CGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* *
96637 CGTTGTGATAGTCAAATTTG
1 CGTTGCGATAGTCAAATTCG
* *
96657 CGTTGTGAT--T----TTCT
1 CGTTGCGATAGTCAAATTCG
* *
96671 CGTTGCGATAGTCAAATACC
1 CGTTGCGATAGTCAAATTCG
*
96691 CGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCG
96711 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* * *
96731 CGTTACGATAGACAAATTTG
1 CGTTGCGATAGTCAAATTCG
*
96751 CGTTGCGAT--T----TTTG
1 CGTTGCGATAGTCAAATTCG
* *
96765 CGTTGCAATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCG
*
96785 TGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
96805 AATTGCGATT
Statistics
Matches: 151, Mismatches: 25, Indels: 24
0.75 0.12 0.12
Matches are distributed among these distances:
14 22 0.15
16 2 0.01
18 1 0.01
20 126 0.83
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.34
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:96652 original size:40 final size:40
Alignment explanation
Indices: 96557--96759 Score: 180
Period size: 40 Copynumber: 5.4 Consensus size: 40
96547 CGCGAAAGTC
* * *
96557 AATTCGCGTTGCGATAGTCTAATACGCTTTGCGAT--T--
1 AATTCGCGTTGCGATAGTCAAATACCCGTTGCGATAATCA
*
96593 --TTCTCGTTGCGATAGTCAAATACCCGTTGCGATAATCA
1 AATTCGCGTTGCGATAGTCAAATACCCGTTGCGATAATCA
* *** *
96631 AATTCGCGTTGTGATAGTCAAATTTGCGTTGTGAT--T--
1 AATTCGCGTTGCGATAGTCAAATACCCGTTGCGATAATCA
*
96667 --TTCTCGTTGCGATAGTCAAATACCCGTTGCGATAATCA
1 AATTCGCGTTGCGATAGTCAAATACCCGTTGCGATAATCA
* * *
96705 AATTCGCGTTGCGATAGTCAAATTCGCGTTACGATAGA-CA
1 AATTCGCGTTGCGATAGTCAAATACCCGTTGCGATA-ATCA
*
96745 AATTTGCGTTGCGAT
1 AATTCGCGTTGCGAT
96760 TTTTGCGTTG
Statistics
Matches: 133, Mismatches: 21, Indels: 22
0.76 0.12 0.12
Matches are distributed among these distances:
34 56 0.42
36 2 0.02
38 1 0.01
40 73 0.55
41 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (40 bp):
AATTCGCGTTGCGATAGTCAAATACCCGTTGCGATAATCA
Found at i:96678 original size:74 final size:74
Alignment explanation
Indices: 96557--96739 Score: 303
Period size: 74 Copynumber: 2.5 Consensus size: 74
96547 CGCGAAAGTC
* * *
96557 AATTCGCGTTGCGATAGTCTAATACGCTTTGCGATTTTCTCGTTGCGATAGTCAAATACCCGTTG
1 AATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTCTCGTTGCGATAGTCAAATACCCGTTG
96622 CGATAATCA
66 CGATAATCA
* * *
96631 AATTCGCGTTGTGATAGTCAAATTTGCGTTGTGATTTTCTCGTTGCGATAGTCAAATACCCGTTG
1 AATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTCTCGTTGCGATAGTCAAATACCCGTTG
96696 CGATAATCA
66 CGATAATCA
*
96705 AATTCGCGTTGCGATAGTCAAATTCGCGTTACGAT
1 AATTCGCGTTGCGATAGTCAAATTCGCGTTGCGAT
96740 AGACAAATTT
Statistics
Matches: 99, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
74 99 1.00
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (74 bp):
AATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTCTCGTTGCGATAGTCAAATACCCGTTG
CGATAATCA
Found at i:96802 original size:94 final size:94
Alignment explanation
Indices: 96597--96813 Score: 283
Period size: 94 Copynumber: 2.3 Consensus size: 94
96587 GCGATTTTCT
* * ** *
96597 CGTTGCGATAGTCAAATACCCGTTGCGATAATCAAATTCGCGTTGTGATAGTCAAATTTGCGTTG
1 CGTTGCGATAGTCAAATTCGCGTTGCGATAATCAAATTCGCGTTACGATAGACAAATTTGCGTTG
* *
96662 TGATTTTCTCGTTGCGATAGTCAAATACC
66 CGATTTTCTCGTTGCAATAGTCAAATACC
* *
96691 CGTTGCGATAATCAAATTCGCGTTGCGATAGTCAAATTCGCGTTACGATAGACAAATTTGCGTTG
1 CGTTGCGATAGTCAAATTCGCGTTGCGATAATCAAATTCGCGTTACGATAGACAAATTTGCGTTG
* * *
96756 CGATTTT-TGCGTTGCAATAGTCATATTCG
66 CGATTTTCT-CGTTGCAATAGTCAAATACC
* **
96785 TGTTGCGATAGTCAAATTCGAATTGCGAT
1 CGTTGCGATAGTCAAATTCGCGTTGCGAT
96814 TTTTTAGTTG
Statistics
Matches: 106, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
93 1 0.01
94 105 0.99
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (94 bp):
CGTTGCGATAGTCAAATTCGCGTTGCGATAATCAAATTCGCGTTACGATAGACAAATTTGCGTTG
CGATTTTCTCGTTGCAATAGTCAAATACC
Found at i:96810 original size:20 final size:20
Alignment explanation
Indices: 96767--96813 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
96757 GATTTTTGCG
* * **
96767 TTGCAATAGTCATATTCGTG
1 TTGCGATAGTCAAATTCGAA
96787 TTGCGATAGTCAAATTCGAA
1 TTGCGATAGTCAAATTCGAA
96807 TTGCGAT
1 TTGCGAT
96814 TTTTTAGTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGAA
Found at i:96854 original size:54 final size:54
Alignment explanation
Indices: 96712--96855 Score: 180
Period size: 54 Copynumber: 2.7 Consensus size: 54
96702 TCAAATTCGC
* * * ** *
96712 GTTGCGATAGTCAAATTCGCGTTACGATAGACAAATTTGCGTTGCGATTTTTGC
1 GTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGAATTGCGATTTTTGA
* * * *
96766 GTTGCAATAGTCATATTCGTGTTGCGATAGTCAAATTCGAATTGCGATTTTTTA
1 GTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGAATTGCGATTTTTGA
* *
96820 GTTGCGATAATCAAATTCGCGTTGCGATATTCAAAT
1 GTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAAT
96856 GAATGTGTAA
Statistics
Matches: 75, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 75 1.00
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (54 bp):
GTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGAATTGCGATTTTTGA
Found at i:96912 original size:13 final size:13
Alignment explanation
Indices: 96894--96922 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
96884 CATATCATAG
96894 CAATGTTCAAACT
1 CAATGTTCAAACT
96907 CAATGTTCAAACT
1 CAATGTTCAAACT
96920 CAA
1 CAA
96923 GTTACTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.24, G:0.07, T:0.28
Consensus pattern (13 bp):
CAATGTTCAAACT
Found at i:99258 original size:14 final size:14
Alignment explanation
Indices: 99239--99275 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
99229 TCTCGTGGCA
99239 TTTTCTTCGGGGAC
1 TTTTCTTCGGGGAC
*
99253 TTTTCTTCGGGGAT
1 TTTTCTTCGGGGAC
99267 TTCTTCTTC
1 TT-TTCTTC
99276 TTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.05, C:0.22, G:0.22, T:0.51
Consensus pattern (14 bp):
TTTTCTTCGGGGAC
Found at i:99275 original size:3 final size:3
Alignment explanation
Indices: 99267--99305 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
99257 CTTCGGGGAT
* *
99267 TTC TTC TTC TTC TTT TTC TTC TTC TTC TTT TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
99306 AGGGTTATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (3 bp):
TTC
Found at i:99284 original size:15 final size:15
Alignment explanation
Indices: 99266--99305 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
99256 TCTTCGGGGA
99266 TTTCTTCTTCTTCTT
1 TTTCTTCTTCTTCTT
99281 TTTCTTCTTCTTCTT
1 TTTCTTCTTCTTCTT
99296 TTTCTTCTTC
1 TTTCTTCTTC
99306 AGGGTTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTCTTCTTCTTCTT
Found at i:99514 original size:24 final size:24
Alignment explanation
Indices: 99487--99533 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
99477 ATCATAAAAA
99487 TCCGAGTATTGACCAAGATCAAAG
1 TCCGAGTATTGACCAAGATCAAAG
*
99511 TCCGGGTATTGACCAAGATCAAA
1 TCCGAGTATTGACCAAGATCAAA
99534 TTTTGAATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (24 bp):
TCCGAGTATTGACCAAGATCAAAG
Found at i:100384 original size:20 final size:20
Alignment explanation
Indices: 100359--100401 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
100349 GAAATTCAGT
100359 GTTGCGACAGTCAGAATCGC
1 GTTGCGACAGTCAGAATCGC
* *
100379 GTTGCGATAGTCATAATCGC
1 GTTGCGACAGTCAGAATCGC
100399 GTT
1 GTT
100402 ACGATTTACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (20 bp):
GTTGCGACAGTCAGAATCGC
Found at i:100406 original size:20 final size:20
Alignment explanation
Indices: 100367--100406 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
100357 GTGTTGCGAC
*
100367 AGTCAGAATCGCGTTGCGAT
1 AGTCAGAATCGCGTTACGAT
*
100387 AGTCATAATCGCGTTACGAT
1 AGTCAGAATCGCGTTACGAT
100407 TTACATATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (20 bp):
AGTCAGAATCGCGTTACGAT
Found at i:100413 original size:20 final size:20
Alignment explanation
Indices: 100390--100439 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
100380 TTGCGATAGT
* *
100390 CATAATCGCGTTACGATTTA
1 CATATTCGCATTACGATTTA
*
100410 CATATTCGCATTGCGATTTA
1 CATATTCGCATTACGATTTA
100430 CATATTCGCA
1 CATATTCGCA
100440 ACGCGAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (20 bp):
CATATTCGCATTACGATTTA
Found at i:100445 original size:20 final size:20
Alignment explanation
Indices: 100403--100445 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
100393 AATCGCGTTA
**
100403 CGATTTACATATTCGCATTG
1 CGATTTACATATTCGCAACG
100423 CGATTTACATATTCGCAACG
1 CGATTTACATATTCGCAACG
100443 CGA
1 CGA
100446 ATTTGAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (20 bp):
CGATTTACATATTCGCAACG
Found at i:101166 original size:34 final size:34
Alignment explanation
Indices: 101117--101269 Score: 168
Period size: 34 Copynumber: 4.4 Consensus size: 34
101107 TTTTCAATTA
* *
101117 TATATATTTTAAAAATATTTTAAAAACTATATAT
1 TATATATATTCAAAATATTTTAAAAACTATATAT
*
101151 TATATATATTCAAAATATTTTAAAAATTATATAT
1 TATATATATTCAAAATATTTTAAAAACTATATAT
* * *
101185 TATATAGTTTTCAAAATGTTTTAAAAACCGATATAT
1 TATATA-TATTCAAAATATTTTAAAAA-CTATATAT
* *
101221 TATAT-T-TTCAAAATGTTTTAAAAAACCATAT-T
1 TATATATATTCAAAATATTTT-AAAAACTATATAT
101253 ATATATATATTTCAAAA
1 -TATATATA-TTCAAAA
101270 AACGATTTTT
Statistics
Matches: 104, Mismatches: 8, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
32 1 0.01
33 23 0.22
34 44 0.42
35 18 0.17
36 18 0.17
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (34 bp):
TATATATATTCAAAATATTTTAAAAACTATATAT
Found at i:101234 original size:68 final size:68
Alignment explanation
Indices: 101117--101244 Score: 188
Period size: 68 Copynumber: 1.9 Consensus size: 68
101107 TTTTCAATTA
*
101117 TATATATTTTAAAAATATTTTAAAAACTATATATTATATATATTCAAAATATTTTAAAAATTATA
1 TATATATTTTAAAAATATTTTAAAAACGATATATTATATATATTCAAAATATTTTAAAAATTATA
101182 TAT
66 TAT
* * *
101185 TATATAGTTTTCAAAATGTTTTAAAAACCGATATATTATAT-T-TTCAAAATGTTTTAAAAA
1 TATATA-TTTTAAAAATATTTTAAAAA-CGATATATTATATATATTCAAAATATTTTAAAAA
101245 ACCATATTAT
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
68 23 0.43
69 19 0.35
70 12 0.22
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (68 bp):
TATATATTTTAAAAATATTTTAAAAACGATATATTATATATATTCAAAATATTTTAAAAATTATA
TAT
Found at i:105832 original size:19 final size:17
Alignment explanation
Indices: 105808--105847 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 17
105798 ATAATTAAAC
105808 TAAATTAAAAAATATAGAT
1 TAAATT-AAAAATA-AGAT
*
105827 TAAATTGAAAATAAGAT
1 TAAATTAAAAATAAGAT
105844 TAAA
1 TAAA
105848 GTAGGAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 6 0.30
19 6 0.30
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.30
Consensus pattern (17 bp):
TAAATTAAAAATAAGAT
Found at i:113175 original size:13 final size:13
Alignment explanation
Indices: 113153--113182 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
113143 TACACTTTCC
113153 TAAAGACATAATT
1 TAAAGACATAATT
*
113166 TAAAGGCATAATT
1 TAAAGACATAATT
113179 TAAA
1 TAAA
113183 CATAATTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.53, C:0.07, G:0.10, T:0.30
Consensus pattern (13 bp):
TAAAGACATAATT
Found at i:116121 original size:22 final size:22
Alignment explanation
Indices: 116093--116197 Score: 156
Period size: 22 Copynumber: 4.8 Consensus size: 22
116083 AAACCACTAT
*
116093 GTCCCGAAGGACTACTAGATAC
1 GTCCCGAAGGACCACTAGATAC
*
116115 GTCCCGAATGACCACTAGATAC
1 GTCCCGAAGGACCACTAGATAC
*
116137 GTCCCGAAGGACCACTGGATAC
1 GTCCCGAAGGACCACTAGATAC
*
116159 GTCCCGAAGGACCACTGGATAC
1 GTCCCGAAGGACCACTAGATAC
* *
116181 GTCTCGAATGACCACTA
1 GTCCCGAAGGACCACTA
116198 TGTCCTGAAG
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 76 1.00
ACGTcount: A:0.30, C:0.30, G:0.23, T:0.17
Consensus pattern (22 bp):
GTCCCGAAGGACCACTAGATAC
Found at i:116986 original size:20 final size:19
Alignment explanation
Indices: 116919--116977 Score: 64
Period size: 22 Copynumber: 2.9 Consensus size: 19
116909 AATGAAGGTA
116919 TGCATCGATGCACTATACAG
1 TGCATCGATGCACT-TACAG
* *
116939 TGTATCGATGCATCCTTAACGG
1 TGCATCGATGCA--CTT-ACAG
116961 TGCATCGATGCACTTAC
1 TGCATCGATGCACTTAC
116978 TTGTGCATCA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
19 2 0.06
20 14 0.42
21 1 0.03
22 16 0.48
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.29
Consensus pattern (19 bp):
TGCATCGATGCACTTACAG
Found at i:117507 original size:9 final size:9
Alignment explanation
Indices: 117493--117522 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
117483 GAGCTTACGG
117493 GGAGAAGAA
1 GGAGAAGAA
117502 GGAGAAGAA
1 GGAGAAGAA
*
117511 GAAGAAGAA
1 GGAGAAGAA
117520 GGA
1 GGA
117523 AATAAGCTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (9 bp):
GGAGAAGAA
Found at i:128502 original size:11 final size:11
Alignment explanation
Indices: 128471--128502 Score: 55
Period size: 12 Copynumber: 2.8 Consensus size: 11
128461 AATTCGTATT
128471 TTTTAAAGATA
1 TTTTAAAGATA
128482 TTTTAGAAGATA
1 TTTTA-AAGATA
128494 TTTTAAAGA
1 TTTTAAAGA
128503 AAAAGTGGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (11 bp):
TTTTAAAGATA
Found at i:131544 original size:18 final size:19
Alignment explanation
Indices: 131509--131545 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
131499 CACGGAATGT
131509 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
131529 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
131546 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:133285 original size:5 final size:6
Alignment explanation
Indices: 133269--133311 Score: 52
Period size: 6 Copynumber: 6.8 Consensus size: 6
133259 GTTTTTCTTG
133269 CTTTTT CTTTTT CTTTTT GCTTTTAT -TTTTT CTTTTT GCTTTT
1 CTTTTT CTTTTT CTTTTT -CTTTT-T CTTTTT CTTTTT -CTTTT
133312 ACTGAAACAT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
5 1 0.03
6 21 0.64
7 10 0.30
8 1 0.03
ACGTcount: A:0.02, C:0.14, G:0.05, T:0.79
Consensus pattern (6 bp):
CTTTTT
Found at i:133290 original size:19 final size:19
Alignment explanation
Indices: 133266--133312 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
133256 TATGTTTTTC
133266 TTGCTTTT-TCTTTTTCTTT
1 TTGCTTTTAT-TTTTTCTTT
133285 TTGCTTTTATTTTTTCTTT
1 TTGCTTTTATTTTTTCTTT
133304 TTGCTTTTA
1 TTGCTTTTA
133313 CTGAAACATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 26 0.96
20 1 0.04
ACGTcount: A:0.04, C:0.13, G:0.06, T:0.77
Consensus pattern (19 bp):
TTGCTTTTATTTTTTCTTT
Found at i:134403 original size:15 final size:15
Alignment explanation
Indices: 134385--134437 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
134375 AAACTGTAAT
134385 AATTAAAAGTACTAA
1 AATTAAAAGTACTAA
*
134400 AATTTAAA-TACTAGA
1 AATTAAAAGTACTA-A
* *
134415 GATTAAAGGT-CTAA
1 AATTAAAAGTACTAA
134429 AATTAAAAG
1 AATTAAAAG
134438 AATAAAAAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
14 13 0.43
15 16 0.53
16 1 0.03
ACGTcount: A:0.55, C:0.06, G:0.11, T:0.28
Consensus pattern (15 bp):
AATTAAAAGTACTAA
Found at i:136630 original size:2 final size:2
Alignment explanation
Indices: 136623--136647 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
136613 CACCCTTTTA
136623 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
136648 GAAAAGCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:137524 original size:3 final size:3
Alignment explanation
Indices: 137508--137573 Score: 57
Period size: 3 Copynumber: 22.7 Consensus size: 3
137498 ACCTGTAAAA
* * * * *
137508 AAT AAT AA- AA- AAT AAT ATT AAC AAT AGT AAC AAT AAT AAT GAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
137554 AATT AA- AAT AAT AAT AAT AA
1 AA-T AAT AAT AAT AAT AAT AA
137574 ACCATTAAAT
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
2 6 0.12
3 41 0.82
4 3 0.06
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:138669 original size:102 final size:101
Alignment explanation
Indices: 138499--138800 Score: 344
Period size: 102 Copynumber: 3.0 Consensus size: 101
138489 GCTATCACAG
* * * * * *
138499 GTGAGATAAAATTTTGTTTCGAGTGAAACAATTTCAAAATTTACGTTTCAAAGG-GAATTATCTT
1 GTGAGAT-CAATTTTGTTTCAAGTGAAACAATTTCAAAATTTATGTTTCGAAGGAAAACTATC-T
*
138563 AAGCGATATGAAATTTGTTTTTAGGAAAACAATCTAAA
64 AAGCGAGATGAAATTTGTTTTTAGGAAAACAATCTAAA
*
138601 GTGAGATCAATTTTGTCTCAAGTGAAACAATTTCAAAAATTT-TGTTTCGAAGGAAAACTATCTC
1 GTGAGATCAATTTTGTTTCAAGTGAAACAATTTC-AAAATTTATGTTTCGAAGGAAAACTATCT-
* * *
138665 AAGCGAGACGAAATTT-TCTCTTAGGAAAACAATCTCAA
64 AAGCGAGATGAAATTTGT-TTTTAGGAAAACAATCTAAA
* * * * *
138703 GTGAGATCATTTTCTGTTTCAAGTGCAA-AATTACAAAATTTATGTTTCGAGGGAAAACTGTCAT
1 GTGAGATCAATTT-TGTTTCAAGTGAAACAATTTCAAAATTTATGTTTCGAAGGAAAACTATC-T
*
138767 AAGCGAGATGAAATTTGTTTTGA-GAGAAACAATC
64 AAGCGAGATGAAATTTGTTTTTAGGA-AAACAATC
138801 GCAAATTCAT
Statistics
Matches: 171, Mismatches: 20, Indels: 18
0.82 0.10 0.09
Matches are distributed among these distances:
101 44 0.26
102 113 0.66
103 14 0.08
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.33
Consensus pattern (101 bp):
GTGAGATCAATTTTGTTTCAAGTGAAACAATTTCAAAATTTATGTTTCGAAGGAAAACTATCTAA
GCGAGATGAAATTTGTTTTTAGGAAAACAATCTAAA
Found at i:138827 original size:66 final size:66
Alignment explanation
Indices: 138757--138933 Score: 200
Period size: 67 Copynumber: 2.7 Consensus size: 66
138747 TTTCGAGGGA
*
138757 AAACTGTCAT-AAGCGAGATGAAATTTGTTTTGAGAGAAACAATCGC-AAA-TTCATATGTTTCA
1 AAACTGTC-TCAAGCGAGATAAAATTTGTTTTGAGAGAAACAATCGCAAAAGTT--TATGTTTCA
138819 AAAG
63 AAAG
* * * * *
138823 AAACTGTCTCAAGTGAGATTAAACTTTGTTTGGAGAGAAACAATCTCAAAAGTTTATGTTTCAAG
1 AAACTGTCTCAAGCGAGA-TAAAATTTGTTTTGAGAGAAACAATCGCAAAAGTTTATGTTTCAAA
138888 AG
65 AG
* * *
138890 AAACTATCTCAAGCGAGACAAAATTTGTTTTCA-AGAAAACAATC
1 AAACTGTCTCAAGCGAGATAAAATTTGTTTTGAGAG-AAACAATC
138934 TCAAGTTAGA
Statistics
Matches: 94, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
65 3 0.03
66 34 0.36
67 52 0.55
68 3 0.03
69 2 0.02
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.29
Consensus pattern (66 bp):
AAACTGTCTCAAGCGAGATAAAATTTGTTTTGAGAGAAACAATCGCAAAAGTTTATGTTTCAAAA
G
Found at i:138919 original size:36 final size:35
Alignment explanation
Indices: 138879--138972 Score: 100
Period size: 36 Copynumber: 2.6 Consensus size: 35
138869 CAAAAGTTTA
138879 TGTTTCAAGAGAAACTATCTCAAGCGAGA-CAAAATT
1 TGTTTCAAGA-AAACTATCTCAAGCGAGATC-AAATT
* ** *
138915 TGTTTTCAAGAAAACAATCTCAAGTTAGATCAATTT
1 TG-TTTCAAGAAAACTATCTCAAGCGAGATCAAATT
* *
138951 TGTTTCAAAAAAACTTTCTCAA
1 TGTTTCAAGAAAACTATCTCAA
138973 ATGAGACGAA
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
35 17 0.35
36 23 0.47
37 9 0.18
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (35 bp):
TGTTTCAAGAAAACTATCTCAAGCGAGATCAAATT
Found at i:141244 original size:44 final size:43
Alignment explanation
Indices: 141186--141350 Score: 206
Period size: 44 Copynumber: 3.8 Consensus size: 43
141176 GAAGATATGG
*
141186 GCCTTCAAAAATGCCCCAACATTTATCGTTTCTAGATGATATA
1 GCCTTCAAAAATGCCCCAACATTTATCATTTCTAGATGATATA
* *
141229 GACCTT-AAAATATGCCCCATCATTTATCATTTCTAGATGATATGG
1 G-CCTTCAAAA-ATGCCCCAACATTTATCATTTCTAGATGATAT-A
* * * *
141274 GCCTTCAAAAATGCCCCAACACTTATCATTTATGGATGATATTT
1 GCCTTCAAAAATGCCCCAACATTTATCATTTCTAGATGATA-TA
* *
141318 GCTTTAAAAAATGCCCCAACATTTATCATTTCT
1 GCCTTCAAAAATGCCCCAACATTTATCATTTCT
141351 TACTCCAGTA
Statistics
Matches: 105, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
43 5 0.05
44 94 0.90
45 6 0.06
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (43 bp):
GCCTTCAAAAATGCCCCAACATTTATCATTTCTAGATGATATA
Found at i:141332 original size:88 final size:88
Alignment explanation
Indices: 141179--141350 Score: 256
Period size: 88 Copynumber: 2.0 Consensus size: 88
141169 CTTCCTGGAA
* * * *
141179 GATATGGGCCTTCAAAAATGCCCCAACATTTATCGTTTCTAGATGATATAGACCTTAAAATATGC
1 GATATGGGCCTTCAAAAATGCCCCAACACTTATCATTTATAGATGATATAGACCTTAAAAAATGC
*
141244 CCCATCATTTATCATTTCTAGAT
66 CCCAACATTTATCATTTCTAGAT
* * *
141267 GATATGGGCCTTCAAAAATGCCCCAACACTTATCATTTATGGATGATATTTG-CTTTAAAAAATG
1 GATATGGGCCTTCAAAAATGCCCCAACACTTATCATTTATAGATGATA-TAGACCTTAAAAAATG
141331 CCCCAACATTTATCATTTCT
65 CCCCAACATTTATCATTTCT
141351 TACTCCAGTA
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
88 73 0.97
89 2 0.03
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (88 bp):
GATATGGGCCTTCAAAAATGCCCCAACACTTATCATTTATAGATGATATAGACCTTAAAAAATGC
CCCAACATTTATCATTTCTAGAT
Found at i:147566 original size:111 final size:111
Alignment explanation
Indices: 147388--147599 Score: 415
Period size: 111 Copynumber: 1.9 Consensus size: 111
147378 ATACAACTTG
147388 AGTTCGTTTTTGCAAGTGGTAATTGACTTGTGCCTTTGAAGCTTCTTCTCCTGGAGTCCTTTCAA
1 AGTTCGTTTTTGCAAGTGGTAATTGACTTGTGCCTTTGAAGCTTCTTCTCCTGGAGTCCTTTCAA
*
147453 GTTCTTGTGAGGGAGATTAATCTTCACACTTTAATTGACTTGTGCA
66 GTTCTTGTGAGGGAGATTAATCTTCACACTCTAATTGACTTGTGCA
147499 AGTTCGTTTTTGCAAGTGGTAATTGACTTGTGCCTTTGAAGCTTCTTCTCCTGGAGTCCTTTCAA
1 AGTTCGTTTTTGCAAGTGGTAATTGACTTGTGCCTTTGAAGCTTCTTCTCCTGGAGTCCTTTCAA
147564 GTTCTTGTGAGGGAGATTAATCTTCACACTCTAATT
66 GTTCTTGTGAGGGAGATTAATCTTCACACTCTAATT
147600 TGCCTTTTCA
Statistics
Matches: 100, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
111 100 1.00
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.41
Consensus pattern (111 bp):
AGTTCGTTTTTGCAAGTGGTAATTGACTTGTGCCTTTGAAGCTTCTTCTCCTGGAGTCCTTTCAA
GTTCTTGTGAGGGAGATTAATCTTCACACTCTAATTGACTTGTGCA
Found at i:149654 original size:24 final size:24
Alignment explanation
Indices: 149601--149654 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
149591 TAATTCATGT
*
149601 GAATATAATATATAGGGATAATCA
1 GAATATAACATATAGGGATAATCA
*
149625 -ATATATAAACATATAGGGATTA-CA
1 GA-ATAT-AACATATAGGGATAATCA
149649 GAATAT
1 GAATAT
149655 TAAGCAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
23 1 0.04
24 10 0.40
25 14 0.56
ACGTcount: A:0.50, C:0.06, G:0.15, T:0.30
Consensus pattern (24 bp):
GAATATAACATATAGGGATAATCA
Found at i:150631 original size:11 final size:11
Alignment explanation
Indices: 150611--150653 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
150601 AAATTTTCTC
*
150611 TCTTTCTTTTT
1 TCTTTTTTTTT
150622 TCTTTTTTTTT
1 TCTTTTTTTTT
**
150633 TCGTTTAGTTTT
1 TC-TTTTTTTTT
150645 TCTTTTTTT
1 TCTTTTTTT
150654 ATTTGAATTG
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
11 17 0.65
12 9 0.35
ACGTcount: A:0.02, C:0.12, G:0.05, T:0.81
Consensus pattern (11 bp):
TCTTTTTTTTT
Found at i:151193 original size:3 final size:3
Alignment explanation
Indices: 151174--151242 Score: 72
Period size: 3 Copynumber: 23.7 Consensus size: 3
151164 AACCTGTAAA
* * * *
151174 AAT AAT AA- AAG AA- AAT AAT AGT AAT AAT AGT AAT AAT AAT AAT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
151220 AAT AATT AA- AAT AAT AAT AAT AA
1 AAT AA-T AAT AAT AAT AAT AAT AA
151243 ACCATTAAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
2 6 0.11
3 47 0.84
4 3 0.05
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:151608 original size:20 final size:20
Alignment explanation
Indices: 151592--151653 Score: 97
Period size: 20 Copynumber: 3.1 Consensus size: 20
151582 TTACTGTATA
151592 AATAGTACCGATACTGTTTG
1 AATAGTACCGATACTGTTTG
* *
151612 AACAGTATCGATACTGTTTG
1 AATAGTACCGATACTGTTTG
*
151632 AATAGTACCAATACTGTTTG
1 AATAGTACCGATACTGTTTG
151652 AA
1 AA
151654 CAATAATGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.34
Consensus pattern (20 bp):
AATAGTACCGATACTGTTTG
Found at i:153289 original size:15 final size:15
Alignment explanation
Indices: 153242--153296 Score: 60
Period size: 15 Copynumber: 3.8 Consensus size: 15
153232 GATGGTGAAT
* **
153242 GAAGATGAAGAAAGG
1 GAAGAAGAAGAAAAA
153257 GAAG-AGAA-AAAAA
1 GAAGAAGAAGAAAAA
*
153270 CAAGAAGAAGAAAAA
1 GAAGAAGAAGAAAAA
153285 GAAGAAGAAGAA
1 GAAGAAGAAGAA
153297 GGTAGGCACT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
13 6 0.18
14 7 0.21
15 20 0.61
ACGTcount: A:0.67, C:0.02, G:0.29, T:0.02
Consensus pattern (15 bp):
GAAGAAGAAGAAAAA
Found at i:154973 original size:22 final size:21
Alignment explanation
Indices: 154929--154973 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
154919 AACAATTGGA
* *
154929 AACAATTGATATCTTTTTGTT
1 AACAATCGATATCTTTTTATT
*
154950 AACAATCGGTATCTTTTTCATT
1 AACAATCGATATCTTTTT-ATT
154972 AA
1 AA
154974 ACATTGTACT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.31, C:0.13, G:0.09, T:0.47
Consensus pattern (21 bp):
AACAATCGATATCTTTTTATT
Found at i:155416 original size:21 final size:21
Alignment explanation
Indices: 155390--155439 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
155380 AAAGGAGTAT
155390 CGATACCCTATGTAGGGGTAC
1 CGATACCCTATGTAGGGGTAC
155411 CGATACCCTATGTAGGGGTAC
1 CGATACCCTATGTAGGGGTAC
155432 CGATACCC
1 CGATACCC
155440 CCTATTATGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.24, C:0.28, G:0.26, T:0.22
Consensus pattern (21 bp):
CGATACCCTATGTAGGGGTAC
Found at i:156916 original size:103 final size:102
Alignment explanation
Indices: 156775--156995 Score: 293
Period size: 103 Copynumber: 2.2 Consensus size: 102
156765 GCTATCTTAG
* * *
156775 GTGAGATAAAATTTTTTTCGAGTGAAACAATTTCAAAATTTATATTTC-AAGGGGAAATTATCTC
1 GTGAGATAAAATTTTTTTCAAGTGAAACAATTTCAAAATTTATATTTCGAA-GGAAAACTATCTC
*
156839 AAGCGAGATGAAATTTGT-TTTTAGGAAAACAATCTCAA
65 AAGCGAGACGAAATTT-TCTTTTAGGAAAACAATCTCAA
* * * * * *
156877 GTGAGATCAATTTTTTTCTCAAGTGAAACAATTTCAAAATTTTTGTTTCGAAGGAAAACTGTCTG
1 GTGAGATAAAATTTTTT-TCAAGTGAAACAATTTCAAAATTTATATTTCGAAGGAAAACTATCTC
*
156942 AAGCGAGACGATATTTTCTTTTAGGAAAACAATCTCAA
65 AAGCGAGACGAAATTTTCTTTTAGGAAAACAATCTCAA
*
156980 GTGAGATGAAATTTTT
1 GTGAGATAAAATTTTT
156996 GTTTCGAATG
Statistics
Matches: 103, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
102 16 0.16
103 85 0.83
104 2 0.02
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (102 bp):
GTGAGATAAAATTTTTTTCAAGTGAAACAATTTCAAAATTTATATTTCGAAGGAAAACTATCTCA
AGCGAGACGAAATTTTCTTTTAGGAAAACAATCTCAA
Found at i:159515 original size:44 final size:44
Alignment explanation
Indices: 159461--159638 Score: 167
Period size: 44 Copynumber: 4.0 Consensus size: 44
159451 TCTTGCTTTC
* * * *
159461 CTGGAAGATATGGGTCTTAAAAAATGCCCTAACATTTATCGTTT
1 CTGGATGATATGGGCCTTAAAAAATGCCCCAACATTTATCATTT
*** * * *
159505 CTGGATGATATATACCTTTAAAAATGCCCCATCACTTATCATTT
1 CTGGATGATATGGGCCTTAAAAAATGCCCCAACATTTATCATTT
* * *
159549 CTAGATGATATGGGCCTTCAAAAATGCCCCGACATTTATCATTT
1 CTGGATGATATGGGCCTTAAAAAATGCCCCAACATTTATCATTT
* * * * * ** *
159593 TTGGGTGATATTGGCTTTCAAAAATGTTCCAACACTTATCATTT
1 CTGGATGATATGGGCCTTAAAAAATGCCCCAACATTTATCATTT
159637 CT
1 CT
159639 TACTCCGGTA
Statistics
Matches: 106, Mismatches: 28, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
44 106 1.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.36
Consensus pattern (44 bp):
CTGGATGATATGGGCCTTAAAAAATGCCCCAACATTTATCATTT
Found at i:159575 original size:88 final size:88
Alignment explanation
Indices: 159467--159638 Score: 220
Period size: 88 Copynumber: 2.0 Consensus size: 88
159457 TTTCCTGGAA
* * *
159467 GATATGGGTCTTAAAAAATGCCCTAACATTTATCGTTTCTGGATGATATATACCTTT-AAAAATG
1 GATATGGGCCTTAAAAAATGCCCCAACATTTATCATTTCTGGATGATAT-TACCTTTCAAAAATG
*
159531 CCCCATCACTTATCATTTCTAGAT
65 CCCCAACACTTATCATTTCTAGAT
* * * * ** *
159555 GATATGGGCCTTCAAAAATGCCCCGACATTTATCATTTTTGGGTGATATTGGCTTTCAAAAATGT
1 GATATGGGCCTTAAAAAATGCCCCAACATTTATCATTTCTGGATGATATTACCTTTCAAAAATGC
*
159620 TCCAACACTTATCATTTCT
66 CCCAACACTTATCATTTCT
159639 TACTCCGGTA
Statistics
Matches: 71, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
87 5 0.07
88 66 0.93
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.37
Consensus pattern (88 bp):
GATATGGGCCTTAAAAAATGCCCCAACATTTATCATTTCTGGATGATATTACCTTTCAAAAATGC
CCCAACACTTATCATTTCTAGAT
Found at i:167058 original size:46 final size:46
Alignment explanation
Indices: 166986--167125 Score: 226
Period size: 46 Copynumber: 3.0 Consensus size: 46
166976 ATCGTACATA
*
166986 TTGTATTGTATTAGGTGGTGTTAGTATTTTATATCTTATAATTGTG
1 TTGTGTTGTATTAGGTGGTGTTAGTATTTTATATCTTATAATTGTG
*
167032 TTGTGTTGTATTAGGTGGTGTTAGTATTTTATATCTTATAATTATG
1 TTGTGTTGTATTAGGTGGTGTTAGTATTTTATATCTTATAATTGTG
* * * *
167078 TTGCGTTGTATTCGATGATGTTAGTATTTTATATCTTATAATTGTG
1 TTGTGTTGTATTAGGTGGTGTTAGTATTTTATATCTTATAATTGTG
167124 TT
1 TT
167126 ATGACAAGGT
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 87 1.00
ACGTcount: A:0.21, C:0.04, G:0.21, T:0.54
Consensus pattern (46 bp):
TTGTGTTGTATTAGGTGGTGTTAGTATTTTATATCTTATAATTGTG
Found at i:167568 original size:11 final size:11
Alignment explanation
Indices: 167554--167579 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
167544 TTTTAATAGA
167554 ATTATAATTTT
1 ATTATAATTTT
167565 ATTATAATTTT
1 ATTATAATTTT
167576 ATTA
1 ATTA
167580 AAATGTAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
ATTATAATTTT
Found at i:167976 original size:6 final size:6
Alignment explanation
Indices: 167965--167991 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
167955 GATCGTCTTC
167965 TTCCTT TTCCTT TTCCTT TTCCTT TTC
1 TTCCTT TTCCTT TTCCTT TTCCTT TTC
167992 ACAAGTGCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (6 bp):
TTCCTT
Found at i:170993 original size:24 final size:24
Alignment explanation
Indices: 170930--171003 Score: 84
Period size: 24 Copynumber: 3.2 Consensus size: 24
170920 TTGCATATAT
*
170930 TTCCTAATAAA-TG-CAAAGATAA
1 TTCCTAATAAATTGAAAAAGATAA
* *
170952 ATCCCAA-AAATT-ACAAAAGATAA
1 TTCCTAATAAATTGA-AAAAGATAA
170975 TTCCTAATAAATTGAAAAAGATAA
1 TTCCTAATAAATTGAAAAAGATAA
170999 TTCCT
1 TTCCT
171004 TTAATTTCTT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
21 3 0.07
22 6 0.14
23 13 0.31
24 19 0.45
25 1 0.02
ACGTcount: A:0.51, C:0.15, G:0.07, T:0.27
Consensus pattern (24 bp):
TTCCTAATAAATTGAAAAAGATAA
Found at i:174712 original size:19 final size:19
Alignment explanation
Indices: 174690--174732 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 19
174680 ATAAAATTAA
174690 GAAACAAA-AATTAAAAATT
1 GAAACAAACAA-TAAAAATT
174709 GAAACAAACGAATAAAAATT
1 GAAACAAAC-AATAAAAATT
174729 GAAA
1 GAAA
174733 AATGGGTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.36
20 12 0.55
21 2 0.09
ACGTcount: A:0.67, C:0.07, G:0.09, T:0.16
Consensus pattern (19 bp):
GAAACAAACAATAAAAATT
Found at i:180050 original size:21 final size:20
Alignment explanation
Indices: 180005--180057 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 20
179995 GAAACAACGA
***
180005 AGGGATCGATCCATTCTGTG
1 AGGGATCGATCCATTCCCCG
180025 AGGGATCGATCCATTTCCCCG
1 AGGGATCGATCCA-TTCCCCG
*
180046 AGGGATTGATCC
1 AGGGATCGATCC
180058 TTTTGGAAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 13 0.46
21 15 0.54
ACGTcount: A:0.21, C:0.25, G:0.28, T:0.26
Consensus pattern (20 bp):
AGGGATCGATCCATTCCCCG
Found at i:182401 original size:21 final size:18
Alignment explanation
Indices: 182375--182418 Score: 52
Period size: 21 Copynumber: 2.3 Consensus size: 18
182365 AAATAAAGAT
182375 ATTAATTTGGAACTCGAGGAA
1 ATTAATTTGGAA-TC-A-GAA
*
182396 ATTAATTTTGAATCAGAA
1 ATTAATTTGGAATCAGAA
182414 ATTAA
1 ATTAA
182419 CCGTGTATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 8 0.36
19 1 0.05
20 2 0.09
21 11 0.50
ACGTcount: A:0.43, C:0.07, G:0.16, T:0.34
Consensus pattern (18 bp):
ATTAATTTGGAATCAGAA
Found at i:190274 original size:22 final size:23
Alignment explanation
Indices: 190232--190285 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
190222 ATCCTAAGAC
*
190232 ATAATTCCTAATAAATGC-AAAG
1 ATAATTCCTAATAAATACAAAAG
*
190254 ATAAATCCTAA-AAATTACAAAAG
1 ATAATTCCTAATAAA-TACAAAAG
190277 ATAATTCCT
1 ATAATTCCT
190286 TTAATTGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 3 0.11
22 12 0.44
23 12 0.44
ACGTcount: A:0.52, C:0.15, G:0.06, T:0.28
Consensus pattern (23 bp):
ATAATTCCTAATAAATACAAAAG
Found at i:191550 original size:49 final size:49
Alignment explanation
Indices: 191478--191749 Score: 323
Period size: 49 Copynumber: 5.6 Consensus size: 49
191468 TTAGTGGGTG
* * * * * *
191478 GCACCTTTAAGCATTTAACTTGCATTAGTTGCACATTTCTACCCAACAT
1 GCACCATTATGCATTTAACTTGCATTAGTTGCACCTTTCTGCCAAAAAT
* *
191527 GCACCATTATGCATTTAACTTGCATTAGTGGCACCTTTCTGGCAAAAAT
1 GCACCATTATGCATTTAACTTGCATTAGTTGCACCTTTCTGCCAAAAAT
* * *
191576 GCAACATTATGCATTTAACTTTCATTAG-TGACACCTTTTTGCCAAAAAT
1 GCACCATTATGCATTTAACTTGCATTAGTTG-CACCTTTCTGCCAAAAAT
* * * * * * *
191625 ACACCATTATACATTTAACTTTCATTAGTGGCACTTTTTTGCCAAGAAT
1 GCACCATTATGCATTTAACTTGCATTAGTTGCACCTTTCTGCCAAAAAT
*
191674 GCATCATTATGCATTTAACTTGCATTAG-TGACACCTTTCTGCCAAAAAT
1 GCACCATTATGCATTTAACTTGCATTAGTTG-CACCTTTCTGCCAAAAAT
* *
191723 GCACCATTATACATTTAACTTTCATTA
1 GCACCATTATGCATTTAACTTGCATTA
191750 TAGAACAATT
Statistics
Matches: 190, Mismatches: 30, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
48 2 0.01
49 187 0.98
50 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (49 bp):
GCACCATTATGCATTTAACTTGCATTAGTTGCACCTTTCTGCCAAAAAT
Done.