Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 272 of 290
Found at i:87284200 original size:27 final size:25
Alignment explanation
Indices: 87284170--87284224 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 25
87284160 ACCTATTACA
*
87284170 ATACTACATGGATATATACCTATATAT
1 ATACTACA--GATATATACATATATAT
*
87284197 ATACTAGAGATATATACATATATAT
1 ATACTACAGATATATACATATATAT
87284222 ATA
1 ATA
87284225 AAATATATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 19 0.73
27 7 0.27
ACGTcount: A:0.45, C:0.11, G:0.07, T:0.36
Consensus pattern (25 bp):
ATACTACAGATATATACATATATAT
Found at i:87284217 original size:23 final size:22
Alignment explanation
Indices: 87284180--87284236 Score: 71
Period size: 21 Copynumber: 2.5 Consensus size: 22
87284170 ATACTACATG
87284180 GATATATACCTATATATATACTAGA
1 GATATATA-CTATATATATA-TA-A
87284205 GATATATAC-ATATATATATAA
1 GATATATACTATATATATATAA
*
87284226 AATATATACTA
1 GATATATACTA
87284237 AGATTAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 9 0.30
22 3 0.10
23 9 0.30
24 1 0.03
25 8 0.27
ACGTcount: A:0.49, C:0.09, G:0.05, T:0.37
Consensus pattern (22 bp):
GATATATACTATATATATATAA
Found at i:87284402 original size:24 final size:25
Alignment explanation
Indices: 87284342--87284403 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 25
87284332 ATTATTGAAA
* *
87284342 ATACATGTTCATAATATATAAAACGT
1 ATACATGAT-ATAATATATAAAACAT
* *
87284368 ATATATAATATAATAT-TAAAACAT
1 ATACATGATATAATATATAAAACAT
*
87284392 TTACATGATATA
1 ATACATGATATA
87284404 TACACACATA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
24 16 0.55
25 7 0.24
26 6 0.21
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.37
Consensus pattern (25 bp):
ATACATGATATAATATATAAAACAT
Found at i:87284494 original size:23 final size:24
Alignment explanation
Indices: 87284468--87284518 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
87284458 TTACATAAAG
* *
87284468 ATATACT-TATATATATATATTAA
1 ATATACTATATACATATATAATAA
87284491 ATATA-TATATACATATATAATAA
1 ATATACTATATACATATATAATAA
87284514 A-ATAC
1 ATATAC
87284519 ACGAATAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
22 4 0.17
23 20 0.83
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (24 bp):
ATATACTATATACATATATAATAA
Found at i:87284597 original size:20 final size:21
Alignment explanation
Indices: 87284564--87284605 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
87284554 TATGATAAAG
* *
87284564 ATAATAATATACATAATCTAT
1 ATAATAATACACATAATATAT
87284585 ATAA-AATACACATAATATAT
1 ATAATAATACACATAATATAT
87284605 A
1 A
87284606 CGCATATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (21 bp):
ATAATAATACACATAATATAT
Found at i:87284646 original size:3 final size:3
Alignment explanation
Indices: 87284638--87284681 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
87284628 TATTATATAG
* *
87284638 TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA TAA TAC TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
87284682 CAAAAAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:87287702 original size:46 final size:46
Alignment explanation
Indices: 87287652--87287827 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
87287642 TGGTTGAGCA
87287652 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
87287698 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
87287743 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCAGTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
87287791 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
87287828 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.56
47 29 0.26
48 4 0.04
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:87287808 original size:93 final size:93
Alignment explanation
Indices: 87287649--87287820 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
87287639 GGATGGTTGA
* *
87287649 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
87287714 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
87287742 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAGTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
87287807 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
87287821 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:87296302 original size:44 final size:45
Alignment explanation
Indices: 87296249--87296351 Score: 145
Period size: 44 Copynumber: 2.3 Consensus size: 45
87296239 TGTCTTTGAC
* * *
87296249 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
* *
87296293 ATGGACTTACATGACTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATA-TTATAAT
87296339 ATGGACTTACATG
1 ATGGACTTACATG
87296352 GCTCATTTCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
44 34 0.65
46 18 0.35
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.34
Consensus pattern (45 bp):
ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
Found at i:87298800 original size:18 final size:18
Alignment explanation
Indices: 87298746--87298800 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
87298736 ACGACCATTG
*
87298746 ATGGCACTATTCATGTAT
1 ATGGCACTATTCACGTAT
*
87298764 ATGGCACTATTCACATAT
1 ATGGCACTATTCACGTAT
* *
87298782 ATGGTACTATTTACGTAT
1 ATGGCACTATTCACGTAT
87298800 A
1 A
87298801 CAGTACTGTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (18 bp):
ATGGCACTATTCACGTAT
Found at i:87298806 original size:18 final size:18
Alignment explanation
Indices: 87298769--87298823 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 18
87298759 TGTATATGGC
* **
87298769 ACTATTCACATATATGGT
1 ACTATTCACGTATACAGT
*
87298787 ACTATTTACGTATACAGT
1 ACTATTCACGTATACAGT
*
87298805 ACTGTTCACGTATACAGT
1 ACTATTCACGTATACAGT
87298823 A
1 A
87298824 GTTGGGATTG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (18 bp):
ACTATTCACGTATACAGT
Found at i:87303738 original size:20 final size:18
Alignment explanation
Indices: 87303704--87303748 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
87303694 AAACTTTCAA
87303704 TTTTCCCTTTCTTCTTTC
1 TTTTCCCTTTCTTCTTTC
87303722 TTTTCTCCTTTCTTTCTTTC
1 TTTTC-CCTTTC-TTCTTTC
87303742 -TTTCCCT
1 TTTTCCCT
87303749 GCTTTTCGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.32
19 10 0.40
20 7 0.28
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTCCCTTTCTTCTTTC
Found at i:87305481 original size:27 final size:26
Alignment explanation
Indices: 87305444--87305494 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 26
87305434 TACAAGGACT
87305444 TATGACATATTTTAACTTAGTATAAAAA
1 TATGACATATTTTAA-TTA-TATAAAAA
87305472 TATGA-ATATTTTAATTATATAAA
1 TATGACATATTTTAATTATATAAA
87305495 TATGAGTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 6 0.26
26 3 0.13
27 9 0.39
28 5 0.22
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (26 bp):
TATGACATATTTTAATTATATAAAAA
Found at i:87308554 original size:3 final size:3
Alignment explanation
Indices: 87308546--87308576 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
87308536 TATGGGTTCA
87308546 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
87308577 CAGATTTGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:87308961 original size:58 final size:58
Alignment explanation
Indices: 87308871--87308989 Score: 238
Period size: 58 Copynumber: 2.1 Consensus size: 58
87308861 GGATTGGAGG
87308871 CTGGCAGCCATGTGTTGTGACTGCACTTTACCCTCTCATGCTACATCCCCTCCCACAT
1 CTGGCAGCCATGTGTTGTGACTGCACTTTACCCTCTCATGCTACATCCCCTCCCACAT
87308929 CTGGCAGCCATGTGTTGTGACTGCACTTTACCCTCTCATGCTACATCCCCTCCCACAT
1 CTGGCAGCCATGTGTTGTGACTGCACTTTACCCTCTCATGCTACATCCCCTCCCACAT
87308987 CTG
1 CTG
87308990 ACTCCTGTTC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 61 1.00
ACGTcount: A:0.17, C:0.38, G:0.16, T:0.29
Consensus pattern (58 bp):
CTGGCAGCCATGTGTTGTGACTGCACTTTACCCTCTCATGCTACATCCCCTCCCACAT
Found at i:87316410 original size:7 final size:6
Alignment explanation
Indices: 87316380--87316422 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
87316370 TTACACACTC
* *
87316380 TCTTTT TCTTTT TCTTTT T-TTTT TCTATTT TCTATT TATTTT T
1 TCTTTT TCTTTT TCTTTT TCTTTT TCT-TTT TCTTTT TCTTTT T
87316423 TACTATTTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
5 5 0.16
6 21 0.66
7 6 0.19
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.81
Consensus pattern (6 bp):
TCTTTT
Found at i:87320213 original size:30 final size:29
Alignment explanation
Indices: 87320179--87320237 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
87320169 CAAAGTTTTG
* *
87320179 TTCACTATTTTCATTTTTTTTTTTTTAGAA
1 TTCACTATCTTCA-TTATTTTTTTTTAGAA
*
87320209 TTCACTGTCTTCATTATTTTTTTTTAGAA
1 TTCACTATCTTCATTATTTTTTTTTAGAA
87320238 AATGGAAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.20, C:0.12, G:0.05, T:0.63
Consensus pattern (29 bp):
TTCACTATCTTCATTATTTTTTTTTAGAA
Found at i:87323268 original size:21 final size:21
Alignment explanation
Indices: 87323242--87323285 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
87323232 AAAATTAAAT
* *
87323242 ATAATAATAAATAATATTTAA
1 ATAATAATAAATAAAATATAA
*
87323263 ATAATAATATATAAAATATAA
1 ATAATAATAAATAAAATATAA
87323284 AT
1 AT
87323286 TAATCTAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
ATAATAATAAATAAAATATAA
Found at i:87323275 original size:31 final size:31
Alignment explanation
Indices: 87323222--87323280 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
87323212 TGATATATAA
87323222 AATATTTTAAAAAATTAAATATAATAATAAAT
1 AATATTTTAAAAAATTAAATATAA-AATAAAT
*
87323254 AATA-TTTAAATAA-TAATATATAAAATA
1 AATATTTTAAAAAATTAA-ATATAAAATA
87323281 TAAATTAATC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 7 0.28
31 14 0.56
32 4 0.16
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (31 bp):
AATATTTTAAAAAATTAAATATAAAATAAAT
Found at i:87336960 original size:24 final size:24
Alignment explanation
Indices: 87336932--87336981 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
87336922 TTTACAACAT
**
87336932 TATTTATTATTGTACCTGTAATTA
1 TATTTATTAAGGTACCTGTAATTA
* *
87336956 TATTTTTTAAGGTACTTGTAATTA
1 TATTTATTAAGGTACCTGTAATTA
87336980 TA
1 TA
87336982 CTAATAAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.30, C:0.06, G:0.10, T:0.54
Consensus pattern (24 bp):
TATTTATTAAGGTACCTGTAATTA
Found at i:87337880 original size:7 final size:7
Alignment explanation
Indices: 87337870--87337938 Score: 54
Period size: 7 Copynumber: 10.1 Consensus size: 7
87337860 AACCTTGAAT
87337870 CTCAAAC
1 CTCAAAC
87337877 CTCAAAC
1 CTCAAAC
*
87337884 CTCAAAA
1 CTCAAAC
*
87337891 CTTAAAC
1 CTCAAAC
*
87337898 GTCAAAC
1 CTCAAAC
87337905 C-CAAA-
1 CTCAAAC
**
87337910 CTGTGAAC
1 CT-CAAAC
87337918 C-CAAAC
1 CTCAAAC
*
87337924 CTCGAAC
1 CTCAAAC
87337931 CTCAAAC
1 CTCAAAC
87337938 C
1 C
87337939 CCAAGTTTAA
Statistics
Matches: 46, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
5 1 0.02
6 8 0.17
7 36 0.78
8 1 0.02
ACGTcount: A:0.42, C:0.38, G:0.06, T:0.14
Consensus pattern (7 bp):
CTCAAAC
Found at i:87346848 original size:93 final size:93
Alignment explanation
Indices: 87346689--87346859 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
87346679 GCCTATAAGT
* * *
87346689 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
87346754 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
87346782 GAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
87346847 CGAGTTCGGATGC
66 CGAGCTCGGATGC
87346860 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:87346856 original size:46 final size:46
Alignment explanation
Indices: 87346683--87346856 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 46
87346673 TAACCTGCCT
* *
87346683 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCC
* *
87346729 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTTAC
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--TCC
*** * *
87346775 ATCTCTCGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCC
1 ATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCC
*
87346822 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
87346857 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 67 0.63
47 31 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCC
Found at i:87350312 original size:11 final size:11
Alignment explanation
Indices: 87350296--87350321 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
87350286 TCTTTCCAAC
87350296 AAAAAAAAACA
1 AAAAAAAAACA
87350307 AAAAAAAAACA
1 AAAAAAAAACA
87350318 AAAA
1 AAAA
87350322 CTTCAACAAA
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:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAAACA
Found at i:87351786 original size:17 final size:19
Alignment explanation
Indices: 87351749--87351788 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
87351739 TTTTCCAATT
87351749 TTTTAATATTATTTTTGAA
1 TTTTAATATTATTTTTGAA
87351768 TTTTAATA-TATTTTT-AA
1 TTTTAATATTATTTTTGAA
87351785 TTTT
1 TTTT
87351789 TTTAAATGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 6 0.29
18 7 0.33
19 8 0.38
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (19 bp):
TTTTAATATTATTTTTGAA
Found at i:87351789 original size:18 final size:20
Alignment explanation
Indices: 87351748--87351789 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
87351738 ATTTTCCAAT
87351748 TTTTTAATATTATTTTTGAA
1 TTTTTAATATTATTTTTGAA
87351768 -TTTTAATA-TATTTTT-AA
1 TTTTTAATATTATTTTTGAA
87351785 TTTTT
1 TTTTT
87351790 TTAAATGTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 2 0.10
18 11 0.52
19 8 0.38
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTTTAATATTATTTTTGAA
Found at i:87351793 original size:20 final size:19
Alignment explanation
Indices: 87351727--87351790 Score: 62
Period size: 19 Copynumber: 3.3 Consensus size: 19
87351717 ATATATTATT
*
87351727 TTTTTTAATGA-ATTTTCCAA
1 TTTTTTAAT-ATATTTT-TAA
87351747 TTTTTTAATATTATTTTTGAA
1 TTTTTTAATA-TATTTTT-AA
87351768 --TTTTAATATATTTTTAA
1 TTTTTTAATATATTTTTAA
87351785 TTTTTT
1 TTTTTT
87351791 TAAATGTGTC
Statistics
Matches: 38, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
17 2 0.05
18 7 0.18
19 13 0.34
20 9 0.24
21 7 0.18
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (19 bp):
TTTTTTAATATATTTTTAA
Found at i:87356620 original size:21 final size:20
Alignment explanation
Indices: 87356596--87356635 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
87356586 ATTGGTCCTA
87356596 TTTAAAGTATAAAAAAATAAT
1 TTTAAA-TATAAAAAAATAAT
**
87356617 TTTAAATATGTAAAAATAA
1 TTTAAATATAAAAAAATAA
87356636 ATTATTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (20 bp):
TTTAAATATAAAAAAATAAT
Found at i:87357485 original size:10 final size:10
Alignment explanation
Indices: 87357464--87357528 Score: 55
Period size: 10 Copynumber: 6.4 Consensus size: 10
87357454 AAAATTATTT
87357464 TTAAAAA-T-
1 TTAAAAATTA
87357472 TTAAAAATTA
1 TTAAAAATTA
87357482 TT-AAAATTA
1 TTAAAAATTA
*
87357491 TTAAAAAGTA
1 TTAAAAATTA
*
87357501 TAAAAAATATA
1 TTAAAAAT-TA
87357512 TTTGAAAAATTAA
1 -TT-AAAAATT-A
87357525 TTAA
1 TTAA
87357529 TTGTTAACGT
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
8 7 0.15
9 10 0.22
10 14 0.30
11 4 0.09
12 4 0.09
13 7 0.15
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (10 bp):
TTAAAAATTA
Found at i:87357504 original size:9 final size:9
Alignment explanation
Indices: 87357465--87357511 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
87357455 AAATTATTTT
87357465 TAAAAATT-
1 TAAAAATTA
87357473 TAAAAATTA
1 TAAAAATTA
*
87357482 TTAAAATTA
1 TAAAAATTA
*
87357491 TTAAAAAGTA
1 -TAAAAATTA
*
87357501 TAAAAAATA
1 TAAAAATTA
87357510 TA
1 TA
87357512 TTTGAAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
8 8 0.24
9 18 0.55
10 7 0.21
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (9 bp):
TAAAAATTA
Found at i:87358825 original size:27 final size:28
Alignment explanation
Indices: 87358766--87358829 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
87358756 CAACTTAAGG
* *
87358766 GAAAAAATAGTTTAGGTACCACATGTGA
1 GAAAAAAAAGTTTAGGTACCACATATGA
* *
87358794 CAAAAAAAAGTTTAGGTACTA-ATATGA
1 GAAAAAAAAGTTTAGGTACCACATATGA
87358821 GAAAAAAAA
1 GAAAAAAAA
87358830 TTAGTTTAGT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
27 13 0.42
28 18 0.58
ACGTcount: A:0.53, C:0.08, G:0.17, T:0.22
Consensus pattern (28 bp):
GAAAAAAAAGTTTAGGTACCACATATGA
Found at i:87363377 original size:21 final size:21
Alignment explanation
Indices: 87363351--87363412 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
87363341 ACAAGTGCTA
87363351 AACGGAAACCCATAAGGGTTG
1 AACGGAAACCCATAAGGGTTG
* * * * *
87363372 AACGGAAGCACACAAGAGCTG
1 AACGGAAACCCATAAGGGTTG
87363393 AACGGAAACCCATAAGGGTT
1 AACGGAAACCCATAAGGGTT
87363413 AAACTGAAGC
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.40, C:0.21, G:0.27, T:0.11
Consensus pattern (21 bp):
AACGGAAACCCATAAGGGTTG
Found at i:87363384 original size:42 final size:42
Alignment explanation
Indices: 87363325--87363447 Score: 156
Period size: 42 Copynumber: 2.9 Consensus size: 42
87363315 GAAGTCCGAA
* *
87363325 GGTTGCACAGAAGCACACAAGTGCTAAACGGAAACCCATAAG
1 GGTTGAACAGAAGCACACAAGAGCTAAACGGAAACCCATAAG
* *
87363367 GGTTGAACGGAAGCACACAAGAGCTGAACGGAAACCCATAAG
1 GGTTGAACAGAAGCACACAAGAGCTAAACGGAAACCCATAAG
* * * * **
87363409 GGTTAAACTGAAGCTCAAAAGAGCTAAATTGAAACCCAT
1 GGTTGAACAGAAGCACACAAGAGCTAAACGGAAACCCAT
87363448 TAAAGTTAAA
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.41, C:0.21, G:0.24, T:0.14
Consensus pattern (42 bp):
GGTTGAACAGAAGCACACAAGAGCTAAACGGAAACCCATAAG
Found at i:87366885 original size:17 final size:17
Alignment explanation
Indices: 87366863--87366895 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
87366853 GTGATATTAA
*
87366863 TAATAAAATAAATAAAG
1 TAATAAAAGAAATAAAG
87366880 TAATAAAAGAAATAAA
1 TAATAAAAGAAATAAA
87366896 ATGCGAGATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.21
Consensus pattern (17 bp):
TAATAAAAGAAATAAAG
Found at i:87368385 original size:6 final size:6
Alignment explanation
Indices: 87368374--87368399 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
87368364 AAATAATAAA
87368374 AAATTT AAATTT AAATTT AAATTT AA
1 AAATTT AAATTT AAATTT AAATTT AA
87368400 TTAGAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
AAATTT
Found at i:87368424 original size:24 final size:21
Alignment explanation
Indices: 87368392--87368434 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 21
87368382 ATTTAAATTT
87368392 AAATTTAATTAGAAAAATATATA
1 AAATTTAATT--AAAAATATATA
87368415 AAATATTAATTAAAAATATA
1 AAAT-TTAATTAAAAATATA
87368435 ATTTTTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (21 bp):
AAATTTAATTAAAAATATATA
Found at i:87374131 original size:16 final size:16
Alignment explanation
Indices: 87374110--87374141 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
87374100 AATAATTTGA
*
87374110 ATCAAAATAGAAAAAC
1 ATCAAAATAAAAAAAC
87374126 ATCAAAATAAAAAAAC
1 ATCAAAATAAAAAAAC
87374142 GGTCGTGTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.72, C:0.12, G:0.03, T:0.12
Consensus pattern (16 bp):
ATCAAAATAAAAAAAC
Found at i:87377047 original size:21 final size:21
Alignment explanation
Indices: 87377023--87377066 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
87377013 TTGGTCTCGG
87377023 TTTTTTT-TCTTGACTCCAAT
1 TTTTTTTATCTTGACTCCAAT
**
87377043 TTTTTTTATCTTGGGTCCAAT
1 TTTTTTTATCTTGACTCCAAT
87377064 TTT
1 TTT
87377067 AAAAAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.14, C:0.16, G:0.09, T:0.61
Consensus pattern (21 bp):
TTTTTTTATCTTGACTCCAAT
Found at i:87383989 original size:64 final size:64
Alignment explanation
Indices: 87383913--87384097 Score: 196
Period size: 67 Copynumber: 2.9 Consensus size: 64
87383903 AGACATTATG
* * * *
87383913 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
87383977 ATGTAGCTAGGTCACATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCACATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
87384042 AA
63 AA
* * *
87384044 AT-TGGCTAAGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGCT
1 ATGTAGCTAGGTCACATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGCT
87384098 GAACTATATG
Statistics
Matches: 99, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 20 0.20
64 24 0.24
66 21 0.21
67 33 0.33
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:87388612 original size:21 final size:23
Alignment explanation
Indices: 87388569--87388613 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
87388559 TTAACATGTT
87388569 TATGACTTAGATTTATTATTAAA
1 TATGACTTAGATTTATTATTAAA
* *
87388592 TATGATTTA-ATTT-TTTTTAAA
1 TATGACTTAGATTTATTATTAAA
87388613 T
1 T
87388614 GCTTTGGAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 4 0.20
23 8 0.40
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.56
Consensus pattern (23 bp):
TATGACTTAGATTTATTATTAAA
Found at i:87391572 original size:30 final size:30
Alignment explanation
Indices: 87391527--87391586 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
87391517 ATTTAATATG
*
87391527 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
87391557 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
87391587 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:87392254 original size:13 final size:13
Alignment explanation
Indices: 87392236--87392266 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
87392226 TTTTCACACA
87392236 ATCATGCAATCAT
1 ATCATGCAATCAT
87392249 ATCATGCAATCAT
1 ATCATGCAATCAT
87392262 ATCAT
1 ATCAT
87392267 AAACATCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.39, C:0.23, G:0.06, T:0.32
Consensus pattern (13 bp):
ATCATGCAATCAT
Found at i:87396025 original size:5 final size:5
Alignment explanation
Indices: 87396015--87396081 Score: 134
Period size: 5 Copynumber: 13.4 Consensus size: 5
87396005 TTATGTTTTA
87396015 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
87396065 ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT AT
87396082 AAAGAAACAA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 62 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTAT
Found at i:87397026 original size:20 final size:23
Alignment explanation
Indices: 87396976--87397031 Score: 73
Period size: 21 Copynumber: 2.5 Consensus size: 23
87396966 AAAATGAATG
87396976 GAATTATATTGAATTGAAAATATA
1 GAATTA-ATTGAATTGAAAATATA
*
87397000 TAATTAATT-AATT-AAAATAT-
1 GAATTAATTGAATTGAAAATATA
87397020 GAATTAATTGAA
1 GAATTAATTGAA
87397032 AACTGAAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 8 0.28
21 9 0.31
22 4 0.14
23 3 0.10
24 5 0.17
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (23 bp):
GAATTAATTGAATTGAAAATATA
Found at i:87397170 original size:12 final size:12
Alignment explanation
Indices: 87397153--87397177 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
87397143 GCCGACTACT
87397153 GTTACTGTTACC
1 GTTACTGTTACC
87397165 GTTACTGTTACC
1 GTTACTGTTACC
87397177 G
1 G
87397178 ATTTGACACT
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:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:87397466 original size:18 final size:18
Alignment explanation
Indices: 87397403--87397471 Score: 52
Period size: 18 Copynumber: 3.8 Consensus size: 18
87397393 GGAAAGATCA
*
87397403 ACTGTTACTGAATAATTTA
1 ACTGTTACTGAATAA-TTG
* *
87397422 ATTGTT-CTGTAT-ATCTG
1 ACTGTTACTGAATAAT-TG
* *
87397439 ATTTTTACTGAATAATTG
1 ACTGTTACTGAATAATTG
*
87397457 ACTGTTACTGGATAA
1 ACTGTTACTGAATAA
87397472 CCGATCAATT
Statistics
Matches: 39, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
16 1 0.03
17 7 0.18
18 24 0.62
19 7 0.18
ACGTcount: A:0.30, C:0.10, G:0.14, T:0.45
Consensus pattern (18 bp):
ACTGTTACTGAATAATTG
Found at i:87397531 original size:18 final size:18
Alignment explanation
Indices: 87397481--87397595 Score: 88
Period size: 18 Copynumber: 6.3 Consensus size: 18
87397471 ACCGATCAAT
*
87397481 TGATTGATACTGAATAAC
1 TGATTGTTACTGAATAAC
* * * *
87397499 TGATTATCATTGAATAAT
1 TGATTGTTACTGAATAAC
*
87397517 TGATTGTTACCGAATAAC
1 TGATTGTTACTGAATAAC
* *
87397535 TGACTGTTACTGAATAAA
1 TGATTGTTACTGAATAAC
* * * *
87397553 TAATCGTT-CTGATTGAC
1 TGATTGTTACTGAATAAC
*
87397570 TGATTGTTAATGAATATTAC
1 TGATTGTTACTGAATA--AC
87397590 TGATTG
1 TGATTG
87397596 ATTAATTGCT
Statistics
Matches: 70, Mismatches: 24, Indels: 4
0.71 0.24 0.04
Matches are distributed among these distances:
17 12 0.17
18 50 0.71
20 8 0.11
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (18 bp):
TGATTGTTACTGAATAAC
Found at i:87398748 original size:22 final size:23
Alignment explanation
Indices: 87398722--87398767 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
87398712 CAACCAAACC
87398722 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
87398744 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
87398767 A
1 A
87398768 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:87398773 original size:23 final size:23
Alignment explanation
Indices: 87398729--87398773 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
87398719 ACCAATTCAA
*
87398729 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
87398752 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
87398774 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:87408074 original size:31 final size:31
Alignment explanation
Indices: 87408016--87408075 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
87408006 TCATTGTACC
*
87408016 CAAAATTTCACGTATATATTTGAATCAAAAT
1 CAAAATTTCACGTATATAATTGAATCAAAAT
* *
87408047 CAAAATTTCATGTGTATAATT-ATATCAAA
1 CAAAATTTCACGTATATAATTGA-ATCAAA
87408076 CCAAAAGTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 1 0.04
31 24 0.96
ACGTcount: A:0.45, C:0.12, G:0.07, T:0.37
Consensus pattern (31 bp):
CAAAATTTCACGTATATAATTGAATCAAAAT
Found at i:87410703 original size:27 final size:27
Alignment explanation
Indices: 87410671--87410722 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
87410661 ATTTTTTTAG
87410671 AATTTTTA-AAA-ATTATATAAATTTTGT
1 AATTTTTATAAATATT-T-TAAATTTTGT
87410698 AATTTTTATAAATATTTTAAATTTT
1 AATTTTTATAAATATTTTAAATTTT
87410723 TGAAAATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
27 16 0.70
28 4 0.17
29 3 0.13
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (27 bp):
AATTTTTATAAATATTTTAAATTTTGT
Found at i:87410714 original size:20 final size:21
Alignment explanation
Indices: 87410691--87410737 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
87410681 AATTATATAA
*
87410691 ATTTTGTAATTTTT-ATAAA-T
1 ATTTTGAAATTTTTGA-AAATT
87410711 ATTTT-AAATTTTTGAAAATT
1 ATTTTGAAATTTTTGAAAATT
87410731 ATTTTGA
1 ATTTTGA
87410738 TTACTTTTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 10 0.43
20 12 0.52
21 1 0.04
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.57
Consensus pattern (21 bp):
ATTTTGAAATTTTTGAAAATT
Found at i:87410729 original size:19 final size:20
Alignment explanation
Indices: 87410686--87410735 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 20
87410676 TTAAAAATTA
*
87410686 TATAAATT-TTGT-AATTTT
1 TATAAATTATTTTAAATTTT
87410704 TATAAA-TATTTTAAATTTT
1 TATAAATTATTTTAAATTTT
87410723 TGA-AAATTATTTT
1 T-ATAAATTATTTT
87410736 GATTACTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 1 0.04
18 9 0.33
19 10 0.37
20 7 0.26
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (20 bp):
TATAAATTATTTTAAATTTT
Found at i:87411703 original size:22 final size:22
Alignment explanation
Indices: 87411661--87411703 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
87411651 TGAAATTTTT
*
87411661 TATTTTAATATTAAAGTATAAA
1 TATTTTAATATTAAAGAATAAA
*
87411683 TATTTTGAATTTTAAA-AATAA
1 TATTTT-AATATTAAAGAATAA
87411704 TTTACAGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (22 bp):
TATTTTAATATTAAAGAATAAA
Found at i:87415561 original size:16 final size:15
Alignment explanation
Indices: 87415523--87415564 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 15
87415513 TTATAATATT
87415523 TTAATTTTTTA-TAA
1 TTAATTTTTTATTAA
*
87415537 -TAATATTTTATTAAA
1 TTAATTTTTTATT-AA
87415552 TTAATTTTTTATT
1 TTAATTTTTTATT
87415565 TAATGTGATG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.39
14 1 0.04
15 2 0.09
16 11 0.48
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TTAATTTTTTATTAA
Found at i:87416834 original size:18 final size:18
Alignment explanation
Indices: 87416811--87416845 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
87416801 AGACAATAAT
* *
87416811 AAATTTTTAATTAATTAA
1 AAATTTTAAAGTAATTAA
87416829 AAATTTTAAAGTAATTA
1 AAATTTTAAAGTAATTA
87416846 CTCCTTCAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (18 bp):
AAATTTTAAAGTAATTAA
Found at i:87418966 original size:3 final size:3
Alignment explanation
Indices: 87418958--87418993 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
87418948 TTTGCACATT
87418958 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
87418994 ATGGTCCAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:87419864 original size:30 final size:30
Alignment explanation
Indices: 87419821--87419879 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
87419811 CTTAACAAGA
87419821 AAATGCCTCTAAAATAATAACAAAATTAAC
1 AAATGCCTCTAAAATAATAACAAAATTAAC
* *
87419851 AAATGTCTTTAAAATAATAACAAAATTAA
1 AAATGCCTCTAAAATAATAACAAAATTAA
87419880 TAATAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.58, C:0.12, G:0.03, T:0.27
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAACAAAATTAAC
Found at i:87427171 original size:33 final size:33
Alignment explanation
Indices: 87427107--87427185 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 33
87427097 TTTCTAAATG
*
87427107 TATTTTTAATCTATTGGAAAATATTTATTTTAA
1 TATTTTTAATATATTGGAAAATATTTATTTTAA
* * *
87427140 TATTTTTAATATATTTG-ATATATTATTTTTTAA
1 TATTTTTAATATATTGGAAAATATT-TATTTTAA
* *
87427173 TTTTTTTTATATA
1 TATTTTTAATATA
87427186 AAAAGGTAAC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
32 6 0.15
33 33 0.85
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.62
Consensus pattern (33 bp):
TATTTTTAATATATTGGAAAATATTTATTTTAA
Found at i:87428252 original size:22 final size:21
Alignment explanation
Indices: 87428201--87428253 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 21
87428191 TAATAACAAT
* *
87428201 AAAAATAACAATATAATAGTG
1 AAAAATAACATTAAAATAGTG
*
87428222 --AAATGACATTAAAATAGTG
1 AAAAATAACATTAAAATAGTG
87428241 AAAAAATAACATT
1 -AAAAATAACATT
87428254 TTTTTTGCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
19 16 0.64
22 9 0.36
ACGTcount: A:0.60, C:0.06, G:0.09, T:0.25
Consensus pattern (21 bp):
AAAAATAACATTAAAATAGTG
Found at i:87429015 original size:14 final size:14
Alignment explanation
Indices: 87428996--87429023 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
87428986 TCGAGTACGT
87428996 TAAAGCACATTATC
1 TAAAGCACATTATC
87429010 TAAAGCACATTATC
1 TAAAGCACATTATC
87429024 CTCTTATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (14 bp):
TAAAGCACATTATC
Found at i:87431328 original size:20 final size:20
Alignment explanation
Indices: 87431298--87431368 Score: 94
Period size: 19 Copynumber: 3.6 Consensus size: 20
87431288 AAATTACAAA
87431298 AAAAATT-AAAATAATTTTC
1 AAAAATTCAAAATAATTTTC
87431317 AAAAATTCAAAATAATTTT-
1 AAAAATTCAAAATAATTTTC
* *
87431336 TAAAATTCAAAAT-ATTTAC
1 AAAAATTCAAAATAATTTTC
87431355 AAAAATTCCAAAAT
1 AAAAATT-CAAAAT
87431369 TTATATTTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
18 4 0.09
19 25 0.54
20 17 0.37
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTTC
Found at i:87431415 original size:10 final size:9
Alignment explanation
Indices: 87431390--87431437 Score: 57
Period size: 9 Copynumber: 5.6 Consensus size: 9
87431380 AAAATTATAA
*
87431390 AAAAAATCT
1 AAAAAATTT
87431399 AAAAAATTCT
1 AAAAAATT-T
87431409 AAAAAA-TT
1 AAAAAATTT
87431417 -AAAAATTT
1 AAAAAATTT
87431425 -AAAAATTT
1 AAAAAATTT
87431433 AAAAA
1 AAAAA
87431438 TTTTCTAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
7 5 0.14
8 11 0.31
9 12 0.34
10 7 0.20
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (9 bp):
AAAAAATTT
Found at i:87431427 original size:16 final size:16
Alignment explanation
Indices: 87431390--87431440 Score: 66
Period size: 16 Copynumber: 3.0 Consensus size: 16
87431380 AAAATTATAA
87431390 AAAAAATCTAAAAAATTCT
1 AAAAAAT-T-AAAAATT-T
87431409 AAAAAATTAAAAATTT
1 AAAAAATTAAAAATTT
*
87431425 AAAAATTTAAAAATTT
1 AAAAAATTAAAAATTT
87431441 TCTAAAATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
16 16 0.52
17 7 0.23
18 1 0.03
19 7 0.23
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (16 bp):
AAAAAATTAAAAATTT
Found at i:87431439 original size:8 final size:8
Alignment explanation
Indices: 87431400--87431440 Score: 64
Period size: 8 Copynumber: 5.0 Consensus size: 8
87431390 AAAAAATCTA
87431400 AAAAATTCT
1 AAAAATT-T
*
87431409 AAAAAATT
1 AAAAATTT
87431417 AAAAATTT
1 AAAAATTT
87431425 AAAAATTT
1 AAAAATTT
87431433 AAAAATTT
1 AAAAATTT
87431441 TCTAAAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
8 24 0.80
9 6 0.20
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (8 bp):
AAAAATTT
Found at i:87433710 original size:12 final size:12
Alignment explanation
Indices: 87433693--87433718 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
87433683 AGACATCAAC
87433693 TGTTTCTATGAT
1 TGTTTCTATGAT
87433705 TGTTTCTATGAT
1 TGTTTCTATGAT
87433717 TG
1 TG
87433719 AAAAGATAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.08, G:0.19, T:0.58
Consensus pattern (12 bp):
TGTTTCTATGAT
Found at i:87435790 original size:20 final size:21
Alignment explanation
Indices: 87435767--87435807 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
87435757 AGGGGTTCAT
87435767 AATTTAAAGTTTG-GGTTTAA
1 AATTTAAAGTTTGAGGTTTAA
**
87435787 AATTTAGGGTTTGAGGTTTAA
1 AATTTAAAGTTTGAGGTTTAA
87435808 GGTTTGATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (21 bp):
AATTTAAAGTTTGAGGTTTAA
Found at i:87435806 original size:14 final size:14
Alignment explanation
Indices: 87435789--87435826 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
87435779 GGGTTTAAAA
*
87435789 TTTAGGGTTTGAGG
1 TTTAAGGTTTGAGG
*
87435803 TTTAAGGTTTGATG
1 TTTAAGGTTTGAGG
87435817 TTTAAGGTTT
1 TTTAAGGTTT
87435827 AAGATTTGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.50
Consensus pattern (14 bp):
TTTAAGGTTTGAGG
Found at i:87435806 original size:21 final size:20
Alignment explanation
Indices: 87435775--87435860 Score: 59
Period size: 21 Copynumber: 4.2 Consensus size: 20
87435765 ATAATTTAAA
87435775 GTTTGGGTTTAAAATTTAGG
1 GTTTGGGTTTAAAATTTAGG
** *
87435795 GTTTGAGGTTTAAGGTTT-GAT
1 GTTTG-GGTTTAAAATTTAG-G
* *
87435816 GTTTAAGGTTTAAGATTT-GG
1 GTTT-GGGTTTAAAATTTAGG
*
87435836 GATTTGGGATTTAAAGTTTAGG
1 G-TTTGGG-TTTAAAATTTAGG
87435858 GTT
1 GTT
87435861 CGGGATAAAA
Statistics
Matches: 51, Mismatches: 9, Indels: 11
0.72 0.13 0.15
Matches are distributed among these distances:
20 9 0.18
21 39 0.76
22 3 0.06
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.45
Consensus pattern (20 bp):
GTTTGGGTTTAAAATTTAGG
Found at i:87438990 original size:15 final size:15
Alignment explanation
Indices: 87438972--87439006 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
87438962 TTTTTTAAAG
*
87438972 TTTTTAT-TTTGTAA
1 TTTTTATATTTGAAA
87438986 TTTTTATATTTGAAA
1 TTTTTATATTTGAAA
87439001 TTTTTA
1 TTTTTA
87439007 AGAATCAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.69
Consensus pattern (15 bp):
TTTTTATATTTGAAA
Found at i:87448137 original size:24 final size:26
Alignment explanation
Indices: 87448074--87448137 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
87448064 TTATATAAAA
*
87448074 ATTAAATT-AAATAAATTTTAATATT
1 ATTATATTGAAATAAATTTTAATATT
* *
87448099 ATTATATTGATAATAAATTTTATTTTT
1 ATTATATTGA-AATAAATTTTAATATT
87448126 ATT-T-TTGAAATA
1 ATTATATTGAAATA
87448138 TTTAAAATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
24 4 0.12
25 11 0.32
26 2 0.06
27 17 0.50
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (26 bp):
ATTATATTGAAATAAATTTTAATATT
Found at i:87448310 original size:15 final size:16
Alignment explanation
Indices: 87448283--87448313 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
87448273 ATTTTATTTT
87448283 AATAATAAATTTTAAA
1 AATAATAAATTTTAAA
87448299 AATAAT-AATTTTAAA
1 AATAATAAATTTTAAA
87448314 TGATATTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATAATAAATTTTAAA
Found at i:87451517 original size:18 final size:20
Alignment explanation
Indices: 87451494--87451539 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 20
87451484 ATTTCTTTAA
87451494 TTTATTAATTAAT-TT-ATT
1 TTTATTAATTAATATTAATT
87451512 TTTATTAA--AATATTAATT
1 TTTATTAATTAATATTAATT
87451530 TTTA-TAATTA
1 TTTATTAATTA
87451540 GTGCCTCTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
16 3 0.12
17 5 0.21
18 15 0.62
19 1 0.04
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTATTAATTAATATTAATT
Found at i:87455928 original size:30 final size:33
Alignment explanation
Indices: 87455893--87455958 Score: 93
Period size: 30 Copynumber: 2.1 Consensus size: 33
87455883 ATATTTTATA
*
87455893 TTTTTATAATTTTTAAA-ATATT-AAAT-TAAT
1 TTTTTATAATTTTTAAAGAAATTAAAATATAAT
*
87455923 TTTTTATTATTTTTAAAGAAATTAAAATATAAT
1 TTTTTATAATTTTTAAAGAAATTAAAATATAAT
87455956 TTT
1 TTT
87455959 ATTTTTACTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
30 16 0.52
31 4 0.13
32 4 0.13
33 7 0.23
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (33 bp):
TTTTTATAATTTTTAAAGAAATTAAAATATAAT
Found at i:87455963 original size:38 final size:38
Alignment explanation
Indices: 87455852--87455964 Score: 95
Period size: 39 Copynumber: 2.9 Consensus size: 38
87455842 TAAAAAATAA
* *
87455852 TTTTATAAGCGAAATTAAATTATAATTTTTAATATTTTATAT
1 TTTTATAA--GAAATTAAAATATAA-TTTT-ATTTTTTATAT
*** * *
87455894 TTTTATAA-TTTTTAAAATATTAAATTAATTTTTTATTAT
1 TTTTATAAGAAATTAAAATA-TAATTTTATTTTTTA-TAT
87455933 TTTTA-AAGAAATTAAAATATAATTTTATTTTT
1 TTTTATAAGAAATTAAAATATAATTTTATTTTT
87455965 ACTAAATTAA
Statistics
Matches: 56, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
38 20 0.36
39 25 0.45
40 3 0.05
42 8 0.14
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.56
Consensus pattern (38 bp):
TTTTATAAGAAATTAAAATATAATTTTATTTTTTATAT
Found at i:87456523 original size:15 final size:15
Alignment explanation
Indices: 87456503--87456556 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
87456493 ACACTACAAA
87456503 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
87456518 ATATTTATAATTGTAAT
1 ATATTTATTA-T-TAAT
*
87456535 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
87456552 ATATT
1 ATATT
87456557 AATATTGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 14 0.44
16 1 0.03
17 7 0.22
18 1 0.03
19 9 0.28
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:87456676 original size:22 final size:22
Alignment explanation
Indices: 87456650--87456691 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
87456640 ATTGAATAAT
87456650 TTATTAAAATAATAAATTATAC
1 TTATTAAAATAATAAATTATAC
* * *
87456672 TTATTATACTAATAATTTAT
1 TTATTAAAATAATAAATTAT
87456692 TATATGACTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (22 bp):
TTATTAAAATAATAAATTATAC
Found at i:87457945 original size:30 final size:30
Alignment explanation
Indices: 87457906--87457971 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
87457896 TTTTATAAAT
87457906 AATTAATATTT-AT-TACTTAAAAATATTTAA
1 AATTAATATTTCATATA-TT-AAAATATTTAA
* *
87457936 AATTTATATTTCATATATTAAAATATTAACA
1 AATTAATATTTCATATATTAAAATATTTA-A
87457967 AATTA
1 AATTA
87457972 TAATAATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
30 19 0.63
31 9 0.30
32 2 0.07
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Found at i:87462782 original size:35 final size:35
Alignment explanation
Indices: 87462743--87462813 Score: 99
Period size: 35 Copynumber: 2.0 Consensus size: 35
87462733 TAAAAAAAAT
*
87462743 TCAAAATC-CTGAAATCGATTATCAAACCCCACAAA
1 TCAAAATCTCT-AAATCAATTATCAAACCCCACAAA
* *
87462778 TCAAAGTCTCTAAATCAATTATCAAACCCCGCAAA
1 TCAAAATCTCTAAATCAATTATCAAACCCCACAAA
87462813 T
1 T
87462814 AGGCAAATAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
35 30 0.94
36 2 0.06
ACGTcount: A:0.44, C:0.28, G:0.06, T:0.23
Consensus pattern (35 bp):
TCAAAATCTCTAAATCAATTATCAAACCCCACAAA
Found at i:87462978 original size:16 final size:16
Alignment explanation
Indices: 87462957--87463023 Score: 57
Period size: 16 Copynumber: 4.2 Consensus size: 16
87462947 TAGTTGGGTG
87462957 AATGGAATAAGACTGT
1 AATGGAATAAGACTGT
* *
87462973 AATGGAAT-AGATATAT
1 AATGGAATAAGA-CTGT
* *
87462989 AATGAAATATAG-TTGT
1 AATGGAATA-AGACTGT
*
87463005 AATGGAATAAAACTGT
1 AATGGAATAAGACTGT
87463021 AAT
1 AAT
87463024 CAGTAATTTA
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
15 4 0.10
16 33 0.85
18 2 0.05
ACGTcount: A:0.48, C:0.03, G:0.19, T:0.30
Consensus pattern (16 bp):
AATGGAATAAGACTGT
Found at i:87464048 original size:29 final size:28
Alignment explanation
Indices: 87464013--87464071 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
87464003 TAAAGTTCAT
87464013 TTTAGTC-CTTATACTATTACAATGAACAA
1 TTTAGTCTC-TATA-TATTACAATGAACAA
*
87464042 TTTAGTCTCTGTATATTACAATGAACAA
1 TTTAGTCTCTATATATTACAATGAACAA
87464070 TT
1 TT
87464072 GTTGAATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 17 0.61
29 10 0.36
30 1 0.04
ACGTcount: A:0.36, C:0.15, G:0.08, T:0.41
Consensus pattern (28 bp):
TTTAGTCTCTATATATTACAATGAACAA
Found at i:87469593 original size:7 final size:7
Alignment explanation
Indices: 87469581--87469616 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
87469571 TGTTTTGTTA
87469581 TAAAATT
1 TAAAATT
87469588 TAAAATT
1 TAAAATT
87469595 TAAAATT
1 TAAAATT
*
87469602 CAAAATT
1 TAAAATT
*
87469609 CAAAATT
1 TAAAATT
87469616 T
1 T
87469617 TTTGTTTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (7 bp):
TAAAATT
Found at i:87474019 original size:15 final size:15
Alignment explanation
Indices: 87474001--87474030 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
87473991 TAAATAATTC
*
87474001 AATTTAAAATTTAAA
1 AATTTAAAAATTAAA
87474016 AATTTAAAAATTAAA
1 AATTTAAAAATTAAA
87474031 TTAAATTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AATTTAAAAATTAAA
Found at i:87474064 original size:5 final size:6
Alignment explanation
Indices: 87474052--87474077 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
87474042 TAAATATTTA
87474052 TTGTTT TTGTTT TTGTTT TTGTTT TT
1 TTGTTT TTGTTT TTGTTT TTGTTT TT
87474078 TAATATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (6 bp):
TTGTTT
Found at i:87475969 original size:3 final size:3
Alignment explanation
Indices: 87475961--87475989 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
87475951 ATCCAAGCTT
87475961 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
87475990 TCTTTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:87481425 original size:25 final size:24
Alignment explanation
Indices: 87481390--87481468 Score: 77
Period size: 25 Copynumber: 3.0 Consensus size: 24
87481380 TAATAACTTA
*
87481390 TCAATCTAATTAATAATTAATTCTAT
1 TCAAT-TAATTACTAA-TAATTCTAT
*
87481416 TCAATTAATTACTAAATAATTTTATT
1 TCAATTAATTACT-AATAATTCTA-T
*
87481442 TCTAATTTAATTACTAATATTTCTAT
1 TC-AA-TTAATTACTAATAATTCTAT
87481468 T
1 T
87481469 TTCTAATTCT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
25 14 0.31
26 12 0.27
27 10 0.22
28 9 0.20
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.51
Consensus pattern (24 bp):
TCAATTAATTACTAATAATTCTAT
Found at i:87481456 original size:28 final size:28
Alignment explanation
Indices: 87481396--87481476 Score: 82
Period size: 28 Copynumber: 3.0 Consensus size: 28
87481386 CTTATCAATC
* * *
87481396 TAATTAATAATTAATTCTA-TTC-AA-T
1 TAATTACTAAATAATTTTATTTCTAATT
87481421 TAATTACTAAATAATTTTATTTCTAATT
1 TAATTACTAAATAATTTTATTTCTAATT
87481449 TAATTACT-AAT-ATTTCTATTTTCTAATT
1 TAATTACTAAATAATTT-TA-TTTCTAATT
87481477 CTTTACTCGC
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
25 16 0.33
26 7 0.15
27 7 0.15
28 18 0.38
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (28 bp):
TAATTACTAAATAATTTTATTTCTAATT
Found at i:87482428 original size:9 final size:9
Alignment explanation
Indices: 87482414--87482438 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
87482404 AAAATGTAAC
87482414 ATTTAAAAT
1 ATTTAAAAT
87482423 ATTTAAAAT
1 ATTTAAAAT
87482432 ATTTAAA
1 ATTTAAA
87482439 TAATATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
ATTTAAAAT
Found at i:87482730 original size:21 final size:21
Alignment explanation
Indices: 87482683--87482731 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
87482673 CATGTAAGCA
87482683 TTTAAA-TAATTTTAAAAATT
1 TTTAAATTAATTTTAAAAATT
** * *
87482703 TAAAAATTATTTTTAAATATT
1 TTTAAATTAATTTTAAAAATT
87482724 TTTAAATT
1 TTTAAATT
87482732 TAAAAAATTA
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TTTAAATTAATTTTAAAAATT
Found at i:87482746 original size:29 final size:30
Alignment explanation
Indices: 87482682--87482751 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
87482672 ACATGTAAGC
87482682 ATTTAAATAATTTTAAAAATTTAAAAATTAT
1 ATTTAAAT-ATTTTAAAAATTTAAAAATTAT
* *
87482713 TTTTAAATATTTT-TAAATTTAAAAAATTA-
1 ATTTAAATATTTTAAAAATTT-AAAAATTAT
87482742 ATTT-AATATT
1 ATTTAAATATT
87482752 GATATATCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 6 0.17
29 9 0.26
30 13 0.37
31 7 0.20
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (30 bp):
ATTTAAATATTTTAAAAATTTAAAAATTAT
Found at i:87484281 original size:21 final size:21
Alignment explanation
Indices: 87484225--87484281 Score: 55
Period size: 21 Copynumber: 2.7 Consensus size: 21
87484215 TTTTTCACAT
* *
87484225 TAATTTAATATTAAAGAATAA
1 TAATTTAATATAAAACAATAA
*
87484246 TATATTCT-AT-CAAAACAATAA
1 TA-ATT-TAATATAAAACAATAA
87484267 TAATTTAATATAAAA
1 TAATTTAATATAAAA
87484282 TGTTTAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
19 1 0.04
20 5 0.18
21 16 0.57
22 5 0.18
23 1 0.04
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (21 bp):
TAATTTAATATAAAACAATAA
Found at i:87491550 original size:36 final size:36
Alignment explanation
Indices: 87491503--87491574 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
87491493 TGGCCAGCAG
* *
87491503 CGTGTTGGGAAGTTGGAGGATAGGTGTTCGAGTTGT
1 CGTGTTGGGAAGTTGGAGGATAGGAGTACGAGTTGT
87491539 CGTGTTGGGAAGTTGGAGGATAGGAGTACGAGTTGT
1 CGTGTTGGGAAGTTGGAGGATAGGAGTACGAGTTGT
87491575 TCCATGTGCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.19, C:0.06, G:0.44, T:0.31
Consensus pattern (36 bp):
CGTGTTGGGAAGTTGGAGGATAGGAGTACGAGTTGT
Found at i:87492902 original size:28 final size:29
Alignment explanation
Indices: 87492848--87492909 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 29
87492838 TAAAGTATGT
*
87492848 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGAGATTTGGGCCTAATGGGCC
*
87492877 ATATGAATGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGAGATTTGGGCCTAATGGGCC
87492905 ATATG
1 ATATG
87492910 CATTTATGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 20 0.65
29 11 0.35
ACGTcount: A:0.26, C:0.13, G:0.32, T:0.29
Consensus pattern (29 bp):
ATATGAATGAGATTTGGGCCTAATGGGCC
Found at i:87494833 original size:14 final size:14
Alignment explanation
Indices: 87494816--87494847 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
87494806 TTGGTGAATA
87494816 ATTTAAGATGAAGG
1 ATTTAAGATGAAGG
87494830 ATTTAAGATGAAGG
1 ATTTAAGATGAAGG
87494844 ATTT
1 ATTT
87494848 GGGAGTAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.25, T:0.34
Consensus pattern (14 bp):
ATTTAAGATGAAGG
Found at i:87498729 original size:13 final size:13
Alignment explanation
Indices: 87498707--87498740 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
87498697 TTACATGAAA
87498707 TTGCATTTACATG
1 TTGCATTTACATG
*
87498720 TTGTATTTACATG
1 TTGCATTTACATG
87498733 TTGCATTT
1 TTGCATTT
87498741 TAAAATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.21, C:0.12, G:0.15, T:0.53
Consensus pattern (13 bp):
TTGCATTTACATG
Found at i:87501461 original size:19 final size:20
Alignment explanation
Indices: 87501437--87501478 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
87501427 ATGAATGTTA
*
87501437 TAAATTTTAATAAA-TTATT
1 TAAATTTAAATAAATTTATT
87501456 TAAATTTAAATAAATTTATT
1 TAAATTTAAATAAATTTATT
87501476 TAA
1 TAA
87501479 CTCAACCCGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TAAATTTAAATAAATTTATT
Found at i:87507233 original size:22 final size:22
Alignment explanation
Indices: 87507205--87507326 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
87507195 TTCCACATCC
87507205 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
87507227 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
87507251 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
87507274 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
87507298 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
87507321 ATCACA
1 ATCACA
87507327 CATACACATG
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 26 0.37
23 12 0.17
24 12 0.17
25 20 0.29
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:87507240 original size:47 final size:47
Alignment explanation
Indices: 87507177--87507426 Score: 378
Period size: 47 Copynumber: 5.3 Consensus size: 47
87507167 CCCTTCGGGT
* * *
87507177 CTTATCACATTTATACACT-TCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
87507224 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
* *
87507271 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
87507318 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
87507365 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
*
87507412 CCTATCACATATATA
1 CTTATCACATATATA
87507427 TACTTGTACA
Statistics
Matches: 190, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
46 1 0.01
47 189 0.99
ACGTcount: A:0.27, C:0.31, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
Found at i:87511313 original size:44 final size:44
Alignment explanation
Indices: 87511264--87511353 Score: 153
Period size: 44 Copynumber: 2.0 Consensus size: 44
87511254 TATATGAGCT
* *
87511264 TACTAAGCATGATATGCTTACTAGGTTTTATTTTCTTTGTTTTA
1 TACTAAGCATGATATGCTTACTAGGTTTTATTTTCTCTATTTTA
*
87511308 TACTAAGCATTATATGCTTACTAGGTTTTATTTTCTCTATTTTA
1 TACTAAGCATGATATGCTTACTAGGTTTTATTTTCTCTATTTTA
87511352 TA
1 TA
87511354 GTGCACAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.24, C:0.12, G:0.11, T:0.52
Consensus pattern (44 bp):
TACTAAGCATGATATGCTTACTAGGTTTTATTTTCTCTATTTTA
Found at i:87518441 original size:15 final size:14
Alignment explanation
Indices: 87518421--87518459 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
87518411 AAAGAAAGAT
87518421 GTTAATTAAGGTTTA
1 GTTAATTAA-GTTTA
87518436 GTTAATTGAAGTTTA
1 GTTAATT-AAGTTTA
*
87518451 ATTAATTAA
1 GTTAATTAA
87518460 TTCTGATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 2 0.09
15 18 0.82
16 2 0.09
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (14 bp):
GTTAATTAAGTTTA
Found at i:87519569 original size:19 final size:19
Alignment explanation
Indices: 87519545--87519659 Score: 216
Period size: 19 Copynumber: 6.2 Consensus size: 19
87519535 AGATTACAAG
87519545 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
87519564 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
87519581 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
87519600 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
87519619 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
87519638 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
87519657 ATC
1 ATC
87519660 CTTAAAGATT
Statistics
Matches: 94, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
17 17 0.18
19 77 0.82
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:87520517 original size:2 final size:2
Alignment explanation
Indices: 87520512--87520540 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
87520502 TGTATATATA
87520512 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
87520541 TGAAGATGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:87524534 original size:50 final size:50
Alignment explanation
Indices: 87524459--87524635 Score: 257
Period size: 50 Copynumber: 3.5 Consensus size: 50
87524449 CCATGGAAAC
87524459 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * * *
87524509 AAGTGATAAGTAATAACTTCGGCTACACTTATCTGATTAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
87524559 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGG-CAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAA-GGACAAATGA
* * * *
87524609 CAACTGAAAAGTGGTAGCTTCAGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
87524636 CTGATCAGCG
Statistics
Matches: 113, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
50 89 0.79
51 24 0.21
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:87524821 original size:31 final size:31
Alignment explanation
Indices: 87524613--87524814 Score: 305
Period size: 31 Copynumber: 6.5 Consensus size: 31
87524603 AAATGACAAC
87524613 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
87524644 CGAAAAGTGGTAGTTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
87524675 TGAAAAGTGGTAGCTTCTGCTACCTAATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
87524706 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
87524737 TGAAAAGTGGTAGCTCCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* **
87524768 TGAAAAATGGTAGCACCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
87524799 TGAATAGTGGTAGCTT
1 TGAAAAGTGGTAGCTT
87524815 TGGCTACAAG
Statistics
Matches: 155, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 155 1.00
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
Found at i:87524832 original size:7 final size:7
Alignment explanation
Indices: 87524820--87524845 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
87524810 AGCTTTGGCT
87524820 ACAAGTG
1 ACAAGTG
87524827 ACAAGTG
1 ACAAGTG
87524834 ACAAGTG
1 ACAAGTG
87524841 ACAAG
1 ACAAG
87524846 CGATTTCTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.15, G:0.27, T:0.12
Consensus pattern (7 bp):
ACAAGTG
Found at i:87524955 original size:47 final size:46
Alignment explanation
Indices: 87524856--87524977 Score: 140
Period size: 47 Copynumber: 2.6 Consensus size: 46
87524846 CGATTTCTGT
* *
87524856 ATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTACTG
1 ATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGCTACTG
* * *
87524902 CATAAGACCATATCTGGGATATGACATCAGTGAGATATGTGATTACGTG
1 -ATAAGACCATATCTGGGATATGGCATCAGTGAGATATATG-CTAC-TG
*
87524951 -TAAGACCATAGT-TGGGCTATGGCATCA
1 ATAAGACCATA-TCTGGGATATGGCATCA
87524978 TTATGTAAAG
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
47 59 0.91
48 4 0.06
49 2 0.03
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (46 bp):
ATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGCTACTG
Found at i:87526835 original size:18 final size:18
Alignment explanation
Indices: 87526812--87526849 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
87526802 ATTACGTGTT
87526812 TGAATAAAAAAATAGAAA
1 TGAATAAAAAAATAGAAA
87526830 TGAATAAAAAAATAGAAA
1 TGAATAAAAAAATAGAAA
87526848 TG
1 TG
87526850 GGAAACATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.13, T:0.18
Consensus pattern (18 bp):
TGAATAAAAAAATAGAAA
Found at i:87527143 original size:27 final size:27
Alignment explanation
Indices: 87527109--87527160 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
87527099 ATTTTATCAG
** *
87527109 GGGTAAAATTGTCAAAATTTTACTGAA
1 GGGTAAAATCATCAAAATTTAACTGAA
87527136 GGGTAAAATCATCAAAATTTAACTG
1 GGGTAAAATCATCAAAATTTAACTG
87527161 GGATAAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (27 bp):
GGGTAAAATCATCAAAATTTAACTGAA
Found at i:87529619 original size:23 final size:23
Alignment explanation
Indices: 87529587--87529630 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
87529577 ACTACCATTT
87529587 TCTAAATAAAATAATAATAAATA
1 TCTAAATAAAATAATAATAAATA
* *
87529610 TCTAAGTAAAATATTAATAAA
1 TCTAAATAAAATAATAATAAA
87529631 ATAATTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (23 bp):
TCTAAATAAAATAATAATAAATA
Found at i:87529623 original size:13 final size:11
Alignment explanation
Indices: 87529591--87529633 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
87529581 CCATTTTCTA
*
87529591 AATAAAATAAT
1 AATAAAATATT
87529602 AAT-AAATATCT
1 AATAAAATAT-T
87529613 AAGTAAAATATT
1 AA-TAAAATATT
87529625 AATAAAATA
1 AATAAAATA
87529634 ATTTTTAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 5 0.18
11 13 0.46
12 4 0.14
13 6 0.21
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (11 bp):
AATAAAATATT
Found at i:87534745 original size:16 final size:16
Alignment explanation
Indices: 87534726--87534770 Score: 74
Period size: 16 Copynumber: 2.8 Consensus size: 16
87534716 TGGGAATAAT
87534726 AAATATATAAAATAT-A
1 AAATAT-TAAAATATCA
87534742 AAATATTAAAATATCA
1 AAATATTAAAATATCA
87534758 AAATATTAAAATA
1 AAATATTAAAATA
87534771 ATAATAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.29
16 20 0.71
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (16 bp):
AAATATTAAAATATCA
Found at i:87534751 original size:8 final size:8
Alignment explanation
Indices: 87534726--87534770 Score: 65
Period size: 8 Copynumber: 5.6 Consensus size: 8
87534716 TGGGAATAAT
87534726 AAATATATA
1 AAATAT-TA
87534735 AAATA-TA
1 AAATATTA
87534742 AAATATTA
1 AAATATTA
*
87534750 AAATATCA
1 AAATATTA
87534758 AAATATTA
1 AAATATTA
87534766 AAATA
1 AAATA
87534771 ATAATAATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
7 7 0.21
8 21 0.64
9 5 0.15
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (8 bp):
AAATATTA
Found at i:87534935 original size:23 final size:22
Alignment explanation
Indices: 87534884--87534937 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
87534874 ATACTACATC
87534884 AATATGTACATAT-ATA--AAA
1 AATATGTACATATAATATTAAA
**
87534903 AATAAATACATGATAATATTAAA
1 AATATGTACAT-ATAATATTAAA
87534926 AATATGTACATA
1 AATATGTACATA
87534938 ATATAGTGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
19 9 0.33
20 2 0.07
21 3 0.11
22 1 0.04
23 12 0.44
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (22 bp):
AATATGTACATATAATATTAAA
Found at i:87534984 original size:22 final size:24
Alignment explanation
Indices: 87534900--87534985 Score: 81
Period size: 25 Copynumber: 3.7 Consensus size: 24
87534890 TACATATATA
* *
87534900 AAAAATAAATACATGATAATA--TT
1 AAAAATATATACATAAT-ATAGGTT
*
87534923 AAAAATATGTACATAATATAGTGTT
1 AAAAATATATACATAATATAG-GTT
*
87534948 AAAAATACATACATAATATA-GTT
1 AAAAATATATACATAATATAGGTT
*
87534971 -AAGATATATACATAA
1 AAAAATATATACATAA
87534986 GATAACATGT
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
22 16 0.30
23 17 0.32
25 20 0.38
ACGTcount: A:0.56, C:0.06, G:0.07, T:0.31
Consensus pattern (24 bp):
AAAAATATATACATAATATAGGTT
Found at i:87535032 original size:25 final size:25
Alignment explanation
Indices: 87535004--87535135 Score: 98
Period size: 25 Copynumber: 5.6 Consensus size: 25
87534994 GTAGAAAAAA
87535004 ATATATAAATAATATAATATTAAAG
1 ATATATAAATAATATAATATTAAAG
* * * *
87535029 ATATATAAATAAAATAGTATAAAAT
1 ATATATAAATAATATAATATTAAAG
** * *
87535054 ATATATACGTAATATAAAATTTAA-
1 ATATATAAATAATATAATATTAAAG
** *
87535078 A-ATATACCTAATAT-AT-TAAAAG
1 ATATATAAATAATATAATATTAAAG
*
87535100 A-ATATATATAATATAATATT-AAG
1 ATATATAAATAATATAATATTAAAG
*
87535123 AAATAT-AATAATA
1 ATATATAAATAATA
87535136 ACAAAAAAAA
Statistics
Matches: 84, Mismatches: 19, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
21 3 0.04
22 13 0.15
23 24 0.29
24 6 0.07
25 38 0.45
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATATAAATAATATAATATTAAAG
Found at i:87535041 original size:14 final size:13
Alignment explanation
Indices: 87535001--87535051 Score: 52
Period size: 14 Copynumber: 3.9 Consensus size: 13
87534991 CATGTAGAAA
87535001 AAAATATATAAAT
1 AAAATATATAAAT
* *
87535014 AATATA-AT-ATT
1 AAAATATATAAAT
87535025 AAAGATATATAAAT
1 AAA-ATATATAAAT
87535039 AAAATAGTATAAA
1 AAAATA-TATAAA
87535052 ATATATATAC
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
11 4 0.13
12 5 0.17
13 10 0.33
14 11 0.37
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (13 bp):
AAAATATATAAAT
Found at i:87535767 original size:30 final size:30
Alignment explanation
Indices: 87535617--87535791 Score: 219
Period size: 30 Copynumber: 5.8 Consensus size: 30
87535607 TAGGTACAAG
* *
87535617 TGGTGGTGGAGCAA-GTGTGGTTAGTGGAGT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGT
* ** * *
87535647 AGGTAATGGAGCAA-GTGTGGCTAGTGGATT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGT
* *
87535677 TGGTGGTGGAGAATGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
*
87535707 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
87535737 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
*
87535767 TTGTGGTGGAAAAGGTGTGGCTAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGT
87535792 TGAGAAAAGT
Statistics
Matches: 129, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
29 2 0.02
30 127 0.98
ACGTcount: A:0.21, C:0.04, G:0.47, T:0.28
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
Found at i:87538507 original size:35 final size:35
Alignment explanation
Indices: 87538480--87538645 Score: 199
Period size: 35 Copynumber: 4.6 Consensus size: 35
87538470 CATGGAAAAG
87538480 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
*
87538515 TGTGAAATGTAGGTATGGTATTATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
87538550 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGT
** * * *
87538590 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGT
**
87538625 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
87538646 TTCAATGAGG
Statistics
Matches: 115, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
34 1 0.01
35 80 0.70
37 2 0.02
38 3 0.03
40 29 0.25
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.34
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
Found at i:87538599 original size:75 final size:75
Alignment explanation
Indices: 87538480--87538650 Score: 230
Period size: 75 Copynumber: 2.4 Consensus size: 75
87538470 CATGGAAAAG
** *
87538480 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
87538539 CCATACTGAGT
65 CCATACCGAGT
87538550 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
87538615 CATACCGAGT
66 CATACCGAGT
**
87538625 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
87538651 TGAGGAAAAC
Statistics
Matches: 89, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
70 18 0.20
73 4 0.04
74 5 0.06
75 62 0.70
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.34
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGT
Found at i:87546038 original size:40 final size:37
Alignment explanation
Indices: 87545975--87546106 Score: 164
Period size: 35 Copynumber: 3.6 Consensus size: 37
87545965 GGCAAAGTGT
*
87545975 GAAATGTAGGTATGGTA--TCATCCATACTGAGTTGT
1 GAAATGTAGGTATGGTATTTCATCCATACTGAGTTGA
*
87546010 GAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAA
1 GAAATGTAGGTATGGTATT-TC--ATCCATACTGAGTTGA
* *
87546050 GAAATGTAGGTATGGCATTTC--CCATACCGAGTTGA
1 GAAATGTAGGTATGGTATTTCATCCATACTGAGTTGA
*
87546085 AAAATGTAGGTATGGTATTTCA
1 GAAATGTAGGTATGGTATTTCA
87546107 ATGAGGAAAA
Statistics
Matches: 84, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
35 48 0.57
38 2 0.02
39 2 0.02
40 32 0.38
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (37 bp):
GAAATGTAGGTATGGTATTTCATCCATACTGAGTTGA
Done.