Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2246
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: 156925
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
File 1 of 2
Found at i:2011 original size:96 final size:96
Alignment explanation
Indices: 1842--2027 Score: 309
Period size: 96 Copynumber: 1.9 Consensus size: 96
1832 TTTGTTACAC
* * * * *
1842 TTTTCAGAAAATTTGCATATGCAATATTTGTCAATTTGTCATTGAAACATTCTGATGAGACAAGT
1 TTTTCAGAAAATCTACATATGCAATATTTGTCAACTTGTCATTGAAACATTCCGATGAGACAAAT
1907 GCTAAAGATTTAACATTCAAGAATATTAGAT
66 GCTAAAGATTTAACATTCAAGAATATTAGAT
* *
1938 TTTTTAGAAAATCTACATATGCAATATTTGTCAACTTGTCATTGAAACATTCCGATGGGACAAAT
1 TTTTCAGAAAATCTACATATGCAATATTTGTCAACTTGTCATTGAAACATTCCGATGAGACAAAT
2003 GCTAAAGATTTAACATTCAAGAATA
66 GCTAAAGATTTAACATTCAAGAATA
2028 CTTTTGTAAG
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
96 83 1.00
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (96 bp):
TTTTCAGAAAATCTACATATGCAATATTTGTCAACTTGTCATTGAAACATTCCGATGAGACAAAT
GCTAAAGATTTAACATTCAAGAATATTAGAT
Found at i:7573 original size:33 final size:33
Alignment explanation
Indices: 7535--7633 Score: 121
Period size: 33 Copynumber: 3.0 Consensus size: 33
7525 AAATTTCCAG
**
7535 ATGTATCGATACAAAGATCAATGTATCGATACA
1 ATGTATCGATACATTGATCAATGTATCGATACA
* * *
7568 ATGTATTGATACATTGA-CTAATGTATCGGTAGA
1 ATGTATCGATACATTGATC-AATGTATCGATACA
7601 ATGTATCGATACATTGAGT-AATGTATCGATACA
1 ATGTATCGATACATTGA-TCAATGTATCGATACA
7634 TTTCTTTGGC
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
32 1 0.02
33 54 0.98
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.32
Consensus pattern (33 bp):
ATGTATCGATACATTGATCAATGTATCGATACA
Found at i:7673 original size:13 final size:13
Alignment explanation
Indices: 7651--7708 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 13
7641 GGCAGTAGCT
*
7651 TTGTAGCGATACA
1 TTGTATCGATACA
7664 TTGTATCGATACAACA
1 TTGTATCGAT---ACA
7680 CTTATGTATCGATACA
1 --T-TGTATCGATACA
7696 TTGTATCGATACA
1 TTGTATCGATACA
7709 ACACTTATGT
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:7689 original size:19 final size:19
Alignment explanation
Indices: 7665--7727 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
7655 AGCGATACAT
7665 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
7684 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
7697 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
7716 TGTATCGATACA
1 TGTATCGATACA
7728 GTTACTATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 9 0.24
14 1 0.03
16 6 0.16
18 1 0.03
19 21 0.55
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:7698 original size:32 final size:32
Alignment explanation
Indices: 7652--7727 Score: 143
Period size: 32 Copynumber: 2.4 Consensus size: 32
7642 GCAGTAGCTT
*
7652 TGTAGCGATACATTGTATCGATACAACACTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
7684 TGTATCGATACATTGTATCGATACAACACTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
7716 TGTATCGATACA
1 TGTATCGATACA
7728 GTTACTATTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.33
Consensus pattern (32 bp):
TGTATCGATACATTGTATCGATACAACACTTA
Found at i:12200 original size:13 final size:13
Alignment explanation
Indices: 12182--12207 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12172 TTTACCCCAA
12182 TGTATCGATACAT
1 TGTATCGATACAT
12195 TGTATCGATACAT
1 TGTATCGATACAT
12208 GAATAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:16776 original size:20 final size:21
Alignment explanation
Indices: 16740--16814 Score: 75
Period size: 20 Copynumber: 3.6 Consensus size: 21
16730 TTCAACAATT
16740 TGTATCGATACAATAAG-GCAA
1 TGTATCGATACAATAAGTG-AA
*
16761 TGTATTGATA-AATAAGTGAA
1 TGTATCGATACAATAAGTGAA
**
16781 TGTATCGATAC-ATACCTGAAA
1 TGTATCGATACAATAAGTG-AA
*
16802 TGTATCAATACAA
1 TGTATCGATACAA
16815 GACCATGTTG
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
20 22 0.49
21 22 0.49
22 1 0.02
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (21 bp):
TGTATCGATACAATAAGTGAA
Found at i:24212 original size:20 final size:21
Alignment explanation
Indices: 24165--24205 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
24155 ACAATTTGTC
24165 TCGATACAATAAGGCAATGTA
1 TCGATACAATAAGGCAATGTA
24186 TCGATAC-ATAAGTG-AATGTA
1 TCGATACAATAAG-GCAATGTA
24206 CTGATACCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.41, C:0.12, G:0.20, T:0.27
Consensus pattern (21 bp):
TCGATACAATAAGGCAATGTA
Found at i:26134 original size:19 final size:19
Alignment explanation
Indices: 26088--26237 Score: 111
Period size: 19 Copynumber: 8.7 Consensus size: 19
26078 ATTCAACAAT
*
26088 TTGTATCGATACAAATAAGTAA
1 TTGTATCGATAC--ATAAGT-G
26110 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
26129 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
*
26143 -TGCATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
26161 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
*
26175 -TGCATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
26193 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
*
26207 -TGCATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
26225 TTGTATCGATACA
1 TTGTATCGATACA
26238 ATGTATCGCT
Statistics
Matches: 103, Mismatches: 7, Indels: 39
0.69 0.05 0.26
Matches are distributed among these distances:
13 30 0.29
15 6 0.06
17 6 0.06
19 43 0.42
20 6 0.06
22 12 0.12
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:26155 original size:32 final size:32
Alignment explanation
Indices: 26114--26245 Score: 255
Period size: 32 Copynumber: 4.1 Consensus size: 32
26104 AAGTAATTGT
26114 ATCGATACATAAGTGTTGTATCGATACAATGC
1 ATCGATACATAAGTGTTGTATCGATACAATGC
26146 ATCGATACATAAGTGTTGTATCGATACAATGC
1 ATCGATACATAAGTGTTGTATCGATACAATGC
26178 ATCGATACATAAGTGTTGTATCGATACAATGC
1 ATCGATACATAAGTGTTGTATCGATACAATGC
*
26210 ATCGATACATAAGTGTTGTATCGATACAATGT
1 ATCGATACATAAGTGTTGTATCGATACAATGC
26242 ATCG
1 ATCG
26246 CTACGAAGCT
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
32 99 1.00
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (32 bp):
ATCGATACATAAGTGTTGTATCGATACAATGC
Found at i:26346 original size:52 final size:52
Alignment explanation
Indices: 26286--26386 Score: 150
Period size: 52 Copynumber: 1.9 Consensus size: 52
26276 ATACATTACT
**
26286 CAAATGTATCGATACATTGAT-CTTTGTATCGATACATGCAGGCAAATTTGCC
1 CAAATGTATCGATACATT-ATGCAATGTATCGATACATGCAGGCAAATTTGCC
* *
26338 CAAATGTATCGATACATTATGCAATGTATCGATATATGTAGGCAAATTT
1 CAAATGTATCGATACATTATGCAATGTATCGATACATGCAGGCAAATTT
26387 TCATATTTCA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 2 0.05
52 42 0.95
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.34
Consensus pattern (52 bp):
CAAATGTATCGATACATTATGCAATGTATCGATACATGCAGGCAAATTTGCC
Found at i:30776 original size:14 final size:14
Alignment explanation
Indices: 30757--30786 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
30747 CAACACTGGG
*
30757 TTATTTTTACTTAT
1 TTATTTTCACTTAT
30771 TTATTTTCACTTAT
1 TTATTTTCACTTAT
30785 TT
1 TT
30787 TTACTTATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.70
Consensus pattern (14 bp):
TTATTTTCACTTAT
Found at i:34072 original size:13 final size:12
Alignment explanation
Indices: 34046--34092 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
34036 GATGAAAAGA
34046 ATTTTTTTTATT
1 ATTTTTTTTATT
*
34058 ATTTTATTTTGTT
1 ATTTT-TTTTATT
*
34071 ATTATTTTTATT
1 ATTTTTTTTATT
*
34083 ATATTTTTTA
1 ATTTTTTTTA
34093 AAATTTTACT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
12 19 0.66
13 10 0.34
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (12 bp):
ATTTTTTTTATT
Found at i:34072 original size:16 final size:16
Alignment explanation
Indices: 34048--34078 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34038 TGAAAAGAAT
*
34048 TTTTTTTATTATTTTA
1 TTTTGTTATTATTTTA
34064 TTTTGTTATTATTTT
1 TTTTGTTATTATTTT
34079 TATTATATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.81
Consensus pattern (16 bp):
TTTTGTTATTATTTTA
Found at i:34612 original size:13 final size:13
Alignment explanation
Indices: 34590--34620 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
34580 TTGAAAAATA
*
34590 AATAACAACAAGC
1 AATAAAAACAAGC
34603 AATAAAAACAAGC
1 AATAAAAACAAGC
34616 AATAA
1 AATAA
34621 TATAATGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.68, C:0.16, G:0.06, T:0.10
Consensus pattern (13 bp):
AATAAAAACAAGC
Found at i:35005 original size:21 final size:21
Alignment explanation
Indices: 34979--35046 Score: 82
Period size: 21 Copynumber: 3.1 Consensus size: 21
34969 AGGCTCGAGT
*
34979 TGCTGCCGTGTTCATGGATGC
1 TGCTGCCGTGTTCGTGGATGC
35000 TGCTGCTGTCGTGTTCGTGGATGC
1 TGCTGC---CGTGTTCGTGGATGC
* *
35024 TGCTGCTGTGTTCGTGGAAGC
1 TGCTGCCGTGTTCGTGGATGC
35045 TG
1 TG
35047 AAAGAAGCTC
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
21 21 0.51
24 20 0.49
ACGTcount: A:0.07, C:0.21, G:0.37, T:0.35
Consensus pattern (21 bp):
TGCTGCCGTGTTCGTGGATGC
Found at i:35012 original size:24 final size:24
Alignment explanation
Indices: 34979--35032 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
34969 AGGCTCGAGT
*
34979 TGCTGCCGTGTTCATGGATGCTGC
1 TGCTGTCGTGTTCATGGATGCTGC
*
35003 TGCTGTCGTGTTCGTGGATGCTGC
1 TGCTGTCGTGTTCATGGATGCTGC
35027 TGCTGT
1 TGCTGT
35033 GTTCGTGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.06, C:0.22, G:0.35, T:0.37
Consensus pattern (24 bp):
TGCTGTCGTGTTCATGGATGCTGC
Found at i:35124 original size:31 final size:30
Alignment explanation
Indices: 35041--35128 Score: 95
Period size: 31 Copynumber: 2.9 Consensus size: 30
35031 GTGTTCGTGG
* ** * *
35041 AAGCTGAAAGAAGCTCGAGCTATTGCCGTGG
1 AAGCTGGAAGAAGCTCGAGCTGCTG-GGTGA
* *
35072 AAGCTGGAAGAGGCTCAAGCTGCTGGGATGA
1 AAGCTGGAAGAAGCTCGAGCTGCTGGG-TGA
35103 AAGCTGGAAGAAGCTCGAGCTGCTGG
1 AAGCTGGAAGAAGCTCGAGCTGCTGG
35129 TTTCAGGTGC
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
30 1 0.02
31 46 0.98
ACGTcount: A:0.28, C:0.18, G:0.36, T:0.17
Consensus pattern (30 bp):
AAGCTGGAAGAAGCTCGAGCTGCTGGGTGA
Found at i:36377 original size:42 final size:42
Alignment explanation
Indices: 36331--36927 Score: 741
Period size: 42 Copynumber: 14.2 Consensus size: 42
36321 TAGATGAGGC
* * * * * *
36331 AGTCTTCAGGGTCAAAGCCCATAGTCAGACTAAGGGTAGAAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAA
* * * * *
36373 AGTCTCCAGGGT-TAAGACCGACAGGCAGGCTAAAGGTAGAAA
1 AGTCTCCAGGGTCAAAG-CCGACAGGCAGACTAAGGGAAGGAA
* *
36415 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGAAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAA
* * * * *
36457 AGTCTCTAGGGTC-AAGCCGACGGGCAGACTGCAGGAAAAGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACT-AAGGGAAGGAA
* * *
36499 AGTCTTCAGGGTCAAAGCCGACAAGCAGACTCAA-GGTAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACT-AAGGGAAGGAA
* *
36541 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTGAGGGTAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAA
* *
36583 AGTCTCCAGGGTTAAAGCCGACAGGCAGACTGAGGGAAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAA
* * **
36625 AGTCTCCAGGATCAAAGCCGACAGGCAGAATAATAGAAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAA
* * *
36667 AGTCTGCAGGGTCAAAGCCAATAGGCAGACTAAGGGAAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAA
* *
36709 AGTCTCCAGGGTCAAAGCTGACAAGCAGACTAAGGGAAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAA
** *
36751 AGTCTCCAGGGTCAAAGTTGACAGGCAGACTAAGGGTAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAA
* *
36793 AGTCTCCAGGGTCAAAGCCGACAGGTAGACTAGGGGAAGGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAA
* * *
36835 AGTCTCCAAGGTCAAAGCCGACAAGCAGACTAAGGGAAAGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAA
* * *
36877 AGTCTCCACGGTCAAAGCCGATAGGCAGACTAAGGGAAAGAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAA
36919 AGTCTCCAG
1 AGTCTCCAG
36928 AAGTTTAATG
Statistics
Matches: 484, Mismatches: 66, Indels: 10
0.86 0.12 0.02
Matches are distributed among these distances:
41 20 0.04
42 445 0.92
43 19 0.04
ACGTcount: A:0.36, C:0.20, G:0.31, T:0.13
Consensus pattern (42 bp):
AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAA
Found at i:37523 original size:13 final size:13
Alignment explanation
Indices: 37505--37532 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
37495 ATTACTCAAA
37505 TGTATCGATACAT
1 TGTATCGATACAT
37518 TGTATCGATACAT
1 TGTATCGATACAT
37531 TG
1 TG
37533 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:46531 original size:52 final size:51
Alignment explanation
Indices: 46448--46571 Score: 212
Period size: 52 Copynumber: 2.4 Consensus size: 51
46438 ATATGAAAAG
*
46448 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAA
1 TTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAA
* *
46499 TTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGTAAA
1 -TTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAA
46551 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
46572 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
51 21 0.30
52 48 0.70
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.36
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAA
Found at i:46582 original size:51 final size:51
Alignment explanation
Indices: 46448--46591 Score: 202
Period size: 52 Copynumber: 2.8 Consensus size: 51
46438 ATATGAAAAG
*
46448 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
46500 TTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGTAAA-
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
46551 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
46592 ATGTATCGAT
Statistics
Matches: 85, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
50 2 0.02
51 35 0.41
52 48 0.56
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:46598 original size:13 final size:13
Alignment explanation
Indices: 46580--46604 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46570 CAAAGATCAG
46580 TGTATCGATACAA
1 TGTATCGATACAA
46593 TGTATCGATACA
1 TGTATCGATACA
46605 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:46682 original size:33 final size:33
Alignment explanation
Indices: 46645--46711 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
46635 AGTAGCTTAA
46645 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
46678 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
46711 A
1 A
46712 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:46685 original size:13 final size:13
Alignment explanation
Indices: 46667--46691 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46657 CAAAAAAATA
46667 TGTATCGATACAT
1 TGTATCGATACAT
46680 TGTATCGATACA
1 TGTATCGATACA
46692 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:47588 original size:56 final size:53
Alignment explanation
Indices: 47504--47900 Score: 289
Period size: 49 Copynumber: 7.8 Consensus size: 53
47494 GAAAAGTGAT
* * * * * *
47504 AAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGATGAA
1 AAAGATGCTAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGA-G-A
* * *
47559 AAATGATG-TCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG-GA
1 AAA-GATGCT-AATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGA
* *
47612 AAAGGTGCTGATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT--G-
1 AAAGATGCTAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGA
* * * * *
47662 -AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT--G-
1 AAAGATGCTAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGA
* * * * *
47711 -AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT--G-
1 AAAGATGCTAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGA
* * * * *
47760 -AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT--G-
1 AAAGATGCTAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGA
* * * * *
47809 -AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT----
1 AAAGATGCTAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGA
* * * *
47857 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGGCTTA
1 AAAGATGCTAATATGCTGATTCAAGGCCAGCTATATTGGACTTA
47901 GAAGGGTTGC
Statistics
Matches: 316, Mismatches: 22, Indels: 14
0.90 0.06 0.04
Matches are distributed among these distances:
49 230 0.73
51 1 0.00
52 39 0.12
53 5 0.02
54 1 0.00
55 3 0.01
56 37 0.12
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (53 bp):
AAAGATGCTAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGA
Found at i:47685 original size:49 final size:49
Alignment explanation
Indices: 47568--47900 Score: 540
Period size: 49 Copynumber: 6.7 Consensus size: 49
47558 AAAATGATGT
* *
47568 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
** * * *
47620 TGATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
47669 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
47718 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
47767 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
47816 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
47865 CAATATGCTGATTCAAGGCCAGCTACATTGGGCTTA
1 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTA
47901 GAAGGGTTGC
Statistics
Matches: 267, Mismatches: 14, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
49 230 0.86
51 1 0.00
52 36 0.13
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (49 bp):
CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:48013 original size:34 final size:32
Alignment explanation
Indices: 47893--48051 Score: 234
Period size: 32 Copynumber: 5.0 Consensus size: 32
47883 CCAGCTACAT
47893 TGGGC-TTAGA-AGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
*
47923 TGGGCTTTAGAGAGGGTTGCCATCGACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
* *
47955 TGGGCTTT-GAGGGGGTTGCCACCAACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
*
47986 TGGGCTTTAGAGAAGGGTTTGCCACCAACTTGTG
1 TGGGCTTTAGAG-AGGG-TTGCCACCGACTTGTG
*
48020 TGGGCTTTAGAGAGGGTTGCCATCGACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
48052 GACTTTTGAA
Statistics
Matches: 117, Mismatches: 7, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
30 5 0.04
31 33 0.28
32 44 0.38
33 7 0.06
34 28 0.24
ACGTcount: A:0.16, C:0.18, G:0.36, T:0.30
Consensus pattern (32 bp):
TGGGCTTTAGAGAGGGTTGCCACCGACTTGTG
Found at i:49504 original size:1 final size:1
Alignment explanation
Indices: 49500--49613 Score: 93
Period size: 1 Copynumber: 114.0 Consensus size: 1
49490 CCGGACCCCC
* * * * * * ** **
49500 TTTTTTGTTTTTGTTTGTTTTTTTTTGTTTTTTTGTTTTTTTGTTTTTTCGTTTTTTTCATTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * *
49565 TTTTTTGTTTTTTTTTGTTTTGTTTTTTTGTTTTTTTTTTTGTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
49614 GGAGGACGTC
Statistics
Matches: 85, Mismatches: 28, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 85 1.00
ACGTcount: A:0.01, C:0.02, G:0.11, T:0.87
Consensus pattern (1 bp):
T
Found at i:49518 original size:10 final size:9
Alignment explanation
Indices: 49500--49613 Score: 105
Period size: 9 Copynumber: 12.6 Consensus size: 9
49490 CCGGACCCCC
49500 TTTTTTGTT
1 TTTTTTGTT
49509 TTTGTTTGTT
1 TTT-TTTGTT
49519 TTTTTT-TGT
1 TTTTTTGT-T
49528 TTTTTTG-T
1 TTTTTTGTT
49536 TTTTTTGTT
1 TTTTTTGTT
49545 TTTTCGTT-TT
1 TTTT--TTGTT
49555 TTTCATTT-TT
1 TTT--TTTGTT
49565 TTTTTTGTTT
1 TTTTTTG-TT
49575 TTTTTTGTT
1 TTTTTTGTT
*
49584 TTGTTT-TT
1 TTTTTTGTT
*
49592 TTGTTT-TT
1 TTTTTTGTT
49600 TTTTTTGTT
1 TTTTTTGTT
49609 TTTTT
1 TTTTT
49614 GGAGGACGTC
Statistics
Matches: 92, Mismatches: 2, Indels: 22
0.79 0.02 0.19
Matches are distributed among these distances:
8 27 0.29
9 32 0.35
10 30 0.33
11 2 0.02
12 1 0.01
ACGTcount: A:0.01, C:0.02, G:0.11, T:0.87
Consensus pattern (9 bp):
TTTTTTGTT
Found at i:49530 original size:8 final size:8
Alignment explanation
Indices: 49500--49614 Score: 110
Period size: 8 Copynumber: 13.9 Consensus size: 8
49490 CCGGACCCCC
49500 TTTTTTGTT
1 TTTTTTG-T
49509 TTTGTTTGTTT
1 TTT-TTTG--T
49520 TTTTTTGT
1 TTTTTTGT
49528 TTTTTTGT
1 TTTTTTGT
49536 TTTTTTGT
1 TTTTTTGT
*
49544 TTTTTCGT
1 TTTTTTGT
*
49552 TTTTTTCAT
1 TTTTTT-GT
49561 TTTTTT-T
1 TTTTTTGT
*
49568 TTTGTT-T
1 TTTTTTGT
49575 TTTTTTGT
1 TTTTTTGT
49583 TTTGTTT-T
1 TTT-TTTGT
*
49591 TTTGTTTTT
1 TTT-TTTGT
49600 TTTTTTGT
1 TTTTTTGT
49608 TTTTTTG
1 TTTTTTG
49615 GAGGACGTCG
Statistics
Matches: 94, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
7 12 0.13
8 52 0.55
9 17 0.18
10 8 0.09
11 5 0.05
ACGTcount: A:0.01, C:0.02, G:0.11, T:0.86
Consensus pattern (8 bp):
TTTTTTGT
Found at i:49548 original size:44 final size:42
Alignment explanation
Indices: 49500--49614 Score: 158
Period size: 44 Copynumber: 2.6 Consensus size: 42
49490 CCGGACCCCC
* *
49500 TTTTTTGTTTTTGTTTGTTTTTTTTTGTTTTTTTGTTTTTTTGT
1 TTTTTTGTTTTT-TTTTTTTTTTTTTGTTTTTTT-TTGTTTTGT
*
49544 TTTTTCGTTTTTTTCATTTTTTTTTTTGTTTTTTTTTGTTTTGT
1 TTTTTTGTTTTTTT--TTTTTTTTTTTGTTTTTTTTTGTTTTGT
49588 TTTTTTGTTTTTTTTTTTGTTTTTTTG
1 TTTTTTGTTTTTTTTTTT-TTTTTTTG
49615 GAGGACGTCG
Statistics
Matches: 64, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
42 4 0.06
43 10 0.16
44 32 0.50
45 18 0.28
ACGTcount: A:0.01, C:0.02, G:0.11, T:0.86
Consensus pattern (42 bp):
TTTTTTGTTTTTTTTTTTTTTTTTTGTTTTTTTTTGTTTTGT
Found at i:49579 original size:55 final size:56
Alignment explanation
Indices: 49507--49613 Score: 164
Period size: 55 Copynumber: 1.9 Consensus size: 56
49497 CCCTTTTTTG
49507 TTTTTGTTTGTTTTTTTTTGTTTT-TTTGTTTT-TTTGTTTTTTCGTTTTTTTCATT
1 TTTTTGTTTGTTTTTTTTTGTTTTGTTT-TTTTGTTTGTTTTTTCGTTTTTTTCATT
* * *
49562 TTTTTTTTTGTTTTTTTTTGTTTTGTTTTTTTGTTTTTTTTTTTGTTTTTTT
1 TTTTTGTTTGTTTTTTTTTGTTTTGTTTTTTTGTTTGTTTTTTCGTTTTTTT
49614 GGAGGACGTC
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
55 27 0.57
56 20 0.43
ACGTcount: A:0.01, C:0.02, G:0.10, T:0.87
Consensus pattern (56 bp):
TTTTTGTTTGTTTTTTTTTGTTTTGTTTTTTTGTTTGTTTTTTCGTTTTTTTCATT
Found at i:57115 original size:17 final size:17
Alignment explanation
Indices: 57093--57127 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
57083 TGAACATGCA
57093 TATGTAGTAGAGACAAT
1 TATGTAGTAGAGACAAT
57110 TATGTAGTAGAGACAAT
1 TATGTAGTAGAGACAAT
57127 T
1 T
57128 GATTCTTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.06, G:0.23, T:0.31
Consensus pattern (17 bp):
TATGTAGTAGAGACAAT
Found at i:63999 original size:52 final size:51
Alignment explanation
Indices: 63916--64039 Score: 212
Period size: 52 Copynumber: 2.4 Consensus size: 51
63906 ATATGAAAAG
*
63916 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAA
1 TTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAA
* *
63967 TTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGTAAA
1 -TTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAA
64019 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
64040 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
51 21 0.30
52 48 0.70
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.36
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAA
Found at i:64050 original size:51 final size:51
Alignment explanation
Indices: 63916--64059 Score: 202
Period size: 52 Copynumber: 2.8 Consensus size: 51
63906 ATATGAAAAG
*
63916 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
63968 TTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGTAAA-
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
64019 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
64060 ATGTATCGAT
Statistics
Matches: 85, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
50 2 0.02
51 35 0.41
52 48 0.56
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:64066 original size:13 final size:13
Alignment explanation
Indices: 64048--64072 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
64038 CAAAGATCAG
64048 TGTATCGATACAA
1 TGTATCGATACAA
64061 TGTATCGATACA
1 TGTATCGATACA
64073 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:64150 original size:33 final size:33
Alignment explanation
Indices: 64113--64179 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
64103 AGTAGCTTAA
64113 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
64146 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
64179 A
1 A
64180 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:64153 original size:13 final size:13
Alignment explanation
Indices: 64135--64159 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
64125 CAAAAAAATA
64135 TGTATCGATACAT
1 TGTATCGATACAT
64148 TGTATCGATACA
1 TGTATCGATACA
64160 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:69701 original size:22 final size:23
Alignment explanation
Indices: 69676--69720 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
69666 ATTCTTAGTA
*
69676 ATTAAGCAAATATTG-ATGAATG
1 ATTAAGAAAATATTGAATGAATG
* *
69698 ATTATGAAAATGTTGAATGAATG
1 ATTAAGAAAATATTGAATGAATG
69721 CCATGAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.44, C:0.02, G:0.20, T:0.33
Consensus pattern (23 bp):
ATTAAGAAAATATTGAATGAATG
Found at i:74186 original size:16 final size:15
Alignment explanation
Indices: 74160--74190 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
74150 GATGAAAAGA
74160 ATTTTTTATTATTTT
1 ATTTTTTATTATTTT
74175 ATTTTGTTATTATTTT
1 ATTTT-TTATTATTTT
74191 TTATTATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.77
Consensus pattern (15 bp):
ATTTTTTATTATTTT
Found at i:75127 original size:24 final size:24
Alignment explanation
Indices: 75091--75143 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
75081 AGGTTCAAGC
* * *
75091 TGCTGCCATGTTCATGGATGCTAT
1 TGCTGCCACGTTCATGGATACCAT
* *
75115 TGCTGCCGCGTTCGTGGATACCAT
1 TGCTGCCACGTTCATGGATACCAT
75139 TGCTG
1 TGCTG
75144 TGTTCGTGGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.13, C:0.25, G:0.28, T:0.34
Consensus pattern (24 bp):
TGCTGCCACGTTCATGGATACCAT
Found at i:75183 original size:31 final size:31
Alignment explanation
Indices: 75148--75230 Score: 103
Period size: 31 Copynumber: 2.7 Consensus size: 31
75138 TTGCTGTGTT
* *
75148 CGTGGAAGCTGGAAGAGGCTCAAGTTGTTGC
1 CGTGGAAGCTGGAAGAGGCTCAAGTTGCTGA
* *
75179 CGTGGAAGCTGAAAGAGGCTCGAGTTGCTGA
1 CGTGGAAGCTGGAAGAGGCTCAAGTTGCTGA
* * *
75210 CATGAAAGCTGGAAGAAGCTC
1 CGTGGAAGCTGGAAGAGGCTC
75231 GAGCTACTTG
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.28, C:0.17, G:0.36, T:0.19
Consensus pattern (31 bp):
CGTGGAAGCTGGAAGAGGCTCAAGTTGCTGA
Found at i:81101 original size:33 final size:33
Alignment explanation
Indices: 81064--81128 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
81054 CGAGAGTTGA
* *
81064 TCACTTCACTTTCGCAGCACAT-GAGTGAGCACT
1 TCACTTCACTCTCGCAACACATGGA-TGAGCACT
81097 TCACTTCACTCTCGCAACACATGGATGAGCAC
1 TCACTTCACTCTCGCAACACATGGATGAGCAC
81129 ATTAGTGCAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 27 0.93
34 2 0.07
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.25
Consensus pattern (33 bp):
TCACTTCACTCTCGCAACACATGGATGAGCACT
Found at i:82142 original size:13 final size:13
Alignment explanation
Indices: 82121--82150 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
82111 CGATACATGG
*
82121 TACATTGTATCGA
1 TACAATGTATCGA
82134 TACAATGTATCGA
1 TACAATGTATCGA
82147 TACA
1 TACA
82151 TGATGAATTA
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:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
TACAATGTATCGA
Found at i:82170 original size:33 final size:33
Alignment explanation
Indices: 82106--82170 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
82096 TACCACTGTT
* * *
82106 TGTATCGATACATGGTACATTGTATCGATACAA
1 TGTATCGATACATGATACATTATATCAATACAA
82139 TGTATCGATACATGATGA-ATTATATCAATACA
1 TGTATCGATACATGAT-ACATTATATCAATACA
82171 TTGCTTCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (33 bp):
TGTATCGATACATGATACATTATATCAATACAA
Found at i:85094 original size:21 final size:21
Alignment explanation
Indices: 85070--85122 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
85060 TTCAACAATT
*
85070 TGTATTGATACAATAAG-GCAA
1 TGTATCGATACAATAAGTG-AA
85091 TGTATCGATAC-ATAAGTGAA
1 TGTATCGATACAATAAGTGAA
85111 TGTATCGATACA
1 TGTATCGATACA
85123 TGCCTGAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 18 0.62
21 11 0.38
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (21 bp):
TGTATCGATACAATAAGTGAA
Found at i:85112 original size:20 final size:21
Alignment explanation
Indices: 85070--85143 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 21
85060 TTCAACAATT
* *
85070 TGTATTGATACAATAAG-GCAA
1 TGTATCGATAC-ATAAGTGAAA
85091 TGTATCGATACATAAGTG-AA
1 TGTATCGATACATAAGTGAAA
***
85111 TGTATCGATACATGCCTGAAA
1 TGTATCGATACATAAGTGAAA
85132 TGTATCGATACA
1 TGTATCGATACA
85144 GGACCATGTG
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
20 22 0.47
21 25 0.53
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.30
Consensus pattern (21 bp):
TGTATCGATACATAAGTGAAA
Found at i:85135 original size:21 final size:20
Alignment explanation
Indices: 85089--85143 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
85079 ACAATAAGGC
*
85089 AATGTATCGATACATAAGTG
1 AATGTATCGATACATAACTG
**
85109 AATGTATCGATACATGCCTG
1 AATGTATCGATACATAACTG
85129 AAATGTATCGATACA
1 -AATGTATCGATACA
85144 GGACCATGTG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
20 17 0.55
21 14 0.45
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (20 bp):
AATGTATCGATACATAACTG
Found at i:85213 original size:19 final size:19
Alignment explanation
Indices: 85168--85222 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 19
85158 TCTGGAAGGA
85168 AATTGTATCGATACATAAG
1 AATTGTATCGATACATAAG
85187 ACATTGTATCGATACATAAG
1 A-ATTGTATCGATACATAAG
85207 AATTGTATCGATACAT
1 AATTGTATCGATACAT
85223 TTCTCATTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 16 0.46
20 19 0.54
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.33
Consensus pattern (19 bp):
AATTGTATCGATACATAAG
Found at i:87823 original size:95 final size:96
Alignment explanation
Indices: 87641--88011 Score: 378
Period size: 97 Copynumber: 3.9 Consensus size: 96
87631 ATTCGCTAGA
* * * *
87641 GATACTCTAACCCCATTTTCAAAATTATCAATATTTAAATCTTATTTTACCTAATTTTTCATCAT
1 GATACTCCAACCCTATTTTCAAAATTATCAATATTTAAATCTTATTTTGCCTAATTTATCATCA-
* *
87706 TAGGG-ATACTCCAACCCCATTCTCTCGAGAG
65 TCGGGAATACTCCAACCCAATTCTCTCGAGAG
* * * *
87737 AATACTCCAACCCTGTTTTTAAAATTATCAATATTTAAATCTTA-TTTGCCTAATTTTTCATCAT
1 GATACTCCAACCCTATTTTCAAAATTATCAATATTTAAATCTTATTTTGCCTAATTTATCATCAT
* * * *
87801 TGGGAATACTCCAACCCTATTCTCCCAATG-G
66 CGGGAATACTCCAACCCAATTCTCTCGA-GAG
* * * * *
87832 GATACTCCAACTCC-GTTTTCAAAAGTGTCAATATTCAAATCTTA-TGTGCCCTAATTTATCATT
1 GATACTCCAAC-CCTATTTTCAAAATTATCAATATTTAAATCTTATTTTG-CCTAATTTATCA-T
* *
87895 CATCGGGGATACTCTAACCCAATTCT-TCCGAGAG
63 CATCGGGAATACTCCAACCCAATTCTCT-CGAGAG
* * * * * *
87929 GATACTCCAACCCTATTTTTAAAGTTGTCAATATTTAAACCTTATTTTTG-CTCAAGTCATCATC
1 GATACTCCAACCCTATTTTCAAAATTATCAATATTTAAATCTTA-TTTTGCCT-AATTTATCATC
87993 ATCGGGAATACTCCAACCC
64 ATCGGGAATACTCCAACCC
88012 CGTTTCTTGT
Statistics
Matches: 230, Mismatches: 34, Indels: 21
0.81 0.12 0.07
Matches are distributed among these distances:
94 4 0.02
95 78 0.34
96 56 0.24
97 82 0.36
98 7 0.03
99 3 0.01
ACGTcount: A:0.30, C:0.24, G:0.09, T:0.36
Consensus pattern (96 bp):
GATACTCCAACCCTATTTTCAAAATTATCAATATTTAAATCTTATTTTGCCTAATTTATCATCAT
CGGGAATACTCCAACCCAATTCTCTCGAGAG
Found at i:87967 original size:192 final size:192
Alignment explanation
Indices: 87641--88011 Score: 478
Period size: 192 Copynumber: 1.9 Consensus size: 192
87631 ATTCGCTAGA
* * * * * *
87641 GATACTCTAACCCCATTTTCAAAATTATCAATATTTAAATCTTATTTTACCTAATTTTTCATCAT
1 GATACTCCAACCCCATTTTCAAAAGTATCAATATTCAAATCTTATGTGACCTAATTTATCATCAT
* * *
87706 TAGGGATACTCCAACCCCATTCTCTCGAGAGAATACTCCAACCCTGTTTTTAAAATTATCAATAT
66 CAGGGATACTCCAACCCAATTCTCTCGAGAGAATACTCCAACCCTATTTTTAAAATTATCAATAT
* * ** *
87771 TTAAATCTTA-TTTGC-CTAATTTTTCATCATTGGGAATACTCCAACCCTATTCTCCCAATGG
131 TTAAACCTTATTTTGCTC-AAGTCATCATCATCGGGAATACTCCAACCCTATTCTCCCAATGG
* * * *
87832 GATACTCCAACTCCGTTTTCAAAAGTGTCAATATTCAAATCTTATGTGCCCTAATTTATCATTCA
1 GATACTCCAACCCCATTTTCAAAAGTATCAATATTCAAATCTTATGTGACCTAATTTATCA-TCA
* * * * *
87897 TCGGGGATACTCTAACCCAATTCT-TCCGAGAGGATACTCCAACCCTATTTTTAAAGTTGTCAAT
65 TCAGGGATACTCCAACCCAATTCTCT-CGAGAGAATACTCCAACCCTATTTTTAAAATTATCAAT
87961 ATTTAAACCTTATTTTTGCTCAAGTCATCATCATCGGGAATACTCCAACCC
129 ATTTAAACCTTA-TTTTGCTCAAGTCATCATCATCGGGAATACTCCAACCC
88012 CGTTTCTTGT
Statistics
Matches: 152, Mismatches: 23, Indels: 7
0.84 0.13 0.04
Matches are distributed among these distances:
191 52 0.34
192 68 0.45
194 31 0.20
195 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.09, T:0.36
Consensus pattern (192 bp):
GATACTCCAACCCCATTTTCAAAAGTATCAATATTCAAATCTTATGTGACCTAATTTATCATCAT
CAGGGATACTCCAACCCAATTCTCTCGAGAGAATACTCCAACCCTATTTTTAAAATTATCAATAT
TTAAACCTTATTTTGCTCAAGTCATCATCATCGGGAATACTCCAACCCTATTCTCCCAATGG
Found at i:92204 original size:17 final size:19
Alignment explanation
Indices: 92184--92219 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
92174 AAAATAAAAA
92184 ATTAATA-AA-ATTTTTAT
1 ATTAATATAATATTTTTAT
92201 ATTAATATAATATTTTTAT
1 ATTAATATAATATTTTTAT
92220 TACATGTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 2 0.12
19 8 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
ATTAATATAATATTTTTAT
Found at i:92362 original size:12 final size:12
Alignment explanation
Indices: 92341--92370 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
92331 AAAAAAAAAT
*
92341 TTAAATATTAAA
1 TTAAAAATTAAA
92353 TTAAAAATTAAA
1 TTAAAAATTAAA
92365 TTAAAA
1 TTAAAA
92371 TACAACTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
TTAAAAATTAAA
Found at i:93467 original size:12 final size:12
Alignment explanation
Indices: 93451--93495 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
93441 TAAAAAAAAT
*
93451 TAAAATATAATT
1 TAAAATATAATA
93463 TAAAATATAATA
1 TAAAATATAATA
*
93475 TAATA-ATAATA
1 TAAAATATAATA
93486 TATAAATATA
1 TA-AAATATA
93496 TTAAATTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
11 8 0.29
12 17 0.61
13 3 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
TAAAATATAATA
Found at i:93530 original size:32 final size:32
Alignment explanation
Indices: 93485--93547 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
93475 TAATAATAAT
*
93485 ATATAAATATATTAAATTTTATATAATATAAT
1 ATATAAATATATTAAAATTTATATAATATAAT
* * *
93517 TTATTAATTTATTAAAATTTATATAAATATA
1 ATATAAATATATTAAAATTTATAT-AATATA
93548 TAATATTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 20 0.77
33 6 0.23
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (32 bp):
ATATAAATATATTAAAATTTATATAATATAAT
Found at i:93535 original size:33 final size:33
Alignment explanation
Indices: 93453--93553 Score: 96
Period size: 33 Copynumber: 2.9 Consensus size: 33
93443 AAAAAAATTA
* *
93453 AAATATAATTTAAAATATAATATAATAATAATATAT
1 AAATAT-A-TTAAAATTTTATATAAT-ATAATATAT
*
93489 AAATATATT-AAATTTTATATAATATAATTTAT
1 AAATATATTAAAATTTTATATAATATAATATAT
* * *
93521 TAATTTATTAAAATTTATATAAATATATAATAT
1 AAATATATTAAAATTT-TATATA-ATATAATAT
93554 TTTTAATATA
Statistics
Matches: 55, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
32 15 0.27
33 18 0.33
34 7 0.13
35 9 0.16
36 6 0.11
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (33 bp):
AAATATATTAAAATTTTATATAATATAATATAT
Found at i:93574 original size:40 final size:40
Alignment explanation
Indices: 93504--93581 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 40
93494 TATTAAATTT
* *
93504 TATATAATATAATTTATTAATTTATTAAAATTTATATAAA
1 TATATAATATAATTTATTAATTTATAAAAATATATATAAA
*
93544 TATATAATAT-TTTTAATATAA-TTATAAAAATATATATA
1 TATATAATATAATTT-AT-TAATTTATAAAAATATATATA
93582 TTTGACCTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
39 3 0.09
40 27 0.82
41 3 0.09
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (40 bp):
TATATAATATAATTTATTAATTTATAAAAATATATATAAA
Found at i:94070 original size:17 final size:17
Alignment explanation
Indices: 94050--94092 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
94040 TATTTATTTA
94050 ATTTAAAT-TAAATAAAT
1 ATTTAAATATAAAT-AAT
*
94067 ATTT-AATATAAATCAT
1 ATTTAAATATAAATAAT
94083 ATTTAAATAT
1 ATTTAAATAT
94093 TTAAAATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (17 bp):
ATTTAAATATAAATAAT
Found at i:94725 original size:2 final size:2
Alignment explanation
Indices: 94718--94748 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
94708 CTCTTCTAAG
94718 AT AT AT 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 AT AT AT A
94749 AAGGGAGAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:95195 original size:12 final size:12
Alignment explanation
Indices: 95178--95202 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
95168 GTTGATATTT
95178 TTATTTTTTATA
1 TTATTTTTTATA
95190 TTATTTTTTATA
1 TTATTTTTTATA
95202 T
1 T
95203 AAATAATTCA
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTATTTTTTATA
Found at i:95953 original size:20 final size:18
Alignment explanation
Indices: 95928--95969 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 18
95918 AATACTAATA
95928 TAATATCTAAATTATTTATT
1 TAATATCTAAA-T-TTTATT
*
95948 TAATATTTAAATTTTATT
1 TAATATCTAAATTTTATT
95966 TAAT
1 TAAT
95970 TATATTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.48
19 1 0.05
20 10 0.48
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (18 bp):
TAATATCTAAATTTTATT
Found at i:97182 original size:21 final size:23
Alignment explanation
Indices: 97136--97186 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 23
97126 AAATATATAT
97136 TAATTTTTTATAATTAAATTTAAA
1 TAATTTTTTATAATTAAA-TTAAA
*
97160 TAATTTTTTATTATTAAA-T-AA
1 TAATTTTTTATAATTAAATTAAA
97181 TAATTT
1 TAATTT
97187 AAATCTCTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 8 0.31
22 1 0.04
24 17 0.65
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TAATTTTTTATAATTAAATTAAA
Found at i:97568 original size:21 final size:19
Alignment explanation
Indices: 97543--97585 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
97533 AATTTCATTA
97543 TTTATAAATATATAATCAATT
1 TTTATAAAT-TA-AATCAATT
* *
97564 TTTATCAATTAAATTAATT
1 TTTATAAATTAAATCAATT
97583 TTT
1 TTT
97586 TACTAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 10 0.50
20 2 0.10
21 8 0.40
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTATAAATTAAATCAATT
Found at i:98467 original size:158 final size:157
Alignment explanation
Indices: 98225--98521 Score: 425
Period size: 158 Copynumber: 1.9 Consensus size: 157
98215 CGAATTCGAT
* * * * **
98225 TTAATTCTGTATTGTTTAGTAAAATTAATTGACGGTAAGTGAAAGTACTCGATTTTAATATAAGA
1 TTAATTCTATATTGTTAAGTAAAATCAATTAACAATAAGTGAAAGTACTC-ATTTTAATATAAGA
* *
98290 TTATAAGCAATCCAATATATGATAAATATGAGATAATACCATTTAACATGTATATTTTGAACTCG
65 TTATAAGCAATCCAATATATAATAAATATGAGATAATACCATTTAACATGTATATTTTAAACTCG
98355 ACTTTTATTTTATATTTTTTAATATAAG
130 ACTTTTATTTTATATTTTTTAATATAAG
* *
98383 TTAATTTTATATTGTTAAGTAAAATCAATTAACAATAAGTGAAAGTGCT-ATGTTTAATATAAGA
1 TTAATTCTATATTGTTAAGTAAAATCAATTAACAATAAGTGAAAGTACTCAT-TTTAATATAAGA
* * * * *
98447 TTATAAGCAAATCTAGTATATAATAGATATGAGATAATATCATTTAGCATGTATATTTTAAACTC
65 TTATAAGC-AATCCAATATATAATAAATATGAGATAATACCATTTAACATGTATATTTTAAACTC
98512 GACTTTTATT
129 GACTTTTATT
98522 CTTTTTAATA
Statistics
Matches: 122, Mismatches: 15, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
156 2 0.02
157 20 0.16
158 100 0.82
ACGTcount: A:0.39, C:0.08, G:0.12, T:0.41
Consensus pattern (157 bp):
TTAATTCTATATTGTTAAGTAAAATCAATTAACAATAAGTGAAAGTACTCATTTTAATATAAGAT
TATAAGCAATCCAATATATAATAAATATGAGATAATACCATTTAACATGTATATTTTAAACTCGA
CTTTTATTTTATATTTTTTAATATAAG
Found at i:99924 original size:21 final size:21
Alignment explanation
Indices: 99900--99939 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
99890 TTTTAAAAAT
99900 TATTTTAT-ATTAATATTTATA
1 TATTTTATAATTAA-ATTTATA
99921 TATTTTATAATTAAATTTA
1 TATTTTATAATTAAATTTA
99940 AATAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTTTATAATTAAATTTATA
Found at i:100415 original size:2 final size:2
Alignment explanation
Indices: 100410--100438 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
100400 CCCAATACTA
100410 AT AT 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 AT AT A
100439 ACAACAGAAC
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:101224 original size:16 final size:17
Alignment explanation
Indices: 101187--101229 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
101177 TTTGAAAAAT
101187 TTTAAATTTTAAATCAAG
1 TTTAAA-TTTAAATCAAG
*
101205 TTTAAATTTAACTC-AG
1 TTTAAATTTAAATCAAG
101221 TTT-AATTTA
1 TTTAAATTTA
101230 TAAGCTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 6 0.25
16 5 0.21
17 7 0.29
18 6 0.25
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.49
Consensus pattern (17 bp):
TTTAAATTTAAATCAAG
Found at i:101340 original size:21 final size:20
Alignment explanation
Indices: 101316--101359 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
101306 TTAAATTTGA
101316 TAAAAATATATTATTTT-AAT
1 TAAAAA-ATATTATTTTAAAT
*
101336 TTAAAAATATTATTTTAAAT
1 TAAAAAATATTATTTTAAAT
101356 TAAA
1 TAAA
101360 TTAATTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
TAAAAAATATTATTTTAAAT
Found at i:101347 original size:19 final size:20
Alignment explanation
Indices: 101318--101359 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
101308 AAATTTGATA
*
101318 AAAATATATTATTTTAATTT
1 AAAATATATTATTTTAAATT
101338 AAAA-ATATTATTTTAAATT
1 AAAATATATTATTTTAAATT
101357 AAA
1 AAA
101360 TTAATTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
AAAATATATTATTTTAAATT
Found at i:101354 original size:14 final size:14
Alignment explanation
Indices: 101335--101383 Score: 64
Period size: 14 Copynumber: 3.4 Consensus size: 14
101325 ATTATTTTAA
101335 TTTAAAAATATTAT
1 TTTAAAAATATTAT
*
101349 TTTAAATTAA-ATTAA
1 TTTAAA--AATATTAT
101364 TTTAAAAATATTAT
1 TTTAAAAATATTAT
101378 TTTAAA
1 TTTAAA
101384 TTAAATTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
13 2 0.07
14 16 0.53
15 10 0.33
16 2 0.07
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
TTTAAAAATATTAT
Found at i:101405 original size:34 final size:29
Alignment explanation
Indices: 101331--101395 Score: 130
Period size: 29 Copynumber: 2.2 Consensus size: 29
101321 ATATATTATT
101331 TTAATTTAAAAATATTATTTTAAATTAAA
1 TTAATTTAAAAATATTATTTTAAATTAAA
101360 TTAATTTAAAAATATTATTTTAAATTAAA
1 TTAATTTAAAAATATTATTTTAAATTAAA
101389 TTAATTT
1 TTAATTT
101396 GAAATAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (29 bp):
TTAATTTAAAAATATTATTTTAAATTAAA
Found at i:102134 original size:2 final size:2
Alignment explanation
Indices: 102127--102153 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
102117 GCTAATGTAT
102127 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
102154 GAATAAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:102197 original size:6 final size:6
Alignment explanation
Indices: 102188--102232 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
102178 GAGTGAAGCT
* **
102188 TTGCCT TTGCCC TTGCCC TTGCCC TTGCCC TTGTTC TTGCCC TTG
1 TTGCCC TTGCCC TTGCCC TTGCCC TTGCCC TTGCCC TTGCCC TTG
102233 ACAGTGCGAG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.00, C:0.40, G:0.18, T:0.42
Consensus pattern (6 bp):
TTGCCC
Found at i:103344 original size:3 final size:3
Alignment explanation
Indices: 103336--103382 Score: 58
Period size: 3 Copynumber: 15.7 Consensus size: 3
103326 TGACTTGGAC
* ** *
103336 GAT GAT GAT GAT GAT TAT GAT CTT GAT GAT GAT GAT TAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
103383 GTTGGATGAT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.32, C:0.02, G:0.28, T:0.38
Consensus pattern (3 bp):
GAT
Found at i:103364 original size:21 final size:21
Alignment explanation
Indices: 103338--103377 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
103328 ACTTGGACGA
103338 TGATGATGATGATTATGATCT
1 TGATGATGATGATTATGATCT
103359 TGATGATGATGATTATGAT
1 TGATGATGATGATTATGAT
103378 GATGAGTTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.03, G:0.25, T:0.42
Consensus pattern (21 bp):
TGATGATGATGATTATGATCT
Found at i:103755 original size:15 final size:15
Alignment explanation
Indices: 103735--103770 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
103725 TGGTGGTGGG
*
103735 GGTGGTAAAAAGGGT
1 GGTGGTAAAAAGGGC
*
103750 GGTGGTAAAAATGGC
1 GGTGGTAAAAAGGGC
103765 GGTGGT
1 GGTGGT
103771 TTACCTGAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.28, C:0.03, G:0.47, T:0.22
Consensus pattern (15 bp):
GGTGGTAAAAAGGGC
Found at i:104690 original size:2 final size:2
Alignment explanation
Indices: 104683--104708 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
104673 GAGAATGTTC
104683 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
104709 GTTGCAAAGC
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):
AT
Found at i:104810 original size:29 final size:29
Alignment explanation
Indices: 104777--104840 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
104767 TTGAAAAATT
104777 ATATATTTATATAAATTT-TAATAT-TTTTA
1 ATATATTT-T-TAAATTTGTAATATATTTTA
*
104806 ATATATTTTTAAATTTGTATTATATTTTA
1 ATATATTTTTAAATTTGTAATATATTTTA
104835 AT-TATT
1 ATATATT
104841 ATAAAAACCT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
27 7 0.22
28 10 0.31
29 15 0.47
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (29 bp):
ATATATTTTTAAATTTGTAATATATTTTA
Found at i:104821 original size:19 final size:20
Alignment explanation
Indices: 104792--104833 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
104782 TTTATATAAA
*
104792 TTTTAATATTTTTAATATAT
1 TTTTAATATTTGTAATATAT
*
104812 TTTTAA-ATTTGTATTATAT
1 TTTTAATATTTGTAATATAT
104831 TTT
1 TTT
104834 AATTATTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTTAATATTTGTAATATAT
Found at i:104939 original size:30 final size:30
Alignment explanation
Indices: 104905--105017 Score: 74
Period size: 35 Copynumber: 3.6 Consensus size: 30
104895 TATAACATAA
104905 AATTAAATTATATAAATATAATATAAAAAT
1 AATTAAATTATATAAATATAATATAAAAAT
* *
104935 AATTAAAAATTACATATAAATTATAATGTTAACATAT
1 AATT--AAATT--ATATAAA-TATAAT-ATAA-AAAT
104972 AATCT-AATTA-A-AATATATAATAT--AAAT
1 AAT-TAAATTATATAA-ATATAATATAAAAAT
* *
104999 TATTAAAATATATAAATAT
1 AATTAAATTATATAAATAT
105018 TTTAAGTTAA
Statistics
Matches: 65, Mismatches: 6, Indels: 26
0.67 0.06 0.27
Matches are distributed among these distances:
26 1 0.02
27 9 0.14
28 5 0.08
29 2 0.03
30 5 0.08
31 8 0.12
32 7 0.11
33 1 0.02
34 7 0.11
35 10 0.15
36 3 0.05
37 6 0.09
38 1 0.02
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (30 bp):
AATTAAATTATATAAATATAATATAAAAAT
Found at i:104995 original size:23 final size:22
Alignment explanation
Indices: 104968--105039 Score: 67
Period size: 22 Copynumber: 3.1 Consensus size: 22
104958 TAATGTTAAC
104968 ATATAATCTAATTAAAATATATA
1 ATATAAT-TAATTAAAATATATA
104991 ATATAAATT-ATTAAAATATATA
1 ATAT-AATTAATTAAAATATATA
* *
105013 A-ATATTTTAAGTTAAATTATAATA
1 ATATA-ATTAA-TTAAAATAT-ATA
105037 ATA
1 ATA
105040 AAAATATACA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
20 1 0.02
21 4 0.10
22 15 0.37
23 13 0.32
24 7 0.17
25 1 0.02
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (22 bp):
ATATAATTAATTAAAATATATA
Found at i:105320 original size:20 final size:21
Alignment explanation
Indices: 105295--105333 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
105285 TACTCGTATT
*
105295 TATTATA-ATTTTATATAAAA
1 TATTATATATTTTAAATAAAA
105315 TATTATATATTTTAAATAA
1 TATTATATATTTTAAATAA
105334 TTATATAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TATTATATATTTTAAATAAAA
Found at i:105503 original size:22 final size:24
Alignment explanation
Indices: 105426--105510 Score: 72
Period size: 22 Copynumber: 3.6 Consensus size: 24
105416 GATAATTTTT
*
105426 AAATT-TTATT-TATAAAATTAAAA
1 AAATTATTATTATAT-ATATTAAAA
105449 AAATTATTATTA-ATATATT-AAA
1 AAATTATTATTATATATATTAAAA
*
105471 TAATTATTATTATTATATATTTAAAA
1 AAATTATTATTA-TATATA-TTAAAA
*
105497 ACA-TATTATCTATA
1 AAATTATTAT-TATA
105511 ATAATTACAT
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
22 14 0.27
23 9 0.18
24 12 0.24
25 10 0.20
26 6 0.12
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (24 bp):
AAATTATTATTATATATATTAAAA
Found at i:105503 original size:25 final size:24
Alignment explanation
Indices: 105442--105517 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 24
105432 TATTTATAAA
105442 ATTAAAAAA-ATTATTATTAATAT
1 ATTAAAAAATATTATTATTAATAT
*
105465 ATTAAATAATTATTATTATT-ATAT
1 ATTAAA-AAATATTATTATTAATAT
105489 ATTTAAAAACATATTATCTA-TAATA-
1 A-TTAAAAA-ATATTAT-TATTAATAT
105514 ATTA
1 ATTA
105518 CATTATAATT
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
23 6 0.13
24 12 0.27
25 22 0.49
26 5 0.11
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (24 bp):
ATTAAAAAATATTATTATTAATAT
Found at i:105794 original size:21 final size:21
Alignment explanation
Indices: 105770--105827 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
105760 ATATTTTTAA
105770 ATATTTATATTATAATATTAT
1 ATATTTATATTATAATATTAT
**
105791 ATATTTATACCATACATATTAT
1 ATATTTATATTATA-ATATTAT
105813 AT-TTTATATTATAAT
1 ATATTTATATTATAAT
105828 TAAAAAATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 2 0.06
21 21 0.66
22 9 0.28
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.53
Consensus pattern (21 bp):
ATATTTATATTATAATATTAT
Found at i:107304 original size:19 final size:18
Alignment explanation
Indices: 107259--107304 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
107249 GATCGATTTG
107259 ATTAATTA--ATTAATTA
1 ATTAATTATTATTAATTA
*
107275 ATTGAAATATTATTAATTAA
1 ATT-AATTATTATTAATT-A
107295 ATTAATTATT
1 ATTAATTATT
107305 TTTTATTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
16 3 0.12
17 4 0.17
19 13 0.54
20 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
ATTAATTATTATTAATTA
Found at i:107831 original size:21 final size:21
Alignment explanation
Indices: 107795--107853 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
107785 TTTATTAATA
* *
107795 ATTTACTTAAAAAATAATATT
1 ATTTAATTAAATAATAATATT
*
107816 -TTATAATTAAATAATATTATT
1 ATT-TAATTAAATAATAATATT
*
107837 ATTTAATAAAATAATAA
1 ATTTAATTAAATAATAA
107854 AAATATGGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
22 2 0.06
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
ATTTAATTAAATAATAATATT
Found at i:108181 original size:16 final size:16
Alignment explanation
Indices: 108155--108207 Score: 65
Period size: 17 Copynumber: 3.4 Consensus size: 16
108145 GCCAGCATAA
108155 ATTTT-TTTTTTTAAT
1 ATTTTATTTTTTTAAT
*
108170 -TTTTAATTTTTTAGAT
1 ATTTTATTTTTTTA-AT
*
108186 ATTTTATTTTTTTAAA
1 ATTTTATTTTTTTAAT
108202 ATTTTA
1 ATTTTA
108208 AAATAATATG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
14 4 0.12
15 7 0.22
16 9 0.28
17 12 0.38
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (16 bp):
ATTTTATTTTTTTAAT
Found at i:108512 original size:34 final size:34
Alignment explanation
Indices: 108443--108660 Score: 305
Period size: 34 Copynumber: 6.5 Consensus size: 34
108433 TTACATGGAT
* *
108443 ATTGTTGATTAAAT-GGTGATTTAGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * * *
108476 ATTGTTGATTAAATGGGTGATTTGGTGGTTTGCC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
*
108510 ATTGTTGACTAAAT-GGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
*
108543 ATTGTTGATTAAATGGGAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* *
108577 ATTGTTGATTAAATGGGTGATTTGGTGGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * *
108611 ATTGTTGACTAAATGGGAGATTTGGTAGGTTGCC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
108645 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
108661 TGGTTTTTAC
Statistics
Matches: 163, Mismatches: 20, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
33 42 0.26
34 121 0.74
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.40
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
Found at i:108523 original size:67 final size:66
Alignment explanation
Indices: 108443--108662 Score: 323
Period size: 67 Copynumber: 3.3 Consensus size: 66
108433 TTACATGGAT
* *
108443 ATTGTTGATTAAATGGTGATTTAGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTTG
1 ATTGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTGG-TTG
108508 CC
65 CC
* * * * *
108510 ATTGTTGACTAAATGGAGATTTGGTAGCTTACCATTGTTGATTAAATGGGAAATTTGGTAGCTTA
1 ATTGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGT-GGTTG
108575 CC
65 CC
* *
108577 ATTGTTGATTAAATGGGTGATTTGGTGGCTTACCATTGTTGACTAAATGGGAGATTTGGTAGGTT
1 ATTGTTGATTAAAT-GGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGT-GGTT
108642 GCC
64 GCC
108645 ATTGTTGATTAAATGGTG
1 ATTGTTGATTAAATGGTG
108663 GTTTTTACCA
Statistics
Matches: 137, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
67 75 0.55
68 62 0.45
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.40
Consensus pattern (66 bp):
ATTGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTGGTTGC
C
Found at i:108582 original size:101 final size:101
Alignment explanation
Indices: 108443--108662 Score: 363
Period size: 101 Copynumber: 2.2 Consensus size: 101
108433 TTACATGGAT
* *
108443 ATTGTTGATTAAATGGTGATTTAGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTTG
1 ATTGTTGATTAAATGGTGATTTAGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCTTA
108508 CCATTGTTGACTAAAT-GGAGATTTGGTAGCTTACC
66 CCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
*
108543 ATTGTTGATTAAATGG-GAAATTTGGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCT
1 ATTGTTGATTAAATGGTG--ATTTAGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCT
* *
108607 TACCATTGTTGACTAAATGGGAGATTTGGTAGGTTGCC
64 TACCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
108645 ATTGTTGATTAAATGGTG
1 ATTGTTGATTAAATGGTG
108663 GTTTTTACCA
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
99 1 0.01
100 16 0.14
101 60 0.54
102 33 0.30
103 1 0.01
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.40
Consensus pattern (101 bp):
ATTGTTGATTAAATGGTGATTTAGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCTTA
CCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
Found at i:109021 original size:19 final size:19
Alignment explanation
Indices: 108965--109027 Score: 90
Period size: 19 Copynumber: 3.3 Consensus size: 19
108955 TGGTTGTCGA
**
108965 GGTACTATTCACGTATATA
1 GGTACTATTCACGTATACG
108984 GGTACTATTCACGTATACG
1 GGTACTATTCACGTATACG
*
109003 GGTACTATTCAAGTATACG
1 GGTACTATTCACGTATACG
*
109022 GTTACT
1 GGTACT
109028 GTACACGTGA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (19 bp):
GGTACTATTCACGTATACG
Found at i:113162 original size:34 final size:34
Alignment explanation
Indices: 113093--113310 Score: 296
Period size: 34 Copynumber: 6.5 Consensus size: 34
113083 AAGTGGGAGA
* *
113093 ATTGTTGATTAAAT-GGTGATTTAGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * * *
113126 ATTGTTGATTAAATGGGTGATTTGGTGGTTTGCC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
*
113160 ATTGTTGACTAAAT-GGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
*
113193 ATTGTTGATTAAATGGGAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* *
113227 ATTGTTGATTAAATGGGTGATTTGGTGGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * * *
113261 ATTATTGACTAAATGGGAGATTTGGTAGGTTGCC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
113295 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
113311 TGGTTTTTAC
Statistics
Matches: 161, Mismatches: 22, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
33 42 0.26
34 119 0.74
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.40
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
Found at i:113201 original size:67 final size:66
Alignment explanation
Indices: 113093--113312 Score: 314
Period size: 67 Copynumber: 3.3 Consensus size: 66
113083 AAGTGGGAGA
* *
113093 ATTGTTGATTAAATGGTGATTTAGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTTG
1 ATTGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTGG-TTG
113158 CC
65 CC
* * * * *
113160 ATTGTTGACTAAATGGAGATTTGGTAGCTTACCATTGTTGATTAAATGGGAAATTTGGTAGCTTA
1 ATTGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGT-GGTTG
113225 CC
65 CC
* * *
113227 ATTGTTGATTAAATGGGTGATTTGGTGGCTTACCATTATTGACTAAATGGGAGATTTGGTAGGTT
1 ATTGTTGATTAAAT-GGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGT-GGTT
113292 GCC
64 GCC
113295 ATTGTTGATTAAATGGTG
1 ATTGTTGATTAAATGGTG
113313 GTTTTTACCA
Statistics
Matches: 136, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
67 75 0.55
68 61 0.45
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.40
Consensus pattern (66 bp):
ATTGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTGGTTGC
C
Found at i:113234 original size:101 final size:101
Alignment explanation
Indices: 113093--113312 Score: 354
Period size: 101 Copynumber: 2.2 Consensus size: 101
113083 AAGTGGGAGA
* *
113093 ATTGTTGATTAAATGGTGATTTAGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTTG
1 ATTGTTGATTAAATGGTGATTTAGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCTTA
*
113158 CCATTGTTGACTAAAT-GGAGATTTGGTAGCTTACC
66 CCATTATTGACTAAATGGGAGATTTGGTAGCTTACC
*
113193 ATTGTTGATTAAATGG-GAAATTTGGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCT
1 ATTGTTGATTAAATGGTG--ATTTAGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCT
* *
113257 TACCATTATTGACTAAATGGGAGATTTGGTAGGTTGCC
64 TACCATTATTGACTAAATGGGAGATTTGGTAGCTTACC
113295 ATTGTTGATTAAATGGTG
1 ATTGTTGATTAAATGGTG
113313 GTTTTTACCA
Statistics
Matches: 110, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
99 1 0.01
100 16 0.15
101 59 0.54
102 33 0.30
103 1 0.01
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.40
Consensus pattern (101 bp):
ATTGTTGATTAAATGGTGATTTAGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCTTA
CCATTATTGACTAAATGGGAGATTTGGTAGCTTACC
Found at i:115218 original size:23 final size:24
Alignment explanation
Indices: 115169--115218 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
115159 TAGTATAACT
** *
115169 AATATTTATTAAATATTTTTTTTAA
1 AATATTTA-TAAATATTAATTTAAA
115194 AATATTTA-AAATATTAATTTAAA
1 AATATTTATAAATATTAATTTAAA
115217 AA
1 AA
115219 AATTGACTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 14 0.64
25 8 0.36
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (24 bp):
AATATTTATAAATATTAATTTAAA
Found at i:115388 original size:2 final size:2
Alignment explanation
Indices: 115340--115368 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
115330 TATCAAATTC
115340 AT AT 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 AT AT A
115369 AGTTTTTTAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:115677 original size:16 final size:17
Alignment explanation
Indices: 115640--115679 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
115630 GTAAATATAA
115640 ATTTAAAAATTATAAAT
1 ATTTAAAAATTATAAAT
*
115657 ATTTAAAATTTA-AAAT
1 ATTTAAAAATTATAAAT
*
115673 TTTTAAA
1 ATTTAAA
115680 TATCAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTTAAAAATTATAAAT
Found at i:116659 original size:21 final size:21
Alignment explanation
Indices: 116616--116655 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
116606 GTAGTTAAAA
116616 AATTTTAAATATTAAATATAT
1 AATTTTAAATATTAAATATAT
*
116637 AATTTT-ATTATTAAATATA
1 AATTTTAAATATTAAATATA
116656 ATAAATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AATTTTAAATATTAAATATAT
Found at i:117082 original size:19 final size:19
Alignment explanation
Indices: 117057--117102 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
117047 AATTAAAATA
117057 TTTTTAATTTTATATT-AT
1 TTTTTAATTTTATATTGAT
*
117075 TATTTTAATTTTATTTTGAT
1 T-TTTTAATTTTATATTGAT
117095 TTTTTAAT
1 TTTTTAAT
117103 AAATTCATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 1 0.04
19 21 0.84
20 3 0.12
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (19 bp):
TTTTTAATTTTATATTGAT
Found at i:118610 original size:58 final size:57
Alignment explanation
Indices: 118492--118610 Score: 127
Period size: 58 Copynumber: 2.1 Consensus size: 57
118482 ATTAAATGAA
* * * *
118492 TAAATATATTTTTAAAAGTTATTAATAAAAGTAAAATATTAATAAAATTTTAAATGC
1 TAAATATATTTTGAAAAGTTATAAATAAAAATAAAATATTAATAAAATTATAAATGC
* *
118549 TAAATATAAATTTTGAAAA-TTATAAATAAAAATAATATATTGAA-AAGAATTATGAAT-C
1 TAAATAT--ATTTTGAAAAGTTATAAATAAAAATAAAATATT-AATAA-AATTATAAATGC
118607 TAAA
1 TAAA
118611 GTACTATATC
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
57 7 0.13
58 26 0.50
59 19 0.37
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.37
Consensus pattern (57 bp):
TAAATATATTTTGAAAAGTTATAAATAAAAATAAAATATTAATAAAATTATAAATGC
Found at i:119481 original size:13 final size:14
Alignment explanation
Indices: 119452--119489 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
119442 ACTTTTAATT
* *
119452 TTTAATTTAATCGA
1 TTTAATCTAATCAA
119466 TTTAA-CTAATCAA
1 TTTAATCTAATCAA
119479 TTTAATCTAAT
1 TTTAATCTAAT
119490 TTTTTTTGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.39, C:0.11, G:0.03, T:0.47
Consensus pattern (14 bp):
TTTAATCTAATCAA
Found at i:124080 original size:20 final size:20
Alignment explanation
Indices: 124061--124099 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
124051 ATAAGTTTTA
124061 TATTT-ATTATT-AATAATT
1 TATTTAATTATTCAATAATT
*
124079 TATTTAATTTTTCAATAATT
1 TATTTAATTATTCAATAATT
124099 T
1 T
124100 TACTAAGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 5 0.28
20 8 0.44
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTAATTATTCAATAATT
Found at i:124375 original size:16 final size:14
Alignment explanation
Indices: 124343--124370 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
124333 ATCAACATAG
124343 AAATATAATTTTTT
1 AAATATAATTTTTT
124357 AAATATAATTTTTT
1 AAATATAATTTTTT
124371 TTAAAAAAAA
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:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
AAATATAATTTTTT
Found at i:125221 original size:5 final size:5
Alignment explanation
Indices: 125211--125270 Score: 54
Period size: 5 Copynumber: 12.2 Consensus size: 5
125201 TAAATTTTGA
* *
125211 TATAT TATAT TATAT TTTAAT T-TTT TATAT TATATT TATAT TATA- TA-AT
1 TATAT TATAT TATAT TAT-AT TATAT TATAT TATA-T TATAT TATAT TATAT
*
125260 TATAT CATAT T
1 TATAT TATAT T
125271 TAAAAATTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
3 1 0.02
4 6 0.13
5 30 0.67
6 8 0.18
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (5 bp):
TATAT
Found at i:125262 original size:13 final size:11
Alignment explanation
Indices: 125210--125272 Score: 60
Period size: 11 Copynumber: 5.6 Consensus size: 11
125200 ATAAATTTTG
125210 ATATATTATATT
1 ATAT-TTATATT
125222 ATATTT-TAATT
1 ATATTTAT-ATT
125233 -T-TTTATATT
1 ATATTTATATT
125242 ATATTTATATT
1 ATATTTATATT
*
125253 ATATAATTATATC
1 ATAT--TTATATT
125266 ATATTTA
1 ATATTTA
125273 AAAATTTTAG
Statistics
Matches: 44, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
9 6 0.14
10 4 0.09
11 20 0.45
12 4 0.09
13 10 0.23
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (11 bp):
ATATTTATATT
Found at i:127057 original size:27 final size:27
Alignment explanation
Indices: 127027--127118 Score: 84
Period size: 27 Copynumber: 3.4 Consensus size: 27
127017 GTAATTCGTG
*
127027 TATTTATATTAA-TTATATATTTTATTA
1 TATTTATATTAATTTA-ATATATTATTA
* *
127054 TA-TTATAATCATATTTAAAATATT-TTA
1 TATTTAT-ATTA-ATTTAATATATTATTA
*
127081 TATTTATATTAATTTTAATATATTAATA
1 TATTTATATTAA-TTTAATATATTATTA
127109 -ATTTATATTA
1 TATTTATATTA
127119 TATAAATTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
26 5 0.09
27 33 0.62
28 12 0.23
29 3 0.06
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (27 bp):
TATTTATATTAATTTAATATATTATTA
Found at i:127067 original size:21 final size:21
Alignment explanation
Indices: 127030--127069 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
127020 ATTCGTGTAT
*
127030 TTATATTAATTATATATTTTA
1 TTATATTAATAATATATTTTA
127051 TTATATT-ATAATCATATTT
1 TTATATTAATAAT-ATATTT
127070 AAAATATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
TTATATTAATAATATATTTTA
Found at i:127104 original size:14 final size:15
Alignment explanation
Indices: 127084--127130 Score: 51
Period size: 14 Copynumber: 3.0 Consensus size: 15
127074 TATTTTATAT
127084 TTATATTAATTTTAA
1 TTATATTAATTTTAA
127099 -TATATTAATAATTTATA
1 TTATATTAAT--TTTA-A
*
127116 TTATATAAATTTTAA
1 TTATATTAATTTTAA
127131 ATTTTGTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
14 9 0.33
15 1 0.04
16 8 0.30
17 1 0.04
18 8 0.30
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTATATTAATTTTAA
Found at i:128736 original size:19 final size:18
Alignment explanation
Indices: 128704--128751 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
128694 AAAAAAATAA
*
128704 AATATAATAT-AAAATAT
1 AATATAATATGAAAAAAT
*
128721 GATATAATATGAAAAAAT
1 AATATAATATGAAAAAAT
128739 AATATTAATATGA
1 AATA-TAATATGA
128752 CATATAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 9 0.35
18 9 0.35
19 8 0.31
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.33
Consensus pattern (18 bp):
AATATAATATGAAAAAAT
Found at i:128741 original size:30 final size:29
Alignment explanation
Indices: 128698--128781 Score: 82
Period size: 30 Copynumber: 2.8 Consensus size: 29
128688 ATAGTAAAAA
*
128698 AAATAAAATATAATATAAAATATG-ATAT
1 AAATAAAAAATAATATAAAATATGAATAT
*
128726 AATATGAAAAAATAATAT-TAATATGACATAT
1 AA-AT-AAAAAATAATATAAAATATGA-ATAT
*
128757 AAATAAAAATAAAATATAAAGATAT
1 AAATAAAAA-ATAATATAAA-ATAT
128782 AAATTATTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
28 2 0.04
29 13 0.29
30 19 0.42
31 7 0.16
32 4 0.09
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (29 bp):
AAATAAAAAATAATATAAAATATGAATAT
Found at i:129138 original size:16 final size:15
Alignment explanation
Indices: 129095--129139 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
129085 TAAATATAAA
*
129095 TTTTAAATTAAAAAT
1 TTTTAAATTCAAAAT
*
129110 ATTTAACATTCAAAAT
1 TTTTAA-ATTCAAAAT
129126 TTTTAAATATCAAA
1 TTTTAAAT-TCAAA
129140 TCAAAAAGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
15 7 0.28
16 18 0.72
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (15 bp):
TTTTAAATTCAAAAT
Found at i:129382 original size:10 final size:10
Alignment explanation
Indices: 129345--129402 Score: 66
Period size: 10 Copynumber: 6.0 Consensus size: 10
129335 ATCAACGAAT
*
129345 AATCAATATT
1 AATCAATATA
* *
129355 AATCTATAAA
1 AATCAATATA
129365 AAT-AATATA
1 AATCAATATA
*
129374 AATTAATAT-
1 AATCAATATA
129383 AATCAATATA
1 AATCAATATA
129393 AATCAATATA
1 AATCAATATA
129403 TAAATTAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
9 15 0.38
10 25 0.62
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (10 bp):
AATCAATATA
Found at i:129390 original size:19 final size:19
Alignment explanation
Indices: 129368--129419 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
129358 CTATAAAAAT
*
129368 AATATAAATTAATATAATC
1 AATATAAATTAATATAATA
*
129387 AATATAAATCAATAT-ATA
1 AATATAAATTAATATAATA
*
129405 AAT-TAAAATAATATA
1 AATATAAATTAATATA
129420 TTATTAATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
17 9 0.32
18 5 0.18
19 14 0.50
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (19 bp):
AATATAAATTAATATAATA
Found at i:129798 original size:24 final size:24
Alignment explanation
Indices: 129771--129859 Score: 73
Period size: 24 Copynumber: 3.9 Consensus size: 24
129761 GTCAGTATAG
129771 GATAATATATTTAATAAATATAAA
1 GATAATATATTTAATAAATATAAA
* * *
129795 GATACTATAATTAATAAA-A-CAA
1 GATAATATATTTAATAAATATAAA
*
129817 G---ATATATTTAA-AAATTATTAA
1 GATAATATATTTAATAAA-TATAAA
*
129838 TATAATATATTTAATAATATAT
1 GATAATATATTTAATAA-ATAT
129860 TATATTCATA
Statistics
Matches: 50, Mismatches: 7, Indels: 15
0.69 0.10 0.21
Matches are distributed among these distances:
18 3 0.06
19 8 0.16
20 1 0.02
21 2 0.04
22 3 0.06
23 1 0.02
24 26 0.52
25 5 0.10
26 1 0.02
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.39
Consensus pattern (24 bp):
GATAATATATTTAATAAATATAAA
Found at i:129855 original size:17 final size:17
Alignment explanation
Indices: 129835--129906 Score: 54
Period size: 17 Copynumber: 3.9 Consensus size: 17
129825 TAAAAATTAT
129835 TAATATAATATATTTAA
1 TAATATAATATATTTAA
* *
129852 TAATATATTATATTCATATT
1 TAATATAATATATT--TA-A
*
129872 TAAATTAAAATATATTTAA
1 T-AA-TATAATATATTTAA
* *
129891 TAATTTATTATATTTA
1 TAATATAATATATTTA
129907 TATTTATATT
Statistics
Matches: 42, Mismatches: 8, Indels: 10
0.70 0.13 0.17
Matches are distributed among these distances:
17 23 0.55
18 2 0.05
19 3 0.07
20 3 0.07
21 2 0.05
22 9 0.21
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (17 bp):
TAATATAATATATTTAA
Found at i:129856 original size:12 final size:12
Alignment explanation
Indices: 129818--129899 Score: 53
Period size: 12 Copynumber: 6.6 Consensus size: 12
129808 ATAAAACAAG
*
129818 ATATATTTAAAA
1 ATATATTTAATA
*
129830 AT-TATTAATATA
1 ATATATTTA-ATA
129842 ATATATTTAATA
1 ATATATTTAATA
129854 ATATA-TT-ATA
1 ATATATTTAATA
*
129864 TTCATATTTAAATTAAA
1 AT-ATATTT-AA-T--A
129881 ATATATTTAATA
1 ATATATTTAATA
*
129893 ATTTATT
1 ATATATT
129900 ATATTTATAT
Statistics
Matches: 55, Mismatches: 6, Indels: 18
0.70 0.08 0.23
Matches are distributed among these distances:
10 4 0.07
11 10 0.18
12 23 0.42
13 5 0.09
14 2 0.04
15 3 0.05
16 6 0.11
17 2 0.04
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (12 bp):
ATATATTTAATA
Found at i:129886 original size:39 final size:39
Alignment explanation
Indices: 129841--129922 Score: 128
Period size: 39 Copynumber: 2.1 Consensus size: 39
129831 TTATTAATAT
129841 AATATATTTAATAATATATTATATTCATATTTAAATTAA
1 AATATATTTAATAATATATTATATTCATATTTAAATTAA
* * * *
129880 AATATATTTAATAATTTATTATATTTATATTTATATTTA
1 AATATATTTAATAATATATTATATTCATATTTAAATTAA
129919 AATA
1 AATA
129923 AAAAATATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.52
Consensus pattern (39 bp):
AATATATTTAATAATATATTATATTCATATTTAAATTAA
Found at i:130694 original size:23 final size:24
Alignment explanation
Indices: 130657--130702 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
130647 AACAAACCAA
*
130657 TTAAATAAAAATTATTATAAAAAC
1 TTAAATAAAAATTATTAAAAAAAC
130681 TTAAAT-AAAATTATTAAAAAAA
1 TTAAATAAAAATTATTAAAAAAA
130703 TATAACCATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (24 bp):
TTAAATAAAAATTATTAAAAAAAC
Done.