Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1
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: 8764944
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.31
Warning! 632878 characters in sequence are not A, C, G, or T
File 35 of 52
Found at i:5856352 original size:46 final size:46
Alignment explanation
Indices: 5856270--5856385 Score: 144
Period size: 46 Copynumber: 2.5 Consensus size: 46
5856260 TCGATATCGT
* * * *
5856270 TGGCATTGAATCAGCATATTG-GCACCTTTGTTAGCTCAATGTCAC
1 TGGCCTTGAATCAGCACATTGTCCACCTTTGTTAGCTCAATGCCAC
* *
5856315 TGGCCTTGAATCAGCACATTGTCCACGTTTGTTAGCTCAATGCCGC
1 TGGCCTTGAATCAGCACATTGTCCACCTTTGTTAGCTCAATGCCAC
* **
5856361 TCGCCTTGAATCAGTGCATTGTCCA
1 TGGCCTTGAATCAGCACATTGTCCA
5856386 TTTTTCCCTT
Statistics
Matches: 61, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
45 19 0.31
46 42 0.69
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.32
Consensus pattern (46 bp):
TGGCCTTGAATCAGCACATTGTCCACCTTTGTTAGCTCAATGCCAC
Found at i:5856417 original size:48 final size:46
Alignment explanation
Indices: 5856270--5856429 Score: 142
Period size: 46 Copynumber: 3.5 Consensus size: 46
5856260 TCGATATCGT
* * * * * *
5856270 TGGCATTGAATCAGCATATTG-GCACCTTTGTTAGCTCAATGTCAC
1 TGGCCTTGAATCAGCACATTGTCCACGTTTCTTAGCTCAATGTCGC
* *
5856315 TGGCCTTGAATCAGCACATTGTCCACGTTTGTTAGCTCAATGCCGC
1 TGGCCTTGAATCAGCACATTGTCCACGTTTCTTAGCTCAATGTCGC
* ** ** * *
5856361 TCGCCTTGAATCAGTGCATTGTCCATTTTTCCCTTAGCTCGATGTCGT
1 TGGCCTTGAATCAGCACATTGTCCACGTTT--CTTAGCTCAATGTCGC
**
5856409 TGGCCTTGAATTGGCACATTG
1 TGGCCTTGAATCAGCACATTG
5856430 GCACCCCTTT
Statistics
Matches: 92, Mismatches: 20, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
45 19 0.21
46 45 0.49
48 28 0.30
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.34
Consensus pattern (46 bp):
TGGCCTTGAATCAGCACATTGTCCACGTTTCTTAGCTCAATGTCGC
Found at i:5857154 original size:20 final size:20
Alignment explanation
Indices: 5857125--5857249 Score: 88
Period size: 20 Copynumber: 5.7 Consensus size: 20
5857115 AAGTACCCAG
5857125 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * * *
5857145 ATGCATCGATATATGTATGA
1 ATGTATCGATACATTTTTCA
* *
5857165 ATGTATCAATACATTCTTCA
1 ATGTATCGATACATTTTTCA
5857185 ATGTATCGATACATTCTGTCTTTTTACCCA
1 ATGTATCGATACA-------TTTTT---CA
5857215 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACATTTTTCA
5857236 ATGTATCGATACAT
1 ATGTATCGATACAT
5857250 CTAGTTAAAA
Statistics
Matches: 80, Mismatches: 14, Indels: 22
0.69 0.12 0.19
Matches are distributed among these distances:
20 54 0.68
21 2 0.03
24 5 0.06
27 4 0.05
30 2 0.03
31 13 0.16
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:5861515 original size:29 final size:29
Alignment explanation
Indices: 5861460--5861539 Score: 69
Period size: 29 Copynumber: 2.8 Consensus size: 29
5861450 TCTTTATATC
* * *
5861460 GATTAAAAATATTTTTTATAT-ATAT-AAT
1 GATT-AAAATATTTTTAATTTAAAATAAAT
5861488 GATTGAAAATATTTTTAATTTAAAATAAAT
1 GATT-AAAATATTTTTAATTTAAAATAAAT
5861518 -AGTTAAGAA-ATTTTTAATTTAA
1 GA-TTAA-AATATTTTTAATTTAA
5861540 TTCAAATTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
28 18 0.41
29 19 0.43
30 7 0.16
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.46
Consensus pattern (29 bp):
GATTAAAATATTTTTAATTTAAAATAAAT
Found at i:5866199 original size:17 final size:19
Alignment explanation
Indices: 5866163--5866201 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
5866153 TTGTTGTGTT
5866163 TATTAATTTTTTATATTCG
1 TATTAATTTTTTATATTCG
5866182 TATT-ATTTTTTATA-TCG
1 TATTAATTTTTTATATTCG
5866199 TAT
1 TAT
5866202 AGTATTTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 6 0.30
18 10 0.50
19 4 0.20
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.64
Consensus pattern (19 bp):
TATTAATTTTTTATATTCG
Found at i:5867175 original size:23 final size:23
Alignment explanation
Indices: 5867136--5867180 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
5867126 TAAATAAAAA
* * *
5867136 TTTAAATATTAAGTTAATAATTT
1 TTTAAATATCAAATTAAAAATTT
5867159 TTTAAATATCAAATTAAAAATT
1 TTTAAATATCAAATTAAAAATT
5867181 ATATTAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (23 bp):
TTTAAATATCAAATTAAAAATTT
Found at i:5867212 original size:25 final size:25
Alignment explanation
Indices: 5867162--5867212 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
5867152 ATAATTTTTT
* * *
5867162 AAATATCAAATTAAAAATTATATTA
1 AAATATAAAACTAAAAAATATATTA
5867187 AAATATAAAACTAAATAAATAT-TTA
1 AAATATAAAACTAAA-AAATATATTA
5867212 A
1 A
5867213 TTTAGAGTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (25 bp):
AAATATAAAACTAAAAAATATATTA
Found at i:5867328 original size:43 final size:43
Alignment explanation
Indices: 5867242--5867328 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
5867232 TATACTATTT
* * * *
5867242 AATAACTTTTTATTTGATTTATATTTTAACATATTAATTATTA
1 AATAACTTTTTATATGATTTATATTTTAACAAATCAATAATTA
* * *
5867285 AATAATTTTTTATATGATTTATATTTTGATAAATCAATAATTA
1 AATAACTTTTTATATGATTTATATTTTAACAAATCAATAATTA
5867328 A
1 A
5867329 GTTTAGTAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.53
Consensus pattern (43 bp):
AATAACTTTTTATATGATTTATATTTTAACAAATCAATAATTA
Found at i:5868484 original size:67 final size:68
Alignment explanation
Indices: 5868365--5868494 Score: 199
Period size: 67 Copynumber: 1.9 Consensus size: 68
5868355 GAAATAGACA
* *
5868365 TTTCCGATGAGGTATATTCTTGGGCTTCGATTAAAATGAAAAATCTGACTATAATGACTTAGGTG
1 TTTCCGATGAGCTATATTCTTGGACTTCGATTAAAATGAAAAATCTGACTATAATGACTTAGGTG
5868430 CCC
66 CCC
* * * *
5868433 TTTCCGATGAGCTATATT-TTGGACTTTGATTCAAATGAAAAATCTGCCTATAATGCCTTAGG
1 TTTCCGATGAGCTATATTCTTGGACTTCGATTAAAATGAAAAATCTGACTATAATGACTTAGG
5868495 AATCACGAAG
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
67 39 0.70
68 17 0.30
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.35
Consensus pattern (68 bp):
TTTCCGATGAGCTATATTCTTGGACTTCGATTAAAATGAAAAATCTGACTATAATGACTTAGGTG
CCC
Found at i:5870865 original size:17 final size:18
Alignment explanation
Indices: 5870815--5870866 Score: 52
Period size: 17 Copynumber: 2.8 Consensus size: 18
5870805 ATTGGTCAAT
*
5870815 ATATTAAAATAAAGTTTTAA
1 ATATT-AAATATA-TTTTAA
*
5870835 ATATTTAAAAATATTTT-A
1 ATA-TTAAATATATTTTAA
5870853 ATATTAAATATATT
1 ATATTAAATATATT
5870867 AAATATAGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 10 0.36
18 4 0.14
19 4 0.14
20 8 0.29
21 2 0.07
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (18 bp):
ATATTAAATATATTTTAA
Found at i:5870867 original size:9 final size:9
Alignment explanation
Indices: 5870831--5870885 Score: 53
Period size: 9 Copynumber: 6.4 Consensus size: 9
5870821 AAATAAAGTT
5870831 TTAAATAT-
1 TTAAATATA
*
5870839 TTAAAAATA
1 TTAAATATA
**
5870848 TTTTA-ATA
1 TTAAATATA
5870856 TTAAATATA
1 TTAAATATA
5870865 TTAAATATA
1 TTAAATATA
*
5870874 GTAAATA-A
1 TTAAATATA
5870882 TTAA
1 TTAA
5870886 TAAAAATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
8 17 0.45
9 21 0.55
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (9 bp):
TTAAATATA
Found at i:5871218 original size:23 final size:23
Alignment explanation
Indices: 5871191--5871236 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
5871181 CATTAAATGT
* * *
5871191 AAAATATAGATGTTTAATTAATA
1 AAAATATAAATATCTAATTAATA
*
5871214 AAAATTTAAATATCTAATTAATA
1 AAAATATAAATATCTAATTAATA
5871237 TTTTTTTAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.39
Consensus pattern (23 bp):
AAAATATAAATATCTAATTAATA
Found at i:5884704 original size:2 final size:2
Alignment explanation
Indices: 5884697--5884725 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
5884687 TCTCCATTCC
5884697 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
5884726 CCCCCCAAGT
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:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:5886806 original size:22 final size:23
Alignment explanation
Indices: 5886759--5886806 Score: 55
Period size: 22 Copynumber: 2.1 Consensus size: 23
5886749 GTATATTTAT
*
5886759 ATTATAGTTATACATTTTCACTA
1 ATTATAGTTATACATTTTCACAA
*
5886782 ATTATA-TTATATATTTAT-ACAA
1 ATTATAGTTATACATTT-TCACAA
5886804 ATT
1 ATT
5886807 TTAATATGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.50
Consensus pattern (23 bp):
ATTATAGTTATACATTTTCACAA
Found at i:5888326 original size:21 final size:22
Alignment explanation
Indices: 5888287--5888328 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
5888277 GAAAATTTCA
*
5888287 TGAAAATTTTAGGAAAAATATT
1 TGAAAATTTTAGAAAAAATATT
5888309 TGAAAATTTT-GAAAAAATAT
1 TGAAAATTTTAGAAAAAATAT
5888329 CTATTAGGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.36
Consensus pattern (22 bp):
TGAAAATTTTAGAAAAAATATT
Found at i:5893308 original size:25 final size:23
Alignment explanation
Indices: 5893260--5893304 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
5893250 TTAAGTATGT
*
5893260 TTTTTGTGAAGAGAGTAATGCTA
1 TTTTTGTGAAGAGAATAATGCTA
5893283 TTTTTGTGAAGAGAATAATGCT
1 TTTTTGTGAAGAGAATAATGCT
5893305 CTATGACATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.31, C:0.04, G:0.24, T:0.40
Consensus pattern (23 bp):
TTTTTGTGAAGAGAATAATGCTA
Found at i:5893713 original size:19 final size:19
Alignment explanation
Indices: 5893677--5893721 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
5893667 TAATTACTCC
* *
5893677 TAATTATGTAATATATA-T
1 TAATTATGTAAAAAATATT
5893695 TAATTAGTGTAAAAAATATT
1 TAATTA-TGTAAAAAATATT
5893715 TAATTAT
1 TAATTAT
5893722 ATTTTCTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 6 0.26
19 10 0.43
20 7 0.30
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (19 bp):
TAATTATGTAAAAAATATT
Found at i:5894555 original size:8 final size:8
Alignment explanation
Indices: 5894512--5894566 Score: 56
Period size: 8 Copynumber: 6.5 Consensus size: 8
5894502 GCTGAGGAAG
*
5894512 AAAATAAA
1 AAAAGAAA
5894520 AAAAGAAA
1 AAAAGAAA
*
5894528 GAAAGAAA
1 AAAAGAAA
5894536 GAAAGGAGAAA
1 -AAA--AGAAA
5894547 AAAAGAAA
1 AAAAGAAA
*
5894555 AAGAGAAA
1 AAAAGAAA
5894563 AAAA
1 AAAA
5894567 TTTATATGTT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
8 29 0.74
9 2 0.05
10 3 0.08
11 5 0.13
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (8 bp):
AAAAGAAA
Found at i:5894634 original size:23 final size:23
Alignment explanation
Indices: 5894587--5894647 Score: 58
Period size: 23 Copynumber: 2.7 Consensus size: 23
5894577 TGTATTTATG
*
5894587 ATATTTTTTGTATGTAAAATATT
1 ATATTTTTTATATGTAAAATATT
5894610 ATATTTTTATATAT-TAATAAT-TT
1 ATATTTTT-TATATGTAA-AATATT
5894633 AT-TTTATTT-TATGTA
1 ATATTT-TTTATATGTA
5894648 TATATATATT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
21 3 0.09
22 6 0.18
23 17 0.52
24 7 0.21
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (23 bp):
ATATTTTTTATATGTAAAATATT
Found at i:5894699 original size:25 final size:26
Alignment explanation
Indices: 5894670--5894719 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
5894660 TATTATGTGT
5894670 ATATTATTTT-TAAATAATAT-TTTAA
1 ATATT-TTTTATAAATAATATATTTAA
*
5894695 ATATTTTTTATAAATATTATATTTA
1 ATATTTTTTATAAATAATATATTTA
5894720 TGTTATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 4 0.18
25 14 0.64
26 4 0.18
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (26 bp):
ATATTTTTTATAAATAATATATTTAA
Found at i:5894711 original size:13 final size:12
Alignment explanation
Indices: 5894670--5894712 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
5894660 TATTATGTGT
5894670 ATATTATTTTTAA
1 ATATT-TTTTTAA
* *
5894683 ATAATATTTTAA
1 ATATTTTTTTAA
5894695 ATATTTTTTATAA
1 ATATTTTTT-TAA
5894708 ATATT
1 ATATT
5894713 ATATTTATGT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
12 13 0.52
13 12 0.48
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
ATATTTTTTTAA
Found at i:5895053 original size:10 final size:10
Alignment explanation
Indices: 5895038--5895073 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
5895028 AATATTCGTA
5895038 TTATTATTTT
1 TTATTATTTT
5895048 TTATTATGTTT
1 TTATTAT-TTT
*
5895059 TAATTATTTT
1 TTATTATTTT
5895069 TTATT
1 TTATT
5895074 TATGTTATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (10 bp):
TTATTATTTT
Found at i:5895770 original size:13 final size:14
Alignment explanation
Indices: 5895740--5895815 Score: 68
Period size: 14 Copynumber: 5.4 Consensus size: 14
5895730 TTTTTATATG
*
5895740 ATTAAATTTTAATT
1 ATTAAATTTTATTT
5895754 -TTAAA-TTTATTT
1 ATTAAATTTTATTT
*
5895766 ATTAAATATTT-TTA
1 ATTAAAT-TTTATTT
* *
5895780 AATAAATTTTATTA
1 ATTAAATTTTATTT
5895794 ATTATAATTTTATTT
1 ATTA-AATTTTATTT
5895809 AATTAAA
1 -ATTAAA
5895816 AATTTTAGAA
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
12 6 0.12
13 13 0.25
14 14 0.27
15 14 0.27
16 4 0.08
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
ATTAAATTTTATTT
Found at i:5896021 original size:24 final size:24
Alignment explanation
Indices: 5895988--5896040 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
5895978 ACCTATTTTC
* *
5895988 TTTTATATTTTCAACTAATTTATT
1 TTTTACATTTTCAACTAACTTATT
* **
5896012 TTTTACATTTTTAGTTAACTTATT
1 TTTTACATTTTCAACTAACTTATT
5896036 TTTTA
1 TTTTA
5896041 AATAAATATA
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:0.26, C:0.08, G:0.02, T:0.64
Consensus pattern (24 bp):
TTTTACATTTTCAACTAACTTATT
Found at i:5896501 original size:26 final size:27
Alignment explanation
Indices: 5896472--5896525 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
5896462 GTGATGGATA
*
5896472 AAATTTTTGATTATATT-TA-TAATTTT
1 AAATTATTGATTAT-TTGTATTAATTTT
*
5896498 AAATTATTGTTTATTTGTATTAATTTT
1 AAATTATTGATTATTTGTATTAATTTT
5896525 A
1 A
5896526 TTTTATATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 2 0.08
26 14 0.58
27 8 0.33
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (27 bp):
AAATTATTGATTATTTGTATTAATTTT
Found at i:5896745 original size:22 final size:18
Alignment explanation
Indices: 5896734--5896768 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
5896724 ACTATTCATC
5896734 TTTCTTAAAAAAACTTTT
1 TTTCTTAAAAAAACTTTT
5896752 TTTCTTAAAAAAA-TTTT
1 TTTCTTAAAAAAACTTTT
5896769 ACATACGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTCTTAAAAAAACTTTT
Found at i:5896763 original size:17 final size:18
Alignment explanation
Indices: 5896734--5896768 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
5896724 ACTATTCATC
*
5896734 TTTCTTAAAAAAACTTTT
1 TTTCTTAAAAAAAATTTT
5896752 TTTCTT-AAAAAAATTTT
1 TTTCTTAAAAAAAATTTT
5896769 ACATACGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTCTTAAAAAAAATTTT
Found at i:5897436 original size:27 final size:27
Alignment explanation
Indices: 5897375--5897436 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 27
5897365 TAAGGGAGAG
*
5897375 AAGAAAAAAGAAAGGGAAAGACAAGGA
1 AAGAAAAAAGAAAGGGAAAGAAAAGGA
* *
5897402 AAGGAAAAGGAAA-GGAAA-AAAAGGA
1 AAGAAAAAAGAAAGGGAAAGAAAAGGA
*
5897427 TAGAGAAAAA
1 AAGA-AAAAA
5897437 TAAAATAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
25 8 0.29
26 9 0.32
27 11 0.39
ACGTcount: A:0.68, C:0.02, G:0.29, T:0.02
Consensus pattern (27 bp):
AAGAAAAAAGAAAGGGAAAGAAAAGGA
Found at i:5897604 original size:23 final size:23
Alignment explanation
Indices: 5897576--5897627 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
5897566 TATTTTTATA
* *
5897576 ATTTTTAATGTGATGTTTATGTT
1 ATTTTTAATGTGATGATCATGTT
* * *
5897599 ATTTTTCATGTTATGATCATTTT
1 ATTTTTAATGTGATGATCATGTT
5897622 ATTTTT
1 ATTTTT
5897628 TTATGTCATG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.21, C:0.04, G:0.12, T:0.63
Consensus pattern (23 bp):
ATTTTTAATGTGATGATCATGTT
Found at i:5897970 original size:27 final size:28
Alignment explanation
Indices: 5897909--5897979 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 28
5897899 TTCGTAAATT
* *
5897909 TATATTATA-ATTATATATTTATGTTTAA
1 TATATTTTATATT-TATATTAATGTTTAA
*
5897937 AATATTTTATATTTATATTAAT-TTTAA
1 TATATTTTATATTTATATTAATGTTTAA
5897964 TATA-TTTATAATTTAT
1 TATATTTTAT-ATTTAT
5897980 CTTATATAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 5 0.14
27 14 0.38
28 15 0.41
29 3 0.08
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.59
Consensus pattern (28 bp):
TATATTTTATATTTATATTAATGTTTAA
Found at i:5897986 original size:20 final size:20
Alignment explanation
Indices: 5897944--5897987 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
5897934 TAAAATATTT
*
5897944 TATATTTATATTAATTTTAA
1 TATATTTATATTAATCTTAA
*
5897964 TATATTTATAATTTATCTT-A
1 TATATTTAT-ATTAATCTTAA
5897984 TATA
1 TATA
5897988 AAGTTTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (20 bp):
TATATTTATATTAATCTTAA
Found at i:5898044 original size:21 final size:22
Alignment explanation
Indices: 5897996--5898052 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
5897986 TAAAGTTTAA
* *
5897996 ATTATATTTTTATTTTATGTAAT
1 ATTATA-TTATATTTTATATAAT
5898019 ATTATATTATATTTTA-ATAAT
1 ATTATATTATATTTTATATAAT
*
5898040 TTTATATGTATAT
1 ATTATAT-TATAT
5898053 ATATTTATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 10 0.33
22 14 0.47
23 6 0.20
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (22 bp):
ATTATATTATATTTTATATAAT
Found at i:5898055 original size:26 final size:26
Alignment explanation
Indices: 5898017--5898066 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
5898007 ATTTTATGTA
5898017 ATATTATATTATATTT-TAATAATTTT
1 ATATTATATTATATTTAT-ATAATTTT
5898043 ATATGTATA-TATATTTATATAATT
1 ATAT-TATATTATATTTATATAATT
5898067 ATATTTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (26 bp):
ATATTATATTATATTTATATAATTTT
Found at i:5898504 original size:31 final size:31
Alignment explanation
Indices: 5898468--5898576 Score: 82
Period size: 31 Copynumber: 3.5 Consensus size: 31
5898458 TTAAGTTAGG
*
5898468 TTAAATTTAAGTTATTATAAA-TTTAAA-AATT
1 TTAAATTTAAATTATT-TAAATTTTAAATAA-T
* *
5898499 TTAAATATAAATTGTTTAAATTTTAAATAAT
1 TTAAATTTAAATTATTTAAATTTTAAATAAT
** * * *
5898530 TTAAGATTTATTTTATTTTATTTTTTAATAA-
1 TTAA-ATTTAAATTATTTAAATTTTAAATAAT
*
5898561 -AAAATTTAAATTATTT
1 TTAAATTTAAATTATTT
5898577 GAGAGTAAAT
Statistics
Matches: 62, Mismatches: 13, Indels: 8
0.75 0.16 0.10
Matches are distributed among these distances:
29 11 0.18
30 6 0.10
31 24 0.39
32 21 0.34
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (31 bp):
TTAAATTTAAATTATTTAAATTTTAAATAAT
Found at i:5898509 original size:21 final size:22
Alignment explanation
Indices: 5898483--5898527 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
5898473 TTTAAGTTAT
5898483 TATAAATT-TAAAAATTTTAAA
1 TATAAATTGTAAAAATTTTAAA
**
5898504 TATAAATTGTTTAAATTTTAAA
1 TATAAATTGTAAAAATTTTAAA
5898526 TA
1 TA
5898528 ATTTAAGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (22 bp):
TATAAATTGTAAAAATTTTAAA
Found at i:5903047 original size:9 final size:9
Alignment explanation
Indices: 5903033--5903062 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
5903023 TCACTTTGTG
5903033 ATAATTTTT
1 ATAATTTTT
5903042 ATAATTTTT
1 ATAATTTTT
*
5903051 ATAATTCTT
1 ATAATTTTT
5903060 ATA
1 ATA
5903063 TATGTGTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (9 bp):
ATAATTTTT
Found at i:5903286 original size:15 final size:17
Alignment explanation
Indices: 5903266--5903305 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
5903256 CTCCTTTTAC
5903266 TATAATTTCT-CTAA-A
1 TATAATTTCTCCTAATA
5903281 TATAA-TTCTCCTAATA
1 TATAATTTCTCCTAATA
5903297 TATTAATTT
1 TA-TAATTT
5903306 AAAATTTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 4 0.19
15 9 0.43
16 3 0.14
17 3 0.14
18 2 0.10
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (17 bp):
TATAATTTCTCCTAATA
Found at i:5903565 original size:9 final size:9
Alignment explanation
Indices: 5903539--5903572 Score: 50
Period size: 10 Copynumber: 3.6 Consensus size: 9
5903529 TTAATTTTTG
5903539 AAATATTAA
1 AAATATTAA
5903548 AAATAATTAA
1 AAAT-ATTAA
5903558 AAATATTAA
1 AAATATTAA
5903567 AGAATA
1 A-AATA
5903573 AAATTCAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 10 0.43
10 13 0.57
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (9 bp):
AAATATTAA
Found at i:5903915 original size:25 final size:25
Alignment explanation
Indices: 5903857--5903915 Score: 59
Period size: 25 Copynumber: 2.4 Consensus size: 25
5903847 TGATTATACG
*
5903857 ATAAGAATACAATATAAAAAATTAA
1 ATAAAAATACAATATAAAAAATTAA
* *
5903882 A-ACATAATACAATATGAAAAA-TAA
1 ATA-AAAATACAATATAAAAAATTAA
5903906 TATAAAAATA
1 -ATAAAAATA
5903916 ACATAAATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
24 4 0.14
25 23 0.82
26 1 0.04
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.24
Consensus pattern (25 bp):
ATAAAAATACAATATAAAAAATTAA
Found at i:5905757 original size:3 final size:3
Alignment explanation
Indices: 5905749--5905782 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
5905739 GTAATATAGT
5905749 TTA TTA TTA TTA TTAA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA
5905783 AAGATAACCG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:5905770 original size:16 final size:16
Alignment explanation
Indices: 5905749--5905779 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
5905739 GTAATATAGT
5905749 TTATTATTATTATTAA
1 TTATTATTATTATTAA
5905765 TTATTATTATTATTA
1 TTATTATTATTATTA
5905780 TTAAAGATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTATTATTATTATTAA
Found at i:5906709 original size:21 final size:20
Alignment explanation
Indices: 5906685--5906751 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 20
5906675 TTTTTTAACG
5906685 TTTTTTATTTTATTAATTAAT
1 TTTTTTATTTTA-TAATTAAT
* * * *
5906706 TTTTTTAATATAATCATAAAT
1 TTTTTT-ATTTTATAATTAAT
*
5906727 ATTTTTATTTTA-AATATAAT
1 TTTTTTATTTTATAAT-TAAT
5906747 TTTTT
1 TTTTT
5906752 ATAATAATTT
Statistics
Matches: 34, Mismatches: 10, Indels: 5
0.69 0.20 0.10
Matches are distributed among these distances:
19 2 0.06
20 11 0.32
21 17 0.50
22 4 0.12
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTTTTATTTTATAATTAAT
Found at i:5906947 original size:29 final size:30
Alignment explanation
Indices: 5906917--5906988 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
5906907 AATATTTATA
* *
5906917 TTTATTAAATATTTAGATAATTAAAAATATT
1 TTTATTAAATATTTAAAAAATTAAAAATA-T
* *
5906948 TTTTTTAAATA-TTAAAAAATTAAACATAT
1 TTTATTAAATATTTAAAAAATTAAAAATAT
*
5906977 TTTAATAAATAT
1 TTTATTAAATAT
5906989 ATAATTATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
29 10 0.29
30 14 0.41
31 10 0.29
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (30 bp):
TTTATTAAATATTTAAAAAATTAAAAATAT
Found at i:5906971 original size:30 final size:31
Alignment explanation
Indices: 5906921--5906979 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
5906911 TTTATATTTA
* *
5906921 TTAAATATTTAGATAATTAAAAATATTTTTT
1 TTAAATATTTAAAAAATTAAAAATATTTTTT
*
5906952 TTAAATA-TTAAAAAATTAAACATATTTT
1 TTAAATATTTAAAAAATTAAAAATATTTT
5906980 AATAAATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 18 0.72
31 7 0.28
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (31 bp):
TTAAATATTTAAAAAATTAAAAATATTTTTT
Found at i:5907258 original size:14 final size:13
Alignment explanation
Indices: 5907211--5907257 Score: 62
Period size: 12 Copynumber: 3.7 Consensus size: 13
5907201 AATTTTTACT
5907211 TATTTATAATATTA
1 TATTTATAATA-TA
*
5907225 TATTTATATTA-A
1 TATTTATAATATA
5907237 TATTTA-AATATA
1 TATTTATAATATA
5907249 TATTTATAA
1 TATTTATAA
5907258 AAAAAAAGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
11 3 0.10
12 14 0.48
13 2 0.07
14 10 0.34
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TATTTATAATATA
Found at i:5908071 original size:21 final size:21
Alignment explanation
Indices: 5908046--5908085 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
5908036 AAATTTTATT
*
5908046 TAAAT-TTAATTATATAATATA
1 TAAATATTAA-TATAAAATATA
5908067 TAAATATTAATATAAAATA
1 TAAATATTAATATAAAATA
5908086 ATTTTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TAAATATTAATATAAAATATA
Found at i:5908910 original size:28 final size:26
Alignment explanation
Indices: 5908879--5908945 Score: 68
Period size: 28 Copynumber: 2.6 Consensus size: 26
5908869 TCTATATCTT
5908879 CATATTATATTTATATTATTTTTTATTA
1 CATATTATATTTATATTA-TTTTT-TTA
***
5908907 CATATTAT-GCAATA-TATTTTTTTA
1 CATATTATATTTATATTATTTTTTTA
5908931 -ATATTATATTTATAT
1 CATATTATATTTATAT
5908946 CATATAATCT
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
23 7 0.23
24 6 0.19
25 5 0.16
26 2 0.06
27 3 0.10
28 8 0.26
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.60
Consensus pattern (26 bp):
CATATTATATTTATATTATTTTTTTA
Found at i:5909246 original size:30 final size:30
Alignment explanation
Indices: 5909188--5909246 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
5909178 TATTGTTGTC
** * *
5909188 ATCAATCTCCTAACCAATGAACCTAAAAAA
1 ATCAATCTCCTAACCAACAAAACAAAAAAA
*
5909218 ATCAATCTCCTAACCAACAAAAGAAAAAA
1 ATCAATCTCCTAACCAACAAAACAAAAAA
5909247 GAAAATGAGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.54, C:0.25, G:0.03, T:0.17
Consensus pattern (30 bp):
ATCAATCTCCTAACCAACAAAACAAAAAAA
Found at i:5911638 original size:2 final size:2
Alignment explanation
Indices: 5911631--5911705 Score: 98
Period size: 2 Copynumber: 37.5 Consensus size: 2
5911621 ACTTCCATAC
* ** *
5911631 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG ACT -T CC AT AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT
5911673 AT 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 AT A
5911706 GACCTCAACC
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
1 1 0.02
2 63 0.98
ACGTcount: A:0.48, C:0.05, G:0.01, T:0.45
Consensus pattern (2 bp):
AT
Found at i:5911679 original size:42 final size:42
Alignment explanation
Indices: 5911620--5911703 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
5911610 GTCTTGATCC
5911620 GACTTCCATACATATATATATATATATATATATATATATATA
1 GACTTCCATACATATATATATATATATATATATATATATATA
5911662 GACTTCCATACATATATATATATATATATATATATATATATA
1 GACTTCCATACATATATATATATATATATATATATATATATA
5911704 TAGACCTCAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (42 bp):
GACTTCCATACATATATATATATATATATATATATATATATA
Found at i:5912784 original size:13 final size:14
Alignment explanation
Indices: 5912759--5912788 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
5912749 GATTTGAATA
5912759 AAAATATTAAATTT
1 AAAATATTAAATTT
5912773 AAAATA-TAAATTT
1 AAAATATTAAATTT
5912786 AAA
1 AAA
5912789 TAAAAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AAAATATTAAATTT
Found at i:5912894 original size:7 final size:7
Alignment explanation
Indices: 5912865--5912907 Score: 52
Period size: 7 Copynumber: 6.3 Consensus size: 7
5912855 TCTATTTTAC
5912865 TATTATA
1 TATTATA
*
5912872 TAATATA
1 TATTATA
5912879 TATTA-A
1 TATTATA
*
5912885 TTTTATA
1 TATTATA
*
5912892 TTTTATA
1 TATTATA
5912899 TATTATA
1 TATTATA
5912906 TA
1 TA
5912908 ATTTTTATCG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
6 5 0.16
7 26 0.84
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
TATTATA
Found at i:5913030 original size:14 final size:14
Alignment explanation
Indices: 5912991--5913047 Score: 60
Period size: 14 Copynumber: 3.9 Consensus size: 14
5912981 ATTTTAAACT
5912991 TTATAAAAATATTAAA
1 TTATAAAAA-A-TAAA
* *
5913007 TAAATAAAAATTAAA
1 T-TATAAAAAATAAA
*
5913022 TTTTAAAAAATAAA
1 TTATAAAAAATAAA
5913036 TTATAAAAAATA
1 TTATAAAAAATA
5913048 TAAACAAACT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
14 21 0.62
15 5 0.15
16 1 0.03
17 7 0.21
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
TTATAAAAAATAAA
Found at i:5913873 original size:15 final size:15
Alignment explanation
Indices: 5913853--5913890 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
5913843 GGGAAGATGG
5913853 AAAAAATAAAAAGGA-
1 AAAAAATAAAAA-GAT
*
5913868 AAAAAATAGAAAGAT
1 AAAAAATAAAAAGAT
5913883 AAAAAATA
1 AAAAAATA
5913891 TTTTTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 2 0.10
15 19 0.90
ACGTcount: A:0.79, C:0.00, G:0.11, T:0.11
Consensus pattern (15 bp):
AAAAAATAAAAAGAT
Found at i:5913961 original size:7 final size:7
Alignment explanation
Indices: 5913949--5913979 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
5913939 TAATTGATGG
5913949 AATAAAA
1 AATAAAA
5913956 AAT-AAA
1 AATAAAA
5913962 AATAAAA
1 AATAAAA
5913969 AATAAAA
1 AATAAAA
5913976 AATA
1 AATA
5913980 TATAATTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (7 bp):
AATAAAA
Found at i:5913967 original size:13 final size:13
Alignment explanation
Indices: 5913949--5913976 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
5913939 TAATTGATGG
5913949 AATAAAAAATAAA
1 AATAAAAAATAAA
5913962 AATAAAAAATAAA
1 AATAAAAAATAAA
5913975 AA
1 AA
5913977 ATATATAATT
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:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (13 bp):
AATAAAAAATAAA
Found at i:5914495 original size:11 final size:11
Alignment explanation
Indices: 5914475--5914519 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
5914465 TATTCATATC
5914475 TTTATATTATA
1 TTTATATTATA
* *
5914486 TTTATGTTATTT
1 TTTATATTA-TA
*
5914498 TTTATTTTATA
1 TTTATATTATA
5914509 TTTATATTATA
1 TTTATATTATA
5914520 CTTTTTCTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
11 19 0.68
12 9 0.32
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (11 bp):
TTTATATTATA
Found at i:5914501 original size:23 final size:23
Alignment explanation
Indices: 5914475--5914518 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
5914465 TATTCATATC
*
5914475 TTTATATTATATTTATGTTATTT
1 TTTATATTATATTTATATTATTT
*
5914498 TTTATTTTATATTTATATTAT
1 TTTATATTATATTTATATTAT
5914519 ACTTTTTCTT
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:0.27, C:0.00, G:0.02, T:0.70
Consensus pattern (23 bp):
TTTATATTATATTTATATTATTT
Found at i:5914530 original size:23 final size:23
Alignment explanation
Indices: 5914463--5914532 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 23
5914453 TAAGTTTCAA
*
5914463 TATATTCATATCTTTATATTATATT
1 TATATT-ATA-CTTTTTATTATATT
*
5914488 TATGTTAT--TTTTTATTTTATATT
1 TATATTATACTTTTTA--TTATATT
*
5914511 TATATTATACTTTTTCTTATAT
1 TATATTATACTTTTTATTATAT
5914533 CATATTTGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
21 5 0.14
23 20 0.54
24 2 0.05
25 10 0.27
ACGTcount: A:0.27, C:0.06, G:0.01, T:0.66
Consensus pattern (23 bp):
TATATTATACTTTTTATTATATT
Found at i:5914530 original size:28 final size:27
Alignment explanation
Indices: 5914495--5914547 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
5914485 ATTTATGTTA
* *
5914495 TTTTTTATTTTATATTTATATTATACT
1 TTTTTTATATCATATTTATATTATACT
*
5914522 TTTTCTTATATCATATTTGTATTATA
1 TTTT-TTATATCATATTTATATTATA
5914548 TAATCTAATC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 4 0.18
28 18 0.82
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.66
Consensus pattern (27 bp):
TTTTTTATATCATATTTATATTATACT
Found at i:5917298 original size:15 final size:14
Alignment explanation
Indices: 5917258--5917294 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
5917248 TTCTATAAAT
5917258 ATATTTTTTAAAAA
1 ATATTTTTTAAAAA
*
5917272 ATATTTTTTAAAAT
1 ATATTTTTTAAAAA
*
5917286 ATGTTTTTT
1 ATATTTTTT
5917295 TAAACTCTCG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (14 bp):
ATATTTTTTAAAAA
Found at i:5918178 original size:89 final size:87
Alignment explanation
Indices: 5917976--5918229 Score: 325
Period size: 89 Copynumber: 2.9 Consensus size: 87
5917966 GTAACGCATG
* * * * * *
5917976 GATTGTAAATGCCAGATTAGAAGGATTAGACTATTACATGAATTGTATCTGAGAATCA-A-ATTT
1 GATTGTAAATGTCAGACT-GAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTTTT
5918039 TTTTATA-AAAAAAAAGTTGATT
65 TTTTATAGAAAAAAAAGTTGATT
* * * *
5918061 GATTATAAATATCAAACTGCAAAGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTTTT
1 GATTGTAAATGTCAGACTG-AAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGA-TTTT
5918126 TTTTTATAGAAAAAAAAGTTGATT
64 TTTTTATAGAAAAAAAAGTTGATT
* * * *
5918150 GATTGTAAATGTCAGACTGTAAGGATTAGACTAGTGCATGAATTATATTTGAGAATTAGATTCTT
1 GATTGTAAATGTCAGACTG-AAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTTTT
5918215 TTTTATAGAAAAAAA
65 TTTTATAGAAAAAAA
5918230 GATTTGCAAG
Statistics
Matches: 145, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
84 1 0.01
85 47 0.32
86 1 0.01
88 29 0.20
89 67 0.46
ACGTcount: A:0.41, C:0.07, G:0.16, T:0.36
Consensus pattern (87 bp):
GATTGTAAATGTCAGACTGAAGGATTAGACTAATGCATGAATTATATCTGAGAATCAGATTTTTT
TTTATAGAAAAAAAAGTTGATT
Found at i:5918369 original size:158 final size:156
Alignment explanation
Indices: 5918087--5918384 Score: 375
Period size: 158 Copynumber: 1.9 Consensus size: 156
5918077 CTGCAAAGAT
* ** * * * *
5918087 TAGACTAATGCATGAATTATATCTGAGAATCAGATTTTTTTTTTATAGAAAAAAAAGTTGATTGA
1 TAGACTAATGCATGAATTATATCTAAGAATCAGATTTTTTTGGTAAAAAAAAAAAAGTTAATTAA
* * * ** * * * *
5918152 TTGTAAATGTCAGACTGTAAGGATTAGACTAGTGCATGAATTATATTTGAGAATTAGA-TTCTTT
66 TTATAAATATCACACTACAAAGATTAGACTAATGCATAAATTATATTTGAGAATCAGATTTC-TT
*
5918216 TTTATAGAAAAAAAGATTTGCAAGAAC
130 TTGATAGAAAAAAAGATTTGCAAGAAC
*
5918243 TAGACTAATGCATGAATTGTATCTAAGAATC-GAGTTTTTTTGGGTAAAAAAAAGAAAAGTTAAT
1 TAGACTAATGCATGAATTATATCTAAGAATCAGA-TTTTTTT-GGTAAAAAAAA-AAAAGTTAAT
*
5918307 TAATTATAAGTATCACACTACAAAGATTAGACTAATGCATAAATTATATTTGAGAATCAGATTTC
63 TAATTATAAATATCACACTACAAAGATTAGACTAATGCATAAATTATATTTGAGAATCAGATTTC
5918372 TTTTGATAGAAAA
128 TTTTGATAGAAAA
5918385 GCTAAAAAGT
Statistics
Matches: 119, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
155 2 0.02
156 36 0.30
157 7 0.06
158 71 0.60
159 3 0.03
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.35
Consensus pattern (156 bp):
TAGACTAATGCATGAATTATATCTAAGAATCAGATTTTTTTGGTAAAAAAAAAAAAGTTAATTAA
TTATAAATATCACACTACAAAGATTAGACTAATGCATAAATTATATTTGAGAATCAGATTTCTTT
TGATAGAAAAAAAGATTTGCAAGAAC
Found at i:5920229 original size:16 final size:16
Alignment explanation
Indices: 5920210--5920255 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 16
5920200 AAATATTAAA
5920210 AATTATATATAAATTT
1 AATTATATATAAATTT
5920226 AA-T-TAT-TAAA---
1 AATTATATATAAATTT
5920236 AATTATATATAAATTT
1 AATTATATATAAATTT
5920252 AATT
1 AATT
5920256 CAACCCTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 12
0.67 0.00 0.33
Matches are distributed among these distances:
10 2 0.08
11 1 0.04
12 3 0.12
13 8 0.33
14 3 0.12
15 1 0.04
16 6 0.25
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AATTATATATAAATTT
Found at i:5920254 original size:26 final size:26
Alignment explanation
Indices: 5920190--5920255 Score: 114
Period size: 26 Copynumber: 2.5 Consensus size: 26
5920180 TTCTGAAAAG
* *
5920190 ATATAATTTTAAATATTAAAAATTAT
1 ATATAAATTTAATTATTAAAAATTAT
5920216 ATATAAATTTAATTATTAAAAATTAT
1 ATATAAATTTAATTATTAAAAATTAT
5920242 ATATAAATTTAATT
1 ATATAAATTTAATT
5920256 CAACCCTAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (26 bp):
ATATAAATTTAATTATTAAAAATTAT
Found at i:5921660 original size:33 final size:33
Alignment explanation
Indices: 5921623--5921689 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
5921613 TTCAACGATT
5921623 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
5921656 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
5921689 T
1 T
5921690 TTAAGCTACT
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:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:5921661 original size:13 final size:13
Alignment explanation
Indices: 5921643--5921667 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5921633 CATAAAATGT
5921643 TGTATCGATACAA
1 TGTATCGATACAA
5921656 TGTATCGATACA
1 TGTATCGATACA
5921668 TATTTTTTTG
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:5921748 original size:13 final size:13
Alignment explanation
Indices: 5921730--5921754 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5921720 ATCACTTAAA
5921730 TGTATCGATACAT
1 TGTATCGATACAT
5921743 TGTATCGATACA
1 TGTATCGATACA
5921755 CTGATCTTTG
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:5927124 original size:74 final size:68
Alignment explanation
Indices: 5927044--5927223 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 68
5927034 ATAATTAAAT
* *
5927044 TAAAAAATAAATCTTAAATTTTTATAAAT-AAAATTAAATTACACAAATAAAAATTTAAACTCAT
1 TAAAAAATAAAT-TTAAATTTTTACAAATCAAAA-TAAATTAC-C--ATAAAAA-TTAAACCCAT
*
5927108 ATCATACCTAA
60 AT-A-ACCAAA
* * *
5927119 TAAAAAATGCAA-TTAAATTTTTACAAATCAAAATAAATTACCCTAAAAATTAAACCCATATAAT
1 TAAAAAAT-AAATTTAAATTTTTACAAATCAAAATAAATTACCATAAAAATTAAACCCATATAAC
5927183 CAAA
65 CAAA
* *
5927187 T-AAAAATAAATTTAAACTTCTACAAAT-AGAAATAAAT
1 TAAAAAATAAATTTAAATTTTTACAAATCA-AAATAAAT
5927224 AATAACTCTA
Statistics
Matches: 92, Mismatches: 9, Indels: 16
0.79 0.08 0.14
Matches are distributed among these distances:
66 3 0.03
67 28 0.30
68 5 0.05
69 1 0.01
70 11 0.12
71 6 0.07
73 1 0.01
74 23 0.25
75 12 0.13
76 2 0.02
ACGTcount: A:0.57, C:0.12, G:0.01, T:0.31
Consensus pattern (68 bp):
TAAAAAATAAATTTAAATTTTTACAAATCAAAATAAATTACCATAAAAATTAAACCCATATAACC
AAA
Found at i:5927606 original size:7 final size:7
Alignment explanation
Indices: 5927594--5927624 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
5927584 CCGTGACTTT
5927594 TTTTAAA
1 TTTTAAA
5927601 TTTTAAA
1 TTTTAAA
5927608 TTTTAAA
1 TTTTAAA
5927615 TTTTATAA
1 TTTTA-AA
5927623 TT
1 TT
5927625 AATATTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 19 0.83
8 4 0.17
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (7 bp):
TTTTAAA
Found at i:5927639 original size:20 final size:20
Alignment explanation
Indices: 5927603--5927643 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
5927593 TTTTTAAATT
5927603 TTAAATTTTAAATTTTATAA
1 TTAAATTTTAAATTTTATAA
*
5927623 TTAATATTTTATATTTATATA
1 TTAA-ATTTTAAATTT-TATA
5927644 TAATAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 10 0.56
22 4 0.22
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TTAAATTTTAAATTTTATAA
Found at i:5929206 original size:21 final size:22
Alignment explanation
Indices: 5929166--5929212 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
5929156 GAACTATGCA
*
5929166 TTGTATCAATACAAGGTCAT-T
1 TTGTATCAATACAAGATCATAT
* *
5929187 TTGTATCGATACAATATCATAT
1 TTGTATCAATACAAGATCATAT
5929209 TTGT
1 TTGT
5929213 CATGGATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.43
Consensus pattern (22 bp):
TTGTATCAATACAAGATCATAT
Found at i:5929883 original size:13 final size:13
Alignment explanation
Indices: 5929865--5929915 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 13
5929855 AGCGAAGAAA
5929865 AAAAAAAGAATAGAG
1 AAAAAAA-AA-AGAG
5929880 AAAAAAAAAAGAG
1 AAAAAAAAAAGAG
5929893 AAAAACAAAGAA-AG
1 AAAAA-AAA-AAGAG
5929907 AAAAGAAAA
1 AAAA-AAAA
5929916 GATCATCCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
13 9 0.27
14 14 0.42
15 10 0.30
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.02
Consensus pattern (13 bp):
AAAAAAAAAAGAG
Found at i:5929916 original size:14 final size:15
Alignment explanation
Indices: 5929859--5929917 Score: 61
Period size: 15 Copynumber: 4.0 Consensus size: 15
5929849 AAAACTAGCG
*
5929859 AAGAAAAAAAAAAGA
1 AAGAGAAAAAAAAGA
5929874 ATAGAG-AAAAAAA-A
1 A-AGAGAAAAAAAAGA
5929888 AAGAGAAAAACAAAGA
1 AAGAGAAAAA-AAAGA
*
5929904 AAGA-AAAGAAAAGA
1 AAGAGAAAAAAAAGA
5929918 TCATCCAAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
13 4 0.11
14 11 0.29
15 15 0.39
16 8 0.21
ACGTcount: A:0.80, C:0.02, G:0.17, T:0.02
Consensus pattern (15 bp):
AAGAGAAAAAAAAGA
Found at i:5930298 original size:20 final size:20
Alignment explanation
Indices: 5930271--5930318 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
5930261 TGTTATGATC
*
5930271 CATGCATTCTATGATATTTT
1 CATGCATTCTATGACATTTT
*
5930291 CGTGCATTCTATGACATTTT
1 CATGCATTCTATGACATTTT
5930311 CATGCATT
1 CATGCATT
5930319 ATTATGATTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.23, C:0.19, G:0.12, T:0.46
Consensus pattern (20 bp):
CATGCATTCTATGACATTTT
Found at i:5930755 original size:29 final size:30
Alignment explanation
Indices: 5930714--5930794 Score: 71
Period size: 29 Copynumber: 2.8 Consensus size: 30
5930704 ATGTTAAGAC
**
5930714 CATTTATGCAATTTCATGCATTTTAAGG-T
1 CATTTATATAATTTCATGCATTTTAAGGAT
* * *
5930743 TATTT-TAGTAATTT-GT-CATTTTTTAGGAT
1 CATTTATA-TAATTTCATGCA-TTTTAAGGAT
5930772 CATTTATATAATTTCATGCATTT
1 CATTTATATAATTTCATGCATTT
5930795 ATGCATCATT
Statistics
Matches: 39, Mismatches: 7, Indels: 11
0.68 0.12 0.19
Matches are distributed among these distances:
27 2 0.05
28 9 0.23
29 20 0.51
30 6 0.15
31 2 0.05
ACGTcount: A:0.27, C:0.10, G:0.11, T:0.52
Consensus pattern (30 bp):
CATTTATATAATTTCATGCATTTTAAGGAT
Found at i:5931214 original size:56 final size:56
Alignment explanation
Indices: 5931083--5931240 Score: 183
Period size: 57 Copynumber: 2.8 Consensus size: 56
5931073 GCACTTTGAT
*
5931083 GTCATTTAGGTCATTTTTCACGATCTAAGGACTTTTATGCAATTTAATGAATATGGG
1 GTCATTTAGGT-ATTTTTCACGATCTAAGGACTTTTATGCAATTTAATGAATATAGG
* * * * * *
5931140 GTCATTTAGTTTATTTTTCATGAT-TCATGACTTTTATGCAATTTTATGTATATTAGG
1 GTCATTTAG-GTATTTTTCACGATCTAAGGACTTTTATGCAATTTAATGAATA-TAGG
* * * *
5931197 GTCATTTAGGTAATTTTCACGATCTAAAGATTTTTATGTAATTT
1 GTCATTTAGGTATTTTTCACGATCTAAGGACTTTTATGCAATTT
5931241 CATATATTTT
Statistics
Matches: 84, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
56 35 0.42
57 48 0.57
58 1 0.01
ACGTcount: A:0.27, C:0.10, G:0.16, T:0.47
Consensus pattern (56 bp):
GTCATTTAGGTATTTTTCACGATCTAAGGACTTTTATGCAATTTAATGAATATAGG
Found at i:5934433 original size:16 final size:16
Alignment explanation
Indices: 5934409--5934453 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
5934399 CTCAAACTTG
* *
5934409 AAATAATCTAAATTTA
1 AAATGATCTAAATTCA
*
5934425 AAATGATCTAAACTCA
1 AAATGATCTAAATTCA
*
5934441 AAATGATCCAAAT
1 AAATGATCTAAAT
5934454 CTATAATAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.53, C:0.13, G:0.04, T:0.29
Consensus pattern (16 bp):
AAATGATCTAAATTCA
Found at i:5944181 original size:20 final size:20
Alignment explanation
Indices: 5944158--5944213 Score: 112
Period size: 20 Copynumber: 2.8 Consensus size: 20
5944148 TATAAAGATC
5944158 AATGTATCGATACATTGAAT
1 AATGTATCGATACATTGAAT
5944178 AATGTATCGATACATTGAAT
1 AATGTATCGATACATTGAAT
5944198 AATGTATCGATACATT
1 AATGTATCGATACATT
5944214 TCCTTGGTAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (20 bp):
AATGTATCGATACATTGAAT
Found at i:5944247 original size:13 final size:13
Alignment explanation
Indices: 5944229--5944286 Score: 62
Period size: 13 Copynumber: 4.0 Consensus size: 13
5944219 GGTAGTAGCT
5944229 TTGTATCGATACA
1 TTGTATCGATACA
5944242 TTGTATCGATACAATA
1 TTGTATCGATAC---A
5944258 CTTATGTATCGATACA
1 --T-TGTATCGATACA
5944274 TTGTATCGATACA
1 TTGTATCGATACA
5944287 GTACTTATGT
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 24 0.62
14 1 0.03
16 2 0.05
18 1 0.03
19 11 0.28
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:5944267 original size:19 final size:18
Alignment explanation
Indices: 5944243--5944327 Score: 72
Period size: 19 Copynumber: 4.7 Consensus size: 18
5944233 ATCGATACAT
5944243 TGTATCGATACAATACTTA
1 TGTATCGATACAATA-TTA
5944262 TGTATCGATAC---A-T-
1 TGTATCGATACAATATTA
*
5944275 TGTATCGATACAGTACTTA
1 TGTATCGATACAATA-TTA
*
5944294 TGTATCGATACATTTATTA
1 TGTATCGATACA-ATATTA
5944313 TTTGTATCGATACAA
1 --TGTATCGATACAA
5944328 ATTGTTGAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 17
0.74 0.03 0.23
Matches are distributed among these distances:
13 11 0.20
14 1 0.02
16 2 0.04
18 1 0.02
19 26 0.47
20 2 0.04
21 12 0.22
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.40
Consensus pattern (18 bp):
TGTATCGATACAATATTA
Found at i:5944271 original size:32 final size:32
Alignment explanation
Indices: 5944230--5944307 Score: 147
Period size: 32 Copynumber: 2.4 Consensus size: 32
5944220 GTAGTAGCTT
5944230 TGTATCGATACATTGTATCGATACAATACTTA
1 TGTATCGATACATTGTATCGATACAATACTTA
*
5944262 TGTATCGATACATTGTATCGATACAGTACTTA
1 TGTATCGATACATTGTATCGATACAATACTTA
5944294 TGTATCGATACATT
1 TGTATCGATACATT
5944308 TATTATTTGT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATTGTATCGATACAATACTTA
Found at i:5947289 original size:19 final size:18
Alignment explanation
Indices: 5947261--5947323 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
5947251 AAATAGTAAA
*
5947261 TGTATTGATACATAAGTGT
1 TGTATCGATACATAAGT-T
5947280 TGTATCGAT--ATAA---
1 TGTATCGATACATAAGTT
5947293 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
5947312 TGTATCGATACA
1 TGTATCGATACA
5947324 ATGTATCGCT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 9 0.24
15 4 0.11
17 4 0.11
19 20 0.54
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:5947303 original size:32 final size:32
Alignment explanation
Indices: 5947259--5947331 Score: 119
Period size: 32 Copynumber: 2.3 Consensus size: 32
5947249 ACAAATAGTA
* *
5947259 AATGTATTGATACATAAGTGTTGTATCGATAT
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
5947291 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
5947323 AATGTATCG
1 AATGTATCG
5947332 CTATGAAGCT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:5949767 original size:51 final size:50
Alignment explanation
Indices: 5949714--5949844 Score: 163
Period size: 51 Copynumber: 2.6 Consensus size: 50
5949704 GTTTCTCAAT
* ** *
5949714 TTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTTTTAAAATACCAA
1 TTTTCATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAA
* * * *
5949764 TTTTCTATAATCGGGGATACTCCAACTCTGATTTTATTTCCAAAACACTGAC
1 TTTTC-ATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACAC-CAA
*
5949816 TTTTCACAATCGGGGATACTCCAACCCCG
1 TTTTCATAATCGGGGATACTCCAACCCCG
5949845 TTATTTTCGA
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
50 5 0.07
51 57 0.84
52 6 0.09
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (50 bp):
TTTTCATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAA
Found at i:5949945 original size:28 final size:28
Alignment explanation
Indices: 5949912--5949982 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
5949902 TTTTTCATCA
* *
5949912 GGGATACTCCAATCCCGTTATTTTTGAG
1 GGGATACTCCAACCCCGTTATTTTCGAG
* *
5949940 GGGATATTCCACCCCCGTTATTTTCGAG
1 GGGATACTCCAACCCCGTTATTTTCGAG
*
5949968 GGGATACCCCAACCC
1 GGGATACTCCAACCC
5949983 TGGCTTTATT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.21, C:0.30, G:0.21, T:0.28
Consensus pattern (28 bp):
GGGATACTCCAACCCCGTTATTTTCGAG
Found at i:5950132 original size:78 final size:76
Alignment explanation
Indices: 5949967--5950141 Score: 183
Period size: 78 Copynumber: 2.2 Consensus size: 76
5949957 TTATTTTCGA
* * * *
5949967 GGGGATACCCCAACCCTGGCTTTATTTCTAAAATATTAATTTCTCATAATCGGAGATATTCCAAC
1 GGGGATACTCCAACCCCGGCTTTATATCTAAAATATT-ATTTCTCATAATCGGAGATACTCCAAC
5950032 CTCGTTATCTCT
65 CTCGTTATCTCT
* * * *
5950044 GAGCGGATACTCCAACCCCGGCTTTATATCTAAAAATATT-TTTTTTATAATCGGGGGTACTCCA
1 G-G-GGATACTCCAACCCCGGCTTTATATCT-AAAATATTATTTCTCATAATCGGAGATACTCCA
*
5950108 ACCCTC-TTATTTCAT
63 A-CCTCGTTATCTC-T
*
5950123 CGGGGATACTCCAATCCCG
1 -GGGGATACTCCAACCCCG
5950142 TTATTTTCGA
Statistics
Matches: 82, Mismatches: 10, Indels: 11
0.80 0.10 0.11
Matches are distributed among these distances:
77 1 0.01
78 42 0.51
79 30 0.37
80 9 0.11
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (76 bp):
GGGGATACTCCAACCCCGGCTTTATATCTAAAATATTATTTCTCATAATCGGAGATACTCCAACC
TCGTTATCTCT
Found at i:5950169 original size:28 final size:27
Alignment explanation
Indices: 5950093--5950169 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 27
5950083 TTTTTTTATA
*
5950093 ATCGGGGGTACTCCAACCCTC-TTATTT
1 ATCGGGGATACTCCAACCC-CGTTATTT
*
5950120 CATCGGGGATACTCCAATCCCGTTATTT
1 -ATCGGGGATACTCCAACCCCGTTATTT
5950148 -TCGAAGGGATACTCCAACCCCG
1 ATCG--GGGATACTCCAACCCCG
5950170 ATTTTATTTC
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
26 3 0.07
27 1 0.02
28 39 0.91
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.27
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTATTT
Found at i:5950224 original size:51 final size:51
Alignment explanation
Indices: 5950154--5950313 Score: 184
Period size: 51 Copynumber: 3.2 Consensus size: 51
5950144 ATTTTCGAAG
5950154 GGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTTCATAATCGA
1 GGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTTCATAATCGA
* * * * * * * *
5950205 GGATACTCTAACTCTGATTTTATTT-TCAAAACACCAATTTCTCACAATTGG
1 GGATACTCCAACCCCGATTTTATTTCT-AAAATACCAATTTTTCATAATCGA
*
5950256 GGATACTCCAACCCCGATTTTATTTC-AAAATACCGA-TTTTCTATAATC-A
1 GGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTTC-ATAATCGA
5950305 GGGATACTC
1 -GGATACTC
5950314 TAACTCTATT
Statistics
Matches: 88, Mismatches: 17, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
49 4 0.05
50 21 0.24
51 63 0.72
ACGTcount: A:0.32, C:0.23, G:0.10, T:0.35
Consensus pattern (51 bp):
GGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTTCATAATCGA
Found at i:5956204 original size:51 final size:52
Alignment explanation
Indices: 5956108--5956222 Score: 153
Period size: 51 Copynumber: 2.2 Consensus size: 52
5956098 ACAATGAGGC
* *
5956108 TAGAGTATCCCTGATTATGGAAAAACGGTGTTCTAAAAAATAAAATCGGGGT
1 TAGAGTATCCCCGATTATGGAAAAACGATGTTCTAAAAAATAAAATCGGGGT
* * *
5956160 TAGAGTATCCCCGATTAT-GAAAAATTGATGTT-TTAGAAATAAAATCGGGGT
1 TAGAGTATCCCCGATTATGGAAAAA-CGATGTTCTAAAAAATAAAATCGGGGT
*
5956211 TGGAGTATCCCC
1 TAGAGTATCCCC
5956223 TCGGAAATAA
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
51 34 0.61
52 22 0.39
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.29
Consensus pattern (52 bp):
TAGAGTATCCCCGATTATGGAAAAACGATGTTCTAAAAAATAAAATCGGGGT
Found at i:5956290 original size:79 final size:79
Alignment explanation
Indices: 5956154--5956424 Score: 425
Period size: 79 Copynumber: 3.4 Consensus size: 79
5956144 AAAATAAAAT
* *
5956154 CGGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
5956219 CCCCTCGGAAATAA
66 CCCCTCGAAAATAA
* * * * *
5956233 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATGTTTTAAAAATAAAGCCCGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
5956298 CCCCTCGAAAATAA
66 CCCCTCGAAAATAA
* * *
5956312 CGGGGTTGGAGTATCCCCAATTATGAAAATTTGATGTTTTAGAGATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
5956377 CCCCTCGAAAATAA
66 CCCCTCGAAAATAA
* *
5956391 CGGGATTGGAGTATCCCCGATTGTGAAAAATTGA
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGA
5956425 GAAACTTAAC
Statistics
Matches: 172, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
79 172 1.00
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.27
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
CCCCTCGAAAATAA
Found at i:5957701 original size:35 final size:35
Alignment explanation
Indices: 5957636--5957802 Score: 243
Period size: 35 Copynumber: 4.9 Consensus size: 35
5957626 TCATTTTTAT
5957636 CCATCATTCCATGCCTTCA-TTTTTTATTCCATGC
1 CCATCATTCCATGCCTTCATTTTTTTATTCCATGC
*
5957670 CCATCATTCTATGCCTTCATTTTTTTATTCCATGC
1 CCATCATTCCATGCCTTCATTTTTTTATTCCATGC
* *
5957705 CCATCATTCCAAGCCTTCATTTTTATATTCCATGC
1 CCATCATTCCATGCCTTCATTTTTTTATTCCATGC
* * *
5957740 CCATCATCCCATG--TT-TTTTTTTTATTTCATGC
1 CCATCATTCCATGCCTTCATTTTTTTATTCCATGC
*
5957772 CCATCATTCCATGCCTTCATTTTTATATTCC
1 CCATCATTCCATGCCTTCATTTTTTTATTCC
5957803 TTGATTTTCA
Statistics
Matches: 116, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
32 26 0.22
33 2 0.02
34 20 0.17
35 68 0.59
ACGTcount: A:0.19, C:0.30, G:0.05, T:0.46
Consensus pattern (35 bp):
CCATCATTCCATGCCTTCATTTTTTTATTCCATGC
Found at i:5957788 original size:67 final size:69
Alignment explanation
Indices: 5957636--5957802 Score: 259
Period size: 67 Copynumber: 2.4 Consensus size: 69
5957626 TCATTTTTAT
* *
5957636 CCATCATTCCATGCCTTCATTTTT-TATTCCATGCCCATCATTCTATGCCTTCATTTTTTTATTC
1 CCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATCCCATG-CTTCATTTTTTTATTC
5957700 CATGC
65 CATGC
* * *
5957705 CCATCATTCCAAGCCTTCATTTTTATATTCCATGCCCATCATCCCATG-TT-TTTTTTTTATTTC
1 CCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATCCCATGCTTCATTTTTTTATTCC
5957768 ATGC
66 ATGC
5957772 CCATCATTCCATGCCTTCATTTTTATATTCC
1 CCATCATTCCATGCCTTCATTTTTATATTCC
5957803 TTGATTTTCA
Statistics
Matches: 91, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
67 45 0.49
68 2 0.02
69 23 0.25
70 21 0.23
ACGTcount: A:0.19, C:0.30, G:0.05, T:0.46
Consensus pattern (69 bp):
CCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATCCCATGCTTCATTTTTTTATTCC
ATGC
Found at i:5962626 original size:10 final size:10
Alignment explanation
Indices: 5962611--5962649 Score: 60
Period size: 10 Copynumber: 3.7 Consensus size: 10
5962601 CTTCTTTTCT
5962611 AAAAAAACAA
1 AAAAAAACAA
5962621 AAAAAAACAA
1 AAAAAAACAA
5962631 AAACAAAACAA
1 AAA-AAAACAA
5962642 AGAAAAAA
1 A-AAAAAA
5962650 GAGAGGAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 13 0.48
11 12 0.44
12 2 0.07
ACGTcount: A:0.87, C:0.10, G:0.03, T:0.00
Consensus pattern (10 bp):
AAAAAAACAA
Found at i:5962627 original size:11 final size:11
Alignment explanation
Indices: 5962611--5962649 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
5962601 CTTCTTTTCT
5962611 AAAAAAAC-AA
1 AAAAAAACAAA
5962621 AAAAAAACAAA
1 AAAAAAACAAA
*
5962632 AACAAAACAAA
1 AAAAAAACAAA
*
5962643 GAAAAAA
1 AAAAAAA
5962650 GAGAGGAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
10 8 0.32
11 17 0.68
ACGTcount: A:0.87, C:0.10, G:0.03, T:0.00
Consensus pattern (11 bp):
AAAAAAACAAA
Found at i:5962648 original size:16 final size:15
Alignment explanation
Indices: 5962611--5962649 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
5962601 CTTCTTTTCT
5962611 AAAAAAACAAAAAAA
1 AAAAAAACAAAAAAA
5962626 AACAAAAACAAAACAAA
1 AA-AAAAACAAAA-AAA
*
5962643 GAAAAAA
1 AAAAAAA
5962650 GAGAGGAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 2 0.10
16 15 0.71
17 4 0.19
ACGTcount: A:0.87, C:0.10, G:0.03, T:0.00
Consensus pattern (15 bp):
AAAAAAACAAAAAAA
Found at i:5963736 original size:55 final size:55
Alignment explanation
Indices: 5963617--5964155 Score: 618
Period size: 55 Copynumber: 9.5 Consensus size: 55
5963607 TTTCTCCTTT
*
5963617 CACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCAAACAAGTTGGTGG
1 CACTTTTCAGTCCTCAAAGAGCAGGACG------CCTTTCAAAGCCCACACAAGTTGGTGG
* *
5963678 CACCTTTT-AGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTTGGTAG
1 CA-CTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGG
* *
5963733 CACCTTTCAGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGTGG
1 CACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGG
*
5963788 CA-TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGG
1 CACTTTT-CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGG
** * *
5963843 CACTTCCCAGTCCTCAAAAAGCAGGATGCCTCTT-AAAGCCCACACAAGTTGGTGG
1 CACTTTTCAGTCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACAAGTTGGTGG
*
5963898 CATTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGG
1 CACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGG
* * * *
5963953 CATTTTTCAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCATATAAGTTGGTGG
1 CACTTTTCAGTCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACAAGTTGGTGG
* * *
5964008 CATTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTCTTTACAAAGCCCATACAAGTTGGTGG
1 CACTTTTCAGTCCTCAAAGAGCAGGA--C--GC-CTTT-CAAAGCCCACACAAGTTGGTGG
* * * * * *
5964069 CACCTTCCAGTCCTCAAAGAGCAGGACACCTTTCCTTTTGAAAGTCCACACGAGTTGTTGG
1 CACTTTTCAGTCCTCAAAGAGCAGGACGCCTTT-C-----AAAGCCCACACAAGTTGGTGG
* *
5964130 CACTTTTTAGTCTTCAAAGAGCAGGA
1 CACTTTTCAGTCCTCAAAGAGCAGGA
5964156 TACACTTTAT
Statistics
Matches: 422, Mismatches: 37, Indels: 38
0.85 0.07 0.08
Matches are distributed among these distances:
54 9 0.02
55 286 0.68
56 11 0.03
57 2 0.00
59 4 0.01
60 2 0.00
61 103 0.24
62 5 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (55 bp):
CACTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGG
Found at i:5965044 original size:19 final size:18
Alignment explanation
Indices: 5965020--5965082 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
5965010 AAACAGTAAA
5965020 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
5965039 TGTATCGAT--ATAA---
1 TGTATCGATACATAAGTT
5965052 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
*
5965071 TGTATCGCTACA
1 TGTATCGATACA
5965083 AAGCTATTGC
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 9 0.24
15 4 0.11
17 4 0.11
19 20 0.54
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:5965120 original size:21 final size:21
Alignment explanation
Indices: 5965094--5965135 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
5965084 AGCTATTGCC
*
5965094 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCAATACATT
*
5965115 AAGGAAGTGTATCAATACATT
1 AAGGAAATGTATCAATACATT
5965136 GTATCGATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.29
Consensus pattern (21 bp):
AAGGAAATGTATCAATACATT
Found at i:5967525 original size:51 final size:51
Alignment explanation
Indices: 5967469--5967650 Score: 249
Period size: 51 Copynumber: 3.6 Consensus size: 51
5967459 TTAAGTTTCT
** *
5967469 CAATTTTTCATAATTGGGGATACTCCAACCCCGGTTTTATTTTCAAAACAC
1 CAATTTTTCATAATCAGGGATACTCCAACCCCGATTTTATTTTCAAAACAC
* * *
5967520 CAATTTTTCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACAC
1 CAATTTTTCATAATCAGGGATACTCCAACCCCGATTTTATTTTCAAAACAC
* * *
5967571 CAATTTCTCATAATCAGGGATACTCAAACCCCGATTTTATTTTCAAAATAC
1 CAATTTTTCATAATCAGGGATACTCCAACCCCGATTTTATTTTCAAAACAC
* *
5967622 CGA-TTTTCTATAATCAGGGATACTTCAAC
1 CAATTTTTC-ATAATCAGGGATACTCCAAC
5967651 TCTATTTCTT
Statistics
Matches: 116, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
50 4 0.03
51 112 0.97
ACGTcount: A:0.32, C:0.24, G:0.10, T:0.34
Consensus pattern (51 bp):
CAATTTTTCATAATCAGGGATACTCCAACCCCGATTTTATTTTCAAAACAC
Found at i:5969024 original size:16 final size:16
Alignment explanation
Indices: 5968987--5969055 Score: 59
Period size: 16 Copynumber: 4.3 Consensus size: 16
5968977 GACCCGAACT
5968987 CGAAATAACTCAAATC
1 CGAAATAACTCAAATC
** *
5969003 TAAAATAACTTAAATC
1 CGAAATAACTCAAATC
* **
5969019 CGAAATAATTTGAATC
1 CGAAATAACTCAAATC
*
5969035 C-AAAGTGACTCAAATC
1 CGAAA-TAACTCAAATC
5969051 CGAAA
1 CGAAA
5969056 AGACCCGAAT
Statistics
Matches: 40, Mismatches: 11, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
15 3 0.08
16 34 0.85
17 3 0.08
ACGTcount: A:0.49, C:0.19, G:0.09, T:0.23
Consensus pattern (16 bp):
CGAAATAACTCAAATC
Found at i:5969493 original size:8 final size:8
Alignment explanation
Indices: 5969491--5969529 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
5969481 AAAAAATAGA
5969491 AAAAATAT
1 AAAAATAT
5969499 AAAAATAT
1 AAAAATAT
5969507 AAAAATA-
1 AAAAATAT
*
5969514 CAAAA-AT
1 AAAAATAT
5969521 AAAAATAT
1 AAAAATAT
5969529 A
1 A
5969530 TTTTATACCA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
6 1 0.04
7 8 0.30
8 18 0.67
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.21
Consensus pattern (8 bp):
AAAAATAT
Found at i:5969510 original size:16 final size:15
Alignment explanation
Indices: 5969491--5969529 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
5969481 AAAAAATAGA
5969491 AAAAATATAAAAATAT
1 AAAAATATAAAAA-AT
*
5969507 AAAAATA-CAAAAAT
1 AAAAATATAAAAAAT
5969521 AAAAATATA
1 AAAAATATA
5969530 TTTTATACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
14 9 0.45
15 4 0.20
16 7 0.35
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAAATATAAAAAAT
Found at i:5969518 original size:24 final size:25
Alignment explanation
Indices: 5969482--5969530 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
5969472 TGAAAATTGA
5969482 AAAAATAGAAAAAATATAAAA-ATAT
1 AAAAATAGAAAAAATA-AAAATATAT
*
5969507 AAAAATA-CAAAAATAAAAATATAT
1 AAAAATAGAAAAAATAAAAATATAT
5969531 TTTATACCAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 4 0.18
24 11 0.50
25 7 0.32
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (25 bp):
AAAAATAGAAAAAATAAAAATATAT
Found at i:5969519 original size:9 final size:8
Alignment explanation
Indices: 5969481--5969525 Score: 54
Period size: 8 Copynumber: 5.5 Consensus size: 8
5969471 TTGAAAATTG
5969481 AAAAAATA
1 AAAAAATA
5969489 GAAAAAATA
1 -AAAAAATA
*
5969498 TAAAAATA
1 AAAAAATA
*
5969506 TAAAAATA
1 AAAAAATA
*
5969514 CAAAAATA
1 AAAAAATA
5969522 AAAA
1 AAAA
5969526 TATATTTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
8 25 0.76
9 8 0.24
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (8 bp):
AAAAAATA
Found at i:5972571 original size:2 final size:2
Alignment explanation
Indices: 5972564--5972598 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
5972554 TTAAAAATCT
*
5972564 TA TA TA TA TA TA TA TA TA AA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5972599 TTTCATTACA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:5973179 original size:12 final size:11
Alignment explanation
Indices: 5973151--5973177 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
5973141 AAATTTATTA
5973151 TTAAATAATTT
1 TTAAATAATTT
5973162 TTAAATAATTT
1 TTAAATAATTT
5973173 TTAAA
1 TTAAA
5973178 ATCATATCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
TTAAATAATTT
Found at i:5973262 original size:22 final size:22
Alignment explanation
Indices: 5973237--5973278 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
5973227 AAAAATATAT
*
5973237 TAAAAATTAATAATATTAAATA
1 TAAAAATTAAGAATATTAAATA
*
5973259 TAAAAATTACGAATATTAAA
1 TAAAAATTAAGAATATTAAA
5973279 AATCTCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (22 bp):
TAAAAATTAAGAATATTAAATA
Found at i:5973791 original size:21 final size:21
Alignment explanation
Indices: 5973765--5973807 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
5973755 AAATATTTTT
*
5973765 TTAAAAAATTTATT-TTAGTAA
1 TTAAAAAAATTATTATTA-TAA
5973786 TTAAAAAAATTATTATTATAA
1 TTAAAAAAATTATTATTATAA
5973807 T
1 T
5973808 AATAATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
TTAAAAAAATTATTATTATAA
Found at i:5973810 original size:24 final size:22
Alignment explanation
Indices: 5973767--5973810 Score: 52
Period size: 24 Copynumber: 1.9 Consensus size: 22
5973757 ATATTTTTTT
* *
5973767 AAAAAATTTATTTTAGTAATTA
1 AAAAAATTTATTATAATAATTA
5973789 AAAAAATTATTATTATAATAAT
1 AAAAAA-T-TTATTATAATAAT
5973811 AATAAAACCG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 6 0.33
23 1 0.06
24 11 0.61
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
AAAAAATTTATTATAATAATTA
Found at i:5975003 original size:17 final size:18
Alignment explanation
Indices: 5974983--5975022 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
5974973 TTTTATAATT
*
5974983 TAATTTATT-TAATTTTA
1 TAATTTATTAAAATTTTA
5975000 TAATTTATTAAAATTTTA
1 TAATTTATTAAAATTTTA
*
5975018 AAATT
1 TAATT
5975023 ATTCTTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TAATTTATTAAAATTTTA
Found at i:5977706 original size:12 final size:12
Alignment explanation
Indices: 5977689--5977717 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
5977679 TTATTTTATT
5977689 TATATGTATATA
1 TATATGTATATA
5977701 TATATGTATATA
1 TATATGTATATA
5977713 TATAT
1 TATAT
5977718 ATTTTGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATATGTATATA
Found at i:5979247 original size:12 final size:12
Alignment explanation
Indices: 5979230--5979254 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5979220 AATTTTCTTT
5979230 TACTTGTCATTA
1 TACTTGTCATTA
5979242 TACTTGTCATTA
1 TACTTGTCATTA
5979254 T
1 T
5979255 GATGATTATT
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:0.16, G:0.08, T:0.52
Consensus pattern (12 bp):
TACTTGTCATTA
Found at i:5983561 original size:27 final size:27
Alignment explanation
Indices: 5983522--5984589 Score: 1677
Period size: 27 Copynumber: 39.0 Consensus size: 27
5983512 ATCATCCTCT
* *
5983522 CTTTAAAGCCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
5983549 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
5983576 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
5983603 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
5983631 CTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
5983659 CTTTTAAGTCCACAACTTCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
5983686 CTTTTTAAGTCCACAACTCCGTGGCACC
1 C-TTTTAAGTCCACAACTCCGTGGCACC
5983714 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
5983741 CTTTTAAGTCCACAACTCCGCGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
5983768 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
5983796 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
5983823 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
**
5983850 CTTTTAAGTCCACAACTCCGTGGCATAT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
5983878 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
5983905 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
5983933 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
5983960 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
5983987 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* **
5984015 CTTTTAAGTCCACAACTTCGTGGCATT
1 CTTTTAAGTCCACAACTCCGTGGCACC
5984042 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
5984069 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
5984096 CTTTTAAGTCCACAACTCCGCGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
5984123 CTTTTAAGTCCATAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
5984151 CTTTTAAGACCACAACTTCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
5984178 CTTTTAAGTCCACAACTCCGCGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
5984205 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
5984233 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
5984260 CTTTTAAGTCCACAACTTCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
5984287 CTTTTAAGTCCACAACTTCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * *
5984314 CTTTTAAGTCCATAACTCTGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
5984342 CTTTTAAGTCCATAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
5984369 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
5984397 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
5984424 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
5984451 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * *
5984478 CTTTTAAGTCCATAACTCCGTGACATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
5984506 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * *
5984533 CTTTTAAAATCCACAACTCTGTGGCACT
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
5984561 CTTTTAAAATCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
5984589 C
1 C
5984590 ATTTCAAAAC
Statistics
Matches: 973, Mismatches: 56, Indels: 23
0.92 0.05 0.02
Matches are distributed among these distances:
27 622 0.64
28 351 0.36
ACGTcount: A:0.23, C:0.35, G:0.14, T:0.28
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:5983639 original size:82 final size:81
Alignment explanation
Indices: 5983522--5984589 Score: 1677
Period size: 82 Copynumber: 13.0 Consensus size: 81
5983512 ATCATCCTCT
* *
5983522 CTTTAAAGCCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
5983587 ACAACTCCGTGGCACC
66 ACAACTCCGTGGCACC
* *
5983603 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCATAACTCCGTGGCATCTCTTTTAAGT
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGT
*
5983668 CCACAACTTCGTGGCACC
64 CCACAACTCCGTGGCACC
5983686 CTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1 C-TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
*
5983751 CACAACTCCGCGGCACC
65 CACAACTCCGTGGCACC
*
5983768 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
5983833 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
** *
5983850 CTTTTAAGTCCACAACTCCGTGGCATATCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGT
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGT
5983915 CCACAACTCCGTGGCACC
64 CCACAACTCCGTGGCACC
5983933 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
5983998 ACAACTCCGTGGCATCC
66 ACAACTCCGTGGCA-CC
* **
5984015 CTTTTAAGTCCACAACTTCGTGGCATTCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
5984080 ACAACTCCGTGGCACC
66 ACAACTCCGTGGCACC
* * *
5984096 CTTTTAAGTCCACAACTCCGCGGCACCCTTTTAAGTCCATAACTCCGTGGCATCCCTTTTAAGAC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
*
5984161 CACAACTTCGTGGCACC
65 CACAACTCCGTGGCACC
* *
5984178 CTTTTAAGTCCACAACTCCGCGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGAC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
5984243 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
* *
5984260 CTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
* * *
5984325 ATAACTCTGTGGCATCT
66 ACAACTCCGTGGCA-CC
* *
5984342 CTTTTAAGTCCATAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTC
5984407 CACAACTCCGTGGCACC
65 CACAACTCCGTGGCACC
* *
5984424 CTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
* * *
5984489 ATAACTCCGTGACATCT
66 ACAACTCCGTGGCA-CC
* * * * *
5984506 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAATCCACAACTCTGTGGCACTCTTTTAAAAT
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTT-AAGT
*
5984571 CCACAACTCTGTGGCACC
64 CCACAACTCCGTGGCACC
5984589 C
1 C
5984590 ATTTCAAAAC
Statistics
Matches: 913, Mismatches: 62, Indels: 22
0.92 0.06 0.02
Matches are distributed among these distances:
81 184 0.20
82 519 0.57
83 170 0.19
84 40 0.04
ACGTcount: A:0.23, C:0.35, G:0.14, T:0.28
Consensus pattern (81 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
ACAACTCCGTGGCACC
Found at i:5983824 original size:109 final size:108
Alignment explanation
Indices: 5983522--5984589 Score: 1677
Period size: 109 Copynumber: 9.8 Consensus size: 108
5983512 ATCATCCTCT
* *
5983522 CTTTAAAGCCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
5983587 ACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCC
66 ACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
* * *
5983631 CTTTTAAGTCCATAACTCCGTGGCATCTCTTTTAAGTCCACAACTTCGTGGCACCCTTTTTAAGT
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCC-TTTTAAGT
5983696 CCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
64 CCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
5983741 CTTTTAAGTCCACAACTCCGCGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGAC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
5983806 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
65 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
** *
5983850 CTTTTAAGTCCACAACTCCGTGGCATATCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGT
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGT
5983915 CCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
64 CCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
5983960 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
* **
5984025 CACAACTTCGTGGCATTCTTTTAAGTCCACAACTCCGTGGCACC
65 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
*
5984069 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGCGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
* * *
5984134 ATAACTCCGTGGCATCCCTTTTAAGACCACAACTTCGTGGCACC
66 ACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
* *
5984178 CTTTTAAGTCCACAACTCCGCGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGAC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
*
5984243 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTTCGTGGCACC
65 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * * *
5984287 CTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTCCATAACTCTGTGGCATCTCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
* *
5984352 CATAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACC
65 CACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACC
* *
5984397 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
* * *
5984462 ACAACTCCGTGGCACCCTTTTAAGTCCATAACTCCGTGACATCT
66 ACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
* * * * *
5984506 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAATCCACAACTCTGTGGCACTCTTTTAAAAT
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTT-AAGT
*
5984571 CCACAACTCTGTGGCACCC
64 CCACAACTCCGTGGCACCC
5984590 ATTTCAAAAC
Statistics
Matches: 886, Mismatches: 61, Indels: 22
0.91 0.06 0.02
Matches are distributed among these distances:
108 43 0.05
109 495 0.56
110 277 0.31
111 71 0.08
ACGTcount: A:0.23, C:0.35, G:0.14, T:0.28
Consensus pattern (108 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
ACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
Found at i:5985076 original size:32 final size:32
Alignment explanation
Indices: 5984597--5985084 Score: 753
Period size: 32 Copynumber: 15.3 Consensus size: 32
5984587 CCCATTTCAA
* *
5984597 AACCCATTTCAAAGCCCACACAAGTTGGTGGC
1 AACCCTTTTCAAAGCCCACACAAGTCGGTGGC
* *
5984629 AACCCATTTCAAAGCCCACACAAGTCGATGGC
1 AACCCTTTTCAAAGCCCACACAAGTCGGTGGC
5984661 AACCCTTTTCAAAGCCCACACAAGTCGGTGGC
1 AACCCTTTTCAAAGCCCACACAAGTCGGTGGC
*
5984693 AACCCATTTCAAAGCCCACACAAGTCGGTGGC
1 AACCCTTTTCAAAGCCCACACAAGTCGGTGGC
*
5984725 AACCATTTTCAAAGCCCACACAAGTCGGTGGC
1 AACCCTTTTCAAAGCCCACACAAGTCGGTGGC
* *
5984757 AACCCTTTGCAAAACCCACACAAGTCGGTGGC
1 AACCCTTTTCAAAGCCCACACAAGTCGGTGGC
*
5984789 AACCCATTTCAAAGCCCACACAAGTCGGTGGC
1 AACCCTTTTCAAAGCCCACACAAGTCGGTGGC
*
5984821 AACCCTTTTCAAAGCCCACACAAGTTGGTGGC
1 AACCCTTTTCAAAGCCCACACAAGTCGGTGGC
* *
5984853 AACCCATTTCAAAGCCCACACAAGTCGATGGC
1 AACCCTTTTCAAAGCCCACACAAGTCGGTGGC
*
5984885 AACCATTTTCAAAGCCCACACAAGTCGGTGGC
1 AACCCTTTTCAAAGCCCACACAAGTCGGTGGC
5984917 AACCCTTTTCAAAGCCCACACAAGTCGGTGGC
1 AACCCTTTTCAAAGCCCACACAAGTCGGTGGC
* *
5984949 AACCCATTCCAAAGCCCACACAAGTCGGTGGC
1 AACCCTTTTCAAAGCCCACACAAGTCGGTGGC
* * *
5984981 AACCCATTTCAAAGCCCACACAGGTCGGTGGA
1 AACCCTTTTCAAAGCCCACACAAGTCGGTGGC
5985013 AACCCTTTTCAAAGCCCACACAAGTCGGTGGC
1 AACCCTTTTCAAAGCCCACACAAGTCGGTGGC
** * * **
5985045 AATTCTTTTCAAGGCCCACATAAGTTAGTGGC
1 AACCCTTTTCAAAGCCCACACAAGTCGGTGGC
5985077 -ACCCTTTT
1 AACCCTTTT
5985085 TTTTAAAAAA
Statistics
Matches: 418, Mismatches: 38, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
31 6 0.01
32 412 0.99
ACGTcount: A:0.30, C:0.33, G:0.18, T:0.19
Consensus pattern (32 bp):
AACCCTTTTCAAAGCCCACACAAGTCGGTGGC
Found at i:5985673 original size:20 final size:20
Alignment explanation
Indices: 5985645--5985719 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
5985635 TTTTACCTTG
5985645 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
5985665 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
5985685 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
5985705 ATGTATCGATACATT
1 ATGTATCGATACATT
5985720 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:5985712 original size:40 final size:39
Alignment explanation
Indices: 5985645--5985722 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
5985635 TTTTACCTTG
* *
5985645 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
5985685 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
5985723 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:5989855 original size:18 final size:18
Alignment explanation
Indices: 5989828--5989889 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
5989818 TACGAATAAA
*
5989828 TTTAATTTAATATTTAAT
1 TTTAAATTAATATTTAAT
5989846 TTTAAATTAAATTATTTATAT
1 TTTAAATT-AA-TATTTA-AT
* *
5989867 TTTAACTCAA-ATTTAAAT
1 TTTAAATTAATATTT-AAT
5989885 TTTAA
1 TTTAA
5989890 CTAAAAAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
18 18 0.49
19 3 0.08
20 8 0.22
21 8 0.22
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (18 bp):
TTTAAATTAATATTTAAT
Done.