Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 27 of 292
Found at i:7054549 original size:25 final size:27
Alignment explanation
Indices: 7054488--7054558 Score: 92
Period size: 26 Copynumber: 2.7 Consensus size: 27
7054478 ATATTTTCTC
7054488 AAAATTTTACTAGAGGTAAAATCATCA
1 AAAATTTTACTAGAGGTAAAATCATCA
* * *
7054515 AAAATTTTACCAG-GGTAAAATCGT-T
1 AAAATTTTACTAGAGGTAAAATCATCA
*
7054540 AAAATTTTACTAGCGGTAA
1 AAAATTTTACTAGAGGTAA
7054559 TATGGGGATG
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
25 12 0.31
26 15 0.38
27 12 0.31
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.31
Consensus pattern (27 bp):
AAAATTTTACTAGAGGTAAAATCATCA
Found at i:7057243 original size:18 final size:20
Alignment explanation
Indices: 7057220--7057259 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
7057210 TAGTCTTCCA
7057220 TTGAA-TAAT-TTTTTATAT
1 TTGAATTAATATTTTTATAT
*
7057238 TTGAATTGATATTTTTATAT
1 TTGAATTAATATTTTTATAT
7057258 TT
1 TT
7057260 AAACTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 3 0.16
20 11 0.58
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.62
Consensus pattern (20 bp):
TTGAATTAATATTTTTATAT
Found at i:7058062 original size:90 final size:91
Alignment explanation
Indices: 7057909--7058100 Score: 239
Period size: 90 Copynumber: 2.1 Consensus size: 91
7057899 ACCTTGAAGA
* * * * *
7057909 GTGTGTGATCAAATAATTAAAATTTGGCTAAGTGACTTAGAAGGCTAGCATTCGATTTGCTATTA
1 GTGTGTGCTCAAATAATTAAAATTTGGCTAACTGACTTAAAAGGCTACCATACGATTTGCTATTA
* *
7057974 ACTTATCGAG-AAGTACCCTC-AAAGG
66 ACTTAGCAAGTAA-TACCCTCGAAAGG
* *
7057999 GTGTGTGCTCAAATTATTAAAATTTGGCTAACTGCCTTAAAAGGCTACCA-ACG-TCTCTGCTAT
1 GTGTGTGCTCAAATAATTAAAATTTGGCTAACTGACTTAAAAGGCTACCATACGAT-T-TGCTAT
7058062 TAACTTAGCAAGTAATACCCTCGAAAGG
64 TAACTTAGCAAGTAATACCCTCGAAAGG
*
7058090 GCGTGTGCTCA
1 GTGTGTGCTCA
7058101 TATATGAATT
Statistics
Matches: 88, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
88 1 0.01
89 3 0.03
90 67 0.76
91 17 0.19
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.30
Consensus pattern (91 bp):
GTGTGTGCTCAAATAATTAAAATTTGGCTAACTGACTTAAAAGGCTACCATACGATTTGCTATTA
ACTTAGCAAGTAATACCCTCGAAAGG
Found at i:7061758 original size:14 final size:15
Alignment explanation
Indices: 7061732--7061787 Score: 57
Period size: 14 Copynumber: 3.8 Consensus size: 15
7061722 TTTCCCAAAA
7061732 TAAATATAA-TTT-AT
1 TAAAT-TAATTTTAAT
7061746 TAAATTAATTTTAAT
1 TAAATTAATTTTAAT
7061761 T-AATTAATTTTTCAAT
1 TAAATTAA-TTTT-AAT
7061777 TAAA-TAATTTT
1 TAAATTAATTTT
7061788 CTAAACTCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
13 3 0.08
14 14 0.38
15 11 0.30
16 7 0.19
17 2 0.05
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (15 bp):
TAAATTAATTTTAAT
Found at i:7061779 original size:16 final size:15
Alignment explanation
Indices: 7061748--7061787 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
7061738 TAATTTATTA
7061748 AATTAA-TTTTAATT
1 AATTAATTTTTAATT
7061762 AATTAATTTTTCAATT
1 AATTAATTTTT-AATT
*
7061778 AAATAATTTT
1 AATTAATTTT
7061788 CTAAACTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.26
15 4 0.17
16 13 0.57
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTAATTTTTAATT
Found at i:7068295 original size:27 final size:28
Alignment explanation
Indices: 7068265--7068334 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
7068255 ATAATAAGTC
*
7068265 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
7068292 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
7068320 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
7068335 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:7076216 original size:27 final size:28
Alignment explanation
Indices: 7076186--7076255 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
7076176 ATAATAAGTC
*
7076186 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
7076213 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
7076241 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
7076256 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:7078492 original size:12 final size:12
Alignment explanation
Indices: 7078475--7078499 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7078465 TATGTATGTT
7078475 TGAAAATTTTTA
1 TGAAAATTTTTA
7078487 TGAAAATTTTTA
1 TGAAAATTTTTA
7078499 T
1 T
7078500 TATTTACTGT
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:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TGAAAATTTTTA
Found at i:7080337 original size:27 final size:28
Alignment explanation
Indices: 7080260--7080328 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
7080250 GCGTAGATCA
*
7080260 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGTAAAATTAC
7080288 CGAAATTACCCCTAAAGAGTAAAATTAC
1 CGAAATTACCCCTAAAGAGTAAAATTAC
*
7080316 CGATA-TACCCCTA
1 CGAAATTACCCCTA
7080329 GGGTTTAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 8 0.21
28 31 0.79
ACGTcount: A:0.43, C:0.26, G:0.10, T:0.20
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGTAAAATTAC
Found at i:7082168 original size:18 final size:18
Alignment explanation
Indices: 7082145--7082189 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
7082135 AACACGACAA
*
7082145 AATAAAAATGACAATGAT
1 AATAAAAATGACAATAAT
* *
7082163 AATAAAAACGATAATAAT
1 AATAAAAATGACAATAAT
*
7082181 AATATAAAT
1 AATAAAAAT
7082190 AATAATAGTA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.64, C:0.04, G:0.07, T:0.24
Consensus pattern (18 bp):
AATAAAAATGACAATAAT
Found at i:7082432 original size:20 final size:20
Alignment explanation
Indices: 7082407--7082444 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
7082397 ATAATAGAAA
* *
7082407 TAAAAATGTATACGTAATTT
1 TAAAAATATATACATAATTT
7082427 TAAAAATATATACATAAT
1 TAAAAATATATACATAAT
7082445 ATATACATAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (20 bp):
TAAAAATATATACATAATTT
Found at i:7082433 original size:26 final size:26
Alignment explanation
Indices: 7082383--7082434 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
7082373 TATATGTATT
*
7082383 AAAATATATACGTAATAATAGAAATA
1 AAAATATATACGTAATAATAAAAATA
* **
7082409 AAAATGTATACGTAATTTTAAAAATA
1 AAAATATATACGTAATAATAAAAATA
7082435 TATACATAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.58, C:0.04, G:0.08, T:0.31
Consensus pattern (26 bp):
AAAATATATACGTAATAATAAAAATA
Found at i:7082726 original size:48 final size:45
Alignment explanation
Indices: 7082654--7082820 Score: 135
Period size: 48 Copynumber: 3.6 Consensus size: 45
7082644 AATAGTATTG
* * * *
7082654 AGTATTAAAAGTATGTATACAATATAGACAAAAATATATACATAATGT
1 AGTATTAAAA-TATATACATAATATAGA-AAAAATATATA-ATAATAT
*
7082702 AGTATTGAAAATATTTACATAATAT---AAAAATATATGAATAATAT
1 AGTATT-AAAATATATACATAATATAGAAAAAATATAT-AATAATAT
* * *
7082746 -GATATTAAAAATATATACATAAAATATAATAAATATATATATATATAT
1 AG-TATT-AAAATATATACATAATATAGAAAAAATATATA-ATA-ATAT
*
7082794 AATATATAAAATATATACATAATATAG
1 AGTAT-TAAAATATATACATAATATAG
7082821 TTTTAAAAAA
Statistics
Matches: 98, Mismatches: 11, Indels: 20
0.76 0.09 0.16
Matches are distributed among these distances:
43 1 0.01
44 36 0.37
45 1 0.01
46 1 0.01
47 12 0.12
48 42 0.43
49 5 0.05
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.35
Consensus pattern (45 bp):
AGTATTAAAATATATACATAATATAGAAAAAATATATAATAATAT
Found at i:7082743 original size:44 final size:43
Alignment explanation
Indices: 7082683--7082819 Score: 143
Period size: 44 Copynumber: 3.0 Consensus size: 43
7082673 CAATATAGAC
* *
7082683 AAAAATATATACATAATGTAGTATTGAAAATATTTACATAATAT
1 AAAAATATATACATAATATAGTATT-AAAATATATACATAATAT
7082727 AAAAATATATGA-ATAATAT-GATATTAAAAATATATACATAAAATAT
1 AAAAATATAT-ACATAATATAG-TATT-AAAATATATACAT--AATAT
* *
7082773 AATAAATATATATATATATATAATATATAAAATATATACATAATAT
1 AA-AAATATATACATA-ATATAGTAT-TAAAATATATACATAATAT
7082819 A
1 A
7082820 GTTTTAAAAA
Statistics
Matches: 80, Mismatches: 4, Indels: 16
0.80 0.04 0.16
Matches are distributed among these distances:
43 1 0.01
44 32 0.40
45 1 0.01
46 14 0.17
47 11 0.14
48 20 0.25
49 1 0.01
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.36
Consensus pattern (43 bp):
AAAAATATATACATAATATAGTATTAAAATATATACATAATAT
Found at i:7082790 original size:28 final size:26
Alignment explanation
Indices: 7082756--7082810 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 26
7082746 GATATTAAAA
7082756 ATATATACATAAAATATAATAAATATAT
1 ATATATACATAAAATAT-A-AAATATAT
* *
7082784 ATATATATATAATATATAAAATATAT
1 ATATATACATAAAATATAAAATATAT
7082810 A
1 A
7082811 CATAATATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 9 0.36
27 1 0.04
28 15 0.60
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (26 bp):
ATATATACATAAAATATAAAATATAT
Found at i:7082797 original size:26 final size:26
Alignment explanation
Indices: 7082756--7082838 Score: 80
Period size: 26 Copynumber: 3.2 Consensus size: 26
7082746 GATATTAAAA
* *
7082756 ATATATACATAAAATATAATAAATAT
1 ATATATATATATAATATAATAAATAT
7082782 ATATATATATATAATAT-ATAAA-AT
1 ATATATATATATAATATAATAAATAT
* * * *
7082806 ATATACATAATATAGTTTTAAAAAATAT
1 ATATATAT-ATATA-ATATAATAAATAT
7082834 ATATA
1 ATATA
7082839 ATACATACAC
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
24 9 0.19
25 10 0.21
26 17 0.36
27 4 0.09
28 7 0.15
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.39
Consensus pattern (26 bp):
ATATATATATATAATATAATAAATAT
Found at i:7082798 original size:11 final size:11
Alignment explanation
Indices: 7082730--7082819 Score: 68
Period size: 11 Copynumber: 8.5 Consensus size: 11
7082720 ATAATATAAA
7082730 AATATATGA-AT
1 AATATAT-ATAT
7082741 AATATGATAT-T
1 AATAT-ATATAT
*
7082752 AA-AAATATAT
1 AATATATATAT
*
7082762 ACATA-AAATAT
1 A-ATATATATAT
*
7082773 AATAAATATAT
1 AATATATATAT
7082784 -ATATATATAT
1 AATATATATAT
7082794 AATATATA-A-
1 AATATATATAT
*
7082803 AATATATACAT
1 AATATATATAT
7082814 AATATA
1 AATATA
7082820 GTTTTAAAAA
Statistics
Matches: 66, Mismatches: 4, Indels: 18
0.75 0.05 0.20
Matches are distributed among these distances:
9 12 0.18
10 17 0.26
11 34 0.52
12 3 0.05
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (11 bp):
AATATATATAT
Found at i:7082834 original size:48 final size:47
Alignment explanation
Indices: 7082720--7082838 Score: 123
Period size: 48 Copynumber: 2.4 Consensus size: 47
7082710 AAATATTTAC
*
7082720 ATAATATAAAAATATATGAATAATATGATATTAAAAATATATACATAAAAT
1 ATAATA-AAAAATATAT--AT-ATATAATATTAAAAATATATACATAAAAT
* *
7082771 ATAATAAATATATATATATATATAATA-TATAAAATATATACATAATAT
1 ATAATAAA-AAATATATATATATAATATTA-AAAATATATACATAAAAT
**
7082819 AGTTTTAAAAAATATATATA
1 A-TAATAAAAAATATATATA
7082839 ATACATACAC
Statistics
Matches: 59, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
47 2 0.03
48 35 0.59
49 7 0.12
50 2 0.03
51 13 0.22
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.37
Consensus pattern (47 bp):
ATAATAAAAAATATATATATATAATATTAAAAATATATACATAAAAT
Found at i:7082945 original size:23 final size:23
Alignment explanation
Indices: 7082900--7082945 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
7082890 AATACCTCAT
* *
7082900 AAATATATACATATATATGTTAA
1 AAATAAATACATATATATATTAA
7082923 AAATAAATACATAT-TAATATTAA
1 AAATAAATACATATAT-ATATTAA
7082946 GATGATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (23 bp):
AAATAAATACATATATATATTAA
Found at i:7083076 original size:12 final size:13
Alignment explanation
Indices: 7083045--7083087 Score: 54
Period size: 12 Copynumber: 3.3 Consensus size: 13
7083035 ATACTAATAC
7083045 TAATAATAGATATAA
1 TAATAATAG-TA-AA
7083060 TAATAATAGTAAA
1 TAATAATAGTAAA
7083073 -AATAATA-TAAA
1 TAATAATAGTAAA
7083084 TAAT
1 TAAT
7083088 GTGTACATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 4 0.15
12 10 0.37
13 2 0.07
14 2 0.07
15 9 0.33
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.33
Consensus pattern (13 bp):
TAATAATAGTAAA
Found at i:7084105 original size:38 final size:39
Alignment explanation
Indices: 7084034--7084108 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
7084024 CAAAAAAAAC
* * *
7084034 TTTTTTTTTTTGCTTTTACATACCTTTCTCCTTTTTTCT
1 TTTTTTTTTTTGCTTTTACATACCATCCCCCTTTTTTCT
**
7084073 TTTTTTTTTTTTTTTTTAC-TACCATCCCCCTTTTTT
1 TTTTTTTTTTTGCTTTTACATACCATCCCCCTTTTTT
7084109 TATTTCAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
38 14 0.45
39 17 0.55
ACGTcount: A:0.08, C:0.21, G:0.01, T:0.69
Consensus pattern (39 bp):
TTTTTTTTTTTGCTTTTACATACCATCCCCCTTTTTTCT
Found at i:7086455 original size:2 final size:2
Alignment explanation
Indices: 7086450--7086536 Score: 67
Period size: 2 Copynumber: 45.5 Consensus size: 2
7086440 ACATACACAC
* * * * *
7086450 AT AT AT AA AT AT AT AT AT AA AT A- AT AGT AT -T AG AA AT AT AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT
* *
7086491 CT -T AT A- AT AT -T AG AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7086530 AT AT AT A
1 AT AT AT A
7086537 ATAGTATAAA
Statistics
Matches: 67, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
1 5 0.07
2 60 0.90
3 2 0.03
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (2 bp):
AT
Found at i:7086465 original size:12 final size:12
Alignment explanation
Indices: 7086450--7086604 Score: 74
Period size: 12 Copynumber: 12.5 Consensus size: 12
7086440 ACATACACAC
7086450 ATATATAAATAT
1 ATATATAAATAT
7086462 ATATATAAATAAT
1 ATATATAAAT-AT
*
7086475 AGTATTAGAAATAT
1 A-TA-TATAAATAT
*
7086489 ACCT-TATAATATTAG
1 A--TATATAA-A-TAT
*
7086504 ATATATATATAT
1 ATATATAAATAT
*
7086516 ATATATATATAT
1 ATATATAAATAT
7086528 ATATATATAATAGT
1 ATATATA-AATA-T
* * *
7086542 ATAAAAGAAAAAT
1 AT-ATATAAATAT
7086555 ATA-ACT-AATGAT
1 ATATA-TAAAT-AT
7086567 AT-TA-AAATAT
1 ATATATAAATAT
7086577 ATATA-ATAATAT
1 ATATATA-AATAT
7086589 ATATA-AAATAT
1 ATATATAAATAT
7086600 A-ATAT
1 ATATAT
7086605 TAAGAACTTA
Statistics
Matches: 114, Mismatches: 12, Indels: 35
0.71 0.07 0.22
Matches are distributed among these distances:
10 7 0.06
11 15 0.13
12 48 0.42
13 15 0.13
14 16 0.14
15 13 0.11
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.39
Consensus pattern (12 bp):
ATATATAAATAT
Found at i:7086583 original size:20 final size:20
Alignment explanation
Indices: 7086550--7086588 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
7086540 GTATAAAAGA
*
7086550 AAAATATAACTAATGATATT
1 AAAATATAACTAATAATATT
7086570 AAAATATATA-TAATAATAT
1 AAAATATA-ACTAATAATAT
7086589 ATATAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (20 bp):
AAAATATAACTAATAATATT
Found at i:7086819 original size:13 final size:14
Alignment explanation
Indices: 7086801--7086831 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
7086791 ATGTATGAAT
7086801 ATATACATATA-TA
1 ATATACATATATTA
7086814 ATATACATATATTA
1 ATATACATATATTA
7086828 ATAT
1 ATAT
7086832 TAATAATGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATACATATATTA
Found at i:7088094 original size:16 final size:16
Alignment explanation
Indices: 7088073--7088144 Score: 78
Period size: 16 Copynumber: 4.5 Consensus size: 16
7088063 GGTTTAGTTA
*
7088073 GGTTTAATGGGTTTTG
1 GGTTTAGTGGGTTTTG
7088089 GGTTTAGTGGGTTTT-
1 GGTTTAGTGGGTTTTG
7088104 GG-TTAGTTGGGGTTATTG
1 GGTTTAG-T-GGGTT-TTG
7088122 GG-TTAGTGGGTTTTG
1 GGTTTAGTGGGTTTTG
*
7088137 GGTCTAGT
1 GGTTTAGT
7088145 TGTTGGGCTC
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
14 4 0.08
15 8 0.16
16 28 0.57
17 3 0.06
18 6 0.12
ACGTcount: A:0.10, C:0.01, G:0.42, T:0.47
Consensus pattern (16 bp):
GGTTTAGTGGGTTTTG
Found at i:7088128 original size:32 final size:34
Alignment explanation
Indices: 7088081--7088146 Score: 102
Period size: 32 Copynumber: 2.0 Consensus size: 34
7088071 TAGGTTTAAT
7088081 GGGTTTTGGGTTTAGTGGGTTTT-GGT-TAGTTG
1 GGGTTTTGGGTTTAGTGGGTTTTGGGTCTAGTTG
7088113 GGGTTATTGGG-TTAGTGGGTTTTGGGTCTAGTTG
1 GGGTT-TTGGGTTTAGTGGGTTTTGGGTCTAGTTG
7088147 TTGGGCTCTG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
32 17 0.55
33 8 0.26
34 6 0.19
ACGTcount: A:0.08, C:0.02, G:0.44, T:0.47
Consensus pattern (34 bp):
GGGTTTTGGGTTTAGTGGGTTTTGGGTCTAGTTG
Found at i:7092144 original size:18 final size:18
Alignment explanation
Indices: 7092121--7092167 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
7092111 TCATCAGAAC
7092121 AGCTCACCAAGAAT-TACA
1 AGCTCACCAA-AATGTACA
*
7092139 AGCTCACTAAAATGTACA
1 AGCTCACCAAAATGTACA
7092157 AGCTCACCAAA
1 AGCTCACCAAA
7092168 TGTGTGAGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 3 0.12
18 23 0.88
ACGTcount: A:0.45, C:0.28, G:0.11, T:0.17
Consensus pattern (18 bp):
AGCTCACCAAAATGTACA
Found at i:7092356 original size:2 final size:2
Alignment explanation
Indices: 7092349--7092398 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
7092339 CCAAGTTGTA
7092349 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
7092391 AT AA AT AT
1 AT AT AT AT
7092399 TAGTTTATTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7093737 original size:24 final size:24
Alignment explanation
Indices: 7093705--7093751 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
7093695 ACACCATCAA
7093705 GTACTAAACTTGTTACAAATGTTG
1 GTACTAAACTTGTTACAAATGTTG
*
7093729 GTACTAAACTTGTTATAAATGTT
1 GTACTAAACTTGTTACAAATGTT
7093752 CTTTTAGTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (24 bp):
GTACTAAACTTGTTACAAATGTTG
Found at i:7096624 original size:17 final size:17
Alignment explanation
Indices: 7096575--7096637 Score: 81
Period size: 18 Copynumber: 3.6 Consensus size: 17
7096565 TCACCAGAAC
**
7096575 AGCTCACCAAGAACTACG
1 AGCTCACCAA-ATGTACG
7096593 AGCTCACCAAAATGTACG
1 AGCTCACC-AAATGTACG
*
7096611 AGCTCACCAAATGTGCG
1 AGCTCACCAAATGTACG
7096628 AGCTCACCAA
1 AGCTCACCAA
7096638 GATCACAAGC
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
17 18 0.44
18 21 0.51
19 2 0.05
ACGTcount: A:0.37, C:0.32, G:0.17, T:0.14
Consensus pattern (17 bp):
AGCTCACCAAATGTACG
Found at i:7096648 original size:17 final size:17
Alignment explanation
Indices: 7096575--7096651 Score: 66
Period size: 18 Copynumber: 4.4 Consensus size: 17
7096565 TCACCAGAAC
*
7096575 AGCTCACCAAGAACTACG
1 AGCTCACCAAGATC-ACG
* *
7096593 AGCTCACCAAAATGTACG
1 AGCTCACCAAGAT-CACG
**
7096611 AGCTCACCAA-ATGTGCG
1 AGCTCACCAAGAT-CACG
*
7096628 AGCTCACCAAGATCACA
1 AGCTCACCAAGATCACG
7096645 AGCTCAC
1 AGCTCAC
7096652 TAACACTGCG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
17 24 0.48
18 26 0.52
ACGTcount: A:0.36, C:0.32, G:0.17, T:0.14
Consensus pattern (17 bp):
AGCTCACCAAGATCACG
Found at i:7096845 original size:3 final size:3
Alignment explanation
Indices: 7096837--7096914 Score: 156
Period size: 3 Copynumber: 26.0 Consensus size: 3
7096827 AAGCCAAGTT
7096837 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7096885 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7096915 GCTTATTTAA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 75 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:7098215 original size:8 final size:8
Alignment explanation
Indices: 7098202--7098230 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
7098192 TTATGTTTAG
7098202 TATATTAT
1 TATATTAT
7098210 TATATTAT
1 TATATTAT
7098218 TATATTAT
1 TATATTAT
7098226 TATAT
1 TATAT
7098231 AATAAAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:7098263 original size:5 final size:5
Alignment explanation
Indices: 7098253--7098289 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
7098243 TTATGTTTTA
7098253 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
7098290 AAACTAAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:7099621 original size:19 final size:15
Alignment explanation
Indices: 7099560--7099616 Score: 98
Period size: 15 Copynumber: 3.9 Consensus size: 15
7099550 CGATGAATTT
*
7099560 ATTGAATTTATATTG
1 ATTGAAATTATATTG
7099575 ATTGAAATTATATTG
1 ATTGAAATTATATTG
7099590 ATTGAAATTATATTG
1 ATTGAAATTATATTG
7099605 ATTG-AATTATAT
1 ATTGAAATTATAT
7099617 AATATATATG
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
14 8 0.20
15 33 0.80
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.49
Consensus pattern (15 bp):
ATTGAAATTATATTG
Found at i:7100019 original size:23 final size:23
Alignment explanation
Indices: 7099989--7100075 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
7099979 GCTTTACCAA
* *
7099989 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
7100012 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
7100033 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
7100055 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
7100076 ACTGATCAAG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 35 0.64
22 2 0.04
23 18 0.33
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:7101223 original size:14 final size:15
Alignment explanation
Indices: 7101204--7101236 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
7101194 GGGACAAAAC
*
7101204 TAAAAAT-TTTGTAT
1 TAAAAATATTTGAAT
7101218 TAAAAATATTTGAAT
1 TAAAAATATTTGAAT
7101233 TAAA
1 TAAA
7101237 CTATTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (15 bp):
TAAAAATATTTGAAT
Found at i:7101582 original size:13 final size:12
Alignment explanation
Indices: 7101547--7101585 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
7101537 TTTAATAATA
7101547 TAATAAATTA-T
1 TAATAAATTATT
7101558 TAATACAATTATT
1 TAATA-AATTATT
7101571 TCAATAAATTATT
1 T-AATAAATTATT
7101584 TA
1 TA
7101586 TTAATATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 5 0.20
12 6 0.24
13 10 0.40
14 4 0.16
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (12 bp):
TAATAAATTATT
Found at i:7104785 original size:19 final size:19
Alignment explanation
Indices: 7104761--7104797 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
7104751 AAAACAGAAT
7104761 ATGGAC-ATGTGAAATTTGC
1 ATGGACAATGT-AAATTTGC
7104780 ATGGACAATGTAAATTTG
1 ATGGACAATGTAAATTTG
7104798 TCTTTAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.35, C:0.08, G:0.24, T:0.32
Consensus pattern (19 bp):
ATGGACAATGTAAATTTGC
Found at i:7108288 original size:43 final size:44
Alignment explanation
Indices: 7108240--7108327 Score: 142
Period size: 43 Copynumber: 2.0 Consensus size: 44
7108230 TTTGCTGGCG
* *
7108240 TGGCTACAGGCTTGCAGTCTTTCATTCTGAATTTA-TTTAAAAT
1 TGGCTACAGGCTTGCAATCCTTCATTCTGAATTTATTTTAAAAT
*
7108283 TGGCTACATGCTTGCAATCCTTCATTCTGAATTTATTTTAAAAT
1 TGGCTACAGGCTTGCAATCCTTCATTCTGAATTTATTTTAAAAT
7108327 T
1 T
7108328 TGTTTTGCAT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
43 32 0.78
44 9 0.22
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (44 bp):
TGGCTACAGGCTTGCAATCCTTCATTCTGAATTTATTTTAAAAT
Found at i:7109454 original size:40 final size:41
Alignment explanation
Indices: 7109394--7109512 Score: 168
Period size: 41 Copynumber: 2.9 Consensus size: 41
7109384 TGTAAAACAT
* *
7109394 AGAGCAATAGCGGCGTTTTTGGTAAAACGCCGCTAAAAA-C
1 AGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACC
* ** * *
7109434 TGAGCATTAGTTGCTCTTTTGGTAAAACGCCGTTAAAAACC
1 AGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACC
7109475 AGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAA
1 AGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAA
7109513 TTCATATAAC
Statistics
Matches: 66, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
40 32 0.48
41 34 0.52
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (41 bp):
AGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACC
Found at i:7110152 original size:24 final size:24
Alignment explanation
Indices: 7110125--7110173 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
7110115 CGTATATTTG
7110125 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTTTATATAAAAATTAAT
7110149 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTTTATATAAAAATTAAT
7110173 T
1 T
7110174 GTTATTTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (24 bp):
TTAAAAGTTTATATAAAAATTAAT
Found at i:7116289 original size:2 final size:2
Alignment explanation
Indices: 7116282--7116328 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
7116272 GATCCCAACA
*
7116282 AT AT AT AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7116324 AT AT A
1 AT AT A
7116329 CATTAAGGAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:7121608 original size:28 final size:28
Alignment explanation
Indices: 7121543--7121643 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
7121533 ATAGTGAATC
*
7121543 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
7121572 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
7121600 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
7121630 CGCACACTTAGTGC
1 CGCACACTTAGTGC
7121644 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:7129551 original size:28 final size:28
Alignment explanation
Indices: 7129486--7129586 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
7129476 ATAGTGAATC
*
7129486 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
7129515 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
7129543 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
7129573 CGCACACTTAGTGC
1 CGCACACTTAGTGC
7129587 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:7132824 original size:15 final size:15
Alignment explanation
Indices: 7132804--7132834 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
7132794 CTTTCGATCC
7132804 TTACGCTTCTTCTCT
1 TTACGCTTCTTCTCT
7132819 TTACGCTTCTTCTCT
1 TTACGCTTCTTCTCT
7132834 T
1 T
7132835 CATCTGTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.32, G:0.06, T:0.55
Consensus pattern (15 bp):
TTACGCTTCTTCTCT
Found at i:7134091 original size:50 final size:50
Alignment explanation
Indices: 7134037--7134167 Score: 154
Period size: 50 Copynumber: 2.6 Consensus size: 50
7134027 GATGAGGGTG
* * * * * *
7134037 GGACAATTTGCCACGTCGTGACGAGGAATCCCTTCACCAAGATGAGGCCA
1 GGACAGTTTGTCACATCGTGACGAGGAACCCCATCACCAAGACGAGGCCA
* * * *
7134087 GGACAGTTTGTCACATCGTGACAAGGAACCCCATCATCATGACGAGGCCG
1 GGACAGTTTGTCACATCGTGACGAGGAACCCCATCACCAAGACGAGGCCA
* *
7134137 GGATAGTTTGTCACATCGTGACGAGAAACCC
1 GGACAGTTTGTCACATCGTGACGAGGAACCC
7134168 TATAACAACC
Statistics
Matches: 68, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 68 1.00
ACGTcount: A:0.28, C:0.27, G:0.26, T:0.19
Consensus pattern (50 bp):
GGACAGTTTGTCACATCGTGACGAGGAACCCCATCACCAAGACGAGGCCA
Found at i:7134678 original size:19 final size:18
Alignment explanation
Indices: 7134645--7134680 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
7134635 TTATATTAGT
*
7134645 TAAACATGTTTAATTAAA
1 TAAACATGATTAATTAAA
7134663 TAAACTATGATTAATTAA
1 TAAAC-ATGATTAATTAA
7134681 TTTTTAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.39
Consensus pattern (18 bp):
TAAACATGATTAATTAAA
Found at i:7140584 original size:15 final size:15
Alignment explanation
Indices: 7140537--7140572 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
7140527 TAAGATAAAT
*
7140537 TATAATA-TACACAA
1 TATAATATTACATAA
7140551 TATAATATTACATAA
1 TATAATATTACATAA
7140566 TATAATA
1 TATAATA
7140573 ATTATATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAATATTACATAA
Found at i:7142806 original size:31 final size:31
Alignment explanation
Indices: 7142768--7142835 Score: 136
Period size: 31 Copynumber: 2.2 Consensus size: 31
7142758 TCTGTGTGAA
7142768 TTAGGTTGTTCTTAGAACTAGGCATAAAATG
1 TTAGGTTGTTCTTAGAACTAGGCATAAAATG
7142799 TTAGGTTGTTCTTAGAACTAGGCATAAAATG
1 TTAGGTTGTTCTTAGAACTAGGCATAAAATG
7142830 TTAGGT
1 TTAGGT
7142836 GTTAATTCAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.31, C:0.09, G:0.24, T:0.37
Consensus pattern (31 bp):
TTAGGTTGTTCTTAGAACTAGGCATAAAATG
Found at i:7145364 original size:28 final size:28
Alignment explanation
Indices: 7145305--7145364 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
7145295 TTGGTGTCGA
* *
7145305 TTTTGTATCATGTTTAAATTATCAGATC
1 TTTTGTATCATGTTTAAAGTATCAAATC
*
7145333 TTTTGTATCATGTTTAAAAGTAT-AAATT
1 TTTTGTATCATGTTT-AAAGTATCAAATC
7145361 TTTT
1 TTTT
7145365 TTTTGATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 22 0.79
29 6 0.21
ACGTcount: A:0.30, C:0.07, G:0.10, T:0.53
Consensus pattern (28 bp):
TTTTGTATCATGTTTAAAGTATCAAATC
Found at i:7148088 original size:13 final size:13
Alignment explanation
Indices: 7148072--7148105 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
7148062 ATTATTAATG
*
7148072 TAATTTATTATTT
1 TAATTAATTATTT
*
7148085 TAATAAATTATTT
1 TAATTAATTATTT
7148098 TAATTAAT
1 TAATTAAT
7148106 AAATTTTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
TAATTAATTATTT
Found at i:7148123 original size:16 final size:16
Alignment explanation
Indices: 7148094--7148135 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
7148084 TTAATAAATT
*
7148094 ATTTTAATTAAT-A-A
1 ATTTTAAATAATAATA
7148108 ATTTTAAA-AATAATA
1 ATTTTAAATAATAATA
7148123 ATTTTAAATAATA
1 ATTTTAAATAATA
7148136 TGTTTCTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 3 0.12
14 8 0.33
15 9 0.38
16 4 0.17
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATTTTAAATAATAATA
Found at i:7148180 original size:15 final size:15
Alignment explanation
Indices: 7148160--7148211 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
7148150 ATTCAATTTC
7148160 AATATTTTAATAATA
1 AATATTTTAATAATA
*
7148175 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
7148194 AATATATTAATAATA
1 AATATTTTAATAATA
7148209 AAT
1 AAT
7148212 TGTTATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 13 0.43
16 2 0.07
17 4 0.13
18 1 0.03
19 10 0.33
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:7148637 original size:7 final size:7
Alignment explanation
Indices: 7148622--7148655 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
7148612 CATGACCCAA
7148622 ACACCCC
1 ACACCCC
*
7148629 ACCCCCC
1 ACACCCC
7148636 ACACCCC
1 ACACCCC
7148643 ACACCCC
1 ACACCCC
7148650 ACACCC
1 ACACCC
7148656 ATGCGTAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.26, C:0.74, G:0.00, T:0.00
Consensus pattern (7 bp):
ACACCCC
Found at i:7158109 original size:12 final size:12
Alignment explanation
Indices: 7158092--7158121 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
7158082 TTGGGATGAT
7158092 ATGGGAAAAATA
1 ATGGGAAAAATA
7158104 ATGGGAAAAATA
1 ATGGGAAAAATA
7158116 ATGGGA
1 ATGGGA
7158122 TCAGGTTATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.30, T:0.17
Consensus pattern (12 bp):
ATGGGAAAAATA
Found at i:7161350 original size:32 final size:32
Alignment explanation
Indices: 7161314--7161410 Score: 176
Period size: 32 Copynumber: 3.0 Consensus size: 32
7161304 TGTATGCATT
7161314 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
*
7161346 TTAGCATTTTAATAGTTAATGAATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
*
7161378 TTAGCATTTTAATAGTTAATAGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
7161410 T
1 T
7161411 GATAAGCATT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 62 1.00
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:7163671 original size:19 final size:19
Alignment explanation
Indices: 7163647--7163691 Score: 83
Period size: 18 Copynumber: 2.4 Consensus size: 19
7163637 TAGGTCGCGT
7163647 TTTCAAAAACAACAGTTGA
1 TTTCAAAAACAACAGTTGA
7163666 TTTC-AAAACAACAGTTGA
1 TTTCAAAAACAACAGTTGA
7163684 TTTCAAAA
1 TTTCAAAA
7163692 TAACACGACA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 18 0.72
19 7 0.28
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.29
Consensus pattern (19 bp):
TTTCAAAAACAACAGTTGA
Found at i:7165651 original size:12 final size:12
Alignment explanation
Indices: 7165636--7165692 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 12
7165626 TCCCTCCTCT
*
7165636 CTTTCCTCTACC
1 CTTTCCTCCACC
* * *
7165648 CTTTCCACCGCT
1 CTTTCCTCCACC
*
7165660 CTTTCCTCCGCC
1 CTTTCCTCCACC
*
7165672 CTTTCCTCTACC
1 CTTTCCTCCACC
*
7165684 CCTTCCTCC
1 CTTTCCTCC
7165693 CTCCGTTCAC
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.05, C:0.54, G:0.04, T:0.37
Consensus pattern (12 bp):
CTTTCCTCCACC
Found at i:7168482 original size:25 final size:25
Alignment explanation
Indices: 7168448--7168495 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
7168438 TGTCAGCTAT
7168448 AGTTTAGGTTAGTAGCTTATGAACA
1 AGTTTAGGTTAGTAGCTTATGAACA
7168473 AGTTTAGGTTAGTAGCTTATGAA
1 AGTTTAGGTTAGTAGCTTATGAA
7168496 GATGATATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (25 bp):
AGTTTAGGTTAGTAGCTTATGAACA
Found at i:7170107 original size:15 final size:15
Alignment explanation
Indices: 7170087--7170116 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
7170077 AAGCCAAATT
7170087 ACTTTATATCTATTA
1 ACTTTATATCTATTA
7170102 ACTTTATATCTATTA
1 ACTTTATATCTATTA
7170117 CAGATCTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.00, T:0.53
Consensus pattern (15 bp):
ACTTTATATCTATTA
Found at i:7171354 original size:16 final size:16
Alignment explanation
Indices: 7171333--7171364 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7171323 ACAAATTAAG
*
7171333 GAATTATTAGAAAAAA
1 GAATTAATAGAAAAAA
7171349 GAATTAATAGAAAAAA
1 GAATTAATAGAAAAAA
7171365 CTAATAGTCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.12, T:0.22
Consensus pattern (16 bp):
GAATTAATAGAAAAAA
Found at i:7175170 original size:3 final size:3
Alignment explanation
Indices: 7175134--7175269 Score: 62
Period size: 3 Copynumber: 43.3 Consensus size: 3
7175124 GCTAATATGC
* * *
7175134 ATA ATA A-A ATA ATGA A-A ATG ACA ATA ATA GTA ATA ATA ATA ATA
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * ** * *
7175178 CTA ATA ACA ACA ATA ATA A-A GATA GCA ATA ATAA ATA AAA AAA AGTA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA AT-A ATA ATA ATA A-TA
* *
7175225 ATAA ATA AGTA TGTGA ATAA ATA ACA ATA ATA ATA ATA ATA ATA A
1 AT-A ATA A-TA -AT-A AT-A ATA ATA ATA ATA ATA ATA ATA ATA A
7175270 AAGAAATAAA
Statistics
Matches: 101, Mismatches: 21, Indels: 22
0.70 0.15 0.15
Matches are distributed among these distances:
2 5 0.05
3 77 0.76
4 18 0.18
5 1 0.01
ACGTcount: A:0.64, C:0.04, G:0.07, T:0.25
Consensus pattern (3 bp):
ATA
Found at i:7176078 original size:16 final size:16
Alignment explanation
Indices: 7176049--7176095 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
7176039 CAGATTCGAG
* *
7176049 AAGAAGAAAGAAAAAA
1 AAGAAAAAATAAAAAA
7176065 AAGAAAAAAT-AAAAA
1 AAGAAAAAATAAAAAA
*
7176080 AATAAAAAATATAAAA
1 AAGAAAAAATA-AAAA
7176096 CCTTCTTGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 14 0.54
16 8 0.31
17 4 0.15
ACGTcount: A:0.83, C:0.00, G:0.09, T:0.09
Consensus pattern (16 bp):
AAGAAAAAATAAAAAA
Found at i:7176080 original size:15 final size:15
Alignment explanation
Indices: 7176060--7176095 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
7176050 AGAAGAAAGA
7176060 AAAAAAAGAAAAAAT
1 AAAAAAAGAAAAAAT
*
7176075 AAAAAAATAAAAAAT
1 AAAAAAAGAAAAAAT
7176090 ATAAAA
1 A-AAAA
7176096 CCTTCTTGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.86, C:0.00, G:0.03, T:0.11
Consensus pattern (15 bp):
AAAAAAAGAAAAAAT
Found at i:7176770 original size:44 final size:44
Alignment explanation
Indices: 7176722--7177316 Score: 255
Period size: 44 Copynumber: 12.9 Consensus size: 44
7176712 AAACTTGTAG
* * * * *
7176722 CTTCAATCTGTTCCGCTGCAA-TTTCAGGGAGGTGAGATTTGTGT
1 CTTCAATCTGCTCCACTACAACTTT-AGGGAGATAAGATTTGTGT
*
7176766 CTTCAATCTGCTCCACTACAACTTTAGGGAGATAAGATTTGTTT
1 CTTCAATCTGCTCCACTACAACTTTAGGGAGATAAGATTTGTGT
* * * * * *
7176810 AATTTTAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGGT
1 --CTTCAATCTGCTCCACTACAACTTTAGGGAGATAAGATTTGT-GT
* ** * ** *
7176857 -TTTAATCTGCTCCACTGTAACTTCAAAGAGATAGGATTTGTAGGCTGT
1 CTTCAATCTGCTCCACTACAACTTTAGGGAGATAAGA-TT-T--G-TGT
* * *
7176905 CTTCAATCTGCTCCACTGCAACTTTAGAGCGATAAGATTTGTAGCCTGT
1 CTTCAATCTGCTCCACTACAACTTTAGGGAGATAAGA-TT-T-G--TGT
* * * *
7176954 TTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGTTTTGTTTGAT
1 CTTCAATCTGCTCCACTACAACTTTAGGGAGATAAGATTTG--TG-T
* * *
7177001 -TTTAA-CTTGCTCCACTGCAACTTTAGGGAGATAAGATTTATAACTCGT
1 CTTCAATC-TGCTCCACTACAACTTTAGGGAGATAAGA-TT-T--GT-GT
** * * ** * ** *
7177049 AGCTTTGATCTGTTCCACTACAACTTCAGTAAAATAAGATCCGCTAT
1 --CTTCAATCTGCTCCACTACAACTTTAGGGAGATAAGATTTG-TGT
* * * * * **
7177096 CTTCAGTTTGCTCCACTGCAACTTGAGGGAGATAAGACTTGTAA
1 CTTCAATCTGCTCCACTACAACTTTAGGGAGATAAGATTTGTGT
* * * * * * *
7177140 CTTCAACCTGCTCCATTGCATCTTCAGGGAGATAAGGTTTGTGA
1 CTTCAATCTGCTCCACTACAACTTTAGGGAGATAAGATTTGTGT
* * ** *
7177184 CTTCAATCTGCTCCACTGCAAC-TTCGAAAAGATAAGATTCGCCATGAT
1 CTTCAATCTGCTCCACTACAACTTTAG-GGAGATAAGATTTG---TG-T
* * * * * *
7177232 AACTTCGATATGCTCCACTGCAACTTTAGTGAGATAAAATTTGTGG
1 --CTTCAATCTGCTCCACTACAACTTTAGGGAGATAAGATTTGTGT
* * *
7177278 CTTCAATATGCTCCACTACAACTATAGGGAGGTAAGATT
1 CTTCAATCTGCTCCACTACAACTTTAGGGAGATAAGATT
7177317 CGCCATAATG
Statistics
Matches: 425, Mismatches: 95, Indels: 62
0.73 0.16 0.11
Matches are distributed among these distances:
43 2 0.00
44 163 0.38
45 34 0.08
46 71 0.17
47 10 0.02
48 10 0.02
49 73 0.17
50 31 0.07
51 30 0.07
52 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTACAACTTTAGGGAGATAAGATTTGTGT
Found at i:7176834 original size:46 final size:46
Alignment explanation
Indices: 7176726--7177208 Score: 281
Period size: 44 Copynumber: 10.5 Consensus size: 46
7176716 TTGTAGCTTC
* * * * * *
7176726 AATCTGTTCCGCTGCAATTTCAGGGAGGTGAGATTTG--TG-TCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTTTGAT-TTT
* * *
7176770 AATCTGCTCCACTACAACTTTAGGGAGATAAGATTTGTTTAATTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTTTGATTTT
* * *
7176816 AACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTG--TGGTTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTTTGATTTT
* ** * ** *
7176860 AATCTGCTCCACTGTAACTTCAAAGAGATAGGATTTGTAGGCTGTCTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTTTGAT-T-TT
* * * *
7176908 CAATCTGCTCCACTGCAACTTTAGAGCGATAAGATTTGTAGCCTG-TTTT
1 -AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGT---TTGATTTT
*
7176957 CAATCTGCTCCACTGCAACTTCAGGGAGATAAGTTTTGTTTGATTTT
1 -AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTTTGATTTT
* * * *
7177004 AA-CTTGCTCCACTGCAACTTTAGGGAGATAAGATTTATAACTCGTAGCTTT
1 AATC-TGCTCCACTGCAACTTCAGGGAGATAAGATTTGT---TTG-A-TTTT
* * * ** * ** * *
7177055 GATCTGTTCCACTACAACTTCAGTAAAATAAGATCCG-CT-ATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTTTGAT-TTT
* * * * * * *
7177100 AGTTTGCTCCACTGCAACTTGAGGGAGATAAGACTTG--TAACTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTTTGATTTT
* * * * * *
7177144 AACCTGCTCCATTGCATCTTCAGGGAGATAAGGTTTG--TGACTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTTTGATTTT
7177188 AATCTGCTCCACTGCAACTTC
1 AATCTGCTCCACTGCAACTTC
7177209 GAAAAGATAA
Statistics
Matches: 339, Mismatches: 79, Indels: 42
0.74 0.17 0.09
Matches are distributed among these distances:
44 123 0.36
45 30 0.09
46 73 0.22
47 6 0.02
48 2 0.01
49 72 0.21
50 2 0.01
51 29 0.09
52 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (46 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTTTGATTTT
Found at i:7176928 original size:49 final size:48
Alignment explanation
Indices: 7176767--7177039 Score: 249
Period size: 49 Copynumber: 5.8 Consensus size: 48
7176757 GATTTGTGTC
* * * ****
7176767 TTCAATCTGCTCCACTACAACTTTAGGGAGATAAGATTTGTTTAAT-T
1 TTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAGGCTGT
* * *
7176814 TT-AACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGT-GG-T-T
1 TTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAGGCTGT
* * *
7176858 TT-AATCTGCTCCACTGTAACTTCAAAGAGATAGGATTTGTAGGCTGT
1 TTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAGGCTGT
* * *
7176905 CTTCAATCTGCTCCACTGCAACTTTAGAGCGATAAGATTTGTAGCCTGTT
1 -TTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAGGCTG-T
* * ** *
7176955 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGTTTTGTTTGAT-T
1 TTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAGGCTGT
* *
7177002 TT-AA-CTTGCTCCACTGCAACTTTAGGGAGATAAGATTT
1 TTCAATC-TGCTCCACTGCAACTTCAGAGAGATAAGATTT
7177040 ATAACTCGTA
Statistics
Matches: 191, Mismatches: 28, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
44 36 0.19
45 3 0.02
46 67 0.35
47 6 0.03
48 2 0.01
49 76 0.40
50 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (48 bp):
TTCAATCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAGGCTGT
Found at i:7177314 original size:94 final size:94
Alignment explanation
Indices: 7177148--7177331 Score: 217
Period size: 94 Copynumber: 2.0 Consensus size: 94
7177138 AACTTCAACC
* * ** * * *
7177148 TGCTCCATTGCATCTTCAGGGAGATAAGGTTTGTGACTTCAATCTGCTCCACTGCAACTTCGAAA
1 TGCTCCACTGCAACTTCAGGGAGATAAAATTTGTGACTTCAATATGCTCCACTACAACTTAGAAA
*
7177213 AGATAAGATTCGCCATGATAACTTCGATA
66 AGATAAGATTCGCCATAATAACTTCGATA
* * * *
7177242 TGCTCCACTGCAACTTTAGTGAGATAAAATTTGTGGCTTCAATATGCTCCACTACAACTATAG-G
1 TGCTCCACTGCAACTTCAGGGAGATAAAATTTGTGACTTCAATATGCTCCACTACAACT-TAGAA
* * *
7177306 GAGGTAAGATTCGCCATAATGACTTC
65 AAGATAAGATTCGCCATAATAACTTC
7177332 AATCCATCCC
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
94 72 0.97
95 2 0.03
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (94 bp):
TGCTCCACTGCAACTTCAGGGAGATAAAATTTGTGACTTCAATATGCTCCACTACAACTTAGAAA
AGATAAGATTCGCCATAATAACTTCGATA
Found at i:7181383 original size:33 final size:32
Alignment explanation
Indices: 7181346--7181458 Score: 129
Period size: 32 Copynumber: 3.5 Consensus size: 32
7181336 TAGAGGAATA
*
7181346 TTGTTATCATTTAACAAAAATTAAAGTTGATAT
1 TTGTTATCATTTCAC-AAAATTAAAGTTGATAT
* *
7181379 TTGTTATCACTTCACAAAATTGAAGTTG-TAAT
1 TTGTTATCATTTCACAAAATTAAAGTTGAT-AT
* * *
7181411 TTGTTACCATTTCACAAAATGAAAGCTGATAT
1 TTGTTATCATTTCACAAAATTAAAGTTGATAT
* *
7181443 TTATCATCATTTCACA
1 TTGTTATCATTTCACA
7181459 TAACCACACG
Statistics
Matches: 67, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
31 1 0.01
32 52 0.78
33 14 0.21
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (32 bp):
TTGTTATCATTTCACAAAATTAAAGTTGATAT
Found at i:7182714 original size:23 final size:23
Alignment explanation
Indices: 7182684--7182730 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
7182674 TTAAATAAAA
7182684 TAAGAGATTGCTTGCAAGTCAAG
1 TAAGAGATTGCTTGCAAGTCAAG
7182707 TAAGAGATTGCTTGCAAGTCAAG
1 TAAGAGATTGCTTGCAAGTCAAG
7182730 T
1 T
7182731 TAAACAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.28
Consensus pattern (23 bp):
TAAGAGATTGCTTGCAAGTCAAG
Found at i:7187957 original size:2 final size:2
Alignment explanation
Indices: 7187950--7187984 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
7187940 TCCGAATGTG
7187950 TA TA TA TA 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 TA TA TA TA T
7187985 TAAAGTATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7201409 original size:15 final size:15
Alignment explanation
Indices: 7201384--7201418 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
7201374 AAAATATTCT
*
7201384 AAATA-TTTTTAATA
1 AAATATTTTTTAAAA
7201398 AAATATTTTTTAAAA
1 AAATATTTTTTAAAA
7201413 AAATAT
1 AAATAT
7201419 ATATTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
AAATATTTTTTAAAA
Found at i:7207990 original size:6 final size:6
Alignment explanation
Indices: 7207979--7208011 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
7207969 GCACAAAAAA
7207979 AATTAT AATTAT AATTAT AATTAT AATTAT AAT
1 AATTAT AATTAT AATTAT AATTAT AATTAT AAT
7208012 AAAAACAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
AATTAT
Found at i:7208225 original size:9 final size:9
Alignment explanation
Indices: 7208213--7208264 Score: 68
Period size: 9 Copynumber: 5.7 Consensus size: 9
7208203 TATTAAAAAC
7208213 GAGAGAGTT
1 GAGAGAGTT
*
7208222 GAGAGACTT
1 GAGAGAGTT
*
7208231 GAGAGGGTTT
1 GAGAGAG-TT
*
7208241 GAGAGAATT
1 GAGAGAGTT
7208250 GAGAGAGTT
1 GAGAGAGTT
7208259 GAGAGA
1 GAGAGA
7208265 AGGATGTGAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
9 29 0.81
10 7 0.19
ACGTcount: A:0.35, C:0.02, G:0.42, T:0.21
Consensus pattern (9 bp):
GAGAGAGTT
Found at i:7208244 original size:19 final size:18
Alignment explanation
Indices: 7208213--7208265 Score: 79
Period size: 19 Copynumber: 2.9 Consensus size: 18
7208203 TATTAAAAAC
*
7208213 GAGAGAGTTGAGAGACTT
1 GAGAGAGTTGAGAGAATT
*
7208231 GAGAGGGTTTGAGAGAATT
1 GAGAGAG-TTGAGAGAATT
7208250 GAGAGAGTTGAGAGAA
1 GAGAGAGTTGAGAGAA
7208266 GGATGTGAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
18 15 0.48
19 16 0.52
ACGTcount: A:0.36, C:0.02, G:0.42, T:0.21
Consensus pattern (18 bp):
GAGAGAGTTGAGAGAATT
Found at i:7209681 original size:26 final size:23
Alignment explanation
Indices: 7209632--7209692 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 23
7209622 TGATTTAAAC
*
7209632 AAATACTCATATTTATATAATTA
1 AAATATTCATATTTATATAATTA
*
7209655 AAATATTCATATTTTATACTATGTTA
1 AAATATTCATA-TTTATA-TA-ATTA
7209681 AAATATGTCATA
1 AAATAT-TCATA
7209693 AGTCTTTGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 10 0.31
24 6 0.19
25 2 0.06
26 9 0.28
27 5 0.16
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.44
Consensus pattern (23 bp):
AAATATTCATATTTATATAATTA
Found at i:7210225 original size:18 final size:18
Alignment explanation
Indices: 7210192--7210230 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
7210182 ATTTATTTAT
*
7210192 TAAAATAAAATTTTAATA
1 TAAAATAAAATTTTAAAA
7210210 TAAAAT-AAATTATTAAAA
1 TAAAATAAAATT-TTAAAA
7210228 TAA
1 TAA
7210231 TATTTTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
TAAAATAAAATTTTAAAA
Found at i:7211228 original size:4 final size:4
Alignment explanation
Indices: 7211219--7211260 Score: 57
Period size: 4 Copynumber: 10.2 Consensus size: 4
7211209 CCTAGCAAGG
* *
7211219 TACA TACA TACA AACCA TGCA TACA TACA TACA TACA TACA T
1 TACA TACA TACA TA-CA TACA TACA TACA TACA TACA TACA T
7211261 GTACATATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
4 31 0.94
5 2 0.06
ACGTcount: A:0.48, C:0.26, G:0.02, T:0.24
Consensus pattern (4 bp):
TACA
Found at i:7214796 original size:19 final size:19
Alignment explanation
Indices: 7214772--7214821 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
7214762 TAAAATATAG
*
7214772 ATTTTGGAATTTTATAAAT
1 ATTTTGGAATTTTAAAAAT
7214791 ATTTT-GAATTTTAAAAAT
1 ATTTTGGAATTTTAAAAAT
7214809 -TATTTGGAATTTT
1 AT-TTTGGAATTTT
7214822 TTTTGTAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 1 0.04
18 15 0.54
19 12 0.43
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.54
Consensus pattern (19 bp):
ATTTTGGAATTTTAAAAAT
Found at i:7214801 original size:18 final size:19
Alignment explanation
Indices: 7214772--7214821 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
7214762 TAAAATATAG
*
7214772 ATTTTGGAATTTTATAAA-T
1 ATTTT-GAATTTTAAAAATT
7214791 ATTTTGAATTTTAAAAATT
1 ATTTTGAATTTTAAAAATT
*
7214810 ATTTGGAATTTT
1 ATTTTGAATTTT
7214822 TTTTGTAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 11 0.39
19 17 0.61
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.54
Consensus pattern (19 bp):
ATTTTGAATTTTAAAAATT
Found at i:7221265 original size:20 final size:20
Alignment explanation
Indices: 7221240--7221279 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
7221230 CATTCCAGAA
7221240 GATAGTCTTTTGTGTGCAAT
1 GATAGTCTTTTGTGTGCAAT
7221260 GATAGTCTTTTGTGTGCAAT
1 GATAGTCTTTTGTGTGCAAT
7221280 CTATTTGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.10, G:0.25, T:0.45
Consensus pattern (20 bp):
GATAGTCTTTTGTGTGCAAT
Found at i:7224772 original size:28 final size:28
Alignment explanation
Indices: 7224706--7224785 Score: 97
Period size: 28 Copynumber: 2.9 Consensus size: 28
7224696 TGTGTAGATC
* *
7224706 AGTTCCCCACAAAGGCTATTCTTTTCAG
1 AGTTCACCACAAAGGTTATTCTTTTCAG
*
7224734 AGTTCACCACAAAGGTTATTCTTTTTAG
1 AGTTCACCACAAAGGTTATTCTTTTCAG
*** *
7224762 AGTTTGGCACAAGGGTTATTCTTT
1 AGTTCACCACAAAGGTTATTCTTT
7224786 ATTGTCGTGT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (28 bp):
AGTTCACCACAAAGGTTATTCTTTTCAG
Found at i:7229440 original size:28 final size:28
Alignment explanation
Indices: 7229395--7229483 Score: 110
Period size: 28 Copynumber: 3.2 Consensus size: 28
7229385 TAAGAATTTT
*
7229395 CCACAAAGGC-ATCCTTTTCAGAGTTCG
1 CCACAAAGGCTATTCTTTTCAGAGTTCG
* *
7229422 TCACACAA-GCTATTCTTTTCAGAGTTTG
1 CCACA-AAGGCTATTCTTTTCAGAGTTCG
* *
7229450 CCACAAAGGCTATTCTTTTCAGGGTTCC
1 CCACAAAGGCTATTCTTTTCAGAGTTCG
7229478 CCACAA
1 CCACAA
7229484 GAGATATTCT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 8 0.15
28 44 0.85
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (28 bp):
CCACAAAGGCTATTCTTTTCAGAGTTCG
Found at i:7229491 original size:28 final size:28
Alignment explanation
Indices: 7229395--7229495 Score: 82
Period size: 28 Copynumber: 3.6 Consensus size: 28
7229385 TAAGAATTTT
* * *
7229395 CCACAAAGG-CATCCTTTTCAGAGTTCG
1 CCACAAAGGATATTCTTTTCAGAGTTCC
* * **
7229422 TCACACAA-GCTATTCTTTTCAGAGTTTG
1 CCACA-AAGGATATTCTTTTCAGAGTTCC
* *
7229450 CCACAAAGGCTATTCTTTTCAGGGTTCC
1 CCACAAAGGATATTCTTTTCAGAGTTCC
7229478 CCAC-AAGAGATATTCTTT
1 CCACAAAG-GATATTCTTT
7229496 ACTGTTGGGT
Statistics
Matches: 61, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
27 10 0.16
28 51 0.84
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.33
Consensus pattern (28 bp):
CCACAAAGGATATTCTTTTCAGAGTTCC
Found at i:7231078 original size:28 final size:28
Alignment explanation
Indices: 7231038--7231100 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
7231028 GTCATTATCA
*
7231038 ACCCCATAAGTTATAAAACTCTTCTTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
* * *
7231066 ACCCCATAAGTTATGAGACTTTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
7231094 ACCCCAT
1 ACCCCAT
7231101 TAATATGAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.33
Consensus pattern (28 bp):
ACCCCATAAGTTATAAAACTCTTCCTAT
Found at i:7236488 original size:28 final size:28
Alignment explanation
Indices: 7236448--7236510 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
7236438 GTCATTATCA
7236448 ACCCCATAAGTTATAAAACTCTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
* * *
7236476 ACCCCATAAGTTATGAGACTTTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
7236504 ACCCCAT
1 ACCCCAT
7236511 TAATATGGGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.30, G:0.06, T:0.32
Consensus pattern (28 bp):
ACCCCATAAGTTATAAAACTCTTCCTAT
Found at i:7241216 original size:20 final size:20
Alignment explanation
Indices: 7241193--7241230 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
7241183 CTTTGTTGGG
*
7241193 AGCTTTCTCTCTCTAATCAT
1 AGCTTTCTCTCACTAATCAT
7241213 AGCTTTCTCTCACTAATC
1 AGCTTTCTCTCACTAATC
7241231 TACTTGAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.32, G:0.05, T:0.42
Consensus pattern (20 bp):
AGCTTTCTCTCACTAATCAT
Found at i:7241568 original size:16 final size:17
Alignment explanation
Indices: 7241530--7241572 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
7241520 GGTTTAAAAT
* *
7241530 TATTCTCAATAATTTAA
1 TATTTTCAATAATATAA
7241547 TA-TTTCAA-AATATAA
1 TATTTTCAATAATATAA
7241562 TATTTTCAATA
1 TATTTTCAATA
7241573 TGATTTCATG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 8 0.36
16 11 0.50
17 3 0.14
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (17 bp):
TATTTTCAATAATATAA
Found at i:7242577 original size:32 final size:32
Alignment explanation
Indices: 7242531--7242595 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
7242521 GGGCACTTTT
7242531 TTTCAGATTTCCATATATAGAACATTGCCTTG
1 TTTCAGATTTCCATATATAGAACATTGCCTTG
*
7242563 TTTCGGATTTCCATATATAGAACATTGCCTTG
1 TTTCAGATTTCCATATATAGAACATTGCCTTG
7242595 T
1 T
7242596 CTTGAAGTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.42
Consensus pattern (32 bp):
TTTCAGATTTCCATATATAGAACATTGCCTTG
Found at i:7244061 original size:46 final size:46
Alignment explanation
Indices: 7244006--7244186 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
7243996 TAGGATGGTT
7244006 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
7244052 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
7244098 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
7244145 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
7244187 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 71 0.61
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:7244167 original size:93 final size:93
Alignment explanation
Indices: 7244008--7244178 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
7243998 GGATGGTTGA
* *
7244008 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
7244073 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
7244101 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
7244166 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
7244179 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:7247156 original size:15 final size:15
Alignment explanation
Indices: 7247117--7247195 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
7247107 GTATCTTGGG
*
7247117 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
7247132 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
7247147 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
7247161 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
7247176 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
7247190 TTTCTT
1 TTTCTT
7247196 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 2 0.04
14 17 0.32
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:7247180 original size:29 final size:29
Alignment explanation
Indices: 7247108--7247194 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
7247098 CATAGTATCG
* * * *
7247108 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATTTCTC
*
7247138 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGATTTCTC
*
7247167 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
7247195 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 32 0.65
30 17 0.35
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:7249628 original size:46 final size:46
Alignment explanation
Indices: 7249573--7249753 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
7249563 TAGGATGGTT
7249573 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
7249619 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
7249665 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
7249712 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
7249754 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 71 0.61
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:7249734 original size:93 final size:93
Alignment explanation
Indices: 7249575--7249745 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
7249565 GGATGGTTGA
* *
7249575 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
7249640 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
7249668 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
7249733 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
7249746 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:7252007 original size:16 final size:18
Alignment explanation
Indices: 7251986--7252031 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
7251976 AATAGTATGC
7251986 TAAAAATAAT-AA-TATA
1 TAAAAATAATAAAGTATA
*
7252002 TAAAAATCATAAAGTATA
1 TAAAAATAATAAAGTATA
*
7252020 CAAAAAT-ATAAA
1 TAAAAATAATAAA
7252032 CTAAAAACAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 9 0.35
17 7 0.27
18 10 0.38
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.26
Consensus pattern (18 bp):
TAAAAATAATAAAGTATA
Found at i:7252801 original size:24 final size:24
Alignment explanation
Indices: 7252736--7252813 Score: 77
Period size: 24 Copynumber: 3.2 Consensus size: 24
7252726 TCTCTAAAAA
*
7252736 AAAACTAACCCTAGCCCATAGCCC
1 AAAACTAACCCTAGCCCATGGCCC
* ** *
7252760 AAAA-TACAACAAAACCCATGGCCC
1 AAAACTA-ACCCTAGCCCATGGCCC
7252784 AAAACTAACCCTAGCCCAAATGGCCC
1 AAAACTAACCCTAGCCC--ATGGCCC
7252810 AAAA
1 AAAA
7252814 GTAAACCAAT
Statistics
Matches: 41, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
23 2 0.05
24 26 0.63
25 2 0.05
26 11 0.27
ACGTcount: A:0.45, C:0.36, G:0.09, T:0.10
Consensus pattern (24 bp):
AAAACTAACCCTAGCCCATGGCCC
Found at i:7255474 original size:12 final size:12
Alignment explanation
Indices: 7255454--7255490 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
7255444 TTTTCCTTTG
7255454 TACTTATTTATT
1 TACTTATTTATT
* *
7255466 TACTCATTTATC
1 TACTTATTTATT
7255478 TACTTATTTATT
1 TACTTATTTATT
7255490 T
1 T
7255491 TTTTATTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.00, T:0.62
Consensus pattern (12 bp):
TACTTATTTATT
Found at i:7255673 original size:6 final size:6
Alignment explanation
Indices: 7255512--7255673 Score: 180
Period size: 6 Copynumber: 27.0 Consensus size: 6
7255502 TGTTGTTCCC
* * * * * * * * *
7255512 TATTAC TATTAC TATTAC TATTAC TATTAC TATTAC TATTAC TCTTAC
1 TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT
* * * * * * *
7255560 TCTTAC TATTAC TATTAT TATTAA TAGTAT TATTAC TATTAC TATTAT
1 TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT
7255608 TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT
1 TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT
7255656 TATTAT TATTAT TATTAT
1 TATTAT TATTAT TATTAT
7255674 ATACTTTATT
Statistics
Matches: 147, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 147 1.00
ACGTcount: A:0.33, C:0.09, G:0.01, T:0.58
Consensus pattern (6 bp):
TATTAT
Found at i:7255684 original size:15 final size:15
Alignment explanation
Indices: 7255512--7255673 Score: 180
Period size: 15 Copynumber: 10.8 Consensus size: 15
7255502 TGTTGTTCCC
* *
7255512 TATTACTATTACTAT
1 TATTATTATTATTAT
* * *
7255527 TACTATTACTATTAC
1 TATTATTATTATTAT
* * *
7255542 TATTACTATTACTCT
1 TATTATTATTATTAT
* * * *
7255557 TACTCTTACTATTAC
1 TATTATTATTATTAT
* *
7255572 TATTATTATTAATAG
1 TATTATTATTATTAT
* *
7255587 TATTATTACTATTAC
1 TATTATTATTATTAT
7255602 TATTATTATTATTAT
1 TATTATTATTATTAT
7255617 TATTATTATTATTAT
1 TATTATTATTATTAT
7255632 TATTATTATTATTAT
1 TATTATTATTATTAT
7255647 TATTATTATTATTAT
1 TATTATTATTATTAT
7255662 TATTATTATTAT
1 TATTATTATTAT
7255674 ATACTTTATT
Statistics
Matches: 119, Mismatches: 28, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 119 1.00
ACGTcount: A:0.33, C:0.09, G:0.01, T:0.58
Consensus pattern (15 bp):
TATTATTATTATTAT
Found at i:7261039 original size:26 final size:26
Alignment explanation
Indices: 7261003--7261112 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
7260993 CATGAATTTC
*
7261003 TTATCATGAAACATTTACCTAAACCA
1 TTATCATGAAACATTTACCTAACCCA
7261029 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
7261055 TTATCATGGAATATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
*
7261081 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
7261107 TTATCA
1 TTATCA
7261113 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:7276342 original size:13 final size:13
Alignment explanation
Indices: 7276321--7276381 Score: 77
Period size: 13 Copynumber: 4.7 Consensus size: 13
7276311 TTGGTAATGT
7276321 TTTTGAAAAGTGC
1 TTTTGAAAAGTGC
*
7276334 TTTTAAAAAGTGC
1 TTTTGAAAAGTGC
** *
7276347 CGTGGAAAAGTGC
1 TTTTGAAAAGTGC
*
7276360 TTTTGAAAAGTAC
1 TTTTGAAAAGTGC
7276373 TTTTGAAAA
1 TTTTGAAAA
7276382 ATTTTGTTTA
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 39 1.00
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.34
Consensus pattern (13 bp):
TTTTGAAAAGTGC
Found at i:7278911 original size:43 final size:43
Alignment explanation
Indices: 7278850--7278936 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
7278840 ATTTCAAAAA
7278850 AAAAGTTATTTTTATTGACTTCTTGACTGGTGATAAGGTGACT
1 AAAAGTTATTTTTATTGACTTCTTGACTGGTGATAAGGTGACT
7278893 AAAAGTTATTTTTATTGACTTCTTGACTGGTGATAAGGTGACT
1 AAAAGTTATTTTTATTGACTTCTTGACTGGTGATAAGGTGACT
7278936 A
1 A
7278937 GTTGGTTGAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (43 bp):
AAAAGTTATTTTTATTGACTTCTTGACTGGTGATAAGGTGACT
Found at i:7279143 original size:20 final size:21
Alignment explanation
Indices: 7279097--7279147 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
7279087 TTTTAAAGAG
7279097 TTTTATTTTTTTAAAATAAAAC
1 TTTTA-TTTTTTAAAATAAAAC
* **
7279119 ATTTATTTTTT-AAATAAATT
1 TTTTATTTTTTAAAATAAAAC
7279139 TTTTATTTT
1 TTTTATTTT
7279148 ATTTTTATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 15 0.60
21 6 0.24
22 4 0.16
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTTATTTTTTAAAATAAAAC
Found at i:7281658 original size:16 final size:16
Alignment explanation
Indices: 7281637--7281672 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
7281627 ACTGTCACCA
7281637 ATAATAATATTGATGC
1 ATAATAATATTGATGC
7281653 ATAATAATATTGATGC
1 ATAATAATATTGATGC
7281669 -TAAT
1 ATAAT
7281673 CGAATTAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (16 bp):
ATAATAATATTGATGC
Found at i:7287804 original size:2 final size:2
Alignment explanation
Indices: 7287797--7287821 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7287787 GCGAATTTTA
7287797 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
7287822 TTTTGTTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:7290356 original size:6 final size:6
Alignment explanation
Indices: 7290345--7290369 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
7290335 TTCTAATAAC
7290345 CATCTT CATCTT CATCTT CATCTT C
1 CATCTT CATCTT CATCTT CATCTT C
7290370 TTCTCACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.36, G:0.00, T:0.48
Consensus pattern (6 bp):
CATCTT
Found at i:7291914 original size:6 final size:6
Alignment explanation
Indices: 7291903--7291927 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
7291893 GATTGAGGGT
7291903 AAAGGA AAAGGA AAAGGA AAAGGA A
1 AAAGGA AAAGGA AAAGGA AAAGGA A
7291928 TTCTGCAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (6 bp):
AAAGGA
Found at i:7306952 original size:18 final size:17
Alignment explanation
Indices: 7306929--7306963 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
7306919 AATTTTAAAA
7306929 ATATATATTAAAAATTTT
1 ATATAT-TTAAAAATTTT
*
7306947 ATATATTTTAAAATTTT
1 ATATATTTAAAAATTTT
7306964 GAGAAAATAT
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATATATTTAAAAATTTT
Found at i:7311438 original size:95 final size:95
Alignment explanation
Indices: 7311275--7311465 Score: 346
Period size: 95 Copynumber: 2.0 Consensus size: 95
7311265 CAGGTAGAAG
*
7311275 TGCCGGATCGACTGAGGTGGGACAACCTACTTTGGTATATGCTGCATATTACCGTGAGGACCGAG
1 TGCCGGATCGACTGAGGTGGGACAACCTACTTTGGTATATGCTGCACATTACCGTGAGGACCGAG
7311340 ATGCTCCGGATATCATTACGGGTACGCTTT
66 ATGCTCCGGATATCATTACGGGTACGCTTT
* *
7311370 TGCCGGATCGACTGAGGTGGGACAACCTACTTTGGTATATGCTGCACATTACTGTGAGGACTGAG
1 TGCCGGATCGACTGAGGTGGGACAACCTACTTTGGTATATGCTGCACATTACCGTGAGGACCGAG
*
7311435 ATGCTCCGGATGTCATTACGGGTACGCTTT
66 ATGCTCCGGATATCATTACGGGTACGCTTT
7311465 T
1 T
7311466 TATATTTGAT
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
95 92 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (95 bp):
TGCCGGATCGACTGAGGTGGGACAACCTACTTTGGTATATGCTGCACATTACCGTGAGGACCGAG
ATGCTCCGGATATCATTACGGGTACGCTTT
Found at i:7319453 original size:17 final size:17
Alignment explanation
Indices: 7319431--7319465 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
7319421 AAATTGAAAG
7319431 TAAGAATAGAGAAAATA
1 TAAGAATAGAGAAAATA
7319448 TAAGAATAGAGAAAATA
1 TAAGAATAGAGAAAATA
7319465 T
1 T
7319466 GTTAAAAAAA
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:0.63, C:0.00, G:0.17, T:0.20
Consensus pattern (17 bp):
TAAGAATAGAGAAAATA
Found at i:7326036 original size:2 final size:2
Alignment explanation
Indices: 7326029--7326075 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
7326019 AACCATCAAC
7326029 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7326071 AT AT A
1 AT AT A
7326076 GAGTTAGATA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7332709 original size:30 final size:30
Alignment explanation
Indices: 7332673--7332734 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
7332663 TGACCAAACC
* *
7332673 TTAGTTTCTCCTAGCTATGGAGTTTCGGGT
1 TTAGTTTCTCCTAGCTATAGAGTTTCAGGT
*
7332703 TTAGTTTCTCCTAGTTATAGAGTTTCAGGT
1 TTAGTTTCTCCTAGCTATAGAGTTTCAGGT
7332733 TT
1 TT
7332735 CTTTTTCTCC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.16, C:0.15, G:0.23, T:0.47
Consensus pattern (30 bp):
TTAGTTTCTCCTAGCTATAGAGTTTCAGGT
Found at i:7338589 original size:20 final size:22
Alignment explanation
Indices: 7338550--7338589 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
7338540 GTCAGTCCTA
*
7338550 TAAATAGTGGGGGATCAAATCG
1 TAAATAGTGGGAGATCAAATCG
7338572 TAAATAGT-GGAG-TCAAAT
1 TAAATAGTGGGAGATCAAAT
7338590 TATGAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 3 0.18
22 8 0.47
ACGTcount: A:0.40, C:0.07, G:0.28, T:0.25
Consensus pattern (22 bp):
TAAATAGTGGGAGATCAAATCG
Found at i:7354042 original size:42 final size:42
Alignment explanation
Indices: 7353990--7354085 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 42
7353980 TATAATTATT
*
7353990 CACTGACTCAAAACCTGCTAGGGCC-AAGGCCTAATACAAATA
1 CACTGGCTCAAAACCTGCTA-GGCCTAAGGCCTAATACAAATA
* **
7354032 CACTGGCTCAAAGCCTGCTAGGCCTAAGGCCTTTTACAAATA
1 CACTGGCTCAAAACCTGCTAGGCCTAAGGCCTAATACAAATA
**
7354074 CACCAGCTCAAA
1 CACTGGCTCAAA
7354086 TTCTGCTTCT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
41 4 0.09
42 43 0.91
ACGTcount: A:0.34, C:0.30, G:0.17, T:0.19
Consensus pattern (42 bp):
CACTGGCTCAAAACCTGCTAGGCCTAAGGCCTAATACAAATA
Found at i:7355196 original size:2 final size:2
Alignment explanation
Indices: 7355191--7355221 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7355181 AAAAACTATT
7355191 TA TA 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 TA TA T
7355222 GTGTGTGTGT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7358231 original size:55 final size:55
Alignment explanation
Indices: 7358159--7358277 Score: 143
Period size: 55 Copynumber: 2.2 Consensus size: 55
7358149 CGTGTGTAAC
* * * ** *
7358159 ACTGACTTTAGGGCACGGCCATGACACACGCCTGTGTGGCCTGCCTGTGGGCAAT
1 ACTGACTTTAGGACACGGCCATGACACACGCCCGCGTGGCCTAACTGTGGACAAT
* *
7358214 ACTGACTTATA-GACACGGCTATGGCACACGCCCGCGTGGCCTAACTGTGGACAAT
1 ACTGACTT-TAGGACACGGCCATGACACACGCCCGCGTGGCCTAACTGTGGACAAT
7358269 ACTGA-TTTA
1 ACTGACTTTA
7358278 AAAGTTTAAG
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
53 2 0.04
54 2 0.04
55 49 0.89
56 2 0.04
ACGTcount: A:0.23, C:0.28, G:0.27, T:0.23
Consensus pattern (55 bp):
ACTGACTTTAGGACACGGCCATGACACACGCCCGCGTGGCCTAACTGTGGACAAT
Found at i:7359144 original size:43 final size:45
Alignment explanation
Indices: 7359033--7359284 Score: 177
Period size: 47 Copynumber: 5.4 Consensus size: 45
7359023 TTGCCGCTGC
* ** * * *
7359033 CATGTCCCAGACATGGTCTTACACTAGCTCTCGTGTATACGTGCTGATG
1 CATGTCCCAGACAT-GTCTTACACTAGC-ATAATCTCTAC--GCCGATG
* * *
7359082 GATGTCCCAGACATGTCTTACACTAGCAGAAACT-TA-GCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCATAATCTCTACGCCGATG
* * * * *
7359125 CATGTCCCAGACACGTCTTACACTGGCTATCATCATCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGC-ATAATC-TCTACGCCGATG
* *
7359172 CATGTCTCAGACATGTCTTACACTAGCACTTATCTCTACGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCA-TAATCTCTACGCCGATG
* * * * * * *
7359218 CCATGTCCCAGACATGGTTTTACACTGGCCATCATAATGT-GGCTGATG
1 -CATGTCCCAGACAT-GTCTTACACTAG-CATAAT-CTCTACGCCGATG
7359266 CATGTCCCAGACATGTCTT
1 CATGTCCCAGACATGTCTT
7359285 CTTTAGCCCT
Statistics
Matches: 164, Mismatches: 30, Indels: 21
0.76 0.14 0.10
Matches are distributed among these distances:
43 30 0.18
44 3 0.02
45 1 0.01
46 18 0.11
47 63 0.38
48 32 0.20
49 17 0.10
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTAGCATAATCTCTACGCCGATG
Done.