Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2594
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: 104501
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Found at i:69 original size:15 final size:16
Alignment explanation
Indices: 48--93 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
38 TTAAATTTAA
48 ATATAAATTTTAAAAT
1 ATATAAATTTTAAAAT
64 -TATAAATATTTAAAAT
1 ATATAAAT-TTTAAAAT
* *
80 ATTTAAATATTAAA
1 ATATAAATTTTAAA
94 TAATAAAGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 7 0.27
16 13 0.50
17 6 0.23
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
ATATAAATTTTAAAAT
Found at i:81 original size:9 final size:8
Alignment explanation
Indices: 42--95 Score: 55
Period size: 7 Copynumber: 7.1 Consensus size: 8
32 ATATGTTTAA
42 ATTTAAAT
1 ATTTAAAT
50 A--TAAAT
1 ATTTAAAT
56 -TTTAAA-
1 ATTTAAAT
62 ATTATAAAT
1 ATT-TAAAT
71 ATTTAAAAT
1 ATTT-AAAT
80 ATTTAAAT
1 ATTTAAAT
88 A-TTAAAT
1 ATTTAAAT
95 A
1 A
96 ATAAAGTAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
6 5 0.12
7 13 0.32
8 11 0.28
9 11 0.28
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (8 bp):
ATTTAAAT
Found at i:86 original size:17 final size:16
Alignment explanation
Indices: 49--90 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
39 TAAATTTAAA
49 TATAAAT-TTTAAAAT
1 TATAAATATTTAAAAT
64 TATAAATATTTAAAAT
1 TATAAATATTTAAAAT
*
80 ATTTAAATATT
1 -TATAAATATT
91 AAATAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 7 0.29
16 8 0.33
17 9 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TATAAATATTTAAAAT
Found at i:140 original size:3 final size:3
Alignment explanation
Indices: 132--162 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
122 ACTGTAATAA
132 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
163 GGATTAGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:1053 original size:59 final size:56
Alignment explanation
Indices: 925--1053 Score: 127
Period size: 59 Copynumber: 2.2 Consensus size: 56
915 AATAAATGAT
* * *
925 TAATATGAAATATTTATTTAAATTTATAATTTTTAAACATATAAAATTAATGTAAATG
1 TAATATG-AATA-TTATTAAAATTTATAATTTATAAACATATAAAATTAATGTAAATA
* * *
983 TAACATAAATATTATTAAAATATTAATAAATTATATAAA-ATATAAAATTGAT-TGAAATA
1 TAATATGAATATTATTAAAAT-TT-AT-AATT-TATAAACATATAAAATTAATGT-AAATA
1042 TAATATGAATAT
1 TAATATGAATAT
1054 AATTTTTAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
56 9 0.16
57 6 0.10
58 8 0.14
59 30 0.52
60 5 0.09
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.41
Consensus pattern (56 bp):
TAATATGAATATTATTAAAATTTATAATTTATAAACATATAAAATTAATGTAAATA
Found at i:1095 original size:14 final size:14
Alignment explanation
Indices: 1076--1142 Score: 66
Period size: 14 Copynumber: 4.8 Consensus size: 14
1066 AAATTATTAT
*
1076 AATAAATCATATAA
1 AATAAATAATATAA
* *
1090 AATAAAAAATATTA
1 AATAAATAATATAA
*
1104 CATAAAATAATA-AA
1 AAT-AAATAATATAA
1118 AATAAATAAT-TAA
1 AATAAATAATATAA
1131 AATAAAATAATA
1 AAT-AAATAATA
1143 AAATATAATT
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
13 12 0.29
14 23 0.55
15 7 0.17
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (14 bp):
AATAAATAATATAA
Found at i:1116 original size:27 final size:26
Alignment explanation
Indices: 1086--1173 Score: 79
Period size: 27 Copynumber: 3.3 Consensus size: 26
1076 AATAAATCAT
* *
1086 ATAAAATAAAAAATATTACATAAAATA
1 ATAAAATAAAAAAT-TAAAATAAAATA
*
1113 ATAAAAATAAATAATTAAAATAAAATA
1 AT-AAAATAAAAAATTAAAATAAAATA
* * *
1140 ATAAAAT-ATAATTTAATTATAAATATA
1 ATAAAATAAAAAATTAA-AATAAA-ATA
1167 ATAAAAT
1 ATAAAAT
1174 TTATATAAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
25 6 0.12
26 10 0.20
27 24 0.47
28 11 0.22
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.31
Consensus pattern (26 bp):
ATAAAATAAAAAATTAAAATAAAATA
Found at i:1124 original size:13 final size:13
Alignment explanation
Indices: 1076--1150 Score: 60
Period size: 14 Copynumber: 5.4 Consensus size: 13
1066 AAATTATTAT
*
1076 AATAAATCATATAA
1 AATAAATAATA-AA
* *
1090 AATAAAAAATATTA
1 AATAAATAATA-AA
*
1104 CATAAAATAATAAA
1 AAT-AAATAATAAA
*
1118 AATAAATAATTAA
1 AATAAATAATAAA
1131 AATAAAATAATAAA
1 AAT-AAATAATAAA
1145 ATATAA
1 A-ATAA
1151 TTTAATTATA
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
13 12 0.24
14 28 0.57
15 9 0.18
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.27
Consensus pattern (13 bp):
AATAAATAATAAA
Found at i:1144 original size:21 final size:21
Alignment explanation
Indices: 1074--1144 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 21
1064 TTAAATTATT
*
1074 ATAATAAATCATATAAAATAAA
1 ATAATAAATAAT-TAAAATAAA
*
1096 A-AAT-ATTACA-TAAAATAATA
1 ATAATAAATA-ATTAAAATAA-A
*
1116 AAAATAAATAATTAAAATAAA
1 ATAATAAATAATTAAAATAAA
1137 ATAATAAA
1 ATAATAAA
1145 ATATAATTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
19 8 0.20
20 4 0.10
21 16 0.40
22 12 0.30
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (21 bp):
ATAATAAATAATTAAAATAAA
Found at i:1191 original size:14 final size:14
Alignment explanation
Indices: 1060--1191 Score: 59
Period size: 14 Copynumber: 9.9 Consensus size: 14
1050 ATATAATTTT
*
1060 TAAATTAAATTAT-
1 TAAAATAAATTATA
* *
1073 TATAATAAATCATA
1 TAAAATAAATTATA
**
1087 TAAAATAAAAAATA
1 TAAAATAAATTATA
* * *
1101 TTACATAAAATA-A
1 TAAAATAAATTATA
*
1114 TAAAAATAAATAAT-
1 T-AAAATAAATTATA
*
1128 TAAAATAAAATA-A
1 TAAAATAAATTATA
1141 TAAAATATAATT-TA
1 TAAAATA-AATTATA
**
1155 -ATTATAAA-TATAA
1 TAAAATAAATTAT-A
1168 TAAAAT---TTATA
1 TAAAATAAATTATA
1179 TAAAATAAATTAT
1 TAAAATAAATTAT
1192 TTAATTGTTA
Statistics
Matches: 86, Mismatches: 20, Indels: 25
0.66 0.15 0.19
Matches are distributed among these distances:
11 8 0.09
12 6 0.07
13 33 0.38
14 39 0.45
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (14 bp):
TAAAATAAATTATA
Found at i:4974 original size:18 final size:20
Alignment explanation
Indices: 4933--4974 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
4923 TTACTTATAT
* *
4933 AATATGTATAAATGTAAAAT
1 AATATATATAAATGTAAAAA
4953 AATATATAT-AAT-TAAAAA
1 AATATATATAAATGTAAAAA
4971 AATA
1 AATA
4975 AATTGAATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 9 0.45
19 3 0.15
20 8 0.40
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (20 bp):
AATATATATAAATGTAAAAA
Found at i:5334 original size:2 final size:2
Alignment explanation
Indices: 5327--5359 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
5317 AGAAGCCATA
5327 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
5360 CAAAAAAAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6102 original size:19 final size:20
Alignment explanation
Indices: 6078--6118 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
6068 GTCAACTACC
*
6078 TTAAATCAC-TTTTATTTAA
1 TTAAATAACTTTTTATTTAA
6097 TTAAATAACTTTTTATTTAA
1 TTAAATAACTTTTTATTTAA
6117 TT
1 TT
6119 TTAATTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (20 bp):
TTAAATAACTTTTTATTTAA
Found at i:7640 original size:17 final size:17
Alignment explanation
Indices: 7618--7685 Score: 52
Period size: 18 Copynumber: 3.8 Consensus size: 17
7608 TAATTGTATA
7618 AATAATAAACATATAATATT
1 AATAAT-AA-ATA-AATATT
7638 AATAATAAATAAATATT
1 AATAATAAATAAATATT
*
7655 -A-AATATGATAAATATTT
1 AATAATA-AATAAATA-TT
7672 AATAA-AATATAAAT
1 AATAATAA-ATAAAT
7686 TTGATTAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
15 4 0.10
16 8 0.20
17 8 0.20
18 11 0.27
19 4 0.10
20 6 0.15
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (17 bp):
AATAATAAATAAATATT
Found at i:7668 original size:27 final size:28
Alignment explanation
Indices: 7638--7695 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 28
7628 ATATAATATT
7638 AATAATAAAT-AAATATTAAATATGA-TA
1 AATAATAAATAAAATA-TAAATATGATTA
* * *
7665 AATATTTAATAAAATATAAATTTGATTA
1 AATAATAAATAAAATATAAATATGATTA
7693 AAT
1 AAT
7696 TATATGATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
27 16 0.62
28 10 0.38
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (28 bp):
AATAATAAATAAAATATAAATATGATTA
Found at i:7675 original size:31 final size:30
Alignment explanation
Indices: 7615--7677 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 30
7605 ATTTAATTGT
7615 ATAAATAATAAACATATAATATTAATAATAA
1 ATAAATAATAAACATATAATATT-ATAATAA
* *
7646 ATAAATATTAAATATGATAAATATT-TAATAA
1 ATAAATAATAAACAT-AT-AATATTATAATAA
7677 A
1 A
7678 ATATAAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 20 0.71
32 2 0.07
33 6 0.21
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (30 bp):
ATAAATAATAAACATATAATATTATAATAA
Found at i:7687 original size:16 final size:17
Alignment explanation
Indices: 7620--7685 Score: 59
Period size: 17 Copynumber: 3.9 Consensus size: 17
7610 ATTGTATAAA
7620 TAATAAACATAT-AATAT
1 TAATAAA-ATATAAATAT
7637 TAATAATAA-ATAAATAT
1 TAATAA-AATATAAATAT
*
7654 T-A-AATATGATAAATATT
1 TAATAAAAT-ATAAATA-T
7671 TAATAAAATATAAAT
1 TAATAAAATATAAAT
7686 TTGATTAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 13
0.73 0.04 0.24
Matches are distributed among these distances:
14 1 0.03
15 2 0.05
16 10 0.25
17 15 0.38
18 8 0.20
19 4 0.10
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (17 bp):
TAATAAAATATAAATAT
Found at i:8539 original size:30 final size:30
Alignment explanation
Indices: 8498--8582 Score: 100
Period size: 30 Copynumber: 2.8 Consensus size: 30
8488 TTTATATATT
*
8498 AATTAAAATTTTATTTAAATATAAATTAAA
1 AATTAAAATTTTATTTAAATATAAACTAAA
* * *
8528 AATTAATATTTTATTTAAATTTACACTAAA
1 AATTAAAATTTTATTTAAATATAAACTAAA
**
8558 AATTAAAAACTTATTTTAAA-ATAAA
1 AATTAAAATTTTA-TTTAAATATAAA
8583 GGTAGATTTA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
30 39 0.87
31 6 0.13
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (30 bp):
AATTAAAATTTTATTTAAATATAAACTAAA
Found at i:8780 original size:5 final size:6
Alignment explanation
Indices: 8740--8769 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
8730 GTAGTTTAAT
8740 AATTTA AATTTTA AATTTA AATTTA AATTT
1 AATTTA AA-TTTA AATTTA AATTTA AATTT
8770 GATTTAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (6 bp):
AATTTA
Found at i:9045 original size:2 final size:2
Alignment explanation
Indices: 9040--9094 Score: 51
Period size: 2 Copynumber: 28.0 Consensus size: 2
9030 TCTCTCTCTC
* * **
9040 TA TA TA TA TA TA TA TA TA TA CA TA T- TA -A AA CCC TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
9081 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
9095 CACGTACACA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
1 2 0.05
2 42 0.95
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:9389 original size:2 final size:2
Alignment explanation
Indices: 9384--9409 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9374 TCTCTCTCTC
9384 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
9410 AATGAAAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10215 original size:19 final size:18
Alignment explanation
Indices: 10182--10227 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
10172 CAAAGATTCA
*
10182 TTTATTTTTCATAAATTT
1 TTTATTTTTCATAAAATT
*
10200 TTTATTTTTCTTTAAAATT
1 TTTATTTTTC-ATAAAATT
*
10219 TTCATTTTT
1 TTTATTTTT
10228 TGAAATACAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 10 0.42
19 14 0.58
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTATTTTTCATAAAATT
Found at i:10442 original size:167 final size:166
Alignment explanation
Indices: 10177--10607 Score: 552
Period size: 167 Copynumber: 2.6 Consensus size: 166
10167 TTTCTCAAAG
** * * *
10177 ATTCATTTATTTTTCATAAATTTTTTA-TTTTTCTTTAAAATTTTCATTTTTT-GAAATACAGAG
1 ATTCATTTA-TTTTCATAAATTTTAAATTTTTTCCTTAAAATTCTCCTTTTTTCGAAATACAGAG
* * *
10240 TTTTCTACTTCGT-AATTTTTTTGAA-GATATTTTTCTT-AGTTTTTAATTTTTAAAAGTCATCA
65 TTTTCTACTCCATAAATTTTTTTGAAGGA-ATTTTTCTTGA-TTTTTAATTTTTAAAAGTCATAA
* *
10302 AATATTATTATTTATTTCATATTCATTTAATTTTTAAAA
128 AATATTATTATTTATTTCATATTAATTCAATTTTTAAAA
* * *
10341 ATTCATTCATTTCCATAAATTTTAAATTTTTTCCTTAAAATTCTCCTTCTTTTCGAAATACAGAA
1 ATTCATTTATTTTCATAAATTTTAAATTTTTTCCTTAAAATTCTCCTT-TTTTCGAAATACAGAG
* *
10406 TTTTTTACTCCATAAATTTTTTTGAAGGGATTTTTCTTGATTTTTAATTTTTAAAAGTCATAAAA
65 TTTTCTACTCCATAAATTTTTTTGAAGGAATTTTTCTTGATTTTTAATTTTTAAAAGTCATAAAA
* *
10471 TATTATTATTTATTTCATTTTAATTCAGTTTTTAAAA
130 TATTATTATTTATTTCATATTAATTCAATTTTTAAAA
* * * * * *
10508 ATTCATTTATTTTCATGAATTTTGAATTTTTTCCTTGAAA-TCTCCTTTCTCCGAAAAATC-GAG
1 ATTCATTTATTTTCATAAATTTTAAATTTTTTCCTTAAAATTCTCCTTTTTTCGAAATA-CAGAG
*
10571 TTTTCTACTCCATAAATTTTTTCGAAGGAATTTTTCT
65 TTTTCTACTCCATAAATTTTTTTGAAGGAATTTTTCT
10608 CAATTTAACA
Statistics
Matches: 231, Mismatches: 29, Indels: 13
0.85 0.11 0.05
Matches are distributed among these distances:
163 14 0.06
164 26 0.11
165 48 0.21
166 28 0.12
167 113 0.49
168 2 0.01
ACGTcount: A:0.30, C:0.11, G:0.06, T:0.53
Consensus pattern (166 bp):
ATTCATTTATTTTCATAAATTTTAAATTTTTTCCTTAAAATTCTCCTTTTTTCGAAATACAGAGT
TTTCTACTCCATAAATTTTTTTGAAGGAATTTTTCTTGATTTTTAATTTTTAAAAGTCATAAAAT
ATTATTATTTATTTCATATTAATTCAATTTTTAAAA
Found at i:10661 original size:165 final size:166
Alignment explanation
Indices: 10177--10703 Score: 439
Period size: 167 Copynumber: 3.2 Consensus size: 166
10167 TTTCTCAAAG
* * * * ** *
10177 ATTCATTTATTTTTCATAAATTTT-TTATTTTTCTTTAAAATTTTCATT-T-TTTGAAATACAGA
1 ATTCATTTA-TTTTCATAAATTTTAAT-TTTTTCCTTAAAATTCTCCTTCTCTCCGAAAAACAGA
* * * * * * *
10239 GTTTTCTACTTCGT-AATTTTTTTGAA-GATATTTTTCTT-AGTTTTTAATTTTTAAAAGTCATC
64 ATTTTCTACTCCATAAATTTTTTCGAAGGA-ATTTTTCTTCA-ATTTAAATTTTTAAAAGTCATA
* * * * * * *
10301 AAATATTATTATTTATTTCATATTCATTTAATTTTTAAAA
127 AAATATTATCATTAACTCCATATTAATTCAGTTTTTAAAA
* * * * *
10341 ATTCATTCATTTCCATAAATTTTAAATTTTTTCCTTAAAATTCTCCTTCTTTTCGAAATACAGAA
1 ATTCATTTATTTTCATAAATTTT-AATTTTTTCCTTAAAATTCTCCTTCTCTCCGAAAAACAGAA
* * * * * *
10406 TTTTTTACTCCATAAATTTTTTTGAAGGGATTTTTCTTGATTTTTAATTTTTAAAAGTCATAAAA
65 TTTTCTACTCCATAAATTTTTTCGAAGGAATTTTTCTTCAATTTAAATTTTTAAAAGTCATAAAA
* * * * *
10471 TATTATTATTTATTTCATTTTAATTCAGTTTTTAAAA
130 TATTATCATTAACTCCATATTAATTCAGTTTTTAAAA
* *
10508 ATTCATTTATTTTCATGAATTTTGAATTTTTTCCTTGAAA-TCTCCTT-TCTCCGAAAAATC-GA
1 ATTCATTTATTTTCATAAATTTT-AATTTTTTCCTTAAAATTCTCCTTCTCTCCGAAAAA-CAGA
* * * **
10570 GTTTTCTACTCCATAAATTTTTTCGAAGGAATTTTTC-TCAATTTAACATTTTTAAAATTTATCT
64 ATTTTCTACTCCATAAATTTTTTCGAAGGAATTTTTCTTCAATTTAA-ATTTTTAAAAGTCATAA
* *
10634 AATATTGTCATTGAACTCCA-ATTAATTCAGTTTTGAAAA
128 AATATTATCATT-AACTCCATATTAATTCAGTTTTTAAAA
* * *
10673 TTTTAATTTATTTT-ATTAATTTTAATTTTTT
1 -ATTCATTTATTTTCATAAATTTTAATTTTTT
10704 TGTATATATT
Statistics
Matches: 306, Mismatches: 46, Indels: 22
0.82 0.12 0.06
Matches are distributed among these distances:
163 13 0.04
164 40 0.13
165 93 0.30
166 45 0.15
167 113 0.37
168 2 0.01
ACGTcount: A:0.31, C:0.11, G:0.06, T:0.53
Consensus pattern (166 bp):
ATTCATTTATTTTCATAAATTTTAATTTTTTCCTTAAAATTCTCCTTCTCTCCGAAAAACAGAAT
TTTCTACTCCATAAATTTTTTCGAAGGAATTTTTCTTCAATTTAAATTTTTAAAAGTCATAAAAT
ATTATCATTAACTCCATATTAATTCAGTTTTTAAAA
Found at i:12616 original size:158 final size:157
Alignment explanation
Indices: 12127--12734 Score: 857
Period size: 158 Copynumber: 3.9 Consensus size: 157
12117 ATGTTTAATT
* * * *
12127 ATTTTTTCTAATTTTTTATATTCCTATG-GTATCCGTAGGGGTATAAAAGATTTCAAAAACATTT
1 ATTTTTCCTAATCTTTTATATTCCTATGAGCATCCGTAGGGGTATAAAAGATTTCAAAAATATTT
* ** * **
12191 TCGTATCCTTTCAAGCTTCCATTAGGGTACGAAATAATATTTTTAAAAATAAATAAAATTAAATT
66 TCGTATCTTTTCGTGCTTCCATTAGGGTACGAAATAGTATTTTCGAAAATAAATAAAATTAAATT
*
12256 GAATTAATACTTTCGGATTAAATTCTA
131 AAATTAATACTTTCGGATTAAATTCTA
* *
12283 ATTTTTCCTAATCTTTTATATTCCTATGGGCATCCGTAGGGGTATAAAAGATTTC-AAAA-CTTT
1 ATTTTTCCTAATCTTTTATATTCCTATGAGCATCCGTAGGGGTATAAAAGATTTCAAAAATATTT
* * * **
12346 TCATATGTTTTTAG-GCTTCCATTAGGGTTTGAAATAGTATTTTCGAAAATAAATAAAATTAAAT
66 TCGTAT-CTTTTCGTGCTTCCATTAGGGTACGAAATAGTATTTTCGAAAATAAATAAAATTAAAT
12410 TAAATTAATACTTTCGGATTAAATTCTA
130 TAAATTAATACTTTCGGATTAAATTCTA
**
12438 ATTTTTCCTAATCTTTTATATTCCTATGAGCATTTGTAGGGGTATAAAAGATTTCAAAAATATTT
1 ATTTTTCCTAATCTTTTATATTCCTATGAGCATCCGTAGGGGTATAAAAGATTTCAAAAATATTT
* *
12503 TCGTATCTTTTCGTGCTTCCAATAGGGGTACGAAATAGTATTTTTGAAAATAAATAAAATTAAAT
66 TCGTATCTTTTCGTGCTTCCATTA-GGGTACGAAATAGTATTTTCGAAAATAAATAAAATTAAAT
** *
12568 TAAATTAATACTTTCATATTAAATTTTA
130 TAAATTAATACTTTCGGATTAAATTCTA
* * * *
12596 ATTTTTTCTAATCTTTTATATTCTTAT-AGGTATCCGTAGGAGTATAAAAGATTTCAAAAATATT
1 ATTTTTCCTAATCTTTTATATTCCTATGA-GCATCCGTAGGGGTATAAAAGATTTCAAAAATATT
* * *
12660 TTCGTATCTTTTTGTGCTTTCATTAGGGTATGAAATAGTATTTTCGAAAATAAATAAAATTAAAT
65 TTCGTATCTTTTCGTGCTTCCATTAGGGTACGAAATAGTATTTTCGAAAATAAATAAAATTAAAT
*
12725 TGAATTAATA
130 TAAATTAATA
12735 TTCTCAAGGA
Statistics
Matches: 404, Mismatches: 41, Indels: 13
0.88 0.09 0.03
Matches are distributed among these distances:
155 132 0.33
156 42 0.10
157 90 0.22
158 140 0.35
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.42
Consensus pattern (157 bp):
ATTTTTCCTAATCTTTTATATTCCTATGAGCATCCGTAGGGGTATAAAAGATTTCAAAAATATTT
TCGTATCTTTTCGTGCTTCCATTAGGGTACGAAATAGTATTTTCGAAAATAAATAAAATTAAATT
AAATTAATACTTTCGGATTAAATTCTA
Found at i:14808 original size:19 final size:20
Alignment explanation
Indices: 14768--14805 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14758 ATCATAATTA
14768 TATTTAAAATTTTATATAAT
1 TATTTAAAATTTTATATAAT
14788 TATTT-AAATTTTGATATA
1 TATTTAAAATTTT-ATATA
14806 TTAATAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (20 bp):
TATTTAAAATTTTATATAAT
Found at i:14828 original size:32 final size:33
Alignment explanation
Indices: 14786--14850 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
14776 ATTTTATATA
*
14786 ATTATTTAAATTTTGATATATTAAT-AATTTAT
1 ATTATATAAATTTTGATATATTAATAAATTTAT
* * *
14818 ATTATATAAATTTTTATATTTTTATAAATTTAT
1 ATTATATAAATTTTGATATATTAATAAATTTAT
14851 TTTGTTTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 21 0.75
33 7 0.25
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (33 bp):
ATTATATAAATTTTGATATATTAATAAATTTAT
Found at i:14843 original size:18 final size:17
Alignment explanation
Indices: 14765--14848 Score: 63
Period size: 18 Copynumber: 5.0 Consensus size: 17
14755 TATATCATAA
14765 TTATATT-TA-AAATTT
1 TTATATTATATAAATTT
*
14780 TATATAATTATTTAAATTT
1 T-TAT-ATTATATAAATTT
14799 TGATATATTA-AT-AA--T
1 T--TATATTATATAAATTT
14814 TTATATTATATAAATTT
1 TTATATTATATAAATTT
*
14831 TTATATTTTTATAAATTT
1 TTATA-TTATATAAATTT
14849 ATTTTGTTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 17
0.74 0.04 0.22
Matches are distributed among these distances:
13 7 0.12
14 2 0.04
15 5 0.09
16 3 0.05
17 11 0.20
18 13 0.23
19 11 0.20
20 4 0.07
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (17 bp):
TTATATTATATAAATTT
Found at i:15944 original size:13 final size:13
Alignment explanation
Indices: 15927--15970 Score: 70
Period size: 13 Copynumber: 3.3 Consensus size: 13
15917 ATTTATATAT
*
15927 TTATTTATTATTT
1 TTATTTATTATTA
15940 TTATTTTATTATTA
1 TTA-TTTATTATTA
15954 TTATTTATTATTA
1 TTATTTATTATTA
15967 TTAT
1 TTAT
15971 ATAAATTGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 17 0.59
14 12 0.41
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (13 bp):
TTATTTATTATTA
Found at i:15951 original size:3 final size:3
Alignment explanation
Indices: 15931--15970 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
15921 ATATATTTAT
*
15931 TTA TTA TTT TTA TT- TTA TTA TTA TTA TTTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA T
15971 ATAAATTGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:16765 original size:14 final size:14
Alignment explanation
Indices: 16719--16768 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
16709 TCAAGAATTT
16719 TTTATTAAATTTTA
1 TTTATTAAATTTTA
* *
16733 TATATTTAATTTT-
1 TTTATTAAATTTTA
*
16746 TATTATAAAATTTTA
1 T-TTATTAAATTTTA
16761 TTTATTAA
1 TTTATTAA
16769 GTATTTTTAA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
13 1 0.04
14 26 0.93
15 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTATTAAATTTTA
Found at i:18945 original size:2 final size:2
Alignment explanation
Indices: 18938--18989 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
18928 TTGGCAAACA
*
18938 AT AT AT AT AT AT AT AT GT 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
18980 AT AT AT AT AT
1 AT AT AT AT AT
18990 TGATTAGATA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19698 original size:42 final size:42
Alignment explanation
Indices: 19651--19734 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
19641 AATTTATCGA
*
19651 ATCATATAAATTGTTCAACCATAAATAAGTTTGGACTAGCAT
1 ATCATATAAATTGTTCAACCATAAATAAGTTTAGACTAGCAT
*
19693 ATCATATAAATTGTTCAGCCATAAATAAGTTTAGACTAGCAT
1 ATCATATAAATTGTTCAACCATAAATAAGTTTAGACTAGCAT
19735 TGTGGGTGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.33
Consensus pattern (42 bp):
ATCATATAAATTGTTCAACCATAAATAAGTTTAGACTAGCAT
Found at i:20371 original size:22 final size:23
Alignment explanation
Indices: 20305--20371 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 23
20295 TATTTTAATT
20305 TAATTATAAA-AATATATAAATAA
1 TAATTATAAATAATA-ATAAATAA
* * **
20328 TAATATAAAAATATTTGTTAAATAA
1 TAAT-TATAAATA-ATAATAAATAA
20353 -AATTATAAATAATAATAAA
1 TAATTATAAATAATAATAAA
20372 ATTTTTCGAG
Statistics
Matches: 33, Mismatches: 8, Indels: 7
0.69 0.17 0.15
Matches are distributed among these distances:
22 5 0.15
23 11 0.33
24 8 0.24
25 8 0.24
26 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (23 bp):
TAATTATAAATAATAATAAATAA
Found at i:26474 original size:21 final size:23
Alignment explanation
Indices: 26450--26492 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
26440 AAAATAAAAT
*
26450 ATTATAAG-ATTTAAAT-TTTTG
1 ATTAAAAGAATTTAAATATTTTG
26471 ATTAAAAGAATTTAAATATTTT
1 ATTAAAAGAATTTAAATATTTT
26493 AGAATAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 8 0.42
23 4 0.21
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (23 bp):
ATTAAAAGAATTTAAATATTTTG
Found at i:27590 original size:22 final size:21
Alignment explanation
Indices: 27556--27621 Score: 80
Period size: 22 Copynumber: 3.1 Consensus size: 21
27546 AAATAAATTT
*
27556 TTTAAAATTAATTAATTTAAA
1 TTTAAAATAAATTAATTTAAA
*
27577 TTTAAAAATAAATTAAATTAAA
1 TTT-AAAATAAATTAATTTAAA
*
27599 TTTTAAATAAA-TAATATTAAA
1 TTTAAAATAAATTAAT-TTAAA
27620 TT
1 TT
27622 AATAATTTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
20 3 0.08
21 17 0.44
22 19 0.49
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TTTAAAATAAATTAATTTAAA
Found at i:27592 original size:26 final size:28
Alignment explanation
Indices: 27560--27639 Score: 78
Period size: 29 Copynumber: 2.8 Consensus size: 28
27550 AAATTTTTTA
27560 AAATTAATTAATTTAAATTTAAAA-A-T
1 AAATTAATTAATTTAAATTTAAAATATT
*
27586 AAATTAAATTAAATTTTAAA-TAAATAATATT
1 AAATT-AATT-AA-TTTAAATTTAA-AATATT
27617 AAATTAA-TAATTTAAATATTAAA
1 AAATTAATTAATTTAAAT-TTAAA
27640 TTTGATTATT
Statistics
Matches: 44, Mismatches: 2, Indels: 14
0.73 0.03 0.23
Matches are distributed among these distances:
26 5 0.11
27 10 0.23
28 8 0.18
29 12 0.27
30 3 0.07
31 6 0.14
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (28 bp):
AAATTAATTAATTTAAATTTAAAATATT
Found at i:27655 original size:15 final size:14
Alignment explanation
Indices: 27619--27672 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 14
27609 ATAATATTAA
*
27619 ATTAATAATTTAAAT
1 ATTAA-AATTTAATT
*
27634 ATT-AAATTTGATT
1 ATTAAAATTTAATT
27647 ATTTAAAATTTTAATT
1 A-TTAAAA-TTTAATT
27663 ATTAAAATTT
1 ATTAAAATTT
27673 TTTTAATTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
13 8 0.24
14 6 0.18
15 12 0.36
16 7 0.21
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (14 bp):
ATTAAAATTTAATT
Found at i:27711 original size:16 final size:15
Alignment explanation
Indices: 27701--27769 Score: 86
Period size: 16 Copynumber: 4.5 Consensus size: 15
27691 TTTAAATTTT
27701 AAATAAGTTAAAATTA
1 AAATAA-TTAAAATTA
27717 AAATAATTAAAATTTA
1 AAATAATTAAAA-TTA
27733 AAATAATTTAAAATTA
1 AAATAA-TTAAAATTA
* *
27749 AAATAA-TCAAATAA
1 AAATAATTAAAATTA
27763 AAATAAT
1 AAATAAT
27770 ATGAAAAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
14 12 0.25
15 6 0.12
16 24 0.50
17 6 0.12
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (15 bp):
AAATAATTAAAATTA
Found at i:27724 original size:9 final size:9
Alignment explanation
Indices: 27712--27755 Score: 51
Period size: 9 Copynumber: 5.3 Consensus size: 9
27702 AATAAGTTAA
27712 AATTAAAAT
1 AATTAAAAT
27721 AATTAAAAT
1 AATTAAAAT
27730 --TTAAAAT
1 AATTAAAAT
*
27737 AATT-TAA-
1 AATTAAAAT
27744 AATTAAAAT
1 AATTAAAAT
27753 AAT
1 AAT
27756 CAAATAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
7 11 0.38
8 4 0.14
9 14 0.48
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (9 bp):
AATTAAAAT
Found at i:27727 original size:31 final size:31
Alignment explanation
Indices: 27684--27768 Score: 102
Period size: 32 Copynumber: 2.7 Consensus size: 31
27674 TTTAATTATA
*
27684 TAAAA-AATTTAAATTTTAAATAAGTTAAAAT
1 TAAAATAA-TTAAATTTAAAATAAGTTAAAAT
*
27715 TAAAATAATTAAAATTTAAAATAATTTAAAAT
1 TAAAATAATT-AAATTTAAAATAAGTTAAAAT
* *
27747 TAAAATAATCAAA-TAAAAATAA
1 TAAAATAATTAAATTTAAAATAA
27769 TATGAAAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
30 8 0.17
31 10 0.21
32 30 0.62
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (31 bp):
TAAAATAATTAAATTTAAAATAAGTTAAAAT
Found at i:27737 original size:32 final size:32
Alignment explanation
Indices: 27684--27755 Score: 110
Period size: 32 Copynumber: 2.3 Consensus size: 32
27674 TTTAATTATA
* *
27684 TAAAA-AATTTAAATTTTAAATAAGTTAAAAT
1 TAAAATAATTAAAATTTAAAATAAGTTAAAAT
*
27715 TAAAATAATTAAAATTTAAAATAATTTAAAAT
1 TAAAATAATTAAAATTTAAAATAAGTTAAAAT
27747 TAAAATAAT
1 TAAAATAAT
27756 CAAATAAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
31 5 0.14
32 32 0.86
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (32 bp):
TAAAATAATTAAAATTTAAAATAAGTTAAAAT
Found at i:29897 original size:16 final size:16
Alignment explanation
Indices: 29878--29908 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
29868 CCTCATATGT
29878 TACTTACACTGATTGC
1 TACTTACACTGATTGC
29894 TACTTACACTGATTG
1 TACTTACACTGATTG
29909 TTTTTGGTTT
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:0.26, C:0.23, G:0.13, T:0.39
Consensus pattern (16 bp):
TACTTACACTGATTGC
Found at i:37044 original size:12 final size:12
Alignment explanation
Indices: 37027--37066 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
37017 CACATTTTCC
*
37027 ATATATGTGTGT
1 ATATATGTGTAT
*
37039 ATATATATGTAT
1 ATATATGTGTAT
*
37051 ATATATGTATAT
1 ATATATGTGTAT
37063 ATAT
1 ATAT
37067 GTATTGTACA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (12 bp):
ATATATGTGTAT
Found at i:37049 original size:10 final size:10
Alignment explanation
Indices: 37036--37070 Score: 70
Period size: 10 Copynumber: 3.5 Consensus size: 10
37026 CATATATGTG
37036 TGTATATATA
1 TGTATATATA
37046 TGTATATATA
1 TGTATATATA
37056 TGTATATATA
1 TGTATATATA
37066 TGTAT
1 TGTAT
37071 TGTACAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.51
Consensus pattern (10 bp):
TGTATATATA
Found at i:39617 original size:2 final size:2
Alignment explanation
Indices: 39610--39639 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
39600 GTCTGTACCT
*
39610 TC TC TC TC TC TC TC TC TC TG TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
39640 GTGAATTACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.47, G:0.03, T:0.50
Consensus pattern (2 bp):
TC
Found at i:43978 original size:2 final size:2
Alignment explanation
Indices: 43971--43998 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
43961 CAGATGTTTT
43971 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
43999 AGAGAGAGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:44003 original size:2 final size:2
Alignment explanation
Indices: 43998--44034 Score: 65
Period size: 2 Copynumber: 18.0 Consensus size: 2
43988 GTGTGTGTGT
43998 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA TGA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA -GA GA
44035 ACCTTGATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 32 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.49, T:0.03
Consensus pattern (2 bp):
GA
Found at i:51688 original size:16 final size:16
Alignment explanation
Indices: 51669--51713 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
51659 AAATATATAT
51669 ATTTAAAATAATAAAA
1 ATTTAAAATAATAAAA
51685 ATTTAAAA-ATATAAAA
1 ATTTAAAATA-ATAAAA
*
51701 ATAATAAAATAAT
1 AT-TTAAAATAAT
51714 TTTATTCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 1 0.04
16 16 0.64
17 7 0.28
18 1 0.04
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
ATTTAAAATAATAAAA
Found at i:51925 original size:24 final size:24
Alignment explanation
Indices: 51894--51949 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
51884 TATAACTATC
51894 TATAATTACTTTATATTAAAGTTA
1 TATAATTACTTTATATTAAAGTTA
51918 TATAATTACTTTATATTAAAGTTA
1 TATAATTACTTTATATTAAAGTTA
51942 TATAATTA
1 TATAATTA
51950 AAATTAATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.50
Consensus pattern (24 bp):
TATAATTACTTTATATTAAAGTTA
Found at i:51951 original size:14 final size:14
Alignment explanation
Indices: 51908--51951 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
51898 ATTACTTTAT
51908 ATTAAAGTTATATA
1 ATTAAAGTTATATA
*
51922 ATT--ACTT-TAT-
1 ATTAAAGTTATATA
51932 ATTAAAGTTATATA
1 ATTAAAGTTATATA
51946 ATTAAA
1 ATTAAA
51952 ATTAATTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 8
0.71 0.06 0.24
Matches are distributed among these distances:
10 3 0.12
11 3 0.12
12 6 0.25
13 3 0.12
14 9 0.38
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (14 bp):
ATTAAAGTTATATA
Found at i:51959 original size:24 final size:24
Alignment explanation
Indices: 51894--51961 Score: 84
Period size: 24 Copynumber: 2.8 Consensus size: 24
51884 TATAACTATC
**
51894 TATAATTACTTTATATTAAAGTTA
1 TATAATTAAATTATATTAAAGTTA
**
51918 TATAATTACTTTATATTAAAGTTA
1 TATAATTAAATTATATTAAAGTTA
51942 TATAATTAAAATTA-ATTAAA
1 TATAATT-AAATTATATTAAA
51962 AATATAAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
24 37 0.90
25 4 0.10
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (24 bp):
TATAATTAAATTATATTAAAGTTA
Found at i:52493 original size:20 final size:19
Alignment explanation
Indices: 52450--52497 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
52440 TAAAAATAGT
* * *
52450 TATATTTTTATATTAAACA
1 TATATTATTAAATTAAAAA
52469 TATATTATTAAATTATAAAA
1 TATATTATTAAATTA-AAAA
52489 TATATTATT
1 TATATTATT
52498 CATTCATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 13 0.52
20 12 0.48
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TATATTATTAAATTAAAAA
Found at i:53846 original size:21 final size:21
Alignment explanation
Indices: 53808--53849 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
53798 AAAATATTTT
*
53808 TATTTAAATTTGATTATAAAA
1 TATTTAAATTTGAATATAAAA
53829 TATTTAAATATT-AATATAAAA
1 TATTTAAAT-TTGAATATAAAA
53850 CTAATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (21 bp):
TATTTAAATTTGAATATAAAA
Found at i:54462 original size:21 final size:21
Alignment explanation
Indices: 54422--54468 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
54412 TAATAAAAAA
*
54422 ATAT-TTTTATATTAATATTT
1 ATATATTTTATAATAATATTT
54442 ATATATTTTATAAATAA-ATTT
1 ATATATTTTAT-AATAATATTT
*
54463 AAATAT
1 ATATAT
54469 AAGTTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 4 0.17
21 15 0.65
22 4 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
ATATATTTTATAATAATATTT
Found at i:55002 original size:15 final size:15
Alignment explanation
Indices: 54962--55004 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
54952 ATTTTTAATT
54962 TATTAAAAATATTTAA
1 TATT-AAAATATTTAA
*
54978 -AATAATAATATTTAA
1 TATTAA-AATATTTAA
54993 TATTAAAATATT
1 TATTAAAATATT
55005 ATATCATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
14 2 0.09
15 17 0.74
16 4 0.17
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TATTAAAATATTTAA
Found at i:57415 original size:12 final size:12
Alignment explanation
Indices: 57398--57427 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
57388 AAATCAGAAA
*
57398 TTCTAAAACAGT
1 TTCTAAAACAAT
57410 TTCTAAAACAAT
1 TTCTAAAACAAT
57422 TTCTAA
1 TTCTAA
57428 GTGATTTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.37
Consensus pattern (12 bp):
TTCTAAAACAAT
Found at i:57944 original size:22 final size:22
Alignment explanation
Indices: 57902--57945 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
57892 AAAATATTTT
*
57902 TATTTAAAATTAATTATAAAAA
1 TATTTAAAATAAATTATAAAAA
* *
57924 TATTTAATATAAA-TGTAAAAA
1 TATTTAAAATAAATTATAAAAA
57945 T
1 T
57946 TAAATTAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (22 bp):
TATTTAAAATAAATTATAAAAA
Found at i:58722 original size:3 final size:3
Alignment explanation
Indices: 58714--58747 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
58704 AAAAGCAGTG
58714 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
58748 CTTTAAAGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:58856 original size:13 final size:13
Alignment explanation
Indices: 58838--58881 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
58828 TAATAATGTA
58838 TATAAAAAATATT
1 TATAAAAAATATT
*
58851 TATAAAAATATTTT
1 TATAAAAA-ATATT
* *
58865 TTTAAAAATTATT
1 TATAAAAAATATT
58878 TATA
1 TATA
58882 TTTTATTAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TATAAAAAATATT
Found at i:59482 original size:32 final size:30
Alignment explanation
Indices: 59425--59487 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 30
59415 TTTAAATAAA
*
59425 AATTTTAAATTTTTTGAAATTATAATTTAATT
1 AATTATAAATTTTTT-AAATTATAA-TTAATT
59457 AATTATAAATATTTTT-AATTAATAATTAATT
1 AATTATAAAT-TTTTTAAATT-ATAATTAATT
59488 TAGAAATGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
31 10 0.36
32 13 0.46
33 5 0.18
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (30 bp):
AATTATAAATTTTTTAAATTATAATTAATT
Found at i:59925 original size:24 final size:24
Alignment explanation
Indices: 59876--59926 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
59866 TTTTTTATAA
* *
59876 ATTTTAAAAAATATTTTTATTTATT
1 ATTTAAAAAAATATTTTTA-TCATT
59901 ATTTAAAAAAATATATTTTA-CATT
1 ATTTAAAAAAATAT-TTTTATCATT
59925 AT
1 AT
59927 AAATAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 5 0.22
25 13 0.57
26 5 0.22
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (24 bp):
ATTTAAAAAAATATTTTTATCATT
Found at i:60648 original size:4 final size:4
Alignment explanation
Indices: 60639--60686 Score: 69
Period size: 4 Copynumber: 12.0 Consensus size: 4
60629 TTTAAACCCA
* * *
60639 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATGT ATGT ATAT GTAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
60687 TAAATATGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 40 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (4 bp):
ATAT
Found at i:60650 original size:6 final size:6
Alignment explanation
Indices: 60639--60686 Score: 69
Period size: 6 Copynumber: 8.0 Consensus size: 6
60629 TTTAAACCCA
* * *
60639 ATATAT ATATAT ATATAT ATATAT ATATAT GTATGT ATATGT ATATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
60687 TAAATATGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (6 bp):
ATATAT
Found at i:60654 original size:10 final size:10
Alignment explanation
Indices: 60639--60686 Score: 69
Period size: 10 Copynumber: 4.8 Consensus size: 10
60629 TTTAAACCCA
60639 ATATATATAT
1 ATATATATAT
60649 ATATATATAT
1 ATATATATAT
60659 ATATATATAT
1 ATATATATAT
* *
60669 GTATGTATAT
1 ATATATATAT
*
60679 GTATATAT
1 ATATATAT
60687 TAAATATGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 35 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (10 bp):
ATATATATAT
Found at i:61517 original size:26 final size:27
Alignment explanation
Indices: 61471--61522 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
61461 AAATAAAAAA
* *
61471 TTATTTTTTATTTAATATTTATTAATT
1 TTATTTTTTATTAAATATTTAATAATT
61498 TTATTTTTTATTAAAT-TTTAATAAT
1 TTATTTTTTATTAAATATTTAATAAT
61523 CTAACATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 8 0.35
27 15 0.65
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (27 bp):
TTATTTTTTATTAAATATTTAATAATT
Found at i:61709 original size:24 final size:24
Alignment explanation
Indices: 61679--61732 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 24
61669 TAAAATTTAA
61679 TTTATTTTTTTAATAAATTT-AT-TT
1 TTTATTTTTTT-A-AAATTTAATATT
61703 TTTA-TTTTTTAAAATTTAATATT
1 TTTATTTTTTTAAAATTTAATATT
61726 TTTATTT
1 TTTATTT
61733 AAATTTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
21 6 0.22
22 3 0.11
23 12 0.44
24 6 0.22
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (24 bp):
TTTATTTTTTTAAAATTTAATATT
Found at i:61710 original size:21 final size:22
Alignment explanation
Indices: 61669--61732 Score: 71
Period size: 21 Copynumber: 2.9 Consensus size: 22
61659 AAATTAGAGG
61669 TAAAATTTAATTTATTT-TTTTA
1 TAAAATTTAATTT-TTTATTTTA
*
61691 -ATAAATTT-ATTTTTTATTTTT
1 TA-AAATTTAATTTTTTATTTTA
61712 TAAAATTTAATATTTTTATTT
1 TAAAATTTAAT-TTTTTATTT
61733 AAATTTTTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
20 3 0.08
21 15 0.42
22 9 0.25
23 9 0.25
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (22 bp):
TAAAATTTAATTTTTTATTTTA
Found at i:61710 original size:23 final size:23
Alignment explanation
Indices: 61669--61732 Score: 73
Period size: 22 Copynumber: 2.9 Consensus size: 23
61659 AAATTAGAGG
*
61669 TAAAATTTAAT-TTATT-TTTTT
1 TAAAATTTAATATTTTTATTTTT
*
61690 AATAAATTT-AT-TTTTTATTTTT
1 TA-AAATTTAATATTTTTATTTTT
61712 TAAAATTTAATATTTTTATTT
1 TAAAATTTAATATTTTTATTT
61733 AAATTTTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
21 13 0.36
22 14 0.39
23 9 0.25
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (23 bp):
TAAAATTTAATATTTTTATTTTT
Found at i:61756 original size:21 final size:21
Alignment explanation
Indices: 61717--61757 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
61707 TTTTTTAAAA
** *
61717 TTTAATATTTTTATTTAAATT
1 TTTAATATTTAAATATAAATT
61738 TTTAATATTTAAATATAAAT
1 TTTAATATTTAAATATAAAT
61758 AAATAATCTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTAATATTTAAATATAAATT
Found at i:62655 original size:28 final size:30
Alignment explanation
Indices: 62607--62662 Score: 80
Period size: 28 Copynumber: 1.9 Consensus size: 30
62597 ATTTTATATT
* *
62607 AATATTTATATATTTTATAAATTATAATAA
1 AATATTTATATATTATATAAATAATAATAA
62637 AATATTTAT-TATTAT-TAAATAATAAT
1 AATATTTATATATTATATAAATAATAAT
62663 TCAAATTGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 10 0.42
29 5 0.21
30 9 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (30 bp):
AATATTTATATATTATATAAATAATAATAA
Found at i:63578 original size:15 final size:15
Alignment explanation
Indices: 63558--63588 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
63548 TGACGATAAT
63558 AAAAAATTATATTTA
1 AAAAAATTATATTTA
63573 AAAAAATTATATTTA
1 AAAAAATTATATTTA
63588 A
1 A
63589 TAATCATGCT
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:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
AAAAAATTATATTTA
Found at i:64539 original size:15 final size:15
Alignment explanation
Indices: 64519--64552 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
64509 AGTAGGTTAC
64519 TTTTGAATTT-GATAT
1 TTTTGAATTTAGAT-T
64534 TTTTGAATTTAGATT
1 TTTTGAATTTAGATT
64549 TTTT
1 TTTT
64553 TTAGAGGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 15 0.83
16 3 0.17
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.65
Consensus pattern (15 bp):
TTTTGAATTTAGATT
Found at i:64925 original size:22 final size:21
Alignment explanation
Indices: 64891--64931 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
64881 AAAAATCACA
* *
64891 TTTTTTCTTGAAAATCATTTAG
1 TTTTATCTCGAAAAT-ATTTAG
64913 TTTTATCTCGAAAATATTT
1 TTTTATCTCGAAAATATTT
64932 TTAATACTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.29, C:0.10, G:0.07, T:0.54
Consensus pattern (21 bp):
TTTTATCTCGAAAATATTTAG
Found at i:66327 original size:20 final size:21
Alignment explanation
Indices: 66289--66333 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
66279 AAGTTTTCGC
* *
66289 TAATTAAAATTATTATTTATA
1 TAATAAAAAATATTATTTATA
*
66310 TAATAAAAAATATT-TTTATT
1 TAATAAAAAATATTATTTATA
66330 TAAT
1 TAAT
66334 TTTAATTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TAATAAAAAATATTATTTATA
Found at i:67734 original size:65 final size:66
Alignment explanation
Indices: 67609--67746 Score: 188
Period size: 65 Copynumber: 2.1 Consensus size: 66
67599 AATAAGTTCA
* **
67609 TGAATTAGATTGTAAAAGCTTTAACTTTTTTATTTGAGTTCAAATTCGACTTAAGTTAAC-TTAC
1 TGAATTAGATCGTAAAAGCTTTAACTTTTTTATTTGAGTTCAAATTCGACTTAACCTAACTTTAC
67673 T
66 T
* * ** * *
67674 TGAATTAGATCGTAAAAGTTTTAATTTTTTTATTTGAGTTTGAATTCGACTTGACCTAACTTTGC
1 TGAATTAGATCGTAAAAGCTTTAACTTTTTTATTTGAGTTCAAATTCGACTTAACCTAACTTTAC
67739 T
66 T
67740 TGAATTA
1 TGAATTA
67747 TCTATATATA
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
65 52 0.83
66 11 0.17
ACGTcount: A:0.30, C:0.10, G:0.14, T:0.46
Consensus pattern (66 bp):
TGAATTAGATCGTAAAAGCTTTAACTTTTTTATTTGAGTTCAAATTCGACTTAACCTAACTTTAC
T
Found at i:67925 original size:7 final size:7
Alignment explanation
Indices: 67913--67958 Score: 92
Period size: 7 Copynumber: 6.6 Consensus size: 7
67903 ATTGAACCAC
67913 AATTCAA
1 AATTCAA
67920 AATTCAA
1 AATTCAA
67927 AATTCAA
1 AATTCAA
67934 AATTCAA
1 AATTCAA
67941 AATTCAA
1 AATTCAA
67948 AATTCAA
1 AATTCAA
67955 AATT
1 AATT
67959 TTTATTTCTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (7 bp):
AATTCAA
Found at i:68920 original size:18 final size:18
Alignment explanation
Indices: 68897--68936 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
68887 AGCAAACCTC
68897 ATAACAGCTCACGTCAAT
1 ATAACAGCTCACGTCAAT
68915 ATAACAGCTCACGTCAAT
1 ATAACAGCTCACGTCAAT
68933 ATAA
1 ATAA
68937 GTTAGGTCGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.25, G:0.10, T:0.23
Consensus pattern (18 bp):
ATAACAGCTCACGTCAAT
Found at i:69347 original size:15 final size:15
Alignment explanation
Indices: 69324--69360 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
69314 TAGATTAGAT
*
69324 TTTAGATTAAATTAA
1 TTTAAATTAAATTAA
*
69339 TTTAAATTAGATTAA
1 TTTAAATTAAATTAA
69354 TTTAAAT
1 TTTAAAT
69361 ATTAAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (15 bp):
TTTAAATTAAATTAA
Found at i:69449 original size:16 final size:16
Alignment explanation
Indices: 69430--69469 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
69420 TTTGAATTAA
*
69430 TTAAGTTTTAGTTATT
1 TTAAGTTTGAGTTATT
* *
69446 TTAAATTTGATTTATT
1 TTAAGTTTGAGTTATT
69462 TTAAGTTT
1 TTAAGTTT
69470 AAATCATTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (16 bp):
TTAAGTTTGAGTTATT
Found at i:69506 original size:16 final size:16
Alignment explanation
Indices: 69441--69507 Score: 62
Period size: 16 Copynumber: 4.2 Consensus size: 16
69431 TAAGTTTTAG
* *
69441 TTATTTTAAATTTGAT
1 TTATTTTAAATTTAAA
*
69457 TTATTTTAAGTTTAAA
1 TTATTTTAAATTTAAA
* * **
69473 TCATTATAAATTCGAA
1 TTATTTTAAATTTAAA
*
69489 TTATTTTGAATTTAAA
1 TTATTTTAAATTTAAA
69505 TTA
1 TTA
69508 ATTGGTTTTA
Statistics
Matches: 38, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.37, C:0.03, G:0.06, T:0.54
Consensus pattern (16 bp):
TTATTTTAAATTTAAA
Found at i:69788 original size:20 final size:19
Alignment explanation
Indices: 69763--69801 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
69753 ATGCATTGTG
69763 TTTTATATTTATTATATTAT
1 TTTTATATTTATTA-ATTAT
69783 TTTTATATTTATTAATTAT
1 TTTTATATTTATTAATTAT
69802 GTTGTATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTATATTTATTAATTAT
Found at i:70370 original size:15 final size:15
Alignment explanation
Indices: 70339--70368 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
70329 AAGATATATT
70339 ATTAAATTATTAAAA
1 ATTAAATTATTAAAA
70354 ATTAAATT-TTAAAA
1 ATTAAATTATTAAAA
70368 A
1 A
70369 ATAAGTCGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
ATTAAATTATTAAAA
Found at i:70535 original size:22 final size:24
Alignment explanation
Indices: 70487--70543 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 24
70477 GTCATTTGAT
70487 TTATAATTTAATATTTAAATACAAAA
1 TTATAATTTAATA-TT-AATACAAAA
*
70513 TTATAATTTAATA-T-ATACTAAA
1 TTATAATTTAATATTAATACAAAA
70535 TTAT-ATTTA
1 TTATAATTTA
70544 TGTTGTATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 5 0.17
22 11 0.37
24 1 0.03
26 13 0.43
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (24 bp):
TTATAATTTAATATTAATACAAAA
Found at i:71048 original size:16 final size:16
Alignment explanation
Indices: 71000--71052 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
70990 TTAAGAAATT
71000 AAAATGTTAAAAA-ATA
1 AAAAT-TTAAAAATATA
* *
71016 TATATTT-AAAATAATA
1 AAAATTTAAAAAT-ATA
71032 AAAATTTAAAAATATA
1 AAAATTTAAAAATATA
71048 AAAAT
1 AAAAT
71053 AATAAAGTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
14 4 0.13
15 2 0.07
16 19 0.63
17 5 0.17
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (16 bp):
AAAATTTAAAAATATA
Found at i:71673 original size:16 final size:18
Alignment explanation
Indices: 71652--71688 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
71642 ACTTTTTAAA
71652 ATTTTAA-AAT-TGTAAT
1 ATTTTAATAATATGTAAT
*
71668 ATTTTAATAATATTTAAT
1 ATTTTAATAATATGTAAT
71686 ATT
1 ATT
71689 AAAATATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 3 0.17
18 8 0.44
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (18 bp):
ATTTTAATAATATGTAAT
Found at i:71694 original size:26 final size:24
Alignment explanation
Indices: 71635--71696 Score: 63
Period size: 26 Copynumber: 2.5 Consensus size: 24
71625 ATTTATGTGT
71635 TATTAAAACT-TTTTAAAATTTTAA
1 TATTAAAA-TATTTTAAAATTTTAA
* **
71659 AATTGTAATATTTTAATAATATTTAA
1 TATTAAAATATTTTAA-AAT-TTTAA
71685 TATTAAAATATT
1 TATTAAAATATT
71697 ATATTAGTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
23 1 0.03
24 11 0.38
25 3 0.10
26 14 0.48
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (24 bp):
TATTAAAATATTTTAAAATTTTAA
Found at i:71934 original size:27 final size:27
Alignment explanation
Indices: 71882--71938 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
71872 TTATTAAATA
* *
71882 ATAAAAAGTATTATTCATTCATATTTCT
1 ATAAAAAGTATTAATCATACATATTT-T
71910 ATAAAAA-TATTAATCTATACA-ATTTT
1 ATAAAAAGTATTAATC-ATACATATTTT
71936 ATA
1 ATA
71939 TTTAAAATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
26 4 0.15
27 11 0.42
28 11 0.42
ACGTcount: A:0.46, C:0.09, G:0.02, T:0.44
Consensus pattern (27 bp):
ATAAAAAGTATTAATCATACATATTTT
Found at i:74312 original size:12 final size:11
Alignment explanation
Indices: 74294--74364 Score: 69
Period size: 12 Copynumber: 6.5 Consensus size: 11
74284 GAGAAAGAAA
74294 AGATAGGAGGG
1 AGATAGGAGGG
74305 ATGATAGGAGGAG
1 A-GATAGGAGG-G
74318 AGATAGGA--G
1 AGATAGGAGGG
*
74327 AGATAGTA--G
1 AGATAGGAGGG
74336 AGATAGGAGGG
1 AGATAGGAGGG
74347 ATGATAGGAGGAG
1 A-GATAGGAGG-G
74360 AGATA
1 AGATA
74365 ATAGAGAGAG
Statistics
Matches: 52, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
9 16 0.31
11 3 0.06
12 29 0.56
13 4 0.08
ACGTcount: A:0.41, C:0.00, G:0.45, T:0.14
Consensus pattern (11 bp):
AGATAGGAGGG
Found at i:74327 original size:9 final size:9
Alignment explanation
Indices: 74313--74344 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
74303 GGATGATAGG
74313 AGGAGAGAT
1 AGGAGAGAT
74322 AGGAGAGAT
1 AGGAGAGAT
*
74331 AGTAGAGAT
1 AGGAGAGAT
74340 AGGAG
1 AGGAG
74345 GGATGATAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.44, T:0.12
Consensus pattern (9 bp):
AGGAGAGAT
Found at i:74359 original size:33 final size:33
Alignment explanation
Indices: 74322--74392 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
74312 GAGGAGAGAT
* * * *
74322 AGGAGAGATAGTAGAGATAGGAGGGATGATAGG
1 AGGAGAGATAATAGAGAGAGAAGGGATGACAGG
74355 AGGAGAGATAATAGAGAGAGAAGGGATGACAGG
1 AGGAGAGATAATAGAGAGAGAAGGGATGACAGG
74388 AGGAG
1 AGGAG
74393 GAGAGAAGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.42, C:0.01, G:0.45, T:0.11
Consensus pattern (33 bp):
AGGAGAGATAATAGAGAGAGAAGGGATGACAGG
Found at i:77891 original size:59 final size:59
Alignment explanation
Indices: 77746--78247 Score: 779
Period size: 59 Copynumber: 8.4 Consensus size: 59
77736 CCCCATGGCT
* * * *
77746 AAAGGAGTCCTGCTCTTTGGGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGA
1 AAAGGCGTCCCGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGA
* * *
77807 AAAAGCATCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA
1 AAAGGCGTCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA
*
77866 AAAGGCGTCTCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA
1 AAAGGCGTCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA
*
77925 AAAGGCGTCTCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA
1 AAAGGCGTCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA
* * *
77984 AAATGTGTCCCACTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA
1 AAAGGCGTCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA
78043 AAAGGCGTCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA
1 AAAGGCGTCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA
78102 AAAGGCGTCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA
1 AAAGGCGTCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA
** ** * *
78161 AAAGGCGTCATGCTCTTTGAGGACTGGAAAATGCTACCAACTTGTGGGGGCTTTTAAAAAGA
1 AAAGGCGTCCCGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGC-TTT-AAAAGA
* *
78223 AAAGGCATCCTGCTCTTTGAGGACT
1 AAAGGCGTCCCGCTCTTTGAGGACT
78248 AAAAAGCGGA
Statistics
Matches: 414, Mismatches: 24, Indels: 5
0.93 0.05 0.01
Matches are distributed among these distances:
59 313 0.76
60 47 0.11
61 25 0.06
62 29 0.07
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (59 bp):
AAAGGCGTCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGA
Found at i:79251 original size:14 final size:14
Alignment explanation
Indices: 79234--79268 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
79224 TTTTCTCTCT
79234 TTTTCTTTG-TTTTG
1 TTTT-TTTGCTTTTG
79248 TTTTTTTGCTTTTG
1 TTTTTTTGCTTTTG
79262 TTTTTTT
1 TTTTTTT
79269 TTGAAGAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.00, C:0.06, G:0.11, T:0.83
Consensus pattern (14 bp):
TTTTTTTGCTTTTG
Found at i:89602 original size:4 final size:4
Alignment explanation
Indices: 89595--89627 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
89585 AAACAGATAT
89595 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
89628 CACCTCAGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:90374 original size:62 final size:62
Alignment explanation
Indices: 90298--90441 Score: 279
Period size: 62 Copynumber: 2.3 Consensus size: 62
90288 CCCTATGCAA
90298 ATGCGGAGGGTTACTCACGAGAGACATAGGTAATTTACATCCCGAAAGGTATTGCCATGCCT
1 ATGCGGAGGGTTACTCACGAGAGACATAGGTAATTTACATCCCGAAAGGTATTGCCATGCCT
*
90360 ATGCAGAGGGTTACTCACGAGAGACATAGGTAATTTACATCCCGAAAGGTATTGCCATGCCT
1 ATGCGGAGGGTTACTCACGAGAGACATAGGTAATTTACATCCCGAAAGGTATTGCCATGCCT
90422 ATGCGGAGGGTTACTCACGA
1 ATGCGGAGGGTTACTCACGA
90442 AGGCGGATAG
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 80 1.00
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (62 bp):
ATGCGGAGGGTTACTCACGAGAGACATAGGTAATTTACATCCCGAAAGGTATTGCCATGCCT
Found at i:91866 original size:78 final size:78
Alignment explanation
Indices: 91756--91961 Score: 234
Period size: 78 Copynumber: 2.6 Consensus size: 78
91746 GAGATAATAA
* * * * * * * *
91756 CGGGGTTGGAGTGTTCCCTTGAAAATAACGGGGCTCGAGTATCCCCGGTTGTGAGAAATCGATGA
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-A
*
91821 -TTAGAAAAAAAAT
65 TTTAGAAAAAAAAC
* *
91834 CGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATA-
* * * *
91899 TTTGGGAATAAAGC
65 TTTAGAAAAAAAAC
* *
91913 CGGGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGAT
91962 GAAATAACGA
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
77 1 0.01
78 53 0.50
79 53 0.50
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (78 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAT
TTAGAAAAAAAAC
Found at i:91953 original size:28 final size:28
Alignment explanation
Indices: 91913--91984 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
91903 GGAATAAAGC
** *
91913 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
91941 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
91969 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
91985 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:92042 original size:52 final size:51
Alignment explanation
Indices: 91973--92320 Score: 154
Period size: 52 Copynumber: 6.6 Consensus size: 51
91963 AAATAACGAG
* * * *
91973 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGG-AGTTTTGAAAATAAAACCGGA
* ** * * *
92025 GTTGCAGTATCCCCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCGGG
1 GTTGGAGTATCCCCGATT-GTGAAAAATTGGAGTTTTGAAAATAAAACCGGA
*** *
92077 GTTGGAGTATCCCCGATTGTGGAAAAATTATTGTTTT-AGCAATAAAACCAGG-
1 GTTGGAGTATCCCCGATTGT-GAAAAATTGGAGTTTTGA-AAATAAAACC-GGA
* * * ** ** * *
92129 GTTGGAGCATCCCC--TCG-AAAATAACGGGGTTGGAGTATCCCCGATGAT-TAA-CGGG
1 GTTGGAGTATCCCCGATTGTGAAA-AA-----TTGGAGT-T--TTGAAAATAAAACCGGA
* * * *
92184 GTTGGAGTATCCCCGATTATGAAGAAATTGGTGTTTTTTTTTATAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAA-AAATTGGAG----TTTTGA-AAATAAAACCGGA
* * * *
92241 GTTGGAGTATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGA-AAAATTGGAGTTTTGAAAATAAAACCGGA
* *
92292 GTTGGAATATCCCCGATTGTGGAAAATTG
1 GTTGGAGTATCCCCGATTGTGAAAAATTG
92321 AGAAACTCAG
Statistics
Matches: 221, Mismatches: 47, Indels: 57
0.68 0.14 0.18
Matches are distributed among these distances:
48 3 0.01
49 2 0.01
50 2 0.01
51 38 0.17
52 88 0.40
53 16 0.07
54 7 0.03
55 17 0.08
56 14 0.06
57 28 0.13
58 5 0.02
59 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGAGTTTTGAAAATAAAACCGGA
Found at i:92156 original size:212 final size:214
Alignment explanation
Indices: 91862--92317 Score: 607
Period size: 212 Copynumber: 2.1 Consensus size: 214
91852 TCGAAAATAA
* * * * * * * *
91862 CGGGGTTGGAGTATCCCCAATTAT-GAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTGTGGAAAAATCAATATTTTAGCAATAAAACCAGGGTTGGAGCA
* * *
91926 TCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATT
66 TCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATG-AATAACGAGGTTGGAGTATCCCCGATT
* *
91991 GTGAA-AAATT-G-G-TATTTTTGGAAATAAAATCGGAGTTGCAGTATCCCCGATTAAAGGAAAA
130 ATGAAGAAATTGGTGTTATTTTTAGAAATAAAATCGGAGTTGCAGTATCCCCGATTAAA-GAAAA
*
92052 TTGGCGTTTTGAAAATAAAAC
194 TTAGCGTTTTGAAAATAAAAC
* * *
92073 CGGGGTTGGAGTATCCCCGATTGTGGAAAAATTATTGTTTTAGCAATAAAACCAGGGTTGGAGCA
1 CGGGGTTGGAGTATCCCCGATTGTGGAAAAATCAATATTTTAGCAATAAAACCAGGGTTGGAGCA
* *
92138 TCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGATTAACGGGGTTGGAGTATCCCCGATTA
66 TCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGTATCCCCGATTA
* * * *
92203 TGAAGAAATTGGTGTTTTTTTTTATAAATAAAATCGGAGTTGGAGTATCCCCGATTATAGAAAAT
131 TGAAGAAATTGGTG-TTATTTTTAGAAATAAAATCGGAGTTGCAGTATCCCCGATTAAAGAAAAT
* *
92268 TAGTGTTTTGAAAATAAAAT
195 TAGCGTTTTGAAAATAAAAC
* *
92288 CGGAGTTGGAATATCCCCGATTGTGGAAAA
1 CGGGGTTGGAGTATCCCCGATTGTGGAAAA
92318 TTGAGAAACT
Statistics
Matches: 212, Mismatches: 27, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
211 50 0.24
212 71 0.33
213 1 0.00
214 1 0.00
215 51 0.24
216 38 0.18
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (214 bp):
CGGGGTTGGAGTATCCCCGATTGTGGAAAAATCAATATTTTAGCAATAAAACCAGGGTTGGAGCA
TCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAGTATCCCCGATTA
TGAAGAAATTGGTGTTATTTTTAGAAATAAAATCGGAGTTGCAGTATCCCCGATTAAAGAAAATT
AGCGTTTTGAAAATAAAAC
Found at i:92159 original size:28 final size:28
Alignment explanation
Indices: 92127--92197 Score: 92
Period size: 27 Copynumber: 2.6 Consensus size: 28
92117 AATAAAACCA
*
92127 GGGTTGGAGCATCCCCTCGA-AAATAACG
1 GGGTTGGAGTATCCCC-CGATAAATAACG
* *
92155 GGGTTGGAGTAT-CCCCGATGATTAACG
1 GGGTTGGAGTATCCCCCGATAAATAACG
92182 GGGTTGGAGTATCCCC
1 GGGTTGGAGTATCCCC
92198 GATTATGAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
26 3 0.08
27 21 0.55
28 14 0.37
ACGTcount: A:0.23, C:0.23, G:0.32, T:0.23
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCCGATAAATAACG
Found at i:92219 original size:107 final size:104
Alignment explanation
Indices: 91859--92220 Score: 277
Period size: 107 Copynumber: 3.4 Consensus size: 104
91849 CCCTCGAAAA
* * * * * * *
91859 TAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAG
1 TAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGGAAATAAAACC-GGGTTGGAG
* *
91924 TATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAA
65 TATCCCCTC-GAAATAACGGGGTTGGAGTATCCCCGATG-AT
* * * * * * *
91966 TAACGAGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGCA
1 TAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAGT-GTTTTGGAAATAAAACCGG-GTTGGA
* * ** * ** **
92031 GTAT-CCC-CG-ATTAAAGGAAAATTGGCGT-T--TTGAAAAT
64 GTATCCCCTCGAAATAACGG--GGTTGGAGTATCCCCGATGAT
* * * * *
92068 AAAACCGGGGTTGGAGTATCCCCGATTGTGGAAAAATTATTGTTTTAGCAATAAAACCAGGGTTG
1 -TAA-CGGGGTTGGAGTATCCCCGATTAT-GAAAAATTAGTGTTTTGGAAATAAAACC-GGGTTG
*
92133 GAGCATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAT
62 GAGTATCCCCTCG-AAATAACGGGGTTGGAGTATCCCCGATGAT
*
92177 TAACGGGGTTGGAGTATCCCCGATTATGAAGAAATTGGTGTTTT
1 TAACGGGGTTGGAGTATCCCCGATTATGAA-AAATTAGTGTTTT
92221 TTTTTATAAA
Statistics
Matches: 192, Mismatches: 47, Indels: 32
0.71 0.17 0.12
Matches are distributed among these distances:
102 1 0.01
103 4 0.02
104 49 0.26
105 16 0.08
106 18 0.09
107 70 0.36
108 30 0.16
109 4 0.02
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (104 bp):
TAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGGAAATAAAACCGGGTTGGAGT
ATCCCCTCGAAATAACGGGGTTGGAGTATCCCCGATGAT
Found at i:92285 original size:51 final size:52
Alignment explanation
Indices: 92184--92319 Score: 159
Period size: 51 Copynumber: 2.5 Consensus size: 52
92174 GATTAACGGG
* *
92184 GTTGGAGTATCCCCGATTATGAAGAAATTGGTGTTTTTTTTTATAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATG-A-AAATTAGTG---TTTTTGATAAATAAAATCGGA
92241 GTTGGAGTATCCCCGATTATAGAAAATTAGTG-TTTTGA-AAATAAAATCGGA
1 GTTGGAGTATCCCCGATTAT-GAAAATTAGTGTTTTTGATAAATAAAATCGGA
* *
92292 GTTGGAATATCCCCGATTGTGGAAAATT
1 GTTGGAGTATCCCCGATTAT-GAAAATT
92320 GAGAAACTCA
Statistics
Matches: 73, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
51 38 0.52
52 5 0.07
56 8 0.11
57 21 0.29
58 1 0.01
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.35
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTATGAAAATTAGTGTTTTTGATAAATAAAATCGGA
Found at i:94697 original size:34 final size:33
Alignment explanation
Indices: 94651--94717 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 33
94641 AACTTCCTAG
* *
94651 ATGTATCGATACAAAGAATAGATGTATCGATACA
1 ATGTATCAATACAAAGAA-AAATGTATCGATACA
*
94685 ATGTATCAATACACAGAAAAATGTATCGATACA
1 ATGTATCAATACAAAGAAAAATGTATCGATACA
94718 TTCCCTTGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 14 0.47
34 16 0.53
ACGTcount: A:0.46, C:0.13, G:0.15, T:0.25
Consensus pattern (33 bp):
ATGTATCAATACAAAGAAAAATGTATCGATACA
Found at i:94761 original size:19 final size:17
Alignment explanation
Indices: 94735--94805 Score: 69
Period size: 19 Copynumber: 4.2 Consensus size: 17
94725 GGCAGTAGCT
94735 AATTATGTATCGATACA
1 AATTATGTATCGATACA
*
94752 ATACTTATGTATTGATAC-
1 A-A-TTATGTATCGATACA
94770 -A-T-TGTATCGATACA
1 AATTATGTATCGATACA
94784 ACATTTATGTATCGATACA
1 A-A-TTATGTATCGATACA
94803 AAT
1 AAT
94806 CGCTGAAATT
Statistics
Matches: 44, Mismatches: 2, Indels: 16
0.71 0.03 0.26
Matches are distributed among these distances:
13 10 0.23
14 1 0.02
16 2 0.05
17 2 0.05
18 3 0.07
19 26 0.59
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (17 bp):
AATTATGTATCGATACA
Found at i:94781 original size:32 final size:32
Alignment explanation
Indices: 94740--94802 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
94730 TAGCTAATTA
* *
94740 TGTATCGATACAATACTTATGTATTGATACAT
1 TGTATCGATACAACACTTATGTATCGATACAT
*
94772 TGTATCGATACAACATTTATGTATCGATACA
1 TGTATCGATACAACACTTATGTATCGATACA
94803 AATCGCTGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (32 bp):
TGTATCGATACAACACTTATGTATCGATACAT
Found at i:96636 original size:22 final size:22
Alignment explanation
Indices: 96617--96660 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
96607 AATAATAATT
96617 ATATTTAAAT-TTAATTATAAAA
1 ATATTTAAATATTAA-TATAAAA
96639 ATATTTAAATATTAATATAAAA
1 ATATTTAAATATTAATATAAAA
96661 CTAATATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
ATATTTAAATATTAATATAAAA
Found at i:98271 original size:70 final size:71
Alignment explanation
Indices: 98147--98332 Score: 225
Period size: 71 Copynumber: 2.6 Consensus size: 71
98137 TAAACCCTTA
* * * * ** * *
98147 AAAAATAAAAATAAATTAT-ATTTTAAAAGTTAAACTTATATAATCATACTTAAAAAATAAATTT
1 AAAAATAAAAATAAATAATAACTTAAAAATTTAAACTCGTATAATGAAAC-TAAAAAATAAATTT
98211 AAATTTTT
65 AAA-TTTT
*
98219 AAAAAT-AAAA-AAATAATAACTTAAATATTTAAACTCGTATAATGAAACTAAAAAATAAATTTA
1 AAAAATAAAAATAAATAATAACTTAAAAATTTAAACTCGTATAATGAAACTAAAAAATAAATTTA
98282 AATTTT
66 AATTTT
* * *
98288 ACAAATAAAAATAAATTATACCTTAAAAATTTAAACTCGTATAAT
1 AAAAATAAAAATAAATAATAACTTAAAAATTTAAACTCGTATAAT
98333 TATATTATAA
Statistics
Matches: 98, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
69 9 0.09
70 27 0.28
71 56 0.57
72 6 0.06
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.34
Consensus pattern (71 bp):
AAAAATAAAAATAAATAATAACTTAAAAATTTAAACTCGTATAATGAAACTAAAAAATAAATTTA
AATTTT
Found at i:98524 original size:26 final size:27
Alignment explanation
Indices: 98495--98549 Score: 87
Period size: 26 Copynumber: 2.1 Consensus size: 27
98485 AATCATACTT
*
98495 TAAAAT-AAAATAAATTTAAATTTATA
1 TAAAATAAAAATAAATTTAAACTTATA
98521 T-AAATAAAAATAAATTTAAACTTATA
1 TAAAATAAAAATAAATTTAAACTTATA
98547 TAA
1 TAA
98550 TCATATCCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 4 0.15
26 21 0.81
27 1 0.04
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (27 bp):
TAAAATAAAAATAAATTTAAACTTATA
Found at i:98800 original size:21 final size:22
Alignment explanation
Indices: 98753--98801 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
98743 AATTAATAAA
*
98753 AAATTTATTTATTATTATTATT
1 AAATTTATTTATTATTATAATT
*
98775 -TATTTATTTATT-TTATAATT
1 AAATTTATTTATTATTATAATT
98795 AAATTTA
1 AAATTTA
98802 AATAAAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
AAATTTATTTATTATTATAATT
Found at i:103136 original size:29 final size:29
Alignment explanation
Indices: 103103--104330 Score: 1057
Period size: 28 Copynumber: 42.2 Consensus size: 29
103093 CCACTACTTA
* *
103103 TGTGGGCTTTGAGAAGAATGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* *
103132 TGTGGGCTTTGAGAAGGATGCCATTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
*
103161 TGTGGGCTTTGAAAA-GATGCCATTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* *
103189 TGTGGGCTTTGAAAA-GATGCCACTTATTT
1 TGTGGGCTTTGAAAAGGATGCCACTGA-CT
*
103218 ATGTGGGCTTTGAGAAGGATGCCA-TGACT
1 -TGTGGGCTTTGAAAAGGATGCCACTGACT
* * *
103247 TGTGGGCTTTGAAATGGGTTGCCACCGACTT
1 TGTGGGCTTTGAAA-AGGATGCCACTGAC-T
* * * *
103278 GTGTGGGCTTTGAAATGGGTTACTA-TCGACTT
1 -TGTGGGCTTTGAAA-AGGATGCCACT-GAC-T
*
103310 GTGTGGGCTTTCAAAAGG-TGCCACTGACT
1 -TGTGGGCTTTGAAAAGGATGCCACTGACT
* * *
103339 TGTGGGCTTTGAAATGGGTTGCCACCGACTT
1 TGTGGGCTTTGAAA-AGGATGCCACTGAC-T
* * *
103370 GTGTGGGCTTTGAAATGGGTTACCA-TCGACTT
1 -TGTGGGCTTTGAAA-AGGATGCCACT-GAC-T
*
103402 GTGTGGGCTTTCAAAAGG-TGCCACTGACT
1 -TGTGGGCTTTGAAAAGGATGCCACTGACT
*
103431 TGTGGGCTTTG-AAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
** *
103459 CATGGGCTTTG-AAAGGATGCTACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* * *
103487 TGTGGGCTTTAAAAAGAGTTGCCACCGACT
1 TGTGGGCTTTGAAAAG-GATGCCACTGACT
* * *
103517 CGTGTGAGCTTTG-AAATGATACCA-TCGACTT
1 --TGTGGGCTTTGAAAAGGATGCCACT-GAC-T
* *
103548 GTGTGGGCTTTGAAGAGGATGCCACTAACT
1 -TGTGGGCTTTGAAAAGGATGCCACTGACT
* *
103578 TGTGGGCTTTGAAAA-GATGTCACTGATTT
1 TGTGGGCTTTGAAAAGGATGCCACTGA-CT
*
103607 GTGTGGGCTTTGAGAAGGATGCCACTGACT
1 -TGTGGGCTTTGAAAAGGATGCCACTGACT
* *
103637 TGTGGGCTTTGAGAAGGATGCCATTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* *
103666 TGTGGGCTTTGAGAAGAATGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
103695 TGTGGGCTTTGAAAAGG-TGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* *
103723 TGTGGGCTTTG-AAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
** *
103751 CATGGGCTTTGAAAA-GTTGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* * *
103779 TGTGGGCTTTAAAAAGAGTTGCCACCGACT
1 TGTGGGCTTTGAAAAG-GATGCCACTGACT
* *
103809 CGTGTGGGCTTTG-AAATGATGCCACCGACT
1 --TGTGGGCTTTGAAAAGGATGCCACTGACT
103839 TGTATGGGCTTTGAAAAGGATGCCACTGACT
1 TG--TGGGCTTTGAAAAGGATGCCACTGACT
* *
103870 TGTGAGCTTTGAAAAGG-TGCCACTGATTT
1 TGTGGGCTTTGAAAAGGATGCCACTGA-CT
*
103899 ATGTGGGCTTTGAGAAGGATGCCACTGACT
1 -TGTGGGCTTTGAAAAGGATGCCACTGACT
*
103929 TGTGGGCTTTGAGAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
**
103958 TGTGGGCTTTGAAAATAATGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* * *
103987 TGTAGGCTTTG-AAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* *
104015 TGTGGGCTTTG-AAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
** *
104043 CATGGGCTTTG-AAAGGATGCCATTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
*
104071 TGTGGGCTTT-AAAAAGACTTGCCACTGACT
1 TGTGGGCTTTGAAAAGGA--TGCCACTGACT
104101 CGTGTGGGCTTTGAAAA-GATGCCACTGACT
1 --TGTGGGCTTTGAAAAGGATGCCACTGACT
* *
104131 TATGGGCTTTGAAAA-GAGTGCCACTAACT
1 TGTGGGCTTTGAAAAGGA-TGCCACTGACT
* * *
104160 TGTGGGC-TT-AGAATGATGCCACTAACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* * * *
104187 TGTGGGCTTTAAAAAGGTGTTGCCACGGAGT
1 TGTGGGCTTTGAAAA-G-GATGCCACTGACT
* * *
104218 TGTGGAC-TT-AAAAGGATGCCACGGAGT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* * *
104245 TGTGGAC-TT-AAAAGAATGCCA-TAGAGT
1 TGTGGGCTTTGAAAAGGATGCCACT-GACT
* * * *
104272 TGTGGAC-TT-AAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* * * *
104299 TGTGGAC-TT-AAAAGGTTGCCACAGAGT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
104326 TGTGG
1 TGTGG
104331 ACTTAAATGG
Statistics
Matches: 1028, Mismatches: 118, Indels: 108
0.82 0.09 0.09
Matches are distributed among these distances:
27 120 0.12
28 299 0.29
29 249 0.24
30 158 0.15
31 83 0.08
32 115 0.11
33 4 0.00
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (29 bp):
TGTGGGCTTTGAAAAGGATGCCACTGACT
Found at i:103745 original size:292 final size:287
Alignment explanation
Indices: 103103--104168 Score: 1318
Period size: 292 Copynumber: 3.6 Consensus size: 287
103093 CCACTACTTA
* * * * * **
103103 TGTGGGCTTTGAGAAGAATGCCACTGACTTGTGGGCTTTGAGAAGGATGCCATTGACTTGTGGGC
1 TGTGGGCTTTGAAAAG-GTGCCACTGACTTGTGGGCTTTGA-AAGGGTGCCACTAACTCATGGGC
* * ** * **
103168 TTTGAAAAGATGCCATTGACTTGTGGGCTTTGAAAAGA--TGCCACTTATTTATGTGGGCTTTGA
64 TTTGAAAAGATGCCACTGACTTGTGGGCTTTAAAAAGAGTTGCCACCGACTCGTGTGGGCTTTGA
* * * ** *
103231 GAAGGATGCCAT-GACTTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATG
129 -AATGATGCCATCGACTTATGGGCTTTGAAA--GGATGCCACTAAC-T-TGTGGGCTTTGAAAAG
* * * * * *
103295 GGTTACTATCGACTTGTGTGGGCTTTCAAAAGG-TGCCACTGACTTGTGGGCTTTGA-AATGGGT
189 TGTCAC--T-GATTTGTGTGGGCTTTGAGAAGGATGCCACTGACTTGTGGGCTTTGAGAA--GGA
* ** *
103358 TGCCACCGACTTGTGTGGGCTTTGAAATGGGTTACCA-TCGACTT
249 TGCCACTGAC-T-TGTGGGCTTTGAAA--GAATGCCACT-GAC-T
* *
103402 GTGTGGGCTTTCAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTCATGGGCT
1 -TGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTCATGGGCT
* * *
103467 TTGAAAGGATGCTACTGACTTGTGGGCTTTAAAAAGAGTTGCCACCGACTCGTGTGAGCTTTGAA
65 TTGAAAAGATGCCACTGACTTGTGGGCTTTAAAAAGAGTTGCCACCGACTCGTGTGGGCTTTGAA
* *
103532 ATGATACCATCGACTTGTGTGGGCTTTGAAGAGGATGCCACTAACTTGTGGGCTTTGAAAAGATG
130 ATGATGCCATCGAC-T-TATGGGCTTTGAA-AGGATGCCACTAACTTGTGGGCTTTGAAAAG-TG
*
103597 TCACTGATTTGTGTGGGCTTTGAGAAGGATGCCACTGACTTGTGGGCTTTGAGAAGGATGCCATT
191 TCACTGATTTGTGTGGGCTTTGAGAAGGATGCCACTGACTTGTGGGCTTTGAGAAGGATGCCACT
103662 GACTTGTGGGCTTTGAGAAGAATGCCACTGACT
256 GACTTGTGGGCTTTGA-AAGAATGCCACTGACT
103695 TGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTCATGGGCTT
1 TGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTCATGGGCTT
*
103760 TGAAAAGTTGCCACTGACTTGTGGGCTTTAAAAAGAGTTGCCACCGACTCGTGTGGGCTTTGAAA
66 TGAAAAGATGCCACTGACTTGTGGGCTTTAAAAAGAGTTGCCACCGACTCGTGTGGGCTTTGAAA
* * * *
103825 TGATGCCACCGACTTGTATGGGCTTTGAAAAGGATGCCACTGACTTGTGAGCTTTGAAAAGGTGC
131 TGATGCCATCGAC-T-TATGGGCTTTG-AAAGGATGCCACTAACTTGTGGGCTTTGAAAA-GTGT
*
103890 CACTGATTTATGTGGGCTTTGAGAAGGATGCCACTGACTTGTGGGCTTTGAGAAGGATGCCACTG
192 CACTGATTTGTGTGGGCTTTGAGAAGGATGCCACTGACTTGTGGGCTTTGAGAAGGATGCCACTG
*
103955 ACTTGTGGGCTTTGAAAATAATGCCACTGACT
257 ACTTGTGGGCTTTG-AAAGAATGCCACTGACT
* * *
103987 TGTAGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTAACTCATGGGCTT
1 TGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTCATGGGCTT
* * * *
104052 TGAAAGGATGCCATTGACTTGTGGGCTTTAAAAAGACTTGCCACTGACTCGTGTGGGCTTTGAAA
66 TGAAAAGATGCCACTGACTTGTGGGCTTTAAAAAGAGTTGCCACCGACTCGTGTGGGCTTTGAAA
* *
104117 AGATGCCA-CTGACTTATGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTT
131 TGATGCCATC-GACTTATGGGCTTTGAAAGGA-TGCCACTAACTTGTGGGCTT
104169 AGAATGATGC
Statistics
Matches: 689, Mismatches: 61, Indels: 42
0.87 0.08 0.05
Matches are distributed among these distances:
289 5 0.01
290 29 0.04
291 2 0.00
292 402 0.58
293 5 0.01
294 8 0.01
295 13 0.02
296 3 0.00
297 30 0.04
298 77 0.11
299 49 0.07
300 41 0.06
301 11 0.02
302 13 0.02
303 1 0.00
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (287 bp):
TGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTCATGGGCTT
TGAAAAGATGCCACTGACTTGTGGGCTTTAAAAAGAGTTGCCACCGACTCGTGTGGGCTTTGAAA
TGATGCCATCGACTTATGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAGTGTCACT
GATTTGTGTGGGCTTTGAGAAGGATGCCACTGACTTGTGGGCTTTGAGAAGGATGCCACTGACTT
GTGGGCTTTGAAAGAATGCCACTGACT
Found at i:104239 original size:27 final size:27
Alignment explanation
Indices: 104205--104404 Score: 265
Period size: 27 Copynumber: 7.4 Consensus size: 27
104195 TTAAAAAGGT
104205 GTTGCCACGGAGTTGTGGACTTAAAAG
1 GTTGCCACGGAGTTGTGGACTTAAAAG
*
104232 GATGCCACGGAGTTGTGGACTTAAAAG
1 GTTGCCACGGAGTTGTGGACTTAAAAG
** **
104259 AATGCCATAGAGTTGTGGACTTAAAAG
1 GTTGCCACGGAGTTGTGGACTTAAAAG
*
104286 GGTGCCACGGAGTTGTGGACTTAAAAG
1 GTTGCCACGGAGTTGTGGACTTAAAAG
* *
104313 GTTGCCACAGAGTTGTGGACTTAAATG
1 GTTGCCACGGAGTTGTGGACTTAAAAG
* *
104340 GTTGCCACAGAGTTGTGAACTTAAAAG
1 GTTGCCACGGAGTTGTGGACTTAAAAG
* * *
104367 GTTGACATGAAGTTGTGGACTTAAAAG
1 GTTGCCACGGAGTTGTGGACTTAAAAG
* *
104394 GGTGTCACGGA
1 GTTGCCACGGA
104405 ATCGTGTCTT
Statistics
Matches: 151, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 151 1.00
ACGTcount: A:0.29, C:0.14, G:0.32, T:0.26
Consensus pattern (27 bp):
GTTGCCACGGAGTTGTGGACTTAAAAG
Done.