Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 75 of 425
Found at i:21093069 original size:24 final size:23
Alignment explanation
Indices: 21093041--21093124 Score: 75
Period size: 24 Copynumber: 3.7 Consensus size: 23
21093031 TATACATAAC
*
21093041 ATATAAAAGATAAGTAATATATAT
1 ATATAAAAAATAA-TAATATATAT
* *
21093065 ATATAAAATATAATAA-ATGT-T
1 ATATAAAAAATAATAATATATAT
*
21093086 ATATAATAAAAT-ATAATATAAAT
1 ATATAA-AAAATAATAATATATAT
*
21093109 ATATAGGAAAATAATA
1 ATATA-AAAAATAATA
21093125 TATGATAAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
21 11 0.22
22 9 0.18
23 14 0.29
24 15 0.31
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (23 bp):
ATATAAAAAATAATAATATATAT
Found at i:21093076 original size:31 final size:30
Alignment explanation
Indices: 21093018--21093077 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
21093008 ATAATGTAAT
*
21093018 AGATAATATATGATATACATAACATATAAA
1 AGATAATATATGATATACATAAAATATAAA
*
21093048 AGATAAGTAATAT-ATATATATAAAATATAA
1 AGATAA-T-ATATGATATACATAAAATATAA
21093078 TAAATGTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 6 0.23
31 16 0.62
32 4 0.15
ACGTcount: A:0.58, C:0.03, G:0.07, T:0.32
Consensus pattern (30 bp):
AGATAATATATGATATACATAAAATATAAA
Found at i:21093181 original size:25 final size:26
Alignment explanation
Indices: 21093118--21093182 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
21093108 TATATAGGAA
*
21093118 AATAATATATGATAAATAAAATTTTTT
1 AATAATACAT-ATAAATAAAATTTTTT
**
21093145 ATATAA-ACATATAAATAGTATTTTTT
1 A-ATAATACATATAAATAAAATTTTTT
21093171 AATAATA-ATATA
1 AATAATACATATA
21093183 TGTATAGTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
25 9 0.27
26 16 0.48
27 4 0.12
28 4 0.12
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (26 bp):
AATAATACATATAAATAAAATTTTTT
Found at i:21093183 original size:27 final size:27
Alignment explanation
Indices: 21093118--21093197 Score: 67
Period size: 27 Copynumber: 3.0 Consensus size: 27
21093108 TATATAGGAA
**
21093118 AATAAT-ATATGATAAATAAAATTTTTT
1 AATAATAATAT-ATAAATAGTATTTTTT
*
21093145 -AT-ATAAACATATAAATAGTATTTTTT
1 AATAAT-AATATATAAATAGTATTTTTT
** *
21093171 AATAATAATATATGTATAGTTTTTTTT
1 AATAATAATATATAAATAGTATTTTTT
21093198 TTTAAAAATA
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
25 2 0.05
26 16 0.38
27 22 0.52
28 2 0.05
ACGTcount: A:0.45, C:0.01, G:0.05, T:0.49
Consensus pattern (27 bp):
AATAATAATATATAAATAGTATTTTTT
Found at i:21095173 original size:206 final size:206
Alignment explanation
Indices: 21094814--21095535 Score: 1070
Period size: 206 Copynumber: 3.5 Consensus size: 206
21094804 TACAGAGATG
* * * *
21094814 CTTAGATTTGCTTCAGCGTAAACACGTGAAAGCCAAAT-ATGTTATGTCTTCGATTTGCTCCTTA
1 CTTAGATTTGCTTCAACGTAAGCACGTGAAAGCCAAATCA-GCTATGTCTTCGATTTGCTCCTTG
* * * * * *** * *
21094878 TGACCACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTCTAATTGTCTGAACGTTAGATCTGC
65 TAAGCACAAGGATACCAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTGGATCTGC
* * * * * *
21094943 TATGTGTCTGCTCTCTGCCGAATATGGAAACGCCAAACTTTGATTTGTTCTCTGACAATATAGAG
130 TATGTGTCTGCCCTCCGTCGAATATGGAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAG
21095008 ATGCCAAATCAT
195 ATGCCAAATCAT
*
21095020 CTTAGATTTGCTTCAACGTAAGCACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGGTCCTTGT
1 CTTAGATTTGCTTCAACGTAAGCACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGT
*
21095085 AAGCACAAGGATACCAAACCATTTTGGATCTGCTTCAGTATAAACATCTGAAGGTTGGATCTGCT
66 AAGCACAAGGATACCAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTGGATCTGCT
* *
21095150 ATGTGTCTGCCCTCCGTCGAATATGGAGACGCTAAACTTCGATTTGTTCTCTGACAATACAAAGA
131 ATGTGTCTGCCCTCCGTCGAATATGGAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGA
21095215 TGCCAAATCAT
196 TGCCAAATCAT
* * *
21095226 CTTAGATTTGCTTCAACATAAGCTCGTGAAAGCCAAATCAGCTATGTCTTCGATTTTCTCCTTGT
1 CTTAGATTTGCTTCAACGTAAGCACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGT
21095291 AAGCACAAGGATACCAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTGGATCTGCT
66 AAGCACAAGGATACCAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTGGATCTGCT
* * * *
21095356 ATGTGTCTACCCTCCGTCGAATATGGAGATGCCAAACTTCGATCTGTTCTCTAACAATACAGAGA
131 ATGTGTCTGCCCTCCGTCGAATATGGAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGA
*
21095421 TACCAAATCAT
196 TGCCAAATCAT
* * *
21095432 CTTAGATTTGCTTTAGCGTAAGCACGCGGAAA-CCAAATCAGCTATGTCTTCGATTTGCTCCTTG
1 CTTAGATTTGCTTCAACGTAAGCACG-TGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTG
* *
21095496 TAAGCATAAGGATGCCAAACCATCTTGGATCTTGCTTCAG
65 TAAGCACAAGGATACCAAACCATCTTGGATC-TGCTTCAG
21095536 CCAGATCTGC
Statistics
Matches: 469, Mismatches: 44, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
206 456 0.97
207 13 0.03
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (206 bp):
CTTAGATTTGCTTCAACGTAAGCACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGT
AAGCACAAGGATACCAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTGGATCTGCT
ATGTGTCTGCCCTCCGTCGAATATGGAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGA
TGCCAAATCAT
Found at i:21097596 original size:78 final size:80
Alignment explanation
Indices: 21097453--21097636 Score: 205
Period size: 78 Copynumber: 2.3 Consensus size: 80
21097443 TCGAATGATG
* * *
21097453 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
21097518 GTGCGAGTTAATAAA
66 GTGCGAGTTAATAAA
* * **
21097533 TCCGGGCTAA-TCCTGAAGGCTTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
* * *
21097595 CGTGCAAGTCACTATAA
65 CGTGCGAGTTAATA-AA
**
21097612 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGC-TTTG
21097637 AGCGAGTCGT
Statistics
Matches: 87, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
77 1 0.01
78 45 0.52
79 27 0.31
80 14 0.16
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATAAA
Found at i:21097616 original size:40 final size:40
Alignment explanation
Indices: 21097454--21097634 Score: 165
Period size: 40 Copynumber: 4.6 Consensus size: 40
21097444 CGAATGATGT
* * * *
21097454 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGC-AAGTTACTAAAC
* * * * *
21097494 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGCTAAG-TCCCGAAGGCATTCGTGCAAGTTACTAAAC
* *
21097534 CCGGGCTAA-TCCTGAAGGC-TTTGTGCAAGTTACTAAAC
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAAC
* *
21097572 CCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTCACTATAA-
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTA-AAC
**
21097612 CCGGGCTTCGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
21097635 TGAGCGAGTC
Statistics
Matches: 114, Mismatches: 21, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
38 24 0.21
39 16 0.14
40 65 0.57
41 9 0.08
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAAC
Found at i:21105611 original size:40 final size:40
Alignment explanation
Indices: 21105449--21105650 Score: 148
Period size: 40 Copynumber: 5.1 Consensus size: 40
21105439 CGAATGATGT
*
21105449 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTCG-CTATAA
* * * * ***
21105489 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATA-AA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTCGCTATAA
**
21105528 TCCGGGCTAA-TCCCGAAGGC-TTTGTGCAAGTTACTA-AA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
* *
21105566 CCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTCGCTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
** * * * *
21105607 CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
21105647 CCGG
1 CCGG
21105651 TTAAATTCCG
Statistics
Matches: 129, Mismatches: 25, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
38 24 0.19
39 19 0.15
40 77 0.60
41 9 0.07
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
Found at i:21105613 original size:78 final size:79
Alignment explanation
Indices: 21105448--21105599 Score: 200
Period size: 78 Copynumber: 1.9 Consensus size: 79
21105438 TCGAATGATG
* * *
21105448 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAA-TCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
* *
21105513 GTGCGAGTTAATAAA
65 GTGCAAGTCAATAAA
* **
21105528 TCCGGGCTAATCCCGAAGGCTTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATTC
1 TCCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATTC
21105591 GTGCAAGTC
65 GTGCAAGTC
21105600 GCTATAACCG
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
77 1 0.02
78 35 0.56
79 17 0.27
80 10 0.16
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTCG
TGCAAGTCAATAAA
Found at i:21118002 original size:22 final size:22
Alignment explanation
Indices: 21117977--21118020 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
21117967 CTAAGTTAGC
21117977 CTTTTTGGAAATCCCTATCTCG
1 CTTTTTGGAAATCCCTATCTCG
21117999 CTTTTTGGAAATCCCTATCTCG
1 CTTTTTGGAAATCCCTATCTCG
21118021 AAACGACAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.27, G:0.14, T:0.41
Consensus pattern (22 bp):
CTTTTTGGAAATCCCTATCTCG
Found at i:21118528 original size:16 final size:18
Alignment explanation
Indices: 21118491--21118528 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
21118481 ATGATGCATG
*
21118491 ATATACAAATTAATATAT
1 ATATACAAAATAATATAT
21118509 ATATA-AAAATAATATA-
1 ATATACAAAATAATATAT
21118525 ATAT
1 ATAT
21118529 CAATGTACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 4 0.21
17 10 0.53
18 5 0.26
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (18 bp):
ATATACAAAATAATATAT
Found at i:21118565 original size:19 final size:19
Alignment explanation
Indices: 21118541--21118578 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
21118531 ATGTACATGT
21118541 TCATAAAATATAACATCAA
1 TCATAAAATATAACATCAA
21118560 TCATAAAATATAACATCAA
1 TCATAAAATATAACATCAA
21118579 ATAATAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.58, C:0.16, G:0.00, T:0.26
Consensus pattern (19 bp):
TCATAAAATATAACATCAA
Found at i:21118590 original size:19 final size:18
Alignment explanation
Indices: 21118542--21118605 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 18
21118532 TGTACATGTT
21118542 CATAAAATATAACATCAA
1 CATAAAATATAACATCAA
21118560 TCATAAAATATAACATCAA
1 -CATAAAATATAACATCAA
*
21118579 -ATAATAATTATAAAAT-AA
1 CATAA-AA-TATAACATCAA
*
21118597 CATTAAATA
1 CATAAAATA
21118606 CATAAATGAT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
17 6 0.15
18 6 0.15
19 28 0.70
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.28
Consensus pattern (18 bp):
CATAAAATATAACATCAA
Found at i:21121324 original size:136 final size:137
Alignment explanation
Indices: 21121080--21121365 Score: 504
Period size: 136 Copynumber: 2.1 Consensus size: 137
21121070 CATTGGGCCT
*
21121080 AAGCCCATTTAGGTAACAGTGGTACTAGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTAGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
* * *
21121145 AGCCCCTTATTCAGATAACCGTATGGCCCATAGGCCCATTTCAAAATACATG-AACATCAGTAAT
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATAAATGCAACATCAGTAAA
21121209 CATACGC
131 CATACGC
21121216 AAGCCCATTTGGGTAACAGTGGTACT-GGACCAGAGCCCTTTTCAGATTACAATAAACTGGGCCT
1 AAGCCCATTTGGGTAACAGTGGTACTAGG-CCAGAGCCCTTTTCAGATTACAATAAACTGGGCCT
21121280 TAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATAAATGCAACATCAGTAA
65 TAGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATAAATGCAACATCAGTAA
*
21121345 ACATATGC
130 ACATACGC
21121353 AAGCCCATTTGGG
1 AAGCCCATTTGGG
21121366 GAGACTACTC
Statistics
Matches: 143, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
135 2 0.01
136 111 0.78
137 30 0.21
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTAGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATAAATGCAACATCAGTAAA
CATACGC
Found at i:21121649 original size:25 final size:26
Alignment explanation
Indices: 21121612--21121663 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
21121602 TCAAACATGC
21121612 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* * *
21121638 ATTTCGGT-AATTTATCTCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
21121663 A
1 A
21121664 AAACTATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:21123180 original size:26 final size:26
Alignment explanation
Indices: 21123144--21123227 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
21123134 CATGAAATTC
21123144 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
21123170 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
21123196 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
21123222 TTATCA
1 TTATCA
21123228 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:21127916 original size:15 final size:15
Alignment explanation
Indices: 21127896--21127949 Score: 108
Period size: 15 Copynumber: 3.6 Consensus size: 15
21127886 AAGTCAGCTC
21127896 AAGCCCATTGGGCCT
1 AAGCCCATTGGGCCT
21127911 AAGCCCATTGGGCCT
1 AAGCCCATTGGGCCT
21127926 AAGCCCATTGGGCCT
1 AAGCCCATTGGGCCT
21127941 AAGCCCATT
1 AAGCCCATT
21127950 TAGGTAACAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 39 1.00
ACGTcount: A:0.22, C:0.33, G:0.24, T:0.20
Consensus pattern (15 bp):
AAGCCCATTGGGCCT
Found at i:21128187 original size:137 final size:137
Alignment explanation
Indices: 21127941--21128227 Score: 502
Period size: 137 Copynumber: 2.1 Consensus size: 137
21127931 CATTGGGCCT
* * *
21127941 AAGCCCATTTAGGTAACAGTGGTACTAGGCAAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTAGACAAGAGCCCTTTTCAGATTACAATAAACTGGGACTT
* *
21128006 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAATATGGCCCATAGGCCCATTTCAAAATACATGCAACATAAGTAAA
21128071 CATACAC
131 CATACAC
*
21128078 AAGCCCATTTGGGTAACAGTGGTACTAGACCAGAGCCCTTTTCAGATTACAATAAACTGGGACTT
1 AAGCCCATTTGGGTAACAGTGGTACTAGACAAGAGCCCTTTTCAGATTACAATAAACTGGGACTT
21128143 AGCCCCTTATTCAGATAACAATATGGCCCATAGGCCCATTTCAAAATACATGCAACATAAGTAAA
66 AGCCCCTTATTCAGATAACAATATGGCCCATAGGCCCATTTCAAAATACATGCAACATAAGTAAA
**
21128208 CATATGC
131 CATACAC
21128215 AAGCCCATTTGGG
1 AAGCCCATTTGGG
21128228 GAGACTACTC
Statistics
Matches: 142, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
137 142 1.00
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTAGACAAGAGCCCTTTTCAGATTACAATAAACTGGGACTT
AGCCCCTTATTCAGATAACAATATGGCCCATAGGCCCATTTCAAAATACATGCAACATAAGTAAA
CATACAC
Found at i:21129977 original size:40 final size:40
Alignment explanation
Indices: 21129932--21130098 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
21129922 CGGAATATAA
21129932 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * *
21129972 CCGGATAGAAT-ATCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCA-CTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
21130012 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
21130052 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-ATTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
21130091 CCGGATAT
1 CCGGATAT
21130099 CATTCAATTT
Statistics
Matches: 104, Mismatches: 20, Indels: 7
0.79 0.15 0.05
Matches are distributed among these distances:
39 14 0.13
40 89 0.86
41 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:21130082 original size:80 final size:79
Alignment explanation
Indices: 21129948--21130096 Score: 194
Period size: 80 Copynumber: 1.9 Consensus size: 79
21129938 ATAATCACGT
* *
21129948 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATATCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTCGCACGAATGCCTTCGGG-ATTAGCC
21130013 CGGATGTAGCCACTA
65 CGGATGTAGCCACTA
* * * * *
21130028 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTC-GCACGAA-TGCCTTCGGGATTAGC
21130091 CCGGAT
64 CCGGAT
21130097 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
79 14 0.23
80 46 0.77
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATATCTCGCACGAATGCCTTCGGGATTAGCCC
GGATGTAGCCACTA
Found at i:21137976 original size:40 final size:40
Alignment explanation
Indices: 21137931--21138097 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
21137921 CGGAATATAA
21137931 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * *
21137971 CCGGATAGAAT-ACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
21138010 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
21138050 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
21138090 CCGGATAT
1 CCGGATAT
21138098 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
38 1 0.01
39 32 0.30
40 71 0.68
41 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:21137995 original size:39 final size:40
Alignment explanation
Indices: 21137947--21138056 Score: 136
Period size: 39 Copynumber: 2.8 Consensus size: 40
21137937 ATAATCACGT
* *
21137947 GCACAAATGCCTTCGGGTCTTAGCCCGGATAG-A-ATACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGTAGACACTA
*
21137986 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGTAGACACTA
*
21138026 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
21138057 TAATTTCCAG
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
38 1 0.02
39 32 0.52
40 29 0.47
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.24
Consensus pattern (40 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGTAGACACTA
Found at i:21141257 original size:26 final size:26
Alignment explanation
Indices: 21141221--21141304 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
21141211 CATGAAATTC
21141221 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
21141247 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
21141273 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
21141299 TTATCA
1 TTATCA
21141305 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:21145194 original size:10 final size:10
Alignment explanation
Indices: 21145179--21145203 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
21145169 AATTTCATGT
21145179 CATTACATAC
1 CATTACATAC
21145189 CATTACATAC
1 CATTACATAC
21145199 CATTA
1 CATTA
21145204 TCAAATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.28, G:0.00, T:0.32
Consensus pattern (10 bp):
CATTACATAC
Found at i:21150035 original size:29 final size:29
Alignment explanation
Indices: 21150002--21150133 Score: 201
Period size: 29 Copynumber: 4.6 Consensus size: 29
21149992 CCTCCGAACT
** * * *
21150002 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
21150031 TGCACACTTAGTGCCAAATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
21150060 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
21150089 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
21150118 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
21150134 ATCTCGTCAC
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 94 1.00
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:21157983 original size:29 final size:29
Alignment explanation
Indices: 21157950--21158138 Score: 308
Period size: 29 Copynumber: 6.6 Consensus size: 29
21157940 CCTCCGAACT
** * * *
21157950 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
21157979 TGCACACTTAGTGCCAAATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
21158008 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
21158037 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
21158066 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
21158095 CGCACACTTAG-GCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
21158123 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
21158139 ATCTCGTCAC
Statistics
Matches: 150, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
28 28 0.19
29 122 0.81
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:21160146 original size:2 final size:2
Alignment explanation
Indices: 21160139--21160177 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
21160129 ACTATTAAGA
21160139 AT AT AT 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 AT AT AT A
21160178 AAGAGAAGGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:21160895 original size:8 final size:8
Alignment explanation
Indices: 21160884--21160909 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
21160874 ATATAGTTAT
21160884 ATAATTGA
1 ATAATTGA
21160892 ATAATTGA
1 ATAATTGA
21160900 ATAATTGA
1 ATAATTGA
21160908 AT
1 AT
21160910 TTTTTAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (8 bp):
ATAATTGA
Found at i:21162464 original size:48 final size:48
Alignment explanation
Indices: 21162393--21162488 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
21162383 AATAAAACTT
21162393 TGCAGCAGAAATTTTAGAGTTGGTAATTTGAAAACCATGATCATGATA
1 TGCAGCAGAAATTTTAGAGTTGGTAATTTGAAAACCATGATCATGATA
* *
21162441 TGCAGCAGAAATTTTAGAGTTGGTAATTTGGAAACCATGATCTTGATA
1 TGCAGCAGAAATTTTAGAGTTGGTAATTTGAAAACCATGATCATGATA
21162489 AGTCAAAACG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.35, C:0.10, G:0.22, T:0.32
Consensus pattern (48 bp):
TGCAGCAGAAATTTTAGAGTTGGTAATTTGAAAACCATGATCATGATA
Found at i:21164678 original size:16 final size:16
Alignment explanation
Indices: 21164657--21164688 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
21164647 TGAAATGTTC
21164657 AAATTTGGGTTAGAAT
1 AAATTTGGGTTAGAAT
21164673 AAATTTGGGTTAGAAT
1 AAATTTGGGTTAGAAT
21164689 TGCTAAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.25, T:0.38
Consensus pattern (16 bp):
AAATTTGGGTTAGAAT
Found at i:21173479 original size:52 final size:52
Alignment explanation
Indices: 21173409--21173547 Score: 251
Period size: 52 Copynumber: 2.7 Consensus size: 52
21173399 TATCTAGGAT
*
21173409 ATGGCATTGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCC
1 ATGGCAATGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCC
*
21173461 ATGGCAATGTGCTAAGTGAAATAAGACCATGTCATCTAAGTGAAATAAGTCC
1 ATGGCAATGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCC
*
21173513 ATGGCAATGTGCTAAGTGAAATAAGTCCATGGCAT
1 ATGGCAATGTGCTAAGTGAAATAAGACCATGGCAT
21173548 GGTGCTAAGT
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 83 1.00
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (52 bp):
ATGGCAATGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCC
Found at i:21173484 original size:28 final size:27
Alignment explanation
Indices: 21173409--21173559 Score: 197
Period size: 28 Copynumber: 5.7 Consensus size: 27
21173399 TATCTAGGAT
*
21173409 ATGGCATTGTGCTAAGTGAAATAAGACC
1 ATGGCA-TGTGCTAAGTGAAATAAGTCC
21173437 ATGGCA--T-CTAAGTGAAATAAGTCC
1 ATGGCATGTGCTAAGTGAAATAAGTCC
*
21173461 ATGGCAATGTGCTAAGTGAAATAAGACC
1 ATGGC-ATGTGCTAAGTGAAATAAGTCC
*
21173489 ATGTCA--T-CTAAGTGAAATAAGTCC
1 ATGGCATGTGCTAAGTGAAATAAGTCC
21173513 ATGGCAATGTGCTAAGTGAAATAAGTCC
1 ATGGC-ATGTGCTAAGTGAAATAAGTCC
21173541 ATGGCATGGTGCTAAGTGA
1 ATGGCAT-GTGCTAAGTGA
21173560 GAAATTTCTC
Statistics
Matches: 109, Mismatches: 5, Indels: 18
0.83 0.04 0.14
Matches are distributed among these distances:
24 41 0.38
25 4 0.04
27 5 0.05
28 59 0.54
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.25
Consensus pattern (27 bp):
ATGGCATGTGCTAAGTGAAATAAGTCC
Found at i:21173638 original size:51 final size:51
Alignment explanation
Indices: 21173582--21173782 Score: 305
Period size: 51 Copynumber: 3.9 Consensus size: 51
21173572 TTGAACCTTA
* *
21173582 TGAATAAAATAGCTTTGGACATAAGTGTGGTACTATGTGAAGGGCACTTTG
1 TGAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTG
* * *
21173633 TGAATATAATAGCTTTGGACAGAAGTGTAGTACTATGTGAAGGCCACTTTG
1 TGAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTG
* *
21173684 TGAATATAATAGCTTTGGACACAAGTGTGGTACTATCTGAAGGCCACTTTG
1 TGAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTG
* *
21173735 TGAATAAAATAGCTTTGG-CTACAAGGGTGGTACTACGTGAAGGCCACT
1 TGAATAAAATAGCTTTGGAC-ACAAGTGTGGTACTATGTGAAGGCCACT
21173783 GTGTATCCGT
Statistics
Matches: 138, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
50 1 0.01
51 137 0.99
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (51 bp):
TGAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTG
Found at i:21176157 original size:29 final size:29
Alignment explanation
Indices: 21176124--21176282 Score: 173
Period size: 29 Copynumber: 5.6 Consensus size: 29
21176114 GTGACGAGAT
21176124 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
21176153 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
21176182 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
21176211 CGGCACTGGGTGTGCGAGCTCGAAGGCTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* *
21176240 TGGCACTATGTGTG-G-GCT-TAAATCGA-A
1 TGGCACTAAGTGTGCGTGCTGGAAAT--ATA
21176267 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
21176283 AAATCGAGTA
Statistics
Matches: 109, Mismatches: 18, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
26 2 0.02
27 17 0.16
28 2 0.02
29 88 0.81
ACGTcount: A:0.25, C:0.16, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:21183382 original size:29 final size:29
Alignment explanation
Indices: 21183349--21183509 Score: 182
Period size: 29 Copynumber: 5.6 Consensus size: 29
21183339 GTGACGAGAT
21183349 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
21183378 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
21183407 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
21183436 CGGCACTGGGTGTGCGAGCTCGAAGGCTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * *
21183465 TGGCACTATGTGTGCGGGCT-TAAATCGA-A
1 TGGCACTAAGTGTGCGTGCTGGAAAT--ATA
21183494 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
21183510 AAATCGAGTA
Statistics
Matches: 111, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
28 2 0.02
29 109 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:21186899 original size:29 final size:29
Alignment explanation
Indices: 21186865--21187025 Score: 207
Period size: 29 Copynumber: 5.6 Consensus size: 29
21186855 TACTCGATTT
** * *
21186865 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
21186894 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
21186923 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
21186952 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
21186981 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
21187010 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
21187026 ATCTCGTCAC
Statistics
Matches: 116, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
28 2 0.02
29 114 0.98
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:21194842 original size:29 final size:29
Alignment explanation
Indices: 21194808--21194952 Score: 175
Period size: 29 Copynumber: 5.0 Consensus size: 29
21194798 TACTCGATTT
** * *
21194808 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
21194837 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
21194866 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
21194895 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
21194924 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
21194953 AATCTCGTCA
Statistics
Matches: 100, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 98 0.98
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:21203960 original size:26 final size:26
Alignment explanation
Indices: 21203924--21204033 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
21203914 CATGAAATTC
*
21203924 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
21203950 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
21203976 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
21204002 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
21204028 TTATCA
1 TTATCA
21204034 ATTTGTATTA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:21208231 original size:26 final size:26
Alignment explanation
Indices: 21208202--21208254 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
21208192 TCAAACATGC
21208202 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
21208228 ATTTCGGTAATTTACCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
21208254 A
1 A
21208255 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:21209770 original size:26 final size:26
Alignment explanation
Indices: 21209734--21209843 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
21209724 CATGAAATTC
*
21209734 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
21209760 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
21209786 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
21209812 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
21209838 TTATCA
1 TTATCA
21209844 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:21213339 original size:22 final size:22
Alignment explanation
Indices: 21213288--21213344 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
21213278 CATGCTAGGA
* *
21213288 GTTCGCACAACGCATAGATGAG
1 GTTCGCACAATGCATAGAAGAG
* * *
21213310 CTTTGCACAATGCATGGAAGAG
1 GTTCGCACAATGCATAGAAGAG
21213332 GTTCGCAC-ATGCA
1 GTTCGCACAATGCA
21213345 CATGTTCAAG
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
21 5 0.18
22 23 0.82
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (22 bp):
GTTCGCACAATGCATAGAAGAG
Found at i:21215965 original size:20 final size:20
Alignment explanation
Indices: 21215940--21215979 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
21215930 TTATGCCAAT
21215940 TTTATATAAA-AAATAAAAAA
1 TTTATATAAAGAAA-AAAAAA
21215960 TTTATATAAAGAAAAAAAAA
1 TTTATATAAAGAAAAAAAAA
21215980 CAAAATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (20 bp):
TTTATATAAAGAAAAAAAAA
Found at i:21217168 original size:18 final size:18
Alignment explanation
Indices: 21217138--21217186 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 18
21217128 ACAAAAGTCA
21217138 TAACTTCACAATAAGAAAG
1 TAACTT-ACAATAAGAAAG
*
21217157 TAACTTACAAT-AGGAAG
1 TAACTTACAATAAGAAAG
21217174 TGAAC-TACAATAA
1 T-AACTTACAATAA
21217187 TCATGACCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 12 0.44
18 9 0.33
19 6 0.22
ACGTcount: A:0.51, C:0.14, G:0.12, T:0.22
Consensus pattern (18 bp):
TAACTTACAATAAGAAAG
Found at i:21219697 original size:19 final size:19
Alignment explanation
Indices: 21219644--21219748 Score: 63
Period size: 19 Copynumber: 5.3 Consensus size: 19
21219634 TAATATAGAG
**
21219644 ATAAAAAATATATAATGGT
1 ATAAAAAATATATAATAAT
*
21219663 ATAAAAAATGTCATAATAAT
1 ATAAAAAATAT-ATAATAAT
*
21219683 ATAAAATAAT-TATAAGACAT
1 ATAAAA-AATATATAATA-AT
*
21219703 AATATGAAAATATAT-AT-AT
1 -ATA-AAAAATATATAATAAT
*
21219722 GTAAAAATAATATATAATATAT
1 AT-AAAA-AATATATAATA-AT
21219744 ATAAA
1 ATAAA
21219749 TAATCAATAA
Statistics
Matches: 66, Mismatches: 9, Indels: 20
0.69 0.09 0.21
Matches are distributed among these distances:
18 3 0.05
19 25 0.38
20 17 0.26
21 13 0.20
22 8 0.12
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (19 bp):
ATAAAAAATATATAATAAT
Found at i:21219750 original size:17 final size:17
Alignment explanation
Indices: 21219737--21219804 Score: 51
Period size: 17 Copynumber: 4.3 Consensus size: 17
21219727 AATAATATAT
*
21219737 AATATATATAAATAATC
1 AATAAATATAAATAATC
21219754 AATAAATAT-AAT-A-C
1 AATAAATATAAATAATC
*
21219768 AAGTAAA-A-ATATAA-C
1 AA-TAAATATAAATAATC
21219783 AATAATATATAAATAAT-
1 AATAA-ATATAAATAATC
21219800 AATAA
1 AATAA
21219805 TGTAAAATAA
Statistics
Matches: 41, Mismatches: 3, Indels: 14
0.71 0.05 0.24
Matches are distributed among these distances:
14 9 0.22
15 10 0.24
16 4 0.10
17 18 0.44
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.29
Consensus pattern (17 bp):
AATAAATATAAATAATC
Found at i:21219872 original size:16 final size:17
Alignment explanation
Indices: 21219851--21219895 Score: 58
Period size: 16 Copynumber: 2.7 Consensus size: 17
21219841 ATAAATAATG
*
21219851 ATAATATGAATAG-TAT
1 ATAATATAAATAGTTAT
21219867 ATAATA-AAATAGTTAT
1 ATAATATAAATAGTTAT
21219883 ATAATATATAATA
1 ATAATATA-AATA
21219896 TAAAAATAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 5 0.20
16 15 0.60
17 1 0.04
18 4 0.16
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.38
Consensus pattern (17 bp):
ATAATATAAATAGTTAT
Found at i:21229761 original size:4 final size:4
Alignment explanation
Indices: 21229754--21229779 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
21229744 ATTAAATAAA
21229754 TATT TATT TATT TATT TATT TATT TA
1 TATT TATT TATT TATT TATT TATT TA
21229780 AGCCCGGCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
TATT
Found at i:21237329 original size:80 final size:80
Alignment explanation
Indices: 21237245--21237393 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
21237235 TATGGTAACC
* * * *
21237245 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
21237309 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
21237325 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
21237390 CCGG
66 CCGG
21237394 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:21237335 original size:40 final size:38
Alignment explanation
Indices: 21237286--21237393 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
21237276 ATCACGATTT
*
21237286 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
21237326 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
21237366 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
21237394 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:21244633 original size:80 final size:80
Alignment explanation
Indices: 21244549--21244697 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
21244539 TATGGTAACC
* * * *
21244549 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
21244613 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
21244629 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
21244694 CCGG
66 CCGG
21244698 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:21244639 original size:40 final size:38
Alignment explanation
Indices: 21244590--21244697 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
21244580 ATCACGATTT
*
21244590 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
21244630 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
21244670 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
21244698 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:21252459 original size:27 final size:27
Alignment explanation
Indices: 21252405--21252478 Score: 114
Period size: 27 Copynumber: 2.8 Consensus size: 27
21252395 TGCATGGCTG
* *
21252405 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
21252431 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
21252458 CCAGATCAGATAATTGTGGCA
1 CCAGAACAGATAATTGTGGCA
21252479 TACCCACTAG
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
26 13 0.30
27 31 0.70
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:21252636 original size:26 final size:27
Alignment explanation
Indices: 21252607--21252666 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
21252597 GGGTATAATG
*
21252607 GTAATTTT-GCACCTAGGAGTATATC-A
1 GTAATTTTCGCACATAGGAGTAT-TCAA
* *
21252633 GTAATTTTCGTACATAGGGGTATTCAA
1 GTAATTTTCGCACATAGGAGTATTCAA
21252660 GTAATTT
1 GTAATTT
21252667 CACTATTCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 10 0.34
27 19 0.66
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (27 bp):
GTAATTTTCGCACATAGGAGTATTCAA
Found at i:21252655 original size:27 final size:26
Alignment explanation
Indices: 21252594--21252666 Score: 69
Period size: 27 Copynumber: 2.8 Consensus size: 26
21252584 AAAGTAACCC
* *
21252594 TAGGGGTATAAT-GGTAATTTTGCACC
1 TAGGGGTAT-ATCAGTAATTTTGCACA
* *
21252620 TAGGAGTATATCAGTAATTTTCGTACA
1 TAGGGGTATATCAGTAATTTT-GCACA
21252647 TAGGGGTAT-TCAAGTAATTT
1 TAGGGGTATATC-AGTAATTT
21252667 CACTATTCTT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
25 2 0.05
26 18 0.46
27 19 0.49
ACGTcount: A:0.30, C:0.10, G:0.23, T:0.37
Consensus pattern (26 bp):
TAGGGGTATATCAGTAATTTTGCACA
Found at i:21259529 original size:41 final size:43
Alignment explanation
Indices: 21259482--21259571 Score: 114
Period size: 43 Copynumber: 2.1 Consensus size: 43
21259472 TGAATATAAC
* * *
21259482 AATATAAATT-ACATAA-AATATATATAAT-AATATTTCATGCA
1 AATATAAATTAAAATAACAACATAAATAATCAAT-TTTCATGCA
*
21259523 AATATAACTTAAAATAACAACATAAATAATCAATTTTCATGCA
1 AATATAAATTAAAATAACAACATAAATAATCAATTTTCATGCA
21259566 AATATA
1 AATATA
21259572 TAAAAATAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
41 9 0.21
42 5 0.12
43 25 0.60
44 3 0.07
ACGTcount: A:0.54, C:0.10, G:0.02, T:0.33
Consensus pattern (43 bp):
AATATAAATTAAAATAACAACATAAATAATCAATTTTCATGCA
Found at i:21259541 original size:118 final size:111
Alignment explanation
Indices: 21259318--21259529 Score: 253
Period size: 111 Copynumber: 1.8 Consensus size: 111
21259308 AACTACATGA
* * * ** *
21259318 TACATACTTTAACATTTCATGCAAATATAATATAGAAAATGATAAATAACGACATAAATTACATA
1 TACATACATTAACATTTCATGAAAATACAATATAGAAAACAATAAATAACAACATAAATTACATA
**
21259383 ATATACATTAACATTTCATACTGATATAATCATAAATAACATAATG
66 ATATACATTAACATTTCATACAAATATAATCATAAATAACATAATG
*
21259429 TACATACATTAACATTTCATGTAAAATACAATATAGAAAACAATGAATATAACAATATAAATTAC
1 TACATACATTAACATTTCATG-AAAATACAATATAGAAAACAAT-AA-ATAACAACATAAATTAC
* * *
21259494 ATAAAATATATATAATAATATTTCATGCAAATATAA
63 AT--AATATACAT--TAACATTTCATACAAATATAA
21259530 CTTAAAATAA
Statistics
Matches: 82, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
111 20 0.24
112 18 0.22
113 2 0.02
114 17 0.21
116 8 0.10
118 17 0.21
ACGTcount: A:0.52, C:0.11, G:0.05, T:0.32
Consensus pattern (111 bp):
TACATACATTAACATTTCATGAAAATACAATATAGAAAACAATAAATAACAACATAAATTACATA
ATATACATTAACATTTCATACAAATATAATCATAAATAACATAATG
Found at i:21260029 original size:33 final size:33
Alignment explanation
Indices: 21259974--21260048 Score: 98
Period size: 33 Copynumber: 2.2 Consensus size: 33
21259964 TTTACAAATT
* *
21259974 TTAAAATTATACATAATATAATAAGTAATATAAA
1 TTAAAA-TATACATAATATAATAAATAATACAAA
21260008 TTAAAATATA-AGTAATATAATAAATAATACAAA
1 TTAAAATATACA-TAATATAATAAATAATACAAA
*
21260041 ATAAAATA
1 TTAAAATA
21260049 AATATTTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
32 1 0.03
33 30 0.81
34 6 0.16
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (33 bp):
TTAAAATATACATAATATAATAAATAATACAAA
Found at i:21260036 original size:21 final size:21
Alignment explanation
Indices: 21259994--21260052 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
21259984 ACATAATATA
*
21259994 ATAAGTAATATAAATTAA-AAT
1 ATAAGTAATAT-AATAAATAAT
21260015 ATAAGTAATATAATAAATAAT
1 ATAAGTAATATAATAAATAAT
* *
21260036 ACAA--AATAAAATAAATA
1 ATAAGTAATATAATAAATA
21260053 TTTTTTCATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 12 0.35
20 5 0.15
21 17 0.50
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (21 bp):
ATAAGTAATATAATAAATAAT
Found at i:21266122 original size:16 final size:18
Alignment explanation
Indices: 21266103--21266135 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
21266093 CATACTAGAT
21266103 CCAAAAC-ATA-ATAGTA
1 CCAAAACGATAGATAGTA
21266119 CCAAAACGATAGATAGT
1 CCAAAACGATAGATAGT
21266136 GTGACGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.52, C:0.18, G:0.12, T:0.18
Consensus pattern (18 bp):
CCAAAACGATAGATAGTA
Found at i:21266762 original size:45 final size:45
Alignment explanation
Indices: 21266660--21266833 Score: 239
Period size: 45 Copynumber: 3.9 Consensus size: 45
21266650 CGAATTCATC
* ** * *
21266660 CACCGGCATT-TTGCCTGCTAGGCTTGAA-GCCTG-ATA-TCATTT
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATCT
*
21266702 CACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATCT
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCT
*
21266747 CACTGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCT
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCT
*
21266792 CACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
21266834 CTGTACGATA
Statistics
Matches: 120, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
42 10 0.08
43 16 0.13
44 4 0.03
45 89 0.74
46 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (45 bp):
CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCT
Found at i:21269546 original size:14 final size:15
Alignment explanation
Indices: 21269513--21269550 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
21269503 TGCACTATCA
*
21269513 ATAAAATTCACATGTT
1 ATAAAATT-ACATATT
21269529 ATAAAATT-CATATT
1 ATAAAATTACATATT
21269543 ATAAAATT
1 ATAAAATT
21269551 TATTTTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.62
16 8 0.38
ACGTcount: A:0.50, C:0.08, G:0.03, T:0.39
Consensus pattern (15 bp):
ATAAAATTACATATT
Found at i:21270160 original size:24 final size:24
Alignment explanation
Indices: 21270129--21270176 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
21270119 AATATACATA
21270129 GTATTAAGCATTCAAAAATAATCT
1 GTATTAAGCATTCAAAAATAATCT
21270153 GTATTAAGCATTCAAAAATAATCT
1 GTATTAAGCATTCAAAAATAATCT
21270177 AACTTATCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.12, G:0.08, T:0.33
Consensus pattern (24 bp):
GTATTAAGCATTCAAAAATAATCT
Found at i:21274015 original size:40 final size:39
Alignment explanation
Indices: 21273956--21274203 Score: 237
Period size: 40 Copynumber: 6.2 Consensus size: 39
21273946 CAATTGAATG
* * * **
21273956 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-GGTTGTT
* * * *
21273996 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-GGTTG-TT
* *
21274036 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCG-GTTGTT
* *
21274076 AAATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCG-GTTGTT
* * * *
21274116 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-GGTTGTT
* * * *
21274156 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-GGTTGTT
21274196 ATATCCGG
1 ATATCCGG
21274204 TCGTATTCTG
Statistics
Matches: 177, Mismatches: 27, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
40 175 0.99
41 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGGTTGTT
Found at i:21274091 original size:80 final size:81
Alignment explanation
Indices: 21273958--21274187 Score: 272
Period size: 80 Copynumber: 2.9 Consensus size: 81
21273948 ATTGAATGAT
* * * * *
21273958 ATCCGGGCTAAGTCCCGAAGACATTTATGCTG-GTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
* *
21274022 TT-GTGCTAG-TGACTAC
65 TTCGTGCGAGTTG-CTAA
* * *
21274038 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGCTAAGACCCGAAGGC-AT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
*
21274102 TCGTGCGAGTTGTTAA
66 TCGTGCGAGTTGCTAA
* * * *
21274118 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCTATCCGGGCTAAGACCCGAAGGC-AT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
21274182 TCGTGC
66 TCGTGC
21274188 ATGTGGTTAT
Statistics
Matches: 130, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
79 4 0.03
80 124 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (81 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTAGTTATATCCGGGCTAAGACCCGAAGGCAAT
TCGTGCGAGTTGCTAA
Found at i:21274202 original size:120 final size:119
Alignment explanation
Indices: 21273956--21274203 Score: 304
Period size: 120 Copynumber: 2.1 Consensus size: 119
21273946 CAATTGAATG
* * * *
21273956 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGTAATTAAATCCGGGCTAAGACCCGAAGGCA
* *
21274021 ATTGTGCTAGTGACTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
66 ATTGTGCAAGTGACTA-ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGGTT
* * * ** *
21274076 AAATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGACATTCATGCTG-GTAATTAAATCCGGGCTAAGACCCGAAGGC
* *
21274140 ATTTGTGCAAGTCGTTCT-ATCCGGGCTAAGACCCGAAGGCATTCGTGC-ATGTGGTT
65 AATTGTGCAAGT-G-ACTAATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGGTT
21274196 ATATCCGG
1 ATATCCGG
21274204 TCGTATTCTG
Statistics
Matches: 109, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
119 2 0.02
120 104 0.95
121 1 0.01
122 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (119 bp):
ATATCCGGGCTAAGACCCGAAGACATTCATGCTGGTAATTAAATCCGGGCTAAGACCCGAAGGCA
ATTGTGCAAGTGACTAATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGGTT
Found at i:21278994 original size:40 final size:40
Alignment explanation
Indices: 21278942--21279169 Score: 291
Period size: 40 Copynumber: 5.7 Consensus size: 40
21278932 GCCACTAGCT
* *
21278942 CAAATGCCTTCGGGACTTAGCCCGGTTATGGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
21278982 CAAATGCCTTCGGGACTTAGCCCGG-TATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
21279021 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
21279061 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * ** * *
21279101 CGAATGCCTTCGGGACTTAGCCCGG-AATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
21279141 CAAATG-CTCTCGGGACTTAGCCCGGTTAT
1 CAAATGCCT-TCGGGACTTAGCCCGGTTAT
21279170 CATCCGAACA
Statistics
Matches: 170, Mismatches: 14, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
39 39 0.23
40 130 0.76
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:21279145 original size:80 final size:77
Alignment explanation
Indices: 21278942--21279166 Score: 276
Period size: 79 Copynumber: 2.8 Consensus size: 77
21278932 GCCACTAGCT
* *
21278942 CAAATGCCTTCGGGACTTAGCCCGGTTATGGTA-ACTTGCACAAATGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGG-AAT--TAGACTAGCACAAATGCCTTCGGGACTTAGCCCG
21279006 GTATAATAACTCGCA
63 GTATAATAACTCGCA
*
21279021 CAAATGCCTTCGGGACTTAGCCCGGATATAATAG-CTCGCACAAATGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGA-AT--TAGACTAGCACAAATGCCTTCGGGACTTAGCCCG
* *
21279085 GATATAGTAGCTCGCA
63 G-TATAATAACTCGCA
* *
21279101 CGAATGCCTTCGGGACTTAGCCCGGAATTAGCCACTAGCTCAAATG-CTCTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAG--ACTAGCACAAATGCCT-TCGGGACTTAGCCCG
21279165 GT
63 GT
21279167 TATCATCCGA
Statistics
Matches: 130, Mismatches: 9, Indels: 14
0.85 0.06 0.09
Matches are distributed among these distances:
77 3 0.02
79 64 0.49
80 63 0.48
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (77 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGACTAGCACAAATGCCTTCGGGACTTAGCCCGGTA
TAATAACTCGCA
Found at i:21287114 original size:40 final size:40
Alignment explanation
Indices: 21287062--21287289 Score: 282
Period size: 40 Copynumber: 5.7 Consensus size: 40
21287052 GCCACTAGCT
* *
21287062 CAAATGCCTTCGGGACTTAGCCCGGTTATGGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
21287102 CAAATGCCTTCGGGACTTAGCCCGG-TATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
21287141 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
21287181 CAAACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * ** * *
21287221 CGAATGCCTTCGGGACTTAGCCCGG-AATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
21287261 CAAATG-CTCTCGGGACTTAGCCCGGTTAT
1 CAAATGCCT-TCGGGACTTAGCCCGGTTAT
21287290 CATCCGAACA
Statistics
Matches: 168, Mismatches: 16, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
39 39 0.23
40 128 0.76
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:21287160 original size:79 final size:80
Alignment explanation
Indices: 21287062--21287246 Score: 282
Period size: 79 Copynumber: 2.3 Consensus size: 80
21287052 GCCACTAGCT
* ** * *
21287062 CAAATGCCTTCGGGACTTAGCCCGGTTATGGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGGGACTTAGCCCGG
21287127 -TATAATAACTCGCA
66 ATATAATAACTCGCA
*
21287141 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCACAAACGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGGGACTTAGCCCGG
* *
21287206 ATATAGTAGCTCGCA
66 ATATAATAACTCGCA
*
21287221 CGAATGCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
21287247 ATTAGCCACT
Statistics
Matches: 96, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
79 59 0.61
80 37 0.39
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGGGACTTAGCCCGG
ATATAATAACTCGCA
Found at i:21287274 original size:80 final size:77
Alignment explanation
Indices: 21287062--21287286 Score: 267
Period size: 79 Copynumber: 2.8 Consensus size: 77
21287052 GCCACTAGCT
* *
21287062 CAAATGCCTTCGGGACTTAGCCCGGTTATGGTA-ACTTGCACAAATGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGG-AAT--TAGACTAGCACAAATGCCTTCGGGACTTAGCCCG
21287126 GTATAATAACTCGCA
63 GTATAATAACTCGCA
* *
21287141 CAAATGCCTTCGGGACTTAGCCCGGATATAATAG-CTCGCACAAACGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGA-AT--TAGACTAGCACAAATGCCTTCGGGACTTAGCCCG
* *
21287205 GATATAGTAGCTCGCA
63 G-TATAATAACTCGCA
* *
21287221 CGAATGCCTTCGGGACTTAGCCCGGAATTAGCCACTAGCTCAAATG-CTCTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAG--ACTAGCACAAATGCCT-TCGGGACTTAGCCCG
21287285 GT
63 GT
21287287 TATCATCCGA
Statistics
Matches: 128, Mismatches: 11, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
77 3 0.02
79 63 0.49
80 62 0.48
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.23
Consensus pattern (77 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGACTAGCACAAATGCCTTCGGGACTTAGCCCGGTA
TAATAACTCGCA
Found at i:21298181 original size:31 final size:31
Alignment explanation
Indices: 21298122--21298181 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
21298112 TAATTTCTAA
* **
21298122 GTTATTATTATAAGGGTAAAAATGTAAAATG
1 GTTATTATTATAAGGATAAAAAAATAAAATG
21298153 GTTATTATTATAA-GATAAATAAAATAAAA
1 GTTATTATTATAAGGATAAA-AAAATAAAA
21298182 CAAATAAAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 5 0.20
31 20 0.80
ACGTcount: A:0.52, C:0.00, G:0.13, T:0.35
Consensus pattern (31 bp):
GTTATTATTATAAGGATAAAAAAATAAAATG
Found at i:21299029 original size:23 final size:23
Alignment explanation
Indices: 21299003--21299061 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
21298993 AGCTCATTGG
21299003 AGCTTACTGATTCAGCTCAAAAA
1 AGCTTACTGATTCAGCTCAAAAA
* * *
21299026 AGCTTACCGATTCAGCTCGAAAG
1 AGCTTACTGATTCAGCTCAAAAA
21299049 AGCTTACTG-TTCA
1 AGCTTACTGATTCA
21299062 TCAGCTGAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 4 0.12
23 28 0.88
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (23 bp):
AGCTTACTGATTCAGCTCAAAAA
Found at i:21304032 original size:32 final size:31
Alignment explanation
Indices: 21303996--21304066 Score: 72
Period size: 33 Copynumber: 2.2 Consensus size: 31
21303986 ACGGTCAGAC
*
21303996 TGAGAGAGTTATTC-AGATTCTTGAAGATATGT
1 TGAGAGAGTTATTCTAGAGT-TTGAAGATA-GT
**
21304028 TGAGATGTTTTATTCTAGAGTTTGAAGATAGT
1 TGAGA-GAGTTATTCTAGAGTTTGAAGATAGT
*
21304060 TGGGAGA
1 TGAGAGA
21304067 AATACTTGAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
31 1 0.03
32 11 0.34
33 16 0.50
34 4 0.12
ACGTcount: A:0.30, C:0.04, G:0.28, T:0.38
Consensus pattern (31 bp):
TGAGAGAGTTATTCTAGAGTTTGAAGATAGT
Found at i:21305156 original size:31 final size:31
Alignment explanation
Indices: 21305097--21305156 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
21305087 TGATTTGTAA
* **
21305097 GTTATTATTATAAGGGTAAAAATGTAAAATG
1 GTTATTATTATAAGGATAAAAAAATAAAATG
21305128 GTTATTATTATAA-GATAAATAAAATAAAA
1 GTTATTATTATAAGGATAAA-AAAATAAAA
21305157 AAATAAAGGC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 5 0.20
31 20 0.80
ACGTcount: A:0.52, C:0.00, G:0.13, T:0.35
Consensus pattern (31 bp):
GTTATTATTATAAGGATAAAAAAATAAAATG
Found at i:21306043 original size:23 final size:23
Alignment explanation
Indices: 21306017--21306104 Score: 74
Period size: 23 Copynumber: 3.8 Consensus size: 23
21306007 GTACTCACCA
* * *
21306017 CAGCTCGTAAGAGCTTACTGTTT
1 CAGCTCATAAGAGCTTACCGATT
**
21306040 CAGCTCATTGGAGCTTACCGATT
1 CAGCTCATAAGAGCTTACCGATT
21306063 CAGCTCA-ATAGAGCTTACC-ATTTT
1 CAGCTCATA-AGAGCTTACCGA--TT
21306087 CAGCTCAATAA-AGCTTAC
1 CAGCTC-ATAAGAGCTTAC
21306105 TATTCATCAG
Statistics
Matches: 53, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
22 1 0.02
23 34 0.64
24 15 0.28
25 2 0.04
26 1 0.02
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (23 bp):
CAGCTCATAAGAGCTTACCGATT
Found at i:21306093 original size:24 final size:24
Alignment explanation
Indices: 21306037--21306119 Score: 89
Period size: 24 Copynumber: 3.5 Consensus size: 24
21306027 GAGCTTACTG
* *
21306037 TTTCAGCTCATTGGAGCTTACCGA-
1 TTTCAGCTCAATAGAGCTTACC-AT
21306061 -TTCAGCTCAATAGAGCTTACCAT
1 TTTCAGCTCAATAGAGCTTACCAT
* *
21306084 TTTCAGCTCAATAAAGCTTACTAT
1 TTTCAGCTCAATAGAGCTTACCAT
*
21306108 TCATCAGCTCAA
1 T-TTCAGCTCAA
21306120 AAGGAGTTTA
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
22 1 0.02
23 19 0.37
24 22 0.43
25 9 0.18
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (24 bp):
TTTCAGCTCAATAGAGCTTACCAT
Found at i:21310532 original size:42 final size:43
Alignment explanation
Indices: 21310431--21310595 Score: 144
Period size: 43 Copynumber: 3.8 Consensus size: 43
21310421 AGCTCGTACA
*
21310431 ATGCCAAC-GTCCTAGACATGGTCTTACATGTAATCAAATATCG
1 ATGCC-ACTGTCCTAGACATGGTCTTACATGAAATCAAATATCG
* * *
21310474 ATGCCACTATCTTAGACA-GGTTCTTACATGAAATCATATAT-G
1 ATGCCACTGTCCTAGACATGG-TCTTACATGAAATCAAATATCG
***
21310516 ATGCCGA-TGTCCTAGACATGGTCTTACATGTAAAT-TTCTAGTCG
1 ATGCC-ACTGTCCTAGACATGGTCTTACATG-AAATCAAATA-TCG
* * *
21310560 ATGCCAAC-GTCCCAGACGTGGTCTTACATGATATCA
1 ATGCC-ACTGTCCTAGACATGGTCTTACATGAAATCA
21310596 CACCTCGGAA
Statistics
Matches: 100, Mismatches: 13, Indels: 17
0.77 0.10 0.13
Matches are distributed among these distances:
42 31 0.31
43 42 0.42
44 27 0.27
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (43 bp):
ATGCCACTGTCCTAGACATGGTCTTACATGAAATCAAATATCG
Found at i:21312341 original size:15 final size:15
Alignment explanation
Indices: 21312321--21312350 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21312311 CTATGCATGC
*
21312321 AAAATAGAAAAGACA
1 AAAATACAAAAGACA
21312336 AAAATACAAAAGACA
1 AAAATACAAAAGACA
21312351 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.73, C:0.10, G:0.10, T:0.07
Consensus pattern (15 bp):
AAAATACAAAAGACA
Found at i:21312490 original size:47 final size:47
Alignment explanation
Indices: 21312412--21312506 Score: 163
Period size: 47 Copynumber: 2.0 Consensus size: 47
21312402 ATAGAAAATA
21312412 GTTACATGTTTACTACAATATGGGCACATTTTCCAACAACGGGTGTT
1 GTTACATGTTTACTACAATATGGGCACATTTTCCAACAACGGGTGTT
* * *
21312459 GTTATATGTTTACTACAATATGGGCATATTTTCCAACAATGGGTGTT
1 GTTACATGTTTACTACAATATGGGCACATTTTCCAACAACGGGTGTT
21312506 G
1 G
21312507 GGGAAAATAC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (47 bp):
GTTACATGTTTACTACAATATGGGCACATTTTCCAACAACGGGTGTT
Found at i:21316392 original size:26 final size:26
Alignment explanation
Indices: 21316340--21316392 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
21316330 ATTTTTGTTA
*
21316340 AGTTATAAATTATAAATATATTATTT
1 AGTTATAAATTATAAATAAATTATTT
*
21316366 AGTTATAAATTAT-ATTAAATTACTTT
1 AGTTATAAATTATAAATAAATTA-TTT
21316392 A
1 A
21316393 AAATAATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (26 bp):
AGTTATAAATTATAAATAAATTATTT
Found at i:21316727 original size:21 final size:19
Alignment explanation
Indices: 21316703--21316741 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
21316693 TTTTTATTTA
21316703 ATTAGTAAATAGATATTTATT
1 ATTAGTAAA-A-ATATTTATT
*
21316724 ATTATTAAAAATATTTAT
1 ATTAGTAAAAATATTTAT
21316742 GAGACAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 1 0.06
21 8 0.47
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (19 bp):
ATTAGTAAAAATATTTATT
Found at i:21318124 original size:19 final size:20
Alignment explanation
Indices: 21318080--21318134 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 20
21318070 ATTGAAAAGA
*
21318080 AATATGAATATG-GAATATG
1 AATATGAAAATGTGAATATG
*
21318099 -ATTTGAAAATGTGAAT-TG
1 AATATGAAAATGTGAATATG
21318117 AATATGAAAATGTGAATA
1 AATATGAAAATGTGAATA
21318135 GAAAGCATGA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 11 0.37
19 19 0.63
ACGTcount: A:0.47, C:0.00, G:0.20, T:0.33
Consensus pattern (20 bp):
AATATGAAAATGTGAATATG
Found at i:21324312 original size:18 final size:20
Alignment explanation
Indices: 21324289--21324335 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 20
21324279 TTTATTATCT
*
21324289 ATTATTATTA-AATTAAATA
1 ATTATTATAATAATTAAATA
21324308 A-TATT-TAATAATTAAATA
1 ATTATTATAATAATTAAATA
21324326 ATTATTATAA
1 ATTATTATAA
21324336 GATTTTTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
17 2 0.08
18 14 0.58
19 5 0.21
20 3 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATTATTATAATAATTAAATA
Found at i:21326047 original size:40 final size:40
Alignment explanation
Indices: 21326002--21326168 Score: 187
Period size: 40 Copynumber: 4.2 Consensus size: 40
21325992 GGAATACAAT
*
21326002 CGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCC
1 CGGATATAACCACACGCACGAATGCCTTCGGGTATTAGCC
* * * *
21326042 CGGATATAACGACTCGTACAAATGCCTTCGGGTATTAGCC
1 CGGATATAACCACACGCACGAATGCCTTCGGGTATTAGCC
* **
21326082 CGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGCC
1 CGGATATAACCACACGCACGAATGCCTTCGGGTATTAGCC
* * *
21326122 CGGATA-AAGTCACTA-GCAC-AATTGCCTTCGGGTCTTAACC
1 CGGATATAA-CCAC-ACGCACGAA-TGCCTTCGGGTATTAGCC
21326162 CGGATAT
1 CGGATAT
21326169 CATTCAATTG
Statistics
Matches: 109, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
39 4 0.04
40 105 0.96
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CGGATATAACCACACGCACGAATGCCTTCGGGTATTAGCC
Found at i:21326148 original size:80 final size:80
Alignment explanation
Indices: 21326002--21326168 Score: 221
Period size: 80 Copynumber: 2.1 Consensus size: 80
21325992 GGAATACAAT
* * * *
21326002 CGGATATAACCACACGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTCGTACAAATGC
1 CGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACGACTAGCACAAATGC
*
21326067 CTTCGGGTATTAGCC
66 CTTCGGGTATTAACC
** *
21326082 CGGATATAACAACTTGCACGAATGCCTTCGGGTATTAGCCCGGATA-AA-GTCACTAGCACAATT
1 CGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACG--ACTAGCACAAAT
*
21326145 GCCTTCGGGTCTTAACC
64 GCCTTCGGGTATTAACC
21326162 CGGATAT
1 CGGATAT
21326169 CATTCAATTG
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
78 1 0.01
79 2 0.03
80 73 0.96
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (80 bp):
CGGATATAACAACACGCACGAATGCCTTCGGGTATTAGCCCGGATATAACGACTAGCACAAATGC
CTTCGGGTATTAACC
Found at i:21328660 original size:18 final size:18
Alignment explanation
Indices: 21328637--21328680 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
21328627 TTTGTGATCA
21328637 AAATTGAAAGTGAAAGTG
1 AAATTGAAAGTGAAAGTG
*
21328655 AAATTGAAATTGAAAGTG
1 AAATTGAAAGTGAAAGTG
*
21328673 ATATTGAA
1 AAATTGAA
21328681 TTGAGAAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.23, T:0.27
Consensus pattern (18 bp):
AAATTGAAAGTGAAAGTG
Found at i:21328662 original size:12 final size:12
Alignment explanation
Indices: 21328637--21328680 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
21328627 TTTGTGATCA
21328637 AAATTGAAAGTG
1 AAATTGAAAGTG
* *
21328649 AAAGTGAAATTG
1 AAATTGAAAGTG
21328661 AAATTGAAAGTG
1 AAATTGAAAGTG
*
21328673 ATATTGAA
1 AAATTGAA
21328681 TTGAGAAAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.50, C:0.00, G:0.23, T:0.27
Consensus pattern (12 bp):
AAATTGAAAGTG
Found at i:21330773 original size:60 final size:60
Alignment explanation
Indices: 21330627--21330820 Score: 225
Period size: 60 Copynumber: 3.2 Consensus size: 60
21330617 ATTTAATAAA
* * *
21330627 TTTAGGTACCAAATTGA-ACCTAAAAAAAGCTTAGGTA-TCAAATTAGAAAAAAAATATCAAG
1 TTTAGGTACCAAATTGAGACC-AAAAAAAGTTTAGGTACT-AAATTAG-GAAAAAGTATCAAG
* *
21330688 TTTAGGTACTAAATTGAGACC-AAAAAAGTTTAGGTACTAAATTAGGAAAAAGTGTCAAG
1 TTTAGGTACCAAATTGAGACCAAAAAAAGTTTAGGTACTAAATTAGGAAAAAGTATCAAG
* * * * * *
21330747 TTCAGGTACCGAATT-AGGCCAAAAAAAAGTTTAAGTACCAAATTAGGAAAAAGTATCAAA
1 TTTAGGTACCAAATTGAGACC-AAAAAAAGTTTAGGTACTAAATTAGGAAAAAGTATCAAG
21330807 TTTAGGTACCAAAT
1 TTTAGGTACCAAAT
21330821 ATTATATTAA
Statistics
Matches: 114, Mismatches: 15, Indels: 9
0.83 0.11 0.07
Matches are distributed among these distances:
58 4 0.04
59 23 0.20
60 67 0.59
61 17 0.15
62 3 0.03
ACGTcount: A:0.47, C:0.11, G:0.16, T:0.25
Consensus pattern (60 bp):
TTTAGGTACCAAATTGAGACCAAAAAAAGTTTAGGTACTAAATTAGGAAAAAGTATCAAG
Found at i:21330818 original size:31 final size:31
Alignment explanation
Indices: 21330657--21330820 Score: 121
Period size: 31 Copynumber: 5.4 Consensus size: 31
21330647 TAAAAAAAGC
* * *
21330657 TTAGGTATCAAATTAGAAAAAAAATATCAAGT
1 TTAGGTACCAAATTAG-GAAAAAGTATCAAGT
* *
21330689 TTAGGTACTAAATT-GAGACCAAA--A--AAGT
1 TTAGGTACCAAATTAG-GA-AAAAGTATCAAGT
* *
21330717 TTAGGTACTAAATTAGGAAAAAGTGTCAAGT
1 TTAGGTACCAAATTAGGAAAAAGTATCAAGT
* *
21330748 TCAGGTACCGAATTAGGCCAAAAA--A--AAGT
1 TTAGGTACCAAATTAGG--AAAAAGTATCAAGT
* *
21330777 TTAAGTACCAAATTAGGAAAAAGTATCAAAT
1 TTAGGTACCAAATTAGGAAAAAGTATCAAGT
21330808 TTAGGTACCAAAT
1 TTAGGTACCAAAT
21330821 ATTATATTAA
Statistics
Matches: 105, Mismatches: 15, Indels: 25
0.72 0.10 0.17
Matches are distributed among these distances:
27 8 0.08
28 20 0.19
29 20 0.19
30 1 0.01
31 36 0.34
32 15 0.14
33 5 0.05
ACGTcount: A:0.47, C:0.10, G:0.17, T:0.26
Consensus pattern (31 bp):
TTAGGTACCAAATTAGGAAAAAGTATCAAGT
Found at i:21332843 original size:30 final size:30
Alignment explanation
Indices: 21332809--21332868 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
21332799 ACTTAACAAG
*
21332809 CAAATACCTCTAAAATAATAATAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
* *
21332839 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
21332869 TAATAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.58, C:0.13, G:0.02, T:0.27
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:21333820 original size:20 final size:20
Alignment explanation
Indices: 21333795--21333838 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
21333785 GAGGTTTTTT
21333795 TATATT-TTTAAATTTTATTA
1 TATATTCTTT-AATTTTATTA
* *
21333815 TATATTCTTTAGTTTTATTT
1 TATATTCTTTAATTTTATTA
21333835 TATA
1 TATA
21333839 AATTTTTTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (20 bp):
TATATTCTTTAATTTTATTA
Found at i:21334714 original size:39 final size:40
Alignment explanation
Indices: 21334640--21334715 Score: 109
Period size: 39 Copynumber: 1.9 Consensus size: 40
21334630 TACACACCAC
* * *
21334640 ATGGGGATAAAATCAACTCACCCAGCCCTACACACCAAGT
1 ATGGGGATAAAATAAACCCACCCAACCCTACACACCAAGT
*
21334680 ATGGGGAT-AAATAAACCCATCCAACCCTACACACCA
1 ATGGGGATAAAATAAACCCACCCAACCCTACACACCA
21334716 TAAGGAACCA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
39 24 0.75
40 8 0.25
ACGTcount: A:0.39, C:0.33, G:0.13, T:0.14
Consensus pattern (40 bp):
ATGGGGATAAAATAAACCCACCCAACCCTACACACCAAGT
Found at i:21337590 original size:26 final size:26
Alignment explanation
Indices: 21337561--21337642 Score: 164
Period size: 26 Copynumber: 3.2 Consensus size: 26
21337551 TGGTACAAAT
21337561 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
21337587 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
21337613 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
21337639 TGAT
1 TGAT
21337643 GGGAATTTCA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:21338552 original size:31 final size:31
Alignment explanation
Indices: 21338517--21338579 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
21338507 AGTGAAATTA
21338517 TGATTATGTGGTAAACATTGACAAAAATTTG
1 TGATTATGTGGTAAACATTGACAAAAATTTG
21338548 TGATTATGTGGTAAACATTGACAAAAATTTG
1 TGATTATGTGGTAAACATTGACAAAAATTTG
21338579 T
1 T
21338580 TCATGAGTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.38, C:0.06, G:0.19, T:0.37
Consensus pattern (31 bp):
TGATTATGTGGTAAACATTGACAAAAATTTG
Found at i:21343045 original size:21 final size:19
Alignment explanation
Indices: 21343008--21343053 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
21342998 TTCCAAATAT
21343008 ATTTTT-AAAAAGTTGATTGA
1 ATTTTTGAAAAAGTTGA-T-A
21343028 ATTTTTGAAAAA-TATGATA
1 ATTTTTGAAAAAGT-TGATA
21343047 ATTTTTG
1 ATTTTTG
21343054 TGTTTGGATG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 8 0.33
20 8 0.33
21 8 0.33
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (19 bp):
ATTTTTGAAAAAGTTGATA
Found at i:21351792 original size:50 final size:49
Alignment explanation
Indices: 21351679--21351808 Score: 181
Period size: 50 Copynumber: 2.6 Consensus size: 49
21351669 CTGGTACGCA
* * **
21351679 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
* *
21351728 TAGTAGCCTACACTTAGTACTACACACGTGACCTCACCA-TCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAACAGTCTAATACACG
21351778 TAGTAGCCTGCACTTAGTACTACACACGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
21351809 TTACAGTTTT
Statistics
Matches: 72, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
49 28 0.39
50 40 0.56
51 4 0.06
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
Found at i:21351852 original size:101 final size:99
Alignment explanation
Indices: 21351679--21351863 Score: 246
Period size: 101 Copynumber: 1.8 Consensus size: 99
21351669 CTGGTACGCA
* * *
21351679 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACGTAGTAGCCTACACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGTAGCCTACACTTA
*
21351744 GTACTACACACGTGACCTCACCATCTAATACACG
66 GTACTACACACGCGACCTCACCATCTAATACACG
* ** * *
21351778 TAGTAGCCTGCACTTAGTACTACACACGTGA-TTACAGTTTTCGGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAG---TCGGGTACACATAGTAGCCTACAC
*
21351842 TTAGTACTACACATGCGACCTC
63 TTAGTACTACACACGCGACCTC
21351864 GCAATAGATC
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
98 4 0.05
99 29 0.40
101 40 0.55
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCGGGTACACATAGTAGCCTACACTTA
GTACTACACACGCGACCTCACCATCTAATACACG
Found at i:21354764 original size:16 final size:16
Alignment explanation
Indices: 21354745--21354794 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
21354735 TGATTTGGTT
21354745 CAATTCCTGATCTATA
1 CAATTCCTGATCTATA
* * *
21354761 CAATT-AT--TCAATT
1 CAATTCCTGATCTATA
21354774 CAATTCCTGATCTATA
1 CAATTCCTGATCTATA
21354790 CAATT
1 CAATT
21354795 ATTCAATTCA
Statistics
Matches: 25, Mismatches: 6, Indels: 6
0.68 0.16 0.16
Matches are distributed among these distances:
13 9 0.36
14 1 0.04
15 1 0.04
16 14 0.56
ACGTcount: A:0.34, C:0.22, G:0.04, T:0.40
Consensus pattern (16 bp):
CAATTCCTGATCTATA
Found at i:21354776 original size:29 final size:29
Alignment explanation
Indices: 21354743--21354807 Score: 130
Period size: 29 Copynumber: 2.2 Consensus size: 29
21354733 TTTGATTTGG
21354743 TTCAATTCCTGATCTATACAATTATTCAA
1 TTCAATTCCTGATCTATACAATTATTCAA
21354772 TTCAATTCCTGATCTATACAATTATTCAA
1 TTCAATTCCTGATCTATACAATTATTCAA
21354801 TTCAATT
1 TTCAATT
21354808 TATCAATTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.34, C:0.20, G:0.03, T:0.43
Consensus pattern (29 bp):
TTCAATTCCTGATCTATACAATTATTCAA
Found at i:21362818 original size:23 final size:22
Alignment explanation
Indices: 21362777--21362819 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
21362767 GCAATCTTAG
*
21362777 ATATGATATGTAATCTTAGAAT
1 ATATGATATGTAATATTAGAAT
*
21362799 ATATGATTTTGTAATATTAGA
1 ATATGA-TATGTAATATTAGA
21362820 GATTTGATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.40, C:0.02, G:0.14, T:0.44
Consensus pattern (22 bp):
ATATGATATGTAATATTAGAAT
Found at i:21367045 original size:19 final size:20
Alignment explanation
Indices: 21367008--21367046 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
21366998 GAGATTTTTT
21367008 ATTGTTTATTATGTGATGAA
1 ATTGTTTATTATGTGATGAA
21367028 ATTGTTT-TT-TGATGATGAA
1 ATTGTTTATTATG-TGATGAA
21367047 TAATAAATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 2 0.11
19 9 0.50
20 7 0.39
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.51
Consensus pattern (20 bp):
ATTGTTTATTATGTGATGAA
Found at i:21367776 original size:43 final size:42
Alignment explanation
Indices: 21367722--21367836 Score: 137
Period size: 43 Copynumber: 2.7 Consensus size: 42
21367712 GGCGTTGTGC
* *
21367722 CGGTGTATTATATCAGGTTTATTGCCTAGCAGGCTTTATATGT
1 CGGTGTATTATATCAGGTTTATTGCCTAGCAGGCTCTATA-CT
* * *
21367765 CGGTGTATTATATTAGGCTTATTGCCTAGCAGGCTCTGTACT
1 CGGTGTATTATATCAGGTTTATTGCCTAGCAGGCTCTATACT
21367807 -GGTGTATTATA-CTAGGCTTTA-TGCCTAGCA
1 CGGTGTATTATATC-AGG-TTTATTGCCTAGCA
21367837 AATTTTATGT
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
41 23 0.37
42 4 0.06
43 36 0.57
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.39
Consensus pattern (42 bp):
CGGTGTATTATATCAGGTTTATTGCCTAGCAGGCTCTATACT
Found at i:21367823 original size:41 final size:39
Alignment explanation
Indices: 21367699--21367836 Score: 134
Period size: 41 Copynumber: 3.3 Consensus size: 39
21367689 TATTCGGGCT
* * * *
21367699 TTATTGCCTAGTAGGCGTTGTGCCGGTGTATTATATCAGGT
1 TTATTGCCTAGCAGGC-TTGTACTGGTGTATTATAT-AGGC
* *
21367740 TTATTGCCTAGCAGGCTTTATATGTCGGTGTATTATATTAGGC
1 TTATTGCCTAGCAGGC-TTGTA-CT-GGTGTATTATA-TAGGC
21367783 TTATTGCCTAGCAGGCTCTGTACTGGTGTATTATACTAGGC
1 TTATTGCCTAGCAGGCT-TGTACTGGTGTATTATA-TAGGC
21367824 TT-TATGCCTAGCA
1 TTAT-TGCCTAGCA
21367837 AATTTTATGT
Statistics
Matches: 82, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
40 1 0.01
41 45 0.55
42 2 0.02
43 33 0.40
44 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.25, T:0.39
Consensus pattern (39 bp):
TTATTGCCTAGCAGGCTTGTACTGGTGTATTATATAGGC
Found at i:21371330 original size:27 final size:27
Alignment explanation
Indices: 21371300--21371486 Score: 232
Period size: 27 Copynumber: 6.9 Consensus size: 27
21371290 TGCCCTCGAC
*
21371300 TTGTAAAATCACCAAAATACCCCTGGT
1 TTGTAAAATTACCAAAATACCCCTGGT
* *
21371327 TTGTAAAATTACTAAAATACCCTTGGT
1 TTGTAAAATTACCAAAATACCCCTGGT
**
21371354 TTACAAAATTACCAAAATACCCCTGGT
1 TTGTAAAATTACCAAAATACCCCTGGT
* * *
21371381 TTGTAAAATTACTAAAATACCCTTTGT
1 TTGTAAAATTACCAAAATACCCCTGGT
* *
21371408 TTATAAAATTACCAAAATACCCATGGT
1 TTGTAAAATTACCAAAATACCCCTGGT
* *
21371435 TTGCAAAATTACTAAAATACCCCT-GT
1 TTGTAAAATTACCAAAATACCCCTGGT
**
21371461 AGGGTAAAATTACCAAAATACCCCTG
1 -TTGTAAAATTACCAAAATACCCCTG
21371487 TAGGGTAGAA
Statistics
Matches: 134, Mismatches: 24, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
26 2 0.01
27 132 0.99
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.30
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCCTGGT
Found at i:21371362 original size:54 final size:54
Alignment explanation
Indices: 21371304--21371486 Score: 264
Period size: 54 Copynumber: 3.4 Consensus size: 54
21371294 CTCGACTTGT
*
21371304 AAAATCACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTAC
* *
21371358 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTAT
1 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTAC
* * *
21371412 AAAATTACCAAAATACCCATGGTTTGCAAAATTACTAAAATACCCCTGTAGG-GT--
1 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATA-CCCT-T-GGTTTAC
21371466 AAAATTACCAAAATACCCCTG
1 AAAATTACCAAAATACCCCTG
21371487 TAGGGTAGAA
Statistics
Matches: 118, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
54 111 0.94
55 4 0.03
56 2 0.02
57 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.29
Consensus pattern (54 bp):
AAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTAC
Found at i:21371415 original size:81 final size:81
Alignment explanation
Indices: 21371300--21371486 Score: 259
Period size: 81 Copynumber: 2.3 Consensus size: 81
21371290 TGCCCTCGAC
* * * *
21371300 TTGTAAAATCACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTACAAAATTA
1 TTGTAAAATTACCAAAATACCCCTGGTTTATAAAATTACCAAAATACCCATGGTTTACAAAATTA
21371365 CCAAAATACCCCTGGT-
66 CCAAAATACCCCT-GTA
* * * *
21371381 TTGTAAAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCATGGTTTGCAAAATTA
1 TTGTAAAATTACCAAAATACCCCTGGTTTATAAAATTACCAAAATACCCATGGTTTACAAAATTA
*
21371446 CTAAAATACCCCTGTA
66 CCAAAATACCCCTGTA
**
21371462 GGGTAAAATTACCAAAATACCCCTG
1 TTGTAAAATTACCAAAATACCCCTG
21371487 TAGGGTAGAA
Statistics
Matches: 91, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
80 2 0.02
81 89 0.98
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.30
Consensus pattern (81 bp):
TTGTAAAATTACCAAAATACCCCTGGTTTATAAAATTACCAAAATACCCATGGTTTACAAAATTA
CCAAAATACCCCTGTA
Found at i:21372154 original size:28 final size:28
Alignment explanation
Indices: 21372122--21372176 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
21372112 CGTAGATCAC
21372122 GAAATTACCCCTAAAGAGCAAAATTACT
1 GAAATTACCCCTAAAGAGCAAAATTACT
*
21372150 GAAATTACCCCTAAAGAGTAAAATTAC
1 GAAATTACCCCTAAAGAGCAAAATTAC
21372177 CAATATACCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.47, C:0.20, G:0.11, T:0.22
Consensus pattern (28 bp):
GAAATTACCCCTAAAGAGCAAAATTACT
Found at i:21376733 original size:19 final size:20
Alignment explanation
Indices: 21376695--21376734 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
21376685 TGAGATTTTT
21376695 AATTGTTTATTATGTGATGA
1 AATTGTTTATTATGTGATGA
21376715 AATTGTTT-TT-TGATGATGA
1 AATTGTTTATTATG-TGATGA
21376734 A
1 A
21376735 TAATAAATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 2 0.11
19 9 0.47
20 8 0.42
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (20 bp):
AATTGTTTATTATGTGATGA
Found at i:21377467 original size:43 final size:41
Alignment explanation
Indices: 21377387--21377524 Score: 181
Period size: 41 Copynumber: 3.3 Consensus size: 41
21377377 TATTCGGGCT
*
21377387 TTATTGCCTAGCAAGCTTTGTGCCGGTGTATTATATCAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGC
* *
21377428 TTATTGCCTAGCAGGCTTTATATGCCGGTGTATTATATCAAGC
1 TTATTGCCTAGCAGGC-TT-TGTGCCGGTGTATTATATCAGGC
* *
21377471 TTATTGCTTAGCAGGCTCTGTGCCGGTGTATTATA-CTAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATC-AGGC
21377512 TT-TATGCCTAGCA
1 TTAT-TGCCTAGCA
21377525 AATTTTATGT
Statistics
Matches: 85, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
40 2 0.02
41 44 0.52
42 3 0.04
43 36 0.42
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (41 bp):
TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGC
Found at i:21381916 original size:16 final size:16
Alignment explanation
Indices: 21381895--21381925 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21381885 ATAATAATAC
21381895 AAAAATTAAAGATTTT
1 AAAAATTAAAGATTTT
*
21381911 AAAAATTAAATATTT
1 AAAAATTAAAGATTT
21381926 ATATATATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (16 bp):
AAAAATTAAAGATTTT
Found at i:21383856 original size:18 final size:18
Alignment explanation
Indices: 21383830--21383864 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
21383820 GAATTATTCG
*
21383830 AATCGAGTTAATCGAATT
1 AATCAAGTTAATCGAATT
21383848 AATCAAGTTAATCGAAT
1 AATCAAGTTAATCGAAT
21383865 CAACTCGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.31
Consensus pattern (18 bp):
AATCAAGTTAATCGAATT
Found at i:21384269 original size:12 final size:12
Alignment explanation
Indices: 21384252--21384284 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
21384242 TATTTTTTAG
21384252 TTATTTACTCAC
1 TTATTTACTCAC
*
21384264 TTATTTATTCAC
1 TTATTTACTCAC
21384276 TTATTTACT
1 TTATTTACT
21384285 TCAATTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.24, C:0.18, G:0.00, T:0.58
Consensus pattern (12 bp):
TTATTTACTCAC
Found at i:21387858 original size:40 final size:40
Alignment explanation
Indices: 21387709--21387859 Score: 182
Period size: 40 Copynumber: 3.8 Consensus size: 40
21387699 TCGAATGATG
* * ** *
21387709 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTCCCAAA
*
21387749 TCCGGACTAAGATCTGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTCCCAAA
21387789 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTCCCAAA
**
21387829 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGA
21387860 ACTATTATAA
Statistics
Matches: 99, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 90 0.91
41 8 0.08
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTCCCAAA
Found at i:21390705 original size:72 final size:71
Alignment explanation
Indices: 21390626--21390817 Score: 296
Period size: 72 Copynumber: 2.7 Consensus size: 71
21390616 TTGCTAAACC
* *
21390626 AGTTTTATCAATAGTTATTTATGTTTGGTTATTGGATATTAAATTTATGTTCTACTTATTTATGT
1 AGTTTTATCAATAGTTGTTTATGTTTGGTT-TTGGATATTGAATTTATGTTCTACTTATTTATGT
21390691 GTAATCT
65 GTAATCT
* *
21390698 AGTTTTATCAATGGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATATTCTACTTATTTATGT
1 AGTTTTATCAATAGTTGTTTATGTTTGG-TTTTGGATATTGAATTTATGTTCTACTTATTTATGT
21390763 GTAATCT
65 GTAATCT
* *
21390770 TG-TTTATTAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATG
1 AGTTTTATCAATAGTTGTTTATGTTTGGT-TTTGGATATTGAATTTATG
21390818 GTACTAGTTT
Statistics
Matches: 110, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
70 1 0.01
71 41 0.37
72 66 0.60
73 2 0.02
ACGTcount: A:0.23, C:0.05, G:0.17, T:0.55
Consensus pattern (71 bp):
AGTTTTATCAATAGTTGTTTATGTTTGGTTTTGGATATTGAATTTATGTTCTACTTATTTATGTG
TAATCT
Found at i:21390928 original size:125 final size:125
Alignment explanation
Indices: 21390696--21390941 Score: 316
Period size: 125 Copynumber: 2.0 Consensus size: 125
21390686 TATGTGTAAT
** * * *
21390696 CTAGTTTTATCAATGGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATATTCTACTTATTTAT
1 CTAGTTTTATCAATAATTGATTATGTTTGATTTTTGGATATTAAATTTATATTCTACTTATTTAT
* * * * * * **
21390761 GTGTAATCTTGTTTATTAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGGTA
66 CTGAAATCTTGTTTATCAATAGTTGTTTATATATGATCTTTGGATATAAAATTTATGGTA
*
21390821 CTAGTTTTATCAATAATTGATTATGTTTGATTTTTGGATATTAAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAATTGATTATGTTTGATTTTTGGATATTAAATTTATATTCTACTTATTTAT
* *
21390886 ACT-AAATTTTTTTTTATCAATAGTTGTTTATATATGAT-TTTGGATATAAAATTTAT
66 -CTGAAA-TCTTGTTTATCAATAGTTGTTTATATATGATCTTTGGATATAAAATTTAT
21390942 TCACAGGTGA
Statistics
Matches: 103, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
125 77 0.75
126 26 0.25
ACGTcount: A:0.26, C:0.05, G:0.14, T:0.55
Consensus pattern (125 bp):
CTAGTTTTATCAATAATTGATTATGTTTGATTTTTGGATATTAAATTTATATTCTACTTATTTAT
CTGAAATCTTGTTTATCAATAGTTGTTTATATATGATCTTTGGATATAAAATTTATGGTA
Found at i:21392316 original size:3 final size:3
Alignment explanation
Indices: 21392308--21392343 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
21392298 GTTGAGAAAG
* *
21392308 TGA TGA TGA TGA TGA CGA TGA TGA TGG TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
21392344 CGGTGAATCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.03, G:0.36, T:0.31
Consensus pattern (3 bp):
TGA
Found at i:21392623 original size:20 final size:20
Alignment explanation
Indices: 21392600--21392651 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
21392590 AAATTCAAAT
21392600 TAAAATACTGAAATTCAGGA
1 TAAAATACTGAAATTCAGGA
* *
21392620 TAAAATCCTAAAATTCAGGA
1 TAAAATACTGAAATTCAGGA
21392640 TAAGAATACTGA
1 TAA-AATACTGA
21392652 TGTGGCATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 21 0.78
21 6 0.22
ACGTcount: A:0.50, C:0.12, G:0.13, T:0.25
Consensus pattern (20 bp):
TAAAATACTGAAATTCAGGA
Found at i:21393517 original size:40 final size:40
Alignment explanation
Indices: 21393415--21393520 Score: 126
Period size: 40 Copynumber: 2.6 Consensus size: 40
21393405 ATATATAAAT
**
21393415 ATTATTTATTAATTTATTAAAAATTCTTTATTCTATCTAG
1 ATTATTTATTAATTTATTTGAAATTCTTTATTCTATCTAG
* *
21393455 ATTATTTATTAAATTTAGTTGAAATTCTTTATT-TATCTCG
1 ATTATTTATT-AATTTATTTGAAATTCTTTATTCTATCTAG
*
21393495 -TTAATTTATTAACTTCATTTGAAATT
1 ATT-ATTTATTAA-TTTATTTGAAATT
21393521 ATCTAGTCCT
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
39 4 0.07
40 34 0.60
41 19 0.33
ACGTcount: A:0.33, C:0.08, G:0.05, T:0.55
Consensus pattern (40 bp):
ATTATTTATTAATTTATTTGAAATTCTTTATTCTATCTAG
Found at i:21397068 original size:21 final size:21
Alignment explanation
Indices: 21397038--21397077 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
21397028 TGGGCTTGCG
*
21397038 GGAGATAAAGG-ATTTGATTGA
1 GGAGACAAAGGTA-TTGATTGA
21397059 GGAGACAAAGGTATTGATT
1 GGAGACAAAGGTATTGATT
21397078 TACGTAACTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.38, C:0.03, G:0.33, T:0.28
Consensus pattern (21 bp):
GGAGACAAAGGTATTGATTGA
Found at i:21400061 original size:13 final size:13
Alignment explanation
Indices: 21400043--21400068 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21400033 CTAGGGTCGG
21400043 CATAGATATTTTA
1 CATAGATATTTTA
21400056 CATAGATATTTTA
1 CATAGATATTTTA
21400069 ACTTATATAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (13 bp):
CATAGATATTTTA
Done.