Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 187 of 310
Found at i:61163952 original size:29 final size:28
Alignment explanation
Indices: 61163917--61163984 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 28
61163907 TATTATATTC
*
61163917 AAGTAAATTATGTTTTTCTTTAATATCCA
1 AAGTAAATTATGTTTTT-TTCAATATCCA
*
61163946 AAGTAAA-T-T-TTTTTTTCAATATCTA
1 AAGTAAATTATGTTTTTTTCAATATCCA
*
61163971 AAGTAAATGATGTT
1 AAGTAAATTATGTT
61163985 ACATTGGATA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
25 16 0.48
26 5 0.15
27 2 0.06
28 3 0.09
29 7 0.21
ACGTcount: A:0.37, C:0.07, G:0.09, T:0.47
Consensus pattern (28 bp):
AAGTAAATTATGTTTTTTTCAATATCCA
Found at i:61165751 original size:22 final size:21
Alignment explanation
Indices: 61165726--61165770 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
61165716 ACCATCCAAG
*
61165726 CATACATAAAACCATAGCATTT
1 CATAAATAAAACCATAG-ATTT
* *
61165748 CATAAATATAACCATTGATTT
1 CATAAATAAAACCATAGATTT
61165769 CA
1 CA
61165771 CATTCAATCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.44, C:0.20, G:0.04, T:0.31
Consensus pattern (21 bp):
CATAAATAAAACCATAGATTT
Found at i:61169149 original size:43 final size:43
Alignment explanation
Indices: 61169096--61169209 Score: 185
Period size: 43 Copynumber: 2.7 Consensus size: 43
61169086 ATTCGGGCTT
61169096 CGAGCCTAGCAGGCTATAATGCCGGTGAAATAATATCGGGCCC
1 CGAGCCTAGCAGGCTATAATGCCGGTGAAATAATATCGGGCCC
**
61169139 CGAGCCTAGCAGGCTATAATGCCGGTGAAATAATATCGGGCTT
1 CGAGCCTAGCAGGCTATAATGCCGGTGAAATAATATCGGGCCC
* *
61169182 CGAGCCTAGCAGGCGA-AATCCCGGTGAA
1 CGAGCCTAGCAGGCTATAATGCCGGTGAA
61169210 TGAATTTAGA
Statistics
Matches: 67, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
42 11 0.16
43 56 0.84
ACGTcount: A:0.28, C:0.25, G:0.29, T:0.18
Consensus pattern (43 bp):
CGAGCCTAGCAGGCTATAATGCCGGTGAAATAATATCGGGCCC
Found at i:61171521 original size:28 final size:28
Alignment explanation
Indices: 61171467--61171532 Score: 69
Period size: 28 Copynumber: 2.4 Consensus size: 28
61171457 TTACCTCGTG
* * *
61171467 TTTACTTTCCTGGTGAGCTTAACTTGTA
1 TTTACTGTCCTGATGAACTTAACTTGTA
* * *
61171495 TTTACTGTCCTGATGAACTTTATTTGTG
1 TTTACTGTCCTGATGAACTTAACTTGTA
*
61171523 TTTATTGTCC
1 TTTACTGTCC
61171533 CAATGGACTA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.50
Consensus pattern (28 bp):
TTTACTGTCCTGATGAACTTAACTTGTA
Found at i:61171565 original size:33 final size:32
Alignment explanation
Indices: 61171521--61171648 Score: 114
Period size: 33 Copynumber: 3.9 Consensus size: 32
61171511 ACTTTATTTG
* *
61171521 TGTTTATTGTCCCAATGGACTATCTCTTATCTA
1 TGTTTACTGTCCCAACGGACTATCTC-TATCTA
* * * *
61171554 TGTTTACTGTCCTAGCGGGCTATCTCTAT-TT
1 TGTTTACTGTCCCAACGGACTATCTCTATCTA
*
61171585 TGTTTTTACTGTCCCAACGGACTTTCTCTATTCTA
1 TG--TTTACTGTCCCAACGGACTATCTCTA-TCTA
* * **
61171620 TGTTTACAGTCCTAGTGGACTATCTCTAT
1 TGTTTACTGTCCCAACGGACTATCTCTAT
61171649 TTTGTATTTA
Statistics
Matches: 75, Mismatches: 16, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
31 3 0.04
32 4 0.05
33 64 0.85
34 1 0.01
35 3 0.04
ACGTcount: A:0.18, C:0.23, G:0.15, T:0.45
Consensus pattern (32 bp):
TGTTTACTGTCCCAACGGACTATCTCTATCTA
Found at i:61171599 original size:66 final size:66
Alignment explanation
Indices: 61171517--61171658 Score: 196
Period size: 66 Copynumber: 2.2 Consensus size: 66
61171507 ATGAACTTTA
* * * * *
61171517 TTTGTGTTTATTGTCCCAATGGACTATCTCT-TATCTATGTTTACTGTCCTAGCGGGCTATCTCT
1 TTTGTATTTACTGTCCCAACGGACTATCTCTAT-TCTATGTTTACAGTCCTAGCGGACTATCTCT
61171581 AT
65 AT
* * *
61171583 TTTGTTTTTACTGTCCCAACGGACTTTCTCTATTCTATGTTTACAGTCCTAGTGGACTATCTCTA
1 TTTGTATTTACTGTCCCAACGGACTATCTCTATTCTATGTTTACAGTCCTAGCGGACTATCTCTA
61171648 T
66 T
61171649 TTTGTATTTA
1 TTTGTATTTA
61171659 TTGTTCCAGC
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
66 66 0.99
67 1 0.01
ACGTcount: A:0.18, C:0.20, G:0.15, T:0.47
Consensus pattern (66 bp):
TTTGTATTTACTGTCCCAACGGACTATCTCTATTCTATGTTTACAGTCCTAGCGGACTATCTCTA
T
Found at i:61171649 original size:33 final size:33
Alignment explanation
Indices: 61171537--61171649 Score: 129
Period size: 33 Copynumber: 3.4 Consensus size: 33
61171527 TTGTCCCAAT
61171537 GGACTATCTCT-TATCTATGTTTACTGTCCTAGC
1 GGACTATCTCTAT-TCTATGTTTACTGTCCTAGC
* * * * * *
61171570 GGGCTATCTCTATTTTGTTTTTACTGTCCCAAC
1 GGACTATCTCTATTCTATGTTTACTGTCCTAGC
* * *
61171603 GGACTTTCTCTATTCTATGTTTACAGTCCTAGT
1 GGACTATCTCTATTCTATGTTTACTGTCCTAGC
61171636 GGACTATCTCTATT
1 GGACTATCTCTATT
61171650 TTGTATTTAT
Statistics
Matches: 63, Mismatches: 16, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
33 62 0.98
34 1 0.02
ACGTcount: A:0.18, C:0.23, G:0.15, T:0.44
Consensus pattern (33 bp):
GGACTATCTCTATTCTATGTTTACTGTCCTAGC
Found at i:61171677 original size:66 final size:66
Alignment explanation
Indices: 61171550--61171681 Score: 183
Period size: 66 Copynumber: 2.0 Consensus size: 66
61171540 CTATCTCTTA
* * * * *
61171550 TCTATGTTTACTGTCCTAGCGGGCTATCTCTATTTTGTTTTTACTGTCCCAACGGACTTTCTCTA
1 TCTATGTTTACAGTCCTAGCGGACTATCTCTATTTTGTATTTACTGTCCCAACGAAATTTCTCTA
61171615 T
66 T
* * * *
61171616 TCTATGTTTACAGTCCTAGTGGACTATCTCTATTTTGTATTTATTGTTCCAGCGAAATTTCTCTA
1 TCTATGTTTACAGTCCTAGCGGACTATCTCTATTTTGTATTTACTGTCCCAACGAAATTTCTCTA
61171681 T
66 T
61171682 GGATATCATA
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
66 57 1.00
ACGTcount: A:0.18, C:0.21, G:0.14, T:0.46
Consensus pattern (66 bp):
TCTATGTTTACAGTCCTAGCGGACTATCTCTATTTTGTATTTACTGTCCCAACGAAATTTCTCTA
T
Found at i:61175435 original size:20 final size:20
Alignment explanation
Indices: 61175376--61175437 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
61175366 GTACCCCATG
* * *
61175376 TTTTTAGTACTCCTTTATTA
1 TTTTTGGTATTCCTTTATAA
*
61175396 TTTTTGGTATT-CTCTAATAA
1 TTTTTGGTATTCCT-TTATAA
61175416 TTTTTGGTATTCCTTTATAA
1 TTTTTGGTATTCCTTTATAA
61175436 TT
1 TT
61175438 ATTCACAATC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 2 0.06
20 31 0.89
21 2 0.06
ACGTcount: A:0.21, C:0.11, G:0.08, T:0.60
Consensus pattern (20 bp):
TTTTTGGTATTCCTTTATAA
Found at i:61175498 original size:19 final size:20
Alignment explanation
Indices: 61175474--61175516 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
61175464 GTTCTCACAT
*
61175474 AATTTTT-ATATGCTTTCAG
1 AATTTTTGATATGCTTTCAA
61175493 AATTTTTGATATGCTTTCAA
1 AATTTTTGATATGCTTTCAA
61175513 AATT
1 AATT
61175517 AAGTTTTAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.30, C:0.09, G:0.09, T:0.51
Consensus pattern (20 bp):
AATTTTTGATATGCTTTCAA
Found at i:61175938 original size:20 final size:21
Alignment explanation
Indices: 61175903--61175943 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
61175893 TTATTTCAAA
61175903 ACCATACAAAAAAATTATGAG
1 ACCATACAAAAAAATTATGAG
*
61175924 ACCATAC-AGAAAATTATGAG
1 ACCATACAAAAAAATTATGAG
61175944 GGTGTACCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.54, C:0.15, G:0.12, T:0.20
Consensus pattern (21 bp):
ACCATACAAAAAAATTATGAG
Found at i:61176093 original size:20 final size:20
Alignment explanation
Indices: 61176028--61176104 Score: 79
Period size: 20 Copynumber: 3.9 Consensus size: 20
61176018 TTCGAAACAA
* *
61176028 TACAAATAATTATGAGGAAG
1 TACAAAAAATTATGAGAAAG
* *
61176048 TATC-AAAAACTACGAGAGAA-
1 TA-CAAAAAATTATGAGA-AAG
61176068 TA-AAAAAATTATGAGAAAG
1 TACAAAAAATTATGAGAAAG
61176087 TACAAAAAATTATGAGAA
1 TACAAAAAATTATGAGAA
61176105 TGCATCAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
18 2 0.04
19 13 0.28
20 28 0.61
21 3 0.07
ACGTcount: A:0.57, C:0.06, G:0.16, T:0.21
Consensus pattern (20 bp):
TACAAAAAATTATGAGAAAG
Found at i:61176114 original size:20 final size:21
Alignment explanation
Indices: 61176070--61176147 Score: 88
Period size: 20 Copynumber: 3.6 Consensus size: 21
61176060 CGAGAGAATA
* *
61176070 AAAAAATTATGAGAAAGTA-C
1 AAAAAATTATGAGAATGCATC
61176090 AAAAAATTATGAGAATGCATC
1 AAAAAATTATGAGAATGCATC
61176111 AAAAATAAAATTATGAGAATGCATC
1 ---AA-AAAATTATGAGAATGCATC
61176136 -AAAAATTATGAG
1 AAAAAATTATGAG
61176148 GGAATACCAA
Statistics
Matches: 51, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
20 28 0.55
21 2 0.04
24 2 0.04
25 19 0.37
ACGTcount: A:0.56, C:0.06, G:0.14, T:0.23
Consensus pattern (21 bp):
AAAAAATTATGAGAATGCATC
Found at i:61176121 original size:25 final size:25
Alignment explanation
Indices: 61176092--61176141 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
61176082 GAAAGTACAA
61176092 AAAATTATGAGAATGCATCAAAAAT
1 AAAATTATGAGAATGCATCAAAAAT
61176117 AAAATTATGAGAATGCATCAAAAAT
1 AAAATTATGAGAATGCATCAAAAAT
61176142 TATGAGGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.56, C:0.08, G:0.12, T:0.24
Consensus pattern (25 bp):
AAAATTATGAGAATGCATCAAAAAT
Found at i:61176158 original size:20 final size:20
Alignment explanation
Indices: 61176135--61176241 Score: 103
Period size: 20 Copynumber: 5.3 Consensus size: 20
61176125 GAGAATGCAT
61176135 CAAAAATTATGAGGGAATAC
1 CAAAAATTATGAGGGAATAC
*
61176155 CAAAAATATATTG-GAGAATAC
1 CAAAAAT-TA-TGAGGGAATAC
*
61176176 CAAAAA--ATCGAAGGATATAC
1 CAAAAATTAT-GAGGGA-ATAC
* ** *
61176196 TAAAAAACATGAGGAAATAC
1 CAAAAATTATGAGGGAATAC
61176216 CAAAAATTATGAGGGAATAC
1 CAAAAATTATGAGGGAATAC
61176236 CAAAAA
1 CAAAAA
61176242 ATCTAAAGAA
Statistics
Matches: 70, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
17 1 0.01
18 2 0.03
19 2 0.03
20 42 0.60
21 19 0.27
22 4 0.06
ACGTcount: A:0.55, C:0.11, G:0.16, T:0.18
Consensus pattern (20 bp):
CAAAAATTATGAGGGAATAC
Found at i:61176159 original size:45 final size:44
Alignment explanation
Indices: 61176072--61176162 Score: 105
Period size: 45 Copynumber: 2.0 Consensus size: 44
61176062 AGAGAATAAA
* *
61176072 AAAATTATGAGAAAGTACAAAAAATTATGAGAATGCATCAAAAAT
1 AAAATTATGAGAAAGCACAAAAAATTATGAGAAT-CACCAAAAAT
*
61176117 AAAATTATGAGAATGCATC-AAAAATTATGAGGGAAT-ACCAAAAAT
1 AAAATTATGAGAAAGCA-CAAAAAATTATGA--GAATCACCAAAAAT
61176162 A
1 A
61176163 TATTGGAGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
45 35 0.88
46 1 0.03
47 4 0.10
ACGTcount: A:0.56, C:0.08, G:0.14, T:0.22
Consensus pattern (44 bp):
AAAATTATGAGAAAGCACAAAAAATTATGAGAATCACCAAAAAT
Found at i:61176241 original size:40 final size:40
Alignment explanation
Indices: 61176135--61176242 Score: 123
Period size: 40 Copynumber: 2.7 Consensus size: 40
61176125 GAGAATGCAT
* *
61176135 CAAAAATTATGAGGGAATACCAAAAATATATTGGAGAATAC
1 CAAAAATTATGAGGGAATACCAAAAA-ACATAGGAGAATAC
* *
61176176 CAAAAA--ATCGAAGGATATACTAAAAAACATGAGGA-AATAC
1 CAAAAATTAT-GAGGGA-ATACCAAAAAACAT-AGGAGAATAC
61176216 CAAAAATTATGAGGGAATACCAAAAAA
1 CAAAAATTATGAGGGAATACCAAAAAA
61176243 TCTAAAGAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
39 2 0.04
40 29 0.52
41 23 0.41
42 2 0.04
ACGTcount: A:0.56, C:0.11, G:0.16, T:0.18
Consensus pattern (40 bp):
CAAAAATTATGAGGGAATACCAAAAAACATAGGAGAATAC
Found at i:61180409 original size:46 final size:47
Alignment explanation
Indices: 61180359--61180699 Score: 435
Period size: 46 Copynumber: 7.4 Consensus size: 47
61180349 TGCCATAATG
* * *
61180359 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTTCATGTCACGTTGCCATGGTA
61180405 TCTTTCAACCATGGTCTTATTC-TTTTCATGTCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTTCATGTCACGTTGCCATGGTA
** * * *
61180451 TCTTTCAACCATGGTCTTACACA-TTTCATATCACGCTACCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTTCATGTCACGTTGCCATGGTA
* * * *
61180497 TCTTTCAACCATGATCTTATTCATTTAC-CGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTTCATGTCACGTTGCCATGGTA
* *
61180543 TCTCTCAACCATGGTCTTATTC-TATTCATGTCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTTCATGTCACGTTGCCATGGTA
* * * * * *
61180589 TCTTTCAACCATGATCTTATTCATTTAC-CGTCATGTTTCCAAGGTA
1 TCTTTCAACCATGGTCTTATTCATTTTCATGTCACGTTGCCATGGTA
* *
61180635 TCTCTCAACCATGGTCTTATTC-TATTCATGTCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTTCATGTCACGTTGCCATGGTA
61180681 TCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTA
61180700 CATATTTCAT
Statistics
Matches: 249, Mismatches: 40, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
45 11 0.04
46 232 0.93
47 6 0.02
ACGTcount: A:0.21, C:0.25, G:0.13, T:0.41
Consensus pattern (47 bp):
TCTTTCAACCATGGTCTTATTCATTTTCATGTCACGTTGCCATGGTA
Found at i:61180607 original size:138 final size:138
Alignment explanation
Indices: 61180359--61180699 Score: 479
Period size: 138 Copynumber: 2.5 Consensus size: 138
61180349 TGCCATAATG
* * *
61180359 TCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTATTCATTTACTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
* * *
61180424 TTCTTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT-CATATCACGCT
66 TTCTATTCATGTCACGTTGCCATGGTATCTTTCAACCATGATCTTACACATTTAC-CATCACGCT
*
61180488 ACCATGGTA
130 ACCAAGGTA
* * *
61180497 TCTTTCAACCATGATCTTATTCATTTACCGTCATGTTGCCATGGTATCTCTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTATTCATTTACTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
** * * * *
61180562 TTCTATTCATGTCACGTTGCCATGGTATCTTTCAACCATGATCTTATTCATTTACCGTCATGTTT
66 TTCTATTCATGTCACGTTGCCATGGTATCTTTCAACCATGATCTTACACATTTACCATCACGCTA
61180627 CCAAGGTA
131 CCAAGGTA
* * *
61180635 TCTCTCAACCATGGTCTTATTCTATTCA-TGTCACGTTGCCATGGTATCTTTCAACCATGGTCTT
1 TCTTTCAACCATGGTCTTATTC-ATTTACTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTT
61180699 A
65 A
61180700 CATATTTCAT
Statistics
Matches: 179, Mismatches: 22, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
138 174 0.97
139 5 0.03
ACGTcount: A:0.21, C:0.25, G:0.13, T:0.41
Consensus pattern (138 bp):
TCTTTCAACCATGGTCTTATTCATTTACTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
TTCTATTCATGTCACGTTGCCATGGTATCTTTCAACCATGATCTTACACATTTACCATCACGCTA
CCAAGGTA
Found at i:61182598 original size:31 final size:32
Alignment explanation
Indices: 61182541--61182623 Score: 102
Period size: 31 Copynumber: 2.7 Consensus size: 32
61182531 CTTTGTATAC
*
61182541 TAATAAAATAATAAAATATCTTATTAAA-ATAT
1 TAATAAAATAATAAAATATCTAATTAAATA-AT
*
61182573 TAATAAAATAAT-AATTATCTAATTAAATAAT
1 TAATAAAATAATAAAATATCTAATTAAATAAT
61182604 T-ATAAAAT-ATCAAAATATCT
1 TAATAAAATAAT-AAAATATCT
61182624 CTAGCATCAT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
29 2 0.04
30 7 0.16
31 23 0.51
32 13 0.29
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (32 bp):
TAATAAAATAATAAAATATCTAATTAAATAAT
Found at i:61195328 original size:16 final size:16
Alignment explanation
Indices: 61195298--61195341 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
61195288 GGTTTACTGG
**
61195298 AATAGAATATGATTGA
1 AATAGAATAAAATTGA
* *
61195314 AATGGAATAAAATTGT
1 AATAGAATAAAATTGA
61195330 AATAGAATAAAA
1 AATAGAATAAAA
61195342 CTGTAATCAG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.16, T:0.27
Consensus pattern (16 bp):
AATAGAATAAAATTGA
Found at i:61195346 original size:16 final size:16
Alignment explanation
Indices: 61195318--61195348 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
61195308 GATTGAAATG
*
61195318 GAATAAAATTGTAATA
1 GAATAAAACTGTAATA
61195334 GAATAAAACTGTAAT
1 GAATAAAACTGTAAT
61195349 CAGTAATTTA
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:0.55, C:0.03, G:0.13, T:0.29
Consensus pattern (16 bp):
GAATAAAACTGTAATA
Found at i:61195468 original size:39 final size:41
Alignment explanation
Indices: 61195375--61195471 Score: 112
Period size: 44 Copynumber: 2.4 Consensus size: 41
61195365 TAATTGAATA
61195375 GAATGGAATA-AAGTTATAAAATATTCTTGTATTTGGTTGAATT
1 GAATGGAATAGAA-TTATAAAATATTCTTGTATTTGGTT--ATT
**
61195418 GAATAAAATAGAATTATAATAATATTCTTGTATTTGG-T-TT
1 GAATGGAATAGAATTATAA-AATATTCTTGTATTTGGTTATT
61195458 G-ATGGAATAGAATT
1 GAATGGAATAGAATT
61195472 GTAACAGCAT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
39 11 0.23
40 3 0.06
43 15 0.31
44 19 0.40
ACGTcount: A:0.39, C:0.02, G:0.18, T:0.41
Consensus pattern (41 bp):
GAATGGAATAGAATTATAAAATATTCTTGTATTTGGTTATT
Found at i:61198141 original size:19 final size:17
Alignment explanation
Indices: 61198109--61198143 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
61198099 GTTTTATCTC
61198109 TTTTTCTTTTTATATAA
1 TTTTTCTTTTTATATAA
61198126 TTTTCTCTTATTTATATA
1 TTTT-TCTT-TTTATATA
61198144 TAACAATAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 4 0.25
19 8 0.50
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTTTCTTTTTATATAA
Found at i:61199675 original size:22 final size:22
Alignment explanation
Indices: 61199633--61199675 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
61199623 TTTTTTGTCT
* *
61199633 TTTAATAATCTTTCTATTTTTG
1 TTTAATAACCTTTCTAATTTTG
61199655 TTTAATAACCTTT-TGAATTTT
1 TTTAATAACCTTTCT-AATTTT
61199676 TAAAATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.26, C:0.09, G:0.05, T:0.60
Consensus pattern (22 bp):
TTTAATAACCTTTCTAATTTTG
Found at i:61199723 original size:30 final size:28
Alignment explanation
Indices: 61199672--61199734 Score: 81
Period size: 30 Copynumber: 2.2 Consensus size: 28
61199662 ACCTTTTGAA
*
61199672 TTTTTAAAATTTTATATAATTTTATAAC
1 TTTTTAAAATTTTATATAATTTAATAAC
* *
61199700 TTTTTAAAATTTTCTTCATAATTTAATAAT
1 TTTTTAAAATTTT-AT-ATAATTTAATAAC
61199730 TTTTT
1 TTTTT
61199735 TTATTTTTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 13 0.43
29 1 0.03
30 16 0.53
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (28 bp):
TTTTTAAAATTTTATATAATTTAATAAC
Found at i:61199732 original size:28 final size:27
Alignment explanation
Indices: 61199673--61199733 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 27
61199663 CCTTTTGAAT
*
61199673 TTTTAAAATTTTATATAATTTTATAAC
1 TTTTAAAATTTTATATAATTTAATAAC
* *
61199700 TTTTTAAAATTTTCTTCATAATTTAATAAT
1 -TTTTAAAATTTT-AT-ATAATTTAATAAC
61199730 TTTT
1 TTTT
61199734 TTTATTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 12 0.43
29 5 0.18
30 11 0.39
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (27 bp):
TTTTAAAATTTTATATAATTTAATAAC
Found at i:61199775 original size:21 final size:23
Alignment explanation
Indices: 61199751--61199801 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
61199741 TTTCTTTTGC
61199751 ATTTTTGTGAA-TTTTTA-AAAT
1 ATTTTTGTGAATTTTTTATAAAT
* * *
61199772 ATTTTTATTAATTTTTTATGAAT
1 ATTTTTGTGAATTTTTTATAAAT
61199795 ATTTTTG
1 ATTTTTG
61199802 CAATATTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 9 0.38
22 6 0.25
23 9 0.38
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (23 bp):
ATTTTTGTGAATTTTTTATAAAT
Found at i:61199806 original size:11 final size:11
Alignment explanation
Indices: 61199761--61199816 Score: 51
Period size: 11 Copynumber: 5.0 Consensus size: 11
61199751 ATTTTTGTGA
*
61199761 ATTTTTAAAAT
1 ATTTTTACAAT
*
61199772 ATTTTTATTAAT
1 ATTTTTA-CAAT
*
61199784 -TTTTTATGAAT
1 ATTTTTA-CAAT
*
61199795 ATTTTTGCAAT
1 ATTTTTACAAT
61199806 ATTTTTACAAT
1 ATTTTTACAAT
61199817 TTAATTTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
11 30 0.79
12 8 0.21
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.59
Consensus pattern (11 bp):
ATTTTTACAAT
Found at i:61200514 original size:16 final size:16
Alignment explanation
Indices: 61200493--61200528 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
61200483 AACGACGAGT
* *
61200493 GTTTTTATTGTTTTCA
1 GTTTTTATTATCTTCA
61200509 GTTTTTATTATCTTCA
1 GTTTTTATTATCTTCA
61200525 GTTT
1 GTTT
61200529 AATTTATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.14, C:0.08, G:0.11, T:0.67
Consensus pattern (16 bp):
GTTTTTATTATCTTCA
Found at i:61202811 original size:27 final size:27
Alignment explanation
Indices: 61202769--61202828 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
61202759 TTCACCTCCT
* *
61202769 GTGTTTATTGTTTCGGCGAACTACCCC
1 GTGTTTACTGTCTCGGCGAACTACCCC
*
61202796 GTGTTTACTGTCTCGGCGAATTACCCC
1 GTGTTTACTGTCTCGGCGAACTACCCC
*
61202823 ATGTTT
1 GTGTTT
61202829 TCTTTCCTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.15, C:0.25, G:0.22, T:0.38
Consensus pattern (27 bp):
GTGTTTACTGTCTCGGCGAACTACCCC
Found at i:61204275 original size:31 final size:31
Alignment explanation
Indices: 61204237--61204298 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
61204227 TACATAACAA
61204237 AAGTTTTGATGATCAAGAATCTGAAAGAACC
1 AAGTTTTGATGATCAAGAATCTGAAAGAACC
* * *
61204268 AAGTTTTGGTGATCAATAATCTGAAATAACC
1 AAGTTTTGATGATCAAGAATCTGAAAGAACC
61204299 TCAAGAATGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (31 bp):
AAGTTTTGATGATCAAGAATCTGAAAGAACC
Found at i:61211986 original size:46 final size:46
Alignment explanation
Indices: 61211919--61212010 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
61211909 ATGGCCTATT
* *
61211919 AGCTCAGTTGGTTAGAGCGTCGTGCTAATAACGCGAAGGTCGCAGG
1 AGCTCAGTTGGTTAGAGCGTCGGGCTAATAACGAGAAGGTCGCAGG
61211965 AGCTCAGTTGGTTAGAGCGTCGGGCTAATAACGAGAAGGTCGCAGG
1 AGCTCAGTTGGTTAGAGCGTCGGGCTAATAACGAGAAGGTCGCAGG
61212011 TTCGAAACCT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.25, C:0.18, G:0.36, T:0.21
Consensus pattern (46 bp):
AGCTCAGTTGGTTAGAGCGTCGGGCTAATAACGAGAAGGTCGCAGG
Found at i:61218039 original size:16 final size:16
Alignment explanation
Indices: 61218030--61218081 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 16
61218020 AAAATATTAT
61218030 ATTAATAAAATTAATA
1 ATTAATAAAATTAATA
61218046 ATTAAT--AATTAATA
1 ATTAATAAAATTAATA
**
61218060 ATATTTTAAAAATTAATA
1 AT-TAAT-AAAATTAATA
61218078 ATTA
1 ATTA
61218082 CTTTTATCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
14 10 0.34
15 2 0.07
16 6 0.21
17 1 0.03
18 10 0.34
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATTAATAAAATTAATA
Found at i:61219908 original size:46 final size:46
Alignment explanation
Indices: 61219765--61219917 Score: 146
Period size: 46 Copynumber: 3.3 Consensus size: 46
61219755 GCTATTTGTT
** * *** *
61219765 GTGTAGGTTCAACCCCAACGGGTGACCAGGCATTATTATATGATTT
1 GTGTAGGTTCAACCTTAACGGGTGACCAGGCACTATTATCCAATTC
* ** * *
61219811 GTGTAGGTTCAA-CTCTAATGGGTGATTAGACACTATTATCCAGTTC
1 GTGTAGGTTCAACCT-TAACGGGTGACCAGGCACTATTATCCAATTC
* * *
61219857 ATGTAGATTCAACCTTAACGGGTGACCAGGCACTATTATCCAATTG
1 GTGTAGGTTCAACCTTAACGGGTGACCAGGCACTATTATCCAATTC
*
61219903 GTGTAGGTTTAACCT
1 GTGTAGGTTCAACCT
61219918 AGAAGTGTGC
Statistics
Matches: 82, Mismatches: 23, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
45 1 0.01
46 79 0.96
47 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (46 bp):
GTGTAGGTTCAACCTTAACGGGTGACCAGGCACTATTATCCAATTC
Found at i:61220127 original size:25 final size:23
Alignment explanation
Indices: 61220098--61220162 Score: 75
Period size: 25 Copynumber: 2.9 Consensus size: 23
61220088 AATAAAAAAC
*
61220098 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
61220123 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
61220144 -TTAAAACA-AAAAACAAATA
1 TTTAAAACATAAAAACAAATA
61220163 AAAAATAAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
19 10 0.26
20 8 0.21
21 1 0.03
23 5 0.13
24 3 0.08
25 11 0.29
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.25
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:61220157 original size:19 final size:20
Alignment explanation
Indices: 61220124--61220162 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
61220114 TCAAATACAT
61220124 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
61220144 TTAAAACA-AAAAACAAATA
1 TTAAAACATAAAAACAAATA
61220163 AAAAATAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.72, C:0.10, G:0.00, T:0.18
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:61227058 original size:3 final size:3
Alignment explanation
Indices: 61227050--61227075 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
61227040 ATTGTGTAAA
61227050 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
61227076 CATTATTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:61231462 original size:18 final size:18
Alignment explanation
Indices: 61231405--61231464 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
61231395 GACTGTCTGC
* *
61231405 TACTGAATAATTGACTTT
1 TACTGAATAAATGACTAT
* *
61231423 TACAGAATAAACGACTGA-
1 TACTGAATAAATGACT-AT
*
61231441 TACTGAATAAATGAATAT
1 TACTGAATAAATGACTAT
61231459 TACTGA
1 TACTGA
61231465 TTAATCGATT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
17 1 0.03
18 32 0.97
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.32
Consensus pattern (18 bp):
TACTGAATAAATGACTAT
Found at i:61234575 original size:3 final size:3
Alignment explanation
Indices: 61234567--61234591 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
61234557 TTTATTTCTT
61234567 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
61234592 ACATGTTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:61235811 original size:12 final size:12
Alignment explanation
Indices: 61235794--61235826 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
61235784 CGGCCCGCCC
61235794 ATATTAATTTTT
1 ATATTAATTTTT
61235806 ATATT-ATTTTT
1 ATATTAATTTTT
61235817 ATA-TAATTTT
1 ATATTAATTTT
61235827 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:61235996 original size:30 final size:31
Alignment explanation
Indices: 61235950--61236013 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 31
61235940 ACTTAATAAG
*
61235950 CAAAAGTCTCTAAAATAAT-AACAAAATTAA
1 CAAAAGTCTCTAAAATAATAAAAAAAATTAA
* *
61235980 CAAATGTCTTTAAAATAATAAAAAAAATTAA
1 CAAAAGTCTCTAAAATAATAAAAAAAATTAA
61236011 CAA
1 CAA
61236014 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 17 0.57
31 13 0.43
ACGTcount: A:0.61, C:0.11, G:0.03, T:0.25
Consensus pattern (31 bp):
CAAAAGTCTCTAAAATAATAAAAAAAATTAA
Found at i:61236098 original size:22 final size:22
Alignment explanation
Indices: 61236051--61236100 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
61236041 CAATAACAAC
* *
61236051 AAAATAGTAGCAACATAATAGT
1 AAAATAGTAGCAAAATAAGAGT
*
61236073 AAAATGGTAGCAAAATAAGGAG-
1 AAAATAGTAGCAAAATAA-GAGT
61236095 AAAATA
1 AAAATA
61236101 ACAAGAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 21 0.91
23 2 0.09
ACGTcount: A:0.58, C:0.06, G:0.18, T:0.18
Consensus pattern (22 bp):
AAAATAGTAGCAAAATAAGAGT
Found at i:61237278 original size:18 final size:18
Alignment explanation
Indices: 61237252--61237286 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
61237242 TCTATTACAG
*
61237252 ACACCACCAGCTCCTTCA
1 ACACCACCAACTCCTTCA
*
61237270 ACACGACCAACTCCTTC
1 ACACCACCAACTCCTTC
61237287 CACCATGCCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.49, G:0.06, T:0.17
Consensus pattern (18 bp):
ACACCACCAACTCCTTCA
Found at i:61238359 original size:15 final size:15
Alignment explanation
Indices: 61238339--61238367 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
61238329 AAATATAAGT
61238339 GAGGTAGAAGACAAA
1 GAGGTAGAAGACAAA
61238354 GAGGTAGAAGACAA
1 GAGGTAGAAGACAA
61238368 TGGTGAAAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.52, C:0.07, G:0.34, T:0.07
Consensus pattern (15 bp):
GAGGTAGAAGACAAA
Found at i:61238551 original size:17 final size:17
Alignment explanation
Indices: 61238529--61238567 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
61238519 GCTCGGTATC
61238529 AAAATAGTGGACAGAAAA
1 AAAATAGTGGACA-AAAA
61238547 AAATATAGTGGACAAAAA
1 AAA-ATAGTGGACAAAAA
61238565 AAA
1 AAA
61238568 TCGAGTACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.64, C:0.05, G:0.18, T:0.13
Consensus pattern (17 bp):
AAAATAGTGGACAAAAA
Found at i:61238556 original size:19 final size:18
Alignment explanation
Indices: 61238532--61238568 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
61238522 CGGTATCAAA
61238532 ATAGTGGACAGAAAAAAAT
1 ATAGTGGACA-AAAAAAAT
61238551 ATAGTGGACAAAAAAAAT
1 ATAGTGGACAAAAAAAAT
61238569 CGAGTACTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.59, C:0.05, G:0.19, T:0.16
Consensus pattern (18 bp):
ATAGTGGACAAAAAAAAT
Found at i:61247857 original size:48 final size:48
Alignment explanation
Indices: 61247783--61247876 Score: 161
Period size: 48 Copynumber: 2.0 Consensus size: 48
61247773 AAACTCTTAT
* *
61247783 CGGAAGAAATTCCAAAGGGGCGAATATTCTTTTGATTACCACCCTCAA
1 CGGAAGAAATTCCAAAGGGGCCAATATTCTTTTGATGACCACCCTCAA
*
61247831 CGGAAGAGATTCCAAAGGGGCCAATATTCTTTTGATGACCACCCTC
1 CGGAAGAAATTCCAAAGGGGCCAATATTCTTTTGATGACCACCCTC
61247877 CATGTCTACT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.24
Consensus pattern (48 bp):
CGGAAGAAATTCCAAAGGGGCCAATATTCTTTTGATGACCACCCTCAA
Found at i:61248675 original size:21 final size:23
Alignment explanation
Indices: 61248625--61248668 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
61248615 TACCGACCCG
61248625 AACAAATTTACTAATTTTTTAAT
1 AACAAATTTACTAATTTTTTAAT
*
61248648 AATAAATTTA-T-ATTTTTTAAT
1 AACAAATTTACTAATTTTTTAAT
61248669 CCCAAATCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 10 0.50
22 1 0.05
23 9 0.45
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (23 bp):
AACAAATTTACTAATTTTTTAAT
Found at i:61253978 original size:27 final size:26
Alignment explanation
Indices: 61253925--61253973 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
61253915 TAAAAAATGA
61253925 TATGATATATTAGTGTATGTTATATGT
1 TATGATATATTAGTG-ATGTTATATGT
61253952 TATGATATATTAGTG-TG-TATAT
1 TATGATATATTAGTGATGTTATAT
61253974 TATGTATGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 5 0.23
25 2 0.09
27 15 0.68
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (26 bp):
TATGATATATTAGTGATGTTATATGT
Found at i:61253985 original size:9 final size:9
Alignment explanation
Indices: 61253967--61254047 Score: 56
Period size: 9 Copynumber: 8.6 Consensus size: 9
61253957 TATATTAGTG
61253967 TGTATATTA
1 TGTATATTA
*
61253976 TGTATGTTA
1 TGTATATTA
*
61253985 TGTATTTTA
1 TGTATATTA
*
61253994 TGATATACTA
1 TG-TATATTA
*
61254004 -GTATGTTA
1 TGTATATTA
*
61254012 TGTATTTTA
1 TGTATATTA
61254021 TGATATACTAATA
1 TG-TATA-T--TA
*
61254034 TGGATATTA
1 TGTATATTA
61254043 TGTAT
1 TGTAT
61254048 GGTATGTGTT
Statistics
Matches: 56, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
8 5 0.09
9 34 0.61
10 8 0.14
11 2 0.04
12 3 0.05
13 4 0.07
ACGTcount: A:0.31, C:0.02, G:0.15, T:0.52
Consensus pattern (9 bp):
TGTATATTA
Found at i:61254000 original size:40 final size:39
Alignment explanation
Indices: 61253930--61254005 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 39
61253920 AATGATATGA
*
61253930 TATATTAGTGTATGTTATATGTTATGATATATTAGTGTG
1 TATATTAGTGTATGTTATATGTTATGATATACTAGTGTG
*
61253969 TATATTA-TGTATGTTATGTATTTTATGATATACTAGT
1 TATATTAGTGTATGTTA--TATGTTATGATATACTAGT
61254006 ATGTTATGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
38 9 0.27
39 7 0.21
40 17 0.52
ACGTcount: A:0.29, C:0.01, G:0.17, T:0.53
Consensus pattern (39 bp):
TATATTAGTGTATGTTATATGTTATGATATACTAGTGTG
Found at i:61254011 original size:27 final size:27
Alignment explanation
Indices: 61253977--61254035 Score: 109
Period size: 27 Copynumber: 2.2 Consensus size: 27
61253967 TGTATATTAT
61253977 GTATGTTATGTATTTTATGATATACTA
1 GTATGTTATGTATTTTATGATATACTA
61254004 GTATGTTATGTATTTTATGATATACTA
1 GTATGTTATGTATTTTATGATATACTA
*
61254031 ATATG
1 GTATG
61254036 GATATTATGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.31, C:0.03, G:0.15, T:0.51
Consensus pattern (27 bp):
GTATGTTATGTATTTTATGATATACTA
Found at i:61254022 original size:67 final size:66
Alignment explanation
Indices: 61253925--61254054 Score: 163
Period size: 67 Copynumber: 1.9 Consensus size: 66
61253915 TAAAAAATGA
* * * * * *
61253925 TATGATATATTAGTGTATGTTATATGTTATGATATATTAGTGTGTATATTATGTATGTTATGTAT
1 TATGATATACTAG-GTATGTTATATGTTATGATATACTAATATGGATATTATGTATGGTATGTAT
61253990 TT
65 TT
*
61253992 TATGATATACTA-GTATGTTATGTATTTTATGATATACTAATATGGATATTATGTATGGTATGT
1 TATGATATACTAGGTATGTTA--TATGTTATGATATACTAATATGGATATTATGTATGGTATGT
61254055 GTTAGACTCT
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
65 8 0.15
67 46 0.85
ACGTcount: A:0.30, C:0.02, G:0.18, T:0.51
Consensus pattern (66 bp):
TATGATATACTAGGTATGTTATATGTTATGATATACTAATATGGATATTATGTATGGTATGTATT
T
Found at i:61256870 original size:25 final size:25
Alignment explanation
Indices: 61256834--61256902 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
61256824 TTTCCCGATT
* *
61256834 ATGGCTCTCATGAGCTTCTCGTTAC
1 ATGGCTCACATGAGCTTCTCATTAC
* *
61256859 ATGGCTCACATGAGCTTCCCATTAT
1 ATGGCTCACATGAGCTTCTCATTAC
61256884 ATGGCTCGA-ATGAGCTTCT
1 ATGGCTC-ACATGAGCTTCT
61256903 TATTTATGTG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
25 37 0.97
26 1 0.03
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.33
Consensus pattern (25 bp):
ATGGCTCACATGAGCTTCTCATTAC
Found at i:61260329 original size:30 final size:30
Alignment explanation
Indices: 61260295--61260351 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
61260285 AGTAATGAGT
61260295 CTTAAA-CACCTTAGACAACATTTAGAATGA
1 CTTAAAGCACCTTAGACAACA-TTAGAATGA
* *
61260325 CTTAAAGTACCTTAGCCAACATTAGAA
1 CTTAAAGCACCTTAGACAACATTAGAA
61260352 ATAATTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 12 0.50
31 12 0.50
ACGTcount: A:0.42, C:0.21, G:0.11, T:0.26
Consensus pattern (30 bp):
CTTAAAGCACCTTAGACAACATTAGAATGA
Found at i:61260361 original size:31 final size:31
Alignment explanation
Indices: 61260302--61260361 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
61260292 AGTCTTAAAC
*
61260302 ACCTTAGACAACATTTAGAATGACTTAAAGT
1 ACCTTAGACAACATTTAGAATAACTTAAAGT
* *
61260333 ACCTTAGCCAACA-TTAGAAATAATTTAAA
1 ACCTTAGACAACATTTAG-AATAACTTAAA
61260362 AACATGTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 4 0.16
31 21 0.84
ACGTcount: A:0.45, C:0.17, G:0.10, T:0.28
Consensus pattern (31 bp):
ACCTTAGACAACATTTAGAATAACTTAAAGT
Found at i:61269222 original size:266 final size:266
Alignment explanation
Indices: 61268748--61269279 Score: 1001
Period size: 266 Copynumber: 2.0 Consensus size: 266
61268738 CGTGATAAGA
61268748 GAAGGATGATAGTTTAATGGAGGACCACACAACCATTGCTCCGTGGCCCGAGAATTTAATGTGAC
1 GAAGGATGATAGTTTAATGGAGGACCACACAACCATTGCTCCGTGGCCCGAGAATTTAATGTGAC
*
61268813 AAGGATTATTCGAGAGCCGCTGAACTTTCTTAAAAGAGAAGCCAACGAGCACTATGAGGTTTAGT
66 AAGGATTATTCGAGAGCCGCTGAACTTTCTTAAAAGAGAAGCCAACGAGCACCATGAGGTTTAGT
61268878 GAGCAACGAGTCACGGCCCGGATTGAGTAAAAAAGAGATATAAGATACGTCCCTTTTGAAGAGTT
131 GAGCAACGAGTCACGGCCCGGATTGAGTAAAAAAGAGATATAAGATACGTCCCTTTTGAAGAGTT
* *
61268943 CGTGAGACTTATCTTAACGCTCGAATGAAGAAAATGATCGAATGTCTCCGCATATGAGGGCAAAG
196 CGTGAGACTTATCTTAACGCTCGAACGAAGAAAATGATAGAATGTCTCCGCATATGAGGGCAAAG
61269008 CCGTAT
261 CCGTAT
61269014 GAAGGATGATAGTTTAATGGAGGACCACACAACCATTGCTCCGTGGCCCGAGAATTTAATGTGAC
1 GAAGGATGATAGTTTAATGGAGGACCACACAACCATTGCTCCGTGGCCCGAGAATTTAATGTGAC
* * *
61269079 AAGGATTATTCGAGGGCCGCTGAATTTTTTTAAAAGAGAAGCCAACGAGCACCATGAGGTTTAGT
66 AAGGATTATTCGAGAGCCGCTGAACTTTCTTAAAAGAGAAGCCAACGAGCACCATGAGGTTTAGT
*
61269144 GAGCAACGAGTCACGGCCCGGATTGAGTAAAAAGGAGATATAAGATACGTCCCTTTTGAAGAGTT
131 GAGCAACGAGTCACGGCCCGGATTGAGTAAAAAAGAGATATAAGATACGTCCCTTTTGAAGAGTT
61269209 CGTGAGACTTATCTTAACGCTCGAACGAAGAAAATGATAGAATGTCTCCGCATATGAGGGCAAAG
196 CGTGAGACTTATCTTAACGCTCGAACGAAGAAAATGATAGAATGTCTCCGCATATGAGGGCAAAG
61269274 CCGTAT
261 CCGTAT
61269280 ATGTATCCGC
Statistics
Matches: 259, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
266 259 1.00
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (266 bp):
GAAGGATGATAGTTTAATGGAGGACCACACAACCATTGCTCCGTGGCCCGAGAATTTAATGTGAC
AAGGATTATTCGAGAGCCGCTGAACTTTCTTAAAAGAGAAGCCAACGAGCACCATGAGGTTTAGT
GAGCAACGAGTCACGGCCCGGATTGAGTAAAAAAGAGATATAAGATACGTCCCTTTTGAAGAGTT
CGTGAGACTTATCTTAACGCTCGAACGAAGAAAATGATAGAATGTCTCCGCATATGAGGGCAAAG
CCGTAT
Found at i:61269469 original size:62 final size:62
Alignment explanation
Indices: 61269397--61269580 Score: 323
Period size: 62 Copynumber: 3.0 Consensus size: 62
61269387 CATGTATCTC
*
61269397 TTCATTCATTAACATTACATTTCATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
1 TTCATGCATTAACATTACATTTCATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
*
61269459 TTCATGCATTAACATTACATTTTATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
1 TTCATGCATTAACATTACATTTCATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
* * *
61269521 TTCATGCATCAACATTACATTTCATTGCATACAATAAATTTCCTAAAATCCAAAAGTACG
1 TTCATGCATTAACATTACATTTCATTACATACAATAAATTTCCTAAAATCCAAAAATACG
61269581 TCGAGTTTAG
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 116 1.00
ACGTcount: A:0.41, C:0.21, G:0.05, T:0.33
Consensus pattern (62 bp):
TTCATGCATTAACATTACATTTCATTACATACAATAAATTTCCTAAAATCCAAAAATACGCG
Found at i:61271358 original size:6 final size:6
Alignment explanation
Indices: 61271343--61271400 Score: 55
Period size: 6 Copynumber: 9.0 Consensus size: 6
61271333 TCACTTGAAA
*
61271343 AAAAAC AAAAAG AAAAATG AAAAAATG AAAAA- AGAAAAG AAAAAAG AAAAAG
1 AAAAAG AAAAAG AAAAA-G -AAAAA-G AAAAAG A-AAAAG -AAAAAG AAAAAG
61271395 AAAAAG
1 AAAAAG
61271401 GAGAGGCCAA
Statistics
Matches: 46, Mismatches: 1, Indels: 10
0.81 0.02 0.18
Matches are distributed among these distances:
5 1 0.02
6 26 0.57
7 11 0.24
8 8 0.17
ACGTcount: A:0.81, C:0.02, G:0.14, T:0.03
Consensus pattern (6 bp):
AAAAAG
Found at i:61271359 original size:7 final size:7
Alignment explanation
Indices: 61271339--61271399 Score: 65
Period size: 7 Copynumber: 8.9 Consensus size: 7
61271329 TGCTTCACTT
61271339 GAAAAAA
1 GAAAAAA
*
61271346 AACAAAAA
1 GA-AAAAA
*
61271354 GAAAAAT
1 GAAAAAA
61271361 GAAAAAA
1 GAAAAAA
61271368 TGAAAAAA
1 -GAAAAAA
61271376 G--AAAA
1 GAAAAAA
61271381 GAAAAAA
1 GAAAAAA
61271388 G-AAAAA
1 GAAAAAA
61271394 GAAAAA
1 GAAAAA
61271400 GGAGAGGCCA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
5 5 0.11
6 6 0.13
7 21 0.47
8 13 0.29
ACGTcount: A:0.82, C:0.02, G:0.13, T:0.03
Consensus pattern (7 bp):
GAAAAAA
Found at i:61271367 original size:15 final size:15
Alignment explanation
Indices: 61271339--61271393 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 15
61271329 TGCTTCACTT
61271339 GAAAAAA-AACAAAAA
1 GAAAAAAGAA-AAAAA
* *
61271354 GAAAAATGAAAAAAT
1 GAAAAAAGAAAAAAA
61271369 GAAAAAAG---AAAA
1 GAAAAAAGAAAAAAA
61271381 GAAAAAAGAAAAA
1 GAAAAAAGAAAAA
61271394 GAAAAAGGAG
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
12 11 0.34
15 19 0.59
16 2 0.06
ACGTcount: A:0.82, C:0.02, G:0.13, T:0.04
Consensus pattern (15 bp):
GAAAAAAGAAAAAAA
Found at i:61271400 original size:12 final size:12
Alignment explanation
Indices: 61271343--61271400 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 12
61271333 TCACTTGAAA
*
61271343 AAAAACAAAAAG
1 AAAAAGAAAAAG
61271355 AAAAATGAAAAAATG
1 AAAAA-G-AAAAA-G
61271370 AAAAA-AGAAAAG
1 AAAAAGA-AAAAG
61271382 AAAAAAGAAAAAG
1 -AAAAAGAAAAAG
61271395 AAAAAG
1 AAAAAG
61271401 GAGAGGCCAA
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
12 13 0.33
13 14 0.36
14 6 0.15
15 6 0.15
ACGTcount: A:0.81, C:0.02, G:0.14, T:0.03
Consensus pattern (12 bp):
AAAAAGAAAAAG
Found at i:61272770 original size:86 final size:86
Alignment explanation
Indices: 61272625--61272974 Score: 520
Period size: 86 Copynumber: 4.1 Consensus size: 86
61272615 AGTAAAAATT
* * * * * *
61272625 GAAGATAAACCTTGCCTCTCTCGGTCGTAGCAGAGCTGGTTGAAGTTATCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCACTCTCGTTTGTAGCAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
61272690 GCATTGACAGCGAAGCAGATC
66 GCATTGACAGCGAAGCAGATC
* *
61272711 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGTTGGTTGAAGATAGCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCACTCTCGTTTGTAGCAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
61272776 GCATTGACAGCGAAGCAGATC
66 GCATTGACAGCGAAGCAGATC
* *
61272797 GAAGACAAACCTTGCCACTCTCGTTTGTAGTAGAGTTGGTTGAAGATAGCAGATCTTGCCTTCCT
1 GAAGACAAACCTTGCCACTCTCGTTTGTAGCAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
* *
61272862 ACACTGACAGCGAAGCAGATC
66 GCATTGACAGCGAAGCAGATC
* * * *
61272883 GAAGATAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATATCAGATCTTGCTTTCCT
1 GAAGACAAACCTTGCCACTCTCGTTTGTAGCAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
* *
61272948 GTATTTGGCAGCGAAGCAGATC
66 GCA-TTGACAGCGAAGCAGATC
*
61272970 AAAGA
1 GAAGA
61272975 TGGCAGATTT
Statistics
Matches: 242, Mismatches: 21, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
86 222 0.92
87 20 0.08
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (86 bp):
GAAGACAAACCTTGCCACTCTCGTTTGTAGCAGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCT
GCATTGACAGCGAAGCAGATC
Found at i:61273092 original size:46 final size:46
Alignment explanation
Indices: 61273030--61273262 Score: 183
Period size: 46 Copynumber: 5.2 Consensus size: 46
61273020 ATAACTCTAT
*
61273030 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATGGCAGATCTTAC
* * * ** *
61273076 CTTCCTGTATTTGGCAG-CGAAGCAGATCAAAGATGGCAGATTTTAC
1 CTCCCTGTATTTGGCAGTGGAA-TAGATTGAAGATGGCAGATCTTAC
*** * * ** * * *
61273122 CTCCCTG-A--CAACAGTGGAGTACATTGAAG-CCG-ATAACTCTAT
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATGGCAGATCT-TAC
*
61273164 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATGGCAGATCTTAC
* * * * *
61273210 CTTCCTGTATTTGGCAG-CGAAGCAGATCGAAGATGGCAGATTTTAC
1 CTCCCTGTATTTGGCAGTGGAA-TAGATTGAAGATGGCAGATCTTAC
61273256 CTCCCTG
1 CTCCCTG
61273263 ACCACAGTGG
Statistics
Matches: 138, Mismatches: 40, Indels: 18
0.70 0.20 0.09
Matches are distributed among these distances:
41 3 0.02
42 10 0.07
43 10 0.07
44 2 0.01
45 23 0.17
46 86 0.62
47 4 0.03
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (46 bp):
CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATGGCAGATCTTAC
Found at i:61273094 original size:134 final size:134
Alignment explanation
Indices: 61272922--61274411 Score: 1301
Period size: 134 Copynumber: 10.8 Consensus size: 134
61272912 GCAGAGCTGG
* *
61272922 TTGAAGATAT-CAGATCTTGCTTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTT
1 TTGAAGAT-TGCAGATCTTACCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTT
*
61272986 ACCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGA
65 ACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGA
61273051 ATAGA
130 ATAGA
61273056 TTGAAGATTGCAGATCTTACCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTACCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
*
61273121 CCTCCCTGACAACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
66 CCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
61273186 TAGA
131 TAGA
*
61273190 TTGAAGATTGCAGATCTTACCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTACCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
*
61273255 CCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGCATTTGGCAGTGGAA
66 CCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
61273320 TAGA
131 TAGA
* * * * * * * * ** *
61273324 TTGAAGATCAAAGATTGCAGATTTTACCTCCCTG-A-CT-ACAGTGGAGTACATTGAAG-TCG-A
1 TT---G----AAGATTGCAGATCTTACCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCA
* * * * ** * * * * * * *
61273384 TAACTCTATCTCCCTGCATCTGGCAGAGGAATAGATTGAAGATCGAAGATGGCAGATTTTACCTC
59 -GATTTTACCTCCCTG-A-C-CACAGTGGAGTACATTGAAG--C--CGAT---A-ACTCTATCTC
* * * *
61273449 CCTG-A-CT-ACAGTGGAGTACA
112 CCTGTATTTGGCAGTGGAATAGA
* * * * * * * * * *
61273469 TTGAAG-TCG-ATAACTCTATCTCCCTGCATCTGGCAGTGGAATAGATTGAAGATCGAAGATGGC
1 TTGAAGATTGCAGATCT-TACCTTCCTGTATTTGGCAG-CG---A-A--GCAGATCAAAGATGGC
* * *
61273532 AGATTTTACCTCCCTGACTACAGGGGAGTACATTGAAGCCGATAACTCTATCTCCCTGCATTTGG
58 AGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
61273597 CAGTGGAATAGA
123 CAGTGGAATAGA
* * * * * * * * ** ** **
61273609 TTGAAGATCAAATATGGCAGATTTTACCTCCCTG-A-CT-ACAGTGGAGTACATTGAAGCCGATA
1 TTGAAG-----AT-T-GCAGATCTTACCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCA
* * * ** * * ** * * *
61273671 -ACTCTATCTCCCTGCATCTGGCAGTGGAATAGATTGAAGATCAAATATGGCAGATTTTACCTCC
59 GATTTTACCTCCCTG-A-C-CACAGTGGAGTACATTGAAG--C--CGAT---A-ACTCTATCTCC
* * * *
61273735 CTG-A-CT-ACAGTGGAGTACA
113 CTGTATTTGGCAGTGGAATAGA
** * * * * * *
61273754 TTGAAG-CCG-ATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATCAAAGATGGC
1 TTGAAGATTGCAGATCT-TACCTTCCTGTATTTGGCAG-CG---A-A--GCAGATCAAAGATGGC
* * * *
61273817 AGAATTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCAGTATTT
58 AGATTTTACCTCC--CTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTT
61273882 GGCAGTGGAATAGA
121 GGCAGTGGAATAGA
* * *
61273896 TTGAAGATTGCAGATCTTGCCTTCTTGTATTTGACAGCGAAGCAGATCAAAAGATGGCAGATTTT
1 TTGAAGATTGCAGATCTTACCTTCCTGTATTTGGCAGCGAAGCAGATC-AAAGATGGCAGATTTT
* *
61273961 ACCTCCCTGACCACAGTGGAGTACACTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGA
65 ACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGA
61274026 ATAGA
130 ATAGA
** *
61274031 TTGAAGATTGCAGATCTGGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGACAGATTTTA
1 TTGAAGATTGCAGATCTTACCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
* *
61274096 CCTCCCTGACCACAGTGGAGTACATTAAAGCCGATAACTCTATTTCCCTGTATTTGGCAGTGGAA
66 CCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
61274161 TAGA
131 TAGA
*
61274165 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTACCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
61274230 CCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
66 CCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
61274295 TAGA
131 TAGA
* * * ** * *
61274299 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCAAAGCAGGTTGAAGACGGCGGATTTTA
1 TTGAAGATTGCAGATCTTACCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
** * * * **
61274364 CCTCCCTGATTATAGTGGAGTACATTGAAACTGATAGTTCTATCTCCC
66 CCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCC
61274412 GGGGCAAGAA
Statistics
Matches: 1109, Mismatches: 171, Indels: 152
0.77 0.12 0.11
Matches are distributed among these distances:
133 1 0.00
134 574 0.52
135 104 0.09
136 13 0.01
137 78 0.07
138 33 0.03
139 18 0.02
140 56 0.05
141 28 0.03
142 20 0.02
143 19 0.02
144 10 0.01
145 49 0.04
146 6 0.01
147 39 0.04
148 54 0.05
149 5 0.00
150 2 0.00
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (134 bp):
TTGAAGATTGCAGATCTTACCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
CCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
TAGA
Found at i:61273349 original size:95 final size:95
Alignment explanation
Indices: 61273233--61273903 Score: 1153
Period size: 95 Copynumber: 7.0 Consensus size: 95
61273223 GCAGCGAAGC
* *
61273233 AGATCGAAGATGGCAGATTTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
61273298 CTCCCTGCATTTGGCAGTGGAATAGATTGA
66 CTCCCTGCATTTGGCAGTGGAATAGATTGA
* *
61273328 AGATCAAAGATTGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGTCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
* *
61273393 CTCCCTGCATCTGGCAGAGGAATAGATTGA
66 CTCCCTGCATTTGGCAGTGGAATAGATTGA
* *
61273423 AGATCGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGTCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
*
61273488 CTCCCTGCATCTGGCAGTGGAATAGATTGA
66 CTCCCTGCATTTGGCAGTGGAATAGATTGA
* *
61273518 AGATCGAAGATGGCAGATTTTACCTCCCTGACTACAGGGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
61273583 CTCCCTGCATTTGGCAGTGGAATAGATTGA
66 CTCCCTGCATTTGGCAGTGGAATAGATTGA
*
61273613 AGATCAAATATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
*
61273678 CTCCCTGCATCTGGCAGTGGAATAGATTGA
66 CTCCCTGCATTTGGCAGTGGAATAGATTGA
*
61273708 AGATCAAATATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
*
61273773 CTCCCTGTATTTGGCAGTGGAATAGATTGA
66 CTCCCTGCATTTGGCAGTGGAATAGATTGA
* *
61273803 AGATCAAAGATGGCAGAATTTACCTCCATGTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
1 AGATCAAAGATGGCAGATTTTACCTCC--CTGACTACAGTGGAGTACATTGAAGCCGATAACTCT
* *
61273868 ATCTCCCAGTATTTGGCAGTGGAATAGATTGA
64 ATCTCCCTGCATTTGGCAGTGGAATAGATTGA
61273900 AGAT
1 AGAT
61273904 TGCAGATCTT
Statistics
Matches: 552, Mismatches: 22, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
95 482 0.87
97 70 0.13
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (95 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
CTCCCTGCATTTGGCAGTGGAATAGATTGA
Found at i:61274194 original size:46 final size:46
Alignment explanation
Indices: 61274005--61274335 Score: 170
Period size: 46 Copynumber: 7.4 Consensus size: 46
61273995 ATAATTCTAT
**
61274005 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTGGC
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
* * * ** *
61274051 CTTCCTGTATTTGGCAG-CGAAGCAGATCAAAGA-TGACAGATTTTAC
1 CTCCCTGTATTTGGCAGTGGAA-TAGATTGAAGATTG-CAGATCTTAC
*** * * * *
61274097 CTCCCTG-A--CCACAGTGGAGTACATT-AA-A--GCCGATAACTCTAT
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGAT--CT-TAC
* *
61274139 TTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGC
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
* * * ** * *
61274185 CTTCCTGTATTTGGCAG-CGAAGCAGATCAAAGATGGCAGATTTTAC
1 CTCCCTGTATTTGGCAGTGGAA-TAGATTGAAGATTGCAGATCTTAC
*** * * ** * * *
61274231 CTCCCTG-A--CCACAGTGGAGTACATTGAAG-CCG-ATAACTCTAT
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCT-TAC
*
61274273 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGC
1 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
*
61274319 CTTCCTGTATTTGGCAG
1 CTCCCTGTATTTGGCAG
61274336 CAAAGCAGGT
Statistics
Matches: 198, Mismatches: 66, Indels: 42
0.65 0.22 0.14
Matches are distributed among these distances:
39 4 0.02
40 1 0.01
41 5 0.03
42 20 0.10
43 17 0.09
44 4 0.02
45 38 0.19
46 97 0.49
47 7 0.04
49 5 0.03
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (46 bp):
CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTAC
Found at i:61274472 original size:44 final size:45
Alignment explanation
Indices: 61274419--61274667 Score: 265
Period size: 44 Copynumber: 5.6 Consensus size: 45
61274409 CCCGGGGCAA
* * *
61274419 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAG-
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGT
* * * *
61274463 GAAATAGATCGAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGC
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGT
* * * * *
61274507 GAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGG-CGT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGT
* * * *
61274551 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAG-
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGT
* * * * *
61274595 GAAGTGGATCGACGAT-GCAGATCTTGTCTTCCCATACTGGTGGT
1 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGT
*
61274639 GAAGTAGATCGAAGAAAGCAGATCTTGTC
1 GAAGTAGATCGAAGATAGCAGATCTTGTC
61274668 CCTGTATTTG
Statistics
Matches: 165, Mismatches: 35, Indels: 9
0.79 0.17 0.04
Matches are distributed among these distances:
43 42 0.25
44 89 0.54
45 34 0.21
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (45 bp):
GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGT
Found at i:61274656 original size:132 final size:132
Alignment explanation
Indices: 61274419--61274667 Score: 417
Period size: 132 Copynumber: 1.9 Consensus size: 132
61274409 CCCGGGGCAA
* *
61274419 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAATAGATCGAAGATGCAGA
1 GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGATAGGAAATAGATCGAAGATGCAGA
* *
61274484 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
66 TCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
61274549 GT
131 GT
* * * *
61274551 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCGACGATGCAGA
1 GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGATAGGAAATAGATCGAAGATGCAGA
*
61274616 TCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTC
66 TCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTC
61274668 CCTGTATTTG
Statistics
Matches: 108, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
132 108 1.00
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (132 bp):
GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGATAGGAAATAGATCGAAGATGCAGA
TCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
GT
Found at i:61274691 original size:132 final size:131
Alignment explanation
Indices: 61274419--61274706 Score: 400
Period size: 132 Copynumber: 2.2 Consensus size: 131
61274409 CCCGGGGCAA
* *
61274419 GAAGTAGATCGAAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAATAGATCGAAGATGCAGA
1 GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGATAGGAAATAGATCGAAGATGCAGA
* * *
61274484 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
66 TCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTC-TCATGTATTGAC
61274549 GT
130 GT
* * * *
61274551 GAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGATAGGAAGTGGATCGACGATGCAGA
1 GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGATAGGAAATAGATCGAAGATGCAGA
* *
61274616 TCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTC-CCTGTATTTGAC
66 TCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTCATGTA-TTGAC
61274680 AGT
130 -GT
* * *
61274683 GGAA-TAGATTGAGGATTGCAGATC
1 -GAAGTAGATCGAAGATAGCAGATC
61274707 TTGCCTTCCT
Statistics
Matches: 138, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
130 5 0.04
131 4 0.03
132 126 0.91
133 3 0.02
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (131 bp):
GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGATAGGAAATAGATCGAAGATGCAGA
TCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTCATGTATTGACG
T
Found at i:61275819 original size:3 final size:3
Alignment explanation
Indices: 61275811--61275841 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
61275801 NNNNNNNNNN
*
61275811 ATT ATT ATT ATT ATT ATT ATT ATT TTT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
61275842 GTTTATGCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:61276119 original size:64 final size:64
Alignment explanation
Indices: 61276045--61276176 Score: 164
Period size: 64 Copynumber: 2.1 Consensus size: 64
61276035 GTCGTATTAT
*
61276045 TATATTTTAATATTA-TA-TTATATAATTATA-TA-TACATATATCTTTTATATATATTATCATT
1 TATATTTTAATATTATTAGTTATAT-ATTACACTATTACATATAT-TTTTATA-ATATTAT-ATT
61276106 GTA
62 GTA
* * *
61276109 TATATTTTAATATTATTAGTTATATTTTACACTATTATATATATTTTTCTAATATTATATTGTA
1 TATATTTTAATATTATTAGTTATATATTACACTATTACATATATTTTTATAATATTATATTGTA
61276173 TATA
1 TATA
61276177 CTGTTGTTTA
Statistics
Matches: 60, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
64 25 0.42
65 13 0.22
66 14 0.23
67 8 0.13
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (64 bp):
TATATTTTAATATTATTAGTTATATATTACACTATTACATATATTTTTATAATATTATATTGTA
Found at i:61276151 original size:19 final size:18
Alignment explanation
Indices: 61276107--61276166 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 18
61276097 ATTATCATTG
61276107 TATATATTTTAATATTAT
1 TATATATTTTAATATTAT
61276125 TAGTTATATTTTACACTATTAT
1 TA--TATATTTTA-A-TATTAT
*
61276147 ATATATTTTTCTAATATTAT
1 -TATATATTT-TAATATTAT
61276167 ATTGTATATA
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
18 2 0.06
20 15 0.43
21 8 0.23
22 8 0.23
23 2 0.06
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (18 bp):
TATATATTTTAATATTAT
Found at i:61290837 original size:20 final size:21
Alignment explanation
Indices: 61290806--61290853 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
61290796 TTAATTTTTT
61290806 AAAATT-TAAAA-TATTCTA-A
1 AAAATTATAAAATTATT-TATA
61290825 AAAATTATAAAATTATTTATA
1 AAAATTATAAAATTATTTATA
61290846 AAAATTAT
1 AAAATTAT
61290854 TAAAGAAGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.23
20 7 0.27
21 13 0.50
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
AAAATTATAAAATTATTTATA
Found at i:61291633 original size:9 final size:8
Alignment explanation
Indices: 61291604--61291634 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
61291594 ATTTTTATTT
61291604 TATTTTAA
1 TATTTTAA
61291612 TATTTTAA
1 TATTTTAA
61291620 TATTTTATA
1 TATTTTA-A
61291629 TATTTT
1 TATTTT
61291635 TTATTTATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 15 0.68
9 7 0.32
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (8 bp):
TATTTTAA
Found at i:61291639 original size:16 final size:15
Alignment explanation
Indices: 61291601--61291640 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
61291591 ATTATTTTTA
61291601 TTTTATTTTAATATT
1 TTTTATTTTAATATT
*
61291616 TTAATATTTTATATATT
1 TT-TTATTTTA-ATATT
61291633 TTTTATTT
1 TTTTATTT
61291641 ATTGAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 2 0.10
16 12 0.57
17 7 0.33
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTATTTTAATATT
Found at i:61291774 original size:16 final size:16
Alignment explanation
Indices: 61291743--61291775 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
61291733 TACAAAATAT
61291743 ATATATATAAAATAAA
1 ATATATATAAAATAAA
61291759 ATAT-TATAAAATTAAA
1 ATATATATAAAA-TAAA
61291775 A
1 A
61291776 ACAAGTCAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
ATATATATAAAATAAA
Found at i:61297256 original size:22 final size:23
Alignment explanation
Indices: 61297222--61297265 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
61297212 GATATTAACC
* *
61297222 ATTTTTTTGTTTTTCGTTTTAAG
1 ATTTTTCTGTTTTCCGTTTTAAG
*
61297245 ATTTTTCT-TTTTCCTTTTTAA
1 ATTTTTCTGTTTTCCGTTTTAA
61297266 AATCTCTGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.14, C:0.09, G:0.07, T:0.70
Consensus pattern (23 bp):
ATTTTTCTGTTTTCCGTTTTAAG
Found at i:61299542 original size:2 final size:2
Alignment explanation
Indices: 61299535--61299567 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
61299525 GTTAAAATTT
*
61299535 TA TA TA TA TA TA TA TA TA TA TA GA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
61299568 TTAATTATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:61300280 original size:18 final size:17
Alignment explanation
Indices: 61300257--61300290 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
61300247 TTCAATTATC
61300257 ATTTTAATATTTTTTTGT
1 ATTTT-ATATTTTTTTGT
*
61300275 ATTTTATGTTTTTTTG
1 ATTTTATATTTTTTTG
61300291 GAAAGAAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.74
Consensus pattern (17 bp):
ATTTTATATTTTTTTGT
Found at i:61304444 original size:30 final size:30
Alignment explanation
Indices: 61303570--61304443 Score: 1712
Period size: 30 Copynumber: 29.1 Consensus size: 30
61303560 TTTTATTATG
*
61303570 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
61303601 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61303631 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61303661 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61303691 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61303721 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61303751 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61303781 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61303811 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61303841 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61303871 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61303901 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61303931 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61303961 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61303991 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61304021 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61304051 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61304081 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61304111 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61304141 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61304171 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61304201 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61304231 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61304261 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61304291 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61304321 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61304351 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61304381 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* *
61304411 CCATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61304441 CCA
1 CCA
61304444 TAAATATGGA
Statistics
Matches: 840, Mismatches: 3, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
30 833 0.99
31 7 0.01
ACGTcount: A:0.27, C:0.24, G:0.07, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:61309883 original size:30 final size:30
Alignment explanation
Indices: 61309009--61309882 Score: 1712
Period size: 30 Copynumber: 29.1 Consensus size: 30
61308999 TTTTATTATG
*
61309009 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
61309040 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61309070 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61309100 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61309130 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61309160 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61309190 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61309220 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61309250 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61309280 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61309310 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61309340 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61309370 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61309400 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61309430 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61309460 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61309490 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61309520 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61309550 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61309580 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61309610 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61309640 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61309670 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61309700 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61309730 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61309760 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61309790 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61309820 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* *
61309850 CCATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
61309880 CCA
1 CCA
61309883 TAAATATGGA
Statistics
Matches: 840, Mismatches: 3, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
30 833 0.99
31 7 0.01
ACGTcount: A:0.27, C:0.24, G:0.07, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:61315166 original size:21 final size:21
Alignment explanation
Indices: 61315137--61315177 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
61315127 AGAACACGCC
*
61315137 AACAAAAGCTCGTGAGAGCTG
1 AACAAAAGCTCGTAAGAGCTG
* *
61315158 AACAGAAGCTCTTAAGAGCT
1 AACAAAAGCTCGTAAGAGCT
61315178 TATCCACCCA
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:0.39, C:0.20, G:0.24, T:0.17
Consensus pattern (21 bp):
AACAAAAGCTCGTAAGAGCTG
Found at i:61319609 original size:15 final size:16
Alignment explanation
Indices: 61319591--61319625 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
61319581 AATTGGAAAG
61319591 ATGAAAATTT-ATTAA
1 ATGAAAATTTAATTAA
*
61319606 ATGATAATTTAATTAA
1 ATGAAAATTTAATTAA
61319622 ATGA
1 ATGA
61319626 TAAGAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (16 bp):
ATGAAAATTTAATTAA
Found at i:61319622 original size:16 final size:15
Alignment explanation
Indices: 61319591--61319628 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
61319581 AATTGGAAAG
*
61319591 ATGAAAATTTATTAA
1 ATGATAATTTATTAA
61319606 ATGATAATTTAATTAA
1 ATGATAATTT-ATTAA
61319622 ATGATAA
1 ATGATAA
61319629 GAAAAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (15 bp):
ATGATAATTTATTAA
Found at i:61323098 original size:46 final size:46
Alignment explanation
Indices: 61323050--61323322 Score: 336
Period size: 46 Copynumber: 6.0 Consensus size: 46
61323040 GCTCTTTGAT
** * * *
61323050 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGGAACGTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
61323096 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATAAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * *
61323142 GGGAAATGAATAAGACCATGGTTGAAAGACACCATGGCAGCGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
61323188 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
61323234 A-GAAAATGAATAAGACCATGGTTGAAAGGTACCATGGCAGCGTGAC
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * *
61323280 A--AAGATAAATAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATGAA-ATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
61323323 TCAAAGATAA
Statistics
Matches: 198, Mismatches: 27, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
44 2 0.01
45 33 0.17
46 163 0.82
ACGTcount: A:0.41, C:0.15, G:0.25, T:0.19
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:61323209 original size:92 final size:92
Alignment explanation
Indices: 61323060--61323317 Score: 385
Period size: 92 Copynumber: 2.8 Consensus size: 92
61323050 ATGAAATGTG
* * *
61323060 TAAGACCATGGTTGAAAGATACCATGGGAACGTGATATGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGAATAAGACCATGGTTGAAAGA
* *
61323125 TACCATGGCAACATAACGGGAAATGAA
66 TACCATGGCAACATAACAGAAAATGAA
*
61323152 TAAGACCATGGTTGAAAGACACCATGGCAGCGTGACATGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGAATAAGACCATGGTTGAAAGA
*
61323217 TACCATGGCAACATGACAGAAAATGAA
66 TACCATGGCAACATAACAGAAAATGAA
* * *
61323244 TAAGACCATGGTTGAAAGGTACCATGGCAGCGTGACA--AAGATAAATAAGACCATAGTTGAAAG
1 TAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATGAA-ATGAATAAGACCATGGTTGAAAG
* *
61323307 ACACTATGGCA
65 ATACCATGGCA
61323318 TCATGTCAAA
Statistics
Matches: 152, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
90 2 0.01
91 30 0.20
92 120 0.79
ACGTcount: A:0.42, C:0.15, G:0.24, T:0.19
Consensus pattern (92 bp):
TAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGAATAAGACCATGGTTGAAAGA
TACCATGGCAACATAACAGAAAATGAA
Found at i:61323624 original size:16 final size:17
Alignment explanation
Indices: 61323603--61323635 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
61323593 ATGATGGTGC
61323603 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
61323619 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
61323636 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:61325086 original size:6 final size:6
Alignment explanation
Indices: 61325075--61325101 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
61325065 CCATATTGGC
61325075 ATGTAA ATGTAA ATGTAA ATGTAA ATG
1 ATGTAA ATGTAA ATGTAA ATGTAA ATG
61325102 ATGCTTGCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.19, T:0.33
Consensus pattern (6 bp):
ATGTAA
Found at i:61325903 original size:39 final size:39
Alignment explanation
Indices: 61325849--61325926 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
61325839 GACGTTATGA
*
61325849 ATAAATCTCAGTTAATGAATTGTAATTTACACGAATTAT
1 ATAAATCTCAATTAATGAATTGTAATTTACACGAATTAT
61325888 ATAAATCTCAATTAATGAATTGTAATTTACACGAATTAT
1 ATAAATCTCAATTAATGAATTGTAATTTACACGAATTAT
61325927 CTGAAAATGT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.38
Consensus pattern (39 bp):
ATAAATCTCAATTAATGAATTGTAATTTACACGAATTAT
Found at i:61327300 original size:23 final size:22
Alignment explanation
Indices: 61327268--61327311 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
61327258 AACCAATCCA
61327268 ATTCAACATATTT-TCAAGATAG
1 ATTCAACATATTTAT-AAGATAG
61327290 ATTCATACATATTTATAAGATA
1 ATTCA-ACATATTTATAAGATA
61327312 ACCTCATCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 5 0.25
23 14 0.70
24 1 0.05
ACGTcount: A:0.43, C:0.11, G:0.07, T:0.39
Consensus pattern (22 bp):
ATTCAACATATTTATAAGATAG
Found at i:61331742 original size:20 final size:20
Alignment explanation
Indices: 61331717--61331762 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
61331707 GTTGGGCTTT
61331717 GCCCATATT-AACACAGTTG
1 GCCCATATTCAACACAGTTG
*
61331736 AGCCCAT-TTCAATACAGTTG
1 -GCCCATATTCAACACAGTTG
61331756 GCCCATA
1 GCCCATA
61331763 ACAAAACAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:61331771 original size:19 final size:20
Alignment explanation
Indices: 61331729--61331772 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
61331719 CCATATTAAC
** *
61331729 ACAGTTGAGCCCATTTCAAT
1 ACAGTTGAGCCCATAACAAA
61331749 ACAGTTG-GCCCATAACAAA
1 ACAGTTGAGCCCATAACAAA
61331768 ACAGT
1 ACAGT
61331773 CTCATATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.23
Consensus pattern (20 bp):
ACAGTTGAGCCCATAACAAA
Found at i:61333012 original size:64 final size:64
Alignment explanation
Indices: 61332939--61333149 Score: 151
Period size: 64 Copynumber: 3.2 Consensus size: 64
61332929 CTGGGGCAGA
*
61332939 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * *** * ** *
61333003 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---GT
* *
61333065 ACTGGGCCAGA-
54 A-TGGCCCATAG
*
61333076 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
61333140 GCCCATTTCA
1 GCCCATTTCA
61333150 AAATACATGC
Statistics
Matches: 103, Mismatches: 27, Indels: 34
0.63 0.16 0.21
Matches are distributed among these distances:
63 9 0.09
64 25 0.24
65 5 0.05
66 1 0.01
67 11 0.11
68 5 0.05
69 5 0.05
70 11 0.11
71 1 0.01
72 5 0.05
73 16 0.16
74 9 0.09
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:61333151 original size:137 final size:137
Alignment explanation
Indices: 61332905--61333191 Score: 547
Period size: 137 Copynumber: 2.1 Consensus size: 137
61332895 TATTGGGCCT
** *
61332905 AAGCCCATTCAGGTAACAGTGGTACTGGGGCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
61332970 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
61333035 CATATGC
131 CATATGC
61333042 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
61333107 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
61333172 CATATGC
131 CATATGC
61333179 AAGCCCATTTGGG
1 AAGCCCATTTGGG
61333192 GAGACTACTC
Statistics
Matches: 147, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
137 147 1.00
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:61335006 original size:26 final size:26
Alignment explanation
Indices: 61334977--61335060 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
61334967 CATGAAATTC
61334977 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
61335003 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
61335029 TTATCATGGAACATTTGCCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
61335055 TTATCA
1 TTATCA
61335061 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:61341697 original size:40 final size:40
Alignment explanation
Indices: 61341578--61341699 Score: 165
Period size: 40 Copynumber: 3.0 Consensus size: 40
61341568 AACAAATCAG
*
61341578 CTATATGTGGCACTTAGTGTGCGATTCAACATAGTTTCGG
1 CTATATGTGGCACTTAGTGTGCGATTCAACATAGTTTCGA
* *
61341618 CTATACGTGGCACTTAGTGTGCGATTCGACATA-TCTTCGA
1 CTATATGTGGCACTTAGTGTGCGATTCAACATAGT-TTCGA
* * * *
61341658 CTATATATGGCACTTAGTTTGCGATTTAAGATAGTTTCGA
1 CTATATGTGGCACTTAGTGTGCGATTCAACATAGTTTCGA
61341698 CT
1 CT
61341700 GTGTACGACA
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 69 0.97
41 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (40 bp):
CTATATGTGGCACTTAGTGTGCGATTCAACATAGTTTCGA
Found at i:61351150 original size:18 final size:17
Alignment explanation
Indices: 61351109--61351152 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
61351099 GAAAAATGAG
61351109 AATTTT-AAAACACGAA
1 AATTTTGAAAACACGAA
61351125 AATTTTGAAAACACGAA
1 AATTTTGAAAACACGAA
61351142 AATTTTTGAAA
1 AA-TTTTGAAA
61351153 CCTGAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 6 0.23
17 12 0.46
18 8 0.31
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.30
Consensus pattern (17 bp):
AATTTTGAAAACACGAA
Found at i:61351195 original size:18 final size:18
Alignment explanation
Indices: 61351109--61351200 Score: 59
Period size: 17 Copynumber: 5.1 Consensus size: 18
61351099 GAAAAATGAG
61351109 AATTTTA-AAACACG-AA
1 AATTTTAGAAACACGAAA
61351125 AATTTT-GAAAACACG-AA
1 AATTTTAG-AAACACGAAA
* *
61351142 AATTTTTGAAAC-CTGAATTT
1 AATTTTAGAAACAC-GAA--A
**
61351162 TTTTTTAGAAAAACACGAAA
1 AATTTTAG--AAACACGAAA
61351182 AATTTTAGAAACACGAAA
1 AATTTTAGAAACACGAAA
61351200 A
1 A
61351201 GTTTACAACA
Statistics
Matches: 59, Mismatches: 7, Indels: 18
0.70 0.08 0.21
Matches are distributed among these distances:
16 7 0.12
17 20 0.34
18 13 0.22
20 11 0.19
22 7 0.12
23 1 0.02
ACGTcount: A:0.50, C:0.11, G:0.10, T:0.29
Consensus pattern (18 bp):
AATTTTAGAAACACGAAA
Found at i:61351205 original size:17 final size:18
Alignment explanation
Indices: 61351172--61351205 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
61351162 TTTTTTAGAA
*
61351172 AAACACGAAAAATTTTAG
1 AAACACGAAAAAGTTTAG
61351190 AAACACG-AAAAGTTTA
1 AAACACGAAAAAGTTTA
61351206 CAACACTAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.56, C:0.12, G:0.12, T:0.21
Consensus pattern (18 bp):
AAACACGAAAAAGTTTAG
Found at i:61351772 original size:15 final size:17
Alignment explanation
Indices: 61351752--61351783 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
61351742 TTAGGAAACG
61351752 TACATAA-A-AAATATA
1 TACATAATATAAATATA
61351767 TACATAATATAAATATA
1 TACATAATATAAATATA
61351784 ATATATACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (17 bp):
TACATAATATAAATATA
Found at i:61352326 original size:11 final size:11
Alignment explanation
Indices: 61352292--61352333 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
61352282 AAATCATTTT
61352292 GAAGAGAGAAA
1 GAAGAGAGAAA
* *
61352303 GAA-AAAAAAA
1 GAAGAGAGAAA
*
61352313 GAAGGGAGAAA
1 GAAGAGAGAAA
61352324 GAAGAGAGAA
1 GAAGAGAGAA
61352334 GGGAGGGGGG
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
10 8 0.33
11 16 0.67
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (11 bp):
GAAGAGAGAAA
Found at i:61352795 original size:20 final size:20
Alignment explanation
Indices: 61352770--61352812 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
61352760 GGTTTCTTAG
61352770 TTTTTTTTTTGGGGTTAGGT
1 TTTTTTTTTTGGGGTTAGGT
61352790 TTTTTTTTTTGGGGTTAGGT
1 TTTTTTTTTTGGGGTTAGGT
61352810 TTT
1 TTT
61352813 CTGGGGGGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.05, C:0.00, G:0.28, T:0.67
Consensus pattern (20 bp):
TTTTTTTTTTGGGGTTAGGT
Found at i:61353863 original size:74 final size:76
Alignment explanation
Indices: 61353684--61353869 Score: 297
Period size: 74 Copynumber: 2.5 Consensus size: 76
61353674 GTGATCTAAA
61353684 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCA-C
*
61353749 ATGTGAACCGAG
65 ACGTGAACCGAG
*
61353761 GCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAA-ACAGAAATTGAAAATACCTCA-A
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCACA
* *
61353824 CGTG-TCTTGAG
66 CGTGAAC-CGAG
61353835 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
61353870 GAAAAATAAA
Statistics
Matches: 103, Mismatches: 5, Indels: 5
0.91 0.04 0.04
Matches are distributed among these distances:
73 1 0.01
74 41 0.40
76 21 0.20
77 40 0.39
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.31
Consensus pattern (76 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCACA
CGTGAACCGAG
Found at i:61353947 original size:83 final size:86
Alignment explanation
Indices: 61353806--61353968 Score: 287
Period size: 83 Copynumber: 1.9 Consensus size: 86
61353796 TTGAAAACAG
61353806 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACG-GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
*
61353871 A-AAA-ATAAATTGACAAACGA
65 ACAAACAGAAATTGACAAACGA
61353891 AAATTGAAAATACCTCAAC-GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
1 AAATTGAAAATACCTCAACGGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
61353955 CAAACAGAAATTGA
66 CAAACAGAAATTGA
61353969 AACATCAAAA
Statistics
Matches: 75, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
83 45 0.60
84 3 0.04
85 27 0.36
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.28
Consensus pattern (86 bp):
AAATTGAAAATACCTCAACGGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
CAAACAGAAATTGACAAACGA
Found at i:61355562 original size:4 final size:4
Alignment explanation
Indices: 61355548--61355602 Score: 66
Period size: 4 Copynumber: 14.8 Consensus size: 4
61355538 ACCTCTCCAT
61355548 TTTC TTTTC TTTC -TT- TTTC TTTC TTTC TTTC -TT- TTTC TTTC TTTC
1 TTTC -TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
61355593 TTT- TTTC TTT
1 TTTC TTTC TTT
61355603 TGAATGAATG
Statistics
Matches: 45, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
3 11 0.24
4 30 0.67
5 4 0.09
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (4 bp):
TTTC
Found at i:61355570 original size:14 final size:14
Alignment explanation
Indices: 61355548--61355602 Score: 78
Period size: 14 Copynumber: 3.9 Consensus size: 14
61355538 ACCTCTCCAT
61355548 TTTC-TTTTCTTTC
1 TTTCTTTTTCTTTC
61355561 TTT-TTCTTTCTTTC
1 TTTCTT-TTTCTTTC
61355575 TTTCTTTTTCTTTC
1 TTTCTTTTTCTTTC
61355589 TTTCTTTTTTCTTT
1 TTTC-TTTTTCTTT
61355603 TGAATGAATG
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.11
14 23 0.61
15 11 0.29
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTCTTTTTCTTTC
Found at i:61355576 original size:18 final size:18
Alignment explanation
Indices: 61355548--61355595 Score: 87
Period size: 18 Copynumber: 2.6 Consensus size: 18
61355538 ACCTCTCCAT
61355548 TTTCTTTTCTTTCTTTTTC
1 TTTC-TTTCTTTCTTTTTC
61355567 TTTCTTTCTTTCTTTTTC
1 TTTCTTTCTTTCTTTTTC
61355585 TTTCTTTCTTT
1 TTTCTTTCTTT
61355596 TTTCTTTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 25 0.86
19 4 0.14
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTCTTTCTTTCTTTTTC
Found at i:61356194 original size:1 final size:1
Alignment explanation
Indices: 61356184--61356252 Score: 66
Period size: 1 Copynumber: 69.0 Consensus size: 1
61356174 TTGATCTCTC
* * * * * * * *
61356184 TTTTTGTTTTTTGTTTTTTTTTATTTTTTTGTTTTTTGTTTTTTTTTTATTTTTTTATTTTTTTC
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
61356249 TTTT
1 TTTT
61356253 CATGACTGTC
Statistics
Matches: 52, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.04, C:0.01, G:0.06, T:0.88
Consensus pattern (1 bp):
T
Found at i:61356216 original size:25 final size:26
Alignment explanation
Indices: 61356184--61356246 Score: 110
Period size: 26 Copynumber: 2.5 Consensus size: 26
61356174 TTGATCTCTC
61356184 TTTTTGTTTTTTG-TTTTTTTTTATT
1 TTTTTGTTTTTTGTTTTTTTTTTATT
61356209 TTTTTGTTTTTTGTTTTTTTTTTATT
1 TTTTTGTTTTTTGTTTTTTTTTTATT
*
61356235 TTTTTATTTTTT
1 TTTTTGTTTTTT
61356247 TCTTTTCATG
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
25 13 0.36
26 23 0.64
ACGTcount: A:0.05, C:0.00, G:0.06, T:0.89
Consensus pattern (26 bp):
TTTTTGTTTTTTGTTTTTTTTTTATT
Found at i:61359871 original size:17 final size:18
Alignment explanation
Indices: 61359838--61359871 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
61359828 TTTTTTAGAA
*
61359838 AAACACGAAAAATTTTAG
1 AAACACGAAAAAGTTTAG
61359856 AAACACG-AAAAGTTTA
1 AAACACGAAAAAGTTTA
61359872 CAACACTAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.56, C:0.12, G:0.12, T:0.21
Consensus pattern (18 bp):
AAACACGAAAAAGTTTAG
Found at i:61360402 original size:3 final size:3
Alignment explanation
Indices: 61360394--61360421 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
61360384 ACTAATTTAA
61360394 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
61360422 CAAACCAACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:61361766 original size:56 final size:54
Alignment explanation
Indices: 61361545--61361923 Score: 588
Period size: 56 Copynumber: 7.0 Consensus size: 54
61361535 GTGAGCCAAT
* *
61361545 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAGAATTTGCAAAAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT--AAAAG
*
61361600 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTGGAAAAAC--AAA--AAAAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAG
*
61361650 GCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAACAGAAATTAAAAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAG
*
61361704 GCTCAACTCACCTCTCGCAATATGAGTTAGTTTTTTTGAAAAACAGAAATTAAAAG
1 GCTCAACTCACCTCTCGCAATATGAGTT-G-ATTTTTGAAAAACAGAAATTAAAAG
61361760 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAG
* *
61361814 GCTTAACTCACCTCTCGCAATATGAGTTGGTTTTTTTGAAAAACAGAAATTAAAAG
1 GCTCAACTCACCTCTCGCAATATGAGTT-G-ATTTTTGAAAAACAGAAATTAAAAG
*
61361870 GCTCAACTCACCTCTCGCAATATGAGTTGATTATTGAAAAACAGAAATTGAAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT-AAAA
61361924 AACAGAAATT
Statistics
Matches: 302, Mismatches: 12, Indels: 20
0.90 0.04 0.06
Matches are distributed among these distances:
50 45 0.15
52 3 0.01
54 104 0.34
55 42 0.14
56 108 0.36
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (54 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAG
Found at i:61361787 original size:110 final size:110
Alignment explanation
Indices: 61361545--61361923 Score: 612
Period size: 110 Copynumber: 3.5 Consensus size: 110
61361535 GTGAGCCAAT
* *
61361545 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAGAATTTGCAAAAGGCTCAACTC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTG-AAAAGGCTCAACTC
* *
61361609 ACCTCTCGCAATATGAGTTG-ATTTTGGAAAAAC--AAA--AAAAG
65 ACCTCTCGCAATATGAGTTGTTTTTTTGAAAAACAGAAATTAAAAG
*
61361650 GCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAACAGAAATT-AAAAGGCTCAACTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAGGCTCAACTCA
61361714 CCTCTCGCAATATGAGTTAGTTTTTTTGAAAAACAGAAATTAAAAG
66 CCTCTCGCAATATGAGTT-GTTTTTTTGAAAAACAGAAATTAAAAG
*
61361760 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT-AAAAGGCTTAACTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAGGCTCAACTCA
61361824 CCTCTCGCAATATGAGTTGGTTTTTTTGAAAAACAGAAATTAAAAG
66 CCTCTCGCAATATGAGTT-GTTTTTTTGAAAAACAGAAATTAAAAG
*
61361870 GCTCAACTCACCTCTCGCAATATGAGTTGATTATTGAAAAACAGAAATTGAAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAA
61361924 AACAGAAATT
Statistics
Matches: 257, Mismatches: 9, Indels: 10
0.93 0.03 0.04
Matches are distributed among these distances:
104 33 0.13
105 35 0.14
106 22 0.09
108 3 0.01
110 160 0.62
111 4 0.02
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (110 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAGGCTCAACTCA
CCTCTCGCAATATGAGTTGTTTTTTTGAAAAACAGAAATTAAAAG
Found at i:61361926 original size:15 final size:14
Alignment explanation
Indices: 61361902--61361952 Score: 84
Period size: 14 Copynumber: 3.6 Consensus size: 14
61361892 TGAGTTGATT
61361902 ATTGAAAAACAGAA
1 ATTGAAAAACAGAA
61361916 ATTGAAAAAACAGAA
1 ATTG-AAAAACAGAA
*
61361931 ATTGAAAAGCAGAA
1 ATTGAAAAACAGAA
61361945 ATTGAAAA
1 ATTGAAAA
61361953 TACCTCAGCG
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
14 21 0.60
15 14 0.40
ACGTcount: A:0.63, C:0.06, G:0.16, T:0.16
Consensus pattern (14 bp):
ATTGAAAAACAGAA
Found at i:61362137 original size:87 final size:86
Alignment explanation
Indices: 61361922--61362358 Score: 471
Period size: 87 Copynumber: 5.0 Consensus size: 86
61361912 AGAAATTGAA
**
61361922 AAAACA-GAAATTGAAAAGCAGAAATTGAAAATACCTCAGC-GT-GCCCTGAGGCTCAACTCACC
1 AAAACATG-AATTGAAAAATAGAAATTGAAAATACCTCAGCTGTGGCCC-GAGGCTCAACTCACC
* *
61361984 TCTTGCAATATGAGCTGATTTTTTTTTG
64 TCTCGCAATATGAGTTGA-----TTTTG
* * * *
61362012 AAACACA-GAAATTAAAAAAATAGAATTTGAAAAGACCTCAGCGTGTGGCCCGAGACTCAACTCA
1 AAA-ACATG-AATT-GAAAAATAGAAATTGAAAATACCTCAGC-TGTGGCCCGAGGCTCAACTCA
61362076 CCTCTCGCAATATGAGTTGA-TTTG
62 CCTCTCGCAATATGAGTTGATTTTG
* ** * *
61362100 AAAAGCA-GAATTAGTAAAGCAGAAATTGAAAATACCTCAAC-GT-GCCCTAAGGCTCAACTCAC
1 AAAA-CATGAATT-GAAAAATAGAAATTGAAAATACCTCAGCTGTGGCCC-GAGGCTCAACTCAC
61362162 CTCTCGCAATATGAGTTGATTTTG
63 CTCTCGCAATATGAGTTGATTTTG
* * *
61362186 GAAACATGAATTGAAAAATAAAAATTGAAAATACCTCAGCATGTGAG-CTGAGGCTCAACTCACC
1 AAAACATGAATTGAAAAATAGAAATTGAAAATACCTCAGC-TGTG-GCCCGAGGCTCAACTCACC
61362250 TCTCGCAATATGAGTTGATTTTG
64 TCTCGCAATATGAGTTGATTTTG
* * *
61362273 GAAACATGAATTGAAAAATAAAAATTGAAAATACCTCAGCATGTGAG-CTGAGGCTCAACTCACC
1 AAAACATGAATTGAAAAATAGAAATTGAAAATACCTCAGC-TGTG-GCCCGAGGCTCAACTCACC
61362337 TCTCGCAATATGAGTTGATTTT
64 TCTCGCAATATGAGTTGATTTT
61362359 TTTGAAAAGC
Statistics
Matches: 309, Mismatches: 25, Indels: 29
0.85 0.07 0.08
Matches are distributed among these distances:
84 4 0.01
85 58 0.19
86 12 0.04
87 152 0.49
88 11 0.04
89 1 0.00
90 3 0.01
91 9 0.03
92 23 0.07
94 32 0.10
95 4 0.01
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (86 bp):
AAAACATGAATTGAAAAATAGAAATTGAAAATACCTCAGCTGTGGCCCGAGGCTCAACTCACCTC
TCGCAATATGAGTTGATTTTG
Found at i:61362592 original size:79 final size:75
Alignment explanation
Indices: 61362283--61363156 Score: 568
Period size: 73 Copynumber: 11.0 Consensus size: 75
61362273 GAAACATGAA
* * **
61362283 TTGAAAAATAAAAATTGAAAATACCTCAGCATGTGAGCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGC--GTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
61362348 GAGTTGATTTTT
64 GAGTTGATTTTT
* *
61362360 TTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
61362425 GTTGATTTTT
66 GTTGATTTTT
** * * * * * *
61362435 GAAAAGCATAAACGGAAATTGAAAATACCTCGGCATGCCCTGAGGCTCAACTCACCTCTCCCAAT
1 ---TTG-AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
61362500 ATGAGTTGA--TTT
62 ATGAGTTGATTTTT
* **
61362512 TTGAAAAATAGAAATTGAAGTTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
61362577 GTTGAATTTTTTTT
66 GTTG-A---TTTTT
* ** * *** * * * *
61362591 TTGAAAGACAGAAATTGAAAAATAGAAATTGAAAATACCTCAGCATGTGAGCTGATGCTCAACTC
1 TTGAAAAACAGAAATTG-AAAAT---ACCTCAGCGT--GTC--C-TGAG-GCTCA-ACTC-----
61362656 ACCTCTCGCAATATGAGTTGA--TTT
50 ACCTCTCGCAATATGAGTTGATTTTT
* * * * ** * * * *
61362680 TGGAAACAGAAATTGAAGTTAGAAATTGAAAAT-A-CCTCAG-CATGTGAGC-CGAGGCTCAACT
1 TTGAAA-A-ACA--GAAATT-GAAAAT--ACCTCAGCGT--GTCCTGAG-GCTC-A-ACT-----
61362741 CACCTCTCGCAATATGAGTTGATTTTTT
49 CACCTCTCGCAATATGAGTTGA-TTTTT
* * * *
61362769 TTTAAAAGCAGAAATTAAAAATACCTCAGCGTGT-CTCGAGGCTCAACTCACATCTCGCAATATG
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCT-GAGGCTCAACTCACCTCTCGCAATATG
61362833 AGTTGA--TTT
65 AGTTGATTTTT
*
61362842 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
61362907 GTTGATTTTT
66 GTTGATTTTT
* * * * * * * *
61362917 TTGAAAAATATAAATTGAAAAAATACCTCAGTGTGTGATCTGAAGCTCAACTCATCTCTCACAAA
1 TTGAAAAACAGAAATTG--AAAATACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAAT
* *
61362982 ACGAGTT-A-ATTT
62 ATGAGTTGATTTTT
* *
61362994 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTAACCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATAT
61363059 GAGTTGATCTTTTTTATTTTTTT
64 GAGTTG---------A--TTTTT
* * * *
61363082 TTGAAAGACAGAAATTGAAAAAACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
61363147 GTTGATTTTT
66 GTTGATTTTT
61363157 NNNNNNNNNN
Statistics
Matches: 628, Mismatches: 104, Indels: 132
0.73 0.12 0.15
Matches are distributed among these distances:
73 122 0.19
74 4 0.01
75 109 0.17
76 21 0.03
77 63 0.10
78 2 0.00
79 105 0.17
80 3 0.00
81 2 0.00
82 7 0.01
83 8 0.01
84 6 0.01
85 8 0.01
86 66 0.11
87 2 0.00
88 36 0.06
89 20 0.03
90 4 0.01
91 4 0.01
92 5 0.01
93 9 0.01
94 2 0.00
95 20 0.03
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.30
Consensus pattern (75 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTT
Found at i:61362610 original size:14 final size:14
Alignment explanation
Indices: 61362591--61362625 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
61362581 AATTTTTTTT
*
61362591 TTGAAAGACAGAAA
1 TTGAAAAACAGAAA
*
61362605 TTGAAAAATAGAAA
1 TTGAAAAACAGAAA
61362619 TTGAAAA
1 TTGAAAA
61362626 TACCTCAGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.03, G:0.17, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:61362744 original size:86 final size:88
Alignment explanation
Indices: 61362589--61362766 Score: 297
Period size: 86 Copynumber: 2.0 Consensus size: 88
61362579 TGAATTTTTT
* *
61362589 TTTTGAAAGACAGAAATTGAAAAATAGAAATTGAAAATACCTCAGCATGTGAGCTGATGCTCAAC
1 TTTTGAAAGACAGAAATTGAAAAATAGAAATTGAAAATACCTCAGCATGTGAGCCGAGGCTCAAC
61362654 TCACCTCTCGCAATATGAGTTGA
66 TCACCTCTCGCAATATGAGTTGA
* **
61362677 TTTTGGAA-ACAGAAATTG-AAGTTAGAAATTGAAAATACCTCAGCATGTGAGCCGAGGCTCAAC
1 TTTTGAAAGACAGAAATTGAAAAATAGAAATTGAAAATACCTCAGCATGTGAGCCGAGGCTCAAC
61362740 TCACCTCTCGCAATATGAGTTGA
66 TCACCTCTCGCAATATGAGTTGA
61362763 TTTT
1 TTTT
61362767 TTTTTAAAAG
Statistics
Matches: 85, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
86 68 0.80
87 10 0.12
88 7 0.08
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (88 bp):
TTTTGAAAGACAGAAATTGAAAAATAGAAATTGAAAATACCTCAGCATGTGAGCCGAGGCTCAAC
TCACCTCTCGCAATATGAGTTGA
Done.