Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 139 of 320
Found at i:45545861 original size:79 final size:79
Alignment explanation
Indices: 45545725--45546130 Score: 498
Period size: 73 Copynumber: 5.2 Consensus size: 79
45545715 AACCAAAATG
* *
45545725 AGAATCAGAATCAGAATCAGTAACAAAATCAGAATCAGAATCAATATTAGT-----AA-CAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
*
45545784 CAGAATTAGGTGAT
66 CAGAATTAGGTGAC
*
45545798 AGAATCAAAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGT-----AA-CAGAAT
45545863 CAGAATCAGAATTAGGTGAC
60 CAGAATCAGAATTAGGTGAC
*
45545883 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAATAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
*
45545948 CAGGATTAGGTGAC
66 CAGAATTAGGTGAC
* *
45545962 AGAATCAGAATCAGAACCAGTAACAGAATCAGAATCAGAAT---TA--AGTGACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
* *
45546022 CAGAATCA-GTAAC
66 CAGAATTAGGTGAC
** * * **
45546035 AGAATCAGAATCAGAATCAGTATTAGTAA-CAGAATCAGTATTAGTAACAG-AATCAGAATCAGA
1 AGAATCAGAATCAGAATCAGTAACAG-AATCAGAATCAGAATCAGTATTAGTAA-CAGAATCAGA
45546098 ATCAGAATTAGGTGAC
64 ATCAGAATTAGGTGAC
45546114 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
45546131 GTGAATGCAA
Statistics
Matches: 293, Mismatches: 20, Indels: 34
0.84 0.06 0.10
Matches are distributed among these distances:
73 86 0.29
74 23 0.08
76 4 0.01
77 1 0.00
78 21 0.07
79 86 0.29
80 2 0.01
84 2 0.01
85 68 0.23
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (79 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
CAGAATTAGGTGAC
Found at i:45546038 original size:43 final size:45
Alignment explanation
Indices: 45545939--45546129 Score: 150
Period size: 49 Copynumber: 3.9 Consensus size: 45
45545929 TTAATAACAG
* *
45545939 AATCAGAATCAGGATTAGGTGACAGAATCAGAATCAGAACCAGTAACA
1 AATCAGAATCAGAATTAAGTGACAGAATCAGAATCAGAACCAGT---A
*
45545987 GAATCAGAATCAGAATTAAGTGACAGAATCAGAATCAGAATCAGTAACA
1 -AATCAGAATCAGAATTAAGTGACAGAATCAGAATCAGAACCAGT---A
* * *
45546036 GAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGTATTAGTAA-CAGAATCA
1 -AATCAGAATCAGAAT---TA--AGTGACAGAATCAGAATCAG-AACCAG--T-A
*
45546090 GAATCAGAATCAGAATTAGGTGACAGAATCAGAATCAGAA
1 -AATCAGAATCAGAATTAAGTGACAGAATCAGAATCAGAA
45546130 TGTGAATGCA
Statistics
Matches: 124, Mismatches: 10, Indels: 17
0.82 0.07 0.11
Matches are distributed among these distances:
48 2 0.02
49 77 0.62
51 2 0.02
52 2 0.02
54 38 0.31
55 2 0.02
56 1 0.01
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.19
Consensus pattern (45 bp):
AATCAGAATCAGAATTAAGTGACAGAATCAGAATCAGAACCAGTA
Found at i:45546319 original size:27 final size:27
Alignment explanation
Indices: 45546248--45546321 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
45546238 AGCATGGCTG
* *
45546248 CCAGAA-CAGATATTGTGACAGAGTCA
1 CCAGAATCAGATATTGTGGCAGAGCCA
45546274 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATATTGTGGCAGAGCCA
*
45546301 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATATTGTGGCA
45546322 AAACCACCTA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
25 1 0.02
26 4 0.10
27 35 0.83
28 2 0.05
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.19
Consensus pattern (27 bp):
CCAGAATCAGATATTGTGGCAGAGCCA
Found at i:45546328 original size:27 final size:27
Alignment explanation
Indices: 45546272--45546329 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
45546262 GTGACAGAGT
* * *
45546272 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAAAC
45546299 CACCAGA-ATCAGATAATGTGGCAAAAC
1 CACCAGATA-CAGATAATGTGGCAAAAC
45546326 CACC
1 CACC
45546330 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.38, C:0.26, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAAAC
Found at i:45546534 original size:22 final size:22
Alignment explanation
Indices: 45546486--45546544 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
45546476 GTAAATACGT
*
45546486 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
45546508 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
45546530 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
45546545 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:45546676 original size:27 final size:26
Alignment explanation
Indices: 45546632--45546713 Score: 101
Period size: 27 Copynumber: 3.1 Consensus size: 26
45546622 TCGATCGGTC
* * *
45546632 AACAGATATGGTGACAGAGTCACCAG
1 AACAGATATTGTGGCAGAGACACCAG
*
45546658 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGACACCAG
*
45546685 AACAGATATTTGTGGCATAGACACCAG
1 AACAGATA-TTGTGGCAGAGACACCAG
45546712 AA
1 AA
45546714 TGCTTCCTCC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 8 0.16
27 41 0.84
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.18
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGACACCAG
Found at i:45547054 original size:27 final size:27
Alignment explanation
Indices: 45546913--45547046 Score: 169
Period size: 27 Copynumber: 5.0 Consensus size: 27
45546903 GGGGCAAAAT
* * ** *
45546913 GGTAATTTTACCCCACAAAGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
45546940 GGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
45546967 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
45546994 GATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
45547021 GGTAATTCTACCCTATAGGGGTATTT
1 GGTAATTCTACCCTACAGGGGTATTT
45547047 TAGTAATTTC
Statistics
Matches: 93, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 93 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:45547093 original size:27 final size:27
Alignment explanation
Indices: 45547063--45547548 Score: 538
Period size: 27 Copynumber: 18.0 Consensus size: 27
45547053 TTTCACAATT
45547063 GAGGGTAAAATAGTAATTCTGTAAATC
1 GAGGGTAAAATAGTAATTCTGTAAATC
* * *
45547090 GAGGGTAAAA-CGATAATTTTGTAAACC
1 GAGGGTAAAATAG-TAATTCTGTAAATC
** *
45547117 GAGGGTAAACCAGTAATTCTATAAATC
1 GAGGGTAAAATAGTAATTCTGTAAATC
* * *
45547144 GAGGGTAAAACAGTAATTTTAG-AAATT
1 GAGGGTAAAATAGTAATTCT-GTAAATC
* *
45547171 GAGGGTAAAACAGTAATTCTATAAAGT-
1 GAGGGTAAAATAGTAATTCTGTAAA-TC
*
45547198 GAGGGTAAAA-CGATAATTCTGTAAATC
1 GAGGGTAAAATAG-TAATTCTGTAAATC
*
45547225 GAGGGTAAAATGGTAATTCTGTAAA-C
1 GAGGGTAAAATAGTAATTCTGTAAATC
** *
45547251 TGAGGGTAAAACGGTAATTCTGTAAATT
1 -GAGGGTAAAATAGTAATTCTGTAAATC
* * ** *
45547279 GAGGGTAAAATAATAATTTTACAAATT
1 GAGGGTAAAATAGTAATTCTGTAAATC
** *
45547306 GAGGGTAAAACGGTAATTTTGTAAATC
1 GAGGGTAAAATAGTAATTCTGTAAATC
45547333 GAGGGTAAAATAGTAATTCTGTAAA-C
1 GAGGGTAAAATAGTAATTCTGTAAATC
45547359 TGAGGGTAAAATAGTAATTCTGTAAATC
1 -GAGGGTAAAATAGTAATTCTGTAAATC
* *
45547387 GAGGGTAAAATGGTAATTCTATAAA-C
1 GAGGGTAAAATAGTAATTCTGTAAATC
45547413 TGAGGGTAAAATAGTAATTCTGTAAATC
1 -GAGGGTAAAATAGTAATTCTGTAAATC
**
45547441 GAGGGTAAAACGGTAATTCTGTAAATC
1 GAGGGTAAAATAGTAATTCTGTAAATC
* * **
45547468 GAGGGTAAAACAGTAATTTTAAAAATC
1 GAGGGTAAAATAGTAATTCTGTAAATC
*
45547495 GAGGGTAAAA-CGATAATTCTGTAAATC
1 GAGGGTAAAATAG-TAATTCTGTAAATC
*
45547522 GAGGGTAAAATGGTAATTCTGTAAATC
1 GAGGGTAAAATAGTAATTCTGTAAATC
45547549 AGGAGTACTT
Statistics
Matches: 394, Mismatches: 49, Indels: 32
0.83 0.10 0.07
Matches are distributed among these distances:
26 7 0.02
27 381 0.97
28 6 0.02
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.28
Consensus pattern (27 bp):
GAGGGTAAAATAGTAATTCTGTAAATC
Found at i:45569547 original size:124 final size:124
Alignment explanation
Indices: 45569402--45569649 Score: 496
Period size: 124 Copynumber: 2.0 Consensus size: 124
45569392 CTCTCAATAA
45569402 CCATATACATACAAAATGATTATAACATTATGCTCAAAAATATATATAAGCCATTTTCGCATGGC
1 CCATATACATACAAAATGATTATAACATTATGCTCAAAAATATATATAAGCCATTTTCGCATGGC
45569467 TATCCAAATTTATACAAAACCGAAGGGTACATGACCCACAACAAAAAGGGTAGTCCTAT
66 TATCCAAATTTATACAAAACCGAAGGGTACATGACCCACAACAAAAAGGGTAGTCCTAT
45569526 CCATATACATACAAAATGATTATAACATTATGCTCAAAAATATATATAAGCCATTTTCGCATGGC
1 CCATATACATACAAAATGATTATAACATTATGCTCAAAAATATATATAAGCCATTTTCGCATGGC
45569591 TATCCAAATTTATACAAAACCGAAGGGTACATGACCCACAACAAAAAGGGTAGTCCTAT
66 TATCCAAATTTATACAAAACCGAAGGGTACATGACCCACAACAAAAAGGGTAGTCCTAT
45569650 ACATGCCATT
Statistics
Matches: 124, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
124 124 1.00
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.26
Consensus pattern (124 bp):
CCATATACATACAAAATGATTATAACATTATGCTCAAAAATATATATAAGCCATTTTCGCATGGC
TATCCAAATTTATACAAAACCGAAGGGTACATGACCCACAACAAAAAGGGTAGTCCTAT
Found at i:45570160 original size:40 final size:40
Alignment explanation
Indices: 45570133--45570315 Score: 278
Period size: 40 Copynumber: 4.6 Consensus size: 40
45570123 TACTTGCTCG
* * *
45570133 AATGCCTTTGGGACATAGCCCGGATATAGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
**
45570173 AATGCCTTCGGGACTTAGCCTAGATATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
45570213 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
* * *
45570253 AATGCCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACA
45570293 AATGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
45570316 TTATCATCCA
Statistics
Matches: 132, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
39 1 0.01
40 131 0.99
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.22
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
Found at i:45575008 original size:55 final size:54
Alignment explanation
Indices: 45574913--45575062 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
45574903 CTACTTTGTT
* ** * *
45574913 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
45574967 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
45575022 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
45575063 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:45575025 original size:27 final size:27
Alignment explanation
Indices: 45574885--45575062 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
45574875 TAAATTGTAC
45574885 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
45574912 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
45574938 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
45574966 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
45574994 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
45575021 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
45575048 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
45575063 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:45575026 original size:82 final size:81
Alignment explanation
Indices: 45574886--45575041 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
45574876 AAATTGTACA
* * * *
45574886 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
45574951 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
45574967 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
45575030 TGTGCGAGTTGA
63 TGTGCGAATTGA
45575042 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:45583015 original size:55 final size:54
Alignment explanation
Indices: 45582920--45583069 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
45582910 CTACTTTGTT
* ** * *
45582920 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
45582974 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
45583029 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
45583070 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:45583032 original size:27 final size:27
Alignment explanation
Indices: 45582892--45583069 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
45582882 TAAATTGTAC
45582892 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
45582919 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
45582945 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
45582973 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
45583001 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
45583028 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
45583055 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
45583070 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:45583033 original size:82 final size:81
Alignment explanation
Indices: 45582893--45583048 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
45582883 AAATTGTACA
* * * *
45582893 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
45582958 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
45582974 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
45583037 TGTGCGAGTTGA
63 TGTGCGAATTGA
45583049 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:45586745 original size:19 final size:20
Alignment explanation
Indices: 45586709--45586762 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 20
45586699 CAATCAAGGG
45586709 CACCAAAGTGCAAACAGAGA
1 CACCAAAGTGCAAACAGAGA
* *
45586729 CACCAAAGTG-TAACAGAGG
1 CACCAAAGTGCAAACAGAGA
**
45586748 CACTGAAGTGCAAAC
1 CACCAAAGTGCAAAC
45586763 CCATACAAGC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.44, C:0.24, G:0.22, T:0.09
Consensus pattern (20 bp):
CACCAAAGTGCAAACAGAGA
Found at i:45594073 original size:21 final size:22
Alignment explanation
Indices: 45594047--45594090 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
45594037 CCAAACCTTG
45594047 AGTTTTAA-AAAAAGAAATTAA
1 AGTTTTAATAAAAAGAAATTAA
* *
45594068 AGTTTTAATAATAAGATATTAA
1 AGTTTTAATAAAAAGAAATTAA
45594090 A
1 A
45594091 TTGTAAGTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (22 bp):
AGTTTTAATAAAAAGAAATTAA
Found at i:45603907 original size:25 final size:25
Alignment explanation
Indices: 45603873--45603926 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
45603863 CACATAGTGG
45603873 CCTACACTTAGCACCACTCATGTGA
1 CCTACACTTAGCACCACTCATGTGA
45603898 CCTACACTTAGCACCACTCATGTGA
1 CCTACACTTAGCACCACTCATGTGA
45603923 CCTA
1 CCTA
45603927 GCTCAATTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.28, C:0.37, G:0.11, T:0.24
Consensus pattern (25 bp):
CCTACACTTAGCACCACTCATGTGA
Found at i:45608854 original size:22 final size:22
Alignment explanation
Indices: 45608826--45608869 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
45608816 TACATATCCT
45608826 GACCAAACTAAAAACTTTACCA
1 GACCAAACTAAAAACTTTACCA
45608848 GACCAAACTAAAAACTTTACCA
1 GACCAAACTAAAAACTTTACCA
45608870 ACACTTGAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.27, G:0.05, T:0.18
Consensus pattern (22 bp):
GACCAAACTAAAAACTTTACCA
Found at i:45614324 original size:12 final size:12
Alignment explanation
Indices: 45614307--45614332 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
45614297 GTTCGTGTCG
45614307 AAACCATTTTTA
1 AAACCATTTTTA
45614319 AAACCATTTTTA
1 AAACCATTTTTA
45614331 AA
1 AA
45614333 TTGAGTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (12 bp):
AAACCATTTTTA
Found at i:45615750 original size:22 final size:21
Alignment explanation
Indices: 45615715--45615808 Score: 65
Period size: 18 Copynumber: 4.7 Consensus size: 21
45615705 AAAAGGTATC
* *
45615715 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
45615736 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* * *
45615759 TGCATATCATA--TCTAATAT
1 TACAAATCATATCTCTAAGAT
*
45615778 TGC-AATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
45615796 TGC-AATCATATCT
1 TACAAATCATATCT
45615809 AAGATTGTAT
Statistics
Matches: 62, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
18 23 0.37
19 10 0.16
20 1 0.02
21 3 0.05
22 15 0.24
23 10 0.16
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:45615758 original size:23 final size:22
Alignment explanation
Indices: 45615715--45615772 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
45615705 AAAAGGTATC
* *
45615715 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
45615736 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
45615759 TGCATATCATATCT
1 TACAAATCATATCT
45615773 AATATTGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:45615779 original size:19 final size:19
Alignment explanation
Indices: 45615751--45615859 Score: 181
Period size: 19 Copynumber: 5.9 Consensus size: 19
45615741 AATCATATCT
45615751 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
45615770 TCTAATATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
45615788 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
45615806 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
45615823 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
45615842 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
45615860 TGAAGATTAT
Statistics
Matches: 85, Mismatches: 2, Indels: 6
0.91 0.02 0.06
Matches are distributed among these distances:
17 16 0.19
18 33 0.39
19 36 0.42
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:45615867 original size:17 final size:19
Alignment explanation
Indices: 45615754--45615867 Score: 132
Period size: 18 Copynumber: 6.3 Consensus size: 19
45615744 CATATCTTCT
*
45615754 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCG
* *
45615773 AATATTGCA-ATCATATCT
1 AAGATTGCATATCATATCG
*
45615791 AAGATTGCA-ATCATATCT
1 AAGATTGCATATCATATCG
*
45615809 AAGATTG--TATCATATCT
1 AAGATTGCATATCATATCG
*
45615826 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCG
45615845 AAGATTGCATATCAT-T-G
1 AAGATTGCATATCATATCG
45615862 AAGATT
1 AAGATT
45615868 ATATTTCCAT
Statistics
Matches: 89, Mismatches: 3, Indels: 8
0.89 0.03 0.08
Matches are distributed among these distances:
17 22 0.25
18 34 0.38
19 33 0.37
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (19 bp):
AAGATTGCATATCATATCG
Found at i:45615867 original size:36 final size:38
Alignment explanation
Indices: 45615744--45615859 Score: 181
Period size: 36 Copynumber: 3.2 Consensus size: 38
45615734 ATTACAAAAT
*
45615744 CATATC-T-TCTAAGATTGCATATCATATCTAATATTG
1 CATATCATATCTAAGATTGCATATCATATCTAAGATTG
45615780 CA-ATCATATCTAAGATTGCA-ATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATCATATCTAAGATTG
45615816 --TATCATATCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATCATATCTAAGATTG
45615852 CATATCAT
1 CATATCAT
45615860 TGAAGATTAT
Statistics
Matches: 73, Mismatches: 1, Indels: 10
0.87 0.01 0.12
Matches are distributed among these distances:
35 21 0.29
36 34 0.47
37 12 0.16
38 6 0.08
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.38
Consensus pattern (38 bp):
CATATCATATCTAAGATTGCATATCATATCTAAGATTG
Found at i:45616325 original size:45 final size:44
Alignment explanation
Indices: 45616201--45616354 Score: 195
Period size: 45 Copynumber: 3.5 Consensus size: 44
45616191 GGAAGGCGAT
* *
45616201 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATA-AGAGACGCCAA
1 ATCTGTTATC-TTGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * *
45616245 ATCTGTT-TCTTCAATCTGCTCTCCGTCTAACACAGAGATGCCAA
1 ATCTGTTATCTT-GATCTGCTCCCCGTCTAATACAGAGATGCCAA
*
45616289 ATCTGTTATCTCTGATTTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCT-TGATCTGCTCCCCGTCTAATACAGAGATGCCAA
*
45616334 ATCTGTCATCTTAGATCTGCT
1 ATCTGTTATCTT-GATCTGCT
45616355 TCGATGTAAA
Statistics
Matches: 94, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
42 2 0.02
43 19 0.20
44 24 0.26
45 48 0.51
46 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.33
Consensus pattern (44 bp):
ATCTGTTATCTTGATCTGCTCCCCGTCTAATACAGAGATGCCAA
Found at i:45616500 original size:78 final size:78
Alignment explanation
Indices: 45616368--45616662 Score: 421
Period size: 78 Copynumber: 3.8 Consensus size: 78
45616358 ATGTAAACAC
* * * *
45616368 ATGAAGGTCAGATCTGCTATGTTTTTGATCAGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGATCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
45616433 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * *
45616446 ATGAAGATCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGGGATGCCCAATCATCT
1 ATGAAGATCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
45616511 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * *
45616524 ATGAAGATCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATACCAAATTATCT
1 ATGAAGATCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
45616589 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * * * ** *
45616602 ATGAAGGTCA-AACATGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGTCAAATC
1 ATGAAGATCAGATC-TGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
45616663 TGTTTCTTCG
Statistics
Matches: 195, Mismatches: 21, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
77 2 0.01
78 193 0.99
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (78 bp):
ATGAAGATCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:45616732 original size:199 final size:199
Alignment explanation
Indices: 45616490--45616861 Score: 584
Period size: 199 Copynumber: 1.9 Consensus size: 199
45616480 CCCCGTCTAA
* * * *
45616490 TACAGGGATGCCCAATCATCTTGGATCTGCTTCAATGAAGATCAGATCTGCTGTGTCTTCGATCT
1 TACAGAGATGCCAAATCATCTTGGATCTGCTTCAATAAAGATCAAATCTGCTGTGTCTTCGATCT
* * *
45616555 GCTCCCCGTCTAATACAGAGATACCAAATTATCTTGGATCTGCTTCAATGAAGGT-CAAACATGC
66 ACTCCCCGTCTAATACAAAGATACCAAATCATCTTGGATCTGCTTCAATGAAGGTCCAAAC-TGC
* ** *
45616619 TATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGTCAAATCTGTTTCTTCGATTTGTTCCCT
130 TATGTCTTCGATCTGCTCCCCGTCGAATACAGAGATGCCAAATCTGTTTCTTCGATTTGTTCCCT
45616684 GACAG
195 GACAG
45616689 TACAGAGATGCCAAATCATCTTGGATCTGCTTCAATAAAGATCAAATCTGCTGTGTCTTCGATCT
1 TACAGAGATGCCAAATCATCTTGGATCTGCTTCAATAAAGATCAAATCTGCTGTGTCTTCGATCT
* * *
45616754 ACTCCCCGTCTAATACAAAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCAATCTGTT
66 ACTCCCCGTCTAATACAAAGATACCAAATCATCTTGGATCTGCTTCAATGAAGGTCCAAACTGCT
* *
45616819 ATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
131 ATGTCTTCGATCTGCTCCCCGTCGAATACAGAGATGCCAAATC
45616862 ATCTTGGATC
Statistics
Matches: 156, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
199 152 0.97
200 4 0.03
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (199 bp):
TACAGAGATGCCAAATCATCTTGGATCTGCTTCAATAAAGATCAAATCTGCTGTGTCTTCGATCT
ACTCCCCGTCTAATACAAAGATACCAAATCATCTTGGATCTGCTTCAATGAAGGTCCAAACTGCT
ATGTCTTCGATCTGCTCCCCGTCGAATACAGAGATGCCAAATCTGTTTCTTCGATTTGTTCCCTG
ACAG
Found at i:45616761 original size:277 final size:277
Alignment explanation
Indices: 45616412--45616924 Score: 823
Period size: 277 Copynumber: 1.9 Consensus size: 277
45616402 CCCCGTCTAA
* *
45616412 TACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGATCAGATCTGCTGTGTCTTCGATCT
1 TACAGAGATGCCAAATCATCTTGGATCTGCTTCAATAAAGATCAAATCTGCTGTGTCTTCGATCT
* ** *
45616477 GCTCCCCGTCTAATACAGGGATGCCCAATCATCTTGGATCTGCTTCAATGAAGAT-CAGATCTGC
66 ACTCCCCGTCTAATACAAAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGATCCA-ATCTGC
* *
45616541 TGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATACCAAATTATCTTGGATCTGCTTCAATGA
130 TATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATACCAAATCATCTTGGATCTGCTTCAATGA
*
45616606 AGGTCA-AACATGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGTCAAATCTGTTTCT
195 AGGTCAGAAC-TGCTATGTCTTCGATCTGCTCCCCGTCGAATATGGAGATGTCAAATCTGTTTCT
45616670 TCGATTTGTTCCCTGACAG
259 TCGATTTGTTCCCTGACAG
45616689 TACAGAGATGCCAAATCATCTTGGATCTGCTTCAATAAAGATCAAATCTGCTGTGTCTTCGATCT
1 TACAGAGATGCCAAATCATCTTGGATCTGCTTCAATAAAGATCAAATCTGCTGTGTCTTCGATCT
* *
45616754 ACTCCCCGTCTAATACAAAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCAATCTGTT
66 ACTCCCCGTCTAATACAAAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGATCCAATCTGCT
* * *
45616819 ATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTTAATGAA
131 ATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATACCAAATCATCTTGGATCTGCTTCAATGAA
* * * * *
45616884 GTTCAGATCTGCTGTGTCTTTGATCTGCTCCCCGTCTAATA
196 GGTCAGAACTGCTATGTCTTCGATCTGCTCCCCGTCGAATA
45616925 CAGAGATACA
Statistics
Matches: 215, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
277 211 0.98
278 4 0.02
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (277 bp):
TACAGAGATGCCAAATCATCTTGGATCTGCTTCAATAAAGATCAAATCTGCTGTGTCTTCGATCT
ACTCCCCGTCTAATACAAAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGATCCAATCTGCT
ATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATACCAAATCATCTTGGATCTGCTTCAATGAA
GGTCAGAACTGCTATGTCTTCGATCTGCTCCCCGTCGAATATGGAGATGTCAAATCTGTTTCTTC
GATTTGTTCCCTGACAG
Found at i:45616782 original size:78 final size:78
Alignment explanation
Indices: 45616689--45617651 Score: 1349
Period size: 78 Copynumber: 12.3 Consensus size: 78
45616679 TCCCTGACAG
* *
45616689 TACAGAGATGCCAAATCATCTTGGATCTGCTTCAATAAAGATCAAATCTGCTGTGTCTTCGATCT
1 TACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGATCAGATCTGCTGTGTCTTCGATCT
*
45616754 ACTCCCCGTCTAA
66 GCTCCCCGTCTAA
* * * * *
45616767 TACAAAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCA-ATCTGTTATGTCTTTGATC
1 TACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGAT-CAGATCTGCTGTGTCTTCGATC
45616831 TGCTCCCCGTCTAA
65 TGCTCCCCGTCTAA
* * *
45616845 TACAGAGATGCCAAATCATCTTGGATCTGCTTTAATGAAGTTCAGATCTGCTGTGTCTTTGATCT
1 TACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGATCAGATCTGCTGTGTCTTCGATCT
45616910 GCTCCCCGTCTAA
66 GCTCCCCGTCTAA
* * * *
45616923 TACAGAGATACAAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTGTGTTTTCGATCT
1 TACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGATCAGATCTGCTGTGTCTTCGATCT
** *
45616988 ATTCCCCATCTAA
66 GCTCCCCGTCTAA
* * * * *
45617001 TACAGATATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCCA-ATCTGTTATGTCTTCGATT
1 TACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGAT-CAGATCTGCTGTGTCTTCGATC
*
45617065 TGCTCCCCATCTAA
65 TGCTCCCCGTCTAA
45617079 TACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGATCAGATCTGCTGTGTCTTCGATCT
1 TACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGATCAGATCTGCTGTGTCTTCGATCT
**
45617144 GCTCCTTGTCTAA
66 GCTCCCCGTCTAA
* * * * * *
45617157 TACAAAAATGTCAAATCATCTTGGATCTGCTTCAATAAAGATCAGATTTGATGTGTCTTCGATCT
1 TACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGATCAGATCTGCTGTGTCTTCGATCT
*
45617222 GTTCCCCGTCTAA
66 GCTCCCCGTCTAA
* * * * *
45617235 TACAGGGATGCCAAATCATCTTGGATCTGTTTCAATGAAGATTAGATCTGTTGTGTCTTCAATCT
1 TACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGATCAGATCTGCTGTGTCTTCGATCT
*
45617300 GCTTCCCGTCTAA
66 GCTCCCCGTCTAA
* * *
45617313 TACAGAGATGCCAAATGATCTTGGATCTGCTTCAATGAA-AGTCCA-ATCTGTTATGTCTTCGAT
1 TACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGA-T-CAGATCTGCTGTGTCTTCGAT
*
45617376 CTGCTCCCCATCTAA
64 CTGCTCCCCGTCTAA
*
45617391 TACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGATCAGATCTGCTGTGTCTTCTATCT
1 TACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGATCAGATCTGCTGTGTCTTCGATCT
45617456 GCTCCCCGTCTAA
66 GCTCCCCGTCTAA
* * * *
45617469 TACAGAAATGCCAAATAATCTTGGATTTACTTCAATGAAGATCAGATCTGCTGTGTCTTCGATCT
1 TACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGATCAGATCTGCTGTGTCTTCGATCT
45617534 GCTCCCCGTCTAA
66 GCTCCCCGTCTAA
* * * *
45617547 TACAGGGATTCCAAATCATCTTGGATCTGCTTCAATAAAGATCAGATGTGCTGTGTCTTCGATCT
1 TACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGATCAGATCTGCTGTGTCTTCGATCT
* * * *
45617612 ACTTCCCATTTAA
66 GCTCCCCGTCTAA
*
45617625 TACAGAGATGTCAAATCATCTTGGATC
1 TACAGAGATGCCAAATCATCTTGGATC
45617652 CTACTACTTA
Statistics
Matches: 785, Mismatches: 92, Indels: 16
0.88 0.10 0.02
Matches are distributed among these distances:
77 7 0.01
78 772 0.98
79 6 0.01
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.33
Consensus pattern (78 bp):
TACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGATCAGATCTGCTGTGTCTTCGATCT
GCTCCCCGTCTAA
Found at i:45617819 original size:84 final size:84
Alignment explanation
Indices: 45617651--45618093 Score: 630
Period size: 84 Copynumber: 5.3 Consensus size: 84
45617641 CATCTTGGAT
* * * *
45617651 CCTACTACTTAGGGGGTTAAGGTGCATCGTCTTCGATCTGCTCCGCTACTGCTTA-GG-GATAAG
1 CCTACTGCTTAGGGGATTAAGGCG-A--GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAG
* *
45617714 ATCTGAAAATTTAACTTGTTAC
63 ATCTGCAAATTTAACCTGTTAC
* * * *
45617736 CCTAATGCTTAGGGGATTAAGGCGGGTCTTCGATCTGCTCCACTACTACTTAGGGGGATAAGATC
1 CCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
45617801 TGCAAATTTAACCTGTTAC
66 TGCAAATTTAACCTGTTAC
* *
45617820 CCTACTGTTTAGGGGATTAAGGCGAGTCATCGTCGATCTGCTCCGCTACTGCTTAGGGAGATAAG
1 CCTACTGCTTAGGGGATTAAGGCGAGTC-T--TCGATCTGCTCCACTACTGCTTAGGGAGATAAG
*
45617885 ATCTGC-----GAACCTGTTAC
63 ATCTGCAAATTTAACCTGTTAC
*
45617902 CCTACCGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
1 CCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
45617967 TGCAAATTTAACCTGTTAC
66 TGCAAATTTAACCTGTTAC
45617986 CCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
1 CCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
** *
45618051 TATAAATTTAACTTGTTAC
66 TGCAAATTTAACCTGTTAC
45618070 CCTACTGCTTAGGGGATTAAGGCG
1 CCTACTGCTTAGGGGATTAAGGCG
45618094 CTGAATTTTG
Statistics
Matches: 324, Mismatches: 24, Indels: 21
0.88 0.07 0.06
Matches are distributed among these distances:
79 38 0.12
81 1 0.00
82 61 0.19
83 2 0.01
84 165 0.51
85 21 0.06
87 36 0.11
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (84 bp):
CCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
TGCAAATTTAACCTGTTAC
Found at i:45617936 original size:166 final size:164
Alignment explanation
Indices: 45617651--45618051 Score: 574
Period size: 166 Copynumber: 2.4 Consensus size: 164
45617641 CATCTTGGAT
* * *
45617651 CCTACTACTTAGGGGGTTAAGGTGCATCGTCTTCGATCTGCTCCGCTACTGCTTA-GG-GATAAG
1 CCTACTGCTTAGGGGATTAAGGCG-A--GTCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAG
** * * *
45617714 ATCTGAAAATTTAACTTGTTACCCTAATGCTTAGGGGATTAAGGCGGGTCTTCGATCTGCTCCAC
63 ATCTG---A-CGAACCTGTTACCCTAACGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCAC
*
45617779 TACTACTTAGGGGGATAAGATCTGCAAATTTAACCTGTTAC
124 TACTACTTAGGGAGATAAGATCTGCAAATTTAACCTGTTAC
*
45617820 CCTACTGTTTAGGGGATTAAGGCGAGTCATCGTCGATCTGCTCCGCTACTGCTTAGGGAGATAAG
1 CCTACTGCTTAGGGGATTAAGGCGAGTC-T--TCGATCTGCTCCGCTACTGCTTAGGGAGATAAG
*
45617885 ATCTG-CGAACCTGTTACCCTACCGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACT
63 ATCTGACGAACCTGTTACCCTAACGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACT
*
45617949 GCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTAC
128 ACTTAGGGAGATAAGATCTGCAAATTTAACCTGTTAC
*
45617986 CCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
1 CCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATC
45618051 T
66 T
45618052 ATAAATTTAA
Statistics
Matches: 213, Mismatches: 14, Indels: 16
0.88 0.06 0.07
Matches are distributed among these distances:
163 36 0.17
165 1 0.00
166 118 0.55
167 1 0.00
168 1 0.00
169 43 0.20
170 2 0.01
171 11 0.05
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (164 bp):
CCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATC
TGACGAACCTGTTACCCTAACGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTACT
TAGGGAGATAAGATCTGCAAATTTAACCTGTTAC
Found at i:45617994 original size:43 final size:43
Alignment explanation
Indices: 45617944--45618083 Score: 130
Period size: 43 Copynumber: 3.3 Consensus size: 43
45617934 ATCTGCTCCA
45617944 CTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACC
1 CTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACC
* * * * *
45617987 CTACTGCTTAGGG-GATTAAG----GCGAGTCTTCGATCTGCT-CC
1 CTACTGCTTAGGGAGA-TAAGATCTGCAAAT-TT-AACCTGTTACC
** *
45618027 ACTACTGCTTAGGGAGATAAGATCTATAAATTTAACTTGTTACC
1 -CTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACC
45618071 CTACTGCTTAGGG
1 CTACTGCTTAGGG
45618084 GATTAAGGCG
Statistics
Matches: 74, Mismatches: 13, Indels: 20
0.69 0.12 0.19
Matches are distributed among these distances:
39 4 0.05
40 4 0.05
41 22 0.30
42 4 0.05
43 34 0.46
44 4 0.05
45 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (43 bp):
CTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACC
Found at i:45619065 original size:19 final size:19
Alignment explanation
Indices: 45619041--45619107 Score: 91
Period size: 19 Copynumber: 3.4 Consensus size: 19
45619031 GGCCTCTCCA
45619041 TTTTTTTTTCTTTTTTCTC
1 TTTTTTTTTCTTTTTTCTC
*
45619060 TTTTTTTTACTTTTTTCTC
1 TTTTTTTTTCTTTTTTCTC
45619079 TTTTTATTTTCTATTTTTC-C
1 TTTTT-TTTTCT-TTTTTCTC
45619099 ATTTTTTTT
1 -TTTTTTTT
45619108 GAAATAGAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
19 23 0.53
20 9 0.21
21 11 0.26
ACGTcount: A:0.06, C:0.13, G:0.00, T:0.81
Consensus pattern (19 bp):
TTTTTTTTTCTTTTTTCTC
Found at i:45634427 original size:1 final size:1
Alignment explanation
Indices: 45634421--45634564 Score: 288
Period size: 1 Copynumber: 144.0 Consensus size: 1
45634411 TCAAATCATT
45634421 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
45634486 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
45634551 AAAAAAAAAAAAAA
1 AAAAAAAAAAAAAA
45634565 TTTCATCATT
Statistics
Matches: 143, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 143 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:45645100 original size:18 final size:18
Alignment explanation
Indices: 45645077--45645130 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
45645067 ACAAGTGGTG
45645077 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
*
45645095 GT-G-G--AGT-AGG-TA
1 GTGGAGCAAGTGTGGCTA
45645107 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
45645125 GTGGAG
1 GTGGAG
45645131 TTGGTGGTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 4 0.14
13 3 0.11
14 4 0.14
16 4 0.14
17 3 0.11
18 10 0.36
ACGTcount: A:0.22, C:0.07, G:0.48, T:0.22
Consensus pattern (18 bp):
GTGGAGCAAGTGTGGCTA
Found at i:45645113 original size:30 final size:30
Alignment explanation
Indices: 45645077--45645140 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
45645067 ACAAGTGGTG
45645077 GTGGAGCAAGTGTGGCTAGTGGAGTAGGTA
1 GTGGAGCAAGTGTGGCTAGTGGAGTAGGTA
* *
45645107 GTGGAGCAAGTGTGGCTAGTGGAGTTGGTG
1 GTGGAGCAAGTGTGGCTAGTGGAGTAGGTA
45645137 GTGG
1 GTGG
45645141 CAAAGGCTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.19, C:0.06, G:0.50, T:0.25
Consensus pattern (30 bp):
GTGGAGCAAGTGTGGCTAGTGGAGTAGGTA
Found at i:45646000 original size:18 final size:18
Alignment explanation
Indices: 45645977--45646011 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
45645967 TTAATTTTTG
*
45645977 AAAATATAAATTGAAAAA
1 AAAATAGAAATTGAAAAA
45645995 AAAATAGAAATTGAAAA
1 AAAATAGAAATTGAAAA
45646012 TACCTCAGCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.20
Consensus pattern (18 bp):
AAAATAGAAATTGAAAAA
Found at i:45646123 original size:83 final size:85
Alignment explanation
Indices: 45645939--45646142 Score: 281
Period size: 83 Copynumber: 2.4 Consensus size: 85
45645929 CATGTGCCCC
* * * *
45645939 GAGGCTCAACTCA-TTCTCGCAATATGAATTAATTTTTGAAAATATAAATTGAAAAAAAAATAGA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATATAAATTG--AAAAAAACAGA
45646003 AATTGAAAATACCTCAGCGTGTCCT
64 AATTGAAAATACCTCA--G-GTCCT
*
45646028 GAGGCTAAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTG-AAAAAACAGAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAATATAAATTGAAAAAAACAGAA
45646092 ATTG-AAATACCTCA-GTCCT
65 ATTGAAAATACCTCAGGTCCT
45646111 GAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTG
45646143 TGTTTGACAA
Statistics
Matches: 107, Mismatches: 6, Indels: 10
0.87 0.05 0.08
Matches are distributed among these distances:
83 36 0.34
87 10 0.09
88 14 0.13
89 12 0.11
90 22 0.21
91 13 0.12
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (85 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATATAAATTGAAAAAAACAGAAA
TTGAAAATACCTCAGGTCCT
Found at i:45646274 original size:72 final size:71
Alignment explanation
Indices: 45646084--45646514 Score: 625
Period size: 72 Copynumber: 6.1 Consensus size: 71
45646074 TAAATTGAAA
45646084 AAACAGAAATTGAAA-TACCTCA--GT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-T
1 AAACAGAAATTGAAATTACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
45646144 GTTTGAC
66 -TTTGAC
*
45646151 AAACAG-AATTGAAATTACCTTAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAATTACCTCAGCGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
45646215 TTTTGAC
65 TTTTGAC
*
45646222 AAACAGAAATTGAAATTACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGT
1 AAACAGAAATTGAAATTACCTCAGCGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-
*
45646287 GTTTTGAC
64 ATTTTGAC
*
45646295 AAACAGAAATTGAAATTA-CTCA-CGTGACCTGA-GCTCAACTCACCTCTCGCAATATAAGTTG-
1 AAACAGAAATTGAAATTACCTCAGCGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
45646356 TTTTGAC
65 TTTTGAC
*
45646363 AAACAGAAATTGAAATTACCTCAGCGTGCCTGA-GCTCAACTCACCTCTCGTAATATGAGTTGAT
1 AAACAGAAATTGAAATTACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
45646427 TTTGAC
66 TTTGAC
* * **
45646433 AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAATTACCTCAGCGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-
45646498 ATTTTGA-
64 ATTTTGAC
*
45646505 AAATAGAAAT
1 AAACAGAAAT
45646515 AAAAACATCA
Statistics
Matches: 337, Mismatches: 13, Indels: 23
0.90 0.03 0.06
Matches are distributed among these distances:
66 8 0.02
67 12 0.04
68 25 0.07
69 38 0.11
70 67 0.20
71 61 0.18
72 94 0.28
73 32 0.09
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (71 bp):
AAACAGAAATTGAAATTACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTGAC
Found at i:45646448 original size:211 final size:210
Alignment explanation
Indices: 45646083--45646514 Score: 667
Period size: 211 Copynumber: 2.1 Consensus size: 210
45646073 ATAAATTGAA
*
45646083 AAAACAGAAATTGAAATACCTCAGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGTGTTT
1 AAAACAGAAATTGAAATACCTCAGTCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGTGTTT
*
45646148 GACAAACAGAATTGAAATTACCTTAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
66 GACAAACAGAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
45646213 GATTTTGACAAACAGAAATTGAAATTACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAAT
131 GATTTTGACAAACAGAAATTGAAATTACCTCAACGTGACCTGAGGCTCAACTCACCTCTCGCAAT
**
45646278 ATAAGTTGTGTTTTG
196 ATAAGTTGAATTTTG
45646293 ACAAACAGAAATTGAAATTA-CTCACGTGACCTGA-GCTCAACTCACCTCTCGCAATATAAGTTG
1 A-AAACAGAAATTGAAA-TACCTCA-GT--CCTGAGGCTCAACTCACCTCTCGCAATATAAGTTG
*
45646356 T-TTTGACAAACAGAAATTGAAATTACCTCAGCGTG-CCTGA-GCTCAACTCACCTCTCGTAATA
61 TGTTTGACAAACAG-AATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATA
* * **
45646418 TGAGTTGATTTTGACAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCT
125 TGAGTTGATTTTGACAAACAGAAATTGAAATTACCTCAACGTGACCTGAGGCTCAACTCACCTCT
*
45646483 CGCAATATGAGTTGAATTTTG
190 CGCAATATAAGTTGAATTTTG
*
45646504 AAAATAGAAAT
1 AAAACAGAAAT
45646515 AAAAACATCA
Statistics
Matches: 204, Mismatches: 12, Indels: 12
0.89 0.05 0.05
Matches are distributed among these distances:
210 10 0.05
211 119 0.58
212 21 0.10
213 49 0.24
214 5 0.02
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (210 bp):
AAAACAGAAATTGAAATACCTCAGTCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGTGTTT
GACAAACAGAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTGACAAACAGAAATTGAAATTACCTCAACGTGACCTGAGGCTCAACTCACCTCTCGCAAT
ATAAGTTGAATTTTG
Found at i:45658556 original size:22 final size:24
Alignment explanation
Indices: 45658498--45658593 Score: 81
Period size: 25 Copynumber: 3.9 Consensus size: 24
45658488 ATAGATATAA
* *
45658498 AAAAATATGTACATAATATAGTGT
1 AAAAATATATACATAATATAATGT
*
45658522 AAAAAATACATACATAATATAAT-T
1 -AAAAATATATACATAATATAATGT
*
45658546 -AAAATATATACATAAGATAACATGT
1 AAAAATATATACATAATAT-A-ATGT
*
45658571 AGAAAAATATATATATAA-ATAAT
1 --AAAAATATATACATAATATAAT
45658594 ATAGTATTAA
Statistics
Matches: 59, Mismatches: 6, Indels: 12
0.77 0.08 0.16
Matches are distributed among these distances:
22 16 0.27
23 1 0.02
24 3 0.05
25 22 0.37
26 1 0.02
27 2 0.03
28 14 0.24
ACGTcount: A:0.58, C:0.05, G:0.06, T:0.30
Consensus pattern (24 bp):
AAAAATATATACATAATATAATGT
Found at i:45658617 original size:25 final size:25
Alignment explanation
Indices: 45658581--45658714 Score: 93
Period size: 23 Copynumber: 5.6 Consensus size: 25
45658571 AGAAAAATAT
*
45658581 ATATATAAATAATATAGTATTAAAG
1 ATATATACATAATATAGTATTAAAG
* * *
45658606 ATATATACATAAAATAGTATAATATAT
1 ATATATACATAATATAGTAT--TAAAG
* * *
45658633 ATATATACGTAATATAGAATT-TAG
1 ATATATACATAATATAGTATTAAAG
* *
45658657 A-ATATACCTAATATA-T-TAAAAG
1 ATATATACATAATATAGTATTAAAG
* *
45658679 A-ATATATATAATATAATATTAAA-
1 ATATATACATAATATAGTATTAAAG
*
45658702 AAATATA-ATAATA
1 ATATATACATAATA
45658715 ACAAAAAAAG
Statistics
Matches: 88, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
21 1 0.01
22 15 0.17
23 21 0.24
24 12 0.14
25 19 0.22
27 20 0.23
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (25 bp):
ATATATACATAATATAGTATTAAAG
Found at i:45658621 original size:27 final size:27
Alignment explanation
Indices: 45658510--45658621 Score: 85
Period size: 28 Copynumber: 4.2 Consensus size: 27
45658500 AAATATGTAC
*
45658510 ATAATATAGT-GTAAAA-A-ATACATA
1 ATAATATAGTATTAAAATATATACATA
45658534 CATAATATA--ATTAAAATATATACATAA
1 -ATAATATAGTATTAAAATATATACAT-A
* ** *
45658561 GATAACAT-GTAGAAAAATATATATATAA
1 -ATAATATAGTATTAAAATATATACAT-A
45658589 ATAATATAGTATTAAAGATATATACATA
1 ATAATATAGTATTAAA-ATATATACATA
45658617 A-AATA
1 ATAATA
45658622 GTATAATATA
Statistics
Matches: 69, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
24 5 0.07
25 9 0.13
26 6 0.09
27 17 0.25
28 23 0.33
29 9 0.13
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.31
Consensus pattern (27 bp):
ATAATATAGTATTAAAATATATACATA
Found at i:45658636 original size:27 final size:25
Alignment explanation
Indices: 45658577--45658671 Score: 86
Period size: 25 Copynumber: 3.8 Consensus size: 25
45658567 ATGTAGAAAA
*
45658577 ATATATATATAAATAATATAGTATT
1 ATATATATATACATAATATAGTATT
* * *
45658602 AAAGATATATACATAAAATAGTATAAT
1 ATATATATATACATAATATAGTAT--T
* *
45658629 ATATATATATACGTAATATAGAATT
1 ATATATATATACATAATATAGTATT
* *
45658654 -TAGA-ATATACCTAATATA
1 ATATATATATACATAATATA
45658672 TTAAAAGAAT
Statistics
Matches: 57, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
23 13 0.23
24 3 0.05
25 21 0.37
27 20 0.35
ACGTcount: A:0.53, C:0.04, G:0.06, T:0.37
Consensus pattern (25 bp):
ATATATATATACATAATATAGTATT
Found at i:45659010 original size:16 final size:16
Alignment explanation
Indices: 45658972--45659010 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
45658962 CTCCAAAAAA
*
45658972 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
45658988 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
45659004 AATAACT
1 AAAAACT
45659011 CTTCTCCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:45659261 original size:30 final size:30
Alignment explanation
Indices: 45659171--45659269 Score: 153
Period size: 30 Copynumber: 3.3 Consensus size: 30
45659161 TAGGTACAAG
45659171 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* * *
45659201 AGGTAGTGAAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* *
45659231 TGGTGGTGGAGCAAGTATGGTTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
45659261 TGGTGGTGG
1 TGGTGGTGG
45659270 CAAAGGCTAG
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 61 1.00
ACGTcount: A:0.19, C:0.05, G:0.48, T:0.27
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:45659738 original size:43 final size:43
Alignment explanation
Indices: 45659634--45659739 Score: 140
Period size: 43 Copynumber: 2.4 Consensus size: 43
45659624 CGTACAGTGC
* * *
45659634 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGATTTAA
1 TATT-GGG-CTTCGAGCCTACCAAGCTATAATGCCGGTGAGTTAA
* **
45659679 TATCGGGCTTTAAGCCTACCAAGCTATAATGCCGGTGAGTTAA
1 TATTGGGCTTCGAGCCTACCAAGCTATAATGCCGGTGAGTTAA
45659722 TATTGGGCTTCGAGCCTA
1 TATTGGGCTTCGAGCCTA
45659740 GCAGGCGTAA
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 46 0.88
44 3 0.06
45 3 0.06
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (43 bp):
TATTGGGCTTCGAGCCTACCAAGCTATAATGCCGGTGAGTTAA
Found at i:45662096 original size:16 final size:16
Alignment explanation
Indices: 45662075--45662126 Score: 79
Period size: 16 Copynumber: 3.2 Consensus size: 16
45662065 TTTGGTTCGC
45662075 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
45662091 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
45662107 TGTAATT-GAATAGAGG
1 TGT-ATTGGATTAGAGG
45662123 TGTA
1 TGTA
45662127 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
15 1 0.03
16 30 0.88
17 3 0.09
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:45662500 original size:16 final size:16
Alignment explanation
Indices: 45662456--45662502 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
45662446 TACTATAAAA
*
45662456 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
45662472 TATTATT-AAATATAT
1 TATAATTAAAATATAT
45662487 TATAATTAAAATATAT
1 TATAATTAAAATATAT
45662503 AATTTAGTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:45662574 original size:120 final size:121
Alignment explanation
Indices: 45662340--45662876 Score: 877
Period size: 120 Copynumber: 4.5 Consensus size: 121
45662330 ATTTAATTAT
* * *
45662340 ATTTAAACATAATAATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
*
45662405 ATCAATA-TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
* * *
45662460 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAGTAAAATTCTTAAAA
1 ATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
45662524 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
45662580 ATTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
*
45662644 ATCAAAATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
* * *
45662700 ATTTGAA-TTAATTAATATTAAAAATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
*
45662764 ATCAACATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
* * * *
45662820 ATTTGAA-GTAATTAATATTAAAAATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
45662877 TAAAATAATT
Statistics
Matches: 399, Mismatches: 16, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
119 64 0.16
120 333 0.83
121 2 0.01
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.42
Consensus pattern (121 bp):
ATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
Found at i:45662622 original size:18 final size:17
Alignment explanation
Indices: 45662601--45662635 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
45662591 TTATTATTAA
*
45662601 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
45662619 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
45662636 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:45662652 original size:16 final size:15
Alignment explanation
Indices: 45662627--45662656 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
45662617 ATATATAATT
45662627 TAATAAAATTCTTAA
1 TAATAAAATTCTTAA
45662642 TAATCAAAATTCTTA
1 TAAT-AAAATTCTTA
45662657 TATGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (15 bp):
TAATAAAATTCTTAA
Found at i:45662875 original size:59 final size:58
Alignment explanation
Indices: 45662557--45662865 Score: 164
Period size: 59 Copynumber: 5.2 Consensus size: 58
45662547 CTCAAATCAT
* * * *
45662557 AATATATGATACTATAAAAGATAATTTAACATAATTATTATTAAATATATTTTAATTAA
1 AATATATGATACTATAAAATATAATTTGA-ATAATTAATATTAAAAATATTTTAATTAA
* * * * * ** * ** * ** * *
45662616 AATATATAAT-TTAATAAAATTCTTAATAATCAA-AATTCTTATATGAATTTACTAAAATCAT
1 AATATATGATACT-ATAAAA-T-ATAAT-TTGAATAATTAATAT-TAAAAATATTTTAATTAA
45662677 AATATATGATACTATAAAATATAATTTGAATTAATTAATATTAAAAATATTTTAATTAA
1 AATATATGATACTATAAAATATAATTTGAA-TAATTAATATTAAAAATATTTTAATTAA
* * * * * ** * *
45662736 AATATAT-A-A-T-T-TAATAAAATTCTTAATAATCAACATTCTTATATGAATTTACTAAAATCA
1 AATATATGATACTATAAAATATAATT-TGAATAATTAATATT-AAAAAT--ATTT--T--AATTA
*
45662796 T
58 A
45662797 AATATATGATACTATAAAATATAATTTGAAGTAATTAATATTAAAAATATTTTAATTAA
1 AATATATGATACTATAAAATATAATTTGAA-TAATTAATATTAAAAATATTTTAATTAA
45662856 AATATATGAT
1 AATATATGAT
45662866 TTAATAAAAT
Statistics
Matches: 179, Mismatches: 49, Indels: 44
0.66 0.18 0.16
Matches are distributed among these distances:
54 17 0.09
55 7 0.04
56 1 0.01
57 5 0.03
58 5 0.03
59 51 0.28
60 16 0.09
61 43 0.24
62 4 0.02
63 5 0.03
64 1 0.01
65 7 0.04
66 17 0.09
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.41
Consensus pattern (58 bp):
AATATATGATACTATAAAATATAATTTGAATAATTAATATTAAAAATATTTTAATTAA
Found at i:45662927 original size:47 final size:46
Alignment explanation
Indices: 45662858--45663025 Score: 143
Period size: 47 Copynumber: 3.7 Consensus size: 46
45662848 TTAATTAAAA
*
45662858 TATATG-ATTTAATAAAATTTAAAATAATTATAACTAATAAATTTTCT
1 TATATGAATTT-ATATAATTTAAAATAATTATAA-TAATAAATTTTCT
* * *
45662905 TATATGAATTTGTATAATTTAAAATAATTAT--TATTAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATAATAATAAAT-T-TTCT
* * * *
45662950 TA-AT-AATAATATATAATTTCATAA-AATTCGTGATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-AAAATAATT-ATAATAATAAATTTTCT
*
45662996 TATATGAATTTATACAATTTAAAATAATTA
1 TATATGAATTTATATAATTTAAAATAATTA
45663026 ATATTAAATA
Statistics
Matches: 95, Mismatches: 14, Indels: 25
0.71 0.10 0.19
Matches are distributed among these distances:
43 3 0.03
44 22 0.23
45 9 0.09
46 8 0.08
47 46 0.48
48 7 0.07
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.45
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTTTCT
Found at i:45662934 original size:101 final size:92
Alignment explanation
Indices: 45662873--45663049 Score: 254
Period size: 91 Copynumber: 1.9 Consensus size: 92
45662863 GATTTAATAA
* *
45662873 AATTT-AAAATAATT-ATAACTAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTAT
1 AATTTCAAAA-AATTCATAA-TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAA
45662936 TATTAAATATAATTTAA-TAATAATATAT
64 TATTAAATATAATTTAATTAATAATATAT
* * * *
45662964 AATTTCATAAAATTCGTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATA
1 AATTTCAAAAAATTCATAATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATA
45663029 TTAAATATAATTTAA-TAATAA
66 TTAAATATAATTTAATTAATAA
45663050 AATGGTCTTA
Statistics
Matches: 78, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
91 73 0.94
92 5 0.06
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (92 bp):
AATTTCAAAAAATTCATAATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATA
TTAAATATAATTTAATTAATAATATAT
Found at i:45663045 original size:17 final size:15
Alignment explanation
Indices: 45663014--45663052 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
45663004 TTTATACAAT
45663014 TTAAAATAATTAATA
1 TTAAAATAATTAATA
45663029 TTAAATATAATTTAATA
1 TTAAA-ATAA-TTAATA
*
45663046 ATAAAAT
1 TTAAAAT
45663053 GGTCTTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 5 0.24
16 6 0.29
17 10 0.48
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TTAAAATAATTAATA
Found at i:45668150 original size:55 final size:54
Alignment explanation
Indices: 45668004--45668152 Score: 176
Period size: 53 Copynumber: 2.8 Consensus size: 54
45667994 TTTTAAAATT
* * *
45668004 AAAAAAATTTGGGTGCTAGAACACTGATGGCCGGCACCCC-GATACCAGATTTA
1 AAAAAAATTTGGGTGCTAGGACACTGATGGTCGGCACCCCAGATACCAAATTTA
* * * *
45668057 AAAAAAAATTAGGTGTTGGGACACTGATGGTCGGCACCCCAG-TACCAAATTTTA
1 AAAAAAATTTGGGTGCTAGGACACTGATGGTCGGCACCCCAGATACCAAA-TTTA
* * *
45668111 AAAAAAATTTGGGGTGCTAGGATACTGATTGTCGACACCCCA
1 AAAAAAATTT-GGGTGCTAGGACACTGATGGTCGGCACCCCA
45668153 TTAGTCTATA
Statistics
Matches: 79, Mismatches: 14, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
53 40 0.51
54 14 0.18
55 25 0.32
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (54 bp):
AAAAAAATTTGGGTGCTAGGACACTGATGGTCGGCACCCCAGATACCAAATTTA
Found at i:45668252 original size:28 final size:30
Alignment explanation
Indices: 45668221--45668296 Score: 102
Period size: 33 Copynumber: 2.5 Consensus size: 30
45668211 ATTGTTGAGA
*
45668221 GTACCATCAAATGGG-AGTGT-TTGGGAGT
1 GTACCATCAAATGGGAACTGTATTGGGAGT
45668249 GTACCATCAAATAGGGATACTGTAATTGGGAGT
1 GTACCATCAAAT-GGGA-ACTGT-ATTGGGAGT
45668282 GTACCATCAAATGGG
1 GTACCATCAAATGGG
45668297 TGTGATGTAG
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
28 12 0.29
29 3 0.07
31 4 0.10
32 3 0.07
33 20 0.48
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.26
Consensus pattern (30 bp):
GTACCATCAAATGGGAACTGTATTGGGAGT
Found at i:45672394 original size:38 final size:38
Alignment explanation
Indices: 45672330--45672407 Score: 102
Period size: 38 Copynumber: 2.1 Consensus size: 38
45672320 GAGTTATATG
** * *
45672330 GTTATTCAGGCTTTGTGCCTAACAGGCTTAGTGCCGGT
1 GTTATTCAGGCTTAATGCATAACAGGCTTAGTGCCAGT
* *
45672368 GTTATTCAGGCTTAATGCATAGCAGGCTTATTGCCAGT
1 GTTATTCAGGCTTAATGCATAACAGGCTTAGTGCCAGT
45672406 GT
1 GT
45672408 AATAAAAGTT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.35
Consensus pattern (38 bp):
GTTATTCAGGCTTAATGCATAACAGGCTTAGTGCCAGT
Found at i:45673923 original size:18 final size:18
Alignment explanation
Indices: 45673896--45673951 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 18
45673886 TAATTATTTC
*
45673896 TTTTTTAATTAAATTATA
1 TTTTTAAATTAAATTATA
45673914 TTTTTAAATTTTAAATT-TA
1 TTTTTAAA--TTAAATTATA
*
45673933 TTCCTTTAAATTAATTTAT
1 TT--TTTAAATTAAATTAT
45673952 CCTTAATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 7 0.23
19 10 0.32
20 8 0.26
21 6 0.19
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTTTAAATTAAATTATA
Found at i:45673940 original size:21 final size:20
Alignment explanation
Indices: 45673904--45673944 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
45673894 TCTTTTTTAA
45673904 TTAAATTATATTTTTAAATT
1 TTAAATTATATTTTTAAATT
45673924 TTAAATT-TATTCCTTTAAATT
1 TTAAATTATATT--TTTAAATT
45673945 AATTTATCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 7 0.37
21 8 0.42
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (20 bp):
TTAAATTATATTTTTAAATT
Found at i:45673941 original size:38 final size:39
Alignment explanation
Indices: 45673902--45674016 Score: 102
Period size: 36 Copynumber: 3.1 Consensus size: 39
45673892 TTTCTTTTTT
45673902 AATTAAATTATATTTTTAAATTTTAAATTTATTCCTTTA
1 AATTAAATTATATTTTTAAATTTTAAATTTATTCCTTTA
** * * * *
45673941 AATT-AATT-TATCCTT-AATTTT--TTTTCTT-TTTTC
1 AATTAAATTATATTTTTAAATTTTAAATTTATTCCTTTA
45673974 AATTAAATTCGAT-TTTTTAAA-TTTAAATTTATTCCTTTA
1 AATTAAATT--ATATTTTTAAATTTTAAATTTATTCCTTTA
45674013 AATT
1 AATT
45674017 GATTTATCCT
Statistics
Matches: 56, Mismatches: 12, Indels: 16
0.67 0.14 0.19
Matches are distributed among these distances:
33 7 0.12
34 9 0.16
36 12 0.21
37 8 0.14
38 9 0.16
39 11 0.20
ACGTcount: A:0.33, C:0.08, G:0.01, T:0.58
Consensus pattern (39 bp):
AATTAAATTATATTTTTAAATTTTAAATTTATTCCTTTA
Found at i:45674079 original size:71 final size:71
Alignment explanation
Indices: 45673782--45674189 Score: 506
Period size: 71 Copynumber: 5.7 Consensus size: 71
45673772 TCTTTTTTAA
* * * * *
45673782 TTAAATTCTATTTCTTAAAATTTAAATTTATCCTTAAATTATTT-ATTTTTAATTAAATACAA-T
1 TTAAATT-TATTCCTTTAAA-TT-AATTTATCCTTTAATTATTTCTTTTTTAATTAAATTCAATT
45673845 TTTTAAAAT
63 TTTTAAAAT
* *
45673854 TTAAATTTATTCCTTAAAAGTAATTTATCCTTTAATTATTTCTTTTTTAATTAAATT--ATATTT
1 TTAAATTTATTCCTTTAAATTAATTTATCCTTTAATTATTTCTTTTTTAATTAAATTCAAT-TTT
*
45673917 TTAAATT
65 TTAAAAT
* *
45673924 TTAAATTTATTCCTTTAAATTAATTTATCC-TTAATTTTTTTTCTTTTTTCAATTAAATTCGATT
1 TTAAATTTATTCCTTTAAATTAATTTATCCTTTAA--TTATTTCTTTTTT-AATTAAATTCAATT
45673988 TTTT-AAAT
63 TTTTAAAAT
* *
45673996 TTAAATTTATTCCTTTAAATTGATTTATCCTTTAATTATTTC-TTTCTAATTAAATTCAATTTTT
1 TTAAATTTATTCCTTTAAATTAATTTATCCTTTAATTATTTCTTTTTTAATTAAATTCAATTTTT
45674060 TAAAAAT
66 T-AAAAT
**
45674067 TTAAATTTATTCCTTTAAATTAATTTATCCTTTAATTATTTCTTTTCTTAATTAAATTTTATTTT
1 TTAAATTTATTCCTTTAAATTAATTTATCCTTTAATTATTTCTTTT-TTAATTAAATTCAATTTT
45674132 TTAAAACATT
65 TT-AAA-A-T
* * *
45674142 TTACATTTATTCCTTTAAATTGATTTATCCTTTAACTATTTCTTTTTT
1 TTAAATTTATTCCTTTAAATTAATTTATCCTTTAATTATTTCTTTTTT
45674190 TAAATTATCT
Statistics
Matches: 300, Mismatches: 21, Indels: 28
0.86 0.06 0.08
Matches are distributed among these distances:
68 1 0.00
69 40 0.13
70 55 0.18
71 74 0.25
72 51 0.17
73 30 0.10
74 5 0.02
75 44 0.15
ACGTcount: A:0.33, C:0.09, G:0.01, T:0.57
Consensus pattern (71 bp):
TTAAATTTATTCCTTTAAATTAATTTATCCTTTAATTATTTCTTTTTTAATTAAATTCAATTTTT
TAAAAT
Found at i:45680375 original size:55 final size:55
Alignment explanation
Indices: 45680281--45680447 Score: 216
Period size: 54 Copynumber: 3.0 Consensus size: 55
45680271 CTCAAAAAAG
*
45680281 AATTATTTTTTTTAAATCTGGTACTGGAGT-TCCGACCATCAGTGTCCTAGCACCCC
1 AATT-TTTTTTTTAAATCTGGTACTGGAGTGT-CGACCATCAGTGTCCCAGCACCCC
* * **
45680337 AA-TTTTTTTTTAAATTCTGGTACTAGG-GTGTCGGCCATCAGTGTCCCAACA-CAT
1 AATTTTTTTTTTAAA-TCTGGTACT-GGAGTGTCGACCATCAGTGTCCCAGCACCCC
*
45680391 AATTTTTTTTTTAAATCTAGTACTGGAGTGTCGACCATCAGTGTCCCAGCACCCC
1 AATTTTTTTTTTAAATCTGGTACTGGAGTGTCGACCATCAGTGTCCCAGCACCCC
45680446 AA
1 AA
45680448 AAATATATAT
Statistics
Matches: 95, Mismatches: 10, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
53 2 0.02
54 44 0.46
55 44 0.46
56 5 0.05
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (55 bp):
AATTTTTTTTTTAAATCTGGTACTGGAGTGTCGACCATCAGTGTCCCAGCACCCC
Found at i:45680694 original size:16 final size:16
Alignment explanation
Indices: 45680673--45680706 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
45680663 CCAGCACCCA
45680673 AAAAATCATTTTTTTT
1 AAAAATCATTTTTTTT
45680689 AAAAATCATTTTTTTT
1 AAAAATCATTTTTTTT
45680705 AA
1 AA
45680707 CGCCTAACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (16 bp):
AAAAATCATTTTTTTT
Found at i:45681667 original size:19 final size:19
Alignment explanation
Indices: 45681643--45681680 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
45681633 GCGAACAAGT
45681643 CAGTTTTCGAACTATTAAA
1 CAGTTTTCGAACTATTAAA
45681662 CAGTTTTCGAACTATTAAA
1 CAGTTTTCGAACTATTAAA
45681681 GAAACCTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (19 bp):
CAGTTTTCGAACTATTAAA
Found at i:45685109 original size:16 final size:16
Alignment explanation
Indices: 45685088--45685125 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
45685078 TGAAATTTTG
*
45685088 AATTATTTA-AATTTA
1 AATTATATATAATTTA
45685103 AAGTTATATATAATTTA
1 AA-TTATATATAATTTA
45685120 AATTAT
1 AATTAT
45685126 GTTTTGATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 2 0.10
16 10 0.50
17 8 0.40
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (16 bp):
AATTATATATAATTTA
Found at i:45687736 original size:22 final size:22
Alignment explanation
Indices: 45687708--45687787 Score: 97
Period size: 22 Copynumber: 3.6 Consensus size: 22
45687698 ATAGCTCGTA
**
45687708 AGAGCTTTTCGTTCAGCTCAAT
1 AGAGCTTCCCGTTCAGCTCAAT
* * *
45687730 AGTGCTTCCCGTTTAGATCAAT
1 AGAGCTTCCCGTTCAGCTCAAT
*
45687752 AGAACTTCCCGTTCAGCTCAAT
1 AGAGCTTCCCGTTCAGCTCAAT
*
45687774 AAAGCTTCCCGTTC
1 AGAGCTTCCCGTTC
45687788 CCAGCTTAAT
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.33
Consensus pattern (22 bp):
AGAGCTTCCCGTTCAGCTCAAT
Found at i:45701300 original size:47 final size:47
Alignment explanation
Indices: 45701242--45701583 Score: 540
Period size: 47 Copynumber: 7.3 Consensus size: 47
45701232 ACAAGATATG
*
45701242 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGCA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* ** *
45701289 TATATGAGATAAGATCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
45701336 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * *
45701383 TATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
45701430 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * * * * *
45701477 TATATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAGGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
45701524 TATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
45701571 TAAATGTGATAAG
1 TATATGTGATAAG
45701584 TCTCGAAGGG
Statistics
Matches: 268, Mismatches: 27, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 268 1.00
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:45701342 original size:25 final size:25
Alignment explanation
Indices: 45701314--45701391 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
45701304 CTAATGGCCA
45701314 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* * ***
45701339 ATGTGAT-AAGGCCG-AA-TGGCCA-
1 ATGTGATGAATG-TGAAAGTGTATAT
45701361 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
45701386 ATGTGA
1 ATGTGA
45701392 CAAGGCCTAA
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 8 0.21
23 8 0.21
24 8 0.21
25 14 0.37
ACGTcount: A:0.35, C:0.05, G:0.29, T:0.31
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:45709956 original size:22 final size:22
Alignment explanation
Indices: 45709923--45709988 Score: 89
Period size: 22 Copynumber: 3.0 Consensus size: 22
45709913 GACTCACCAT
*
45709923 AGCTC-ATAAGAGCTTCTCGTTC
1 AGCTCAAT-AGAGCTTCCCGTTC
45709945 AGCTCAATAGAGCTTCCCGTTC
1 AGCTCAATAGAGCTTCCCGTTC
* *
45709967 AGCTCAATAAAGCTTTCCGTTC
1 AGCTCAATAGAGCTTCCCGTTC
45709989 CTAGCTTAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
22 38 0.95
23 2 0.05
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.30
Consensus pattern (22 bp):
AGCTCAATAGAGCTTCCCGTTC
Found at i:45712481 original size:18 final size:18
Alignment explanation
Indices: 45712460--45712520 Score: 77
Period size: 18 Copynumber: 3.3 Consensus size: 18
45712450 AATAAACCTA
45712460 AAAAATTTATTAAAAAAT
1 AAAAATTTATTAAAAAAT
***
45712478 AAAAAAAAATTAAAAACAT
1 AAAAATTTATTAAAAA-AT
*
45712497 AAAAATTTATAAAAAAAT
1 AAAAATTTATTAAAAAAT
45712515 AAAAAT
1 AAAAAT
45712521 AAAAAATAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
18 21 0.60
19 14 0.40
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.25
Consensus pattern (18 bp):
AAAAATTTATTAAAAAAT
Found at i:45713016 original size:14 final size:14
Alignment explanation
Indices: 45712997--45713026 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
45712987 GTCATTTAGG
45712997 CCAACCAAACTGGC
1 CCAACCAAACTGGC
45713011 CCAACCAAACTGGC
1 CCAACCAAACTGGC
45713025 CC
1 CC
45713027 GGTGATTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.47, G:0.13, T:0.07
Consensus pattern (14 bp):
CCAACCAAACTGGC
Found at i:45719141 original size:21 final size:21
Alignment explanation
Indices: 45719098--45719142 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
45719088 AAAATAGTAA
**
45719098 TTTTTTATAAGTTTTTTTATT
1 TTTTTTATAAGTTTTAGTATT
*
45719119 TTTTTTATAA-TTTTAGTACT
1 TTTTTTATAAGTTTTAGTATT
45719139 TTTT
1 TTTT
45719143 GTAATTTTAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.73
Consensus pattern (21 bp):
TTTTTTATAAGTTTTAGTATT
Found at i:45720650 original size:25 final size:24
Alignment explanation
Indices: 45720605--45720651 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
45720595 GGTCTAAAAT
* * *
45720605 TTTAAGTAAAATTTTAGTTATTCA
1 TTTAAGCAAAATATTAATTATTCA
45720629 TTTAAGCAAACATATTAATTATT
1 TTTAAGCAAA-ATATTAATTATT
45720652 AATTATTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 9 0.47
25 10 0.53
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.47
Consensus pattern (24 bp):
TTTAAGCAAAATATTAATTATTCA
Found at i:45722050 original size:22 final size:23
Alignment explanation
Indices: 45722007--45722051 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
45721997 CCAATTTCCA
* *
45722007 AAATAAACATAATAAGTTAATTT
1 AAATAAACATAATAAATAAATTT
*
45722030 AAATAAATA-AATAAATAAATTT
1 AAATAAACATAATAAATAAATTT
45722052 CCCAATTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (23 bp):
AAATAAACATAATAAATAAATTT
Found at i:45724512 original size:13 final size:13
Alignment explanation
Indices: 45724483--45724520 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
45724473 TGCTTTCCAC
45724483 AACATGTATTCATTT
1 AACATGTA-T-ATTT
45724498 AACATGTATATTT
1 AACATGTATATTT
45724511 AACATGTATA
1 AACATGTATA
45724521 AATCATCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 14 0.61
14 1 0.04
15 8 0.35
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (13 bp):
AACATGTATATTT
Found at i:45726658 original size:79 final size:82
Alignment explanation
Indices: 45726547--45726731 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
45726537 GCTACTCGTT
* *
45726547 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
45726610 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
45726627 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
45726690 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
45726707 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
45726732 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:45726731 original size:40 final size:40
Alignment explanation
Indices: 45726528--45726731 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
45726518 CGGAATTTAA
** *
45726528 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
45726568 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
45726608 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
45726647 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
45726687 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
45726727 CCGGA
1 CCGGA
45726732 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:45729907 original size:61 final size:61
Alignment explanation
Indices: 45729812--45729933 Score: 217
Period size: 61 Copynumber: 2.0 Consensus size: 61
45729802 GATTAACGAC
*
45729812 CCTAGGGAGTAATTTAGGTAGATAGACTGAGAGGATTAGTCTATCAAGTACCTCATAATTT
1 CCTAGGGAGTAATTTAGGTAGATAGACTGAGAGGATTAGTCTATCAAGCACCTCATAATTT
* *
45729873 CCTAGGGAGTAATTTAGGTAGATAGGCTGAGAGGATTAGTTTATCAAGCACCTCATAATTT
1 CCTAGGGAGTAATTTAGGTAGATAGACTGAGAGGATTAGTCTATCAAGCACCTCATAATTT
45729934 ATCTCGGTTT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.31
Consensus pattern (61 bp):
CCTAGGGAGTAATTTAGGTAGATAGACTGAGAGGATTAGTCTATCAAGCACCTCATAATTT
Found at i:45730625 original size:16 final size:16
Alignment explanation
Indices: 45730604--45730634 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45730594 TATCGATACC
45730604 AACTTTAAAATTTTAA
1 AACTTTAAAATTTTAA
*
45730620 AACTTTGAAATTTTA
1 AACTTTAAAATTTTA
45730635 CAAATCAATC
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:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (16 bp):
AACTTTAAAATTTTAA
Found at i:45733719 original size:76 final size:78
Alignment explanation
Indices: 45733625--45733790 Score: 221
Period size: 79 Copynumber: 2.2 Consensus size: 78
45733615 TTGTTTTTTA
* * * * *
45733625 AATTTA-TCCATTTGTATTTATTTGATTTTTA-TTT-TTTATTTAGTTGATATCATCTGAACTTA
1 AATTTAGTACATTTATATTTATTTAATTTTTATTTTATTTATTTAGATAATATCATCTGAACTTA
*
45733687 TATTTTGTCACAC
66 TATTCTGTCACAC
* *
45733700 AATTTAGTACATTTATATTTGTTTAATTTTTATTTTCATTTATTTAGATAATATCATTTGAACTT
1 AATTTAGTACATTTATATTTATTTAATTTTTATTTT-ATTTATTTAGATAATATCATCTGAACTT
*
45733765 ATATTCTGTCACAT
65 ATATTCTGTCACAC
45733779 AATTTAGTACAT
1 AATTTAGTACAT
45733791 CTGCACTAAC
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
75 6 0.08
76 21 0.27
77 3 0.04
79 48 0.62
ACGTcount: A:0.29, C:0.10, G:0.07, T:0.54
Consensus pattern (78 bp):
AATTTAGTACATTTATATTTATTTAATTTTTATTTTATTTATTTAGATAATATCATCTGAACTTA
TATTCTGTCACAC
Found at i:45734314 original size:35 final size:35
Alignment explanation
Indices: 45734268--45734339 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
45734258 ACATAAACGC
45734268 AAACTAATGTTGTTAATAAGAAATATCAAACTGTG
1 AAACTAATGTTGTTAATAAGAAATATCAAACTGTG
45734303 AAACTAATGTTGTTAATAAGAAATATCAAACTGTG
1 AAACTAATGTTGTTAATAAGAAATATCAAACTGTG
45734338 AA
1 AA
45734340 GCGAAATTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.47, C:0.08, G:0.14, T:0.31
Consensus pattern (35 bp):
AAACTAATGTTGTTAATAAGAAATATCAAACTGTG
Found at i:45735646 original size:16 final size:15
Alignment explanation
Indices: 45735619--45735654 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
45735609 GCTTTTTTAA
*
45735619 AAATTATAAAATTAT
1 AAATTATAAAATAAT
45735634 AAATTAGTAAAATAAT
1 AAATTA-TAAAATAAT
45735650 AAATT
1 AAATT
45735655 GCACTTTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (15 bp):
AAATTATAAAATAAT
Found at i:45735828 original size:31 final size:30
Alignment explanation
Indices: 45735793--45735868 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
45735783 ATTGATTTAT
* **
45735793 ATTAAGAAATTTATTTTGATATAAATAAAAG
1 ATTAA-AAACTTATTTAAATATAAATAAAAG
* *
45735824 ATTAAAAGCTTATTTAAATATAAATTAAAG
1 ATTAAAAACTTATTTAAATATAAATAAAAG
*
45735854 ATTAACAACTTATTT
1 ATTAAAAACTTATTT
45735869 GAGTGTCAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 33 0.87
31 5 0.13
ACGTcount: A:0.50, C:0.04, G:0.07, T:0.39
Consensus pattern (30 bp):
ATTAAAAACTTATTTAAATATAAATAAAAG
Found at i:45735882 original size:30 final size:30
Alignment explanation
Indices: 45735811--45735868 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
45735801 ATTTATTTTG
*
45735811 ATATAAATAAAAGATTAAAAGCTTATTTAA
1 ATATAAATTAAAGATTAAAAGCTTATTTAA
45735841 ATATAAATTAAAGATTAACAA-CTTATTT
1 ATATAAATTAAAGATTAA-AAGCTTATTT
45735869 GAGTGTCAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 24 0.92
31 2 0.08
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.36
Consensus pattern (30 bp):
ATATAAATTAAAGATTAAAAGCTTATTTAA
Found at i:45735929 original size:30 final size:30
Alignment explanation
Indices: 45735863--45735934 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 30
45735853 GATTAACAAC
* *
45735863 TTATTTGAGTGTCAATTAAAATTTAAGGAT
1 TTATTTGAATATCAATTAAAATTTAAGGAT
*
45735893 TCATTTGAATATCAATTAAAATTTAA-GAGT
1 TTATTTGAATATCAATTAAAATTTAAGGA-T
45735923 TTATTTGAATAT
1 TTATTTGAATAT
45735935 TTAAACTTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
29 2 0.05
30 35 0.95
ACGTcount: A:0.39, C:0.04, G:0.12, T:0.44
Consensus pattern (30 bp):
TTATTTGAATATCAATTAAAATTTAAGGAT
Found at i:45736270 original size:28 final size:29
Alignment explanation
Indices: 45736239--45736302 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 29
45736229 TTTATTTTAA
*
45736239 AAAATATTTTATA-TCTTTTTAAAATTTT
1 AAAATATTTTAAATTCTTTTTAAAATTTT
* * *
45736267 AAAATTTTTTAAATTCTTTTTGAAGTTTT
1 AAAATATTTTAAATTCTTTTTAAAATTTT
45736296 -AAATATT
1 AAAATATT
45736303 AAATATTAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 17 0.57
29 13 0.43
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (29 bp):
AAAATATTTTAAATTCTTTTTAAAATTTT
Found at i:45738174 original size:28 final size:29
Alignment explanation
Indices: 45738133--45738190 Score: 84
Period size: 28 Copynumber: 2.0 Consensus size: 29
45738123 GTAGATGATT
*
45738133 ATTATTATTGTTAT-TA-AATTTTAATAAA
1 ATTATTATTATTATATATAA-TTTAATAAA
45738161 ATTATTATTATTATATATAATTTAATAAA
1 ATTATTATTATTATATATAATTTAATAAA
45738190 A
1 A
45738191 ATAACAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 13 0.48
29 12 0.44
30 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (29 bp):
ATTATTATTATTATATATAATTTAATAAA
Found at i:45738244 original size:58 final size:58
Alignment explanation
Indices: 45738164--45738291 Score: 168
Period size: 58 Copynumber: 2.2 Consensus size: 58
45738154 TAATAAAATT
* * * * *
45738164 ATTATTATTATATATAATTTAATAAAAATAACAAATAATTTAATCATATT-TTAACATA
1 ATTATTATTAAATACAATTTAAT-AAAATAACAAATAATTTAATAACATTCTTAACACA
* * *
45738222 ATTATTATTAAATACAATTTAATAAAATAATATATAATTTAATAACATTCTTAATACA
1 ATTATTATTAAATACAATTTAATAAAATAACAAATAATTTAATAACATTCTTAACACA
45738280 ATTATTATTAAA
1 ATTATTATTAAA
45738292 AATATGAATT
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
57 22 0.36
58 39 0.64
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (58 bp):
ATTATTATTAAATACAATTTAATAAAATAACAAATAATTTAATAACATTCTTAACACA
Found at i:45741202 original size:47 final size:47
Alignment explanation
Indices: 45740977--45741242 Score: 203
Period size: 46 Copynumber: 5.7 Consensus size: 47
45740967 GTGGGTAAGG
** *
45740977 TGTCGATGCCATGTCTTAGACATGGTCTTACACTGGCTCACAT-T-GCA
1 TGTCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTCG-A
* * * *
45741024 AGTCAATGCCATGTCCCAGCCATAGTCTTACACTGAC-CATCATCTCG-
1 TGTCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTC-TCATCTCGA
* *
45741071 TAGTCGATG-CATGTACCAGACATGTCTTACACTGGCT-TACGTCTCGA
1 T-GTCGATGCCATGTCCCAGACATGTCTTACACTGGCTCT-CATCTCGA
* * * * * *
45741118 GGTCGATG-CATATCCTAGAAATGTCTTACACTAGCTCTCGTCTCGA
1 TGTCGATGCCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGA
* *
45741164 TGCCGATGCCATGTCCCAG-CATGGTCTTACACTGGCTCTCATAAT--A
1 TGTCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTCGA
* *
45741210 TGGCCGATG-TATGTCCCAGACATGTCTTACACT
1 T-GTCGATGCCATGTCCCAGACATGTCTTACACT
45741243 AGCAAAAAAT
Statistics
Matches: 177, Mismatches: 29, Indels: 27
0.76 0.12 0.12
Matches are distributed among these distances:
45 1 0.01
46 86 0.49
47 81 0.46
48 8 0.05
49 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (47 bp):
TGTCGATGCCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGA
Found at i:45741615 original size:30 final size:30
Alignment explanation
Indices: 45741580--45741637 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
45741570 AAATTCACAT
* *
45741580 CTTTGGTAAAATGACCATTTTGCCCCTAAA
1 CTTTGGCAAAATGACCATTTTACCCCTAAA
45741610 CTTTGGCAAAATGACCATTTTACCCCTA
1 CTTTGGCAAAATGACCATTTTACCCCTA
45741638 TGCTCGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (30 bp):
CTTTGGCAAAATGACCATTTTACCCCTAAA
Found at i:45748840 original size:47 final size:47
Alignment explanation
Indices: 45748615--45748880 Score: 194
Period size: 46 Copynumber: 5.7 Consensus size: 47
45748605 GTGGGTAAGG
** *
45748615 TGTCGATGCCATGTCTTAGACATGGTCTTACACTGGCTCACAT-T-GCA
1 TGTCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTCG-A
* * * * *
45748662 AGTCAATGCCATGTCCCAGCCATAGTCTTACACTGAC-CACCATCTCG-
1 TGTCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTC-TCATCTCGA
* *
45748709 TAGTCGATG-CATGTACCAGACATGTCTTACACTGGCT-TACGTCTCGA
1 T-GTCGATGCCATGTCCCAGACATGTCTTACACTGGCTCT-CATCTCGA
* * * * * *
45748756 GGTCGATG-CATATCCTAGAAATGTCTTACACTAGCTCTCGTCTCGA
1 TGTCGATGCCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGA
* *
45748802 TGCCGATGCCATGTCCCAG-CATGGTCTTACACTGGCTCTCATAAT--A
1 TGTCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTCGA
* *
45748848 TGGCCGATG-TATGTCCCAGACATGTCTTACACT
1 T-GTCGATGCCATGTCCCAGACATGTCTTACACT
45748881 AGCAAAAAAT
Statistics
Matches: 176, Mismatches: 30, Indels: 27
0.76 0.13 0.12
Matches are distributed among these distances:
46 86 0.49
47 81 0.46
48 8 0.05
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (47 bp):
TGTCGATGCCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGA
Found at i:45749253 original size:30 final size:30
Alignment explanation
Indices: 45749218--45749275 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
45749208 AAATTCACAT
* *
45749218 CTTTGGTAAAATGACCATTTTGCCCCTAGA
1 CTTTGGCAAAATGACCATTTTACCCCTAGA
45749248 CTTTGGCAAAATGACCATTTTACCCCTA
1 CTTTGGCAAAATGACCATTTTACCCCTA
45749276 TGCTCAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CTTTGGCAAAATGACCATTTTACCCCTAGA
Found at i:45751526 original size:16 final size:16
Alignment explanation
Indices: 45751502--45751532 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45751492 ATTTTCATGC
*
45751502 ATAAGCCCATAATAGA
1 ATAAACCCATAATAGA
45751518 ATAAACCCATAATAG
1 ATAAACCCATAATAG
45751533 GGCATTCCAT
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:0.52, C:0.19, G:0.10, T:0.19
Consensus pattern (16 bp):
ATAAACCCATAATAGA
Found at i:45752795 original size:10 final size:10
Alignment explanation
Indices: 45752772--45752815 Score: 63
Period size: 10 Copynumber: 4.4 Consensus size: 10
45752762 ATTCTAAAAT
45752772 ATAAATACAA-
1 ATAAATA-AAG
45752782 ATAAATAAAG
1 ATAAATAAAG
*
45752792 ATAATTAAAG
1 ATAAATAAAG
45752802 ATAAATAAAG
1 ATAAATAAAG
45752812 ATAA
1 ATAA
45752816 TAGCTAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
9 2 0.06
10 29 0.94
ACGTcount: A:0.68, C:0.02, G:0.07, T:0.23
Consensus pattern (10 bp):
ATAAATAAAG
Found at i:45753797 original size:23 final size:24
Alignment explanation
Indices: 45753761--45753805 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
45753751 TAAAGAAATG
*
45753761 GAAAAAAAAGAGAAAGAAAATGAT
1 GAAAAAAAAGAGAAAAAAAATGAT
*
45753785 GAAAACAAA-AGAAAAAAAATG
1 GAAAAAAAAGAGAAAAAAAATG
45753806 TGTCCATCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.73, C:0.02, G:0.18, T:0.07
Consensus pattern (24 bp):
GAAAAAAAAGAGAAAAAAAATGAT
Found at i:45754437 original size:37 final size:37
Alignment explanation
Indices: 45754396--45754483 Score: 176
Period size: 37 Copynumber: 2.4 Consensus size: 37
45754386 AACATAGACA
45754396 TGTATGTTCGGCCACATGAATAAGTACATAAGTTATG
1 TGTATGTTCGGCCACATGAATAAGTACATAAGTTATG
45754433 TGTATGTTCGGCCACATGAATAAGTACATAAGTTATG
1 TGTATGTTCGGCCACATGAATAAGTACATAAGTTATG
45754470 TGTATGTTCGGCCA
1 TGTATGTTCGGCCA
45754484 TAGGTAGCCT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.33
Consensus pattern (37 bp):
TGTATGTTCGGCCACATGAATAAGTACATAAGTTATG
Found at i:45755281 original size:40 final size:40
Alignment explanation
Indices: 45755086--45755267 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 40
45755076 AATGATGTCT
* * * *
45755086 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACC
* *
45755126 GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATTCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-ACC
*
45755166 GGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CC
*
45755205 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
*
45755245 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
45755268 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
Found at i:45755289 original size:79 final size:79
Alignment explanation
Indices: 45755136--45755300 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
45755126 GGACTAAGAT
* **
45755136 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
45755201 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
45755215 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
45755278 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
45755294 CCGAAGG
1 CCGAAGG
45755301 TACGTGATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:45757310 original size:14 final size:15
Alignment explanation
Indices: 45757293--45757321 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
45757283 AATAGAGACA
45757293 AAAATCA-AATTAAC
1 AAAATCATAATTAAC
45757307 AAAATCATAATTAAC
1 AAAATCATAATTAAC
45757322 TCAGTAGACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.62, C:0.14, G:0.00, T:0.24
Consensus pattern (15 bp):
AAAATCATAATTAAC
Found at i:45758067 original size:25 final size:25
Alignment explanation
Indices: 45758050--45758143 Score: 142
Period size: 25 Copynumber: 3.9 Consensus size: 25
45758040 ATAACCAAAC
*
45758050 AAAATAAAATAATAAATAATAAAAT
1 AAAATAAAGTAATAAATAATAAAAT
*
45758075 AAAATAATGTAATAAATAATAAAAT
1 AAAATAAAGTAATAAATAATAAAAT
45758100 AAAATAAAGTAATAAATAAT-AAAT
1 AAAATAAAGTAATAAATAATAAAAT
45758124 --AATAAA-TAATAAATAATAAA
1 AAAATAAAGTAATAAATAATAAA
45758144 CAATAAAAGA
Statistics
Matches: 65, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
21 11 0.17
22 8 0.12
24 4 0.06
25 42 0.65
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (25 bp):
AAAATAAAGTAATAAATAATAAAAT
Found at i:45758068 original size:7 final size:7
Alignment explanation
Indices: 45758056--45758150 Score: 100
Period size: 7 Copynumber: 12.4 Consensus size: 7
45758046 AAACAAAATA
45758056 AAATAAT
1 AAATAAT
45758063 AAATAAT
1 AAATAAT
45758070 AAAATAAAAT
1 -AAAT--AAT
*
45758080 AATGTAAT
1 AA-ATAAT
45758088 AAATAAT
1 AAATAAT
45758095 AAAATAAAAT
1 -AAAT--AAT
45758105 AAAGTAAT
1 AAA-TAAT
45758113 AAATAAT
1 AAATAAT
45758120 AAATAAT
1 AAATAAT
45758127 AAATAAT
1 AAATAAT
45758134 AAATAAT
1 AAATAAT
*
45758141 AAACAAT
1 AAATAAT
45758148 AAA
1 AAA
45758151 AGAAAAAGAA
Statistics
Matches: 77, Mismatches: 3, Indels: 16
0.80 0.03 0.17
Matches are distributed among these distances:
7 45 0.58
8 19 0.25
9 5 0.06
10 8 0.10
ACGTcount: A:0.72, C:0.01, G:0.02, T:0.25
Consensus pattern (7 bp):
AAATAAT
Found at i:45758070 original size:3 final size:3
Alignment explanation
Indices: 45758052--45758142 Score: 61
Period size: 3 Copynumber: 30.7 Consensus size: 3
45758042 AACCAAACAA
*
45758052 AAT AA- AAT AAT AAAT AAT AA- AAT AA- AAT AAT -GT AAT AAAT AAT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
*
45758095 AA- AAT AA- AAT AA- AGT AAT AAAT AAT AAAT AAT AAAT AAT AAAT AAT
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT -AAT AAT -AAT AAT -AAT AAT
45758141 AA
1 AA
45758143 ACAATAAAAG
Statistics
Matches: 71, Mismatches: 4, Indels: 26
0.70 0.04 0.26
Matches are distributed among these distances:
2 12 0.17
3 41 0.58
4 18 0.25
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:45761893 original size:10 final size:10
Alignment explanation
Indices: 45761870--45761914 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
45761860 ATTCTAAAAT
45761870 ATAAATACAA-
1 ATAAATA-AAG
45761880 ATAAATAAAG
1 ATAAATAAAG
*
45761890 ATAATTAAAG
1 ATAAATAAAG
*
45761900 ATAAATGAAG
1 ATAAATAAAG
45761910 ATAAA
1 ATAAA
45761915 AGATAAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
9 2 0.06
10 29 0.94
ACGTcount: A:0.67, C:0.02, G:0.09, T:0.22
Consensus pattern (10 bp):
ATAAATAAAG
Found at i:45764369 original size:11 final size:11
Alignment explanation
Indices: 45764355--45764394 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
45764345 GTGAAATTTA
45764355 AAATAAATGGG
1 AAATAAATGGG
*
45764366 AAATAAATAGG
1 AAATAAATGGG
45764377 -AATAAATGGG
1 AAATAAATGGG
45764387 AAATAAAT
1 AAATAAAT
45764395 AGACTTCCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 9 0.35
11 17 0.65
ACGTcount: A:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (11 bp):
AAATAAATGGG
Found at i:45764381 original size:21 final size:21
Alignment explanation
Indices: 45764356--45764396 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
45764346 TGAAATTTAA
45764356 AATAAATGGGAAATAAATAGG
1 AATAAATGGGAAATAAATAGG
45764377 AATAAATGGGAAATAAATAG
1 AATAAATGGGAAATAAATAG
45764397 ACTTCCCTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.22, T:0.20
Consensus pattern (21 bp):
AATAAATGGGAAATAAATAGG
Found at i:45765515 original size:18 final size:18
Alignment explanation
Indices: 45765492--45765561 Score: 113
Period size: 18 Copynumber: 3.9 Consensus size: 18
45765482 AAAATGTGAG
*
45765492 AAATGATGTTCACATTTT
1 AAATGATGTTCACATTTC
*
45765510 AAATGATGTTCAGATTTC
1 AAATGATGTTCACATTTC
45765528 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
*
45765546 AAATGATGTTTACATT
1 AAATGATGTTCACATT
45765562 GATGGAAACA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 48 1.00
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.41
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:45766082 original size:72 final size:72
Alignment explanation
Indices: 45765987--45766225 Score: 374
Period size: 72 Copynumber: 3.3 Consensus size: 72
45765977 CAATGCTAAA
*
45765987 CTAGTTTTATCAATAGTTATTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
45766052 GTGTAAT
66 GTGTAAT
* * *
45766059 CTAGTTTTATCAATGGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATATTTTACTTATTTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
45766124 GTGTAAT
66 GTGTAAT
* * *
45766131 CTAGTTTTATCAATAGTTGTTTATGTTTGATTTTTGGATATTAAATTTATGTTCTACTTATGTAT
1 CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
* *
45766196 ACT-AAAT
66 -GTGTAAT
45766203 -TAGTTTTATCAATAGTTGTTTAT
1 CTAGTTTTATCAATAGTTGTTTAT
45766226 ATATGATTTT
Statistics
Matches: 154, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
71 23 0.15
72 130 0.84
73 1 0.01
ACGTcount: A:0.25, C:0.05, G:0.15, T:0.55
Consensus pattern (72 bp):
CTAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
GTGTAAT
Found at i:45778077 original size:40 final size:40
Alignment explanation
Indices: 45778025--45778168 Score: 152
Period size: 40 Copynumber: 3.6 Consensus size: 40
45778015 TAACTCATAC
* *
45778025 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
45778065 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
45778105 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
45778146 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
45778169 CAGCATTCAA
Statistics
Matches: 90, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
39 9 0.10
40 70 0.78
41 11 0.12
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:45781494 original size:29 final size:29
Alignment explanation
Indices: 45781462--45781676 Score: 150
Period size: 29 Copynumber: 7.4 Consensus size: 29
45781452 GGTCGTCATC
* *
45781462 ATCCTTTTTCATAATTGATAGTCGACGCT
1 ATCCCTTTTCATAATTGATAGCCGACGCT
* *
45781491 ATCCCTTTTCA-CATTCGATAGCCGAAGCT
1 ATCCCTTTTCATAATT-GATAGCCGACGCT
* * * * *
45781520 ATCCCTTTTCAT-ATTCAATGGTCGTCGCC
1 ATCCCTTTTCATAATT-GATAGCCGACGCT
* * * * * *
45781549 ATCCCTTTTCATAGTTGATGGTCGTCACC
1 ATCCCTTTTCATAATTGATAGCCGACGCT
* * * *
45781578 ATCCCTTTTCGTAATCGATAGCTGAAGCT
1 ATCCCTTTTCATAATTGATAGCCGACGCT
* ** *
45781607 ATCCCTTTTCATAGTCAATAGCCGAAGCT
1 ATCCCTTTTCATAATTGATAGCCGACGCT
45781636 ATCCCTTTTCAT-ATTCGATAGCCGAAC-CT
1 ATCCCTTTTCATAATT-GATAGCCG-ACGCT
*
45781665 ATCCTTTTTCAT
1 ATCCCTTTTCAT
45781677 TATCTGAGGT
Statistics
Matches: 149, Mismatches: 32, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
28 4 0.03
29 142 0.95
30 3 0.02
ACGTcount: A:0.22, C:0.27, G:0.13, T:0.37
Consensus pattern (29 bp):
ATCCCTTTTCATAATTGATAGCCGACGCT
Found at i:45781554 original size:58 final size:58
Alignment explanation
Indices: 45781462--45781676 Score: 179
Period size: 58 Copynumber: 3.7 Consensus size: 58
45781452 GGTCGTCATC
* * *
45781462 ATCCTTTTTCATAATT-GATAGTCGACGCTATCCCTTTTCACATTCGATAGCCGAAGCT
1 ATCCCTTTTCAT-ATTCAATAGTCGACGCTATCCCTTTTCATATTCGATAGCCGAAGCT
* * * * * * *
45781520 ATCCCTTTTCATATTCAATGGTCGTCGCCATCCCTTTTCATAGTT-GATGGTCGTCA-CC
1 ATCCCTTTTCATATTCAATAGTCGACGCTATCCCTTTTCATA-TTCGATAGCCG-AAGCT
* * * * * *
45781578 ATCCCTTTTCGTAATCGATAG-CTGAAGCTATCCCTTTTCATAGTCAATAGCCGAAGCT
1 ATCCCTTTTCATATTCAATAGTC-GACGCTATCCCTTTTCATATTCGATAGCCGAAGCT
* * *
45781636 ATCCCTTTTCATATTCGATAGCCGAAC-CTATCCTTTTTCAT
1 ATCCCTTTTCATATTCAATAGTCG-ACGCTATCCCTTTTCAT
45781677 TATCTGAGGT
Statistics
Matches: 122, Mismatches: 27, Indels: 16
0.74 0.16 0.10
Matches are distributed among these distances:
57 6 0.05
58 111 0.91
59 5 0.04
ACGTcount: A:0.22, C:0.27, G:0.13, T:0.37
Consensus pattern (58 bp):
ATCCCTTTTCATATTCAATAGTCGACGCTATCCCTTTTCATATTCGATAGCCGAAGCT
Found at i:45781559 original size:87 final size:86
Alignment explanation
Indices: 45781450--45781675 Score: 240
Period size: 87 Copynumber: 2.6 Consensus size: 86
45781440 TCATTAACCG
** * *
45781450 ATGGTCGTCATCATCCTTTTTCATAATTGATAGTCGACGCTATCCCTTTTCACATTCGATAGCCG
1 ATGGTCGTCGCCATCCCTTTTCATAATTGATAGTCGAC-CTATCCCTTTTCACAATCGATAGCCG
*
45781515 AAGCTATCCCTTTTCATATTCA
65 AAGCTATCCCTTTTCATAGTCA
* * ** *
45781537 ATGGTCGTCGCCATCCCTTTTCATAGTTGATGGTCGTCACC-ATCCCTTTTCGTAATCGATAGCT
1 ATGGTCGTCGCCATCCCTTTTCATAATTGATAGTCG--ACCTATCCCTTTTCACAATCGATAGCC
45781601 GAAGCTATCCCTTTTCATAGTCA
64 GAAGCTATCCCTTTTCATAGTCA
* * ** * * *
45781624 ATAGCCGAAGCTATCCCTTTTCAT-ATTCGATAGCCGAACCTATCCTTTTTCA
1 ATGGTCGTCGCCATCCCTTTTCATAATT-GATAGTCG-ACCTATCCCTTTTCA
45781676 TTATCTGAGG
Statistics
Matches: 114, Mismatches: 21, Indels: 8
0.80 0.15 0.06
Matches are distributed among these distances:
86 5 0.04
87 106 0.93
88 1 0.01
89 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.14, T:0.36
Consensus pattern (86 bp):
ATGGTCGTCGCCATCCCTTTTCATAATTGATAGTCGACCTATCCCTTTTCACAATCGATAGCCGA
AGCTATCCCTTTTCATAGTCA
Found at i:45793058 original size:9 final size:9
Alignment explanation
Indices: 45793043--45793114 Score: 55
Period size: 9 Copynumber: 8.4 Consensus size: 9
45793033 TATACTTAGG
45793043 TATTATAT-
1 TATTATATA
45793051 TA-TATATA
1 TATTATATA
* *
45793059 TTTTTTATA
1 TATTATATA
*
45793068 TGTTATATA
1 TATTATATA
*
45793077 TACTTTTA-A
1 TA-TTATATA
45793086 TA-T-TATA
1 TATTATATA
45793093 TATTATATA
1 TATTATATA
*
45793102 TATCATATA
1 TATTATATA
45793111 TATT
1 TATT
45793115 TTTAATGTTG
Statistics
Matches: 50, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
6 2 0.04
7 9 0.18
8 4 0.08
9 31 0.62
10 4 0.08
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (9 bp):
TATTATATA
Found at i:45793066 original size:18 final size:18
Alignment explanation
Indices: 45793045--45793117 Score: 69
Period size: 20 Copynumber: 4.1 Consensus size: 18
45793035 TACTTAGGTA
45793045 TTATATTATATATATTTT
1 TTATATTATATATATTTT
*
45793063 TTATATGTTATATATACTTT
1 TTATA--TTATATATATTTT
* *
45793083 TAATA-T-TATATATTAT
1 TTATATTATATATATTTT
* *
45793099 ATATATCATATATATTTT
1 TTATATTATATATATTTT
45793117 T
1 T
45793118 AATGTTGTAT
Statistics
Matches: 42, Mismatches: 9, Indels: 8
0.71 0.15 0.14
Matches are distributed among these distances:
16 11 0.26
17 1 0.02
18 14 0.33
20 16 0.38
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (18 bp):
TTATATTATATATATTTT
Found at i:45793094 original size:20 final size:18
Alignment explanation
Indices: 45793047--45793148 Score: 82
Period size: 18 Copynumber: 5.5 Consensus size: 18
45793037 CTTAGGTATT
45793047 ATATTATATATATTTTTTA
1 ATATTATATATA-TTTTTA
* *
45793066 TATGTTATATATACTTTTA
1 -ATATTATATATATTTTTA
* *
45793085 ATATTATATAT-TATAT-
1 ATATTATATATATTTTTA
*
45793101 ATATCATATATATTTTTA
1 ATATTATATATATTTTTA
* *
45793119 ATGTTGTATTATTATGTTTTA
1 ATATTATA-TA-TAT-TTTTA
45793140 ATATTATAT
1 ATATTATAT
45793149 TATGTATATA
Statistics
Matches: 63, Mismatches: 14, Indels: 10
0.72 0.16 0.11
Matches are distributed among these distances:
16 10 0.16
17 5 0.08
18 15 0.24
19 7 0.11
20 15 0.24
21 11 0.17
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (18 bp):
ATATTATATATATTTTTA
Found at i:45793102 original size:34 final size:32
Alignment explanation
Indices: 45793055--45793253 Score: 96
Period size: 34 Copynumber: 5.7 Consensus size: 32
45793045 TTATATTATA
* *
45793055 TATATTTTTTATATGTTATATATACTTTTAATAT
1 TATATATTATATAT-TTATATATA-TTTTAATAT
* *
45793089 TATATATTATATATATCATATATATTTTTAATGT
1 TATATATTATATAT-TTATATATA-TTTTAATAT
* *
45793123 TGTATTATTATGT-TTTAATATTATATTATGTATATAT
1 TATA-TATTATATATTT-ATA-TATATT-T-TA-ATAT
* * *
45793160 TTTCATATTATATTATGTACATATATTTTCTAATAT
1 TAT-ATATTATA-TATTTATATATA-TTT-TAATAT
* * * *
45793196 TTTTTATATATATTATCTTGTATATATTTTGATAT
1 TATATAT-TATA-TAT-TTATATATATTTTAATAT
*
45793231 TAT-TAGTTATATATTTTTATATA
1 TATATA-TTATATATTTATATATA
45793254 CTATTTCGTG
Statistics
Matches: 130, Mismatches: 22, Indels: 28
0.72 0.12 0.16
Matches are distributed among these distances:
32 8 0.06
33 4 0.03
34 43 0.33
35 23 0.18
36 20 0.15
37 24 0.18
38 6 0.05
39 2 0.02
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (32 bp):
TATATATTATATATTTATATATATTTTAATAT
Found at i:45793167 original size:24 final size:25
Alignment explanation
Indices: 45793135--45793189 Score: 85
Period size: 24 Copynumber: 2.2 Consensus size: 25
45793125 TATTATTATG
*
45793135 TTTTAATATTATATTATGT-ATATA
1 TTTTCATATTATATTATGTAATATA
45793159 TTTTCATATTATATTATGTACATATA
1 TTTTCATATTATATTATGTA-ATATA
45793185 TTTTC
1 TTTTC
45793190 TAATATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 18 0.64
26 10 0.36
ACGTcount: A:0.33, C:0.05, G:0.04, T:0.58
Consensus pattern (25 bp):
TTTTCATATTATATTATGTAATATA
Done.