Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 7 of 161
Found at i:2173334 original size:63 final size:59
Alignment explanation
Indices: 2173210--2173351 Score: 151
Period size: 63 Copynumber: 2.3 Consensus size: 59
2173200 TTTGATTTCA
* *
2173210 TACAACATTATTACATGTCTGAATATTTTAGTTAAGTCTTTTAATTGTGTCCTATTGTG
1 TACAACATTATTACATGTCTGAATATTTTAGTTAAGTCTATTAATGGTGTCCTATTGTG
* * * *
2173269 TACAACATTATTACATGTCTGATTGTTTAGTTGTTCTAAGTCTATTAATGGTGTCTTAGTT-TG
1 TACAACATTATTACATGTCTGAATATTT--TAG-T-TAAGTCTATTAATGGTGTCCTA-TTGTG
* * *
2173332 TACCACATTAATACTTGTCT
1 TACAACATTATTACATGTCT
2173352 AAGTTAGATT
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
59 26 0.38
61 2 0.03
62 1 0.01
63 38 0.55
64 2 0.03
ACGTcount: A:0.26, C:0.13, G:0.14, T:0.46
Consensus pattern (59 bp):
TACAACATTATTACATGTCTGAATATTTTAGTTAAGTCTATTAATGGTGTCCTATTGTG
Found at i:2184621 original size:32 final size:32
Alignment explanation
Indices: 2184580--2184659 Score: 144
Period size: 32 Copynumber: 2.5 Consensus size: 32
2184570 TTTGAAGAGT
*
2184580 CTTT-GGTGTGAACACTTGGACTTGGACGGTC
1 CTTTGGGTGTGAACACTTGGACTTAGACGGTC
2184611 CTTTGGGTGTGAACACTTGGACTTAGACGGTC
1 CTTTGGGTGTGAACACTTGGACTTAGACGGTC
2184643 CTTTGGGTGTGAACACT
1 CTTTGGGTGTGAACACT
2184660 AGGAAGTGAA
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
31 4 0.09
32 43 0.91
ACGTcount: A:0.17, C:0.19, G:0.31, T:0.33
Consensus pattern (32 bp):
CTTTGGGTGTGAACACTTGGACTTAGACGGTC
Found at i:2184675 original size:32 final size:31
Alignment explanation
Indices: 2184580--2184688 Score: 114
Period size: 32 Copynumber: 3.5 Consensus size: 31
2184570 TTTGAAGAGT
*
2184580 CTTTGGTGTGAACACTTGG-ACTTGGACGGTC
1 CTTTGGTGTGAACACTTGGAAC-TGAACGGTC
*
2184611 CTTTGGGTGTGAACACTTGG-ACTTAGACGGTC
1 CTTT-GGTGTGAACACTTGGAACTGA-ACGGTC
* * *
2184643 CTTTGGGTGTGAACACTAGGAAGTGAATGGTC
1 CTTT-GGTGTGAACACTTGGAACTGAACGGTC
*
2184675 CATTGGTGTGAACA
1 CTTTGGTGTGAACA
2184689 AAAGGACCTG
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
31 15 0.22
32 50 0.74
33 3 0.04
ACGTcount: A:0.21, C:0.17, G:0.32, T:0.30
Consensus pattern (31 bp):
CTTTGGTGTGAACACTTGGAACTGAACGGTC
Found at i:2188680 original size:32 final size:31
Alignment explanation
Indices: 2188614--2188690 Score: 91
Period size: 32 Copynumber: 2.5 Consensus size: 31
2188604 CAGCTACTTT
* * * **
2188614 TGTTCACACCAATGGACCGTCCAATTCCTGG
1 TGTTCACACCAAAGGACAGTCCAAATCCAAG
2188645 TGTTCACACCCAAAGGACAGTCCAAATCCAAG
1 TGTTCACA-CCAAAGGACAGTCCAAATCCAAG
*
2188677 TGTTCGCACCAAAG
1 TGTTCACACCAAAG
2188691 ACACTTCAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
31 14 0.36
32 25 0.64
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.21
Consensus pattern (31 bp):
TGTTCACACCAAAGGACAGTCCAAATCCAAG
Found at i:2192385 original size:2 final size:2
Alignment explanation
Indices: 2192378--2192407 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
2192368 CATTCCGAAG
*
2192378 TA TA TA TA TA TA CA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2192408 CATAAGTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:2192942 original size:27 final size:28
Alignment explanation
Indices: 2192858--2192955 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
2192848 CATGAGATTG
* * * *
2192858 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
2192887 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
2192915 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
2192942 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
2192956 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:2192966 original size:27 final size:27
Alignment explanation
Indices: 2192886--2192968 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
2192876 TAAATTGTAC
* *
2192886 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
2192914 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
2192941 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
2192968 A
1 A
2192969 CTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:2209079 original size:14 final size:15
Alignment explanation
Indices: 2209053--2209082 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
2209043 GGAAAAAAGG
2209053 ATCTAGTTGAACCGA
1 ATCTAGTTGAACCGA
2209068 ATCTAG-TGAACCGA
1 ATCTAGTTGAACCGA
2209082 A
1 A
2209083 CCAGCCACCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (15 bp):
ATCTAGTTGAACCGA
Found at i:2219043 original size:40 final size:40
Alignment explanation
Indices: 2218954--2219217 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
2218944 TTGAATGATG
* *
2218954 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
2218993 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
2219033 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
2219072 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
2219112 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
2219152 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
2219193 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
2219218 AACGAGGAGC
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
39 53 0.26
40 143 0.69
41 10 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:2219235 original size:120 final size:118
Alignment explanation
Indices: 2218954--2219250 Score: 338
Period size: 119 Copynumber: 2.5 Consensus size: 118
2218944 TTGAATGATG
* *
2218954 TCCGGGCTAAGTCCCGAAGGC-TTGTG--CTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGCATT-TGAAC-GAGTGACTAA-ATCCGG-TTAA-ATCCCGAAGGC
* *
2219014 ATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
61 ATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
* ** * *
2219072 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTT
* *
2219137 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
65 GTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAATTACTA-AA
* * *
2219193 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
2219251 TACGTGATTT
Statistics
Matches: 153, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
118 23 0.15
119 64 0.42
120 64 0.42
121 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (118 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTG
TGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
Found at i:2221412 original size:57 final size:57
Alignment explanation
Indices: 2221316--2221427 Score: 170
Period size: 57 Copynumber: 2.0 Consensus size: 57
2221306 GAACATGCTG
* *
2221316 AGCACCTGAGACTAGTGTTGCAAATTTTGTGGGAGAAGCACTTATATGCTAAGTTCA
1 AGCACCTGAGACTAGTGTTCCAAATTTTGCGGGAGAAGCACTTATATGCTAAGTTCA
* * * *
2221373 AGCATCTGAGGCTAGTGTTCCAAATTTTGCGGGATAAGCAGTTATATGCTAAGTT
1 AGCACCTGAGACTAGTGTTCCAAATTTTGCGGGAGAAGCACTTATATGCTAAGTT
2221428 TAGTAAGTGT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (57 bp):
AGCACCTGAGACTAGTGTTCCAAATTTTGCGGGAGAAGCACTTATATGCTAAGTTCA
Found at i:2224837 original size:79 final size:81
Alignment explanation
Indices: 2224701--2224885 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 81
2224691 TTGAATGATG
*
2224701 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
2224765 TGTGCGAGA-TACTA-A
66 TGTGCGA-ATTACTATA
* * * **
2224780 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
2224842 TTTGTGCGAATTACTATA
64 TTTGTGCGAATTACTATA
* *
2224860 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
2224886 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
78 2 0.02
79 57 0.62
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAATTACTATA
Found at i:2224899 original size:40 final size:39
Alignment explanation
Indices: 2224702--2224885 Score: 189
Period size: 40 Copynumber: 4.6 Consensus size: 39
2224692 TGAATGATGT
* * *
2224702 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ACTATAA
* *
2224742 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTATA-A
2224782 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAA
* *
2224820 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTATAA
*
2224861 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
2224886 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 10, Indels: 18
0.82 0.07 0.12
Matches are distributed among these distances:
39 35 0.28
40 78 0.62
41 12 0.10
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAA
Found at i:2224907 original size:79 final size:79
Alignment explanation
Indices: 2224702--2224918 Score: 194
Period size: 79 Copynumber: 2.7 Consensus size: 79
2224692 TGAATGATGT
** * * * **
2224702 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAA-ATCCCGAAGGCATT
*
2224765 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** * *
2224782 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
2224847 GCGA-ATTACT-ATAA
66 GCGAGA-TACTAAT-A
* * *
2224861 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
2224919 TACGTGATTT
Statistics
Matches: 116, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
78 4 0.03
79 70 0.60
80 42 0.36
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:2226870 original size:37 final size:37
Alignment explanation
Indices: 2226820--2226898 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
2226810 TTATTACGAA
* * *
2226820 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
2226857 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
2226894 GTCTT
1 GTCTT
2226899 TAGAGCTCGA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:2227094 original size:47 final size:47
Alignment explanation
Indices: 2227016--2227357 Score: 486
Period size: 47 Copynumber: 7.2 Consensus size: 47
2227006 CCCTTCGGGA
* * * * * **
2227016 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
2227063 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
** *
2227110 CTTATCACGCATATACACTTTCACATTCATCACATTGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
2227157 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
2227206 CTTATCGCACATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
*
2227253 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAAGC
*
2227302 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
2227349 CTTATCACA
1 CTTATCACA
2227358 ATTTAGAATT
Statistics
Matches: 265, Mismatches: 26, Indels: 8
0.89 0.09 0.03
Matches are distributed among these distances:
47 179 0.68
49 86 0.32
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
Found at i:2227211 original size:96 final size:96
Alignment explanation
Indices: 2227016--2227357 Score: 517
Period size: 96 Copynumber: 3.6 Consensus size: 96
2227006 CCCTTCGGGA
** * * * * ** * *
2227016 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
*
2227079 ACTTTCACATTCATCACATCGGCCATTAAGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
2227110 CTTATCACGCATATACACTTTCACATTCATCACATTGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
*
2227175 ACTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
2227206 CTTATCGCACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
2227271 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
2227302 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACA
2227358 ATTTAGAATT
Statistics
Matches: 227, Mismatches: 19, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
94 45 0.20
96 182 0.80
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (96 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:2227232 original size:143 final size:144
Alignment explanation
Indices: 2227016--2227357 Score: 514
Period size: 143 Copynumber: 2.4 Consensus size: 144
2227006 CCCTTCGGGA
* * * * * * * *
2227016 CTTATCACAT-T-TATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATAC
*
2227079 ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCAC-GCATATACACTTTCACATTCATCAC
66 ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACAACATATACACTTTCACATTCATCAC
*
2227143 ATTGGCCATTAAGC
131 ATCGGCCATTAAGC
* *
2227157 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCGCACATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATAC
*
2227222 ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACA-ACATATACACTTTCACATTCATCA
*
2227287 CATCGGCCATTAGGC
130 CATCGGCCATTAAGC
2227302 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
2227358 ATTTAGAATT
Statistics
Matches: 181, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
141 10 0.06
142 1 0.01
143 127 0.70
145 43 0.24
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (144 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATAC
ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACAACATATACACTTTCACATTCATCAC
ATCGGCCATTAAGC
Found at i:2228807 original size:13 final size:13
Alignment explanation
Indices: 2228789--2228813 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2228779 TACTAAATTT
2228789 TCATGGATTCAAG
1 TCATGGATTCAAG
2228802 TCATGGATTCAA
1 TCATGGATTCAA
2228814 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:2239373 original size:13 final size:14
Alignment explanation
Indices: 2239355--2239388 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
2239345 AATGAAATCT
2239355 AAAAAAAA-TTGTG
1 AAAAAAAATTTGTG
2239368 AAAAAAAATTTGTG
1 AAAAAAAATTTGTG
2239382 AAAAAAA
1 AAAAAAA
2239389 GAAATCAGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.68, C:0.00, G:0.12, T:0.21
Consensus pattern (14 bp):
AAAAAAAATTTGTG
Found at i:2242335 original size:38 final size:39
Alignment explanation
Indices: 2242246--2242337 Score: 150
Period size: 39 Copynumber: 2.4 Consensus size: 39
2242236 AGTCTGAGTC
* * *
2242246 TTTAATTATGTCATAATTTGAACATCATTAATATGTGTT
1 TTTAATTATGTCATAATTTGAACAACATTAATAAGTGGT
2242285 TTTAATTATGTCATAATTTGAACAACATTAATAAG-GGT
1 TTTAATTATGTCATAATTTGAACAACATTAATAAGTGGT
2242323 TTTAATTATGTCATA
1 TTTAATTATGTCATA
2242338 GTTTAGGACA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
38 17 0.34
39 33 0.66
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.46
Consensus pattern (39 bp):
TTTAATTATGTCATAATTTGAACAACATTAATAAGTGGT
Found at i:2242668 original size:26 final size:26
Alignment explanation
Indices: 2242639--2242693 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
2242629 TTTCAAGCTC
2242639 CATCCATCAAACCAAATTCATGTATT
1 CATCCATCAAACCAAATTCATGTATT
2242665 CATCCATCAAACCAAATTCATGTATT
1 CATCCATCAAACCAAATTCATGTATT
2242691 CAT
1 CAT
2242694 TCAAGTCATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.27, G:0.04, T:0.31
Consensus pattern (26 bp):
CATCCATCAAACCAAATTCATGTATT
Found at i:2247166 original size:51 final size:52
Alignment explanation
Indices: 2247099--2247198 Score: 166
Period size: 51 Copynumber: 1.9 Consensus size: 52
2247089 GAAATATGAC
*
2247099 TTAACACATGCTTTGATGCTGTCCGAATTAAGACACACTTAATAAACATAAA
1 TTAACACATGCATTGATGCTGTCCGAATTAAGACACACTTAATAAACATAAA
* *
2247151 TTAA-ACATGCATTGATGCTGTCTGAATTAGGACACACTTAATAAACAT
1 TTAACACATGCATTGATGCTGTCCGAATTAAGACACACTTAATAAACAT
2247199 GAATCAAAGC
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
51 41 0.91
52 4 0.09
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.30
Consensus pattern (52 bp):
TTAACACATGCATTGATGCTGTCCGAATTAAGACACACTTAATAAACATAAA
Found at i:2249604 original size:197 final size:196
Alignment explanation
Indices: 2249269--2249631 Score: 618
Period size: 197 Copynumber: 1.8 Consensus size: 196
2249259 TTATCAACTT
* * *
2249269 TACGTTTTCTTTGTTATTCCTATCTTTCTCTGAAATTAGCCTTTTGTTAAACGAAACCCTTACTA
1 TACGTTTTCTTTGTTAATCCTATCTTTCTCTGAAATCAGCCTTTCGTTAAACGAAACCCTTACTA
* *
2249334 CTTAATTTTACCATCGGGAACACAAGCGACTCGATCCAACCATCGAATACGAGATCGCATCATTT
66 CTTAATTTTACCATCGGAAACACAAGCGACTCAATCCAACCATCGAATACGAGATCGCATCATTT
2249399 GGTATCAGAGCTAGTTAAAATGAAGTAAGTACTATTGTTTATCACTCCCAGGGTTGAACTTTAAA
131 GGTATCAGAGCTAGTTAAAATGAAGTAAGTAC-ATTGTTTATCACTCCCAGGGTTGAACTTTAAA
2249464 AA
195 AA
*
2249466 TACGTTTTCTTTGTTAATCCTATCTTTCTTTGAAATCAGCCTTTCGTTAAACGAAACCCTTACTA
1 TACGTTTTCTTTGTTAATCCTATCTTTCTCTGAAATCAGCCTTTCGTTAAACGAAACCCTTACTA
* *
2249531 CTTAATTTTACCATCGGAAACACAAGCGACTCAATTCAACCATTGAATACGAGATCGCATCATTT
66 CTTAATTTTACCATCGGAAACACAAGCGACTCAATCCAACCATCGAATACGAGATCGCATCATTT
* * *
2249596 GGTATCAGAGCTATTTAGAATTAAGTAAGTACATTG
131 GGTATCAGAGCTAGTTAAAATGAAGTAAGTACATTG
2249632 CAAATACAAT
Statistics
Matches: 155, Mismatches: 11, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
196 4 0.03
197 151 0.97
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (196 bp):
TACGTTTTCTTTGTTAATCCTATCTTTCTCTGAAATCAGCCTTTCGTTAAACGAAACCCTTACTA
CTTAATTTTACCATCGGAAACACAAGCGACTCAATCCAACCATCGAATACGAGATCGCATCATTT
GGTATCAGAGCTAGTTAAAATGAAGTAAGTACATTGTTTATCACTCCCAGGGTTGAACTTTAAAA
A
Found at i:2252344 original size:25 final size:25
Alignment explanation
Indices: 2252310--2252368 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
2252300 TTGACGAGAC
*
2252310 GCATAAGCAATCACCTTACCCTCCT
1 GCATCAGCAATCACCTTACCCTCCT
* *
2252335 GCATCAGCAATCACCTTACCTTCTT
1 GCATCAGCAATCACCTTACCCTCCT
*
2252360 GCGTCAGCA
1 GCATCAGCA
2252369 CACAACCCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.25, C:0.37, G:0.12, T:0.25
Consensus pattern (25 bp):
GCATCAGCAATCACCTTACCCTCCT
Found at i:2256501 original size:27 final size:27
Alignment explanation
Indices: 2256471--2256718 Score: 331
Period size: 27 Copynumber: 9.2 Consensus size: 27
2256461 TATAACAGTT
*
2256471 ATTTTACCCTTTGGGGGTATTTTGGTA
1 ATTTTACCCTTTGAGGGTATTTTGGTA
* *
2256498 ATTTTACCCTTTCAGGGTATTTCGGTA
1 ATTTTACCCTTTGAGGGTATTTTGGTA
* *
2256525 ATTTTTCCCTTCGAGGGTATTTTGGTA
1 ATTTTACCCTTTGAGGGTATTTTGGTA
2256552 ATTTTACCCTTT-ATGGGTATTTTGGTA
1 ATTTTACCCTTTGA-GGGTATTTTGGTA
*
2256579 ATTTTACCCTTTGAGGGTATTTTGATA
1 ATTTTACCCTTTGAGGGTATTTTGGTA
* *
2256606 ATTTTACCCTTTGAGGGTATTTCGATA
1 ATTTTACCCTTTGAGGGTATTTTGGTA
**
2256633 ATTTTACCCTTCAAGGGTA-TTTGGTA
1 ATTTTACCCTTTGAGGGTATTTTGGTA
* *
2256659 CTTTTA-CCTTTCGAGGGTATTTCGGTA
1 ATTTTACCCTTT-GAGGGTATTTTGGTA
* *
2256686 ATTTTACCTTTTGAGGGTATTTTGATA
1 ATTTTACCCTTTGAGGGTATTTTGGTA
2256713 ATTTTA
1 ATTTTA
2256719 GCCATCAAGT
Statistics
Matches: 193, Mismatches: 23, Indels: 10
0.85 0.10 0.04
Matches are distributed among these distances:
25 4 0.02
26 17 0.09
27 167 0.87
28 5 0.03
ACGTcount: A:0.19, C:0.13, G:0.20, T:0.48
Consensus pattern (27 bp):
ATTTTACCCTTTGAGGGTATTTTGGTA
Found at i:2262991 original size:18 final size:18
Alignment explanation
Indices: 2262968--2263002 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2262958 GAGTAAGGGA
*
2262968 AAAAAATGATCAAGAAAG
1 AAAAAATGATAAAGAAAG
2262986 AAAAAATGATAAAGAAA
1 AAAAAATGATAAAGAAA
2263003 AAGAAAGTGA
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:0.03, G:0.14, T:0.11
Consensus pattern (18 bp):
AAAAAATGATAAAGAAAG
Found at i:2269562 original size:12 final size:12
Alignment explanation
Indices: 2269541--2269573 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
2269531 AGAACATAAA
2269541 GAAA-ATAGATG
1 GAAAGATAGATG
2269552 GAAAGATAGATG
1 GAAAGATAGATG
2269564 GAAAGATAGA
1 GAAAGATAGA
2269574 ATGGGGTATC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.19
12 17 0.81
ACGTcount: A:0.55, C:0.00, G:0.30, T:0.15
Consensus pattern (12 bp):
GAAAGATAGATG
Found at i:2277498 original size:27 final size:27
Alignment explanation
Indices: 2277468--2277645 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
2277458 ATATTGAGTC
* * * *
2277468 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
2277495 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
2277522 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
2277550 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
2277577 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
2277604 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
2277631 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
2277646 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:2277607 original size:82 final size:81
Alignment explanation
Indices: 2277489--2277644 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
2277479 TGCTATATAA
* *
2277489 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
2277554 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
2277571 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
2277635 CACTTAGTGC
65 CACTTAGTGC
2277645 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:2285687 original size:27 final size:27
Alignment explanation
Indices: 2285657--2285834 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
2285647 ATATTGAGTC
* * * *
2285657 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
2285684 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
2285711 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
2285739 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
2285766 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
2285793 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
2285820 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
2285835 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:2285796 original size:82 final size:81
Alignment explanation
Indices: 2285678--2285833 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
2285668 TGCTATATAA
* *
2285678 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
2285743 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
2285760 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
2285824 CACTTAGTGC
65 CACTTAGTGC
2285834 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:2289614 original size:17 final size:18
Alignment explanation
Indices: 2289576--2289623 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
2289566 GTGATCAAGA
*
2289576 AAAGAAAAATGAAAAAGT
1 AAAGATAAATGAAAAAGT
*
2289594 AAAGGTAAATGAAAAAG-
1 AAAGATAAATGAAAAAGT
2289611 AAAGATAAATGAA
1 AAAGATAAATGAA
2289624 CTCAGAAAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 12 0.44
18 15 0.56
ACGTcount: A:0.69, C:0.00, G:0.19, T:0.12
Consensus pattern (18 bp):
AAAGATAAATGAAAAAGT
Found at i:2295214 original size:40 final size:40
Alignment explanation
Indices: 2295163--2296274 Score: 1994
Period size: 40 Copynumber: 27.8 Consensus size: 40
2295153 CATTTGAATG
2295163 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
2295203 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
2295243 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
2295283 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
2295323 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
2295363 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
2295403 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
2295443 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
2295483 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
2295523 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
2295563 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
2295603 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
2295643 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
2295683 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
2295723 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
2295763 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
2295803 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
2295843 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
2295883 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
*
2295923 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
* * * *
2295963 ATATCCGGGTTAAGACCTGAAGGCATTTGTGTGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
* * *
2296003 ATATCCGGGTTAAGACTCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
* * *
2296043 ATATCCGGGCTAAGACCTGAAGGCAATTGTGC-AAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA-CTGAT
*
2296083 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
2296123 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
* *
2296163 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA-CTGAT
* * ** *
2296203 ATATCCGAGCTAAGACCCGAAGGCATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
* * *
2296243 ATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
2296275 TTGTGGTTAT
Statistics
Matches: 1040, Mismatches: 28, Indels: 8
0.97 0.03 0.01
Matches are distributed among these distances:
39 4 0.00
40 1033 0.99
41 3 0.00
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAACTGAT
Found at i:2299535 original size:38 final size:39
Alignment explanation
Indices: 2299470--2299576 Score: 99
Period size: 39 Copynumber: 2.8 Consensus size: 39
2299460 AGACAAACAT
* * * * ** *
2299470 TAAAGATGTCAGAATTAAGACACAATTAAA-ACATGTAC
1 TAAAGATGTTAAAACTAAGACATAATTAAAGACACATAA
*
2299508 TAAAGATGTTAAAACTAGGACATAATTAAAGACACATAA
1 TAAAGATGTTAAAACTAAGACATAATTAAAGACACATAA
* * * *
2299547 TAAAGATATTCACACTATGACATAATTAAA
1 TAAAGATGTTAAAACTAAGACATAATTAAA
2299577 CTCATATTAA
Statistics
Matches: 56, Mismatches: 12, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
38 25 0.45
39 31 0.55
ACGTcount: A:0.51, C:0.12, G:0.11, T:0.25
Consensus pattern (39 bp):
TAAAGATGTTAAAACTAAGACATAATTAAAGACACATAA
Found at i:2299789 original size:36 final size:36
Alignment explanation
Indices: 2299740--2299809 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
2299730 GAAGTGCATG
* * *
2299740 CCCAAGCTTGATCAATAAGCCCCATAATAGCTTCTC
1 CCCAAACTCGATCAATAAGACCCATAATAGCTTCTC
* * *
2299776 CCCAAACTCGATCAATGAGACCCGTAATGGCTTC
1 CCCAAACTCGATCAATAAGACCCATAATAGCTTC
2299810 CTTGAACCTC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.30, C:0.33, G:0.14, T:0.23
Consensus pattern (36 bp):
CCCAAACTCGATCAATAAGACCCATAATAGCTTCTC
Found at i:2301727 original size:52 final size:51
Alignment explanation
Indices: 2301670--2301801 Score: 142
Period size: 50 Copynumber: 2.6 Consensus size: 51
2301660 ATGAACAAAT
* * * *
2301670 GAGTTACTTAATGCATGACTTAATTTAATGAGGCAAAATTTAATTAACATGG
1 GAGTTACATAATGCATGACTTAATTTAATGAGGC-AAACTTAACTAACATGA
* * * *
2301722 GAGTTACATAATGCATG-TTATAATTT-GTGATGCAAACTTAACTAGCATGA
1 GAGTTACATAATGCATGACT-TAATTTAATGAGGCAAACTTAACTAACATGA
* *
2301772 GAGTTACATAATGCATGACTTTATTAAATG
1 GAGTTACATAATGCATGACTTAATTTAATG
2301802 CAAAACACAT
Statistics
Matches: 65, Mismatches: 12, Indels: 7
0.77 0.14 0.08
Matches are distributed among these distances:
50 34 0.52
51 9 0.14
52 22 0.34
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (51 bp):
GAGTTACATAATGCATGACTTAATTTAATGAGGCAAACTTAACTAACATGA
Found at i:2302628 original size:39 final size:38
Alignment explanation
Indices: 2302585--2302733 Score: 120
Period size: 39 Copynumber: 3.8 Consensus size: 38
2302575 AGTTTGACTC
*
2302585 TTTAATTATGTCATAATTTGAACATCATTAATATGATTT
1 TTTAATTATGTCATAATTTGAACATCATTAATA-GATGT
* * * * * *
2302624 TTTAATTATTTCTTAATCTAAACAACATTAATA-AGGGT
1 TTTAATTATGTCATAATTTGAACATCATTAATAGA-TGT
* * * *
2302662 TTTAATTATGTCATAGTTTAGGACATCTTTAATACATGT
1 TTTAATTATGTCATAATTT-GAACATCATTAATAGATGT
* ** *
2302701 TTTAAGTATGTTTTAAATTTGAACATCTTTAAT
1 TTTAATTATGTCAT-AATTTGAACATCATTAAT
2302734 GTTTGTTTAA
Statistics
Matches: 85, Mismatches: 21, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
37 1 0.01
38 16 0.19
39 63 0.74
40 5 0.06
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.47
Consensus pattern (38 bp):
TTTAATTATGTCATAATTTGAACATCATTAATAGATGT
Found at i:2306371 original size:21 final size:21
Alignment explanation
Indices: 2306322--2306388 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
2306312 CCTCTTTGAA
* * *
2306322 CCATAACCAATTCGTACCAAATA
1 CCAT-ACCATTTCATACC-AATT
*
2306345 CCATACTATTTCATACCAATT
1 CCATACCATTTCATACCAATT
*
2306366 CCATACCATTTCGTACCAATT
1 CCATACCATTTCATACCAATT
2306387 CC
1 CC
2306389 CAAATACCAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
21 24 0.63
22 10 0.26
23 4 0.11
ACGTcount: A:0.34, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
CCATACCATTTCATACCAATT
Found at i:2306720 original size:17 final size:17
Alignment explanation
Indices: 2306700--2306758 Score: 56
Period size: 17 Copynumber: 3.6 Consensus size: 17
2306690 AAAAAGAGTT
2306700 CAAAAAAAATTTGAAAA
1 CAAAAAAAATTTGAAAA
2306717 CAAAAACAAA----AAAA
1 CAAAAA-AAATTTGAAAA
*
2306731 GAAAAAAAATTTGAAAGA
1 CAAAAAAAATTTGAAA-A
2306749 -AAAAAAAATT
1 CAAAAAAAATT
2306759 GTATACGGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
13 3 0.09
14 9 0.26
17 19 0.54
18 4 0.11
ACGTcount: A:0.75, C:0.05, G:0.07, T:0.14
Consensus pattern (17 bp):
CAAAAAAAATTTGAAAA
Found at i:2309746 original size:79 final size:79
Alignment explanation
Indices: 2309638--2309806 Score: 221
Period size: 79 Copynumber: 2.1 Consensus size: 79
2309628 GGACTAAGAT
* * * * *
2309638 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAGGGCATTGTGCGAGTTATTAA
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATGGTGCGAGTTACTAA
* *
2309703 AGCCGGGTTAAGTC
66 AACCGGGCTAAGTC
* ** * *
2309717 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTCCCGAAGGCATGGTGTGAGTTACTAA
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATGGTGCGAGTTACTAA
*
2309782 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
2309796 CCGAAGGCATT
1 CCGAAGGCATT
2309807 TGAACGAGGA
Statistics
Matches: 77, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
79 77 1.00
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATGGTGCGAGTTACTAA
AACCGGGCTAAGTC
Found at i:2309749 original size:40 final size:39
Alignment explanation
Indices: 2309585--2309806 Score: 203
Period size: 40 Copynumber: 5.6 Consensus size: 39
2309575 TTGAATGCTG
* * * ** * *
2309585 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGCGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
2309625 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGG-CATTGTGCGAGTTACTAAA
* *
2309665 TCCGGGTTAAGTCCCGAGGGCATTGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* **
2309704 GCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* * *
2309744 TCCGGGTTACGTCCCGAAGGCATGGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
2309783 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
2309807 TGAACGAGGA
Statistics
Matches: 153, Mismatches: 25, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
39 71 0.46
40 73 0.48
41 9 0.06
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:2309826 original size:79 final size:79
Alignment explanation
Indices: 2309660--2309841 Score: 213
Period size: 79 Copynumber: 2.3 Consensus size: 79
2309650 GTGCGAGATA
* * * * *
2309660 CTAAATCCGGGTTAAGTCCCGAGGGCATTGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGGC
1 CTAAATCCGGGTTAAGTCCCGAAGGCATGGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGC
** **
2309725 ATTCGTGCGAGTTG
66 ATTCGAACGAGGAG
* * * *
2309739 TTAAATCCGGGTTACGTCCCGAAGGCATGGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGC
1 CTAAATCCGGGTTAAGTCCCGAAGGCATGGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGC
*
2309804 ATTTGAACGAGGAG
66 ATTCGAACGAGGAG
* *
2309818 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
2309842 TACGTGAATT
Statistics
Matches: 85, Mismatches: 18, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
78 14 0.16
79 71 0.84
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (79 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATGGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGC
ATTCGAACGAGGAG
Found at i:2312115 original size:19 final size:19
Alignment explanation
Indices: 2312073--2312121 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 19
2312063 CAAATGAGAG
2312073 AAAAAGAAAAGAGCGAAAATA
1 AAAAAGAAAAGA--GAAAATA
2312094 AAAAAGAAAAGA-AAAATGA
1 AAAAAGAAAAGAGAAAAT-A
2312113 AAAAAGAAA
1 AAAAAGAAA
2312122 TAAAATTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 5 0.19
19 10 0.37
21 12 0.44
ACGTcount: A:0.78, C:0.02, G:0.16, T:0.04
Consensus pattern (19 bp):
AAAAAGAAAAGAGAAAATA
Found at i:2312133 original size:18 final size:19
Alignment explanation
Indices: 2312073--2312135 Score: 58
Period size: 18 Copynumber: 3.3 Consensus size: 19
2312063 CAAATGAGAG
2312073 AAAAAGAAAAGAGCGAAAAT-A
1 AAAAAGAAAAGA---AAAATCA
*
2312094 AAAAAGAAAAGAAAAATGA
1 AAAAAGAAAAGAAAAATCA
* *
2312113 AAAAAG-AAATAAAATTCA
1 AAAAAGAAAAGAAAAATCA
2312131 AAAAA
1 AAAAA
2312136 AGAGAATGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
18 19 0.50
19 7 0.18
21 12 0.32
ACGTcount: A:0.76, C:0.03, G:0.13, T:0.08
Consensus pattern (19 bp):
AAAAAGAAAAGAAAAATCA
Found at i:2316269 original size:21 final size:21
Alignment explanation
Indices: 2316236--2316288 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
2316226 TACCAATTTG
*
2316236 TACCAAATACCATACCATTTCA
1 TACC-AATTCCATACCATTTCA
*
2316258 TACCAATTCCATACCATTTCG
1 TACCAATTCCATACCATTTCA
2316279 TACCAATTCC
1 TACCAATTCC
2316289 CAAATACCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 25 0.86
22 4 0.14
ACGTcount: A:0.34, C:0.34, G:0.02, T:0.30
Consensus pattern (21 bp):
TACCAATTCCATACCATTTCA
Found at i:2319992 original size:40 final size:40
Alignment explanation
Indices: 2319892--2320063 Score: 206
Period size: 40 Copynumber: 4.3 Consensus size: 40
2319882 GCTCCTCGTT
* * * *
2319892 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTATCTCGCA
* *
2319932 C-AATGCCTTCGGGACATAACCCAGATTTAATAAT-TCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGT-ATCTCGCA
* *
2319971 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTATCTCGCA
* * *
2320011 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTATCTCGCA
2320051 CAAATGCCTTCGG
1 CAAATGCCTTCGG
2320064 ATCTTAGTCC
Statistics
Matches: 115, Mismatches: 13, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
39 33 0.29
40 78 0.68
41 4 0.03
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTATCTCGCA
Found at i:2319995 original size:79 final size:80
Alignment explanation
Indices: 2319892--2320063 Score: 206
Period size: 79 Copynumber: 2.2 Consensus size: 80
2319882 GCTCCTCGTT
* * *
2319892 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACATAACCCAG
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAAGGCCTTCGGGACATAACCCAG
2319956 -ATTTAATAAT-TCGCA
66 AATTT-AT-ATCTCGCA
* * * * * * *
2319971 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAAGGCCTTCGGGACATAACCCAG
*
2320036 AATTTGTATCTCGCA
66 AATTTATATCTCGCA
2320051 CAAATGCCTTCGG
1 CAAATGCCTTCGG
2320064 ATCTTAGTCC
Statistics
Matches: 78, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
79 37 0.47
80 37 0.47
81 4 0.05
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAAGGCCTTCGGGACATAACCCAG
AATTTATATCTCGCA
Found at i:2320076 original size:80 final size:79
Alignment explanation
Indices: 2319892--2320116 Score: 224
Period size: 80 Copynumber: 2.8 Consensus size: 79
2319882 GCTCCTCGTT
* * * * * *
2319892 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCAG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
2319956 ATTTAATAATTCGCA
65 ATTTAATAATTCGCA
* * *
2319971 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
*
2320036 AATTT-GT-ATCTCGCA
64 AATTTAATAAT-TCGCA
* * * * *
2320051 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
2320115 GA
63 GA
2320117 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 18, Indels: 13
0.80 0.12 0.09
Matches are distributed among these distances:
78 1 0.01
79 41 0.34
80 66 0.55
81 13 0.11
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAATTCGCA
Found at i:2320125 original size:41 final size:41
Alignment explanation
Indices: 2320048--2320125 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
2320038 TTTGTATCTC
* * *
2320048 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
2320089 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
2320126 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:2332613 original size:39 final size:40
Alignment explanation
Indices: 2332568--2332739 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
2332558 GCTCCTCGTT
* * *
2332568 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
2332608 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
2332647 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
2332687 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
2332727 CAAATGCCTTCGG
1 CAAATGCCTTCGG
2332740 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:2332668 original size:40 final size:39
Alignment explanation
Indices: 2332570--2332792 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
2332560 TCCTCGTTCA
* * * *
2332570 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
2332609 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
2332648 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
2332688 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
2332728 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
2332769 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
2332793 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:2332752 original size:80 final size:79
Alignment explanation
Indices: 2332568--2332792 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
2332558 GCTCCTCGTT
* * * * *
2332568 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
2332632 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
2332647 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
2332712 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
2332727 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
2332791 GA
63 GA
2332793 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:2332801 original size:41 final size:41
Alignment explanation
Indices: 2332724--2332801 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
2332714 TTTGTATCTC
* * *
2332724 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
2332765 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
2332802 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:2334514 original size:21 final size:20
Alignment explanation
Indices: 2334485--2334529 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
2334475 AATGAATTTA
2334485 ACATTAATTTGATAAAATTC
1 ACATTAATTTGATAAAATTC
* **
2334505 ACATTCAATTTTATTCAATTC
1 ACATT-AATTTGATAAAATTC
2334526 ACAT
1 ACAT
2334530 ATTAGGCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.40, C:0.16, G:0.02, T:0.42
Consensus pattern (20 bp):
ACATTAATTTGATAAAATTC
Found at i:2336716 original size:40 final size:40
Alignment explanation
Indices: 2336679--2336903 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
2336669 GCTACTCGTT
* *
2336679 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
2336719 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
2336759 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
2336799 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * * *
2336838 CAAATGCCTTC-GGATCTTAGTCCAGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
2336879 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
2336904 CATCATTCGA
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.20
40 116 0.71
41 13 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:2336887 original size:119 final size:120
Alignment explanation
Indices: 2336681--2336903 Score: 292
Period size: 119 Copynumber: 1.9 Consensus size: 120
2336671 TACTCGTTCA
* *
2336681 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGAT
* *
2336746 TTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
2336801 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCAG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCAG
* * *
2336863 ATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
64 ATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAACCCGGA
2336904 CATCATTCGA
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 4 0.04
119 65 0.73
120 20 0.22
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGAT
ATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:2338103 original size:56 final size:56
Alignment explanation
Indices: 2338032--2338151 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
2338022 TATTAGTTTA
*
2338032 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCGTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
2338088 TTGCCCATGCGTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCGTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
2338144 TTGCCCAT
1 TTGCCCAT
2338152 CATCCTTTGT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.23, C:0.23, G:0.10, T:0.44
Consensus pattern (56 bp):
TTGCCCATGCGTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:2356858 original size:14 final size:13
Alignment explanation
Indices: 2356836--2356888 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 13
2356826 GAATTATTAT
*
2356836 TTAATTAATTATAA
1 TTAAATAATTA-AA
2356850 TTAAATAATTAAAA
1 TTAAATAATT-AAA
2356864 TTCAAAT-ATTAAA
1 TT-AAATAATTAAA
2356877 TTAAATTAATTA
1 TTAAA-TAATTA
2356889 GTCATTATGA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
12 3 0.09
13 6 0.18
14 20 0.59
15 5 0.15
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (13 bp):
TTAAATAATTAAA
Found at i:2359986 original size:46 final size:46
Alignment explanation
Indices: 2359936--2360108 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
2359926 TGGTTGAGCA
* *
2359936 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
2359982 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
2360029 TCCGAACTCATTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
2360075 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
2360109 GGGCGGGTTA
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 59 0.57
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:2360092 original size:93 final size:93
Alignment explanation
Indices: 2359933--2360103 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
2359923 GGATGGTTGA
* * * *
2359933 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
2359998 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
2360026 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
2360091 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
2360104 ACTTAGGGCG
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:2360369 original size:19 final size:20
Alignment explanation
Indices: 2360332--2360369 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
2360322 ATAAGGTGGT
2360332 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
2360352 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
2360370 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:2361911 original size:30 final size:30
Alignment explanation
Indices: 2361877--2361939 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
2361867 ATTGAACAAG
2361877 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
*
2361907 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
2361937 CAA
1 CAA
2361940 TAACATAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.16, G:0.03, T:0.24
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:2369988 original size:47 final size:46
Alignment explanation
Indices: 2369934--2370024 Score: 164
Period size: 47 Copynumber: 2.0 Consensus size: 46
2369924 CTGGAGAAAC
2369934 AGTCATGGTTTCTACATTTATTTTACGAGGAAAATTCGTGTAGGNAA
1 AGTCATGGTTTCTACATTTATTTTACGAGGAAAATTCGTGTAGG-AA
*
2369981 AGTCATGGTTTCTACATTTATTTTATGAGGAAAATTCGTGTAGG
1 AGTCATGGTTTCTACATTTATTTTACGAGGAAAATTCGTGTAGG
2370025 GCAACTAATC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.38
Consensus pattern (46 bp):
AGTCATGGTTTCTACATTTATTTTACGAGGAAAATTCGTGTAGGAA
Found at i:2371573 original size:33 final size:33
Alignment explanation
Indices: 2371523--2371595 Score: 87
Period size: 33 Copynumber: 2.3 Consensus size: 33
2371513 TTCATCATCT
* * * *
2371523 TTCTCTAA--TCTTGTCTTTTCGTTGATCTTTA
1 TTCTCTAATCTCTTATCTTTCCGTTAATCGTTA
*
2371554 TTTTCTAATCTCTTATCTTTCCGTTAATCGTTA
1 TTCTCTAATCTCTTATCTTTCCGTTAATCGTTA
2371587 TTCTCTAAT
1 TTCTCTAAT
2371596 ATCTAACAAG
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
31 7 0.21
33 27 0.79
ACGTcount: A:0.16, C:0.21, G:0.07, T:0.56
Consensus pattern (33 bp):
TTCTCTAATCTCTTATCTTTCCGTTAATCGTTA
Found at i:2378868 original size:12 final size:12
Alignment explanation
Indices: 2378851--2378880 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
2378841 AGGCACACGA
2378851 CCGTGTTCTAAC
1 CCGTGTTCTAAC
*
2378863 CCGTGTTCTTAC
1 CCGTGTTCTAAC
2378875 CCGTGT
1 CCGTGT
2378881 AATTCTCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.33, G:0.20, T:0.37
Consensus pattern (12 bp):
CCGTGTTCTAAC
Found at i:2382783 original size:79 final size:79
Alignment explanation
Indices: 2382681--2382903 Score: 283
Period size: 79 Copynumber: 2.8 Consensus size: 79
2382671 GCTCCTCGTT
* *
2382681 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
2382746 ATTTAGTAACTCGCA
65 AATTAGTAACTCGCA
*
2382761 CAAATGCCTTCGGGCTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGG-TTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
2382824 AATTAGTATCTCGCA
65 AATTAGTAACTCGCA
* * * * * *
2382839 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGGTTATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
2382902 GA
64 GA
2382904 CAGCATTCAA
Statistics
Matches: 126, Mismatches: 12, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
78 45 0.36
79 59 0.47
80 22 0.17
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:2382795 original size:39 final size:40
Alignment explanation
Indices: 2382681--2382903 Score: 289
Period size: 39 Copynumber: 5.7 Consensus size: 40
2382671 GCTCCTCGTT
* *
2382681 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
2382721 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
2382761 CAAATGCCTTCGGG-CTTAGCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
2382800 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
2382839 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCA
2382880 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
2382904 CAGCATTCAA
Statistics
Matches: 165, Mismatches: 12, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
38 2 0.01
39 88 0.53
40 66 0.40
41 9 0.05
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:2391201 original size:23 final size:24
Alignment explanation
Indices: 2391143--2391203 Score: 61
Period size: 23 Copynumber: 2.5 Consensus size: 24
2391133 GTCATCCGAG
* * *
2391143 CCATAATCAGGAAGTTCACAAAGAA
1 CCAT-ATCGGGAAGTTCAAAAAAAA
* *
2391168 CCTTATTGGGAAGTT-AAAAAAAA
1 CCATATCGGGAAGTTCAAAAAAAA
2391191 CCATATCGGGAAG
1 CCATATCGGGAAG
2391204 CTCCAAATAA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
23 17 0.59
24 9 0.31
25 3 0.10
ACGTcount: A:0.44, C:0.16, G:0.20, T:0.20
Consensus pattern (24 bp):
CCATATCGGGAAGTTCAAAAAAAA
Found at i:2391314 original size:25 final size:26
Alignment explanation
Indices: 2391245--2391307 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 26
2391235 GACCACTATA
*
2391245 GGGAAGCTCACAAAGAGCCAATTTAAC
1 GGGAAGCTCACGAAGAGCC-ATTTAAC
2391272 GGGAAGCTCACGAAGAGCC-TTTAATC
1 GGGAAGCTCACGAAGAGCCATTTAA-C
*
2391298 GGGATGCTCA
1 GGGAAGCTCA
2391308 TAAGAGCTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
25 5 0.15
26 10 0.30
27 18 0.55
ACGTcount: A:0.33, C:0.22, G:0.27, T:0.17
Consensus pattern (26 bp):
GGGAAGCTCACGAAGAGCCATTTAAC
Found at i:2392963 original size:39 final size:39
Alignment explanation
Indices: 2392919--2393017 Score: 110
Period size: 39 Copynumber: 2.5 Consensus size: 39
2392909 AACCTATTTT
** *
2392919 TGAGTATTGTGATATATGCTTGAATGTTATGCCA-CTATA
1 TGAGTATTGTGATATATGCTTGAACATTATGCAATC-ATA
* * *
2392958 TGAGTATTGCGATATGTGCTTGAACATTATGTAATCATA
1 TGAGTATTGTGATATATGCTTGAACATTATGCAATCATA
* *
2392997 TGTGTAATGTGATATATGCTT
1 TGAGTATTGTGATATATGCTT
2393018 AAAAGTGAAT
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
39 48 0.98
40 1 0.02
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.41
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTGAACATTATGCAATCATA
Found at i:2399886 original size:29 final size:29
Alignment explanation
Indices: 2399819--2399942 Score: 196
Period size: 29 Copynumber: 4.3 Consensus size: 29
2399809 AAGTCTACAT
* *
2399819 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
2399847 TCATTCATATGACCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
2399876 ACATTCGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
2399905 ACATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
2399934 ACATTCATA
1 ACATTCATA
2399943 AACATGATTT
Statistics
Matches: 87, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
28 20 0.23
29 67 0.77
ACGTcount: A:0.31, C:0.31, G:0.14, T:0.24
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:2400174 original size:16 final size:16
Alignment explanation
Indices: 2400153--2400188 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
2400143 GTAGCCAAAC
2400153 TTTCGGCTTTTCT-GCA
1 TTTCGGCTTTT-TGGCA
2400169 TTTCGGCTTTTTGGCA
1 TTTCGGCTTTTTGGCA
2400185 TTTC
1 TTTC
2400189 AGGATTTGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 1 0.05
16 18 0.95
ACGTcount: A:0.06, C:0.22, G:0.19, T:0.53
Consensus pattern (16 bp):
TTTCGGCTTTTTGGCA
Found at i:2400307 original size:14 final size:14
Alignment explanation
Indices: 2400290--2400317 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2400280 GATATCACTC
2400290 AATGATTACTCACA
1 AATGATTACTCACA
2400304 AATGATTACTCACA
1 AATGATTACTCACA
2400318 CATACTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (14 bp):
AATGATTACTCACA
Found at i:2412555 original size:12 final size:12
Alignment explanation
Indices: 2412540--2412582 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
2412530 GCATACGGCC
* *
2412540 TACCATATGGCT
1 TACCACATGGCA
*
2412552 TACCACATGGCC
1 TACCACATGGCA
2412564 TACCACATGGCA
1 TACCACATGGCA
2412576 TACCACA
1 TACCACA
2412583 CGGCCATGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.30, C:0.35, G:0.14, T:0.21
Consensus pattern (12 bp):
TACCACATGGCA
Found at i:2412568 original size:24 final size:24
Alignment explanation
Indices: 2412534--2412587 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
2412524 CGTTATGCAT
* *
2412534 ACGGCCTACCATATGGCTTACCAC
1 ACGGCCTACCACATGGCATACCAC
*
2412558 ATGGCCTACCACATGGCATACCAC
1 ACGGCCTACCACATGGCATACCAC
2412582 ACGGCC
1 ACGGCC
2412588 ATGTGGCGTC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.26, C:0.39, G:0.19, T:0.17
Consensus pattern (24 bp):
ACGGCCTACCACATGGCATACCAC
Found at i:2423555 original size:41 final size:43
Alignment explanation
Indices: 2423484--2423606 Score: 117
Period size: 42 Copynumber: 2.9 Consensus size: 43
2423474 TTCTGTTTTG
* *
2423484 CATGTAAGACCATGTCTGGGACATTGGCATC-ATATTTGATTT
1 CATGTAAGACCATATCTGGGACATTGGCATCGATATTTGATTA
* * *
2423526 CGTGTAAGACCTTAT-TGGGACAGTT-GCATCGATTTTTGATTA
1 CATGTAAGACCATATCTGGGACA-TTGGCATCGATATTTGATTA
** * * *
2423568 CATGTAAGACCACGTCTAGGACGTTGGCATTGTATATTT
1 CATGTAAGACCATATCTGGGACATTGGCATCG-ATATTT
2423607 TCTCTAAGCT
Statistics
Matches: 63, Mismatches: 13, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
41 12 0.19
42 36 0.57
43 10 0.16
44 5 0.08
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (43 bp):
CATGTAAGACCATATCTGGGACATTGGCATCGATATTTGATTA
Found at i:2429110 original size:56 final size:55
Alignment explanation
Indices: 2429050--2429178 Score: 168
Period size: 55 Copynumber: 2.3 Consensus size: 55
2429040 ACCCAGATAA
* ** * *
2429050 GGTTTTACTCGCACACATATACCGGAGTCACATATCGATGTCAACGTATAAAACGT
1 GGTTTTACTCGCACACATATACCGAAACCAC-TATCAATGCCAACGTATAAAACGT
* * *
2429106 GGTTTTACTCGTACACATATATCGAAACCACTATCAATGCCAACGTATTAAACGT
1 GGTTTTACTCGCACACATATACCGAAACCACTATCAATGCCAACGTATAAAACGT
*
2429161 GGTCTTACTCGCACACAT
1 GGTTTTACTCGCACACAT
2429179 TATCGATGCC
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
55 37 0.59
56 26 0.41
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.28
Consensus pattern (55 bp):
GGTTTTACTCGCACACATATACCGAAACCACTATCAATGCCAACGTATAAAACGT
Found at i:2431559 original size:40 final size:41
Alignment explanation
Indices: 2431498--2431589 Score: 116
Period size: 40 Copynumber: 2.3 Consensus size: 41
2431488 TCTCAATATT
* *
2431498 GCACACTTAGTGCCACATATAGTCGAAGCT-ATTCCAATTA
1 GCACACTTAGTGCCACATATAGTCGAAGCTCATTCAAATCA
* ** *
2431538 GCACACTTAGTGCTATTTATAGTCGAAGCTCTTTCAAATCA
1 GCACACTTAGTGCCACATATAGTCGAAGCTCATTCAAATCA
2431579 -CACACTTAGTG
1 GCACACTTAGTG
2431590 TCGAACATAG
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 38 0.84
41 7 0.16
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (41 bp):
GCACACTTAGTGCCACATATAGTCGAAGCTCATTCAAATCA
Found at i:2448065 original size:37 final size:37
Alignment explanation
Indices: 2448003--2448094 Score: 112
Period size: 37 Copynumber: 2.5 Consensus size: 37
2447993 TAGTCCTTGT
* ** *
2448003 TTTGGAATGTTATCGACTAGATTAGCTCTTATGAAAA
1 TTTGGCATGTTATCGGGTAGGTTAGCTCTTATGAAAA
* **
2448040 TTTGGCATGTTATTGGGTAGGTTAGCTCTTATGAGCA
1 TTTGGCATGTTATCGGGTAGGTTAGCTCTTATGAAAA
*
2448077 TTTGGCGTGTTATCGGGT
1 TTTGGCATGTTATCGGGT
2448095 GGATTATAAC
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.22, C:0.11, G:0.27, T:0.40
Consensus pattern (37 bp):
TTTGGCATGTTATCGGGTAGGTTAGCTCTTATGAAAA
Found at i:2470059 original size:23 final size:24
Alignment explanation
Indices: 2470033--2470084 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
2470023 GTGATTTGGT
2470033 TTTGAGATGATGAAAT-GGT-ATAA
1 TTTGAGAT-ATGAAATAGGTGATAA
*
2470056 TTTGAGGTATGAAATAGGTGATAA
1 TTTGAGATATGAAATAGGTGATAA
*
2470080 GTTGA
1 TTTGA
2470085 AAGGTAAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 7 0.28
23 10 0.40
24 8 0.32
ACGTcount: A:0.37, C:0.00, G:0.29, T:0.35
Consensus pattern (24 bp):
TTTGAGATATGAAATAGGTGATAA
Found at i:2473348 original size:29 final size:30
Alignment explanation
Indices: 2473315--2473374 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
2473305 TCCTTAACTC
2473315 AAACTTTAG-AAAATTACAATTTTGCCCCT
1 AAACTTTAGCAAAATTACAATTTTGCCCCT
* * * *
2473344 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTAGCAAAATTACAATTTTGCCCCT
2473374 A
1 A
2473375 GGATCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 8 0.31
30 18 0.69
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.38
Consensus pattern (30 bp):
AAACTTTAGCAAAATTACAATTTTGCCCCT
Found at i:2475642 original size:31 final size:32
Alignment explanation
Indices: 2475604--2475665 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
2475594 CTCGCTGCAA
* *
2475604 TCTGGTGGCTTCGCCAC-ATATATATATCTGT
1 TCTGGTGGCCTAGCCACAATATATATATCTGT
*
2475635 TCTGGTGGCCTAGCCACAATATCTATATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
2475666 GTGACTTCGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 15 0.56
32 12 0.44
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.35
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:2479343 original size:28 final size:28
Alignment explanation
Indices: 2479311--2479394 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
2479301 AACTGTGATC
2479311 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
2479339 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
2479361 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
2479389 ACGTGT
1 ACGTGT
2479395 ACCGAATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:2479429 original size:49 final size:49
Alignment explanation
Indices: 2479263--2479487 Score: 283
Period size: 49 Copynumber: 4.5 Consensus size: 49
2479253 TGAGGTCGCA
* * *
2479263 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAA-AACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCGAATAA-T-TGGTCACG
* **
2479314 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATC-AGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGA-ATAATT-GGTCACG
2479364 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTGGTCACG
* * * * *
2479413 TGTGTAGTACTAAGTGCAGGCTACTACATATACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTGGTCACG
*
2479462 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
2479488 TGCGTACCAG
Statistics
Matches: 155, Mismatches: 15, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
49 78 0.50
50 46 0.30
51 31 0.20
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTGGTCACG
Found at i:2486024 original size:40 final size:40
Alignment explanation
Indices: 2485930--2486074 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
2485920 TACTCGAATG
*
2485930 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
2485971 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
2486011 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* * *
2486051 ATATCTGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
2486075 CTTGTGTGAG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 61 0.67
41 28 0.31
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:2489245 original size:27 final size:26
Alignment explanation
Indices: 2489201--2489251 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
2489191 CTCGTTGCAA
*
2489201 TCTGGTGGCCTCGCCACATATATCTAT
1 TCTGGTGACCTCGCCACA-ATATCTAT
* *
2489228 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
2489252 GGCAGCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTAT
Found at i:2489320 original size:26 final size:27
Alignment explanation
Indices: 2489291--2489350 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
2489281 CCACATATAT
*
2489291 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
2489317 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
2489344 ATATCTG
1 ATATCTG
2489351 GCAGCCTCGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:2493804 original size:21 final size:21
Alignment explanation
Indices: 2493780--2493832 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
2493770 ATCGACTCGA
*
2493780 TGTCGTGACATAGACTTCGTG
1 TGTCGTGACACAGACTTCGTG
** *
2493801 TGTCGCAACACAGACTTTGTG
1 TGTCGTGACACAGACTTCGTG
*
2493822 TGTCATGACAC
1 TGTCGTGACAC
2493833 CGAAAACAGT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.30
Consensus pattern (21 bp):
TGTCGTGACACAGACTTCGTG
Found at i:2498532 original size:27 final size:28
Alignment explanation
Indices: 2498500--2498561 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 28
2498490 CCCAGAGAAA
2498500 GAAGAAGAG-GA-GCAT-AAGGGCGAAAGG
1 GAAGAAGAGAGATG-ATGAAGGG-GAAAGG
*
2498527 GAAGAA-AGAGATGATGAAGGGGAAGGG
1 GAAGAAGAGAGATGATGAAGGGGAAAGG
2498554 GAAGAAGA
1 GAAGAAGA
2498562 TGACGAGATA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
26 2 0.07
27 21 0.70
28 7 0.23
ACGTcount: A:0.47, C:0.03, G:0.45, T:0.05
Consensus pattern (28 bp):
GAAGAAGAGAGATGATGAAGGGGAAAGG
Found at i:2500388 original size:22 final size:22
Alignment explanation
Indices: 2500361--2500404 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
2500351 AATTGTGCAG
2500361 GAGAGTTGGATGTCGCAACATA
1 GAGAGTTGGATGTCGCAACATA
2500383 GAGAGTTGGATGTCGCAACATA
1 GAGAGTTGGATGTCGCAACATA
2500405 AGGAGCAAAA
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:0.32, C:0.14, G:0.32, T:0.23
Consensus pattern (22 bp):
GAGAGTTGGATGTCGCAACATA
Found at i:2508594 original size:33 final size:35
Alignment explanation
Indices: 2508515--2508596 Score: 84
Period size: 33 Copynumber: 2.4 Consensus size: 35
2508505 TTGGTACTTT
2508515 TGAATTTAAGT-ATTTTGAGTATATGGCATGTATAA
1 TGAATTT-AGTCATTTTGAGTATATGGCATGTATAA
* * *
2508550 -GAGTTTGGTCATTTTG-GTATATGTG-TTGT-TAA
1 TGAATTTAGTCATTTTGAGTATATG-GCATGTATAA
2508582 TGAATTTAGTCATTT
1 TGAATTTAGTCATTT
2508597 GAAATGGCTT
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
32 3 0.08
33 24 0.62
34 12 0.31
ACGTcount: A:0.27, C:0.04, G:0.22, T:0.48
Consensus pattern (35 bp):
TGAATTTAGTCATTTTGAGTATATGGCATGTATAA
Found at i:2513076 original size:29 final size:29
Alignment explanation
Indices: 2513014--2513080 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
2513004 AATCAACCGT
2513014 GCACACTTAGTGCCATGCACTTTAAACTC
1 GCACACTTAGTGCCATGCACTTTAAACTC
* **
2513043 ACACACTTAGTGCCATGCA-TTTCAAGTTC
1 GCACACTTAGTGCCATGCACTTT-AAACTC
2513072 GCACACTTA
1 GCACACTTA
2513081 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.30, G:0.13, T:0.28
Consensus pattern (29 bp):
GCACACTTAGTGCCATGCACTTTAAACTC
Found at i:2513194 original size:174 final size:174
Alignment explanation
Indices: 2512902--2513229 Score: 575
Period size: 174 Copynumber: 1.9 Consensus size: 174
2512892 AACTCAAGGT
* *
2512902 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCACACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCACACCCTTAATGTAAATAATTTATA
* **
2512967 GAAAATATATATTGGGTTCGTACACATAGTGCTTAATAATCAACCGTGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
2513032 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
* *
2513076 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCACACCCTTAATGTAAATAATTTATA
*
2513141 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
2513206 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
2513230 TGTACAATTT
Statistics
Matches: 145, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
174 145 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCACACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:2513221 original size:29 final size:30
Alignment explanation
Indices: 2513182--2513260 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
2513172 CTTAATAATC
2513182 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
2513212 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
2513241 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
2513261 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:2520614 original size:29 final size:29
Alignment explanation
Indices: 2520551--2520618 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
2520541 TAACCAATCG
2520551 CGCACACTTAGTGCCACGCACTTTAAACT
1 CGCACACTTAGTGCCACGCACTTTAAACT
* * **
2520580 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCACGCACTTT-AAACT
2520609 CGCACACTTA
1 CGCACACTTA
2520619 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.32, G:0.13, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCACGCACTTTAAACT
Found at i:2520731 original size:174 final size:174
Alignment explanation
Indices: 2520440--2520767 Score: 548
Period size: 174 Copynumber: 1.9 Consensus size: 174
2520430 AACTCAAGGT
* *
2520440 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCACACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCACACCCTTAATGTAAATAATTTATA
* *
2520505 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAACCAATCGCGCACACTTAGTGCCACGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAACCAACCACGCACACTTAGTGCCACGC
2520570 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
* * *
2520614 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCTTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCACACCCTTAATGTAAATAATTTATA
* * *
2520679 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAACCAACCACGCACACTTAGTGCCACGC
**
2520744 ACTTTAAACTTGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
2520768 TGTACAATTT
Statistics
Matches: 142, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
174 142 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCACACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAACCAACCACGCACACTTAGTGCCACGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:2520760 original size:29 final size:30
Alignment explanation
Indices: 2520720--2520798 Score: 101
Period size: 29 Copynumber: 2.7 Consensus size: 30
2520710 CTTAATAATC
2520720 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
**
2520750 AACTTGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
2520779 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
2520799 ATCTCATGAC
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 31 0.76
30 4 0.10
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:2534099 original size:72 final size:73
Alignment explanation
Indices: 2534012--2534710 Score: 1014
Period size: 72 Copynumber: 9.6 Consensus size: 73
2534002 TGTTTCAAAA
*
2534012 AAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
2534077 CTGTTTTC
66 CTGTTTTC
* * *
2534085 -AAAAATCAACTCATATTGCGAGAGCTGAGTTGAGCCTCGGGACACACTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
*
2534149 TTGTTTTC
66 CTGTTTTC
* ** * *
2534157 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATACTGAGATATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
*
2534222 TTGTTTTTC
66 CTG-TTTTC
* *
2534231 AAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATT
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
2534296 TCTGTTTTC
65 TCTGTTTTC
* *
2534305 -AAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTC-GAGACACGCTAAGGTAATTTCAATT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-GACACGCTGAGGTAATTTCAATT
2534368 TCTGTTTTC
65 TCTGTTTTC
* ** * *
2534377 AAAAAATCAACTCATATTGCGAGAGGTG-GTTGAGCCTCAAGACATACTGAGATATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
*
2534441 TTGTTTTTC
66 CTG-TTTTC
* *
2534450 AAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATT
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
2534515 TCTGTTTTC
65 TCTGTTTTC
* ** * *
2534524 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATACTGAGATATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
*
2534588 TTGTTTTTC
66 CTG-TTTTC
* *
2534597 AAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATT
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
2534662 TCTGTTTTC
65 TCTGTTTTC
2534671 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
2534711 ATCACACATG
Statistics
Matches: 558, Mismatches: 56, Indels: 25
0.87 0.09 0.04
Matches are distributed among these distances:
71 1 0.00
72 261 0.47
73 98 0.18
74 47 0.08
75 151 0.27
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.31
Consensus pattern (73 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
CTGTTTTC
Found at i:2534382 original size:147 final size:146
Alignment explanation
Indices: 2534012--2534717 Score: 1055
Period size: 147 Copynumber: 4.8 Consensus size: 146
2534002 TGTTTCAAAA
*
2534012 AAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTC-AGGACACGCTGAGGTAATTTCAATT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGA-GACACGCTGAGGTAATTTCAATT
* ** *
2534076 TCTGTTTTCAAAAATCAACTCATATTGCGAGAGCTGAGTTGAGCCTCGGGACACACTGAGGTAAT
65 TCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGATAAT
2534141 TTCAATTTTTG-TTTTC
130 TTCAATTTTTGTTTTTC
* ** * *
2534157 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATACTGAGATATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACGCTGAGGTAATTTCAATTT
* * ** * *
2534222 TTGTTTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTA
66 CTG-TTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGATA
*
2534287 ATTTCAATTTCTG-TTTTC
128 ATTTCAATTTTTGTTTTTC
* *
2534305 -AAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGAGACACGCTAAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACGCTGAGGTAATTTCAATTT
* *
2534369 CTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTG-GTTGAGCCTCAAGACATACTGAGATATT
66 CTGTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGATAAT
2534433 TTCAATTTTTGTTTTTC
130 TTCAATTTTTGTTTTTC
* *
2534450 AAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATT
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACGCTGAGGTAATTTCAATT
* *
2534515 TCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATACTGAGATATT
65 TCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGATAAT
2534580 TTCAATTTTTGTTTTTC
130 TTCAATTTTTGTTTTTC
* *
2534597 AAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATT
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACGCTGAGGTAATTTCAATT
2534662 TCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGATCACAC
65 TCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA-CACAC
2534718 ATGTGGTATT
Statistics
Matches: 521, Mismatches: 31, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
144 32 0.06
145 92 0.18
146 41 0.08
147 288 0.55
148 68 0.13
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.31
Consensus pattern (146 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACGCTGAGGTAATTTCAATTT
CTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACACTGAGATAATT
TCAATTTTTGTTTTTC
Found at i:2534518 original size:219 final size:220
Alignment explanation
Indices: 2534011--2534708 Score: 1152
Period size: 219 Copynumber: 3.2 Consensus size: 220
2534001 CTGTTTCAAA
* * *
2534011 AAAAAAATCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATT
* *
2534076 TCTGTTTTCAAAAATCAACTCATATTGCGAGAGCTGAGTTGAGCCTCGGGACACACTGAGGTAAT
66 TCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACACTGAGGTAAT
2534141 TTCAATTTTTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATACT
131 TTCAATTTTTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATACT
2534206 GAGATATTTTCAATTTTTGTTTTTC
196 GAGATATTTTCAATTTTTGTTTTTC
2534231 AAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATT
* * *
2534296 TCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGAGACACGCTAAGGTAAT
66 TCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACACTGAGGTAAT
*
2534361 TTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTG-GTTGAGCCTCAAGACATACT
131 TTCAATTTTTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATACT
2534425 GAGATATTTTCAATTTTTGTTTTTC
196 GAGATATTTTCAATTTTTGTTTTTC
2534450 AAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATT
* * * *
2534515 TCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATACTGAGATATT
66 TCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACACTGAGGTAAT
* ** **
2534580 TTCAATTTTTGTTTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGACACG
131 TTCAATTTTTG-TTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATA
* * *
2534645 CTGAGGTAATTTCAATTTCTG-TTTTC
194 CTGAGATATTTTCAATTTTTGTTTTTC
*
2534671 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 AAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC
2534709 AGATCACACA
Statistics
Matches: 449, Mismatches: 26, Indels: 7
0.93 0.05 0.01
Matches are distributed among these distances:
219 215 0.48
220 170 0.38
221 32 0.07
222 32 0.07
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.31
Consensus pattern (220 bp):
AAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATT
TCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGACACACTGAGGTAAT
TTCAATTTTTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATACT
GAGATATTTTCAATTTTTGTTTTTC
Found at i:2535607 original size:24 final size:25
Alignment explanation
Indices: 2535565--2535618 Score: 101
Period size: 24 Copynumber: 2.2 Consensus size: 25
2535555 CCCTCCCAAA
2535565 AAAAAACCTAACCCAAAAAAAAAAG
1 AAAAAACCTAACCCAAAAAAAAAAG
2535590 AAAAAACCTAACCC-AAAAAAAAAG
1 AAAAAACCTAACCCAAAAAAAAAAG
2535614 AAAAA
1 AAAAA
2535619 GAAAAACCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 15 0.52
25 14 0.48
ACGTcount: A:0.74, C:0.19, G:0.04, T:0.04
Consensus pattern (25 bp):
AAAAAACCTAACCCAAAAAAAAAAG
Found at i:2535626 original size:24 final size:25
Alignment explanation
Indices: 2535565--2535626 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 25
2535555 CCCTCCCAAA
**
2535565 AAAAAACCTAACCCAAAAAAAAAAG
1 AAAAAACAAAACCCAAAAAAAAAAG
**
2535590 AAAAAACCTAACCC-AAAAAAAAAG
1 AAAAAACAAAACCCAAAAAAAAAAG
2535614 AAAAAGA-AAAACC
1 AAAAA-ACAAAACC
2535627 TAACCCCCCA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
24 19 0.56
25 15 0.44
ACGTcount: A:0.73, C:0.19, G:0.05, T:0.03
Consensus pattern (25 bp):
AAAAAACAAAACCCAAAAAAAAAAG
Found at i:2535643 original size:30 final size:30
Alignment explanation
Indices: 2535565--2535632 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 30
2535555 CCCTCCCAAA
2535565 AAAAAACCTAACCC----AAAAA-AAAAAG
1 AAAAAACCTAACCCAAAAAAAAAGAAAAAG
2535590 AAAAAACCTAACCCAAAAAAAAAGAAAAAG
1 AAAAAACCTAACCCAAAAAAAAAGAAAAAG
2535620 -AAAAACCTAACCC
1 AAAAAACCTAACCC
2535633 CCCAAAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
25 14 0.37
29 18 0.47
30 6 0.16
ACGTcount: A:0.69, C:0.22, G:0.04, T:0.04
Consensus pattern (30 bp):
AAAAAACCTAACCCAAAAAAAAAGAAAAAG
Found at i:2535651 original size:29 final size:29
Alignment explanation
Indices: 2535562--2535632 Score: 98
Period size: 25 Copynumber: 2.6 Consensus size: 29
2535552 AAGCCCTCCC
2535562 AAAA-AAAAACCTAACCC--AAAAAAA-A
1 AAAAGAAAAACCTAACCCAAAAAAAAAGA
*
2535587 AAGA-AAAAACCTAACCCAAAAAAAAAGA
1 AAAAGAAAAACCTAACCCAAAAAAAAAGA
2535615 AAAAGAAAAACCTAACCC
1 AAAAGAAAAACCTAACCC
2535633 CCCAAAAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
25 16 0.40
27 7 0.17
28 4 0.10
29 13 0.32
ACGTcount: A:0.70, C:0.21, G:0.04, T:0.04
Consensus pattern (29 bp):
AAAAGAAAAACCTAACCCAAAAAAAAAGA
Found at i:2538875 original size:93 final size:93
Alignment explanation
Indices: 2538711--2539067 Score: 660
Period size: 93 Copynumber: 3.8 Consensus size: 93
2538701 CCCATAAGCG
* * * * * *
2538711 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCAAC
1 AACTTGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
2538776 GAGTTCGGATGCCTAGTTACATCTCACA
66 GAGTTCGGATGCCTAGTTACATCTCACA
2538804 AACTTGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTTGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
2538869 GAGTTCGGATGCCTAGTTACATCTCACA
66 GAGTTCGGATGCCTAGTTACATCTCACA
2538897 AACTTGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTTGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
2538962 GAGTTCGGATGCCTAGTTACATCTCACA
66 GAGTTCGGATGCCTAGTTACATCTCACA
2538990 AACTTGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTTGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
2539055 GAGTTCGGATGCC
66 GAGTTCGGATGCC
2539068 CAAATATCCT
Statistics
Matches: 258, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 258 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.24
Consensus pattern (93 bp):
AACTTGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCACA
Found at i:2539063 original size:46 final size:46
Alignment explanation
Indices: 2538702--2539063 Score: 343
Period size: 46 Copynumber: 7.8 Consensus size: 46
2538692 TGTAACCCGC
* * * * *
2538702 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * *
2538748 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
* *
2538798 CTCA-CA---AACTTGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* *
2538841 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
* *
2538891 CTCA-CA---AACTTGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* *
2538934 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
* *
2538984 CTCA-CA---AACTTGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
2539027 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
2539064 TGCCCAAATA
Statistics
Matches: 259, Mismatches: 30, Indels: 54
0.76 0.09 0.16
Matches are distributed among these distances:
42 6 0.02
43 24 0.09
44 3 0.01
46 114 0.44
47 81 0.31
49 3 0.01
50 22 0.08
51 6 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:2552128 original size:21 final size:22
Alignment explanation
Indices: 2552095--2552135 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
2552085 TACATATCTG
2552095 TACCATACATTCTTAATCATTC
1 TACCATACATTCTTAATCATTC
*
2552117 TACCCTAC-TTCTTAATCAT
1 TACCATACATTCTTAATCAT
2552136 AATCTTGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.41
Consensus pattern (22 bp):
TACCATACATTCTTAATCATTC
Found at i:2552347 original size:40 final size:40
Alignment explanation
Indices: 2552303--2552380 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
2552293 TGGTGTCGAT
* *
2552303 GCCATGTCCCAAACATAGTCTTACACGAAATCTCATATAC
1 GCCATATCCCAAACATAGTCTTACACGAAATCACATATAC
* * * * *
2552343 GCCATATCCCAGATATGGTCTTATATGAAATCACATAT
1 GCCATATCCCAAACATAGTCTTACACGAAATCACATAT
2552381 CAATGATGAT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.35, C:0.26, G:0.12, T:0.28
Consensus pattern (40 bp):
GCCATATCCCAAACATAGTCTTACACGAAATCACATATAC
Found at i:2552401 original size:88 final size:88
Alignment explanation
Indices: 2552255--2552416 Score: 191
Period size: 88 Copynumber: 1.8 Consensus size: 88
2552245 ATATATTGAT
* * * *** *
2552255 GCCATATCTCAGATATGGTCTAATACGAAGTCTCATATTGGTGTCGATGCCATGTCCCAAACATA
1 GCCATATCCCAGATATGGTCTAATACGAAATCACATATCAATGTCGATGCCATATCCCAAACATA
2552320 GTCTTACACGAAATCTCATATAC
66 GTCTTACACGAAATCTCATATAC
* * * * *
2552343 GCCATATCCCAGATATGGTCTTATATGAAATCACATATCAATGAT-GATGTCATATCCCAGATAT
1 GCCATATCCCAGATATGGTCTAATACGAAATCACATATCAATG-TCGATGCCATATCCCAAACAT
*
2552407 GGTCTTACAC
65 AGTCTTACAC
2552417 TGGCACACAT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
88 59 0.98
89 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.30
Consensus pattern (88 bp):
GCCATATCCCAGATATGGTCTAATACGAAATCACATATCAATGTCGATGCCATATCCCAAACATA
GTCTTACACGAAATCTCATATAC
Found at i:2552426 original size:48 final size:49
Alignment explanation
Indices: 2552343--2552513 Score: 152
Period size: 48 Copynumber: 3.5 Consensus size: 49
2552333 TCTCATATAC
* ** * *
2552343 GCCATATCCCAGATATGGTCTTATA-TGAAATCACATATCAATGA-TGAT
1 GCCATATCCCAGATATGGTCTTACACTGGCATCACATATCAA-CACCGAT
*
2552391 GTCATATCCCAGATATGGTCTTACACTGGCA-CACATATCAACACCGAT
1 GCCATATCCCAGATATGGTCTTACACTGGCATCACATATCAACACCGAT
* * * ** * * *
2552439 GCCATGTCCCAGACATGGTCCTACACTGGC-TCTTATCTCGAAAACCAAT
1 GCCATATCCCAGATATGGTCTTACACTGGCATCACATATC-AACACCGAT
* *
2552488 GCCATGTCCCAGACATGGTCTTACAC
1 GCCATATCCCAGATATGGTCTTACAC
2552514 GGGATCTCGT
Statistics
Matches: 103, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
47 1 0.01
48 67 0.65
49 35 0.34
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (49 bp):
GCCATATCCCAGATATGGTCTTACACTGGCATCACATATCAACACCGAT
Found at i:2552500 original size:49 final size:48
Alignment explanation
Indices: 2552397--2552513 Score: 153
Period size: 49 Copynumber: 2.4 Consensus size: 48
2552387 TGATGTCATA
* * *
2552397 TCCCAGATATGGTCTTACACTGGCACACATATCAACACCGATGCCATG
1 TCCCAGACATGGTCTTACACTGGCACACATATCAAAACCAATGCCATG
* * ** *
2552445 TCCCAGACATGGTCCTACACTGGCTCTTATCTCGAAAACCAATGCCATG
1 TCCCAGACATGGTCTTACACTGGCACACATATC-AAAACCAATGCCATG
2552494 TCCCAGACATGGTCTTACAC
1 TCCCAGACATGGTCTTACAC
2552514 GGGATCTCGT
Statistics
Matches: 59, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
48 27 0.46
49 32 0.54
ACGTcount: A:0.27, C:0.32, G:0.16, T:0.24
Consensus pattern (48 bp):
TCCCAGACATGGTCTTACACTGGCACACATATCAAAACCAATGCCATG
Found at i:2557406 original size:31 final size:31
Alignment explanation
Indices: 2557348--2557406 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 31
2557338 TGTTTTCATG
* *
2557348 TAAGACCACGTCTGGGACGTTGACATCGACT
1 TAAGACCACGTCTGGGACATCGACATCGACT
* * *
2557379 TAAGTCCATGTCTGGGACATCGGCATCG
1 TAAGACCACGTCTGGGACATCGACATCG
2557407 TATTTGATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 23 1.00
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.24
Consensus pattern (31 bp):
TAAGACCACGTCTGGGACATCGACATCGACT
Found at i:2562725 original size:30 final size:30
Alignment explanation
Indices: 2562689--2562745 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
2562679 CCCTAACCTG
2562689 AATCGAGTCCAATACTCATGAGGTTTATGT
1 AATCGAGTCCAATACTCATGAGGTTTATGT
2562719 AATCGAGTCCAATACTCATGAGGTTTA
1 AATCGAGTCCAATACTCATGAGGTTTA
2562746 GGTACATACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.32
Consensus pattern (30 bp):
AATCGAGTCCAATACTCATGAGGTTTATGT
Found at i:2571669 original size:25 final size:25
Alignment explanation
Indices: 2571641--2571721 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
2571631 AAATAATGGC
2571641 CTATTGAATTGTGATGAATCATGAA
1 CTATTGAATTGTGATGAATCATGAA
** * * * * **
2571666 CTATAAAAATGGGACGTAAATAATGGC
1 CTATTGAATTGTGA--TGAATCATGAA
*
2571693 CTATTGAATTGTGATGAATCATGAG
1 CTATTGAATTGTGATGAATCATGAA
2571718 CTAT
1 CTAT
2571722 AAAAATGGCC
Statistics
Matches: 38, Mismatches: 16, Indels: 4
0.66 0.28 0.07
Matches are distributed among these distances:
25 21 0.55
27 17 0.45
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.32
Consensus pattern (25 bp):
CTATTGAATTGTGATGAATCATGAA
Found at i:2571703 original size:52 final size:52
Alignment explanation
Indices: 2571625--2571729 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 52
2571615 TGAGAATGAT
2571625 GGACGTAAATAATGGCCTATTGAATTGTGATGAATCATGAACTATAAAAATG
1 GGACGTAAATAATGGCCTATTGAATTGTGATGAATCATGAACTATAAAAATG
*
2571677 GGACGTAAATAATGGCCTATTGAATTGTGATGAATCATGAGCTATAAAAATG
1 GGACGTAAATAATGGCCTATTGAATTGTGATGAATCATGAACTATAAAAATG
2571729 G
1 G
2571730 CCATAACAAT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.39, C:0.10, G:0.23, T:0.29
Consensus pattern (52 bp):
GGACGTAAATAATGGCCTATTGAATTGTGATGAATCATGAACTATAAAAATG
Found at i:2579239 original size:34 final size:35
Alignment explanation
Indices: 2579174--2579245 Score: 128
Period size: 35 Copynumber: 2.1 Consensus size: 35
2579164 TCAGATTAGT
2579174 GTTCATCCATCGAAAATAGGAAAAAAAAAACCTAA
1 GTTCATCCATCGAAAATAGGAAAAAAAAAACCTAA
*
2579209 GTTCATCCATCGAAAATAGG-GAAAAAAAACCTAA
1 GTTCATCCATCGAAAATAGGAAAAAAAAAACCTAA
2579243 GTT
1 GTT
2579246 TTAAGAGCTT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
34 16 0.44
35 20 0.56
ACGTcount: A:0.50, C:0.17, G:0.14, T:0.19
Consensus pattern (35 bp):
GTTCATCCATCGAAAATAGGAAAAAAAAAACCTAA
Found at i:2580049 original size:40 final size:40
Alignment explanation
Indices: 2579961--2580036 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
2579951 ACTACGTTCG
*
2579961 ACACTAAGTGTGCGATTTGAAATAGCTTCAGCTATAAATA
1 ACACTAAGTGTGCGAATTGAAATAGCTTCAGCTATAAATA
*
2580001 ACACTAAGTGTGCGAATTGGAATAGCTTCAGCTATA
1 ACACTAAGTGTGCGAATTGAAATAGCTTCAGCTATA
2580037 TGTTGCACTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.29
Consensus pattern (40 bp):
ACACTAAGTGTGCGAATTGAAATAGCTTCAGCTATAAATA
Found at i:2585346 original size:43 final size:43
Alignment explanation
Indices: 2585287--2585398 Score: 188
Period size: 43 Copynumber: 2.6 Consensus size: 43
2585277 AAGTTCGGTT
* * *
2585287 TAATTAATTGGCACTAAATGTGTGATACAATTATAGCCTCGGC
1 TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCCTCAGC
*
2585330 TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCAGC
1 TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCCTCAGC
2585373 TAATTAATTGGCACTAAGTGTGCGAT
1 TAATTAATTGGCACTAAGTGTGCGAT
2585399 TTCGTTGAAT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 65 1.00
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (43 bp):
TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCCTCAGC
Found at i:2586455 original size:21 final size:20
Alignment explanation
Indices: 2586427--2586465 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
2586417 TTGGGAAGTG
2586427 TGGTTAA-TGGTTTATATGTA
1 TGGTTAATTGG-TTATATGTA
2586447 TGGTGTAATTGGTTATATG
1 TGGT-TAATTGGTTATATG
2586466 AATTGGCTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.24
21 10 0.59
22 3 0.18
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (20 bp):
TGGTTAATTGGTTATATGTA
Done.