Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 174 of 362
Found at i:57478050 original size:43 final size:43
Alignment explanation
Indices: 57477979--57478097 Score: 113
Period size: 43 Copynumber: 2.8 Consensus size: 43
57477969 CTCATAGTAC
* * *
57477979 CATACCAATGTCATAT-CTCAGATGTGGTCTTACATAGG-A-TCT
1 CATATCAATGCCATATGC-CAGATATGGTCTTACA-AGGAAGTCT
*
57478021 CATATCAATGCCA-ATAGCCCAGCTATGGTCTTAC-AGGAAGTCT
1 CATATCAATGCCATAT-G-CCAGATATGGTCTTACAAGGAAGTCT
* *
57478064 CATCTCAATTCCATATGCCAGATATGGTCTTACA
1 CATATCAATGCCATATGCCAGATATGGTCTTACA
57478098 CGTAATCTCA
Statistics
Matches: 63, Mismatches: 7, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
41 5 0.08
42 27 0.43
43 28 0.44
44 3 0.05
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.30
Consensus pattern (43 bp):
CATATCAATGCCATATGCCAGATATGGTCTTACAAGGAAGTCT
Found at i:57479885 original size:21 final size:22
Alignment explanation
Indices: 57479841--57479885 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
57479831 GGGCTCACAC
**
57479841 GCCCGTGTGGTCCAAGGAACAT
1 GCCCGTGTGACCCAAGGAACAT
*
57479863 GCCCGTGTGACCCTAGG-ACAT
1 GCCCGTGTGACCCAAGGAACAT
57479884 GC
1 GC
57479886 TTGCGCTACA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.20, C:0.31, G:0.31, T:0.18
Consensus pattern (22 bp):
GCCCGTGTGACCCAAGGAACAT
Found at i:57489811 original size:31 final size:30
Alignment explanation
Indices: 57489768--57489832 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 30
57489758 TCAGTCTCGA
* *
57489768 CATATACTGGGCCGAAGCCTTTTCATAAAT
1 CATATACTGGGCCAAAGCCGTTTCATAAAT
57489798 CATATCACTGGGCCAAAGCCGTTTCATAAAT
1 CATAT-ACTGGGCCAAAGCCGTTTCATAAAT
57489829 CATA
1 CATA
57489833 AATCTTATAC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 5 0.16
31 27 0.84
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (30 bp):
CATATACTGGGCCAAAGCCGTTTCATAAAT
Found at i:57495945 original size:40 final size:40
Alignment explanation
Indices: 57495850--57496067 Score: 284
Period size: 40 Copynumber: 5.5 Consensus size: 40
57495840 TGGATGATAA
*
57495850 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
* *
57495891 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
57495931 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
57495971 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
57496011 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
57496050 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
57496068 TACTTGGCTT
Statistics
Matches: 160, Mismatches: 14, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
38 15 0.09
39 15 0.09
40 102 0.64
41 24 0.15
42 4 0.03
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:57498641 original size:49 final size:49
Alignment explanation
Indices: 57498559--57498746 Score: 259
Period size: 49 Copynumber: 3.8 Consensus size: 49
57498549 TGAGGTCACG
*
57498559 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * * * * * *
57498608 TGTGTAGTACTAAGTGCAGGCAACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCGCA
*
57498659 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
*
57498708 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
57498747 GCTTTGGCTA
Statistics
Matches: 118, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 77 0.65
50 2 0.02
51 39 0.33
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:57498727 original size:100 final size:100
Alignment explanation
Indices: 57498554--57498741 Score: 340
Period size: 100 Copynumber: 1.9 Consensus size: 100
57498544 TATTGTGAGG
*
57498554 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
57498619 AAGTGCAGGCAACTATGCGTACCCGAAAACTGTGA
66 AAGTGCAGGCAACTATGCGTACCCGAAAACTGTGA
*
57498654 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
* *
57498719 AAGTGCAGGCTACTATGTGTACC
66 AAGTGCAGGCAACTATGCGTACC
57498742 AGATAGCTTT
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 84 1.00
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.28
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCAACTATGCGTACCCGAAAACTGTGA
Found at i:57503506 original size:60 final size:60
Alignment explanation
Indices: 57503371--57503509 Score: 156
Period size: 60 Copynumber: 2.3 Consensus size: 60
57503361 ATTAGAGTTA
* * *
57503371 ACTGGGCCTTAGCCCATATCAATATTAATGTGGGCCGTAGCCCCTTACAATATCAGAGTAT
1 ACTGGCCCTT-GCCCATATCAATATCAATGTGGGCCGTAGCCCATTACAATATCAGAGTAT
* * * * *
57503432 ACTGGGCCTAGCCCATATCAGTATCAATTTGGGCCGTAGCCCTATTACAAGT-TGAGA-TAT
1 ACTGGCCCTTGCCCATATCAATATCAATGTGGGCCGTAGCCC-ATTACAA-TATCAGAGTAT
*
57503492 ATTGGCCCTTGCCCATAT
1 ACTGGCCCTTGCCCATAT
57503510 TAACACAGTT
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
60 47 0.70
61 19 0.28
62 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (60 bp):
ACTGGCCCTTGCCCATATCAATATCAATGTGGGCCGTAGCCCATTACAATATCAGAGTAT
Found at i:57505186 original size:35 final size:36
Alignment explanation
Indices: 57505117--57505192 Score: 109
Period size: 35 Copynumber: 2.1 Consensus size: 36
57505107 TTTCATGACA
*
57505117 AAATAAAAAGGAAATAGGATTCGCCTGCTATACATCTCG
1 AAATAAAAAGGAAAT---ATTCCCCTGCTATACATCTCG
57505156 AAATAAAAAGGAAAT-TTCCCCTGCTATACATCTCG
1 AAATAAAAAGGAAATATTCCCCTGCTATACATCTCG
57505191 AA
1 AA
57505193 CCTGTGACCT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
35 21 0.58
39 15 0.42
ACGTcount: A:0.42, C:0.20, G:0.14, T:0.24
Consensus pattern (36 bp):
AAATAAAAAGGAAATATTCCCCTGCTATACATCTCG
Found at i:57509148 original size:8 final size:8
Alignment explanation
Indices: 57509132--57509163 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
57509122 CTCGAAATGC
57509132 CGGCTTTT
1 CGGCTTTT
*
57509140 CGGCATTT
1 CGGCTTTT
57509148 CGGCTTTT
1 CGGCTTTT
57509156 CGGCTTTT
1 CGGCTTTT
57509164 GCCAATCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.03, C:0.25, G:0.25, T:0.47
Consensus pattern (8 bp):
CGGCTTTT
Found at i:57510965 original size:43 final size:43
Alignment explanation
Indices: 57510917--57511070 Score: 143
Period size: 43 Copynumber: 3.6 Consensus size: 43
57510907 ATATCATACA
* *
57510917 ATGCCAATGTCTCGGATGTAGTCTTACATACAATCACATATCG
1 ATGCCAATGTCCCAGATGTAGTCTTACATACAATCACATATCG
* * * * *
57510960 ATGCCACTGTCCCAAACAG-AGTCTTACAT-GAATCAAATA-CG
1 ATGCCAATGTCCCAGA-TGTAGTCTTACATACAATCACATATCG
** * * * *
57511001 ATGCCAATGTCCCAGACATGGTCTTACACATAATCACATATTG
1 ATGCCAATGTCCCAGATGTAGTCTTACATACAATCACATATCG
* *
57511044 ATGCCAACGTCCCAGATGTGGTCTTAC
1 ATGCCAATGTCCCAGATGTAGTCTTAC
57511071 TCGAGAACAC
Statistics
Matches: 88, Mismatches: 19, Indels: 8
0.77 0.17 0.07
Matches are distributed among these distances:
41 24 0.27
42 16 0.18
43 47 0.53
44 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGATGTAGTCTTACATACAATCACATATCG
Found at i:57511012 original size:41 final size:44
Alignment explanation
Indices: 57510936--57511057 Score: 135
Period size: 41 Copynumber: 2.9 Consensus size: 44
57510926 TCTCGGATGT
* *
57510936 AGTCTTACATACAATCACATATCGATGCCACTGTCCCAAACA-G
1 AGTCTTACATACAATCAAATATCGATGCCAATGTCCCAAACATG
* *
57510979 AGTCTTACAT-GAATCAAATA-CGATGCCAATGTCCCAGACATG
1 AGTCTTACATACAATCAAATATCGATGCCAATGTCCCAAACATG
* * * * *
57511021 -GTCTTACACATAATCACATATTGATGCCAACGTCCCA
1 AGTCTTACATACAATCAAATATCGATGCCAATGTCCCA
57511058 GATGTGGTCT
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
41 26 0.39
42 17 0.25
43 24 0.36
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.25
Consensus pattern (44 bp):
AGTCTTACATACAATCAAATATCGATGCCAATGTCCCAAACATG
Found at i:57512506 original size:49 final size:49
Alignment explanation
Indices: 57512453--57512679 Score: 265
Period size: 49 Copynumber: 4.6 Consensus size: 49
57512443 CTGGTACGCA
* * *
57512453 TAGTAACCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACT
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
* ** * *
57512502 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCCGGTACACG
* * ** * * *
57512552 TAGTAGCTTGCACTTAGTACTACACACGTGATAGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCGGTACACG
** *
57512603 TAGTAGCCTGCACTTAGTACTACACATACGACCAATTACCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
57512652 TAGTAGCCTGCACTTAGTACTACACACG
1 TAGTAGCCTGCACTTAGTACTACACACG
57512680 TGAACTCACA
Statistics
Matches: 146, Mismatches: 29, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
49 66 0.45
50 45 0.31
51 35 0.24
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
Found at i:57512620 original size:101 final size:98
Alignment explanation
Indices: 57512453--57512684 Score: 284
Period size: 100 Copynumber: 2.3 Consensus size: 98
57512443 CTGGTACGCA
* * * * *
57512453 TAGTAACCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACTTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGAACAATTATCCGGTACACATAGTAGCCTGCACTTA
** * *
57512518 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACACGACC-AACCACCCGATACACG
* * * *
57512552 TAGTAGCTTGCACTTAGTACTACACACGTGATAGAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-ACAA-TTATCCGGTACACATAGTAGCCTGCACT
* ** *
57512617 TAGTACTACACATACGACCAATTACCCGGTACACG
64 TAGTACTACACACACGACCAACCACCCGATACACG
57512652 TAGTAGCCTGCACTTAGTACTACACACGTGAAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGAAC
57512685 TCACAATAGA
Statistics
Matches: 112, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
99 28 0.25
100 43 0.38
101 41 0.37
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGAACAATTATCCGGTACACATAGTAGCCTGCACTTA
GTACTACACACACGACCAACCACCCGATACACG
Found at i:57515586 original size:47 final size:47
Alignment explanation
Indices: 57515520--57515905 Score: 603
Period size: 47 Copynumber: 8.1 Consensus size: 47
57515510 GAAATGATAG
*
57515520 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
57515567 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAA--GTGTATATATGTGA
57515616 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
57515663 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
57515712 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
57515759 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
57515806 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* * * * * *
57515855 T-AGGGCTGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCT-AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
57515902 TAAG
1 TAAG
57515906 TCCCGAAGGG
Statistics
Matches: 316, Mismatches: 15, Indels: 15
0.91 0.04 0.04
Matches are distributed among these distances:
47 183 0.58
48 7 0.02
49 126 0.40
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:57515684 original size:96 final size:94
Alignment explanation
Indices: 57515520--57515905 Score: 621
Period size: 96 Copynumber: 4.0 Consensus size: 94
57515510 GAAATGATAG
57515520 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAGGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAGGGCCTAATGGCCGAT
57515585 GTGATGAATGTGAAAGTGTGTATATATGTGA
66 GTGATGAATGTGAAA--GTGTATATATGTGA
*
57515616 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAGGGCCTAATGGCCGAT
57515681 GTGATGAATGTGAAAGTGTATATATATGTGA
66 GTGATGAATGTGAAAGTG--TATATATGTGA
*
57515712 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAGGGCCTAATGGCCGAT
57515777 GTGATGAATGTGAAAGTGTATATATGTGA
66 GTGATGAATGTGAAAGTGTATATATGTGA
* * *
57515806 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGATAGGG-CTGAGTGGCC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATACGTGATAGGGCCT-AATGGCC
* * * *
57515870 AACGTGATGGATGTGAAAGTGTATAAATGTGA
63 GATGTGATGAATGTGAAAGTGTATATATGTGA
57515902 TAAG
1 TAAG
57515906 TCCCGAAGGG
Statistics
Matches: 274, Mismatches: 11, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
94 49 0.18
95 2 0.01
96 223 0.81
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (94 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAGGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGA
Found at i:57515781 original size:143 final size:143
Alignment explanation
Indices: 57515520--57515905 Score: 625
Period size: 143 Copynumber: 2.7 Consensus size: 143
57515510 GAAATGATAG
* *
57515520 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATACGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
57515583 ATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
66 ATGTGATGAATGTGAAA--GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
57515648 AGTGTATATATGTGA
129 AGTGTATATATGTGA
*
57515663 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
*
57515728 ATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
57515793 TGTATATATGTGA
131 TGTATATATGTGA
* * *
57515806 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGAT-AGGGCTGAGTGGCC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT-AATGGCC
* * * *
57515870 AACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
65 GATGTGATGAATGTGAAAGTGTATATATGTGATAAG
57515906 TCCCGAAGGG
Statistics
Matches: 227, Mismatches: 13, Indels: 6
0.92 0.05 0.02
Matches are distributed among these distances:
142 5 0.02
143 180 0.79
145 42 0.19
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (143 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGA
Found at i:57516080 original size:37 final size:37
Alignment explanation
Indices: 57516024--57516102 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
57516014 CCGAGCTCTA
* * *
57516024 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
57516061 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
57516098 AAGAC
1 AAGAC
57516103 TTCGTAATAA
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:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:57522491 original size:17 final size:17
Alignment explanation
Indices: 57522469--57522506 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
57522459 ACTAAAGTGC
*
57522469 ATTTAATAATGTTTA-TT
1 ATTTAAT-ATATTTACTT
57522486 ATTTAATATATTTACTT
1 ATTTAATATATTTACTT
57522503 ATTT
1 ATTT
57522507 TTTTAATTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (17 bp):
ATTTAATATATTTACTT
Found at i:57523015 original size:176 final size:174
Alignment explanation
Indices: 57522722--57523048 Score: 516
Period size: 176 Copynumber: 1.9 Consensus size: 174
57522712 AATTAATCTA
* *
57522722 ATTATTTGAGTCAACTCTAATTTTTTTTTTAAATTTTCAATTCGAATCGAGTTTGGTTTTCAAGT
1 ATTATTTGAGTCAACTCAAATTTTTTTTTTAAATTTTCAATTCGAATCGAGTTTGGTTTTCAAAT
* *
57522787 TCGAATAAACTGAATATCAAACTATAATATTTTACATTTTTATCCCAAACTCCCAAACCTCTTTA
66 TCGAATAAACTAAATACCAAACTATAATATTTTACATTTTTATCCCAAACTCCCAAACCTCTTTA
57522852 TTTTCCCCCAAAACTTTTACTATCCTCTCATCCCACCCCCTTCT
131 TTTTCCCCCAAAACTTTTACTATCCTCTCATCCCACCCCCTTCT
* *
57522896 ATTATTTGAGTCAACTCGAAATTTTTTTTTTTGAA-TTTCGAGTTCGAATCGAGTTTGGTTTTCA
1 ATTATTTGAGTCAACTC-AAA-TTTTTTTTTTAAATTTTC-AATTCGAATCGAGTTTGGTTTTCA
* *
57522960 AATTCGAATAAA-TCAAATACCAAGCTATAATATTTTATATTTTTA-CCCTAAACTCCCAAACCT
63 AATTCGAATAAACT-AAATACCAAACTATAATATTTTACATTTTTATCCC-AAACTCCCAAACCT
57523023 CTTTATTTTCCCCCAAAACTTTTACT
126 CTTTATTTTCCCCCAAAACTTTTACT
57523049 TCCCCCACTT
Statistics
Matches: 140, Mismatches: 8, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
174 17 0.12
175 10 0.07
176 113 0.81
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.42
Consensus pattern (174 bp):
ATTATTTGAGTCAACTCAAATTTTTTTTTTAAATTTTCAATTCGAATCGAGTTTGGTTTTCAAAT
TCGAATAAACTAAATACCAAACTATAATATTTTACATTTTTATCCCAAACTCCCAAACCTCTTTA
TTTTCCCCCAAAACTTTTACTATCCTCTCATCCCACCCCCTTCT
Found at i:57523090 original size:28 final size:27
Alignment explanation
Indices: 57523032--57523087 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 27
57523022 TCTTTATTTT
57523032 CCCCCAAAACTTTTACTTCCCCCACTTTC
1 CCCCCAAAACTTTTACTTCCCCCA--TTC
57523061 CCCCCAAAACTTTTACTATCCTCCCAT
1 CCCCCAAAACTTTTACT-TCC-CCCAT
57523088 CCCACTCCCC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
29 18 0.72
30 3 0.12
31 4 0.16
ACGTcount: A:0.23, C:0.46, G:0.00, T:0.30
Consensus pattern (27 bp):
CCCCCAAAACTTTTACTTCCCCCATTC
Found at i:57524477 original size:17 final size:17
Alignment explanation
Indices: 57524450--57524487 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
57524440 TAAAAGATAT
57524450 TTTTTATATTTTTAATAA
1 TTTTTATATTTTTAA-AA
57524468 TTTTTA-ATTTTTAAAA
1 TTTTTATATTTTTAAAA
57524484 TTTT
1 TTTT
57524488 AAAAAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 6 0.30
17 8 0.40
18 6 0.30
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTTATATTTTTAAAA
Found at i:57531838 original size:23 final size:22
Alignment explanation
Indices: 57531807--57531863 Score: 62
Period size: 23 Copynumber: 2.6 Consensus size: 22
57531797 TATATAATCA
*
57531807 TAAAATAATATTATATAAATAAT
1 TAAATTAATATTATATAAA-AAT
* * *
57531830 TATATTAATAATATATTAAAAT
1 TAAATTAATATTATATAAAAAT
57531852 TAAATTAA-ATTA
1 TAAATTAATATTA
57531864 AAATTTCATA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
21 3 0.11
22 10 0.36
23 15 0.54
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
TAAATTAATATTATATAAAAAT
Found at i:57532386 original size:33 final size:33
Alignment explanation
Indices: 57532349--57532422 Score: 121
Period size: 33 Copynumber: 2.2 Consensus size: 33
57532339 AAAAAATAGT
*
57532349 CAAAAATAATTTTTCCTTCAACGAGAATGCTAG
1 CAAAAATAATTTTTCCTTCAACGAGAATGCTAA
*
57532382 CAAAAATAATTTTTCCTTCAACTAGAATGCTAA
1 CAAAAATAATTTTTCCTTCAACGAGAATGCTAA
*
57532415 CTAAAATA
1 CAAAAATA
57532423 TTAAAATTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (33 bp):
CAAAAATAATTTTTCCTTCAACGAGAATGCTAA
Found at i:57532517 original size:7 final size:7
Alignment explanation
Indices: 57532514--57532607 Score: 163
Period size: 7 Copynumber: 13.6 Consensus size: 7
57532504 ATTTTTTTAA
*
57532514 TTTTAAT
1 TTTTGAT
57532521 TT-TGAT
1 TTTTGAT
*
57532527 TTTTTAT
1 TTTTGAT
57532534 TTTTGAT
1 TTTTGAT
57532541 TTTTGAT
1 TTTTGAT
57532548 TTTTGAT
1 TTTTGAT
57532555 TTTTGAT
1 TTTTGAT
57532562 TTTTGAT
1 TTTTGAT
57532569 TTTTGAT
1 TTTTGAT
57532576 TTTTGAT
1 TTTTGAT
57532583 TTTTGAT
1 TTTTGAT
57532590 TTTTGAT
1 TTTTGAT
57532597 TTTTGAT
1 TTTTGAT
57532604 TTTT
1 TTTT
57532608 AAATTATTTG
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
6 5 0.06
7 78 0.94
ACGTcount: A:0.15, C:0.00, G:0.12, T:0.73
Consensus pattern (7 bp):
TTTTGAT
Found at i:57532528 original size:21 final size:22
Alignment explanation
Indices: 57532504--57532593 Score: 80
Period size: 21 Copynumber: 4.3 Consensus size: 22
57532494 AACTTTTTAT
57532504 ATTTTTTTAATTTT-AATTTTG
1 ATTTTTTTAATTTTGAATTTTG
* *
57532525 A-TTTTTTATTTTTGATTTTTG
1 ATTTTTTTAATTTTGAATTTTG
* * *
57532546 A-TTTTTGATTTTTGATTTTTG
1 ATTTTTTTAATTTTGAATTTTG
* * *
57532567 A-TTTTTGATTTTTGATTTTTG
1 ATTTTTTTAATTTTGAATTTTG
57532588 ATTTTT
1 ATTTTT
57532594 GATTTTTGAT
Statistics
Matches: 64, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
20 11 0.17
21 49 0.77
22 4 0.06
ACGTcount: A:0.17, C:0.00, G:0.10, T:0.73
Consensus pattern (22 bp):
ATTTTTTTAATTTTGAATTTTG
Found at i:57533295 original size:19 final size:19
Alignment explanation
Indices: 57533271--57533316 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
57533261 AGCAAACAAG
57533271 TAATTTAATCTATTTATTT
1 TAATTTAATCTATTTATTT
* *
57533290 TAATTTTATTTATTTATTT
1 TAATTTAATCTATTTATTT
*
57533309 TATTTTAA
1 TAATTTAA
57533317 ATAAAATAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
TAATTTAATCTATTTATTT
Found at i:57539862 original size:3 final size:3
Alignment explanation
Indices: 57539826--57539903 Score: 56
Period size: 3 Copynumber: 27.0 Consensus size: 3
57539816 CTTGGGCAGT
* *
57539826 AGA AAA AGA AGA ATA AGA A-A AGA A-A CAG- AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA -AGA AGA AGA AGA AGA AGA
* * * * *
57539869 ATA AGA AAA AGA AG- AGG AGG AGA AGA AGA ATA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
57539904 GAAAATGGAA
Statistics
Matches: 59, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
2 7 0.12
3 52 0.88
ACGTcount: A:0.67, C:0.01, G:0.28, T:0.04
Consensus pattern (3 bp):
AGA
Found at i:57539907 original size:31 final size:31
Alignment explanation
Indices: 57539826--57539908 Score: 100
Period size: 29 Copynumber: 2.7 Consensus size: 31
57539816 CTTGGGCAGT
*
57539826 AGAAAAAGAAGAATAAGA-AAAGAAACAGAGA
1 AGAAGAAGAAGAATAAGAGAAA-AAACAGAGA
* *
57539857 AGAAGAAGAAGAATAAGA-AAAAGA-AGAGG
1 AGAAGAAGAAGAATAAGAGAAAAAACAGAGA
*
57539886 AGGAGAAGAAGAATAAGAGAAAA
1 AGAAGAAGAAGAATAAGAGAAAA
57539909 TGGAAGGAGA
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
29 21 0.45
30 6 0.13
31 20 0.43
ACGTcount: A:0.67, C:0.01, G:0.28, T:0.04
Consensus pattern (31 bp):
AGAAGAAGAAGAATAAGAGAAAAAACAGAGA
Found at i:57546425 original size:39 final size:36
Alignment explanation
Indices: 57546357--57546442 Score: 109
Period size: 39 Copynumber: 2.3 Consensus size: 36
57546347 ATAAATCAAC
* *
57546357 AATAATAATAACTAACAATAATTAGAGTTTTTTACT
1 AATAATAATAACCAACAATAATAAGAGTTTTTTACT
*
57546393 AATAATAATAACCAACAATCCTAATAATAGTTTTTTACT
1 AATAATAATAACCAACAA---TAATAAGAGTTTTTTACT
*
57546432 AACAATAATAA
1 AATAATAATAA
57546443 TAACTAACAA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
36 17 0.40
39 26 0.60
ACGTcount: A:0.50, C:0.12, G:0.03, T:0.35
Consensus pattern (36 bp):
AATAATAATAACCAACAATAATAAGAGTTTTTTACT
Found at i:57546443 original size:42 final size:39
Alignment explanation
Indices: 57546354--57546452 Score: 123
Period size: 36 Copynumber: 2.5 Consensus size: 39
57546344 AATATAAATC
*
57546354 AACAATAATAATAACTAACAATAATTAGAGTTTTTTACT
1 AACAATAATAATAACTAACAATAATAAGAGTTTTTTACT
* *
57546393 ---AATAATAATAACCAACAATCCTAATAATAGTTTTTTACT
1 AACAATAATAATAACTAACAA---TAATAAGAGTTTTTTACT
57546432 AACAATAATAATAACTAACAA
1 AACAATAATAATAACTAACAA
57546453 CAAAAAACAA
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
36 17 0.34
39 16 0.32
42 17 0.34
ACGTcount: A:0.52, C:0.13, G:0.03, T:0.32
Consensus pattern (39 bp):
AACAATAATAATAACTAACAATAATAAGAGTTTTTTACT
Found at i:57546506 original size:23 final size:25
Alignment explanation
Indices: 57546431--57546506 Score: 68
Period size: 26 Copynumber: 3.1 Consensus size: 25
57546421 AGTTTTTTAC
* *
57546431 TAACAATAATAAT-AACTAACAACAAA
1 TAACAATAAAAATCAAC-AATAA-AAA
* *
57546457 AAACAATAAAAATCAACAATAATAA
1 TAACAATAAAAATCAACAATAAAAA
*
57546482 TAACAGTAAAAA-C-ACAATAAAAA
1 TAACAATAAAAATCAACAATAAAAA
57546505 TA
1 TA
57546507 TAAAAATCTA
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
23 11 0.26
24 1 0.02
25 12 0.29
26 15 0.36
27 3 0.07
ACGTcount: A:0.68, C:0.13, G:0.01, T:0.17
Consensus pattern (25 bp):
TAACAATAAAAATCAACAATAAAAA
Found at i:57547251 original size:18 final size:18
Alignment explanation
Indices: 57547224--57547261 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
57547214 TTATTAAAAT
57547224 AAATGATAAAAGTTATAA
1 AAATGATAAAAGTTATAA
*
57547242 AAATGTTAAAAGTTATAA
1 AAATGATAAAAGTTATAA
57547260 AA
1 AA
57547262 TTTTTATCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.61, C:0.00, G:0.11, T:0.29
Consensus pattern (18 bp):
AAATGATAAAAGTTATAA
Found at i:57549377 original size:19 final size:19
Alignment explanation
Indices: 57549353--57549389 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
57549343 AAAGGTTGAG
* *
57549353 CCCTAATTTAAGTATTTAC
1 CCCTAAATTAAGAATTTAC
57549372 CCCTAAATTAAGAATTTA
1 CCCTAAATTAAGAATTTA
57549390 ACTTAAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (19 bp):
CCCTAAATTAAGAATTTAC
Found at i:57552953 original size:21 final size:21
Alignment explanation
Indices: 57552915--57552982 Score: 86
Period size: 21 Copynumber: 3.3 Consensus size: 21
57552905 GATCCAAGCT
57552915 GTGTGA-T-AGGGCACACACCC
1 GTGTGACTGAGGG-ACACACCC
*
57552935 ATGTGACTGAGGGACACACCC
1 GTGTGACTGAGGGACACACCC
* *
57552956 GTGTGACTGAGGGTCACGCCC
1 GTGTGACTGAGGGACACACCC
57552977 GTGTGA
1 GTGTGA
57552983 GCAGGCCGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
20 5 0.12
21 33 0.79
22 4 0.10
ACGTcount: A:0.22, C:0.26, G:0.34, T:0.18
Consensus pattern (21 bp):
GTGTGACTGAGGGACACACCC
Found at i:57554482 original size:44 final size:45
Alignment explanation
Indices: 57554429--57554531 Score: 127
Period size: 44 Copynumber: 2.3 Consensus size: 45
57554419 TGTCTTTGAC
* * *
57554429 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
** *
57554473 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATA-TTATAAT
*
57554519 ATAGACTTACATG
1 ATGGACTTACATG
57554532 GCTCATTTCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 33 0.66
46 17 0.34
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.34
Consensus pattern (45 bp):
ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
Found at i:57554534 original size:46 final size:44
Alignment explanation
Indices: 57554448--57554536 Score: 133
Period size: 46 Copynumber: 2.0 Consensus size: 44
57554438 CATGAATTAT
* *
57554448 TCCTGTCTCCAATGCCATATATAATATGGACTTACATGGCTCAA
1 TCCTGTCTCCAAAGCCATATATAATATAGACTTACATGGCTCAA
*
57554492 TCCTGTCTCCAAAGCCATATTTCTAATATAGACTTACATGGCTCA
1 TCCTGTCTCCAAAGCCATA--TATAATATAGACTTACATGGCTCA
57554537 TTTCTGTTCT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 18 0.45
46 22 0.55
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (44 bp):
TCCTGTCTCCAAAGCCATATATAATATAGACTTACATGGCTCAA
Found at i:57561773 original size:44 final size:45
Alignment explanation
Indices: 57561720--57561820 Score: 123
Period size: 44 Copynumber: 2.2 Consensus size: 45
57561710 TGTCTTTGAC
* * * *
57561720 ATGGACTTACATGAATTATTCTTGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
** *
57561764 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATA-TTATAAT
57561810 ATGGACTTACA
1 ATGGACTTACA
57561821 AGGCTCATTT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 32 0.67
46 16 0.33
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.35
Consensus pattern (45 bp):
ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
Found at i:57561826 original size:46 final size:44
Alignment explanation
Indices: 57561742--57561827 Score: 127
Period size: 46 Copynumber: 1.9 Consensus size: 44
57561732 GAATTATTCT
* *
57561742 TGTCTCCAATGCCATATATAATATGGACTTACATGGCTCAATCC
1 TGTCTCCAAAGCCATATATAATATGGACTTACAAGGCTCAATCC
*
57561786 TGTCTCCAAAGCCATATTTCTAATATGGACTTACAAGGCTCA
1 TGTCTCCAAAGCCATA--TATAATATGGACTTACAAGGCTCA
57561828 TTTCTGTTCT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 15 0.41
46 22 0.59
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.31
Consensus pattern (44 bp):
TGTCTCCAAAGCCATATATAATATGGACTTACAAGGCTCAATCC
Found at i:57564646 original size:23 final size:23
Alignment explanation
Indices: 57564619--57564784 Score: 208
Period size: 23 Copynumber: 7.2 Consensus size: 23
57564609 GGCTACATCT
57564619 CAGTGGTAGCTTCGGCTACAATA
1 CAGTGGTAGCTTCGGCTACAATA
*
57564642 TAGTGGTAGCTTCGGCTACAATA
1 CAGTGGTAGCTTCGGCTACAATA
* * *
57564665 CAATGGTAGCTTCAGCTAC-ATCT
1 CAGTGGTAGCTTCGGCTACAAT-A
*
57564688 CAGTGGTAGCTTCGGCTATAATA
1 CAGTGGTAGCTTCGGCTACAATA
* *
57564711 CAATGGTAGCTTTGGCTACAATA
1 CAGTGGTAGCTTCGGCTACAATA
**
57564734 CAGTGGTAGCTTCGGCTACGTTA
1 CAGTGGTAGCTTCGGCTACAATA
* * *
57564757 CAGTGATAGCTTCGGCTATATTA
1 CAGTGGTAGCTTCGGCTACAATA
57564780 CAGTG
1 CAGTG
57564785 TGACACTTTG
Statistics
Matches: 122, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
22 2 0.02
23 118 0.97
24 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (23 bp):
CAGTGGTAGCTTCGGCTACAATA
Found at i:57564721 original size:69 final size:69
Alignment explanation
Indices: 57564610--57564781 Score: 247
Period size: 69 Copynumber: 2.5 Consensus size: 69
57564600 GAATCTATAG
* * *
57564610 GCTACATCTCAGTGGTAGCTTCGGCTACAATATAGTGGTAGCTTCGGCTACAATACAATGGTAGC
1 GCTACATCTCAGTGGTAGCTTCGGCTATAATACAATGGTAGCTTCGGCTACAATACAATGGTAGC
57564675 TTCA
66 TTCA
* *
57564679 GCTACATCTCAGTGGTAGCTTCGGCTATAATACAATGGTAGCTTTGGCTACAATACAGTGGTAGC
1 GCTACATCTCAGTGGTAGCTTCGGCTATAATACAATGGTAGCTTCGGCTACAATACAATGGTAGC
*
57564744 TTCG
66 TTCA
* * *
57564748 GCTACGT-TACAGTGATAGCTTCGGCTATATTACA
1 GCTACATCT-CAGTGGTAGCTTCGGCTATAATACA
57564782 GTGTGACACT
Statistics
Matches: 93, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
68 1 0.01
69 92 0.99
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (69 bp):
GCTACATCTCAGTGGTAGCTTCGGCTATAATACAATGGTAGCTTCGGCTACAATACAATGGTAGC
TTCA
Found at i:57572385 original size:23 final size:22
Alignment explanation
Indices: 57572358--57572408 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
57572348 TGTGATAGGG
57572358 CACACCCTCATGTGACTAAGAGA
1 CACACCCT-ATGTGACTAAGAGA
* * *
57572381 CACA-CCTGTGTGACTAAGGGT
1 CACACCCTATGTGACTAAGAGA
57572402 CACACCC
1 CACACCC
57572409 GTGTGATTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 15 0.62
22 5 0.21
23 4 0.17
ACGTcount: A:0.29, C:0.33, G:0.20, T:0.18
Consensus pattern (22 bp):
CACACCCTATGTGACTAAGAGA
Found at i:57572392 original size:21 final size:21
Alignment explanation
Indices: 57572368--57572414 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
57572358 CACACCCTCA
*
57572368 TGTGACTAAGAGACACACCTG
1 TGTGACTAAGAGACACACCCG
* *
57572389 TGTGACTAAGGGTCACACCCG
1 TGTGACTAAGAGACACACCCG
57572410 TGTGA
1 TGTGA
57572415 TTAGGCCATG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.21
Consensus pattern (21 bp):
TGTGACTAAGAGACACACCCG
Found at i:57574345 original size:42 final size:42
Alignment explanation
Indices: 57574299--57574416 Score: 146
Period size: 43 Copynumber: 2.8 Consensus size: 42
57574289 TAGGGTTAGT
57574299 TGAGATTACGTGTAAGACCATATCTGGGATATGACATCGATA
1 TGAGATTACGTGTAAGACCATATCTGGGATATGACATCGATA
** * * *
57574341 TGAGATTTTGTGTAAGACCATAGCTGGGCTATTGGCATCGATA
1 TGAGATTACGTGTAAGACCATATCTGGGATA-TGACATCGATA
** * *
57574384 TGAGATCCCATGTAAGACCATATCTAGGATATG
1 TGAGATTACGTGTAAGACCATATCTGGGATATG
57574417 GCATTGGTAT
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
42 29 0.46
43 34 0.54
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.30
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTGGGATATGACATCGATA
Found at i:57574530 original size:20 final size:20
Alignment explanation
Indices: 57574502--57574548 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
57574492 CGGTAAAGTT
57574502 TAAGTTGTGAAAGACTATGG
1 TAAGTTGTGAAAGACTATGG
* *
57574522 TATGTTGTGAAAGATTATGG
1 TAAGTTGTGAAAGACTATGG
57574542 TAAGTTG
1 TAAGTTG
57574549 CAAGTTTGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.32, C:0.02, G:0.30, T:0.36
Consensus pattern (20 bp):
TAAGTTGTGAAAGACTATGG
Found at i:57576580 original size:19 final size:19
Alignment explanation
Indices: 57576556--57576595 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
57576546 CTCGTTCCCC
*
57576556 TTCTTTTTGTTCTTTTCTT
1 TTCTTTTTGTTCTCTTCTT
57576575 TTCTTTTTGTTCTCTTCTT
1 TTCTTTTTGTTCTCTTCTT
57576594 TT
1 TT
57576596 TCGCCATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.00, C:0.17, G:0.05, T:0.78
Consensus pattern (19 bp):
TTCTTTTTGTTCTCTTCTT
Found at i:57584645 original size:13 final size:13
Alignment explanation
Indices: 57584623--57584672 Score: 73
Period size: 13 Copynumber: 3.8 Consensus size: 13
57584613 TGATAGTTTG
*
57584623 GTATGAATTTATAT
1 GTATG-ATTTGTAT
57584637 GTATGATTTGTAT
1 GTATGATTTGTAT
*
57584650 GTATGATTTGCAT
1 GTATGATTTGTAT
57584663 GTATGATTTG
1 GTATGATTTG
57584673 CTAATTATCT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
13 29 0.85
14 5 0.15
ACGTcount: A:0.26, C:0.02, G:0.22, T:0.50
Consensus pattern (13 bp):
GTATGATTTGTAT
Found at i:57588846 original size:48 final size:47
Alignment explanation
Indices: 57588789--57588942 Score: 195
Period size: 48 Copynumber: 3.3 Consensus size: 47
57588779 CCCAGATAGT
57588789 TCTTACACTAGCTTGTATATCTCGAGGCCGATGCATGTCCTAGACATG
1 TCTTACACTAGCTTGTATATCTCGAGGCCGATGCATGTCC-AGACATG
* ** * *
57588837 TCTTACACTAGC-TCT-CGTCTCAATGCCGATGCATGTCCCAGACATG
1 TCTTACACTAGCTTGTATATCTCGAGGCCGATGCATGT-CCAGACATG
* *
57588883 TCTTACATTGGCTTGTATATCTCGAGGCCGATGCATGTACCAGACATG
1 TCTTACACTAGCTTGTATATCTCGAGGCCGATGCATGT-CCAGACATG
*
57588931 TCTTACATTAGC
1 TCTTACACTAGC
57588943 ACACATATCA
Statistics
Matches: 89, Mismatches: 14, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
46 34 0.38
47 6 0.07
48 49 0.55
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (47 bp):
TCTTACACTAGCTTGTATATCTCGAGGCCGATGCATGTCCAGACATG
Found at i:57592283 original size:20 final size:19
Alignment explanation
Indices: 57592247--57592296 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
57592237 TATAACAACT
*
57592247 CACATTTTCAATTATTTCA
1 CACATTTACAATTATTTCA
*
57592266 CACATTTACAACTTATTTTA
1 CACATTTACAA-TTATTTCA
57592286 CA-ACTTTACAA
1 CACA-TTTACAA
57592297 AATAGCCATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.36, C:0.22, G:0.00, T:0.42
Consensus pattern (19 bp):
CACATTTACAATTATTTCA
Found at i:57594332 original size:40 final size:40
Alignment explanation
Indices: 57594131--57594318 Score: 306
Period size: 40 Copynumber: 4.7 Consensus size: 40
57594121 ATTCGGATTG
57594131 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
57594170 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
57594210 ATAATCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
57594250 ATAACCGGGCTAAGTCCCGAAAGTAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
57594290 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
57594319 AACGAGTAGC
Statistics
Matches: 136, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 13 0.10
40 123 0.90
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:57606586 original size:28 final size:28
Alignment explanation
Indices: 57606546--57606617 Score: 81
Period size: 28 Copynumber: 2.5 Consensus size: 28
57606536 GACAAGTGGC
* **
57606546 AAAAAATGTAAAAAATATTTTAATTTAT
1 AAAAAATATAAAAAATATTACAATTTAT
* *
57606574 AAAAAATATAAAAATTATTACAATTTTT
1 AAAAAATATAAAAAATATTACAATTTAT
*
57606602 TAAAAATATATAAAAA
1 AAAAAATATA-AAAAA
57606618 CATTGAACAT
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
28 32 0.89
29 4 0.11
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (28 bp):
AAAAAATATAAAAAATATTACAATTTAT
Found at i:57609088 original size:16 final size:15
Alignment explanation
Indices: 57609063--57609092 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
57609053 ATTAAATTAA
57609063 TTAACTAAATGCAAG
1 TTAACTAAATGCAAG
57609078 TTAACCTAAATGCAA
1 TTAA-CTAAATGCAA
57609093 ATGCAAATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.47, C:0.17, G:0.10, T:0.27
Consensus pattern (15 bp):
TTAACTAAATGCAAG
Found at i:57611880 original size:90 final size:90
Alignment explanation
Indices: 57611702--57611871 Score: 209
Period size: 89 Copynumber: 1.9 Consensus size: 90
57611692 ATCGATAAGT
* * * *
57611702 GATTTCGTATAAGACCATGACTGGGACATGGCATCGATATGAGGTCTCGTATAAGACCATGTCTG
1 GATTTCGTATAAGACCATGACTGGGACATGGCATCGATAGGAGGTCTCATATAAGACAATGTCTA
*
57611767 GGGCATGGCGTTGGCAATGATTTGA
66 GGACATGGCGTTGGCAATGATTTGA
* * * * * *
57611792 GATTTTGTATAAGACCAT-ATTTGGGATATGGCATCGAT-GGTGGTCTTATGTAAGACAATGTCT
1 GATTTCGTATAAGACCATGA-CTGGGACATGGCATCGATAGGAGGTCTCATATAAGACAATGTCT
*
57611855 AGGACATGGCTTTGGCA
65 AGGACATGGCGTTGGCA
57611872 CCCTATTTGG
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
89 34 0.51
90 33 0.49
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.31
Consensus pattern (90 bp):
GATTTCGTATAAGACCATGACTGGGACATGGCATCGATAGGAGGTCTCATATAAGACAATGTCTA
GGACATGGCGTTGGCAATGATTTGA
Found at i:57614557 original size:22 final size:22
Alignment explanation
Indices: 57614529--57614578 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
57614519 CTAGTGCTGG
**
57614529 GAATGCTTGACCCAATAGACTA
1 GAATGCTCAACCCAATAGACTA
*
57614551 GAATGCTCAACCCAATAGACTG
1 GAATGCTCAACCCAATAGACTA
57614573 GAATGC
1 GAATGC
57614579 CCCCAGTATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (22 bp):
GAATGCTCAACCCAATAGACTA
Found at i:57620891 original size:40 final size:40
Alignment explanation
Indices: 57620559--57620882 Score: 499
Period size: 40 Copynumber: 8.1 Consensus size: 40
57620549 AACCCAAGTA
* * *
57620559 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* * *
57620598 CCTTTGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
57620638 CCTTCGGGACTTAGCCCGGATATAGTAACTCA-CACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACT-AGCACAAATG
* *
57620678 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
57620718 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* * *
57620758 CCTTCGGTACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
57620798 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
57620838 CCTTCAGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
57620878 CCTTC
1 CCTTC
57620883 AGATCTTAGT
Statistics
Matches: 260, Mismatches: 22, Indels: 5
0.91 0.08 0.02
Matches are distributed among these distances:
39 13 0.05
40 246 0.95
41 1 0.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:57622320 original size:13 final size:13
Alignment explanation
Indices: 57622304--57622331 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
57622294 TTTATTATTT
57622304 TTAACACAAAATA
1 TTAACACAAAATA
57622317 TTAACACAAAATA
1 TTAACACAAAATA
57622330 TT
1 TT
57622332 TATAATATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (13 bp):
TTAACACAAAATA
Found at i:57625903 original size:47 final size:47
Alignment explanation
Indices: 57625840--57626171 Score: 495
Period size: 47 Copynumber: 7.1 Consensus size: 47
57625830 GAAATGATAG
* *
57625840 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
57625887 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
57625934 TAAGGCCAAATGGCCGATGTGATGAATGTGAAGGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
57625981 TAAGGCCTAATAGCCGATGTGATGAATGTGAAGGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
57626028 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
57626075 TAAGGTCTAATGGCCGATGTG-TGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
57626121 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
57626168 TAAG
1 TAAG
57626172 TCCCGAAGGG
Statistics
Matches: 263, Mismatches: 21, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
46 39 0.15
47 224 0.85
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:57626347 original size:37 final size:37
Alignment explanation
Indices: 57626290--57626368 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
57626280 CCGAGCTCTA
* * *
57626290 AAGACCCGATGACTATGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTATGTGTGGAGATTATGTCCGGGT
57626327 AAGACCCGATAACT-TCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTAT-GTGTGGAGATTATGTCCGGGT
57626364 AAGAC
1 AAGAC
57626369 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 1 0.03
37 37 0.97
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTATGTGTGGAGATTATGTCCGGGT
Found at i:57630127 original size:44 final size:43
Alignment explanation
Indices: 57629994--57630133 Score: 126
Period size: 42 Copynumber: 3.3 Consensus size: 43
57629984 TCCCAGACGT
* *
57629994 GGTCTTACATGT-AATTCAATATCGATGCCTCTGTCCTAGACAG
1 GGTCTTACACGTAAATTCAA-ATCGATGCCTGTGTCCTAGACAG
** * * * * *
57630037 TCTCTTACACG-AAA-TCAGATACGATGTC-GATGTCCCAAACAT
1 GGTCTTACACGTAAATTCAAAT-CGATGCCTG-TGTCCTAGACAG
*
57630079 GGTCTTACACGTAAATCTCAAATCGAAGCCTGTGTCCTAGACAG
1 GGTCTTACACGTAAAT-TCAAATCGATGCCTGTGTCCTAGACAG
57630123 GGTCTTACACG
1 GGTCTTACACG
57630134 ATATTTCAGA
Statistics
Matches: 73, Mismatches: 17, Indels: 13
0.71 0.17 0.13
Matches are distributed among these distances:
41 2 0.03
42 27 0.37
43 13 0.18
44 25 0.34
45 6 0.08
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (43 bp):
GGTCTTACACGTAAATTCAAATCGATGCCTGTGTCCTAGACAG
Found at i:57641799 original size:18 final size:18
Alignment explanation
Indices: 57641776--57641834 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
57641766 TAGCCCATTT
*
57641776 CAGTAATAGTAATCAGTG
1 CAGTAACAGTAATCAGTG
* *
57641794 CAGTAACCA-TGATCAATG
1 CAGTAA-CAGTAATCAGTG
57641812 CAGTAACAGTAATCAGTG
1 CAGTAACAGTAATCAGTG
57641830 CAGTA
1 CAGTA
57641835 TGTAAACAGA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
17 2 0.06
18 31 0.91
19 1 0.03
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (18 bp):
CAGTAACAGTAATCAGTG
Found at i:57642121 original size:23 final size:23
Alignment explanation
Indices: 57642093--57642142 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
57642083 ACCCTATACA
57642093 ATGCAACATA-ATATTATACATGG-
1 ATGCAACATACATA-TA-ACATGGC
57642116 ATGCAACATACATATAACATGGC
1 ATGCAACATACATATAACATGGC
57642139 ATGC
1 ATGC
57642143 TCAAATACAG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.24
23 16 0.64
24 3 0.12
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (23 bp):
ATGCAACATACATATAACATGGC
Found at i:57642267 original size:27 final size:27
Alignment explanation
Indices: 57642232--57642578 Score: 435
Period size: 27 Copynumber: 12.8 Consensus size: 27
57642222 CAAGGTTATT
57642232 TCGTCCATTTTATCACATAAGGGCAAAA
1 TCGT-CATTTTATCACATAAGGGCAAAA
*
57642260 TCATCATTTTATCACATAAGGG-AAAA
1 TCGTCATTTTATCACATAAGGGCAAAA
* * *
57642286 TTCTTCATTTTATCACGTAAAGGCAAAA
1 -TCGTCATTTTATCACATAAGGGCAAAA
* * *
57642314 TTGTCATCTTATCACCTAAGGGCAAAA
1 TCGTCATTTTATCACATAAGGGCAAAA
* * * *
57642341 TTGTCATTTTATCACCTAAAGACAAAA
1 TCGTCATTTTATCACATAAGGGCAAAA
* *
57642368 TCGTCATTTTATCACGTAAGAGCAAAA
1 TCGTCATTTTATCACATAAGGGCAAAA
* *
57642395 TCGTCATTTTATCATATAAAGGCAAAA
1 TCGTCATTTTATCACATAAGGGCAAAA
* * **
57642422 TTGTCATTTTATCACATAAAGTTAAAA
1 TCGTCATTTTATCACATAAGGGCAAAA
* *
57642449 TCATCATTTTATCACATACGGGCAAAA
1 TCGTCATTTTATCACATAAGGGCAAAA
* *
57642476 TCGTCATTTTATCATATTAGGGCAAAA
1 TCGTCATTTTATCACATAAGGGCAAAA
*
57642503 TCGTCATTTTATCACATAAGGTCAAAA
1 TCGTCATTTTATCACATAAGGGCAAAA
57642530 TCGTCATTTTATCACATAAGGGCAAAA
1 TCGTCATTTTATCACATAAGGGCAAAA
* *
57642557 TTGTCATTTTATCACATGAGGG
1 TCGTCATTTTATCACATAAGGG
57642579 TTCAGGTACG
Statistics
Matches: 276, Mismatches: 41, Indels: 5
0.86 0.13 0.02
Matches are distributed among these distances:
26 4 0.01
27 265 0.96
28 7 0.03
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.33
Consensus pattern (27 bp):
TCGTCATTTTATCACATAAGGGCAAAA
Found at i:57646290 original size:41 final size:40
Alignment explanation
Indices: 57646237--57646406 Score: 152
Period size: 41 Copynumber: 4.2 Consensus size: 40
57646227 AGTCCGACTC
* *
57646237 TTAG-CACCGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGA
* * *
57646276 TTAGACTACTGGCTCGAAGGCCCTTCGAAACTAAG-TCCGG-
1 TTAGAC-ACTGGCTCAAAAGCCCTTCGAAACCAAGCT-CGGA
* *
57646316 TTATGACACTGGCTCTAAAAAGCCCTTCGAAACTAAGTTCGGTTA
1 TTA-GACACTGGCTC--AAAAGCCCTTCGAAACCAAGCTCGG--A
*
57646361 TTAG-CACTGGCTCAAAAGCCCTTC-AAGACCAAGCTCGAA
1 TTAGACACTGGCTCAAAAGCCCTTCGAA-ACCAAGCTCGGA
57646400 TTTAGAC
1 -TTAGAC
57646407 CCCGATTAGC
Statistics
Matches: 108, Mismatches: 10, Indels: 24
0.76 0.07 0.17
Matches are distributed among these distances:
39 5 0.05
40 19 0.18
41 49 0.45
42 21 0.19
43 10 0.09
44 1 0.01
45 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (40 bp):
TTAGACACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGA
Found at i:57646344 original size:42 final size:41
Alignment explanation
Indices: 57646239--57646384 Score: 156
Period size: 41 Copynumber: 3.5 Consensus size: 41
57646229 TCCGACTCTT
* * *
57646239 AGCACCGGCTCAAAAGCCCTTCGAGACCAAG-CTCGGATTA-G
1 AGCACTGGCTCAAAAGCCCTTCGAAACTAAGTC-CGG-TTATG
* *
57646280 A-CTACTGGCTCGAAGGCCCTTCGAAACTAAGTCCGGTTATG
1 AGC-ACTGGCTCAAAAGCCCTTCGAAACTAAGTCCGGTTATG
* *
57646321 A-CACTGGCTCTAAAAAGCCCTTCGAAACTAAGTTCGGTTATT
1 AGCACTGGCTC--AAAAGCCCTTCGAAACTAAGTCCGGTTATG
57646363 AGCACTGGCTCAAAAGCCCTTC
1 AGCACTGGCTCAAAAGCCCTTC
57646385 AAGACCAAGC
Statistics
Matches: 90, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
40 12 0.13
41 41 0.46
42 28 0.31
43 9 0.10
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (41 bp):
AGCACTGGCTCAAAAGCCCTTCGAAACTAAGTCCGGTTATG
Found at i:57655427 original size:48 final size:48
Alignment explanation
Indices: 57655323--57655445 Score: 124
Period size: 48 Copynumber: 2.6 Consensus size: 48
57655313 AAATCTCATG
* * *
57655323 TAAGACCATGTCTGGGACATGGCATCGGCATCGATACGTGATACCGTG
1 TAAGACCATATCTGGGACATGGCATCGGCATCGATAAGTGATACCGTA
* * * * **
57655371 TAAAACCATAT-TAGGGATATGGCTTCGGCATTGATAAGTGATTTCGTA
1 TAAGACCATATCT-GGGACATGGCATCGGCATCGATAAGTGATACCGTA
*
57655419 TAAGACCATGA-CTGGGACATGGTATCG
1 TAAGACCAT-ATCTGGGACATGGCATCG
57655446 ATATGAGGTC
Statistics
Matches: 59, Mismatches: 13, Indels: 6
0.76 0.17 0.08
Matches are distributed among these distances:
47 1 0.02
48 56 0.95
49 2 0.03
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (48 bp):
TAAGACCATATCTGGGACATGGCATCGGCATCGATAAGTGATACCGTA
Found at i:57658892 original size:54 final size:54
Alignment explanation
Indices: 57658803--57658991 Score: 297
Period size: 54 Copynumber: 3.5 Consensus size: 54
57658793 CGTCTTACGG
*
57658803 CGGGATTACCAGTCCAAGCTAAATCCCCTGAAGTAATAACTCATAGAGCAATGT
1 CGGGATTACCAGTCCAAGCTAAATCCCCTGTAGTAATAACTCATAGAGCAATGT
* * * *
57658857 CAGGATTACCAGTCCAGGCTAAATCCCCCGTAGTAATAACTCATAGAGCAATAT
1 CGGGATTACCAGTCCAAGCTAAATCCCCTGTAGTAATAACTCATAGAGCAATGT
* **
57658911 CGGGATTACCAGTCCAGGCTAAATTTCCTGTAGTAATAACTCATAGAGCAATGT
1 CGGGATTACCAGTCCAAGCTAAATCCCCTGTAGTAATAACTCATAGAGCAATGT
*
57658965 CGGGATTACCAATCCAAGCTAAATCCC
1 CGGGATTACCAGTCCAAGCTAAATCCC
57658992 TTTTAATGAC
Statistics
Matches: 121, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 121 1.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (54 bp):
CGGGATTACCAGTCCAAGCTAAATCCCCTGTAGTAATAACTCATAGAGCAATGT
Found at i:57675760 original size:18 final size:19
Alignment explanation
Indices: 57675737--57675780 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
57675727 TTCAATTTTC
57675737 TTTTCTTGTTAAAATT-AT
1 TTTTCTTGTTAAAATTCAT
* * *
57675755 TTTTCTTTTTCAATTTCAT
1 TTTTCTTGTTAAAATTCAT
57675774 TTTTCTT
1 TTTTCTT
57675781 TTTCATATTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.18, C:0.11, G:0.02, T:0.68
Consensus pattern (19 bp):
TTTTCTTGTTAAAATTCAT
Found at i:57675783 original size:20 final size:21
Alignment explanation
Indices: 57675753--57675805 Score: 85
Period size: 20 Copynumber: 2.7 Consensus size: 21
57675743 TGTTAAAATT
57675753 ATTTTTCTTTTTCA-ATT-TC
1 ATTTTTCTTTTTCATATTCTC
57675772 ATTTTTCTTTTTCATATTCTC
1 ATTTTTCTTTTTCATATTCTC
57675793 -TTTTTCTTTTTCA
1 ATTTTTCTTTTTCA
57675806 CAGACTTTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 14 0.44
20 16 0.50
21 2 0.06
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (21 bp):
ATTTTTCTTTTTCATATTCTC
Found at i:57675834 original size:14 final size:14
Alignment explanation
Indices: 57675810--57675842 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
57675800 TTTTCACAGA
57675810 CTTTCTCTTTTTTTT
1 CTTTCTC-TTTTTTT
57675825 CTTT-TCTTTTTTT
1 CTTTCTCTTTTTTT
57675838 CTTTC
1 CTTTC
57675843 ACACTCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 11 0.65
14 2 0.12
15 4 0.24
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (14 bp):
CTTTCTCTTTTTTT
Found at i:57677618 original size:20 final size:23
Alignment explanation
Indices: 57677593--57677642 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 23
57677583 AGCATCTATG
57677593 TGTTCACAC-AATA-A-TAAAAA
1 TGTTCACACTAATATATTAAAAA
57677613 TGTTCACACTAATATATTAAAAA
1 TGTTCACACTAATATATTAAAAA
57677636 TGGTTCA
1 T-GTTCA
57677643 TGAATTCAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 9 0.35
21 4 0.15
22 1 0.04
23 7 0.27
24 5 0.19
ACGTcount: A:0.46, C:0.14, G:0.08, T:0.32
Consensus pattern (23 bp):
TGTTCACACTAATATATTAAAAA
Found at i:57680466 original size:37 final size:37
Alignment explanation
Indices: 57680416--57680488 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
57680406 GATTTTTCCC
**
57680416 TTTTTATTTAGTTTATTACCAAATGGCCAAAATGCCA
1 TTTTTATTTAGTTTATTACCAAATAACCAAAATGCCA
*
57680453 TTTTTATTTAGTTTATTACCATATAACCAAAATGCC
1 TTTTTATTTAGTTTATTACCAAATAACCAAAATGCC
57680489 CTTCCTTACT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.33, C:0.16, G:0.08, T:0.42
Consensus pattern (37 bp):
TTTTTATTTAGTTTATTACCAAATAACCAAAATGCCA
Found at i:57688121 original size:19 final size:19
Alignment explanation
Indices: 57688084--57688121 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
57688074 ACCTGTCAGA
*
57688084 AGAAAATAAATGAAGAATT
1 AGAAAATAAATGAAAAATT
57688103 AGAAAATAAAAT-AAAAATT
1 AGAAAAT-AAATGAAAAATT
57688122 TAAATTGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (19 bp):
AGAAAATAAATGAAAAATT
Found at i:57698690 original size:25 final size:24
Alignment explanation
Indices: 57698662--57698714 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
57698652 TCTTGAGTGT
57698662 TTTTAGTACA-ATCTATCTATAGTA
1 TTTTAGTACATA-CTATCTATAGTA
*
57698686 GTTTTGGTACATACTATCTATAGTA
1 -TTTTAGTACATACTATCTATAGTA
57698711 TTTT
1 TTTT
57698715 CAGTTTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 4 0.15
25 21 0.81
26 1 0.04
ACGTcount: A:0.28, C:0.11, G:0.11, T:0.49
Consensus pattern (24 bp):
TTTTAGTACATACTATCTATAGTA
Found at i:57699802 original size:20 final size:20
Alignment explanation
Indices: 57699766--57699803 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
57699756 AATGCAATGC
57699766 AATGCAATATACAAATATAA
1 AATGCAATATACAAATATAA
*
57699786 AATGCTATA-ACATAATAT
1 AATGCAATATACA-AATAT
57699804 CATGCATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.11, G:0.05, T:0.29
Consensus pattern (20 bp):
AATGCAATATACAAATATAA
Found at i:57702751 original size:23 final size:23
Alignment explanation
Indices: 57702708--57702752 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
57702698 TAAACCCCTA
*
57702708 AAATGCATAATTTTATGATTTAT
1 AAATGCATAATATTATGATTTAT
*
57702731 AAATGCATGATATT-TGCATTTA
1 AAATGCATAATATTATG-ATTTA
57702753 CTGATGGTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.38, C:0.07, G:0.11, T:0.44
Consensus pattern (23 bp):
AAATGCATAATATTATGATTTAT
Found at i:57715365 original size:37 final size:37
Alignment explanation
Indices: 57715315--57715393 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
57715305 TTATTACGAA
* *
57715315 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
57715352 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
57715389 GTCTT
1 GTCTT
57715394 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:57715629 original size:47 final size:47
Alignment explanation
Indices: 57715512--57716030 Score: 943
Period size: 47 Copynumber: 11.1 Consensus size: 47
57715502 CCCTTCGGGA
* * * * * * *
57715512 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
**
57715559 C-CGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57715605 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57715652 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57715699 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57715746 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57715793 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57715840 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57715887 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57715934 CTTATCACATATATACACTTTCACATTCATCACATCGG-CATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57715980 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57716027 CTTA
1 CTTA
57716031 CTATCATTTC
Statistics
Matches: 459, Mismatches: 11, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
46 83 0.18
47 376 0.82
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:57722865 original size:27 final size:27
Alignment explanation
Indices: 57722801--57722866 Score: 69
Period size: 29 Copynumber: 2.4 Consensus size: 27
57722791 TCTGAAATGG
* **
57722801 AAAGATATTGAATATGTTTTGGGTGAA
1 AAAGATATTGAATATCTTTTCAGTGAA
* *
57722828 AAAGTATTATTGAATGTCTTTTCATTGAA
1 AAAG-A-TATTGAATATCTTTTCAGTGAA
57722857 AAAGATATTG
1 AAAGATATTG
57722867 TGCTTTTGCC
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
27 9 0.28
28 2 0.06
29 21 0.66
ACGTcount: A:0.38, C:0.03, G:0.20, T:0.39
Consensus pattern (27 bp):
AAAGATATTGAATATCTTTTCAGTGAA
Found at i:57726438 original size:16 final size:15
Alignment explanation
Indices: 57726410--57726439 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
57726400 AACTTATTCT
57726410 TATATATTAACATGA
1 TATATATTAACATGA
57726425 TATATATATAACATG
1 TATATAT-TAACATG
57726440 TCGATATAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (15 bp):
TATATATTAACATGA
Found at i:57731106 original size:8 final size:8
Alignment explanation
Indices: 57731089--57731122 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
57731079 AATTTTATGT
*
57731089 TTAATGTA
1 TTAATATA
57731097 TTAATATA
1 TTAATATA
57731105 TTAATATA
1 TTAATATA
*
57731113 TTAATTTA
1 TTAATATA
57731121 TT
1 TT
57731123 TTAATTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (8 bp):
TTAATATA
Found at i:57733463 original size:24 final size:24
Alignment explanation
Indices: 57733430--57733506 Score: 136
Period size: 24 Copynumber: 3.2 Consensus size: 24
57733420 AAGGCTATCA
*
57733430 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
57733454 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
57733478 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
57733502 GGAGA
1 GGAGA
57733507 ATGGTGTTGG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.34, C:0.04, G:0.42, T:0.21
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:57734975 original size:27 final size:27
Alignment explanation
Indices: 57734935--57735045 Score: 118
Period size: 27 Copynumber: 4.1 Consensus size: 27
57734925 AGGAAGCGTC
*
57734935 CTGGTGGCTATGCCACATTTATCTAATT
1 CTGGTGGCTCTGCCACATTTATCT-ATT
* *
57734963 -TGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTATT
* *
57734989 CTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTATT
* * * *
57735016 CTGGTGACTGTGTCACA-TTATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTATT
57735042 CTGG
1 CTGG
57735046 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 15 0.20
27 59 0.80
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.39
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTTATCTATT
Found at i:57735021 original size:54 final size:53
Alignment explanation
Indices: 57734935--57735045 Score: 143
Period size: 54 Copynumber: 2.1 Consensus size: 53
57734925 AGGAAGCGTC
* *
57734935 CTGGTGGCTATGCCACATTTATCTAATTTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTAATTTGGTGACTCTGCCACAT-TATCTGTT
* * * *
57734989 CTGGTGGCTCTGCCACAATTATCT-GTTCTGGTGACTGTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAATTATCTAATT-TGGTGACTCTGCCACATTATCTGTT
57735042 CTGG
1 CTGG
57735046 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
53 14 0.28
54 36 0.72
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.39
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATTATCTAATTTGGTGACTCTGCCACATTATCTGTT
Found at i:57742762 original size:47 final size:47
Alignment explanation
Indices: 57742705--57743055 Score: 486
Period size: 47 Copynumber: 7.4 Consensus size: 47
57742695 ATTGATGTAC
*
57742705 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
* **
57742752 AAGTATATATATATGTGATAGGGCCGAGTGGCCAACATGATGAATGTGA
1 AAG--TGTATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
* *
57742801 AAGTATATATATATGTGATAGGGCCGAGTGGCCAACGTGATGAATGTGA
1 AAG--TGTATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
* * *
57742850 AAGTGTATATATGTGATAGGGTCGAGTGACCAACGTGATGAATGTGA
1 AAGTGTATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
* *
57742897 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
* * * * *
57742944 AAGTGTATATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
* * *
57742991 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGA
1 AAGTGTATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
*
57743038 AAGTGTATAAATGTGATA
1 AAGTGTATATATGTGATA
57743056 AGTCCCGAAG
Statistics
Matches: 283, Mismatches: 19, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
47 190 0.67
49 93 0.33
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
AAGTGTATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
Found at i:57745549 original size:38 final size:38
Alignment explanation
Indices: 57745485--57745558 Score: 105
Period size: 38 Copynumber: 1.9 Consensus size: 38
57745475 AATCCGAGTT
*
57745485 TAAAGACCCGCTGACTATATGAAGAGATTATGTCCGGG
1 TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
* *
57745523 TAAAGACCCGATGGCTATGT-ACAGAGATTATGTCCG
1 TAAAGACCCGATGACTATATGA-AGAGATTATGTCCG
57745559 ATTAAAATTC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 31 0.97
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
Found at i:57745906 original size:39 final size:40
Alignment explanation
Indices: 57745619--57745976 Score: 534
Period size: 40 Copynumber: 9.1 Consensus size: 40
57745609 ACGATGTGTG
57745619 GAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAA
1 GAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAA
57745659 GAGCATTC-TGCTAGATGATG-AT-CGGGCTAAGTCCCGAA
1 GAGCATTCGTGCTAG-TGATGTATCCGGGCTAAGTCCCGAA
57745697 GAGCATT--TGCTAGTGATGTAT-CGGGCTAAGTCCCGAA
1 GAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAA
*
57745734 GAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAA
1 GAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAA
* *
57745774 GAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAA
1 GAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAA
*
57745814 GAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAA
1 GAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAA
* *
57745854 GAGCATTCATGCTAGTGATGTATCCGGGCTAAGT-TCGAA
1 GAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAA
* * *
57745893 GAGCATTCGTGCTAGTGATATATCCGTGCTAA-ACCCGAA
1 GAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAA
* * * *
57745932 GAGCATTCGTGCTGGTGTTATATCCGGGCTAGGTCCCGAA
1 GAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAA
57745972 GAGCA
1 GAGCA
57745977 ATCATGCTGG
Statistics
Matches: 294, Mismatches: 17, Indels: 14
0.90 0.05 0.04
Matches are distributed among these distances:
36 5 0.02
37 31 0.11
38 23 0.08
39 87 0.30
40 148 0.50
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
GAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAA
Found at i:57749373 original size:47 final size:47
Alignment explanation
Indices: 57749316--57749619 Score: 437
Period size: 47 Copynumber: 6.4 Consensus size: 47
57749306 ATTGATGTAC
* * *
57749316 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * * *
57749363 AAGTATATATATATGTGATAGGGCCGAGTGGCCAACGTGATGAATGTGA
1 AAG--TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * * * *
57749412 AAGTGTATATATGTGATAGGGTCGAGTGACCAACGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
57749459 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * *
57749506 AAGTGTATATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
57749553 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
57749600 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
57749620 TCCCGAAGGG
Statistics
Matches: 238, Mismatches: 17, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
47 192 0.81
49 46 0.19
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:57751795 original size:27 final size:28
Alignment explanation
Indices: 57751692--57751800 Score: 118
Period size: 27 Copynumber: 4.0 Consensus size: 28
57751682 AAGCGTTCTG
*
57751692 GTGGCTCTGCCACAAATATCT-AATCTA
1 GTGGCTCTGCCACAAATATCTGTATCTA
* * *
57751719 GTGCCTTTGCCACAAATATCTGTTTCTA
1 GTGGCTCTGCCACAAATATCTGTATCTA
* *
57751747 GTGGCTTTGCCAC-AATATCTGTATCTG
1 GTGGCTCTGCCACAAATATCTGTATCTA
* *
57751774 GTGACTCTGTCAC-AATATCTGT-TCTA
1 GTGGCTCTGCCACAAATATCTGTATCTA
57751800 G
1 G
57751801 CAGCCATGCT
Statistics
Matches: 70, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
26 4 0.06
27 50 0.71
28 16 0.23
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (28 bp):
GTGGCTCTGCCACAAATATCTGTATCTA
Found at i:57751795 original size:54 final size:54
Alignment explanation
Indices: 57751686--57751800 Score: 135
Period size: 55 Copynumber: 2.1 Consensus size: 54
57751676 TTGATGAAGC
* * *
57751686 GTTCTGGTGGCTCTGCCACAAATATCTAATCTAGTGCCTTTGCCACAAATATCT
1 GTTCTAGTGGCTCTGCCACAAATATCTAATCTAGTGACTCTGCCACAAATATCT
* * * *
57751740 GTTTCTAGTGGCTTTGCCAC-AATATCTGTATCTGGTGACTCTGTCAC-AATATCT
1 G-TTCTAGTGGCTCTGCCACAAATATCT-AATCTAGTGACTCTGCCACAAATATCT
57751794 GTTCTAG
1 GTTCTAG
57751801 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
53 6 0.12
54 16 0.31
55 30 0.58
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (54 bp):
GTTCTAGTGGCTCTGCCACAAATATCTAATCTAGTGACTCTGCCACAAATATCT
Found at i:57753840 original size:21 final size:21
Alignment explanation
Indices: 57753811--57753850 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
57753801 AATAAAATTT
57753811 TATGAATTTTCACTTAGTACA
1 TATGAATTTTCACTTAGTACA
*
57753832 TATGTATTTTCACTTAGTA
1 TATGAATTTTCACTTAGTA
57753851 AATTTCCCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.47
Consensus pattern (21 bp):
TATGAATTTTCACTTAGTACA
Found at i:57754112 original size:50 final size:50
Alignment explanation
Indices: 57754042--57754265 Score: 207
Period size: 50 Copynumber: 4.5 Consensus size: 50
57754032 GTATGCATAA
* * *
57754042 TAGCCTGGACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAC
1 TAGCCTGCACTTAGTACTACACACGCGACCTATCAATCTGGTACACGTAG
* * * * * * *
57754092 TAGCCTGCACTTAGTGCTACACACGTGACTTAACCATCTGATACAAGTAG
1 TAGCCTGCACTTAGTACTACACACGCGACCTATCAATCTGGTACACGTAG
* * * ** * * * *
57754142 TATCCTACACTTAGTACTACACACGTGATCGAAGTTAA-CGGGTACGCATAG
1 TAGCCTGCACTTAGTACTACACACGCGA-CCTA-TCAATCTGGTACACGTAG
* * * * *
57754193 TAGCCTACACTTACTACTACACATGCGACCTATCGATCTGGTACATGTAG
1 TAGCCTGCACTTAGTACTACACACGCGACCTATCAATCTGGTACACGTAG
57754243 TAGCCTGCACTTAGTACTACACA
1 TAGCCTGCACTTAGTACTACACA
57754266 AGTGACTCAC
Statistics
Matches: 134, Mismatches: 37, Indels: 6
0.76 0.21 0.03
Matches are distributed among these distances:
49 2 0.01
50 97 0.72
51 34 0.25
52 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.26
Consensus pattern (50 bp):
TAGCCTGCACTTAGTACTACACACGCGACCTATCAATCTGGTACACGTAG
Found at i:57754112 original size:101 final size:102
Alignment explanation
Indices: 57753935--57754124 Score: 242
Period size: 101 Copynumber: 1.9 Consensus size: 102
57753925 TCTCTGGCAC
* * * * * * *
57753935 GCATAGTAGCCTGCACTTAGTACTACACATGTGACTAAACCATTTGATATACGTAGTTGCCTAGA
1 GCATAATAGCCTGCACTTAGTACTACACATGCGACTAAACAATCTGATACACGTACTAGCCTAGA
57754000 CTTAGTACTACACACGTGA-TTAAAGTTAACGGGTAT
66 CTTAGTACTACACACGTGACTTAAAGTTAACGGGTAT
* * *
57754036 GCATAATAGCCTGGACTTAGTACTACACATGCGACCT-ATCAATCTGGTACACGTACTAGCCT-G
1 GCATAATAGCCTGCACTTAGTACTACACATGCGA-CTAAACAATCTGATACACGTACTAGCCTAG
*
57754099 CACTTAGTGCTACACACGTGACTTAA
65 -ACTTAGTACTACACACGTGACTTAA
57754125 CCATCTGATA
Statistics
Matches: 75, Mismatches: 11, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
100 1 0.01
101 68 0.91
102 6 0.08
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (102 bp):
GCATAATAGCCTGCACTTAGTACTACACATGCGACTAAACAATCTGATACACGTACTAGCCTAGA
CTTAGTACTACACACGTGACTTAAAGTTAACGGGTAT
Found at i:57754186 original size:101 final size:101
Alignment explanation
Indices: 57754081--57754270 Score: 236
Period size: 101 Copynumber: 1.9 Consensus size: 101
57754071 CTATCAATCT
* * * * * * *
57754081 GGTACACGTACTAGCCTGCACTTAGTGCTACACACGTGACTTAACCATCTGATACAAGTAGTATC
1 GGTACACATACTAGCCTACACTTACTACTACACACGCGACCTAACCATCTGATACAAGTAGTAGC
*
57754146 CTACACTTAGTACTACACACGTGATCGAAGTTAACG
66 CTACACTTAGTACTACACAAGTGATCGAAGTTAACG
* * * * * * *
57754182 GGTACGCATAGTAGCCTACACTTACTACTACACATGCGACCTATCGATCTGGTACATGTAGTAGC
1 GGTACACATACTAGCCTACACTTACTACTACACACGCGACCTAACCATCTGATACAAGTAGTAGC
*
57754247 CTGCACTTAGTACTACACAAGTGA
66 CTACACTTAGTACTACACAAGTGA
57754271 CTCACAACGA
Statistics
Matches: 73, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
101 73 1.00
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (101 bp):
GGTACACATACTAGCCTACACTTACTACTACACACGCGACCTAACCATCTGATACAAGTAGTAGC
CTACACTTAGTACTACACAAGTGATCGAAGTTAACG
Found at i:57754205 original size:151 final size:151
Alignment explanation
Indices: 57753941--57754272 Score: 486
Period size: 151 Copynumber: 2.2 Consensus size: 151
57753931 GCACGCATAG
* * * * *
57753941 TAGCCTGCACTTAGTACTACACATGTGACTAAACCATTTGATATACGTAGTTGCCTAGACTTAGT
1 TAGCCTGCACTTAGTACTACACAAGTGACTAAACCATCTGATACAAGTAGTTGCCTACACTTAGT
* * ** *
57754006 ACTACACACGTGATTAAAGTTAACGGGTATGCATAATAGCCTGGACTTAGTACTACACATGCGAC
66 ACTACACACGTGATCAAAGTTAACGGGTACGCATAATAGCCTACACTTACTACTACACATGCGAC
57754071 CTATCAATCTGGTACACGTAC
131 CTATCAATCTGGTACACGTAC
* * *
57754092 TAGCCTGCACTTAGTGCTACACACGTGACTTAACCATCTGATACAAGTAGTAT-CCTACACTTAG
1 TAGCCTGCACTTAGTACTACACAAGTGACTAAACCATCTGATACAAGTAGT-TGCCTACACTTAG
* *
57754156 TACTACACACGTGATCGAAGTTAACGGGTACGCATAGTAGCCTACACTTACTACTACACATGCGA
65 TACTACACACGTGATCAAAGTTAACGGGTACGCATAATAGCCTACACTTACTACTACACATGCGA
* * *
57754221 CCTATCGATCTGGTACATGTAG
130 CCTATCAATCTGGTACACGTAC
57754243 TAGCCTGCACTTAGTACTACACAAGTGACT
1 TAGCCTGCACTTAGTACTACACAAGTGACT
57754273 CACAACGAAT
Statistics
Matches: 161, Mismatches: 19, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
151 160 0.99
152 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.27
Consensus pattern (151 bp):
TAGCCTGCACTTAGTACTACACAAGTGACTAAACCATCTGATACAAGTAGTTGCCTACACTTAGT
ACTACACACGTGATCAAAGTTAACGGGTACGCATAATAGCCTACACTTACTACTACACATGCGAC
CTATCAATCTGGTACACGTAC
Found at i:57755142 original size:30 final size:30
Alignment explanation
Indices: 57755095--57755152 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
57755085 TTCCCGAGCC
57755095 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
* * *
57755125 TAGGGGCAAAA-TGGTAATTTTGTAAAAG
1 TAGGGGAAAAAGT-GTAATTATGCAAAAG
57755153 CCCGTATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.41, C:0.03, G:0.28, T:0.28
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAATTATGCAAAAGTT
Found at i:57755881 original size:49 final size:49
Alignment explanation
Indices: 57755802--57756002 Score: 224
Period size: 49 Copynumber: 4.1 Consensus size: 49
57755792 GCTATTGTGA
57755802 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * * * *
57755851 GGTCGCATGTGTAGTCCTAAGTCCAGGCTACTATGCGTACCTGATAACTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* ** * **
57755901 CGATCACGTGTGT-GTACTAAGTGCAGGCTACTACAAGTATCAGATGGTTT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-AATT
* * *
57755951 GGTCACGTGTGTAGTACTAACTGGAGGCTACTACGTGTACCGGATAATT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
57756000 GGT
1 GGT
57756003 TGTAACACCC
Statistics
Matches: 120, Mismatches: 28, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
49 56 0.47
50 55 0.46
51 9 0.08
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.29
Consensus pattern (49 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:57755932 original size:50 final size:49
Alignment explanation
Indices: 57755804--57756000 Score: 198
Period size: 50 Copynumber: 4.0 Consensus size: 49
57755794 TATTGTGAGG
* *
57755804 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGA
* * * * * *
57755853 TCGCATGTGTAGTCCTAAGTCCAGGCTACTATGCGTACCTGATAACTTCGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA-TT-GA
** * ** *
57755904 TCACGTGTGT-GTACTAAGTGCAGGCTACTACAAGTATCAGATGGTTTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGAT-AATTGA
* * * *
57755953 TCACGTGTGTAGTACTAACTGGAGGCTACTACGTGTACCGGATAATTG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTG
57756001 GTTGTAACAC
Statistics
Matches: 116, Mismatches: 28, Indels: 8
0.76 0.18 0.05
Matches are distributed among these distances:
49 52 0.45
50 55 0.47
51 9 0.08
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (49 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGA
Found at i:57755979 original size:100 final size:100
Alignment explanation
Indices: 57755804--57755997 Score: 246
Period size: 100 Copynumber: 1.9 Consensus size: 100
57755794 TATTGTGAGG
** * *
57755804 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTCCT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACAAGTACCAGATAATTGGTCACATGTGTAGTACT
* * *
57755869 AAGTCCAGGCTACTATGCGTACCTGATAACTTCGA
66 AACTCCAGGCTACTACGCGTACCGGATAACTTCGA
* ** *
57755904 TCACGTGTGT-GTACTAAGTGCAGGCTACTACAAGTATCAGATGGTTTGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACAAGTACCAGAT-AATTGGTCACATGTGTAGTAC
** *
57755968 TAACTGGAGGCTACTACGTGTACCGGATAA
65 TAACTCCAGGCTACTACGCGTACCGGATAA
57755998 TTGGTTGTAA
Statistics
Matches: 79, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
99 29 0.37
100 50 0.63
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACAAGTACCAGATAATTGGTCACATGTGTAGTACT
AACTCCAGGCTACTACGCGTACCGGATAACTTCGA
Found at i:57757448 original size:79 final size:79
Alignment explanation
Indices: 57757349--57757568 Score: 205
Period size: 79 Copynumber: 2.8 Consensus size: 79
57757339 CTCGTTCAAG
* * ** * *
57757349 TGCCTTCGGGACATAGCCCGGTCATAGTAACTCATTC-AATGCCTTCGGGACTTAACCCGGATTT
1 TGCCTTCGGGACATAACCCGG-AATAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGA-AT
*
57757413 TAA-AACTCGCACGAA
64 TAATAACTCGCACAAA
* * * *
57757428 TGCCTTCGGGACTTAACCCGGAATTGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATTA
1 TGCCTTCGGGACATAACCCGGAATAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATTA
57757493 ATAACTCGCACAAA
66 ATAACTCGCACAAA
* * ** * * *
57757507 TACCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGA-CATAACCCGGA-ATAGTAACTCA-CACAAAGGCCTTCGGGACTTAACCCGGA
57757569 CAGCATTCAA
Statistics
Matches: 116, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
78 16 0.14
79 68 0.59
80 26 0.22
81 6 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
TGCCTTCGGGACATAACCCGGAATAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATTA
ATAACTCGCACAAA
Found at i:57757528 original size:40 final size:40
Alignment explanation
Indices: 57757386--57757568 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 40
57757376 TAACTCATTC
* *
57757386 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
57757426 AATGCCTTCGGGACTTAACCCGGAATT-GTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
57757465 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
57757505 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
57757546 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
57757569 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 16, Indels: 13
0.81 0.11 0.09
Matches are distributed among these distances:
39 41 0.34
40 68 0.57
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:57765265 original size:39 final size:39
Alignment explanation
Indices: 57765217--57765379 Score: 100
Period size: 40 Copynumber: 4.1 Consensus size: 39
57765207 CGGAATTTAA
* * *
57765217 CCGGATATAGCT-CCTCGTTCAAGTGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCATTCAA-TGCCTTCGGGACATAAC
*
57765257 CCGG-TATAGTAACTCATTCAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCATTCAATGCCTTCGGGACATAAC
* * *** *
57765295 CCGGATTTTA-AAACTCGCACGAATGCCTTCGGGACTTAAC
1 CCGGA-TATAGTAACTCATTC-AATGCCTTCGGGACATAAC
* *** * *
57765335 CCGGA-ATTAGTATCTCGCACAAAGGCCTTCGGGACTTAAC
1 CCGGATA-TAGTAACTCATTC-AATGCCTTCGGGACATAAC
57765375 CCGGA
1 CCGGA
57765380 ATTAATAACT
Statistics
Matches: 103, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
38 20 0.19
39 21 0.20
40 62 0.60
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
CCGGATATAGTAACTCATTCAATGCCTTCGGGACATAAC
Found at i:57765378 original size:80 final size:80
Alignment explanation
Indices: 57765279--57765459 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
57765269 CTCATTCAAT
* * *
57765279 GCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-A
1 GCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA
*
57765341 TTAGT-A-TCTCGCACAAA
64 -TAGTCACT-TAGCACAAA
**
57765358 GGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATAT
1 -GCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATACCTTCGGATCTTAACCCGGATAT
57765423 AGTCACTTAGCACAAA
65 AGTCACTTAGCACAAA
*
57765439 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
57765460 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:57765419 original size:40 final size:40
Alignment explanation
Indices: 57765276--57765459 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
57765266 TAACTCATTC
* *
57765276 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
57765316 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
57765356 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
57765396 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
57765437 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
57765460 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:57769731 original size:38 final size:38
Alignment explanation
Indices: 57769667--57769741 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
57769657 AATCCGAGTT
*
57769667 TAAAGACCCGCTGACTATATGAAGAGATTATGTCCGGG
1 TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
* *
57769705 TAAAGACCCGATGGCTATGT-ACAGAGATTATGTCCGG
1 TAAAGACCCGATGACTATATGA-AGAGATTATGTCCGG
57769742 ATTAAAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
Found at i:57769906 original size:40 final size:39
Alignment explanation
Indices: 57769795--57770120 Score: 449
Period size: 39 Copynumber: 8.3 Consensus size: 39
57769785 AGGTCTCGAC
*
57769795 GATG-ATCCGGGCTAAGTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCGAAGAGCATTCATGCTAGT
57769833 GATGTATCCGGGCTAAGTCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCGAAGAGCATTCATGCTAGT
57769872 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGT-CCGAAGAGCATTCATGCTAGT
*
57769912 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAG-TCCGAAGAGCATTCATGCTAGT
*
57769952 GATATATCC-GGCTAAGTCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCGAAGAGCATTCATGCTAGT
* *
57769990 GATGTATCCGGGCTAAGTTCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCGAAGAGCATTCATGCTAGT
* * ** * *
57770029 GATATATCCGTGCTAAACCCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCCGAAGAGCATTCATGCTAGT
* * * * *
57770068 GTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGT
1 GATGTATCCGGGCTAAGT-CCGAAGAGCATTCATGCTAGT
* *
57770108 GGTGTATTCGGGC
1 GATGTATCCGGGC
57770121 CTTCGTGCCT
Statistics
Matches: 260, Mismatches: 23, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
38 33 0.13
39 131 0.50
40 95 0.37
41 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (39 bp):
GATGTATCCGGGCTAAGTCCGAAGAGCATTCATGCTAGT
Found at i:57770297 original size:21 final size:23
Alignment explanation
Indices: 57770271--57770315 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
57770261 GTGTAATAAC
57770271 GAATGAATA-A-GCACTATGTGT
1 GAATGAATAGAGGCACTATGTGT
* *
57770292 GAATGATTAGAGGCACTGTGTGT
1 GAATGAATAGAGGCACTATGTGT
57770315 G
1 G
57770316 TGCGAATTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 1 0.05
23 11 0.55
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (23 bp):
GAATGAATAGAGGCACTATGTGT
Found at i:57773587 original size:47 final size:47
Alignment explanation
Indices: 57773469--57773767 Score: 427
Period size: 47 Copynumber: 6.3 Consensus size: 47
57773459 TGATGTAGTA
* * *
57773469 TATATATGTGATAGGGCCGAGTGGCCAACGTGATGAATGTGAAAGTATA
1 TATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAG--TG
* *
57773518 TATATATGTGATAGGGCCGAGTGGCCAACGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTG
* * * *
57773565 TATATATGTGATAGGGTCGAGTGACCAACGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTG
*
57773612 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTG
* * * *
57773659 TATATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTG
* *
57773706 TATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTG
*
57773753 TATAAATGTGATAAG
1 TATATATGTGATAAG
57773768 TCCCGAAGGG
Statistics
Matches: 234, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
47 189 0.81
49 45 0.19
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.27
Consensus pattern (47 bp):
TATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTG
Found at i:57782395 original size:31 final size:31
Alignment explanation
Indices: 57782354--57782445 Score: 139
Period size: 31 Copynumber: 3.0 Consensus size: 31
57782344 TATGGGGCAC
*
57782354 GCCCATGTGGGCAGACCGTGTGGTCACACAT
1 GCCCATGTGGGCAGGCCGTGTGGTCACACAT
* * * *
57782385 GCCCGTGTGGGTAGGCTGTGTGTTCACACAT
1 GCCCATGTGGGCAGGCCGTGTGGTCACACAT
57782416 GCCCATGTGGGCAGGCCGTGTGGTCACACA
1 GCCCATGTGGGCAGGCCGTGTGGTCACACA
57782446 CGTCCGTATC
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 52 1.00
ACGTcount: A:0.16, C:0.27, G:0.35, T:0.22
Consensus pattern (31 bp):
GCCCATGTGGGCAGGCCGTGTGGTCACACAT
Found at i:57787533 original size:17 final size:17
Alignment explanation
Indices: 57787493--57787534 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
57787483 CAAAATAGTT
*
57787493 TGTAAGAACAACTTATA
1 TGTAAGGACAACTTATA
57787510 TGTAAGGACAACTTATA
1 TGTAAGGACAACTTATA
57787527 TGTAAGGA
1 TGTAAGGA
57787535 GGTAGGACGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.29
Consensus pattern (17 bp):
TGTAAGGACAACTTATA
Found at i:57791985 original size:30 final size:30
Alignment explanation
Indices: 57791942--57792010 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
57791932 TAAAGATAAC
* *
57791942 AAGAAAACC-GAATAAAGGAATCTAAG-ATA
1 AAGAAACCCAGAATAAAGAAATC-AAGAATA
* *
57791971 GAGAAACCCAGAATAAAGAAATCCAGAATA
1 AAGAAACCCAGAATAAAGAAATCAAGAATA
57792001 AAGAAACCCA
1 AAGAAACCCA
57792011 AGATACGATA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 9 0.27
30 24 0.73
ACGTcount: A:0.58, C:0.16, G:0.16, T:0.10
Consensus pattern (30 bp):
AAGAAACCCAGAATAAAGAAATCAAGAATA
Found at i:57791996 original size:15 final size:15
Alignment explanation
Indices: 57791942--57792006 Score: 62
Period size: 15 Copynumber: 4.4 Consensus size: 15
57791932 TAAAGATAAC
*
57791942 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
* *
57791956 AAGGAATCTA-AGATA
1 AAGAAATCCAGA-ATA
* *
57791971 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
57791986 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
57792001 AAGAAA
1 AAGAAA
57792007 CCCAAGATAC
Statistics
Matches: 39, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
14 7 0.18
15 31 0.79
16 1 0.03
ACGTcount: A:0.60, C:0.12, G:0.17, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:57794721 original size:13 final size:13
Alignment explanation
Indices: 57794703--57794728 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
57794693 ATATTATAAT
57794703 TATTTTATGTTAA
1 TATTTTATGTTAA
57794716 TATTTTATGTTAA
1 TATTTTATGTTAA
57794729 AAATAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:57796156 original size:40 final size:40
Alignment explanation
Indices: 57796108--57796262 Score: 283
Period size: 40 Copynumber: 3.9 Consensus size: 40
57796098 GGACTAAGAT
57796108 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
57796148 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
57796188 CCGAAGGCATTTTTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
57796228 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCT
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCT
57796263 TTGTGCTAGT
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 110 1.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:57796265 original size:25 final size:25
Alignment explanation
Indices: 57796237--57796287 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
57796227 CCCGAAGGCA
57796237 TTTGTGCTAGTGATTATATCCGGGC
1 TTTGTGCTAGTGATTATATCCGGGC
57796262 TTTGTGCTAGTGATTATATCCGGGC
1 TTTGTGCTAGTGATTATATCCGGGC
57796287 T
1 T
57796288 AAGTCCCGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.16, C:0.16, G:0.27, T:0.41
Consensus pattern (25 bp):
TTTGTGCTAGTGATTATATCCGGGC
Found at i:57796320 original size:65 final size:65
Alignment explanation
Indices: 57796201--57796324 Score: 205
Period size: 65 Copynumber: 1.9 Consensus size: 65
57796191 AAGGCATTTT
* *
57796201 TGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTTTG
1 TGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTTTG
*
57796266 TGCTAGTGATTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTATATCCGG
1 TGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACTATATCCGG
57796325 CTAAATCCCG
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
65 53 0.96
66 2 0.04
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.31
Consensus pattern (65 bp):
TGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTTTG
Found at i:57799988 original size:27 final size:27
Alignment explanation
Indices: 57799933--57800040 Score: 139
Period size: 27 Copynumber: 4.0 Consensus size: 27
57799923 AGCATGGCTG
* **
57799933 CCAGAACAGATAA-TGTGACAGAGTGA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
57799959 CCAGAACAGATAATTGTGGCAAAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
57799986 CCAGAACAGAT-ATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* *
57800013 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
57800040 C
1 C
57800041 TAGGACGCTT
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 15 0.21
27 55 0.76
28 2 0.03
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.17
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:57800016 original size:54 final size:53
Alignment explanation
Indices: 57799933--57800040 Score: 162
Period size: 54 Copynumber: 2.0 Consensus size: 53
57799923 AGCATGGCTG
**
57799933 CCAGAACAGATAATGTGACAGAGTGACCAGAACAGATAATTGTGGCAAAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGAACAGATAATTGTGGCAAAGCCA
* * *
57799986 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGAACAGATAATTGTGGCAAAGCCA
57800040 C
1 C
57800041 TAGGACGCTT
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
53 12 0.24
54 37 0.76
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.17
Consensus pattern (53 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGAACAGATAATTGTGGCAAAGCCA
Found at i:57805987 original size:27 final size:27
Alignment explanation
Indices: 57805933--57806043 Score: 145
Period size: 27 Copynumber: 4.1 Consensus size: 27
57805923 AGCATGGCTT
* * *
57805933 CCAGAACAAATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
57805959 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
57805986 CCAGAACAGAT-ATATGTGGCAGAACCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* *
57806013 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
57806040 CCAG
1 CCAG
57806044 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 14 0.19
27 59 0.79
28 2 0.03
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.16
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:57816522 original size:43 final size:44
Alignment explanation
Indices: 57816474--57816629 Score: 167
Period size: 43 Copynumber: 3.6 Consensus size: 44
57816464 GTTATCGAGA
* * *
57816474 TGAGATTACATGTAAGACCATGTTTGGGACATTGGCATTG-TAT
1 TGAGATTACATGTAAGACCATGTCTGGGACAATGGCATCGATAT
* *
57816517 TGAGATTACATGTAAGACCATGTCTGGGACAATGGCATCGTTAA
1 TGAGATTACATGTAAGACCATGTCTGGGACAATGGCATCGATAT
* * * * *
57816561 T-CGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATAT
1 TGAGATTACATGTAAGACCATGTCTGGGACAATGGCATCGATAT
* *
57816604 GTGACA--ACATGTAAGACCATATCTGG
1 -TGAGATTACATGTAAGACCATGTCTGG
57816630 AATATGGCAT
Statistics
Matches: 93, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
43 88 0.95
44 4 0.04
45 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (44 bp):
TGAGATTACATGTAAGACCATGTCTGGGACAATGGCATCGATAT
Found at i:57818771 original size:39 final size:39
Alignment explanation
Indices: 57818727--57818978 Score: 432
Period size: 39 Copynumber: 6.5 Consensus size: 39
57818717 CGGGACTTTA
* * *
57818727 AGCCCGAATATAATACCAGCACAAATGCCTTCGGGGCTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTT
57818766 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTT
* *
57818805 AGCCCGGATATAACACCAACATGAATGCCTTCGGGGCTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTT
* *
57818844 AGCCCAGATATAACACCAGCACGAATGCCTTTGGGGCTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTT
57818883 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTT
57818922 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTT
*
57818961 AGCCCGAATATAACACCA
1 AGCCCGGATATAACACCA
57818979 AATCATATAA
Statistics
Matches: 201, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 201 1.00
ACGTcount: A:0.29, C:0.30, G:0.23, T:0.19
Consensus pattern (39 bp):
AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTT
Found at i:57820979 original size:19 final size:19
Alignment explanation
Indices: 57820955--57820995 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
57820945 GTTATAATAT
*
57820955 TAATATTCCTTTAATATTA
1 TAATATTCATTTAATATTA
*
57820974 TAATATTCATTTCATATTA
1 TAATATTCATTTAATATTA
57820993 TAA
1 TAA
57820996 AACAATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.51
Consensus pattern (19 bp):
TAATATTCATTTAATATTA
Done.