Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 50 of 204
Found at i:14596672 original size:18 final size:18
Alignment explanation
Indices: 14596639--14596678 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
14596629 TTTTTATTTG
*
14596639 TTATTATTTTTCTACCTT
1 TTATTATTTTTCTACCCT
14596657 TTATTA-TTTTCTTACCCT
1 TTATTATTTTTC-TACCCT
14596675 TTAT
1 TTAT
14596679 AAACCCCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.65
Consensus pattern (18 bp):
TTATTATTTTTCTACCCT
Found at i:14606072 original size:67 final size:66
Alignment explanation
Indices: 14605960--14606090 Score: 199
Period size: 67 Copynumber: 2.0 Consensus size: 66
14605950 TTTCCATTTC
**
14605960 AGAGAGCACACTCCTTCGAACCTCATCCTTACAGCAGGATTACCAGTCCAGGCTAAATCCCCTGC
1 AGAGAGCACACTCCCGCGAACCTCATCCTTACAGCAGGATTACCAGTCCAGGCTAAATCCCCTGC
14606025 A
66 A
* * * *
14606026 AGAGAGCACATTCCCGCGAACCTTATTCCTTATAGTAGGATTACCAGTCCAGGCTAAATCCCCTG
1 AGAGAGCACACTCCCGCGAACCTCA-TCCTTACAGCAGGATTACCAGTCCAGGCTAAATCCCCTG
14606091 TAATATAAAC
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
66 21 0.36
67 37 0.64
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (66 bp):
AGAGAGCACACTCCCGCGAACCTCATCCTTACAGCAGGATTACCAGTCCAGGCTAAATCCCCTGC
A
Found at i:14606310 original size:57 final size:56
Alignment explanation
Indices: 14606217--14606324 Score: 171
Period size: 57 Copynumber: 1.9 Consensus size: 56
14606207 AATTCGGATT
*
14606217 ACCCGTCCGGGCTAAATCCATTTCCACATATTCTTCGGGAGGGCTATATCAAGATC
1 ACCCGTCAGGGCTAAATCCATTTCCACATATTCTTCGGGAGGGCTATATCAAGATC
* **
14606273 ACCCGTCAGGGCTAGATCTTTTTCACACATATTCTTCGGGAGGGCTATATCA
1 ACCCGTCAGGGCTAAATCCATTTC-CACATATTCTTCGGGAGGGCTATATCA
14606325 GGATAGGATC
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
56 20 0.43
57 27 0.57
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (56 bp):
ACCCGTCAGGGCTAAATCCATTTCCACATATTCTTCGGGAGGGCTATATCAAGATC
Found at i:14610655 original size:171 final size:171
Alignment explanation
Indices: 14610365--14610695 Score: 509
Period size: 171 Copynumber: 1.9 Consensus size: 171
14610355 GACATGGTCG
* *
14610365 TGTGTCATTTGTGAGTTTCTTAGTGTACAAGTCAGAGAGTTACACAGCCTAGCACATGGCCTGGC
1 TGTGTCATTTGTGAGTTTCTTAGTATACAAGTCAGAGAGTTACACAGCCTAGCACATGGCCCGGC
* * * ** *
14610430 ATACGGGGGTGTAGGGCTACTTAGTGAGTTACACGAGTGTGGACATAAGCTGGGACACGGTCGTA
66 ACACGGGCGTGTAGGGCTACTCAGTGAGTTACACGAGTGACGACACAAGCTGGGACACGGTCGTA
**
14610495 TGTCCCTTGTTTGAAAGTTACACGGCCTGGCGACACAGCCA
131 TGTCCCTTGTTCAAAAGTTACACGGCCTGGCGACACAGCCA
* *
14610536 TGTGTCATTTGTGAGTTTCTTAGTATACAAGTCAGAGAGTTACACAGCTTAGCATATGGCCCGGC
1 TGTGTCATTTGTGAGTTTCTTAGTATACAAGTCAGAGAGTTACACAGCCTAGCACATGGCCCGGC
* * *
14610601 ACACGGGCGTGTGGGGCTACTCAGTGAGTTACACGAGTGACGACACAGGCTGGGACACGGTCGTG
66 ACACGGGCGTGTAGGGCTACTCAGTGAGTTACACGAGTGACGACACAAGCTGGGACACGGTCGTA
* *
14610666 TGTCCCTTGTTCAAAAGTTATATGGCCTGG
131 TGTCCCTTGTTCAAAAGTTACACGGCCTGG
14610696 GGTGATTTCA
Statistics
Matches: 143, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
171 143 1.00
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.27
Consensus pattern (171 bp):
TGTGTCATTTGTGAGTTTCTTAGTATACAAGTCAGAGAGTTACACAGCCTAGCACATGGCCCGGC
ACACGGGCGTGTAGGGCTACTCAGTGAGTTACACGAGTGACGACACAAGCTGGGACACGGTCGTA
TGTCCCTTGTTCAAAAGTTACACGGCCTGGCGACACAGCCA
Found at i:14616877 original size:20 final size:22
Alignment explanation
Indices: 14616854--14616897 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
14616844 AAAATATATT
14616854 AAAATATTTATAT-TTT-TTTG
1 AAAATATTTATATATTTGTTTG
14616874 AAAATATTTATATATTTGTTTG
1 AAAATATTTATATATTTGTTTG
14616896 AA
1 AA
14616898 TTTTTTAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 13 0.59
21 3 0.14
22 6 0.27
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.55
Consensus pattern (22 bp):
AAAATATTTATATATTTGTTTG
Found at i:14616890 original size:22 final size:20
Alignment explanation
Indices: 14616854--14616897 Score: 61
Period size: 22 Copynumber: 2.1 Consensus size: 20
14616844 AAAATATATT
*
14616854 AAAATATTTATATTTTTTTG
1 AAAATATTTATATTTGTTTG
14616874 AAAATATTTATATATTTGTTTG
1 AAAATA-TT-TATATTTGTTTG
14616896 AA
1 AA
14616898 TTTTTTAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.29
21 2 0.10
22 13 0.62
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.55
Consensus pattern (20 bp):
AAAATATTTATATTTGTTTG
Found at i:14618784 original size:23 final size:22
Alignment explanation
Indices: 14618745--14618793 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
14618735 TCATTTTGAT
14618745 TTTAATTTTAAAAATTTAGTAAA
1 TTTAATTTTAAAAATTTA-TAAA
*
14618768 TTTAACTTTT-AATATTTATAAA
1 TTTAA-TTTTAAAAATTTATAAA
14618790 TTTA
1 TTTA
14618794 CATTATTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 8 0.33
23 12 0.50
24 4 0.17
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (22 bp):
TTTAATTTTAAAAATTTATAAA
Found at i:14622351 original size:80 final size:82
Alignment explanation
Indices: 14622207--14622387 Score: 197
Period size: 82 Copynumber: 2.3 Consensus size: 82
14622197 AGTTGTTTTG
**
14622207 TTGTATTTTACATCAAT-A-ATATAC----TTATTTACAATCTAAGAAAAAGAATTTAAAAATTG
1 TTGTATTTTACATCAATAATATATACTTATTTATTTACAATCTAAGAAAAAGAATAAAAAAATTG
* *
14622266 -GTT-TATTGTATTTTA
66 CTTTATATTGTATTCTA
*
14622281 -T-TATTTTTCATACCAATAATATATACTTATTTATTTACAATCTAAGAAAAA-AATGAAAAAAA
1 TTGTATTTTACAT--CAATAATATATACTTATTTATTTACAATCTAAGAAAAAGAAT--AAAAAA
14622343 ATT-CTTTATATTGTATTCTA
62 ATTGCTTTATATTGTATTCTA
14622363 TTGTATTTTACATCAATAATATATA
1 TTGTATTTTACATCAATAATATATA
14622388 AATATTTACA
Statistics
Matches: 87, Mismatches: 6, Indels: 20
0.77 0.05 0.18
Matches are distributed among these distances:
72 9 0.10
73 1 0.01
74 4 0.05
75 1 0.01
76 6 0.07
79 3 0.03
80 21 0.24
81 9 0.10
82 23 0.26
83 1 0.01
84 9 0.10
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (82 bp):
TTGTATTTTACATCAATAATATATACTTATTTATTTACAATCTAAGAAAAAGAATAAAAAAATTG
CTTTATATTGTATTCTA
Found at i:14630636 original size:26 final size:26
Alignment explanation
Indices: 14630586--14630638 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
14630576 CAATATATGT
*
14630586 TATAATAATAAGAAATAAAATGAAAA
1 TATAATAATAAGAAATAAAAAGAAAA
*
14630612 TATAATTA-AAGAAATAATAAAGAAAA
1 TATAATAATAAGAAATAA-AAAGAAAA
14630638 T
1 T
14630639 GGAAAGAGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 9 0.38
26 15 0.62
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.25
Consensus pattern (26 bp):
TATAATAATAAGAAATAAAAAGAAAA
Found at i:14630676 original size:9 final size:9
Alignment explanation
Indices: 14630662--14630698 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
14630652 CATGCAAACT
14630662 AGAAAAGAA
1 AGAAAAGAA
14630671 AGAAAAGAA
1 AGAAAAGAA
14630680 A-AGAAAGAA
1 AGA-AAAGAA
14630689 AGAAAAGAA
1 AGAAAAGAA
14630698 A
1 A
14630699 AAGAGAATGC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 1 0.04
9 24 0.92
10 1 0.04
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (9 bp):
AGAAAAGAA
Found at i:14630677 original size:5 final size:5
Alignment explanation
Indices: 14630662--14630699 Score: 55
Period size: 5 Copynumber: 8.2 Consensus size: 5
14630652 CATGCAAACT
14630662 AGAAA AG-AA AGAAA AGAAA AG-AA AG-AA AGAAA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA A
14630700 AGAGAATGCA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 12 0.39
5 19 0.61
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:14630688 original size:18 final size:18
Alignment explanation
Indices: 14630665--14630699 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
14630655 GCAAACTAGA
14630665 AAAGAAAGAAAAGAAAAG
1 AAAGAAAGAAAAGAAAAG
14630683 AAAGAAAGAAAAGAAAA
1 AAAGAAAGAAAAGAAAA
14630700 AGAGAATGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (18 bp):
AAAGAAAGAAAAGAAAAG
Found at i:14631860 original size:20 final size:19
Alignment explanation
Indices: 14631807--14631852 Score: 67
Period size: 18 Copynumber: 2.4 Consensus size: 19
14631797 GACAAAGTTA
*
14631807 AGAAATGAAA-ATGAGATG
1 AGAAATGAAATATGAAATG
14631825 AGAAATGAAATATGAAATG
1 AGAAATGAAATATGAAATG
14631844 ATGAAATGA
1 A-GAAATGA
14631853 GATGTGAATC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 10 0.40
19 8 0.32
20 7 0.28
ACGTcount: A:0.57, C:0.00, G:0.24, T:0.20
Consensus pattern (19 bp):
AGAAATGAAATATGAAATG
Found at i:14640497 original size:16 final size:15
Alignment explanation
Indices: 14640476--14640505 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
14640466 AATAAAATAC
14640476 AACAACATTTATTAAT
1 AACAACATTT-TTAAT
14640492 AACAACATTTTTAA
1 AACAACATTTTTAA
14640506 GTTGAAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (15 bp):
AACAACATTTTTAAT
Found at i:14652163 original size:34 final size:34
Alignment explanation
Indices: 14652092--14652270 Score: 141
Period size: 34 Copynumber: 5.3 Consensus size: 34
14652082 CAAATGTATG
* * * * *
14652092 ATAAGCAAGTTTATTGCTACCGTA-ATGATCTGCT
1 ATAAGCATGTTAATTGCTACTGTATA-GATTTGTT
*
14652126 ATAAGCATGTTAATTGTTACTGTATCAG-TTTGTT
1 ATAAGCATGTTAATTGCTACTGTAT-AGATTTGTT
* * * *
14652160 ATAAGCATGTTTATTGCTACTATA-ATGATCTATT
1 ATAAGCATGTTAATTGCTACTGTATA-GATTTGTT
* * * * *
14652194 ATAAGCATGATAATTGTTATTGTATTGACTTGTT
1 ATAAGCATGTTAATTGCTACTGTATAGATTTGTT
* *
14652228 ATAAGCATGTT-ATTACTACTGTATTGATTTGTT
1 ATAAGCATGTTAATTGCTACTGTATAGATTTGTT
*
14652261 ATAAGTATGT
1 ATAAGCATGT
14652271 CATGTTGCAT
Statistics
Matches: 114, Mismatches: 26, Indels: 11
0.75 0.17 0.07
Matches are distributed among these distances:
32 1 0.01
33 28 0.25
34 83 0.73
35 1 0.01
36 1 0.01
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.44
Consensus pattern (34 bp):
ATAAGCATGTTAATTGCTACTGTATAGATTTGTT
Found at i:14652201 original size:68 final size:68
Alignment explanation
Indices: 14652092--14652270 Score: 218
Period size: 68 Copynumber: 2.6 Consensus size: 68
14652082 CAAATGTATG
* * * *
14652092 ATAAGCAAGTTTATTGCTACCGTAATGATCTGCTATAAGCATGTTAATTGTTACTGTATCAG-TT
1 ATAAGCATGTTTATTGCTACTGTAATGATCTGTTATAAGCATGTTAATTGTTACTGTAT-AGACT
14652156 TGTT
65 TGTT
* * * * *
14652160 ATAAGCATGTTTATTGCTACTATAATGATCTATTATAAGCATGATAATTGTTATTGTATTGACTT
1 ATAAGCATGTTTATTGCTACTGTAATGATCTGTTATAAGCATGTTAATTGTTACTGTATAGACTT
14652225 GTT
66 GTT
* * * *
14652228 ATAAGCATG-TTATTACTACTGTATTGATTTGTTATAAGTATGT
1 ATAAGCATGTTTATTGCTACTGTAATGATCTGTTATAAGCATGT
14652271 CATGTTGCAT
Statistics
Matches: 94, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
67 28 0.30
68 66 0.70
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.44
Consensus pattern (68 bp):
ATAAGCATGTTTATTGCTACTGTAATGATCTGTTATAAGCATGTTAATTGTTACTGTATAGACTT
GTT
Found at i:14652364 original size:24 final size:24
Alignment explanation
Indices: 14652337--14652405 Score: 93
Period size: 24 Copynumber: 2.9 Consensus size: 24
14652327 CTACAATGAC
*
14652337 CAGTGGTTCATCCACAACGTTTTT
1 CAGTGGTTCATCCACAACGTATTT
* *
14652361 CAGTGGTTCATCCACAATGCATTT
1 CAGTGGTTCATCCACAACGTATTT
* *
14652385 CAATGGTTTATCCACAACGTA
1 CAGTGGTTCATCCACAACGTA
14652406 CTAGTAACTT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (24 bp):
CAGTGGTTCATCCACAACGTATTT
Found at i:14653221 original size:13 final size:14
Alignment explanation
Indices: 14653197--14653230 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
14653187 GCTTCCAAAA
14653197 TTAAAGCAAATG-TT
1 TTAAA-CAAATGTTT
14653211 TTAAACAAATGTTT
1 TTAAACAAATGTTT
14653225 TTAAAC
1 TTAAAC
14653231 TTTGGTAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (14 bp):
TTAAACAAATGTTT
Found at i:14653870 original size:60 final size:61
Alignment explanation
Indices: 14653790--14653906 Score: 155
Period size: 60 Copynumber: 1.9 Consensus size: 61
14653780 GTTTTTGAAT
* * * *
14653790 TTTTAAAATTAAGACCAAATTGATAGAATTTGT-AAATATTGAAGATTAAATTTATTTAAA
1 TTTTAAAATTAAGACCAAATTGACAGAATGTGTAAAATATTAAAGACTAAATTTATTTAAA
* * * *
14653850 TTTTAAATTTATGACTAAATTGACAGAATGTGTAAAATATTAAATACTAAATTTATT
1 TTTTAAAATTAAGACCAAATTGACAGAATGTGTAAAATATTAAAGACTAAATTTATT
14653907 ATGCTAATAA
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
60 28 0.58
61 20 0.42
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.41
Consensus pattern (61 bp):
TTTTAAAATTAAGACCAAATTGACAGAATGTGTAAAATATTAAAGACTAAATTTATTTAAA
Found at i:14657004 original size:22 final size:22
Alignment explanation
Indices: 14656976--14657037 Score: 81
Period size: 22 Copynumber: 2.9 Consensus size: 22
14656966 ACGGGTTTAG
14656976 CACTTTTATGCTCTCTGTTCAA
1 CACTTTTATGCTCTCTGTTCAA
* *
14656998 CACTTTTGTGCTCTCTGTTTAA
1 CACTTTTATGCTCTCTGTTCAA
**
14657020 C-CTTCAATGCTCTCTGTT
1 CACTTTTATGCTCTCTGTT
14657038 TAGCACTACG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
21 14 0.40
22 21 0.60
ACGTcount: A:0.15, C:0.27, G:0.11, T:0.47
Consensus pattern (22 bp):
CACTTTTATGCTCTCTGTTCAA
Found at i:14657032 original size:21 final size:22
Alignment explanation
Indices: 14656983--14657044 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 22
14656973 TAGCACTTTT
* **
14656983 ATGCTCTCTGTTCAACACTTTT
1 ATGCTCTCTGTTTAACACTTCA
*
14657005 GTGCTCTCTGTTTAAC-CTTCA
1 ATGCTCTCTGTTTAACACTTCA
*
14657026 ATGCTCTCTGTTTAGCACT
1 ATGCTCTCTGTTTAACACT
14657045 ACGGTGCTCT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 17 0.52
22 16 0.48
ACGTcount: A:0.16, C:0.27, G:0.13, T:0.44
Consensus pattern (22 bp):
ATGCTCTCTGTTTAACACTTCA
Found at i:14657055 original size:22 final size:21
Alignment explanation
Indices: 14657005--14657056 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
14656995 CAACACTTTT
*
14657005 GTGCTCTCTGTTTAACCTTCA
1 GTGCTCTCTGTTTAACCTACA
* * *
14657026 ATGCTCTCTGTTTAGCACTACG
1 GTGCTCTCTGTTTAAC-CTACA
14657048 GTGCTCTCT
1 GTGCTCTCT
14657057 AGTGTGGTGT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 14 0.56
22 11 0.44
ACGTcount: A:0.13, C:0.29, G:0.17, T:0.40
Consensus pattern (21 bp):
GTGCTCTCTGTTTAACCTACA
Found at i:14658023 original size:20 final size:20
Alignment explanation
Indices: 14658000--14658050 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
14657990 CTTGTAAAGG
14658000 AGTATTGATACCATAATTCA
1 AGTATTGATACCATAATTCA
14658020 AGTATTGATACCATAATTCA
1 AGTATTGATACCATAATTCA
*
14658040 AGTATCGATAC
1 AGTATTGATAC
14658051 TTGGAGATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (20 bp):
AGTATTGATACCATAATTCA
Found at i:14661019 original size:27 final size:27
Alignment explanation
Indices: 14660952--14661019 Score: 93
Period size: 27 Copynumber: 2.6 Consensus size: 27
14660942 ATAACATAAA
*
14660952 GCAT-ACAGTCATTTTATAACATAGCG
1 GCATAACAGTCATTTTACAACATAGCG
* * *
14660978 GCATAACAATTATTTTACAACATAGGG
1 GCATAACAGTCATTTTACAACATAGCG
14661005 GCATAACAGTCATTT
1 GCATAACAGTCATTT
14661020 CATATCAGTT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
26 4 0.11
27 31 0.89
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.31
Consensus pattern (27 bp):
GCATAACAGTCATTTTACAACATAGCG
Found at i:14662090 original size:17 final size:17
Alignment explanation
Indices: 14662070--14662116 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
14662060 CACATTTTAT
14662070 ATTATTTATATTATTGA
1 ATTATTTATATTATTGA
14662087 ATTATTTAGTCA-TATTGA
1 ATTATTTA-T-ATTATTGA
14662105 A-TATTTATATTA
1 ATTATTTATATTA
14662117 AAATTGAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 1 0.04
16 3 0.11
17 14 0.52
18 8 0.30
19 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.55
Consensus pattern (17 bp):
ATTATTTATATTATTGA
Found at i:14677248 original size:25 final size:26
Alignment explanation
Indices: 14677220--14677282 Score: 60
Period size: 26 Copynumber: 2.4 Consensus size: 26
14677210 CATTTCAATT
14677220 ATGTGTTAATTTC-AAGACTTATGTA
1 ATGTGTTAATTTCAAAGACTTATGTA
*
14677245 A--TGTTAGTGATTCAAAGACTTATGTA
1 ATGTGTTAAT--TTCAAAGACTTATGTA
*
14677271 ATGCTTTTAATT
1 ATG-TGTTAATT
14677283 ATGTAGTGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 10
0.69 0.07 0.24
Matches are distributed among these distances:
23 6 0.21
25 4 0.14
26 13 0.45
27 1 0.03
29 5 0.17
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (26 bp):
ATGTGTTAATTTCAAAGACTTATGTA
Found at i:14677324 original size:9 final size:9
Alignment explanation
Indices: 14677295--14677350 Score: 51
Period size: 9 Copynumber: 6.2 Consensus size: 9
14677285 GTAGTGATTC
14677295 AATTCGGTT
1 AATTCGGTT
* *
14677304 AATTTGGGT
1 AATTCGGTT
14677313 AATTCGGTT
1 AATTCGGTT
14677322 AATTCAGG-T
1 AATTC-GGTT
* *
14677331 GATTCGGGT
1 AATTCGGTT
*
14677340 AATTCGATT
1 AATTCGGTT
14677349 AA
1 AA
14677351 CTAACCGAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
8 2 0.05
9 33 0.89
10 2 0.05
ACGTcount: A:0.27, C:0.09, G:0.25, T:0.39
Consensus pattern (9 bp):
AATTCGGTT
Found at i:14677335 original size:18 final size:18
Alignment explanation
Indices: 14677295--14677344 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
14677285 GTAGTGATTC
**
14677295 AATTCGGTTAATTTGGGT
1 AATTCGGTTAATTCAGGT
14677313 AATTCGGTTAATTCAGGT
1 AATTCGGTTAATTCAGGT
* *
14677331 GATTCGGGTAATTC
1 AATTCGGTTAATTC
14677345 GATTAACTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.24, C:0.10, G:0.26, T:0.40
Consensus pattern (18 bp):
AATTCGGTTAATTCAGGT
Found at i:14677696 original size:36 final size:38
Alignment explanation
Indices: 14677625--14677696 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 38
14677615 GGTTTAACAT
*
14677625 TACAATCTCCCTTAAGATTTATACCTCAAATCTTAATA
1 TACAATCTCCCTTAAGATTTATACCTCAAACCTTAATA
* **
14677663 TACAA-CTCCCTTAAGGTTT-TTTCTCAAACCTTAA
1 TACAATCTCCCTTAAGATTTATACCTCAAACCTTAA
14677697 GAATTAACCT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 12 0.40
37 13 0.43
38 5 0.17
ACGTcount: A:0.33, C:0.25, G:0.04, T:0.38
Consensus pattern (38 bp):
TACAATCTCCCTTAAGATTTATACCTCAAACCTTAATA
Found at i:14684763 original size:25 final size:25
Alignment explanation
Indices: 14684727--14684780 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
14684717 TGTCAAGAAT
*
14684727 GAGGCTGGAACAAGTAAACCAGATG
1 GAGGCTGAAACAAGTAAACCAGATG
14684752 GAGGCTGAAACAAGTAAACCAGATG
1 GAGGCTGAAACAAGTAAACCAGATG
14684777 GAGG
1 GAGG
14684781 TGGAACACAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.41, C:0.15, G:0.33, T:0.11
Consensus pattern (25 bp):
GAGGCTGAAACAAGTAAACCAGATG
Found at i:14687673 original size:15 final size:16
Alignment explanation
Indices: 14687638--14687680 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
14687628 CAAAAGACAT
14687638 AAATTTGAATTACACA
1 AAATTTGAATTACACA
14687654 AAATTTGAACTTA-A-A
1 AAATTTGAA-TTACACA
*
14687669 AAATTTTAATTA
1 AAATTTGAATTA
14687681 TCAACTCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 3 0.12
15 9 0.36
16 10 0.40
17 3 0.12
ACGTcount: A:0.51, C:0.07, G:0.05, T:0.37
Consensus pattern (16 bp):
AAATTTGAATTACACA
Found at i:14688861 original size:19 final size:18
Alignment explanation
Indices: 14688837--14688874 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
14688827 ATATATTTTT
*
14688837 TATTTTTAAATTTTAAAA
1 TATTTTTTAATTTTAAAA
*
14688855 TATTTTTTATTTTTAAAA
1 TATTTTTTAATTTTAAAA
14688873 TA
1 TA
14688875 AAATTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TATTTTTTAATTTTAAAA
Found at i:14688876 original size:23 final size:23
Alignment explanation
Indices: 14688822--14688895 Score: 87
Period size: 25 Copynumber: 3.1 Consensus size: 23
14688812 CCGAATATAT
14688822 AATAAATATATTTTTTATTTTTAA
1 AATAAA-ATATTTTTTATTTTTAA
*
14688846 ATTTTAAAATATTTTTTATTTTTAA
1 A--ATAAAATATTTTTTATTTTTAA
*
14688871 AATAAAAT-TTTTTTGTTTATTAA
1 AATAAAATATTTTTTATTT-TTAA
14688894 AA
1 AA
14688896 AAATTGCCCG
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
22 9 0.20
23 12 0.27
24 1 0.02
25 18 0.41
26 4 0.09
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (23 bp):
AATAAAATATTTTTTATTTTTAA
Found at i:14696971 original size:26 final size:26
Alignment explanation
Indices: 14696942--14696992 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
14696932 CCCGATATAT
14696942 GGCTCTTTGTGAGCTT-CTCGATTAAA
1 GGCTCTTTGTGAGCTTCCT-GATTAAA
*
14696968 GGCTCTTTGTGGGCTTCCTGATTAA
1 GGCTCTTTGTGAGCTTCCTGATTAA
14696993 TGGTTCTCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 21 0.91
27 2 0.09
ACGTcount: A:0.16, C:0.20, G:0.25, T:0.39
Consensus pattern (26 bp):
GGCTCTTTGTGAGCTTCCTGATTAAA
Found at i:14697078 original size:24 final size:22
Alignment explanation
Indices: 14697051--14697129 Score: 61
Period size: 24 Copynumber: 3.4 Consensus size: 22
14697041 TGGCTATCCA
*
14697051 GAGCTTCCCGTTAATGGCTCTT
1 GAGCTTCCCATTAATGGCTCTT
* *
14697073 CGGAGCTACCCATTATTGGCTCGCTT
1 --GAGCTTCCCATTAATGGCT--CTT
*
14697099 GAGCTTCCAATT-ATGGCTCTTAT
1 GAGCTTCCCATTAATGGCTC-T-T
14697122 GAGCTTCC
1 GAGCTTCC
14697130 TGTTATATGG
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
21 1 0.02
22 1 0.02
23 14 0.31
24 26 0.58
26 3 0.07
ACGTcount: A:0.16, C:0.28, G:0.22, T:0.34
Consensus pattern (22 bp):
GAGCTTCCCATTAATGGCTCTT
Found at i:14702138 original size:28 final size:29
Alignment explanation
Indices: 14701995--14702156 Score: 100
Period size: 28 Copynumber: 5.4 Consensus size: 29
14701985 TTTATAACAG
*
14701995 ATCCC-AA-TTTTTTTTGT--ATAAGTTC
1 ATCCCAAACTTTTTTTTGTGAATAAATTC
* *
14702020 ACCCCAAACTTTTTTCTTGTGTCAACAAATTC
1 ATCCCAAACTTTTTT-TTGTG--AATAAATTC
* * * * *
14702052 TTCCCGAACTTTGTTTTTTTGTATAGATATGTAG
1 ATCCCAAACTTT-TTTTTGTGAATA-A-AT-T-C
* *
14702086 ATCTCAAACTTTTTTTTTTGTGAATAAGTTC
1 ATCCCAAAC--TTTTTTTTGTGAATAAATTC
14702117 ATCCCAAACTTTTTTTT-TGAATAAATTC
1 ATCCCAAACTTTTTTTTGTGAATAAATTC
*
14702145 CTCCCAAACTTT
1 ATCCCAAACTTT
14702157 AATTCTTCCT
Statistics
Matches: 103, Mismatches: 20, Indels: 25
0.70 0.14 0.17
Matches are distributed among these distances:
25 4 0.04
26 2 0.02
27 6 0.06
28 25 0.24
29 8 0.08
30 2 0.02
31 9 0.09
32 22 0.21
33 5 0.05
34 7 0.07
35 10 0.10
36 3 0.03
ACGTcount: A:0.26, C:0.19, G:0.09, T:0.46
Consensus pattern (29 bp):
ATCCCAAACTTTTTTTTGTGAATAAATTC
Found at i:14702425 original size:38 final size:38
Alignment explanation
Indices: 14702383--14702457 Score: 107
Period size: 39 Copynumber: 2.0 Consensus size: 38
14702373 ATAAATATAC
* *
14702383 ATTTTTT-ATTTTTTAATAATTTTAAAATAAATTTAATA
1 ATTTTTTGAATTTTTAAAAATTTTAAAAT-AATTTAATA
*
14702421 ATTTTTTGAATTTTTAAAAATTTTAAAATGATTTAAT
1 ATTTTTTGAATTTTTAAAAATTTTAAAATAATTTAAT
14702458 TGTTTATGTG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 14 0.42
39 19 0.58
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (38 bp):
ATTTTTTGAATTTTTAAAAATTTTAAAATAATTTAATA
Found at i:14704863 original size:21 final size:21
Alignment explanation
Indices: 14704815--14704869 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
14704805 TACGGCTGTA
*
14704815 TTTCTCAGCCACACGGGCGTG
1 TTTCTCAGCCACACGGGCATG
** * *
14704836 TACCTCAGTCACACGGTCATG
1 TTTCTCAGCCACACGGGCATG
*
14704857 TTTCTCAACCACA
1 TTTCTCAGCCACA
14704870 AGGGTGTGTG
Statistics
Matches: 25, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.22, C:0.35, G:0.18, T:0.25
Consensus pattern (21 bp):
TTTCTCAGCCACACGGGCATG
Found at i:14720876 original size:21 final size:19
Alignment explanation
Indices: 14720851--14720915 Score: 58
Period size: 21 Copynumber: 3.2 Consensus size: 19
14720841 AAAAAGATTT
14720851 ATTTTAAAAAATATATATAAA
1 ATTTTAAAAAAT-TAT-TAAA
* *
14720872 GTTTTAAAACATTATTAAA
1 ATTTTAAAAAATTATTAAA
*
14720891 ATTTATAAAAATATTTAATAAA
1 ATTT-TAAAAA-A-TTATTAAA
14720913 ATT
1 ATT
14720916 CAAAACAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
19 7 0.19
20 8 0.22
21 11 0.31
22 10 0.28
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (19 bp):
ATTTTAAAAAATTATTAAA
Found at i:14721313 original size:31 final size:30
Alignment explanation
Indices: 14721278--14721351 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 30
14721268 AAATTTATTA
*
14721278 TTTTAGTCACTCTAGTTAGTTGAATTTCATG
1 TTTTAGTCACTCTA-TTAGTTAAATTTCATG
* *
14721309 TTTTAGTCACTTCTATTTGTTAAATTTCTTG
1 TTTTAGTCAC-TCTATTAGTTAAATTTCATG
*
14721340 TTTTAGCCACTC
1 TTTTAGTCACTC
14721352 CTCATTAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 2 0.05
31 32 0.84
32 4 0.11
ACGTcount: A:0.20, C:0.16, G:0.12, T:0.51
Consensus pattern (30 bp):
TTTTAGTCACTCTATTAGTTAAATTTCATG
Found at i:14730892 original size:43 final size:42
Alignment explanation
Indices: 14730832--14730928 Score: 142
Period size: 43 Copynumber: 2.2 Consensus size: 42
14730822 TTCCTAAAAG
14730832 ATAATATCCATTAGGAATCAAATTGCT-AAGAGATAATATCAT
1 ATAATATCCATTAGGAATCAAATTGCTAAAG-GATAATATCAT
14730874 ATAATATTCCATTAGGAATCAAATTGCTAAAGGATAATATACCAT
1 ATAATA-TCCATTAGGAATCAAATTGCTAAAGGATAATAT--CAT
14730919 AATAATATCC
1 -ATAATATCC
14730929 TAACATCCTC
Statistics
Matches: 50, Mismatches: 0, Indels: 7
0.88 0.00 0.12
Matches are distributed among these distances:
42 6 0.12
43 29 0.58
44 3 0.06
45 6 0.12
46 6 0.12
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.31
Consensus pattern (42 bp):
ATAATATCCATTAGGAATCAAATTGCTAAAGGATAATATCAT
Found at i:14733131 original size:14 final size:15
Alignment explanation
Indices: 14733107--14733139 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
14733097 CGAAGATCAT
14733107 CAAACAAGATATAAG
1 CAAACAAGATATAAG
14733122 CAAA-AAGATATAAG
1 CAAACAAGATATAAG
14733136 CAAA
1 CAAA
14733140 TTTCTCTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.64, C:0.12, G:0.12, T:0.12
Consensus pattern (15 bp):
CAAACAAGATATAAG
Found at i:14735624 original size:40 final size:40
Alignment explanation
Indices: 14735533--14735626 Score: 107
Period size: 40 Copynumber: 2.4 Consensus size: 40
14735523 TCTGCATCAC
* **
14735533 TGGTGGCTTGTCCACATTACTGGTAGCTTGTCTGTAATAT
1 TGGTGGCTTGTCCACATTACTGGCAGCTTGTCTACAATAT
* * * * *
14735573 TCGTGGCTTGTCCACATTTCTGGCAGTTTTTCTACATTAT
1 TGGTGGCTTGTCCACATTACTGGCAGCTTGTCTACAATAT
*
14735613 TGGTGGTTTGTCCA
1 TGGTGGCTTGTCCA
14735627 TAAGCTGGTG
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.15, C:0.19, G:0.23, T:0.43
Consensus pattern (40 bp):
TGGTGGCTTGTCCACATTACTGGCAGCTTGTCTACAATAT
Found at i:14735729 original size:24 final size:24
Alignment explanation
Indices: 14735697--14735744 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
14735687 GTTGGATAGG
*
14735697 ACCTTTTTCTGAAAACACTGCATT
1 ACCTTTTTCTAAAAACACTGCATT
*
14735721 ACCTTTTTCTAAAAACATTGCATT
1 ACCTTTTTCTAAAAACACTGCATT
14735745 GACATGATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.31, C:0.23, G:0.06, T:0.40
Consensus pattern (24 bp):
ACCTTTTTCTAAAAACACTGCATT
Found at i:14738924 original size:36 final size:36
Alignment explanation
Indices: 14738844--14738924 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 36
14738834 AATATAATCT
* * *
14738844 CTGTCACATGGCATGAATAACATACCCACATATTCA
1 CTGTCACATGACATGAACAACACACCCACATATTCA
* *
14738880 CTGCCACATGACATGAACAACACACCCTCAT-TTACA
1 CTGTCACATGACATGAACAACACACCCACATATT-CA
*
14738916 CTTTCACAT
1 CTGTCACAT
14738925 CAGTCATCAT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
35 2 0.05
36 35 0.95
ACGTcount: A:0.35, C:0.32, G:0.09, T:0.25
Consensus pattern (36 bp):
CTGTCACATGACATGAACAACACACCCACATATTCA
Found at i:14739832 original size:62 final size:61
Alignment explanation
Indices: 14739735--14739858 Score: 212
Period size: 62 Copynumber: 2.0 Consensus size: 61
14739725 TGAATGCAAG
* *
14739735 AAAAACAAGCTTTGATGCAAATCCTAGAAAACTCACTCTTAAAGAAGAAGAAGAAATTAAAT
1 AAAAACAAGCTTTAAAGCAAATCCTAGAAAACTCACTCTTAAAGAAG-AGAAGAAATTAAAT
*
14739797 AAAAACGAGCTTTAAAGCAAATCCTAGAAAACTCACTCTTAAAGAAGAGAAGAAATTAAAT
1 AAAAACAAGCTTTAAAGCAAATCCTAGAAAACTCACTCTTAAAGAAGAGAAGAAATTAAAT
14739858 A
1 A
14739859 GATTTTTGGG
Statistics
Matches: 59, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
61 15 0.25
62 44 0.75
ACGTcount: A:0.52, C:0.15, G:0.13, T:0.20
Consensus pattern (61 bp):
AAAAACAAGCTTTAAAGCAAATCCTAGAAAACTCACTCTTAAAGAAGAGAAGAAATTAAAT
Found at i:14740342 original size:15 final size:15
Alignment explanation
Indices: 14740322--14740361 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
14740312 GGTTCAATTT
*
14740322 TGGTGATGGTAATAG
1 TGGTGATGGTAATAA
14740337 TGGTGATGGTAATAA
1 TGGTGATGGTAATAA
*
14740352 TGGTGGTGGT
1 TGGTGATGGT
14740362 GGTGGTGGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.23, C:0.00, G:0.42, T:0.35
Consensus pattern (15 bp):
TGGTGATGGTAATAA
Found at i:14740377 original size:3 final size:3
Alignment explanation
Indices: 14740371--14740397 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
14740361 TGGTGGTGGT
14740371 GGA GGA GGA GGA GGA GGA GGA GGA GGA
1 GGA GGA GGA GGA GGA GGA GGA GGA GGA
14740398 CAAGTCTCGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (3 bp):
GGA
Found at i:14742135 original size:90 final size:90
Alignment explanation
Indices: 14741982--14742243 Score: 255
Period size: 90 Copynumber: 2.9 Consensus size: 90
14741972 CTACAAAACT
* * *
14741982 CTGGTGGTTCGTCCACAGATTATCTAGCAGCTTTTATCCACAACTATTTTGTACATTCACAACCA
1 CTGGTGGTTCATCCACCGATTATCTAGCAGCTTTTATCCACAACTATGTTGTACATTCACAACCA
*
14742047 TCTAGCAGTGTATTAACCTGCAACA
66 TCTAGCAGCGTATTAACCTGCAACA
* * * * ** *
14742072 CTGGTGGTTCATCCACCTATTTTCTGGTAGCTTTTATCTGCAACTATGTTGTGCATT-ATCAACC
1 CTGGTGGTTCATCCACCGATTATCTAGCAGCTTTTATCCACAACTATGTTGTACATTCA-CAACC
* *
14742136 ATCTGGGAGCGTATTAACCTGCAACA
65 ATCTAGCAGCGTATTAACCTGCAACA
* * * * **
14742162 CTAGTGGTTCATCCACCCA-TATTCTAGCAG-TTCTCATATGCA-AA-AATGTTGTTTATTCACA
1 CTGGTGGTTCATCCACCGATTA-TCTAGCAGCTT-T--TATCCACAACTATGTTGTACATTCACA
* *
14742223 ACCATCTAGCAACATATTAAC
62 ACCATCTAGCAGCGTATTAAC
14742244 ATGTAACTTT
Statistics
Matches: 138, Mismatches: 28, Indels: 12
0.78 0.16 0.07
Matches are distributed among these distances:
89 4 0.03
90 128 0.93
91 3 0.02
92 3 0.02
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (90 bp):
CTGGTGGTTCATCCACCGATTATCTAGCAGCTTTTATCCACAACTATGTTGTACATTCACAACCA
TCTAGCAGCGTATTAACCTGCAACA
Found at i:14743979 original size:55 final size:55
Alignment explanation
Indices: 14743862--14743968 Score: 137
Period size: 55 Copynumber: 1.9 Consensus size: 55
14743852 AAAAGGAGAG
* * *
14743862 GAAAAGAAGAGAAGGAGAAGGAGAGGGCGGAAAGGGAAAGGAAGGGAAAAAGAAA
1 GAAAAAAAGAGAAGGAGAAAGAGAGAGCGGAAAGGGAAAGGAAGGGAAAAAGAAA
*
14743917 GAAAAAAAGAGAAGGAGAATAGAGAGAG-GG-AAGGAGAAAGAGAAGGAAAAAA
1 GAAAAAAAGAGAAGGAGAA-AGAGAGAGCGGAAAGG-GAAAG-GAAGGGAAAAA
14743969 ATAAATAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
54 4 0.09
55 25 0.56
56 16 0.36
ACGTcount: A:0.58, C:0.01, G:0.40, T:0.01
Consensus pattern (55 bp):
GAAAAAAAGAGAAGGAGAAAGAGAGAGCGGAAAGGGAAAGGAAGGGAAAAAGAAA
Found at i:14744549 original size:19 final size:18
Alignment explanation
Indices: 14744504--14744549 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
14744494 GTTTTTAAAA
*
14744504 TTTGTTTTATATTATTTT
1 TTTGTTTTATATAATTTT
*
14744522 TATTATTTTAATATAATTTT
1 T-TTGTTTT-ATATAATTTT
14744542 TTTGTTTT
1 TTTGTTTT
14744550 TTATGTAGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 1 0.04
19 12 0.52
20 10 0.43
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.74
Consensus pattern (18 bp):
TTTGTTTTATATAATTTT
Found at i:14745728 original size:14 final size:14
Alignment explanation
Indices: 14745717--14745743 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14745707 TTTTCTAATG
14745717 ATACTATTCTAACT
1 ATACTATTCTAACT
14745731 ATACTATTCTAAC
1 ATACTATTCTAAC
14745744 ATGTAATTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (14 bp):
ATACTATTCTAACT
Found at i:14746385 original size:12 final size:12
Alignment explanation
Indices: 14746370--14746403 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
14746360 TATAGAGGTC
14746370 GAGCCAGAGCTA
1 GAGCCAGAGCTA
*
14746382 GAGCCAGAGCTC
1 GAGCCAGAGCTA
*
14746394 GAGCCTGAGC
1 GAGCCAGAGC
14746404 CCAAGCCACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.35, T:0.09
Consensus pattern (12 bp):
GAGCCAGAGCTA
Found at i:14747016 original size:14 final size:14
Alignment explanation
Indices: 14746997--14747027 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
14746987 AACTTGTAAC
14746997 AAATTTTGTAATAT
1 AAATTTTGTAATAT
*
14747011 AAATTTTGTTATAT
1 AAATTTTGTAATAT
14747025 AAA
1 AAA
14747028 GTAAATACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (14 bp):
AAATTTTGTAATAT
Found at i:14750065 original size:18 final size:18
Alignment explanation
Indices: 14750028--14750066 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
14750018 ATACATTTTA
* **
14750028 TTTCTTCTCTTTTCTTTC
1 TTTCTTCTCTTCTCCCTC
14750046 TTTCTTCTCTTCTCCCTC
1 TTTCTTCTCTTCTCCCTC
14750064 TTT
1 TTT
14750067 TGTTCTGCTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTCTTCTCTTCTCCCTC
Found at i:14750185 original size:27 final size:27
Alignment explanation
Indices: 14750144--14750221 Score: 84
Period size: 27 Copynumber: 2.9 Consensus size: 27
14750134 ATACTAGGTA
*
14750144 TGCCGCCTTTCAGATAGACACCACCAG
1 TGCCGCCTATCAGATAGACACCACCAG
* **** **
14750171 TGTCGCCTATCAGATAGGGGTCACTGG
1 TGCCGCCTATCAGATAGACACCACCAG
14750198 TGCCGCCTATCAGATAGACACCAC
1 TGCCGCCTATCAGATAGACACCAC
14750222 ACCCCTATAC
Statistics
Matches: 38, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.24, C:0.32, G:0.23, T:0.21
Consensus pattern (27 bp):
TGCCGCCTATCAGATAGACACCACCAG
Found at i:14750697 original size:8 final size:8
Alignment explanation
Indices: 14750684--14750709 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
14750674 TATTATTTTA
14750684 ATTTTAAT
1 ATTTTAAT
14750692 ATTTTAAT
1 ATTTTAAT
14750700 ATTTTAAT
1 ATTTTAAT
14750708 AT
1 AT
14750710 ACTAAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
ATTTTAAT
Found at i:14751222 original size:27 final size:28
Alignment explanation
Indices: 14751183--14751245 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 28
14751173 AAAAAAGTCA
* *
14751183 AAAAATCAGAAAAA-ATCTCAAAATTTTAT
1 AAAAAT-AGAAAAATATAT-AAAATTATAT
*
14751212 AAAAATA-AAAAATATATAGAATTATAT
1 AAAAATAGAAAAATATATAAAATTATAT
14751239 AAAAATA
1 AAAAATA
14751246 TCAAATATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 20 0.67
28 4 0.13
29 6 0.20
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.27
Consensus pattern (28 bp):
AAAAATAGAAAAATATATAAAATTATAT
Found at i:14752462 original size:11 final size:11
Alignment explanation
Indices: 14752448--14752488 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
14752438 CTGATTTTAT
14752448 AAATTTTTTTG
1 AAATTTTTTTG
*
14752459 AAATTTTTCT-
1 AAATTTTTTTG
14752469 -AATTTTTTTG
1 AAATTTTTTTG
14752479 ACAATTTTTT
1 A-AATTTTTT
14752489 ATTTTCTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
9 8 0.32
11 9 0.36
12 8 0.32
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.63
Consensus pattern (11 bp):
AAATTTTTTTG
Found at i:14752464 original size:20 final size:21
Alignment explanation
Indices: 14752448--14752487 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
14752438 CTGATTTTAT
14752448 AAATTTTTTTGA-AATTTTTC
1 AAATTTTTTTGACAATTTTTC
*
14752468 TAATTTTTTTGACAATTTTT
1 AAATTTTTTTGACAATTTTT
14752488 TATTTTCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (21 bp):
AAATTTTTTTGACAATTTTTC
Found at i:14752466 original size:21 final size:21
Alignment explanation
Indices: 14752442--14752487 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
14752432 TTTTGTCTGA
14752442 TTTTATAAATTTTTTTGA-AAT
1 TTTTAT-AATTTTTTTGACAAT
*
14752463 TTTTCTAATTTTTTTGACAAT
1 TTTTATAATTTTTTTGACAAT
14752484 TTTT
1 TTTT
14752488 TATTTTCTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.65
Consensus pattern (21 bp):
TTTTATAATTTTTTTGACAAT
Found at i:14752723 original size:14 final size:13
Alignment explanation
Indices: 14752690--14752722 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
14752680 TTATTTTATA
14752690 ATTTTTTGCTTTT
1 ATTTTTTGCTTTT
14752703 ATTTTTTGCTTTT
1 ATTTTTTGCTTTT
14752716 ATTTTTT
1 ATTTTTT
14752723 TTCCTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.09, C:0.06, G:0.06, T:0.79
Consensus pattern (13 bp):
ATTTTTTGCTTTT
Found at i:14754519 original size:15 final size:14
Alignment explanation
Indices: 14754473--14754529 Score: 62
Period size: 14 Copynumber: 4.0 Consensus size: 14
14754463 GATTGCCAGT
* *
14754473 AAAATATTTTCCGT
1 AAAATATTTTCTGG
*
14754487 AAAATGA-TTTCGGG
1 AAAAT-ATTTTCTGG
14754501 AAAATATTTTACTGG
1 AAAATATTTT-CTGG
14754516 AAAATATTTTCTGG
1 AAAATATTTTCTGG
14754530 TGTTTAATTG
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
13 1 0.03
14 22 0.59
15 14 0.38
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.39
Consensus pattern (14 bp):
AAAATATTTTCTGG
Found at i:14765179 original size:41 final size:41
Alignment explanation
Indices: 14765131--14765321 Score: 192
Period size: 41 Copynumber: 4.7 Consensus size: 41
14765121 ATGGGGTGTT
* * *
14765131 ATTCAGGCTTTGTGCATAGTAGGCTTAGTGTCGGTGTATTA
1 ATTCAGGCTTCGTGCCTAGCAGGCTTAGTGTCGGTGTATTA
* * *
14765172 ATTCAGGCTTCATGCCTAGCAAGCTTAGTGTCGGTGTATTG
1 ATTCAGGCTTCGTGCCTAGCAGGCTTAGTGTCGGTGTATTA
* * * *
14765213 ATTCAAGCTTCGTGCTTTGCAAGCTTAGTGTCGGTGTA-TA
1 ATTCAGGCTTCGTGCCTAGCAGGCTTAGTGTCGGTGTATTA
** * * *
14765253 GATTCAAACTTTGTGTCTAGCAGGCTTAGTGCCGGTG--TT-
1 -ATTCAGGCTTCGTGCCTAGCAGGCTTAGTGTCGGTGTATTA
**
14765292 ATTCAGGCTTAATGCCTAGCAGGCTTAGTG
1 ATTCAGGCTTCGTGCCTAGCAGGCTTAGTG
14765322 CCAATGTTAC
Statistics
Matches: 125, Mismatches: 23, Indels: 7
0.81 0.15 0.05
Matches are distributed among these distances:
38 25 0.20
40 2 0.02
41 98 0.78
ACGTcount: A:0.20, C:0.17, G:0.27, T:0.36
Consensus pattern (41 bp):
ATTCAGGCTTCGTGCCTAGCAGGCTTAGTGTCGGTGTATTA
Found at i:14765311 original size:38 final size:39
Alignment explanation
Indices: 14765125--14765348 Score: 157
Period size: 41 Copynumber: 5.7 Consensus size: 39
14765115 ATTAAAATGG
** * *
14765125 GGTGTT-ATTCAGGCTTTGTGCATAGTAGGCTTAGTGTC
1 GGTGTTAATTCAGGCTTAATGCCTAGCAGGCTTAGTGTC
* *
14765163 GGTGTATTAATTCAGGCTTCATGCCTAGCAAGCTTAGTGTC
1 GGTG--TTAATTCAGGCTTAATGCCTAGCAGGCTTAGTGTC
* * ** * * *
14765204 GGTGTATTGATTCAAGCTTCGTGCTTTGCAAGCTTAGTGTC
1 GGTG--TTAATTCAGGCTTAATGCCTAGCAGGCTTAGTGTC
** ** * *
14765245 GGTGTATAGATTCAAACTTTGTGTCTAGCAGGCTTAGTGCC
1 GGTGT-TA-ATTCAGGCTTAATGCCTAGCAGGCTTAGTGTC
*
14765286 GGTGTT-ATTCAGGCTTAATGCCTAGCAGGCTTAGTGCC
1 GGTGTTAATTCAGGCTTAATGCCTAGCAGGCTTAGTGTC
** * *
14765324 AATGTT-ACTCAGGCTTAAAGCCTAG
1 GGTGTTAATTCAGGCTTAATGCCTAG
14765349 TAAGCTTGAT
Statistics
Matches: 154, Mismatches: 27, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
38 52 0.34
39 1 0.01
40 4 0.03
41 97 0.63
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.35
Consensus pattern (39 bp):
GGTGTTAATTCAGGCTTAATGCCTAGCAGGCTTAGTGTC
Found at i:14768083 original size:18 final size:19
Alignment explanation
Indices: 14768041--14768084 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
14768031 TACGAGCATG
14768041 AATATGTGAAATATGTGAA
1 AATATGTGAAATATGTGAA
14768060 AA-ATGTGAAA-A-GTGAA
1 AATATGTGAAATATGTGAA
14768076 ACATATGTG
1 A-ATATGTG
14768085 TTAAAACGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 6 0.26
17 2 0.09
18 13 0.57
19 2 0.09
ACGTcount: A:0.48, C:0.02, G:0.23, T:0.27
Consensus pattern (19 bp):
AATATGTGAAATATGTGAA
Found at i:14771357 original size:22 final size:22
Alignment explanation
Indices: 14771332--14771374 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
14771322 AACTTAATTC
*
14771332 ACATTTATTGATTGAATGTAAT
1 ACATTTATTAATTGAATGTAAT
14771354 ACATTTATTAATTGAATGTAA
1 ACATTTATTAATTGAATGTAA
14771375 AGGAGCTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.44
Consensus pattern (22 bp):
ACATTTATTAATTGAATGTAAT
Found at i:14772275 original size:43 final size:43
Alignment explanation
Indices: 14772217--14772303 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
14772207 ATACTGTAAG
14772217 TAAATACAATTCAGAACTTTTCAAAATTAGTTCTTAACTAAAA
1 TAAATACAATTCAGAACTTTTCAAAATTAGTTCTTAACTAAAA
14772260 TAAATACAATTCAGAACTTTTCAAAATTAGTTCTTAACTAAAA
1 TAAATACAATTCAGAACTTTTCAAAATTAGTTCTTAACTAAAA
14772303 T
1 T
14772304 TATTTGGAGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.46, C:0.14, G:0.05, T:0.36
Consensus pattern (43 bp):
TAAATACAATTCAGAACTTTTCAAAATTAGTTCTTAACTAAAA
Found at i:14773580 original size:17 final size:16
Alignment explanation
Indices: 14773555--14773588 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
14773545 ATTACAATGG
14773555 CATAGAAATAATGTAAA
1 CATAGAAATAATG-AAA
*
14773572 CATATAAATAATGAAA
1 CATAGAAATAATGAAA
14773588 C
1 C
14773589 TAACATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.59, C:0.09, G:0.09, T:0.24
Consensus pattern (16 bp):
CATAGAAATAATGAAA
Found at i:14773661 original size:19 final size:20
Alignment explanation
Indices: 14773625--14773662 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
14773615 GACATGCAAG
14773625 AATATCAAATAAATAAACAA
1 AATATCAAATAAATAAACAA
14773645 AATAT-AAATGAAA-AAACA
1 AATATCAAAT-AAATAAACA
14773663 TAAGTCAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.71, C:0.08, G:0.03, T:0.18
Consensus pattern (20 bp):
AATATCAAATAAATAAACAA
Found at i:14774003 original size:25 final size:23
Alignment explanation
Indices: 14773966--14774037 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 23
14773956 ATACAAGAAT
14773966 AAATATATATACATATATAGATTATAA
1 AAATA-AT-TACATATATA-ATTA-AA
14773993 AAATAATTACATATATAA--AAA
1 AAATAATTACATATATAATTAAA
14774014 AAATAATTACAT-TAT-ATTAAA
1 AAATAATTACATATATAATTAAA
14774035 AAA
1 AAA
14774038 ATAAATATGC
Statistics
Matches: 43, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
19 1 0.02
20 3 0.07
21 20 0.47
22 1 0.02
24 1 0.02
25 10 0.23
26 2 0.05
27 5 0.12
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.33
Consensus pattern (23 bp):
AAATAATTACATATATAATTAAA
Found at i:14774017 original size:21 final size:22
Alignment explanation
Indices: 14773991--14774041 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
14773981 TATAGATTAT
14773991 AAAAATAATTACA-TATATAAA
1 AAAAATAATTACATTATATAAA
*
14774012 AAAAATAATTACATTATATTAA
1 AAAAATAATTACATTATATAAA
14774034 AAAAATAA
1 AAAAATAA
14774042 ATATGCGTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 13 0.46
22 15 0.54
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAAATAATTACATTATATAAA
Found at i:14774148 original size:23 final size:23
Alignment explanation
Indices: 14774103--14774148 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
14774093 TACATAGATT
**
14774103 TAAAAAATAATTAAATATGAAAA
1 TAAAAAATAATTAAATAAAAAAA
14774126 TAAAAAATTAATT-AATAAAAAAA
1 TAAAAAA-TAATTAAATAAAAAAA
14774149 GGAAAACAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (23 bp):
TAAAAAATAATTAAATAAAAAAA
Found at i:14786389 original size:29 final size:27
Alignment explanation
Indices: 14786352--14786424 Score: 76
Period size: 29 Copynumber: 2.6 Consensus size: 27
14786342 TTAATTAATT
*
14786352 TTTTAAAATTTTAAAAT-ATAAAAAATA
1 TTTTAAAA-TTAAAAATCATAAAAAATA
*
14786379 TATTTAGAAATTAAAAATCATAAAAATTA
1 T-TTTA-AAATTAAAAATCATAAAAAATA
14786408 TTTTAAAAGTATAAAAA
1 TTTTAAAA-T-TAAAAA
14786425 ATTAATTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
27 4 0.10
28 16 0.41
29 19 0.49
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (27 bp):
TTTTAAAATTAAAAATCATAAAAAATA
Found at i:14786423 original size:28 final size:27
Alignment explanation
Indices: 14786348--14786423 Score: 84
Period size: 28 Copynumber: 2.8 Consensus size: 27
14786338 ATATTTAATT
*
14786348 AATT-TTTTAAAATTTTAAAATATAAA
1 AATTATTTTAAAATTATAAAATATAAA
*
14786374 AAATATATTTAGAAATTA-AAAATCATAAA
1 AATTAT-TTTA-AAATTATAAAAT-ATAAA
*
14786403 AATTATTTTAAAAGTATAAAA
1 AATTATTTTAAAATTATAAAA
14786424 AATTAATTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
26 3 0.07
27 6 0.15
28 17 0.41
29 15 0.37
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.38
Consensus pattern (27 bp):
AATTATTTTAAAATTATAAAATATAAA
Found at i:14786433 original size:20 final size:20
Alignment explanation
Indices: 14786387--14786434 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
14786377 TATATTTAGA
14786387 AATTAAAAATCATAAAAATT
1 AATTAAAAATCATAAAAATT
* *
14786407 ATTTTAAAAGT-ATAAAAAATT
1 A-ATTAAAAATCAT-AAAAATT
14786428 AATTAAA
1 AATTAAA
14786435 CCATATATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (20 bp):
AATTAAAAATCATAAAAATT
Found at i:14805073 original size:4 final size:4
Alignment explanation
Indices: 14805064--14805088 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
14805054 TTCCAAACCA
14805064 TCAT TCAT TCAT TCAT TCAT TCAT T
1 TCAT TCAT TCAT TCAT TCAT TCAT T
14805089 ATCATATTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (4 bp):
TCAT
Found at i:14805804 original size:20 final size:20
Alignment explanation
Indices: 14805781--14805819 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14805771 AAAAAAGAGA
*
14805781 GAAAAATCAAAATAAAAAAC
1 GAAAAAACAAAATAAAAAAC
*
14805801 GAAAAAAGAAAATAAAAAA
1 GAAAAAACAAAATAAAAAA
14805820 ATCAAAAGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.79, C:0.05, G:0.08, T:0.08
Consensus pattern (20 bp):
GAAAAAACAAAATAAAAAAC
Found at i:14805826 original size:20 final size:20
Alignment explanation
Indices: 14805766--14805820 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
14805756 GTTCAGATTC
* *
14805766 AAAAAAAAAAAGAGAGAAAAATC
1 AAAATAAAAAA-AGA-AAAAA-G
*
14805789 AAAATAAAAAACGAAAAAAG
1 AAAATAAAAAAAGAAAAAAG
14805809 AAAATAAAAAAA
1 AAAATAAAAAAA
14805821 TCAAAAGCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 11 0.39
21 5 0.18
22 2 0.07
23 10 0.36
ACGTcount: A:0.82, C:0.04, G:0.09, T:0.05
Consensus pattern (20 bp):
AAAATAAAAAAAGAAAAAAG
Found at i:14806262 original size:21 final size:21
Alignment explanation
Indices: 14806237--14806305 Score: 86
Period size: 21 Copynumber: 3.3 Consensus size: 21
14806227 GGATTTCAAA
14806237 AAAAAATGAAAAA-GAAAAAG
1 AAAAAATGAAAAATGAAAAAG
* * *
14806257 AGAAAATGAAAAATGAGAATG
1 AAAAAATGAAAAATGAAAAAG
*
14806278 AAAAAATGAAAAATGAAAGAG
1 AAAAAATGAAAAATGAAAAAG
*
14806299 TAAAAAT
1 AAAAAAT
14806306 AGAGAGGCTA
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
20 12 0.30
21 28 0.70
ACGTcount: A:0.71, C:0.00, G:0.17, T:0.12
Consensus pattern (21 bp):
AAAAAATGAAAAATGAAAAAG
Found at i:14806269 original size:15 final size:15
Alignment explanation
Indices: 14806251--14806295 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
14806241 AATGAAAAAG
14806251 AAAAAGAGAAAATGA
1 AAAAAGAGAAAATGA
*
14806266 AAAATGAG--AATGA
1 AAAAAGAGAAAATGA
14806279 AAAAATGA-AAAATGA
1 AAAAA-GAGAAAATGA
14806294 AA
1 AA
14806296 GAGTAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 9 0.36
14 2 0.08
15 14 0.56
ACGTcount: A:0.71, C:0.00, G:0.18, T:0.11
Consensus pattern (15 bp):
AAAAAGAGAAAATGA
Found at i:14806289 original size:7 final size:7
Alignment explanation
Indices: 14806238--14806295 Score: 68
Period size: 7 Copynumber: 8.4 Consensus size: 7
14806228 GATTTCAAAA
14806238 AAAAATG
1 AAAAATG
14806245 AAAAA-G
1 AAAAATG
14806251 AAAAA-G
1 AAAAATG
14806257 AGAAAATG
1 A-AAAATG
14806265 AAAAATG
1 AAAAATG
*
14806272 -AGAATG
1 AAAAATG
14806278 AAAAAATG
1 -AAAAATG
14806286 AAAAATG
1 AAAAATG
14806293 AAA
1 AAA
14806296 GAGTAAAAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
6 13 0.29
7 25 0.56
8 7 0.16
ACGTcount: A:0.72, C:0.00, G:0.17, T:0.10
Consensus pattern (7 bp):
AAAAATG
Found at i:14807722 original size:86 final size:86
Alignment explanation
Indices: 14807531--14807946 Score: 663
Period size: 86 Copynumber: 4.8 Consensus size: 86
14807521 AGACCCGTGA
** *
14807531 AGATCGAAAACAAAAACTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATATTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGAAGCAGAT-CTTGC
14807596 CTTCCTGCATTAACAGCGAAGC
65 CTTCCTGCATTAACAGCGAAGC
*
14807618 AGATCGAAAACAAAGCCTTGCCTCTATCGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATCTTGCC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATCTTGCC
* *
14807683 TTCCTACTTTAACAGCGAAGC
66 TTCCTGCATTAACAGCGAAGC
* *
14807704 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTAGTTAAAGAAGCAGATCTTGTC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATCTTGCC
*
14807769 TTTCTGCATTAACAGCGAAGC
66 TTCCTGCATTAACAGCGAAGC
* *
14807790 AGATCGAAAACAAAACCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGA-AGCAGATCTTGC
* * *
14807855 CTTCCTGCATTGATAGCGAAAC
65 CTTCCTGCATTAACAGCGAAGC
*
14807877 AGATCG-AAACAAAGCCTTGCCTCTATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGA-AGCAGATCTTGC
14807941 CTTCCT
65 CTTCCT
14807947 AAGCACTAGC
Statistics
Matches: 305, Mismatches: 23, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
86 214 0.70
87 91 0.30
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (86 bp):
AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATCTTGCC
TTCCTGCATTAACAGCGAAGC
Found at i:14809279 original size:23 final size:25
Alignment explanation
Indices: 14809237--14809282 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
14809227 AAAAAGGTTT
14809237 TTCTTTTTTCCTTTTCTCGATTGGG
1 TTCTTTTTTCCTTTTCTCGATTGGG
14809262 TTCTTTTTT-CTTTT-TCGATTG
1 TTCTTTTTTCCTTTTCTCGATTG
14809283 CTTTTCTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 7 0.33
24 5 0.24
25 9 0.43
ACGTcount: A:0.04, C:0.17, G:0.13, T:0.65
Consensus pattern (25 bp):
TTCTTTTTTCCTTTTCTCGATTGGG
Found at i:14809294 original size:25 final size:25
Alignment explanation
Indices: 14809235--14809295 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
14809225 GAAAAAAGGT
14809235 TTTTCTTTTTTCCTTTTCTCGATTG
1 TTTTCTTTTTTCCTTTTCTCGATTG
**
14809260 GGTTCTTTTTT-CTTTT-TCGATTG
1 TTTTCTTTTTTCCTTTTCTCGATTG
14809283 CTTTTCTCTTTTT
1 -TTTTCT-TTTTT
14809296 TTGTTTTGCT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
23 7 0.23
24 9 0.30
25 14 0.47
ACGTcount: A:0.03, C:0.18, G:0.10, T:0.69
Consensus pattern (25 bp):
TTTTCTTTTTTCCTTTTCTCGATTG
Found at i:14826987 original size:29 final size:32
Alignment explanation
Indices: 14826936--14826997 Score: 76
Period size: 30 Copynumber: 2.0 Consensus size: 32
14826926 AGCCTATATC
14826936 TTTATAGATTTTAAAGGGAT-AAATG-AATTT
1 TTTATAGATTTTAAAGGGATAAAATGTAATTT
* * *
14826966 TTTATA-ATTTTTAGGGGTTAAAATGTAATTT
1 TTTATAGATTTTAAAGGGATAAAATGTAATTT
14826997 T
1 T
14826998 ACCTTTATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 10 0.37
30 11 0.41
31 6 0.22
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.48
Consensus pattern (32 bp):
TTTATAGATTTTAAAGGGATAAAATGTAATTT
Found at i:14827166 original size:27 final size:28
Alignment explanation
Indices: 14827129--14827182 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
14827119 AATACTATTT
14827129 CAAAATAG-AAAAACTATTTTGTCTTTC
1 CAAAATAGAAAAAACTATTTTGTCTTTC
*
14827156 CAAAATGGAAAAAACTATTTTGTCTTT
1 CAAAATAGAAAAAACTATTTTGTCTTT
14827183 TCATGTCCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 7 0.28
28 18 0.72
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (28 bp):
CAAAATAGAAAAAACTATTTTGTCTTTC
Found at i:14833727 original size:24 final size:24
Alignment explanation
Indices: 14833687--14833733 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
14833677 AGGGGGAAAT
*
14833687 AAGAGAAAGTGATGGAAAATGTTG
1 AAGAGAAAGTGAAGGAAAATGTTG
*
14833711 AAGAGAAAG-GAAAGGAAAGTGTT
1 AAGAGAAAGTG-AAGGAAAATGTT
14833734 ATAAATTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.49, C:0.00, G:0.34, T:0.17
Consensus pattern (24 bp):
AAGAGAAAGTGAAGGAAAATGTTG
Found at i:14836639 original size:6 final size:6
Alignment explanation
Indices: 14836630--14836695 Score: 51
Period size: 6 Copynumber: 10.5 Consensus size: 6
14836620 TTAGTTTTTG
* * * * *
14836630 TTTATT TTTATT TTTATT TTTATT TGTACT ATTATT TTCATT GTTAGTT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTA-TT
*
14836679 GTTTTTAT TTTATT TTT
1 -TTTAT-T TTTATT TTT
14836696 GAGACTTATA
Statistics
Matches: 45, Mismatches: 12, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
6 35 0.78
7 7 0.16
8 3 0.07
ACGTcount: A:0.17, C:0.03, G:0.06, T:0.74
Consensus pattern (6 bp):
TTTATT
Found at i:14840336 original size:18 final size:18
Alignment explanation
Indices: 14840313--14840354 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
14840303 CTTAATTTCA
14840313 ATGATTGCTTTGCAAAAG
1 ATGATTGCTTTGCAAAAG
14840331 ATGATTGCTTTGCAAAAG
1 ATGATTGCTTTGCAAAAG
*
14840349 TTGATT
1 ATGATT
14840355 CCCCAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (18 bp):
ATGATTGCTTTGCAAAAG
Found at i:14841183 original size:13 final size:14
Alignment explanation
Indices: 14841153--14841191 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
14841143 CCATTTCCAA
14841153 TAAAAAAACACAAGT
1 TAAAAAAA-ACAAGT
14841168 TAAAAAAAACAA-T
1 TAAAAAAAACAAGT
*
14841181 TAAGAAAAACA
1 TAAAAAAAACA
14841192 TTTTCTTGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.48
14 4 0.17
15 8 0.35
ACGTcount: A:0.72, C:0.10, G:0.05, T:0.13
Consensus pattern (14 bp):
TAAAAAAAACAAGT
Found at i:14841511 original size:85 final size:85
Alignment explanation
Indices: 14841362--14841606 Score: 312
Period size: 85 Copynumber: 2.9 Consensus size: 85
14841352 ACCACTGATA
* * * * **
14841362 ATTTGCAGTTATTGCCACTTGTTGTAGGTGCATACCATATTTGTAGAACAAACGAACTACCACTT
1 ATTTGCAGTTATTGCCACTTGTTGTGGGTGCACAACATATTTGAAGATTAAACGAACTACCACTT
14841427 GGTTCGTGATTGAAC-AGCAT
66 GGTTCGTGATTGAACTA-CAT
* * * * * **
14841447 ATTTGCAGTTATTGTCACTTATTGTGGGTGCACAACATATTTAAAGATTATATGAACTGTCACTT
1 ATTTGCAGTTATTGCCACTTGTTGTGGGTGCACAACATATTTGAAGATTAAACGAACTACCACTT
*
14841512 GGTTCATGATTGAACTACAT
66 GGTTCGTGATTGAACTACAT
* * * *
14841532 ATTTGCAATTACTGCCACTTGTTGTGGGTGCACAACATATTTGCATATTAAACGAACTACCACTT
1 ATTTGCAGTTATTGCCACTTGTTGTGGGTGCACAACATATTTGAAGATTAAACGAACTACCACTT
14841597 GGTTCGTGAT
66 GGTTCGTGAT
14841607 CAAACCACAT
Statistics
Matches: 133, Mismatches: 26, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
85 132 0.99
86 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.36
Consensus pattern (85 bp):
ATTTGCAGTTATTGCCACTTGTTGTGGGTGCACAACATATTTGAAGATTAAACGAACTACCACTT
GGTTCGTGATTGAACTACAT
Found at i:14843084 original size:50 final size:50
Alignment explanation
Indices: 14843004--14843246 Score: 342
Period size: 50 Copynumber: 4.8 Consensus size: 50
14842994 ATTTGGGTAA
* * *
14843004 AGAGGTCCCACGTAAGACCATGTCTAGGACATGGCGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
*
14843054 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
*
14843104 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** * * * * *
14843154 AGAGGTCCCCCGTAAGACCATATCTAGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** *
14843204 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
14843247 TGTTATTATC
Statistics
Matches: 170, Mismatches: 22, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
50 138 0.81
51 32 0.19
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:14848024 original size:25 final size:25
Alignment explanation
Indices: 14847987--14848048 Score: 88
Period size: 25 Copynumber: 2.5 Consensus size: 25
14847977 ACTTTAGCAC
* *
14847987 GCTCTCTGTTTATTAACACGTTGGT
1 GCTCTCTGATTATTAACACGTTGAT
* *
14848012 GTTCTCTGATTATTAGCACGTTGAT
1 GCTCTCTGATTATTAACACGTTGAT
14848037 GCTCTCTGATTA
1 GCTCTCTGATTA
14848049 CTAGTACGTC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.18, C:0.19, G:0.19, T:0.44
Consensus pattern (25 bp):
GCTCTCTGATTATTAACACGTTGAT
Found at i:14848057 original size:25 final size:25
Alignment explanation
Indices: 14847987--14848073 Score: 86
Period size: 25 Copynumber: 3.5 Consensus size: 25
14847977 ACTTTAGCAC
* * * *
14847987 GCTCTCTGTTTATTAACACGTTGGT
1 GCTCTCTGATTACTAGCACGTTGAT
* *
14848012 GTTCTCTGATTATTAGCACGTTGAT
1 GCTCTCTGATTACTAGCACGTTGAT
* *
14848037 GCTCTCTGATTACTAGTACG-TCAGT
1 GCTCTCTGATTACTAGCACGTTGA-T
14848062 GCTCTCTGATTA
1 GCTCTCTGATTA
14848074 GCACATTTGT
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
24 2 0.04
25 51 0.96
ACGTcount: A:0.18, C:0.21, G:0.20, T:0.41
Consensus pattern (25 bp):
GCTCTCTGATTACTAGCACGTTGAT
Found at i:14848088 original size:22 final size:22
Alignment explanation
Indices: 14848057--14848114 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 22
14848047 TACTAGTACG
14848057 TCAGTGCTCTCTG-ATTAGCACAT
1 TCAGTGCTCTCTGTA-TAGCAC-T
*
14848080 T-TGTGCTCTCTGTATAGCACT
1 TCAGTGCTCTCTGTATAGCACT
14848101 TCAGTGCTCTCTGT
1 TCAGTGCTCTCTGT
14848115 TCATTAGTGC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 2 0.06
22 27 0.87
23 2 0.06
ACGTcount: A:0.16, C:0.26, G:0.19, T:0.40
Consensus pattern (22 bp):
TCAGTGCTCTCTGTATAGCACT
Found at i:14848121 original size:47 final size:48
Alignment explanation
Indices: 14848014--14848121 Score: 118
Period size: 47 Copynumber: 2.3 Consensus size: 48
14848004 ACGTTGGTGT
*
14848014 TCTCTGATTATTAGCACGTTGATGCTCTCTGATTACTAGTACGTCAGTGC
1 TCTCTG-TTATTAGCACGTTGATGCTCTCTGA-TACTAGCACGTCAGTGC
* *
14848064 TCTCTG--ATTAGCACATTTG-TGCTCTCTG-TA-TAGCACTTCAGTGC
1 TCTCTGTTATTAGCAC-GTTGATGCTCTCTGATACTAGCACGTCAGTGC
14848108 TCTCTGTTCATTAG
1 TCTCTGTT-ATTAG
14848122 TGCATAATAA
Statistics
Matches: 51, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
44 18 0.35
45 2 0.04
47 22 0.43
48 3 0.06
50 6 0.12
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.40
Consensus pattern (48 bp):
TCTCTGTTATTAGCACGTTGATGCTCTCTGATACTAGCACGTCAGTGC
Found at i:14848913 original size:54 final size:54
Alignment explanation
Indices: 14848827--14848942 Score: 135
Period size: 54 Copynumber: 2.1 Consensus size: 54
14848817 AACACGACAA
* * * *
14848827 GAATGAATAGCCTTTATGGCACACTCTAAAAGAATTGCCTCTGTGGTAAG-CTCT
1 GAATGAACAACCTTTATGGCACACTCGAAAAGAACTGCCTCTGTGG-AAGACTCT
* * * * *
14848881 GAATGAACAACCTTTGTGGCGCACTCGGAAAGAACTGCCTTTGTGGCAGACTCT
1 GAATGAACAACCTTTATGGCACACTCGAAAAGAACTGCCTCTGTGGAAGACTCT
14848935 GAATGAAC
1 GAATGAAC
14848943 TGCCTCTGTG
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
53 2 0.04
54 50 0.96
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (54 bp):
GAATGAACAACCTTTATGGCACACTCGAAAAGAACTGCCTCTGTGGAAGACTCT
Found at i:14848975 original size:27 final size:27
Alignment explanation
Indices: 14848864--14848991 Score: 114
Period size: 27 Copynumber: 4.7 Consensus size: 27
14848854 AAAAGAATTG
* * *
14848864 CCTCTGTGGTAAGCTCTGAATGAACAA
1 CCTCTGTGGCAAACTCTGAATGAACTA
* ** * * *
14848891 CCTTTGTGGCGCACTCGGAAAGAACTG
1 CCTCTGTGGCAAACTCTGAATGAACTA
* * *
14848918 CCTTTGTGGCAGACTCTGAATGAACTG
1 CCTCTGTGGCAAACTCTGAATGAACTA
*
14848945 CCTCTGTGGAAAACTCTGAATGAACTA
1 CCTCTGTGGCAAACTCTGAATGAACTA
*
14848972 CCTCGGTGGCATAA-TCTGAA
1 CCTCTGTGGCA-AACTCTGAA
14848992 AGGATTTCCT
Statistics
Matches: 81, Mismatches: 19, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
27 79 0.98
28 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (27 bp):
CCTCTGTGGCAAACTCTGAATGAACTA
Found at i:14848993 original size:81 final size:81
Alignment explanation
Indices: 14848836--14849008 Score: 193
Period size: 81 Copynumber: 2.1 Consensus size: 81
14848826 AGAATGAATA
* * * * **
14848836 GCCTTTATGGCACACTCTAAAAGAATTGCCTCTGTGGTAAGCTCTGAATGAACAACCTTTGTGGC
1 GCCTTTGTGGCACACTCTAAAAGAACTGCCTCTGTGGAAAACTCTGAATGAACAACCTCGGTGGC
* *
14848901 GCACTCGGAAAGAACT
66 ACAATCGGAAAGAACT
* * * *
14848917 GCCTTTGTGGCAGACTCTGAATGAACTGCCTCTGTGGAAAACTCTGAATGAACTACCTCGGTGGC
1 GCCTTTGTGGCACACTCTAAAAGAACTGCCTCTGTGGAAAACTCTGAATGAACAACCTCGGTGGC
* * * *
14848982 ATAATCTGAAAGGATT
66 ACAATCGGAAAGAACT
*
14848998 TCCTTTGTGGC
1 GCCTTTGTGGC
14849009 GTACATTAAT
Statistics
Matches: 75, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
81 75 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.28
Consensus pattern (81 bp):
GCCTTTGTGGCACACTCTAAAAGAACTGCCTCTGTGGAAAACTCTGAATGAACAACCTCGGTGGC
ACAATCGGAAAGAACT
Found at i:14851395 original size:11 final size:11
Alignment explanation
Indices: 14851379--14851405 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
14851369 CGGTATTGTT
14851379 ATTTTTTAATA
1 ATTTTTTAATA
14851390 ATTTTTTAATA
1 ATTTTTTAATA
14851401 ATTTT
1 ATTTT
14851406 AAAATGTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
ATTTTTTAATA
Found at i:14863276 original size:23 final size:24
Alignment explanation
Indices: 14863246--14863290 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
14863236 AACGTTAACA
14863246 ATTAAAAA-AAAAAGTAATTCATC
1 ATTAAAAAGAAAAAGTAATTCATC
**
14863269 ATTAAAAAGAAACCGTAATTCA
1 ATTAAAAAGAAAAAGTAATTCA
14863291 AACAGAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.58, C:0.11, G:0.07, T:0.24
Consensus pattern (24 bp):
ATTAAAAAGAAAAAGTAATTCATC
Found at i:14865551 original size:28 final size:27
Alignment explanation
Indices: 14865493--14865548 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
14865483 ACAAGTTAAA
14865493 TTGAAAATTAAAAGAATTAATAAAAAT
1 TTGAAAATTAAAAGAATTAATAAAAAT
*
14865520 TTGAAAATATAAAA-AATTAATTAAAAT
1 TTGAAAAT-TAAAAGAATTAATAAAAAT
14865547 TT
1 TT
14865549 TGATTTTTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 22 0.81
28 5 0.19
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (27 bp):
TTGAAAATTAAAAGAATTAATAAAAAT
Found at i:14866429 original size:29 final size:30
Alignment explanation
Indices: 14866397--14866462 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 30
14866387 AAAATTCCAG
*
14866397 ATATAAAATTGGACA-AAATCAAAGTTCAT
1 ATATAAAATTGCACATAAATCAAAGTTCAT
* * *
14866426 ATATGATATTGCCCATTAAATCAAAGTTCAT
1 ATATAAAATTGCACA-TAAATCAAAGTTCAT
14866457 ATATAA
1 ATATAA
14866463 TTTTAATATT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 11 0.37
31 19 0.63
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.32
Consensus pattern (30 bp):
ATATAAAATTGCACATAAATCAAAGTTCAT
Found at i:14866490 original size:18 final size:18
Alignment explanation
Indices: 14866463--14866520 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
14866453 TCATATATAA
14866463 TTTT-AATATTTATCTTT
1 TTTTAAATATTTATCTTT
* *
14866480 TTTTAAATATTCAT-TATC
1 TTTTAAATATTTATCT-TT
*
14866498 TTTTAGATATTTTATCTTT
1 TTTTAAATA-TTTATCTTT
14866517 TTTT
1 TTTT
14866521 TCAAAATAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
17 5 0.16
18 17 0.53
19 9 0.28
20 1 0.03
ACGTcount: A:0.24, C:0.07, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTAAATATTTATCTTT
Found at i:14866553 original size:37 final size:36
Alignment explanation
Indices: 14866463--14866560 Score: 103
Period size: 38 Copynumber: 2.7 Consensus size: 36
14866453 TCATATATAA
* *
14866463 TTTTAATATTTATC-TTTTTTTAAATATTCATTATC
1 TTTTAATATTTTTCTTTTTTTTAAATAGTCATTATC
14866498 TTTTAGATATTTTATCTTTTTTTTCAAAATAAGT-ATTAT-
1 TTTTA-ATATTTT-TCTTTTTTTT--AAAT-AGTCATTATC
*
14866537 TTTTAATATTTTTCTTTTTCTTAA
1 TTTTAATATTTTTCTTTTTTTTAA
14866561 TTATTATTAA
Statistics
Matches: 54, Mismatches: 3, Indels: 12
0.78 0.04 0.17
Matches are distributed among these distances:
35 7 0.13
36 6 0.11
37 11 0.20
38 14 0.26
39 5 0.09
40 9 0.17
41 2 0.04
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.63
Consensus pattern (36 bp):
TTTTAATATTTTTCTTTTTTTTAAATAGTCATTATC
Found at i:14867058 original size:18 final size:19
Alignment explanation
Indices: 14867021--14867058 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
14867011 TTAAAAATAT
*
14867021 AAATAAAAATATTTTTAAA
1 AAATAAAAATATTGTTAAA
*
14867040 AAATTAAAA-ATTGTTAAA
1 AAATAAAAATATTGTTAAA
14867058 A
1 A
14867059 GAGTATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (19 bp):
AAATAAAAATATTGTTAAA
Found at i:14868973 original size:12 final size:11
Alignment explanation
Indices: 14868958--14869025 Score: 67
Period size: 11 Copynumber: 6.6 Consensus size: 11
14868948 AAAACAAAAA
14868958 TTTAAAAAGTAT
1 TTTAAAAA-TAT
14868970 TTTAAAAATAT
1 TTTAAAAATAT
14868981 TTT--AAA-A-
1 TTTAAAAATAT
*
14868988 -TTAAAAA-AA
1 TTTAAAAATAT
*
14868997 TTAAAAAATAT
1 TTTAAAAATAT
14869008 TTTAAAAATAT
1 TTTAAAAATAT
14869019 TTTAAAA
1 TTTAAAA
14869026 TTAAAAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
6 2 0.04
8 5 0.10
9 3 0.06
10 6 0.12
11 24 0.50
12 8 0.17
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (11 bp):
TTTAAAAATAT
Found at i:14869001 original size:38 final size:39
Alignment explanation
Indices: 14868929--14869077 Score: 192
Period size: 38 Copynumber: 3.6 Consensus size: 39
14868919 ATAAATACCA
14868929 AAAATATATTTTAAAAATTAAAACAAAAATTTAAAAAGTATTTT
1 AAAA-ATATTTT-AAAATT--AA-AAAAATTTAAAAAGTATTTT
*
14868973 AAAAATATTTTAAAATTAAAAAAA-TTAAAAAATATTTT
1 AAAAATATTTTAAAATTAAAAAAATTTAAAAAGTATTTT
14869011 AAAAATATTTTAAAATTAAAAAAATTTAAAAAAAGTATTTT
1 AAAAATATTTTAAAATTAAAAAAATTT--AAAAAGTATTTT
* *
14869052 AAAAGTATTTAAAAATTTAAAAAAAT
1 AAAAATATTTTAAAA-TTAAAAAAAT
14869078 AAAAAAAAAT
Statistics
Matches: 97, Mismatches: 4, Indels: 10
0.87 0.04 0.09
Matches are distributed among these distances:
38 37 0.38
39 7 0.07
40 2 0.02
41 24 0.25
42 16 0.16
43 7 0.07
44 4 0.04
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.36
Consensus pattern (39 bp):
AAAAATATTTTAAAATTAAAAAAATTTAAAAAGTATTTT
Found at i:14869002 original size:8 final size:9
Alignment explanation
Indices: 14868984--14869044 Score: 52
Period size: 9 Copynumber: 6.4 Consensus size: 9
14868974 AAAATATTTT
14868984 AAAATTAAA
1 AAAATTAAA
14868993 AAAATTAAA
1 AAAATTAAA
14869002 AAATATTTTAAA
1 AAA-A--TTAAA
* **
14869014 AATATT-TT
1 AAAATTAAA
14869022 AAAATTAAA
1 AAAATTAAA
14869031 AAAATTTAAA
1 AAAA-TTAAA
14869041 AAAA
1 AAAA
14869045 GTATTTTAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
8 5 0.12
9 18 0.44
10 10 0.24
11 1 0.02
12 7 0.17
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
AAAATTAAA
Found at i:14869035 original size:30 final size:29
Alignment explanation
Indices: 14868993--14869076 Score: 89
Period size: 32 Copynumber: 2.8 Consensus size: 29
14868983 TAAAATTAAA
**
14868993 AAAATTAAAAAATATTTTAAAAA-TATTTT
1 AAAATTAAAAAAT-TTAAAAAAAGTATTTT
14869022 AAAATTAAAAAAATTTAAAAAAAGTATTTT
1 AAAATT-AAAAAATTTAAAAAAAGTATTTT
*
14869052 AAAAGTATTTAAAAATTTAAAAAAA
1 -AAA--ATTAAAAAATTTAAAAAAA
14869077 TAAAAAAAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
29 13 0.28
30 13 0.28
31 3 0.06
32 15 0.32
33 3 0.06
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (29 bp):
AAAATTAAAAAATTTAAAAAAAGTATTTT
Found at i:14875754 original size:43 final size:42
Alignment explanation
Indices: 14875691--14875816 Score: 157
Period size: 43 Copynumber: 2.9 Consensus size: 42
14875681 AGGACTCCGA
14875691 TATGTGTTTTCGTGTAAGACCACGTCTGGGACGTCGGCATCGAC
1 TATGTGTTTTCGTGTAAGACCACGTCTGGGACGT-GGCATCG-C
*
14875735 T-TGTGTTTTCGTGTAAGACC-CTGTCTGGGACAGTGGCATCGG
1 TATGTGTTTTCGTGTAAGACCAC-GTCTGGGAC-GTGGCATCGC
* * *
14875777 TATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 TATGTGTTTTCGTGTAAGACCACGTCTGGGACG-TGGCAT
14875817 TTTACTAGCT
Statistics
Matches: 73, Mismatches: 4, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
42 3 0.04
43 66 0.90
44 4 0.05
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.31
Consensus pattern (42 bp):
TATGTGTTTTCGTGTAAGACCACGTCTGGGACGTGGCATCGC
Found at i:14876495 original size:15 final size:15
Alignment explanation
Indices: 14876463--14876511 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
14876453 TACTTTAATC
14876463 ATGGATTAGTATTT-T
1 ATGG-TTAGTATTTAT
14876478 ATGGTTAGTATTTAT
1 ATGGTTAGTATTTAT
* *
14876493 ATGGTAATGTATATAT
1 ATGGTTA-GTATTTAT
14876509 ATG
1 ATG
14876512 TGCATGGTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
14 9 0.30
15 11 0.37
16 10 0.33
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (15 bp):
ATGGTTAGTATTTAT
Found at i:14876827 original size:24 final size:24
Alignment explanation
Indices: 14876753--14876909 Score: 108
Period size: 24 Copynumber: 6.7 Consensus size: 24
14876743 ATGAATGTAT
* *
14876753 ATGCTGTCAAATTTTGATGTACAA
1 ATGCTGTCAAATTTTGATATATAA
* * * * * *
14876777 AAGCAGTCCAATTAT-ATATGTAT
1 ATGCTGTCAAATTTTGATATATAA
*
14876800 ATGCTGTCAAATTTTGATATACAA
1 ATGCTGTCAAATTTTGATATATAA
* ** * * *
14876824 ATGCAGTCCGATTAT-ATATGTAT
1 ATGCTGTCAAATTTTGATATATAA
*
14876847 ATGCTGTCAAATTTTGATGTATAA
1 ATGCTGTCAAATTTTGATATATAA
*
14876871 ATGCAGTCCAAATTTTG-TATAT--
1 ATGCTGT-CAAATTTTGATATATAA
14876893 ATGCTGTCCAAATTTTG
1 ATGCTGT-CAAATTTTG
14876910 GTGTGAAAAT
Statistics
Matches: 98, Mismatches: 32, Indels: 8
0.71 0.23 0.06
Matches are distributed among these distances:
22 16 0.16
23 31 0.32
24 42 0.43
25 9 0.09
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (24 bp):
ATGCTGTCAAATTTTGATATATAA
Found at i:14876850 original size:23 final size:23
Alignment explanation
Indices: 14876779--14876881 Score: 75
Period size: 23 Copynumber: 4.4 Consensus size: 23
14876769 ATGTACAAAA
14876779 GCAGTCCAATTATATATGTATAT
1 GCAGTCCAATTATATATGTATAT
* * * ** *
14876802 GCTGTCAAATTTTGATATACAAAT
1 GCAGTCCAATTAT-ATATGTATAT
*
14876826 GCAGTCCGATTATATATGTATAT
1 GCAGTCCAATTATATATGTATAT
* *
14876849 GCTGTCAAATT-T-TGATGTATAAAT
1 GCAGTCCAATTATAT-ATGTAT--AT
14876873 GCAGTCCAA
1 GCAGTCCAA
14876882 ATTTTGTATA
Statistics
Matches: 58, Mismatches: 18, Indels: 7
0.70 0.22 0.08
Matches are distributed among these distances:
21 1 0.02
22 7 0.12
23 25 0.43
24 25 0.43
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.37
Consensus pattern (23 bp):
GCAGTCCAATTATATATGTATAT
Found at i:14876921 original size:47 final size:47
Alignment explanation
Indices: 14876747--14876909 Score: 240
Period size: 47 Copynumber: 3.5 Consensus size: 47
14876737 GAGTAAATGA
*
14876747 ATGTATATGCTGTCAAATTTTGATGTACAAAAGCAGTCCAATTATAT
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
* *
14876794 ATGTATATGCTGTCAAATTTTGATATACAAATGCAGTCCGATTATAT
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
*
14876841 ATGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAAATT-T-T
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCC-AATTATAT
* *
14876887 GTATATATGCTGTCCAAATTTTG
1 ATGTATATGCTGT-CAAATTTTG
14876910 GTGTGAAAAT
Statistics
Matches: 106, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
46 12 0.11
47 91 0.86
48 3 0.03
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.39
Consensus pattern (47 bp):
ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
Found at i:14880621 original size:22 final size:22
Alignment explanation
Indices: 14880595--14880652 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
14880585 ATATCCAAAC
14880595 AATAACAACAAAATAGTAATAA
1 AATAACAACAAAATAGTAATAA
* * * *
14880617 TATAATAACAAATTAGTAGTAA
1 AATAACAACAAAATAGTAATAA
* *
14880639 AACAACAACGAAAT
1 AATAACAACAAAAT
14880653 GACAACAAAA
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.62, C:0.10, G:0.07, T:0.21
Consensus pattern (22 bp):
AATAACAACAAAATAGTAATAA
Found at i:14884592 original size:19 final size:19
Alignment explanation
Indices: 14884568--14884604 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
14884558 AAAATATCAT
14884568 ATTAATTTTAA-TTTATTTA
1 ATTAA-TTTAATTTTATTTA
14884587 ATTAATTTAATTTTATTT
1 ATTAATTTAATTTTATTT
14884605 GATCAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
ATTAATTTAATTTTATTTA
Found at i:14885788 original size:15 final size:15
Alignment explanation
Indices: 14885764--14885795 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
14885754 TATGCATGCA
*
14885764 AAATATAAAAGATAT
1 AAATACAAAAGATAT
14885779 AAATACAAAAGATAT
1 AAATACAAAAGATAT
14885794 AA
1 AA
14885796 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.03, G:0.06, T:0.22
Consensus pattern (15 bp):
AAATACAAAAGATAT
Found at i:14891028 original size:3 final size:3
Alignment explanation
Indices: 14891022--14891069 Score: 80
Period size: 3 Copynumber: 16.0 Consensus size: 3
14891012 CTACTATTAC
14891022 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -AGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
14891067 TAA
1 TAA
14891070 ACTAAACAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 1 0.02
3 41 0.95
4 1 0.02
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
TAA
Done.