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 61 of 204
Found at i:18012291 original size:17 final size:17
Alignment explanation
Indices: 18012264--18012305 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
18012254 AAAGTTTAGG
18012264 GGGGAAATAAAAAGTTTT
1 GGGGAAAT-AAAAGTTTT
18012282 GGGG-AATAAAAG-TTT
1 GGGGAAATAAAAGTTTT
18012297 GAGGGAAAT
1 G-GGGAAAT
18012306 TAAATAAGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 4 0.18
16 8 0.36
17 6 0.27
18 4 0.18
ACGTcount: A:0.43, C:0.00, G:0.33, T:0.24
Consensus pattern (17 bp):
GGGGAAATAAAAGTTTT
Found at i:18017183 original size:39 final size:39
Alignment explanation
Indices: 18017006--18017259 Score: 270
Period size: 39 Copynumber: 6.6 Consensus size: 39
18016996 GCTACTCGTT
*
18017006 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATT-TAGTAACTCGCA
*
18017046 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATTTAGTAACTCGCA
* *
18017086 C-AATGCCTTC-GGCTTAGCCCGGAATTAG-ATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATTTAGTAACTCGCA
* *
18017122 CAAATG-CTTCGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATTTAGTAACTCGCA
* * *
18017160 CCAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATTTAGTAACTCGCA
** * * * * *
18017199 CAAATGCCTTCGATCTTAGTCC-GATATGGTCACTTAGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATTTAGTAAC-TCGCA
*
18017238 CAAA-GCCTTCGGACTTAGCCCG
1 CAAATGCCTTCGGGCTTAGCCCG
18017260 ACATCATTCG
Statistics
Matches: 180, Mismatches: 27, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
36 12 0.07
37 33 0.18
38 34 0.19
39 63 0.35
40 36 0.20
41 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGATTTAGTAACTCGCA
Found at i:18017246 original size:77 final size:75
Alignment explanation
Indices: 18017008--18017259 Score: 269
Period size: 77 Copynumber: 3.3 Consensus size: 75
18016998 TACTCGTTCA
* * *
18017008 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGG-CTTAGCCCGGAAT-TAG-ATCTCGCACAAATG-CTTC-GGACTTAACCCGGA
* *
18017072 TTTAGTAACTCGCAC
61 TATAGTAACTAGCAC
*
18017087 AATGCCTTC-GGCTTAGCCCGGAATTAGATCTCGCACAAATGCTTCGGACTTAACCCGGATTTAG
1 AATGCCTTCGGGCTTAGCCCGGAATTAGATCTCGCACAAATGCTTCGGACTTAACCCGGATATAG
*
18017151 TAACTCGCACC
66 TAACTAGCA-C
**
18017162 AATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTC-GATCTTAGTCC-GATA
1 AATGCCTTCGGGCTTAGCCCGGAATTAG-ATCTCGCACAAATG-CTTCGGA-CTTAACCCGGATA
* *
18017225 TGGTCACTTAGCAC
63 TAGTAAC-TAGCAC
* *
18017239 AAAGCCTTCGGACTTAGCCCG
1 AATGCCTTCGGGCTTAGCCCG
18017260 ACATCATTCG
Statistics
Matches: 155, Mismatches: 11, Indels: 16
0.85 0.06 0.09
Matches are distributed among these distances:
74 28 0.18
75 14 0.09
76 31 0.20
77 56 0.36
78 17 0.11
79 9 0.06
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (75 bp):
AATGCCTTCGGGCTTAGCCCGGAATTAGATCTCGCACAAATGCTTCGGACTTAACCCGGATATAG
TAACTAGCAC
Found at i:18025108 original size:40 final size:40
Alignment explanation
Indices: 18025071--18025260 Score: 262
Period size: 40 Copynumber: 4.8 Consensus size: 40
18025061 GCTACTCGTT
*
18025071 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
18025111 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
18025151 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
18025190 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
18025230 CCAATGCCTTCGGG-CTTAGCCC-GACTTAGTA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
18025261 TTCGCACGAA
Statistics
Matches: 133, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
38 8 0.06
39 41 0.31
40 82 0.62
41 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:18025182 original size:79 final size:79
Alignment explanation
Indices: 18025073--18025260 Score: 299
Period size: 79 Copynumber: 2.4 Consensus size: 79
18025063 TACTCGTTCA
* *
18025073 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
18025137 TTTAGTAACTCGCACC
64 TTTAGTAACTCGCACC
* *
18025153 AATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGTACAAATGCCTTCGGGACTTAACCCGGATT
1 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
18025218 TAGTAACTCGCACC
66 TAGTAACTCGCACC
*
18025232 AATGCCTTCGGGCTTAGCCC-GACTTAGTA
1 AATGCCTTCGGGCTTAGCCCGGAATTAGTA
18025261 TTCGCACGAA
Statistics
Matches: 102, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
78 8 0.08
79 81 0.79
80 13 0.13
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
TAGTAACTCGCACC
Found at i:18025335 original size:94 final size:95
Alignment explanation
Indices: 18025174--18025347 Score: 237
Period size: 94 Copynumber: 1.8 Consensus size: 95
18025164 GCTTAGCCCG
* * * *
18025174 GAATTAGTATCTCGTACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCT
1 GAATTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACCAAAGCCT
18025239 TCGGG-CTTAGCCCGACTTAGTATTCGCAC
66 TCGGGACTTAGCCCGACTTAGTATTCGCAC
** * *
18025268 GAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGC
1 GAATTAGTATCTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAGTAAC-TAGCACCAAAGC
18025331 CTTCGGGACTTAGCCCG
64 CTTCGGGACTTAGCCCG
18025348 GACATCATTC
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
93 3 0.04
94 53 0.77
95 13 0.19
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (95 bp):
GAATTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACCAAAGCCT
TCGGGACTTAGCCCGACTTAGTATTCGCAC
Found at i:18026521 original size:15 final size:16
Alignment explanation
Indices: 18026501--18026535 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
18026491 GAATGAACAC
18026501 TCTTTTTTCTTTT-TT
1 TCTTTTTTCTTTTCTT
*
18026516 TCTTTTTTGTTTTCTT
1 TCTTTTTTCTTTTCTT
18026532 TCTT
1 TCTT
18026536 CAATTCACGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.00, C:0.14, G:0.03, T:0.83
Consensus pattern (16 bp):
TCTTTTTTCTTTTCTT
Found at i:18031049 original size:6 final size:6
Alignment explanation
Indices: 18031038--18031064 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
18031028 TCTATAAATA
18031038 AAAACT AAAACT AAAACT AAAACT AAA
1 AAAACT AAAACT AAAACT AAAACT AAA
18031065 TGTACAAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.70, C:0.15, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAACT
Found at i:18031413 original size:18 final size:18
Alignment explanation
Indices: 18031390--18031430 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
18031380 TCATCTTTTG
*
18031390 CAATAACTCTTCTGCCTC
1 CAATAACTCTTCTGCCTA
18031408 CAATAACTCTTCTGCCTA
1 CAATAACTCTTCTGCCTA
18031426 CAATA
1 CAATA
18031431 CCCACGAACC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.29, C:0.34, G:0.05, T:0.32
Consensus pattern (18 bp):
CAATAACTCTTCTGCCTA
Found at i:18037717 original size:33 final size:32
Alignment explanation
Indices: 18037658--18037719 Score: 88
Period size: 33 Copynumber: 1.9 Consensus size: 32
18037648 TAAAAAAATA
18037658 TTTAACTATAAAAAATTAAAAATAATTATCAT
1 TTTAACTATAAAAAATTAAAAATAATTATCAT
* * *
18037690 TTTAACTAATAAATAATTTAAATTAATTAT
1 TTTAACT-ATAAAAAATTAAAAATAATTAT
18037720 ATAATTCATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 7 0.27
33 19 0.73
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (32 bp):
TTTAACTATAAAAAATTAAAAATAATTATCAT
Found at i:18037956 original size:21 final size:21
Alignment explanation
Indices: 18037932--18037984 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
18037922 TATTGTTTTT
*
18037932 AATCTCACTGCTACAGTATCC
1 AATCTCACTGCTACAGTAACC
*
18037953 AATCTCACAT-CTACAGTAACT
1 AATCTCAC-TGCTACAGTAACC
18037974 AATCTCACTGC
1 AATCTCACTGC
18037985 CATCGCTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 1 0.04
21 26 0.93
22 1 0.04
ACGTcount: A:0.32, C:0.32, G:0.08, T:0.28
Consensus pattern (21 bp):
AATCTCACTGCTACAGTAACC
Found at i:18041602 original size:13 final size:13
Alignment explanation
Indices: 18041584--18041610 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
18041574 AAAGTTGCCC
18041584 TTATAAAATTGTT
1 TTATAAAATTGTT
18041597 TTATAAAATTGTT
1 TTATAAAATTGTT
18041610 T
1 T
18041611 GTTTTATGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (13 bp):
TTATAAAATTGTT
Found at i:18049336 original size:22 final size:22
Alignment explanation
Indices: 18049276--18049338 Score: 58
Period size: 22 Copynumber: 2.8 Consensus size: 22
18049266 CTATTTGCAT
* *
18049276 GTTTAGTGCCTAGGG-TTTATGG
1 GTTTAGTG-TTAGGGTTTTAAGG
*
18049298 GTTTAGAGTTTTA-GGTTTTAAGG
1 GTTT--AGTGTTAGGGTTTTAAGG
18049321 GTTTAGTGTTAGGGTTTT
1 GTTTAGTGTTAGGGTTTT
18049339 GTTAAAATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
21 6 0.18
22 12 0.36
23 12 0.36
24 3 0.09
ACGTcount: A:0.16, C:0.03, G:0.33, T:0.48
Consensus pattern (22 bp):
GTTTAGTGTTAGGGTTTTAAGG
Found at i:18049431 original size:33 final size:32
Alignment explanation
Indices: 18049402--18049489 Score: 108
Period size: 34 Copynumber: 2.7 Consensus size: 32
18049392 AATAAATCAA
18049402 GTTTAGGGTTTTTTAACAAATAAATTAAATTAG
1 GTTTAGGGTTTTTTAA-AAATAAATTAAATTAG
**
18049435 GATTTAGATTTTTTTTAAAAATAAATTAAATTAGG
1 G-TTTAG-GGTTTTTTAAAAATAAATTAAATTA-G
18049470 GTTTAGGG--TTTTAAAAATAA
1 GTTTAGGGTTTTTTAAAAATAA
18049490 TTTTGTGTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
31 12 0.25
33 1 0.02
34 25 0.52
35 10 0.21
ACGTcount: A:0.41, C:0.01, G:0.15, T:0.43
Consensus pattern (32 bp):
GTTTAGGGTTTTTTAAAAATAAATTAAATTAG
Found at i:18049434 original size:27 final size:27
Alignment explanation
Indices: 18049377--18049439 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
18049367 GGGTTATGGG
*
18049377 TTAGGGATTTTTAAAAATAAATCAAGT
1 TTAGGGATTTTTAAAAATAAATCAAGA
* *
18049404 TTAGGGTTTTTTAACAAATAAATTAA-A
1 TTAGGGATTTTTAA-AAATAAATCAAGA
18049431 TTA-GGATTT
1 TTAGGGATTT
18049440 AGATTTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
26 5 0.16
27 16 0.52
28 10 0.32
ACGTcount: A:0.41, C:0.03, G:0.14, T:0.41
Consensus pattern (27 bp):
TTAGGGATTTTTAAAAATAAATCAAGA
Found at i:18049448 original size:34 final size:34
Alignment explanation
Indices: 18049410--18049475 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
18049400 AAGTTTAGGG
18049410 TTTTTTAACAAATAAATTAAATTAGGATTTAGATT
1 TTTTTTAA-AAATAAATTAAATTAGGATTTAGATT
*
18049445 TTTTTTAAAAATAAATTAAATTAGGGTTTAG
1 TTTTTTAAAAATAAATTAAATTAGGATTTAG
18049476 GGTTTTAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 22 0.73
35 8 0.27
ACGTcount: A:0.42, C:0.02, G:0.11, T:0.45
Consensus pattern (34 bp):
TTTTTTAAAAATAAATTAAATTAGGATTTAGATT
Found at i:18049847 original size:125 final size:126
Alignment explanation
Indices: 18049583--18049967 Score: 576
Period size: 126 Copynumber: 3.1 Consensus size: 126
18049573 TTTTTTTGTT
* * *
18049583 CAGTAGTTTCTGAAAAAATAATTTTGAGAAGA-TGGTTATGAAAAAATAGTGTCAAAAACGCTTC
1 CAGTAGTTTCTGAAAAAATAATTTTGAGAAGACT-GTTCTGAAAAAATAATGTCAAAAATGCTTC
*
18049647 AAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTG
65 AAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTA
*
18049709 CAGTAGTTTCTGAAAAACTAATTTTGAGAAGACTGTTCTGAAAAAATAATGTCAAAAATGCTTCA
1 CAGTAGTTTCTGAAAAAATAATTTTGAGAAGACTGTTCTGAAAAAATAATGTCAAAAATGCTTCA
* * * *
18049774 AGCAGGATGCAGTGTCATCAAAAGTACT-AAAAAAGATCTCACGTGGACGCTCTTTTTCTA
66 AGCAGGATGCACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTA
* * * *
18049834 CAGTAGTTTCTGAAAAAATAATTTTAAGAAGACGGTTCTAAAAAAATAATGTCAAAAATGTTTCA
1 CAGTAGTTTCTGAAAAAATAATTTTGAGAAGACTGTTCTGAAAAAATAATGTCAAAAATGCTTCA
* * * * * *
18049899 AGCAAGATGTACTATCAGCAAAAGTATTGAAAAACGCTCCCATGTGGACGCTCTTTTTCTA
66 AGCAGGATGCACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTA
18049960 CAGTAGTT
1 CAGTAGTT
18049968 CTTGCTTGGC
Statistics
Matches: 233, Mismatches: 24, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
125 111 0.48
126 121 0.52
127 1 0.00
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (126 bp):
CAGTAGTTTCTGAAAAAATAATTTTGAGAAGACTGTTCTGAAAAAATAATGTCAAAAATGCTTCA
AGCAGGATGCACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTA
Found at i:18054170 original size:26 final size:25
Alignment explanation
Indices: 18054135--18054209 Score: 87
Period size: 26 Copynumber: 2.9 Consensus size: 25
18054125 ACAGCTCTTA
*
18054135 TGAGCGTCCCATTATATGGCTCTTTG
1 TGAGCTTCCCATTA-ATGGCTCTTTG
**
18054161 TGAGCTTCCCGATTAAAAGCTCTTTG
1 TGAGCTTCCC-ATTAATGGCTCTTTG
*
18054187 TGAGCTTCCTAATTAATGGCTCT
1 TGAGCTTCC-CATTAATGGCTCT
18054210 CCGGAGCTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
26 37 0.90
27 4 0.10
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.37
Consensus pattern (25 bp):
TGAGCTTCCCATTAATGGCTCTTTG
Found at i:18059485 original size:29 final size:29
Alignment explanation
Indices: 18059430--18059486 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
18059420 GTAATTTTAG
** **
18059430 CCCATTTCGGTAAATAAAGTTTAAAATGA
1 CCCATTTCCATAAATAAAGTAGAAAATGA
*
18059459 CCCATTTCCATAAATAAAGTAGGAAATG
1 CCCATTTCCATAAATAAAGTAGAAAATG
18059487 GACCTTTCTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (29 bp):
CCCATTTCCATAAATAAAGTAGAAAATGA
Found at i:18062410 original size:14 final size:14
Alignment explanation
Indices: 18062389--18062430 Score: 75
Period size: 14 Copynumber: 3.0 Consensus size: 14
18062379 TCTTTGCTGC
18062389 TCTCAAATTCTTCA
1 TCTCAAATTCTTCA
*
18062403 TGTCAAATTCTTCA
1 TCTCAAATTCTTCA
18062417 TCTCAAATTCTTCA
1 TCTCAAATTCTTCA
18062431 CTAAGCTGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.29, C:0.26, G:0.02, T:0.43
Consensus pattern (14 bp):
TCTCAAATTCTTCA
Found at i:18065893 original size:328 final size:328
Alignment explanation
Indices: 18065261--18065913 Score: 1038
Period size: 328 Copynumber: 2.0 Consensus size: 328
18065251 GCATAAATTC
* *
18065261 CCTCTTGTACTCATCTACTGACATACGTCATTGCTTCAACTCAAGAAACTCTTTGCGTTTCTTAT
1 CCTCTTATACTCAGCTACTGACATACGTCATTGCTTCAACTCAAGAAACTCTTTGCGTTTCTTAT
* * * *
18065326 TTTGGAACCTTTGACTCACATATTTCTTTTTAAACTTTGTCTAGAAGAATTCCCAATTTACTTGA
66 CTAGGAACCTCTGACTCACATATTTCTTTTTAAACTCTGTCTAGAAGAATTCCCAATTTACTTGA
* * * *
18065391 TCCCTCGGTACCACCGTGATCAACGTGTTCCACCACTGATAAGTTGAGTCTTTTAATGGAGAAAC
131 TCCCTCAGTACCACCGTGATCAACGTGTTCCACCACTGATAAGCTGAGTCTTTCAATAGAGAAAC
* *
18065456 AACATATTTCAAGCATTCTCCTGGTGTACAAGACAATTCATCAAAAACCCTAATTGTGTTTTCTA
196 AACACATTTCAAGCATTCTACTGGTGTACAAGACAATTCATCAAAAACCCTAATTGTGTTTTCTA
* * * *
18065521 ACCAGAACTCGACTGTCTCTGAATCATCTTCAGTTATGCCTCAGAATTCTTTAGCCCTATTCTTT
261 ACCAGAACTCGAATCTCTCTGAATCATCTTCAGTTATACCTCAGAATTCTTTAGCCCTATACTTT
18065586 AGT
326 AGT
* * *
18065589 CCTCTTATACTCAGCTATTGCCTTACGTCATTGCTTCAACTCAAGAAACTCTTTGCGTTTCTTAT
1 CCTCTTATACTCAGCTACTGACATACGTCATTGCTTCAACTCAAGAAACTCTTTGCGTTTCTTAT
* **
18065654 CTAGGAACCTCTGACTCACATATTTCTTTTTGAACTCTGTCTTTAAGAATTCCCAATTTACTTGA
66 CTAGGAACCTCTGACTCACATATTTCTTTTTAAACTCTGTCTAGAAGAATTCCCAATTTACTTGA
*
18065719 TCCCTCAGTACCACCGTGATCAACGTGTTTCACCACT-AGTAAGCTGAGTCTTTCAATAGAGAAA
131 TCCCTCAGTACCACCGTGATCAACGTGTTCCACCACTGA-TAAGCTGAGTCTTTCAATAGAGAAA
* * *
18065783 CAACACATTTCAAGCATTCTACTGGTGTACAAGACAATTCATCGAAAACTCTAATTGTGTTTTTT
195 CAACACATTTCAAGCATTCTACTGGTGTACAAGACAATTCATCAAAAACCCTAATTGTGTTTTCT
* *
18065848 AACCAGAACTCGAATCTCTCTGGATCATCTTTAGTTATACCTCAGAATTCTTTAGCCCTATACTT
260 AACCAGAACTCGAATCTCTCTGAATCATCTTCAGTTATACCTCAGAATTCTTTAGCCCTATACTT
18065913 T
325 T
18065914 CAAATTTTAT
Statistics
Matches: 296, Mismatches: 28, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
327 1 0.00
328 295 1.00
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.36
Consensus pattern (328 bp):
CCTCTTATACTCAGCTACTGACATACGTCATTGCTTCAACTCAAGAAACTCTTTGCGTTTCTTAT
CTAGGAACCTCTGACTCACATATTTCTTTTTAAACTCTGTCTAGAAGAATTCCCAATTTACTTGA
TCCCTCAGTACCACCGTGATCAACGTGTTCCACCACTGATAAGCTGAGTCTTTCAATAGAGAAAC
AACACATTTCAAGCATTCTACTGGTGTACAAGACAATTCATCAAAAACCCTAATTGTGTTTTCTA
ACCAGAACTCGAATCTCTCTGAATCATCTTCAGTTATACCTCAGAATTCTTTAGCCCTATACTTT
AGT
Found at i:18077076 original size:35 final size:35
Alignment explanation
Indices: 18077037--18077116 Score: 151
Period size: 35 Copynumber: 2.3 Consensus size: 35
18077027 GCGCTAGCCA
*
18077037 GATAAACCGGTGATCGGTGTGCCCTACACTAGCTG
1 GATAAACCGATGATCGGTGTGCCCTACACTAGCTG
18077072 GATAAACCGATGATCGGTGTGCCCTACACTAGCTG
1 GATAAACCGATGATCGGTGTGCCCTACACTAGCTG
18077107 GATAAACCGA
1 GATAAACCGA
18077117 CAATGAGTTG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 44 1.00
ACGTcount: A:0.28, C:0.25, G:0.26, T:0.21
Consensus pattern (35 bp):
GATAAACCGATGATCGGTGTGCCCTACACTAGCTG
Found at i:18077177 original size:76 final size:76
Alignment explanation
Indices: 18077088--18077279 Score: 215
Period size: 76 Copynumber: 2.5 Consensus size: 76
18077078 CCGATGATCG
* * * ** * * *
18077088 GTGTGCCCTACACTAGCTGGATAAACCGACAATGAGTTGTGCATAGCACTATTTGGGTAAA-CTA
1 GTGTGCCCAACACTAGTTGGATAAACCAACAATGAGTTGCACACAGCACTAGTCGGGTAAATC-A
18077152 ACGATATCAAAT
65 ACGATATCAAAT
** * * *
18077164 GTGTGCCCAACACTAGTTGGATTTACCAACAATGAGTTGCACCCAGCGCTAGTCGGGTAAATCGA
1 GTGTGCCCAACACTAGTTGGATAAACCAACAATGAGTTGCACACAGCACTAGTCGGGTAAATCAA
18077229 CGATATCAAAT
66 CGATATCAAAT
** * *
18077240 GTGTGCCCAACACTAGTTGGATGTACCAAAAATGAATTGC
1 GTGTGCCCAACACTAGTTGGATAAACCAACAATGAGTTGC
18077280 GCCCAGTGCT
Statistics
Matches: 99, Mismatches: 16, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
76 98 0.99
77 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (76 bp):
GTGTGCCCAACACTAGTTGGATAAACCAACAATGAGTTGCACACAGCACTAGTCGGGTAAATCAA
CGATATCAAAT
Found at i:18077285 original size:76 final size:76
Alignment explanation
Indices: 18077152--18077293 Score: 239
Period size: 76 Copynumber: 1.9 Consensus size: 76
18077142 GGGTAAACTA
* * *
18077152 ACGATATCAAATGTGTGCCCAACACTAGTTGGATTTACCAACAATGAGTTGCACCCAGCGCTAGT
1 ACGATATCAAATGTGTGCCCAACACTAGTTGGATGTACCAAAAATGAATTGCACCCAGCGCTAGT
18077217 CGGGTAAATCG
66 CGGGTAAATCG
* *
18077228 ACGATATCAAATGTGTGCCCAACACTAGTTGGATGTACCAAAAATGAATTGCGCCCAGTGCTAGT
1 ACGATATCAAATGTGTGCCCAACACTAGTTGGATGTACCAAAAATGAATTGCACCCAGCGCTAGT
18077293 C
66 C
18077294 TGATAAACCG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
76 61 1.00
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (76 bp):
ACGATATCAAATGTGTGCCCAACACTAGTTGGATGTACCAAAAATGAATTGCACCCAGCGCTAGT
CGGGTAAATCG
Found at i:18077352 original size:15 final size:16
Alignment explanation
Indices: 18077315--18077352 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
18077305 CAAGTACATA
*
18077315 CATAATTATATCATTT
1 CATAATTATATCAATT
*
18077331 CACAATTAT-TCAATT
1 CATAATTATATCAATT
18077346 CATAATT
1 CATAATT
18077353 CTAATCATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.39, C:0.16, G:0.00, T:0.45
Consensus pattern (16 bp):
CATAATTATATCAATT
Found at i:18082011 original size:57 final size:58
Alignment explanation
Indices: 18081944--18082063 Score: 152
Period size: 57 Copynumber: 2.1 Consensus size: 58
18081934 TCATTTTCTT
* * * *
18081944 TTTTCTTTTTCATATTAGAGAAAATCACATTCATTTCCAAATG-ATTCCATTTTTCCA
1 TTTTCATTTTCATATTAGAGAAAACCACAATCATTTCCAAATGTATTCCATTTCTCCA
* * * * *
18082001 TTTTCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGTTTTTCATTTCTCCA
1 TTTTCATTTTCATATTAGAGAAAACCACAATCATTTCCAAATGTATTCCATTTCTCCA
18082059 TTTTC
1 TTTTC
18082064 TCCATTTCTA
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
57 37 0.70
58 16 0.30
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (58 bp):
TTTTCATTTTCATATTAGAGAAAACCACAATCATTTCCAAATGTATTCCATTTCTCCA
Found at i:18083197 original size:36 final size:36
Alignment explanation
Indices: 18083157--18083228 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
18083147 GACAAAAATA
18083157 CTACACTAAGGGCACCAGATCCAACATAGAACACAC
1 CTACACTAAGGGCACCAGATCCAACATAGAACACAC
18083193 CTACACTAAGGGCACCAGATCCAACATAGAACACAC
1 CTACACTAAGGGCACCAGATCCAACATAGAACACAC
18083229 TGGCCTTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.42, C:0.33, G:0.14, T:0.11
Consensus pattern (36 bp):
CTACACTAAGGGCACCAGATCCAACATAGAACACAC
Found at i:18087615 original size:17 final size:18
Alignment explanation
Indices: 18087584--18087635 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 18
18087574 AGAAAATCCA
*
18087584 TTAATGTTTTATCTATATT
1 TTAAT-TTTTTTCTATATT
*
18087603 TT-ATTTTTTTCTACATT
1 TTAATTTTTTTCTATATT
18087620 TTAATTATTTTT-TATA
1 TTAATT-TTTTTCTATA
18087636 CCCTGCGTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 13 0.46
18 8 0.29
19 7 0.25
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (18 bp):
TTAATTTTTTTCTATATT
Found at i:18094623 original size:133 final size:133
Alignment explanation
Indices: 18094384--18094643 Score: 434
Period size: 133 Copynumber: 2.0 Consensus size: 133
18094374 CAAACTCTGA
18094384 TAACCCTCATACAAAGCCTTATACTTACAACTTATTATTCATATACCACATATAGACTCATTCTT
1 TAACCCTCATACAAAGCCTTATACTTACAACTTATTATTCATATACCACATATAGACTCATTCTT
*
18094449 TTAAAACATCTAACATGCAGAGCTATAATACTTACCTAGAGATGGAATGATCACTAATTAAAACC
66 TTAAAACATCTAACATGCAGAGCTATAATACTTACCTAGAGATAGAATGATCACTAATTAAAACC
18094514 TAG
131 TAG
* * *
18094517 TAACCCTCATGCAAAGCCTTATACTTACAACTTGTTGTTCATATACCACATATAGACTCATT-TT
1 TAACCCTCATACAAAGCCTTATACTTACAACTTATTATTCATATACCACATATAGACTCATTCTT
* *
18094581 TTCAAATCATCTAACATGCAGAGCTGTAATACTTA-CTCAGAGATAGAATGATCACTAATTAAA
66 TT-AAAACATCTAACATGCAGAGCTATAATACTTACCT-AGAGATAGAATGATCACTAATTAAA
18094644 CCAAGAATCC
Statistics
Matches: 119, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
132 6 0.05
133 113 0.95
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.32
Consensus pattern (133 bp):
TAACCCTCATACAAAGCCTTATACTTACAACTTATTATTCATATACCACATATAGACTCATTCTT
TTAAAACATCTAACATGCAGAGCTATAATACTTACCTAGAGATAGAATGATCACTAATTAAAACC
TAG
Found at i:18103364 original size:32 final size:32
Alignment explanation
Indices: 18103323--18103387 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
18103313 TACCCTAGGA
18103323 CGAAATGCCTAAAAAAATCCAAAGGATGAAGC
1 CGAAATGCCTAAAAAAATCCAAAGGATGAAGC
*
18103355 CGAAATGCCTATAAAAATCCAAAGGATGAAGC
1 CGAAATGCCTAAAAAAATCCAAAGGATGAAGC
18103387 C
1 C
18103388 CTAAGGGTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.48, C:0.20, G:0.18, T:0.14
Consensus pattern (32 bp):
CGAAATGCCTAAAAAAATCCAAAGGATGAAGC
Found at i:18113250 original size:3 final size:3
Alignment explanation
Indices: 18113242--18113271 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
18113232 AGAGTGTGTA
18113242 AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
18113272 GTTTAGGGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:18118772 original size:39 final size:39
Alignment explanation
Indices: 18118729--18118803 Score: 116
Period size: 39 Copynumber: 1.9 Consensus size: 39
18118719 GATGTTTTTC
* *
18118729 AGTATTGGGATATATGCTTG-AGTGTTATGTGATTATTTG
1 AGTATTGAGATATATGCTTGTA-TGTTAGGTGATTATTTG
18118768 AGTATTGAGATATATGCTTGTATGTTAGGTGATTAT
1 AGTATTGAGATATATGCTTGTATGTTAGGTGATTAT
18118804 ATGTGTAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
39 32 0.97
40 1 0.03
ACGTcount: A:0.25, C:0.03, G:0.27, T:0.45
Consensus pattern (39 bp):
AGTATTGAGATATATGCTTGTATGTTAGGTGATTATTTG
Found at i:18121019 original size:29 final size:29
Alignment explanation
Indices: 18120977--18121038 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 29
18120967 ATGGCCTGGA
*
18120977 CACATGCCCATGTCCTAGCCCGTGTGGCT
1 CACACGCCCATGTCCTAGCCCGTGTGGCT
*
18121006 CACACGCCCATGTCCTTGCCCGTGTGGCT
1 CACACGCCCATGTCCTAGCCCGTGTGGCT
18121035 CACA
1 CACA
18121039 TGGCTTGGGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.15, C:0.40, G:0.23, T:0.23
Consensus pattern (29 bp):
CACACGCCCATGTCCTAGCCCGTGTGGCT
Found at i:18123171 original size:146 final size:146
Alignment explanation
Indices: 18122907--18123187 Score: 490
Period size: 146 Copynumber: 1.9 Consensus size: 146
18122897 TTGTAACCAG
*
18122907 ATTAAAGACATAGATTTAGCGAGCCATAGATTATTATGCAGATTTTATTTCATTCTTAGGTTTTA
1 ATTAAAGACATAGATTTAGCGAGACATAGATTATTATGCAGATTTTATTTCATTCTTAGGTTTTA
**
18122972 CTTAGTTTATTTTATGTTCGCTTAACCAGAGATTTCTATTTCGGTAGTAAGACAATTGTGAACGG
66 CTTAGTTTATTTTATGTTCGCTTAACCAGAGATTTCTATTTCGACAGTAAGACAATTGTGAACGG
18123037 AGATTTTATTATGCAA
131 AGATTTTATTATGCAA
* * * *
18123053 ATTAAAGACATAGCTTTAGCGAGACATGGATTATTATGTAGGTTTTATTTCATTCTTAGGTTTTA
1 ATTAAAGACATAGATTTAGCGAGACATAGATTATTATGCAGATTTTATTTCATTCTTAGGTTTTA
*
18123118 CTTAGTTTATTTTATGTTCGCTTAACCAGAGGTTTCTATTTCGACAGTAAGACAATTGTGAACGG
66 CTTAGTTTATTTTATGTTCGCTTAACCAGAGATTTCTATTTCGACAGTAAGACAATTGTGAACGG
18123183 AGATT
131 AGATT
18123188 GTTCCAAATC
Statistics
Matches: 127, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
146 127 1.00
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (146 bp):
ATTAAAGACATAGATTTAGCGAGACATAGATTATTATGCAGATTTTATTTCATTCTTAGGTTTTA
CTTAGTTTATTTTATGTTCGCTTAACCAGAGATTTCTATTTCGACAGTAAGACAATTGTGAACGG
AGATTTTATTATGCAA
Found at i:18125267 original size:51 final size:51
Alignment explanation
Indices: 18125208--18125425 Score: 151
Period size: 51 Copynumber: 4.3 Consensus size: 51
18125198 GACTGCGTGT
* *
18125208 AGGCCACTATGTGAAAGTGAAAGTGAT-GGTCACGTGTGTAGTACTATGTGC
1 AGGCTACTATGTGAAAG-GAAAGTGATAGGTCACATGTGTAGTACTATGTGC
* * * ** * *
18125259 AGGCCACTACGTG-TACCAAAATGATAGGTCGCATGTGTAGTACTATGTGC
1 AGGCTACTATGTGAAAGGAAAGTGATAGGTCACATGTGTAGTACTATGTGC
* * ** * * * * *
18125309 AAGCTACTATGCGTACCGGATAGCT--TCGATCACGTGTGTAGTACTATGTGT
1 AGGCTACTATGTG-AAAGGAAAG-TGATAGGTCACATGTGTAGTACTATGTGC
** * *
18125360 AGGCTACTACATGT-ATCGGATAGTGAT-GGTCACATGTGTAGTACTATGTGT
1 AGGCTACT--ATGTGAAAGGAAAGTGATAGGTCACATGTGTAGTACTATGTGC
18125411 AGGCTACTATGTGAA
1 AGGCTACTATGTGAA
18125426 CCTGTATCAT
Statistics
Matches: 130, Mismatches: 28, Indels: 19
0.73 0.16 0.11
Matches are distributed among these distances:
49 11 0.08
50 34 0.26
51 78 0.60
52 3 0.02
53 4 0.03
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (51 bp):
AGGCTACTATGTGAAAGGAAAGTGATAGGTCACATGTGTAGTACTATGTGC
Found at i:18125358 original size:101 final size:102
Alignment explanation
Indices: 18125237--18125421 Score: 266
Period size: 101 Copynumber: 1.8 Consensus size: 102
18125227 AAAGTGATGG
* *
18125237 TCACGTGTGTAGTACTATGTGCAGGCCACTACGTGTA-C-CAAAATGATAGGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCCACTACATGTATCGCAAAATGAT-GGTCACATGTGTAGT
18125300 ACTATGTGCAAGCTACTATGCGTACCGGATAGCTTCGA
65 ACTATGTGCAAGCTACTATGCGTACCGGATAGCTTCGA
* * * * *
18125338 TCACGTGTGTAGTACTATGTGTAGGCTACTACATGTATCGGATAGTGATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCCACTACATGTATCGCAAAATGATGGTCACATGTGTAGTA
* *
18125403 CTATGTGTAGGCTACTATG
66 CTATGTGCAAGCTACTATG
18125422 TGAACCTGTA
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
101 34 0.47
102 33 0.45
103 6 0.08
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCCACTACATGTATCGCAAAATGATGGTCACATGTGTAGTA
CTATGTGCAAGCTACTATGCGTACCGGATAGCTTCGA
Found at i:18125622 original size:16 final size:16
Alignment explanation
Indices: 18125601--18125632 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
18125591 TGATTGAAAG
*
18125601 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
18125617 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
18125633 GCAACAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:18142945 original size:20 final size:21
Alignment explanation
Indices: 18142911--18142951 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
18142901 TTCTTTGTCC
* *
18142911 TTTTTCGTTTTTTTAGTTTTT
1 TTTTTCGTTTATTTACTTTTT
18142932 TTTTTC-TTTATTTACTTTTT
1 TTTTTCGTTTATTTACTTTTT
18142952 CAGTTCTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.07, C:0.07, G:0.05, T:0.80
Consensus pattern (21 bp):
TTTTTCGTTTATTTACTTTTT
Found at i:18142956 original size:28 final size:32
Alignment explanation
Indices: 18142919--18142976 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 32
18142909 CCTTTTTCGT
*
18142919 TTTTTTAGTT-TTTT-TTT-TC-TTTATTTAC
1 TTTTTCAGTTCTTTTATTTGTCATTTATTTAC
18142947 TTTTTCAGTTCTTTTATTTGTCATTTATTT
1 TTTTTCAGTTCTTTTATTTGTCATTTATTT
18142977 GTTTTATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 9 0.36
29 4 0.16
30 3 0.12
31 2 0.08
32 7 0.28
ACGTcount: A:0.12, C:0.09, G:0.05, T:0.74
Consensus pattern (32 bp):
TTTTTCAGTTCTTTTATTTGTCATTTATTTAC
Found at i:18142987 original size:13 final size:13
Alignment explanation
Indices: 18142969--18142993 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18142959 TTTATTTGTC
18142969 ATTTATTTGTTTT
1 ATTTATTTGTTTT
18142982 ATTTATTTGTTT
1 ATTTATTTGTTT
18142994 ATTGTTAGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (13 bp):
ATTTATTTGTTTT
Found at i:18143078 original size:21 final size:20
Alignment explanation
Indices: 18143035--18143137 Score: 81
Period size: 21 Copynumber: 5.1 Consensus size: 20
18143025 TTTTACATGT
**
18143035 TTTATAATATTATTTTTAAAAA
1 TTTA-AATA-TATTTTTTTAAA
*
18143057 TTTTACATATATTTTTTTAAA
1 -TTTAAATATATTTTTTTAAA
18143078 -TT--AT-TA-TTTTTTAGAA
1 TTTAAATATATTTTTTTA-AA
18143094 TTTAAATATTATTTTTTTTAAA
1 TTTAAATA-TA-TTTTTTTAAA
*
18143116 TTTAAATATAATTTTTTAAA
1 TTTAAATATATTTTTTTAAA
18143136 TT
1 TT
18143138 ATTTTTAAAG
Statistics
Matches: 68, Mismatches: 4, Indels: 19
0.75 0.04 0.21
Matches are distributed among these distances:
15 7 0.10
16 4 0.06
17 4 0.06
19 4 0.06
20 11 0.16
21 14 0.21
22 13 0.19
23 11 0.16
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (20 bp):
TTTAAATATATTTTTTTAAA
Found at i:18143083 original size:37 final size:38
Alignment explanation
Indices: 18143034--18143117 Score: 102
Period size: 37 Copynumber: 2.2 Consensus size: 38
18143024 ATTTTACATG
*
18143034 TTTTATAA-TATTATTTTTAAAAATTTTACATA-TA-TTT
1 TTTTA-AATTATTATTTTTAAAAA-TTTAAATATTATTTT
* *
18143071 TTTTAAATTATTATTTTTTAGAATTTAAATATTATTTT
1 TTTTAAATTATTATTTTTAAAAATTTAAATATTATTTT
18143109 TTTTAAATT
1 TTTTAAATT
18143118 TAAATATAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
36 9 0.22
37 20 0.49
38 12 0.29
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (38 bp):
TTTTAAATTATTATTTTTAAAAATTTAAATATTATTTT
Found at i:18143100 original size:22 final size:20
Alignment explanation
Indices: 18143072--18143137 Score: 87
Period size: 22 Copynumber: 3.1 Consensus size: 20
18143062 CATATATTTT
18143072 TTTAAATTATTATTTTTTAGAA
1 TTTAAA-TATTATTTTTTA-AA
18143094 TTTAAATATTATTTTTTTTAAA
1 TTTAAATATTA--TTTTTTAAA
*
18143116 TTTAAATATAATTTTTTAAA
1 TTTAAATATTATTTTTTAAA
18143136 TT
1 TT
18143138 ATTTTTAAAG
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
20 11 0.27
21 5 0.12
22 18 0.44
23 7 0.17
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (20 bp):
TTTAAATATTATTTTTTAAA
Found at i:18143111 original size:24 final size:23
Alignment explanation
Indices: 18143077--18143132 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 23
18143067 ATTTTTTTAA
*
18143077 ATTATTATTTTTTAGAATTTAAAT
1 ATTATTTTTTTTTA-AATTTAAAT
18143101 ATTA-TTTTTTTTAAATTTAAAT
1 ATTATTTTTTTTTAAATTTAAAT
*
18143123 ATAATTTTTT
1 ATTATTTTTT
18143133 AAATTATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 12 0.41
23 13 0.45
24 4 0.14
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (23 bp):
ATTATTTTTTTTTAAATTTAAAT
Found at i:18148793 original size:19 final size:18
Alignment explanation
Indices: 18148750--18148790 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
18148740 AAATGCTATA
18148750 ATTTTTAACAAATAAATC
1 ATTTTTAACAAATAAATC
*
18148768 ATTTTTAATAAATAAATC
1 ATTTTTAACAAATAAATC
18148786 -TTTTT
1 ATTTTT
18148791 TTATTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTTTTAACAAATAAATC
Found at i:18149146 original size:23 final size:22
Alignment explanation
Indices: 18149120--18149193 Score: 60
Period size: 22 Copynumber: 3.1 Consensus size: 22
18149110 ATTATTTTTT
18149120 AAAAATTTTAAATATAATTTAAA
1 AAAAATTTTAAATAT-ATTTAAA
* *
18149143 AAAACA-TTTGAATATCTTTAAA
1 AAAA-ATTTTAAATATATTTAAA
*
18149165 AATAATTTTCAAAATAATGATTTAAA
1 AAAAATTTT--AAAT-AT-ATTTAAA
18149191 AAA
1 AAA
18149194 TTATATTTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
21 1 0.03
22 12 0.31
23 12 0.31
24 4 0.10
25 2 0.05
26 8 0.21
ACGTcount: A:0.57, C:0.04, G:0.03, T:0.36
Consensus pattern (22 bp):
AAAAATTTTAAATATATTTAAA
Found at i:18149348 original size:21 final size:21
Alignment explanation
Indices: 18149317--18149398 Score: 73
Period size: 21 Copynumber: 4.0 Consensus size: 21
18149307 TAAAATTTTA
*
18149317 TAATA-TT-AAAAATTAGATT
1 TAATATTTAAAAAATTATATT
*
18149336 TAATATTTAAAAAATAATATT
1 TAATATTTAAAAAATTATATT
18149357 TAA-ATTTTAAAAAA-TATATT
1 TAATA-TTTAAAAAATTATATT
* * *
18149377 TAAGATTTTAAATAATAATATT
1 TAATA-TTTAAAAAATTATATT
18149399 ATAAAAAATT
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
19 5 0.09
20 11 0.21
21 32 0.60
22 5 0.09
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
TAATATTTAAAAAATTATATT
Found at i:18149387 original size:42 final size:41
Alignment explanation
Indices: 18149313--18149403 Score: 110
Period size: 41 Copynumber: 2.1 Consensus size: 41
18149303 ATTTTAAAAT
* *
18149313 TTTATAATATTAAAAATTAGATTTAATATTTAAAAAATAATA
1 TTTA-AATATTAAAAAATAGATTTAAGATTTAAAAAATAATA
* * *
18149355 TTTAAATTTTAAAAAATATATTTAAGATTTTAAATAATAATA
1 TTTAAATATTAAAAAATAGATTTAAGA-TTTAAAAAATAATA
18149397 TTATAAA
1 TT-TAAA
18149404 AAATTTAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
41 19 0.45
42 19 0.45
43 4 0.10
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (41 bp):
TTTAAATATTAAAAAATAGATTTAAGATTTAAAAAATAATA
Found at i:18151483 original size:23 final size:23
Alignment explanation
Indices: 18151434--18151483 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
18151424 AGTGGAACTT
* * *
18151434 GTAATATCCCGAAAATTACTACT
1 GTAATACCCCGAAAATTACCACA
18151457 GTAATACCCCGAAAATTACCACA
1 GTAATACCCCGAAAATTACCACA
18151480 GTAA
1 GTAA
18151484 GAAAGTAGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.42, C:0.24, G:0.10, T:0.24
Consensus pattern (23 bp):
GTAATACCCCGAAAATTACCACA
Found at i:18154699 original size:19 final size:19
Alignment explanation
Indices: 18154675--18154715 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
18154665 TTATTAATAA
*
18154675 ATTTATTGTTACTATTATT
1 ATTTATTATTACTATTATT
**
18154694 ATTTATTATTGGTATTATT
1 ATTTATTATTACTATTATT
18154713 ATT
1 ATT
18154716 ACACTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.63
Consensus pattern (19 bp):
ATTTATTATTACTATTATT
Found at i:18159680 original size:27 final size:27
Alignment explanation
Indices: 18159643--18159702 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
18159633 TTCAGATTCA
18159643 AAAAAAATCAAAATCAAAAACAAAAAC
1 AAAAAAATCAAAATCAAAAACAAAAAC
* * *
18159670 AAAAAAATCAAAGTCAAAAGCAAAAGC
1 AAAAAAATCAAAATCAAAAACAAAAAC
18159697 AAAAAA
1 AAAAAA
18159703 GAGAAATCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.75, C:0.13, G:0.05, T:0.07
Consensus pattern (27 bp):
AAAAAAATCAAAATCAAAAACAAAAAC
Found at i:18161542 original size:23 final size:23
Alignment explanation
Indices: 18161516--18161613 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
18161506 ATAAGTGCCA
18161516 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
18161539 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
18161562 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
18161584 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
18161607 CACTGAT
1 CACTGAT
18161614 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:18161581 original size:45 final size:45
Alignment explanation
Indices: 18161523--18161611 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
18161513 CCACACTGAT
* *
18161523 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
18161568 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
18161612 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:18163902 original size:55 final size:55
Alignment explanation
Indices: 18163813--18163922 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
18163803 TATTGTTTAG
*
18163813 AACGCACCAGGTAAAGGTTGGAAATTTGAGAAGGAAGAGTCTAAATTTGGACTTT
1 AACGCACCAGGTAAAGGTTGGAAATTTGAAAAGGAAGAGTCTAAATTTGGACTTT
18163868 AACGCACCAGGTAAAGGTTGGAAATTTGAAAAGGAAGAGTCTAAATTTGGACTTT
1 AACGCACCAGGTAAAGGTTGGAAATTTGAAAAGGAAGAGTCTAAATTTGGACTTT
18163923 CTCTTTGGAT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.37, C:0.11, G:0.26, T:0.25
Consensus pattern (55 bp):
AACGCACCAGGTAAAGGTTGGAAATTTGAAAAGGAAGAGTCTAAATTTGGACTTT
Found at i:18164656 original size:44 final size:43
Alignment explanation
Indices: 18164519--18164656 Score: 113
Period size: 42 Copynumber: 3.2 Consensus size: 43
18164509 AGACACAAAC
* *
18164519 CTTGCCTCCATTGGTTGTAGTGGAGCTGGTTGAAGATAGCAGAT
1 CTTGCCTCCA-TGGTTGCAGTGGAGCTGGTTAAAGATAGCAGAT
* * * * * * *
18164563 CTTGCCTTCC-TGCATTGACAGTGAAGCAGATCAAA-A-A-CAAAGC
1 CTTGCC-TCCATG-GTTG-CAGTGGAGCTGGTTAAAGATAGCAGA-T
18164606 CTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGAT
1 CTTGCCTCCAT-GGTTGCAGTGGAGCTGGTTAAAGATAGCAGAT
18164650 CTTGCCT
1 CTTGCCT
18164657 TCTTGCATTG
Statistics
Matches: 69, Mismatches: 16, Indels: 18
0.67 0.16 0.17
Matches are distributed among these distances:
42 19 0.28
43 14 0.20
44 19 0.28
45 17 0.25
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.28
Consensus pattern (43 bp):
CTTGCCTCCATGGTTGCAGTGGAGCTGGTTAAAGATAGCAGAT
Found at i:18164664 original size:87 final size:87
Alignment explanation
Indices: 18164502--18164946 Score: 586
Period size: 87 Copynumber: 5.1 Consensus size: 87
18164492 AGATCAGTGA
* *
18164502 AGATCGAAGACACAAA-CCTTGCCTCCATTGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTT
1 AGATCGAA-A-ACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTT
18164566 GCCTTCCTGCATTGACAGTGAAGC
64 GCCTTCCTGCATTGACAGTGAAGC
* *
18164590 AGATCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* * *
18164655 CTTCTTGCATTGACAGCGAAGA
66 CTTCCTGCATTGACAGTGAAGC
* * *
18164677 AGATCGCAAACAAAGCCTTGCCTCTATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATATTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
*
18164742 CTTCCTGCATTGACAATGAAGC
66 CTTCCTGCATTGACAGTGAAGC
* * * * **
18164764 AGATCGCAAACAAAGCCTTGCCTCCCTCAGTTGTGGTGGAGCAAGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
** *
18164829 CTTCCTGCGCTGACAGCGAAGC
66 CTTCCTGCATTGACAGTGAAGC
* * * * * * * *
18164851 AAATCGAAGACACAAGCCTTGCCTCCCTCGGTTGTAGTAGAGCAGGTTGAAGACAGCAAATCTTG
1 AGATCGAAAACA-AAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTG
* *
18164916 CCTACCTGCATCGACAGTGAAGC
65 CCTTCCTGCATTGACAGTGAAGC
18164939 AGATCGAA
1 AGATCGAA
18164947 GATGGCGAAT
Statistics
Matches: 312, Mismatches: 43, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
86 5 0.02
87 230 0.74
88 77 0.25
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.24
Consensus pattern (87 bp):
AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
CTTCCTGCATTGACAGTGAAGC
Found at i:18165179 original size:44 final size:44
Alignment explanation
Indices: 18165082--18165203 Score: 138
Period size: 44 Copynumber: 2.8 Consensus size: 44
18165072 GAAGATGGCA
* * ** * *
18165082 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCTCAT
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGTGGATTAAAGCTAAT
* *
18165126 AATCCTATCTCCCTGAAGTTGTAGTAGAGTGGATTAAAG-TAAT
1 AATCTTATCTCCCTGAAGTTGCAGTAGAGTGGATTAAAGCTAAT
* *
18165169 AGATCTTATCTCTCTGAATTTGCAGTAGAGTGGAT
1 A-ATCTTATCTCCCTGAAGTTGCAGTAGAGTGGAT
18165204 CGCATCAGGT
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 4 0.06
44 61 0.94
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTAGAGTGGATTAAAGCTAAT
Found at i:18165488 original size:12 final size:12
Alignment explanation
Indices: 18165471--18165502 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
18165461 GGCCCGCTAT
*
18165471 TAAAATAAATAA
1 TAAAATAAAAAA
18165483 TAAAATAAAAAA
1 TAAAATAAAAAA
18165495 TAAAATAA
1 TAAAATAA
18165503 CAGTCCAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (12 bp):
TAAAATAAAAAA
Found at i:18166586 original size:19 final size:19
Alignment explanation
Indices: 18166562--18166602 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
18166552 TTATTAATAA
*
18166562 ATTTATTGTTACTATTATT
1 ATTTATTATTACTATTATT
**
18166581 ATTTATTATTGGTATTATT
1 ATTTATTATTACTATTATT
18166600 ATT
1 ATT
18166603 ACACTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.63
Consensus pattern (19 bp):
ATTTATTATTACTATTATT
Found at i:18168811 original size:16 final size:17
Alignment explanation
Indices: 18168790--18168822 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
18168780 TTTCAAAGAT
*
18168790 TAATTTTGT-AATTAAA
1 TAATTTAGTAAATTAAA
18168806 TAATTTAGTAAATTAAA
1 TAATTTAGTAAATTAAA
18168823 ACAAAAGATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (17 bp):
TAATTTAGTAAATTAAA
Found at i:18173868 original size:21 final size:23
Alignment explanation
Indices: 18173833--18173875 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
18173823 CCAAAACACT
*
18173833 ATAAATGATAGGAAAAC-TAAAG
1 ATAAATGACAGGAAAACATAAAG
18173855 ATAAAT-ACAGGAAAACATAAA
1 ATAAATGACAGGAAAACATAAA
18173876 AAACAGTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.63, C:0.07, G:0.14, T:0.16
Consensus pattern (23 bp):
ATAAATGACAGGAAAACATAAAG
Found at i:18176316 original size:125 final size:124
Alignment explanation
Indices: 18176094--18176332 Score: 363
Period size: 125 Copynumber: 1.9 Consensus size: 124
18176084 AAATAGTGGG
** * * * *
18176094 AAATCGCTTCTACTAGGATGCTATTTAAGAAGAAATTGTGAAATAGTGGCCTCGTGGACGCGATT
1 AAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATT
18176159 TCGCTACAGTGGTCATGTGAGAAATAATTTTTTTTTGACGTTTTCTGAGGAGGTAGTATA
66 TCGCTACAGTGGTCATGTGAGAAATAATTTTTTTTTGACG-TTTCTGAGGAGGTAGTATA
* *
18176219 AAATCGCTGATACCAGGATGCTATATGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGCGATT
1 AAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATT
*
18176284 TCGTTACAGTTGGTCATGT-AGGAAATAATTTTTTTTTGACGTTTCTGAG
66 TCGCTACAG-TGGTCATGTGA-GAAATAATTTTTTTTTGACGTTTCTGAG
18176333 CAAATAGTGT
Statistics
Matches: 103, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
125 74 0.72
126 29 0.28
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (124 bp):
AAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATT
TCGCTACAGTGGTCATGTGAGAAATAATTTTTTTTTGACGTTTCTGAGGAGGTAGTATA
Found at i:18176348 original size:125 final size:124
Alignment explanation
Indices: 18176069--18176350 Score: 361
Period size: 125 Copynumber: 2.3 Consensus size: 124
18176059 TTTTTTCGAG
* ** ** * *
18176069 TTGACGTTTCTG-GTTAAATAGTGGGAAATCGCTTCTACTAGGATGCTATTTAAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAGTGTAAAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGT
* *
18176133 GAAATAGTGGCCTCGTGGACGCGATTTCGCTACAGTGGTCATGTGAGAAATAATTTTTTT
65 GAAATAGCGCCCTCGTGGACGCGATTTCGCTACAGTGGTCATGTGAGAAATAATTTTTTT
* ** * *
18176193 TTGACGTTTTCTGAGGAGGTAGTATAAAATCGCTGATACCAGGATGCTATATGAGAAGAAATTGT
1 TTGACG-TTTCTGAGCAAATAGTGTAAAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGT
* *
18176258 GAAATCGCGCCCTCGTGGACGCGATTTCGTTACAGTTGGTCATGT-AGGAAATAATTTTTTT
65 GAAATAGCGCCCTCGTGGACGCGATTTCGCTACAG-TGGTCATGTGA-GAAATAATTTTTTT
*
18176319 TTGACGTTTCTGAGCAAATAGTGTCAAATCGC
1 TTGACGTTTCTGAGCAAATAGTGTAAAATCGC
18176351 GCCCTCGTGG
Statistics
Matches: 134, Mismatches: 20, Indels: 7
0.83 0.12 0.04
Matches are distributed among these distances:
124 6 0.04
125 98 0.73
126 30 0.22
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (124 bp):
TTGACGTTTCTGAGCAAATAGTGTAAAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTG
AAATAGCGCCCTCGTGGACGCGATTTCGCTACAGTGGTCATGTGAGAAATAATTTTTTT
Found at i:18176454 original size:84 final size:85
Alignment explanation
Indices: 18176259--18176462 Score: 383
Period size: 84 Copynumber: 2.4 Consensus size: 85
18176249 AGAAATTGTG
*
18176259 AAATCGCGCCCTCGTGGACGCGATTTCGTTACAGTTGGTCATGTAGGAAATAATTTTTTTTTGAC
1 AAATCGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAGGAAATAATTTTTTTTTGAC
*
18176324 GTTTCTGAGCAAATAGTGTC
66 GTTTCTGAGAAAATAGTGTC
18176344 AAATCGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAGGAAATAA-TTTTTTTTGAC
1 AAATCGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAGGAAATAATTTTTTTTTGAC
18176408 GTTTCTGAGAAAATAGTGTC
66 GTTTCTGAGAAAATAGTGTC
18176428 AAATCGCGCCCTCGTGGACGCGATTTCGCTACAGT
1 AAATCGCGCCCTCGTGGACGCGATTTCGCTACAGT
18176463 AGCATGTTTG
Statistics
Matches: 117, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
84 65 0.56
85 52 0.44
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (85 bp):
AAATCGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAGGAAATAATTTTTTTTTGAC
GTTTCTGAGAAAATAGTGTC
Found at i:18179637 original size:28 final size:28
Alignment explanation
Indices: 18179605--18180767 Score: 1012
Period size: 28 Copynumber: 44.5 Consensus size: 28
18179595 AATTAGGGTT
18179605 TTTAATTAAATTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
*
18179633 TTTAATTAAATAAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
*
18179661 --T--TT-AAGTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* **
18179684 TTAAATTAGGTTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* **
18179712 TTTAAGTAGGTTAGGTTAGGGTTTTT-A
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
18179739 -TT--TT-AATTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
*
18179763 --T--TT--A--AGGTTAGGGCTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
18179783 -TTA----AATTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
18179806 TTTAATTAAATTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
*
18179834 --T--TT-AAGTAGGTTAGGGTTTTT-A
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
18179856 ---A-TTAAATTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
18179880 TTTAATTAAATTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
*
18179908 TTTAATTTAATTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
*
18179936 --T--TT-AAGTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* **
18179959 TTAAATTAGGTTAGGGTAGGGTTAGGGTTTTTAA
1 TTTAATTA----A-ATTA-GGTTAGGGTTTTTAA
18179993 TTTAATTAAATTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
*
18180021 --T--TT-AAGTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* **
18180044 TTAAATTAGGTTAGGGTAGGGTTAGGGTTTTTAA
1 TTTAATTA----A-ATTA-GGTTAGGGTTTTTAA
*
18180078 TTTAATTAAATAAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* *
18180106 --T--TT-AAGTAGGTTAGAGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* **
18180129 TTAAATTAGGTTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* **
18180157 TTTAAGTAGGTTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
*
18180185 TTTAATTAAAATAAGGTTAGGGTTTTTAA
1 TTTAATT-AAATTAGGTTAGGGTTTTTAA
18180214 --T--TT-AATTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
*
18180237 TTTAATTAAAATAAGGTTAGGGTTTTTAA
1 TTTAATT-AAATTAGGTTAGGGTTTTTAA
18180266 --T--TT-AATTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
18180289 --T--TT--A--AGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
18180309 -T----TAAATTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
18180332 TTTAATTAAATTAGGTTAGGGTTTTT-A
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
*
18180359 -CT--TT-AATTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
18180383 --T--TT--A--AGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
18180403 -T----TAAATTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
18180426 TTTAATTAAATTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* **
18180454 TTTAAGTAGGTTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* **
18180482 TTTAAGTAGGTTAGGTTAGGG---TT--
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
18180505 TTTAATTAAATTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* **
18180533 TTAAATTAGGTTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* **
18180561 TTTAAGTAGGTTAGGTTAGGG---TT--
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
18180584 TTTAATTAAATTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* **
18180612 TTAAATTAGGTTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
* **
18180640 TTTAAGTAGGTTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
*
18180668 TTTAATTAAAATAAGGTTAGGGTTTTTAA
1 TTTAATT-AAATTAGGTTAGGGTTTTTAA
**
18180697 TTTAATTAGGTTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
**
18180725 TTTAATTAGGTTAGGTTAGGGTTTTTAA
1 TTTAATTAAATTAGGTTAGGGTTTTTAA
18180753 TTTAATTAAATTAGG
1 TTTAATTAAATTAGG
18180768 GTTTTTAATT
Statistics
Matches: 970, Mismatches: 76, Indels: 178
0.79 0.06 0.15
Matches are distributed among these distances:
19 2 0.00
20 47 0.05
21 4 0.00
22 6 0.01
23 271 0.28
24 21 0.02
25 9 0.01
26 12 0.01
27 15 0.02
28 464 0.48
29 65 0.07
30 2 0.00
32 2 0.00
33 6 0.01
34 44 0.05
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.48
Consensus pattern (28 bp):
TTTAATTAAATTAGGTTAGGGTTTTTAA
Found at i:18179673 original size:51 final size:51
Alignment explanation
Indices: 18179597--18180777 Score: 808
Period size: 51 Copynumber: 22.7 Consensus size: 51
18179587 CTACAATTAA
* * * *
18179597 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAATTAAATAAGG
1 TTAGGGTTTTTAATTTAAGTAGGTTAGGGTTTTTAATTTAATTAAGTTAGG
* *
18179648 TTAGGGTTTTTAATTTAAGTAGGTTAGGGTTTTTAATTAAATTAGGTTAGG
1 TTAGGGTTTTTAATTTAAGTAGGTTAGGGTTTTTAATTTAATTAAGTTAGG
18179699 TTAGGGTTTTTAATTTAAGTAGGTTAGGTTAGGGTTTTT-A-TT--TTAA-TTAGG
1 TTAGGGTTTTTAATTT-A--A-G-TAGGTTAGGGTTTTTAATTTAATTAAGTTAGG
*
18179750 TTAGGGTTTTTAATTT-A--AGGTTAGGGCTTTTAA-TT-A--AA-TTAGG
1 TTAGGGTTTTTAATTTAAGTAGGTTAGGGTTTTTAATTTAATTAAGTTAGG
*
18179793 TTAGGGTTTTTAATTTAATTAAATTAGGTTAGGGTTTTTAA--T--TTAAG-TAGG
1 TTAGGGTTTTTAA--T--TT-AAGTAGGTTAGGGTTTTTAATTTAATTAAGTTAGG
* * *
18179844 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAATTAAATTAGG
1 TTAGGGTTTTTAATTTAAGTAGGTTAGGGTTTTTAATTTAATTAAGTTAGG
*
18179895 TTAGGGTTTTTAATTTAATTTAATTAGGTTAGGGTTTTTAA--T--TTAAG-TAGG
1 TTAGGG---TT--TTTAATTTAAGTAGGTTAGGGTTTTTAATTTAATTAAGTTAGG
*
18179946 TTAGGGTTTTTAATTAAATTAGGTTAGGGTAGGGTTAGGGTTTTTAATTTAATTAAATTAGG
1 TTAGGGTTTTTAA-T---TTA----A--GTA-GGTTAGGGTTTTTAATTTAATTAAGTTAGG
* *
18180008 TTAGGGTTTTTAATTTAAGTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTAGGG
1 TTAGGGTTTTTAATTTAAGTAGGTTAGGGTTTTTAATTTAATTA----A-GTTA-GG
*
18180065 TTAGGGTTTTTAATTTAATTAAATAAGGTTAGGGTTTTTAA--T--TTAAG-TAGG
1 TTAGGGTTTTTAA--T--TTAAGT-AGGTTAGGGTTTTTAATTTAATTAAGTTAGG
* * * *
18180116 TTAGAGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTTAAGTAGGTTAGG
1 TTAGGGTTTTTAA-T---TTAAG-TAGGTTAGGGTTTTTAATTTAATTAAGTTAGG
* *
18180172 TTAGGGTTTTTAATTTAATTAAAATAAGGTTAGGGTTTTTAATTTAATTAGGTTAGGG
1 TTAGGGTTTTTAA--T--TT-AAGT-AGGTTAGGGTTTTTAATTTAATTAAGTTA-GG
* * *
18180230 TT---TTTAATTTAATTAAAATAAGGTTAGGGTTTTTAA--T--TTAA-TTAGG
1 TTAGGGTT--TTTAATTTAAGT-AGGTTAGGGTTTTTAATTTAATTAAGTTAGG
18180276 TTAGGGTTTTTAATTT-A--AGGTTAGGGTTTTTAA-TT-A--AA-TTAGG
1 TTAGGGTTTTTAATTTAAGTAGGTTAGGGTTTTTAATTTAATTAAGTTAGG
* *
18180319 TTAGGGTTTTTAATTTAATTAAATTAGGTTAGGGTTTTT-A-CT--TTAA-TTAGG
1 TTAGGGTTTTTAA--T--TT-AAGTAGGTTAGGGTTTTTAATTTAATTAAGTTAGG
18180370 TTAGGGTTTTTAATTT-A--AGGTTAGGGTTTTTAA-TT-A--AA-TTAGG
1 TTAGGGTTTTTAATTTAAGTAGGTTAGGGTTTTTAATTTAATTAAGTTAGG
* * *
18180413 TTAGGGTTTTTAATTTAATTAAATTAGGTTAGGGTTTTTAATTTAAGTAGGTTAGG
1 TTAGGGTTTTTAA--T--TT-AAGTAGGTTAGGGTTTTTAATTTAATTAAGTTAGG
* *
18180469 TTAGGGTTTTTAATTTAAGTAGGTTA-GGTTAGGGTT--TTTAATTAAATTAGG
1 TTAGGGTTTTTAATTTAAGTAGGTTAGGGTT---TTTAATTTAATTAAGTTAGG
* * *
18180520 TTAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTTAAGTAGGTTAGG
1 TTAGGGTTTTTAA-T---TTAAG-TAGGTTAGGGTTTTTAATTTAATTAAGTTAGG
* * * *
18180576 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGG
1 TTAGGGTTTTTAATTTAAGTAGGTTAGGGTTTTTAATTTAATTAAGTTAGG
* *
18180627 TTAGGGTTTTTAATTTAAGTAGGTTAGGTTAGGGTTTTTAATTTAATTAAAATAAGG
1 TTAGGGTTTTTAATTT-A--A-G-TAGGTTAGGGTTTTTAATTTAATT-AAGTTAGG
*
18180684 TTAGGGTTTTTAATTTAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAGGTTAGG
1 TTAGGGTTTTTAATTT-A--A-G-TAGGTTAGGGTTTTTAATTTAATTAAGTTAGG
* **
18180740 TTAGGGTTTTTAATTTAATTAAATTAGGGTTTTTAATT
1 TTAGGGTTTTTAATTTAAGTAGGTTAGGGTTTTTAATT
18180778 AAGTAGGGTT
Statistics
Matches: 949, Mismatches: 66, Indels: 230
0.76 0.05 0.18
Matches are distributed among these distances:
43 103 0.11
44 6 0.01
45 4 0.00
46 30 0.03
47 21 0.02
48 6 0.01
49 7 0.01
50 17 0.02
51 339 0.36
52 43 0.05
53 7 0.01
54 12 0.01
55 16 0.02
56 161 0.17
57 122 0.13
58 10 0.01
59 2 0.00
61 10 0.01
62 33 0.03
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.48
Consensus pattern (51 bp):
TTAGGGTTTTTAATTTAAGTAGGTTAGGGTTTTTAATTTAATTAAGTTAGG
Found at i:18179693 original size:18 final size:21
Alignment explanation
Indices: 18179643--18179685 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
18179633 TTTAATTAAA
18179643 TAAG-GTTAGGGTTTTTAATT
1 TAAGAGTTAGGGTTTTTAATT
18179663 TAAGTAGGTTAGGGTTTTTAATT
1 TAAG-A-GTTAGGGTTTTTAATT
18179686 AAATTAGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
23 16 0.80
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (21 bp):
TAAGAGTTAGGGTTTTTAATT
Found at i:18179865 original size:18 final size:21
Alignment explanation
Indices: 18179726--18179884 Score: 104
Period size: 23 Copynumber: 6.9 Consensus size: 21
18179716 AGTAGGTTAG
* *
18179726 GTTAGGGTTTTTATTTTAATTA
1 GTTAGGGTTTTTAATTTAA-GA
18179748 GGTTAGGGTTTTTAATTTAAG-
1 -GTTAGGGTTTTTAATTTAAGA
* * *
18179769 GTTAGGGCTTTTAATTAAATTA
1 GTTAGGGTTTTTAATTTAA-GA
*
18179791 GGTTAGGGTTTTTAATTTAATTAAATTA
1 -GTTAGGGTTTTTAA--T--TT-AA-GA
18179819 GGTTAGGGTTTTTAATTTAAGTA
1 -GTTAGGGTTTTTAATTTAAG-A
* *
18179842 GGTTAGGGTTTTTAATTAAATTA
1 -GTTAGGGTTTTTAATTTAA-GA
18179865 GGTTAGGGTTTTTAATTTAA
1 -GTTAGGGTTTTTAATTTAA
18179885 TTAAATTAGG
Statistics
Matches: 115, Mismatches: 11, Indels: 20
0.79 0.08 0.14
Matches are distributed among these distances:
20 17 0.15
23 73 0.63
24 2 0.02
25 1 0.01
26 1 0.01
27 1 0.01
28 20 0.17
ACGTcount: A:0.28, C:0.01, G:0.22, T:0.50
Consensus pattern (21 bp):
GTTAGGGTTTTTAATTTAAGA
Found at i:18179936 original size:18 final size:18
Alignment explanation
Indices: 18179913--18179961 Score: 53
Period size: 23 Copynumber: 2.4 Consensus size: 18
18179903 TTTAATTTAA
18179913 TTTAATTAGGTTAGGGTT
1 TTTAATTAGGTTAGGGTT
18179931 TTTAATTTAAGTAGGTTAGGGTT
1 TTTAA--T---TAGGTTAGGGTT
18179954 TTTAATTA
1 TTTAATTA
18179962 AATTAGGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 10
0.72 0.00 0.28
Matches are distributed among these distances:
18 7 0.27
20 1 0.04
21 1 0.04
23 17 0.65
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (18 bp):
TTTAATTAGGTTAGGGTT
Found at i:18180786 original size:17 final size:18
Alignment explanation
Indices: 18180753--18180787 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
18180743 GGGTTTTTAA
*
18180753 TTTAATTAAATTAGGGTT
1 TTTAATTAAAGTAGGGTT
18180771 TTTAATT-AAGTAGGGTT
1 TTTAATTAAAGTAGGGTT
18180788 AGGGATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (18 bp):
TTTAATTAAAGTAGGGTT
Found at i:18183112 original size:22 final size:22
Alignment explanation
Indices: 18183087--18183130 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
18183077 TGTATTTGGA
*
18183087 GATTTTTGAAGGAAATTGAGAG
1 GATTTTGGAAGGAAATTGAGAG
*
18183109 GATTTTGGAAGGAATTTGAGAG
1 GATTTTGGAAGGAAATTGAGAG
18183131 TTTGAGAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.32
Consensus pattern (22 bp):
GATTTTGGAAGGAAATTGAGAG
Found at i:18183124 original size:21 final size:23
Alignment explanation
Indices: 18183080--18183130 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
18183070 TTTAATATGT
*
18183080 ATTTG-GA-GATTTTTGAAGGAA
1 ATTTGAGAGGATTTTGGAAGGAA
18183101 A-TTGAGAGGATTTTGGAAGG-A
1 ATTTGAGAGGATTTTGGAAGGAA
18183122 ATTTGAGAG
1 ATTTGAGAG
18183131 TTTGAGAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 3 0.12
21 5 0.19
22 18 0.69
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (23 bp):
ATTTGAGAGGATTTTGGAAGGAA
Found at i:18183172 original size:52 final size:50
Alignment explanation
Indices: 18183081--18183182 Score: 120
Period size: 52 Copynumber: 2.0 Consensus size: 50
18183071 TTAATATGTA
* *
18183081 TTTGGAGATTTTTGAAGGAAATTGAGAGGATTTTGGAA-GGAATTTGAGAG
1 TTTGGAGATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGGAA-TTGAGAG
18183131 TTTGAGAGAATTTTGGAAGGAAATTGATG-GAAATTTT-GAAGGGAATTGAGAG
1 TTTG-GAG-ATTTTGGAAGGAAATTGA-GAG-AATTTTGGAAGGGAATTGAGAG
18183183 AAATTTTAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
50 4 0.09
51 3 0.07
52 28 0.62
53 10 0.22
ACGTcount: A:0.34, C:0.00, G:0.33, T:0.32
Consensus pattern (50 bp):
TTTGGAGATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGGAATTGAGAG
Found at i:18183180 original size:44 final size:44
Alignment explanation
Indices: 18183132--18183223 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 44
18183122 ATTTGAGAGT
** * * *
18183132 TTGAGAG-AATTTTGGAAGGAAATTGATGGAAATTTTGAAGGGAA
1 TTGAGAGAAATTTTAAAAGG-AATTGATAGAAATTTTGAAAGAAA
*
18183176 TTGAGAGAAATTTTAAAAGGAATTGATAGAATTTTTGAAAGAAA
1 TTGAGAGAAATTTTAAAAGGAATTGATAGAAATTTTGAAAGAAA
18183220 TTGA
1 TTGA
18183224 TATTGAATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 31 0.76
45 10 0.24
ACGTcount: A:0.42, C:0.00, G:0.26, T:0.32
Consensus pattern (44 bp):
TTGAGAGAAATTTTAAAAGGAATTGATAGAAATTTTGAAAGAAA
Found at i:18183224 original size:22 final size:22
Alignment explanation
Indices: 18183139--18183225 Score: 93
Period size: 22 Copynumber: 3.9 Consensus size: 22
18183129 AGTTTGAGAG
* *
18183139 AATTTTGGAAGGAAATTGATGGA
1 AATTTT-GAAAGAAATTGATAGA
* * *
18183162 AATTTTGAAGGGAATTGAGAGA
1 AATTTTGAAAGAAATTGATAGA
* *
18183184 AATTTTAAAAGGAATTGATAGA
1 AATTTTGAAAGAAATTGATAGA
*
18183206 ATTTTTGAAAGAAATTGATA
1 AATTTTGAAAGAAATTGATA
18183226 TTGAATTTGT
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
22 49 0.89
23 6 0.11
ACGTcount: A:0.44, C:0.00, G:0.24, T:0.32
Consensus pattern (22 bp):
AATTTTGAAAGAAATTGATAGA
Found at i:18185384 original size:37 final size:38
Alignment explanation
Indices: 18185331--18185410 Score: 94
Period size: 37 Copynumber: 2.2 Consensus size: 38
18185321 AAAAAAAAAA
18185331 TTTAA-GTTTAGGG-TTTTAAAAAATAAATAAATGA-GG
1 TTTAAGGTTTAGGGTTTTTAAAAAA-AAATAAATGAGGG
* ** *
18185367 TTTAAGGTTTAGTGTTTTTTTAAAAAAATAAATTAGGG
1 TTTAAGGTTTAGGGTTTTTAAAAAAAAATAAATGAGGG
18185405 TTTAAG
1 TTTAAG
18185411 ATTTTTTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
36 5 0.14
37 16 0.43
38 16 0.43
ACGTcount: A:0.40, C:0.00, G:0.19, T:0.41
Consensus pattern (38 bp):
TTTAAGGTTTAGGGTTTTTAAAAAAAAATAAATGAGGG
Found at i:18185443 original size:28 final size:29
Alignment explanation
Indices: 18185372--18185443 Score: 74
Period size: 28 Copynumber: 2.4 Consensus size: 29
18185362 TGAGGTTTAA
*
18185372 GGTTTAGTGTTTTTTTAAAAAAATAAATTAG
1 GGTTTAG-GATTTTTT-AAAAAATAAATTAG
* * *
18185403 GGTTTAAGATTTTTT-AAAAATAATTTTG
1 GGTTTAGGATTTTTTAAAAAATAAATTAG
*
18185431 GGTTTAGGGTTTT
1 GGTTTAGGATTTT
18185444 AGGATTTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
28 22 0.63
30 7 0.20
31 6 0.17
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.49
Consensus pattern (29 bp):
GGTTTAGGATTTTTTAAAAAATAAATTAG
Found at i:18189127 original size:59 final size:59
Alignment explanation
Indices: 18189017--18189146 Score: 156
Period size: 59 Copynumber: 2.2 Consensus size: 59
18189007 TGTATTGTCT
* ** *
18189017 TATTCAAAAAAACTTTTATTTTATTAAATGGCACAATATAAAAATAATTTGTACAAAAG
1 TATTCAAAAAAACTTCTATTTTATTAAATGAAACAATATAAAAACAATTTGTACAAAAG
* * * * *
18189076 TATTCAAAACAACTTCTGTTTTATTAAATGAAACAATATAAAAGCAGTTTGTATAAATA-
1 TATTCAAAAAAACTTCTATTTTATTAAATGAAACAATATAAAAACAATTTGTACAAA-AG
18189135 TATT-AAAAAAAC
1 TATTCAAAAAAAC
18189147 AATGCATGTG
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
58 7 0.12
59 52 0.87
60 1 0.02
ACGTcount: A:0.49, C:0.09, G:0.07, T:0.35
Consensus pattern (59 bp):
TATTCAAAAAAACTTCTATTTTATTAAATGAAACAATATAAAAACAATTTGTACAAAAG
Found at i:18192281 original size:21 final size:21
Alignment explanation
Indices: 18192242--18192293 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
18192232 TATTTCTGAT
*
18192242 GTTAGGGTTTTGTACTTTAAG
1 GTTAAGGTTTTGTACTTTAAG
** *
18192263 GTTAAGGTTTTGTGTTTTAGG
1 GTTAAGGTTTTGTACTTTAAG
18192284 GTTTAAGGTT
1 G-TTAAGGTT
18192294 AGGGTTTTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 18 0.69
22 8 0.31
ACGTcount: A:0.17, C:0.02, G:0.31, T:0.50
Consensus pattern (21 bp):
GTTAAGGTTTTGTACTTTAAG
Found at i:18195186 original size:41 final size:41
Alignment explanation
Indices: 18195139--18195239 Score: 150
Period size: 41 Copynumber: 2.5 Consensus size: 41
18195129 ACCAACATGG
18195139 GTATGTAATCGCCACTATTAAAGATTCTTTAAAATTCCTT-
1 GTATGTAATCGCCACTATTAAAGATTCTTTAAAATTCCTTA
* * **
18195179 GCTATGTAATCGTCACTATTAAAGATTCTTTGAAATTTTTTA
1 G-TATGTAATCGCCACTATTAAAGATTCTTTAAAATTCCTTA
18195221 GTATGTAATCGCCACTATT
1 GTATGTAATCGCCACTATT
18195240 CACTTCTTTC
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
40 1 0.02
41 52 0.96
42 1 0.02
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.42
Consensus pattern (41 bp):
GTATGTAATCGCCACTATTAAAGATTCTTTAAAATTCCTTA
Found at i:18203949 original size:17 final size:16
Alignment explanation
Indices: 18203929--18203964 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
18203919 ATAACAATTG
18203929 AAAAACACAAACAGAGA
1 AAAAACACAAA-AGAGA
*
18203946 AAAAACATAAAAGAGA
1 AAAAACACAAAAGAGA
18203962 AAA
1 AAA
18203965 TTGAAAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.75, C:0.11, G:0.11, T:0.03
Consensus pattern (16 bp):
AAAAACACAAAAGAGA
Found at i:18205128 original size:24 final size:24
Alignment explanation
Indices: 18205101--18205148 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
18205091 GAAGGAAAAC
18205101 AAAACCAAGTCCTTCTTCATCTTT
1 AAAACCAAGTCCTTCTTCATCTTT
18205125 AAAACCAAGTCCTTCTTCATCTTT
1 AAAACCAAGTCCTTCTTCATCTTT
18205149 CTTCTTCATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.29, G:0.04, T:0.38
Consensus pattern (24 bp):
AAAACCAAGTCCTTCTTCATCTTT
Found at i:18207111 original size:23 final size:22
Alignment explanation
Indices: 18207066--18207107 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
18207056 GTCTTTTACC
* *
18207066 ACCCTTAAAGGGCTTTCATACT
1 ACCCGTAAAAGGCTTTCATACT
18207088 ACCCGTAAAAGGCTTTCATA
1 ACCCGTAAAAGGCTTTCATA
18207108 ACTATGTGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (22 bp):
ACCCGTAAAAGGCTTTCATACT
Found at i:18208209 original size:16 final size:16
Alignment explanation
Indices: 18208186--18208234 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
18208176 TGTTTGGTTC
*
18208186 GCTGTAATAGAATAGA
1 GCTGTAATGGAATAGA
*
18208202 GTTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
18208218 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
18208234 G
1 G
18208235 GCGTAATAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.39, C:0.04, G:0.31, T:0.27
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:18208240 original size:16 final size:16
Alignment explanation
Indices: 18208189--18208241 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
18208179 TTGGTTCGCT
* **
18208189 GTAATAGAATAGAGTT
1 GTAATGGAATAGAGGC
18208205 GTAATGGAATAGA-GC
1 GTAATGGAATAGAGGC
18208220 TGTAATGGAATAGAGGC
1 -GTAATGGAATAGAGGC
18208237 GTAAT
1 GTAAT
18208242 AGTAATTCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
16 30 0.94
17 2 0.06
ACGTcount: A:0.40, C:0.04, G:0.30, T:0.26
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:18208519 original size:18 final size:18
Alignment explanation
Indices: 18208471--18208506 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
18208461 AATTATTATT
18208471 ATATATAATTTAATAAAA
1 ATATATAATTTAATAAAA
18208489 ATATATAATTTAATAAAA
1 ATATATAATTTAATAAAA
18208507 TTCTTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
ATATATAATTTAATAAAA
Found at i:18208590 original size:120 final size:120
Alignment explanation
Indices: 18208453--18208929 Score: 840
Period size: 120 Copynumber: 4.0 Consensus size: 120
18208443 TTAATCATGT
* *
18208453 TTTAACATAATTATTATTATATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
18208518 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
18208573 TTTAAAATAATTATTATTAAATATAATTTAACAAAAATATATAATTTAAT--AATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
18208636 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* *
18208691 TTTAAAATAATAATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
18208756 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
18208811 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATATAATTTAATAAAATTC--AATA
1 TTTAAAATAATTATTATTAAATATAATTTAAT-AAAA-ATATATAATTTAATAAAATTCTTAATA
*
18208874 -TAATTATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAA-ATAA
64 TTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
18208929 T
1 T
18208930 ATATAATCTA
Statistics
Matches: 345, Mismatches: 8, Indels: 10
0.95 0.02 0.03
Matches are distributed among these distances:
118 121 0.35
119 50 0.14
120 149 0.43
121 4 0.01
122 21 0.06
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (120 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:18208671 original size:59 final size:59
Alignment explanation
Indices: 18208608--18208915 Score: 220
Period size: 61 Copynumber: 5.2 Consensus size: 59
18208598 ATTTAACAAA
*
18208608 AATATATAATTTAATAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCAT
1 AATATATAATTTAATAATTCTTAATAATAAATATTCTTATATGAATTTACTAAAATCAT
* * *
18208667 AATATATAATACTATAA-AATATAATTTAA-AAT-AATAATTATTAAATAT-AATTTA--ATAA-
1 AATATATAAT--T-TAATAAT-T--CTTAATAATAAAT-ATTCTT--ATATGAATTTACTAAAAT
18208725 -A-
57 CAT
18208726 AATATATAATTTAATAAAATTCTTAATAATAAATATTCTTATATGAATTTACTAAAATCAT
1 AATATATAATTTAAT--AATTCTTAATAATAAATATTCTTATATGAATTTACTAAAATCAT
* * * *
18208787 AATATATAATACTATAA-AATATAATTTAA-AATAATTATTATTAAATAT-AATTTAATAAAA--
1 AATATATAAT--T-TAATAAT-T--CTTAATAATAAATATTCTT--ATATGAATTTACTAAAATC
18208847 AT
58 AT
*
18208849 -ATATATAATTTAATAAAATTC--AAT-ATAATTATTCTTATATGAATTTACTAAAATCAT
1 AATATATAATTTAAT--AATTCTTAATAATAAATATTCTTATATGAATTTACTAAAATCAT
18208906 AATATATAAT
1 AATATATAAT
18208916 ACTATAAAAA
Statistics
Matches: 199, Mismatches: 14, Indels: 73
0.70 0.05 0.26
Matches are distributed among these distances:
54 4 0.02
55 15 0.08
56 26 0.13
57 11 0.06
58 19 0.10
59 24 0.12
60 3 0.02
61 29 0.15
62 13 0.07
63 19 0.10
64 28 0.14
65 8 0.04
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (59 bp):
AATATATAATTTAATAATTCTTAATAATAAATATTCTTATATGAATTTACTAAAATCAT
Found at i:18208705 original size:13 final size:12
Alignment explanation
Indices: 18208681--18208721 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
18208671 TATAATACTA
18208681 TAAAATATAATT
1 TAAAATATAATT
18208693 TAAAATAATAATT
1 TAAAAT-ATAATT
*
18208706 ATTAAATATAATT
1 -TAAAATATAATT
18208719 TAA
1 TAA
18208722 TAAAAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 8 0.32
13 12 0.48
14 5 0.20
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAAATATAATT
Found at i:18208757 original size:15 final size:16
Alignment explanation
Indices: 18208737--18208766 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
18208727 ATATATAATT
18208737 TAATAAA-ATTCTTAA
1 TAATAAATATTCTTAA
18208752 TAATAAATATTCTTA
1 TAATAAATATTCTTA
18208767 TATGAATTTA
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:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATAAATATTCTTAA
Found at i:18208874 original size:20 final size:19
Alignment explanation
Indices: 18208830--18208878 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 19
18208820 ATTATTATTA
18208830 AATATAATTTAATAAAAAT
1 AATATAATTTAATAAAAAT
*
18208849 ATATATAATTTAATAAAATT
1 A-ATATAATTTAATAAAAAT
18208869 CAATATAATT
1 -AATATAATT
18208879 ATTCTTATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 1 0.04
20 25 0.93
21 1 0.04
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (19 bp):
AATATAATTTAATAAAAAT
Found at i:18210396 original size:49 final size:49
Alignment explanation
Indices: 18210324--18210427 Score: 181
Period size: 49 Copynumber: 2.1 Consensus size: 49
18210314 AAAAAAAAAC
* * *
18210324 AAATTAAAATTAAGTTTAATATCATGAATCAAAAGGTGAACACTTTATA
1 AAATTAAAATTAAGTTTAATATCATGAATCAAAAGCTCAACACATTATA
18210373 AAATTAAAATTAAGTTTAATATCATGAATCAAAAGCTCAACACATTATA
1 AAATTAAAATTAAGTTTAATATCATGAATCAAAAGCTCAACACATTATA
18210422 AAATTA
1 AAATTA
18210428 TAACACATGA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.51, C:0.10, G:0.08, T:0.32
Consensus pattern (49 bp):
AAATTAAAATTAAGTTTAATATCATGAATCAAAAGCTCAACACATTATA
Found at i:18212792 original size:16 final size:16
Alignment explanation
Indices: 18212773--18212806 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
18212763 AATAAATTGG
18212773 AATATTAAAAATAAAA
1 AATATTAAAAATAAAA
18212789 AATATTAAAAATAAAA
1 AATATTAAAAATAAAA
18212805 AA
1 AA
18212807 AAATAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AATATTAAAAATAAAA
Found at i:18215135 original size:50 final size:50
Alignment explanation
Indices: 18215063--18215346 Score: 329
Period size: 50 Copynumber: 5.7 Consensus size: 50
18215053 CATTGAGATT
* *
18215063 ATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCATCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
*
18215113 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
*
18215163 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
* ** * * * * *
18215213 ATAAGAGGTCCCCCGTAAGACCATGTATGGGACATGGCATGGGCACCTAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
** * * * * *
18215263 ATGAGAACTCTCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTAC
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCG-AG
* * ** *
18215312 AAGAAACATCCCATGTAAGACTATGTCTGGGACAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACAT
18215347 AACTTTGGCA
Statistics
Matches: 200, Mismatches: 33, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
49 28 0.14
50 172 0.86
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
Found at i:18215306 original size:150 final size:152
Alignment explanation
Indices: 18215010--18215346 Score: 367
Period size: 150 Copynumber: 2.2 Consensus size: 152
18215000 ATTTGGGTAA
* * * *
18215010 AGAGATCCTATGTGAGACCATATCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCA-T-AGATTA-GAGAGGTCCC
* * * * * ** *
18215075 ATGTAAGACCATGTTTGGGACATGGCGTTGGCATCGAGATGAGAGGTCCCATGTAAGACCATGTC
63 ACGTAAGACCATGTATGGGACATGGCATGGGCACCGAGATGAGAACTCCCATGTAAGACCATATC
** * *
18215140 TGGGACATGGTGTTGGCACCG-AGATG
128 TGGGACATGGCATTGGCA--GTACAAG
* * *
18215166 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCA-AGA-TA-AGAGGTCCCCCG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCATAGATTAGAGAGGTCCCACG
* * *
18215228 TAAGACCATGTATGGGACATGGCATGGGCACCTATATGAGAACTCTCATGTAAGACCATATCTGG
66 TAAGACCATGTATGGGACATGGCATGGGCACCGAGATGAGAACTCCCATGTAAGACCATATCTGG
*
18215293 GATATGGCATTGGCAGTACAAG
131 GACATGGCATTGGCAGTACAAG
* * *
18215315 AAACATCCCATGTAAGACTATGTCTGGGACAT
1 AGAGATCCCATGTAAGACCATGTCTGGGACAT
18215347 AACTTTGGCA
Statistics
Matches: 153, Mismatches: 27, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
148 1 0.01
149 31 0.20
150 77 0.50
152 2 0.01
153 3 0.02
156 39 0.25
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (152 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCATAGATTAGAGAGGTCCCACG
TAAGACCATGTATGGGACATGGCATGGGCACCGAGATGAGAACTCCCATGTAAGACCATATCTGG
GACATGGCATTGGCAGTACAAG
Found at i:18216959 original size:78 final size:78
Alignment explanation
Indices: 18216805--18216961 Score: 208
Period size: 78 Copynumber: 2.0 Consensus size: 78
18216795 TATCATCCAA
*
18216805 GGGGTTAACAAGGAGTGAATTTGCAATTGTGATTCTAACTTAATTGGCTTAGCTTCTATTGATAA
1 GGGGTTAACAAGGAGTGAATTTGCAATGGTGATTCTAACTTAATTGGCTTAGCTTCTATTGATAA
* **
18216870 GGCAGTGACACTC
66 GACAGCAACACTC
** * * * *
18216883 GGGGTTAATGAGGATTGAATTTGCAATGGTGATTCTATCTTATTTGGCTTAGCTTCCT-TTGGTA
1 GGGGTTAACAAGGAGTGAATTTGCAATGGTGATTCTAACTTAATTGGCTTAGCTT-CTATTGATA
18216947 AGACAGCAACACTC
65 AGACAGCAACACTC
18216961 G
1 G
18216962 AAACTTGCAT
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
78 66 0.97
79 2 0.03
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (78 bp):
GGGGTTAACAAGGAGTGAATTTGCAATGGTGATTCTAACTTAATTGGCTTAGCTTCTATTGATAA
GACAGCAACACTC
Found at i:18217892 original size:20 final size:19
Alignment explanation
Indices: 18217863--18217910 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
18217853 GATAAAATGG
*
18217863 AAAA-AAGAAAAGAAACGT
1 AAAAGAAGAAAAGAAAAGT
18217881 AAATAGAAGAAAAGAAAAGT
1 AAA-AGAAGAAAAGAAAAGT
*
18217901 ACAAGAAGAA
1 AAAAGAAGAA
18217911 GAAGCAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 3 0.12
19 8 0.31
20 15 0.58
ACGTcount: A:0.71, C:0.04, G:0.19, T:0.06
Consensus pattern (19 bp):
AAAAGAAGAAAAGAAAAGT
Found at i:18223705 original size:14 final size:15
Alignment explanation
Indices: 18223686--18223746 Score: 63
Period size: 14 Copynumber: 3.9 Consensus size: 15
18223676 TTAAAATGAA
18223686 TTATCAA-TCATAAC
1 TTATCAATTCATAAC
*
18223700 TTATCAATTCATAAAAT
1 TTATCAATTCAT--AAC
18223717 TTAAATCAA-TCATAAC
1 TT--ATCAATTCATAAC
18223733 TTATCAATTCATAA
1 TTATCAATTCATAA
18223747 AATTTAACAC
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
14 12 0.31
15 10 0.26
16 4 0.10
17 4 0.10
18 4 0.10
19 5 0.13
ACGTcount: A:0.46, C:0.16, G:0.00, T:0.38
Consensus pattern (15 bp):
TTATCAATTCATAAC
Found at i:18223726 original size:33 final size:33
Alignment explanation
Indices: 18223688--18223753 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
18223678 AAAATGAATT
18223688 ATCAATCATAACTTATCAATTCATAAAATTTAA
1 ATCAATCATAACTTATCAATTCATAAAATTTAA
18223721 ATCAATCATAACTTATCAATTCATAAAATTTAA
1 ATCAATCATAACTTATCAATTCATAAAATTTAA
18223754 CACCTAACCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.36
Consensus pattern (33 bp):
ATCAATCATAACTTATCAATTCATAAAATTTAA
Found at i:18230013 original size:30 final size:30
Alignment explanation
Indices: 18229977--18230072 Score: 131
Period size: 30 Copynumber: 3.2 Consensus size: 30
18229967 ATTAGCTTAC
*
18229977 ATTTGTATATGGATAT-TCATTTCCGAATTG
1 ATTTGTATATGGATATAT-ATTGCCGAATTG
* *
18230007 ATTTGTATATAGATATATATTGCCGAATTC
1 ATTTGTATATGGATATATATTGCCGAATTG
*
18230037 AGTTCGTATATGGATATATATTGCCGAATTG
1 A-TTTGTATATGGATATATATTGCCGAATTG
18230068 ATTTG
1 ATTTG
18230073 AGCATTGGAT
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
30 29 0.51
31 28 0.49
ACGTcount: A:0.29, C:0.09, G:0.18, T:0.44
Consensus pattern (30 bp):
ATTTGTATATGGATATATATTGCCGAATTG
Found at i:18230053 original size:31 final size:30
Alignment explanation
Indices: 18229976--18230066 Score: 112
Period size: 31 Copynumber: 3.0 Consensus size: 30
18229966 TATTAGCTTA
* *
18229976 CATTTGTATATGGATAT-TCATTTCCGAATT
1 CATTCGTATATGGATATAT-ATTGCCGAATT
* * *
18230006 GATTTGTATATAGATATATATTGCCGAATT
1 CATTCGTATATGGATATATATTGCCGAATT
18230036 CAGTTCGTATATGGATATATATTGCCGAATT
1 CA-TTCGTATATGGATATATATTGCCGAATT
18230067 GATTTGAGCA
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
30 26 0.49
31 27 0.51
ACGTcount: A:0.30, C:0.11, G:0.16, T:0.43
Consensus pattern (30 bp):
CATTCGTATATGGATATATATTGCCGAATT
Found at i:18230244 original size:43 final size:41
Alignment explanation
Indices: 18230196--18230312 Score: 126
Period size: 43 Copynumber: 2.8 Consensus size: 41
18230186 GTGTGATTTC
18230196 GTGTAAGACCATGTCTGGGACATTGGCATCGAAATGAGAAAAT
1 GTGTAAGACCATGTCTGGGACATTGGCATCGAAAT-A-AAAAT
** * * **
18230239 GTGTAAGACCATGTCTGAAACATTGGCATCGTATATATATTT
1 GTGTAAGACCATGTCTGGGACATTGGCATCG-AAATAAAAAT
* * *
18230281 GTATAAGACCCTGTCTGGGACAGTGGCATCGA
1 GTGTAAGACCATGTCTGGGACATTGGCATCGA
18230313 TATGCGTTAA
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 1 0.02
42 28 0.45
43 30 0.48
44 3 0.05
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (41 bp):
GTGTAAGACCATGTCTGGGACATTGGCATCGAAATAAAAAT
Found at i:18243874 original size:7 final size:7
Alignment explanation
Indices: 18243862--18243912 Score: 93
Period size: 7 Copynumber: 7.3 Consensus size: 7
18243852 ACATCTCATC
18243862 TCACATA
1 TCACATA
18243869 TCACATA
1 TCACATA
18243876 TCACATA
1 TCACATA
18243883 TCACATA
1 TCACATA
*
18243890 TTACATA
1 TCACATA
18243897 TCACATA
1 TCACATA
18243904 TCACATA
1 TCACATA
18243911 TC
1 TC
18243913 GATGGTATTG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 42 1.00
ACGTcount: A:0.41, C:0.27, G:0.00, T:0.31
Consensus pattern (7 bp):
TCACATA
Found at i:18248335 original size:16 final size:16
Alignment explanation
Indices: 18248310--18248352 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
18248300 TTGAATTTTT
18248310 GTTA-TAAGAATATTA
1 GTTATTAAGAATATTA
18248325 GTTATTAAGAATATTA
1 GTTATTAAGAATATTA
*
18248341 ATTATTAAGAAT
1 GTTATTAAGAAT
18248353 TTTATTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 4 0.15
16 22 0.85
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.42
Consensus pattern (16 bp):
GTTATTAAGAATATTA
Found at i:18248379 original size:18 final size:17
Alignment explanation
Indices: 18248351--18248385 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
18248341 ATTATTAAGA
*
18248351 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
18248368 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
18248386 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:18248427 original size:59 final size:61
Alignment explanation
Indices: 18248344--18248525 Score: 178
Period size: 59 Copynumber: 3.0 Consensus size: 61
18248334 AATATTAATT
*
18248344 ATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAA
1 ATTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAA
* * * * ** * * *
18248405 ATT-A-TATTTTA-TAGTATCATATATTATGATTTTAGTAAATTTATATAAGAA-TATTGATT--
1 ATTAAGAATTTTATTA-AATCATATATTTTAATTAAAATATATTTA-ATAATAATTA-TG-TTAA
* *
18248464 ATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATTTTTAATAATAATTATGTTAA
1 ATTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAA
18248525 A
1 A
18248526 ATATGATTAA
Statistics
Matches: 90, Mismatches: 21, Indels: 20
0.69 0.16 0.15
Matches are distributed among these distances:
58 2 0.02
59 34 0.38
60 18 0.20
61 34 0.38
62 2 0.02
ACGTcount: A:0.45, C:0.01, G:0.05, T:0.50
Consensus pattern (61 bp):
ATTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAA
Found at i:18248720 original size:44 final size:45
Alignment explanation
Indices: 18248662--18248758 Score: 119
Period size: 45 Copynumber: 2.2 Consensus size: 45
18248652 CTATTACACC
18248662 TCCATT-CTATTCAACCAAACACA-AGAA-TACTATTACGCCTCTAT
1 TCCATTAC-ATTCAACCAAACA-ATAGAATTACTATTACGCCTCTAT
* * * *
18248706 TCTATTACATTCAACCAAACAATTGAATTGCTATTACGCCTTTAT
1 TCCATTACATTCAACCAAACAATAGAATTACTATTACGCCTCTAT
18248751 TCCATTAC
1 TCCATTAC
18248759 GCCTCTATTC
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
43 1 0.02
44 21 0.47
45 23 0.51
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.34
Consensus pattern (45 bp):
TCCATTACATTCAACCAAACAATAGAATTACTATTACGCCTCTAT
Found at i:18248759 original size:16 final size:16
Alignment explanation
Indices: 18248738--18248770 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
18248728 TTGAATTGCT
*
18248738 ATTACGCCTTTATTCC
1 ATTACGCCTCTATTCC
18248754 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
18248770 A
1 A
18248771 ATACAGCGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.33, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:18248983 original size:26 final size:25
Alignment explanation
Indices: 18248914--18248992 Score: 95
Period size: 26 Copynumber: 3.1 Consensus size: 25
18248904 AATCACTTTA
*
18248914 TTATTAAATTAATATAATATTTATC
1 TTATTAAATTAATATAATATTAATC
* *
18248939 TTATTAGATTAAATTTAATATTAAATC
1 TTATTAAATT-AATATAATATT-AATC
* *
18248966 TTATTAAAATAATATAATATTTATC
1 TTATTAAATTAATATAATATTAATC
18248991 TT
1 TT
18248993 GTAGATAAAC
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
25 14 0.31
26 20 0.44
27 11 0.24
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.51
Consensus pattern (25 bp):
TTATTAAATTAATATAATATTAATC
Found at i:18249024 original size:52 final size:52
Alignment explanation
Indices: 18248914--18249014 Score: 145
Period size: 52 Copynumber: 2.0 Consensus size: 52
18248904 AATCACTTTA
* * *
18248914 TTATTAAATTAATATAATATTTATCTTATTAGATTAAATTTAATATTAAATC
1 TTATTAAAATAATATAATATTTATCTTAGTAGATTAAAATTAATATTAAATC
18248966 TTATTAAAATAATATAATATTTATCTT-GTAGA-TAAACATTAA-ATTAAAT
1 TTATTAAAATAATATAATATTTATCTTAGTAGATTAAA-ATTAATATTAAAT
18249015 TAAATATTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
50 11 0.24
51 8 0.18
52 26 0.58
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.47
Consensus pattern (52 bp):
TTATTAAAATAATATAATATTTATCTTAGTAGATTAAAATTAATATTAAATC
Found at i:18250817 original size:18 final size:18
Alignment explanation
Indices: 18250796--18250833 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
18250786 TTCCAAAATA
*
18250796 TTATTC-ATTTACAAATCG
1 TTATTCAATTT-CAAAACG
18250814 TTATTCAATTTCAAAACG
1 TTATTCAATTTCAAAACG
18250832 TT
1 TT
18250834 TTTTATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.34, C:0.16, G:0.05, T:0.45
Consensus pattern (18 bp):
TTATTCAATTTCAAAACG
Found at i:18251394 original size:23 final size:24
Alignment explanation
Indices: 18251350--18251394 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
18251340 AAAATCCTAC
*
18251350 CCATCCAGCCTCTACACACCATCT
1 CCATCCAACCTCTACACACCATCT
*
18251374 CCATCCAACC-CTACACCCCAT
1 CCATCCAACCTCTACACACCAT
18251395 GTGAGGATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.27, C:0.53, G:0.02, T:0.18
Consensus pattern (24 bp):
CCATCCAACCTCTACACACCATCT
Found at i:18260333 original size:41 final size:41
Alignment explanation
Indices: 18260251--18260572 Score: 333
Period size: 41 Copynumber: 7.9 Consensus size: 41
18260241 TTTCTACCTT
* * *
18260251 TCGGGACTTTAGCGGTGTTTTTAAAAAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTT-GAAAAAGCGCCGCTAATGC
* ** * *
18260293 TCAGATCTTTAGCGGCGTTTTTGATAAAGCGTCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* ** * * * *
18260334 TCAGATCTTTAGCGGCGTTTTTAAAAAAACACCGGTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * *
18260375 TTGAGGCTTTAGTGGCGTTTTTGAAAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * *
18260416 TCGGGGCTTTAGCGGCGTTTTTCAAGAAGCGCCGCTAATGT
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * *
18260457 TCGGGTCTTTAACGGTGTTTTT-AAAGAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAA-AAGCGCCGCTAATGC
* * ** * *
18260498 TCGGGGCTTTAACGGCATTTTCCAAGAAGCGTCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
*
18260539 TCGGGGCTTTAGCGGTGTTTTTG-AAAAGCGCCGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGC
18260573 AAAAGCATTT
Statistics
Matches: 231, Mismatches: 47, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
40 11 0.05
41 200 0.87
42 20 0.09
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.30
Consensus pattern (41 bp):
TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
Found at i:18260477 original size:123 final size:122
Alignment explanation
Indices: 18260257--18260572 Score: 371
Period size: 123 Copynumber: 2.6 Consensus size: 122
18260247 CCTTTCGGGA
* * **
18260257 CTTTAGCGGTGTTTTTAAAAAAAGCGCCGCTAATGCTCAGATCTTTAGCGGCGTTTTTGATAAAG
1 CTTTAGCGGCGTTTTT-AAAAAAGCGCCGCTAATGCTCGGGGCTTTAGCGGCGTTTTTGA-AAAG
* * * *
18260322 CGTCGCTAATGCTCAGATCTTTAGCGGCGTTTTTAAAAAAACACCGGTAATGCTTGAGG
64 CGCCGCTAATGCTCAGATCTTTAACGGCGTTTTTAAAAAAACACCGCTAATGCTCGAGG
* * *
18260381 CTTTAGTGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGGCTTTAGCGGCGTTTTTCAAGAAGC
1 CTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCGGGGCTTTAGCGGCGTTTTTGAA-AAGC
* * * * * * * *
18260446 GCCGCTAATGTTCGGGTCTTTAACGGTGTTTTTAAAGAAGCGCCGCTAATGCTCGGGG
65 GCCGCTAATGCTCAGATCTTTAACGGCGTTTTTAAAAAAACACCGCTAATGCTCGAGG
* * ** * * *
18260504 CTTTAACGGCATTTTCCAAGAAGCGTCGCTAATGCTCGGGGCTTTAGCGGTGTTTTTGAAAAGCG
1 CTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCGGGGCTTTAGCGGCGTTTTTGAAAAGCG
18260569 CCGC
66 CCGC
18260573 AAAAGCATTT
Statistics
Matches: 163, Mismatches: 28, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
122 10 0.06
123 139 0.85
124 14 0.09
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.30
Consensus pattern (122 bp):
CTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCGGGGCTTTAGCGGCGTTTTTGAAAAGCG
CCGCTAATGCTCAGATCTTTAACGGCGTTTTTAAAAAAACACCGCTAATGCTCGAGG
Found at i:18260929 original size:22 final size:21
Alignment explanation
Indices: 18260889--18260930 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
18260879 TATCATTATA
*
18260889 GTTTAGGGTTTAATATATATG
1 GTTTAGGGTATAATATATATG
18260910 GTTTAGGGTATATATATATAT
1 GTTTAGGGTATA-ATATATAT
18260931 ATGGTTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (21 bp):
GTTTAGGGTATAATATATATG
Found at i:18260933 original size:24 final size:21
Alignment explanation
Indices: 18260889--18260936 Score: 69
Period size: 24 Copynumber: 2.1 Consensus size: 21
18260879 TATCATTATA
18260889 GTTTAGGGTTTAATATATATG
1 GTTTAGGGTTTAATATATATG
18260910 GTTTAGGGTATATATATATATATG
1 GTTTAGGGT-T-TA-ATATATATG
18260934 GTT
1 GTT
18260937 AATTTAGGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 9 0.38
22 1 0.04
23 2 0.08
24 12 0.50
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.48
Consensus pattern (21 bp):
GTTTAGGGTTTAATATATATG
Found at i:18261017 original size:14 final size:15
Alignment explanation
Indices: 18260985--18261017 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
18260975 AAGGTTTATA
18260985 GATTATGGAATTAGC
1 GATTATGGAATTAGC
*
18261000 GATTATGG-ATTAGG
1 GATTATGGAATTAGC
18261014 GATT
1 GATT
18261018 CTGATTTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.30, C:0.03, G:0.30, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGC
Found at i:18261036 original size:14 final size:14
Alignment explanation
Indices: 18261019--18261045 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18261009 TTAGGGATTC
18261019 TGATTTAAGGGTTG
1 TGATTTAAGGGTTG
18261033 TGATTTAAGGGTT
1 TGATTTAAGGGTT
18261046 ATGGGTTAGG
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:0.22, C:0.00, G:0.33, T:0.44
Consensus pattern (14 bp):
TGATTTAAGGGTTG
Found at i:18261058 original size:14 final size:14
Alignment explanation
Indices: 18261037--18261089 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
18261027 GGGTTGTGAT
18261037 TTAAGGGTTATG-GG
1 TTAAGGGTTA-GAGG
*
18261051 TTAGGGGTTAGAGG
1 TTAAGGGTTAGAGG
*
18261065 TTATGGGTTAGAGG
1 TTAAGGGTTAGAGG
*
18261079 TTAAGAGTTAG
1 TTAAGGGTTAG
18261090 GGATTTAGGG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
13 1 0.03
14 33 0.97
ACGTcount: A:0.25, C:0.00, G:0.42, T:0.34
Consensus pattern (14 bp):
TTAAGGGTTAGAGG
Found at i:18261066 original size:21 final size:21
Alignment explanation
Indices: 18261042--18261081 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
18261032 GTGATTTAAG
*
18261042 GGTTATGGGTTAGGGGTTAGA
1 GGTTATGGGTTAGAGGTTAGA
18261063 GGTTATGGGTTAGAGGTTA
1 GGTTATGGGTTAGAGGTTA
18261082 AGAGTTAGGG
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:0.20, C:0.00, G:0.45, T:0.35
Consensus pattern (21 bp):
GGTTATGGGTTAGAGGTTAGA
Done.