Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008094.1 Hibiscus syriacus cultivar Beakdansim tig00110610_pilon, whole genome shotgun sequence
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: 9952466
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 21 of 43
Found at i:4150176 original size:42 final size:41
Alignment explanation
Indices: 4150052--4150389 Score: 219
Period size: 42 Copynumber: 8.3 Consensus size: 41
4150042 GTACTATAGC
* * * *
4150052 GGCGTTTTAATAAAAACGCCGCTAAAGACT-A--ATTTAGT
1 GGCGTTTTTATACAAACGCCGCTATAGACTCATTCTTTAGT
* * * **
4150090 GGCGTTTTTGTACAAACGCCACTATA-A-TACGAGTCTTTACC
1 GGCGTTTTTATACAAACGCCGCTATAGACT-C-ATTCTTTAGT
* *
4150131 GGCGTTTTTTATACAAACGCCGCTATAGACTCATTCTATAGC
1 GGCG-TTTTTATACAAACGCCGCTATAGACTCATTCTTTAGT
* * * * *
4150173 GGCGTTTTTACAGAAATGCCACTA-A-A-TAATTTACTTTAGT
1 GGCGTTTTTATACAAACGCCGCTATAGACTCA-TT-CTTTAGT
* * * * **
4150213 GGCGTTTTTATACAAACACCGCGAAAGACT-GTAATTTAGT
1 GGCGTTTTTATACAAACGCCGCTATAGACTCATTCTTTAGT
* * **
4150253 GGCGTTTTTAGAACAAACGCCGCTATAGACTCGTGATTTAGT
1 GGCGTTTTTA-TACAAACGCCGCTATAGACTCATTCTTTAGT
* * * *
4150295 GGCATTTTTATACAAACGCCGCTATAGTAC-GAGTCTTTAGC
1 GGCGTTTTTATACAAACGCCGCTATAG-ACTCATTCTTTAGT
* * * * *
4150336 GGTGTTTTTTATACAAACGCCGCTAAATACTCATACTATAGT
1 GGCG-TTTTTATACAAACGCCGCTATAGACTCATTCTTTAGT
4150378 GGCGTTTTTATA
1 GGCGTTTTTATA
4150390 TAAATGCCTC
Statistics
Matches: 230, Mismatches: 52, Indels: 33
0.73 0.17 0.10
Matches are distributed among these distances:
36 1 0.00
37 1 0.00
38 23 0.10
39 4 0.02
40 40 0.17
41 75 0.33
42 82 0.36
43 3 0.01
44 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.33
Consensus pattern (41 bp):
GGCGTTTTTATACAAACGCCGCTATAGACTCATTCTTTAGT
Found at i:4150378 original size:83 final size:80
Alignment explanation
Indices: 4150038--4150389 Score: 239
Period size: 83 Copynumber: 4.3 Consensus size: 80
4150028 TTGTAGCGGC
* * * * * * * * **
4150038 ACTCGTACTATAGCGGCGTTTTAATAAAAACGCCGCTAAAGAC--TAATTTAGTGGCGTTTTTGT
1 ACTCATACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACAGT-CTTTAGCGGCGTTTTTAA
*
4150101 ACAAACGCCACTATAAT
65 ACAAACGCCGCTA-AAT
* ** * *
4150118 AC-GAGT-CTTTACCGGCGTTTTTTATACAAACGCCGCTATAGACTCATTCTATAGCGGCGTTTT
1 ACTCA-TACTTTAGTGGCG-TTTTTATACAAACGCCGCTATAGA--CAGTCTTTAGCGGCGTTTT
* * * *
4150181 TACAGAAATGCCACTAAAT
62 TAAACAAACGCCGCTAAAT
* * * * * * * *
4150200 AAT-TTACTTTAGTGGCGTTTTTATACAAACACCGCGAAAGACTGTAATTTAGTGGCGTTTTTAG
1 ACTCATACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACAGT-CTTTAGCGGCGTTTTTA-
* *
4150264 AACAAACGCCGCTATAG
64 AACAAACGCCGCTAAAT
* * *
4150281 ACTCGTGA-TTTAGTGGCATTTTTATACAAACGCCGCTATAGTACGAGTCTTTAGCGGTGTTTTT
1 ACTCAT-ACTTTAGTGGCGTTTTTATACAAACGCCGCTATAG-AC-AGTCTTTAGCGGCG-TTTT
*
4150345 TATACAAACGCCGCTAAAT
62 TAAACAAACGCCGCTAAAT
*
4150364 ACTCATACTATAGTGGCGTTTTTATA
1 ACTCATACTTTAGTGGCGTTTTTATA
4150390 TAAATGCCTC
Statistics
Matches: 208, Mismatches: 48, Indels: 29
0.73 0.17 0.10
Matches are distributed among these distances:
79 11 0.05
80 38 0.18
81 35 0.17
82 45 0.22
83 70 0.34
84 9 0.04
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (80 bp):
ACTCATACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACAGTCTTTAGCGGCGTTTTTAAA
CAAACGCCGCTAAAT
Found at i:4150490 original size:42 final size:41
Alignment explanation
Indices: 4150038--4150494 Score: 295
Period size: 41 Copynumber: 11.2 Consensus size: 41
4150028 TTGTAGCGGC
* * * * *
4150038 ACTCGTACTATAGCGGCGTTTTAATAAAAACGCCGCTAAAG
1 ACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAAT
* * *
4150079 A--C-TAATTTAGTGGCGTTTTTGTACAAACGCCACTATAAT
1 ACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTA-AAT
** ** * *
4150118 ACGAGT-CTTTACCGGCGTTTTTTATACAAACGCCGCTATAG
1 ACTCGTACTTTAGTGGCG-TTTTTATACAAACGCCGCTAAAT
* * * * * * * *
4150159 ACTCATTCTATAGCGGCGTTTTTACAGAAATGCCACTAAAT
1 ACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAAT
* * * * *
4150200 AAT-TTACTTTAGTGGCGTTTTTATACAAACACCGCGAAAG
1 ACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAAT
* * * *
4150240 ACT-GTAATTTAGTGGCGTTTTTAGAACAAACGCCGCTATAG
1 ACTCGTACTTTAGTGGCGTTTTTA-TACAAACGCCGCTAAAT
* *
4150281 ACTCGTGA-TTTAGTGGCATTTTTATACAAACGCCGCTATAGT
1 ACTCGT-ACTTTAGTGGCGTTTTTATACAAACGCCGCTA-AAT
** * *
4150323 ACGAGT-CTTTAGCGGTGTTTTTTATACAAACGCCGCTAAAT
1 ACTCGTACTTTAGTGGCG-TTTTTATACAAACGCCGCTAAAT
* * * * * *
4150364 ACTCATACTATAGTGGCGTTTTTATATAAATGCCTCAAAAT
1 ACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAAT
* * * * *
4150405 AAT-GTACTTTAGTGGCG-TTTTATGCATAAATGCCGCCAGAT
1 ACTCGTACTTTAGTGGCGTTTTTAT--ACAAACGCCGCTAAAT
* * * *
4150446 ACTCGTACTTTAGTGGCGTTTTAAGCACAAACACCACTAAAT
1 ACTCGTACTTTAGTGGCGTTTTTA-TACAAACGCCGCTAAAT
4150488 ACTCGTA
1 ACTCGTA
4150495 ATTAAGCGCT
Statistics
Matches: 316, Mismatches: 82, Indels: 35
0.73 0.19 0.08
Matches are distributed among these distances:
38 26 0.08
39 10 0.03
40 58 0.18
41 109 0.34
42 108 0.34
43 5 0.02
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (41 bp):
ACTCGTACTTTAGTGGCGTTTTTATACAAACGCCGCTAAAT
Found at i:4154169 original size:21 final size:21
Alignment explanation
Indices: 4154145--4154203 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
4154135 TGATTTATTA
**
4154145 TTATGGATTTCATTTTTCTTG
1 TTATGGATTTCAAGTTTCTTG
* *
4154166 TTATGGATTTTAAGTTTGTTG
1 TTATGGATTTCAAGTTTCTTG
*
4154187 TTATGGATGTCAAGTTT
1 TTATGGATTTCAAGTTT
4154204 ATTGGAAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.19, C:0.05, G:0.20, T:0.56
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTCTTG
Found at i:4154401 original size:43 final size:43
Alignment explanation
Indices: 4154315--4154409 Score: 113
Period size: 43 Copynumber: 2.2 Consensus size: 43
4154305 AAGGTAATTA
* *
4154315 GCGGCGTTTGTATCTTAAAACGCCGCTATAGATATGATATTTT
1 GCGGCGTTTGTATCTAAAAACGCCGCTATAGACATGATATTTT
* *
4154358 GCGGCGTTTGT-TCTAAAAAACGCCGCTATATACCA-GATCTTTT
1 GCGGCGTTTGTATCT-AAAAACGCCGCTATAGA-CATGATATTTT
*
4154401 GCGGTGTTT
1 GCGGCGTTT
4154410 ATGGGGAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
42 3 0.07
43 41 0.91
44 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (43 bp):
GCGGCGTTTGTATCTAAAAACGCCGCTATAGACATGATATTTT
Found at i:4154446 original size:43 final size:43
Alignment explanation
Indices: 4154399--4154624 Score: 308
Period size: 43 Copynumber: 5.3 Consensus size: 43
4154389 ACCAGATCTT
* * * *
4154399 TTGCGGTGTTTATGGGGAAAACGCCGCTAAATCTCAAGACCTA
1 TTGCGGCGTTTGTGGGAAAAACGCCGCTAAATCTCAACACCTA
4154442 TTGCGGCGTTTGTGGGAAAAACGCCGCTAAATCTCAACACCTA
1 TTGCGGCGTTTGTGGGAAAAACGCCGCTAAATCTCAACACCTA
4154485 TTGCGGCGTTTGTGGGAAAAACGCCGCTAAATCTCAACACCTA
1 TTGCGGCGTTTGTGGGAAAAACGCCGCTAAATCTCAACACCTA
* * * *
4154528 TTGCGGCGTTTGTTGGAAAAATGCCGCCAAATATCAACACCTA
1 TTGCGGCGTTTGTGGGAAAAACGCCGCTAAATCTCAACACCTA
* * * * * ***
4154571 TTGCGGTGTTTGTTGGACAAACGCCGCTATATATCGTTACCTA
1 TTGCGGCGTTTGTGGGAAAAACGCCGCTAAATCTCAACACCTA
4154614 TTGCGGCGTTT
1 TTGCGGCGTTT
4154625 TTTGTTATCA
Statistics
Matches: 166, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 166 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (43 bp):
TTGCGGCGTTTGTGGGAAAAACGCCGCTAAATCTCAACACCTA
Found at i:4154489 original size:129 final size:129
Alignment explanation
Indices: 4154356--4154624 Score: 299
Period size: 129 Copynumber: 2.1 Consensus size: 129
4154346 ATATGATATT
* * * * * * *
4154356 TTGCGGCGTTTGTTCTAAAAAACGCCGCTATATAC-C-AGATCTTTTGCGGTGTTTATGGGGAAA
1 TTGCGGCGTTTG-TCGAAAAAACGCCGCTAAAT-CTCAACACCTATTGCGGCGTTTATGGGAAAA
* * * *
4154419 ACGCCGCTAAATCTCAAGACCTATTGCGGCGTTTGTGGGAAAAACGCCGCTAAATCTCAACACCT
64 ACGCCGCCAAATATCAACACCTATTGCGGCGTTTGTGGGAAAAACGCCGCTAAATATCAACACCT
4154484 A
129 A
* * * * *
4154485 TTGCGGCGTTTGTGGGAAAAACGCCGCTAAATCTCAACACCTATTGCGGCGTTTGTTGGAAAAAT
1 TTGCGGCGTTTGTCGAAAAAACGCCGCTAAATCTCAACACCTATTGCGGCGTTTATGGGAAAAAC
* * * * ***
4154550 GCCGCCAAATATCAACACCTATTGCGGTGTTTGTTGGACAAACGCCGCTATATATCGTTACCTA
66 GCCGCCAAATATCAACACCTATTGCGGCGTTTGTGGGAAAAACGCCGCTAAATATCAACACCTA
4154614 TTGCGGCGTTT
1 TTGCGGCGTTT
4154625 TTTGTTATCA
Statistics
Matches: 115, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
127 1 0.01
128 17 0.15
129 97 0.84
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (129 bp):
TTGCGGCGTTTGTCGAAAAAACGCCGCTAAATCTCAACACCTATTGCGGCGTTTATGGGAAAAAC
GCCGCCAAATATCAACACCTATTGCGGCGTTTGTGGGAAAAACGCCGCTAAATATCAACACCTA
Found at i:4166989 original size:30 final size:28
Alignment explanation
Indices: 4166937--4166999 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
4166927 TGTGGTGTTG
4166937 GGGGGGTGAACTTGAACTTAAAATT-TCA
1 GGGGGGTGAACTTGAACTTAAAATTCT-A
* *
4166965 GGGGGGTGAATTTGAAGTAATAAAATTCTA
1 GGGGGGTGAACTTGAACT--TAAAATTCTA
4166995 GGGGG
1 GGGGG
4167000 CGAAATCAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 16 0.53
30 13 0.43
31 1 0.03
ACGTcount: A:0.32, C:0.06, G:0.35, T:0.27
Consensus pattern (28 bp):
GGGGGGTGAACTTGAACTTAAAATTCTA
Found at i:4172544 original size:44 final size:45
Alignment explanation
Indices: 4172455--4172549 Score: 138
Period size: 44 Copynumber: 2.1 Consensus size: 45
4172445 ACCCTGGATC
* * *
4172455 TAGATGTGTTTATGGATAAGTCATATTTAGATTTATAGTTTACGA
1 TAGATGTGTTTATGGATAAGTCATAATTAGATTTACAGGTTACGA
*
4172500 TAGATGTGTTTATGGATAA-TCCTAATTAGATTTACAGGTTACGA
1 TAGATGTGTTTATGGATAAGTCATAATTAGATTTACAGGTTACGA
*
4172544 TGGATG
1 TAGATG
4172550 AATCAATTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 26 0.58
45 19 0.42
ACGTcount: A:0.31, C:0.06, G:0.22, T:0.41
Consensus pattern (45 bp):
TAGATGTGTTTATGGATAAGTCATAATTAGATTTACAGGTTACGA
Found at i:4176471 original size:66 final size:66
Alignment explanation
Indices: 4176365--4176500 Score: 272
Period size: 66 Copynumber: 2.1 Consensus size: 66
4176355 TATCATTTGA
4176365 TCTTAATTTACTTAATAATAATGGAATATGGTATAATTGTAAAGTTTAGGAAATAAGTACCATCT
1 TCTTAATTTACTTAATAATAATGGAATATGGTATAATTGTAAAGTTTAGGAAATAAGTACCATCT
4176430 T
66 T
4176431 TCTTAATTTACTTAATAATAATGGAATATGGTATAATTGTAAAGTTTAGGAAATAAGTACCATCT
1 TCTTAATTTACTTAATAATAATGGAATATGGTATAATTGTAAAGTTTAGGAAATAAGTACCATCT
4176496 T
66 T
4176497 TCTT
1 TCTT
4176501 CTTTCTTCTT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 70 1.00
ACGTcount: A:0.38, C:0.08, G:0.13, T:0.40
Consensus pattern (66 bp):
TCTTAATTTACTTAATAATAATGGAATATGGTATAATTGTAAAGTTTAGGAAATAAGTACCATCT
T
Found at i:4176588 original size:2 final size:2
Alignment explanation
Indices: 4176581--4176610 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4176571 TTCAGTAAGA
4176581 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4176611 TGAATGTGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4185269 original size:22 final size:22
Alignment explanation
Indices: 4185240--4185296 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
4185230 TTTCAATAAG
*
4185240 GGATCGATCCTTTTGGT-GAAA
1 GGATCGATCCTTTTGGTAAAAA
*
4185261 GAGATCGAT-CATTTGGTAAAAA
1 G-GATCGATCCTTTTGGTAAAAA
*
4185283 GGGTCGATCCTTTT
1 GGATCGATCCTTTT
4185297 AATAAGGGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
21 14 0.48
22 15 0.52
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.33
Consensus pattern (22 bp):
GGATCGATCCTTTTGGTAAAAA
Found at i:4185289 original size:21 final size:21
Alignment explanation
Indices: 4185258--4185316 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
4185248 CCTTTTGGTG
*
4185258 AAAGAGATCGATCATTTGGTAA
1 AAAGGGATCGATCATTT-GTAA
*
4185280 AAAGGG-TCGATCCTTT-TAA
1 AAAGGGATCGATCATTTGTAA
* *
4185299 TAAGGGATTGATCATTTG
1 AAAGGGATCGATCATTTG
4185317 AGGTAGAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
19 8 0.27
20 8 0.27
21 9 0.30
22 5 0.17
ACGTcount: A:0.34, C:0.10, G:0.24, T:0.32
Consensus pattern (21 bp):
AAAGGGATCGATCATTTGTAA
Found at i:4186770 original size:8 final size:8
Alignment explanation
Indices: 4186757--4186791 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
4186747 AGTAATCTCT
4186757 CAATAAAA
1 CAATAAAA
4186765 CAATAAAA
1 CAATAAAA
4186773 CAATAAAA
1 CAATAAAA
*
4186781 CAATAACA
1 CAATAAAA
4186789 CAA
1 CAA
4186792 CATGTTAAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.71, C:0.17, G:0.00, T:0.11
Consensus pattern (8 bp):
CAATAAAA
Found at i:4189418 original size:26 final size:25
Alignment explanation
Indices: 4189367--4189420 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
4189357 TAATTTATTT
* *
4189367 TTTAAATTAAATTAAATTTATTAAA
1 TTTAAAATAAATTAAATATATTAAA
4189392 TTTAAAATAACATTAAA-ATATTCAAA
1 TTTAAAATAA-ATTAAATATATT-AAA
4189418 TTT
1 TTT
4189421 TTATTTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 13 0.52
26 12 0.48
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (25 bp):
TTTAAAATAAATTAAATATATTAAA
Found at i:4189560 original size:43 final size:43
Alignment explanation
Indices: 4189493--4189668 Score: 316
Period size: 43 Copynumber: 4.1 Consensus size: 43
4189483 TAATTATATA
*
4189493 CAATACATATATCTTTTTATATGTGATATATATAGAGAGAGATT
1 CAATACATATAT-TTTTTATATGTGATATATATAGAGAGAGAGT
4189537 CAATACATATATTTTTTATATGTGATATATATAGAGAGAGAGT
1 CAATACATATATTTTTTATATGTGATATATATAGAGAGAGAGT
4189580 CAATACATATATTTTTTATATGTGATATATATAGAGAGAGAGT
1 CAATACATATATTTTTTATATGTGATATATATAGAGAGAGAGT
* *
4189623 CAATACATATATTTTTTATATGTGATATATAAATAGAGAGAGT
1 CAATACATATATTTTTTATATGTGATATATATAGAGAGAGAGT
4189666 CAA
1 CAA
4189669 GAAACTCAAT
Statistics
Matches: 129, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
43 117 0.91
44 12 0.09
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.39
Consensus pattern (43 bp):
CAATACATATATTTTTTATATGTGATATATATAGAGAGAGAGT
Found at i:4193493 original size:20 final size:20
Alignment explanation
Indices: 4193468--4193520 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
4193458 GACCAACAAA
4193468 TTCGCAACGCGAATTCCAAT
1 TTCGCAACGCGAATTCCAAT
* * *
4193488 TTCGCAAC-CCAGTTTCAAT
1 TTCGCAACGCGAATTCCAAT
4193507 TTCGCAACGCGAAT
1 TTCGCAACGCGAAT
4193521 ATGTAAATCG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.26
Consensus pattern (20 bp):
TTCGCAACGCGAATTCCAAT
Found at i:4193594 original size:21 final size:21
Alignment explanation
Indices: 4193528--4193594 Score: 98
Period size: 21 Copynumber: 3.2 Consensus size: 21
4193518 AATATGTAAA
*
4193528 TCGCATTGCGATTTTCCAAAT
1 TCGCGTTGCGATTTTCCAAAT
*
4193549 TCGAGTTGCGATTTTCCAAAT
1 TCGCGTTGCGATTTTCCAAAT
**
4193570 TCGCGTTGCGATAATCCAAAT
1 TCGCGTTGCGATTTTCCAAAT
4193591 TCGC
1 TCGC
4193595 AACGCGATAG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (21 bp):
TCGCGTTGCGATTTTCCAAAT
Found at i:4193612 original size:20 final size:20
Alignment explanation
Indices: 4193586--4193737 Score: 155
Period size: 20 Copynumber: 7.2 Consensus size: 20
4193576 TGCGATAATC
*
4193586 CAAATTCGCAACGCGATAGT
1 CAAATTCGCAACGCGAAAGT
* *
4193606 GAAATTCTCAACGCGAAAGT
1 CAAATTCGCAACGCGAAAGT
*
4193626 CAAATTCGCAACGCGATAGT
1 CAAATTCGCAACGCGAAAGT
*
4193646 CAAATTCGCAATGCGAAAGT
1 CAAATTCGCAACGCGAAAGT
*
4193666 CAAATTTGTAAATCGCAACAC-AGAAGT
1 CAAA----T---TCGCAACGCGA-AAGT
4193693 CAAATTCGCAACGCGATAA-T
1 CAAATTCGCAACGCGA-AAGT
4193713 CAAATTCGCAACGCGAAAGT
1 CAAATTCGCAACGCGAAAGT
4193733 CAAAT
1 CAAAT
4193738 GTTTTTACGC
Statistics
Matches: 110, Mismatches: 12, Indels: 20
0.77 0.08 0.14
Matches are distributed among these distances:
19 2 0.02
20 87 0.79
21 3 0.03
23 1 0.01
24 1 0.01
26 1 0.01
27 15 0.14
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.20
Consensus pattern (20 bp):
CAAATTCGCAACGCGAAAGT
Found at i:4193771 original size:67 final size:67
Alignment explanation
Indices: 4193622--4193755 Score: 196
Period size: 67 Copynumber: 2.0 Consensus size: 67
4193612 CTCAACGCGA
* * * *
4193622 AAGTCAAATTCGCAACGCGATAGTCAAATTCGCAATGCGAAAGTCAAATTTGTAAATCGCAACAC
1 AAGTCAAATTCGCAACGCGATAATCAAATTCGCAACGCGAAAGTCAAATTTGTAAAGCGAAACAC
4193687 AG
66 AG
* * *
4193689 AAGTCAAATTCGCAACGCGATAATCAAATTCGCAACGCGAAAGTCAAATGTTTTTACGCGAAACA
1 AAGTCAAATTCGCAACGCGATAATCAAATTCGCAACGCGAAAGTCAAAT-TTGTAAAGCGAAACA
4193754 CA
65 CA
4193756 ATATTAATTT
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
67 47 0.80
68 12 0.20
ACGTcount: A:0.40, C:0.22, G:0.17, T:0.21
Consensus pattern (67 bp):
AAGTCAAATTCGCAACGCGATAATCAAATTCGCAACGCGAAAGTCAAATTTGTAAAGCGAAACAC
AG
Found at i:4194147 original size:13 final size:13
Alignment explanation
Indices: 4194129--4194160 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
4194119 AGTATTTGTC
4194129 TTTGTTTTGTCTT
1 TTTGTTTTGTCTT
4194142 TTTGTTTTGTCTT
1 TTTGTTTTGTCTT
4194155 TTTGTT
1 TTTGTT
4194161 GAAGAAACCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.00, C:0.06, G:0.16, T:0.78
Consensus pattern (13 bp):
TTTGTTTTGTCTT
Found at i:4194215 original size:19 final size:20
Alignment explanation
Indices: 4194172--4194217 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
4194162 AAGAAACCCT
4194172 AAATCGCAACGCGAAAATGA
1 AAATCGCAACGCGAAAATGA
*
4194192 AAATCGCAACGCGAAACT-A
1 AAATCGCAACGCGAAAATGA
4194211 AAATCGC
1 AAATCGC
4194218 GTTGCGATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.11
Consensus pattern (20 bp):
AAATCGCAACGCGAAAATGA
Found at i:4196449 original size:42 final size:42
Alignment explanation
Indices: 4196402--4196501 Score: 121
Period size: 42 Copynumber: 2.4 Consensus size: 42
4196392 ACCCGATGCA
* * * *
4196402 CCTATCATCATTCAAGAGGCACATTCTATCGTTCAAGAGGCC
1 CCTATCATCATTCAAGAAGCACATCCCACCGTTCAAGAGGCC
* *
4196444 CCTATCATCA-TCGAAGAAGCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCATTC-AAGAAGCACATCCCACCGTTCAAGAGGCC
*
4196486 CCTATCATCGTTCAAG
1 CCTATCATCATTCAAG
4196502 TGGTCCCGCC
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
41 2 0.04
42 45 0.92
43 2 0.04
ACGTcount: A:0.27, C:0.34, G:0.16, T:0.23
Consensus pattern (42 bp):
CCTATCATCATTCAAGAAGCACATCCCACCGTTCAAGAGGCC
Found at i:4196460 original size:21 final size:21
Alignment explanation
Indices: 4196402--4196501 Score: 71
Period size: 21 Copynumber: 4.8 Consensus size: 21
4196392 ACCCGATGCA
*
4196402 CCTATCATC-ATTCAAGAGGCA
1 CCTATCATCGA-TCAAGAGGCC
* *
4196423 CAT-TCTATCGTTCAAGAGGCC
1 CCTATC-ATCGATCAAGAGGCC
*
4196444 CCTATCATC-ATCGAAGAAGCC
1 CCTATCATCGATC-AAGAGGCC
** * *
4196465 CCTCCCACCGTTCAAGAGGCC
1 CCTATCATCGATCAAGAGGCC
*
4196486 CCTATCATCGTTCAAG
1 CCTATCATCGATCAAG
4196502 TGGTCCCGCC
Statistics
Matches: 60, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
20 4 0.07
21 52 0.87
22 4 0.07
ACGTcount: A:0.27, C:0.34, G:0.16, T:0.23
Consensus pattern (21 bp):
CCTATCATCGATCAAGAGGCC
Found at i:4197955 original size:61 final size:66
Alignment explanation
Indices: 4197860--4198000 Score: 168
Period size: 66 Copynumber: 2.2 Consensus size: 66
4197850 TTTTACATTG
4197860 AAAGTTGATTTG-TTACAATTGATGAGGAAATAAG-A-T-TTATTTT-TTGATTAATTAATTTGT
1 AAAGTTGATTTGTTTACAATTGATGAGGAAATAAGAATTATTATTTTCTTGATTAATTAATTTGT
4197920 A
66 A
* ** * * * *
4197921 AAAGTTGATTTGTTTA-ATTTGATTTGTAAATAAGAATTATTTTTTTGCTTGTTTAATTGATTTG
1 AAAGTTGATTTGTTTACAATTGATGAGGAAATAAGAATTATTATTTT-CTTGATTAATTAATTTG
4197985 TA
65 TA
4197987 AAAGTTGATTTGTT
1 AAAGTTGATTTGTT
4198001 GTTTCTAAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
61 26 0.39
62 4 0.06
63 1 0.01
64 6 0.09
66 30 0.45
ACGTcount: A:0.32, C:0.01, G:0.16, T:0.50
Consensus pattern (66 bp):
AAAGTTGATTTGTTTACAATTGATGAGGAAATAAGAATTATTATTTTCTTGATTAATTAATTTGT
A
Found at i:4198334 original size:39 final size:39
Alignment explanation
Indices: 4198279--4198365 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
4198269 TCAAGTTGTA
*
4198279 GATTTTGATTTTCTTTTGCTTGGCACCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
4198318 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
4198357 GATTTTGAT
1 GATTTTGAT
4198366 GAGCATCAGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.17, C:0.14, G:0.21, T:0.48
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:4198693 original size:18 final size:18
Alignment explanation
Indices: 4198670--4198706 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
4198660 CGAAATTTAT
4198670 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
4198688 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
4198706 A
1 A
4198707 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:4199127 original size:25 final size:25
Alignment explanation
Indices: 4199093--4199142 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
4199083 ATTATTTTTC
*
4199093 CAAATAATGTACCCATAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
4199118 CAAATAATGTACCCACAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
4199143 TAATTGATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.26
Consensus pattern (25 bp):
CAAATAATGTACCCACAACAATGTT
Found at i:4199251 original size:20 final size:20
Alignment explanation
Indices: 4199237--4199340 Score: 172
Period size: 20 Copynumber: 5.2 Consensus size: 20
4199227 TAAATTCACA
*
4199237 ACGCGAAAGTCAAATTCGCT
1 ACGCGATAGTCAAATTCGCT
*
4199257 ACGCTATAGTCAAATTCGCT
1 ACGCGATAGTCAAATTCGCT
*
4199277 ACGCTATAGTCAAATTCGCT
1 ACGCGATAGTCAAATTCGCT
4199297 ACGCGATAGTCAAATTCGCT
1 ACGCGATAGTCAAATTCGCT
*
4199317 ACGCGATAGTCAAATTCGCA
1 ACGCGATAGTCAAATTCGCT
4199337 ACGC
1 ACGC
4199341 TTATTTCACG
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 80 1.00
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (20 bp):
ACGCGATAGTCAAATTCGCT
Found at i:4202942 original size:21 final size:21
Alignment explanation
Indices: 4202898--4203074 Score: 111
Period size: 21 Copynumber: 8.7 Consensus size: 21
4202888 GAAATTAAAT
* *
4202898 TCGCGTTGAGAATTT-GACTA
1 TCGCGTTGCGAATTTGGAATA
4202918 TCGCGTTGCGAATTTGGAATA
1 TCGCGTTGCGAATTTGGAATA
***
4202939 TCGCAACGCGAATTTGGAATA
1 TCGCGTTGCGAATTTGGAATA
*** *
4202960 TCGCAACGCGAATTTGGAAAA
1 TCGCGTTGCGAATTTGGAATA
**
4202981 TCGCAATGCG-ATTT--ACATA
1 TCGCGTTGCGAATTTGGA-ATA
*
4203000 TTCGCGTTGCGAAATTGGAA-A
1 -TCGCGTTGCGAATTTGGAATA
* * *
4203021 -CTGGGTTGCAAAATTGGAAT-
1 TC-GCGTTGCGAATTTGGAATA
*
4203041 TCGCGTTGCGAATTT-G-AGA
1 TCGCGTTGCGAATTTGGAATA
*
4203060 TCGTGTTGCGAATTT
1 TCGCGTTGCGAATTT
4203075 ATTGGTCATT
Statistics
Matches: 129, Mismatches: 18, Indels: 21
0.77 0.11 0.12
Matches are distributed among these distances:
18 2 0.02
19 18 0.14
20 51 0.40
21 56 0.43
22 1 0.01
23 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.31
Consensus pattern (21 bp):
TCGCGTTGCGAATTTGGAATA
Found at i:4203048 original size:20 final size:20
Alignment explanation
Indices: 4202999--4203049 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
4202989 CGATTTACAT
*
4202999 ATTCGCGTTGCGAAATTGGA
1 ATTCGCGTTGCAAAATTGGA
* *
4203019 A-ACTGGGTTGCAAAATTGGA
1 ATTC-GCGTTGCAAAATTGGA
4203039 ATTCGCGTTGC
1 ATTCGCGTTGC
4203050 GAATTTGAGA
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
19 1 0.04
20 22 0.92
21 1 0.04
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (20 bp):
ATTCGCGTTGCAAAATTGGA
Found at i:4204099 original size:11 final size:11
Alignment explanation
Indices: 4204074--4204109 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
4204064 ATTTTTAAGA
4204074 AATAAATAAAAT
1 AATAAA-AAAAT
*
4204086 AATAAAATAAT
1 AATAAAAAAAT
4204097 AATAAAAAAAT
1 AATAAAAAAAT
4204108 AA
1 AA
4204110 ATGTTAGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 16 0.73
12 6 0.27
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (11 bp):
AATAAAAAAAT
Found at i:4204225 original size:15 final size:16
Alignment explanation
Indices: 4204201--4204236 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
4204191 AAAAAAGTCT
*
4204201 AAAAATTTGAA-AAAG
1 AAAAAGTTGAACAAAG
4204216 AAAAAGTTGAACAAAG
1 AAAAAGTTGAACAAAG
4204232 AAAAA
1 AAAAA
4204237 AATTAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.69, C:0.03, G:0.14, T:0.14
Consensus pattern (16 bp):
AAAAAGTTGAACAAAG
Found at i:4204248 original size:17 final size:17
Alignment explanation
Indices: 4204210--4204252 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
4204200 TAAAAATTTG
* *
4204210 AAAAAG-AAAAAGTTGA
1 AAAAAGAAAAAAATTAA
*
4204226 ACAAAGAAAAAAATTAA
1 AAAAAGAAAAAAATTAA
4204243 AAAAAGAAAA
1 AAAAAGAAAA
4204253 GAAAATGTGG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.77, C:0.02, G:0.12, T:0.09
Consensus pattern (17 bp):
AAAAAGAAAAAAATTAA
Found at i:4204366 original size:2 final size:2
Alignment explanation
Indices: 4204359--4204395 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
4204349 TAAATAAATA
* *
4204359 AT AT AT AT AT AT AT AT AT AT AT AT AT AA AC AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4204396 AATAAATATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:4204396 original size:10 final size:10
Alignment explanation
Indices: 4204301--4204404 Score: 69
Period size: 10 Copynumber: 10.8 Consensus size: 10
4204291 TATTATTATT
4204301 ATATATATAA
1 ATATATATAA
4204311 ATA-A-A-AA
1 ATATATATAA
* *
4204318 ATATTTAAAA
1 ATATATATAA
4204328 ATA-ATAGTCAA
1 ATATATA-T-AA
*
4204339 A-ATAAATAA
1 ATATATATAA
4204348 ATA-A-ATAA
1 ATATATATAA
*
4204356 ATAATATATAT
1 AT-ATATATAA
*
4204367 ATATATATAT
1 ATATATATAA
4204377 ATATATATAA
1 ATATATATAA
*
4204387 ACATATATAA
1 ATATATATAA
*
4204397 ATAAATAT
1 ATATATAT
4204405 TAATGTTAAA
Statistics
Matches: 75, Mismatches: 9, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
7 5 0.07
8 7 0.09
9 9 0.12
10 44 0.59
11 10 0.13
ACGTcount: A:0.62, C:0.02, G:0.01, T:0.35
Consensus pattern (10 bp):
ATATATATAA
Found at i:4204404 original size:12 final size:12
Alignment explanation
Indices: 4204338--4204493 Score: 67
Period size: 12 Copynumber: 13.4 Consensus size: 12
4204328 ATAATAGTCA
*
4204338 AAATAAATAAAT
1 AAATAAATATAT
4204350 AAATAAATA-AT
1 AAATAAATATAT
* *
4204361 ATATATATATAT
1 AAATAAATATAT
* *
4204373 ATATATATATAT
1 AAATAAATATAT
*
4204385 -AA-ACATATAT
1 AAATAAATATAT
4204395 AAATAAATAT-T
1 AAATAAATATAT
* *
4204406 AATGTTAA-AT-T
1 AA-ATAAATATAT
* * *
4204417 AAATAAACAAAAG
1 AAATAAA-TATAT
* *
4204430 AAATAAATACAC
1 AAATAAATATAT
* *
4204442 ATATATATATAT
1 AAATAAATATAT
*
4204454 TAAT-AATAATAT
1 AAATAAAT-ATAT
*
4204466 AAAAAAATA-AT
1 AAATAAATATAT
*
4204477 AAAAAAATATAT
1 AAATAAATATAT
4204489 AAATA
1 AAATA
4204494 TATTAGATTA
Statistics
Matches: 110, Mismatches: 24, Indels: 20
0.71 0.16 0.13
Matches are distributed among these distances:
10 10 0.09
11 33 0.30
12 57 0.52
13 10 0.09
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (12 bp):
AAATAAATATAT
Found at i:4204480 original size:11 final size:12
Alignment explanation
Indices: 4204462--4204491 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
4204452 ATTAATAATA
4204462 ATATAAAAAAAT
1 ATATAAAAAAAT
4204474 A-ATAAAAAAAT
1 ATATAAAAAAAT
4204485 ATATAAA
1 ATATAAA
4204492 TATATTAGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (12 bp):
ATATAAAAAAAT
Found at i:4204496 original size:49 final size:53
Alignment explanation
Indices: 4204379--4204504 Score: 118
Period size: 55 Copynumber: 2.4 Consensus size: 53
4204369 ATATATATAT
* * * * *
4204379 ATATATAAACATATATAAATAAATATTAATGTTAAATTAAATAAACAAAAGAA
1 ATATATAAATATATATAAATTAATAATAATGATAAATAAAATAAACAAAAGAA
* * *
4204432 ATAAATACACATATATATATATTAATAATAAT-ATAAA-AAAAT-AATAAAA-AA
1 ATATATA-A-ATATATATAAATTAATAATAATGATAAATAAAATAAACAAAAGAA
*
4204483 ATATATAAATATAT-TAGATTAA
1 ATATATAAATATATATAAATTAA
4204505 ATAAAAAAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 9
0.76 0.12 0.11
Matches are distributed among these distances:
48 7 0.11
49 6 0.10
50 1 0.02
51 8 0.13
52 6 0.10
53 10 0.16
54 5 0.08
55 18 0.30
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (53 bp):
ATATATAAATATATATAAATTAATAATAATGATAAATAAAATAAACAAAAGAA
Found at i:4205752 original size:18 final size:18
Alignment explanation
Indices: 4205729--4205815 Score: 138
Period size: 18 Copynumber: 4.8 Consensus size: 18
4205719 TGAATATTTT
4205729 TCCCGAAGGACCACTATG
1 TCCCGAAGGACCACTATG
* *
4205747 TCCCGAAAGACCGCTATG
1 TCCCGAAGGACCACTATG
*
4205765 TCCCGAAGGACCAATATG
1 TCCCGAAGGACCACTATG
*
4205783 TCCCGAAGGACCAATATG
1 TCCCGAAGGACCACTATG
4205801 TCCCGAAGGACCACT
1 TCCCGAAGGACCACT
4205816 GATAATCCCT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 63 1.00
ACGTcount: A:0.30, C:0.32, G:0.22, T:0.16
Consensus pattern (18 bp):
TCCCGAAGGACCACTATG
Found at i:4206472 original size:64 final size:66
Alignment explanation
Indices: 4206383--4206543 Score: 163
Period size: 64 Copynumber: 2.5 Consensus size: 66
4206373 TCCCTTGACC
* * *
4206383 GGTGCATCGATGAACTA-TCTATGCATCGGTACAT-AAAT-CCTATTCGATGTTTCTATTTT-AA
1 GGTGCATCGATGCACTACT-TGTGCATCGATACATCAAATGCC-ATTCGATGTTTCTATTTTAAA
4206444 GCA
64 GCA
** * * *
4206447 GGTGCATCGATGCACTACTTGTGCATCGATAC-TCTGATGGCATTCGATGTTTTTATTTTAAAGG
1 GGTGCATCGATGCACTACTTGTGCATCGATACATCAAATGCCATTCGATGTTTCTATTTTAAAGC
4206511 A
66 A
* * *
4206512 -GTGCATCGATACACTTCATGTGCATCGATACA
1 GGTGCATCGATGCACTACTTGTGCATCGATACA
4206544 CCTTGAACAA
Statistics
Matches: 81, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
63 1 0.01
64 74 0.91
65 6 0.07
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (66 bp):
GGTGCATCGATGCACTACTTGTGCATCGATACATCAAATGCCATTCGATGTTTCTATTTTAAAGC
A
Found at i:4212707 original size:18 final size:18
Alignment explanation
Indices: 4212684--4212718 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
4212674 ACTGAATATT
4212684 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
4212702 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
4212719 GATAATCCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.26, C:0.34, G:0.23, T:0.17
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:4213431 original size:64 final size:64
Alignment explanation
Indices: 4213312--4213433 Score: 156
Period size: 64 Copynumber: 1.9 Consensus size: 64
4213302 ATATAAATCC
* * * *
4213312 CATTCGATGTTTGTATTTTAAGCGGGTGCATCGATGCACTACTTGTTAATCGATACACTGATGG
1 CATTCGATGTTTGTATTTTAAGCGAGTGCATCGATACACTACATGTGAATCGATACACTGATGG
* * * *
4213376 CATTCGATGTTTTTATTTTAAAG-GAGTGCATCGATACACTTCATGTGCATTGATACAC
1 CATTCGATGTTTGTATTTT-AAGCGAGTGCATCGATACACTACATGTGAATCGATACAC
4213434 CTTGAATAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
64 46 0.94
65 3 0.06
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.37
Consensus pattern (64 bp):
CATTCGATGTTTGTATTTTAAGCGAGTGCATCGATACACTACATGTGAATCGATACACTGATGG
Found at i:4214758 original size:18 final size:18
Alignment explanation
Indices: 4214735--4214769 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4214725 ATTGAATATT
*
4214735 TGTCCCGAAGGACCACTA
1 TGTCCCAAAGGACCACTA
*
4214753 TGTCCCAAAGGATCACT
1 TGTCCCAAAGGACCACT
4214770 GATAATCCCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (18 bp):
TGTCCCAAAGGACCACTA
Found at i:4215450 original size:64 final size:64
Alignment explanation
Indices: 4215382--4215503 Score: 165
Period size: 64 Copynumber: 1.9 Consensus size: 64
4215372 ACATAAATCC
* * * * *
4215382 CATTCGATGTTTGTATTTT-AAGCGGGTGCATTGATGCACTACTTGTGCATCGATACACTGATGG
1 CATTCAATGTTTGTATTTTAAAG-GAGTGCATCGATACACTACATGTGCATCGATACACTGATGG
* *
4215446 CATTCAATGTTTTTATTTTAAAGGAGTGCATCGATACACTTCATGTGCATCGATACAC
1 CATTCAATGTTTGTATTTTAAAGGAGTGCATCGATACACTACATGTGCATCGATACAC
4215504 CTTGACCAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
64 47 0.94
65 3 0.06
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.36
Consensus pattern (64 bp):
CATTCAATGTTTGTATTTTAAAGGAGTGCATCGATACACTACATGTGCATCGATACACTGATGG
Found at i:4217842 original size:80 final size:80
Alignment explanation
Indices: 4217467--4218275 Score: 895
Period size: 80 Copynumber: 9.9 Consensus size: 80
4217457 TGACAAATAA
* * * * * * * * *
4217467 CCCTTCTTTCCTTGAGCTATGATGTAAATTTGATTTGCCTCTGAGTTGAATGTAATCAAACTCGA
1 CCCTTCTTGCCTTGAGTTATGCTGCAAA--TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGA
*
4217532 AGGTCTTTGATGATAGATAA
64 AGGTCTTTG--GA-AGATAG
* ** * * * *
4217552 CCCTTCTCT-CCTTGAGTTATGTTAAAAATTTGATATACCTTTGAACTGAATGTAATCGAACTCG
1 CCCTTCT-TGCCTTGAGTTATGCTGCAAA--TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCG
*
4217616 AAGGTCTTTTATTGGTAGATAG
63 AAGGTC---T-TTGGAAGATAG
* * * *
4217638 CCCTTCTCGCCTTGAGTTATGTTACAAATGATGTGCCTTTGAGCTGAGAGTAATCGAACTCGAAG
1 CCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
4217703 GTCTTTTGTTGGAAGATAG
66 GTC---T-TTGGAAGATAG
* * * *
4217722 CCATTCTTACCTTGAGTTATGCTGCAAATGATGTGTCTTTGTGCTGAGTGTAATCGAACTCGAAG
1 CCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
*
4217787 GTCTTTGGAAGATAT
66 GTCTTTGGAAGATAG
* * * *
4217802 CCCTTCTTGCCTTTAGTTGTGCTGCAAATGATGTACCTTTGAGTTGAGTGTAATCGAACTCGAAG
1 CCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
* *
4217867 GTCTTTGGCAGATAA
66 GTCTTTGGAAGATAG
* * *
4217882 CCCTTTTTGCCTTGAGCTATACTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
1 CCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
* * *
4217947 ATCTTTTGCAGATAG
66 GTCTTTGGAAGATAG
*
4217962 CCCTTCTTGCCTTGAGCTT-TGCTGCAAATGATGTGCTTTTGAGCTGAGTGTAATCGAACTCGAA
1 CCCTTCTTGCCTTGAG-TTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAA
* * * * *
4218026 GGTTTTTTATTTGCATATAT
65 GG---TCT-TTGGAAGATAG
*
4218046 CACTTCTTGCCTTGAG-TATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
1 CCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
*
4218110 GTCTTTGGTAGATAG
66 GTCTTTGGAAGATAG
* * * * *
4218125 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTAAGCTGAGTGTAATAGAACTCAAAA
1 CCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
*
4218190 GTCTTTGGTAGATAG
66 GTCTTTGGAAGATAG
* * * *
4218205 GCCTTCTTGCCTTGAGCTATGCTGCAAATGATGCGCCTTTGAGCTGAGTGTAATCGGACTCGAAG
1 CCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
4218270 GTCTTT
66 GTCTTT
4218276 TTGTTGGAGG
Statistics
Matches: 634, Mismatches: 77, Indels: 31
0.85 0.10 0.04
Matches are distributed among these distances:
79 22 0.03
80 334 0.53
81 2 0.00
82 1 0.00
83 48 0.08
84 133 0.21
85 58 0.09
86 31 0.05
87 1 0.00
88 1 0.00
89 3 0.00
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (80 bp):
CCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAG
GTCTTTGGAAGATAG
Found at i:4218141 original size:243 final size:243
Alignment explanation
Indices: 4217441--4218283 Score: 905
Period size: 243 Copynumber: 3.4 Consensus size: 243
4217431 AATGGAATTA
* * * * * * *
4217441 AACTCGACA-ATCTTGTTGACAAATAACCCTTCTTTCCTTGAGCTATGATGTAAATTTGATTTGC
1 AACTCGA-AGATCTT-TTGA-AGATAGCCCTTCTTGCCTTGAGCTTTGCTGCAAA--TGATGTGC
* * * * * * ** * *
4217505 CTCTGAGTTGAATGTAATCAAACTCGAAGGTCTTTGAT-GATAGATAACCCTTCTCT-CCTTGAG
61 TTTTGAGCTGAGTGTAATCGAACTCGAAGGTTTTTTTTGGA-AGATATCACTTCT-TGCCTTGAG
* ** * * *
4217568 TTATGTTAAAAATTTGATATACCTTTGAACTGAATGTAATCGAACTCGAAGGTCTTTTATTGGTA
124 TTATGCTGCAAA--TGATGTACCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC---T-TTGGTA
* * * * *
4217633 GATAGCCCTTCTCGCCTTGAGTTATGTTACAAATGATGTGCCTTTGAGCTGAGAGTAATCG
183 GATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCG
* * *
4217694 AACTCGAAGGTCTTTTGTTGGAAGATAGCCATTCTTACCTTGAG-TTATGCTGCAAATGATGTG-
1 AACTCGAAGATC--TT-TT-GAAGATAGCCCTTCTTGCCTTGAGCTT-TGCTGCAAATGATGTGC
* * * *
4217757 TCTTTGTGCTGAGTGTAATCGAACTCGAAGG---TCTTTGGAAGATATCCCTTCTTGCCTTTAGT
61 T-TTTGAGCTGAGTGTAATCGAACTCGAAGGTTTTTTTTGGAAGATATCACTTCTTGCCTTGAGT
* * * *
4217819 TGTGCTGCAAATGATGTACCTTTGAGTTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAACC
125 TATGCTGCAAATGATGTACCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGTAGATAGCC
* *
4217884 CTTTTTGCCTTGAGCTATACTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCG
190 CTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCG
*
4217938 AACTCGAAGATCTTTTGCAGATAGCCCTTCTTGCCTTGAGCTTTGCTGCAAATGATGTGCTTTTG
1 AACTCGAAGATCTTTTGAAGATAGCCCTTCTTGCCTTGAGCTTTGCTGCAAATGATGTGCTTTTG
* * *
4218003 AGCTGAGTGTAATCGAACTCGAAGGTTTTTTATTTGCATATATCACTTCTTGCCTTGAG-TATGC
66 AGCTGAGTGTAATCGAACTCGAAGGTTTTTT-TTGGAAGATATCACTTCTTGCCTTGAGTTATGC
*
4218067 TGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGTAGATAGCCCTTCT
130 TGCAAATGATGTACCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGTAGATAGCCCTTCT
* *
4218132 TGCCTTGAGCTATGCTGCAAATGATGTGCCTTTAAGCTGAGTGTAATAG
195 TGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCG
* * * * * * *
4218181 AACTC-AAAAGTCTTTGGTAGATAGGCCTTCTTGCCTTGAGCTATGCTGCAAATGATGCGCCTTT
1 AACTCGAAGA-TCTTTTGAAGATAGCCCTTCTTGCCTTGAGCTTTGCTGCAAATGATGTGCTTTT
*
4218245 GAGCTGAGTGTAATCGGACTCGAAGGTCTTTTTGTTGGA
65 GAGCTGAGTGTAATCGAACTCGAAGGT-TTTTT-TTGGA
4218284 GGTGCTTTTG
Statistics
Matches: 506, Mismatches: 68, Indels: 41
0.82 0.11 0.07
Matches are distributed among these distances:
240 65 0.13
241 5 0.01
242 5 0.01
243 191 0.38
244 99 0.20
245 1 0.00
248 36 0.07
249 1 0.00
250 28 0.06
251 2 0.00
252 1 0.00
253 39 0.08
254 1 0.00
255 30 0.06
256 2 0.00
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (243 bp):
AACTCGAAGATCTTTTGAAGATAGCCCTTCTTGCCTTGAGCTTTGCTGCAAATGATGTGCTTTTG
AGCTGAGTGTAATCGAACTCGAAGGTTTTTTTTGGAAGATATCACTTCTTGCCTTGAGTTATGCT
GCAAATGATGTACCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGTAGATAGCCCTTCTT
GCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCG
Found at i:4218151 original size:323 final size:325
Alignment explanation
Indices: 4217467--4218276 Score: 1018
Period size: 323 Copynumber: 2.5 Consensus size: 325
4217457 TGACAAATAA
* * * * * * *
4217467 CCCTTCTTTCCTTGAGCTATGATGTAAATTTGATTTGCCTCTGAGTTGAATGTAATCAAACTCGA
1 CCCTTCTTGCCTTGAGCTATGCTGCAAA--TGATGTGCCTTTGAGTTGAGTGTAATCGAACTCGA
* * * ** * *
4217532 AGGTCTTTGATGATAGATAACCCTTCTCT-CCTTGAGTTATGTTAAAAATTTGATATACCTTTGA
64 AGGTCTTTG--G-TAGATAACCCTT-TTTGCCTTGAGCTATGCTGCAAA--TGATGTGCCTTTGA
* * * *
4217596 ACTGAATGTAATCGAACTCGAAGGTCTTTTATTGGTAGATAGCCCTTCTCGCCTTGAGTTATGTT
123 GCTGAGTGTAATCGAACTCGAAGGTC--TT-TTGGCAGATAGCCCTTCTCGCCTTGAGTTATGCT
*
4217661 ACAAATGATGTGCCTTTGAGCTGAGAGTAATCGAACTCGAAGGTCTTTTGTTGGAAGATAGCCAT
185 ACAAATGATGTGCCTTTGAGCTGAGAGTAATCGAACTCGAAGGTCTTTTATTGGAAGATAGCCAT
* *
4217726 TCTTACCTTGAGTTATGCTGCAAATGATGTGTCTTTGTGCTGAGTGTAATCGAACTCGAAGGTCT
250 TCTTACCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCT
*
4217791 TTGGAAGATAT
315 TTGGAAGATAG
* * * *
4217802 CCCTTCTTGCCTTTAGTTGTGCTGCAAATGATGTACCTTTGAGTTGAGTGTAATCGAACTCGAAG
1 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGTTGAGTGTAATCGAACTCGAAG
* *
4217867 GTCTTTGGCAGATAACCCTTTTTGCCTTGAGCTATACTGCAAATGATGTGCCTTTGAGCTGAGTG
66 GTCTTTGGTAGATAACCCTTTTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTG
* * *
4217932 TAATCGAACTCGAAGATCTTTT-GCAGATAGCCCTTCTTGCCTTGAGCTT-TGCTGCAAATGATG
131 TAATCGAACTCGAAGGTCTTTTGGCAGATAGCCCTTCTCGCCTTGAG-TTATGCTACAAATGATG
* * * * * * * *
4217995 TGCTTTTGAGCTGAGTGTAATCGAACTCGAAGGTTTTTTATTTGCATATA-TCACTTCTTGCCTT
195 TGCCTTTGAGCTGAGAGTAATCGAACTCGAAGGTCTTTTATTGGAAGATAGCCA-TTCTTACCTT
*
4218059 GAG-TATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGTAGAT
259 GAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGAAGAT
4218123 AG
324 AG
* * * * *
4218125 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTAAGCTGAGTGTAATAGAACTCAAAA
1 CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGTTGAGTGTAATCGAACTCGAAG
** * *
4218190 GTCTTTGGTAGATAGGCCTTCTTGCCTTGAGCTATGCTGCAAATGATGCGCCTTTGAGCTGAGTG
66 GTCTTTGGTAGATAACCCTTTTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTG
*
4218255 TAATCGGACTCGAAGGTCTTTT
131 TAATCGAACTCGAAGGTCTTTT
4218277 TGTTGGAGGT
Statistics
Matches: 415, Mismatches: 57, Indels: 18
0.85 0.12 0.04
Matches are distributed among these distances:
323 196 0.47
324 89 0.21
325 4 0.01
326 2 0.00
328 35 0.08
329 2 0.00
330 25 0.06
331 1 0.00
333 39 0.09
335 22 0.05
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (325 bp):
CCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGTTGAGTGTAATCGAACTCGAAG
GTCTTTGGTAGATAACCCTTTTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAGTG
TAATCGAACTCGAAGGTCTTTTGGCAGATAGCCCTTCTCGCCTTGAGTTATGCTACAAATGATGT
GCCTTTGAGCTGAGAGTAATCGAACTCGAAGGTCTTTTATTGGAAGATAGCCATTCTTACCTTGA
GTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGAAGATAG
Found at i:4219382 original size:95 final size:95
Alignment explanation
Indices: 4219181--4219441 Score: 296
Period size: 95 Copynumber: 2.7 Consensus size: 95
4219171 GGCTAGCTAG
* * * *
4219181 ATCCATAAAGC-CGGGACGTTTAACCAGTTGCTCTAGAGGGACAAATCAA--TATCATTGTATAG
1 ATCCATAAAGCTAGGG-CGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCT-TTATTG--TA-
* * *
4219243 GTATTATAATCACCTTTATCAGGCTAGCTGAATATT
61 -TATTATAATAACCTTTATCAGACTAGATGAATATT
* *
4219279 ATCCATAAAG-TCAGTGCGTTTAACCAATTGCTCTAGATGGACAACTCAAGCTTTATTGTATATT
1 ATCCATAAAGCT-AGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATT
*
4219343 ATAATAACCTTTATCAGACTAGATGAATCTT
65 ATAATAACCTTTATCAGACTAGATGAATATT
* * * *
4219374 ATCCATAAAGCTGGGGTGTTTAACCAATTGCTTTAGAGGGACATCTCAAGCTTTATTGTATATAT
1 ATCCATAAAGCTAGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATAT-T
4219439 ATA
65 ATA
4219442 TAATATTATA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
95 86 0.61
96 5 0.04
97 2 0.01
98 40 0.28
99 7 0.05
100 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (95 bp):
ATCCATAAAGCTAGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATTA
TAATAACCTTTATCAGACTAGATGAATATT
Found at i:4222227 original size:20 final size:20
Alignment explanation
Indices: 4222189--4222227 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4222179 AAACAATGAA
* **
4222189 AAATAAATAAATTTTTAAAG
1 AAATAAATAAAATAATAAAG
4222209 AAATAAATAAAATAATAAA
1 AAATAAATAAAATAATAAA
4222228 ATAATAAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (20 bp):
AAATAAATAAAATAATAAAG
Found at i:4222386 original size:24 final size:24
Alignment explanation
Indices: 4222345--4222401 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
4222335 TTCAAAAAGT
* * *
4222345 TAAAAAAAAAGTTGAAAAGTTGAA
1 TAAAGAAAAAGTTGAAAAATTAAA
4222369 TAAAGAAAAAG-TGAAAAAATTAAA
1 TAAAGAAAAAGTTG-AAAAATTAAA
*
4222393 AAAAGAAAA
1 TAAAGAAAA
4222402 GAAAAGGTGG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 2 0.07
24 26 0.93
ACGTcount: A:0.70, C:0.00, G:0.14, T:0.16
Consensus pattern (24 bp):
TAAAGAAAAAGTTGAAAAATTAAA
Found at i:4222565 original size:2 final size:2
Alignment explanation
Indices: 4222444--4222549 Score: 85
Period size: 2 Copynumber: 53.5 Consensus size: 2
4222434 ATAATTATTA
* * *
4222444 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT -T AA AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * *
4222485 TT AA AA AT A- AT AGT CA- AA AT AT AT AA ACT A- AT AT AT AT AT
1 AT AT AT AT AT AT A-T -AT AT AT AT AT AT A-T AT AT AT AT AT AT
4222525 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
4222550 AATTTAAACA
Statistics
Matches: 86, Mismatches: 11, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
1 4 0.05
2 79 0.92
3 2 0.02
4 1 0.01
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.42
Consensus pattern (2 bp):
AT
Found at i:4239337 original size:13 final size:13
Alignment explanation
Indices: 4239318--4239389 Score: 63
Period size: 13 Copynumber: 5.2 Consensus size: 13
4239308 GTCATAACCC
4239318 GACCCGACCCGTT
1 GACCCGACCCGTT
*
4239331 TACCCGACCCGTTGACCT
1 GACCCGACCCG-T----T
*
4239349 GACCCGACCTGTT
1 GACCCGACCCGTT
* *
4239362 GACCTGAACCGTT
1 GACCCGACCCGTT
4239375 GACCCGACCCGTT
1 GACCCGACCCGTT
4239388 GA
1 GA
4239390 TCGTTGACCG
Statistics
Matches: 46, Mismatches: 8, Indels: 10
0.72 0.12 0.16
Matches are distributed among these distances:
13 34 0.74
14 1 0.02
17 1 0.02
18 10 0.22
ACGTcount: A:0.18, C:0.40, G:0.22, T:0.19
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:4239353 original size:18 final size:18
Alignment explanation
Indices: 4239332--4239368 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
4239322 CGACCCGTTT
4239332 ACCCGACCCGTTGACCTG
1 ACCCGACCCGTTGACCTG
*
4239350 ACCCGACCTGTTGACCTG
1 ACCCGACCCGTTGACCTG
4239368 A
1 A
4239369 ACCGTTGACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.19, C:0.41, G:0.22, T:0.19
Consensus pattern (18 bp):
ACCCGACCCGTTGACCTG
Found at i:4239355 original size:31 final size:31
Alignment explanation
Indices: 4239314--4239385 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
4239304 ACCGGTCATA
* *
4239314 ACCCGACCCGACCCGTTTACCCGACCCGTTG
1 ACCCGACCCGACCCGTTGACCCGAACCGTTG
* * *
4239345 ACCTGACCCGACCTGTTGACCTGAACCGTTG
1 ACCCGACCCGACCCGTTGACCCGAACCGTTG
4239376 ACCCGACCCG
1 ACCCGACCCG
4239386 TTGATCGTTG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.18, C:0.44, G:0.21, T:0.17
Consensus pattern (31 bp):
ACCCGACCCGACCCGTTGACCCGAACCGTTG
Found at i:4240256 original size:17 final size:18
Alignment explanation
Indices: 4240224--4240260 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
4240214 GGATTAATAA
4240224 ATCTGAAAAGATATATTG
1 ATCTGAAAAGATATATTG
*
4240242 ATCTGATAA-ATATATTG
1 ATCTGAAAAGATATATTG
4240259 AT
1 AT
4240261 GTGCATAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.43, C:0.05, G:0.14, T:0.38
Consensus pattern (18 bp):
ATCTGAAAAGATATATTG
Found at i:4242362 original size:43 final size:43
Alignment explanation
Indices: 4242202--4242496 Score: 430
Period size: 43 Copynumber: 6.8 Consensus size: 43
4242192 TTAATTACCG
* *
4242202 TTACAGTTCCCCCATGTCCCTTTGTTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
4242245 TTACAGCTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
1 TTACAG-TTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
* *
4242289 TTACAGTTTCCCCCAGGTCTCTTTGATGTGTGCAAGGGTAAGCC
1 TTACAG-TTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
4242333 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
* *
4242376 TTACAGTTCCCCTAGGTCCCTTTACTGTGTGCAAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
* * * * *
4242419 TTACAGTTTCCACAGGTTCCTTTGTTGTGTGCTAGGGTAAGCC
1 TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
* * *
4242462 TTACAGTTTCCCCAGG-CTCTTTTGCTATGTGCAAG
1 TTACAGTTCCCCCAGGTC-CCTTTGCTGTGTGCAAG
4242497 TATAAGACCT
Statistics
Matches: 228, Mismatches: 22, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
43 146 0.64
44 82 0.36
ACGTcount: A:0.17, C:0.27, G:0.24, T:0.32
Consensus pattern (43 bp):
TTACAGTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
Found at i:4244326 original size:18 final size:18
Alignment explanation
Indices: 4244303--4244344 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
4244293 GTCATAACCT
*
4244303 GACCCGACCCGTTTACCC
1 GACCCGACCCGTTGACCC
*
4244321 GACCCGACCTGTTGACCC
1 GACCCGACCCGTTGACCC
4244339 GACCCG
1 GACCCG
4244345 TTGACCGTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.17, C:0.48, G:0.21, T:0.14
Consensus pattern (18 bp):
GACCCGACCCGTTGACCC
Found at i:4244337 original size:13 final size:13
Alignment explanation
Indices: 4244321--4244350 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
4244311 CCGTTTACCC
*
4244321 GACCCGACCTGTT
1 GACCCGACCCGTT
4244334 GACCCGACCCGTT
1 GACCCGACCCGTT
4244347 GACC
1 GACC
4244351 GTTGACCGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.43, G:0.23, T:0.17
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:4247216 original size:44 final size:44
Alignment explanation
Indices: 4247154--4247468 Score: 480
Period size: 43 Copynumber: 7.3 Consensus size: 44
4247144 TTTATTACCA
* *
4247154 TTACAG-TTACCCCAGGTCCCTTTGCTATGTGCAAGGGTAAGCC
1 TTACAGTTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
4247197 TTACAGTTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
1 TTACAGTTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
*
4247241 TTACAGTTTCCCCCAGGTCTCTTTGCTGTGTGCAAGGGTAAGCC
1 TTACAGTTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
* *
4247285 TTACA-ATTCCCCCAGGTCCCTTTGCTGTGTGTAAGGGTAAGCC
1 TTACAGTTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
*
4247328 TTACAG-TTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAACC
1 TTACAGTTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
* *
4247371 TTACAGTTT-CCCTAGGTTCCTTTGCTGTGTGCAAGGGTAAGCC
1 TTACAGTTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
* * * *
4247414 TTTCAGTTT--CCCAGGTTCCTTTGCTGTGGGAAAGGGTAAGCC
1 TTACAGTTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
4247456 TTACAGTTTCCCC
1 TTACAGTTTCCCC
4247469 AGGCTCTTTT
Statistics
Matches: 251, Mismatches: 16, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
42 38 0.15
43 126 0.50
44 87 0.35
ACGTcount: A:0.17, C:0.27, G:0.24, T:0.31
Consensus pattern (44 bp):
TTACAGTTTCCCCCAGGTCCCTTTGCTGTGTGCAAGGGTAAGCC
Found at i:4248456 original size:15 final size:16
Alignment explanation
Indices: 4248429--4248458 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4248419 TATAATTCCT
4248429 ATAACCTTACACTTAC
1 ATAACCTTACACTTAC
4248445 ATAACC-TACACTTA
1 ATAACCTTACACTTA
4248459 GCATGTATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.40, C:0.30, G:0.00, T:0.30
Consensus pattern (16 bp):
ATAACCTTACACTTAC
Found at i:4249583 original size:17 final size:18
Alignment explanation
Indices: 4249543--4249590 Score: 71
Period size: 17 Copynumber: 2.7 Consensus size: 18
4249533 GTTTCTGAGA
*
4249543 GAATTGGAATCTGTGAAT
1 GAATTGGAATCTGTGAAG
*
4249561 GAATTGGAATCTGT-CAG
1 GAATTGGAATCTGTGAAG
4249578 GAATTGGAATCTG
1 GAATTGGAATCTG
4249591 AATCTGAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
17 14 0.50
18 14 0.50
ACGTcount: A:0.31, C:0.08, G:0.29, T:0.31
Consensus pattern (18 bp):
GAATTGGAATCTGTGAAG
Found at i:4250194 original size:33 final size:34
Alignment explanation
Indices: 4250130--4250198 Score: 88
Period size: 38 Copynumber: 2.0 Consensus size: 34
4250120 CCTAAACCTA
4250130 ACCCAATATCAAACTTAAAAAAACCCAATCCGACCAG
1 ACCCAATATCAAACTT-AAAAAA--CAATCCGACCAG
4250167 ACCCGAATATCAAACTT-AAAAA-AATCCGACCA
1 ACCC-AATATCAAACTTAAAAAACAATCCGACCA
4250199 ACCTGAACCT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
33 10 0.32
36 5 0.16
37 4 0.13
38 12 0.39
ACGTcount: A:0.49, C:0.30, G:0.06, T:0.14
Consensus pattern (34 bp):
ACCCAATATCAAACTTAAAAAACAATCCGACCAG
Found at i:4250233 original size:32 final size:31
Alignment explanation
Indices: 4250197--4250268 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
4250187 AAAATCCGAC
* *
4250197 CAACCTGAACCTAATTTTTTAAAAAAAAAATT
1 CAACCCGAACCCAA-TTTTTAAAAAAAAAATT
* * *
4250229 CAACCCGATCCCCATTTTTAAAAAAAAAATC
1 CAACCCGAACCCAATTTTTAAAAAAAAAATT
*
4250260 CGACCCGAA
1 CAACCCGAA
4250269 TACTAAAAGA
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
31 23 0.70
32 10 0.30
ACGTcount: A:0.46, C:0.25, G:0.06, T:0.24
Consensus pattern (31 bp):
CAACCCGAACCCAATTTTTAAAAAAAAAATT
Found at i:4251491 original size:32 final size:32
Alignment explanation
Indices: 4251450--4251525 Score: 152
Period size: 32 Copynumber: 2.4 Consensus size: 32
4251440 AGTATTGCTG
4251450 AGCTCAACTCGAACTTGAAAACTTTAAAAGTA
1 AGCTCAACTCGAACTTGAAAACTTTAAAAGTA
4251482 AGCTCAACTCGAACTTGAAAACTTTAAAAGTA
1 AGCTCAACTCGAACTTGAAAACTTTAAAAGTA
4251514 AGCTCAACTCGA
1 AGCTCAACTCGA
4251526 CTCAAACTCA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.42, C:0.21, G:0.13, T:0.24
Consensus pattern (32 bp):
AGCTCAACTCGAACTTGAAAACTTTAAAAGTA
Found at i:4256049 original size:22 final size:23
Alignment explanation
Indices: 4256007--4256049 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
4255997 CCATTAAGGA
*
4256007 GGGAATCGGTACCCCTTTGGGGG
1 GGGAATCGGTACCCCTCTGGGGG
*
4256030 GGGAATCGGT-TCCCTCTGGG
1 GGGAATCGGTACCCCTCTGGG
4256050 CAATCTGCCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.12, C:0.23, G:0.42, T:0.23
Consensus pattern (23 bp):
GGGAATCGGTACCCCTCTGGGGG
Found at i:4258579 original size:23 final size:23
Alignment explanation
Indices: 4258548--4258631 Score: 116
Period size: 23 Copynumber: 3.7 Consensus size: 23
4258538 GATTCCCTCC
* *
4258548 AGGGAGAATCGGTTCCCCTTCAA
1 AGGGGGAATCGATTCCCCTTCAA
*
4258571 AGGGGGAATCGATTCCTCTTCAA
1 AGGGGGAATCGATTCCCCTTCAA
*
4258594 AGGGGGAATCGGTTCCCCTTC-A
1 AGGGGGAATCGATTCCCCTTCAA
*
4258616 AGGGGGTATCGATTCC
1 AGGGGGAATCGATTCC
4258632 TCCTGCACTA
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
22 15 0.28
23 39 0.72
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.24
Consensus pattern (23 bp):
AGGGGGAATCGATTCCCCTTCAA
Found at i:4258633 original size:45 final size:44
Alignment explanation
Indices: 4258529--4258633 Score: 151
Period size: 45 Copynumber: 2.4 Consensus size: 44
4258519 AGACCTCGTG
*
4258529 GGGGGTATCGATTCC-CTCCAGGGAGAATCGGTTCCCCTTCAAA
1 GGGGGTATCGATTCCTCTCAAGGGAGAATCGGTTCCCCTTCAAA
* *
4258572 GGGGGAATCGATTCCTCTTCAAAGGGGGAATCGGTTCCCCTTC-AA
1 GGGGGTATCGATTCCTC-TC-AAGGGAGAATCGGTTCCCCTTCAAA
4258617 GGGGGTATCGATTCCTC
1 GGGGGTATCGATTCCTC
4258634 CTGCACTAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
43 14 0.25
44 1 0.02
45 20 0.36
46 20 0.36
ACGTcount: A:0.20, C:0.26, G:0.30, T:0.25
Consensus pattern (44 bp):
GGGGGTATCGATTCCTCTCAAGGGAGAATCGGTTCCCCTTCAAA
Found at i:4263741 original size:15 final size:15
Alignment explanation
Indices: 4263721--4263750 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4263711 GAATTAATCG
4263721 ATCAATAGAATTGGC
1 ATCAATAGAATTGGC
4263736 ATCAATAGAATTGGC
1 ATCAATAGAATTGGC
4263751 CAAGACGGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (15 bp):
ATCAATAGAATTGGC
Found at i:4285463 original size:5 final size:5
Alignment explanation
Indices: 4285453--4285493 Score: 64
Period size: 5 Copynumber: 7.8 Consensus size: 5
4285443 TTTTCATTCT
4285453 TTTTA TTTTA TTTTA TTTTTA TTTTA TTTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA -TTTTA TTTTA -TTTTA TTTTA TTTT
4285494 TCCTTGATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 24 0.71
6 10 0.29
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:4285466 original size:11 final size:11
Alignment explanation
Indices: 4285453--4285494 Score: 77
Period size: 11 Copynumber: 3.9 Consensus size: 11
4285443 TTTTCATTCT
4285453 TTTTA-TTTTA
1 TTTTATTTTTA
4285463 TTTTATTTTTA
1 TTTTATTTTTA
4285474 TTTTATTTTTA
1 TTTTATTTTTA
4285485 TTTTATTTTT
1 TTTTATTTTT
4285495 CCTTGATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
10 5 0.16
11 26 0.84
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:4285473 original size:16 final size:15
Alignment explanation
Indices: 4285452--4285493 Score: 66
Period size: 16 Copynumber: 2.7 Consensus size: 15
4285442 ATTTTCATTC
4285452 TTTTTATTTTATTTT
1 TTTTTATTTTATTTT
4285467 ATTTTTATTTTATTTT
1 -TTTTTATTTTATTTT
4285483 TATTTTATTTT
1 T-TTTTATTTT
4285494 TCCTTGATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 1 0.04
16 24 0.96
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTATTTTATTTT
Found at i:4285503 original size:22 final size:22
Alignment explanation
Indices: 4285458--4285505 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
4285448 ATTCTTTTTA
* *
4285458 TTTTATTTTATTTTTATTTTAT
1 TTTTATTTTATTTTTACTTGAT
*
4285480 TTTTATTTTATTTTTCCTTGAT
1 TTTTATTTTATTTTTACTTGAT
4285502 TTTT
1 TTTT
4285506 CAGAGTACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.79
Consensus pattern (22 bp):
TTTTATTTTATTTTTACTTGAT
Found at i:4286706 original size:15 final size:16
Alignment explanation
Indices: 4286677--4286711 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
4286667 ACAAAACAAA
4286677 AAAATAAAAAGAAAAG
1 AAAATAAAAAGAAAAG
*
4286693 AAAAT-AAAATAAAAG
1 AAAATAAAAAGAAAAG
4286708 AAAA
1 AAAA
4286712 AATTTGTGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.83, C:0.00, G:0.09, T:0.09
Consensus pattern (16 bp):
AAAATAAAAAGAAAAG
Found at i:4288964 original size:21 final size:21
Alignment explanation
Indices: 4288940--4288991 Score: 65
Period size: 20 Copynumber: 2.5 Consensus size: 21
4288930 GATTCAATCG
4288940 GTATCGATACCCAAATAGGG-A-
1 GTATCGATACCC--ATAGGGAAT
4288961 GTATCGATA-CCATAGGGAAT
1 GTATCGATACCCATAGGGAAT
4288981 GTATCGATACC
1 GTATCGATACC
4288992 ATTTCAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
18 6 0.21
19 1 0.04
20 11 0.39
21 10 0.36
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (21 bp):
GTATCGATACCCATAGGGAAT
Found at i:4289040 original size:19 final size:20
Alignment explanation
Indices: 4289016--4289065 Score: 84
Period size: 19 Copynumber: 2.5 Consensus size: 20
4289006 TGAAAAAAAT
*
4289016 GGTATCGGTACCATAGTA-G
1 GGTATCGATACCATAGTAGG
4289035 GGTATCGATACCATAGTAGG
1 GGTATCGATACCATAGTAGG
4289055 GGTATCGATAC
1 GGTATCGATAC
4289066 TGAAGAGCAG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (20 bp):
GGTATCGATACCATAGTAGG
Found at i:4289480 original size:58 final size:58
Alignment explanation
Indices: 4289396--4289774 Score: 472
Period size: 58 Copynumber: 6.5 Consensus size: 58
4289386 TGGCACTAAG
*
4289396 TGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCATATTGGGCACTTTA
1 TGTGCAAAAA-GTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTA
* * * *
4289455 TATGCAAAAAGATAAGACATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTG
1 TGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTA
* * *
4289513 TGTGCAAAAATGTTAAGAAATTCATACTTAGTGTATGAATTTCTGTATTAGGCACTTTA
1 TGTGCAAAAA-GTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTA
* * *
4289572 TGTGTAAAATGTTAAGAAATTCATACTATGTGTATGAATTTCCGTATTGGGCACTTTA
1 TGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTA
* * * * * * *
4289630 TGTGTAAGAAGATAAGAAATTCATGCTAAGTGCATGAATTTCCATATTGGGCACTTTG
1 TGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTA
* * * * * *
4289688 TGTGCAAAAAGTTAAGAGATTCATACTAAGTGTTTGAATTTTCGTA-TGGGAAATATA
1 TGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTA
* * ** *
4289745 TGTGTATAAACATAAGAAATTCATAATAAG
1 TGTGCAAAAAGTTAAGAAATTCATACTAAG
4289775 GAAGATGATA
Statistics
Matches: 274, Mismatches: 45, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
57 31 0.11
58 184 0.67
59 59 0.22
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (58 bp):
TGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTA
Found at i:4289588 original size:117 final size:117
Alignment explanation
Indices: 4289395--4289734 Score: 493
Period size: 117 Copynumber: 2.9 Consensus size: 117
4289385 TTGGCACTAA
*
4289395 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCATATTGGGCACTTTATATGC
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCATATTGGGCACTTTATGTGC
* *
4289460 AAAAAGATAAGACATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
66 AAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* ** * *
4289512 GTGTGCAAAAATGTTAAGAAATTCATACTTAGTGTATGAATTTCTGTATTAGGCACTTTATGTGT
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCATATTGGGCACTTTATGTGC
* *
4289577 AAAATGTTAAGAAATTCATACTATGTGTATGAATTTCCGTATTGGGCACTTT
66 AAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* * * * * * *
4289629 ATGTGTAAGAA-GATAAGAAATTCATGCTAAGTGCATGAATTTCCATATTGGGCACTTTGTGTGC
1 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCATATTGGGCACTTTATGTGC
* * *
4289693 AAAAAGTTAAGAGATTCATACTAAGTGTTTGAATTTTCGTAT
66 AAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
4289735 GGGAAATATA
Statistics
Matches: 196, Mismatches: 27, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
116 81 0.41
117 115 0.59
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (117 bp):
GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCATATTGGGCACTTTATGTGC
AAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
Found at i:4289693 original size:175 final size:174
Alignment explanation
Indices: 4289402--4289728 Score: 537
Period size: 175 Copynumber: 1.9 Consensus size: 174
4289392 TAAGTGTGCA
4289402 AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCATATTGGGCACTTTATATGCAAAAAGA
1 AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCATATTGGGCACTTTATATGCAAAAAGA
* * *
4289467 TAAGACATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCAAAAATGTTAAGAA
66 TAAGAAATTCATACTAAGTGCATGAATTTCCATATTGGGCACTTTGTGTGCAAAAA-GTTAAGAA
*
4289532 ATTCATACTTAGTGTATGAATTTCTGTATTAGGCACTTTATGTGT
130 ATTCATACTAAGTGTATGAATTTCTGTATTAGGCACTTTATGTGT
* * * * *
4289577 AAAATGTTAAGAAATTCATACTATGTGTATGAATTTCCGTATTGGGCACTTTATGTGTAAGAAGA
1 AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCATATTGGGCACTTTATATGCAAAAAGA
* *
4289642 TAAGAAATTCATGCTAAGTGCATGAATTTCCATATTGGGCACTTTGTGTGCAAAAAGTTAAGAGA
66 TAAGAAATTCATACTAAGTGCATGAATTTCCATATTGGGCACTTTGTGTGCAAAAAGTTAAGAAA
*
4289707 TTCATACTAAGTGTTTGAATTT
131 TTCATACTAAGTGTATGAATTT
4289729 TCGTATGGGA
Statistics
Matches: 140, Mismatches: 12, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
174 28 0.20
175 112 0.80
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (174 bp):
AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCATATTGGGCACTTTATATGCAAAAAGA
TAAGAAATTCATACTAAGTGCATGAATTTCCATATTGGGCACTTTGTGTGCAAAAAGTTAAGAAA
TTCATACTAAGTGTATGAATTTCTGTATTAGGCACTTTATGTGT
Found at i:4292007 original size:21 final size:20
Alignment explanation
Indices: 4291974--4292012 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
4291964 CATCAAAGTC
*
4291974 TTTGTTGAAGCCATTAAATAT
1 TTTGTAGAAGCCA-TAAATAT
*
4291995 TTTGTAGAGGCCATAAAT
1 TTTGTAGAAGCCATAAAT
4292013 TCTTACAGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.38
Consensus pattern (20 bp):
TTTGTAGAAGCCATAAATAT
Found at i:4297291 original size:23 final size:25
Alignment explanation
Indices: 4297265--4297313 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
4297255 TTTATTGAAT
4297265 ATTT-AAATAA-TTTTATATTTAAA
1 ATTTAAAATAATTTTTATATTTAAA
*
4297288 ATTTAAAATAATTTTTATTTTTAAA
1 ATTTAAAATAATTTTTATATTTAAA
4297313 A
1 A
4297314 AAATTAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 4 0.17
24 6 0.26
25 13 0.57
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
ATTTAAAATAATTTTTATATTTAAA
Found at i:4299259 original size:27 final size:27
Alignment explanation
Indices: 4299217--4299274 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
4299207 TTAAGTTGTT
* *
4299217 TAATTACATCATTATATATCTTGCCCC
1 TAATTACATCACTATATATCTTACCCC
*
4299244 TAATTGCATCACTATATATCTTACCCC
1 TAATTACATCACTATATATCTTACCCC
4299271 TAAT
1 TAAT
4299275 ATATATATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.31, C:0.26, G:0.03, T:0.40
Consensus pattern (27 bp):
TAATTACATCACTATATATCTTACCCC
Found at i:4302679 original size:24 final size:24
Alignment explanation
Indices: 4302644--4302694 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 24
4302634 TATTGGTCCC
*
4302644 CCGTCCCAGTCACCGTTTAAAAAA
1 CCGTCCCAGTCACCGCTTAAAAAA
4302668 CCGTACCC-GTCACCGCTTAAAAAA
1 CCGT-CCCAGTCACCGCTTAAAAAA
4302692 CCG
1 CCG
4302695 CGGGGATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.31, C:0.37, G:0.14, T:0.18
Consensus pattern (24 bp):
CCGTCCCAGTCACCGCTTAAAAAA
Found at i:4302862 original size:32 final size:32
Alignment explanation
Indices: 4302799--4302892 Score: 84
Period size: 33 Copynumber: 2.8 Consensus size: 32
4302789 TCGGACCGGG
4302799 TATATATATTTAAATTAAATATATAAATATTA
1 TATATATATTTAAATTAAATATATAAATATTA
* *
4302831 TATATATTTTTTAATTTAAAT-T-TAAATTATTAA
1 TATATA-TATTTAAATTAAATATATAAA-TATT-A
* * *
4302864 TATTATATATATATATATATATATATAAA
1 TA-TATATATTTAAAT-TAAATATATAAA
4302893 ATAATTATTT
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
31 4 0.08
32 11 0.23
33 20 0.42
34 8 0.17
35 1 0.02
36 4 0.08
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (32 bp):
TATATATATTTAAATTAAATATATAAATATTA
Found at i:4304392 original size:18 final size:18
Alignment explanation
Indices: 4304356--4304431 Score: 102
Period size: 17 Copynumber: 4.3 Consensus size: 18
4304346 AATCTAGGTT
*
4304356 TGATAACTGTAAA-CATC
1 TGATAACTGAAAATCATC
4304373 TGATAACTGAAAATCATC
1 TGATAACTGAAAATCATC
* *
4304391 TGATAACTGTAAAT-ATT
1 TGATAACTGAAAATCATC
*
4304408 TGATAACTAAAAATCATC
1 TGATAACTGAAAATCATC
4304426 TGATAA
1 TGATAA
4304432 ATGTAAATAT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
17 26 0.51
18 25 0.49
ACGTcount: A:0.45, C:0.13, G:0.11, T:0.32
Consensus pattern (18 bp):
TGATAACTGAAAATCATC
Found at i:4304439 original size:18 final size:18
Alignment explanation
Indices: 4304356--4304439 Score: 109
Period size: 18 Copynumber: 4.8 Consensus size: 18
4304346 AATCTAGGTT
4304356 TGATAACTGTAAA-CATC
1 TGATAACTGTAAATCATC
*
4304373 TGATAACTGAAAATCATC
1 TGATAACTGTAAATCATC
*
4304391 TGATAACTGTAAAT-ATT
1 TGATAACTGTAAATCATC
**
4304408 TGATAACTAAAAATCATC
1 TGATAACTGTAAATCATC
*
4304426 TGATAAATGTAAAT
1 TGATAACTGTAAAT
4304440 ATTTAGAATT
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
17 26 0.46
18 30 0.54
ACGTcount: A:0.45, C:0.12, G:0.11, T:0.32
Consensus pattern (18 bp):
TGATAACTGTAAATCATC
Found at i:4304439 original size:35 final size:35
Alignment explanation
Indices: 4304356--4304443 Score: 140
Period size: 35 Copynumber: 2.5 Consensus size: 35
4304346 AATCTAGGTT
* * *
4304356 TGATAACTGTAAACATCTGATAACTGAAAATCATC
1 TGATAACTGTAAATATTTGATAACTAAAAATCATC
4304391 TGATAACTGTAAATATTTGATAACTAAAAATCATC
1 TGATAACTGTAAATATTTGATAACTAAAAATCATC
*
4304426 TGATAAATGTAAATATTT
1 TGATAACTGTAAATATTT
4304444 AGAATTCATC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 49 1.00
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.34
Consensus pattern (35 bp):
TGATAACTGTAAATATTTGATAACTAAAAATCATC
Found at i:4314965 original size:4 final size:4
Alignment explanation
Indices: 4314956--4315050 Score: 109
Period size: 4 Copynumber: 23.8 Consensus size: 4
4314946 GACCTGTTTC
* * * *
4314956 GTAT GTAT GTAT GTAT GTAT GTAT GCAT GTAT GCAT GCAT GTAT GCAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * * * *
4315004 GTAT GCAT GTAT GCAT GTAT GCAT GTAT GCAT GTAT GAAT GTAT GTA
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA
4315051 ACCCTCTCAG
Statistics
Matches: 75, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
4 75 1.00
ACGTcount: A:0.26, C:0.08, G:0.25, T:0.40
Consensus pattern (4 bp):
GTAT
Found at i:4314969 original size:8 final size:8
Alignment explanation
Indices: 4314958--4315048 Score: 127
Period size: 8 Copynumber: 11.9 Consensus size: 8
4314948 CCTGTTTCGT
*
4314958 ATGTATGT
1 ATGTATGC
*
4314966 ATGTATGT
1 ATGTATGC
4314974 ATGTATGC
1 ATGTATGC
4314982 ATGTATGC
1 ATGTATGC
4314990 ----ATGC
1 ATGTATGC
4314994 ATGTATGC
1 ATGTATGC
4315002 ATGTATGC
1 ATGTATGC
4315010 ATGTATGC
1 ATGTATGC
4315018 ATGTATGC
1 ATGTATGC
4315026 ATGTATGC
1 ATGTATGC
*
4315034 ATGTATGA
1 ATGTATGC
4315042 ATGTATG
1 ATGTATG
4315049 TAACCCTCTC
Statistics
Matches: 77, Mismatches: 2, Indels: 8
0.89 0.02 0.09
Matches are distributed among these distances:
4 4 0.05
8 73 0.95
ACGTcount: A:0.26, C:0.09, G:0.25, T:0.40
Consensus pattern (8 bp):
ATGTATGC
Found at i:4315842 original size:12 final size:13
Alignment explanation
Indices: 4315809--4315878 Score: 53
Period size: 12 Copynumber: 5.8 Consensus size: 13
4315799 ATGGAGATAT
*
4315809 CAGAA-ATCAAAA
1 CAGAATATCAGAA
*
4315821 CATAAT-TCAGAA
1 CAGAATATCAGAA
4315833 CA-AATATCAGAA
1 CAGAATATCAGAA
* * *
4315845 CATAATCT-AGAT
1 CAGAATATCAGAA
4315857 CAGAA-ATCAGAA
1 CAGAATATCAGAA
4315869 CAGAAT-TCAG
1 CAGAATATCAG
4315879 GTCATATATC
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
11 4 0.09
12 38 0.83
13 4 0.09
ACGTcount: A:0.53, C:0.17, G:0.11, T:0.19
Consensus pattern (13 bp):
CAGAATATCAGAA
Found at i:4315846 original size:24 final size:24
Alignment explanation
Indices: 4315814--4315893 Score: 83
Period size: 24 Copynumber: 3.3 Consensus size: 24
4315804 GATATCAGAA
* *
4315814 ATCAAAACATAATTCAGAACAAAT
1 ATCAGAACATAATTCAGATCAAAT
4315838 ATCAGAACATAA-TCTAGATCAGAA-
1 ATCAGAACATAATTC-AGATCA-AAT
* * *
4315862 ATCAGAACAGAATTCAGGTCATAT
1 ATCAGAACATAATTCAGATCAAAT
4315886 ATCAGAAC
1 ATCAGAAC
4315894 CGAATTCAAG
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
23 3 0.06
24 40 0.85
25 4 0.09
ACGTcount: A:0.50, C:0.17, G:0.11, T:0.21
Consensus pattern (24 bp):
ATCAGAACATAATTCAGATCAAAT
Found at i:4315913 original size:24 final size:24
Alignment explanation
Indices: 4315808--4315915 Score: 78
Period size: 24 Copynumber: 4.5 Consensus size: 24
4315798 AATGGAGATA
* *
4315808 TCAGAAATCAAAACATAATTC-AG
1 TCAGAAATCAGAACAGAATTCAAG
* * *
4315831 AACA-AATATCAGAACATAA-TCTAG
1 -TCAGAA-ATCAGAACAGAATTCAAG
*
4315855 ATCAGAAATCAGAACAGAATTCAGG
1 -TCAGAAATCAGAACAGAATTCAAG
* * *
4315880 TCATATATCAGAACCGAATTCAAG
1 TCAGAAATCAGAACAGAATTCAAG
*
4315904 TCGGAAATCAGA
1 TCAGAAATCAGA
4315916 TAAAATATTT
Statistics
Matches: 67, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
23 4 0.06
24 58 0.87
25 5 0.07
ACGTcount: A:0.48, C:0.18, G:0.14, T:0.20
Consensus pattern (24 bp):
TCAGAAATCAGAACAGAATTCAAG
Found at i:4320523 original size:24 final size:24
Alignment explanation
Indices: 4320491--4320575 Score: 82
Period size: 24 Copynumber: 3.6 Consensus size: 24
4320481 GATATCAGAA
* *
4320491 ATCAAAACAAAATTCAGAACATAT
1 ATCAGAACAGAATTCAGAACATAT
* * * *
4320515 ATCAGAACAGAATCCAGATCAGAA
1 ATCAGAACAGAATTCAGAACATAT
* *
4320539 ATCATAACAGAATTCATAA-ATAT
1 ATCAGAACAGAATTCAGAACATAT
*
4320562 ATCAGAACCGAATT
1 ATCAGAACAGAATT
4320576 TAAGTCAGAA
Statistics
Matches: 47, Mismatches: 14, Indels: 1
0.76 0.23 0.02
Matches are distributed among these distances:
23 14 0.30
24 33 0.70
ACGTcount: A:0.52, C:0.18, G:0.09, T:0.21
Consensus pattern (24 bp):
ATCAGAACAGAATTCAGAACATAT
Found at i:4320540 original size:48 final size:47
Alignment explanation
Indices: 4320484--4320574 Score: 137
Period size: 48 Copynumber: 1.9 Consensus size: 47
4320474 AAACAGAGAT
4320484 ATCAGAAATCAAAACAAAATTCAGAACATATATCAGAACAGAATCCAG
1 ATCAGAAATCAAAACAAAATTCAGAA-ATATATCAGAACAGAATCCAG
* * * *
4320532 ATCAGAAATCATAACAGAATTCATAAATATATCAGAACCGAAT
1 ATCAGAAATCAAAACAAAATTCAGAAATATATCAGAACAGAAT
4320575 TTAAGTCAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 16 0.41
48 23 0.59
ACGTcount: A:0.53, C:0.18, G:0.10, T:0.20
Consensus pattern (47 bp):
ATCAGAAATCAAAACAAAATTCAGAAATATATCAGAACAGAATCCAG
Found at i:4320584 original size:47 final size:48
Alignment explanation
Indices: 4320484--4320589 Score: 135
Period size: 48 Copynumber: 2.2 Consensus size: 48
4320474 AAACAGAGAT
*
4320484 ATCAGAAATCAAAACAAAATTCAGAACATATATCAGAACAGAATCCAG
1 ATCAGAAATCAAAACAAAATTCAGAACATATATCAGAACAGAATCAAG
* * * * *
4320532 ATCAGAAATCATAACAGAATTCATAA-ATATATCAGAACCGAATTTAAG
1 ATCAGAAATCAAAACAAAATTCAGAACATATATCAGAACAGAA-TCAAG
4320580 -TCAGAAATCA
1 ATCAGAAATCA
4320590 GATAAAATAT
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
47 25 0.49
48 26 0.51
ACGTcount: A:0.52, C:0.17, G:0.10, T:0.21
Consensus pattern (48 bp):
ATCAGAAATCAAAACAAAATTCAGAACATATATCAGAACAGAATCAAG
Found at i:4323527 original size:4 final size:4
Alignment explanation
Indices: 4323518--4323575 Score: 116
Period size: 4 Copynumber: 14.5 Consensus size: 4
4323508 GGGTGTTCCA
4323518 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
4323566 ATGT ATGT AT
1 ATGT ATGT AT
4323576 ACTATGACCA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 54 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:4324880 original size:24 final size:23
Alignment explanation
Indices: 4324843--4324892 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 23
4324833 ATGTGTTTGC
4324843 ATTTAGATAATTTTAAAAATTATT
1 ATTTAGATAATTTTAAAAA-TATT
4324867 ATTTAGA-AATTTTTAAAAATATT
1 ATTTAGATAA-TTTTAAAAATATT
4324890 ATT
1 ATT
4324893 ATATTTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 9 0.36
24 16 0.64
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (23 bp):
ATTTAGATAATTTTAAAAATATT
Found at i:4324884 original size:23 final size:24
Alignment explanation
Indices: 4324843--4324892 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
4324833 ATGTGTTTGC
*
4324843 ATTTAGATAATTTTAAAAATTATT
1 ATTTAGATAATTTTAAAAAATATT
*
4324867 ATTTAGA-AATTTTTAAAAATATT
1 ATTTAGATAATTTTAAAAAATATT
4324890 ATT
1 ATT
4324893 ATATTTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (24 bp):
ATTTAGATAATTTTAAAAAATATT
Found at i:4325131 original size:21 final size:21
Alignment explanation
Indices: 4325107--4325148 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
4325097 AGGGTTCAAA
4325107 TTTGTCATTTTCTTCGTCGGG
1 TTTGTCATTTTCTTCGTCGGG
*
4325128 TTTGTCGTTTTCTTCGTCGGG
1 TTTGTCATTTTCTTCGTCGGG
4325149 ATTATCGGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.02, C:0.19, G:0.26, T:0.52
Consensus pattern (21 bp):
TTTGTCATTTTCTTCGTCGGG
Found at i:4326739 original size:17 final size:19
Alignment explanation
Indices: 4326702--4326774 Score: 66
Period size: 19 Copynumber: 4.0 Consensus size: 19
4326692 TATTCCATAC
4326702 CCATATTATACTATATAGT
1 CCATATTATACTATATAGT
*
4326721 CCATATTATA-TGT-TAGT
1 CCATATTATACTATATAGT
* *
4326738 CCATA-TATTAGT-TAATATT
1 CCATATTA-TACTAT-ATAGT
4326757 CCATATTATAC-ATATAGT
1 CCATATTATACTATATAGT
4326775 AAACCCAGAT
Statistics
Matches: 44, Mismatches: 4, Indels: 13
0.72 0.07 0.21
Matches are distributed among these distances:
16 2 0.05
17 12 0.27
18 7 0.16
19 21 0.48
20 2 0.05
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.44
Consensus pattern (19 bp):
CCATATTATACTATATAGT
Found at i:4328096 original size:2 final size:2
Alignment explanation
Indices: 4328089--4328137 Score: 54
Period size: 2 Copynumber: 27.0 Consensus size: 2
4328079 CCGTCCTGAT
*
4328089 TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T- TT TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4328128 -A T- TA TA TA TA
1 TA TA TA TA TA TA
4328138 ATTCAAACAA
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
1 5 0.12
2 36 0.88
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:4331513 original size:45 final size:45
Alignment explanation
Indices: 4331453--4331630 Score: 302
Period size: 45 Copynumber: 4.0 Consensus size: 45
4331443 AATTTCTTAA
*
4331453 CAATATATTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTAC
1 CAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTAC
* *
4331498 CAATATACTTGCCATTTATCCTATAAGCTCGTAAGCTTATTTTAC
1 CAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTAC
* *
4331543 CAATATACTTACCATTTATTCCATAAGCTTGTAAGCTTATTTTAC
1 CAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTAC
*
4331588 CAATATACTTACCATTTATCCCATAAGCTCATAAGCTTATTTT
1 CAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTT
4331631 TCGCATAGAT
Statistics
Matches: 123, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 123 1.00
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.40
Consensus pattern (45 bp):
CAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTAC
Found at i:4332178 original size:30 final size:30
Alignment explanation
Indices: 4332144--4332216 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 30
4332134 AAAATTACAT
* * *
4332144 TTTGGTCCCTAAACTTT-TCAAACTTTATAC
1 TTTGGTCACTAAACTTTACCAAA-TTTATAA
4332174 TTTGGTCACTAAACTTTACCAAATTTATAA
1 TTTGGTCACTAAACTTTACCAAATTTATAA
*
4332204 TTTGATCACTAAA
1 TTTGGTCACTAAA
4332217 TAAATCCATT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
30 34 0.89
31 4 0.11
ACGTcount: A:0.33, C:0.19, G:0.07, T:0.41
Consensus pattern (30 bp):
TTTGGTCACTAAACTTTACCAAATTTATAA
Found at i:4336849 original size:45 final size:45
Alignment explanation
Indices: 4336792--4337057 Score: 471
Period size: 45 Copynumber: 5.9 Consensus size: 45
4336782 AATTTCTTAA
*
4336792 CAATATATTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTAC
1 CAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTAC
4336837 CAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTAC
1 CAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTAC
*
4336882 CAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTAC
1 CAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTAC
*
4336927 CAATATACTTACAATTTATCCCATAAGCTCGTAAGCTTATTTTAC
1 CAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTAC
4336972 CAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTAC
1 CAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTAC
* * *
4337017 CAATATACTTGCCA-TTATTCCATAAACTCGTAAGCTTATTT
1 CAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATTT
4337058 GCGTGTTTAC
Statistics
Matches: 213, Mismatches: 8, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
44 25 0.12
45 188 0.88
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.39
Consensus pattern (45 bp):
CAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTAC
Found at i:4345109 original size:90 final size:90
Alignment explanation
Indices: 4344984--4345161 Score: 275
Period size: 90 Copynumber: 2.0 Consensus size: 90
4344974 TAATCCCGAA
* * * * *
4344984 TATTTAATTTCAATTAATTAATTATAGATTTAATTAATTTGAAATAATAAAATCTCTAATATGAT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAT
*
4345049 TAGGGTAACTTGGATATAAAAGGAT
66 TAAGGTAACTTGGATATAAAAGGAT
*
4345074 TATTAAATTCCAATTAATTAAATATATATTTAATTAATTTGAAATAATAAAAACCCTAATATGAT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAT
* *
4345139 TAAGGTGACTTGGCTATAAAAGG
66 TAAGGTAACTTGGATATAAAAGG
4345162 GTGTGTTAGG
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
90 79 1.00
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (90 bp):
TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAT
TAAGGTAACTTGGATATAAAAGGAT
Found at i:4347458 original size:30 final size:30
Alignment explanation
Indices: 4347390--4347468 Score: 97
Period size: 30 Copynumber: 2.6 Consensus size: 30
4347380 TTTTCTAAAA
* * *
4347390 TTACATTTTGGTCCCTAAACTTTTCAAAGT
1 TTACAATTTGGTCACTAAACTTTCCAAAGT
4347420 TTACAATTTGGTCACTAAACTTTACCAAA-T
1 TTACAATTTGGTCACTAAACTTT-CCAAAGT
* *
4347450 TTATAATTTGATCACTAAA
1 TTACAATTTGGTCACTAAA
4347469 GAAATCCATT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
30 39 0.91
31 4 0.09
ACGTcount: A:0.34, C:0.18, G:0.08, T:0.41
Consensus pattern (30 bp):
TTACAATTTGGTCACTAAACTTTCCAAAGT
Found at i:4347916 original size:55 final size:54
Alignment explanation
Indices: 4347841--4348092 Score: 292
Period size: 55 Copynumber: 4.6 Consensus size: 54
4347831 GGAGCATCCA
* * * * *
4347841 TATGCTTCAATCTAGGAACTGGA-ACCTCTGTGCTTAAGAAATAATTGAATACATC
1 TATGCATCAATCTAGAAACT-GACACCTCTATGCTTAAGAAATGATTGAA-ACCTC
* * * *
4347896 CATGCATCAATATAGAAACTGACACCTCTATGCTTAAGAAATGATTGAGCACCTT
1 TATGCATCAATCTAGAAACTGACACCTCTATGCTTAAGAAATGATTGA-AACCTC
* * *
4347951 TGTGCATCAATCTAGAAACTGACACATCTGTGCTTAAGAAATGATTGAGAACCTC
1 TATGCATCAATCTAGAAACTGACACCTCTATGCTTAAGAAATGATTGA-AACCTC
** *
4348006 TACACATCAATCTAGAAACTGACACCTCTATGCTTAAGAAATGATT-AATTACCTT
1 TATGCATCAATCTAGAAACTGACACCTCTATGCTTAAGAAATGATTGAA--ACCTC
*
4348061 TGTGCATCAATCTAGAAACTGACACCTCTATG
1 TATGCATCAATCTAGAAACTGACACCTCTATG
4348093 ATTTTCACTA
Statistics
Matches: 168, Mismatches: 25, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
53 1 0.01
54 3 0.02
55 164 0.98
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (54 bp):
TATGCATCAATCTAGAAACTGACACCTCTATGCTTAAGAAATGATTGAAACCTC
Found at i:4348022 original size:110 final size:110
Alignment explanation
Indices: 4347847--4348085 Score: 347
Period size: 110 Copynumber: 2.2 Consensus size: 110
4347837 TCCATATGCT
* * **
4347847 TCAATCTAGGAACTGGA-ACCTCTGTGCTTAAGAAATAATTGAATACATCCATGCATCAATATAG
1 TCAATCTAGAAACT-GACACATCTGTGCTTAAGAAATAATTGAATACATCCACACATCAATATAG
*
4347911 AAACTGACACCTCTATGCTTAAGAAATGATTGAGCACCTTTGTGCA
65 AAACTGACACCTCTATGCTTAAGAAATGATTAAGCACCTTTGTGCA
* * * *
4347957 TCAATCTAGAAACTGACACATCTGTGCTTAAGAAATGATTGAGA-ACCTCTACACATCAATCTAG
1 TCAATCTAGAAACTGACACATCTGTGCTTAAGAAATAATTGA-ATACATCCACACATCAATATAG
**
4348021 AAACTGACACCTCTATGCTTAAGAAATGATTAATTACCTTTGTGCA
65 AAACTGACACCTCTATGCTTAAGAAATGATTAAGCACCTTTGTGCA
4348067 TCAATCTAGAAACTGACAC
1 TCAATCTAGAAACTGACAC
4348086 CTCTATGATT
Statistics
Matches: 116, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
109 2 0.02
110 113 0.97
111 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (110 bp):
TCAATCTAGAAACTGACACATCTGTGCTTAAGAAATAATTGAATACATCCACACATCAATATAGA
AACTGACACCTCTATGCTTAAGAAATGATTAAGCACCTTTGTGCA
Found at i:4349034 original size:19 final size:20
Alignment explanation
Indices: 4349007--4349048 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
4348997 TGTTGGGAAC
*
4349007 AAAATAATAAAAATAT-AAT
1 AAAAAAATAAAAATATGAAT
*
4349026 AAAAAAATAAAGATATGAAT
1 AAAAAAATAAAAATATGAAT
4349046 AAA
1 AAA
4349049 GATATGAAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (20 bp):
AAAAAAATAAAAATATGAAT
Found at i:4349046 original size:12 final size:12
Alignment explanation
Indices: 4349031--4349056 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4349021 ATAATAAAAA
4349031 AATAAAGATATG
1 AATAAAGATATG
4349043 AATAAAGATATG
1 AATAAAGATATG
4349055 AA
1 AA
4349057 GGGATGAAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.23
Consensus pattern (12 bp):
AATAAAGATATG
Found at i:4352989 original size:3 final size:3
Alignment explanation
Indices: 4352981--4353081 Score: 157
Period size: 3 Copynumber: 33.7 Consensus size: 3
4352971 TTTTTATCCA
* *
4352981 TAT TAT TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
4353029 TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT CAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4353077 TAT TA
1 TAT TA
4353082 AATATATATT
Statistics
Matches: 90, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 90 1.00
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:4353962 original size:9 final size:9
Alignment explanation
Indices: 4353948--4353972 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
4353938 AGGGAAGCTA
4353948 GAGAGAGGC
1 GAGAGAGGC
4353957 GAGAGAGGC
1 GAGAGAGGC
4353966 GAGAGAG
1 GAGAGAG
4353973 TTTTAAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.08, G:0.56, T:0.00
Consensus pattern (9 bp):
GAGAGAGGC
Found at i:4354555 original size:20 final size:20
Alignment explanation
Indices: 4354532--4354572 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
4354522 TTTATTTTTA
4354532 TTTTATTATATT-ATTAAATAT
1 TTTTA-TATATTCA-TAAATAT
4354553 TTTTATATATTCATAAATAT
1 TTTTATATATTCATAAATAT
4354573 ATATAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTATATATTCATAAATAT
Found at i:4365944 original size:16 final size:16
Alignment explanation
Indices: 4365918--4366011 Score: 90
Period size: 16 Copynumber: 5.9 Consensus size: 16
4365908 ATTATGCTTG
4365918 AAGAAAAAAG-AA-AA
1 AAGAAAAAAGAAAGAA
4365932 AAGAAAGAAAAGAAAGAAA
1 AAG-AA-AAAAGAAAG-AA
4365951 ATAGAAAAAAGAAAGAA
1 A-AGAAAAAAGAAAGAA
*
4365968 AAGAAAAAA-ATAGAA
1 AAGAAAAAAGAAAGAA
*
4365983 AATGAAAAAA-AAAGAG
1 AA-GAAAAAAGAAAGAA
4365999 AAG-AAAAAGAAAG
1 AAGAAAAAAGAAAG
4366012 GGGATCAAGG
Statistics
Matches: 69, Mismatches: 3, Indels: 15
0.79 0.03 0.17
Matches are distributed among these distances:
14 8 0.12
15 14 0.20
16 26 0.38
17 5 0.07
18 9 0.13
19 5 0.07
20 2 0.03
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (16 bp):
AAGAAAAAAGAAAGAA
Found at i:4365949 original size:27 final size:27
Alignment explanation
Indices: 4365918--4366010 Score: 113
Period size: 27 Copynumber: 3.5 Consensus size: 27
4365908 ATTATGCTTG
4365918 AAGAAAAAAGAAAAAAGAAAGAAAAGA
1 AAGAAAAAAGAAAAAAGAAAGAAAAGA
*
4365945 AAGAAAATAGAAAAAAGAAAGAAAAGA
1 AAGAAAAAAGAAAAAAGAAAGAAAAGA
*
4365972 AA-AAAATAGAAAATGAA-AAA-AAAAGA
1 AAGAAAAAAGAAAA--AAGAAAGAAAAGA
4365998 GAAG-AAAAAGAAA
1 -AAGAAAAAAGAAA
4366011 GGGGATCAAG
Statistics
Matches: 60, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
26 17 0.28
27 41 0.68
28 2 0.03
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (27 bp):
AAGAAAAAAGAAAAAAGAAAGAAAAGA
Found at i:4365966 original size:31 final size:29
Alignment explanation
Indices: 4365928--4366011 Score: 105
Period size: 32 Copynumber: 2.7 Consensus size: 29
4365918 AAGAAAAAAG
4365928 AAAAAAGAAAGAAAAGAAAGAAAATAGAAA
1 AAAAAAGAAAGAAAAGAAAGAAAAT-GAAA
*
4365958 AAAGAAAGAAAAGAAAAAAATAGAAAATGAAA
1 AAA-AAAG-AAAGAAAAGAA-AGAAAATGAAA
4365990 AAAAAAGAGAAGAAAAAGAAAG
1 AAAAAAGA-AAG-AAAAGAAAG
4366012 GGGATCAAGG
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
30 4 0.09
31 13 0.28
32 23 0.49
33 7 0.15
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.04
Consensus pattern (29 bp):
AAAAAAGAAAGAAAAGAAAGAAAATGAAA
Found at i:4365984 original size:9 final size:8
Alignment explanation
Indices: 4365921--4366006 Score: 68
Period size: 9 Copynumber: 10.5 Consensus size: 8
4365911 ATGCTTGAAG
4365921 AAAAAAG-
1 AAAAAAGA
4365928 AAAAAAGA
1 AAAAAAGA
4365936 AAGAAAAGA
1 AA-AAAAGA
*
4365945 AAGAAAATA
1 AA-AAAAGA
4365954 GAAAAAAGA
1 -AAAAAAGA
4365963 AAGAAAAGA
1 AA-AAAAGA
*
4365972 AAAAAATA
1 AAAAAAGA
* *
4365980 GAAAATGA
1 AAAAAAGA
4365988 AAAAAA-A
1 AAAAAAGA
* *
4365995 AGAGAAGA
1 AAAAAAGA
4366003 AAAA
1 AAAA
4366007 GAAAGGGGAT
Statistics
Matches: 62, Mismatches: 12, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
7 12 0.19
8 21 0.34
9 27 0.44
10 2 0.03
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.03
Consensus pattern (8 bp):
AAAAAAGA
Found at i:4367192 original size:83 final size:82
Alignment explanation
Indices: 4367053--4367605 Score: 815
Period size: 84 Copynumber: 6.6 Consensus size: 82
4367043 GGAACAAATG
4367053 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACA-AACCAAT
4367118 CATTGAATTTGAAAGAAT
65 CATTGAATTTGAAAGAAT
4367136 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACA-AACCAAT
4367201 CATTGAATTTGAAAGAAT
65 CATTGAATTTGAAAGAAT
* * * *
4367219 AATGTGCTTAATAGCATCTTTTGGAAATGTTCTTTGAGTTATCTGATCTGGTTGGACAAGACTAA
1 AATGTGC-TCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAA-ACCAA
* *
4367284 TCATTGAATTTGGAAGAGT
64 TCATTGAATTTGAAAGAAT
* * *
4367303 AATGTGCTCAATAGCATCTTTTGGAAATGTTCTTTGAGTTATCTGATCTGGTTGGACAAGACTAA
1 AATGTGCTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAA-ACCAA
4367368 TCATTGAATTTGAAAGAAT
64 TCATTGAATTTGAAAGAAT
4367387 AATGTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAA
1 AATGTGCTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACA-AACCAA
4367452 TCATTGAATTT-AGAAG-AT
64 TCATTGAATTTGA-AAGAAT
*
4367470 GAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATCTGGTTTGGTA-AAACCA
1 -AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGG-ACAAACCA
* * * * **
4367534 GTAATTAAATTTGGAAGAGG
63 ATCATTGAATTTGAAAGAAT
* *
4367554 AATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGGTT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
4367606 TGGTAAAAAT
Statistics
Matches: 438, Mismatches: 22, Indels: 21
0.91 0.05 0.04
Matches are distributed among these distances:
82 2 0.00
83 199 0.45
84 235 0.54
85 2 0.00
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (82 bp):
AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAAACCAATC
ATTGAATTTGAAAGAAT
Found at i:4368542 original size:113 final size:113
Alignment explanation
Indices: 4368345--4368894 Score: 944
Period size: 113 Copynumber: 4.9 Consensus size: 113
4368335 TAAATCCATT
*
4368345 ACTTGATGGATTATCTTTTCCAGAGAA-GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
1 ACTTGATGGATTATCTTTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
4368409 GAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATC
66 GAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATC
4368457 ACTTGATGGATTATCTTTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
1 ACTTGATGGATTATCTTTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
4368522 GAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATC
66 GAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATC
* *
4368570 ACTTGATGGATTATTTTTGCCAGAGAAGGTTCATAATGAGAAAAACTCATCTGAAGAAGGAAGAA
1 ACTTGATGGATTATCTTTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
4368635 GAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATC
66 GAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATC
*
4368683 ACTTGATGGATTATATTTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
1 ACTTGATGGATTATCTTTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
** *
4368748 GAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTG-TCAAATCCATC
66 GAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATC
* * * * * *
4368795 ACTTAATGGATCAACTTTTCCAGAGAA-GTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAC
1 ACTTGATGGATTATCTTTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
* *
4368859 GAAGTTCATAATAAGAAGAACTTGTTCAACTTTTTG
66 GAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTG
4368895 CATAATTCTA
Statistics
Matches: 420, Mismatches: 17, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
111 69 0.16
112 56 0.13
113 295 0.70
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (113 bp):
ACTTGATGGATTATCTTTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
GAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATC
Found at i:4369220 original size:3 final size:3
Alignment explanation
Indices: 4369212--4369315 Score: 181
Period size: 3 Copynumber: 34.7 Consensus size: 3
4369202 TTTTTATCCA
*
4369212 TAT TAT TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
4369260 TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4369308 TAT TAT TA
1 TAT TAT TA
4369316 AATATATATT
Statistics
Matches: 95, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 95 1.00
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Done.