Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 68 of 235
Found at i:23371369 original size:23 final size:22
Alignment explanation
Indices: 23371324--23371369 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
23371314 GTATGAAACT
*
23371324 TGAAGATAAATCTGAATTTTTC
1 TGAAGATAAATCTGAATTCTTC
23371346 TGAAGATAAATCTGAAATTCTTC
1 TGAAGATAAATCTG-AATTCTTC
23371369 T
1 T
23371370 TATTCTTAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (22 bp):
TGAAGATAAATCTGAATTCTTC
Found at i:23381596 original size:21 final size:21
Alignment explanation
Indices: 23381562--23381602 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
23381552 TGCTGTTTTT
* *
23381562 TTTTTTATTGTTTTCTTGCTG
1 TTTTTTACTATTTTCTTGCTG
*
23381583 TTTTTTACTATTTTGTTGCT
1 TTTTTTACTATTTTCTTGCT
23381603 ATATATTTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.07, C:0.10, G:0.12, T:0.71
Consensus pattern (21 bp):
TTTTTTACTATTTTCTTGCTG
Found at i:23386933 original size:1 final size:1
Alignment explanation
Indices: 23386927--23386955 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
23386917 TCTTCGATCC
23386927 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
23386956 GAAAGAAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:23393582 original size:15 final size:15
Alignment explanation
Indices: 23393562--23393591 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23393552 TTTAAATTGG
23393562 TATAATAAAAAATTT
1 TATAATAAAAAATTT
*
23393577 TATAATAACAAATTT
1 TATAATAAAAAATTT
23393592 AGCCTTTGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (15 bp):
TATAATAAAAAATTT
Found at i:23395157 original size:18 final size:18
Alignment explanation
Indices: 23395117--23395180 Score: 64
Period size: 18 Copynumber: 3.7 Consensus size: 18
23395107 TTACTTTCTA
*
23395117 ATATGATTTTAAAATTTT
1 ATATTATTTTAAAATTTT
*
23395135 ATATTATTTTCAAA--TT
1 ATATTATTTTAAAATTTT
*
23395151 AT-TTATTTATAAAATATT
1 ATATTATTT-TAAAATTTT
23395169 AT-TTATTTTAAA
1 ATATTATTTTAAA
23395181 TATGATGTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
15 6 0.15
16 8 0.20
17 4 0.10
18 22 0.55
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (18 bp):
ATATTATTTTAAAATTTT
Found at i:23395158 original size:15 final size:14
Alignment explanation
Indices: 23395133--23395221 Score: 52
Period size: 18 Copynumber: 5.6 Consensus size: 14
23395123 TTTTAAAATT
23395133 TTATATTATTTTCAAA
1 TTAT-TTATTTT-AAA
23395149 TTATTTATTTATAAAATA
1 TTATTTATTT-T--AA-A
23395167 TTATTTATTTTAAA
1 TTATTTATTTTAAA
**
23395181 TATGATGTTCATTTTATT
1 T-T-AT-TT-ATTTTAAA
*
23395199 TTATTTATTTTTAA
1 TTATTTATTTTAAA
*
23395213 GTATTTATT
1 TTATTTATT
23395222 CATCTACTAT
Statistics
Matches: 59, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
14 15 0.25
15 11 0.19
16 9 0.15
17 6 0.10
18 18 0.31
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (14 bp):
TTATTTATTTTAAA
Found at i:23399514 original size:40 final size:40
Alignment explanation
Indices: 23399324--23399568 Score: 221
Period size: 40 Copynumber: 6.2 Consensus size: 40
23399314 GCATTACCTT
* * *
23399324 CTGAAATGTATGCGCTATTAAGCCATACCTACTGAATCTA
1 CTGAAATGTATGCACTATCAAGCCATACCTACTGAATTTA
** ** ** * *
23399364 CTGATTTGTATGGGCTATTGAGTCATACCTACTAAATTTA
1 CTGAAATGTATGCACTATCAAGCCATACCTACTGAATTTA
* *
23399404 CTGAAATGTATGTGA-TATCAAGCCGTACCTACTG-ATTCTA
1 CTGAAATGTATG-CACTATCAAGCCATACCTACTGAATT-TA
* * *
23399444 CT-AAGA-GTACGCTCTATCAAGCCATACCTATTGAATTTA
1 CTGAA-ATGTATGCACTATCAAGCCATACCTACTGAATTTA
* *
23399483 CTGAAATGTATGCACTATCGAGCCATACCTATTGAATTTA
1 CTGAAATGTATGCACTATCAAGCCATACCTACTGAATTTA
* * * *
23399523 CTAAAAAGTATGCTCTATCGAGCCATACCTACTG-ATTCTA
1 CTGAAATGTATGCACTATCAAGCCATACCTACTGAATT-TA
23399563 CTGAAA
1 CTGAAA
23399569 GTTTCTCAAA
Statistics
Matches: 169, Mismatches: 28, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
39 34 0.20
40 134 0.79
41 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (40 bp):
CTGAAATGTATGCACTATCAAGCCATACCTACTGAATTTA
Found at i:23399554 original size:119 final size:119
Alignment explanation
Indices: 23399338--23399564 Score: 294
Period size: 119 Copynumber: 1.9 Consensus size: 119
23399328 AATGTATGCG
* ** ** * *
23399338 CTATTAAGCCATACCTACTGAATCTACTGATTTGTATGGGCTATTGAGTCATACCTACTAAATTT
1 CTATCAAGCCATACCTACTGAATCTACTGAAATGTATGCACTATCGAGCCATACCTACTAAATTT
* * *
23399403 ACTGAAATGTATGTGATATCAAGCCGTACCTACTGATTCTACTAAGAGTACGCT
66 ACTAAAAAGTATGTGATATCAAGCCATACCTACTGATTCTACTAAGAGTACGCT
* * * *
23399457 CTATCAAGCCATACCTATTGAATTTACTGAAATGTATGCACTATCGAGCCATACCTATTGAATTT
1 CTATCAAGCCATACCTACTGAATCTACTGAAATGTATGCACTATCGAGCCATACCTACTAAATTT
* *
23399522 ACTAAAAAGTATGCT-CTATCGAGCCATACCTACTGATTCTACT
66 ACTAAAAAGTATG-TGATATCAAGCCATACCTACTGATTCTACT
23399565 GAAAGTTTCT
Statistics
Matches: 91, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
119 90 0.99
120 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (119 bp):
CTATCAAGCCATACCTACTGAATCTACTGAAATGTATGCACTATCGAGCCATACCTACTAAATTT
ACTAAAAAGTATGTGATATCAAGCCATACCTACTGATTCTACTAAGAGTACGCT
Found at i:23408099 original size:26 final size:25
Alignment explanation
Indices: 23408038--23408100 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 25
23408028 TATTCAGGGC
* *
23408038 TCCTGATTAATGGCTGTTCGTGAGT
1 TCCTGATTAAAGGCTCTTCGTGAGT
* *
23408063 TTCTAGTTTAAAGGCTCTTCGTGAGCT
1 TCCT-GATTAAAGGCTCTTCGTGAG-T
23408090 TCCTGATTAAA
1 TCCTGATTAAA
23408101 AGTTCTATGT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
25 3 0.10
26 23 0.77
27 4 0.13
ACGTcount: A:0.21, C:0.17, G:0.22, T:0.40
Consensus pattern (25 bp):
TCCTGATTAAAGGCTCTTCGTGAGT
Found at i:23411442 original size:27 final size:27
Alignment explanation
Indices: 23411401--23411454 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
23411391 TGTCATGTGA
* *
23411401 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTAATATTACATG
**
23411428 AATTGAATGTTAAATTAATATTACATG
1 AATTGAATGGCAAATTAATATTACATG
23411455 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTAATATTACATG
Found at i:23411771 original size:20 final size:20
Alignment explanation
Indices: 23411746--23411790 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
23411736 CACGTTCGTC
23411746 TGGCCTGGGACATGCCCGTG
1 TGGCCTGGGACATGCCCGTG
23411766 TGGCCTGGGACATGCCCGTG
1 TGGCCTGGGACATGCCCGTG
*
23411786 GGGCC
1 TGGCC
23411791 AAGCCGTGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.09, C:0.31, G:0.42, T:0.18
Consensus pattern (20 bp):
TGGCCTGGGACATGCCCGTG
Found at i:23413607 original size:12 final size:12
Alignment explanation
Indices: 23413576--23413600 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23413566 TATTTTCCTT
23413576 TCTTTTTCTTTC
1 TCTTTTTCTTTC
23413588 TCTTTTTCTTTC
1 TCTTTTTCTTTC
23413600 T
1 T
23413601 TTCTTTCCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TCTTTTTCTTTC
Found at i:23413681 original size:8 final size:8
Alignment explanation
Indices: 23413670--23413727 Score: 53
Period size: 8 Copynumber: 7.1 Consensus size: 8
23413660 TTATTTTCTT
*
23413670 TATTATTT
1 TATTATTA
23413678 TATTATTA
1 TATTATTA
**
23413686 TAACATATA
1 TATTAT-TA
23413695 TATTATTA
1 TATTATTA
23413703 TATTATTA
1 TATTATTA
* *
23413711 AATTATTT
1 TATTATTA
*
23413719 TAATATTA
1 TATTATTA
23413727 T
1 T
23413728 TTCTTATTTA
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
8 33 0.85
9 6 0.15
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (8 bp):
TATTATTA
Found at i:23416602 original size:45 final size:44
Alignment explanation
Indices: 23416488--23416605 Score: 112
Period size: 45 Copynumber: 2.6 Consensus size: 44
23416478 TCAAAGAATG
*
23416488 CCATAGCATCTTTCAGCCATGGTTTTAGTCCTATTCTTATCATGATG
1 CCATAGCATCTTTCAGCCATGG-TTT--TCCTATTCTTATCATGATA
*** * * *
23416535 CCATAATGTCTTTGAACTATGGTTTTCCTCA-TCTTTATCATGATA
1 CCATAGCATCTTTCAGCCATGGTTTTCCT-ATTC-TTATCATGATA
*
23416580 TCATAGCATCTTTCAGCCATGGTTTT
1 CCATAGCATCTTTCAGCCATGGTTTT
23416606 ACTTATTTTA
Statistics
Matches: 55, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
44 6 0.11
45 30 0.55
46 3 0.05
47 16 0.29
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.42
Consensus pattern (44 bp):
CCATAGCATCTTTCAGCCATGGTTTTCCTATTCTTATCATGATA
Found at i:23417469 original size:32 final size:32
Alignment explanation
Indices: 23417402--23417469 Score: 75
Period size: 32 Copynumber: 2.1 Consensus size: 32
23417392 ACCTTATTTG
* * *
23417402 TTTTCATATTTGGGAACTAAACAGTCACTTGT
1 TTTTCAGATATGGGAACTAAACAGTCACTTAT
* *
23417434 TTTTCAGATATGGGAACTGAAATAGTGA-TTAT
1 TTTTCAGATATGGGAACT-AAACAGTCACTTAT
23417466 TTTT
1 TTTT
23417470 GGTTTCTCCC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
32 23 0.77
33 7 0.23
ACGTcount: A:0.29, C:0.10, G:0.18, T:0.43
Consensus pattern (32 bp):
TTTTCAGATATGGGAACTAAACAGTCACTTAT
Found at i:23421007 original size:40 final size:40
Alignment explanation
Indices: 23420949--23421191 Score: 184
Period size: 40 Copynumber: 6.1 Consensus size: 40
23420939 TGATAACCGG
* *
23420949 GCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTAAT-TCCGA
1 GCTAAGTCCCGAAG-GCATTTGTGCGAGT-GCTAATATCCGA
* * **
23420989 GCTAAGTCCCGAAGGCATTCGTGCGAGCTACT-ATATCCCT
1 GCTAAGTCCCGAAGGCATTTGTGCGAG-TGCTAATATCCGA
* *
23421029 GCTAAGTCCCGAAGGCGTTTGTGCGA--GCTATTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTGCTA--ATATCCGA
* *
23421069 GCTAAGTCCCGAAGGCATTTGTCCGAGT--TATTATACC-A
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTGCTAATAT-CCGA
* * * *
23421107 GGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT-ATAACCGG
1 -GCTAAGTCCCGAAGGCATTTGTGCGAG-TGCTAATATCCGA
* *
23421148 GCTAAGTCCCGAAGGCATTTGAGCTAGTGGCT-ATATCCG-
1 GCTAAGTCCCGAAGGCATTTGTGCGAGT-GCTAATATCCGA
23421187 GCTAA
1 GCTAA
23421192 ACTCCGAAGG
Statistics
Matches: 164, Mismatches: 24, Indels: 31
0.75 0.11 0.14
Matches are distributed among these distances:
37 2 0.01
38 3 0.02
39 35 0.21
40 118 0.72
41 5 0.03
42 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTGCTAATATCCGA
Found at i:23421129 original size:79 final size:80
Alignment explanation
Indices: 23420984--23421168 Score: 255
Period size: 79 Copynumber: 2.3 Consensus size: 80
23420974 AGTGGCTAAT
* * * ** *
23420984 TCCGAGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATATCCCTGCTAAGTCCCGAAGGCGTTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTCCGAGCTACTATATCCAGGCTAAGTCCCGAAGGCATTT
* *
23421049 GTGCGAGCTATTATA
66 GTGCAAGCTACTATA
* *
23421064 TCCGGGCTAAGTCCCGAAGGCATTTGTCCGAGTTATTATA-CCAGGCTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTCCGAGCTACTATATCCAGGCTAAGTCCCGAAGGCATTT
*
23421128 GTGCAAGTTACTATA
66 GTGCAAGCTACTATA
*
23421143 ACCGGGCTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
23421169 AGCTAGTGGC
Statistics
Matches: 93, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
79 58 0.62
80 35 0.38
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTCCGAGCTACTATATCCAGGCTAAGTCCCGAAGGCATTT
GTGCAAGCTACTATA
Found at i:23421201 original size:79 final size:78
Alignment explanation
Indices: 23420989--23421191 Score: 246
Period size: 79 Copynumber: 2.6 Consensus size: 78
23420979 CTAATTCCGA
* * * *
23420989 GCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATATCCCTGCTAAGTCCCGAAGGCGTTTGTGCG
1 GCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAT-CCGGCTAAGTCCCGAAGGCATTTGTGCA
* *
23421054 AGCTATTATATCCGG
64 AGCTACTATAACCGG
* *
23421069 GCTAAGTCCCGAAGGCATTTGTCCGAGTTATTATA-CCAGGCTAAGTCCCGAAGGCATTTGTGCA
1 GCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATCC-GGCTAAGTCCCGAAGGCATTTGTGCA
*
23421133 AGTTACTATAACCGG
64 AGCTACTATAACCGG
* * *
23421148 GCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCCGGCTAA
1 GCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATATCCGGCTAA
23421192 ACTCCGAAGG
Statistics
Matches: 105, Mismatches: 15, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
78 3 0.03
79 69 0.66
80 33 0.31
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (78 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTACTATATCCGGCTAAGTCCCGAAGGCATTTGTGCAAG
CTACTATAACCGG
Found at i:23425945 original size:10 final size:10
Alignment explanation
Indices: 23425930--23425977 Score: 69
Period size: 10 Copynumber: 4.7 Consensus size: 10
23425920 ATTTTGATAT
23425930 ACATGATTTG
1 ACATGATTTG
23425940 ACATGATTTG
1 ACATGATTTG
23425950 ACATGATTTG
1 ACATGATTTG
* *
23425960 AAATGATATG
1 ACATGATTTG
23425970 CACATGAT
1 -ACATGAT
23425978 ATGTATGATA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
10 28 0.82
11 6 0.18
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (10 bp):
ACATGATTTG
Found at i:23425955 original size:20 final size:21
Alignment explanation
Indices: 23425930--23425995 Score: 82
Period size: 20 Copynumber: 3.2 Consensus size: 21
23425920 ATTTTGATAT
* *
23425930 ACATGATTTGACATGATTTG-
1 ACATGATTTGAAATGATATGC
23425950 ACATGATTTGAAATGATATGC
1 ACATGATTTGAAATGATATGC
* *
23425971 ACATGATATG-TATGATATGC
1 ACATGATTTGAAATGATATGC
23425991 ACATG
1 ACATG
23425996 TTATATTCAT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 32 0.78
21 9 0.22
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.35
Consensus pattern (21 bp):
ACATGATTTGAAATGATATGC
Found at i:23428173 original size:26 final size:26
Alignment explanation
Indices: 23428135--23428187 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
23428125 TCATACATGA
*
23428135 ATTTAGGTCATTTTAAC-CCTAGGGGT
1 ATTTAGGT-AATTTAACTCCTAGGGGT
* *
23428161 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAGGTAATTTAACTCCTAGGGGT
23428187 A
1 A
23428188 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.40
Consensus pattern (26 bp):
ATTTAGGTAATTTAACTCCTAGGGGT
Found at i:23430501 original size:47 final size:47
Alignment explanation
Indices: 23430450--23430687 Score: 325
Period size: 47 Copynumber: 5.1 Consensus size: 47
23430440 TTCCACGTTT
* * * *
23430450 ATCACATTAGCCACTCTACCTTATCACACATATGCATGTTCACATCC
1 ATCACATTGGCCATTCGACCTTATCACACATATGCATGTTCACATTC
*
23430497 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGACCTTATCACACATATGCATGTTCACATTC
* *
23430544 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGACCTTATCACACATATGCATGTTCACATTC
*
23430591 ATCACATTGGCCATTC-AGCCTTATCACAGATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGA-CCTTATCACACATATGCATGTTCACATTC
* * * * * **
23430638 ATCACATTGGCCATTAGGCCTTATCTCATATATACACATTCACATTC
1 ATCACATTGGCCATTCGACCTTATCACACATATGCATGTTCACATTC
23430685 ATC
1 ATC
23430688 TCATAAAATC
Statistics
Matches: 174, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
47 174 1.00
ACGTcount: A:0.28, C:0.29, G:0.11, T:0.32
Consensus pattern (47 bp):
ATCACATTGGCCATTCGACCTTATCACACATATGCATGTTCACATTC
Found at i:23430548 original size:25 final size:25
Alignment explanation
Indices: 23430519--23430643 Score: 67
Period size: 23 Copynumber: 5.2 Consensus size: 25
23430509 ATTCGGCCTT
23430519 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
* *
23430544 AT--CACAT-TGGCCA--TTCGGCCTT-
1 ATCACACATAT-G-CATGTTC-ACATTC
*
23430566 ATCACATATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
*
23430591 AT--CACAT-TGGCCA--TTCAGCCTT-
1 ATCACACATAT-G-CATGTTCA-CATTC
*
23430613 ATCACAGATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
23430638 ATCACA
1 ATCACA
23430644 TTGGCCATTA
Statistics
Matches: 73, Mismatches: 9, Indels: 36
0.62 0.08 0.31
Matches are distributed among these distances:
22 13 0.18
23 21 0.29
24 20 0.27
25 19 0.26
ACGTcount: A:0.29, C:0.28, G:0.11, T:0.32
Consensus pattern (25 bp):
ATCACACATATGCATGTTCACATTC
Found at i:23430616 original size:22 final size:22
Alignment explanation
Indices: 23430497--23430618 Score: 65
Period size: 22 Copynumber: 5.3 Consensus size: 22
23430487 GTTCACATCC
*
23430497 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCAGCCTT
*
23430519 ATCACACATAT-G-CATGTTCA-CATT
1 AT--CACAT-TGGCCA--TTCAGCCTT
*
23430543 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCAGCCTT
* *
23430566 ATCACATATATG-CATGTTCA-CATT
1 ATCACAT-T-GGCCA--TTCAGCCTT
23430590 CATCACATTGGCCATTCAGCCTT
1 -ATCACATTGGCCATTCAGCCTT
23430613 ATCACA
1 ATCACA
23430619 GATATGCATG
Statistics
Matches: 75, Mismatches: 9, Indels: 32
0.65 0.08 0.28
Matches are distributed among these distances:
22 23 0.31
23 18 0.24
24 18 0.24
25 16 0.21
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCAGCCTT
Found at i:23430668 original size:94 final size:94
Alignment explanation
Indices: 23430468--23430687 Score: 359
Period size: 94 Copynumber: 2.3 Consensus size: 94
23430458 AGCCACTCTA
* * *
23430468 CCTTATCACACATATGCATGTTCACATCCATCACATTGGCCATTCGGCCTTATCACACATATGCA
1 CCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCAGCCTTATCACACATATGCA
*
23430533 TGTTCACATTCATCACATTGGCCATTCGG
66 TGTTCACATTCATCACATTGGCCATTAGG
*
23430562 CCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCAGCCTTATCACAGATATGCA
1 CCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCAGCCTTATCACACATATGCA
23430627 TGTTCACATTCATCACATTGGCCATTAGG
66 TGTTCACATTCATCACATTGGCCATTAGG
* * **
23430656 CCTTATCTCATATATACACATTCACATTCATC
1 CCTTATCACATATATGCATGTTCACATTCATC
23430688 TCATAAAATC
Statistics
Matches: 117, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
94 117 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (94 bp):
CCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCAGCCTTATCACACATATGCA
TGTTCACATTCATCACATTGGCCATTAGG
Found at i:23433809 original size:26 final size:26
Alignment explanation
Indices: 23433779--23433860 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
23433769 TGAAATGCCC
23433779 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
23433805 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
23433831 ATCATTGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
23433857 ATCA
1 ATCA
23433861 ATTTGTACCA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.35, C:0.24, G:0.06, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:23434136 original size:65 final size:65
Alignment explanation
Indices: 23434054--23434182 Score: 249
Period size: 65 Copynumber: 2.0 Consensus size: 65
23434044 ATTTCACCCC
*
23434054 CCTTTTTCTTATGGAACAAAAATTAACTAAAATTGCCGGGTTCTATATTAAGCTTGGGCCTTCTT
1 CCTTTTTCTTATAGAACAAAAATTAACTAAAATTGCCGGGTTCTATATTAAGCTTGGGCCTTCTT
23434119 CCTTTTTCTTATAGAACAAAAATTAACTAAAATTGCCGGGTTCTATATTAAGCTTGGGCCTTCT
1 CCTTTTTCTTATAGAACAAAAATTAACTAAAATTGCCGGGTTCTATATTAAGCTTGGGCCTTCT
23434183 AGAGACCCAC
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.38
Consensus pattern (65 bp):
CCTTTTTCTTATAGAACAAAAATTAACTAAAATTGCCGGGTTCTATATTAAGCTTGGGCCTTCTT
Found at i:23436547 original size:47 final size:47
Alignment explanation
Indices: 23436419--23437556 Score: 2096
Period size: 47 Copynumber: 24.1 Consensus size: 47
23436409 CCCTTCGGGA
* * * * * *
23436419 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
23436466 CCTGTCACATATATATACACTTCCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23436515 CTTATCACATATGTACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23436562 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23436611 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23436658 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23436705 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23436752 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23436799 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23436846 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23436893 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23436940 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23436987 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23437034 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23437081 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23437128 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23437175 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23437222 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23437269 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23437316 CTTATCACATATGTACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23437363 CTTATCACATATGTACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23437410 CTTATCACATATGTACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23437457 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23437504 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23437553 CTTA
1 CTTA
23437557 CTATCATTTC
Statistics
Matches: 1067, Mismatches: 18, Indels: 10
0.97 0.02 0.01
Matches are distributed among these distances:
47 941 0.88
49 126 0.12
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:23444330 original size:26 final size:26
Alignment explanation
Indices: 23444301--23444353 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
23444291 TCATACATGC
*
23444301 ATTTAGGTCATTTTAAC-CCTAGGGGT
1 ATTTAGGT-AATTTAACTCCTAGGGGT
* *
23444327 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAGGTAATTTAACTCCTAGGGGT
23444353 A
1 A
23444354 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.40
Consensus pattern (26 bp):
ATTTAGGTAATTTAACTCCTAGGGGT
Found at i:23456568 original size:22 final size:23
Alignment explanation
Indices: 23456526--23456568 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
23456516 AAAATCCTAC
* *
23456526 CCATCCATCCTCTACATTCCACT
1 CCATCCAGCCTCTACACTCCACT
23456549 CCATCCAGCC-CTACACTCCA
1 CCATCCAGCCTCTACACTCCA
23456569 TGTGGGGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.23, C:0.51, G:0.02, T:0.23
Consensus pattern (23 bp):
CCATCCAGCCTCTACACTCCACT
Found at i:23462779 original size:24 final size:21
Alignment explanation
Indices: 23462729--23462768 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
23462719 TTTCTAACAT
23462729 AATTTAGTCTCTATATTATTA
1 AATTTAGTCTCTATATTATTA
* *
23462750 ATTTTAGTCTCTCTATTAT
1 AATTTAGTCTCTATATTAT
23462769 GTTTAAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.05, T:0.55
Consensus pattern (21 bp):
AATTTAGTCTCTATATTATTA
Found at i:23475822 original size:19 final size:19
Alignment explanation
Indices: 23475798--23475839 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
23475788 TAAGTTTCAA
23475798 AAAAAAAGAAAAAAAAT-TG
1 AAAAAAA-AAAAAAAATCTG
*
23475817 AAAAAAAAAACAAAATCTG
1 AAAAAAAAAAAAAAATCTG
23475836 AAAA
1 AAAA
23475840 TTTGAACATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.79, C:0.05, G:0.07, T:0.10
Consensus pattern (19 bp):
AAAAAAAAAAAAAAATCTG
Found at i:23476911 original size:18 final size:18
Alignment explanation
Indices: 23476888--23476937 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
23476878 GAAAGACAAA
*
23476888 GAAAAAGAGATTGAGAGT
1 GAAAAAGAGAATGAGAGT
* *
23476906 GAAAAAGAAAATGAGATT
1 GAAAAAGAGAATGAGAGT
23476924 GAAAAAGAGAATGA
1 GAAAAAGAGAATGA
23476938 AAAAGAGTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.58, C:0.00, G:0.28, T:0.14
Consensus pattern (18 bp):
GAAAAAGAGAATGAGAGT
Found at i:23476914 original size:24 final size:24
Alignment explanation
Indices: 23476885--23476962 Score: 93
Period size: 24 Copynumber: 3.2 Consensus size: 24
23476875 AATGAAAGAC
* *
23476885 AAAGAAAAAGAGATTGAGAGTGAA
1 AAAGAAAAAGAGATTGAGAGAGAG
* * *
23476909 AAAGAAAATGAGATTGAAAAAGAG
1 AAAGAAAAAGAGATTGAGAGAGAG
* *
23476933 AATGAAAAAGAGTTTGAGAGAGAG
1 AAAGAAAAAGAGATTGAGAGAGAG
23476957 AAAGAA
1 AAAGAA
23476963 TGTGAACAAG
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.59, C:0.00, G:0.28, T:0.13
Consensus pattern (24 bp):
AAAGAAAAAGAGATTGAGAGAGAG
Found at i:23480926 original size:10 final size:11
Alignment explanation
Indices: 23480896--23480925 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
23480886 GTTCGTAACG
*
23480896 AAAAAAAAGTC
1 AAAAAAAAATC
23480907 AAAAAAAAATC
1 AAAAAAAAATC
23480918 AAAAAAAA
1 AAAAAAAA
23480926 TTTGAGTTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.83, C:0.07, G:0.03, T:0.07
Consensus pattern (11 bp):
AAAAAAAAATC
Found at i:23481029 original size:12 final size:12
Alignment explanation
Indices: 23481012--23481048 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
23481002 AAAAGAGAAG
23481012 AAATTCAAAAAA
1 AAATTCAAAAAA
23481024 AAATTC-AAAAA
1 AAATTCAAAAAA
*
23481035 AAATTGAAAAAA
1 AAATTCAAAAAA
23481047 AA
1 AA
23481049 GAAAAAAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.43
12 13 0.57
ACGTcount: A:0.76, C:0.05, G:0.03, T:0.16
Consensus pattern (12 bp):
AAATTCAAAAAA
Found at i:23481035 original size:11 final size:11
Alignment explanation
Indices: 23481012--23481048 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
23481002 AAAAGAGAAG
23481012 AAATTCAAAAAA
1 AAATTC-AAAAA
23481024 AAATTCAAAAA
1 AAATTCAAAAA
*
23481035 AAATTGAAAAA
1 AAATTCAAAAA
23481046 AAA
1 AAA
23481049 GAAAAAAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 18 0.75
12 6 0.25
ACGTcount: A:0.76, C:0.05, G:0.03, T:0.16
Consensus pattern (11 bp):
AAATTCAAAAA
Found at i:23482110 original size:24 final size:24
Alignment explanation
Indices: 23482083--23482162 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
23482073 CCATTGAGCG
23482083 AGAAAAGGAGAAAGAGATTGAAAA
1 AGAAAAGGAGAAAGAGATTGAAAA
** * * **
23482107 AGAAATCGAAAAAGTGAGAGAAAA
1 AGAAAAGGAGAAAGAGATTGAAAA
* *
23482131 AGAAAATGAAGAAAAGAAAATTGAAAA
1 AGAAAA-GGAG-AAAG-AGATTGAAAA
23482158 AGAAA
1 AGAAA
23482163 TTGAGAATGA
Statistics
Matches: 39, Mismatches: 14, Indels: 3
0.70 0.25 0.05
Matches are distributed among these distances:
24 23 0.59
25 1 0.03
26 4 0.10
27 11 0.28
ACGTcount: A:0.66, C:0.01, G:0.24, T:0.09
Consensus pattern (24 bp):
AGAAAAGGAGAAAGAGATTGAAAA
Found at i:23482163 original size:12 final size:12
Alignment explanation
Indices: 23482093--23482191 Score: 59
Period size: 12 Copynumber: 8.6 Consensus size: 12
23482083 AGAAAAGGAG
*
23482093 AAAGAGATTGAA
1 AAAGAAATTGAA
*
23482105 AAAGAAATCGAA
1 AAAGAAATTGAA
** **
23482117 AAAGTGAGAGAA
1 AAAGAAATTGAA
*
23482129 AAAGAAAATGAAGA
1 AAAGAAATTG-A-A
23482143 AAAGAAAATTGAA
1 AAAG-AAATTGAA
23482156 AAAGAAATTG--
1 AAAGAAATTGAA
23482166 --AG-AA-TGAA
1 AAAGAAATTGAA
23482174 AAA-AAATTGAA
1 AAAGAAATTGAA
23482185 AAAGAAA
1 AAAGAAA
23482192 AAGCGAAAAA
Statistics
Matches: 66, Mismatches: 11, Indels: 20
0.68 0.11 0.21
Matches are distributed among these distances:
6 2 0.03
7 2 0.03
8 2 0.03
10 3 0.05
11 7 0.11
12 33 0.50
13 6 0.09
14 6 0.09
15 5 0.08
ACGTcount: A:0.67, C:0.01, G:0.20, T:0.12
Consensus pattern (12 bp):
AAAGAAATTGAA
Found at i:23482180 original size:17 final size:18
Alignment explanation
Indices: 23482146--23482194 Score: 64
Period size: 17 Copynumber: 2.7 Consensus size: 18
23482136 ATGAAGAAAA
23482146 GAAAATTGAAAAAGAAATT
1 GAAAA-TGAAAAAGAAATT
*
23482165 GAGAATGAAAAA-AAATT
1 GAAAATGAAAAAGAAATT
*
23482182 GAAAAAGAAAAAG
1 GAAAATGAAAAAG
23482195 CGAAAAAAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 15 0.58
18 7 0.27
19 4 0.15
ACGTcount: A:0.67, C:0.00, G:0.18, T:0.14
Consensus pattern (18 bp):
GAAAATGAAAAAGAAATT
Found at i:23482189 original size:29 final size:27
Alignment explanation
Indices: 23482126--23482192 Score: 91
Period size: 29 Copynumber: 2.4 Consensus size: 27
23482116 AAAAGTGAGA
23482126 GAAAAAGAAAATGAAGAAAAGAAAATT
1 GAAAAAGAAAATGAAGAAAAGAAAATT
*
23482153 GAAAAAGAAATTGAGAATGAAAA-AAAATT
1 GAAAAAGAAAAT--GAA-GAAAAGAAAATT
23482182 GAAAAAGAAAA
1 GAAAAAGAAAA
23482193 AGCGAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 11 0.31
29 19 0.54
30 5 0.14
ACGTcount: A:0.70, C:0.00, G:0.18, T:0.12
Consensus pattern (27 bp):
GAAAAAGAAAATGAAGAAAAGAAAATT
Found at i:23482246 original size:33 final size:33
Alignment explanation
Indices: 23482209--23482271 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
23482199 AAAAGAAATT
23482209 GAAAGAGAG-CT-TGAAAAGAAATCAAGTGAAAAA
1 GAAAGAGAGTCTAT-AAAAGAAA-CAAGTGAAAAA
*
23482242 GAAAGAGAGTCTATAAAAGAAACGAGTGAA
1 GAAAGAGAGTCTATAAAAGAAACAAGTGAA
23482272 GTGAGTAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.56, C:0.06, G:0.25, T:0.13
Consensus pattern (33 bp):
GAAAGAGAGTCTATAAAAGAAACAAGTGAAAAA
Found at i:23483284 original size:40 final size:40
Alignment explanation
Indices: 23483229--23483428 Score: 330
Period size: 40 Copynumber: 5.0 Consensus size: 40
23483219 NNNNNNNNNN
23483229 TCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAT
1 TCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAT
23483269 TCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAT
1 TCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAT
23483309 TCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAT
1 TCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAT
* *
23483349 TCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCAT
1 TCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAT
* * * * *
23483389 T-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCAT
1 TCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAT
23483428 T
1 T
23483429 TGAACGAGGA
Statistics
Matches: 153, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
39 34 0.22
40 119 0.78
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
TCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAT
Found at i:23483448 original size:79 final size:80
Alignment explanation
Indices: 23483229--23483463 Score: 251
Period size: 80 Copynumber: 3.0 Consensus size: 80
23483219 NNNNNNNNNN
* * * ** * *
23483229 TCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA-TTAAATCCGGGT
1 TCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAG-GAGCTAAATCCGGGT
23483293 TAAGTCCCGAAGGCAT
65 TAAGTCCCGAAGGCAT
* * * ** ** *
23483309 TCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTT
1 TCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAATCCGGGTT
*
23483374 ATGTCCCGAAGGCAT
66 AAGTCCCGAAGGCAT
* * * *
23483389 T-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATATCC-GGTT
1 TCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAATCCGGGTT
*
23483452 AAATCCCGAAGG
66 AAGTCCCGAAGG
23483464 TACGTGATTT
Statistics
Matches: 138, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
78 14 0.10
79 47 0.34
80 77 0.56
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (80 bp):
TCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTAAATCCGGGTT
AAGTCCCGAAGGCAT
Found at i:23488410 original size:42 final size:42
Alignment explanation
Indices: 23488361--23488511 Score: 144
Period size: 42 Copynumber: 3.5 Consensus size: 42
23488351 TAAGATTACG
*
23488361 TGTAAGACCATATCTGGGATATGGCATCAATATAAGACTTCA
1 TGTAAGACCATATCTGGGATATGGCATCGATATAAGACTTCA
* * *
23488403 TGTAAGACCATATCTAGGATATGACATCGATATGAAG-CTTCG
1 TGTAAGACCATATCTGGGATATGGCATCGATAT-AAGACTTCA
* * * * ** *
23488445 TATAAAACCATAGCTGGGCTATTGGCATCGATACGAGA-TCCCA
1 TGTAAGACCATATCTGGGATA-TGGCATCGATATAAGACT-TCA
23488488 TGTAAGACCATATCTAGGGTATAT
1 TGTAAGACCATATCT-GGG-ATAT
23488512 CATTGGTATG
Statistics
Matches: 85, Mismatches: 18, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
42 53 0.62
43 26 0.31
44 4 0.05
45 2 0.02
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.28
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATAAGACTTCA
Found at i:23489946 original size:54 final size:54
Alignment explanation
Indices: 23489888--23490164 Score: 289
Period size: 54 Copynumber: 5.1 Consensus size: 54
23489878 TGGTTTACAA
*
23489888 AATTACCAAAATACCCTCGATCA-GG-A-AAGTTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTCG-T-AGGGTAGAA-TTACCGAAATACCCCTGTAGGGTAG
* ** *
23489942 AATTATCGAAATACCC-CTGTAGGGTAGAATTACTAAAATACCCCTGTATGGTAG
1 AATTACCGAAATACCCTC-GTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* *
23489996 AATTACCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCTCGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * * *
23490050 AATTACTGAAATACCC-CTGTAGGGTAGAACTACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCTC-GTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* ** * * *
23490104 AGTTACTAAAATACCC-CTGTAGGGTAGAATTACC-AAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTC-GTAGGGTAGAATTACCGAA-ATACCCCTGTAGGGTAG
23490158 AATTACC
1 AATTACC
23490165 ATTTTGCCCC
Statistics
Matches: 191, Mismatches: 25, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
52 1 0.01
53 6 0.03
54 182 0.95
55 2 0.01
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (54 bp):
AATTACCGAAATACCCTCGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
Found at i:23489951 original size:27 final size:26
Alignment explanation
Indices: 23489921--23490163 Score: 306
Period size: 27 Copynumber: 9.0 Consensus size: 26
23489911 GGAAAGTTAC
23489921 CGAAATACCCCTGTAGGGTAGAATTA
1 CGAAATACCCCTGTAGGGTAGAATTA
23489947 TCGAAATACCCCTGTAGGGTAGAATTA
1 -CGAAATACCCCTGTAGGGTAGAATTA
* *
23489974 CTAAAATACCCCTGTATGGTAGAATTA
1 C-GAAATACCCCTGTAGGGTAGAATTA
*
23490001 CCGAAATACCCTTGTAGGGTAGAATTA
1 -CGAAATACCCCTGTAGGGTAGAATTA
*
23490028 CCGAAATACCCCTATAGGGTAGAATTA
1 -CGAAATACCCCTGTAGGGTAGAATTA
*
23490055 CTGAAATACCCCTGTAGGGTAGAACTA
1 C-GAAATACCCCTGTAGGGTAGAATTA
* *
23490082 CTGAAATACCCCTATAGGGTAGAGTTA
1 C-GAAATACCCCTGTAGGGTAGAATTA
*
23490109 CTAAAATACCCCTGTAGGGTAGAATTA
1 C-GAAATACCCCTGTAGGGTAGAATTA
* * * *
23490136 CCAAGATACCCTTGTGGGGTAAAATTA
1 CGAA-ATACCCCTGTAGGGTAGAATTA
23490163 C
1 C
23490164 CATTTTGCCC
Statistics
Matches: 193, Mismatches: 19, Indels: 8
0.88 0.09 0.04
Matches are distributed among these distances:
26 4 0.02
27 188 0.97
28 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.25
Consensus pattern (26 bp):
CGAAATACCCCTGTAGGGTAGAATTA
Found at i:23490428 original size:28 final size:28
Alignment explanation
Indices: 23490387--23490496 Score: 145
Period size: 27 Copynumber: 4.0 Consensus size: 28
23490377 GGAGGAAGCG
23490387 TTCTGGTGGCTATGCCACAAATATCTGT
1 TTCTGGTGGCTATGCCACAAATATCTGT
*
23490415 TTCTGGTGGTTATGCCACAAATATCTG-
1 TTCTGGTGGCTATGCCACAAATATCTGT
*
23490442 TTCTGGTGGCTCTGCCAC-AATATCTGT
1 TTCTGGTGGCTATGCCACAAATATCTGT
* * * *
23490469 ATCTGGTGACTCTGTCAC-AATATCTGT
1 TTCTGGTGGCTATGCCACAAATATCTGT
23490496 T
1 T
23490497 GACTGATCGA
Statistics
Matches: 74, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
26 8 0.11
27 40 0.54
28 26 0.35
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.37
Consensus pattern (28 bp):
TTCTGGTGGCTATGCCACAAATATCTGT
Found at i:23491026 original size:31 final size:31
Alignment explanation
Indices: 23490991--23491063 Score: 101
Period size: 31 Copynumber: 2.4 Consensus size: 31
23490981 TTGCATTCAC
* * * *
23490991 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTAATTATGTCACCTGATACTG
*
23491022 ATTCTGATTCTAATTATGTCACCTGATTCTG
1 ATTCTGATTCTAATTATGTCACCTGATACTG
23491053 ATTCTGATTCT
1 ATTCTGATTCT
23491064 CATTTTGATT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.21, C:0.18, G:0.14, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTAATTATGTCACCTGATACTG
Found at i:23491030 original size:6 final size:6
Alignment explanation
Indices: 23490991--23491084 Score: 66
Period size: 6 Copynumber: 15.3 Consensus size: 6
23490981 TTGCATTCAC
* * * *
23490991 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTA ATTATG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
23491040 -TCACCTG ATTCTG ATTCTG ATTCTC ATTTTG ATTCTA ATTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT
23491085 AATGTTTCTT
Statistics
Matches: 66, Mismatches: 16, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
5 3 0.05
6 56 0.85
7 5 0.08
8 2 0.03
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:23496156 original size:25 final size:24
Alignment explanation
Indices: 23496109--23496179 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 24
23496099 GGAGGAAGTG
* *
23496109 CAAAAGGGCTTTCGCCCTAGTTTAC
1 CAAAAAGGCTTT-GCCCCAGTTTAC
*
23496134 CGAAAAAGGCTTTGCCCCAGTTTAT
1 C-AAAAAGGCTTTGCCCCAGTTTAC
23496159 CAAAAAGGGCTTTGCCCCAGT
1 CAAAAA-GGCTTTGCCCCAGT
23496180 CATTAAAAGA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
24 5 0.12
25 26 0.63
26 10 0.24
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (24 bp):
CAAAAAGGCTTTGCCCCAGTTTAC
Found at i:23496187 original size:24 final size:24
Alignment explanation
Indices: 23496109--23496187 Score: 70
Period size: 25 Copynumber: 3.2 Consensus size: 24
23496099 GGAGGAAGTG
* * * *
23496109 CAAAAGGGCTTTCGCCCTAGTTTAC
1 CAAAAAGGCTTT-GCCCCAGTTCAT
*
23496134 CGAAAAAGGCTTTGCCCCAGTTTAT
1 C-AAAAAGGCTTTGCCCCAGTTCAT
23496159 CAAAAAGGGCTTTGCCCCAG-TCAT
1 CAAAAA-GGCTTTGCCCCAGTTCAT
*
23496183 TAAAA
1 CAAAA
23496188 GAGGTTAGGC
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
24 12 0.26
25 25 0.53
26 10 0.21
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.25
Consensus pattern (24 bp):
CAAAAAGGCTTTGCCCCAGTTCAT
Found at i:23496438 original size:30 final size:32
Alignment explanation
Indices: 23496402--23496477 Score: 113
Period size: 30 Copynumber: 2.5 Consensus size: 32
23496392 CATTTACAGT
*
23496402 AAAGGCTTCGGCCCAA-TGATATG-ATAATGA
1 AAAGGCTTCGGCCCAAGTGACATGAATAATGA
*
23496432 AAAGGCTTCGG-CCAAGTGACATGAATAATGC
1 AAAGGCTTCGGCCCAAGTGACATGAATAATGA
23496463 AAAGGCTTCGGCCCA
1 AAAGGCTTCGGCCCA
23496478 GTATATGTTG
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 17 0.41
31 17 0.41
32 3 0.07
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (32 bp):
AAAGGCTTCGGCCCAAGTGACATGAATAATGA
Found at i:23496467 original size:31 final size:29
Alignment explanation
Indices: 23496402--23496475 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 29
23496392 CATTTACAGT
*
23496402 AAAGGCTTCGGCCCAATGATATGATAATGA
1 AAAGGCTTCGG-CCAATGACATGATAATGA
*
23496432 AAAGGCTTCGGCCAAGTGACATGAATAATGC
1 AAAGGCTTCGGCCAA-TGACATG-ATAATGA
23496463 AAAGGCTTCGGCC
1 AAAGGCTTCGGCC
23496476 CAGTATATGT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
29 4 0.10
30 17 0.43
31 19 0.47
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.20
Consensus pattern (29 bp):
AAAGGCTTCGGCCAATGACATGATAATGA
Found at i:23502108 original size:55 final size:55
Alignment explanation
Indices: 23502015--23502136 Score: 147
Period size: 55 Copynumber: 2.2 Consensus size: 55
23502005 AGCCCCATGT
** * *
23502015 CCGTGTTAATTTAACAGGTTTGACCACGGGTGTTCCACACGGGCGTGTCGAACGC
1 CCGTGTTGTTTTAACAGGTTTGACCACGGGTCTTCCACACGGCCGTGTCGAACGC
* * * *
23502070 CCGTTTTGTTTTAACAGGTTCT-CCCACGGTTCTTCCACACGGCCGTGTCGTACGC
1 CCGTGTTGTTTTAACAGGTT-TGACCACGGGTCTTCCACACGGCCGTGTCGAACGC
*
23502125 TCGTGTTGTTTT
1 CCGTGTTGTTTT
23502137 GGCAGGCTCG
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
55 55 0.98
56 1 0.02
ACGTcount: A:0.15, C:0.27, G:0.25, T:0.33
Consensus pattern (55 bp):
CCGTGTTGTTTTAACAGGTTTGACCACGGGTCTTCCACACGGCCGTGTCGAACGC
Found at i:23502152 original size:55 final size:55
Alignment explanation
Indices: 23502015--23502153 Score: 143
Period size: 55 Copynumber: 2.5 Consensus size: 55
23502005 AGCCCCATGT
** * * * *
23502015 CCGTGTTAATTTAACAGGTTTGACCACGGGTGTTCCACACGGGCGTGTCGAACGC
1 CCGTGTTGTTTTAACAGGCTCGACCACGGGTCTTCCACACGGCCGTGTCGAACGC
* * ** * *
23502070 CCGTTTTGTTTTAACAGGTTCTCCCACGGTTCTTCCACACGGCCGTGTCGTACGC
1 CCGTGTTGTTTTAACAGGCTCGACCACGGGTCTTCCACACGGCCGTGTCGAACGC
* **
23502125 TCGTGTTGTTTTGGCAGGCTCGACCACGG
1 CCGTGTTGTTTTAACAGGCTCGACCACGG
23502154 CCATATCGCA
Statistics
Matches: 67, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
55 67 1.00
ACGTcount: A:0.15, C:0.28, G:0.27, T:0.29
Consensus pattern (55 bp):
CCGTGTTGTTTTAACAGGCTCGACCACGGGTCTTCCACACGGCCGTGTCGAACGC
Found at i:23502430 original size:26 final size:25
Alignment explanation
Indices: 23502394--23502445 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 25
23502384 TTACCTCTCC
23502394 AGTGAATGGTCATGGTGGTTTGAGG
1 AGTGAATGGTCATGGTGGTTTGAGG
23502419 NAGTGAATGGTCATGGTGGTTTGAGG
1 -AGTGAATGGTCATGGTGGTTTGAGG
23502445 A
1 A
23502446 AGTTTATACT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 1 0.04
26 25 0.96
ACGTcount: A:0.21, C:0.04, G:0.42, T:0.31
Consensus pattern (25 bp):
AGTGAATGGTCATGGTGGTTTGAGG
Found at i:23522125 original size:34 final size:33
Alignment explanation
Indices: 23522082--23522169 Score: 131
Period size: 34 Copynumber: 2.6 Consensus size: 33
23522072 TCAGGGCCTT
* *
23522082 AGCCCATTTCGGTAACAGTAGCAGTCTGGGCATG
1 AGCCCATTTCAGTAACAGTAG-AGTCTGGCCATG
*
23522116 AGCCCATTTCAGTAACAGTAAGAGTCTGGCCCTG
1 AGCCCATTTCAGTAACAGT-AGAGTCTGGCCATG
23522150 AGCCCATTTCAGTAACAGTA
1 AGCCCATTTCAGTAACAGTA
23522170 TCAATTGGGC
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
33 1 0.02
34 47 0.94
35 2 0.04
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (33 bp):
AGCCCATTTCAGTAACAGTAGAGTCTGGCCATG
Found at i:23523718 original size:46 final size:47
Alignment explanation
Indices: 23523665--23523839 Score: 175
Period size: 46 Copynumber: 3.8 Consensus size: 47
23523655 TATTTGGGCA
*
23523665 TCCGAACTCGTCGAGTTGAGTCCCAGTTCACTTATGGATGCGAA-TG
1 TCCGAACTCGTTGAGTTGAGTCCCAGTTCACTTATGGATGCGAACTG
* * * *
23523711 TCCGAACTCATTGAGTTGAGTCCGAGTT---TGA-GAGATG-TAACTGG
1 TCCGAACTCGTTGAGTTGAGTCCCAGTTCACTTATG-GATGCGAACT-G
*
23523755 CATCCGAGCTCGTTGAGTTGAGTCCCAGTTCACTTATGGATGCGAACT-
1 --TCCGAACTCGTTGAGTTGAGTCCCAGTTCACTTATGGATGCGAACTG
* * * *
23523803 CCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCCAGTTCACTTATGG
23523840 GTGGGTTACA
Statistics
Matches: 106, Mismatches: 13, Indels: 20
0.76 0.09 0.14
Matches are distributed among these distances:
42 3 0.03
43 7 0.07
44 1 0.01
46 84 0.79
49 6 0.06
50 5 0.05
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.30
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCCAGTTCACTTATGGATGCGAACTG
Found at i:23523818 original size:92 final size:92
Alignment explanation
Indices: 23523661--23523830 Score: 270
Period size: 92 Copynumber: 1.8 Consensus size: 92
23523651 AGGATATTTG
*
23523661 GGCATCCGAACTCGTCGAGTTGAGTCCCAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAG
1 GGCATCCGAACTCGTCGAGTTGAGTCCCAGTTCACTTATGGATGCGAATGCCCGAACTCATTGAG
23523726 TTGAGTCCGAGTTTGAGAGATGTAACT
66 TTGAGTCCGAGTTTGAGAGATGTAACT
* * * **
23523753 GGCATCCGAGCTCGTTGAGTTGAGTCCCAGTTCACTTATGGATGCGAACT-CCCGAGCTTGTTGA
1 GGCATCCGAACTCGTCGAGTTGAGTCCCAGTTCACTTATGGATGCGAA-TGCCCGAACTCATTGA
23523817 GTTGAGTCCGAGTT
65 GTTGAGTCCGAGTT
23523831 CACTTATGGG
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 70 0.99
93 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (92 bp):
GGCATCCGAACTCGTCGAGTTGAGTCCCAGTTCACTTATGGATGCGAATGCCCGAACTCATTGAG
TTGAGTCCGAGTTTGAGAGATGTAACT
Found at i:23535156 original size:35 final size:35
Alignment explanation
Indices: 23535103--23535177 Score: 132
Period size: 35 Copynumber: 2.1 Consensus size: 35
23535093 TCTAAAGACT
*
23535103 TAAACTTTCTTGCACGCCTAACTTTCGTAAGGAAC
1 TAAAATTTCTTGCACGCCTAACTTTCGTAAGGAAC
*
23535138 TAAAATTTCTTGCCCGCCTAACTTTCGTAAGGAAC
1 TAAAATTTCTTGCACGCCTAACTTTCGTAAGGAAC
23535173 TAAAA
1 TAAAA
23535178 ATTTATGGTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.31
Consensus pattern (35 bp):
TAAAATTTCTTGCACGCCTAACTTTCGTAAGGAAC
Found at i:23537048 original size:18 final size:18
Alignment explanation
Indices: 23537009--23537048 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
23536999 AATAAATTGA
*
23537009 AAAATTAAATATTTGAAT
1 AAAATTAAATATTTGAAG
23537027 AAAATTAAA-ATTTAGAAG
1 AAAATTAAATATTT-GAAG
23537045 AAAA
1 AAAA
23537049 AATTGCCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.30
Consensus pattern (18 bp):
AAAATTAAATATTTGAAG
Found at i:23545420 original size:40 final size:40
Alignment explanation
Indices: 23545376--23545547 Score: 249
Period size: 40 Copynumber: 4.3 Consensus size: 40
23545366 GCTCCTCGTT
* * *
23545376 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGAGACTTAACCCGGATT-TAGTAACTCGCA
23545416 CAAATGCCTTCGAGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGAGACTTAACCCGGATTTAGTAACTCGCA
23545456 CAAATGCCTTCGAGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGAGACTTAACCCGGATTTAGTAACTCGCA
* * * * *
23545496 CCAATGCCTTCG-GGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGAGACTTAACCCGGATTTAGTAACTCGCA
23545535 CAAATGCCTTCGA
1 CAAATGCCTTCGA
23545548 ATCTTAGTCC
Statistics
Matches: 121, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
39 34 0.28
40 85 0.70
41 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGAGACTTAACCCGGATTTAGTAACTCGCA
Found at i:23545584 original size:79 final size:78
Alignment explanation
Indices: 23545376--23545600 Score: 236
Period size: 79 Copynumber: 2.8 Consensus size: 78
23545366 GCTCCTCGTT
* * * * * * *
23545376 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGG
1 CAAATGCCTTCGAGACTTAACCCGGATATAGTAACTAGCACAAA-GCCTTCG-GGCTTAGCCCGG
*
23545441 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* * *
23545456 CAAATGCCTTCGAGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGGCTTAGCCCGGA
1 CAAATGCCTTCGAGACTTAACCCGGATATAGTAACTAGCA-CAAAGCCTTCGGGCTTAGCCCGGA
*
23545521 ATTAGTATCTCGCA
65 ATTAGTAACTCGCA
** * **
23545535 CAAATGCCTTCGA-ATCTTAGTCCGGATATGGTCGCTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGAGA-CTTAACCCGGATATAGTAAC-TAGCACAAAGCCTTCGGG-CTTAGCCCG
23545599 GA
63 GA
23545601 CATCATTCAA
Statistics
Matches: 123, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
79 62 0.50
80 57 0.46
81 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (78 bp):
CAAATGCCTTCGAGACTTAACCCGGATATAGTAACTAGCACAAAGCCTTCGGGCTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:23545584 original size:119 final size:120
Alignment explanation
Indices: 23545378--23545600 Score: 283
Period size: 119 Copynumber: 1.9 Consensus size: 120
23545368 TCCTCGTTCA
*
23545378 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGAT
* *
23545443 TTAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTAGCACAAATGCCTTCGAGACTTAACCCGGATTTAGTAACTCGCACC
* * **
23545498 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTCGA-ATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGAGA-CTTAACCCGG
* ** * *
23545560 ATATGGTCGCTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
64 ATATAGTAAC-TAGCACAAATGCCTTCGAGACTTAACCCGGA
23545601 CATCATTCAA
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
118 2 0.02
119 66 0.75
120 20 0.23
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGAT
ATAGTAACTAGCACAAATGCCTTCGAGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:23553863 original size:40 final size:40
Alignment explanation
Indices: 23553317--23553847 Score: 999
Period size: 40 Copynumber: 13.3 Consensus size: 40
23553307 GCTCCTCGTT
* * * *
23553317 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCTGGATTTAGTAACTCGCA
23553357 CAAATGCCTTCGGGACTTAACCTGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCTGGATTTAGTAACTCGCA
23553397 CAAATGCCTTCGGGACTTAACCTGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCTGGATTTAGTAACTCGCA
23553437 CAAATGCCTTCGGGACTTAACCTGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCTGGATTTAGTAACTCGCA
23553477 CAAATGCCTTCGGGACTTAACCTGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCTGGATTTAGTAACTCGCA
23553517 CAAATGCCTTCGGGACTTAACCTGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCTGGATTTAGTAACTCGCA
23553557 CAAATGCCTTCGGGACTTAACCTGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCTGGATTTAGTAACTCGCA
23553597 CAAATGCCTTCGGGACTTAACCTGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCTGGATTTAGTAACTCGCA
23553637 CAAATGCCTTCGGGACTTAACCTGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCTGGATTTAGTAACTCGCA
23553677 CAAATGCCTTCGGGACTTAACCTGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCTGGATTTAGTAACTCGCA
23553717 CAAATGCCTTCGGGACTTAACCTGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCTGGATTTAGTAACTCGCA
*
23553757 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCTGGATTTAGTAACTCGCA
* *
23553797 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCTGGATTTAGTAACTCGCA
23553837 CAAATGCCTTC
1 CAAATGCCTTC
23553848 AGATCTTAGT
Statistics
Matches: 485, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 485 1.00
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCTGGATTTAGTAACTCGCA
Found at i:23554400 original size:24 final size:24
Alignment explanation
Indices: 23554368--23554423 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
23554358 ATAACGAAAA
*
23554368 TTAATTAAGCTATAAATAACTAAT
1 TTAACTAAGCTATAAATAACTAAT
23554392 TTAACTAAGCTATAAATAACTAAT
1 TTAACTAAGCTATAAATAACTAAT
23554416 TTAACTAA
1 TTAACTAA
23554424 CTCAATTAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.50, C:0.11, G:0.04, T:0.36
Consensus pattern (24 bp):
TTAACTAAGCTATAAATAACTAAT
Found at i:23556146 original size:40 final size:39
Alignment explanation
Indices: 23556102--23556313 Score: 228
Period size: 40 Copynumber: 5.3 Consensus size: 39
23556092 GGACTAAGAT
23556102 CCGAAGGCATTTGTGCGAGATACAAATTCCAGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACAAA-TCCAGGTTAAGCC
* *
23556142 CCGAAGGCCTTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACAAA-TCCAGGTTAAGCC
* *
23556182 CCGAAGGCCTTTGTGCGAGATACTAAATCCAGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATCCAGGTTAAGCC
* * * * *
23556222 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATA-CAAATCCAGGTTAAGCC
* * * * * * *
23556262 CCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATCCAGGTTAAGCC
23556301 CCGAAGGCATTTG
1 CCGAAGGCATTTG
23556314 AACGAGGAGC
Statistics
Matches: 153, Mismatches: 15, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
39 32 0.21
40 118 0.77
41 3 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACAAATCCAGGTTAAGCC
Found at i:23556195 original size:80 final size:80
Alignment explanation
Indices: 23556102--23556311 Score: 255
Period size: 80 Copynumber: 2.6 Consensus size: 80
23556092 GGACTAAGAT
* *
23556102 CCGAAGGCATTTGTGCGAGATAC-AAATTCCAGGTTAAGCCCCGAAGGCCTTTGTGCGAGATA-C
1 CCGAAGGCATTTGTGCGAGATACTAAA-TCCAGGTTAAGCCCCGAAGGCATTCGTGCGAGATATC
23556165 AAATTCCGGGTTAAGCC
65 AAA-TCCGGGTTAAGCC
* * * *
23556182 CCGAAGGCCTTTGTGCGAGATACTAAATCCAGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCAGGTTAAGCCCCGAAGGCATTCGTGCGAGATATCA
*
23556247 AATCCGGGTTAAGTC
66 AATCCGGGTTAAGCC
* * * * * * *
23556262 CCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 CCGAAGGCATTTGTGCGAGATACTAAATCCAGGTTAAGCCCCGAAGGCATT
23556312 TGAACGAGGA
Statistics
Matches: 114, Mismatches: 14, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
79 35 0.31
80 73 0.64
81 6 0.05
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (80 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCAGGTTAAGCCCCGAAGGCATTCGTGCGAGATATCA
AATCCGGGTTAAGCC
Found at i:23556331 original size:79 final size:80
Alignment explanation
Indices: 23556102--23556346 Score: 189
Period size: 80 Copynumber: 3.1 Consensus size: 80
23556092 GGACTAAGAT
* * * * * **
23556102 CCGAAGG-CATTTGTGCGAGATAC-AAATTCCAGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-A
1 CCGAAGGCCA-TTGTGCGAGATACTAAA-ACCAGGCTAAGTCCCGAAGGCATTCGAACGAG-TGA
*
23556164 C-AAATTCCGGGTTAAGCC
63 CTAAA-TCCGGGTTAAGTC
* * * ** * *
23556182 CCGAAGGCCTTTGTGCGAGATACTAAATCCAGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTA
1 CCGAAGGCCATTGTGCGAGATACTAAAACCAGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTA
23556247 AATCCGGGTTAAGTC
66 AATCCGGGTTAAGTC
* * * * *
23556262 CCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCT
1 CCGAAGGCCATTGTGCGAGATACTAAAACCAGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CT
* *
23556325 ATATCC-GGTTAAATC
65 AAATCCGGGTTAAGTC
*
23556340 TCGAAGG
1 CCGAAGG
23556347 TACGTGATTT
Statistics
Matches: 139, Mismatches: 21, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
78 15 0.11
79 48 0.35
80 69 0.50
81 7 0.05
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (80 bp):
CCGAAGGCCATTGTGCGAGATACTAAAACCAGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTA
AATCCGGGTTAAGTC
Found at i:23565479 original size:40 final size:39
Alignment explanation
Indices: 23565435--23565558 Score: 167
Period size: 40 Copynumber: 3.1 Consensus size: 39
23565425 TACTCGCTCG
*
23565435 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCACACC
1 AATGCCTTCGGGAC-TAGCCCGGATATAGTAACTCACACA
* *
23565475 AATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACA
1 AATGCCTTCGGGAC-TAGCCCGGATATAGTAACTCACACA
* * *
23565515 AATGCCTTCGAGACTGAGCCCGGATATAGTAGCTCGCACA
1 AATGCCTTCGGGACT-AGCCCGGATATAGTAACTCACACA
23565555 AATG
1 AATG
23565559 GTAGCTCGCA
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
39 1 0.01
40 77 0.99
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.21
Consensus pattern (39 bp):
AATGCCTTCGGGACTAGCCCGGATATAGTAACTCACACA
Found at i:23565564 original size:16 final size:16
Alignment explanation
Indices: 23565543--23565574 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
23565533 CCCGGATATA
23565543 GTAGCTCGCACAAATG
1 GTAGCTCGCACAAATG
23565559 GTAGCTCGCACAAATG
1 GTAGCTCGCACAAATG
23565575 CCTTCGGGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.25, G:0.25, T:0.19
Consensus pattern (16 bp):
GTAGCTCGCACAAATG
Found at i:23565607 original size:56 final size:56
Alignment explanation
Indices: 23565503--23565614 Score: 170
Period size: 56 Copynumber: 2.0 Consensus size: 56
23565493 CCCGGATATA
* *
23565503 GTAGCTCGCACAAATGCCTTCGAGACTGAGCCCGGATATAGTAGCTCGCACAAATG
1 GTAGCTCGCACAAATGCCTTCGAGACTGAGCCCGGATATAATAACTCGCACAAATG
* * * *
23565559 GTAGCTCGCACAAATGCCTTCGGGACTTAGCCTGGATGTAATAACTCGCACAAATG
1 GTAGCTCGCACAAATGCCTTCGAGACTGAGCCCGGATATAATAACTCGCACAAATG
23565615 CCTTCGGGAC
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.21
Consensus pattern (56 bp):
GTAGCTCGCACAAATGCCTTCGAGACTGAGCCCGGATATAATAACTCGCACAAATG
Found at i:23565618 original size:40 final size:40
Alignment explanation
Indices: 23565563--23565714 Score: 207
Period size: 40 Copynumber: 3.8 Consensus size: 40
23565553 CAAATGGTAG
* ** * *
23565563 CTCGCACAAATGCCTTCGGGACTTAGCCTGGATGTAATAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAGTCA
23565603 CTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAGTCA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAGTCA
* * *
23565643 CTAGCGCAAAAGCCTTCGGGACTTAGCCCGGAACTAGTCA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAGTCA
23565683 CTAGCGCA-AAATGCCTTCGGGACTTAGCCCGG
1 CT--CGCACAAATGCCTTCGGGACTTAGCCCGG
23565715 TTATCATCCA
Statistics
Matches: 99, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
40 74 0.75
41 23 0.23
42 2 0.02
ACGTcount: A:0.26, C:0.30, G:0.24, T:0.20
Consensus pattern (40 bp):
CTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAGTCA
Found at i:23567653 original size:48 final size:48
Alignment explanation
Indices: 23567601--23567816 Score: 226
Period size: 48 Copynumber: 4.5 Consensus size: 48
23567591 GTGCCTGTAA
*
23567601 AAGACCATGTCTAGGACATGGCATCGACATTGATATGTGTGCTAGTGT
1 AAGACCATGTCTAGGACATGGCATCGACATTGATATGTGTGCCAGTGT
* * * * *
23567649 AAGACCATGTCTAGTACATGGCATCGGCGTCGATATGTGTGCCAATGT
1 AAGACCATGTCTAGGACATGGCATCGACATTGATATGTGTGCCAGTGT
* ** *
23567697 AAGACTATGTCTAGGACATGGCATC-AGTGTTGATATGTGTGCCGGTGT
1 AAGACCATGTCTAGGACATGGCATCGA-CATTGATATGTGTGCCAGTGT
* * * *
23567745 AAGACCATGTTTGGGACATGGCATCGGCGA-TGATATGTG-GATTCA-TGT
1 AAGACCATGTCTAGGACATGGCATCGAC-ATTGATATGTGTG--CCAGTGT
23567793 AAGACCATGTC-AGGGACATGGCAT
1 AAGACCATGTCTA-GGACATGGCAT
23567817 TGGTACTTTA
Statistics
Matches: 139, Mismatches: 23, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
47 1 0.01
48 137 0.99
49 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (48 bp):
AAGACCATGTCTAGGACATGGCATCGACATTGATATGTGTGCCAGTGT
Found at i:23567754 original size:96 final size:95
Alignment explanation
Indices: 23567601--23567816 Score: 269
Period size: 96 Copynumber: 2.3 Consensus size: 95
23567591 GTGCCTGTAA
* *
23567601 AAGACCATGTCTAGGACATGGCATCGACATTGATATGTGTGCTAGTGTAAGACCATGTCTAGTAC
1 AAGACCATGTCTAGGACATGGCATCGACATTGATATGTGTGCCAGTGTAAGACCATGTCTAGGAC
23567666 ATGGCATCGGCG-TCGATATGTGTG-CCAATGT
66 ATGGCATCGGCGAT-GATATGTG-GACC-ATGT
* ** * * *
23567697 AAGACTATGTCTAGGACATGGCATC-AGTGTTGATATGTGTGCCGGTGTAAGACCATGTTTGGGA
1 AAGACCATGTCTAGGACATGGCATCGA-CATTGATATGTGTGCCAGTGTAAGACCATGTCTAGGA
*
23567761 CATGGCATCGGCGATGATATGTGGATTCATGT
65 CATGGCATCGGCGATGATATGTGGA-CCATGT
23567793 AAGACCATGTC-AGGGACATGGCAT
1 AAGACCATGTCTA-GGACATGGCAT
23567817 TGGTACTTTA
Statistics
Matches: 105, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
95 3 0.03
96 100 0.95
97 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (95 bp):
AAGACCATGTCTAGGACATGGCATCGACATTGATATGTGTGCCAGTGTAAGACCATGTCTAGGAC
ATGGCATCGGCGATGATATGTGGACCATGT
Found at i:23570342 original size:45 final size:45
Alignment explanation
Indices: 23570213--23570343 Score: 156
Period size: 45 Copynumber: 2.9 Consensus size: 45
23570203 TGGGGCTTAA
* * * * * *
23570213 TATTCTTGTATTCTCGAGTCCGAAACATATACAAGATCTCGGAACC
1 TATTC-TGTATTCTCGAGTCTGCAACATATGCAGGAGCTTGGAACC
* *
23570259 TAATCCTGTA-TCTCGAGTCTGCAACATATGTAGGAGCTTGGAACC
1 T-ATTCTGTATTCTCGAGTCTGCAACATATGCAGGAGCTTGGAACC
*
23570304 TATTCTGTATTCTCGAGTTTGCAACATATGCAGGAGCTTG
1 TATTCTGTATTCTCGAGTCTGCAACATATGCAGGAGCTTG
23570344 AGACCTAGGC
Statistics
Matches: 72, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
44 7 0.10
45 57 0.79
46 5 0.07
47 3 0.04
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (45 bp):
TATTCTGTATTCTCGAGTCTGCAACATATGCAGGAGCTTGGAACC
Found at i:23575700 original size:46 final size:46
Alignment explanation
Indices: 23575586--23575689 Score: 129
Period size: 46 Copynumber: 2.3 Consensus size: 46
23575576 AATATTCATG
* * * *
23575586 TATTCTCAAGTTCACAACATATACAAGAACTCGGAACCTGATCCCA
1 TATTCTCGAGTCCACAACATATGCAAGAACTCGGAACCTAATCCCA
* * *
23575632 TATTCTTGAGTCCACAACATATGCAAGAGCTTGGAACCTAATCCTC-
1 TATTCTCGAGTCCACAACATATGCAAGAACTCGGAACCTAATCC-CA
23575678 TATTCTCGAGTC
1 TATTCTCGAGTC
23575690 TGCAGCATAT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
46 48 0.98
47 1 0.02
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.28
Consensus pattern (46 bp):
TATTCTCGAGTCCACAACATATGCAAGAACTCGGAACCTAATCCCA
Found at i:23575908 original size:23 final size:23
Alignment explanation
Indices: 23575882--23575929 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
23575872 ATATACAAAC
23575882 ATAAACGAATAGATTCATAATGT
1 ATAAACGAATAGATTCATAATGT
23575905 ATAAACGAATAGATTCATAATGT
1 ATAAACGAATAGATTCATAATGT
23575928 AT
1 AT
23575930 GAACTTACCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.31
Consensus pattern (23 bp):
ATAAACGAATAGATTCATAATGT
Found at i:23577741 original size:27 final size:27
Alignment explanation
Indices: 23577710--23577817 Score: 114
Period size: 27 Copynumber: 4.0 Consensus size: 27
23577700 TTCTACCTTA
*
23577710 CAAGGGTATTTCGATAATTTTATGC-TAT
1 CAAGGGTATTTCGATAATTTTA--CAAAT
23577738 -AAGGGTATTTCGATAATTTTACAAAT
1 CAAGGGTATTTCGATAATTTTACAAAT
* *
23577764 CAAGGGTATTTCGGTAATTTTA-AAAA
1 CAAGGGTATTTCGATAATTTTACAAAT
** *
23577790 CTGGGGATATTTCGGTAATTTTACAAAT
1 CAAGGG-TATTTCGATAATTTTACAAAT
23577818 TGGGGTCTTA
Statistics
Matches: 70, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
25 1 0.01
26 9 0.13
27 57 0.81
28 3 0.04
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTCGATAATTTTACAAAT
Found at i:23580510 original size:25 final size:21
Alignment explanation
Indices: 23580464--23580505 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
23580454 GAAGATGACA
23580464 ACTAAAACTTTGTTTTTCTTT
1 ACTAAAACTTTGTTTTTCTTT
23580485 ACTAAAACTTTGTTTTTCTTT
1 ACTAAAACTTTGTTTTTCTTT
23580506 CTTTATCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.05, T:0.57
Consensus pattern (21 bp):
ACTAAAACTTTGTTTTTCTTT
Found at i:23583148 original size:22 final size:22
Alignment explanation
Indices: 23583123--23583170 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
23583113 ACTTTTACTT
23583123 TTTTTTATGTTAGCCACTTTAA
1 TTTTTTATGTTAGCCACTTTAA
23583145 TTTTTTATGTTAGCCACTTTAA
1 TTTTTTATGTTAGCCACTTTAA
23583167 TTTT
1 TTTT
23583171 CTATAATTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.21, C:0.12, G:0.08, T:0.58
Consensus pattern (22 bp):
TTTTTTATGTTAGCCACTTTAA
Found at i:23587626 original size:28 final size:26
Alignment explanation
Indices: 23587556--23587626 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 26
23587546 AGGGTGTAGA
* *
23587556 AGGCTTCGTGCCGGTGTATATATATC
1 AGGCTTAGTGCCGGTGTATATATAGC
* * *
23587582 AGGCTTTGTGCCAGTGTATATCTAGC
1 AGGCTTAGTGCCGGTGTATATATAGC
*
23587608 AGTCATTAGTTGCCGGTGT
1 AGGC-TTAG-TGCCGGTGT
23587627 TTTCAATAGC
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 25 0.69
27 3 0.08
28 8 0.22
ACGTcount: A:0.18, C:0.18, G:0.28, T:0.35
Consensus pattern (26 bp):
AGGCTTAGTGCCGGTGTATATATAGC
Found at i:23593958 original size:50 final size:49
Alignment explanation
Indices: 23593896--23594017 Score: 208
Period size: 50 Copynumber: 2.4 Consensus size: 49
23593886 CAATGTCGTA
*
23593896 TCCCAGATATGGTCTTACATGGATTCACACATATCGATGCCAATGCCATG
1 TCCCAGACATGGTCTTACATGGA-TCACACATATCGATGCCAATGCCATG
*
23593946 TCCTAGACATGGTCTTACATGAGATCACACATATCGATGCCAATGCCATG
1 TCCCAGACATGGTCTTACATG-GATCACACATATCGATGCCAATGCCATG
23593996 TCCCAGACATGGTCTTACATGG
1 TCCCAGACATGGTCTTACATGG
23594018 GATCTCATAC
Statistics
Matches: 68, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
49 1 0.01
50 65 0.96
51 2 0.03
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (49 bp):
TCCCAGACATGGTCTTACATGGATCACACATATCGATGCCAATGCCATG
Found at i:23602544 original size:24 final size:23
Alignment explanation
Indices: 23602517--23602562 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
23602507 AATTTAAATA
23602517 ATTTAACATTAAACAAAAATAATT
1 ATTTAA-ATTAAACAAAAATAATT
* *
23602541 ATTTGAATTAAATAAAAATAAT
1 ATTTAAATTAAACAAAAATAAT
23602563 CAAATACACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (23 bp):
ATTTAAATTAAACAAAAATAATT
Found at i:23604235 original size:21 final size:22
Alignment explanation
Indices: 23604189--23604236 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 22
23604179 CCATTTCCAG
*
23604189 AATAACATCAAATTTGTCAAAGGA
1 AATAACATCAAATTAGT--AAGGA
23604213 AATAACATCAAATTAGT-AGGA
1 AATAACATCAAATTAGTAAGGA
23604234 AAT
1 AAT
23604237 TCATAACCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 7 0.30
24 16 0.70
ACGTcount: A:0.52, C:0.10, G:0.12, T:0.25
Consensus pattern (22 bp):
AATAACATCAAATTAGTAAGGA
Found at i:23609060 original size:6 final size:6
Alignment explanation
Indices: 23609042--23609142 Score: 91
Period size: 6 Copynumber: 16.3 Consensus size: 6
23609032 AAGAAACATT
*
23609042 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGT ATCAGGTA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
* * *
23609092 A-CAGA ATCAAA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAAA ATCAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATC-AGA ATCAGA
23609141 AT
1 AT
23609143 GTGAATGCAA
Statistics
Matches: 78, Mismatches: 8, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
5 5 0.06
6 59 0.76
7 12 0.15
8 2 0.03
ACGTcount: A:0.50, C:0.16, G:0.16, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:23609100 original size:31 final size:31
Alignment explanation
Indices: 23609062--23609142 Score: 144
Period size: 31 Copynumber: 2.6 Consensus size: 31
23609052 GAATCAGAAT
*
23609062 CAGAATCAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAGTATCAGGTAA
23609093 CAGAATCAAAATCAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAGTATCAGGTAA
23609124 CAGAATCAAAAATCAGAAT
1 CAGAATC-AAAATCAGAAT
23609143 GTGAATGCAA
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
31 37 0.77
32 11 0.23
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.19
Consensus pattern (31 bp):
CAGAATCAAAATCAGAATCAGTATCAGGTAA
Found at i:23609320 original size:27 final size:26
Alignment explanation
Indices: 23609278--23609379 Score: 114
Period size: 27 Copynumber: 3.8 Consensus size: 26
23609268 GCTCAGTTAT
* * *
23609278 CAGATATTATGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
*
23609305 CAGATATTGTGGCAGAGCCACTAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
23609331 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
23609359 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
23609380 TTAACAGAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
26 7 0.11
27 50 0.77
28 8 0.12
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:23609405 original size:54 final size:54
Alignment explanation
Indices: 23609296--23609397 Score: 127
Period size: 54 Copynumber: 1.9 Consensus size: 54
23609286 ATGACAGAGT
* * * ** *
23609296 CACCAGATACAGATATTGTGGCAGAGCCACTAGAACAGATATTTGTGGCATAGC
1 CACCAGAAACAGATAATGTGGCAAAGCCACTAGAACAGATATACGTGGCAAAGC
*
23609350 CACCAGAAACAGATAATGTGGCAAAGCCACT-TAACAGA-ATACGTGGCA
1 CACCAGAAACAGATAATGTGGCAAAGCCACTAGAACAGATATACGTGGCA
23609398 CAAAGCCATT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
52 8 0.19
53 6 0.14
54 28 0.67
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.19
Consensus pattern (54 bp):
CACCAGAAACAGATAATGTGGCAAAGCCACTAGAACAGATATACGTGGCAAAGC
Found at i:23610085 original size:27 final size:27
Alignment explanation
Indices: 23610046--23610249 Score: 293
Period size: 27 Copynumber: 7.6 Consensus size: 27
23610036 TACCCCATAA
* * *
23610046 GGTATCTCGGTAATTCCACCCTACAGG
1 GGTATTTCGATAATTCTACCCTACAGG
*
23610073 GGTATTT-TAGTAATTCTACCCTACAGG
1 GGTATTTCGA-TAATTCTACCCTACAGG
23610100 GGTATTTCGATAATTCTACCCTACAGG
1 GGTATTTCGATAATTCTACCCTACAGG
* *
23610127 GGTATTGCGATAATTCTACCCTATAGG
1 GGTATTTCGATAATTCTACCCTACAGG
*
23610154 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGATAATTCTACCCTACAGG
23610181 GGTATTTCGATAATTCTACCCTACAGG
1 GGTATTTCGATAATTCTACCCTACAGG
* * * *
23610208 AGTATTCCGATAATTCTAACCTACAAG
1 GGTATTTCGATAATTCTACCCTACAGG
23610235 GGTATTTCGATAATT
1 GGTATTTCGATAATT
23610250 TCAAAAATCA
Statistics
Matches: 158, Mismatches: 17, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
27 157 0.99
28 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.33
Consensus pattern (27 bp):
GGTATTTCGATAATTCTACCCTACAGG
Found at i:23610276 original size:81 final size:81
Alignment explanation
Indices: 23610094--23610268 Score: 244
Period size: 81 Copynumber: 2.2 Consensus size: 81
23610084 AATTCTACCC
* * * * *
23610094 TACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTGCGATAATTCTACCCTATAGGGGTAT
1 TACAGGGGTATTTCGATAATTCTACCCTACAGGAGTATTCCGATAATTCTAACCTACAAGGGTAT
* * ***
23610159 TTCGGTAATTCTACCC
66 TTCGATAATTCAAAAA
23610175 TACAGGGGTATTTCGATAATTCTACCCTACAGGAGTATTCCGATAATTCTAACCTACAAGGGTAT
1 TACAGGGGTATTTCGATAATTCTACCCTACAGGAGTATTCCGATAATTCTAACCTACAAGGGTAT
23610240 TTCGATAATTTCAAAAA
66 TTCGATAA-TTCAAAAA
23610257 T-CAGGGGTATTT
1 TACAGGGGTATTT
23610269 TGGTAATTTT
Statistics
Matches: 83, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
81 78 0.94
82 5 0.06
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (81 bp):
TACAGGGGTATTTCGATAATTCTACCCTACAGGAGTATTCCGATAATTCTAACCTACAAGGGTAT
TTCGATAATTCAAAAA
Found at i:23610294 original size:81 final size:81
Alignment explanation
Indices: 23610094--23610294 Score: 217
Period size: 81 Copynumber: 2.5 Consensus size: 81
23610084 AATTCTACCC
** * * * *
23610094 TACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTGCGATAATTCTACCCTATAGGGGTAT
1 TACAGGGGTATTTCGATAATTCTACCAAACAGGGGTATTCCGATAATTCTAACCTACAAGGGTAT
* * ***
23610159 TTCGGTAATTCTACCC
66 TTCGATAATTCAAAAA
** *
23610175 TACAGGGGTATTTCGATAATTCTACCCTACAGGAGTATTCCGATAATTCTAACCTACAAGGGTAT
1 TACAGGGGTATTTCGATAATTCTACCAAACAGGGGTATTCCGATAATTCTAACCTACAAGGGTAT
23610240 TTCGATAATTTCAAAAA
66 TTCGATAA-TTCAAAAA
* * *
23610257 T-CAGGGGTATTTTGGTAATTTTA-CAAACCAGGGGTATT
1 TACAGGGGTATTTCGATAATTCTACCAAA-CAGGGGTATT
23610295 TTGGTAATTT
Statistics
Matches: 102, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
80 2 0.02
81 95 0.93
82 5 0.05
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (81 bp):
TACAGGGGTATTTCGATAATTCTACCAAACAGGGGTATTCCGATAATTCTAACCTACAAGGGTAT
TTCGATAATTCAAAAA
Found at i:23610322 original size:25 final size:27
Alignment explanation
Indices: 23610234--23610357 Score: 117
Period size: 27 Copynumber: 4.7 Consensus size: 27
23610224 TAACCTACAA
* * * * *
23610234 GGGTATTTCGATAATTTCAAAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
23610261 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
23610288 GGGTATTTTGGTAATTTTA-GATCGA-
1 GGGTATTTTGGTAATTTTACAAACCAG
** * *
23610313 GGGTATTTTGGTAATTTTGTAAACAAT
1 GGGTATTTTGGTAATTTTACAAACCAG
*
23610340 GGGTATTTTAGTAATTTT
1 GGGTATTTTGGTAATTTT
23610358 GTAAATTGAG
Statistics
Matches: 82, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
25 18 0.22
26 6 0.07
27 58 0.71
ACGTcount: A:0.29, C:0.06, G:0.23, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:23610357 original size:27 final size:26
Alignment explanation
Indices: 23610261--23610398 Score: 118
Period size: 27 Copynumber: 5.2 Consensus size: 26
23610251 CAAAAATCAG
** *
23610261 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTGTAAA-CAA
* *
23610288 GGGTATTTTGGTAA-TTT-TAGATCGA
1 GGGTATTTTGGTAATTTTGTA-AACAA
23610313 GGGTATTTTGGTAATTTTGTAAACAA
1 GGGTATTTTGGTAATTTTGTAAACAA
* **
23610339 TGGGTATTTTAGTAATTTTGTAAATTGA
1 -GGGTATTTTGGTAATTTTGTAAA-CAA
** *
23610367 GGGTAAATTGGTAATTCTGTAAATCAA
1 GGGTATTTTGGTAATTTTGTAAA-CAA
23610394 GGGTA
1 GGGTA
23610399 AGACGGTAAT
Statistics
Matches: 91, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
25 16 0.18
26 10 0.11
27 64 0.70
28 1 0.01
ACGTcount: A:0.30, C:0.05, G:0.25, T:0.41
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTGTAAACAA
Found at i:23610399 original size:27 final size:27
Alignment explanation
Indices: 23610295--23610506 Score: 159
Period size: 27 Copynumber: 7.9 Consensus size: 27
23610285 CAGGGGTATT
* **
23610295 TTGGTAATT-T-TAGATCGAGGGTATT
1 TTGGTAATTCTGTAAATCGAGGGTAAA
* * **
23610320 TTGGTAATTTTGTAAA-CAATGGGTATT
1 TTGGTAATTCTGTAAATCGA-GGGTAAA
* * *
23610347 TTAGTAATTTTGTAAATTGAGGGTAAA
1 TTGGTAATTCTGTAAATCGAGGGTAAA
*
23610374 TTGGTAATTCTGTAAATCAAGGGTAAGA
1 TTGGTAATTCTGTAAATCGAGGGTAA-A
*
23610402 -CGGTAATTCTGTAAATCGAGGGTAAA
1 TTGGTAATTCTGTAAATCGAGGGTAAA
* *
23610428 ATGGTAATTCTATAAATCGAGGGTAAA
1 TTGGTAATTCTGTAAATCGAGGGTAAA
* * * **
23610455 ATAGTAATTCTATAAATC-AGGGGTACT
1 TTGGTAATTCTGTAAATCGA-GGGTAAA
23610482 TTGGTAATT-T-TACAAGTCGAGGGTA
1 TTGGTAATTCTGTA-AA-TCGAGGGTA
23610507 TTTCAATAAT
Statistics
Matches: 157, Mismatches: 20, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
25 11 0.07
26 8 0.05
27 135 0.86
28 3 0.02
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (27 bp):
TTGGTAATTCTGTAAATCGAGGGTAAA
Found at i:23610488 original size:81 final size:81
Alignment explanation
Indices: 23610350--23610506 Score: 183
Period size: 81 Copynumber: 1.9 Consensus size: 81
23610340 GGGTATTTTA
* * * * * *
23610350 GTAATTTTGTAAATTGAGGGTAAATTGGTAATTCTGTAAATCAAGGGTAAGACGGTAATTCTGTA
1 GTAATTCTATAAATCGAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAGACGGTAATT-T-TA
23610415 -AA-TCGAGGGTAAAATG
64 CAAGTCGAGGGTAAAATG
* ****
23610431 GTAATTCTATAAATCGAGGGTAAAATAGTAATTCTATAAATCAGGGGTACTTTGGTAATTTTACA
1 GTAATTCTATAAATCGAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAGACGGTAATTTTACA
23610496 AGTCGAGGGTA
66 AGTCGAGGGTA
23610507 TTTCAATAAT
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
79 2 0.03
80 3 0.05
81 58 0.92
ACGTcount: A:0.36, C:0.08, G:0.24, T:0.32
Consensus pattern (81 bp):
GTAATTCTATAAATCGAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAGACGGTAATTTTACA
AGTCGAGGGTAAAATG
Found at i:23610516 original size:27 final size:27
Alignment explanation
Indices: 23610486--23610550 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
23610476 GGTACTTTGG
23610486 TAATTTTACAAGTCGAGGGTATTTCAA
1 TAATTTTACAAGTCGAGGGTATTTCAA
* *
23610513 TAATTTTACAGGTCGAGGGTATTTCAG
1 TAATTTTACAAGTCGAGGGTATTTCAA
*
23610540 TAATTTCACAA
1 TAATTTTACAA
23610551 ATTAGGGGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.37
Consensus pattern (27 bp):
TAATTTTACAAGTCGAGGGTATTTCAA
Found at i:23610559 original size:27 final size:27
Alignment explanation
Indices: 23610529--23610589 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
23610519 TACAGGTCGA
*
23610529 GGGTATTTCAGTAATTTCACAAATTAG
1 GGGTATTTCAGTAATTTCACAAACTAG
** *
23610556 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTCAGTAATTTCACAAACTAG
23610583 GGGTATT
1 GGGTATT
23610590 CTGGTAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.30, C:0.08, G:0.23, T:0.39
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTCACAAACTAG
Found at i:23610594 original size:27 final size:27
Alignment explanation
Indices: 23610539--23610599 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
23610529 GGGTATTTCA
* *
23610539 GTAATTTCACAAATTAGGGGTATTTTG
1 GTAATTTCACAAACTAGGGGTATTCTG
*
23610566 GTAATTTTACAAACTAGGGGTATTCTG
1 GTAATTTCACAAACTAGGGGTATTCTG
23610593 GTAATTT
1 GTAATTT
23610600 GGTAAACTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (27 bp):
GTAATTTCACAAACTAGGGGTATTCTG
Found at i:23614695 original size:53 final size:53
Alignment explanation
Indices: 23614513--23614719 Score: 180
Period size: 53 Copynumber: 3.8 Consensus size: 53
23614503 ATTAGGGTTT
* * * * * * * *
23614513 AAGGATACAAAGTAAGACCATGCCAAGGCATGACATTGGTGAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGC
* * * * * * *
23614567 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACGATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * * *
23614622 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
** * *
23614675 AAGGATACCACATAAGACCATGTCAAGACATGGAAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
23614720 TAAAAAGGAA
Statistics
Matches: 119, Mismatches: 32, Indels: 5
0.76 0.21 0.03
Matches are distributed among these distances:
53 44 0.37
54 36 0.30
55 39 0.33
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.20
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:23615939 original size:17 final size:16
Alignment explanation
Indices: 23615907--23615937 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23615897 TGAATGCGAG
*
23615907 AAAATTAAATTTTTTA
1 AAAAGTAAATTTTTTA
23615923 AAAAGTAAATTTTTT
1 AAAAGTAAATTTTTT
23615938 TATGCCCCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
AAAAGTAAATTTTTTA
Found at i:23622808 original size:40 final size:40
Alignment explanation
Indices: 23622725--23622987 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
23622715 TTGAATGCTG
* * * * * *
23622725 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
23622765 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
23622805 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
23622845 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
23622885 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
23622925 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
23622964 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
23622988 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:23623007 original size:79 final size:80
Alignment explanation
Indices: 23622764--23623022 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
23622754 AAGTGAATAT
* * * * * *
23622764 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
23622828 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
23622844 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
23622909 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
23622924 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
23622988 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
23623003 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
23623023 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:23624378 original size:26 final size:27
Alignment explanation
Indices: 23624313--23624386 Score: 105
Period size: 27 Copynumber: 2.8 Consensus size: 27
23624303 CATACATATT
** *
23624313 ATAGGGGTATATTAGTCATTTTACTTC
1 ATAGGGGTATAACAGTCATTTTACCTC
23624340 ATAGGGGTATAACAGTCATTTTACCTC
1 ATAGGGGTATAACAGTCATTTTACCTC
*
23624367 A-AGGGGTATAACAATCATTT
1 ATAGGGGTATAACAGTCATTT
23624387 CATCAAACTG
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
26 18 0.42
27 25 0.58
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (27 bp):
ATAGGGGTATAACAGTCATTTTACCTC
Found at i:23634230 original size:40 final size:39
Alignment explanation
Indices: 23634132--23634354 Score: 241
Period size: 40 Copynumber: 5.6 Consensus size: 39
23634122 TCCTCGTTCA
* * * * *
23634132 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* *
23634171 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
23634210 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* *
23634250 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* * * * * *
23634290 AAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCAC
* *
23634331 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
23634355 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
Found at i:23634354 original size:120 final size:119
Alignment explanation
Indices: 23634132--23634354 Score: 272
Period size: 120 Copynumber: 1.9 Consensus size: 119
23634122 TCCTCGTTCA
* * * *
23634132 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
* *
23634197 TAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
66 TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * *
23634251 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CATAACCCGGA
* *
23634315 TATATTC-ACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
64 TATA-ACAAC-TAGCACGAAAGCCTTCGGGACTTAACCCGGA
23634355 CAGCATTCAA
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
119 37 0.43
120 44 0.51
121 6 0.07
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:23642142 original size:40 final size:39
Alignment explanation
Indices: 23642044--23642266 Score: 259
Period size: 40 Copynumber: 5.6 Consensus size: 39
23642034 TCCTCGTTCA
* * * * *
23642044 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
*
23642083 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
23642122 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* *
23642162 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* * * * * *
23642202 AAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCAC
*
23642243 AAAGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
23642267 CAGCATTCAA
Statistics
Matches: 163, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
39 38 0.23
40 117 0.72
41 8 0.05
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
Found at i:23642266 original size:120 final size:119
Alignment explanation
Indices: 23642044--23642266 Score: 288
Period size: 120 Copynumber: 1.9 Consensus size: 119
23642034 TCCTCGTTCA
* * * *
23642044 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
* *
23642109 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
66 TAATAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * *
23642163 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CATAACCCGGA
* *
23642227 TATATTCACTTAGCAC-AAAGCCTTCGGGACTTAACCCGGA
64 TATAATAAC-TAGCACGAAAGCCTTCGGGACTTAACCCGGA
23642267 CAGCATTCAA
Statistics
Matches: 88, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
119 37 0.42
120 46 0.52
121 5 0.06
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
TAATAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:23642275 original size:41 final size:41
Alignment explanation
Indices: 23642198--23642275 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
23642188 TTAGTATCTC
* * *
23642198 GCACAAAGGCCTTCGGATCTTAATCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAACCCGGACACATTCACTTA
23642239 GCACAAA-GCCTTCGGGA-CTTAACCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAACCCGGACA-CATTCA
23642276 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAACCCGGACACATTCACTTA
Found at i:23650056 original size:40 final size:39
Alignment explanation
Indices: 23649958--23650180 Score: 241
Period size: 40 Copynumber: 5.6 Consensus size: 39
23649948 TCCTCGTTCA
* * * * *
23649958 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* *
23649997 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
23650036 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* *
23650076 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* * * * * *
23650116 AAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCAC
* *
23650157 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
23650181 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
Found at i:23650180 original size:120 final size:119
Alignment explanation
Indices: 23649958--23650180 Score: 272
Period size: 120 Copynumber: 1.9 Consensus size: 119
23649948 TCCTCGTTCA
* * * *
23649958 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
* *
23650023 TAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
66 TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * *
23650077 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CATAACCCGGA
* *
23650141 TATATTC-ACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
64 TATA-ACAAC-TAGCACGAAAGCCTTCGGGACTTAACCCGGA
23650181 CAGCATTCAA
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
119 37 0.43
120 44 0.51
121 6 0.07
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:23652296 original size:200 final size:200
Alignment explanation
Indices: 23651953--23652352 Score: 791
Period size: 200 Copynumber: 2.0 Consensus size: 200
23651943 GGATACGCAT
23651953 CGGTTCTTCTTCATAGCTCATGTCGACTTGAATTTCAACCTCCGATGGGCTAATTATGTGCGATG
1 CGGTTCTTCTTCATAGCTCATGTCGACTTGAATTTCAACCTCCGATGGGCTAATTATGTGCGATG
23652018 GATCAGATCGATAGCGTCGAAGCATCGAAACATGAAAGACGTCATGAATCTTTTCAAGCTCCGGG
66 GATCAGATCGATAGCGTCGAAGCATCGAAACATGAAAGACGTCATGAATCTTTTCAAGCTCCGGG
23652083 GGCAAAATCAATCTATACGCAACCGGACCAACTCGTTCGGAGATTTCGTACGGCCCAATGAATCT
131 GGCAAAATCAATCTATACGCAACCGGACCAACTCGTTCGGAGATTTCGTACGGCCCAATGAATCT
23652148 TGGGC
196 TGGGC
23652153 CGGTTCTTCTTCATAGCTCATGTCGACTTGAATTTCAACCTCCGATGGGCTAATTATGTGCGATG
1 CGGTTCTTCTTCATAGCTCATGTCGACTTGAATTTCAACCTCCGATGGGCTAATTATGTGCGATG
23652218 GATCAGATCGATAGCGTCGAAGCATCGAAACATGAAAGACGTCATGAATCTTTTCAAGCTCCGGG
66 GATCAGATCGATAGCGTCGAAGCATCGAAACATGAAAGACGTCATGAATCTTTTCAAGCTCCGGG
*
23652283 GGCAAAATCAATCTATACGCAATCGGACCAACTCGTTCGGAGATTTCGTACGGCCCAATGAATCT
131 GGCAAAATCAATCTATACGCAACCGGACCAACTCGTTCGGAGATTTCGTACGGCCCAATGAATCT
23652348 TGGGC
196 TGGGC
23652353 TCAACTTGCC
Statistics
Matches: 199, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
200 199 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (200 bp):
CGGTTCTTCTTCATAGCTCATGTCGACTTGAATTTCAACCTCCGATGGGCTAATTATGTGCGATG
GATCAGATCGATAGCGTCGAAGCATCGAAACATGAAAGACGTCATGAATCTTTTCAAGCTCCGGG
GGCAAAATCAATCTATACGCAACCGGACCAACTCGTTCGGAGATTTCGTACGGCCCAATGAATCT
TGGGC
Found at i:23658256 original size:40 final size:39
Alignment explanation
Indices: 23658160--23658380 Score: 237
Period size: 40 Copynumber: 5.6 Consensus size: 39
23658150 CTCGTTCAAG
* * * * *
23658160 TGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAA
1 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAA
* *
23658199 TGCCTTCGGGACATAACCCGGATTTAACAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC-AA
23658239 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC-AA
* *
23658279 TGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC-AA
* * * * * *
23658319 GGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCACAA
1 TGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACAA
* *
23658359 AGCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGACTTAACCCGGA
23658381 CAGCATTCAA
Statistics
Matches: 158, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 35 0.22
40 115 0.73
41 8 0.05
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (39 bp):
TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAA
Found at i:23666253 original size:39 final size:40
Alignment explanation
Indices: 23666208--23666392 Score: 178
Period size: 40 Copynumber: 4.7 Consensus size: 40
23666198 GCACCTCGTT
* * *
23666208 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
23666248 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
23666287 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * * * * *
23666327 CAAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAAC-TCGCA
* *
23666368 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAACCCGGA
23666393 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 37 0.30
40 74 0.61
41 11 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:23666308 original size:40 final size:39
Alignment explanation
Indices: 23666175--23666392 Score: 174
Period size: 40 Copynumber: 5.5 Consensus size: 39
23666165 AAATCACGTA
* * *
23666175 CCTTCGGGATTTAA-CCGGATATAGCACCTCGTTCA-AATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCG--CACAATG
* * * * *
23666214 CCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCACAATG
* *
23666253 CCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCAC-AATG
* * *
23666293 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCAC-AATG
* * * * *
23666333 CCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCACAAAG
1 CCTTCGGGA-CTTAACCCGGATTTA-GCAAC-TCGCACAATG
*
23666373 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
23666393 CAGCATTCAA
Statistics
Matches: 144, Mismatches: 28, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
38 2 0.01
39 48 0.33
40 86 0.60
41 8 0.06
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
CCTTCGGGACTTAACCCGGATTTAGCAACTCGCACAATG
Found at i:23670781 original size:68 final size:68
Alignment explanation
Indices: 23670631--23670781 Score: 155
Period size: 68 Copynumber: 2.2 Consensus size: 68
23670621 CTAGCCAATT
* * *
23670631 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACACATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACA
**
23670696 TTTA
65 CATA
* * *
23670700 TCTCTCCCGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTA
1 TATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTA
23670762 CTACATA
63 C-ACATA
23670769 GTATCTCGTAGCT
1 -TATCTCGTAGCT
23670782 TTCTAGTACA
Statistics
Matches: 68, Mismatches: 9, Indels: 11
0.77 0.10 0.12
Matches are distributed among these distances:
68 29 0.43
69 7 0.10
70 6 0.09
71 26 0.38
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.33
Consensus pattern (68 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACAC
ATA
Found at i:23674302 original size:27 final size:27
Alignment explanation
Indices: 23674272--23674427 Score: 206
Period size: 27 Copynumber: 5.8 Consensus size: 27
23674262 ATTACCAAAG
*
23674272 TACCCCCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
23674299 TACCCTCAATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
23674326 TACCCTTGATTTACAGAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
* **
23674353 TACCCTCGATTTATAGAATTACTACTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
23674380 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
23674407 TACCCTCGATTTACAAAATTA
1 TACCCTCGATTTACAGAATTA
23674428 GTAAAATACC
Statistics
Matches: 109, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
26 1 0.01
27 107 0.98
28 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:23674319 original size:54 final size:54
Alignment explanation
Indices: 23674279--23674455 Score: 248
Period size: 54 Copynumber: 3.3 Consensus size: 54
23674269 AAGTACCCCC
* *
23674279 GATTTACAGAATTACTGTTTTACCCTCAATTTATAGAATTACTATTTTACCCTT
1 GATTTACAGAATTACTGTTTTACCCTCGATTTATAGAATTACTAATTTACCCTT
*
23674333 GATTTACAGAATTA-TCGTTTTACCCTCGATTTATAGAATTACTACTTTACCCTT
1 GATTTACAGAATTACT-GTTTTACCCTCGATTTATAGAATTACTAATTTACCCTT
* * * **
23674387 GATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTAGTAAAATACCCTT
1 GATTTACAGAATTACTGTTTTACCCTCGATTTATAGAATTACTAATTTACCCTT
* *
23674441 GGTTTACAAAATTAC
1 GATTTACAGAATTAC
23674456 CAAAATACCC
Statistics
Matches: 111, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
53 1 0.01
54 109 0.98
55 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.41
Consensus pattern (54 bp):
GATTTACAGAATTACTGTTTTACCCTCGATTTATAGAATTACTAATTTACCCTT
Found at i:23674438 original size:81 final size:81
Alignment explanation
Indices: 23674249--23674455 Score: 202
Period size: 81 Copynumber: 2.6 Consensus size: 81
23674239 TTGAAATACT
* * ** * * ** *
23674249 CTCGACTTATAAAATTACCAAAGTACCCCCGATTTACAGAATTACTGTTTTACCCTCAATTTATA
1 CTCGATTTACAAAATTAGTAAAATACCCTCGATTTACAGAATTACTACTTTACCCTCAATTTACA
23674314 GAATTACTATTTTACC
66 GAATTACTATTTTACC
* * ** * **
23674330 CTTGATTTACAGAATTATCGT--TTTACCCTCGATTTATAGAATTACTACTTTACCCTTGATTTA
1 CTCGATTTACAAAATTA--GTAAAATACCCTCGATTTACAGAATTACTACTTTACCCTCAATTTA
*
23674393 CAGAATTACTGTTTTACC
64 CAGAATTACTATTTTACC
* * *
23674411 CTCGATTTACAAAATTAGTAAAATACCCTTGGTTTACAAAATTAC
1 CTCGATTTACAAAATTAGTAAAATACCCTCGATTTACAGAATTAC
23674456 CAAAATACCC
Statistics
Matches: 98, Mismatches: 24, Indels: 8
0.75 0.18 0.06
Matches are distributed among these distances:
79 2 0.02
81 96 0.98
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.38
Consensus pattern (81 bp):
CTCGATTTACAAAATTAGTAAAATACCCTCGATTTACAGAATTACTACTTTACCCTCAATTTACA
GAATTACTATTTTACC
Done.