Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 61 of 310
Found at i:19191648 original size:47 final size:46
Alignment explanation
Indices: 19191591--19191752 Score: 168
Period size: 47 Copynumber: 3.4 Consensus size: 46
19191581 ACACGTTTCG
* ** * *
19191591 CATTAGCCATTCGGCTTCGCCACATATATAC-TCTTCCACGTTCATCA
1 CATTGGCCATTCGGCTT-ATCACATATATGCATGTTCCAC-TTCATCA
**
19191638 CATTGGCCATTCTACCTTATCACATATATGCATGTTCGCA-TTCATCA
1 CATTGGCCATTC-GGCTTATCACATATATGCATGTTC-CACTTCATCA
19191685 CATTGGCCATTCGGCCTTATCACATATATGCATGTT-CACATTCATCA
1 CATTGGCCATTCGG-CTTATCACATATATGCATGTTCCAC-TTCATCA
*
19191732 CATTGGCCATTCAGCCTTATC
1 CATTGGCCATTC-GGCTTATC
19191753 TCAAATATAC
Statistics
Matches: 98, Mismatches: 10, Indels: 14
0.80 0.08 0.11
Matches are distributed among these distances:
45 2 0.02
47 86 0.88
48 8 0.08
49 2 0.02
ACGTcount: A:0.24, C:0.30, G:0.12, T:0.34
Consensus pattern (46 bp):
CATTGGCCATTCGGCTTATCACATATATGCATGTTCCACTTCATCA
Found at i:19191770 original size:47 final size:47
Alignment explanation
Indices: 19191631--19191777 Score: 215
Period size: 47 Copynumber: 3.1 Consensus size: 47
19191621 CTCTTCCACG
*
19191631 TTCATCACATTGGCCATTCTA-CCTTATCACATATATGCATGTTCGCA
1 TTCATCACATTGGCCATTC-AGCCTTATCACATATATGCATGTTCACA
*
19191678 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCAGCCTTATCACATATATGCATGTTCACA
* * * **
19191725 TTCATCACATTGGCCATTCAGCCTTATCTCAAATATACACATTCACA
1 TTCATCACATTGGCCATTCAGCCTTATCACATATATGCATGTTCACA
19191772 TTCATC
1 TTCATC
19191778 TCATAAAATC
Statistics
Matches: 91, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
47 91 1.00
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.35
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCAGCCTTATCACATATATGCATGTTCACA
Found at i:19205031 original size:21 final size:21
Alignment explanation
Indices: 19205005--19205045 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
19204995 AGACGAGCAA
* *
19205005 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
19205026 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
19205046 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:19213945 original size:3 final size:3
Alignment explanation
Indices: 19213937--19213975 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
19213927 GTGTATTGTA
19213937 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
19213976 TGTAGTACAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:19218434 original size:13 final size:13
Alignment explanation
Indices: 19218416--19218494 Score: 52
Period size: 13 Copynumber: 6.0 Consensus size: 13
19218406 CATATATATC
19218416 CATATAAACATTT
1 CATATAAACATTT
* * *
19218429 CATATACATAATT
1 CATATAAACATTT
19218442 CATAT-AACTATTT
1 CATATAAAC-ATTT
* * *
19218455 CCTTATAACCAATT
1 -CATATAAACATTT
*
19218469 CATATAATCATTT
1 CATATAAACATTT
* *
19218482 TATATAATCATTT
1 CATATAAACATTT
19218495 TCCATATAAC
Statistics
Matches: 50, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
12 1 0.02
13 40 0.80
14 7 0.14
15 2 0.04
ACGTcount: A:0.41, C:0.16, G:0.00, T:0.43
Consensus pattern (13 bp):
CATATAAACATTT
Found at i:19218495 original size:13 final size:13
Alignment explanation
Indices: 19218470--19218536 Score: 73
Period size: 13 Copynumber: 5.0 Consensus size: 13
19218460 TAACCAATTC
19218470 ATATAATCATTTT
1 ATATAATCATTTT
19218483 ATATAATCATTTT
1 ATATAATCATTTT
* *
19218496 CCATATAACTGA-TTC
1 --ATATAA-TCATTTT
19218511 ATATAATCATTTT
1 ATATAATCATTTT
*
19218524 ATATATTCATTTT
1 ATATAATCATTTT
19218537 CCACTTAATT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
12 2 0.04
13 33 0.73
15 8 0.18
16 2 0.04
ACGTcount: A:0.36, C:0.12, G:0.01, T:0.51
Consensus pattern (13 bp):
ATATAATCATTTT
Found at i:19218502 original size:28 final size:27
Alignment explanation
Indices: 19218467--19218536 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 27
19218457 TTATAACCAA
19218467 TTCATATAATCATTTTATATAATCATT
1 TTCATATAATCATTTTATATAATCATT
* *
19218494 TTCCATATAACTGA-TTCATATAATCATT
1 TT-CATATAA-TCATTTTATATAATCATT
*
19218522 TT-ATATATTCATTTT
1 TTCATATAATCATTTT
19218537 CCACTTAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
25 2 0.06
26 7 0.20
27 2 0.06
28 22 0.63
29 2 0.06
ACGTcount: A:0.34, C:0.13, G:0.01, T:0.51
Consensus pattern (27 bp):
TTCATATAATCATTTTATATAATCATT
Found at i:19218511 original size:41 final size:41
Alignment explanation
Indices: 19218414--19218539 Score: 141
Period size: 41 Copynumber: 3.1 Consensus size: 41
19218404 TACATATATA
* * * *
19218414 TCCATATAAACATTTCATATACAT-AATTCATATAA-C-TATT
1 TCCATATAACCAATTCATATA-ATCATTTTATATAATCAT-TT
*
19218454 TCCTTATAACCAATTCATATAATCATTTTATATAATCATTT
1 TCCATATAACCAATTCATATAATCATTTTATATAATCATTT
** *
19218495 TCCATATAACTGATTCATATAATCATTTTATATATTCATTT
1 TCCATATAACCAATTCATATAATCATTTTATATAATCATTT
19218536 TCCA
1 TCCA
19218540 CTTAATTAAC
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
39 2 0.03
40 27 0.36
41 44 0.59
42 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.01, T:0.44
Consensus pattern (41 bp):
TCCATATAACCAATTCATATAATCATTTTATATAATCATTT
Found at i:19224003 original size:25 final size:26
Alignment explanation
Indices: 19223974--19224044 Score: 76
Period size: 25 Copynumber: 2.8 Consensus size: 26
19223964 CCGATTGTAG
19223974 CTCGTGAGAGCTTATCGATTCT-CAA
1 CTCGTGAGAGCTTATCGATTCTACAA
* *
19223999 CTCGT-ATGAGCTTACCGATT-TACAG
1 CTCGTGA-GAGCTTATCGATTCTACAA
* *
19224024 CTCATGAGAGCATATCGATTC
1 CTCGTGAGAGCTTATCGATTC
19224045 ATAGCTCGTA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
24 2 0.05
25 34 0.92
26 1 0.03
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (26 bp):
CTCGTGAGAGCTTATCGATTCTACAA
Found at i:19225170 original size:15 final size:16
Alignment explanation
Indices: 19225150--19225179 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19225140 TGGTTCCTTG
19225150 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
19225165 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
19225180 AGCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:19231567 original size:34 final size:33
Alignment explanation
Indices: 19231508--19231605 Score: 108
Period size: 34 Copynumber: 2.9 Consensus size: 33
19231498 GTATGCATTT
*
19231508 CTGATACTG-TATTGAATTGGGCTAAGGCCCAAA
1 CTGATACTGCTACTGAA-TGGGCTAAGGCCCAAA
*
19231541 CTGATACTGCTACTGTAATGGGCTAAGGCCCACA
1 CTGATACTGCTACTG-AATGGGCTAAGGCCCAAA
* * * *
19231575 TTGATATTGCGACTGATATGGGCTTAGGCCC
1 CTGATACTGCTACTGA-ATGGGCTAAGGCCC
19231606 GGATTGTACA
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
33 10 0.18
34 44 0.79
35 2 0.04
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (33 bp):
CTGATACTGCTACTGAATGGGCTAAGGCCCAAA
Found at i:19234614 original size:21 final size:21
Alignment explanation
Indices: 19234580--19234619 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
19234570 GAATGTCATG
*
19234580 GATGATTTAAGAGTGACTTAA
1 GATGATTTAAGAGTCACTTAA
**
19234601 GATGATTTTCGAGTCACTT
1 GATGATTTAAGAGTCACTT
19234620 GTGTATAGTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.10, G:0.23, T:0.38
Consensus pattern (21 bp):
GATGATTTAAGAGTCACTTAA
Found at i:19234898 original size:16 final size:16
Alignment explanation
Indices: 19234877--19234911 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
19234867 ACAAATCCCG
19234877 AAATGCCAAAAAGCCA
1 AAATGCCAAAAAGCCA
* *
19234893 AAATGCCGAAAAGCTA
1 AAATGCCAAAAAGCCA
19234909 AAA
1 AAA
19234912 GTTTGGCTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.57, C:0.20, G:0.14, T:0.09
Consensus pattern (16 bp):
AAATGCCAAAAAGCCA
Found at i:19235158 original size:28 final size:27
Alignment explanation
Indices: 19235125--19235232 Score: 119
Period size: 28 Copynumber: 3.9 Consensus size: 27
19235115 ATTGCATGAC
19235125 TATGAATGTGATTGGGCCTGACAGGCCA
1 TATGAATGTGATTGGGCCTGA-AGGCCA
* * *
19235153 TATGAAAGTGATTGGGCCTGATGGACTA
1 TATGAATGTGATTGGGCCTGAAGG-CCA
*
19235181 TATGAATGTGATTGGG-CTCGATGGGCCA
1 TATGAATGTGATTGGGCCT-GA-AGGCCA
* *
19235209 TATGAATGAGATTGGGCCTAAAGG
1 TATGAATGTGATTGGGCCTGAAGG
19235233 GGCCAAATGA
Statistics
Matches: 67, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
27 6 0.09
28 57 0.85
29 4 0.06
ACGTcount: A:0.27, C:0.13, G:0.33, T:0.27
Consensus pattern (27 bp):
TATGAATGTGATTGGGCCTGAAGGCCA
Found at i:19236914 original size:28 final size:28
Alignment explanation
Indices: 19236872--19237015 Score: 125
Period size: 28 Copynumber: 5.2 Consensus size: 28
19236862 TAATTATATG
** *
19236872 TGGCACTTAACGTGCGAAGTATCGAGGA
1 TGGCACTTAGTGTGCGAAGTATCGAGAA
* *
19236900 TGTCACTTAGTGTGCG--GTACATCCAGAA
1 TGGCACTTAGTGTGCGAAGT--ATCGAGAA
* *
19236928 TGGCACTTAGTGTGCGAAGTAACGAGGA
1 TGGCACTTAGTGTGCGAAGTATCGAGAA
** *
19236956 TGGCACTTAGTGTGCGAAACATCCAGAA
1 TGGCACTTAGTGTGCGAAGTATCGAGAA
* *
19236984 CGACACTTAGTGTGC-AAGTATCG-GATA
1 TGGCACTTAGTGTGCGAAGTATCGAGA-A
19237011 TGGCA
1 TGGCA
19237016 TCTAATGTGC
Statistics
Matches: 90, Mismatches: 21, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
26 4 0.04
27 9 0.10
28 75 0.83
30 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (28 bp):
TGGCACTTAGTGTGCGAAGTATCGAGAA
Found at i:19236963 original size:56 final size:56
Alignment explanation
Indices: 19236872--19237003 Score: 185
Period size: 56 Copynumber: 2.4 Consensus size: 56
19236862 TAATTATATG
** * * **
19236872 TGGCACTTAACGTGCGAAGTATCGAGGATGTCACTTAGTGTGCGGTACATCCAGAA
1 TGGCACTTAGTGTGCGAAGTAACGAGGATGGCACTTAGTGTGCGAAACATCCAGAA
19236928 TGGCACTTAGTGTGCGAAGTAACGAGGATGGCACTTAGTGTGCGAAACATCCAGAA
1 TGGCACTTAGTGTGCGAAGTAACGAGGATGGCACTTAGTGTGCGAAACATCCAGAA
* *
19236984 CGACACTTAGTGTGC-AAGTA
1 TGGCACTTAGTGTGCGAAGTA
19237004 TCGGATATGG
Statistics
Matches: 68, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
55 5 0.07
56 63 0.93
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (56 bp):
TGGCACTTAGTGTGCGAAGTAACGAGGATGGCACTTAGTGTGCGAAACATCCAGAA
Found at i:19237111 original size:32 final size:32
Alignment explanation
Indices: 19237075--19237167 Score: 114
Period size: 32 Copynumber: 2.9 Consensus size: 32
19237065 TGAGTATGAG
*
19237075 ATTGGTACGAGATGATACAGGTATCTACGAAA
1 ATTGGTACAAGATGATACAGGTATCTACGAAA
* * *
19237107 ATTGGTACAATATGGTACAGGTATGTACGAAA
1 ATTGGTACAAGATGATACAGGTATCTACGAAA
* * * *
19237139 ATTGGTACAATATGGTACATGTATGTACG
1 ATTGGTACAAGATGATACAGGTATCTACG
19237168 GAGATTCAAT
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 56 1.00
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.29
Consensus pattern (32 bp):
ATTGGTACAAGATGATACAGGTATCTACGAAA
Found at i:19243189 original size:28 final size:28
Alignment explanation
Indices: 19243147--19243246 Score: 103
Period size: 28 Copynumber: 3.6 Consensus size: 28
19243137 TAATTTTATG
**
19243147 TGGCACTTAACGTGCGTAGTATCAAGGA
1 TGGCACTTAGTGTGCGTAGTATCAAGGA
* * * *
19243175 TGGCACTTCGTGTGCGATA-CATCCAGAA
1 TGGCACTTAGTGTGCG-TAGTATCAAGGA
* * *
19243203 TGGCACTTAGTGTGCGAAGTAACGAGGA
1 TGGCACTTAGTGTGCGTAGTATCAAGGA
19243231 TGGCACTTAGTGTGCG
1 TGGCACTTAGTGTGCG
19243247 AAACATCCAG
Statistics
Matches: 58, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
27 1 0.02
28 55 0.95
29 2 0.03
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (28 bp):
TGGCACTTAGTGTGCGTAGTATCAAGGA
Found at i:19243233 original size:56 final size:56
Alignment explanation
Indices: 19243147--19243278 Score: 176
Period size: 56 Copynumber: 2.4 Consensus size: 56
19243137 TAATTTTATG
** * * * *
19243147 TGGCACTTAACGTGCGTAGTATCAAGGATGGCACTTCGTGTGCGATACATCCAGAA
1 TGGCACTTAGTGTGCGAAGTAACAAGGATGGCACTTAGTGTGCGAAACATCCAGAA
*
19243203 TGGCACTTAGTGTGCGAAGTAACGAGGATGGCACTTAGTGTGCGAAACATCCAGAA
1 TGGCACTTAGTGTGCGAAGTAACAAGGATGGCACTTAGTGTGCGAAACATCCAGAA
* *
19243259 CGACACTTAGTGTGC-AAGTA
1 TGGCACTTAGTGTGCGAAGTA
19243279 TCGGATATGG
Statistics
Matches: 67, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
55 5 0.07
56 62 0.93
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (56 bp):
TGGCACTTAGTGTGCGAAGTAACAAGGATGGCACTTAGTGTGCGAAACATCCAGAA
Found at i:19243265 original size:28 final size:28
Alignment explanation
Indices: 19243174--19243273 Score: 119
Period size: 28 Copynumber: 3.6 Consensus size: 28
19243164 AGTATCAAGG
* *
19243174 ATGGCACTTCGTGTGCGATACATCCAGA
1 ATGGCACTTAGTGTGCGAAACATCCAGA
** * * *
19243202 ATGGCACTTAGTGTGCGAAGTAACGAGG
1 ATGGCACTTAGTGTGCGAAACATCCAGA
19243230 ATGGCACTTAGTGTGCGAAACATCCAGA
1 ATGGCACTTAGTGTGCGAAACATCCAGA
* *
19243258 ACGACACTTAGTGTGC
1 ATGGCACTTAGTGTGC
19243274 AAGTATCGGA
Statistics
Matches: 58, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 58 1.00
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAACATCCAGA
Found at i:19243386 original size:32 final size:32
Alignment explanation
Indices: 19243350--19243423 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 32
19243340 TGAGTATGAG
*
19243350 ATTGGTACGAGAAGATACAGGTATCTACAAAA
1 ATTGGTACAAGAAGATACAGGTATCTACAAAA
* * * * **
19243382 ATTGGTACAATATGGTACAGGTATGTACGGAA
1 ATTGGTACAAGAAGATACAGGTATCTACAAAA
19243414 ATTGGTACAA
1 ATTGGTACAA
19243424 TATGGTACAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.39, C:0.11, G:0.24, T:0.26
Consensus pattern (32 bp):
ATTGGTACAAGAAGATACAGGTATCTACAAAA
Found at i:19243424 original size:32 final size:32
Alignment explanation
Indices: 19243365--19243444 Score: 124
Period size: 32 Copynumber: 2.5 Consensus size: 32
19243355 TACGAGAAGA
* **
19243365 TACAGGTATCTACAAAAATTGGTACAATATGG
1 TACAGGTATGTACGGAAATTGGTACAATATGG
19243397 TACAGGTATGTACGGAAATTGGTACAATATGG
1 TACAGGTATGTACGGAAATTGGTACAATATGG
*
19243429 TACATGTATGTACGGA
1 TACAGGTATGTACGGA
19243445 GATTCAATTG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.29
Consensus pattern (32 bp):
TACAGGTATGTACGGAAATTGGTACAATATGG
Found at i:19247525 original size:79 final size:81
Alignment explanation
Indices: 19247389--19247573 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
19247379 TTGAATGATG
*
19247389 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
19247453 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
19247468 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
19247530 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
19247548 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
19247574 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:19247587 original size:40 final size:40
Alignment explanation
Indices: 19247390--19247573 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
19247380 TGAATGATGT
* * * *
19247390 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
19247430 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
19247470 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
19247508 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
19247549 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
19247574 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:19247595 original size:79 final size:79
Alignment explanation
Indices: 19247442--19247606 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
19247432 GGACTAAGAT
* **
19247442 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
19247507 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
19247521 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
19247584 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
19247600 CCGAAGG
1 CCGAAGG
19247607 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:19251176 original size:75 final size:75
Alignment explanation
Indices: 19251053--19251201 Score: 280
Period size: 75 Copynumber: 2.0 Consensus size: 75
19251043 GTTGCAAGAA
*
19251053 TTGACGGATAGAGGTTTTGCTCGACCAAGTTTCTCACCTTGGGGTGCACCAGTATTGTTTGTGAA
1 TTGACGGATAGAGGTTTCGCTCGACCAAGTTTCTCACCTTGGGGTGCACCAGTATTGTTTGTGAA
19251118 GAAGAAGGAG
66 GAAGAAGGAG
*
19251128 TTGACTGATAGAGGTTTCGCTCGACCAAGTTTCTCACCTTGGGGTGCACCAGTATTGTTTGTGAA
1 TTGACGGATAGAGGTTTCGCTCGACCAAGTTTCTCACCTTGGGGTGCACCAGTATTGTTTGTGAA
19251193 GAAGAAGGA
66 GAAGAAGGA
19251202 CCGATACCGC
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 72 1.00
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (75 bp):
TTGACGGATAGAGGTTTCGCTCGACCAAGTTTCTCACCTTGGGGTGCACCAGTATTGTTTGTGAA
GAAGAAGGAG
Found at i:19257430 original size:40 final size:40
Alignment explanation
Indices: 19257352--19257575 Score: 310
Period size: 40 Copynumber: 5.5 Consensus size: 40
19257342 ACCCAAGTAT
* *
19257352 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
19257391 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
19257431 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
19257471 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
19257514 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
19257554 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
19257576 CATCCGAATA
Statistics
Matches: 166, Mismatches: 12, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
39 12 0.07
40 117 0.70
41 1 0.01
43 36 0.22
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:19257548 original size:83 final size:80
Alignment explanation
Indices: 19257352--19257575 Score: 317
Period size: 83 Copynumber: 2.8 Consensus size: 80
19257342 ACCCAAGTAT
* * * *
19257352 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
**
19257416 CACTAGCATGAATGC
66 CACTAGCACAAATGC
* *
19257431 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
19257495 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
*
19257514 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
19257576 CATCCGAATA
Statistics
Matches: 129, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
79 13 0.10
80 49 0.38
83 67 0.52
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:19269421 original size:40 final size:40
Alignment explanation
Indices: 19269347--19269443 Score: 126
Period size: 40 Copynumber: 2.5 Consensus size: 40
19269337 AAGTATCTTT
* *
19269347 GGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTC
1 GGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTC
* **
19269386 GGGTCTTAGCCCGGATATAGTC-ACTAGCATGAATGCCTTC
1 GGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTC
19269426 GGGACTTAGCCCGGATAT
1 GGGACTTAGCCCGGATAT
19269444 CATCCGAATA
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
39 7 0.14
40 42 0.84
41 1 0.02
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.25
Consensus pattern (40 bp):
GGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTC
Found at i:19271409 original size:24 final size:24
Alignment explanation
Indices: 19271301--19271412 Score: 89
Period size: 24 Copynumber: 4.6 Consensus size: 24
19271291 TCTTACTTAT
**
19271301 TCGCACACATAGTGCCACGTTTCC
1 TCGCACACATAGTGCCACGTAACC
* * **
19271325 TCACACACATAGTGCCATGTAGTC
1 TCGCACACATAGTGCCACGTAACC
* **
19271349 TCGCACACATAGTGCCACTTAATTT
1 TCGCACACATAGTGCCACGTAA-CC
* ** *
19271374 TTGCACGTATAGTGCCACATAACC
1 TCGCACACATAGTGCCACGTAACC
*
19271398 TTGCACACATAGTGC
1 TCGCACACATAGTGC
19271413 TGAAATTTCT
Statistics
Matches: 69, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
24 50 0.72
25 19 0.28
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (24 bp):
TCGCACACATAGTGCCACGTAACC
Found at i:19279487 original size:15 final size:17
Alignment explanation
Indices: 19279459--19279494 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
19279449 CTTTTCATTG
19279459 CATTTAGCTTAATTT-A
1 CATTTAGCTTAATTTAA
19279475 CATTTAG-TTAATTTAA
1 CATTTAGCTTAATTTAA
19279491 CATT
1 CATT
19279495 CATCACCCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.33, C:0.11, G:0.06, T:0.50
Consensus pattern (17 bp):
CATTTAGCTTAATTTAA
Found at i:19288008 original size:61 final size:61
Alignment explanation
Indices: 19287907--19288337 Score: 483
Period size: 61 Copynumber: 7.1 Consensus size: 61
19287897 GAAAGAAAAA
** * * * *
19287907 GCCTTTGTGGCAA-AACTCTAGATGGGAAAGCCTTGGTGGTGAGTTCTGGATATTAAAGAAT
1 GCCTTTGTGG-AACAACTCTAGACAGGAAAGCCTTTGTGGCGAGTACTGGATATTAAGGAAT
** * * * *
19287968 GCCTTTGTGGAACAACTCTAGACAACAAAACCTTTATGGTGAGTACTGGATATTAAAGAAT
1 GCCTTTGTGGAACAACTCTAGACAGGAAAGCCTTTGTGGCGAGTACTGGATATTAAGGAAT
* * * * * *
19288029 ACCTTTAT-GACACAACTCTGGA-TGGTAAAGCCTTTGTGGTGAGTACTTGATATTAAGGAAT
1 GCCTTTGTGGA-ACAACTCTAGACAGG-AAAGCCTTTGTGGCGAGTACTGGATATTAAGGAAT
* * * *
19288090 GCCTTTGTGGCACAACTATGGACAGGAAAGCCTTTGTGGCAAGTACTGGATATTAAGGAAT
1 GCCTTTGTGGAACAACTCTAGACAGGAAAGCCTTTGTGGCGAGTACTGGATATTAAGGAAT
* * * * *
19288151 GCCTTTGTGGTACAAGTCTAGACAGGAAAGCTTTTCTGGCGAGTACTAGATATTAAGGAAT
1 GCCTTTGTGGAACAACTCTAGACAGGAAAGCCTTTGTGGCGAGTACTGGATATTAAGGAAT
* *
19288212 GCCTTTGT-GACACAACTCTAGACAGGAAAGCCTTTGTGGCGAGTAGTGAATATTAAGGAAT
1 GCCTTTGTGGA-ACAACTCTAGACAGGAAAGCCTTTGTGGCGAGTACTGGATATTAAGGAAT
* * * * * *
19288273 GCCTTTATGGCACAACTCTGGATAGGAAAGCCTTTATGGCGAGTACTGGATATTAAGGAAC
1 GCCTTTGTGGAACAACTCTAGACAGGAAAGCCTTTGTGGCGAGTACTGGATATTAAGGAAT
19288334 GCCT
1 GCCT
19288338 AAAGCCTTTA
Statistics
Matches: 314, Mismatches: 49, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
60 5 0.02
61 305 0.97
62 4 0.01
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (61 bp):
GCCTTTGTGGAACAACTCTAGACAGGAAAGCCTTTGTGGCGAGTACTGGATATTAAGGAAT
Found at i:19288099 original size:32 final size:32
Alignment explanation
Indices: 19288058--19288162 Score: 94
Period size: 32 Copynumber: 3.4 Consensus size: 32
19288048 GGATGGTAAA
*
19288058 GCCTTTGTGGTGAGTACTTGATATTAAGGAAT
1 GCCTTTGTGGTAAGTACTTGATATTAAGGAAT
* * * *
19288090 GCCTTTGTGGCACA--ACTATG-GA--CAGGAAA
1 GCCTTTGTGGTA-AGTACT-TGATATTAAGGAAT
* *
19288119 GCCTTTGTGGCAAGTACTGGATATTAAGGAAT
1 GCCTTTGTGGTAAGTACTTGATATTAAGGAAT
19288151 GCCTTTGTGGTA
1 GCCTTTGTGGTA
19288163 CAAGTCTAGA
Statistics
Matches: 56, Mismatches: 10, Indels: 14
0.70 0.12 0.17
Matches are distributed among these distances:
28 1 0.02
29 18 0.32
30 4 0.07
31 4 0.07
32 28 0.50
33 1 0.02
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (32 bp):
GCCTTTGTGGTAAGTACTTGATATTAAGGAAT
Found at i:19288225 original size:183 final size:183
Alignment explanation
Indices: 19287907--19288337 Score: 569
Period size: 183 Copynumber: 2.4 Consensus size: 183
19287897 GAAAGAAAAA
* * * * * * *
19287907 GCCTTTGTGGCAAAACTCTAGATGGGAAAGCCTTGGTGGTGAGTTCTGGATATTAAAGAATGCCT
1 GCCTTTGTGGCACAACTCTGGATAGGAAAGCCTTTGTGGCGAGTACTGGATATTAAGGAATGCCT
* *
19287972 TTGTGGAACAACTCTAGACAACAAAACCTTTATGGTGAGTACTGGATATTAAAGAATACCTTTAT
66 TTGTGGAACAACTCTAGACAACAAAACCTTTATGGCGAGTACTAGATATTAAAGAATACCTTTAT
* * * *
19288037 GACACAACTCTGGA-TGGTAAAGCCTTTGTGGTGAGTACTTG-ATATTAAGGAAT
131 GACACAACTCTAGACAGG-AAAGCCTTTGTGGCGAGTA-GTGAATATTAAGGAAT
* * *
19288090 GCCTTTGTGGCACAACTATGGACAGGAAAGCCTTTGTGGCAAGTACTGGATATTAAGGAATGCCT
1 GCCTTTGTGGCACAACTCTGGATAGGAAAGCCTTTGTGGCGAGTACTGGATATTAAGGAATGCCT
* * ** * * * * * *
19288155 TTGTGGTACAAGTCTAGACAGGAAAGCTTTTCTGGCGAGTACTAGATATTAAGGAATGCCTTTGT
66 TTGTGGAACAACTCTAGACAACAAAACCTTTATGGCGAGTACTAGATATTAAAGAATACCTTTAT
19288220 GACACAACTCTAGACAGGAAAGCCTTTGTGGCGAGTAGTGAATATTAAGGAAT
131 GACACAACTCTAGACAGGAAAGCCTTTGTGGCGAGTAGTGAATATTAAGGAAT
* * *
19288273 GCCTTTATGGCACAACTCTGGATAGGAAAGCCTTTATGGCGAGTACTGGATATTAAGGAACGCCT
1 GCCTTTGTGGCACAACTCTGGATAGGAAAGCCTTTGTGGCGAGTACTGGATATTAAGGAATGCCT
19288338 AAAGCCTTTA
Statistics
Matches: 214, Mismatches: 32, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
182 2 0.01
183 210 0.98
184 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (183 bp):
GCCTTTGTGGCACAACTCTGGATAGGAAAGCCTTTGTGGCGAGTACTGGATATTAAGGAATGCCT
TTGTGGAACAACTCTAGACAACAAAACCTTTATGGCGAGTACTAGATATTAAAGAATACCTTTAT
GACACAACTCTAGACAGGAAAGCCTTTGTGGCGAGTAGTGAATATTAAGGAAT
Found at i:19288487 original size:61 final size:62
Alignment explanation
Indices: 19288361--19288537 Score: 173
Period size: 61 Copynumber: 2.9 Consensus size: 62
19288351 CAACTATTGG
**** * * * * * *
19288361 ATATTAAAGAATGCCTTTGCAACACAACTCTGGACAGGTAAGCCTTT-ATGGTAAGTATTGG
1 ATATTAAAGAATGCCTTTATGGCACAACTCTGGACAAGAAAGCCTTTGATGGCAAGAACTGA
*
19288422 ATATTAAAGAATGCCTTTATGGCACAACTCTGGACAAGAAAGCCTTTGCT-GCAAGAACTGA
1 ATATTAAAGAATGCCTTTATGGCACAACTCTGGACAAGAAAGCCTTTGATGGCAAGAACTGA
* * * * *
19288483 ATATTAAGGAATGCCTTTTTGGCATAATTCTGGA-TAGAAAAGCCTTTG-TGGCAAG
1 ATATTAAAGAATGCCTTTATGGCACAACTCTGGACAAG-AAAGCCTTTGATGGCAAG
19288538 TATTTGATGC
Statistics
Matches: 97, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
60 3 0.03
61 93 0.96
62 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.29
Consensus pattern (62 bp):
ATATTAAAGAATGCCTTTATGGCACAACTCTGGACAAGAAAGCCTTTGATGGCAAGAACTGA
Found at i:19288489 original size:161 final size:161
Alignment explanation
Indices: 19288199--19288498 Score: 422
Period size: 161 Copynumber: 1.9 Consensus size: 161
19288189 GCGAGTACTA
* ** * *
19288199 GATATTAAGGAATGCCTTTGTGACACAACTCTAGACAGGAAAGCCTTTGTGGCGAGTAGTGAATA
1 GATATTAAAGAATGCCTTTGCAACACAACTCTAGACAGGAAAGCCTTTATGGCAAGTAGTGAATA
* * * * * *
19288264 TTAAGGAATGCCTTTATGGCACAACTCTGGATAGGAAAGCCTTTATGGCGAGTACTGGATATTAA
66 TTAAAGAATGCCTTTATGGCACAACTCTGGACAAGAAAGCCTTTATGGCAAGAACTGAATATTAA
19288329 GGAACGCCTAAAGCCTTTATAACAACTATTG
131 GGAACGCCTAAAGCCTTTATAACAACTATTG
* * * * *
19288360 GATATTAAAGAATGCCTTTGCAACACAACTCTGGACAGGTAAGCCTTTATGGTAAGTATTGGATA
1 GATATTAAAGAATGCCTTTGCAACACAACTCTAGACAGGAAAGCCTTTATGGCAAGTAGTGAATA
*
19288425 TTAAAGAATGCCTTTATGGCACAACTCTGGACAAGAAAGCCTTTGCT-GCAAGAACTGAATATTA
66 TTAAAGAATGCCTTTATGGCACAACTCTGGACAAGAAAGCCTTT-ATGGCAAGAACTGAATATTA
*
19288489 AGGAATGCCT
130 AGGAACGCCT
19288499 TTTTGGCATA
Statistics
Matches: 120, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
161 119 0.99
162 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.27
Consensus pattern (161 bp):
GATATTAAAGAATGCCTTTGCAACACAACTCTAGACAGGAAAGCCTTTATGGCAAGTAGTGAATA
TTAAAGAATGCCTTTATGGCACAACTCTGGACAAGAAAGCCTTTATGGCAAGAACTGAATATTAA
GGAACGCCTAAAGCCTTTATAACAACTATTG
Found at i:19288517 original size:222 final size:222
Alignment explanation
Indices: 19288136--19288539 Score: 540
Period size: 222 Copynumber: 1.8 Consensus size: 222
19288126 TGGCAAGTAC
* **** * * * *
19288136 TGGATATTAAGGAATGCCTTTGTGGTACAAGTCTAGACAGGAAAGCTTTTCTGGCGAGTACTAGA
1 TGGATATTAAAGAATGCCTTTGCAACACAACTCTAGACAGGAAAGCCTTTATGGCAAGTACTAGA
* * * * * *
19288201 TATTAAGGAATGCCTTTGTGACACAACTCTAGACAGGAAAGCCTTTGTGGCGAGTAGTGAATATT
66 TATTAAAGAATGCCTTTATGACACAACTCTAGACAAGAAAGCCTTTGTGGCAAGAACTGAATATT
* *
19288266 AAGGAATGCCTTTATGGCACAACTCTGGATAGGAAAGCCTTTATGGCGAGTACTGGATATTAAGG
131 AAGGAATGCCTTTATGGCACAACTCTGGATAGAAAAGCCTTTATGGCAAGTACTGGATATTAAGG
19288331 AACGCCTAAAGCCTTTATAACAACTAT
196 AACGCCTAAAGCCTTTATAACAACTAT
* * * * *
19288358 TGGATATTAAAGAATGCCTTTGCAACACAACTCTGGACAGGTAAGCCTTTATGGTAAGTATTGGA
1 TGGATATTAAAGAATGCCTTTGCAACACAACTCTAGACAGGAAAGCCTTTATGGCAAGTACTAGA
* *
19288423 TATTAAAGAATGCCTTTATGGCACAACTCTGGACAAGAAAGCCTTTGCT-GCAAGAACTGAATAT
66 TATTAAAGAATGCCTTTATGACACAACTCTAGACAAGAAAGCCTTTG-TGGCAAGAACTGAATAT
* * * *
19288487 TAAGGAATGCCTTTTTGGCATAATTCTGGATAGAAAAGCCTTTGTGGCAAGTA
130 TAAGGAATGCCTTTATGGCACAACTCTGGATAGAAAAGCCTTTATGGCAAGTA
19288540 TTTGATGCAA
Statistics
Matches: 153, Mismatches: 28, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
222 152 0.99
223 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.28
Consensus pattern (222 bp):
TGGATATTAAAGAATGCCTTTGCAACACAACTCTAGACAGGAAAGCCTTTATGGCAAGTACTAGA
TATTAAAGAATGCCTTTATGACACAACTCTAGACAAGAAAGCCTTTGTGGCAAGAACTGAATATT
AAGGAATGCCTTTATGGCACAACTCTGGATAGAAAAGCCTTTATGGCAAGTACTGGATATTAAGG
AACGCCTAAAGCCTTTATAACAACTAT
Found at i:19301331 original size:15 final size:13
Alignment explanation
Indices: 19301302--19301328 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
19301292 GCTCGGCAGG
19301302 GACACGCCCGTGT
1 GACACGCCCGTGT
19301315 GACACGCCCGTGT
1 GACACGCCCGTGT
19301328 G
1 G
19301329 TGATTACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:19315254 original size:3 final size:3
Alignment explanation
Indices: 19315120--19315239 Score: 240
Period size: 3 Copynumber: 40.0 Consensus size: 3
19315110 ATTTTCATGC
19315120 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
19315168 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
19315216 TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
19315240 AGTTTTAAAT
Statistics
Matches: 117, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 117 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:19315265 original size:17 final size:18
Alignment explanation
Indices: 19315229--19315267 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
19315219 TAATAATAAT
*
19315229 AATAATAATAAAGTTTTA
1 AATAATAATAAAGCTTTA
*
19315247 AATAATAA-ATAGCTTTA
1 AATAATAATAAAGCTTTA
19315264 AATA
1 AATA
19315268 TTATGTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (18 bp):
AATAATAATAAAGCTTTA
Found at i:19317018 original size:3 final size:3
Alignment explanation
Indices: 19316884--19317003 Score: 240
Period size: 3 Copynumber: 40.0 Consensus size: 3
19316874 ATTTTCATGC
19316884 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
19316932 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
19316980 TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
19317004 AGTTTTAAAT
Statistics
Matches: 117, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 117 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:19317029 original size:17 final size:18
Alignment explanation
Indices: 19316993--19317031 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
19316983 TAATAATAAT
*
19316993 AATAATAATAAAGTTTTA
1 AATAATAATAAAGCTTTA
*
19317011 AATAATAA-ATAGCTTTA
1 AATAATAATAAAGCTTTA
19317028 AATA
1 AATA
19317032 TTATGTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (18 bp):
AATAATAATAAAGCTTTA
Found at i:19319617 original size:27 final size:26
Alignment explanation
Indices: 19319532--19319646 Score: 97
Period size: 27 Copynumber: 4.2 Consensus size: 26
19319522 TCCTCACAAC
* * *
19319532 GATAGTCCTGAAGGACTTTCCCCATATTA
1 GATAGTCCCGACGGAC-TTCCACATA--A
* *
19319561 GATAGTCCTC-ACAGACTTCCACAAAA
1 GATAGTCC-CGACGGACTTCCACATAA
* **
19319587 GATAGTCTCGGTGGACTTCCCACATAA
1 GATAGTCCCGACGGACTT-CCACATAA
19319614 GATAGTCCCGACGGACTTTCCACATAA
1 GATAGTCCCGACGGAC-TTCCACATAA
19319641 GATAGT
1 GATAGT
19319647 TGTGAGACAC
Statistics
Matches: 69, Mismatches: 13, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
25 1 0.01
26 13 0.19
27 34 0.49
28 9 0.13
29 12 0.17
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (26 bp):
GATAGTCCCGACGGACTTCCACATAA
Found at i:19324848 original size:319 final size:319
Alignment explanation
Indices: 19324413--19325049 Score: 1256
Period size: 319 Copynumber: 2.0 Consensus size: 319
19324403 TCAAATTTTT
19324413 AGTATATTCATCCATGGAAAAAATTCTATACTTTGATATCTTTGCAAATTAATCCCCAAAATAGA
1 AGTATATTCATCCATGGAAAAAATTCTATACTTTGATATCTTTGCAAATTAATCCCCAAAATAGA
19324478 TAGATTAAGCTATACCGATCTCAAAAATATAAAAATTACTAAAATCGGGACAAGAATTCATACCT
66 TAGATTAAGCTATACCGATCTCAAAAATATAAAAATTACTAAAATCGGGACAAGAATTCATACCT
19324543 TATTAAGCTTGATTAGTTTTCTTTCTTTCTCCTAGGGTTTCCATGTAAATTTTGGGGAAGAAGAT
131 TATTAAGCTTGATTAGTTTTCTTTCTTTCTCCTAGGGTTTCCATGTAAATTTTGGGGAAGAAGAT
19324608 GATATAAAATGATGTTATTTGATATTTATTTTATTTATCATCTTTAATTTTTCAACTTTCCAATT
196 GATATAAAATGATGTTATTTGATATTTATTTTATTTATCATCTTTAATTTTTCAACTTTCCAATT
*
19324673 TCATCCTTTCCTTTTTCTAATTTTCCGTGGATGATTCATCAAAAATATCTACTAACTTC
261 TCATCCTTTCCTTTTTCTAATTTTCCATGGATGATTCATCAAAAATATCTACTAACTTC
*
19324732 AGTATATTCATCCATGGAAAAATTTCTATACTTTGATATCTTTGCAAATTAATCCCCAAAATAGA
1 AGTATATTCATCCATGGAAAAAATTCTATACTTTGATATCTTTGCAAATTAATCCCCAAAATAGA
19324797 TAGATTAAGCTATACCGATCTCAAAAATATAAAAATTACTAAAATCGGGACAAGAATTCATACCT
66 TAGATTAAGCTATACCGATCTCAAAAATATAAAAATTACTAAAATCGGGACAAGAATTCATACCT
19324862 TATTAAGCTTGATTAGTTTTCTTTCTTTCTCCTAGGGTTTCCATGTAAATTTTGGGGAAGAAGAT
131 TATTAAGCTTGATTAGTTTTCTTTCTTTCTCCTAGGGTTTCCATGTAAATTTTGGGGAAGAAGAT
19324927 GATATAAAATGATGTTATTTGATATTTATTTTATTTATCATCTTTAATTTTTCAACTTTCCAATT
196 GATATAAAATGATGTTATTTGATATTTATTTTATTTATCATCTTTAATTTTTCAACTTTCCAATT
19324992 TCATCCTTTCCTTTTTCTAATTTTCCATGGATGATTCATCAAAAATATCTACTAACTT
261 TCATCCTTTCCTTTTTCTAATTTTCCATGGATGATTCATCAAAAATATCTACTAACTT
19325050 TTCTTTAATG
Statistics
Matches: 316, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
319 316 1.00
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.41
Consensus pattern (319 bp):
AGTATATTCATCCATGGAAAAAATTCTATACTTTGATATCTTTGCAAATTAATCCCCAAAATAGA
TAGATTAAGCTATACCGATCTCAAAAATATAAAAATTACTAAAATCGGGACAAGAATTCATACCT
TATTAAGCTTGATTAGTTTTCTTTCTTTCTCCTAGGGTTTCCATGTAAATTTTGGGGAAGAAGAT
GATATAAAATGATGTTATTTGATATTTATTTTATTTATCATCTTTAATTTTTCAACTTTCCAATT
TCATCCTTTCCTTTTTCTAATTTTCCATGGATGATTCATCAAAAATATCTACTAACTTC
Found at i:19330489 original size:23 final size:22
Alignment explanation
Indices: 19330429--19330493 Score: 71
Period size: 23 Copynumber: 3.0 Consensus size: 22
19330419 CCTGATCAGT
*
19330429 ATACGACACATAAGTGCCTGAA
1 ATACGACACATAAGTGCCTAAA
* *
19330451 AT--GACACACGAGGTGCCTAAA
1 ATACGACACA-TAAGTGCCTAAA
19330472 ATACGACACATAAAGTGCCTAA
1 ATACGACACAT-AAGTGCCTAA
19330494 TCGGCAAAGC
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
20 6 0.18
21 11 0.32
22 2 0.06
23 15 0.44
ACGTcount: A:0.42, C:0.23, G:0.18, T:0.17
Consensus pattern (22 bp):
ATACGACACATAAGTGCCTAAA
Found at i:19332220 original size:25 final size:25
Alignment explanation
Indices: 19332192--19332242 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
19332182 TTGGCTTGAT
**
19332192 ATTTACTAAGCAATATTGGATATTC
1 ATTTACTAAGCAATATCAGATATTC
* *
19332217 ATTTATTAGGCAATATCAGATATTC
1 ATTTACTAAGCAATATCAGATATTC
19332242 A
1 A
19332243 AATTATTCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (25 bp):
ATTTACTAAGCAATATCAGATATTC
Found at i:19334888 original size:26 final size:26
Alignment explanation
Indices: 19334858--19335059 Score: 226
Period size: 26 Copynumber: 7.8 Consensus size: 26
19334848 TTCGGAAAAT
* * *
19334858 GCCACGAAA-GCTTCCATTTCAGATAT
1 GCCAC-AAAGGCTTCTATTTCGGATAC
* *
19334884 ACCACAAAGGCTTATATTTCGGATAC
1 GCCACAAAGGCTTCTATTTCGGATAC
* * *
19334910 GCCACAAAGGCTTCCATTTCAGATAT
1 GCCACAAAGGCTTCTATTTCGGATAC
* *
19334936 GCCATAAAGGCTTCTATTTCGGATAT
1 GCCACAAAGGCTTCTATTTCGGATAC
* * *
19334962 GCCACAAAAGTTTCTATTTCTGATAC
1 GCCACAAAGGCTTCTATTTCGGATAC
*
19334988 ACCACAAAGGCTTCTATTTCGGATAC
1 GCCACAAAGGCTTCTATTTCGGATAC
* *
19335014 GCCACAAAGGCTTCCATTTCGAATAC
1 GCCACAAAGGCTTCTATTTCGGATAC
* *
19335040 GCCATAAAGGCTTCCATTTC
1 GCCACAAAGGCTTCTATTTC
19335060 CTAACGTGTT
Statistics
Matches: 149, Mismatches: 26, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
25 3 0.02
26 146 0.98
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (26 bp):
GCCACAAAGGCTTCTATTTCGGATAC
Found at i:19334923 original size:52 final size:52
Alignment explanation
Indices: 19334858--19335059 Score: 257
Period size: 52 Copynumber: 3.9 Consensus size: 52
19334848 TTCGGAAAAT
*
19334858 GCCACGAAA-GCTTCCATTTCAGATATACCACAAAGGCTTATATTTCGGATAC
1 GCCAC-AAAGGCTTCCATTTCAGATATACCACAAAGGCTTCTATTTCGGATAC
* * *
19334910 GCCACAAAGGCTTCCATTTCAGATATGCCATAAAGGCTTCTATTTCGGATAT
1 GCCACAAAGGCTTCCATTTCAGATATACCACAAAGGCTTCTATTTCGGATAC
* * * * *
19334962 GCCACAAAAGTTTCTATTTCTGATACACCACAAAGGCTTCTATTTCGGATAC
1 GCCACAAAGGCTTCCATTTCAGATATACCACAAAGGCTTCTATTTCGGATAC
* *
19335014 GCCACAAAGGCTTCCATTTC-GA-ATACGCCATAAAGGCTTCCATTTC
1 GCCACAAAGGCTTCCATTTCAGATATA--CCACAAAGGCTTCTATTTC
19335060 CTAACGTGTT
Statistics
Matches: 129, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
50 2 0.02
51 5 0.04
52 122 0.95
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (52 bp):
GCCACAAAGGCTTCCATTTCAGATATACCACAAAGGCTTCTATTTCGGATAC
Found at i:19342214 original size:93 final size:93
Alignment explanation
Indices: 19342102--19342274 Score: 310
Period size: 93 Copynumber: 1.9 Consensus size: 93
19342092 CGCCCATAAG
* *
19342102 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
19342167 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
*
19342195 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
19342260 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
19342275 CAAACATCCT
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.31, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:19342270 original size:46 final size:46
Alignment explanation
Indices: 19342095--19342270 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
19342085 TGTAACCCGC
* * *
19342095 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
19342141 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
19342187 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
19342234 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
19342271 TGCCCAAACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 69 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:19342289 original size:46 final size:46
Alignment explanation
Indices: 19342103--19342289 Score: 145
Period size: 46 Copynumber: 4.0 Consensus size: 46
19342093 GCCCATAAGC
** *
19342103 GAACTCGGACTCAACTCAACGAGCTCGG--G-CGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCCAT-ACATCC-T-AGT
* *
19342149 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT--C
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCCA--TACATC-CTAGT
* * * * *
19342196 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--AAGT
1 GAACTCGGACTCAACTCAACGAGCTCGG--ATGCCCATACATCCTAGT
* *
19342242 GAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCTAGT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCCATACATCCTAGT
19342288 GA
1 GA
19342290 CATGTCACTT
Statistics
Matches: 113, Mismatches: 16, Indels: 24
0.74 0.10 0.16
Matches are distributed among these distances:
44 8 0.07
46 61 0.54
47 31 0.27
48 1 0.01
49 5 0.04
50 5 0.04
51 2 0.02
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCCCATACATCCTAGT
Found at i:19344376 original size:46 final size:46
Alignment explanation
Indices: 19344276--19344482 Score: 170
Period size: 46 Copynumber: 4.5 Consensus size: 46
19344266 TTTGTGTGCT
* * * * * *
19344276 AGTGTAAGACATGTATGGGACATGGCATC-GGCATTGAGACGAGGGCT
1 AGTGTAAGACATGTCTGGGACAT-GCATCAGCCA-CGAGATGAGAGCC
*
19344323 AGTGTAAGATATGTCTGGGACATGCATCAGCCAC-AGTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACGAG-ATGAGAGCC
* * * * **
19344369 AGTGTAAGACATGTCTGGGATATGTATCGGCCTCGAGATGTTAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACGAGATGAGAGCC
* * * * ** * *
19344415 AATGTCAGACATGTCTGGGACATGCGTCGGTTACGAGAT--GTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACGAGATGAGAGCC
19344459 AGTGTAAGACATGTCTGGGACATG
1 AGTGTAAGACATGTCTGGGACATG
19344483 TGTCAGCACG
Statistics
Matches: 130, Mismatches: 27, Indels: 9
0.78 0.16 0.05
Matches are distributed among these distances:
44 24 0.18
45 2 0.02
46 78 0.60
47 26 0.20
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACGAGATGAGAGCC
Found at i:19347550 original size:28 final size:27
Alignment explanation
Indices: 19347487--19347666 Score: 288
Period size: 28 Copynumber: 6.6 Consensus size: 27
19347477 ATATTAAGTC
* * *
19347487 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
19347514 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
19347542 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
19347569 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
19347597 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
19347625 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
19347652 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
19347667 GCACAATTTA
Statistics
Matches: 147, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
27 66 0.45
28 81 0.55
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:19347571 original size:55 final size:55
Alignment explanation
Indices: 19347487--19347666 Score: 299
Period size: 55 Copynumber: 3.3 Consensus size: 55
19347477 ATATTAAGTC
* * * *
19347487 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
19347542 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
*
19347597 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAGTCAAACT
19347652 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
19347667 GCACAATTTA
Statistics
Matches: 119, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
55 92 0.77
56 27 0.23
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
Found at i:19347625 original size:83 final size:82
Alignment explanation
Indices: 19347487--19347666 Score: 306
Period size: 83 Copynumber: 2.2 Consensus size: 82
19347477 ATATTAAGTC
* *
19347487 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
19347552 GTGCTACATAGTCAACT
66 GTGCTACATAGTCAACT
* *
19347569 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTT
*
19347634 AGTGCTACATAGTCAATT
65 AGTGCTACATAGTCAACT
19347652 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
19347667 GCACAATTTA
Statistics
Matches: 92, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
82 20 0.22
83 72 0.78
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (82 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
GTGCTACATAGTCAACT
Found at i:19350525 original size:71 final size:71
Alignment explanation
Indices: 19350409--19350547 Score: 233
Period size: 71 Copynumber: 2.0 Consensus size: 71
19350399 GGGGATAAAG
* *
19350409 TGAGCCGACTTAGTCAGTCGATCGACAACAACCCAAATCGCATCCTTCTTACTTGCTGACAATGG
1 TGAGCCGACTTAGTCAGTCGATCAACAACAACCCAAATCGCATCCTTCTTACTTGCTGACAAGGG
19350474 CAGCAA
66 CAGCAA
* * *
19350480 TGAGCCGACTTAGTCAGTCTATCAACAACAACCCATATTGCATCCTTCTTACTTGCTGACAAGGG
1 TGAGCCGACTTAGTCAGTCGATCAACAACAACCCAAATCGCATCCTTCTTACTTGCTGACAAGGG
19350545 CAG
66 CAG
19350548 TCTGGACACA
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
71 63 1.00
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (71 bp):
TGAGCCGACTTAGTCAGTCGATCAACAACAACCCAAATCGCATCCTTCTTACTTGCTGACAAGGG
CAGCAA
Found at i:19350933 original size:66 final size:66
Alignment explanation
Indices: 19350862--19350995 Score: 232
Period size: 66 Copynumber: 2.0 Consensus size: 66
19350852 TCATCCATTC
* *
19350862 GAAACTCCGATTCCTTGTTCAGAACACACTCAGCCCGTTTTGCAACCAATTCATCATCAACTTTC
1 GAAACTCCGATTCCTCGTTCAGAAAACACTCAGCCCGTTTTGCAACCAATTCATCATCAACTTTC
19350927 T
66 T
* *
19350928 GAAACTCCGATTCCTCGTTCAGAAAACACTTAGCCCGTTTTGCAACCAATTCATCATCGACTTTC
1 GAAACTCCGATTCCTCGTTCAGAAAACACTCAGCCCGTTTTGCAACCAATTCATCATCAACTTTC
19350993 T
66 T
19350994 GA
1 GA
19350996 GCTTCACGAA
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.28, C:0.31, G:0.12, T:0.30
Consensus pattern (66 bp):
GAAACTCCGATTCCTCGTTCAGAAAACACTCAGCCCGTTTTGCAACCAATTCATCATCAACTTTC
T
Found at i:19351163 original size:49 final size:49
Alignment explanation
Indices: 19351085--19351182 Score: 160
Period size: 49 Copynumber: 2.0 Consensus size: 49
19351075 GCACGTTCAT
*
19351085 CGCTCGTAAAGCAAACAATGACTTCCGGCTTAAGGCGTCCGCAACCACG
1 CGCTCGCAAAGCAAACAATGACTTCCGGCTTAAGGCGTCCGCAACCACG
* * *
19351134 CGCTCGCAAAGCAAACAGTGATTTTCGGCTTAAGGCGTCCGCAACCACG
1 CGCTCGCAAAGCAAACAATGACTTCCGGCTTAAGGCGTCCGCAACCACG
19351183 TTAGCCTTTC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.28, C:0.32, G:0.23, T:0.17
Consensus pattern (49 bp):
CGCTCGCAAAGCAAACAATGACTTCCGGCTTAAGGCGTCCGCAACCACG
Found at i:19351816 original size:93 final size:93
Alignment explanation
Indices: 19351657--19351841 Score: 361
Period size: 93 Copynumber: 2.0 Consensus size: 93
19351647 GAAACCTTTC
*
19351657 ACAAATCGTCGGTAATAACCGGCGAGCCCCAAAAAGCTCCGGACTTCAGTAACATTTCTCGGAGG
1 ACAAATCGTCGGTAATAACCGGCGAGCCCCAAAAAGCTCCGAACTTCAGTAACATTTCTCGGAGG
19351722 TTTCCAGTCAAGTATGGCTGAAATTTTA
66 TTTCCAGTCAAGTATGGCTGAAATTTTA
19351750 ACAAATCGTCGGTAATAACCGGCGAGCCCCAAAAAGCTCCGAACTTCAGTAACATTTCTCGGAGG
1 ACAAATCGTCGGTAATAACCGGCGAGCCCCAAAAAGCTCCGAACTTCAGTAACATTTCTCGGAGG
19351815 TTTCCAGTCAAGTATGGCTGAAATTTT
66 TTTCCAGTCAAGTATGGCTGAAATTTT
19351842 GTTCGGGTCA
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 91 1.00
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (93 bp):
ACAAATCGTCGGTAATAACCGGCGAGCCCCAAAAAGCTCCGAACTTCAGTAACATTTCTCGGAGG
TTTCCAGTCAAGTATGGCTGAAATTTTA
Found at i:19354310 original size:75 final size:75
Alignment explanation
Indices: 19354187--19354332 Score: 265
Period size: 75 Copynumber: 1.9 Consensus size: 75
19354177 GGGACAGCCG
*
19354187 TATTAGTTCGAATGTATTGGTTGAACCAATCATTCATCACGCTATAGAAAGCTTGTCTAGCTTCA
1 TATTAGTTCGAATGTATTGGTTAAACCAATCATTCATCACGCTATAGAAAGCTTGTCTAGCTTCA
19354252 TCATTCGGGT
66 TCATTCGGGT
* *
19354262 TATTAGTTCGAATGTATTGGTTAAACCAATCATTCATCACGCTATAGAATGCTTGTCTAGCTTTA
1 TATTAGTTCGAATGTATTGGTTAAACCAATCATTCATCACGCTATAGAAAGCTTGTCTAGCTTCA
19354327 TCATTC
66 TCATTC
19354333 TGATTACTAG
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 68 1.00
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.38
Consensus pattern (75 bp):
TATTAGTTCGAATGTATTGGTTAAACCAATCATTCATCACGCTATAGAAAGCTTGTCTAGCTTCA
TCATTCGGGT
Found at i:19356143 original size:40 final size:40
Alignment explanation
Indices: 19355960--19356129 Score: 234
Period size: 40 Copynumber: 4.3 Consensus size: 40
19355950 TCCTCGTTCA
* * * *
19355960 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
19355999 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
19356039 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
19356079 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
19356119 AAGGCCTTCGG
1 AATGCCTTCGG
19356130 ATCTTAGTCC
Statistics
Matches: 118, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 35 0.30
40 83 0.70
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:19356414 original size:39 final size:39
Alignment explanation
Indices: 19356293--19356546 Score: 402
Period size: 39 Copynumber: 6.5 Consensus size: 39
19356283 GCTCCTCGTT
* * *
19356293 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCA
* * * *
19356333 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
*
19356373 CAAATGCCTTCGGGCATAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
19356412 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
19356451 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
19356490 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
19356529 CAAATGCCTTCGGGCTTA
1 CAAATGCCTTCGGGCTTA
19356547 ATCTTAGTCC
Statistics
Matches: 204, Mismatches: 9, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
39 154 0.75
40 48 0.24
41 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:19356961 original size:80 final size:80
Alignment explanation
Indices: 19356828--19356987 Score: 320
Period size: 80 Copynumber: 2.0 Consensus size: 80
19356818 ATTCCGATGG
19356828 CTATTCGACCACTTTTTCCTTCCCTTTATCGGATTTAGTTCCCCTTTGCTCTTGAGCTTAATTAA
1 CTATTCGACCACTTTTTCCTTCCCTTTATCGGATTTAGTTCCCCTTTGCTCTTGAGCTTAATTAA
19356893 ACAAATAAATTGATT
66 ACAAATAAATTGATT
19356908 CTATTCGACCACTTTTTCCTTCCCTTTATCGGATTTAGTTCCCCTTTGCTCTTGAGCTTAATTAA
1 CTATTCGACCACTTTTTCCTTCCCTTTATCGGATTTAGTTCCCCTTTGCTCTTGAGCTTAATTAA
19356973 ACAAATAAATTGATT
66 ACAAATAAATTGATT
19356988 TAATCATTTG
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 80 1.00
ACGTcount: A:0.24, C:0.24, G:0.10, T:0.42
Consensus pattern (80 bp):
CTATTCGACCACTTTTTCCTTCCCTTTATCGGATTTAGTTCCCCTTTGCTCTTGAGCTTAATTAA
ACAAATAAATTGATT
Found at i:19366844 original size:14 final size:15
Alignment explanation
Indices: 19366818--19366847 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
19366808 CAACAATAAA
19366818 GTTTTTCTCTTCTTG
1 GTTTTTCTCTTCTTG
19366833 GTTTTTCT-TTCTTG
1 GTTTTTCTCTTCTTG
19366847 G
1 G
19366848 CCAGTTGGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.00, C:0.17, G:0.17, T:0.67
Consensus pattern (15 bp):
GTTTTTCTCTTCTTG
Found at i:19368268 original size:32 final size:32
Alignment explanation
Indices: 19368192--19368270 Score: 95
Period size: 32 Copynumber: 2.5 Consensus size: 32
19368182 ATTAACTACC
* *
19368192 GACATGACAATTCCATGTCATCATTGAAGGCT
1 GACATGGCAATGCCATGTCATCATTGAAGGCT
* **
19368224 GACATGGTAATGCCATGTCATCATTGATTGCT
1 GACATGGCAATGCCATGTCATCATTGAAGGCT
* *
19368256 TACGTGGCAATGCCA
1 GACATGGCAATGCCA
19368271 CAACATCAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (32 bp):
GACATGGCAATGCCATGTCATCATTGAAGGCT
Found at i:19368463 original size:17 final size:17
Alignment explanation
Indices: 19368433--19368465 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
19368423 ATTAAATTTT
19368433 ATGAACTTTATAAAAAA
1 ATGAACTTTATAAAAAA
19368450 ATGAA-TTTATTAAAAA
1 ATGAACTTTA-TAAAAA
19368466 TCATAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.33
Consensus pattern (17 bp):
ATGAACTTTATAAAAAA
Found at i:19368464 original size:16 final size:17
Alignment explanation
Indices: 19368433--19368465 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
19368423 ATTAAATTTT
19368433 ATGAACTTTATAAAAAA
1 ATGAACTTTATAAAAAA
*
19368450 ATGAA-TTTATTAAAAA
1 ATGAACTTTATAAAAAA
19368466 TCATAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.33
Consensus pattern (17 bp):
ATGAACTTTATAAAAAA
Found at i:19368516 original size:11 final size:11
Alignment explanation
Indices: 19368481--19368523 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
19368471 AAAAAATAGA
19368481 AAAAATTAATCT
1 AAAAATTAAT-T
*
19368493 ATAAAATTTATT
1 A-AAAATTAATT
*
19368505 AGAAATTAATT
1 AAAAATTAATT
19368516 AAAAATTA
1 AAAAATTA
19368524 TAAAAAATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
11 15 0.58
12 3 0.12
13 8 0.31
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (11 bp):
AAAAATTAATT
Found at i:19375115 original size:17 final size:17
Alignment explanation
Indices: 19375093--19375142 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
19375083 TCATTTTTCC
19375093 ACATATATATATCAAAA
1 ACATATATATATCAAAA
19375110 ACATATAAATATAT-AAAA
1 ACATAT--ATATATCAAAA
19375128 A-ATATA-ATA-CAAAA
1 ACATATATATATCAAAA
19375142 A
1 A
19375143 AATAAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
14 8 0.27
15 1 0.03
17 10 0.33
18 5 0.17
19 6 0.20
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (17 bp):
ACATATATATATCAAAA
Found at i:19375123 original size:19 final size:17
Alignment explanation
Indices: 19375099--19375158 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 17
19375089 TTCCACATAT
19375099 ATATATCAAAAACATATAA
1 ATATAT-AAAAA-ATATAA
19375118 ATATATAAAAAATAT-A
1 ATATATAAAAAATATAA
*
19375134 ATACA-AAAAAATA-AA
1 ATATATAAAAAATATAA
*
19375149 A-AAATAAAAA
1 ATATATAAAAA
19375159 TTTATCTTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 2 0.05
15 15 0.41
16 5 0.14
17 4 0.11
18 5 0.14
19 6 0.16
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (17 bp):
ATATATAAAAAATATAA
Found at i:19375141 original size:32 final size:32
Alignment explanation
Indices: 19375095--19375158 Score: 78
Period size: 30 Copynumber: 2.0 Consensus size: 32
19375085 ATTTTTCCAC
* *
19375095 ATATATATATCAAAAACATATAAATATATAAAAA
1 ATATATATATCAAAAA-A-ATAAAAAAATAAAAA
19375129 ATATA-ATA-CAAAAAAATAAAAAAATAAAAA
1 ATATATATATCAAAAAAATAAAAAAATAAAAA
19375159 TTTATCTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 13 0.46
31 1 0.04
32 6 0.21
33 3 0.11
34 5 0.18
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (32 bp):
ATATATATATCAAAAAAATAAAAAAATAAAAA
Found at i:19375767 original size:3 final size:3
Alignment explanation
Indices: 19375761--19375861 Score: 55
Period size: 3 Copynumber: 33.0 Consensus size: 3
19375751 TCATTCCTAA
* * * *
19375761 TAT TAT TAA TAC TAT TAT T-T CTAT TAT TAT TAT TGT TAT TAT TAA
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
* ** * *
19375806 TAT TCT GGT TAT TAAA TAT TAT TAT T-T TAAT GTAT TAT TAT T-T CTAG
1 TAT TAT TAT TAT T-AT TAT TAT TAT TAT T-AT -TAT TAT TAT TAT -TAT
19375853 TAT TAT TAT
1 TAT TAT TAT
19375862 ATATAATATT
Statistics
Matches: 74, Mismatches: 16, Indels: 16
0.70 0.15 0.15
Matches are distributed among these distances:
2 4 0.05
3 63 0.85
4 6 0.08
5 1 0.01
ACGTcount: A:0.32, C:0.04, G:0.05, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:19376406 original size:16 final size:16
Alignment explanation
Indices: 19376385--19376445 Score: 59
Period size: 16 Copynumber: 3.6 Consensus size: 16
19376375 TTTTTAAAAA
19376385 ATATTATATTTTTCAT
1 ATATTATATTTTTCAT
*
19376401 ATATTATGTATTTTTTTAT
1 ATATTA--TA-TTTTTCAT
* *
19376420 ATATTATATTATTCGT
1 ATATTATATTTTTCAT
*
19376436 ATATTTTATT
1 ATATTATATT
19376446 GTATTATATA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
16 20 0.54
17 2 0.05
18 2 0.05
19 13 0.35
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (16 bp):
ATATTATATTTTTCAT
Found at i:19376437 original size:26 final size:25
Alignment explanation
Indices: 19376400--19376459 Score: 61
Period size: 26 Copynumber: 2.4 Consensus size: 25
19376390 ATATTTTTCA
*
19376400 TATATTA-TGTAT-TTTTTTATATAT
1 TATATTATTGTATATTTTAT-TATAT
*
19376424 TATATTATTCGTATATTTTATTGTAT
1 TATATTATT-GTATATTTTATTATAT
19376450 TATATATATT
1 TATAT-TATT
19376460 TTTTTCTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
24 7 0.23
25 1 0.03
26 13 0.43
27 9 0.30
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (25 bp):
TATATTATTGTATATTTTATTATAT
Found at i:19376457 original size:35 final size:35
Alignment explanation
Indices: 19376385--19376459 Score: 91
Period size: 35 Copynumber: 2.1 Consensus size: 35
19376375 TTTTTAAAAA
* *
19376385 ATATTATATTTTTCATATATTATGTATTTTTTTAT
1 ATATTATATTATTCATATATTATGTATTTTTATAT
*
19376420 ATATTATATTATTCGTATATT-T-TATTGTATTATAT
1 ATATTATATTATTCATATATTATGTATT-T-TTATAT
19376455 ATATT
1 ATATT
19376460 TTTTTCTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
33 4 0.11
34 2 0.06
35 29 0.83
ACGTcount: A:0.31, C:0.03, G:0.04, T:0.63
Consensus pattern (35 bp):
ATATTATATTATTCATATATTATGTATTTTTATAT
Found at i:19376551 original size:24 final size:24
Alignment explanation
Indices: 19376524--19376582 Score: 64
Period size: 26 Copynumber: 2.4 Consensus size: 24
19376514 TATTTTATTG
19376524 TTATTTCATATATATATATGTATA
1 TTATTTCATATATATATATGTATA
* * *
19376548 TTATTAGTTATATATATATTTTTATA
1 TTATT--TCATATATATATATGTATA
*
19376574 CTATTTCAT
1 TTATTTCAT
19376583 GTATGTATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
24 8 0.29
26 20 0.71
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (24 bp):
TTATTTCATATATATATATGTATA
Found at i:19378107 original size:43 final size:43
Alignment explanation
Indices: 19378059--19378161 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
19378049 TTGGTTTTCA
19378059 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
19378102 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
19378145 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
19378162 TTGAAATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:19378178 original size:29 final size:29
Alignment explanation
Indices: 19378143--19378216 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
19378133 GTTGTGAGAT
* *
19378143 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
19378172 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
19378201 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
19378217 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:19380288 original size:40 final size:40
Alignment explanation
Indices: 19380239--19380592 Score: 465
Period size: 40 Copynumber: 8.8 Consensus size: 40
19380229 TTACTAAATT
*
19380239 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTATC
1 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATC
*
19380279 CGGGTTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATC
1 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATC
** *
19380319 CGGGCTAAGTTTCGAAGAGCATTCATGCTAGCGATGTATC
1 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATC
*
19380359 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTAATGTATC
1 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATC
* * *
19380399 CGGGCTAAGTTCCGAAAAGCATTCGTGCTAGTGATGTATC
1 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATC
* * *
19380439 CGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTTATGTATC
1 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATC
* * *
19380479 CGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATC
1 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATC
* ** * * * * *
19380519 CGTGCTAAACCCCAAAGAGCATTCGTGCTGGTGTTATATC
1 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATC
* * * *
19380559 CGGGCTAGGTCCCGAAGAGTAATCATGCTGGTGA
1 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
19380593 CGTGTATTCG
Statistics
Matches: 280, Mismatches: 34, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 280 1.00
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATC
Found at i:19383323 original size:82 final size:81
Alignment explanation
Indices: 19383186--19383347 Score: 306
Period size: 82 Copynumber: 2.0 Consensus size: 81
19383176 TTTGAATGAG
*
19383186 ATTAATTTCGAAATTTTTAGATCAAGAACCAAAAAGATCGGACGTGGATCGGGGAAAATAAAAAA
1 ATTAATTTCGAAATTTTTAGATCAAGAACCAAAAAGATCGAACGTGGATCGGGGAAAAT-AAAAA
19383251 AAAATCGTTGAGTAGTC
65 AAAATCGTTGAGTAGTC
19383268 ATTAATTTCGAAATTTTTAGATCAAGAACCAAAAAGATCGAACGTGGATCGGGGAAAATAAAAAA
1 ATTAATTTCGAAATTTTTAGATCAAGAACCAAAAAGATCGAACGTGGATCGGGGAAAATAAAAAA
19383333 AAATCGTTGAGTAGT
66 AAATCGTTGAGTAGT
19383348 TGAATTCGAC
Statistics
Matches: 79, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
81 21 0.27
82 58 0.73
ACGTcount: A:0.44, C:0.10, G:0.20, T:0.25
Consensus pattern (81 bp):
ATTAATTTCGAAATTTTTAGATCAAGAACCAAAAAGATCGAACGTGGATCGGGGAAAATAAAAAA
AAATCGTTGAGTAGTC
Found at i:19386988 original size:47 final size:46
Alignment explanation
Indices: 19386915--19387178 Score: 193
Period size: 47 Copynumber: 5.7 Consensus size: 46
19386905 GGTAAGGTGC
19386915 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGT
1 CGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCATATCTCAAGT
* * * * **
19386962 CGATGCCATGTCCGAAACATGATCTTACACTGACT-ATCATTTTGTAG-
1 CGATGCCATGTCCCAGACATG-TCTTACACTGGCTCAT-A-TCTCAAGT
* * * *
19387009 CTGATG-CATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGGC
1 C-GATGCCATGTCCCAGACATGTCTTACACTGGCTCATATCTC-AAGT
* * *
19387056 CGATG-CATGTCCCAGACATGTCTTACACTAGCACTTATCTC-AGT
1 CGATGCCATGTCCCAGACATGTCTTACACTGGCTCATATCTCAAGT
* * * * * *
19387100 GCTGATGCCATGTCCCAAACATGGTTTTACACTAGCATCCATAATGT--GGC
1 -C-GATGCCATGTCCCAGACAT-GTCTTACACTGGC-T-CAT-ATCTCAAGT
19387150 CGATG-CATGTCCCAGACATGTCTTACACT
1 CGATGCCATGTCCCAGACATGTCTTACACT
19387179 AGCACACACA
Statistics
Matches: 173, Mismatches: 30, Indels: 29
0.75 0.13 0.12
Matches are distributed among these distances:
44 1 0.01
45 3 0.02
46 65 0.38
47 73 0.42
48 24 0.14
49 1 0.01
50 3 0.02
51 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.29
Consensus pattern (46 bp):
CGATGCCATGTCCCAGACATGTCTTACACTGGCTCATATCTCAAGT
Found at i:19387173 original size:140 final size:141
Alignment explanation
Indices: 19386913--19387178 Score: 371
Period size: 140 Copynumber: 1.9 Consensus size: 141
19386903 TGGGTAAGGT
* * *
19386913 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGTCGATGCCATGTCCGAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACATATCTCAAGTCGATGCCATGTCCCAA
** *
19386978 ACATGATCTTACACTGACTATCATTTTGTAGCTGATGCATGTCCCAGACATGTCTTACACTGGCT
66 ACATGATCTTACACTGACTATCATAATGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCT
19387043 TACATCTCGAG
131 TACATCTCGAG
*
19387054 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACTTATCTC-AGTGCTGATGCCATGTCCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACATATCTCAAGT-C-GATGCCATGTCCC
* * *
19387116 AAACATGGTTTTACACT-AGC-ATCCATAATGTGGCCGATGCATGTCCCAGACATGTCTTACACT
64 AAACATGATCTTACACTGA-CTAT-CATAATGTAGCCGATGCATGTCCCAGACATGTCTTACACT
19387179 AGCACACACA
Statistics
Matches: 111, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
138 3 0.03
139 23 0.21
140 78 0.70
141 7 0.06
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (141 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACATATCTCAAGTCGATGCCATGTCCCAA
ACATGATCTTACACTGACTATCATAATGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCT
TACATCTCGAG
Found at i:19387856 original size:12 final size:12
Alignment explanation
Indices: 19387839--19387863 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19387829 CCAAAAATGT
19387839 AAAATCATCAAG
1 AAAATCATCAAG
19387851 AAAATCATCAAG
1 AAAATCATCAAG
19387863 A
1 A
19387864 TCACTTACAT
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:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATCATCAAG
Found at i:19390984 original size:28 final size:27
Alignment explanation
Indices: 19390921--19391072 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
19390911 ACATTAAGTC
* * *
19390921 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
19390948 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
19390976 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
19391003 TGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
19391031 CGCACACTTAGTGCTACATAGTCAAGT
1 CGCACACTTAGTGCTACATAGTCAACT
19391058 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
19391073 GCACAATTTA
Statistics
Matches: 117, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
27 65 0.56
28 52 0.44
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:19390991 original size:55 final size:55
Alignment explanation
Indices: 19390921--19391072 Score: 250
Period size: 55 Copynumber: 2.8 Consensus size: 55
19390911 ACATTAAGTC
* * *
19390921 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
19390976 CGCACACTTAGTGCTACATAGTCAACTTGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
19391031 CGCACACTTAGTGCTACATAGTCAAGTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
19391073 GCACAATTTA
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 90 1.00
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:19400133 original size:43 final size:42
Alignment explanation
Indices: 19400082--19400179 Score: 133
Period size: 43 Copynumber: 2.3 Consensus size: 42
19400072 CCAATGTCTC
* * *
19400082 AGATATGGTCTTATATGTAATCTCATATCGATTCCAATAGCCT
1 AGATATGGTCTTATACGGAATCTCATATCGATGCC-ATAGCCT
* * *
19400125 AGCTATGGTCTTATACGGAGTCTCATATCGATGCCATATCCT
1 AGATATGGTCTTATACGGAATCTCATATCGATGCCATAGCCT
19400167 AGATATGGTCTTA
1 AGATATGGTCTTA
19400180 CACGTAAACT
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 18 0.38
43 30 0.62
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (42 bp):
AGATATGGTCTTATACGGAATCTCATATCGATGCCATAGCCT
Found at i:19401406 original size:31 final size:31
Alignment explanation
Indices: 19401363--19401426 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
19401353 CTAAAATCGG
* *
19401363 GTTGTTATAAATCATCTCTCCATTTAATTTA
1 GTTGTTACAAATCATCTCTCCATTCAATTTA
*
19401394 GTTGTTACAAATCATCTCTTCATTCAATTTA
1 GTTGTTACAAATCATCTCTCCATTCAATTTA
19401425 GT
1 GT
19401427 CCAAAATTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.28, C:0.17, G:0.08, T:0.47
Consensus pattern (31 bp):
GTTGTTACAAATCATCTCTCCATTCAATTTA
Found at i:19403264 original size:25 final size:27
Alignment explanation
Indices: 19403236--19403285 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
19403226 AGTTTAGCCA
19403236 ATTTAAACCCT-AGGGGT-ATTTCGGT
1 ATTTAAACCCTGAGGGGTAATTTCGGT
**
19403261 ATTTATGCCCTGAGGGGTAATTTCG
1 ATTTAAACCCTGAGGGGTAATTTCG
19403286 TACTTACGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 9 0.43
26 6 0.29
27 6 0.29
ACGTcount: A:0.22, C:0.16, G:0.26, T:0.36
Consensus pattern (27 bp):
ATTTAAACCCTGAGGGGTAATTTCGGT
Found at i:19405428 original size:56 final size:56
Alignment explanation
Indices: 19405329--19405437 Score: 173
Period size: 56 Copynumber: 1.9 Consensus size: 56
19405319 TGTGCTTGAA
* *
19405329 AGCTAAAATTCTTACAAACTTAAAGAAGACAAGTTATAAATAGGGCACAATCATAT
1 AGCTAAAATTCTTACAAACGTAAAGAAGACAAGCTATAAATAGGGCACAATCATAT
* * *
19405385 AGCTAAAATTTTTACAAACGTAAAGAAGATAAGCTATAGATAGGGCACAATCA
1 AGCTAAAATTCTTACAAACGTAAAGAAGACAAGCTATAAATAGGGCACAATCA
19405438 CAGATTGGGA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 48 1.00
ACGTcount: A:0.48, C:0.14, G:0.15, T:0.24
Consensus pattern (56 bp):
AGCTAAAATTCTTACAAACGTAAAGAAGACAAGCTATAAATAGGGCACAATCATAT
Found at i:19407723 original size:46 final size:46
Alignment explanation
Indices: 19407582--19407747 Score: 147
Period size: 46 Copynumber: 3.6 Consensus size: 46
19407572 GTGTGCTAGC
* * * ** *
19407582 GTAAGACATGTCTAGGACATACATCAGCCA-CATTATAAGAGCCAGT
1 GTAAGACATGTCTGGGACATGCATC-GGCATCAAAATTAGAGCCAGT
*
19407628 GTAAGACCATGTCTGGGACATGGCATCGGCATCAAAATTAGAGCTAGT
1 GTAAGA-CATGTCTGGGACAT-GCATCGGCATCAAAATTAGAGCCAGT
* * * * * *
19407676 GTAGGACATGTTTGGTACATGCATCGGCCTCGAGATGTA-AGCCAGT
1 GTAAGACATGTCTGGGACATGCATCGGCATCAAAAT-TAGAGCCAGT
* *
19407722 GTAAAACATGTCTGGGACATGTATCG
1 GTAAGACATGTCTGGGACATGCATCG
19407748 AATATGAGAT
Statistics
Matches: 97, Mismatches: 19, Indels: 8
0.78 0.15 0.06
Matches are distributed among these distances:
46 46 0.47
47 30 0.31
48 21 0.22
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (46 bp):
GTAAGACATGTCTGGGACATGCATCGGCATCAAAATTAGAGCCAGT
Found at i:19407870 original size:49 final size:50
Alignment explanation
Indices: 19407765--19407883 Score: 138
Period size: 49 Copynumber: 2.4 Consensus size: 50
19407755 GATGTATCAA
* *
19407765 TGTAAGACCATGTCTGGGACATGGTATCGGCATGGATATGCAAGAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGCAAGAGCTAG
* * * *
19407815 TG-AAGACCATGTCTGGGACATGGCGTCGGCCTCGAT-T-CTGATAG-TCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGC-AAGAGCT-AG
19407863 TGTAAGACCATGTCTGGGACA
1 TGTAAGACCATGTCTGGGACA
19407884 GGGGATCACT
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
47 2 0.03
48 8 0.13
49 48 0.80
50 2 0.03
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.24
Consensus pattern (50 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGCAAGAGCTAG
Found at i:19421127 original size:68 final size:65
Alignment explanation
Indices: 19421008--19421269 Score: 198
Period size: 68 Copynumber: 4.0 Consensus size: 65
19420998 GATTGGATGA
* * ** * ** * *
19421008 TACAGATA-GTATGTAGCTAGGTCACATGTATGGTGCTGGGTGCACATCATGT-GTACAAGAGAG
1 TACAGATATATATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAG
19421071 C
65 C
*
19421072 TACAAGATATTATTATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAG
1 TAC-AGATA-TA-TATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAG
19421137 AGC
63 AGC
** * * * * *
19421140 TAC-GGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAG
1 TACAGATATATATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAG
19421204 AGC
63 AGC
* * *
19421207 TACGAGATA-A-AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAG
1 TAC-AGATATATATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAG
19421267 AGC
63 AGC
19421270 CGAACTATAT
Statistics
Matches: 158, Mismatches: 28, Indels: 25
0.75 0.13 0.12
Matches are distributed among these distances:
62 1 0.01
63 19 0.12
64 29 0.18
65 7 0.04
66 23 0.15
67 28 0.18
68 48 0.30
69 3 0.02
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (65 bp):
TACAGATATATATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGC
Found at i:19427005 original size:45 final size:44
Alignment explanation
Indices: 19426910--19427136 Score: 255
Period size: 45 Copynumber: 5.1 Consensus size: 44
19426900 TTTTCTCAAA
* * * *
19426910 TCACCGGCATT-TCA-CCTGCTAGGCTCGAGGCCCG-AT-ATCATT
1 TCACCGGCATTAT-AGCCTGCTAGGCTCAAAGACCGAATAAT-ATC
* * *
19426952 TCACCGGCATTATAGCCTGTTAGGCTCGAAAGACCAAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAAGACCGAATAATATC
*
19426997 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAA-GACCGAATAATATC
* *
19427042 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCTCGAATAATATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGAC-CGAATAATATC
* * *
19427087 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAA-GACCGAATAATATC
19427132 TCACC
1 TCACC
19427137 AGTTCTTTCC
Statistics
Matches: 161, Mismatches: 16, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
42 12 0.07
43 12 0.07
44 9 0.06
45 125 0.78
46 3 0.02
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.24
Consensus pattern (44 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGACCGAATAATATC
Found at i:19427058 original size:90 final size:90
Alignment explanation
Indices: 19426909--19427136 Score: 315
Period size: 90 Copynumber: 2.6 Consensus size: 90
19426899 CTTTTCTCAA
*
19426909 ATCACCGGCATT-TCA-CCTGCTAGGCTC-GAGGCCCG-AT-ATCATTTCACCGGCATTATAGCC
1 ATCACCGGCATTAT-AGCCTGCTAGGCTCAAAGGCCCGAATAAT-ATTTCACCGGCATTATAGCC
* *
19426969 TGTTAGGCTCGAAAGAC-CAAATAGTAT
64 TGCTAGGCTC-AAAGACTCAAATAATAT
* *
19426996 CTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATCTCACCGGCATTATAGCCTG
1 ATCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATTTCACCGGCATTATAGCCTG
* *
19427061 CTAGGCTCAAAGGCTCGAATAATAT
66 CTAGGCTCAAAGACTCAAATAATAT
*
19427086 ATCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAACATTTCACC
1 ATCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATTTCACC
19427137 AGTTCTTTCC
Statistics
Matches: 125, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
87 12 0.10
88 13 0.10
89 12 0.10
90 86 0.69
91 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.24
Consensus pattern (90 bp):
ATCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATTTCACCGGCATTATAGCCTG
CTAGGCTCAAAGACTCAAATAATAT
Found at i:19429120 original size:27 final size:27
Alignment explanation
Indices: 19429089--19429293 Score: 250
Period size: 27 Copynumber: 7.6 Consensus size: 27
19429079 ATATCGAGTC
* * *
19429089 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAAAT
*
19429116 TGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
19429143 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
*
19429170 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAA-T
** ** *
19429198 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAAAT
* **
19429225 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAAAT
* *
19429252 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
19429279 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
19429294 GTACAATTTA
Statistics
Matches: 157, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
27 133 0.85
28 24 0.15
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAAAT
Found at i:19436402 original size:29 final size:29
Alignment explanation
Indices: 19436370--19436429 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
19436360 AAACAAAAGT
19436370 TTGCCTCAGACATTTTCAAAATTCCATGC
1 TTGCCTCAGACATTTTCAAAATTCCATGC
*
19436399 TTGCCTCAGACATTTTCAAAATTTCATGC
1 TTGCCTCAGACATTTTCAAAATTCCATGC
19436428 TT
1 TT
19436430 CCTAGGATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.27, C:0.25, G:0.10, T:0.38
Consensus pattern (29 bp):
TTGCCTCAGACATTTTCAAAATTCCATGC
Found at i:19439114 original size:16 final size:15
Alignment explanation
Indices: 19439089--19439122 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
19439079 AAAGTTGATA
*
19439089 ATAATTAATATACATT
1 ATAATAAATATA-ATT
19439105 ATAATAAATATAATT
1 ATAATAAATATAATT
19439120 ATA
1 ATA
19439123 TATTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:19442870 original size:25 final size:25
Alignment explanation
Indices: 19442801--19442870 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
19442791 CTGTACATGT
* *
19442801 ATGCTCTCACGAGCTGTAAATCAGA
1 ATGCTCACACGAGCTGTGAATCAGA
* *
19442826 ATGCTCACATGAGCTATGAATCA-A
1 ATGCTCACACGAGCTGTGAATCAGA
*
19442850 ATTGCTCACACAAGCTGTGAA
1 A-TGCTCACACGAGCTGTGAA
19442871 AATGGGCCTG
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
24 2 0.05
25 35 0.95
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (25 bp):
ATGCTCACACGAGCTGTGAATCAGA
Found at i:19443999 original size:12 final size:12
Alignment explanation
Indices: 19443982--19444011 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
19443972 ACCTACACGT
19443982 CCATGTGCCAGG
1 CCATGTGCCAGG
*
19443994 CCATGTGCTAGG
1 CCATGTGCCAGG
19444006 CCATGT
1 CCATGT
19444012 AACAGCCTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.30, G:0.30, T:0.23
Consensus pattern (12 bp):
CCATGTGCCAGG
Found at i:19449371 original size:21 final size:20
Alignment explanation
Indices: 19449345--19449384 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
19449335 GGACTAAATC
19449345 GAAAACATATAGAAT-TTTTCA
1 GAAAACA-AT-GAATATTTTCA
19449366 GAAAACAATGAATATTTTC
1 GAAAACAATGAATATTTTC
19449385 GAACTACAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 7 0.39
21 7 0.39
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.33
Consensus pattern (20 bp):
GAAAACAATGAATATTTTCA
Found at i:19450804 original size:21 final size:20
Alignment explanation
Indices: 19450768--19450809 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
19450758 CTAAATATGC
19450768 GTCTGTTTGTTAGAACATTTT
1 GTCTGTTTGTTAGAAC-TTTT
19450789 GTCTGTTTGTGT-GAACTTTT
1 GTCTGTTTGT-TAGAACTTTT
19450809 G
1 G
19450810 GTTATTGACA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 5 0.25
21 14 0.70
22 1 0.05
ACGTcount: A:0.14, C:0.10, G:0.24, T:0.52
Consensus pattern (20 bp):
GTCTGTTTGTTAGAACTTTT
Found at i:19451196 original size:32 final size:32
Alignment explanation
Indices: 19451160--19451225 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
19451150 TTAAGTCGGT
*
19451160 TTGTAAAATGATTATATAAATTGCGGTACAAG
1 TTGTAAAATGATTATATAAACTGCGGTACAAG
* *
19451192 TTGTACAATGATTATATAAACTGTGGTACAAG
1 TTGTAAAATGATTATATAAACTGCGGTACAAG
19451224 TT
1 TT
19451226 TTTATGGTGG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.36
Consensus pattern (32 bp):
TTGTAAAATGATTATATAAACTGCGGTACAAG
Found at i:19454082 original size:21 final size:22
Alignment explanation
Indices: 19454053--19454103 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
19454043 TCTCTCTCGC
*
19454053 TTTCCTTTTCACCTTTTTCA-T
1 TTTCATTTTCACCTTTTTCACT
**
19454074 TTTCATTTTCTTCTTTTTCACT
1 TTTCATTTTCACCTTTTTCACT
19454096 TTT-ATTTT
1 TTTCATTTT
19454104 TCTCTTCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.10, C:0.22, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTCATTTTCACCTTTTTCACT
Found at i:19457662 original size:40 final size:41
Alignment explanation
Indices: 19457607--19457686 Score: 101
Period size: 40 Copynumber: 2.0 Consensus size: 41
19457597 AAGCGCTTTG
*
19457607 TCCACGTGGACACAAAGTAC-GCCTTCAAGGAAGCGTTTTCTA
1 TCCACGTGGA-ACAAAGTACTGCCTT-AAGGAAGCATTTTCTA
* *
19457649 TCCACGTGG-ACAAAGTGCTTCCTTAAGGAAGCATTTTC
1 TCCACGTGGAACAAAGTACTGCCTTAAGGAAGCATTTTC
19457687 CTGCTTTATC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
40 21 0.62
41 4 0.12
42 9 0.26
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (41 bp):
TCCACGTGGAACAAAGTACTGCCTTAAGGAAGCATTTTCTA
Found at i:19465015 original size:26 final size:26
Alignment explanation
Indices: 19464941--19465047 Score: 97
Period size: 26 Copynumber: 4.1 Consensus size: 26
19464931 TGAAGGAATT
* * *
19464941 ATACTGTTACTAGCAGCTTTGCGGCG
1 ATACTATTACTAGCAGCTTTACTGCG
** * *
19464967 ATACTGGTACTGGTAGCTTTACTGCG
1 ATACTATTACTAGCAGCTTTACTGCG
* **
19464993 ATACTATTACTAGCAGTTTTACTATG
1 ATACTATTACTAGCAGCTTTACTGCG
* * *
19465019 ATACTATTATTGGCAGCTTTGCTGCG
1 ATACTATTACTAGCAGCTTTACTGCG
19465045 ATA
1 ATA
19465048 TTGGTGTGTT
Statistics
Matches: 63, Mismatches: 18, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 63 1.00
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.36
Consensus pattern (26 bp):
ATACTATTACTAGCAGCTTTACTGCG
Found at i:19466259 original size:50 final size:50
Alignment explanation
Indices: 19466170--19466355 Score: 223
Period size: 50 Copynumber: 3.7 Consensus size: 50
19466160 GTGAAGTTGC
* * *
19466170 TAGATCACGTGTGTAGTACTATGTGCAGGCTACTGCGTGTACCGGAATGA
1 TAGATCTCATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGA
* *
19466220 TAGGT-TGCATGTGTAGTATTATGTGCAGGCTACTACGTGTACCGGAATGA
1 TAGATCT-CATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGA
* * * *
19466270 TAGATCTCATGTGTAGTACTATGTGTAGGCTACTATGCGTACCGG-ATAGCT
1 TAGATCTCATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAAT-G-A
* * *
19466321 TCGATCACATGTGTAGTACTATGTGTAGGCTACTA
1 TAGATCTCATGTGTAGTACTATGTGCAGGCTACTA
19466356 TGTGAATCGG
Statistics
Matches: 119, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
49 2 0.02
50 83 0.70
51 34 0.29
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (50 bp):
TAGATCTCATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGA
Found at i:19468930 original size:26 final size:26
Alignment explanation
Indices: 19468894--19468946 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
19468884 ATGTGATAAT
*
19468894 GTGATTCCGTGTAAGACCATAGCTGG
1 GTGATTACGTGTAAGACCATAGCTGG
*
19468920 GTGATTACGTGTATGACCATAGCTGG
1 GTGATTACGTGTAAGACCATAGCTGG
19468946 G
1 G
19468947 CTATGACATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (26 bp):
GTGATTACGTGTAAGACCATAGCTGG
Found at i:19472208 original size:50 final size:51
Alignment explanation
Indices: 19472128--19472263 Score: 168
Period size: 50 Copynumber: 2.7 Consensus size: 51
19472118 GTGAAGTCGC
* * * *
19472128 TAGGTCACGTGTGTAGTACTATGTGGAGGCTACTACGTGTACCGGA-ATG-A
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGATA-GCA
* * *
19472178 TAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAGCT
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGATAGCA
* *
19472229 TCGATCACATGTGTAGTACTATGTGCAGGCTACTA
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTA
19472264 TGTCAACCGG
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
50 41 0.55
51 33 0.45
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.29
Consensus pattern (51 bp):
TAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGATAGCA
Found at i:19475579 original size:40 final size:40
Alignment explanation
Indices: 19475397--19475619 Score: 227
Period size: 40 Copynumber: 5.6 Consensus size: 40
19475387 TCCTCGTTCA
* * * * * *
19475397 AATGCCTTCGGGGCATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
19475436 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
19475476 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
19475516 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
19475556 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
19475596 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
19475620 CAGCATTTAA
Statistics
Matches: 159, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 36 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:19484915 original size:23 final size:22
Alignment explanation
Indices: 19484863--19484915 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
19484853 TTCACGTCTT
*
19484863 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
19484885 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
19484908 TTTCTTTT
1 TTTCTTTT
19484916 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:19488360 original size:40 final size:40
Alignment explanation
Indices: 19488178--19488400 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
19488168 TCCTCGATCA
* * * * *
19488178 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
19488217 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
19488257 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
19488297 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
19488337 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
19488377 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
19488401 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:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:19488409 original size:41 final size:41
Alignment explanation
Indices: 19488332--19488409 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
19488322 TTAGTATCTC
* * *
19488332 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
19488373 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
19488410 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:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:19494132 original size:25 final size:25
Alignment explanation
Indices: 19494095--19494182 Score: 85
Period size: 25 Copynumber: 3.6 Consensus size: 25
19494085 AAGGTTATGC
*
19494095 GGCACTATATGTGCAAAAACTAAGT
1 GGCACTATGTGTGCAAAAACTAAGT
* *
19494120 GGCACAATGTGTGC-AAGACTACA-T
1 GGCACTATGTGTGCAAAAACTA-AGT
19494144 GGCACTATGTGTGCGAATAAA-TAAG-
1 GGCACTATGTGTGC-AA-AAACTAAGT
*
19494169 AGCACTATGTGTGC
1 GGCACTATGTGTGC
19494183 GGACTTTTAA
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
24 20 0.38
25 27 0.52
26 3 0.06
27 2 0.04
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (25 bp):
GGCACTATGTGTGCAAAAACTAAGT
Found at i:19500884 original size:24 final size:24
Alignment explanation
Indices: 19500831--19500895 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 24
19500821 AAAAACTAAT
*
19500831 TGGCACTATGTGTGCGAGACTACA
1 TGGCACTATGTGTGCGAGACAACA
* *
19500855 TAGCACTATGTGTGCGAGGA-AACG
1 TGGCACTATGTGTGCGA-GACAACA
*
19500879 TGGCACTTTGTGTGCGA
1 TGGCACTATGTGTGCGA
19500896 ATAAGTAAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
24 33 0.94
25 2 0.06
ACGTcount: A:0.23, C:0.18, G:0.32, T:0.26
Consensus pattern (24 bp):
TGGCACTATGTGTGCGAGACAACA
Found at i:19504155 original size:33 final size:33
Alignment explanation
Indices: 19504113--19504178 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
19504103 GCTTCTTGTG
*
19504113 TTAGCTTCTTTTCAGATTTCGCTAACACTTTCC
1 TTAGCTTCTTTTCAGATTCCGCTAACACTTTCC
19504146 TTAGCTTCTTTTCAGATTCCGCTAACACTTTCC
1 TTAGCTTCTTTTCAGATTCCGCTAACACTTTCC
19504179 CACTCCTTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.18, C:0.29, G:0.09, T:0.44
Consensus pattern (33 bp):
TTAGCTTCTTTTCAGATTCCGCTAACACTTTCC
Found at i:19509609 original size:55 final size:54
Alignment explanation
Indices: 19509486--19509681 Score: 197
Period size: 55 Copynumber: 3.6 Consensus size: 54
19509476 CTTACCATTA
* *
19509486 CCATGTCTCGACATGGTCTTACA-TGGTATCCTTGCCTTATGAACTCACCAATG
1 CCATGCCTTGACATGGTCTTACATTGGTATCCTTGCCTTATGAACTCACCAATG
* * * *
19509539 CCATGCCTTGGCATGGTCTTACATTGG-A-CCTTTGCTTTATAGTAACTTATCAATG
1 CCATGCCTTGACATGGTCTTACATTGGTATCC-TTGCCTTAT-G-AACTCACCAATG
*** *
19509594 CCATTTTTTGACATGGTCTTACA-TGGTATCCTTGCCTTA-GAAACCTTACCAATTG
1 CCATGCCTTGACATGGTCTTACATTGGTATCCTTGCCTTATG-AA-CTCACCAA-TG
*
19509649 CCATGCCTTGGCATGGTCTTACA-TGGTATCCTT
1 CCATGCCTTGACATGGTCTTACATTGGTATCCTT
19509682 AAACCCTAAT
Statistics
Matches: 118, Mismatches: 17, Indels: 14
0.79 0.11 0.09
Matches are distributed among these distances:
52 2 0.02
53 32 0.27
54 14 0.12
55 68 0.58
56 2 0.02
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
CCATGCCTTGACATGGTCTTACATTGGTATCCTTGCCTTATGAACTCACCAATG
Found at i:19513429 original size:20 final size:20
Alignment explanation
Indices: 19513393--19513440 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
19513383 TAGAGTATAT
*
19513393 TAATTAAATCTTGTTAATGA
1 TAATTAAATCTAGTTAATGA
*
19513413 TAATTAAA-CTAGTTTAATTA
1 TAATTAAATCTAG-TTAATGA
19513433 TACATTAA
1 TA-ATTAA
19513441 TTATACTCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 3 0.12
20 16 0.67
21 5 0.21
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (20 bp):
TAATTAAATCTAGTTAATGA
Found at i:19515520 original size:33 final size:33
Alignment explanation
Indices: 19515475--19515572 Score: 101
Period size: 33 Copynumber: 3.0 Consensus size: 33
19515465 CATGACATTC
* * *
19515475 ATAGAGAAAGTCCGTTGGGACAGTAAACATAGA
1 ATAGAGATAGTCCATTGGGACAGTAAACACAGA
* * * * *
19515508 ATAGAGATAGTCCACTAGGACAATAAATAGAGA
1 ATAGAGATAGTCCATTGGGACAGTAAACACAGA
*
19515541 AT--AGATAGTCTATTGGGACAGTAAACACAGA
1 ATAGAGATAGTCCATTGGGACAGTAAACACAGA
19515572 A
1 A
19515573 CAAATAAAGC
Statistics
Matches: 52, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
31 24 0.46
33 28 0.54
ACGTcount: A:0.45, C:0.12, G:0.23, T:0.19
Consensus pattern (33 bp):
ATAGAGATAGTCCATTGGGACAGTAAACACAGA
Found at i:19515560 original size:31 final size:32
Alignment explanation
Indices: 19515483--19515572 Score: 92
Period size: 31 Copynumber: 2.8 Consensus size: 32
19515473 TCATAGAGAA
* *
19515483 AGTCCGTTGGGACAGTAAACATAGAATAGAGAT
1 AGTCCATTGGGACAGTAAACAGAGAATA-AGAT
* * * *
19515516 AGTCCACTAGGACAATAAATAGAGAAT-AGAT
1 AGTCCATTGGGACAGTAAACAGAGAATAAGAT
* *
19515547 AGTCTATTGGGACAGTAAACACAGAA
1 AGTCCATTGGGACAGTAAACAGAGAA
19515573 CAAATAAAGC
Statistics
Matches: 45, Mismatches: 12, Indels: 2
0.76 0.20 0.03
Matches are distributed among these distances:
31 24 0.53
33 21 0.47
ACGTcount: A:0.43, C:0.13, G:0.23, T:0.20
Consensus pattern (32 bp):
AGTCCATTGGGACAGTAAACAGAGAATAAGAT
Found at i:19521516 original size:64 final size:64
Alignment explanation
Indices: 19521399--19521518 Score: 145
Period size: 64 Copynumber: 1.9 Consensus size: 64
19521389 CGAGCAACCC
* * ****
19521399 GATCGGTATTGATCCTGCATGTGTTACGAACATACCTCGTCTCTTTGTGAGCGTCTTTTTATAT
1 GATCGGTATTGATCCTGCATGTATTACGAACATACCTAGTCTCTTAAAAAGCGTCTTTTTATAT
*
19521463 GATCGGTATTGATCCTGCATGTATTGC-AGACATACCATAG-CTCTTAAAAAGCGTCT
1 GATCGGTATTGATCCTGCATGTATTACGA-ACATACC-TAGTCTCTTAAAAAGCGTCT
19521519 CAATATTTGG
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
63 1 0.02
64 44 0.94
65 2 0.04
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (64 bp):
GATCGGTATTGATCCTGCATGTATTACGAACATACCTAGTCTCTTAAAAAGCGTCTTTTTATAT
Done.