Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold187
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: 2169796
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 45208 characters in sequence are not A, C, G, or T
File 11 of 13
Found at i:1668277 original size:40 final size:39
Alignment explanation
Indices: 1668206--1668283 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
1668196 GGTAAAAAGA
* *
1668206 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
1668245 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
1668284 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:1668892 original size:28 final size:28
Alignment explanation
Indices: 1668825--1668950 Score: 162
Period size: 28 Copynumber: 4.4 Consensus size: 28
1668815 TTGACTTGCA
* **
1668825 TGGGCTTTAAAAGGGTGCCACTGACTTGCG
1 TGGGCTTTGAAAGAATGCCACTGAC-T-CG
*
1668855 TGGGCTTTGAAAGAATGCCACTAACTCG
1 TGGGCTTTGAAAGAATGCCACTGACTCG
* *
1668883 TGGGCTTTGAAAGGATGCCACTGACTTG
1 TGGGCTTTGAAAGAATGCCACTGACTCG
* *
1668911 TGGGCTTTGAAAGAGTGCCACTGACTTG
1 TGGGCTTTGAAAGAATGCCACTGACTCG
1668939 TGGGCTTTGAAA
1 TGGGCTTTGAAA
1668951 AGGTACCACT
Statistics
Matches: 87, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
28 65 0.75
29 1 0.01
30 21 0.24
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (28 bp):
TGGGCTTTGAAAGAATGCCACTGACTCG
Found at i:1669001 original size:32 final size:32
Alignment explanation
Indices: 1668798--1669351 Score: 728
Period size: 32 Copynumber: 17.8 Consensus size: 32
1668788 ACAGTGGTGA
** **
1668798 TTTGAAAAGGGTTGCCATTGACTTGCATGGGC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
* *
1668830 TTT-AAAAGGG-TGCCACTGACTTGCGTGGGC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
** ** *
1668860 TTTG-AAA-GAATGCCACTAAC-T-CGTGGGC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
* *
1668888 TTTG-AAA-GGATGCCACTGAC-T-TGTGGGC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
* *
1668916 TTTG-AAAGAG-TGCCACTGAC-T-TGTGGGC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
* * *
1668944 TTTGAAAA-GG-TACCACTGACTTGTGTGGTC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
*
1668974 CTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
*
1669006 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
* *
1669038 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
1669070 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
*
1669102 TTTGAAAATGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
*
1669134 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
1669166 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
1669198 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
1669230 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
*
1669262 TTTGAAAATGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
*
1669294 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
* * *
1669326 TTTGAAATGGG-TGCCACAGAGTTGTG
1 TTTGAAAAGGGTTGCCACCGACTTGTG
1669352 GATTTTAAAA
Statistics
Matches: 485, Mismatches: 29, Indels: 17
0.91 0.05 0.03
Matches are distributed among these distances:
28 71 0.15
29 7 0.01
30 46 0.09
31 22 0.05
32 339 0.70
ACGTcount: A:0.19, C:0.18, G:0.33, T:0.29
Consensus pattern (32 bp):
TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
Found at i:1669431 original size:27 final size:27
Alignment explanation
Indices: 1669334--1670400 Score: 1693
Period size: 27 Copynumber: 39.0 Consensus size: 27
1669324 GCTTTGAAAT
* *
1669334 GGGTGCCACAGAGTTGTGGATTTTAAAA
1 GGGTGCCACGGAGTTGTGGA-CTTAAAA
*
1669362 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
1669389 GAGATGCCACGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
*
1669417 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1669444 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1669471 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
1669498 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
1669525 GGGATGCCATGGAGTTGTGGAATTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
* * *
1669553 GCGAGCCGCGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
1669580 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1669607 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
* *
1669635 AGGTGCCGCGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1669662 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1669689 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
1669716 GGATGCCACGAAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1669743 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
1669771 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1669798 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
1669825 GGTTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
1669853 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
**
1669880 GATATGCCACGGAGTTGTGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
*
1669908 GGGTGTCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
1669935 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1669962 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
* *
1669990 GGGTGCCACGAAGTTATGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
1670017 GGATGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1670044 GGGTGCCACGGAGTTGTGGACTTAAAAA
1 GGGTGCCACGGAGTTGTGGACTT-AAAA
*
1670072 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
1670099 GAGATGCCACGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
1670127 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
1670154 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1670181 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
1670209 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
**
1670236 GAATGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
* *
1670264 GGATGCCACGAAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1670291 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
1670319 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1670346 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
1670373 GGGTGCCACGGAGTTGTGGGCTTTAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
1670400 G
1 G
1670401 AGGTCACACT
Statistics
Matches: 963, Mismatches: 64, Indels: 25
0.92 0.06 0.02
Matches are distributed among these distances:
27 643 0.67
28 320 0.33
ACGTcount: A:0.28, C:0.14, G:0.35, T:0.23
Consensus pattern (27 bp):
GGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:1669533 original size:82 final size:81
Alignment explanation
Indices: 1669334--1670400 Score: 1693
Period size: 82 Copynumber: 13.0 Consensus size: 81
1669324 GCTTTGAAAT
* * * *
1669334 GGGTGCCACAGAGTTGTGGATTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCAC
1 GGGTGCCACGGAGTTGTGGA-CTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCAC
*
1669399 GGAGTTATGGACTTAAAA
64 GGAGTTGTGGACTTAAAA
*
1669417 GGGTGCCACGGAGTTGTGGTCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1669482 AGTTGTGGACTTAAAA
66 AGTTGTGGACTTAAAA
* * * * * *
1669498 GGGTGCCACGGAGTTGTGGTCTTAAAAGGGATGCCATGGAGTTGTGGAATTAAAAGCGAGCCGCG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1669563 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* * *
1669580 GGGTGCCACGGAGTTGTGGTCTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAAGGTGCCGCG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1669645 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* *
1669662 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1669727 AGTTGTGGACTTAAAA
66 AGTTGTGGACTTAAAA
1669743 GGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1669808 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* * **
1669825 GGTTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGATATGCCAC
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCAC
1669890 GGAGTTGTGGACTTAAAA
64 GGAGTTGTGGACTTAAAA
* *
1669908 GGGTGTCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTAAAAGGGATGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACG
1669973 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* * *
1669990 GGGTGCCACGAAGTTATGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1670055 AGTTGTGGACTTAAAAA
66 AGTTGTGGACTT-AAAA
* * *
1670072 GGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCACGGAGTTATGGACTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1670137 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
*
1670154 GGGTGCCACGGAGTTGTGGTCTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1670219 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
** * *
1670236 GAATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGAAGTTGTGGACTTAAAAGGGATGCCAC
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCAC
1670301 GGAGTTGTGGACTTAAAA
64 GGAGTTGTGGACTTAAAA
1670319 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
* *
1670384 AGTTGTGGGCTTTAAA
66 AGTTGTGGACTTAAAA
1670400 G
1 G
1670401 AGGTCACACT
Statistics
Matches: 917, Mismatches: 57, Indels: 22
0.92 0.06 0.02
Matches are distributed among these distances:
81 166 0.18
82 591 0.64
83 160 0.17
ACGTcount: A:0.28, C:0.14, G:0.35, T:0.23
Consensus pattern (81 bp):
GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
AGTTGTGGACTTAAAA
Found at i:1669533 original size:109 final size:109
Alignment explanation
Indices: 1669334--1670400 Score: 1710
Period size: 109 Copynumber: 9.8 Consensus size: 109
1669324 GCTTTGAAAT
* * * *
1669334 GGGTGCCACAGAGTTGTGGATTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCAC
1 GGGTGCCACGGAGTTGTGGA-CTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCAC
* *
1669399 GGAGTTATGGACTTAAAAGGG-TGCCACGGAGTTGTGGTCTTAAAA
64 GGAGTTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAA
1669444 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
* * *
1669509 AGTTGTGGTCTTAAAAGGGATGCCATGGAGTTGTGGAATTAAAA
66 AGTTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAA
* * * *
1669553 GCGAGCCGCGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTAAAAGGGATGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACG
* *
1669618 GAGTTGTGGACTTAAAAAGG-TGCCGCGGAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAA
* *
1669662 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1669727 AGTTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAA
66 AGTTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAA
*
1669771 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGTTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
*
1669836 AGTTGTGGACTTTAAAAGGG-TGCCACAGAGTTGTGGACTTAAAA
66 AGTTGTGGAC-TTAAAAGGGATGCCACGGAGTTGTGGACTTAAAA
** *
1669880 GATATGCCACGGAGTTGTGGACTTAAAAGGGTGTCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 G-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
*
1669945 GAGTTGTGGTCTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAA
* * *
1669990 GGGTGCCACGAAGTTATGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
*
1670055 AGTTGTGGACTTAAAAAGGG-TGCCACAGAGTTGTGGACTTAAAA
66 AGTTGTGGACTT-AAAAGGGATGCCACGGAGTTGTGGACTTAAAA
* *
1670099 GAGATGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 G-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
*
1670164 GAGTTGTGGTCTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAA
** *
1670209 GGGTGCCACGGAGTTGTGGACTTAAAAGAATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACG
*
1670274 AAGTTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAA
1670319 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
* *
1670384 AGTTGTGGGCTTTAAAG
66 AGTTGTGGACTTAAAAG
1670401 AGGTCACACT
Statistics
Matches: 886, Mismatches: 61, Indels: 21
0.92 0.06 0.02
Matches are distributed among these distances:
108 51 0.06
109 482 0.54
110 353 0.40
ACGTcount: A:0.28, C:0.14, G:0.35, T:0.23
Consensus pattern (109 bp):
GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
AGTTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAA
Found at i:1671428 original size:12 final size:12
Alignment explanation
Indices: 1671407--1671436 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1671397 GGTGAAAAGG
*
1671407 TTTTTCTTTTTT
1 TTTTTATTTTTT
1671419 TTTTTATTTTTT
1 TTTTTATTTTTT
1671431 TTTTTA
1 TTTTTA
1671437 GGATTGGGTG
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:0.07, C:0.03, G:0.00, T:0.90
Consensus pattern (12 bp):
TTTTTATTTTTT
Found at i:1671725 original size:23 final size:23
Alignment explanation
Indices: 1671677--1671728 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
1671667 CATGTCCTCG
*
1671677 TTTTTTTTATTTTTGTTGTTCCC
1 TTTTTTTTATTTTTGTTGTTCAC
1671700 TTTTTTTTA-TTTTGCTT-TTGCAC
1 TTTTTTTTATTTTTG-TTGTT-CAC
1671723 TTTTTT
1 TTTTTT
1671729 CTTTTCATCT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 7 0.27
23 19 0.73
ACGTcount: A:0.06, C:0.12, G:0.08, T:0.75
Consensus pattern (23 bp):
TTTTTTTTATTTTTGTTGTTCAC
Found at i:1671727 original size:15 final size:16
Alignment explanation
Indices: 1671709--1671751 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
1671699 CTTTTTTTTA
1671709 TTTTGCTTTTGCA-CT
1 TTTTGCTTTTGCATCT
*
1671724 TTTTTCTTTT-CATCT
1 TTTTGCTTTTGCATCT
1671739 TTTGTGCTTTTGC
1 TTT-TGCTTTTGC
1671752 TTTTGACTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 2 0.09
15 14 0.61
16 6 0.26
17 1 0.04
ACGTcount: A:0.05, C:0.19, G:0.12, T:0.65
Consensus pattern (16 bp):
TTTTGCTTTTGCATCT
Found at i:1678870 original size:40 final size:39
Alignment explanation
Indices: 1678822--1678899 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
1678812 GGTAAAAAGA
* *
1678822 CATAATGTATCAATACATTGTAGAATATATCGATACATT
1 CATAATGTATCAATACATTGAAAAATATATCGATACATT
* * *
1678861 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCAATACATTGAAAAATATATCGATACAT
1678900 CAGGGTATGA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.35
Consensus pattern (39 bp):
CATAATGTATCAATACATTGAAAAATATATCGATACATT
Found at i:1678872 original size:20 final size:20
Alignment explanation
Indices: 1678825--1678899 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 20
1678815 AAAAAGACAT
* ** *
1678825 AATGTATCAATACATTGTAG
1 AATGTATCGATACATTCAAA
* *
1678845 AATATATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* * *
1678865 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCAAA
1678885 AATGTATCGATACAT
1 AATGTATCGATACAT
1678900 CAGGGTATGA
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:1679246 original size:52 final size:52
Alignment explanation
Indices: 1679189--1679327 Score: 181
Period size: 52 Copynumber: 2.7 Consensus size: 52
1679179 TTTGGAAAGA
** * *
1679189 AAATGTATTAATACATTTTTTATTGTATCGATACATTCTGGGTTTTTGACCC
1 AAATGTATCGATACATTTTTCATTGTATCGATACATTCTGGGTTTTTAACCC
* *
1679241 AAATGTATCGATATATTTTTCATTATA-CTGATACATTCTGGGTTTTTAACCC
1 AAATGTATCGATACATTTTTCATTGTATC-GATACATTCTGGGTTTTTAACCC
* * *
1679293 AAATGTATCGATTCATTCTTCAATGTATCGATACA
1 AAATGTATCGATACATTTTTCATTGTATCGATACA
1679328 AACAGACAAA
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
51 1 0.01
52 72 0.97
53 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.43
Consensus pattern (52 bp):
AAATGTATCGATACATTTTTCATTGTATCGATACATTCTGGGTTTTTAACCC
Found at i:1686092 original size:20 final size:20
Alignment explanation
Indices: 1686055--1686093 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1686045 CAAAAATTTC
*
1686055 TCCTTTTCTTCATGATTTTT
1 TCCTTTTCTTAATGATTTTT
* *
1686075 TCCTTTTTTTAATTATTTT
1 TCCTTTTCTTAATGATTTT
1686094 ATTATGATAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.15, G:0.03, T:0.69
Consensus pattern (20 bp):
TCCTTTTCTTAATGATTTTT
Found at i:1686716 original size:165 final size:159
Alignment explanation
Indices: 1686422--1687007 Score: 418
Period size: 165 Copynumber: 3.6 Consensus size: 159
1686412 GTTATATGTA
* * * * *
1686422 AAAAAATCAAAAA-TC-ATAAAATAAATTGAATTTTGCAACACTGATTTAATATAAATTTAAAAA
1 AAAAAATGAAAAACTCAAGAAAATAAA-TGAATTTTTCAAAACTGATTT-ATAT-AA-TTAAATA
* * * * * * * *
1686485 CAATATTTGATGAA-TTTAAGAATTTTAAA-TCAAGAAAAATCCCCCCGAAAACAATTATGAAGT
62 TAATATTTGAT-AATTTTAAAAATTATAAACT-AAGAAAAAT-CCCCTGAAAATATTTACGGAGT
*
1686548 AGAAAACCCGGT-TCTTC-AAA-AGCAAGAGATTTCAAG
124 AGAAAACCCGGTAT-TTCAAAATAG-AA-AAATTTCAAG
* *
1686584 AAAAATATGGAAAACTCAAGAAAATAAATGAATTTTTCAAAACTAATTTATTATGAATTAAATGA
1 AAAAA-ATGAAAAACTCAAGAAAATAAATGAATTTTTCAAAACTGATTTA-TAT-AATTAAAT-A
*
1686649 TAATATTTGATTAATTTTAAAAATTATAAACTAAGAAAAATCGCCCTAAAAATATTTACGGAGTA
62 TAATATTTGA-TAATTTTAAAAATTATAAACTAAGAAAAATC-CCCTGAAAATATTTACGGAGTA
*** *
1686714 GAAAACTTTGTATTTCGAAAATAGAAAAATTTCGAG
125 GAAAACCCGGTATTTC-AAAATAGAAAAATTTCAAG
* * *
1686750 AAAAAATGAAAAATTCATG-AAATAAAAGGAATTTTTCAAAACTGATTTA-AT-A-TAAAT-TAA
1 AAAAAATGAAAAACTCAAGAAAAT-AAATGAATTTTTCAAAACTGATTTATATAATTAAATATAA
* *
1686810 TA--TG--AATTTTAAAAATTATAAACCAAGAAAAATCCCCATGAAAATATTTACAGAGTAGAAA
65 TATTTGATAATTTTAAAAATTATAAACTAAGAAAAATCCCC-TGAAAATATTTACGGAGTAGAAA
** * *
1686871 ATTTC-GTATATT-AGAAAGAGAGAAATTTCAAG
129 A-CCCGGTAT-TTCA-AAATAGAAAAATTTCAAG
* * * * * * *
1686903 AAAAAAATGAAAAA-TTAATAAAATAAAAGGAATTTTTCAAAACTGATTAAAAGGTGATTAAGTA
1 -AAAAAATGAAAAACTCAAGAAAAT-AAATGAATTTTTCAAAACTGATTTATA--TAATTAAAT-
* * *
1686967 ATAATATTTGATAAATTTTAAAATTTTTAAACCAATGAAAA
61 ATAATATTTGAT-AATTTTAAAAATTATAAACTAA-GAAAA
1687008 TCCTCCCTAA
Statistics
Matches: 349, Mismatches: 42, Indels: 61
0.77 0.09 0.13
Matches are distributed among these distances:
152 4 0.01
153 72 0.21
154 45 0.13
155 1 0.00
156 2 0.01
157 1 0.00
158 6 0.02
159 4 0.01
160 5 0.01
161 6 0.02
162 5 0.01
163 16 0.05
164 42 0.12
165 93 0.27
166 35 0.10
167 10 0.03
168 2 0.01
ACGTcount: A:0.51, C:0.09, G:0.11, T:0.30
Consensus pattern (159 bp):
AAAAAATGAAAAACTCAAGAAAATAAATGAATTTTTCAAAACTGATTTATATAATTAAATATAAT
ATTTGATAATTTTAAAAATTATAAACTAAGAAAAATCCCCTGAAAATATTTACGGAGTAGAAAAC
CCGGTATTTCAAAATAGAAAAATTTCAAG
Found at i:1686826 original size:153 final size:154
Alignment explanation
Indices: 1686661--1686950 Score: 444
Period size: 153 Copynumber: 1.9 Consensus size: 154
1686651 ATATTTGATT
* *
1686661 AATTTTAAAAATTATAAACTAAGAAAAATCGCCC-TAAAAATATTTACGGAGTAGAAAACTTT-G
1 AATTTTAAAAATTATAAACCAAGAAAAATC-CCCATAAAAATATTTACAGAGTAGAAAA-TTTCG
* * * * *
1686724 TAT-TTCGAAAATAGAAAAATTTCGAG-AAAAAATGAAAAATTCATGAAATAAAAGGAATTTTTC
64 TATATTAG-AAAGAGAAAAATTTCAAGAAAAAAATGAAAAATTAATAAAATAAAAGGAATTTTTC
1686787 AAAACTGATTTAATATAAATTAATATG
128 AAAACTGATTTAATATAAATTAATATG
*
1686814 AATTTTAAAAATTATAAACCAAGAAAAATCCCCATGAAAATATTTACAGAGTAGAAAATTTCGTA
1 AATTTTAAAAATTATAAACCAAGAAAAATCCCCATAAAAATATTTACAGAGTAGAAAATTTCGTA
*
1686879 TATTAGAAAGAGAGAAATTTCAAGAAAAAAATGAAAAATTAATAAAATAAAAGGAATTTTTCAAA
66 TATTAGAAAGAGAAAAATTTCAAGAAAAAAATGAAAAATTAATAAAATAAAAGGAATTTTTCAAA
1686944 ACTGATT
131 ACTGATT
1686951 AAAAGGTGAT
Statistics
Matches: 124, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
152 6 0.05
153 70 0.56
154 48 0.39
ACGTcount: A:0.52, C:0.08, G:0.11, T:0.29
Consensus pattern (154 bp):
AATTTTAAAAATTATAAACCAAGAAAAATCCCCATAAAAATATTTACAGAGTAGAAAATTTCGTA
TATTAGAAAGAGAAAAATTTCAAGAAAAAAATGAAAAATTAATAAAATAAAAGGAATTTTTCAAA
ACTGATTTAATATAAATTAATATG
Found at i:1692773 original size:29 final size:29
Alignment explanation
Indices: 1692738--1692802 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
1692728 GTATCGATAC
*
1692738 AATGTATCAATTGTATGGATACAAAGCAT
1 AATGTATCAATTGTATCGATACAAAGCAT
*
1692767 AATGTATCGATTGTATCGATACAAAGCAT
1 AATGTATCAATTGTATCGATACAAAGCAT
1692796 AATGTAT
1 AATGTAT
1692803 TGATACATCT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.32
Consensus pattern (29 bp):
AATGTATCAATTGTATCGATACAAAGCAT
Found at i:1699188 original size:4 final size:4
Alignment explanation
Indices: 1699181--1699229 Score: 50
Period size: 4 Copynumber: 12.5 Consensus size: 4
1699171 AAAGTTAGGT
*
1699181 AAGA AAGA AAGA AAG- AAGA TGAAG- AAGA AAGA AAGA AA-A AAAA AAGA
1 AAGA AAGA AAGA AAGA AAGA --AAGA AAGA AAGA AAGA AAGA AAGA AAGA
1699228 AA
1 AA
1699230 AAAATATCAA
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
3 9 0.23
4 27 0.69
6 3 0.08
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (4 bp):
AAGA
Found at i:1707102 original size:55 final size:54
Alignment explanation
Indices: 1707005--1707492 Score: 636
Period size: 55 Copynumber: 8.8 Consensus size: 54
1706995 CAATGGCATT
*
1707005 TCCTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCA
1 TCCTTTT-AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCA
*
1707060 TCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAAGTCCACAACTCCATGGCA
1 TCCTTTTAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCA
* * *
1707115 CCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCATAACTCCGTGGCA
1 TCCTTTT-AAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCA
* **
1707171 TCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTTTGTGGCA
1 TCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCA
** * * *
1707225 -CTCTTTTAAAGTCCATGATTCAGTGGCATTTCTTTTTAAAGTCCACAACTCCGTGGCA
1 TC-CTTTT-AAGTCCACAACTCCGTGGCA--TCCTTTT-AAGTCCACAACTCCGTGGCA
* *
1707283 TCCTTTTAAGCCCACAACTTCGTGGCATCCTTTTAAAGTCCACAACTCCGTGGCA
1 TCCTTTTAAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCA
*
1707338 CCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCA
1 TCCTTTTAAGTCCACAACTCCGTGGCAT-CCTTTTAAGTCCACAACTCCGTGGCA
* * * * *
1707393 CCCTTTTAAGTCCACAACTCCATGGTACCCTTTTAAGTCCACAACTCCGTAGCA
1 TCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCA
* * *
1707447 TCCCTTTTAAGTTCACAACTTCGTGGCACCCTTTTTAAGTCCACAA
1 T-CCTTTTAAGTCCACAACTCCGTGGCATCC-TTTTAAGTCCACAA
1707493 GGCGGTGCCA
Statistics
Matches: 385, Mismatches: 37, Indels: 21
0.87 0.08 0.05
Matches are distributed among these distances:
53 1 0.00
54 73 0.19
55 197 0.51
56 71 0.18
57 19 0.05
58 23 0.06
59 1 0.00
ACGTcount: A:0.24, C:0.32, G:0.14, T:0.30
Consensus pattern (54 bp):
TCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCA
Found at i:1707107 original size:28 final size:27
Alignment explanation
Indices: 1707005--1707492 Score: 636
Period size: 27 Copynumber: 17.6 Consensus size: 27
1706995 CAATGGCATT
*
1707005 TCCTTTTAAAGTCCACAACTCTGTGGCA
1 TCCTTTT-AAGTCCACAACTCCGTGGCA
1707033 TCCTTTTAAGTCCACAACTCCGTGGCA
1 TCCTTTTAAGTCCACAACTCCGTGGCA
1707060 TCCTTTTAAGTCCACAACTCCGTGGCA
1 TCCTTTTAAGTCCACAACTCCGTGGCA
*
1707087 TCCTTTTAAAGTCCACAACTCCATGGCA
1 TCCTTTT-AAGTCCACAACTCCGTGGCA
*
1707115 CCCTTTTAAAGTCCACAACTCCGTGGCA
1 TCCTTTT-AAGTCCACAACTCCGTGGCA
* *
1707143 CCCTTTTAAAGTCCATAACTCCGTGGCA
1 TCCTTTT-AAGTCCACAACTCCGTGGCA
1707171 TCCTTTTAAGTCCACAACTCCGTGGCA
1 TCCTTTTAAGTCCACAACTCCGTGGCA
* **
1707198 CCCTTTTAAGTCCACAACTTTGTGGCA
1 TCCTTTTAAGTCCACAACTCCGTGGCA
** * *
1707225 -CTCTTTTAAAGTCCATGATTCAGTGGCA
1 TC-CTTTT-AAGTCCACAACTCCGTGGCA
*
1707253 TTTCTTTTTAAAGTCCACAACTCCGTGGCA
1 --TCCTTTT-AAGTCCACAACTCCGTGGCA
* *
1707283 TCCTTTTAAGCCCACAACTTCGTGGCA
1 TCCTTTTAAGTCCACAACTCCGTGGCA
1707310 TCCTTTTAAAGTCCACAACTCCGTGGCA
1 TCCTTTT-AAGTCCACAACTCCGTGGCA
*
1707338 CCCTTTTAAGTCCACAACTCCGTGGCA
1 TCCTTTTAAGTCCACAACTCCGTGGCA
1707365 TCCCTTTTAAGTCCACAACTCCGTGGCA
1 T-CCTTTTAAGTCCACAACTCCGTGGCA
* * *
1707393 CCCTTTTAAGTCCACAACTCCATGGTA
1 TCCTTTTAAGTCCACAACTCCGTGGCA
* *
1707420 CCCTTTTAAGTCCACAACTCCGTAGCA
1 TCCTTTTAAGTCCACAACTCCGTGGCA
* *
1707447 TCCCTTTTAAGTTCACAACTTCGTGGCA
1 T-CCTTTTAAGTCCACAACTCCGTGGCA
*
1707475 CCCTTTTTAAGTCCACAA
1 TCC-TTTTAAGTCCACAA
1707493 GGCGGTGCCA
Statistics
Matches: 411, Mismatches: 39, Indels: 20
0.87 0.08 0.04
Matches are distributed among these distances:
26 1 0.00
27 196 0.48
28 192 0.47
30 21 0.05
31 1 0.00
ACGTcount: A:0.24, C:0.32, G:0.14, T:0.30
Consensus pattern (27 bp):
TCCTTTTAAGTCCACAACTCCGTGGCA
Found at i:1707606 original size:32 final size:32
Alignment explanation
Indices: 1707565--1708174 Score: 812
Period size: 32 Copynumber: 19.2 Consensus size: 32
1707555 AGTGGTATCA
1707565 TTTCAAAGCCCACACAAGTCGGTGGCAACCCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCT
*
1707597 TTTCAAAGCCTACACAAGTCGGTGGC-A--CT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCT
*
1707626 ATTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 -TTTCAAAGCCCACACAAGTCGGTGGCAACCCT
*
1707659 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCT
1707691 TTTCAAAGCCCACACAAGTCGGTGGCAACCCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCT
1707723 TTTCAAAGCCCACACAAGTCGGTGGC-A--CT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCT
*
1707752 ATTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 -TTTCAAAGCCCACACAAGTCGGTGGCAACCCT
*
1707785 TTTCAAAGCCCACACAAGTCGGTGGCAACCTT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCT
1707817 TTTCAAAGCCCACACAAGTCGGTGGC-A--CT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCT
* *
1707846 ATTTCAAAGCCTATACAAGTCGGTGGCAA-CCT
1 -TTTCAAAGCCCACACAAGTCGGTGGCAACCCT
* *
1707878 ATTTCAAAGCCCACATAAGTCGGTGGCAACCCA
1 -TTTCAAAGCCCACACAAGTCGGTGGCAACCCT
1707911 TTTCAAAGCCCACACAAGTCGGTGGCAACCCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCT
* * *
1707943 TTTCAAAGCCTACACAAGTCGATGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCT
* *
1707975 TTTCAAAGCCCACACAAGTCGGTGGTAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCT
* * *
1708007 TTTCAAAGACCACACAAGTCGGTGGCAATCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCT
1708039 TTTCAAAGCCCACACAAGTCGGTGGCAACCCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCT
* * *
1708071 TTTCAAAGCCCACACAAGTTGATGGGAA-CCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCT
* ** * *
1708102 CTTTCAAAAGTCCACAC-TTTCGGTGGAAACCTTT
1 -TTTC-AAAGCCCACACAAGTCGGTGGCAACC-CT
* * * *
1708136 TTTAAAAACCCACGCAAGTCAGTGGCAACCCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCT
1708168 TTTCAAA
1 TTTCAAA
1708175 TCACCATTTT
Statistics
Matches: 513, Mismatches: 48, Indels: 34
0.86 0.08 0.06
Matches are distributed among these distances:
29 5 0.01
30 75 0.15
31 9 0.02
32 395 0.77
33 28 0.05
34 1 0.00
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.20
Consensus pattern (32 bp):
TTTCAAAGCCCACACAAGTCGGTGGCAACCCT
Found at i:1707712 original size:126 final size:127
Alignment explanation
Indices: 1707565--1708174 Score: 874
Period size: 126 Copynumber: 4.8 Consensus size: 127
1707555 AGTGGTATCA
*
1707565 TTTCAAAGCCCACACAAGTCGGTGGCAACCCTTTTCAAAGCCTACACAAGTCGGTGGCA-CTATT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCTTTTCAAAGCCCACACAAGTCGGTGGCACCTATT
*
1707629 TCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCA
66 TCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCT
1707691 TTTCAAAGCCCACACAAGTCGGTGGCAACCCTTTTCAAAGCCCACACAAGTCGGTGGCA-CTATT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCTTTTCAAAGCCCACACAAGTCGGTGGCACCTATT
*
1707755 TCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCTT
66 TCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCT
* *
1707817 TTTCAAAGCCCACACAAGTCGGTGGC-A--CTATTTCAAAGCCTATACAAGTCGGTGGCAACCTA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCT-TTTCAAAGCCCACACAAGTCGGTGGC-ACCTA
*
1707879 TTTCAAAGCCCACATAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCT
64 TTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCT
* * * * *
1707943 TTTCAAAGCCTACACAAGTCGATGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGTAACCCAT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCTTTTCAAAGCCCACACAAGTCGGTGG-CACCTAT
* *
1708008 TTCAAAGACCACACAAGTCGGTGGCAATCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCT
65 TTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCT
* * * * ** *
1708071 TTTCAAAGCCCACACAAGTTGATGGGAA-CCTCTTTCAAAAGTCCACAC-TTTCGGTGGAAACCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCT-TTTC-AAAGCCCACACAAGTCGGTGG-CACC-
* * * * * *
1708134 TTTTTAAAAACCCACGCAAGTCAGTGGCAACCCTTTTCAAA
62 TATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAA
1708175 TCACCATTTT
Statistics
Matches: 440, Mismatches: 34, Indels: 17
0.90 0.07 0.03
Matches are distributed among these distances:
123 2 0.00
124 24 0.05
125 2 0.00
126 238 0.54
127 3 0.01
128 128 0.29
129 43 0.10
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.20
Consensus pattern (127 bp):
TTTCAAAGCCCACACAAGTCGGTGGCAACCCTTTTCAAAGCCCACACAAGTCGGTGGCACCTATT
TCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCT
Found at i:1709407 original size:4 final size:4
Alignment explanation
Indices: 1709400--1709448 Score: 50
Period size: 4 Copynumber: 12.5 Consensus size: 4
1709390 AAAGTTAGAT
*
1709400 AAGA AAGA AAGA AAG- AAGA TGAAG- AAGA AAGA AAGA AA-A AAAA AAGA
1 AAGA AAGA AAGA AAGA AAGA --AAGA AAGA AAGA AAGA AAGA AAGA AAGA
1709447 AA
1 AA
1709449 AAAATATGAA
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
3 9 0.23
4 27 0.69
6 3 0.08
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (4 bp):
AAGA
Found at i:1715146 original size:19 final size:20
Alignment explanation
Indices: 1715109--1715146 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1715099 TCCCGTAGCT
*
1715109 ATGTATCGATACAATTGATA
1 ATGTATCAATACAATTGATA
1715129 ATGTATCAATAC-ATTGAT
1 ATGTATCAATACAATTGAT
1715147 TTGAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (20 bp):
ATGTATCAATACAATTGATA
Found at i:1715210 original size:13 final size:13
Alignment explanation
Indices: 1715169--1715221 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
1715159 CCGCTGGAAG
1715169 CAATGTATCGATA
1 CAATGTATCGATA
1715182 CAA--T-T-GAT-
1 CAATGTATCGATA
1715190 C-ATGTATCGATA
1 CAATGTATCGATA
*
1715202 CATTGTATCGATA
1 CAATGTATCGATA
1715215 CAATGTA
1 CAATGTA
1715222 CCATGTATTG
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 4 0.12
10 2 0.06
11 4 0.12
12 1 0.03
13 19 0.59
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1715214 original size:33 final size:33
Alignment explanation
Indices: 1715172--1715236 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
1715162 CTGGAAGCAA
*
1715172 TGTATCGATACAAT-TGATCATGTATCGATACAT
1 TGTATCGATACAATGT-ACCATGTATCGATACAT
*
1715205 TGTATCGATACAATGTACCATGTATTGATACA
1 TGTATCGATACAATGTACCATGTATCGATACA
1715237 AACAGTGGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.35
Consensus pattern (33 bp):
TGTATCGATACAATGTACCATGTATCGATACAT
Found at i:1715292 original size:20 final size:20
Alignment explanation
Indices: 1715266--1715320 Score: 78
Period size: 19 Copynumber: 2.8 Consensus size: 20
1715256 CTGCTAATTT
*
1715266 CATGTATCGATACAATTG-T
1 CATGTATCGATACAATTGAA
1715285 CTATGTATCGATACAA-TGAA
1 C-ATGTATCGATACAATTGAA
1715305 CATGTATCGATACAAT
1 CATGTATCGATACAAT
1715321 GTATCGATAC
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:1715324 original size:13 final size:13
Alignment explanation
Indices: 1715306--1715332 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1715296 TACAATGAAC
1715306 ATGTATCGATACA
1 ATGTATCGATACA
1715319 ATGTATCGATACA
1 ATGTATCGATACA
1715332 A
1 A
1715333 AGCATAATGT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1720616 original size:16 final size:17
Alignment explanation
Indices: 1720595--1720635 Score: 66
Period size: 16 Copynumber: 2.5 Consensus size: 17
1720585 TTTAAAATAA
*
1720595 AATATAAATATAAAA-T
1 AATATAAATAAAAAATT
1720611 AATATAAATAAAAAATT
1 AATATAAATAAAAAATT
1720628 AATATAAA
1 AATATAAA
1720636 AATTTAATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AATATAAATAAAAAATT
Found at i:1720636 original size:13 final size:13
Alignment explanation
Indices: 1720586--1720643 Score: 55
Period size: 13 Copynumber: 4.4 Consensus size: 13
1720576 AATTAAATTT
* *
1720586 TTAAAATAAAATA
1 TTAATATAAAAAA
*
1720599 TAAATATAAAATAA
1 TTAATATAAAA-AA
1720613 TATAA-ATAAAAAA
1 T-TAATATAAAAAA
*
1720626 TTAATATAAAAAT
1 TTAATATAAAAAA
1720639 TTAAT
1 TTAAT
1720644 TCATTATATA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
12 3 0.08
13 24 0.65
14 8 0.22
15 2 0.05
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
TTAATATAAAAAA
Found at i:1721416 original size:16 final size:16
Alignment explanation
Indices: 1721395--1721430 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
1721385 ATAATATAAA
1721395 AATAAAA-AAAAAACAT
1 AATAAAATAAAAAA-AT
1721411 AATAAAATAAAAAAAT
1 AATAAAATAAAAAAAT
1721427 AATA
1 AATA
1721431 TTAACATGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.17
Consensus pattern (16 bp):
AATAAAATAAAAAAAT
Found at i:1721503 original size:19 final size:20
Alignment explanation
Indices: 1721468--1721505 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
1721458 ATTAAAATAT
*
1721468 GTATTATACAAATTATTAAC
1 GTATTATACAAAATATTAAC
1721488 GTATTAT-CAAAATATTAA
1 GTATTATACAAAATATTAA
1721506 TATTTTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.39
Consensus pattern (20 bp):
GTATTATACAAAATATTAAC
Found at i:1723587 original size:20 final size:20
Alignment explanation
Indices: 1723564--1723628 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
1723554 TTAAAAAATT
1723564 ATATATTTATATAAATTTTA
1 ATATATTTATATAAATTTTA
1723584 ATATA-TTA-AT-AA--TT-
1 ATATATTTATATAAATTTTA
1723598 -TAT-TTTATATAAATTTTA
1 ATATATTTATATAAATTTTA
1723616 ATATATTTATATA
1 ATATATTTATATA
1723629 TTTATATTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 16
0.70 0.00 0.30
Matches are distributed among these distances:
13 6 0.16
14 2 0.05
15 4 0.11
17 4 0.11
18 2 0.05
19 6 0.16
20 13 0.35
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
ATATATTTATATAAATTTTA
Found at i:1723607 original size:32 final size:32
Alignment explanation
Indices: 1723560--1723638 Score: 113
Period size: 32 Copynumber: 2.4 Consensus size: 32
1723550 ATATTTAAAA
1723560 AATTATATATTTATATAAATTTTAATATATTAAT
1 AATT-TAT-TTTATATAAATTTTAATATATTAAT
*
1723594 AATTTATTTTATATAAATTTTAATATATTTAT
1 AATTTATTTTATATAAATTTTAATATATTAAT
*
1723626 ATATTTATATTAT
1 A-ATTTATTTTAT
1723639 TTTTTAATTA
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
32 25 0.60
33 13 0.31
34 4 0.10
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (32 bp):
AATTTATTTTATATAAATTTTAATATATTAAT
Found at i:1723613 original size:11 final size:11
Alignment explanation
Indices: 1723563--1723629 Score: 54
Period size: 10 Copynumber: 6.5 Consensus size: 11
1723553 TTTAAAAAAT
1723563 TATATA-TTTA
1 TATATATTTTA
*
1723573 TATAAATTTTA
1 TATATATTTTA
*
1723584 -ATATA-TTAA
1 TATATATTTTA
*
1723593 TAATTTATTTTA
1 T-ATATATTTTA
*
1723605 TATAAATTTTA
1 TATATATTTTA
1723616 -ATATA-TTTA
1 TATATATTTTA
1723625 TATAT
1 TATAT
1723630 TTATATTATT
Statistics
Matches: 44, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
9 7 0.16
10 17 0.39
11 16 0.36
12 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
TATATATTTTA
Found at i:1723626 original size:18 final size:18
Alignment explanation
Indices: 1723573--1723631 Score: 56
Period size: 18 Copynumber: 3.5 Consensus size: 18
1723563 TATATATTTA
1723573 TATAAATTTTAATATATT
1 TATAAATTTTAATATATT
*
1723591 AAT-AA-TTT-AT-T-TT
1 TATAAATTTTAATATATT
1723604 ATATAAATTTTAATATATT
1 -TATAAATTTTAATATATT
*
1723623 TATATATTT
1 TATAAATTT
1723632 ATATTATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 12
0.68 0.06 0.26
Matches are distributed among these distances:
13 2 0.06
14 3 0.09
15 4 0.12
16 6 0.19
17 4 0.12
18 11 0.34
19 2 0.06
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TATAAATTTTAATATATT
Found at i:1724325 original size:18 final size:20
Alignment explanation
Indices: 1724304--1724343 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
1724294 TAAAAATGTC
*
1724304 AAAATT-TTTATAA-AATTA
1 AAAATTATTTAAAATAATTA
1724322 AAAATTATTTAAAATAATTA
1 AAAATTATTTAAAATAATTA
1724342 AA
1 AA
1724344 TTTAACAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 6 0.32
20 7 0.37
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAATTATTTAAAATAATTA
Found at i:1725667 original size:112 final size:115
Alignment explanation
Indices: 1725545--1725764 Score: 274
Period size: 116 Copynumber: 1.9 Consensus size: 115
1725535 TTAAAATAAA
** *
1725545 GTTATAAATTATATAA-TTTAAAGTCACGTCTTAT-AAAA-ATATATTAGATAAAATAA-ATCTC
1 GTTATAAATTATATAATTTTAAA-TCAAATCTTATAAAAATATATATTAAATAAAATAAGATCT-
* *
1725606 A-CATGCT-TATTTAATCAATTTATTTAAGA-TTATTTTATTTAAATATATTAT
64 ATC-TG-TGTATTTAATCAATTAATTTAAAATTTATTTTATTTAAATATATTAT
*
1725657 GTTATAAATTATTTAATTTTAAATCAAATCTTATAAAAAAATATATATTAAATAAAATAAGATCT
1 GTTATAAATTATATAATTTTAAATCAAATCTTAT--AAAAATATATATTAAATAAAATAAGATCT
*
1725722 ATCTGTGTATTTAATTAATTAATTTAAAATTTATTTTATTTAA
64 ATCTGTGTATTTAATCAATTAATTTAAAATTTATTTTATTTAA
1725765 TTATGTTAAA
Statistics
Matches: 92, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
112 24 0.26
113 6 0.07
115 5 0.05
116 39 0.42
117 18 0.20
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (115 bp):
GTTATAAATTATATAATTTTAAATCAAATCTTATAAAAATATATATTAAATAAAATAAGATCTAT
CTGTGTATTTAATCAATTAATTTAAAATTTATTTTATTTAAATATATTAT
Found at i:1725764 original size:25 final size:26
Alignment explanation
Indices: 1725731--1725786 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 26
1725721 TATCTGTGTA
1725731 TTTAATTAATTAAT-TTAAAATT-TAT
1 TTTAATTAATT-ATGTTAAAATTATAT
*
1725756 TTTATTTAATTATGTTAAAATTATAT
1 TTTAATTAATTATGTTAAAATTATAT
1725782 TTTAA
1 TTTAA
1725787 ATATTTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 2 0.07
25 18 0.67
26 7 0.26
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (26 bp):
TTTAATTAATTATGTTAAAATTATAT
Found at i:1726503 original size:25 final size:25
Alignment explanation
Indices: 1726475--1726523 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
1726465 ATGTGTGCTA
1726475 AAATTTAATTTTGTAAAACTAACTG
1 AAATTTAATTTTGTAAAACTAACTG
*
1726500 AAATTTAATTTTGTATAACTAACT
1 AAATTTAATTTTGTAAAACTAACT
1726524 TTTAGTTAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.43
Consensus pattern (25 bp):
AAATTTAATTTTGTAAAACTAACTG
Found at i:1736719 original size:19 final size:19
Alignment explanation
Indices: 1736697--1736733 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1736687 GAGATGTTGG
*
1736697 ACATATTAAAATGCATGAA
1 ACATAGTAAAATGCATGAA
*
1736716 ACATAGTAGAATGCATGA
1 ACATAGTAAAATGCATGA
1736734 TCAAAGGCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.11, G:0.16, T:0.24
Consensus pattern (19 bp):
ACATAGTAAAATGCATGAA
Found at i:1737898 original size:135 final size:132
Alignment explanation
Indices: 1737705--1737970 Score: 433
Period size: 135 Copynumber: 2.0 Consensus size: 132
1737695 TGAAAATTTT
* *
1737705 GACCATTAGGACTTTGTATCGATACATTCAATGTATGGATACATCTCGACAAAAATGTGACTTTT
1 GACCATTAGGACTTTGTATCGATACATTCAATGTATCGATACATCTAGACAAAAATGTGACTTTT
* *
1737770 TCATACTTCTTTGCATCTCGAACACCTTGCCTCCACAAAAGGTGATGGGAAATGGATTTGCATTT
66 TCATACTTCTTTGCATCTCGAACACCTTACCTCCACAAAAGGTAATGGGAAATGGATTTGCATTT
1737835 GC
131 GC
*
1737837 GACCATTAGGACTTTGTTTCGATACATTCTTAAATGTATCGATACATCTAGACAAAAATGTGACT
1 GACCATTAGGACTTTGTATCGATACATTC---AATGTATCGATACATCTAGACAAAAATGTGACT
* * *
1737902 TTTTCATACTTCTTTGCATCTCTAACACCTTACCTCCACGAAGGGTAATGGGAAATGGATTTGCA
63 TTTTCATACTTCTTTGCATCTCGAACACCTTACCTCCACAAAAGGTAATGGGAAATGGATTTGCA
1737967 TTTG
128 TTTG
1737971 TCAAAAAGTT
Statistics
Matches: 123, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
132 28 0.23
135 95 0.77
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (132 bp):
GACCATTAGGACTTTGTATCGATACATTCAATGTATCGATACATCTAGACAAAAATGTGACTTTT
TCATACTTCTTTGCATCTCGAACACCTTACCTCCACAAAAGGTAATGGGAAATGGATTTGCATTT
GC
Found at i:1741602 original size:24 final size:25
Alignment explanation
Indices: 1741567--1741613 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
1741557 TGTTTTAGAG
*
1741567 ATAAGTTTAAATGTTTTTTCAAGCA
1 ATAAGTTTAAATGTCTTTTCAAGCA
1741592 ATAA-TTTAAATGTCTTTTCAAG
1 ATAAGTTTAAATGTCTTTTCAAG
1741614 TAAAATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.45
Consensus pattern (25 bp):
ATAAGTTTAAATGTCTTTTCAAGCA
Found at i:1741736 original size:13 final size:13
Alignment explanation
Indices: 1741718--1741742 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1741708 ATATTGCTTA
1741718 GTATCGATACATT
1 GTATCGATACATT
1741731 GTATCGATACAT
1 GTATCGATACAT
1741743 GTTCTTTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:1741741 original size:33 final size:32
Alignment explanation
Indices: 1741698--1741760 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
1741688 ACACCTAGAA
1741698 GTATCAATACATATTGCTTAGTATCGATACATT
1 GTATCAATACATATT-CTTAGTATCGATACATT
* * * *
1741731 GTATCGATACATGTTCTTTGTATTGATACA
1 GTATCAATACATATTCTTAGTATCGATACA
1741761 CTATAAAATG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 13 0.50
33 13 0.50
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.41
Consensus pattern (32 bp):
GTATCAATACATATTCTTAGTATCGATACATT
Found at i:1741873 original size:51 final size:52
Alignment explanation
Indices: 1741807--1741914 Score: 146
Period size: 51 Copynumber: 2.1 Consensus size: 52
1741797 TACCCTAAGT
* * *
1741807 GAATTGTATTGATACATGGTAAATTGTATCGATACATCAAGCCTAAC-GCTA
1 GAATTGTATCGATACATGATAAATTATATCGATACATCAAGCCTAACGGCTA
* * **
1741858 TAATTGTATCGATACATTATAAATTATATCGATACATTGAGCCTAACGGCTA
1 GAATTGTATCGATACATGATAAATTATATCGATACATCAAGCCTAACGGCTA
1741910 GAATT
1 GAATT
1741915 TCAAATGCAT
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
51 40 0.83
52 8 0.17
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (52 bp):
GAATTGTATCGATACATGATAAATTATATCGATACATCAAGCCTAACGGCTA
Found at i:1742595 original size:21 final size:20
Alignment explanation
Indices: 1742567--1742605 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
1742557 CACTTTTTTG
1742567 TCTAAATGTATCGATACATT
1 TCTAAATGTATCGATACATT
1742587 TCTAGAATGTATCGATACA
1 TCTA-AATGTATCGATACA
1742606 AGGTCCCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (20 bp):
TCTAAATGTATCGATACATT
Found at i:1757687 original size:37 final size:37
Alignment explanation
Indices: 1757646--1757730 Score: 170
Period size: 37 Copynumber: 2.3 Consensus size: 37
1757636 TGCCACAATC
1757646 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
1 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
1757683 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
1 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
1757720 ATGCATTTGTG
1 ATGCATTTGTG
1757731 CTTCATCTTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (37 bp):
ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
Found at i:1758133 original size:29 final size:29
Alignment explanation
Indices: 1758093--1758620 Score: 472
Period size: 28 Copynumber: 18.5 Consensus size: 29
1758083 CATTCCTCAC
* * ***
1758093 TTTCCAAAGCCCACAAGTCAATGGTGTCT
1 TTTCAAAAGCCCACAAGTCAGTGGCACCT
*
1758122 TTTCAAAAGCCCACAAGTCTA-TGGTAACC-
1 TTTCAAAAGCCCACAAGTC-AGTGG-CACCT
* * * *
1758151 -TTCAGAAGCCCACAAATCGGTGGCACCCC
1 TTTCAAAAGCCCACAAGTCAGTGGCA-CCT
*
1758180 CTTC-AAAGCCCACAAGTCAAG-GGCACCAT
1 TTTCAAAAGCCCACAAGTC-AGTGGCACC-T
* *
1758209 TTTC-AAAGCCCACAAGTTAGTGGCATCT
1 TTTCAAAAGCCCACAAGTCAGTGGCACCT
1758237 TTTCAAAAGCCCACAAGTCAGTGGCACCT
1 TTTCAAAAGCCCACAAGTCAGTGGCACCT
*
1758266 TTTC-AAAGCCCACAAGTCAGTGGCAAC-
1 TTTCAAAAGCCCACAAGTCAGTGGCACCT
1758293 TTTCAAAAGCCCACAAGTCAGTGGCAACC-
1 TTTCAAAAGCCCACAAGTCAGTGGC-ACCT
* * * *
1758322 -TTCAGAAGCCCACAAATCGGTGGCAACCCC
1 TTTCAAAAGCCCACAAGTCAGTGGC-A-CCT
*
1758352 CTTC-AAAGCCCACAAGTCAGTGGCACCCT
1 TTTCAAAAGCCCACAAGTCAGTGGCA-CCT
* **
1758381 TTTC-AAAGCCCATAAGTCAGTGGCGTCT
1 TTTCAAAAGCCCACAAGTCAGTGGCACCT
1758409 TTTCAAAAGCCCACAAGTCAGTGGCAACC-
1 TTTCAAAAGCCCACAAGTCAGTGGC-ACCT
*
1758438 -TTCAAAAGCCCACAAGTTAGTGGCACCT
1 TTTCAAAAGCCCACAAGTCAGTGGCACCT
* *
1758466 TTTC-AAAGTCCACAAGTTAGTGGCAACC-
1 TTTCAAAAGCCCACAAGTCAGTGGC-ACCT
*
1758494 -TTCAAAAGCCCACAAGTTAGTGGCACCT
1 TTTCAAAAGCCCACAAGTCAGTGGCACCT
*
1758522 TTTC-AAAGTCCACAAGTCAGTGGCAACC-
1 TTTCAAAAGCCCACAAGTCAGTGGC-ACCT
*
1758550 -TTC-AAAGTCCACAAGTCAGTGGCAACC-
1 TTTCAAAAGCCCACAAGTCAGTGGC-ACCT
* * ** *
1758577 -TTCAAAAGCACACAATTCAGGTGTAACCC
1 TTTCAAAAGCCCACAAGTCA-GTGGCACCT
1758606 TTTCAAAAGCCCACA
1 TTTCAAAAGCCCACA
1758621 CAAGTTGGTG
Statistics
Matches: 427, Mismatches: 44, Indels: 55
0.81 0.08 0.10
Matches are distributed among these distances:
27 44 0.10
28 195 0.46
29 148 0.35
30 37 0.09
31 3 0.01
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.20
Consensus pattern (29 bp):
TTTCAAAAGCCCACAAGTCAGTGGCACCT
Found at i:1758386 original size:172 final size:173
Alignment explanation
Indices: 1758093--1758620 Score: 664
Period size: 172 Copynumber: 3.1 Consensus size: 173
1758083 CATTCCTCAC
* * *** *
1758093 TTTCCAAAGCCCACAAGTCAATGGTGTCTTTTCAAAAGCCCACAAGTCTA-TGGTAACCTTCAGA
1 TTTCAAAAGCCCACAAGTCAGTGGCAACTTTTCAAAAGCCCACAAGTC-AGTGGCAACCTTCAGA
*
1758157 AGCCCACAAATCGGTGGCACCCCCTTCAAAGCCCACAAGTCAAG-GGCACCATTTTCAAAGCCCA
65 AGCCCACAAATCGGTGGCACCCCCTTCAAAGCCCACAAGTC-AGTGGCACCCTTTTCAAAGCCCA
*
1758221 CAAGTTAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCACCT
129 CAAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCACCT
1758266 TTTC-AAAGCCCACAAGTCAGTGGCAAC-TTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAGAA
1 TTTCAAAAGCCCACAAGTCAGTGGCAACTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAGAA
*
1758329 GCCCACAAATCGGTGGCAACCCCCTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCAT
66 GCCCACAAATCGGTGGC-ACCCCCTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCAC
*
1758394 AAGTCAGTGGCGTCTTTTCAAAAGCCCACAAGTCAGTGGCAACC-
130 AAGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGC-ACCT
* * * * *
1758438 -TTCAAAAGCCCACAAGTTAGTGGCACCTTTTC-AAAGTCCACAAGTTAGTGGCAACCTTCAAAA
1 TTTCAAAAGCCCACAAGTCAGTGGCAACTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAGAA
* ** ** * * *
1758501 GCCCACAAGTTAGTGGCA-CCTTTTCAAAGTCCACAAGTCAGTGGCAACC--TTCAAAGTCCACA
66 GCCCACAAATCGGTGGCACCCCCTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACA
* * * * ** *
1758563 AGTCAGTGGCAAC-CTTCAAAAGCACACAATTCAGGTGTAACCC
131 AGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCA-GTGGCACCT
1758606 TTTCAAAAGCCCACA
1 TTTCAAAAGCCCACA
1758621 CAAGTTGGTG
Statistics
Matches: 316, Mismatches: 30, Indels: 22
0.86 0.08 0.06
Matches are distributed among these distances:
167 20 0.06
168 25 0.08
169 14 0.04
170 28 0.09
171 56 0.18
172 162 0.51
173 11 0.03
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.20
Consensus pattern (173 bp):
TTTCAAAAGCCCACAAGTCAGTGGCAACTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAGAA
GCCCACAAATCGGTGGCACCCCCTTCAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACA
AGTCAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCACCT
Found at i:1758694 original size:43 final size:43
Alignment explanation
Indices: 1758642--1758777 Score: 146
Period size: 43 Copynumber: 3.0 Consensus size: 43
1758632 CATCTTCTTC
*
1758642 TAAGTCCAATATAACTGGCCTTGAATCAGCATATTGGCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT
* * * *
1758685 TAAGTCCAATGTTGCTGGCCTTAAATCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----C--CTT
* * *
1758734 TAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGAACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT
1758777 T
1 T
1758778 GTCATCTTTA
Statistics
Matches: 76, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
43 38 0.50
45 1 0.01
47 1 0.01
49 36 0.47
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (43 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT
Found at i:1758754 original size:49 final size:49
Alignment explanation
Indices: 1758637--1758926 Score: 299
Period size: 49 Copynumber: 6.0 Consensus size: 49
1758627 GGTGGCATCT
** *
1758637 TCTTCTAAGTCCAATATAACTGGCCTTGAATCAGCATATTGGCA----C-
1 TCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * *
1758682 -CTTTAAGTCCAATGTTGCTGGCCTTAAATCAGCACATTGGCACCTTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * *
1758730 TCTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGAACCTTTGTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCA
* *
1758782 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACCTTCA
1 TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * * *
1758831 CCTTTAAGTCCAAT-GCTACTGGCCTTGAATCAGCACATTGGCATCTTCA
1 TCTTTAAGTCCAATATC-GCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * * *
1758880 TCTTTAAGCCCAATATCACTGG-TTCTGAATCAGCATATTGGCACCTT
1 TCTTTAAGTCCAATATCGCTGGCCT-TGAATCAGCACATTGGCACCTT
1758927 TATCACTCTT
Statistics
Matches: 206, Mismatches: 27, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
43 34 0.17
44 3 0.01
47 1 0.00
48 2 0.01
49 120 0.58
50 2 0.01
51 1 0.00
52 43 0.21
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (49 bp):
TCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
Found at i:1758857 original size:101 final size:98
Alignment explanation
Indices: 1758682--1758926 Score: 296
Period size: 101 Copynumber: 2.5 Consensus size: 98
1758672 ATATTGGCAC
* * * *
1758682 CTTTAAGTCCAATGTTGCTGGCCTTAAATCAGCACATTGGCACCTTCATCTTTAAGTCTAATATC
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCACCTTTAAGTCCAATATC
* * * *
1758747 GCTGGCCTTGAATCAGCATATTGGAACCTTTGTCAT
66 ACTGGCCTTGAATCAGCACATTGG--CATCT-TCAT
* *
1758783 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACCTTCACCTTTAAGTCCAAT-GC
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCACCTTTAAGTCCAATATC
1758847 TACTGGCCTTGAATCAGCACATTGGCATCTTCAT
66 -ACTGGCCTTGAATCAGCACATTGGCATCTTCAT
* * * * *
1758881 CTTTAAGCCCAATATCACTGG-TTCTGAATCAGCATATTGGCACCTT
1 CTTTAAGTCCAATGTCGCTGGCCT-TGAATCAGCACATTGGCACCTT
1758927 TATCACTCTT
Statistics
Matches: 126, Mismatches: 16, Indels: 7
0.85 0.11 0.05
Matches are distributed among these distances:
97 1 0.01
98 42 0.33
99 3 0.02
100 1 0.01
101 79 0.63
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (98 bp):
CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCACCTTTAAGTCCAATATC
ACTGGCCTTGAATCAGCACATTGGCATCTTCAT
Found at i:1759631 original size:13 final size:13
Alignment explanation
Indices: 1759613--1759640 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1759603 GCCAAGGAAA
1759613 TGTATCGATACAT
1 TGTATCGATACAT
1759626 TGTATCGATACAT
1 TGTATCGATACAT
1759639 TG
1 TG
1759641 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1770607 original size:32 final size:33
Alignment explanation
Indices: 1770549--1770611 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
1770539 ACACCTAGAA
1770549 GTATCGATACATATTGCTTAGTATCGATACATT
1 GTATCGATACATATTGCTTAGTATCGATACATT
* * *
1770582 GTATTGATACATGTT-CTTTGTATCGATACA
1 GTATCGATACATATTGCTTAGTATCGATACA
1770612 CCATAAAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 14 0.52
33 13 0.48
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (33 bp):
GTATCGATACATATTGCTTAGTATCGATACATT
Found at i:1770736 original size:20 final size:20
Alignment explanation
Indices: 1770711--1770748 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1770701 TAATGGCTAT
*
1770711 AATTGTATCGATACATTATG
1 AATTGTATAGATACATTATG
*
1770731 AATTGTATATATACATTA
1 AATTGTATAGATACATTA
1770749 AGCTCGACTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.42
Consensus pattern (20 bp):
AATTGTATAGATACATTATG
Found at i:1771831 original size:77 final size:77
Alignment explanation
Indices: 1771682--1771831 Score: 174
Period size: 77 Copynumber: 1.9 Consensus size: 77
1771672 TTACTATTGT
* ****
1771682 TGCTTGGTGTTGCTACTACTGGTTATTGATTGCTGCTTTTGATGTTGCTGCTTGCTGCCATTTGT
1 TGCTTGGTGTTGCTACTACTGGTTATTGATTGCTGCTTTTGATGTTGCTGCTTGCTGACATCAAA
*
1771747 TGTTGTTGGTGG
66 TGCTGTTGGTGG
* * ** * * * *
1771759 TGCTTGGTGTTGTTGCTGTTGGTTGTTGATTGTTGTTTTTGATGTTGCTGCTTGCTTACATCAAA
1 TGCTTGGTGTTGCTACTACTGGTTATTGATTGCTGCTTTTGATGTTGCTGCTTGCTGACATCAAA
1771824 TGCTGTTG
66 TGCTGTTG
1771832 TCACTACTGT
Statistics
Matches: 59, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
77 59 1.00
ACGTcount: A:0.09, C:0.13, G:0.29, T:0.49
Consensus pattern (77 bp):
TGCTTGGTGTTGCTACTACTGGTTATTGATTGCTGCTTTTGATGTTGCTGCTTGCTGACATCAAA
TGCTGTTGGTGG
Found at i:1772453 original size:20 final size:20
Alignment explanation
Indices: 1772410--1772461 Score: 88
Period size: 19 Copynumber: 2.6 Consensus size: 20
1772400 GTAGCCAAAC
*
1772410 TTGTATCGATACACAAAATA
1 TTGTATCGATACACAAAAAA
1772430 -TGTATCGATACACAAAAAA
1 TTGTATCGATACACAAAAAA
1772449 TTGTATCGATACA
1 TTGTATCGATACA
1772462 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 18 0.60
20 12 0.40
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:1772962 original size:34 final size:35
Alignment explanation
Indices: 1772899--1772965 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1772889 CTAAGTGATT
1772899 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
1772935 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
1772966 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:1774082 original size:21 final size:21
Alignment explanation
Indices: 1774056--1774097 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1774046 AATCAACCAT
* *
1774056 TCAAGATGATGATGAAGATGA
1 TCAAGAGGATGATGAAAATGA
*
1774077 TCAAGAGGTTGATGAAAATGA
1 TCAAGAGGATGATGAAAATGA
1774098 AGAAATAGCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.43, C:0.05, G:0.29, T:0.24
Consensus pattern (21 bp):
TCAAGAGGATGATGAAAATGA
Found at i:1774643 original size:84 final size:84
Alignment explanation
Indices: 1774483--1774647 Score: 201
Period size: 84 Copynumber: 2.0 Consensus size: 84
1774473 ACTCAAAGAA
* * * *
1774483 GAAAATAAATCAATAAGTGTAGAGAATGATATTCTTGAAAAGAAATTAAGTGAATTAGAGAAGAA
1 GAAAATAAATCAATAAGTGTAGAAAATGATATTCTTAAAAAGAAAATAAATGAATTAGAGAAGAA
*
1774548 TATGAAAGAGTTGCAAAAT
66 TAAGAAAGAGTTGCAAAAT
* * * *
1774567 GAAAGTAAATCAATAAGTTTAGAAAAT-A-ATTCTTTTAAAAAGAAAATAAATGAATTAGTGGAG
1 GAAAATAAATCAATAAGTGTAGAAAATGATATTC--TTAAAAAGAAAATAAATGAATTAGAGAAG
1774630 AA-AAGAAATGAGTTGCAA
64 AATAAGAAA-GAGTTGCAA
1774648 GTGGAAAATG
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
82 4 0.06
83 6 0.09
84 59 0.86
ACGTcount: A:0.52, C:0.04, G:0.19, T:0.25
Consensus pattern (84 bp):
GAAAATAAATCAATAAGTGTAGAAAATGATATTCTTAAAAAGAAAATAAATGAATTAGAGAAGAA
TAAGAAAGAGTTGCAAAAT
Found at i:1777997 original size:20 final size:20
Alignment explanation
Indices: 1777954--1778005 Score: 88
Period size: 19 Copynumber: 2.6 Consensus size: 20
1777944 GTAGCCAAAC
*
1777954 TTGTATCGATACACAAAATA
1 TTGTATCGATACACAAAAAA
1777974 -TGTATCGATACACAAAAAA
1 TTGTATCGATACACAAAAAA
1777993 TTGTATCGATACA
1 TTGTATCGATACA
1778006 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 18 0.60
20 12 0.40
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:1778506 original size:34 final size:35
Alignment explanation
Indices: 1778443--1778509 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1778433 CTAAGTGATT
1778443 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
1778479 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
1778510 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:1779352 original size:13 final size:13
Alignment explanation
Indices: 1779324--1779365 Score: 57
Period size: 14 Copynumber: 3.1 Consensus size: 13
1779314 TTAACAAAAT
1779324 TTTAATTTTATTAA
1 TTTAATTTT-TTAA
1779338 TTTAATTTTTTAA
1 TTTAATTTTTTAA
*
1779351 TTTCTATTTTTTAA
1 TTT-AATTTTTTAA
1779365 T
1 T
1779366 AAACCGATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
13 7 0.27
14 19 0.73
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTAATTTTTTAA
Found at i:1781896 original size:13 final size:13
Alignment explanation
Indices: 1781878--1781935 Score: 56
Period size: 13 Copynumber: 4.9 Consensus size: 13
1781868 CAATTCATCA
1781878 TGTATCGATACAT
1 TGTATCGATACAT
*
1781891 TGTATCGATACAA
1 TGTATCGATACAT
*
1781904 TG--T-G--CCA-
1 TGTATCGATACAT
1781911 TGTATCGATACAT
1 TGTATCGATACAT
1781924 TGTATCGATACA
1 TGTATCGATACA
1781936 ATGTGCCATG
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
7 2 0.06
8 2 0.06
9 1 0.03
10 2 0.06
11 1 0.03
12 2 0.06
13 26 0.72
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1781900 original size:33 final size:33
Alignment explanation
Indices: 1781858--1781952 Score: 158
Period size: 33 Copynumber: 2.9 Consensus size: 33
1781848 TTTGAAGCAA
1781858 TGTATCGATACAAT-T-CATCATGTATCGATACAT
1 TGTATCGATACAATGTGC--CATGTATCGATACAT
1781891 TGTATCGATACAATGTGCCATGTATCGATACAT
1 TGTATCGATACAATGTGCCATGTATCGATACAT
1781924 TGTATCGATACAATGTGCCATGTATCGAT
1 TGTATCGATACAATGTGCCATGTATCGAT
1781953 GCAAACAGTG
Statistics
Matches: 60, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
33 58 0.97
34 1 0.02
35 1 0.02
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.35
Consensus pattern (33 bp):
TGTATCGATACAATGTGCCATGTATCGATACAT
Found at i:1781916 original size:20 final size:20
Alignment explanation
Indices: 1781891--1781952 Score: 75
Period size: 20 Copynumber: 3.5 Consensus size: 20
1781881 ATCGATACAT
1781891 TGTATCGATACAATGTGCCA
1 TGTATCGATACAATGTGCCA
1781911 TGTATCGATAC-A--T----
1 TGTATCGATACAATGTGCCA
1781924 TGTATCGATACAATGTGCCA
1 TGTATCGATACAATGTGCCA
1781944 TGTATCGAT
1 TGTATCGAT
1781953 GCAAACAGTG
Statistics
Matches: 35, Mismatches: 0, Indels: 14
0.71 0.00 0.29
Matches are distributed among these distances:
13 11 0.31
14 1 0.03
16 1 0.03
17 1 0.03
19 1 0.03
20 20 0.57
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (20 bp):
TGTATCGATACAATGTGCCA
Found at i:1782029 original size:19 final size:19
Alignment explanation
Indices: 1781985--1782040 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
1781975 CTGCCAGTTT
**
1781985 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
1782005 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
1782024 CATGTATCGATACAATG
1 CATGTATCGATACAATG
1782041 TATCGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 19 0.56
20 15 0.44
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1782043 original size:13 final size:13
Alignment explanation
Indices: 1782025--1782051 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1782015 TACAATGAAC
1782025 ATGTATCGATACA
1 ATGTATCGATACA
1782038 ATGTATCGATACA
1 ATGTATCGATACA
1782051 A
1 A
1782052 AGCATAATGT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1786305 original size:17 final size:17
Alignment explanation
Indices: 1786285--1786320 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
1786275 AACCTGCTTA
1786285 GGTTGAAAACCTAAAAG
1 GGTTGAAAACCTAAAAG
1786302 GGTTGAAAACCTAAAAG
1 GGTTGAAAACCTAAAAG
1786319 GG
1 GG
1786321 CAGCTTAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.44, C:0.11, G:0.28, T:0.17
Consensus pattern (17 bp):
GGTTGAAAACCTAAAAG
Found at i:1790761 original size:35 final size:34
Alignment explanation
Indices: 1790715--1790780 Score: 114
Period size: 35 Copynumber: 1.9 Consensus size: 34
1790705 CCAAGTGATT
*
1790715 AAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGGA
1 AAGAGGTTCTATCTTAGCC-TTCAAAAAGATAGGA
1790750 AAGAGGTTCTATCTTAGCCTTCAAAAAGATA
1 AAGAGGTTCTATCTTAGCCTTCAAAAAGATA
1790781 ATGTTGCAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 11 0.37
35 19 0.63
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.29
Consensus pattern (34 bp):
AAGAGGTTCTATCTTAGCCTTCAAAAAGATAGGA
Found at i:1799556 original size:19 final size:19
Alignment explanation
Indices: 1799513--1799617 Score: 89
Period size: 20 Copynumber: 5.7 Consensus size: 19
1799503 CACACCCAGA
*
1799513 TGTATCGATACAT-TATGCTT
1 TGTATCGATACATGT-T-CAT
1799533 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTTCAT
*
1799552 TGTATTGAT--A----CAT
1 TGTATCGATACATGTTCAT
1799565 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTTCAT
**
1799584 TGTATCGATACATGGACAAT
1 TGTATCGATACATGTTC-AT
*
1799604 TGTATCAATACATG
1 TGTATCGATACATG
1799618 AAACTGGCAG
Statistics
Matches: 71, Mismatches: 6, Indels: 16
0.76 0.06 0.17
Matches are distributed among these distances:
13 11 0.15
15 1 0.01
17 1 0.01
19 28 0.39
20 29 0.41
21 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (19 bp):
TGTATCGATACATGTTCAT
Found at i:1799573 original size:32 final size:32
Alignment explanation
Indices: 1799532--1799596 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
1799522 ACATTATGCT
*
1799532 TTGTATCGATACATGTTCATTGTATTGATACA
1 TTGTATCGATACATGTTCATTGTATCGATACA
1799564 TTGTATCGATACATGTTCATTGTATCGATACA
1 TTGTATCGATACATGTTCATTGTATCGATACA
1799596 T
1 T
1799597 GGACAATTGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.43
Consensus pattern (32 bp):
TTGTATCGATACATGTTCATTGTATCGATACA
Found at i:1799607 original size:20 final size:19
Alignment explanation
Indices: 1799561--1799617 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
1799551 TTGTATTGAT
*
1799561 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
*
1799580 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
*
1799599 ACAATTGTATCAATACATG
1 AC-ATTGTATCGATACATG
1799618 AAACTGGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:1799688 original size:33 final size:33
Alignment explanation
Indices: 1799646--1799711 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
1799636 CTACCACTGT
* *
1799646 TTGTATCGATACATGGTGCATTGTATCCATACA
1 TTGTATCGATACATGATGAATTGTATCCATACA
*
1799679 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCGATACATGATGAATTGTATCCATACA
1799712 ATGCTTCTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.36
Consensus pattern (33 bp):
TTGTATCGATACATGATGAATTGTATCCATACA
Found at i:1801319 original size:9 final size:9
Alignment explanation
Indices: 1801288--1801321 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
1801278 GTCAACCATC
1801288 AATGATGAT
1 AATGATGAT
*
1801297 AAAGATGAT
1 AATGATGAT
1801306 AATGATGAT
1 AATGATGAT
*
1801315 GATGATG
1 AATGATG
1801322 GTGACTCGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.26, T:0.29
Consensus pattern (9 bp):
AATGATGAT
Found at i:1805859 original size:13 final size:13
Alignment explanation
Indices: 1805841--1805867 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1805831 ACAATATTCT
1805841 TTGTATCGATACA
1 TTGTATCGATACA
1805854 TTGTATCGATACA
1 TTGTATCGATACA
1805867 T
1 T
1805868 GGGTTACTAT
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1806032 original size:20 final size:20
Alignment explanation
Indices: 1805994--1806033 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
1805984 TTACAAATTT
1805994 CTTCATTTTCACTTCAAAATA
1 CTTCATTTTCAC-TCAAAATA
1806015 CTTCATTTTTCA-TCAAAAT
1 CTTCA-TTTTCACTCAAAAT
1806034 TATCAACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 5 0.28
22 6 0.33
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.45
Consensus pattern (20 bp):
CTTCATTTTCACTCAAAATA
Found at i:1807836 original size:25 final size:25
Alignment explanation
Indices: 1807807--1807857 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
1807797 TTTTTAACGA
1807807 GAGAATTAATTATTTTATAAAGGGG
1 GAGAATTAATTATTTTATAAAGGGG
1807832 GAGAATTAATTATTTTATAAAGGGG
1 GAGAATTAATTATTTTATAAAGGGG
1807857 G
1 G
1807858 TGAAAAATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.35
Consensus pattern (25 bp):
GAGAATTAATTATTTTATAAAGGGG
Found at i:1808420 original size:19 final size:18
Alignment explanation
Indices: 1808391--1808452 Score: 79
Period size: 19 Copynumber: 3.3 Consensus size: 18
1808381 TTGTATTGAT
1808391 ACATTGTATCGATACATG
1 ACATTGTATCGATACATG
* *
1808409 TTCATTGCATCGATACATG
1 -ACATTGTATCGATACATG
1808428 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
*
1808447 AAATTG
1 ACATTG
1808453 GCAATAGCTA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
18 5 0.14
19 32 0.86
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (18 bp):
ACATTGTATCGATACATG
Found at i:1808518 original size:33 final size:33
Alignment explanation
Indices: 1808476--1808540 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
1808466 TACCACTGTT
*
1808476 TGTATCGATACATGGT-ACATTATATCGATACAA
1 TGTATCGATACATGATGA-ATTATATCGATACAA
*
1808509 TGTATCGATACATGATGAATTGTATCGATACA
1 TGTATCGATACATGATGAATTATATCGATACA
1808541 TTGCTTCTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (33 bp):
TGTATCGATACATGATGAATTATATCGATACAA
Found at i:1810967 original size:19 final size:18
Alignment explanation
Indices: 1810943--1811006 Score: 66
Period size: 19 Copynumber: 3.7 Consensus size: 18
1810933 TATTTCAAGG
1810943 TGTATCGATACAATGAATA
1 TGTATCGATACAA-GAATA
1810962 TGTATCGAT---A-AA-A
1 TGTATCGATACAAGAATA
1810975 TGTATCGATACTAAGCAATA
1 TGTATCGATAC-AAG-AATA
1810995 TGTATCGATACA
1 TGTATCGATACA
1811007 TTTGGGTGTG
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 10 0.26
14 2 0.05
16 1 0.03
17 1 0.03
19 12 0.32
20 12 0.32
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (18 bp):
TGTATCGATACAAGAATA
Found at i:1811000 original size:33 final size:32
Alignment explanation
Indices: 1810943--1811004 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 32
1810933 TATTTCAAGG
1810943 TGTATCGATACAATGAATATGTATCGATAAAA
1 TGTATCGATACAATGAATATGTATCGATAAAA
1810975 TGTATCGATACTAA-GCAATATGTATCGATA
1 TGTATCGATAC-AATG-AATATGTATCGATA
1811005 CATTTGGGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.32
Consensus pattern (32 bp):
TGTATCGATACAATGAATATGTATCGATAAAA
Found at i:1814082 original size:21 final size:22
Alignment explanation
Indices: 1814042--1814082 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
1814032 CAAGAGGTTT
*
1814042 TGTAAAGATATCGACTAATTAG
1 TGTAAAGATATCGACGAATTAG
*
1814064 TGTAAAG-TATCTACGAATT
1 TGTAAAGATATCGACGAATT
1814083 CAATTCCAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.39, C:0.10, G:0.17, T:0.34
Consensus pattern (22 bp):
TGTAAAGATATCGACGAATTAG
Found at i:1816777 original size:3 final size:3
Alignment explanation
Indices: 1816771--1816813 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
1816761 AACTTCTTCT
* *
1816771 TCA TCA TCA TCA TCA TCA TCA TCA TCA TTA TCT TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1816814 TAATGGTTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.40
Consensus pattern (3 bp):
TCA
Found at i:1818592 original size:13 final size:13
Alignment explanation
Indices: 1818574--1818612 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
1818564 GGGACGAATT
1818574 TTATAACTTTTTG
1 TTATAACTTTTTG
1818587 TTATAACTTTTTG
1 TTATAACTTTTTG
1818600 ---TAACTTTTTG
1 TTATAACTTTTTG
1818610 TTA
1 TTA
1818613 AGCCCAAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
10 10 0.43
13 13 0.57
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (13 bp):
TTATAACTTTTTG
Found at i:1818805 original size:33 final size:33
Alignment explanation
Indices: 1818768--1818834 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1818758 TTCAACGATT
1818768 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1818801 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1818834 T
1 T
1818835 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1818806 original size:13 final size:13
Alignment explanation
Indices: 1818788--1818812 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1818778 CATAAAATGT
1818788 TGTATCGATACAA
1 TGTATCGATACAA
1818801 TGTATCGATACA
1 TGTATCGATACA
1818813 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1818896 original size:13 final size:13
Alignment explanation
Indices: 1818878--1818902 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1818868 ATTACTCACA
1818878 TGTATCGATACAT
1 TGTATCGATACAT
1818891 TGTATCGATACA
1 TGTATCGATACA
1818903 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1822073 original size:20 final size:21
Alignment explanation
Indices: 1822048--1822086 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
1822038 CTAAGCAATA
1822048 TGTATCGATAC-ATCTAGGTG
1 TGTATCGATACAATCTAGGTG
1822068 TGTATCGATACAATCTAGG
1 TGTATCGATACAATCTAGG
1822087 GTTTTAACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.33
Consensus pattern (21 bp):
TGTATCGATACAATCTAGGTG
Found at i:1822209 original size:24 final size:23
Alignment explanation
Indices: 1822165--1822209 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
1822155 ATTAATTGTA
* *
1822165 CTTGAAAAACATTTGATTTATTG
1 CTTGAAAAACATTTAACTTATTG
1822188 CTTGAAAAACATTTAAACTTAT
1 CTTGAAAAACATTT-AACTTAT
1822210 CTCTAAAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (23 bp):
CTTGAAAAACATTTAACTTATTG
Found at i:1822528 original size:19 final size:19
Alignment explanation
Indices: 1822506--1822542 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
1822496 TGATATAAAG
1822506 AAATTGTATCGATACATTA
1 AAATTGTATCGATACATTA
1822525 AAATTGTATCGATACATT
1 AAATTGTATCGATACATT
1822543 TCGACTATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.38
Consensus pattern (19 bp):
AAATTGTATCGATACATTA
Found at i:1824382 original size:35 final size:37
Alignment explanation
Indices: 1824340--1824412 Score: 114
Period size: 36 Copynumber: 2.0 Consensus size: 37
1824330 AGATAAAAAC
**
1824340 CTCCCTATC-TTTTCACGGGCTAAGATAG-AACTTCT
1 CTCCCTATCTTTTTCAAAGGCTAAGATAGAAACTTCT
1824375 CTCCCTATCTTTTTCAAAGGCTAAGATAGAAACTTCT
1 CTCCCTATCTTTTTCAAAGGCTAAGATAGAAACTTCT
1824412 C
1 C
1824413 AATCACTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
35 9 0.26
36 17 0.50
37 8 0.24
ACGTcount: A:0.26, C:0.27, G:0.12, T:0.34
Consensus pattern (37 bp):
CTCCCTATCTTTTTCAAAGGCTAAGATAGAAACTTCT
Found at i:1824987 original size:19 final size:20
Alignment explanation
Indices: 1824943--1824994 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
1824933 TGCCAGTTTT
* **
1824943 ATGTATTGATACAATACATG
1 ATGTATCGATACAATACAAC
1824963 ATGTATCGATACAATA-AAC
1 ATGTATCGATACAATACAAC
1824982 ATGTATCGATACA
1 ATGTATCGATACA
1824995 TCTGGGTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATACAAC
Found at i:1828039 original size:21 final size:20
Alignment explanation
Indices: 1828015--1828073 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 20
1828005 TTTCTTAGTT
*
1828015 AACTCATTATTTTCATCTTGC
1 AACTCATTATTTTC-TCTTCC
* *
1828036 AACTCATTTCTTTTCTTTTCC
1 AACTCA-TTATTTTCTCTTCC
1828057 AACTCATTCATTTTCTC
1 AACTCATT-ATTTTCTC
1828074 CACTAGTTCA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
20 2 0.06
21 22 0.71
22 7 0.23
ACGTcount: A:0.20, C:0.27, G:0.02, T:0.51
Consensus pattern (20 bp):
AACTCATTATTTTCTCTTCC
Found at i:1829726 original size:35 final size:36
Alignment explanation
Indices: 1829680--1829749 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
1829670 GATAGAAACC
**
1829680 TCCCTATC-TTTTCATTGGCTAAGTTAGAACCTCTT
1 TCCCTATCTTTTTCAAAGGCTAAGTTAGAACCTCTT
1829715 TCCCTATCTTTTTCAAAGGCTAAGTTAGAACCTCT
1 TCCCTATCTTTTTCAAAGGCTAAGTTAGAACCTCT
1829750 CAATCACTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 8 0.25
36 24 0.75
ACGTcount: A:0.23, C:0.26, G:0.11, T:0.40
Consensus pattern (36 bp):
TCCCTATCTTTTTCAAAGGCTAAGTTAGAACCTCTT
Found at i:1829736 original size:36 final size:35
Alignment explanation
Indices: 1829653--1829749 Score: 114
Period size: 36 Copynumber: 2.9 Consensus size: 35
1829643 CCTTACAACA
* *
1829653 CTATC-TTTC-AAGGCTAAGATAGAAAC-C--TCC
1 CTATCTTTTCAAAGGCTAAGTTAGAACCTCTTTCC
**
1829683 CTATCTTTTCATTGGCTAAGTTAGAACCTCTTTCC
1 CTATCTTTTCAAAGGCTAAGTTAGAACCTCTTTCC
1829718 CTATCTTTTTCAAAGGCTAAGTTAGAACCTCT
1 CTATC-TTTTCAAAGGCTAAGTTAGAACCTCT
1829750 CAATCACTTA
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
30 5 0.09
31 4 0.07
32 13 0.24
33 1 0.02
35 8 0.15
36 24 0.44
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.36
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGTTAGAACCTCTTTCC
Found at i:1830226 original size:21 final size:21
Alignment explanation
Indices: 1830200--1830268 Score: 102
Period size: 21 Copynumber: 3.3 Consensus size: 21
1830190 ATTATTTACT
1830200 TGTATCGATACTGTATAGTAA
1 TGTATCGATACTGTATAGTAA
* *
1830221 TGTATCGATATTGTATAGTGA
1 TGTATCGATACTGTATAGTAA
*
1830242 TGTATCGATACTGTAGAGTAA
1 TGTATCGATACTGTATAGTAA
*
1830263 TATATC
1 TGTATC
1830269 AATTAAAAGT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (21 bp):
TGTATCGATACTGTATAGTAA
Found at i:1830226 original size:40 final size:41
Alignment explanation
Indices: 1830178--1830271 Score: 118
Period size: 42 Copynumber: 2.3 Consensus size: 41
1830168 CCGTTGGGCT
* *
1830178 TAATGTATCAATATTATTTACT-TGTATCGATACTGTATAG
1 TAATGTATCAATATTATATACTATGTATCGATACTGTAGAG
* * *
1830218 TAATGTATCGATATTGTATAGTGATGTATCGATACTGTAGAG
1 TAATGTATCAATATTATATACT-ATGTATCGATACTGTAGAG
*
1830260 TAATATATCAAT
1 TAATGTATCAAT
1830272 TAAAAGTGAG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
40 18 0.40
42 27 0.60
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.41
Consensus pattern (41 bp):
TAATGTATCAATATTATATACTATGTATCGATACTGTAGAG
Found at i:1831706 original size:33 final size:32
Alignment explanation
Indices: 1831664--1831726 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 32
1831654 CACACCCAGA
1831664 TGTATCGATACATGTTGCTTGGTATCGATACTT
1 TGTATCGATACATGTT-CTTGGTATCGATACTT
* *
1831697 TGTATCGATACATGTTCTTTGTGTCGATAC
1 TGTATCGATACATGTTCTTGGTATCGATAC
1831727 ACCATAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.43
Consensus pattern (32 bp):
TGTATCGATACATGTTCTTGGTATCGATACTT
Found at i:1835268 original size:28 final size:28
Alignment explanation
Indices: 1835236--1835307 Score: 108
Period size: 28 Copynumber: 2.6 Consensus size: 28
1835226 GATAGAAATG
* * *
1835236 GGGTTAGAGTATCCCTTCGAAAATAATA
1 GGGTTGGAGTATCCCCTCAAAAATAATA
1835264 GGGTTGGAGTATCCCCTCAAAAATAATA
1 GGGTTGGAGTATCCCCTCAAAAATAATA
*
1835292 GGGCTGGAGTATCCCC
1 GGGTTGGAGTATCCCC
1835308 AATTATGAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCTCAAAAATAATA
Found at i:1835352 original size:79 final size:79
Alignment explanation
Indices: 1835263--1836125 Score: 754
Period size: 79 Copynumber: 11.0 Consensus size: 79
1835253 CGAAAATAAT
* * * ** *
1835263 AGGGTTGGAGTATCCCCTCAAAAATAATAGGGCTGGAGTATCCCCAATTATGAAAAATCGATGTT
1 AGGGTTGGAGTATCCCCTCAAAAATAATGGGGTTGGAGTATCCCCGATGGTGAAAAATCGATATT
1835328 TTAGAAATAAAATC
66 TTAGAAATAAAATC
* * * * * *
1835342 GGGGTTGGAGTATCCCCTCGAAAATAATGGGGTTAGAGTA-CCCACGATGGTGGAAAATCGGTCT
1 AGGGTTGGAGTATCCCCTCAAAAATAATGGGGTTGGAGTATCCC-CGATGGTGAAAAATCGATAT
1835406 TTT-GAAAATAAAATC
65 TTTAG-AAATAAAATC
* * * * *** ** ** * *
1835421 ATGGTTAGAGTATCCCCTTAGAAATAATGAAATTGGAGTATCCTTGATCATGAAAAATTGATGTT
1 AGGGTTGGAGTATCCCCTCAAAAATAATGGGGTTGGAGTATCCCCGATGGTGAAAAATCGATATT
* *
1835486 TCAAAAATAAAATC
66 TTAGAAATAAAATC
* * * * * * ** * *
1835500 AAGGTTGGAGTATCCTCTCAGAAATAACGGGGCTAGAGTATCCTTGATGGTG-AAAATTGGTATT
1 AGGGTTGGAGTATCCCCTCAAAAATAATGGGGTTGGAGTATCCCCGATGGTGAAAAATCGATATT
*
1835564 TTAGAAATAAGATC
66 TTAGAAATAAAATC
* * * ** *
1835578 A-GGTTGGAGTATCCTCTCGAAAATAACGGGGTTGGAGTATCCTTGATGGTGGAAAATCGATATT
1 AGGGTTGGAGTATCCCCTCAAAAATAATGGGGTTGGAGTATCCCCGATGGTGAAAAATCGATATT
1835642 TTAGAAATAAAATC
66 TTAGAAATAAAATC
* * * * * * *
1835656 AAGGTTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCTGATTGTGAAAAATCGGTGTT
1 AGGGTTGGAGTATCCCCTCAAAAATAATGGGGTTGGAGTATCCCCGATGGTGAAAAATCGATATT
* *
1835721 TCAAAAATAAAATC
66 TTAGAAATAAAATC
* ** * * * ** * * * *
1835735 TGGGTTAAAGTATCCCTTCAGAAATAACGGGACTGTAGTATCCCCGATGGTGGAAAATCGACACT
1 AGGGTTGGAGTATCCCCTCAAAAATAATGGGGTTGGAGTATCCCCGATGGTGAAAAATCGATATT
*
1835800 TTAGAAATAAGATC
66 TTAGAAATAAAATC
* * * * * * *
1835814 -GAGGTTGGAGTATCCCTTTAAAAATAACGAGGTTGGAGTATTCTCGATGGTGAAAAATCGGTAT
1 AG-GGTTGGAGTATCCCCTCAAAAATAATGGGGTTGGAGTATCCCCGATGGTGAAAAATCGATAT
*
1835878 TTTAGAAATAAGATC
65 TTTAGAAATAAAATC
* * * * * ** *
1835893 GGGGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAATAT-CCCGATTATGAAAAATCGATGTT
1 AGGGTTGGAGTATCCCCTCAAAAATAATGGGGTTGGAGTATCCCCGATGGTGAAAAATCGATATT
* *
1835957 TCAAAAATAAAA-C
66 TTAGAAATAAAATC
* * * * * *
1835970 AGGGGTTGGAG-ATCCCCTCAAAAATCATAGGGCTGGAGTATCCTCGATGGTGAAAAATTGGTAT
1 A-GGGTTGGAGTATCCCCTCAAAAATAATGGGGTTGGAGTATCCCCGATGGTGAAAAATCGATAT
*
1836034 TTTAGAAATAAAACC
65 TTTAGAAATAAAATC
* * ** *
1836049 AGGGTTGGAGCATCCCCTCAGAAATAATGGGGTTGGAGTATCCCTAATAGTGAAAAATC-AGTAT
1 AGGGTTGGAGTATCCCCTCAAAAATAATGGGGTTGGAGTATCCCCGATGGTGAAAAATCGA-TAT
1836113 TTTAGAAATAAAA
65 TTTAGAAATAAAA
1836126 ACATAAATGA
Statistics
Matches: 632, Mismatches: 139, Indels: 26
0.79 0.17 0.03
Matches are distributed among these distances:
77 71 0.11
78 122 0.19
79 436 0.69
80 3 0.00
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (79 bp):
AGGGTTGGAGTATCCCCTCAAAAATAATGGGGTTGGAGTATCCCCGATGGTGAAAAATCGATATT
TTAGAAATAAAATC
Found at i:1835758 original size:235 final size:235
Alignment explanation
Indices: 1835263--1836125 Score: 909
Period size: 235 Copynumber: 3.7 Consensus size: 235
1835253 CGAAAATAAT
* * ** * * ** * * *
1835263 AGGGTTGGAGTATCCCCTCAAAAATAATAGGGCTGGAGTATCCCCAATTATGAAAAATCGATGTT
1 AGGGTTGGAGTATCCCTTCAGAAATAACGGGGCT-GAGTATCCTCGATGGTG-AAAATTGGTATT
* * * * *
1835328 TTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAATGGGGTTAGAGTACCCACGATGGT
64 TTAGAAATAAAATCGAGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCTCGATGGT
* * * * * * * **
1835393 GGAAAATCGGTCTTTT-GAAAATAAAATCATGGTTAGAGTATCCCCTTAGAAATAATGAAATTGG
129 GAAAAATCGATATTTTAG-AAATAAAATCAAGGTTAGAGTATCCCCTCAAAAATAACGAGGTTGG
* * *
1835457 AGTATCCTTGATCATGAAAAATTGATGTTTCAAAAATAAAATC
193 AGTATCCCTGATTATGAAAAATCGATGTTTCAAAAATAAAATC
* *
1835500 AAGGTTGGAGTAT-CCTCTCAGAAATAACGGGGCTAGAGTATCCTTGATGGTGAAAATTGGTATT
1 AGGGTTGGAGTATCCCT-TCAGAAATAACGGGGCT-GAGTATCCTCGATGGTGAAAATTGGTATT
* * *
1835564 TTAGAAATAAGATC-AGGTTGGAGTATCCTCTCGAAAATAACGGGGTTGGAGTATCCTTGATGGT
64 TTAGAAATAAAATCGAGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCTCGATGGT
* *
1835628 GGAAAATCGATATTTTAGAAATAAAATCAAGGTTGGAGTATCCCCTCAAAAATAACGAGGTTGGA
129 GAAAAATCGATATTTTAGAAATAAAATCAAGGTTAGAGTATCCCCTCAAAAATAACGAGGTTGGA
* *
1835693 GTATCCCTGATTGTGAAAAATCGGTGTTTCAAAAATAAAATC
194 GTATCCCTGATTATGAAAAATCGATGTTTCAAAAATAAAATC
* ** * * * ** *
1835735 TGGGTTAAAGTATCCCTTCAGAAATAACGGGACTGTAGTATCCCCGATGGTGGAAAATCGACACT
1 AGGGTTGGAGTATCCCTTCAGAAATAACGGGGCTG-AGTATCCTCGATGGT-GAAAATTGGTATT
* * ** * *
1835800 TTAGAAATAAGATCGAGGTTGGAGTATCCCTTTAAAAATAACGAGGTTGGAGTATTCTCGATGGT
64 TTAGAAATAAAATCGAGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCTCGATGGT
* * ** * *
1835865 GAAAAATCGGTATTTTAGAAATAAGATCGGGGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGA
129 GAAAAATCGATATTTTAGAAATAAAATCAAGGTTAGAGTATCCCCTCAAAAATAACGAGGTTGGA
*
1835930 ATATCCC-GATTATGAAAAATCGATGTTTCAAAAATAAAA-C
194 GTATCCCTGATTATGAAAAATCGATGTTTCAAAAATAAAATC
* * * **
1835970 AGGGGTTGGAG-ATCCCCTCAAAAATCATAGGGCTGGAGTATCCTCGATGGTGAAAAATTGGTAT
1 A-GGGTTGGAGTATCCCTTCAGAAATAACGGGGCT-GAGTATCCTCGATGGTG-AAAATTGGTAT
* * * *
1836034 TTTAGAAATAAAA-CCAGGGTTGGAGCATCCCCTC-AGAAATAATGGGGTTGGAGTATCC-CTAA
63 TTTAGAAATAAAATCGA-GGTTGGAGTATCCCCTCGA-AAATAACGGGGTTGGAGTATCCTC-GA
*
1836096 TAGTGAAAAATC-AGTATTTTAGAAATAAAA
125 TGGTGAAAAATCGA-TATTTTAGAAATAAAA
1836126 ACATAAATGA
Statistics
Matches: 522, Mismatches: 91, Indels: 28
0.81 0.14 0.04
Matches are distributed among these distances:
234 6 0.01
235 283 0.54
236 89 0.17
237 144 0.28
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (235 bp):
AGGGTTGGAGTATCCCTTCAGAAATAACGGGGCTGAGTATCCTCGATGGTGAAAATTGGTATTTT
AGAAATAAAATCGAGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCTCGATGGTGA
AAAATCGATATTTTAGAAATAAAATCAAGGTTAGAGTATCCCCTCAAAAATAACGAGGTTGGAGT
ATCCCTGATTATGAAAAATCGATGTTTCAAAAATAAAATC
Found at i:1835923 original size:393 final size:391
Alignment explanation
Indices: 1835265--1836125 Score: 930
Period size: 393 Copynumber: 2.2 Consensus size: 391
1835255 AAAATAATAG
* * * * *
1835265 GGTTGGAGTATCCCCTCAAAAATAATAGGGCTGGAGTATCCCCAATTATGAAAAATCGATGTTTT
1 GGTTGGAGTATCCCCTCAAAAATAAGA-GGTTGGAGTATCCCTAATTGTGAAAAATCGGTGTTTT
** * **
1835330 AGAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAATGGGGTTAGAGTACCCACGATGGTGG
65 AGAAATAAAATCGGGGTTAAAGTATCCCCTCGAAAATAACGGGACTAGAGTACCCACGATGGTGG
** * * *
1835395 AAAATCGGTCTTTTGAAAATAAAATCATGGTTAGAGTATCCCCTTAGAAATAATGAAATTGGAGT
130 AAAATCGCACTTTAGAAAATAAAATCATGGTTAGAGTATCCCCTTAAAAATAACGAAATTGGAGT
* * * * *
1835460 ATCCTTGATCATGAAAAATTGATGTTTCAAAAATAAAATCAAGGTTGGAGTATCCTCTCAGAAAT
195 ATCCTCGATCATGAAAAATCGATATTTCAAAAATAAAATCAAGGTTAGAGTATCCCCTCAGAAAT
* * * * * * *
1835525 AACGGGGCTAGAGTATCCTTGATGGTGAAAATTGGTAT-TTT-AGAAATAAGATCA-GGTTGGAG
260 AACGGGGCTAGAATATCC-CGATGATGAAAAATCG-ATGTTTCAAAAATAA-AACAGGGTTGGAG
* * * * * *
1835587 TATCCTCTCGAAAATAACGGGGTTGGAGTATCCTTGATGGTGGAAAATCGATATTTTAGAAATAA
322 -ATCCCCTCAAAAATAACAGGGCTGGAGTATCCTCGATGGTGAAAAATCGATATTTTAGAAATAA
*
1835652 AATCAA
386 AACCAA
* *
1835658 GGTTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCTGATTGTGAAAAATCGGTGTTTC
1 GGTTGGAGTATCCCCTCAAAAATAA-GAGGTTGGAGTATCCCTAATTGTGAAAAATCGGTGTTTT
* * *
1835723 AAAAATAAAATCTGGGTTAAAGTATCCCTTC-AGAAATAACGGGACT-GTAGTATCCC-CGATGG
65 AGAAATAAAATCGGGGTTAAAGTATCCCCTCGA-AAATAACGGGACTAG-AGTA-CCCACGATGG
* * * **
1835785 TGGAAAATCGACACTTTAG-AAATAAGATCGA-GGTTGGAGTATCCCTTTAAAAATAACGAGGTT
127 TGGAAAATCG-CACTTTAGAAAATAAAATC-ATGGTTAGAGTATCCCCTTAAAAATAACGAAATT
* ** * * * * **
1835848 GGAGTATTCTCGATGGTGAAAAATCGGTATTTTAGAAATAAGATCGGGGTTAGAGTATCCCCTC-
190 GGAGTATCCTCGATCATGAAAAATCGATATTTCAAAAATAAAATCAAGGTTAGAGTATCCCCTCA
* * *
1835912 GAAAATAACGGGGTTGGAATATCCCGATTATGAAAAATCGATGTTTCAAAAATAAAACAGGGGTT
255 G-AAATAACGGGGCTAGAATATCCCGATGATGAAAAATCGATGTTTCAAAAATAAAACA-GGGTT
* * * *
1835977 GGAGATCCCCTCAAAAATCATAGGGCTGGAGTATCCTCGATGGTGAAAAATTGGTATTTTAGAAA
318 GGAGATCCCCTCAAAAATAACAGGGCTGGAGTATCCTCGATGGTGAAAAATCGATATTTTAGAAA
*
1836042 TAAAACCAG
383 TAAAACCAA
* * * * * *
1836051 GGTTGGAGCATCCCCTCAGAAATAATGGGGTTGGAGTATCCCTAATAGTGAAAAATCAGTATTTT
1 GGTTGGAGTATCCCCTCAAAAATAA-GAGGTTGGAGTATCCCTAATTGTGAAAAATCGGTGTTTT
1836116 AGAAATAAAA
65 AGAAATAAAA
1836126 ACATAAATGA
Statistics
Matches: 386, Mismatches: 71, Indels: 22
0.81 0.15 0.05
Matches are distributed among these distances:
391 2 0.01
392 20 0.05
393 346 0.90
394 18 0.05
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (391 bp):
GGTTGGAGTATCCCCTCAAAAATAAGAGGTTGGAGTATCCCTAATTGTGAAAAATCGGTGTTTTA
GAAATAAAATCGGGGTTAAAGTATCCCCTCGAAAATAACGGGACTAGAGTACCCACGATGGTGGA
AAATCGCACTTTAGAAAATAAAATCATGGTTAGAGTATCCCCTTAAAAATAACGAAATTGGAGTA
TCCTCGATCATGAAAAATCGATATTTCAAAAATAAAATCAAGGTTAGAGTATCCCCTCAGAAATA
ACGGGGCTAGAATATCCCGATGATGAAAAATCGATGTTTCAAAAATAAAACAGGGTTGGAGATCC
CCTCAAAAATAACAGGGCTGGAGTATCCTCGATGGTGAAAAATCGATATTTTAGAAATAAAACCA
A
Found at i:1836119 original size:314 final size:310
Alignment explanation
Indices: 1835264--1836125 Score: 939
Period size: 314 Copynumber: 2.7 Consensus size: 310
1835254 GAAAATAATA
* ** * *
1835264 GGGTTGGAGTATCCCCTCAAAAATAATAGGGCTGGAGTATCCCCAATTATGAAAAATCGATGTTT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTAT-CCCGATTATGAAAAATCGATGTTT
* * * *
1835329 TAGAAATAAAATC-GGGGTTGGAGTATCCCCTCGAAAATAATGGGGTTAGAGTACCCACGATGGT
65 TAGAAATAAAATCAGGGGTTGGAGTATCCCCTCAAAAAT-ATAGGGTTGGAGTATCC-CGATGGT
* * * * **
1835393 GGAAAATCGGTCTTTT-GAAAATAAAATCATGGTTAGAGTATCCCCTTAGAAATAATGAAATTGG
128 GAAAAATCGGTATTTTAG-AAATAAAATCAGGGTTAGAGTATCCCCTCAGAAATAATGGGATTGG
* * * *
1835457 AGTATCCTTGATCA-TGAAAAATTGATGTTTCAAAAATAAAATCAAGGTTGGAGTATCCTCTCAG
192 AGTATCCCTGAT-AGTGAAAAATCGAT-TTT-AGAAATAAAATCAAGGTTGGAGTATCCTCTCAA
* * *
1835521 AAATAACGGGGCTAGAGTATCCTTGATGGTGAAAATTGGTATTTTAGAAATAAGATC
254 AAATAACGAGGCTAGAGTATCCTCGATGGTGAAAATCGGTATTTTAGAAATAAGATC
* * * ** * *
1835578 AGGTTGGAGTATCCTCTCGAAAATAACGGGGTTGGAGTATCCTTGATGGTGGAAAATCGATATTT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCC-CGATTATGAAAAATCGATGTTT
* *
1835643 TAGAAATAAAATCA-AGGTTGGAGTATCCCCTCAAAAATA-ACGAGGTTGGAGTATCCCTGATTG
65 TAGAAATAAAATCAGGGGTTGGAGTATCCCCTCAAAAATATA-G-GGTTGGAGTATCCC-GATGG
* * * * * * * * *
1835706 TGAAAAATCGGTGTTTCAAAAATAAAATCTGGGTTAAAGTATCCCTTCAGAAATAACGGGACTGT
127 TGAAAAATCGGTATTTTAGAAATAAAATCAGGGTTAGAGTATCCCCTCAGAAATAATGGGATTGG
* * * * * * *
1835771 AGTATCCCCGATGGTGGAAAATCGACACTTTAGAAATAAGATCGAGGTTGGAGTATCC-CTTTAA
192 AGTATCCCTGATAGTGAAAAATCG--ATTTTAGAAATAAAATCAAGGTTGGAGTATCCTC-TCAA
* * *
1835835 AAATAACGAGGTTGGAGTATTCTCGATGGTGAAAAATCGGTATTTTAGAAATAAGATC
254 AAATAACGAGGCTAGAGTATCCTCGATGGTG-AAAATCGGTATTTTAGAAATAAGATC
* *
1835893 GGGGTTAGAGTATCCCCTCGAAAATAACGGGGTTGGAATATCCCGATTATGAAAAATCGATGTTT
1 -GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCGATTATGAAAAATCGATGTTT
* * *
1835958 CAAAAATAAAA-CAGGGGTTGGAG-ATCCCCTCAAAAATCATAGGGCTGGAGTATCCTCGATGGT
65 TAGAAATAAAATCAGGGGTTGGAGTATCCCCTCAAAAAT-ATAGGGTTGGAGTATCC-CGATGGT
* * * * *
1836021 GAAAAATTGGTATTTTAGAAATAAAACCAGGGTTGGAGCATCCCCTCAGAAATAATGGGGTTGGA
128 GAAAAATCGGTATTTTAGAAATAAAATCAGGGTTAGAGTATCCCCTCAGAAATAATGGGATTGGA
*
1836086 GTATCCCTAATAGTGAAAAATCAGTATTTTAGAAATAAAA
193 GTATCCCTGATAGTGAAAAATC-G-ATTTTAGAAATAAAA
1836126 ACATAAATGA
Statistics
Matches: 447, Mismatches: 84, Indels: 34
0.79 0.15 0.06
Matches are distributed among these distances:
313 6 0.01
314 335 0.75
315 66 0.15
316 40 0.09
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.27
Consensus pattern (310 bp):
GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCGATTATGAAAAATCGATGTTTT
AGAAATAAAATCAGGGGTTGGAGTATCCCCTCAAAAATATAGGGTTGGAGTATCCCGATGGTGAA
AAATCGGTATTTTAGAAATAAAATCAGGGTTAGAGTATCCCCTCAGAAATAATGGGATTGGAGTA
TCCCTGATAGTGAAAAATCGATTTTAGAAATAAAATCAAGGTTGGAGTATCCTCTCAAAAATAAC
GAGGCTAGAGTATCCTCGATGGTGAAAATCGGTATTTTAGAAATAAGATC
Found at i:1838441 original size:50 final size:51
Alignment explanation
Indices: 1838327--1838458 Score: 176
Period size: 50 Copynumber: 2.6 Consensus size: 51
1838317 AAAAATGCTT
* * * * *
1838327 GAATGTATCGATACATTGAGAAATGTATCGATACATTTGGGTTAAAACCCA
1 GAATGTATCGATACAATGAAAAATGTATCGACACATCTAGGTTAAAACCCA
* * *
1838378 GAATGTATTGATACAATGAAAAATGTATTGACACATCTATG-TAAAACCCA
1 GAATGTATCGATACAATGAAAAATGTATCGACACATCTAGGTTAAAACCCA
*
1838428 GAATGTATCGATACAATGAAGAATGTATCGA
1 GAATGTATCGATACAATGAAAAATGTATCGA
1838459 TACAAATTGT
Statistics
Matches: 70, Mismatches: 11, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
50 37 0.53
51 33 0.47
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (51 bp):
GAATGTATCGATACAATGAAAAATGTATCGACACATCTAGGTTAAAACCCA
Found at i:1839183 original size:35 final size:35
Alignment explanation
Indices: 1839052--1839235 Score: 138
Period size: 42 Copynumber: 4.9 Consensus size: 35
1839042 AAGGAAGGGG
* * *
1839052 CATCCTGCTCTTTGAGGACAAGGGAAAGA-GAATA
1 CATCCTACTCTTTGAGGACAAAGGAAAAAGGAATA
* *
1839086 CATCTTACTCTTCGAGGACAAA-GAAAAAGAGAATAA
1 CATCCTACTCTTTGAGGACAAAGGAAAAAG-GAAT-A
* * * * *
1839122 AATAGGCCTTGCTCCTTGAGGGCAAAGGAAAAAGGAGTA
1 CAT---CC-TACTCTTTGAGGACAAAGGAAAAAGGAATA
1839161 CATCCTACTCTTTGAGGACAAAGGAGAAAAGGAAATAAAGTA
1 CATCCTACTCTTTGAGGACAAAGGA-AAAAGG-----AA-TA
*
1839203 CATCCTACTCTTTGAGGACAAAGGGAAAAGGAA
1 CATCCTACTCTTTGAGGACAAAGGAAAAAGGAA
1839236 ATAAAATGTC
Statistics
Matches: 117, Mismatches: 18, Indels: 28
0.72 0.11 0.17
Matches are distributed among these distances:
33 5 0.04
34 18 0.15
35 21 0.18
36 13 0.11
39 4 0.03
40 16 0.14
41 14 0.12
42 26 0.22
ACGTcount: A:0.41, C:0.16, G:0.24, T:0.19
Consensus pattern (35 bp):
CATCCTACTCTTTGAGGACAAAGGAAAAAGGAATA
Found at i:1839206 original size:42 final size:41
Alignment explanation
Indices: 1839140--1839272 Score: 164
Period size: 42 Copynumber: 3.2 Consensus size: 41
1839130 TTGCTCCTTG
*
1839140 AGGGCAAAGGAAA-AAGGAGTACATCCTACTCTTTGAGGACAA
1 AGGGAAAAGGAAATAA--AGTACATCCTACTCTTTGAGGACAA
1839182 AGGAGAAAAGGAAATAAAGTACATCCTACTCTTTGAGGACAA
1 AGG-GAAAAGGAAATAAAGTACATCCTACTCTTTGAGGACAA
** * *
1839224 AGGGAAAAGGAAATAAA--ATGTCCTGCTCTTTGAAGACAAA
1 AGGGAAAAGGAAATAAAGTACATCCTACTCTTTGAGGAC-AA
1839264 AGGGAAAAG
1 AGGGAAAAG
1839273 AAAGAAATGA
Statistics
Matches: 83, Mismatches: 5, Indels: 8
0.86 0.05 0.08
Matches are distributed among these distances:
39 16 0.19
40 11 0.13
41 14 0.17
42 31 0.37
43 9 0.11
44 2 0.02
ACGTcount: A:0.44, C:0.14, G:0.25, T:0.17
Consensus pattern (41 bp):
AGGGAAAAGGAAATAAAGTACATCCTACTCTTTGAGGACAA
Found at i:1839226 original size:77 final size:75
Alignment explanation
Indices: 1839052--1839235 Score: 203
Period size: 77 Copynumber: 2.4 Consensus size: 75
1839042 AAGGAAGGGG
* * *
1839052 CATCCTGCTCTTTGAGGACAAGGGAAAGA-GAATACATCTTACTCTTCGAGGACAAAGAAAAAGA
1 CATCCTGCTCTTTGAGGACAAAGGAAAAAGGAATACATCCTACTCTTCGAGGACAAAGAAAAAGA
1839116 GAATAAAATA
66 GAATAAAATA
** * * * *
1839126 -GGCCTTGCTCCTTGAGGGCAAAGGAAAAAGGAGTACATCCTACTCTTTGAGGACAAAGGAGAAA
1 CATCC-TGCTCTTTGAGGACAAAGGAAAAAGGAATACATCCTACTCTTCGAGGACAAA-GA-AAA
*
1839190 AG-GAAATAAAGTA
63 AGAG-AATAAAATA
* *
1839203 CATCCTACTCTTTGAGGACAAAGGGAAAAGGAA
1 CATCCTGCTCTTTGAGGACAAAGGAAAAAGGAA
1839236 ATAAAATGTC
Statistics
Matches: 87, Mismatches: 17, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
73 2 0.02
74 20 0.23
75 24 0.28
76 3 0.03
77 36 0.41
78 2 0.02
ACGTcount: A:0.41, C:0.16, G:0.24, T:0.19
Consensus pattern (75 bp):
CATCCTGCTCTTTGAGGACAAAGGAAAAAGGAATACATCCTACTCTTCGAGGACAAAGAAAAAGA
GAATAAAATA
Found at i:1839439 original size:61 final size:60
Alignment explanation
Indices: 1839286--1839734 Score: 467
Period size: 61 Copynumber: 7.3 Consensus size: 60
1839276 GAAATGAGGT
*
1839286 GCGTCCTGCTCTTTGAGGACTA-AAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAAGA
1 GCGTCCTACTCTTTGAGGACTAGAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAGG-----A-A
1839350 AA
59 AA
* * * **
1839352 GTGTCCTACTCTTTGAAGACTAGAAGGTGTCACCAACTTGTGTGGGCTTTGCAAGGAGAAA
1 GCGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAA
* * *
1839413 GCGTCCTACTCTTTGAGGACTAGAAGGTGACACCAACTTGTATGAGCTTTAAAAGG-AAA
1 GCGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA
* * * ** * * *
1839472 GCGCCCTACTTTTTGAGGACTAAAAGGTGCTGCTAATTTATGTGGGCTTTAAAAGGAAAA
1 GCGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA
*
1839532 GGCATCCTACTCTTTGAGGACT-GCAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA
1 -GCGTCCTACTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA
* * * * * * *
1839593 GGCATCTTACTCTTTAAGGACT-GAAAAGTGTCACCACCTTTTGTGGGCTTTAAAAGGAAAA
1 -GCGTCCTACTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA
* ** *
1839654 GGCGTCCTGCTCTTTGAGGACTAGAAATTGCCACCAACTTGTGTGGGCTTTGAAA-GAAAA
1 -GCGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA
* *
1839714 GTGTCATACTCTTTGAGGACT
1 GCGTCCTACTCTTTGAGGACT
1839735 GAAAGGATAA
Statistics
Matches: 326, Mismatches: 52, Indels: 17
0.83 0.13 0.04
Matches are distributed among these distances:
59 66 0.20
60 8 0.02
61 202 0.62
62 1 0.00
66 47 0.14
67 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.27
Consensus pattern (60 bp):
GCGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA
Found at i:1839540 original size:120 final size:119
Alignment explanation
Indices: 1839358--1839740 Score: 418
Period size: 120 Copynumber: 3.2 Consensus size: 119
1839348 GAAAGTGTCC
* * * **
1839358 TACTCTTTGAAGACTAGAAGGTGTCACCA-ACTTGTGTGGGCTTTGCAAGGAGAAA-GCGTCCTA
1 TACTCTTTGAGGACTAAAAGGTGTCACCACA-TTTTGTGGGCTTTAAAAGGA-AAAGGCGTCCTA
* * * *
1839421 CTCTTTGAGGACTAGAAGGTGACACCAACTTGTATGAGCTTTAAAAGGAAAGCGCCC
64 CTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAG-GCCA
* * * *
1839478 TACTTTTTGAGGACTAAAAGGTG-CTGCTA-ATTTATGTGGGCTTTAAAAGGAAAAGGCATCCTA
1 TACTCTTTGAGGACTAAAAGGTGTC-ACCACATTT-TGTGGGCTTTAAAAGGAAAAGGCGTCCTA
*
1839541 CTCTTTGAGGACT-GCAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCT
64 CTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG-AAAGGC--CA
* * *
1839600 TACTCTTTAAGGACTGAAAA-GTGTCACCACCTTTTGTGGGCTTTAAAAGGAAAAGGCGTCCTGC
1 TACTCTTTGAGGACT-AAAAGGTGTCACCACATTTTGTGGGCTTTAAAAGGAAAAGGCGTCCTAC
** * * *
1839664 TCTTTGAGGACTAGAAATTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAGTGTCA
65 TCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAG-GCCA
*
1839720 TACTCTTTGAGGACTGAAAGG
1 TACTCTTTGAGGACTAAAAGG
1839741 ATAAAAGGTT
Statistics
Matches: 222, Mismatches: 28, Indels: 26
0.80 0.10 0.09
Matches are distributed among these distances:
119 10 0.05
120 106 0.48
121 8 0.04
122 89 0.40
123 9 0.04
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.27
Consensus pattern (119 bp):
TACTCTTTGAGGACTAAAAGGTGTCACCACATTTTGTGGGCTTTAAAAGGAAAAGGCGTCCTACT
CTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGGCCA
Found at i:1839606 original size:181 final size:180
Alignment explanation
Indices: 1839294--1839737 Score: 461
Period size: 181 Copynumber: 2.4 Consensus size: 180
1839284 GTGCGTCCTG
* *
1839294 CTCTTTGAGGACTA-AAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAAGAAAGTGTCC
1 CTCTTTGAGGACTAGAA-AGTGCCACCAACTTATGTGGGCTTTAAAA-G-----A-AAAGTGTCC
* * ** *
1839358 TACTCTTTGAAGACTAGAAGGTGTCACCAACTTGTGTGGGCTTTGCAAGGAGAAAGCGTCCTACT
58 TACTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAAGCATCCTACT
* *
1839423 CTTTGAGGACT-AGAAGGTGACACCAACTTGTATGAGCTTTAAAAGG-AAA-GCGCCCTA
122 CTTTAAGGACTGA-AAAGTGACACCAACTTGTATGAGCTTTAAAAGGAAAAGGCGCCCTA
* ** * *
1839480 CTTTTTGAGGACTA-AAAGGTGCTGCTAATTTATGTGGGCTTTAAAAGGAAAAG-GCATCCTACT
1 CTCTTTGAGGACTAGAAA-GTGCCACCAACTTATGTGGGCTTTAAAA-GAAAAGTG--TCCTACT
*
1839543 CTTTGAGGACTGCAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGGCATCTTACTCTT
62 CTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAA-GCATCCTACTCTT
* * * * * * *
1839607 TAAGGACTGAAAAGTGTCACCACCTTTTGTGGGCTTTAAAAGGAAAAGGCGTCCTG
125 TAAGGACTGAAAAGTGACACCAACTTGTATGAGCTTTAAAAGGAAAAGGCGCCCTA
* * * *
1839663 CTCTTTGAGGACTAGAAATTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAGTGTCATACTCTTT
1 CTCTTTGAGGACTAGAAAGTGCCACCAACTTATGTGGGCTTTAAAAGAAAAGTGTCCTACTCTTT
1839728 GAGGACTGAA
66 GAGGACTGAA
1839738 AGGATAAAAG
Statistics
Matches: 217, Mismatches: 31, Indels: 26
0.79 0.11 0.09
Matches are distributed among these distances:
179 1 0.00
180 10 0.05
181 112 0.52
182 10 0.05
183 41 0.19
184 3 0.01
186 40 0.18
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (180 bp):
CTCTTTGAGGACTAGAAAGTGCCACCAACTTATGTGGGCTTTAAAAGAAAAGTGTCCTACTCTTT
GAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAAGCATCCTACTCTTTAAGGA
CTGAAAAGTGACACCAACTTGTATGAGCTTTAAAAGGAAAAGGCGCCCTA
Found at i:1840779 original size:20 final size:20
Alignment explanation
Indices: 1840754--1840827 Score: 98
Period size: 20 Copynumber: 3.7 Consensus size: 20
1840744 GTTTGAAGCA
1840754 ATGTATCGATACAATTCATC
1 ATGTATCGATACAATTCATC
* *
1840774 ATGTATTGATATAATTCATC
1 ATGTATCGATACAATTCATC
1840794 ATGTATCGATACAATGTGC--C
1 ATGTATCGATACAAT-T-CATC
1840814 ATGTATCGATACAA
1 ATGTATCGATACAA
1840828 ACAGTGGTAG
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
20 46 0.96
21 1 0.02
22 1 0.02
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACAATTCATC
Found at i:1840914 original size:13 final size:13
Alignment explanation
Indices: 1840896--1840922 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1840886 TACAATGAAC
1840896 ATGTATTGATACA
1 ATGTATTGATACA
1840909 ATGTATTGATACA
1 ATGTATTGATACA
1840922 A
1 A
1840923 AGCATAATGT
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:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (13 bp):
ATGTATTGATACA
Found at i:1843413 original size:13 final size:13
Alignment explanation
Indices: 1843395--1843430 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
1843385 TAGTAACCCT
1843395 TGTATCGATACAA
1 TGTATCGATACAA
1843408 TGTATCGATACAA
1 TGTATCGATACAA
*
1843421 TATATCGATA
1 TGTATCGATA
1843431 TAAAGAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1848131 original size:20 final size:20
Alignment explanation
Indices: 1848106--1848244 Score: 81
Period size: 20 Copynumber: 6.8 Consensus size: 20
1848096 GTTTGAAGCA
1848106 ATGTATCGATACAAT-T-CATC
1 ATGTATCGATACAATGTGC--C
1848126 ATGTATCGATACAATGTGCC
1 ATGTATCGATACAATGTGCC
**
1848146 ATGTATCGATACAAATAGTGGT
1 ATGTATCGATAC-AAT-GTGCC
* * * * **
1848168 AGGGTAGCTACTACCA-GTTTC
1 A-TGTATCGA-TACAATGTGCC
1848189 ATGTATCGATACAAT-TGTCC
1 ATGTATCGATACAATGTG-CC
**
1848209 ATGTATCGATACAATG-AAC
1 ATGTATCGATACAATGTGCC
*
1848228 ATGTATCGATGCAATGT
1 ATGTATCGATACAATGT
1848245 ATCGATACAA
Statistics
Matches: 91, Mismatches: 18, Indels: 20
0.71 0.14 0.16
Matches are distributed among these distances:
19 21 0.23
20 49 0.54
21 7 0.08
22 5 0.05
23 6 0.07
24 3 0.03
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (20 bp):
ATGTATCGATACAATGTGCC
Found at i:1848232 original size:19 final size:19
Alignment explanation
Indices: 1848188--1848243 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
1848178 CTACCAGTTT
**
1848188 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
1848208 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
1848227 CATGTATCGATGCAATG
1 CATGTATCGATACAATG
1848244 TATCGATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1849270 original size:5 final size:5
Alignment explanation
Indices: 1849260--1849300 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
1849250 CTTAAGCATG
*
1849260 TTCTT TTCTT TTC-T TT-TT TTCTT TTTTCT TTCTT TTCTT TT
1 TTCTT TTCTT TTCTT TTCTT TTCTT TTCT-T TTCTT TTCTT TT
1849301 TTTATTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
4 6 0.19
5 21 0.68
6 4 0.13
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
TTCTT
Found at i:1849281 original size:8 final size:8
Alignment explanation
Indices: 1849268--1849315 Score: 64
Period size: 8 Copynumber: 6.1 Consensus size: 8
1849258 TGTTCTTTTC
1849268 TTTTCTTT
1 TTTTCTTT
1849276 TTTTC-TT
1 TTTTCTTT
1849283 TTTTCTTT
1 TTTTCTTT
1849291 CTTTTCTTT
1 -TTTTCTTT
*
1849300 TTTTATTT
1 TTTTCTTT
1849308 TTTT-TTT
1 TTTTCTTT
1849315 T
1 T
1849316 GGAGAAAAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
7 11 0.30
8 18 0.49
9 8 0.22
ACGTcount: A:0.02, C:0.10, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTCTTT
Found at i:1849291 original size:24 final size:24
Alignment explanation
Indices: 1849264--1849310 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
1849254 AGCATGTTCT
*
1849264 TTTCTTTTCTTTTTTTCTTTTTTC
1 TTTCTTTTCTTTTTTTATTTTTTC
1849288 TTTCTTTTCTTTTTTTATTTTTT
1 TTTCTTTTCTTTTTTTATTTTTT
1849311 TTTTTGGAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (24 bp):
TTTCTTTTCTTTTTTTATTTTTTC
Found at i:1849293 original size:29 final size:29
Alignment explanation
Indices: 1849260--1849315 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
1849250 CTTAAGCATG
1849260 TTCTTTTCTTTTCTTT-TTTTCTTTTTTCT
1 TTCTTTTCTTTT-TTTATTTTCTTTTTTCT
*
1849289 TTCTTTTCTTTTTTTATTTTTTTTTTT
1 TTCTTTTCTTTTTTTATTTTCTTTTTT
1849316 GGAGAAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 3 0.12
29 22 0.88
ACGTcount: A:0.02, C:0.12, G:0.00, T:0.86
Consensus pattern (29 bp):
TTCTTTTCTTTTTTTATTTTCTTTTTTCT
Done.