Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008693.1 Hibiscus syriacus cultivar Beakdansim tig00111721_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2243253
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 10
Found at i:1570130 original size:55 final size:55
Alignment explanation
Indices: 1569883--1570275 Score: 470
Period size: 55 Copynumber: 7.2 Consensus size: 55
1569873 GATGTACATG
* * * * * *
1569883 TAGTGCCGATACGGTCATTCATAAACATATTATGAATTTCGTAGG-TTGCACACT
1 TAGTGCCTATACGGTCGTTCATCAACATATGATGAATTTCGTGGGTTTGCACACA
** * * *
1569937 TAGTGCCTATACGGTTATTCATCAATATATGATAAATTTTGT-GGTTTGCACACA
1 TAGTGCCTATACGGTCGTTCATCAACATATGATGAATTTCGTGGGTTTGCACACA
* * * *
1569991 TAGTACCTATACGGCCGGTCATCAACATATGATGAATTTCGTGGG-TTGCGCACA
1 TAGTGCCTATACGGTCGTTCATCAACATATGATGAATTTCGTGGGTTTGCACACA
* ** ** *
1570045 TAGCGCCTATACATTCAATCATTAACATATGATGAATTTCGTGGGTTTGCACACA
1 TAGTGCCTATACGGTCGTTCATCAACATATGATGAATTTCGTGGGTTTGCACACA
* * *
1570100 TAGTGCCTATACGGTCGTTCATCAATATATGATTAATTCCGTGGGTTTGCACACA
1 TAGTGCCTATACGGTCGTTCATCAACATATGATGAATTTCGTGGGTTTGCACACA
* ** *
1570155 TAGTGCCTATACGATCGTTCATCAACATATGATGAATTTTATGAGTTTGCACACA
1 TAGTGCCTATACGGTCGTTCATCAACATATGATGAATTTCGTGGGTTTGCACACA
* *
1570210 TAGTGCCTATACGGTCGTTCATCAACATATGATGAA-TTCTGCGGGTTTCCACACA
1 TAGTGCCTATACGGTCGTTCATCAACATATGATGAATTTC-GTGGGTTTGCACACA
*
1570265 TAGTTCCTATA
1 TAGTGCCTATA
1570276 GTATACTTAG
Statistics
Matches: 286, Mismatches: 49, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
53 2 0.01
54 124 0.43
55 160 0.56
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.34
Consensus pattern (55 bp):
TAGTGCCTATACGGTCGTTCATCAACATATGATGAATTTCGTGGGTTTGCACACA
Found at i:1571304 original size:3 final size:3
Alignment explanation
Indices: 1571296--1571327 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
1571286 GTGAACACGG
*
1571296 GAA GAA GAA GAA TAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1571328 GATAACTTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.00, G:0.31, T:0.03
Consensus pattern (3 bp):
GAA
Found at i:1573122 original size:21 final size:21
Alignment explanation
Indices: 1573098--1573143 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
1573088 GAACAATATT
1573098 GATATTGATGCAATTATTATC
1 GATATTGATGCAATTATTATC
1573119 GATATTGATGCAATTATTATC
1 GATATTGATGCAATTATTATC
1573140 GATA
1 GATA
1573144 CTAATGTGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.41
Consensus pattern (21 bp):
GATATTGATGCAATTATTATC
Found at i:1573487 original size:55 final size:55
Alignment explanation
Indices: 1573319--1573641 Score: 409
Period size: 55 Copynumber: 5.9 Consensus size: 55
1573309 TTTTGATATT
* * *
1573319 GTTCATCAACATATGATGAA-TTCCTTGGTTTGCACACACAGTGCCTATACGGTC
1 GTTCATCAACATATGATGAATTTCGTGGGTTTGCACACATAGTGCCTATACGGTC
* * *
1573373 GTTCTTCAACATATGATGAATTTTGTGGG-TTGCACACATAGTGCCTATACAGTC
1 GTTCATCAACATATGATGAATTTCGTGGGTTTGCACACATAGTGCCTATACGGTC
* * *
1573427 ATTCATTAACATATGATGAATTTCATGGGTTTGCACACATAGTGCCTATACGGTC
1 GTTCATCAACATATGATGAATTTCGTGGGTTTGCACACATAGTGCCTATACGGTC
* *
1573482 GTTCATCAACATATGATGAATTAT-GTGGGTTTGCACACATTGTTCCTATACGGTC
1 GTTCATCAACATATGATGAATT-TCGTGGGTTTGCACACATAGTGCCTATACGGTC
* * * * * *
1573537 ATTCATCAATATATGATGAATTTTGTGGGTTTGCACACATAATTCCTATACAGTC
1 GTTCATCAACATATGATGAATTTCGTGGGTTTGCACACATAGTGCCTATACGGTC
* ** * **
1573592 GTTCATCAACTTATGACAAATTCCGTGGGTTTGCACACACCGTGCCTATA
1 GTTCATCAACATATGATGAATTTCGTGGGTTTGCACACATAGTGCCTATA
1573642 GTACACTTAG
Statistics
Matches: 232, Mismatches: 33, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
54 67 0.29
55 164 0.71
56 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.34
Consensus pattern (55 bp):
GTTCATCAACATATGATGAATTTCGTGGGTTTGCACACATAGTGCCTATACGGTC
Found at i:1574725 original size:8 final size:8
Alignment explanation
Indices: 1574712--1574752 Score: 57
Period size: 8 Copynumber: 5.1 Consensus size: 8
1574702 TTGAACTTTC
1574712 CCCTTCTT
1 CCCTTCTT
1574720 CCCTTCTT
1 CCCTTCTT
1574728 CCCTTCTT
1 CCCTTCTT
*
1574736 CCCTGC-T
1 CCCTTCTT
1574743 CCTCTTCTT
1 CC-CTTCTT
1574752 C
1 C
1574753 AATCCCTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
7 3 0.10
8 24 0.83
9 2 0.07
ACGTcount: A:0.00, C:0.51, G:0.02, T:0.46
Consensus pattern (8 bp):
CCCTTCTT
Found at i:1578764 original size:54 final size:54
Alignment explanation
Indices: 1578701--1578980 Score: 362
Period size: 54 Copynumber: 5.2 Consensus size: 54
1578691 TTGTGTGTAC
*
1578701 TATCGGCACTATGTGTGCAACCCACGAAATTCATAATGAATTTATGAATGACCA
1 TATCGGCACTATGTGTGCAACCCACGAAATTCATAATGAGTTTATGAATGACCA
* * *
1578755 TATCGGCACTGTGTGTGCAACCCACGGAATTCATAATGAGTTTATGAATGACCG
1 TATCGGCACTATGTGTGCAACCCACGAAATTCATAATGAGTTTATGAATGACCA
** * * *
1578809 TATCGAAACTATGTGTGCAACCCATGAAATTCGTAATGAGTTTATGAATGATCA
1 TATCGGCACTATGTGTGCAACCCACGAAATTCATAATGAGTTTATGAATGACCA
* * * * * * *
1578863 TATTGACACTATGTGTGCAACCCACGGAATTCATAATGAGTTTGTGAATTATCG
1 TATCGGCACTATGTGTGCAACCCACGAAATTCATAATGAGTTTATGAATGACCA
* * * **
1578917 TATCGGCACTATGTGTGCAACCCATGAAATTTATAATGAGTTTGTGAATTTCCA
1 TATCGGCACTATGTGTGCAACCCACGAAATTCATAATGAGTTTATGAATGACCA
*
1578971 TATCAGCACT
1 TATCGGCACT
1578981 TAGGTGCAAT
Statistics
Matches: 197, Mismatches: 29, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 197 1.00
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.31
Consensus pattern (54 bp):
TATCGGCACTATGTGTGCAACCCACGAAATTCATAATGAGTTTATGAATGACCA
Found at i:1580179 original size:19 final size:20
Alignment explanation
Indices: 1580136--1580184 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
1580126 CTTAATAATA
* * *
1580136 GTATCGATACCTTACTCTTG
1 GTATCAATACCCTACTCTCG
1580156 GTATCAATACCCTACT-TCG
1 GTATCAATACCCTACTCTCG
1580175 GTATCAATAC
1 GTATCAATAC
1580185 TAATTCAATC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (20 bp):
GTATCAATACCCTACTCTCG
Found at i:1584124 original size:21 final size:20
Alignment explanation
Indices: 1584069--1584132 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 20
1584059 GATTATTTAC
1584069 ATTATTTTTTATAATATAATT
1 ATTATTTTTTA-AATATAATT
* *
1584090 ATTTTTTTTATAAATTTAATT
1 ATTATTTTT-TAAATATAATT
* *
1584111 AATTAATTTTTAAAAATAATT
1 -ATTATTTTTTAAATATAATT
1584132 A
1 A
1584133 CTCTTAATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
20 1 0.03
21 25 0.71
22 9 0.26
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
ATTATTTTTTAAATATAATT
Found at i:1588504 original size:21 final size:20
Alignment explanation
Indices: 1588468--1588518 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
1588458 CTATATAACA
*
1588468 TATATTATATTTTTAAAAAC
1 TATATAATATTTTTAAAAAC
*
1588488 TATATAATATGTTTTAAAAAT
1 TATATAATAT-TTTTAAAAAC
1588509 TATAT-ATATT
1 TATATAATATT
1588519 ATATATGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 1 0.04
20 13 0.46
21 14 0.50
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (20 bp):
TATATAATATTTTTAAAAAC
Found at i:1588571 original size:38 final size:38
Alignment explanation
Indices: 1588523--1588630 Score: 100
Period size: 38 Copynumber: 2.9 Consensus size: 38
1588513 TATATTATAT
*
1588523 ATGTTTTCAAAAACCGTTTTAAAAAACTATATACATAG
1 ATGTTTTCAAAAACCGTTTTAAAAAACTATATACATAC
* *
1588561 ATGTTTTCAAAATA-TGTTTTCAAAACAA-TAT-TATATAC
1 ATGTTTTCAAAA-ACCGTTTT-AAAA-AACTATATACATAC
* *
1588599 A--TTTTCAAAAACCATTTTTTAAAAACTATATA
1 ATGTTTTCAAAAACC-GTTTTAAAAAACTATATA
1588631 TTATATTTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
35 3 0.05
36 15 0.26
37 6 0.11
38 23 0.40
39 8 0.14
40 2 0.04
ACGTcount: A:0.44, C:0.12, G:0.05, T:0.39
Consensus pattern (38 bp):
ATGTTTTCAAAAACCGTTTTAAAAAACTATATACATAC
Found at i:1588579 original size:13 final size:13
Alignment explanation
Indices: 1588561--1588585 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1588551 ATATACATAG
1588561 ATGTTTTCAAAAT
1 ATGTTTTCAAAAT
1588574 ATGTTTTCAAAA
1 ATGTTTTCAAAA
1588586 CAATATTATA
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:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (13 bp):
ATGTTTTCAAAAT
Found at i:1588639 original size:36 final size:37
Alignment explanation
Indices: 1588511--1588721 Score: 136
Period size: 39 Copynumber: 5.6 Consensus size: 37
1588501 TTAAAAATTA
* *
1588511 TATATATTATATATGTTTTCAAAAACC-GTTTTAAAAAAC
1 TATATA-T-TATAT-TTTTCAAAAACCATTTTTTAAAAAC
* * * * *
1588550 TATATACATAGATGTTTTC-AAAA-TATGTTTTCAAAAC
1 TATATA-TTATAT-TTTTCAAAAACCATTTTTTAAAAAC
1588587 -A-ATATTATATACATTTTCAAAAACCATTTTTTAAAAAC
1 TATATATTATAT---TTTTCAAAAACCATTTTTTAAAAAC
** *
1588625 TATATATTATATTTTTTTCAAAAA-TTTTCTTTTAAAACC
1 TATATATTATA--TTTTTCAAAAACCATT-TTTTAAAAAC
*
1588664 TATATATTATATGTTTTC-AAAACCA-CTTTT-AAAAC
1 TATATATTATAT-TTTTCAAAAACCATTTTTTAAAAAC
1588699 T-TATATTATATATTTTCAAAAAC
1 TATATATTATAT-TTTTCAAAAAC
1588722 TATACTATAT
Statistics
Matches: 137, Mismatches: 22, Indels: 30
0.72 0.12 0.16
Matches are distributed among these distances:
34 19 0.14
35 13 0.09
36 10 0.07
37 21 0.15
38 28 0.20
39 37 0.27
40 8 0.06
42 1 0.01
ACGTcount: A:0.42, C:0.11, G:0.03, T:0.44
Consensus pattern (37 bp):
TATATATTATATTTTTCAAAAACCATTTTTTAAAAAC
Found at i:1588749 original size:24 final size:23
Alignment explanation
Indices: 1588694--1588750 Score: 80
Period size: 22 Copynumber: 2.5 Consensus size: 23
1588684 AACCACTTTT
* *
1588694 AAAACTTATATTATATATTTTCA
1 AAAACTTATACTATATATCTTCA
1588717 AAAAC-TATACTATATATCTTCA
1 AAAACTTATACTATATATCTTCA
1588739 AAAACTATATAC
1 AAAACT-TATAC
1588751 ATTGTATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
22 20 0.67
23 5 0.17
24 5 0.17
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.39
Consensus pattern (23 bp):
AAAACTTATACTATATATCTTCA
Found at i:1599603 original size:15 final size:15
Alignment explanation
Indices: 1599583--1599614 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1599573 GTAAGATAAA
1599583 AATAATAATCAAAAT
1 AATAATAATCAAAAT
*
1599598 AATAATAATGAAAAT
1 AATAATAATCAAAAT
1599613 AA
1 AA
1599615 AAAATTTCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (15 bp):
AATAATAATCAAAAT
Found at i:1600731 original size:20 final size:20
Alignment explanation
Indices: 1600694--1600737 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
1600684 AATCTCAATA
*
1600694 AAATAAATAAATAAAAATTT
1 AAATAAATAAATAAAAATCT
1600714 AAATAAATAAA-ATAAAATCT
1 AAATAAATAAATA-AAAATCT
1600734 AAAT
1 AAAT
1600738 TAAAAGTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (20 bp):
AAATAAATAAATAAAAATCT
Found at i:1600737 original size:16 final size:14
Alignment explanation
Indices: 1600670--1600731 Score: 54
Period size: 16 Copynumber: 4.2 Consensus size: 14
1600660 TTAGGGTTAG
*
1600670 AATAAAGAAAATAA
1 AATAAATAAAATAA
*
1600684 AATCTCAATAAAAT-A
1 AA--TAAATAAAATAA
*
1600699 AATAAATAAAAATTTA
1 AATAAAT-AAAA-TAA
1600715 AATAAATAAAATAA
1 AATAAATAAAATAA
1600729 AAT
1 AAT
1600732 CTAAATTAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
13 4 0.10
14 11 0.28
15 8 0.21
16 16 0.41
ACGTcount: A:0.71, C:0.03, G:0.02, T:0.24
Consensus pattern (14 bp):
AATAAATAAAATAA
Found at i:1600740 original size:25 final size:25
Alignment explanation
Indices: 1600670--1600741 Score: 73
Period size: 25 Copynumber: 3.1 Consensus size: 25
1600660 TTAGGGTTAG
* * *
1600670 AATAAAGAAAATAAAATCTCAATAA
1 AATAAATAAAATAAAATCTAAATTA
*
1600695 AATAAAT-AAAT-AAA---AATTTA
1 AATAAATAAAATAAAATCTAAATTA
1600715 AATAAATAAAATAAAATCTAAATTA
1 AATAAATAAAATAAAATCTAAATTA
1600740 AA
1 AA
1600742 AGTATTAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
20 10 0.27
21 4 0.11
22 3 0.08
23 3 0.08
24 4 0.11
25 13 0.35
ACGTcount: A:0.69, C:0.04, G:0.01, T:0.25
Consensus pattern (25 bp):
AATAAATAAAATAAAATCTAAATTA
Found at i:1602085 original size:22 final size:22
Alignment explanation
Indices: 1602056--1602115 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
1602046 AAAACTATAG
1602056 AACT-TATATTATATTTTCAAA
1 AACTATATATTATATTTTCAAA
* *
1602077 AACTATATAATATGTTTTCAAA
1 AACTATATATTATATTTTCAAA
1602099 AATTCTATATATTATAT
1 AA--CTATATATTATAT
1602116 ATGGTTTCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 4 0.12
22 17 0.53
24 11 0.34
ACGTcount: A:0.43, C:0.08, G:0.02, T:0.47
Consensus pattern (22 bp):
AACTATATATTATATTTTCAAA
Found at i:1602123 original size:28 final size:28
Alignment explanation
Indices: 1602086--1602156 Score: 124
Period size: 28 Copynumber: 2.5 Consensus size: 28
1602076 AAACTATATA
1602086 ATATGTTTTCAAAAATTCTATATATTAT
1 ATATGTTTTCAAAAATTCTATATATTAT
* *
1602114 ATATGGTTTCAAAAATTCTTTATATTAT
1 ATATGTTTTCAAAAATTCTATATATTAT
1602142 ATATGTTTTCAAAAA
1 ATATGTTTTCAAAAA
1602157 CCGTTTTAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.39, C:0.07, G:0.06, T:0.48
Consensus pattern (28 bp):
ATATGTTTTCAAAAATTCTATATATTAT
Found at i:1602171 original size:29 final size:27
Alignment explanation
Indices: 1602086--1602184 Score: 101
Period size: 28 Copynumber: 3.5 Consensus size: 27
1602076 AAACTATATA
*
1602086 ATATGTTTTCAAAAATTCTATATATTAT
1 ATATGTTTTCAAAAATTTTA-ATATTAT
* *
1602114 ATATGGTTTCAAAAATTCTTTATATTAT
1 ATATGTTTTCAAAAATT-TTAATATTAT
1602142 ATATGTTTTCAAAAACCGTTTTAATA-TAT
1 ATATGTTTTCAAAAA---TTTTAATATTAT
* *
1602171 ATATATATTCAAAA
1 ATATGTTTTCAAAA
1602185 TATGTTTCCA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
28 37 0.62
29 16 0.27
30 5 0.08
31 2 0.03
ACGTcount: A:0.40, C:0.08, G:0.05, T:0.46
Consensus pattern (27 bp):
ATATGTTTTCAAAAATTTTAATATTAT
Found at i:1602276 original size:75 final size:75
Alignment explanation
Indices: 1602194--1602401 Score: 264
Period size: 75 Copynumber: 2.8 Consensus size: 75
1602184 ATATGTTTCC
*
1602194 AAAACTATATTATATACGTTTTCAAAAAACATTTTTAAAAATTATATATTATATGTTTTC-AAAA
1 AAAACTATATTATATATGTTTTC-AAAAACATTTTTAAAAATTATATATTATATGTTTTCAAAAA
*
1602258 ACCGTC-TTTTA
65 ACC-CCATTTTA
* *
1602269 AAAACTATA-TATTATATGTTTTCAAAACCATTTTT-AAAATCTATATATTATACGTTTTCAAAA
1 AAAACTATATTA-TATATGTTTTCAAAAACATTTTTAAAAAT-TATATATTATATGTTTTCAAAA
1602332 AACCCCATTTTA
64 AACCCCATTTTA
* * * *
1602344 AAAACTACATGT-TATATGTTTTTAAAATCATTTTTAAAAACTATATATTATATGTTTT
1 AAAACTATAT-TATATATGTTTTCAAAAACATTTTTAAAAATTATATATTATATGTTTT
1602402 TTAAAAATAT
Statistics
Matches: 117, Mismatches: 9, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
73 5 0.04
74 31 0.26
75 76 0.65
76 4 0.03
77 1 0.01
ACGTcount: A:0.41, C:0.11, G:0.04, T:0.44
Consensus pattern (75 bp):
AAAACTATATTATATATGTTTTCAAAAACATTTTTAAAAATTATATATTATATGTTTTCAAAAAA
CCCCATTTTA
Found at i:1602278 original size:36 final size:36
Alignment explanation
Indices: 1602194--1602442 Score: 213
Period size: 36 Copynumber: 6.8 Consensus size: 36
1602184 ATATGTTTCC
*
1602194 AAAAC-TATATTATATACGTTTTCAAAAAACATTTTTA
1 AAAACATATATTATAT--GTTTTCAAAAACCATTTTTA
* *
1602231 AAAATTATATATTATATGTTTTCAAAAACCGTCTTTTA
1 AAAA-CATATATTATATGTTTTCAAAAACCAT-TTTTA
1602269 AAAACTATATATTATATGTTTTC-AAAACCATTTTTA
1 AAAAC-ATATATTATATGTTTTCAAAAACCATTTTTA
* *
1602305 AAATCTATATATTATACGTTTTCAAAAAACCCCA-TTTTA
1 AAAAC-ATATATTATATGTTTTC-AAAAA--CCATTTTTA
* * * *
1602344 AAAACTACATGTTATATGTTTT-TAAAATCATTTTTA
1 AAAAC-ATATATTATATGTTTTCAAAAACCATTTTTA
* * **
1602380 AAAACTATATATTATATGTTTTTTAAAAA-TATTTTCC
1 AAAAC-ATATATTATATG-TTTTCAAAAACCATTTTTA
* *
1602417 AAAAC-TATATTATATATCTTCAAAAA
1 AAAACATATATTATATGTTTTCAAAAA
1602443 TTATATACAT
Statistics
Matches: 179, Mismatches: 22, Indels: 25
0.79 0.10 0.11
Matches are distributed among these distances:
34 8 0.04
35 12 0.07
36 47 0.26
37 42 0.23
38 34 0.19
39 33 0.18
40 3 0.02
ACGTcount: A:0.43, C:0.11, G:0.03, T:0.43
Consensus pattern (36 bp):
AAAACATATATTATATGTTTTCAAAAACCATTTTTA
Found at i:1602321 original size:111 final size:108
Alignment explanation
Indices: 1602194--1602432 Score: 293
Period size: 111 Copynumber: 2.1 Consensus size: 108
1602184 ATATGTTTCC
* *
1602194 AAAACTATATTATATACGTTTTCAAAAAA-CATTTTTAAAAATTATATATTATATGTTTTCAAAA
1 AAAACTATATTATATACGTTTTCAAAAAACCA-TTTTAAAAACTACATATTATATGTTTT-AAAA
*
1602258 ACCGTCTTTTAAAAACTATATATTATATGTTTTCAAAACCATTTTT
64 ACCAT-TTTTAAAAACTATATATTATATGTTTTCAAAACCATTTTT
* *
1602304 AAAATCTATA-TATTATACGTTTTCAAAAAACCCCATTTTAAAAACTACATGTTATATGTTTTTA
1 AAAA-CTATATTA-TATACGTTTTCAAAAAA--CCATTTTAAAAACTACATATTATATGTTTTAA
* * ** *
1602368 AAATCATTTTTAAAAACTATATATTATATGTTTTTTAAAAATATTTTCC
62 AAACCATTTTTAAAAACTATATATTATATG-TTTTCAAAACCATTTT-T
1602417 AAAACTATATTATATA
1 AAAACTATATTATATA
1602433 TCTTCAAAAA
Statistics
Matches: 111, Mismatches: 10, Indels: 14
0.82 0.07 0.10
Matches are distributed among these distances:
110 6 0.05
111 45 0.41
112 28 0.25
113 30 0.27
114 2 0.02
ACGTcount: A:0.42, C:0.11, G:0.03, T:0.44
Consensus pattern (108 bp):
AAAACTATATTATATACGTTTTCAAAAAACCATTTTAAAAACTACATATTATATGTTTTAAAAAC
CATTTTTAAAAACTATATATTATATGTTTTCAAAACCATTTTT
Found at i:1602433 original size:37 final size:36
Alignment explanation
Indices: 1602181--1602426 Score: 176
Period size: 37 Copynumber: 6.6 Consensus size: 36
1602171 ATATATATTC
* * *
1602181 AAAAT-ATGTTTCCAAAACTATAT-TATATACGTTTTCA
1 AAAATCAT-TTTCAAAAACTATATAT-TATATGTTTT-T
* * * *
1602218 AAAAACATTTTTAAAAATTATATATTATATGTTTTCA
1 AAAATCATTTTCAAAAACTATATATTATATGTTTT-T
* * * *
1602255 AAAACCGTCTTTTAAAAACTATATATTATATGTTTTC
1 AAAATCAT-TTTCAAAAACTATATATTATATGTTTTT
* * * * *
1602292 AAAACCATTTTTAAAATCTATATATTATACGTTTTCAA
1 AAAATCATTTTCAAAAACTATATATTATATGTTTT--T
* * *
1602330 AAAACCCCATTTT-AAAAACTACATGTTATATGTTTTT
1 AAAA--TCATTTTCAAAAACTATATATTATATGTTTTT
*
1602367 AAAATCATTTTTAAAAACTATATATTATATGTTTTTT
1 AAAATCATTTTCAAAAACTATATATTATATG-TTTTT
*
1602404 AAAAAT-ATTTTCCAAAACTATAT
1 -AAAATCATTTTCAAAAACTATAT
1602427 TATATATCTT
Statistics
Matches: 176, Mismatches: 23, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
35 6 0.03
36 42 0.24
37 64 0.36
38 38 0.22
39 19 0.11
40 7 0.04
ACGTcount: A:0.42, C:0.11, G:0.04, T:0.43
Consensus pattern (36 bp):
AAAATCATTTTCAAAAACTATATATTATATGTTTTT
Found at i:1609103 original size:149 final size:149
Alignment explanation
Indices: 1608933--1609254 Score: 371
Period size: 149 Copynumber: 2.2 Consensus size: 149
1608923 ATGTTTTTAG
* * * * *
1608933 GATTATTCATAAAAAACTAGTATCCTTTTTATATTTAAA-TAATTTTTGAATATACATATATATT
1 GATTATTCGTACAAAA-TAGTATCATTTTTATATTCAAATTAATTTTTGAATATACAAATATATT
* * * *
1608997 ATTTGCTAAAAACATTTAAGGCGATATT-TTTCTATAA-GAGAGATCTATCGAGACACCTATTGA
65 ATTTGCT-AAAACAATTAAGACAATATTATTT-TATAAGGAGA-ATCTATCGAAACACCTATTGA
**
1609060 CTCACAAGAAATGTGTTTTTGAA
127 CTCACAAGAAATGTGTTTCCGAA
* * * * *
1609083 GATTGTTCGTACAAAATAGTATTATTTTTATATTCAAATTGATTTTTTAATATACAAATATATTG
1 GATTATTCGTACAAAATAGTATCATTTTTATATTCAAATTAATTTTTGAATATACAAATATATTA
* * ** *
1609148 TTTGCTAAAACAATTAAGACAATATTATTTTGTAAGGAGAATCTATGGAAATGCCTCTTGACTCA
66 TTTGCTAAAACAATTAAGACAATATTATTTTATAAGGAGAATCTATCGAAACACCTATTGACTCA
* **
1609213 CGAGAAATGTGTTTCCGGT
131 CAAGAAATGTGTTTCCGAA
1609232 GATTATTCGTACAAAATAGTATC
1 GATTATTCGTACAAAATAGTATC
1609255 TAATATAAGC
Statistics
Matches: 143, Mismatches: 26, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
149 95 0.66
150 48 0.34
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (149 bp):
GATTATTCGTACAAAATAGTATCATTTTTATATTCAAATTAATTTTTGAATATACAAATATATTA
TTTGCTAAAACAATTAAGACAATATTATTTTATAAGGAGAATCTATCGAAACACCTATTGACTCA
CAAGAAATGTGTTTCCGAA
Found at i:1611806 original size:2 final size:2
Alignment explanation
Indices: 1611799--1611834 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1611789 ATGATTTTGA
1611799 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1611835 GTGTGTGCGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1623580 original size:39 final size:39
Alignment explanation
Indices: 1623378--1623867 Score: 335
Period size: 39 Copynumber: 12.8 Consensus size: 39
1623368 TATCTTAAGT
* * *
1623378 GAGACAAAATC-AGGGTTTTAAGGGAAACAAATCTCAAGG
1 GAGACAAAATCTA-TGTTTCAAGGGAAACAAGTCTCAAGG
* * *
1623417 GAG--ATAATTTATGTTTCAAGGGAAACAAATCTCAAGG
1 GAGACAAAATCTATGTTTCAAGGGAAACAAGTCTCAAGG
* * *
1623454 GAGA-AAAAGTTTGTGTTT-AAGGGAAACATA-TATCAAGG
1 GAGACAAAA-TCTATGTTTCAAGGGAAACA-AGTCTCAAGG
* * * * * ** * *
1623492 GAGACGAAATCTTTCTTTAAATGGAATTAGGTTTCAAAGG
1 GAGACAAAATCTATGTTTCAAGGGAAACAAGTCTC-AAGG
* * **
1623532 TAGAC-AAATCCT-TGTTTAAAAAGAAACAAGTCTCAAGG
1 GAGACAAAAT-CTATGTTTCAAGGGAAACAAGTCTCAAGG
* * *
1623570 GAGACAAAATCTATGTTTCAAGGGAAACATGTCCCAAATG
1 GAGACAAAATCTATGTTTCAAGGGAAACAAGTCTC-AAGG
*
1623610 GAGACAAAATCTATGTTTCAAGGGAAACGAGTCTCAAGG
1 GAGACAAAATCTATGTTTCAAGGGAAACAAGTCTCAAGG
* * * * *
1623649 GATACAAAATTTGTGTTTCAAGGGAAAAAAACTCTCAAGG
1 GAGACAAAATCTATGTTTCAAGGG-AAACAAGTCTCAAGG
* * * * *
1623689 GAGAAAAAATATGTGTTTCAAGGTAAACAAGTATCAAGG
1 GAGACAAAATCTATGTTTCAAGGGAAACAAGTCTCAAGG
* ** *
1623728 GAGAC--AATCTGTGTTTCAAGGGAATTAAGTCTCTAGG
1 GAGACAAAATCTATGTTTCAAGGGAAACAAGTCTCAAGG
* * * * *
1623765 GAGACAAAAT-TTTGTTTCAA-GGAAA-ATGTTTGAAGA
1 GAGACAAAATCTATGTTTCAAGGGAAACAAGTCTCAAGG
* * * * *
1623801 GATAAAAAATATGTGTTTCAAGGGAAAGAAGTCTCAAGG
1 GAGACAAAATCTATGTTTCAAGGGAAACAAGTCTCAAGG
* * *
1623840 GAGA-AAAA-ATGTGTTTCAAGGGAGACAA
1 GAGACAAAATCTATGTTTCAAGGGAAACAA
1623868 AATTTGTGTT
Statistics
Matches: 361, Mismatches: 72, Indels: 38
0.77 0.15 0.08
Matches are distributed among these distances:
36 14 0.04
37 93 0.26
38 59 0.16
39 118 0.33
40 77 0.21
ACGTcount: A:0.41, C:0.11, G:0.23, T:0.25
Consensus pattern (39 bp):
GAGACAAAATCTATGTTTCAAGGGAAACAAGTCTCAAGG
Found at i:1623619 original size:40 final size:39
Alignment explanation
Indices: 1623554--1623786 Score: 186
Period size: 40 Copynumber: 6.0 Consensus size: 39
1623544 TGTTTAAAAA
* *
1623554 GAAACAAGTCTCAAGGGAGACAAAATCTATGTTTCAAGG
1 GAAACGAGTCCCAAGGGAGACAAAATCTATGTTTCAAGG
*
1623593 GAAAC-ATGTCCCAAATGGAGACAAAATCTATGTTTCAAGG
1 GAAACGA-GTCCC-AAGGGAGACAAAATCTATGTTTCAAGG
* * * *
1623633 GAAACGAGTCTCAAGGGATACAAAATTTGTGTTTCAAGG
1 GAAACGAGTCCCAAGGGAGACAAAATCTATGTTTCAAGG
** * * * * *
1623672 GAAAAAAACTCTCAAGGGAGAAAAAATATGTGTTTCAAGG
1 G-AAACGAGTCCCAAGGGAGACAAAATCTATGTTTCAAGG
* * ** *
1623712 TAAACAAGTATCAAGGGAGAC--AATCTGTGTTTCAAGG
1 GAAACGAGTCCCAAGGGAGACAAAATCTATGTTTCAAGG
*** * * *
1623749 GAATTAAGTCTCTAGGGAGACAAAAT-TTTGTTTCAAGG
1 GAAACGAGTCCCAAGGGAGACAAAATCTATGTTTCAAGG
1623787 AAAATGTTTG
Statistics
Matches: 163, Mismatches: 25, Indels: 13
0.81 0.12 0.06
Matches are distributed among these distances:
37 31 0.19
38 12 0.07
39 52 0.32
40 67 0.41
41 1 0.01
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.24
Consensus pattern (39 bp):
GAAACGAGTCCCAAGGGAGACAAAATCTATGTTTCAAGG
Found at i:1623647 original size:79 final size:78
Alignment explanation
Indices: 1623554--1623867 Score: 264
Period size: 79 Copynumber: 4.1 Consensus size: 78
1623544 TGTTTAAAAA
* * ** * *
1623554 GAAACAAGTCTCAAGGGAGACAAAATCTATGTTTCAAGGGAAACATGTCCCAAATGGAGACAAAA
1 GAAACAAGTCTCAAGGGAGACAAAATCTGTGTTTCAAGGGAAAAAACTCCC-AAGGGAGAAAAAA
*
1623619 TCTATGTTTCAAGG
65 TATATGTTTCAAGG
* * * *
1623633 GAAACGAGTCTCAAGGGATACAAAATTTGTGTTTCAAGGGAAAAAAACTCTCAAGGGAGAAAAAA
1 GAAACAAGTCTCAAGGGAGACAAAATCTGTGTTTCAAGGG-AAAAAACTCCCAAGGGAGAAAAAA
*
1623698 TATGTGTTTCAAGG
65 TATATGTTTCAAGG
* * ** * * * *
1623712 TAAACAAGTATCAAGGGAGAC--AATCTGTGTTTCAAGGGAATTAAGTCTCTAGGGAGACAAAAT
1 GAAACAAGTCTCAAGGGAGACAAAATCTGTGTTTCAAGGGAAAAAACTCCCAAGGGAGAAAAAAT
*
1623775 -TTTGTTTCAA-G
66 ATATGTTTCAAGG
* * * * * * * * * *
1623786 GAAA-ATGTTTGAAGAGATAAAAAATATGTGTTTCAAGGGAAAGAAGTCTCAAGGGAG-AAAAA-
1 GAAACAAGTCTCAAGGGAGACAAAATCTGTGTTTCAAGGGAAAAAACTCCCAAGGGAGAAAAAAT
*
1623848 ATGTGTTTCAAGG
66 ATATGTTTCAAGG
*
1623861 GAGACAA
1 GAAACAA
1623868 AATTTGTGTT
Statistics
Matches: 191, Mismatches: 38, Indels: 15
0.78 0.16 0.06
Matches are distributed among these distances:
73 10 0.05
74 17 0.09
75 44 0.23
76 21 0.11
77 16 0.08
79 76 0.40
80 7 0.04
ACGTcount: A:0.41, C:0.11, G:0.24, T:0.24
Consensus pattern (78 bp):
GAAACAAGTCTCAAGGGAGACAAAATCTGTGTTTCAAGGGAAAAAACTCCCAAGGGAGAAAAAAT
ATATGTTTCAAGG
Found at i:1623853 original size:112 final size:115
Alignment explanation
Indices: 1623392--1623867 Score: 324
Period size: 116 Copynumber: 4.1 Consensus size: 115
1623382 CAAAATCAGG
* * * * *
1623392 GTTTTAAGGGAAACAAATCTCAAGGGAG--ATAATTTATGTTTCAAGGGAAACAAA-TCTCAAGG
1 GTTTCAAGGGAAACAAGTCTCAAGGGAGACAAAATTTGTGTTTCAAGGGAAA-AAACTCTCAAGA
* * ** *
1623454 GAGAAAAAGTTTGTGTTT-AAGGGAAACATA-TATCAAGGGAGACGAAATCTTT
65 GAGAAAAAATATGTGTTTCAAGGGAAACA-AGTATCAAGGGAGA--AAAAATGT
* * * ** * * * * * ** * *
1623506 CTTTAAATGGAATTAGGTTTCAAAGGTAGAC-AAATCCT-TGTTTAAAAAGAAACAAGTCTCAAG
1 GTTTCAAGGGAAACAAGTCTC-AAGGGAGACAAAAT-TTGTGTTTCAAGGGAAAAAACTCTCAAG
* * * * * ** * * *
1623569 GGAGACAAAATCTATGTTTCAAGGGAAACATGTCCCAAATGGAGACAAAATCTAT
64 AGAGAAAAAATATGTGTTTCAAGGGAAACAAGTATC-AAGGGAGA-AAAA-ATGT
* * *
1623624 GTTTCAAGGGAAACGAGTCTCAAGGGATACAAAATTTGTGTTTCAAGGGAAAAAAACTCTCAAGG
1 GTTTCAAGGGAAACAAGTCTCAAGGGAGACAAAATTTGTGTTTCAAGGG-AAAAAACTCTCAAGA
* * **
1623689 GAGAAAAAATATGTGTTTCAAGGTAAACAAGTATCAAGGGAGACAATCTGT
65 GAGAAAAAATATGTGTTTCAAGGGAAACAAGTATCAAGGGAGAAAAAATGT
** * ** * *
1623740 GTTTCAAGGGAATTAAGTCTCTAGGGAGACAAAATTT-TGTTTCAA-GG-AAAATGTTTGAAGAG
1 GTTTCAAGGGAAACAAGTCTCAAGGGAGACAAAATTTGTGTTTCAAGGGAAAAAACTCTCAAGAG
* * *
1623802 ATAAAAAATATGTGTTTCAAGGGAAAGAAGTCTCAAGGGAGAAAAAATGT
66 AGAAAAAATATGTGTTTCAAGGGAAACAAGTATCAAGGGAGAAAAAATGT
*
1623852 GTTTCAAGGGAGACAA
1 GTTTCAAGGGAAACAA
1623868 AATTTGTGTT
Statistics
Matches: 277, Mismatches: 73, Indels: 26
0.74 0.19 0.07
Matches are distributed among these distances:
112 66 0.24
114 15 0.05
115 16 0.06
116 71 0.26
117 26 0.09
118 42 0.15
119 41 0.15
ACGTcount: A:0.41, C:0.11, G:0.23, T:0.25
Consensus pattern (115 bp):
GTTTCAAGGGAAACAAGTCTCAAGGGAGACAAAATTTGTGTTTCAAGGGAAAAAACTCTCAAGAG
AGAAAAAATATGTGTTTCAAGGGAAACAAGTATCAAGGGAGAAAAAATGT
Found at i:1623858 original size:21 final size:23
Alignment explanation
Indices: 1623834--1623883 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
1623824 GAAAGAAGTC
1623834 TCAAGGGAGA-AAAA-ATGTGTT
1 TCAAGGGAGACAAAATATGTGTT
*
1623855 TCAAGGGAGACAAAATTTGTGTT
1 TCAAGGGAGACAAAATATGTGTT
1623878 TCAAGG
1 TCAAGG
1623884 AAAACATGCC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 10 0.38
22 4 0.15
23 12 0.46
ACGTcount: A:0.38, C:0.08, G:0.28, T:0.26
Consensus pattern (23 bp):
TCAAGGGAGACAAAATATGTGTT
Found at i:1623870 original size:60 final size:62
Alignment explanation
Indices: 1623806--1623924 Score: 170
Period size: 60 Copynumber: 2.0 Consensus size: 62
1623796 GAAGAGATAA
* * * *
1623806 AAAATATGTGTTTCAAGGGAAAGAAGTCTCAAGGGAGA-AAAA-ATGTGTTTCAAGGGAGAC
1 AAAATATGTGTTTCAAGGAAAACAAGCCTCAAGAGAGACAAAATATGTGTTTCAAGGGAGAC
* *
1623866 AAAATTTGTGTTTCAAGGAAAACATGCCTCAAGAGAGACAAAATATGTGTTTCAAGGGA
1 AAAATATGTGTTTCAAGGAAAACAAGCCTCAAGAGAGACAAAATATGTGTTTCAAGGGA
1623925 CACATGTCTC
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
60 32 0.63
61 4 0.08
62 15 0.29
ACGTcount: A:0.41, C:0.10, G:0.25, T:0.24
Consensus pattern (62 bp):
AAAATATGTGTTTCAAGGAAAACAAGCCTCAAGAGAGACAAAATATGTGTTTCAAGGGAGAC
Found at i:1623904 original size:39 final size:38
Alignment explanation
Indices: 1623855--1624116 Score: 208
Period size: 39 Copynumber: 6.8 Consensus size: 38
1623845 AAAATGTGTT
* *
1623855 TCAAGGGAGACAAAATTTGTGTTTCAAGGAAAACATGCC
1 TCAAGAGAGACAAAATTTGTGTTTCAAGG-AAACATGTC
* *
1623894 TCAAGAGAGACAAAATATGTGTTTCAAGGGACACATGTC
1 TCAAGAGAGACAAAATTTGTGTTTCAA-GGAAACATGTC
* * ** *
1623933 TCAAGGGAGACAAAATCTT-TGTTTGAAAGGAAACACATT
1 TCAAGAGAGACAAAAT-TTGTGTTT-CAAGGAAACATGTC
* * * * * *
1623972 TTAAGAAAGATAAAATCTATGTTTCAAGTGAAA-TTGGTC
1 TCAAGAGAGACAAAATTTGTGTTTCAAG-GAAACAT-GTC
* *
1624011 TCAA-AGGAGATAAAATCT-TGTTTCAAAGGAAACATGTC
1 TCAAGA-GAGACAAAATTTGTGTTTC-AAGGAAACATGTC
* *
1624049 TAAAGGGAGACAAAATTTGTGTTTCAAGGGAAACATGTC
1 TCAAGAGAGACAAAATTTGTGTTTCAA-GGAAACATGTC
* * * *
1624088 TTAAGTGAGAAAAAAATTGTGTTTCAAGG
1 TCAAGAGAGACAAAATTTGTGTTTCAAGG
1624117 GAAGCAAAAT
Statistics
Matches: 179, Mismatches: 32, Indels: 25
0.76 0.14 0.11
Matches are distributed among these distances:
38 35 0.20
39 139 0.78
40 5 0.03
ACGTcount: A:0.40, C:0.11, G:0.22, T:0.27
Consensus pattern (38 bp):
TCAAGAGAGACAAAATTTGTGTTTCAAGGAAACATGTC
Found at i:1623934 original size:99 final size:96
Alignment explanation
Indices: 1623762--1623948 Score: 266
Period size: 99 Copynumber: 1.9 Consensus size: 96
1623752 TTAAGTCTCT
** * *
1623762 AGGGAGACAAAATTTTGTTTCAAGGAAAATGTTTGAAGAGATAAAAAATATGTGTTTCAAGGGAA
1 AGGGAGACAAAATTTTGTTTCAAGGAAAATGCCTCAAGAGAGAAAAAATATGTGTTTCAAGGGAA
*
1623827 AGAAGTCTCAAGGGAGAAAAAATGTGTTTCA
66 ACAAGTCTCAAGGGAGAAAAAATGTGTTTCA
*
1623858 AGGGAGACAAAATTTGTGTTTCAAGGAAAACATGCCTCAAGAGAGACAAAATATGTGTTTCAAGG
1 AGGGAGACAAAATTT-TGTTTCAAGG-AAA-ATGCCTCAAGAGAGAAAAAATATGTGTTTCAAGG
* * *
1623923 GACACATGTCTCAAGGGAGACAAAAT
63 GAAACAAGTCTCAAGGGAGAAAAAAT
1623949 CTTTGTTTGA
Statistics
Matches: 79, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
96 15 0.19
97 10 0.13
98 3 0.04
99 51 0.65
ACGTcount: A:0.42, C:0.10, G:0.25, T:0.24
Consensus pattern (96 bp):
AGGGAGACAAAATTTTGTTTCAAGGAAAATGCCTCAAGAGAGAAAAAATATGTGTTTCAAGGGAA
ACAAGTCTCAAGGGAGAAAAAATGTGTTTCA
Found at i:1623945 original size:78 final size:75
Alignment explanation
Indices: 1623855--1624116 Score: 233
Period size: 78 Copynumber: 3.4 Consensus size: 75
1623845 AAAATGTGTT
*
1623855 TCAAGGGAGACAAAATTTGTGTTTCAAGGAAAACATGCCTCAAGAGAGACAAAATATGTGTTTCA
1 TCAAGGGAGACAAAATTT-TGTTTCAAGGAAAACATG-CTAAAGAGAGACAAAATATGTGTTTCA
1623920 AGGGACACATGTC
64 AGGGA-ACATGTC
* * * * * * *
1623933 TCAAGGGAGACAAAATCTTTGTTTGAAAGGAAACACAT-TTTAAGAAAGATAAAATCTATGTTTC
1 TCAAGGGAGACAAAAT-TTTGTTT-CAAGGAAA-ACATGCTAAAGAGAGACAAAATATGTGTTTC
*
1623997 AAGTGAA-ATTGGTC
63 AAGGGAACA-T-GTC
* * * * *
1624011 TCAAAGGAGATAAAATCTTGTTTCAAAGG-AAACATGTCTAAAGGGAGACAAAATTTGTGTTTCA
1 TCAAGGGAGACAAAATTTTGTTTC-AAGGAAAACATG-CTAAAGAGAGACAAAATATGTGTTTCA
1624075 AGGGAAACATGTC
64 AGGG-AACATGTC
* * * *
1624088 TTAAGTGAGAAAAAAATTGTGTTTCAAGG
1 TCAAGGGAG-ACAAAATTTTGTTTCAAGG
1624117 GAAGCAAAAT
Statistics
Matches: 147, Mismatches: 26, Indels: 23
0.75 0.13 0.12
Matches are distributed among these distances:
75 4 0.03
76 3 0.02
77 48 0.33
78 78 0.53
79 10 0.07
80 4 0.03
ACGTcount: A:0.40, C:0.11, G:0.22, T:0.27
Consensus pattern (75 bp):
TCAAGGGAGACAAAATTTTGTTTCAAGGAAAACATGCTAAAGAGAGACAAAATATGTGTTTCAAG
GGAACATGTC
Found at i:1630086 original size:21 final size:21
Alignment explanation
Indices: 1630044--1630086 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
1630034 ATTAATTTCT
* *
1630044 TTTCAGCTAGTTTTAGCTCCC
1 TTTCAGCTAGCTTCAGCTCCC
1630065 TTTCAGCTA-CTTCAGCTACCC
1 TTTCAGCTAGCTTCAGCT-CCC
1630086 T
1 T
1630087 CAAACTAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.16, C:0.33, G:0.12, T:0.40
Consensus pattern (21 bp):
TTTCAGCTAGCTTCAGCTCCC
Found at i:1638149 original size:23 final size:26
Alignment explanation
Indices: 1638122--1638172 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
1638112 CCGATATATC
1638122 CACCGTCC-AC-CTTA-CTTTATCCT
1 CACCGTCCAACTCTTATCTTTATCCT
*
1638145 CACCGTCCAACTTTTATCTTTATCCT
1 CACCGTCCAACTCTTATCTTTATCCT
1638171 CA
1 CA
1638173 TCTTTTACTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 8 0.33
24 2 0.08
25 3 0.12
26 11 0.46
ACGTcount: A:0.20, C:0.39, G:0.04, T:0.37
Consensus pattern (26 bp):
CACCGTCCAACTCTTATCTTTATCCT
Found at i:1639353 original size:56 final size:56
Alignment explanation
Indices: 1639188--1639726 Score: 749
Period size: 56 Copynumber: 9.6 Consensus size: 56
1639178 ACCAATCCGA
* * *
1639188 AAATTCATAAACTTATTATGAATTTCTT-AGATTTGCACACATAGTGCCAATACAA
1 AAATTCATAAACTTATTATGAATTTCTTAAGTTTTGCACACACAGTGCCAATACAG
* * * *
1639243 AAATTCATAAACTTATTATGAATTTTCTTAAGTTTTACACACATAGTGCTAATACAA
1 AAATTCATAAACTTATTATGAA-TTTCTTAAGTTTTGCACACACAGTGCCAATACAG
* *
1639300 AAATTCATAAACTTATTATGAATTTCTTAAGTTTTGCACACATAGTGCCAATACGG
1 AAATTCATAAACTTATTATGAATTTCTTAAGTTTTGCACACACAGTGCCAATACAG
* *
1639356 AAATTCATAAACTTATTATGAATTTCTTAAGCTTTGCACACACAGTGCCAATACGG
1 AAATTCATAAACTTATTATGAATTTCTTAAGTTTTGCACACACAGTGCCAATACAG
* * * *
1639412 AAAGTCACAAACTTATTATGAATTTCTTAAGTTTTGCATACACAGTGCCAATACGG
1 AAATTCATAAACTTATTATGAATTTCTTAAGTTTTGCACACACAGTGCCAATACAG
* * * * *
1639468 AGATTGATAAACTTATTATGAATTTCTTAAGCTTTACACACACAGTGCCAATACTG
1 AAATTCATAAACTTATTATGAATTTCTTAAGTTTTGCACACACAGTGCCAATACAG
* * *
1639524 AAATTCACAAACTTATTATGAATTTTTTAAGTTTTGTACACACAGTGCCAATACAG
1 AAATTCATAAACTTATTATGAATTTCTTAAGTTTTGCACACACAGTGCCAATACAG
* * *
1639580 AAATTCATAAAATTATTACGAATTTCTTAAGCTTTGCACACACAGTGCCAATA-AGG
1 AAATTCATAAACTTATTATGAATTTCTTAAGTTTTGCACACACAGTGCCAATACA-G
* * * * *
1639636 AAATTTAGAAACTTATTATGAATTTCTTAAGATTTTCACACACACAGTGCTAATACAA
1 AAATTCATAAACTTATTATGAATTTCTTAAG-TTTT-GCACACACAGTGCCAATACAG
1639694 AAATTCATAAACTTATTATGAATTTCTTAAGTT
1 AAATTCATAAACTTATTATGAATTTCTTAAGTT
1639727 GTACACATAG
Statistics
Matches: 433, Mismatches: 45, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
55 23 0.05
56 313 0.72
57 51 0.12
58 45 0.10
59 1 0.00
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (56 bp):
AAATTCATAAACTTATTATGAATTTCTTAAGTTTTGCACACACAGTGCCAATACAG
Found at i:1646228 original size:56 final size:56
Alignment explanation
Indices: 1646110--1646597 Score: 700
Period size: 56 Copynumber: 8.8 Consensus size: 56
1646100 TACCAATATG
* * * *
1646110 GAAATTCATAAACTTATTATAAATTTCTT-AGATTTGCACACACACTGCCAATACG
1 GAAATTCATAAACTTATTATGAATTTCTTAAGCTTTGCACACACAGTGCCAATACA
* ** *
1646165 GAAATTCATAAACGTATTATGAATTTCTTAATTTTTGCACACATAGTGCCAATACA
1 GAAATTCATAAACTTATTATGAATTTCTTAAGCTTTGCACACACAGTGCCAATACA
* * * *
1646221 GAAATTCAAAAACTTATTATGAATTTCTTAAGTTTTGCACACACAATGCCAATACG
1 GAAATTCATAAACTTATTATGAATTTCTTAAGCTTTGCACACACAGTGCCAATACA
1646277 GAAATTCATAAACTTATTATGAATTTCTTAAGCTTTGCACACACAGTGCCAATACA
1 GAAATTCATAAACTTATTATGAATTTCTTAAGCTTTGCACACACAGTGCCAATACA
* * *
1646333 GAAATTCATAAACTTATTATGAATATCTTAAGTTTTGCACACACAGTGCCAAAAC-
1 GAAATTCATAAACTTATTATGAATTTCTTAAGCTTTGCACACACAGTGCCAATACA
* * *
1646388 GAGAATTCATAAACTTATTATGAATTTATTATGCTTTGCACACAGAGTGCCAATAC-
1 GA-AATTCATAAACTTATTATGAATTTCTTAAGCTTTGCACACACAGTGCCAATACA
**
1646444 GAAAATTCATAAACTTATTATGAATTTCTTAAGCTTTGCACACACAGTGGTAATACA
1 G-AAATTCATAAACTTATTATGAATTTCTTAAGCTTTGCACACACAGTGCCAATACA
* * *
1646501 AAAATTCATAAACTTATTATGAATTTCTTAAGCTTTGCACACACAGTTCCAATA-T
1 GAAATTCATAAACTTATTATGAATTTCTTAAGCTTTGCACACACAGTGCCAATACA
1646556 GTAAATTCATAAACTTATTATGAATTTCTTAAG--TTGCACACA
1 G-AAATTCATAAACTTATTATGAATTTCTTAAGCTTTGCACACA
1646598 TAGTTCCCAT
Statistics
Matches: 391, Mismatches: 37, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
54 9 0.02
55 29 0.07
56 352 0.90
57 1 0.00
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (56 bp):
GAAATTCATAAACTTATTATGAATTTCTTAAGCTTTGCACACACAGTGCCAATACA
Found at i:1654149 original size:3 final size:3
Alignment explanation
Indices: 1654141--1654316 Score: 83
Period size: 3 Copynumber: 59.3 Consensus size: 3
1654131 TAATTTACCC
* * * * * * * *
1654141 ATA ATA ATA TTA ATA ATA ATA ACA ATA ACA ACA ACA ACA ATA ACA ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * ** *
1654189 ATA ACA ATA ATA AT- ATCA ATA ATA AAA ATA ATA ATA GCA GTA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
1654234 ACA ATT ATA A-A A-A ATA ACA ATA ATA AAA ACA AAA ACA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
1654280 A-A AGTA ATA ATA AT- TTA ATCA ATA AAA AAA ATA ATA A
1 ATA A-TA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA A
1654317 CAAGTTTTAA
Statistics
Matches: 135, Mismatches: 31, Indels: 14
0.75 0.17 0.08
Matches are distributed among these distances:
2 9 0.07
3 119 0.88
4 7 0.05
ACGTcount: A:0.66, C:0.09, G:0.02, T:0.23
Consensus pattern (3 bp):
ATA
Found at i:1654497 original size:26 final size:26
Alignment explanation
Indices: 1654468--1654517 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
1654458 GTTTTTAGGG
* *
1654468 TTTATGGTTTA-AGTTTAGAGGTTTGA
1 TTTAAGGTTTATAATTTAG-GGTTTGA
1654494 TTTAAGGTTTATAATTTAGGGTTT
1 TTTAAGGTTTATAATTTAGGGTTT
1654518 TAAATTAGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 15 0.71
27 6 0.29
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (26 bp):
TTTAAGGTTTATAATTTAGGGTTTGA
Found at i:1654644 original size:3 final size:3
Alignment explanation
Indices: 1654626--1654747 Score: 55
Period size: 3 Copynumber: 40.7 Consensus size: 3
1654616 TAAACCTAAT
* * * * * *
1654626 AAC AAC AAT AAT AAC AAC AAC AAC AAT AAC TAT AAC AAC AAC AAC AAT
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
* * * * * * * * * * * *
1654674 AAT AAT AAC AAT AAT AAC TAT AAC AAC AAT AAT AAT AAC AAT AAT AAT
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
* * *
1654722 AAC AAC AAT AAT AAA AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AA
1654748 TAATAACAAT
Statistics
Matches: 96, Mismatches: 23, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 96 1.00
ACGTcount: A:0.66, C:0.17, G:0.00, T:0.16
Consensus pattern (3 bp):
AAC
Found at i:1654646 original size:15 final size:15
Alignment explanation
Indices: 1654622--1654954 Score: 170
Period size: 15 Copynumber: 22.4 Consensus size: 15
1654612 CCCTTAAACC
*
1654622 TAATAACAACAATAA
1 TAATAACAACAACAA
*
1654637 TAACAACAACAACAA
1 TAATAACAACAACAA
1654652 TAACTATAACAACAACAA
1 T-A--ATAACAACAACAA
* * *
1654670 CAATAATAATAACAA
1 TAATAACAACAACAA
1654685 TAATAACTATAACAACAA
1 TAATAAC---AACAACAA
* *
1654703 TAATAATAACAATAA
1 TAATAACAACAACAA
*
1654718 TAATAACAACAATAA
1 TAATAACAACAACAA
*
1654733 TAAAAACAACAACAA
1 TAATAACAACAACAA
* * *
1654748 TAATAACAATAATAC
1 TAATAACAACAACAA
* *
1654763 TAACAACAATAACAA
1 TAATAACAACAACAA
*
1654778 TAA-AA-ATCATTAC-A
1 TAATAACAACA--ACAA
* *
1654792 -AA-AACAATAATAA
1 TAATAACAACAACAA
*
1654805 TAATAACAACAATAA
1 TAATAACAACAACAA
* * * *
1654820 CAATAATAATAGCAA
1 TAATAACAACAACAA
*
1654835 TAATAACAATAACAA
1 TAATAACAACAACAA
* *
1654850 CAATAA-ATATAACAA
1 TAATAACA-ACAACAA
*
1654865 T--T-ACAACAATAA
1 TAATAACAACAACAA
* *
1654877 TAAT-A-GA-AATAA
1 TAATAACAACAACAA
1654889 TAATAACAACAACAA
1 TAATAACAACAACAA
* *
1654904 TAGTAACAATAACAA
1 TAATAACAACAACAA
* *
1654919 CT-ATAACAATAATAA
1 -TAATAACAACAACAA
** *
1654934 TAATATTAATAACAA
1 TAATAACAACAACAA
1654949 TAATAA
1 TAATAA
1654955 TAATTGTAAT
Statistics
Matches: 247, Mismatches: 50, Indels: 42
0.73 0.15 0.12
Matches are distributed among these distances:
12 17 0.07
13 11 0.04
14 12 0.05
15 179 0.72
16 2 0.01
17 1 0.00
18 25 0.10
ACGTcount: A:0.65, C:0.14, G:0.01, T:0.20
Consensus pattern (15 bp):
TAATAACAACAACAA
Found at i:1654653 original size:27 final size:27
Alignment explanation
Indices: 1654623--1654958 Score: 206
Period size: 27 Copynumber: 12.0 Consensus size: 27
1654613 CCTTAAACCT
* * * *
1654623 AATAACAACAATAATAACAACAACAAC
1 AATAACAATAATAACAACAACAATAAT
* *
1654650 AATAACTATAACAACAACAACAATAAT
1 AATAACAATAATAACAACAACAATAAT
1654677 AATAACAATAATAACTATAACAACAATAAT
1 AATAACAATAATAAC---AACAACAATAAT
*
1654707 AATAACAATAATAATAACAACAATAAT
1 AATAACAATAATAACAACAACAATAAT
* * * * *
1654734 AAAAACAACAACAATAATAACAATAAT
1 AATAACAATAATAACAACAACAATAAT
* * * * *
1654761 ACTAACAACAATAACAATAAAAATCATTAC
1 AATAACAATAATAACAACAACAAT-A--AT
* * * *
1654791 AAAAACAATAATAATAATAACAACAAT
1 AATAACAATAATAACAACAACAATAAT
* * * * * *
1654818 AACAATAATAATAGCAATAATAACAAT
1 AATAACAATAATAACAACAACAATAAT
*
1654845 AACAACAATAAATATAACAATTACAACAATAAT
1 AATAACAAT--A-ATAAC-A--ACAACAATAAT
* *
1654878 AATAGA-AATAATAATAACAACAACAAT
1 AATA-ACAATAATAACAACAACAATAAT
* * * *
1654905 AGTAACAATAACAACTATAACAATAAT
1 AATAACAATAATAACAACAACAATAAT
* * * *
1654932 AATAATATTAATAACAATAATAATAAT
1 AATAACAATAATAACAACAACAATAAT
1654959 TGTAATAATA
Statistics
Matches: 244, Mismatches: 51, Indels: 28
0.76 0.16 0.09
Matches are distributed among these distances:
26 1 0.00
27 169 0.69
28 1 0.00
29 3 0.01
30 53 0.22
31 2 0.01
33 14 0.06
34 1 0.00
ACGTcount: A:0.65, C:0.14, G:0.01, T:0.21
Consensus pattern (27 bp):
AATAACAATAATAACAACAACAATAAT
Found at i:1654935 original size:21 final size:21
Alignment explanation
Indices: 1654624--1654957 Score: 171
Period size: 21 Copynumber: 15.8 Consensus size: 21
1654614 CTTAAACCTA
* *
1654624 ATAACAACAATAATAACAACA
1 ATAACAATAATAATAACAACT
* *
1654645 ACAACAATAACT-ATAACAACA
1 ATAACAATAA-TAATAACAACT
*
1654666 ACAACAATAATAATAACAA-T
1 ATAACAATAATAATAACAACT
* * * *
1654686 AATAACTATAACAACAATAA-T
1 -ATAACAATAATAATAACAACT
*
1654707 AATAACAATAATAATAACAACA
1 -ATAACAATAATAATAACAACT
* * * *
1654729 ATAATAAAAACAACAACAA-T
1 ATAACAATAATAATAACAACT
* *
1654749 AATAACAATAATACTAACAACA
1 -ATAACAATAATAATAACAACT
* **
1654771 ATAACAATAAAAATCATTACAAAA
1 ATAACAATAATAAT-A--ACAACT
* * *
1654795 ACAATAATAATAATAACAACA
1 ATAACAATAATAATAACAACT
*
1654816 ATAACAATAATAATAGCAA-T
1 ATAACAATAATAATAACAACT
* * * *
1654836 AATAACAATAACAACAATAAAT
1 -ATAACAATAATAATAACAACT
* * * *
1654858 ATAACAATTACAACAATAA-T
1 ATAACAATAATAATAACAACT
*
1654878 AATAGA-AATAATAATAACAACA
1 -ATA-ACAATAATAATAACAACT
* * * *
1654900 ACAATAGTAACAATAACAACT
1 ATAACAATAATAATAACAACT
* *
1654921 ATAACAATAATAATAA-TATT
1 ATAACAATAATAATAACAACT
1654941 AATAACAATAATAATAA
1 -ATAACAATAATAATAA
1654958 TTGTAATAAT
Statistics
Matches: 242, Mismatches: 55, Indels: 32
0.74 0.17 0.10
Matches are distributed among these distances:
20 5 0.02
21 216 0.89
22 4 0.02
23 1 0.00
24 16 0.07
ACGTcount: A:0.65, C:0.14, G:0.01, T:0.20
Consensus pattern (21 bp):
ATAACAATAATAATAACAACT
Found at i:1654958 original size:15 final size:15
Alignment explanation
Indices: 1654665--1654994 Score: 218
Period size: 15 Copynumber: 22.5 Consensus size: 15
1654655 CTATAACAAC
*
1654665 AACAACAATAATAAT
1 AACAATAATAATAAT
1654680 AACAATAATAACT-AT
1 AACAATAATAA-TAAT
*
1654695 AACAACAATAATAAT
1 AACAATAATAATAAT
*
1654710 AACAATAATAATAAC
1 AACAATAATAATAAT
1654725 AACAATAAT-A-AA-
1 AACAATAATAATAAT
* *
1654737 AACAACAACAATAAT
1 AACAATAATAATAAT
* *
1654752 AACAATAATACTAAC
1 AACAATAATAATAAT
*
1654767 AACAATAACAAT-A-
1 AACAATAATAATAAT
* * * *
1654780 AA-AATCATTACAAA
1 AACAATAATAATAAT
1654794 AACAATAATAATAAT
1 AACAATAATAATAAT
* *
1654809 AACAACAATAACAAT
1 AACAATAATAATAAT
* **
1654824 AATAATAGCAATAAT
1 AACAATAATAATAAT
* *
1654839 AACAATAACAACAAT
1 AACAATAATAATAAT
* * *
1654854 AA-ATATAACAATTAC
1 AACA-ATAATAATAAT
1654869 AACAATAATAATAGA-
1 AACAATAATAATA-AT
* * *
1654884 AATAATAATAACAAC
1 AACAATAATAATAAT
* *
1654899 AACAATAGTAACAAT
1 AACAATAATAATAAT
*
1654914 AACAACT-ATAACAAT
1 AACAA-TAATAATAAT
* *
1654929 AATAATAATATTAAT
1 AACAATAATAATAAT
1654944 AACAATAATAATAAT
1 AACAATAATAATAAT
** *
1654959 ---TGTAATAATAAA
1 AACAATAATAATAAT
*
1654971 AACAATAATTAGTAAT
1 AACAATAA-TAATAAT
1654987 AACAATAA
1 AACAATAA
1654995 AAACAGTAAT
Statistics
Matches: 244, Mismatches: 53, Indels: 35
0.73 0.16 0.11
Matches are distributed among these distances:
12 21 0.09
13 6 0.02
14 10 0.04
15 190 0.78
16 17 0.07
ACGTcount: A:0.64, C:0.12, G:0.02, T:0.22
Consensus pattern (15 bp):
AACAATAATAATAAT
Found at i:1655593 original size:44 final size:45
Alignment explanation
Indices: 1655545--1655636 Score: 132
Period size: 45 Copynumber: 2.1 Consensus size: 45
1655535 TTATTTATTA
* * *
1655545 ATTTCATTTAT-ACATCCTTTTATGTCTTTTGTACACCATTATAC
1 ATTTCATTTATGACATCCTTTCATGCCTTTTATACACCATTATAC
* *
1655589 ATTTCATTTATGGCATCCTTTCATGCCTTTTATACACTATTATAC
1 ATTTCATTTATGACATCCTTTCATGCCTTTTATACACCATTATAC
1655634 ATT
1 ATT
1655637 GTTATCCATC
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 11 0.26
45 31 0.74
ACGTcount: A:0.25, C:0.21, G:0.05, T:0.49
Consensus pattern (45 bp):
ATTTCATTTATGACATCCTTTCATGCCTTTTATACACCATTATAC
Found at i:1655751 original size:81 final size:81
Alignment explanation
Indices: 1655650--1656141 Score: 616
Period size: 81 Copynumber: 6.1 Consensus size: 81
1655640 ATCCATCTAG
* * * * *
1655650 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATGATTAACA-ACTATCTGCCAAATG
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACA-TTTCTGTCAAATG
1655714 CACATCTAGGCCATTAA
65 CACATCTAGGCCATTAA
* * * * * *
1655731 TCTTTCAATCAAAGGTATTTAACCTTTCATCTAACTAGCATATTTGACACCTTTCTGTTAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
1655796 ACAGT-TAGGCCATTAA
66 ACA-TCTAGGCCATTAA
* * * *
1655812 TATTTTACTCAAAGGCATTTAACATTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATCC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
* * *
1655877 AAAGCTTGGCCATTAA
66 ACATCTAGGCCATTAA
* * *
1655893 TCTTTTACTCAGAGGTATTTAACCTTTCATCTAATTGGCATAATTGACACATTTCTATCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
* *
1655958 ACAACTAGGTCATTAA
66 ACATCTAGGCCATTAA
* *
1655974 T-TTTTCACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATCGACACATTTCTTTCAAATG
1 TCTTTT-ACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATG
*
1656038 CACAGT-TAGGCCGTTAAA
65 CACA-TCTAGGCCATT-AA
* * *
1656056 T-TTTTACTCAAATGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTATCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
* *
1656120 ACAACTAGGCCATCAA
66 ACATCTAGGCCATTAA
*
1656136 TATTTT
1 TCTTTT
1656142 GTATTATAAC
Statistics
Matches: 354, Mismatches: 49, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
80 7 0.02
81 339 0.96
82 8 0.02
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.36
Consensus pattern (81 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
ACATCTAGGCCATTAA
Found at i:1656085 original size:243 final size:243
Alignment explanation
Indices: 1655650--1656117 Score: 690
Period size: 243 Copynumber: 1.9 Consensus size: 243
1655640 ATCCATCTAG
* *
1655650 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATGATTAACAACTATCTGCCAAATGC
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTAACAACTATCTACCAAATGC
* * *
1655715 ACATCTAGGCCATTAATCTTTCAATCAAAGGTATTTAACCTTTCATCTAACTAGCATATTTGACA
66 ACAACTAGGCCATTAATCTTTCAATCAAAGGTATTTAACCTTTCATCTAACTAGCATAATCGACA
*
1655780 CCTTTCTGTTAAATGCACAGTTAGGCCATTAATATTTTACTCAAAGGCATTTAACATTTCATCTA
131 CATTTCTGTTAAATGCACAGTTAGGCCATTAATATTTTACTCAAAGGCATTTAACATTTCATCTA
*
1655845 ACTGGCATAATTGACACATTTCTGTCAAATCCAAAGCTTGGCCATTAA
196 ACTGGCATAATTGACACATTTCTATCAAATCCAAAGCTTGGCCATTAA
* * * * * *
1655893 TCTTTTACTCAGAGGTATTTAACCTTTCATCTAATTGGCATAATTGAC-ACATTTCTATCAAATG
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTAACAAC-TATCTACCAAATG
* * * *
1655957 CACAACTAGGTCATTAATTTTTCACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATCGAC
65 CACAACTAGGCCATTAATCTTTCAATCAAAGGTATTTAACCTTTCATCTAACTAGCATAATCGAC
* * * *
1656022 ACATTTCT-TTCAAATGCACAGTTAGGCCGTTAA-ATTTTTACTCAAATGTATTTAACCTTTCAT
130 ACATTTCTGTT-AAATGCACAGTTAGGCCATTAATA-TTTTACTCAAAGGCATTTAACATTTCAT
*
1656085 CTAACTGGCATAATTGACACCTTTCTATCAAAT
193 CTAACTGGCATAATTGACACATTTCTATCAAAT
1656118 GCACAACTAG
Statistics
Matches: 200, Mismatches: 22, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
242 5 0.03
243 195 0.98
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.36
Consensus pattern (243 bp):
TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACTGGCATAATTAACAACTATCTACCAAATGC
ACAACTAGGCCATTAATCTTTCAATCAAAGGTATTTAACCTTTCATCTAACTAGCATAATCGACA
CATTTCTGTTAAATGCACAGTTAGGCCATTAATATTTTACTCAAAGGCATTTAACATTTCATCTA
ACTGGCATAATTGACACATTTCTATCAAATCCAAAGCTTGGCCATTAA
Found at i:1656773 original size:55 final size:55
Alignment explanation
Indices: 1656358--1656751 Score: 592
Period size: 55 Copynumber: 7.1 Consensus size: 55
1656348 ACCAATACAT
* * * * *
1656358 AAATTGATACACTTAGTATGAATTTCCT-AGTTTTTGCACATAAAGTGCCCATACAG
1 AAATTCATCCACTTAGTATGAATTTCTTAAG--TTTACACATAAAGTGCCCATACGG
1656414 AAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGG
1 AAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGG
* * *
1656469 AAATTCATCCTCTTAGTATGAATTTCTTAAGTTTACACATAAAATGCCCATACGA
1 AAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGG
* * *
1656524 AAATCCATCCACTTAGTATGAATTTCTTAAGTTTACATATAAAGTGCCCATACGA
1 AAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGG
*
1656579 AAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATGAAGTGCCCATACGG
1 AAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGG
* * * *
1656634 AAATTCATCCACTTAATATGAATTTATTAAGTTTACAAATAAAGTTCCCATACGG
1 AAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGG
* * *
1656689 AAATTTATCCACTTAGTATGAATTTCTTAAATTTACACATAAAGTGCCCATACAG
1 AAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGG
1656744 AAATTCAT
1 AAATTCAT
1656752 AAACAAATTA
Statistics
Matches: 308, Mismatches: 29, Indels: 3
0.91 0.09 0.01
Matches are distributed among these distances:
55 281 0.91
56 25 0.08
57 2 0.01
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.34
Consensus pattern (55 bp):
AAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCCATACGG
Found at i:1657253 original size:19 final size:20
Alignment explanation
Indices: 1657208--1657259 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
1657198 TCTGCTAACA
*
1657208 ATGGTATCGATACCATCCTC
1 ATGGTATCGATACCACCCTC
*
1657228 ATAGTATCGATACC-CCCTC
1 ATGGTATCGATACCACCCTC
*
1657247 TTGGTATCGATAC
1 ATGGTATCGATAC
1657260 TACTTGCATA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.31
Consensus pattern (20 bp):
ATGGTATCGATACCACCCTC
Found at i:1657313 original size:18 final size:21
Alignment explanation
Indices: 1657249--1657305 Score: 114
Period size: 21 Copynumber: 2.7 Consensus size: 21
1657239 ACCCCCTCTT
1657249 GGTATCGATACTACTTGCATA
1 GGTATCGATACTACTTGCATA
1657270 GGTATCGATACTACTTGCATA
1 GGTATCGATACTACTTGCATA
1657291 GGTATCGATACTACT
1 GGTATCGATACTACT
1657306 CAACGTATTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.33
Consensus pattern (21 bp):
GGTATCGATACTACTTGCATA
Found at i:1658081 original size:24 final size:27
Alignment explanation
Indices: 1658053--1658123 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 27
1658043 CAGCAATAAT
1658053 AATAATAAAAATAATAACAA-AACA-C
1 AATAATAAAAATAATAACAATAACATC
*
1658078 -ATAATAACAAA-AATAACAATAATATC
1 AATAATAA-AAATAATAACAATAACATC
* *
1658104 AATAACAACAATAATAACAA
1 AATAATAAAAATAATAACAA
1658124 GGCTTAAGGG
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
24 15 0.39
25 6 0.16
26 3 0.08
27 14 0.37
ACGTcount: A:0.69, C:0.13, G:0.00, T:0.18
Consensus pattern (27 bp):
AATAATAAAAATAATAACAATAACATC
Found at i:1658094 original size:9 final size:9
Alignment explanation
Indices: 1658047--1658123 Score: 79
Period size: 9 Copynumber: 8.9 Consensus size: 9
1658037 TTACAACAGC
*
1658047 AATAATAAT
1 AATAACAAT
*
1658056 AATAAAAAT
1 AATAACAAT
1658065 AATAACAA-
1 AATAACAAT
*
1658073 AA-CAC-AT
1 AATAACAAT
*
1658080 AATAACAAA
1 AATAACAAT
1658089 AATAACAAT
1 AATAACAAT
*
1658098 AATATCAAT
1 AATAACAAT
*
1658107 AACAACAAT
1 AATAACAAT
1658116 AATAACAA
1 AATAACAA
1658124 GGCTTAAGGG
Statistics
Matches: 55, Mismatches: 10, Indels: 6
0.77 0.14 0.08
Matches are distributed among these distances:
6 1 0.02
7 4 0.07
8 4 0.07
9 46 0.84
ACGTcount: A:0.69, C:0.12, G:0.00, T:0.19
Consensus pattern (9 bp):
AATAACAAT
Found at i:1658688 original size:41 final size:41
Alignment explanation
Indices: 1658642--1658721 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 41
1658632 GCTAATAAAC
*
1658642 AAAACAAA-AAAAGGCGAAAATGATAATAAA-ATAACATAAGG
1 AAAACAAATAAAAGGAGAAAAT-A-AATAAACATAACATAAGG
* *
1658683 AAAACAAATAAAATGATAAAATAAATAAACATAACATAA
1 AAAACAAATAAAAGGAGAAAATAAATAAACATAACATAA
1658722 AACAAAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
40 6 0.18
41 18 0.53
42 10 0.29
ACGTcount: A:0.69, C:0.07, G:0.09, T:0.15
Consensus pattern (41 bp):
AAAACAAATAAAAGGAGAAAATAAATAAACATAACATAAGG
Found at i:1658706 original size:36 final size:35
Alignment explanation
Indices: 1658658--1658735 Score: 88
Period size: 37 Copynumber: 2.2 Consensus size: 35
1658648 AAAAAAGGCG
* *
1658658 AAAATGATAATAAA-ATAACATAA-GGAAAACAAAT
1 AAAATGATAATAAATA-AACATAACAGAAAACAAAA
*
1658692 AAAATGATAAAATAAATAAACATAACATAAAACAAAA
1 AAAATGAT--AATAAATAAACATAACAGAAAACAAAA
1658729 AAAATGA
1 AAAATGA
1658736 ATAAGAAAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
34 8 0.22
36 13 0.35
37 16 0.43
ACGTcount: A:0.71, C:0.06, G:0.06, T:0.17
Consensus pattern (35 bp):
AAAATGATAATAAATAAACATAACAGAAAACAAAA
Found at i:1659058 original size:18 final size:16
Alignment explanation
Indices: 1659023--1659070 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 16
1659013 ATATATATAT
1659023 ATATAAGAAAATAATAA
1 ATATAA-AAAATAATAA
*
1659040 ATATTAAAATAATAGTAA
1 ATA-TAAAA-AATAATAA
1659058 ATATAAAAAATAA
1 ATATAAAAAATAA
1659071 AAAAATCTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 4 0.15
17 10 0.37
18 13 0.48
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (16 bp):
ATATAAAAAATAATAA
Found at i:1664222 original size:9 final size:9
Alignment explanation
Indices: 1664204--1664631 Score: 231
Period size: 9 Copynumber: 45.8 Consensus size: 9
1664194 TAACAATTAT
*
1664204 ATAATCACA
1 ATAATAACA
1664213 ATAATAACAA
1 ATAATAAC-A
* *
1664223 AAACATCAATA
1 ATA-AT-AACA
1664234 ATAATAACA
1 ATAATAACA
*
1664243 ATAATAACT
1 ATAATAACA
* * *
1664252 ATGACACCA
1 ATAATAACA
*
1664261 ATAATAATA
1 ATAATAACA
*
1664270 ACAATAACA
1 ATAATAACA
*
1664279 ATAATAACT
1 ATAATAACA
1664288 ATAACTATAACA
1 AT-A--ATAACA
*
1664300 ACAATAA-A
1 ATAATAACA
**
1664308 A-AA-AATT
1 ATAATAACA
1664315 ATAATAACA
1 ATAATAACA
*
1664324 ATAATAAAA
1 ATAATAACA
*
1664333 ATAACAA-A
1 ATAATAACA
*
1664341 AGCAATAACA
1 A-TAATAACA
*
1664351 ATATTAACA
1 ATAATAACA
1664360 ATAAACTAACA
1 AT-AA-TAACA
* *
1664371 A-CATAATA
1 ATAATAACA
1664379 ATAATAACA
1 ATAATAACA
*
1664388 ATAATAATA
1 ATAATAACA
*
1664397 ATTACAATAATA
1 A-T--AATAACA
1664409 ATAATAACA
1 ATAATAACA
*
1664418 GTAATAACA
1 ATAATAACA
*
1664427 ACAATAACA
1 ATAATAACA
* *
1664436 AAAATACCA
1 ATAATAACA
*
1664445 ATGATAACA
1 ATAATAACA
*
1664454 ATGACAATAATA
1 AT---AATAACA
1664466 ATAATAACA
1 ATAATAACA
* *
1664475 TTAAAAATC-
1 ATAATAA-CA
*
1664484 ATAAGAACA
1 ATAATAACA
*
1664493 ATAATAATA
1 ATAATAACA
*
1664502 ACAATAACA
1 ATAATAACA
*
1664511 ATAAGAACA
1 ATAATAACA
1664520 ATAAGAATAACA
1 AT---AATAACA
* *
1664532 ATAAGAATA
1 ATAATAACA
*
1664541 ACAATAACA
1 ATAATAACA
*
1664550 ATAATAATA
1 ATAATAACA
1664559 ATAATAACA
1 ATAATAACA
*
1664568 ATATTAACAA
1 ATAATAAC-A
1664578 CATTAATAACA
1 -A-TAATAACA
*
1664589 ACAATAACA
1 ATAATAACA
*
1664598 ACAATAACA
1 ATAATAACA
*
1664607 ACT-ATAACC
1 A-TAATAACA
1664616 ATAATAACA
1 ATAATAACA
1664625 ATAATAA
1 ATAATAA
1664632 TAAAAATAAT
Statistics
Matches: 317, Mismatches: 72, Indels: 60
0.71 0.16 0.13
Matches are distributed among these distances:
6 2 0.01
7 3 0.01
8 13 0.04
9 234 0.74
10 13 0.04
11 15 0.05
12 37 0.12
ACGTcount: A:0.63, C:0.13, G:0.02, T:0.22
Consensus pattern (9 bp):
ATAATAACA
Found at i:1664242 original size:15 final size:15
Alignment explanation
Indices: 1664191--1664634 Score: 266
Period size: 15 Copynumber: 30.2 Consensus size: 15
1664181 CTCTTAAAAC
*
1664191 TAATAACAATTAT-A
1 TAATAACAATAATAA
*
1664205 TAATCACAATAATAA
1 TAATAACAATAATAA
* *
1664220 CAAAAAC-ATCAATAA
1 TAATAACAAT-AATAA
1664235 TAATAACAATAATAA
1 TAATAACAATAATAA
* **
1664250 CT-ATGACACCAATAA
1 -TAATAACAATAATAA
*
1664265 TAATAACAATAACAA
1 TAATAACAATAATAA
*
1664280 TAATAACTATAACT-A
1 TAATAACAATAA-TAA
*
1664295 TAACAACAATAA-AA
1 TAATAACAATAATAA
**
1664309 -AA-AATTATAATAA
1 TAATAACAATAATAA
* * *
1664322 CAATAATAAAAATAA
1 TAATAACAATAATAA
* *
1664337 CAA-AAGCAATAACAA
1 TAATAA-CAATAATAA
* *
1664352 TATTAACAATAA-AC
1 TAATAACAATAATAA
*
1664366 TAACAAC-ATAATAA
1 TAATAACAATAATAA
1664380 TAATAACAATAATAA
1 TAATAACAATAATAA
*
1664395 TAATTACAATAATAA
1 TAATAACAATAATAA
*
1664410 TAATAAC---AGTAA
1 TAATAACAATAATAA
* *
1664422 TAACAACAATAACAA
1 TAATAACAATAATAA
* * *
1664437 AAATACCAATGATAA
1 TAATAACAATAATAA
* *
1664452 CAATGACAATAATAA
1 TAATAACAATAATAA
* *
1664467 TAATAACATTAAAAA
1 TAATAACAATAATAA
* * *
1664482 TCATAAGAACAATAA
1 TAATAACAATAATAA
*
1664497 TAATAACAATAACAA
1 TAATAACAATAATAA
* *
1664512 TAAGAACAATAAGAA
1 TAATAACAATAATAA
* * *
1664527 TAACAATAAGAATAA
1 TAATAACAATAATAA
*
1664542 CAATAACAATAATAA
1 TAATAACAATAATAA
* * *
1664557 TAATAATAACAATAT
1 TAATAACAATAATAA
* *
1664572 TAACAACATTAATAA
1 TAATAACAATAATAA
* * * * *
1664587 CAACAATAACAACAA
1 TAATAACAATAATAA
* * **
1664602 TAACAACTATAACCA
1 TAATAACAATAATAA
1664617 TAATAACAATAATAA
1 TAATAACAATAATAA
1664632 TAA
1 TAA
1664635 AAATAATTAA
Statistics
Matches: 320, Mismatches: 93, Indels: 33
0.72 0.21 0.07
Matches are distributed among these distances:
12 16 0.05
13 8 0.03
14 32 0.10
15 259 0.81
16 5 0.02
ACGTcount: A:0.63, C:0.13, G:0.02, T:0.22
Consensus pattern (15 bp):
TAATAACAATAATAA
Found at i:1664268 original size:21 final size:21
Alignment explanation
Indices: 1664242--1664634 Score: 96
Period size: 21 Copynumber: 18.4 Consensus size: 21
1664232 TAATAATAAC
* *
1664242 AATAATAACTATGACACCAAT
1 AATAATAACTATAACAACAAT
* *
1664263 AATAATAACAATAACAATAAT
1 AATAATAACTATAACAACAAT
1664284 AACT-ATAACTATAACAACAAT
1 AA-TAATAACTATAACAACAAT
* * * *
1664305 AAAAAAAATTATAATAACAAT
1 AATAATAACTATAACAACAAT
*
1664326 AATAA-AA--ATAACAA-AAGC
1 AATAATAACTATAACAACAA-T
* *
1664344 AATAACAA-TATTAACAATAAACT
1 AATAATAACTA-TAACAA-CAA-T
* *
1664367 AACAACATAA-TAATAATAACAAT
1 AA-TA-ATAACT-ATAACAACAAT
*
1664390 AATAATAA-T-T-ACAATAAT
1 AATAATAACTATAACAACAAT
1664408 AATAATAACAGTAATAACAACAAT
1 AATAATAAC--T-ATAACAACAAT
* * **
1664432 AACAA-AA--ATACCAATGAT
1 AATAATAACTATAACAACAAT
* * * * *
1664450 AACAATGACAATAATAATAAT
1 AATAATAACTATAACAACAAT
* *
1664471 AACATTAA-AAATCATAAGAACAAT
1 -A-A-TAATAACT-ATAACAACAAT
* * *
1664495 AATAATAACAATAACAATAAG
1 AATAATAACTATAACAACAAT
* ** * *
1664516 AACAATAAGAATAACAATAAG
1 AATAATAACTATAACAACAAT
* * * *
1664537 AATAACAA-TAACAATAATAAT
1 AATAATAACT-ATAACAACAAT
*
1664558 AATAATAACAATATTAACAACATT
1 AATAATAAC--TA-TAACAACAAT
* *
1664582 AATAACAACAATAACAACAAT
1 AATAATAACTATAACAACAAT
* * *
1664603 AACAACTATAACCATAATAACAAT
1 AA-TA--ATAACTATAACAACAAT
1664627 AATAATAA
1 AATAATAA
1664635 AAATAATTAA
Statistics
Matches: 276, Mismatches: 63, Indels: 66
0.68 0.16 0.16
Matches are distributed among these distances:
17 2 0.01
18 38 0.14
19 4 0.01
20 3 0.01
21 140 0.51
22 8 0.03
23 15 0.05
24 56 0.20
25 9 0.03
26 1 0.00
ACGTcount: A:0.63, C:0.12, G:0.02, T:0.22
Consensus pattern (21 bp):
AATAATAACTATAACAACAAT
Found at i:1664275 original size:6 final size:6
Alignment explanation
Indices: 1664259--1664640 Score: 113
Period size: 6 Copynumber: 64.0 Consensus size: 6
1664249 ACTATGACAC
* * * *
1664259 CAATAA TAATAA CAATAA CAAT-- -AATAA CTATAA CTATAA CAACAA
1 CAATAA CAATAA CAATAA CAATAA CAATAA CAATAA CAATAA CAATAA
* * * * * *
1664304 TAAAAA AAATTA TAATAA CAAT-- -AATAA AAATAA CAA-AA GCAATAA
1 CAATAA CAATAA CAATAA CAATAA CAATAA CAATAA CAATAA -CAATAA
* * * * *
1664349 CAATATTAA CAATAA -ACTAA CAA-CA TAATAA TAATAA CAATAA TAATAA
1 C-A-A-TAA CAATAA CAATAA CAATAA CAATAA CAATAA CAATAA CAATAA
** * * * * * * * * **
1664398 TTACAA TAATAA TAATAA CAGTAA TAACAA CAATAA CAAAAA TACCAA
1 CAATAA CAATAA CAATAA CAATAA CAATAA CAATAA CAATAA CAATAA
** * * * * * * *
1664446 TGATAA CAATGA CAAT-- -AATAA TAATAA CATTAA AAATCA TAAGAA
1 CAATAA CAATAA CAATAA CAATAA CAATAA CAATAA CAATAA CAATAA
* * *
1664491 CAATAA TAATAA CAATAA CAATAAGAA CAATAA GAATAA CAATAA GAATAA
1 CAATAA CAATAA CAATAA CAAT---AA CAATAA CAATAA CAATAA CAATAA
* * * * * * * *
1664542 CAATAA CAATAA TAATAA TAATAA CAATAT TAACAA CATTAA TAACAA
1 CAATAA CAATAA CAATAA CAATAA CAATAA CAATAA CAATAA CAATAA
* * * * * *
1664590 CAATAA CAACAA TAACAA CTATAA CCATAATAA CAATAA TAATAA AAATAA
1 CAATAA CAATAA CAATAA CAATAA -C--AATAA CAATAA CAATAA CAATAA
1664641 TTAAAAAAAC
Statistics
Matches: 274, Mismatches: 80, Indels: 44
0.69 0.20 0.11
Matches are distributed among these distances:
3 9 0.03
5 9 0.03
6 234 0.85
7 5 0.02
8 3 0.01
9 14 0.05
ACGTcount: A:0.64, C:0.12, G:0.02, T:0.22
Consensus pattern (6 bp):
CAATAA
Found at i:1666557 original size:23 final size:24
Alignment explanation
Indices: 1666501--1666557 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
1666491 ATGGAAAAAT
1666501 AAGAAGAAAATCAAGAAATGAAAG
1 AAGAAGAAAATCAAGAAATGAAAG
* * *
1666525 ATGAAGAAAA-GAAGGAAATG-GAG
1 AAGAAGAAAATCAA-GAAATGAAAG
1666548 AAGAAGAAAA
1 AAGAAGAAAA
1666558 AGATCAGCGT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
23 13 0.46
24 15 0.54
ACGTcount: A:0.65, C:0.02, G:0.26, T:0.07
Consensus pattern (24 bp):
AAGAAGAAAATCAAGAAATGAAAG
Found at i:1667048 original size:3 final size:3
Alignment explanation
Indices: 1667040--1667178 Score: 73
Period size: 3 Copynumber: 46.0 Consensus size: 3
1667030 GACTCAACAG
* * * * * *
1667040 TAA TAA TAA CAA AAA TTAA TAA TAA CAA TAA TAG CAG TAA TAA TAA
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * ** * * *
1667086 CAA TAA TAA CAA CAA CAA TAA TAA CGA TAA TAA TAA CAA AAA TAA CAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
1667134 CAA CAA TAA TAA TAA TAA CAA T-A TAA TCAA TAA CAA CAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
1667179 CAAGGCTTAA
Statistics
Matches: 107, Mismatches: 26, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
2 2 0.02
3 100 0.93
4 5 0.05
ACGTcount: A:0.65, C:0.12, G:0.02, T:0.22
Consensus pattern (3 bp):
TAA
Found at i:1667071 original size:9 final size:9
Alignment explanation
Indices: 1667057--1667181 Score: 87
Period size: 9 Copynumber: 14.2 Consensus size: 9
1667047 AACAAAAATT
1667057 AATAATAAC
1 AATAATAAC
*
1667066 AATAATAGC
1 AATAATAAC
* *
1667075 AGTAATAAT
1 AATAATAAC
* *
1667084 AACAATAAT
1 AATAATAAC
* *
1667093 AACAACAAC
1 AATAATAAC
1667102 AATAATAAC
1 AATAATAAC
*
1667111 GATAAT---
1 AATAATAAC
* *
1667117 AATAACAAA
1 AATAATAAC
*
1667126 AATAACAAC
1 AATAATAAC
* *
1667135 AACAATAAT
1 AATAATAAC
1667144 AATAATAAC
1 AATAATAAC
1667153 AAT-ATAATC
1 AATAATAA-C
*
1667162 AATAACAAC
1 AATAATAAC
1667171 AATAATAAC
1 AATAATAAC
1667180 AA
1 AA
1667182 GGCTTAATGG
Statistics
Matches: 90, Mismatches: 21, Indels: 10
0.74 0.17 0.08
Matches are distributed among these distances:
6 4 0.04
8 4 0.04
9 79 0.88
10 3 0.03
ACGTcount: A:0.65, C:0.13, G:0.02, T:0.20
Consensus pattern (9 bp):
AATAATAAC
Found at i:1667081 original size:12 final size:12
Alignment explanation
Indices: 1667035--1667178 Score: 119
Period size: 12 Copynumber: 11.9 Consensus size: 12
1667025 CGATTGACTC
*
1667035 AACAGTAATAAT
1 AACAATAATAAT
*
1667047 AACAAAAATTAAT
1 AACAATAA-TAAT
* *
1667060 AATAACAATAAT
1 AACAATAATAAT
* *
1667072 AGCAGTAATAAT
1 AACAATAATAAT
*
1667084 AACAATAATAAC
1 AACAATAATAAT
*
1667096 AACAACAATAAT
1 AACAATAATAAT
*
1667108 AACGATAATAAT
1 AACAATAATAAT
* *
1667120 AACAAAAATAAC
1 AACAATAATAAT
*
1667132 AACAACAATAAT
1 AACAATAATAAT
* *
1667144 AATAATAACAAT
1 AACAATAATAAT
* *
1667156 -ATAATCAATAAC
1 AACAAT-AATAAT
1667168 AACAATAATAA
1 AACAATAATAA
1667179 CAAGGCTTAA
Statistics
Matches: 103, Mismatches: 26, Indels: 6
0.76 0.19 0.04
Matches are distributed among these distances:
11 5 0.05
12 84 0.82
13 14 0.14
ACGTcount: A:0.65, C:0.12, G:0.03, T:0.21
Consensus pattern (12 bp):
AACAATAATAAT
Found at i:1667117 original size:36 final size:35
Alignment explanation
Indices: 1667035--1667180 Score: 154
Period size: 36 Copynumber: 4.1 Consensus size: 35
1667025 CGATTGACTC
* *
1667035 AACAGTAATAATAACAAAAATTAATAATAACAATAAT
1 AACA-TAATAATAACAAAAA-TAACAACAACAATAAT
* *
1667072 AGCAGTAATAATAACAATAATAACAACAACAATAAT
1 AACA-TAATAATAACAAAAATAACAACAACAATAAT
1667108 AACGATAATAATAACAAAAATAACAACAACAATAAT
1 AAC-ATAATAATAACAAAAATAACAACAACAATAAT
* * * *
1667144 -A-ATAATAACAA-TATAATCAATAACAACAATAAT
1 AACATAATAATAACAAAAAT-AACAACAACAATAAT
1667177 AACA
1 AACA
1667181 AGGCTTAATG
Statistics
Matches: 95, Mismatches: 10, Indels: 10
0.83 0.09 0.09
Matches are distributed among these distances:
32 4 0.04
33 23 0.24
34 1 0.01
35 2 0.02
36 46 0.48
37 19 0.20
ACGTcount: A:0.64, C:0.12, G:0.03, T:0.21
Consensus pattern (35 bp):
AACATAATAATAACAAAAATAACAACAACAATAAT
Found at i:1667525 original size:6 final size:6
Alignment explanation
Indices: 1667514--1667868 Score: 168
Period size: 6 Copynumber: 58.3 Consensus size: 6
1667504 CCTTAAACCT
* * * *
1667514 AATAAC AATAAC AATAAT AATAAT AGA-AAT AATAAC AATAAC -ATCAAT
1 AATAAC AATAAC AATAAC AATAAC A-ATAAC AATAAC AATAAC AAT-AAC
* * * * *
1667562 AAT-AT AATAAC AACAAT AATAAC AATAAC AATCAT AATAAC AATAAC
1 AATAAC AATAAC AATAAC AATAAC AATAAC AATAAC AATAAC AATAAC
* ** * ** ** * *
1667609 AATAAA AATAAAC AATAAC AATATT AACATT AATATT AACAAC AACAAC
1 AATAAC AAT-AAC AATAAC AATAAC AATAAC AATAAC AATAAC AATAAC
* * * * * * * *
1667658 AACAAC AATAAT AATATC AATAAT AACAAT AACAAC AATAAT AATAAC
1 AATAAC AATAAC AATAAC AATAAC AATAAC AATAAC AATAAC AATAAC
* * * * * *
1667706 AATAAA AATCAT AACAAC AATAAT AATAAC AATAAC AATAAT AATAAGAAC
1 AATAAC AATAAC AATAAC AATAAC AATAAC AATAAC AATAAC AAT---AAC
* * * * *
1667757 AATAAT AATAAC -ATAA- ATATAAC AGTAAC AACAAT AATAGC AAT---
1 AATAAC AATAAC AATAAC A-ATAAC AATAAC AATAAC AATAAC AATAAC
* *
1667801 AATAAC AATAAC AACAAC AATTACAAC AATAAC AATAAT AATAGCAAC
1 AATAAC AATAAC AATAAC AA-T--AAC AATAAC AATAAC AAT---AAC
*
1667849 AATAAT AATAAC AATAAC AA
1 AATAAC AATAAC AATAAC AA
1667869 CAATTACTAT
Statistics
Matches: 270, Mismatches: 58, Indels: 42
0.73 0.16 0.11
Matches are distributed among these distances:
3 3 0.01
5 12 0.04
6 230 0.85
7 9 0.03
8 1 0.00
9 15 0.06
ACGTcount: A:0.64, C:0.14, G:0.01, T:0.21
Consensus pattern (6 bp):
AATAAC
Found at i:1667534 original size:3 final size:3
Alignment explanation
Indices: 1667513--1667916 Score: 131
Period size: 3 Copynumber: 135.0 Consensus size: 3
1667503 CCCTTAAACC
* * * *
1667513 TAA TAA CAA TAA CAA TAA TAA TAA TAGA -AA TAA TAA CAA TAA -CA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
* * * * *
1667557 TCAA TAA T-A TAA TAA CAA CAA TAA TAA CAA TAA CAA TCA TAA TAA
1 T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * * * *
1667602 CAA TAA CAA TAA AAA TAAA CAA TAA CAA TAT TAA CAT TAA TAT TAA
1 TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * * *
1667648 CAA CAA CAA CAA CAA CAA TAA TAA T-A TCAA TAA TAA CAA TAA CAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
* * * * * * *
1667693 CAA TAA TAA TAA CAA TAA AAA TCA TAA CAA CAA TAA TAA TAA CAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * *
1667741 CAA TAA TAA TAA GAA CAA TAA TAA TAA -CA TAA -ATA TAA CAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
* * * * * * * * * * *
1667785 CAA CAA TAA TAG CAA TAA TAA CAA TAA CAA CAA CAA TTA CAA CAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * * *
1667833 CAA TAA TAA TAG CAA CAA TAA TAA TAA CAA TAA CAA CAA TTAC T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA
* ** *
1667878 TAA TAA TAA CAA CT-A TAA CGA TAA TAA TAA TAA AAA TAA
1 TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA
1667917 GGGTAAACTA
Statistics
Matches: 291, Mismatches: 95, Indels: 30
0.70 0.23 0.07
Matches are distributed among these distances:
2 10 0.03
3 272 0.93
4 9 0.03
ACGTcount: A:0.64, C:0.13, G:0.01, T:0.22
Consensus pattern (3 bp):
TAA
Found at i:1667901 original size:21 final size:21
Alignment explanation
Indices: 1667515--1667916 Score: 183
Period size: 21 Copynumber: 19.2 Consensus size: 21
1667505 CTTAAACCTA
* * *
1667515 ATAACAATAACAATAATAATA
1 ATAACAATAATAATAACAACA
* *
1667536 ATAGA-AATAATAACAATAAC-
1 ATA-ACAATAATAATAACAACA
*
1667556 ATCAATAAT-ATAATAACAACA
1 AT-AACAATAATAATAACAACA
* * * *
1667577 ATAATAACAATAACAATC-ATA
1 ATAACAATAATAATAA-CAACA
*
1667598 ATAACAATAACAAT-A-AA-A
1 ATAACAATAATAATAACAACA
* **
1667616 ATAAACAATAACAATATTAACA
1 AT-AACAATAATAATAACAACA
* * * * *
1667638 TTAATATTAACAACAACAACA
1 ATAACAATAATAATAACAACA
* * *
1667659 ACAACAATAATAATATCAATA
1 ATAACAATAATAATAACAACA
* * * *
1667680 ATAACAATAACAACAATAATA
1 ATAACAATAATAATAACAACA
* * *
1667701 ATAACAATAAAAATCATAACA
1 ATAACAATAATAATAACAACA
* * * *
1667722 ACAATAATAATAACAATAACA
1 ATAACAATAATAATAACAACA
* * * * *
1667743 ATAATAATAAGAACAATAATA
1 ATAACAATAATAATAACAACA
**
1667764 ATAAC-ATAA-ATATAACAGTA
1 ATAACAATAATA-ATAACAACA
* *
1667784 ACAACAATAATAGCAATAATAACA
1 ATAACAATAAT---AATAACAACA
* * *
1667808 ATAACAACAACAATTACAACA
1 ATAACAATAATAATAACAACA
*
1667829 ATAACAATAATAATAGCAACA
1 ATAACAATAATAATAACAACA
* *
1667850 ATAATAATAACAATAACAACA
1 ATAACAATAATAATAACAACA
* * *
1667871 ATTACTATAATAATAACAACT
1 ATAACAATAATAATAACAACA
* * *
1667892 ATAACGATAATAATAATAAAA
1 ATAACAATAATAATAACAACA
1667913 ATAA
1 ATAA
1667917 GGGTAAACTA
Statistics
Matches: 290, Mismatches: 74, Indels: 34
0.73 0.19 0.09
Matches are distributed among these distances:
18 3 0.01
19 14 0.05
20 32 0.11
21 222 0.77
22 4 0.01
24 14 0.05
25 1 0.00
ACGTcount: A:0.64, C:0.13, G:0.01, T:0.22
Consensus pattern (21 bp):
ATAACAATAATAATAACAACA
Found at i:1668468 original size:20 final size:20
Alignment explanation
Indices: 1668439--1668476 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1668429 AAAGCCACGA
*
1668439 ATATAATTTATAATTTTTAT
1 ATATAATTTAAAATTTTTAT
*
1668459 ATATATTTTAAAATTTTT
1 ATATAATTTAAAATTTTT
1668477 GTTAATGGGA
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:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
ATATAATTTAAAATTTTTAT
Found at i:1668669 original size:74 final size:74
Alignment explanation
Indices: 1668440--1669317 Score: 541
Period size: 75 Copynumber: 12.4 Consensus size: 74
1668430 AAGCCACGAA
* * * * *
1668440 TATAATTTATAAT-TTTTATATATATTTTAAAATTTTTGTTAATGGGAGAAATAATTTTTAATTT
1 TATAATTTACAATATTTT-TATATATTTT--ATTTTTTGTTAATGGAAGAAACAATTATTAATTT
1668504 TTATTTATTAA-
63 TTATTTATTAAC
* * * * ** * * *
1668515 AACTAATTTACAATTTTTTTATATATCTTAAATTTTTGTTAAAAGAAGAAATAATTCTTAATTTG
1 TA-TAATTTACAATATTTTTATATAT-TTTATTTTTTGTTAATGGAAGAAACAATTATTAATTTT
*
1668580 TATTTATTAAT
64 TATTTATTAAC
* * *
1668591 TATAATTTACAATATTTTTATATATTTTATTTTTTGTCAATGGAATAAACAATAATTAATTTTTA
1 TATAATTTACAATATTTTTATATATTTTATTTTTTGTTAATGGAAGAAACAATTATTAATTTTTA
*
1668656 TTTCTTAAC
66 TTTATTAAC
* ** *
1668665 TATAA-TT----TA----TATAT-TTTTAGTTTTCATTAATAGAAGAAACAATTA-TAA-TTTTA
1 TATAATTTACAATATTTTTATATATTTTATTTTTTGTTAATGGAAGAAACAATTATTAATTTTTA
1668718 TTTATTAAC
66 TTTATTAAC
* * * * * * ***
1668727 TATAATTTATAATATTTATT-T-TA-TTTA--TTTTATCAATGAAAGAAATATTTCCCAATTTTT
1 TATAATTTACAATATTT-TTATATATTTTATTTTTTGTTAATGGAAGAAACAATTATTAATTTTT
1668787 ATTTATTAAC
65 ATTTATTAAC
* * * * *
1668797 TATAATTTACAACATTTTTATATATTTTAATTTTT-TTAATGGAATATACAATAATTAATTTTTA
1 TATAATTTACAATATTTTTATATATTTTATTTTTTGTTAATGGAAGAAACAATTATTAATTTTTA
*
1668861 TTT-GT---
66 TTTATTAAC
* * * **
1668866 TATAATTT---ATA----TAT-TTTT--AGTTTTTGTTAATGAAAGAAATTATTATTAATTTTTA
1 TATAATTTACAATATTTTTATATATTTTATTTTTTGTTAATGGAAGAAACAATTATTAATTTTTA
*
1668921 TTTATTAAA
66 TTTATTAAC
* * * *
1668930 TATAATTTACAAAATTTTTATATATTTTTTATTTTTGTTAATGTAATAAAC--TTA-T--TTTTT
1 TATAATTTACAATATTTTTATATATTTTAT-TTTTTGTTAATGGAAGAAACAATTATTAATTTTT
** *
1668990 AACTA-TAATT
65 ATTTATTAA-C
** * * * * * * *
1669000 TATACATTT-TTATATATTT-T-TA----A-TTTTTGTCAATGAAACAGATAATTCTTAATTTTT
1 TATA-ATTTACAATATTTTTATATATTTTATTTTTTGTTAATGGAAGAAACAATTATTAATTTTT
1669057 ATTTATTAAC
65 ATTTATTAAC
* * *
1669067 TATAATTTA-AATTATTTTTATATATTTTTAATTTTTTGTTAATGTAATAAACAATAATTAATTT
1 TATAATTTACAA-TATTTTTATATA-TTTT-ATTTTTTGTTAATGGAAGAAACAATTATTAATTT
*
1669131 TTATTTGTTAAC
63 TTATTTATTAAC
* * ** * *
1669143 TATAATTTA-TATA-TTTTATATATTTTTAGTTTTCATTAATGGAAGAAAGAATTCTTAA-TTTT
1 TATAATTTACAATATTTTTATATA-TTTTATTTTTTGTTAATGGAAGAAACAATTATTAATTTTT
*
1669205 ATTTACTAAC
65 ATTTATTAAC
* * * *
1669215 TATAATTTATAATATTTTTATATATTTTTAATTTTTT-TTAATGAAAG-AACTAATTCTTACTTT
1 TATAATTTACAATATTTTTATATA-TTTT-ATTTTTTGTTAATGGAAGAAAC-AATTATTAATTT
1669278 TTATTTATTAAC
63 TTATTTATTAAC
* *
1669290 TATAATTTACAACATTTTTAAATATTTT
1 TATAATTTACAATATTTTTATATATTTT
1669318 TAATAGAATA
Statistics
Matches: 625, Mismatches: 116, Indels: 125
0.72 0.13 0.14
Matches are distributed among these distances:
59 6 0.01
60 26 0.04
61 4 0.01
62 36 0.06
63 5 0.01
64 34 0.05
65 6 0.01
66 7 0.01
67 22 0.04
68 23 0.04
69 20 0.03
70 53 0.08
71 10 0.02
72 31 0.05
73 55 0.09
74 95 0.15
75 122 0.20
76 64 0.10
77 6 0.01
ACGTcount: A:0.37, C:0.05, G:0.04, T:0.54
Consensus pattern (74 bp):
TATAATTTACAATATTTTTATATATTTTATTTTTTGTTAATGGAAGAAACAATTATTAATTTTTA
TTTATTAAC
Found at i:1668680 original size:63 final size:61
Alignment explanation
Indices: 1668607--1668748 Score: 169
Period size: 62 Copynumber: 2.3 Consensus size: 61
1668597 TTACAATATT
** * * *
1668607 TTTATATATTTTATTTTTTGTCAATGGAATAAACAATAATTAATTTTTATTTCTTAACTATAA
1 TTTATATATTTTATTTTTCATCAATAGAAGAAACAATAA-TAA-TTTTATTTATTAACTATAA
* * *
1668670 TTTATATATTTTTAGTTTTCATTAATAGAAGAAACAATTATAATTTTATTTATTAACTATAA
1 TTTATATA-TTTTATTTTTCATCAATAGAAGAAACAATAATAATTTTATTTATTAACTATAA
1668732 TTTATA-ATATTTATTTT
1 TTTATATAT-TTTATTTT
1668749 ATTTATTTTA
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
60 1 0.01
61 8 0.12
62 24 0.35
63 11 0.16
64 24 0.35
ACGTcount: A:0.37, C:0.05, G:0.04, T:0.54
Consensus pattern (61 bp):
TTTATATATTTTATTTTTCATCAATAGAAGAAACAATAATAATTTTATTTATTAACTATAA
Found at i:1668805 original size:132 final size:137
Alignment explanation
Indices: 1668553--1668805 Score: 317
Period size: 132 Copynumber: 1.9 Consensus size: 137
1668543 TAAATTTTTG
* * *
1668553 TTAAAAGAAGAAATAATTCTTAATTTGTATTTATTAATTATAATTTACAATATTTTTATATATTT
1 TTAAAAGAAGAAACAATTCATAATTTGTATTTATTAACTATAATTTACAATATTTTTATATATTT
* *
1668618 TATTTTTTGTCAATGGAATAAACAATAATTAATTTTTATTTCTTAACTATAATTTATATATTTTT
66 TA-TTTTTATCAATGGAATAAACAATAATTAATTTTTATTTATTAACTATAATTTATATATTTTT
1668683 AGTTTTCA
130 AGTTTTCA
* *
1668691 TTAATAGAAGAAACAATT-ATAATTT-TATTTATTAACTATAATTTATAATATTTATT-T-TA-T
1 TTAAAAGAAGAAACAATTCATAATTTGTATTTATTAACTATAATTTACAATATTT-TTATATATT
* *
1668751 TTA-TTTTATCAAT-GAA-AGA-AATATTTCCCAATTTTTATTTATTAACTATAATTTA
65 TTATTTTTATCAATGGAATAAACAATAATT---AATTTTTATTTATTAACTATAATTTA
1668806 CAACATTTTT
Statistics
Matches: 102, Mismatches: 9, Indels: 14
0.82 0.07 0.11
Matches are distributed among these distances:
129 6 0.06
130 2 0.02
131 3 0.03
132 34 0.33
134 4 0.04
135 2 0.02
136 27 0.26
137 8 0.08
138 16 0.16
ACGTcount: A:0.39, C:0.06, G:0.04, T:0.51
Consensus pattern (137 bp):
TTAAAAGAAGAAACAATTCATAATTTGTATTTATTAACTATAATTTACAATATTTTTATATATTT
TATTTTTATCAATGGAATAAACAATAATTAATTTTTATTTATTAACTATAATTTATATATTTTTA
GTTTTCA
Found at i:1668825 original size:206 final size:203
Alignment explanation
Indices: 1668560--1668938 Score: 550
Period size: 206 Copynumber: 1.9 Consensus size: 203
1668550 TTGTTAAAAG
** * *
1668560 AAGAAATAATTCTTAATTTGTATTTATTAATTATAATTTACAATATTTTTATATATTTT-ATTTT
1 AAGAAATAATTCCCAATTTGTATTTATTAACTATAATTTACAACATTTTTATATATTTTAATTTT
*
1668624 TTGTCAATGGAATAAACAATAATTAATTTTTATTTCTTAACTATAATTTATATATTTTTAGTTTT
66 TT-T-AATGGAATAAACAATAATTAATTTTTATTT-GT---TATAATTTATATATTTTTAGTTTT
*
1668689 CATTAAT-AGAAGAAACAATTA-TAA-TTTTATTTATTAACTATAATTTATAATATTTATTTTAT
125 CATTAATGA-AAGAAACAATTATTAATTTTTATTTATTAAATATAATTTATAATATTTATTTTAT
1668751 TTATTTTATCAATGA
189 TTATTTTATCAATGA
* *
1668766 AAGAAATATTTCCCAATTTTTATTTATTAACTATAATTTACAACATTTTTATATATTTTAATTTT
1 AAGAAATAATTCCCAATTTGTATTTATTAACTATAATTTACAACATTTTTATATATTTTAATTTT
* **
1668831 TTTAATGGAATATACAATAATTAATTTTTATTTGTTATAATTTATATATTTTTAGTTTTTGTTAA
66 TTTAATGGAATAAACAATAATTAATTTTTATTTGTTATAATTTATATATTTTTAGTTTTCATTAA
**
1668896 TGAAAGAAATTATTATTAATTTTTATTTATTAAATATAATTTA
131 TGAAAGAAACAATTATTAATTTTTATTTATTAAATATAATTTA
1668939 CAAAATTTTT
Statistics
Matches: 156, Mismatches: 13, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
201 39 0.25
202 4 0.03
203 22 0.14
204 1 0.01
205 29 0.19
206 54 0.35
207 7 0.04
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.53
Consensus pattern (203 bp):
AAGAAATAATTCCCAATTTGTATTTATTAACTATAATTTACAACATTTTTATATATTTTAATTTT
TTTAATGGAATAAACAATAATTAATTTTTATTTGTTATAATTTATATATTTTTAGTTTTCATTAA
TGAAAGAAACAATTATTAATTTTTATTTATTAAATATAATTTATAATATTTATTTTATTTATTTT
ATCAATGA
Found at i:1669061 original size:137 final size:137
Alignment explanation
Indices: 1668715--1669257 Score: 545
Period size: 137 Copynumber: 3.9 Consensus size: 137
1668705 AATTATAATT
*
1668715 TTATTTATTAACTATAATTTATA-ATATTTAT-T-TTATTT-A-TTTTATCAATGAAAGAAATAT
1 TTATTTATTAACTATAATTTATATATATTTATATATT-TTTAATTTTTATCAATGAAAGAAATAA
** *
1668775 TTCCCAATTTTTATTTATTAACTATAATTTACAACATTTTTATATA-TTTTAATTTTT-TTAATG
65 TTCTTAATTTTTATTTATTAACTATAATTTACAATATTTTTATATATTTTTAATTTTTGTTAATG
* *
1668838 GAATATAC
130 TAATAAAC
* * * * * * * * * *
1668846 --AATAATTAATTTTTATTTGT-TATAATTTATATATTTTTAGTTTTTGTTAATGAAAGAAATTA
1 TTATTTATTAACTATAATTTATATAT-ATTTATATATTTTTAATTTTTATCAATGAAAGAAATAA
* * * *
1668908 TTATTAATTTTTATTTATTAAATATAATTTACAAAATTTTTATATATTTTTTATTTTTGTTAATG
65 TTCTTAATTTTTATTTATTAACTATAATTTACAATATTTTTATATATTTTTAATTTTTGTTAATG
1668973 TAATAAAC
130 TAATAAAC
* * * * * *
1668981 TTATTTTTTAACTATAATTTATACATTTTTATATATTTTTAATTTTTGTCAATGAAACAGATAAT
1 TTATTTATTAACTATAATTTATATATATTTATATATTTTTAATTTTTATCAATGAAAGAAATAAT
1669046 TCTTAATTTTTATTTATTAACTATAATTTA-AATTATTTTTATATATTTTTAATTTTTTGTTAAT
66 TCTTAATTTTTATTTATTAACTATAATTTACAA-TATTTTTATATATTTTTAA-TTTTTGTTAAT
1669110 GTAATAAAC
129 GTAATAAAC
* * *
1669119 AATAATTAATTTTTATTTGTTAACTATAATTTATATAT-TTTATATATTTTTAGTTTTCATTAAT
1 -----TT-A--TTTA----TTAACTATAATTTATATATATTTATATATTTTTAATTTTTATCAAT
* * * *
1669183 GGAAGAAAGAATTCTTAA-TTTTATTTACTAACTATAATTTATAATATTTTTATATATTTTTAAT
54 GAAAGAAATAATTCTTAATTTTTATTTATTAACTATAATTTACAATATTTTTATATATTTTTAAT
*
1669247 TTTTTTTAATG
119 TTTTGTTAATG
1669258 AAAGAACTAA
Statistics
Matches: 337, Mismatches: 49, Indels: 36
0.80 0.12 0.09
Matches are distributed among these distances:
129 16 0.05
130 6 0.02
131 4 0.01
132 2 0.01
133 58 0.17
134 10 0.03
135 12 0.04
136 2 0.01
137 91 0.27
138 22 0.07
143 2 0.01
144 1 0.00
146 3 0.01
147 11 0.03
148 41 0.12
149 38 0.11
150 18 0.05
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (137 bp):
TTATTTATTAACTATAATTTATATATATTTATATATTTTTAATTTTTATCAATGAAAGAAATAAT
TCTTAATTTTTATTTATTAACTATAATTTACAATATTTTTATATATTTTTAATTTTTGTTAATGT
AATAAAC
Found at i:1669318 original size:65 final size:64
Alignment explanation
Indices: 1669238--1669362 Score: 155
Period size: 65 Copynumber: 1.9 Consensus size: 64
1669228 ATTTTTATAT
* * **
1669238 ATTTTTAATTTTTTTTAAT-GAA-AGAACTAATTCTTACTTTTTATTTATTAACTATAATTTACA
1 ATTTTTAAATATTTTTAATAGAATA-AA-TAATTCTTA-AATTTATTTATTAACTATAATTTACA
1669301 AC
63 AC
* *
1669303 ATTTTTAAATATTTTTAATAGAATAAATATTTCTTAAATTTATTTATTAATTATAATTTA
1 ATTTTTAAATATTTTTAATAGAATAAATAATTCTTAAATTTATTTATTAACTATAATTTA
1669363 ATAGTTATAT
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
64 21 0.40
65 25 0.48
66 5 0.10
67 1 0.02
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (64 bp):
ATTTTTAAATATTTTTAATAGAATAAATAATTCTTAAATTTATTTATTAACTATAATTTACAAC
Found at i:1670090 original size:3 final size:3
Alignment explanation
Indices: 1670066--1670200 Score: 83
Period size: 3 Copynumber: 44.7 Consensus size: 3
1670056 TTACCCTAAA
* * * **
1670066 AAT AAT AAA AAT AATT ATT AAT AAT AAC AAT AAT AGC AAT AAT AAT
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * *
1670112 AAC AAT AAC AAC AAC AAC AAT AGT AAT GAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
1670160 AAT GAC AAT AAT TAC AAT -AT AAT CAAT AAC AAC AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AA
1670201 CAAGGCTTAA
Statistics
Matches: 101, Mismatches: 28, Indels: 6
0.75 0.21 0.04
Matches are distributed among these distances:
2 2 0.02
3 94 0.93
4 5 0.05
ACGTcount: A:0.62, C:0.09, G:0.03, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:1670202 original size:9 final size:9
Alignment explanation
Indices: 1670066--1670203 Score: 107
Period size: 9 Copynumber: 15.2 Consensus size: 9
1670056 TTACCCTAAA
*
1670066 AATAATAAA
1 AATAATAAC
**
1670075 AATAATTATT
1 AATAA-TAAC
1670085 AATAATAAC
1 AATAATAAC
*
1670094 AATAATAGC
1 AATAATAAC
*
1670103 AATAATAAT
1 AATAATAAC
*
1670112 AACAATAAC
1 AATAATAAC
* *
1670121 AACAACAAC
1 AATAATAAC
* *
1670130 AATAGTAAT
1 AATAATAAC
* *
1670139 GATAATAAT
1 AATAATAAC
*
1670148 AATAATAAT
1 AATAATAAC
*
1670157 AATAATGAC
1 AATAATAAC
*
1670166 AATAATTAC
1 AATAATAAC
1670175 AAT-ATAATC
1 AATAATAA-C
*
1670184 AATAACAAC
1 AATAATAAC
1670193 AATAATAAC
1 AATAATAAC
1670202 AA
1 AA
1670204 GGCTTAAGGG
Statistics
Matches: 103, Mismatches: 23, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
8 3 0.03
9 90 0.87
10 10 0.10
ACGTcount: A:0.62, C:0.09, G:0.03, T:0.25
Consensus pattern (9 bp):
AATAATAAC
Found at i:1670543 original size:15 final size:15
Alignment explanation
Indices: 1670520--1671166 Score: 320
Period size: 15 Copynumber: 44.0 Consensus size: 15
1670510 CCCTTGAACC
*
1670520 TAATAACAATTATAA
1 TAATAACAATAATAA
*
1670535 TAATGACAATAATAA
1 TAATAACAATAATAA
* *
1670550 CAATAACAATAAGAA
1 TAATAACAATAATAA
* * *
1670565 CAATAATAACAATAA
1 TAATAACAATAATAA
* * *
1670580 TGATATCAATAATAG
1 TAATAACAATAATAA
* *
1670595 CAATAA-TATCAATAA
1 TAATAACAAT-AATAA
*
1670610 TGATAACAATAATAA
1 TAATAACAATAATAA
* **
1670625 CAATAACAATAGCAA
1 TAATAACAATAATAA
1670640 TAATAAC---AATAA
1 TAATAACAATAATAA
* *
1670652 CAACAACAATAATAA
1 TAATAACAATAATAA
* *
1670667 CAATAACAATAAAAA
1 TAATAACAATAATAA
**
1670682 GT-ATAACAA-CCT--
1 -TAATAACAATAATAA
*
1670694 TAAGAACAATAAT-A
1 TAATAACAATAATAA
**
1670708 TCAATAATGATAATAA
1 T-AATAACAATAATAA
1670724 TAATAAC--T-ATAA
1 TAATAACAATAATAA
1670736 TAATAACAATAATAA
1 TAATAACAATAATAA
* * * *
1670751 CAACAAAAATCATAA
1 TAATAACAATAATAA
* * *
1670766 CAACAACAATAAGAA
1 TAATAACAATAATAA
* * * * *
1670781 GAAGAAGAAGAACAA
1 TAATAACAATAATAA
*
1670796 TAATAACAATATTAA
1 TAATAACAATAATAA
*
1670811 CAATAACAATAATAA
1 TAATAACAATAATAA
* *
1670826 CAAT---GATAATAA
1 TAATAACAATAATAA
*
1670838 CAATAAC--T-ATAA
1 TAATAACAATAATAA
* ** *
1670850 TAATAGCAGCAACAA
1 TAATAACAATAATAA
* * * *
1670865 CAACAAAAATAACT-G
1 TAATAACAATAA-TAA
*
1670880 TAATAACAACAATAA
1 TAATAACAATAATAA
1670895 TAATAACAATAATAA
1 TAATAACAATAATAA
* * *
1670910 TAGTATAATAACAATTA
1 TA--ATAACAATAATAA
*
1670927 TAAAAACAATAATTAA
1 TAATAACAATAA-TAA
*
1670943 TAATAACAAAAATAA
1 TAATAACAATAATAA
*
1670958 TAATAATAATAATAA
1 TAATAACAATAATAA
* *
1670973 TAATAACAACAACAA
1 TAATAACAATAATAA
*
1670988 TAATAACAATAAAAA
1 TAATAACAATAATAA
* * *
1671003 TCATAACAACAACAA
1 TAATAACAATAATAA
*
1671018 TAAGAACAATAAT-A
1 TAATAACAATAATAA
1671032 TCAAT---AATAATAA
1 T-AATAACAATAATAA
* * *
1671045 AAATAA-TATAACAA
1 TAATAACAATAATAA
*
1671059 TATTAACAATAATAA
1 TAATAACAATAATAA
*
1671074 CAATAACAATAATAAAA
1 TAATAACAATAAT--AA
*
1671091 TAATAATAATAATAA
1 TAATAACAATAATAA
*
1671106 TAATAACAAAAATAA
1 TAATAACAATAATAA
1671121 -AATAA-AATAATAGCAA
1 TAATAACAATAAT---AA
* *
1671137 TATTAACAATAACAA
1 TAATAACAATAATAA
* *
1671152 CAACAACAATAATAA
1 TAATAACAATAATAA
1671167 CAAGAAAAAT
Statistics
Matches: 468, Mismatches: 127, Indels: 74
0.70 0.19 0.11
Matches are distributed among these distances:
11 1 0.00
12 54 0.12
13 9 0.02
14 22 0.05
15 330 0.71
16 18 0.04
17 29 0.06
18 5 0.01
ACGTcount: A:0.64, C:0.11, G:0.03, T:0.22
Consensus pattern (15 bp):
TAATAACAATAATAA
Found at i:1670548 original size:3 final size:3
Alignment explanation
Indices: 1670520--1671132 Score: 235
Period size: 3 Copynumber: 205.7 Consensus size: 3
1670510 CCCTTGAACC
* * * * * * * *
1670520 TAA TAA CAA TTA TAA TAA TGA CAA TAA TAA CAA TAA CAA TAA GAA CAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
1670568 TAA TAA CAA TAA TGA T-A TCAA TAA TAG CAA TAA T-A TCAA TAA TGA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA T-AA TAA TAA
* * * * * * * * *
1670613 TAA CAA TAA TAA CAA TAA CAA TAG CAA TAA TAA CAA TAA CAA CAA CAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *** * *
1670661 TAA TAA CAA TAA CAA TAA AAA GT-A TAA CAA CCT TAA GAA CAA TAA
1 TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA
* *
1670706 T-A TCAA TAA TGA TAA TAA TAA TAA CT-A TAA TAA TAA CAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA
* * * * * * * * * * * * *
1670751 CAA CAA AAA TCA TAA CAA CAA CAA TAA GAA GAA GAA GAA GAA CAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * *
1670799 TAA CAA TAT TAA CAA TAA CAA TAA TAA CAA TGA TAA TAA CAA TAA CT-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
* * * * * * * * * * *
1670847 TAA TAA TAG CAG CAA CAA CAA CAA AAA TAA CT-G TAA TAA CAA CAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA
* * * * * *
1670892 TAA TAA TAA CAA TAA TAA TAG T-A TAA TAA CAA TTA TAA AAA CAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
1670939 TTAA TAA TAA CAA AAA TAA TAA TAA TAA TAA TAA TAA TAA CAA CAA
1 -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * * * *
1670985 CAA TAA TAA CAA TAA AAA TCA TAA CAA CAA CAA TAA GAA CAA TAA T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
1671032 TCAA TAA TAA TAA AAA TAA T-A TAA CAA TAT TAA CAA TAA TAA CAA
1 T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
1671077 TAA CAA TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA CAA AAA TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1671123 TAA -AA TAA TA
1 TAA TAA TAA TA
1671133 GCAATATTAA
Statistics
Matches: 456, Mismatches: 132, Indels: 44
0.72 0.21 0.07
Matches are distributed among these distances:
2 21 0.05
3 421 0.92
4 14 0.03
ACGTcount: A:0.64, C:0.11, G:0.03, T:0.22
Consensus pattern (3 bp):
TAA
Found at i:1671169 original size:9 final size:9
Alignment explanation
Indices: 1670533--1671154 Score: 265
Period size: 9 Copynumber: 68.2 Consensus size: 9
1670523 TAACAATTAT
*
1670533 AATAATGAC
1 AATAATAAC
1670542 AATAATAAC
1 AATAATAAC
1670551 ---AATAAC
1 AATAATAAC
*
1670557 AATAAGAAC
1 AATAATAAC
1670566 AATAATAAC
1 AATAATAAC
1670575 AATAATGATATC
1 AATAAT-A-A-C
*
1670587 AATAATAGC
1 AATAATAAC
*
1670596 AATAATATC
1 AATAATAAC
1670605 AATAATGATAAC
1 AAT-A--ATAAC
1670617 AATAATAAC
1 AATAATAAC
*
1670626 AATAACAATAGC
1 AAT---AATAAC
1670638 AATAATAAC
1 AATAATAAC
*
1670647 AATAACAAC
1 AATAATAAC
* *
1670656 AACAATAAT
1 AATAATAAC
*
1670665 AACAATAAC
1 AATAATAAC
* *
1670674 AATAAAAAG
1 AATAATAAC
* *
1670683 TATAACAAC
1 AATAATAAC
** *
1670692 CTTAAGAAC
1 AATAATAAC
*
1670701 AATAATATC
1 AATAATAAC
*
1670710 AATAATGATAAT
1 AAT-A--ATAAC
1670722 AATAATAAC
1 AATAATAAC
1670731 TATAATAATAAC
1 ---AATAATAAC
1670743 AATAATAAC
1 AATAATAAC
*
1670752 AA-CA-AA-
1 AATAATAAC
*
1670758 AATCATAAC
1 AATAATAAC
* * *
1670767 AACAACAAT
1 AATAATAAC
* * *
1670776 AAGAAGAAG
1 AATAATAAC
* *
1670785 AAGAAGAAC
1 AATAATAAC
1670794 AATAATAAC
1 AATAATAAC
*
1670803 AATATTAAC
1 AATAATAAC
* *
1670812 AATAACAAT
1 AATAATAAC
* *
1670821 AATAACAAT
1 AATAATAAC
*
1670830 GATAATAAC
1 AATAATAAC
*
1670839 AATAACT-AT
1 AATAA-TAAC
1670848 AATAATAGCAGC
1 AATAATA--A-C
* *
1670860 AACAACAAC
1 AATAATAAC
*
1670869 AAAAATAAC
1 AATAATAAC
**
1670878 TGTAATAAC
1 AATAATAAC
*
1670887 AACAAT---
1 AATAATAAC
1670893 AATAATAAC
1 AATAATAAC
*
1670902 AATAATAAT
1 AATAATAAC
1670911 AGTATAATAAC
1 A--ATAATAAC
* *
1670922 AATTATAAA
1 AATAATAAC
* *
1670931 AACAATAATT
1 AATAATAA-C
1670941 AATAATAAC
1 AATAATAAC
* *
1670950 AAAAATAAT
1 AATAATAAC
*
1670959 AATAATAAT
1 AATAATAAC
*
1670968 AATAATAAT
1 AATAATAAC
* *
1670977 AACAACAAC
1 AATAATAAC
1670986 AATAATAAC
1 AATAATAAC
*
1670995 AATAAAAATC
1 AATAATAA-C
* *
1671005 ATAACAACAAC
1 --AATAATAAC
*
1671016 AATAAGAAC
1 AATAATAAC
*
1671025 AATAATATC
1 AATAATAAC
1671034 AATAAT---
1 AATAATAAC
* *
1671040 AATAAAAAT
1 AATAATAAC
1671049 AAT-ATAAC
1 AATAATAAC
*
1671057 AATATTAAC
1 AATAATAAC
1671066 AATAATAAC
1 AATAATAAC
1671075 ---AATAAC
1 AATAATAAC
1671081 AATAATAA-
1 AATAATAAC
*
1671089 AATAATAAT
1 AATAATAAC
*
1671098 AATAATAAT
1 AATAATAAC
* *
1671107 AATAACAAA
1 AATAATAAC
1671116 AATAAAATAA-
1 AAT--AATAAC
*
1671126 AATAATAGC
1 AATAATAAC
*
1671135 AATATTAAC
1 AATAATAAC
*
1671144 AATAACAAC
1 AATAATAAC
1671153 AA
1 AA
1671155 CAACAATAAT
Statistics
Matches: 469, Mismatches: 98, Indels: 92
0.71 0.15 0.14
Matches are distributed among these distances:
6 24 0.05
7 4 0.01
8 22 0.05
9 337 0.72
10 16 0.03
11 18 0.04
12 48 0.10
ACGTcount: A:0.64, C:0.11, G:0.03, T:0.22
Consensus pattern (9 bp):
AATAATAAC
Found at i:1671324 original size:22 final size:18
Alignment explanation
Indices: 1671280--1671314 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
1671270 AAGTATAAGG
1671280 ATTTATTTAAAATTAATA
1 ATTTATTTAAAATTAATA
1671298 ATTTATTTAAAATTAAT
1 ATTTATTTAAAATTAAT
1671315 TATAATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTTATTTAAAATTAATA
Found at i:1671332 original size:15 final size:15
Alignment explanation
Indices: 1671314--1671349 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
1671304 TTAAAATTAA
1671314 TTATAATTTTAACTT
1 TTATAATTTTAACTT
1671329 TTATAATTTTAACTT
1 TTATAATTTTAACTT
1671344 TTATAA
1 TTATAA
1671350 CTTAAAAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (15 bp):
TTATAATTTTAACTT
Found at i:1671879 original size:18 final size:18
Alignment explanation
Indices: 1671856--1671893 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
1671846 TATTAAAATT
1671856 ATAATTAAATTTT-AATAA
1 ATAATT-AATTTTAAATAA
1671874 ATAATTAATTTTAAATAA
1 ATAATTAATTTTAAATAA
1671892 AT
1 AT
1671894 CCTTATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAATTAATTTTAAATAA
Found at i:1672027 original size:21 final size:21
Alignment explanation
Indices: 1672008--1672051 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
1671998 TATCCATAAC
* *
1672008 AACAACAATAATAATAATAAT
1 AACAACAACAATAAGAATAAT
1672029 AACAACAACAATAAGAATAAT
1 AACAACAACAATAAGAATAAT
1672050 AA
1 AA
1672052 TAATTGTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.68, C:0.11, G:0.02, T:0.18
Consensus pattern (21 bp):
AACAACAACAATAAGAATAAT
Found at i:1672035 original size:24 final size:24
Alignment explanation
Indices: 1672003--1672054 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
1671993 AGGCTTATCC
*
1672003 ATAACAACAACAATAATAATAATA
1 ATAACAACAACAATAAGAATAATA
1672027 ATAACAACAACAATAAGAATAATA
1 ATAACAACAACAATAAGAATAATA
1672051 ATAA
1 ATAA
1672055 TTGTTGTAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.67, C:0.12, G:0.02, T:0.19
Consensus pattern (24 bp):
ATAACAACAACAATAAGAATAATA
Found at i:1683390 original size:65 final size:67
Alignment explanation
Indices: 1683300--1683486 Score: 195
Period size: 67 Copynumber: 2.8 Consensus size: 67
1683290 TGAGATTAAT
* * * * *
1683300 TTTGTTTCAAGTGAAACAA-CTTCAAA-ATT-TGGGTTCTAGGGAAACTGTCTCAAGCGAGATGG
1 TTTGTTTCGAGAGAAACAATC-TCAAAGATTAT-GGTTCAAGAGAAACTGTCTCAAGCGAGATGA
1683362 AAC-
64 AACA
* * * *
1683365 TTTGTTTCGAGAGAAACAATCTCAAAGGCTTATGTTTCAAGAGAAATTGTTTCAAGCGAGATGAA
1 TTTGTTTCGAGAGAAACAATCTCAAA-GATTATGGTTCAAGAGAAACTGTCTCAAGCGAGATGAA
1683430 ACA
65 ACA
* * *
1683433 TTT-TTTGGAGAGAAACAATCTCAAAGGTTTATGTTTCAAGAGAAACTGTCTCAA
1 TTTGTTTCGAGAGAAACAATCTCAAA-GATTATGGTTCAAGAGAAACTGTCTCAA
1683487 ACAAGATAAA
Statistics
Matches: 104, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
65 22 0.21
66 1 0.01
67 77 0.74
68 4 0.04
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (67 bp):
TTTGTTTCGAGAGAAACAATCTCAAAGATTATGGTTCAAGAGAAACTGTCTCAAGCGAGATGAAA
CA
Found at i:1683444 original size:67 final size:67
Alignment explanation
Indices: 1683340--1683486 Score: 233
Period size: 67 Copynumber: 2.2 Consensus size: 67
1683330 GGGTTCTAGG
*
1683340 GAAACTGTCTCAAGCGAGATGGAACTTTGTTTCGAGAGAAACAATCTCAAAGGCTTATGTTTCAA
1 GAAACTGTCTCAAGCGAGATGAAACTTTGTTTCGAGAGAAACAATCTCAAAGGCTTATGTTTCAA
1683405 GA
66 GA
* * * *
1683407 GAAATTGTTTCAAGCGAGATGAAACATTT-TTTGGAGAGAAACAATCTCAAAGGTTTATGTTTCA
1 GAAACTGTCTCAAGCGAGATGAAAC-TTTGTTTCGAGAGAAACAATCTCAAAGGCTTATGTTTCA
1683471 AGA
65 AGA
1683474 GAAACTGTCTCAA
1 GAAACTGTCTCAA
1683487 ACAAGATAAA
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
67 69 0.96
68 3 0.04
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (67 bp):
GAAACTGTCTCAAGCGAGATGAAACTTTGTTTCGAGAGAAACAATCTCAAAGGCTTATGTTTCAA
GA
Found at i:1685787 original size:23 final size:23
Alignment explanation
Indices: 1685757--1685802 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
1685747 CTGAAGGACT
1685757 ACATATATATCCCAAAAGACCAC
1 ACATATATATCCCAAAAGACCAC
* *
1685780 ACATATATATCCCGAAGGACCAC
1 ACATATATATCCCAAAAGACCAC
1685803 TCCTTAAGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.43, C:0.30, G:0.09, T:0.17
Consensus pattern (23 bp):
ACATATATATCCCAAAAGACCAC
Found at i:1694992 original size:4 final size:4
Alignment explanation
Indices: 1694983--1695025 Score: 50
Period size: 4 Copynumber: 9.8 Consensus size: 4
1694973 GCATTTTATA
1694983 AAAT AAAT AAAT AAAT AAAT AATAT CAAAT GAAAT AGAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AA-AT -AAAT -AAAT A-AAT AAA
1695026 AATTAATAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
4 21 0.60
5 12 0.34
6 2 0.06
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:1695018 original size:27 final size:26
Alignment explanation
Indices: 1694983--1695033 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
1694973 GCATTTTATA
1694983 AAATAAATA-AATAAATAAATAATATC
1 AAATAAATAGAATAAA-AAATAATATC
*
1695009 AAATGAAATAGAATAAAAATTAATA
1 AAAT-AAATAGAATAAAAAATAATA
1695034 ATATATAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 4 0.18
27 12 0.55
28 6 0.27
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (26 bp):
AAATAAATAGAATAAAAAATAATATC
Found at i:1698381 original size:55 final size:55
Alignment explanation
Indices: 1698318--1698524 Score: 276
Period size: 55 Copynumber: 3.8 Consensus size: 55
1698308 CAAATTTCTA
1698318 TATTGGCACTATGTGTGCAACCTCATGAAATTCATAATGAGTTTATGAATTTTTG
1 TATTGGCACTATGTGTGCAACCTCATGAAATTCATAATGAGTTTATGAATTTTTG
** * *
1698373 TATTGGCACTATGTGTGCAACCTCGCGAAATTCATAATAAGTTTATGGATTTTTG
1 TATTGGCACTATGTGTGCAACCTCATGAAATTCATAATGAGTTTATGAATTTTTG
* * **
1698428 TATTAGCACTATGTGTGCAACCCCAT-AAATTCATAATGAGTTTATGAATTTCCG
1 TATTGGCACTATGTGTGCAACCTCATGAAATTCATAATGAGTTTATGAATTTTTG
* * *
1698482 TATCGGCACTATGTGTACAAAAC-CATGGAAATT-ATAATGAGTT
1 TATTGGCACTATGTGTGC-AACCTCAT-GAAATTCATAATGAGTT
1698525 GTAATATTCA
Statistics
Matches: 133, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
54 42 0.32
55 86 0.65
56 5 0.04
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (55 bp):
TATTGGCACTATGTGTGCAACCTCATGAAATTCATAATGAGTTTATGAATTTTTG
Found at i:1701141 original size:14 final size:14
Alignment explanation
Indices: 1701122--1701173 Score: 61
Period size: 14 Copynumber: 3.7 Consensus size: 14
1701112 GACCCGAACT
1701122 GAGTCAACTCGTCC
1 GAGTCAACTCGTCC
* *
1701136 GAGTCAATTCGTTC
1 GAGTCAACTCGTCC
*
1701150 GAGTCAACTTG-CC
1 GAGTCAACTCGTCC
1701163 TGAGTCAACTC
1 -GAGTCAACTC
1701174 ATCTAAGTCC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
13 1 0.03
14 30 0.97
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (14 bp):
GAGTCAACTCGTCC
Found at i:1710745 original size:45 final size:47
Alignment explanation
Indices: 1710689--1710794 Score: 146
Period size: 46 Copynumber: 2.3 Consensus size: 47
1710679 TTAAAATAAG
* * *
1710689 TATTTAAAATATATTA-TTTTTATTTAAATATTTAAAATA-TTTT-T
1 TATTTAAAATATATCATTTTTTATCTAAATACTTAAAATACTTTTAT
1710733 TAATTTAAAATATATCATTTTTTATCTAAATACTTAAAATACTTTTAT
1 T-ATTTAAAATATATCATTTTTTATCTAAATACTTAAAATACTTTTAT
*
1710781 TATTCAAAATATAT
1 TATTTAAAATATAT
1710795 ACCTAAAATA
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
44 1 0.02
45 14 0.26
46 21 0.39
47 16 0.30
48 2 0.04
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (47 bp):
TATTTAAAATATATCATTTTTTATCTAAATACTTAAAATACTTTTAT
Found at i:1710747 original size:28 final size:31
Alignment explanation
Indices: 1710677--1710747 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 31
1710667 TCAAAAAATT
*
1710677 ATTTAAAATAAGTATTTAAAATATATTATTTTT
1 ATTTAAAAT-A-TATTTAAAATATATTATTTTA
1710710 ATTT--AA-ATATTT-AAA-ATATT-TTTTA
1 ATTTAAAATATATTTAAAATATATTATTTTA
1710735 ATTTAAAATATAT
1 ATTTAAAATATAT
1710748 CATTTTTTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 11
0.74 0.02 0.24
Matches are distributed among these distances:
25 8 0.24
26 5 0.15
27 5 0.15
28 9 0.26
29 1 0.03
31 2 0.06
33 4 0.12
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (31 bp):
ATTTAAAATATATTTAAAATATATTATTTTA
Found at i:1711313 original size:13 final size:13
Alignment explanation
Indices: 1711295--1711319 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1711285 CTTAGGTCAT
1711295 TGTTTAAGTTTGA
1 TGTTTAAGTTTGA
1711308 TGTTTAAGTTTG
1 TGTTTAAGTTTG
1711320 TTCCAGGCTG
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:0.20, C:0.00, G:0.24, T:0.56
Consensus pattern (13 bp):
TGTTTAAGTTTGA
Found at i:1723755 original size:3 final size:3
Alignment explanation
Indices: 1723747--1723776 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
1723737 AATTAAAAAT
1723747 ATA ATA ATA ATA ATA ATAA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA AT
1723777 TTTTTGAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1723770 original size:16 final size:17
Alignment explanation
Indices: 1723744--1723776 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
1723734 ACGAATTAAA
1723744 AATATAATAATAATAAT
1 AATATAATAATAATAAT
1723761 AATA-AATAATAATAAT
1 AATATAATAATAATAAT
1723777 TTTTTGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AATATAATAATAATAAT
Found at i:1730436 original size:31 final size:30
Alignment explanation
Indices: 1730401--1730523 Score: 104
Period size: 31 Copynumber: 4.1 Consensus size: 30
1730391 CAATGTGTAA
*
1730401 TTTATTTAGATTTTAAGAGTTAAATTAATAT
1 TTTATTTAAATTTT-AGAGTTAAATTAATAT
* * *
1730432 TTTATATGAAATTTTAGAATTAAATTAGTAT
1 TTTAT-TTAAATTTTAGAGTTAAATTAATAT
* * * *
1730463 GTTATGTAAACTTTA-AGTCAAATTAATAT
1 TTTATTTAAATTTTAGAGTTAAATTAATAT
* * * * *
1730492 TTTGTCTAAATGTAAGAGTTAAATTAAAAT
1 TTTATTTAAATTTTAGAGTTAAATTAATAT
1730522 TT
1 TT
1730524 AATTATTTTT
Statistics
Matches: 71, Mismatches: 19, Indels: 5
0.75 0.20 0.05
Matches are distributed among these distances:
29 20 0.28
30 21 0.30
31 23 0.32
32 7 0.10
ACGTcount: A:0.41, C:0.02, G:0.11, T:0.46
Consensus pattern (30 bp):
TTTATTTAAATTTTAGAGTTAAATTAATAT
Found at i:1734649 original size:21 final size:19
Alignment explanation
Indices: 1734624--1734673 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 19
1734614 ATATTATAAA
1734624 AATAATAATAACAGTG-TGAT
1 AATAATAATAA-A-TGATGAT
1734644 ATATAATAATAAATGATGAT
1 A-ATAATAATAAATGATGAT
1734664 AATAATAATA
1 AATAATAATA
1734674 TAAGTAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 11 0.39
20 7 0.25
21 10 0.36
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (19 bp):
AATAATAATAAATGATGAT
Found at i:1734652 original size:3 final size:3
Alignment explanation
Indices: 1734646--1734816 Score: 86
Period size: 3 Copynumber: 55.7 Consensus size: 3
1734636 AGTGTGATAT
* * **
1734646 ATA ATA ATAA ATG ATG ATA ATA ATA AT- ATA AGTA AT- ATA CGA A-A
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA
* *
1734690 TTA ATA ATA AGAA ATA ATA ATA AT- ATA ATA ATA ATA GATA ATA CA-A
1 ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA -ATA
* * * * *
1734736 ATA CTA ATAA ATA ATA CTAA ATA AAA ATA ATTA ATA ATA ATG ATA AGGA
1 ATA ATA AT-A ATA ATA AT-A ATA ATA ATA A-TA ATA ATA ATA ATA A-TA
*
1734785 A-A A-A ATA ATA CAAA ATA ATA ATA ATA TATA AT
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA -ATA AT
1734817 GATATAACCA
Statistics
Matches: 131, Mismatches: 20, Indels: 34
0.71 0.11 0.18
Matches are distributed among these distances:
2 12 0.09
3 92 0.70
4 27 0.21
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:1734683 original size:9 final size:8
Alignment explanation
Indices: 1734665--1734774 Score: 53
Period size: 7 Copynumber: 14.1 Consensus size: 8
1734655 AATGATGATA
1734665 ATAATAAT
1 ATAATAAT
1734673 ATAAGTAAT
1 ATAA-TAAT
1734682 ATACGA-AAT
1 ATA--ATAAT
1734691 -TAATAAT
1 ATAATAAT
1734698 A-AGA-AAT
1 ATA-ATAAT
1734705 AATAATAAT
1 -ATAATAAT
1734714 ATAATAAT
1 ATAATAAT
1734722 AATAGATAAT
1 -ATA-ATAAT
*
1734732 A-CA-AAT
1 ATAATAAT
1734738 ACTAATAA-
1 A-TAATAAT
*
1734746 ATAATACT
1 ATAATAAT
1734754 A-AATAA-
1 ATAATAAT
1734760 A-AATAAT
1 ATAATAAT
1734767 -TAATAAT
1 ATAATAAT
1734774 A
1 A
1734775 ATGATAAGGA
Statistics
Matches: 80, Mismatches: 4, Indels: 36
0.67 0.03 0.30
Matches are distributed among these distances:
6 11 0.14
7 23 0.29
8 20 0.25
9 20 0.25
10 5 0.06
11 1 0.01
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.30
Consensus pattern (8 bp):
ATAATAAT
Found at i:1734710 original size:16 final size:15
Alignment explanation
Indices: 1734691--1734810 Score: 73
Period size: 16 Copynumber: 7.5 Consensus size: 15
1734681 TATACGAAAT
1734691 TAATAATAAGAAATAA
1 TAATAATAA-AAATAA
1734707 TAATAATATAATAATAA
1 TAATAATA-AA-AATAA
* *
1734724 TAGATAATACAAATAC
1 TA-ATAATAAAAATAA
* *
1734740 TAATAAATAATACTAAA
1 TAAT-AATAAAAAT-AA
* *
1734757 TAAAAATAATTAATAA
1 TAATAATAA-AAATAA
* *
1734773 TAATGATAAGGAA-AA
1 TAATAATAA-AAATAA
1734788 -AATAATACAAAATAA
1 TAATAATA-AAAATAA
1734803 TAATAATA
1 TAATAATA
1734811 TATAATGATA
Statistics
Matches: 81, Mismatches: 14, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
14 8 0.10
15 7 0.09
16 44 0.54
17 16 0.20
18 6 0.07
ACGTcount: A:0.65, C:0.03, G:0.04, T:0.28
Consensus pattern (15 bp):
TAATAATAAAAATAA
Found at i:1734743 original size:19 final size:18
Alignment explanation
Indices: 1734702--1734771 Score: 70
Period size: 19 Copynumber: 3.7 Consensus size: 18
1734692 AATAATAAGA
*
1734702 AATAATAATAATA-TAAT
1 AATAATAATAATACAAAT
1734719 AATAATAGATAATACAAAT
1 AATAATA-ATAATACAAAT
*
1734738 ACTAATAAATAATACTAAAT
1 AATAAT-AATAATAC-AAAT
*
1734758 AAAAATAATTAATA
1 AATAATAA-TAATA
1734772 ATAATGATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
17 7 0.16
18 6 0.14
19 17 0.39
20 14 0.32
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.30
Consensus pattern (18 bp):
AATAATAATAATACAAAT
Found at i:1734747 original size:10 final size:10
Alignment explanation
Indices: 1734646--1734808 Score: 88
Period size: 10 Copynumber: 16.0 Consensus size: 10
1734636 AGTGTGATAT
1734646 ATAATAATAA
1 ATAATAATAA
* *
1734656 ATGATGAT-A
1 ATAATAATAA
1734665 ATAATAATATA
1 ATAATAATA-A
*
1734676 AGTAATATACGAA
1 A-TAATA-A-TAA
1734689 ATTAATAATAA
1 A-TAATAATAA
1734700 GA-AATAAT-A
1 -ATAATAATAA
1734709 ATAAT-AT-A
1 ATAATAATAA
*
1734717 ATAATAATAG
1 ATAATAATAA
*
1734727 ATAAT-ACAA
1 ATAATAATAA
*
1734736 ATACTAATAA
1 ATAATAATAA
*
1734746 ATAATACTAA
1 ATAATAATAA
*
1734756 ATAAAAATAA
1 ATAATAATAA
*
1734766 TTAATAATAA
1 ATAATAATAA
* *
1734776 TGATAAGGAAAAA
1 --ATAA-TAATAA
1734789 ATAATACA-AA
1 ATAATA-ATAA
1734799 ATAATAATAA
1 ATAATAATAA
1734809 TATATAATGA
Statistics
Matches: 116, Mismatches: 22, Indels: 30
0.69 0.13 0.18
Matches are distributed among these distances:
8 9 0.08
9 20 0.17
10 55 0.47
11 9 0.08
12 10 0.09
13 12 0.10
14 1 0.01
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.28
Consensus pattern (10 bp):
ATAATAATAA
Found at i:1734815 original size:13 final size:13
Alignment explanation
Indices: 1734642--1734816 Score: 63
Period size: 13 Copynumber: 12.7 Consensus size: 13
1734632 TAACAGTGTG
1734642 ATATATAATAATAA
1 ATATATAATAAT-A
1734656 ATGATGATAATAATA
1 AT-AT-ATAATAATA
1734671 ATATAAGTAAT-ATA
1 ATAT-A-TAATAATA
*
1734685 CGAAAT-TAATAATA
1 --ATATATAATAATA
* *
1734699 AGAAATAATAATA
1 ATATATAATAATA
1734712 ATATAATAATAATA
1 ATAT-ATAATAATA
* *
1734726 GATAATACAAATACTA
1 -AT-ATA-TAATAATA
* *
1734742 ATAAATAATACTA
1 ATATATAATAATA
*
1734755 A-ATAAAAATAATTA
1 ATAT-ATAATAA-TA
*
1734769 ATA-ATAATGATA
1 ATATATAATAATA
* * *
1734781 AGGAAAAAATAATA
1 A-TATATAATAATA
*
1734795 CA-AAATAATAATA
1 -ATATATAATAATA
1734808 ATATATAAT
1 ATATATAAT
1734817 GATATAACCA
Statistics
Matches: 123, Mismatches: 20, Indels: 37
0.68 0.11 0.21
Matches are distributed among these distances:
12 7 0.06
13 49 0.40
14 32 0.26
15 16 0.13
16 19 0.15
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (13 bp):
ATATATAATAATA
Found at i:1735886 original size:31 final size:31
Alignment explanation
Indices: 1735848--1735970 Score: 228
Period size: 31 Copynumber: 4.0 Consensus size: 31
1735838 CCCGAAGGAC
*
1735848 CAGTCCATAGGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1735879 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1735910 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
1735941 CAGTCCATATTTCCCGAAGAACATAGGTAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAA
1735971 CCCTCGACTC
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 90 1.00
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:1738934 original size:240 final size:241
Alignment explanation
Indices: 1738566--1739021 Score: 594
Period size: 240 Copynumber: 1.9 Consensus size: 241
1738556 TCCATTGCAA
* *
1738566 GTTAACTCAATCTTGGATGACTCGAACATGATATCCTTCATTGTGAAGTTGAAATCTAACTCGAA
1 GTTAACTCAATCTTGGATGACTAGAACATGATATCCTTCATCGTGAAGTTGAAATCTAACTCGAA
* * * * * * * *
1738631 ATGTCGACTGGGAAGTAGCTCTTCATTGTTGAGTTAAGTTAAATTGCAGTCGATTTTGGGTCTTC
66 ATCTCGACTAGAAAATAGCTCCTCATTGTTGAGTTAAGCTAAATTGCAGTCGATTATGGGTCTTA
* * * *
1738696 TTCTAGTCCAATATC-CTTCGTGAAGTTGAAATTTGAGTTGAAGACCTTGTTTGGAAAATAGATC
131 TTCTAATCCAATATCTCTTCGTGAAGTTGAAATTTAACTTGAAGACCTTGGTTGGAAAATAGATC
* *
1738760 C-TCGTTGCTGAGTTAAGCTATGCGTTGGATGACTTTTCGATTGTGC
196 CTTC-CTGATGAGTTAAGCTATGCGTTGGATGACTTTTCGATTGTGC
* * * * **
1738806 GTTAAGTCGATCTTGGATGACTAGAGCTTGATATCCTTTGTCGTGAAGTTGAAATCTAACTCGAA
1 GTTAACTCAATCTTGGATGACTAGAACATGATATCCTTCATCGTGAAGTTGAAATCTAACTCGAA
* * *
1738871 ATCTGGGCTAGAAAAT-GACTCCTCGTTGTTGAGTTAAGCTAAATTGCAGTCGATTATGGGTCTT
66 ATCTCGACTAGAAAATAG-CTCCTCATTGTTGAGTTAAGCTAAATTGCAGTCGATTATGGGTCTT
* * *
1738935 ATTCTAATCCAATATCATTTTTCGTGATGTTGGAATTTAACTTGAAGACCTTGGTTGGAAAATAG
130 ATTCTAATCCAATATC--TCTTCGTGAAGTTGAAATTTAACTTGAAGACCTTGGTTGGAAAATAG
*
1739000 CTCCTTCCTGATGAGTTAAGCT
193 ATCCTTCCTGATGAGTTAAGCT
1739022 TTGTTGCGGA
Statistics
Matches: 182, Mismatches: 29, Indels: 7
0.83 0.13 0.03
Matches are distributed among these distances:
239 1 0.01
240 123 0.68
243 56 0.31
244 2 0.01
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (241 bp):
GTTAACTCAATCTTGGATGACTAGAACATGATATCCTTCATCGTGAAGTTGAAATCTAACTCGAA
ATCTCGACTAGAAAATAGCTCCTCATTGTTGAGTTAAGCTAAATTGCAGTCGATTATGGGTCTTA
TTCTAATCCAATATCTCTTCGTGAAGTTGAAATTTAACTTGAAGACCTTGGTTGGAAAATAGATC
CTTCCTGATGAGTTAAGCTATGCGTTGGATGACTTTTCGATTGTGC
Found at i:1743565 original size:25 final size:26
Alignment explanation
Indices: 1743462--1743573 Score: 208
Period size: 26 Copynumber: 4.3 Consensus size: 26
1743452 ACCGGTACAT
1743462 AAATGTAAACAAAGGCAAAAAGATCA
1 AAATGTAAACAAAGGCAAAAAGATCA
1743488 AAATGTAAACAAAGGCAAAAAGATCA
1 AAATGTAAACAAAGGCAAAAAGATCA
*
1743514 AAATGTAAAAAAAGGCAAAAAGATCA
1 AAATGTAAACAAAGGCAAAAAGATCA
1743540 AAATGTAAACAAAGGCAAAAA-ATCA
1 AAATGTAAACAAAGGCAAAAAGATCA
1743565 AAATGTAAA
1 AAATGTAAA
1743574 TAAATTGAAA
Statistics
Matches: 84, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
25 13 0.15
26 71 0.85
ACGTcount: A:0.63, C:0.10, G:0.14, T:0.12
Consensus pattern (26 bp):
AAATGTAAACAAAGGCAAAAAGATCA
Found at i:1743685 original size:3 final size:3
Alignment explanation
Indices: 1743677--1743750 Score: 148
Period size: 3 Copynumber: 24.7 Consensus size: 3
1743667 ATAGTGCACA
1743677 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1743725 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
1743751 CAGAGCACAA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1744801 original size:12 final size:12
Alignment explanation
Indices: 1744784--1744814 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
1744774 ACCATGGCCA
1744784 AAAGCTCGAATG
1 AAAGCTCGAATG
1744796 AAAGCTCGAATG
1 AAAGCTCGAATG
1744808 AAAGCTC
1 AAAGCTC
1744815 TTGAGACGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.42, C:0.19, G:0.23, T:0.16
Consensus pattern (12 bp):
AAAGCTCGAATG
Found at i:1747076 original size:3 final size:3
Alignment explanation
Indices: 1747068--1747144 Score: 111
Period size: 3 Copynumber: 26.0 Consensus size: 3
1747058 TTAATATATT
* *
1747068 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT TTA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
1747116 TAA TAA TAA TTA T-A TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1747145 ATAAATCAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
2 2 0.03
3 65 0.97
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:1747667 original size:36 final size:36
Alignment explanation
Indices: 1747627--1747715 Score: 151
Period size: 36 Copynumber: 2.5 Consensus size: 36
1747617 TTGAACAAGC
* *
1747627 TCTTCTCATTGTGAACTTCTTCTTCTTCAGATGAGT
1 TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAAT
*
1747663 TCTTCTCATTATGAACTTCTTTTTCTTCAGATGAAT
1 TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAAT
1747699 TCTTCTCATTATGAACT
1 TCTTCTCATTATGAACT
1747716 CTACCTGGCA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.20, C:0.21, G:0.10, T:0.48
Consensus pattern (36 bp):
TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAAT
Found at i:1747828 original size:116 final size:113
Alignment explanation
Indices: 1747663--1748308 Score: 779
Period size: 113 Copynumber: 5.7 Consensus size: 113
1747653 TCAGATGAGT
1747663 TCTTCTCATTATGAACTTC-T-TT--TTCTTCAGATGAATTCTTCTCATTATGAACTCTACCTGG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAATTCTTCTCATTATGAACTCTACCTGG
*
1747724 CAATGTTGATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAGC
66 AAATGTTGATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAGC
* *
1747772 TCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATAACGAATTCTTCTCATTATGAACTCTATC
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAATTCTTCTCATTATGAACTCTACC
* * * *
1747837 T-GACAATGTTAATCTATCAATTGATAAATTTAAACAAAAGGTTGAACAAGC
63 TGGA-AATGTTGATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAGC
* *
1747888 TCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGACGAATTCTTCTCATTATGAACTCTATC
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAATTCTTCTCATTATGAACTCTACC
* * * * * *
1747953 TGGCAATGTTAATCTATCAATTGATAAATTTAAACAAAAAGTTGAACAAGC
63 TGGAAATGTTGATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAGC
*
1748004 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCT-CC-
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAATTCTTCTCATTATGAAC--TCTACCT
* ** * * * * **
1748067 GGAAAAGCCGATCCATCAAATGATGGATTTGAGCAAAAGTTTGAACAAAT
64 GGAAATGTTGATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAGC
* * * *
1748117 TCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACT-TTCTCTG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAATTCTTCTCATTATGAACTCTAC-CTG
* * * * ** **
1748181 GAAAAGCTGATCCATCGAATGATGAATTCAGGCAAAAGGTTGAACAAAT
65 GAAATGTTGATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAGC
* *
1748230 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT-TTCTCTG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAATTCTTCTCATTATGAACTCTAC-CTG
1748294 GAAATGTTGATCCAT
65 GAAATGTTGATCCAT
1748309 TGTTATGGAT
Statistics
Matches: 482, Mismatches: 41, Indels: 24
0.88 0.07 0.04
Matches are distributed among these distances:
109 18 0.04
110 2 0.00
111 4 0.01
112 1 0.00
113 236 0.49
114 1 0.00
115 4 0.01
116 215 0.45
117 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (113 bp):
TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAATTCTTCTCATTATGAACTCTACCTGG
AAATGTTGATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAGC
Found at i:1749226 original size:83 final size:83
Alignment explanation
Indices: 1749129--1749685 Score: 979
Period size: 83 Copynumber: 6.7 Consensus size: 83
1749119 CTGTGGTTCA
* *
1749129 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTTC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
1749194 AAATTCAATAACTGGTTT
66 AAATTCAATAACTGGTTT
* *
1749212 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
1749277 AAATTCAATAACTGGTTT
66 AAATTCAATAACTGGTTT
1749295 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
* *
1749360 AAATTCAATGATTGGTTTT
66 AAATTCAATAACTGG-TTT
*
1749379 TACCAAACCAGATCAGATAACTCAAAGAACACTTCTAGAAGATGCTATGAGCACATTCATCTTTC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
1749444 AAATTCAATAACTGGTTT
66 AAATTCAATAACTGGTTT
*
1749462 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTA
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
* *
1749527 AAATTCAATGATTGGTTTT
66 AAATTCAATAACTGG-TTT
* *
1749546 TACCAAACCAGATCAGATAACTCAAAGAATACTTACAGAAGATGCTATGAGCACATTCATCTTTC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
1749611 AAATTCAATAACTGGTTT
66 AAATTCAATAACTGGTTT
*
1749629 TACCAAACCAGATCAGATAACTCAAAGAACACTTACAGAAGATGCTATGAGCACATT
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATT
1749686 ACATTTGTTC
Statistics
Matches: 451, Mismatches: 21, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
83 293 0.65
84 158 0.35
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.27
Consensus pattern (83 bp):
TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
AAATTCAATAACTGGTTT
Found at i:1749457 original size:167 final size:167
Alignment explanation
Indices: 1749037--1749685 Score: 1084
Period size: 167 Copynumber: 3.8 Consensus size: 167
1749027 CTGTAGTTCC
* *
1749037 TACCAAACCAAATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCC
1749102 AAATTCAATAACTGGTTCTGTGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAG
66 AAATTCAATAACT-G----GT--TT--TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAG
* * * *
1749167 AAGATGCTATTAGCAAATTCATCTTTCAAATTCAATAACTGG-TTT
122 AAGATGCTATGAGCACATTCATCTTTCAAATTCAATGATTGGTTTT
*
1749212 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCC
1749277 AAATTCAATAACTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA
66 AAATTCAATAACTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA
1749342 TGAGCACATTCATCTTTCAAATTCAATGATTGGTTTT
131 TGAGCACATTCATCTTTCAAATTCAATGATTGGTTTT
* *
1749379 TACCAAACCAGATCAGATAACTCAAAGAACACTTCTAGAAGATGCTATGAGCACATTCATCTTTC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCC
1749444 AAATTCAATAACTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA
66 AAATTCAATAACTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA
*
1749509 TGAGCACATTCATCTTTAAAATTCAATGATTGGTTTT
131 TGAGCACATTCATCTTTCAAATTCAATGATTGGTTTT
* * *
1749546 TACCAAACCAGATCAGATAACTCAAAGAATACTTACAGAAGATGCTATGAGCACATTCATCTTTC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCC
*
1749611 AAATTCAATAACTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTACAGAAGATGCTA
66 AAATTCAATAACTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA
1749676 TGAGCACATT
131 TGAGCACATT
1749686 ACATTTGTTC
Statistics
Matches: 460, Mismatches: 13, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
166 76 0.17
167 302 0.66
168 2 0.00
170 2 0.00
174 1 0.00
175 77 0.17
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.27
Consensus pattern (167 bp):
TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCC
AAATTCAATAACTGGTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA
TGAGCACATTCATCTTTCAAATTCAATGATTGGTTTT
Found at i:1749486 original size:250 final size:250
Alignment explanation
Indices: 1749037--1749685 Score: 1059
Period size: 250 Copynumber: 2.6 Consensus size: 250
1749027 CTGTAGTTCC
* * *
1749037 TACCAAACCAAATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
1749102 AAATTCAATAACTGGTTCTGTGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAG
66 AAATTCAATAACTGG---T-T--TT--TACCAAACCAGATCAGATAACTCAAAGAACACTT-CAG
* *
1749167 AAGATGCTATTAGCAAATTCATCTTTCAAATTCAATAACTGGTTTTACCAAACCAGATCAGATAA
122 AAGATGCTATGAGCACATTCATCTTTCAAATTCAATAACTGGTTTTACCAAACCAGATCAGATAA
* *
1749232 CTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAATTCAATAACTGG-TTT
187 CTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCAAAATTCAATAACTGGTTTT
1749295 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
* *
1749360 AAATTCAATGATTGGTTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCTAGAAGATGCT
66 AAATTCAATAACTGGTTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTC-AGAAGATGCT
1749425 ATGAGCACATTCATCTTTCAAATTCAATAACTGGTTTTACCAAACCAGATCAGATAACTCAAAGA
130 ATGAGCACATTCATCTTTCAAATTCAATAACTGGTTTTACCAAACCAGATCAGATAACTCAAAGA
* * *
1749490 ACACTTCCAGAAGATGCTATGAGCACATTCATCTTTAAAATTCAATGATTGGTTTT
195 ACACTTCCAGAAGATGCTATGAGCACATTCATCTTCAAAATTCAATAACTGGTTTT
* *
1749546 TACCAAACCAGATCAGATAACTCAAAGAATACTTACAGAAGATGCTATGAGCACATTCATCTTTC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
1749611 AAATTCAATAACTGG-TTTTACCAAACCAGATCAGATAACTCAAAGAACACTTACAGAAGATGCT
66 AAATTCAATAACTGGTTTTTACCAAACCAGATCAGATAACTCAAAGAACACTT-CAGAAGATGCT
1749675 ATGAGCACATT
130 ATGAGCACATT
1749686 ACATTTGTTC
Statistics
Matches: 372, Mismatches: 16, Indels: 14
0.93 0.04 0.03
Matches are distributed among these distances:
249 1 0.00
250 212 0.57
251 80 0.22
252 2 0.01
254 1 0.00
255 1 0.00
258 75 0.20
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.27
Consensus pattern (250 bp):
TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTC
AAATTCAATAACTGGTTTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCAGAAGATGCTA
TGAGCACATTCATCTTTCAAATTCAATAACTGGTTTTACCAAACCAGATCAGATAACTCAAAGAA
CACTTCCAGAAGATGCTATGAGCACATTCATCTTCAAAATTCAATAACTGGTTTT
Found at i:1750837 original size:7 final size:6
Alignment explanation
Indices: 1750806--1750847 Score: 52
Period size: 6 Copynumber: 7.0 Consensus size: 6
1750796 CCTTGACCCC
1750806 CTTTTT CTTTTT CTTTTT -TCTTTT CTCTTTT C-TTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CT-TTTT CT-TTTT CTTTTT CTTTTT
1750848 TTTCAAGCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 6 0.18
6 20 0.61
7 7 0.21
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (6 bp):
CTTTTT
Found at i:1750848 original size:12 final size:12
Alignment explanation
Indices: 1750807--1750848 Score: 66
Period size: 12 Copynumber: 3.4 Consensus size: 12
1750797 CTTGACCCCC
1750807 TTTTTCTTTTTCT
1 TTTTTC-TTTTCT
1750820 TTTTTCTTTTCT
1 TTTTTCTTTTCT
*
1750832 CTTTTCTTTTCT
1 TTTTTCTTTTCT
1750844 TTTTT
1 TTTTT
1750849 TTCAAGCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
12 21 0.78
13 6 0.22
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTTCTTTTCT
Found at i:1758196 original size:15 final size:15
Alignment explanation
Indices: 1758173--1758204 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1758163 TGAAATGAAT
1758173 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
1758188 AATGCATGTATGCAA
1 AATGAATGTATGCAA
1758203 AA
1 AA
1758205 AGGTATTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Done.