Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 321 of 410
Found at i:99758440 original size:31 final size:31
Alignment explanation
Indices: 99758405--99758465 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
99758395 ATTTCTTCAT
99758405 TTCCATGTAT-TTCTCATTTTCACCACTTTCC
1 TTCCAT-TATCTTCTCATTTTCACCACTTTCC
* *
99758436 TTCCATTTTCTTCTCATTTTCTCCACTTTC
1 TTCCATTATCTTCTCATTTTCACCACTTTC
99758466 ATTTACTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 2 0.07
31 25 0.93
ACGTcount: A:0.13, C:0.33, G:0.02, T:0.52
Consensus pattern (31 bp):
TTCCATTATCTTCTCATTTTCACCACTTTCC
Found at i:99765890 original size:29 final size:24
Alignment explanation
Indices: 99765831--99765878 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
99765821 CCTAATAAGG
99765831 TTAGTAAGTATAACATTACATGTA
1 TTAGTAAGTATAACATTACATGTA
99765855 TTAGTAAGTATAACATTACATGTA
1 TTAGTAAGTATAACATTACATGTA
99765879 AGTTCCAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (24 bp):
TTAGTAAGTATAACATTACATGTA
Found at i:99765948 original size:2 final size:2
Alignment explanation
Indices: 99765941--99765966 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
99765931 CATCCATTAC
99765941 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
99765967 CTAATACACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:99775697 original size:22 final size:22
Alignment explanation
Indices: 99775669--99775711 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
99775659 TTCTCAGTTT
* *
99775669 TGGAAGAAATTGTATGAGGTTC
1 TGGAAGAAATTGCACGAGGTTC
99775691 TGGAAGAAATTGCACGAGGTT
1 TGGAAGAAATTGCACGAGGTT
99775712 TTGGGTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.07, G:0.33, T:0.28
Consensus pattern (22 bp):
TGGAAGAAATTGCACGAGGTTC
Found at i:99782756 original size:48 final size:48
Alignment explanation
Indices: 99782693--99782918 Score: 232
Period size: 48 Copynumber: 4.8 Consensus size: 48
99782683 TAGTAAGATA
* * * *
99782693 CCAATACCATATCCCAGATATGGTCTTACATGGGATCTCATGTCGATG
1 CCAATGCCATATCCCAGACATGGTCTTACATGGGATCACATATCGATG
* * * * *
99782741 CCAATGCCATGTCCCAGACGTGATCTTACATGATG-TCTCATATCGATG
1 CCAATGCCATATCCCAGACATGGTCTTACATG-GGATCACATATCGATG
* **** *
99782789 CC-ATG---T-T-CCAGACACGGTCTTACACAAAATCACATATAGATG
1 CCAATGCCATATCCCAGACATGGTCTTACATGGGATCACATATCGATG
* *
99782831 CCAATGCCATATCCCAAATATGGTCTTACATGGGATCACATATCGATG
1 CCAATGCCATATCCCAGACATGGTCTTACATGGGATCACATATCGATG
*
99782879 CCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
1 CCAATGCCATATCCCAGACATGGTCTTACATGGGATCACA
99782919 CATAACCTTA
Statistics
Matches: 143, Mismatches: 27, Indels: 16
0.77 0.15 0.09
Matches are distributed among these distances:
42 27 0.19
43 4 0.03
44 1 0.01
46 1 0.01
47 4 0.03
48 105 0.73
49 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (48 bp):
CCAATGCCATATCCCAGACATGGTCTTACATGGGATCACATATCGATG
Found at i:99788991 original size:42 final size:42
Alignment explanation
Indices: 99788928--99789042 Score: 162
Period size: 42 Copynumber: 2.7 Consensus size: 42
99788918 CTTCGTTTTC
** * *
99788928 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATA-A
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATT--CATAGA
99788971 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATAGA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCATAGA
99789012 TCGATGCCATAGCCCAGCTATGGTCTTACAC
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC
99789043 GAATCACATA
Statistics
Matches: 66, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
40 4 0.06
41 2 0.03
42 59 0.89
43 1 0.02
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCATAGA
Found at i:99789121 original size:47 final size:46
Alignment explanation
Indices: 99789013--99789136 Score: 149
Period size: 47 Copynumber: 2.7 Consensus size: 46
99789003 ATTCATAGAT
* * * * *
99789013 CGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCAC
1 CGATGCCATACCCCAGATATGGTCTTATACGAAGCACATATCACAC
* * * *
99789059 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATACCCCAGATATGGTCTTATAC-GAAGCACATATCACAC
*
99789106 CGATACCATACCCCAGATATGGTCTTATACG
1 CGATGCCATACCCCAGATATGGTCTTATACG
99789137 GAAATCACTT
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
46 27 0.41
47 39 0.59
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (46 bp):
CGATGCCATACCCCAGATATGGTCTTATACGAAGCACATATCACAC
Found at i:99789196 original size:31 final size:31
Alignment explanation
Indices: 99789161--99789340 Score: 290
Period size: 31 Copynumber: 5.8 Consensus size: 31
99789151 CTTGTCACTT
*
99789161 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
99789192 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
99789223 GTAGCC-AGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGA-AGCTACCACTTTTCACTGATCAG
*
99789254 GTAGCCGAATCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
99789285 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
99789316 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
99789341 TGTCATTTGT
Statistics
Matches: 138, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
31 137 0.99
32 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:99789422 original size:50 final size:51
Alignment explanation
Indices: 99789317--99789442 Score: 184
Period size: 50 Copynumber: 2.5 Consensus size: 51
99789307 ACTGATCAGG
* * * *
99789317 TAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGTG
1 TAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGTA
*
99789368 TAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGTA
1 TAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGTA
99789418 TAGCCGAAGCTATCACTTATCACTT
1 TAGCCGAAGCTATCACTTATCACTT
99789443 ATTGCCATGG
Statistics
Matches: 69, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
50 44 0.64
51 25 0.36
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (51 bp):
TAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGTA
Found at i:99798325 original size:13 final size:13
Alignment explanation
Indices: 99798307--99798336 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
99798297 TAGAAAAATG
99798307 CTTTTGAGAAGTA
1 CTTTTGAGAAGTA
*
99798320 CTTTTGAGAAGTG
1 CTTTTGAGAAGTA
99798333 CTTT
1 CTTT
99798337 GGAAAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.23, C:0.10, G:0.23, T:0.43
Consensus pattern (13 bp):
CTTTTGAGAAGTA
Found at i:99800731 original size:6 final size:6
Alignment explanation
Indices: 99800720--99800745 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
99800710 AATTATAAAT
99800720 ATTTTA ATTTTA ATTTTA ATTTTA AT
1 ATTTTA ATTTTA ATTTTA ATTTTA AT
99800746 AATTCATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
ATTTTA
Found at i:99801643 original size:20 final size:19
Alignment explanation
Indices: 99801612--99801660 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 19
99801602 TAAATAAATC
99801612 ATAAAAATATTACAAA-TTT
1 ATAAAAATATTA-AAAGTTT
99801631 ATAAAAGATATTAAAAGTTT
1 ATAAAA-ATATTAAAAGTTT
99801651 ATAAAAATAT
1 ATAAAAATAT
99801661 ATTAAAAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (19 bp):
ATAAAAATATTAAAAGTTT
Found at i:99802189 original size:9 final size:9
Alignment explanation
Indices: 99802175--99802286 Score: 59
Period size: 9 Copynumber: 12.0 Consensus size: 9
99802165 AATTAATGGC
99802175 TTTTTATAA
1 TTTTTATAA
99802184 TTTTTAT--
1 TTTTTATAA
* *
99802191 TATTTATCA
1 TTTTTATAA
*
99802200 TATTTATAA
1 TTTTTATAA
*
99802209 TTTATTA-GA
1 TTT-TTATAA
99802218 TTTTTATAA
1 TTTTTATAA
99802227 GTTTTTATAA
1 -TTTTTATAA
* * *
99802237 TATTTGTAGG
1 TTTTTATA-A
*
99802247 TTTTTATGATTT
1 TTTTTAT-A--A
99802259 TTTTTATAA
1 TTTTTATAA
99802268 TTTTTATAA
1 TTTTTATAA
*
99802277 GTTTGTATAA
1 -TTTTTATAA
99802287 AAAAAATTAA
Statistics
Matches: 80, Mismatches: 14, Indels: 17
0.72 0.13 0.15
Matches are distributed among these distances:
7 6 0.08
8 3 0.04
9 37 0.46
10 25 0.31
11 2 0.03
12 7 0.09
ACGTcount: A:0.29, C:0.01, G:0.07, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:99802233 original size:10 final size:10
Alignment explanation
Indices: 99802218--99802286 Score: 52
Period size: 10 Copynumber: 6.9 Consensus size: 10
99802208 ATTTATTAGA
99802218 TTTTTATAAG
1 TTTTTATAAG
99802228 TTTTTATAA-
1 TTTTTATAAG
* * *
99802237 TATTTGTAGG
1 TTTTTATAAG
**
99802247 TTTTTATGATTT
1 TTTTTAT-A-AG
99802259 TTTTTATAA-
1 TTTTTATAAG
99802268 TTTTTATAAG
1 TTTTTATAAG
*
99802278 TTTGTATAA
1 TTTTTATAA
99802287 AAAAAATTAA
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
9 15 0.33
10 22 0.48
11 2 0.04
12 7 0.15
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (10 bp):
TTTTTATAAG
Found at i:99806525 original size:13 final size:13
Alignment explanation
Indices: 99806507--99806552 Score: 67
Period size: 13 Copynumber: 3.6 Consensus size: 13
99806497 GTTGATGGTG
99806507 TATTAAATTATTT
1 TATTAAATTATTT
*
99806520 TATTAAA-TATAT
1 TATTAAATTATTT
*
99806532 CATTAAATTATTT
1 TATTAAATTATTT
99806545 TATTAAAT
1 TATTAAAT
99806553 ATATAGATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
12 10 0.36
13 18 0.64
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (13 bp):
TATTAAATTATTT
Found at i:99806537 original size:25 final size:25
Alignment explanation
Indices: 99806508--99806556 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
99806498 TTGATGGTGT
99806508 ATTAAATTATTTTATTAAATATATC
1 ATTAAATTATTTTATTAAATATATC
99806533 ATTAAATTATTTTATTAAATATAT
1 ATTAAATTATTTTATTAAATATAT
99806557 AGATAATGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (25 bp):
ATTAAATTATTTTATTAAATATATC
Found at i:99812174 original size:2 final size:2
Alignment explanation
Indices: 99812167--99812193 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
99812157 CATCCACGTG
99812167 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
99812194 CGTTCTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:99819769 original size:40 final size:41
Alignment explanation
Indices: 99819620--99819769 Score: 145
Period size: 40 Copynumber: 3.8 Consensus size: 41
99819610 TTCTAGCACC
** * * * *
99819620 AGCCTGCGGGAATTTAAACCCGG-TATAATACCAGCTCG-T
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGAT
* *
99819659 AGCCTGCGGGT-TCT-AGCCCGGATAGC-ATTCTAGCACGA-
1 AGCCTGCGGGTCTTTAAGCCCGGATA-CAATTCCAGCACGAT
*
99819697 AGCCTGCGGGTCTTTAAGCCCGGATA-ACATTCCAGCA-TAT
1 AGCCTGCGGGTCTTTAAGCCCGGATACA-ATTCCAGCACGAT
99819737 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCC
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCC
99819770 TCAAGTATCA
Statistics
Matches: 92, Mismatches: 10, Indels: 17
0.77 0.08 0.14
Matches are distributed among these distances:
37 6 0.07
38 23 0.25
39 13 0.14
40 49 0.53
41 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (41 bp):
AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGAT
Found at i:99820894 original size:2 final size:2
Alignment explanation
Indices: 99820887--99820911 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
99820877 CCGAATGTGC
99820887 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
99820912 AACTCAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:99826079 original size:21 final size:21
Alignment explanation
Indices: 99826045--99826084 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
99826035 ATAGGCTAAG
* * *
99826045 AATGATGTTTTAAGTATGATA
1 AATGATGGTATAAGAATGATA
99826066 AATGATGGTATAAGAATGA
1 AATGATGGTATAAGAATGA
99826085 CATGTTATTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (21 bp):
AATGATGGTATAAGAATGATA
Found at i:99831436 original size:18 final size:18
Alignment explanation
Indices: 99831413--99831449 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
99831403 TGAACTATAT
99831413 GTTTAATGATATGAATGA
1 GTTTAATGATATGAATGA
**
99831431 GTTTAATTCTATGAATGA
1 GTTTAATGATATGAATGA
99831449 G
1 G
99831450 CCCGACAACG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.22, T:0.41
Consensus pattern (18 bp):
GTTTAATGATATGAATGA
Found at i:99844981 original size:27 final size:27
Alignment explanation
Indices: 99844929--99844982 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
99844919 GTTTATGGGT
* * *
99844929 TTAAGGGATTTAAGAGGTTTTGAAATA
1 TTAAAGGAGTTAAGAGATTTTGAAATA
99844956 TTAAAGGAGTTAAGAGATGTTT-AAATA
1 TTAAAGGAGTTAAGAGAT-TTTGAAATA
99844983 AGGGGAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 20 0.87
28 3 0.13
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (27 bp):
TTAAAGGAGTTAAGAGATTTTGAAATA
Found at i:99851545 original size:20 final size:20
Alignment explanation
Indices: 99851499--99851548 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
99851489 TTAAAATAAT
*
99851499 TAAAAATATATAGAAAATTA
1 TAAAAAAATATAGAAAATTA
** * *
99851519 TTTAAAAATATTGAGAATTA
1 TAAAAAAATATAGAAAATTA
99851539 TAAAAAAATA
1 TAAAAAAATA
99851549 AAATTATTTA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (20 bp):
TAAAAAAATATAGAAAATTA
Found at i:99852264 original size:21 final size:19
Alignment explanation
Indices: 99852240--99852282 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
99852230 ATATTTTCTT
99852240 ATAATTCTTAATAATTTATAA
1 ATAATTCTTAAT-ATTT-TAA
* *
99852261 ATAATTTTTTATATTTTAA
1 ATAATTCTTAATATTTTAA
99852280 ATA
1 ATA
99852283 CTTTTTATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 6 0.30
20 4 0.20
21 10 0.50
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
ATAATTCTTAATATTTTAA
Found at i:99853939 original size:13 final size:12
Alignment explanation
Indices: 99853920--99853955 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
99853910 TAGAATTTTG
99853920 TTTTCTTTTCCC
1 TTTTCTTTTCCC
*
99853932 TATTTCTTCTCCC
1 T-TTTCTTTTCCC
99853945 TTTTCTTTTCC
1 TTTTCTTTTCC
99853956 ATCCTCTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.03, C:0.33, G:0.00, T:0.64
Consensus pattern (12 bp):
TTTTCTTTTCCC
Found at i:99854979 original size:34 final size:34
Alignment explanation
Indices: 99854930--99855070 Score: 122
Period size: 34 Copynumber: 4.1 Consensus size: 34
99854920 ATCAATCTAC
* * * *
99854930 TATAAGGATACTAATTGCTACCGTATTTATTTGT
1 TATAAGCATATTAATTGCTACCGTATTGATCTGT
* ** *
99854964 TATAAGCACATTAATTGCGT-TGGTATTGATCCGT
1 TATAAGCATATTAATTGC-TACCGTATTGATCTGT
* * *
99854998 TATAAGCATTTTAATTACTATCGTATTGATCTGT
1 TATAAGCATATTAATTGCTACCGTATTGATCTGT
* * ** *
99855032 TATATGTATATTAATTGCTACTATATTGATCTAT
1 TATAAGCATATTAATTGCTACCGTATTGATCTGT
99855066 TATAA
1 TATAA
99855071 ACATGTCAAA
Statistics
Matches: 83, Mismatches: 22, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
33 1 0.01
34 81 0.98
35 1 0.01
ACGTcount: A:0.30, C:0.11, G:0.13, T:0.45
Consensus pattern (34 bp):
TATAAGCATATTAATTGCTACCGTATTGATCTGT
Found at i:99859827 original size:142 final size:142
Alignment explanation
Indices: 99859571--99859857 Score: 511
Period size: 142 Copynumber: 2.0 Consensus size: 142
99859561 TTCGGCGGAC
* * *
99859571 GATGTAATCTCCCGAATTCAGGCTTAACGTCTAGGCCAGGTTGGGGAGGTTACAATGACAAAGGA
1 GATGTAATCTCCCGAATTCAGGCTTAACATCTAGGCCAAGTTGGAGAGGTTACAATGACAAAGGA
* *
99859636 AGAAAAGTGAAGCAAATGAAGTGAAATCTAGCCAAAAATAGGTAAGTACTTTTATGGATTCTATT
66 AGAAAAGTGAAACAAATGAAGTGAAATCTAGCCAAAAATAGGTAAGTACTCTTATGGATTCTATT
99859701 TACTTTTCTAAT
131 TACTTTTCTAAT
*
99859713 GATGTAATCTCCCGAATTCAGGCTTAACATCTAGGCCAAGTTGGAGAGGTTACAGTGACAAAGGA
1 GATGTAATCTCCCGAATTCAGGCTTAACATCTAGGCCAAGTTGGAGAGGTTACAATGACAAAGGA
*
99859778 AGAAAAGTGAAACAAATGAAGTGAAATCTAGCCAAAAATAGGTAAGTACTCTTATGGGTTCTATT
66 AGAAAAGTGAAACAAATGAAGTGAAATCTAGCCAAAAATAGGTAAGTACTCTTATGGATTCTATT
99859843 TACTTTTCTAAT
131 TACTTTTCTAAT
99859855 GAT
1 GAT
99859858 TACATTAAAA
Statistics
Matches: 138, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
142 138 1.00
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (142 bp):
GATGTAATCTCCCGAATTCAGGCTTAACATCTAGGCCAAGTTGGAGAGGTTACAATGACAAAGGA
AGAAAAGTGAAACAAATGAAGTGAAATCTAGCCAAAAATAGGTAAGTACTCTTATGGATTCTATT
TACTTTTCTAAT
Found at i:99860281 original size:51 final size:51
Alignment explanation
Indices: 99860226--99860358 Score: 241
Period size: 51 Copynumber: 2.6 Consensus size: 51
99860216 TGATACAAAT
99860226 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTCA
*
99860277 TGATAATAGGTTAGGTAAATGTTCCATGACAATGGGTTAGGTAAATGTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTCA
*
99860328 TGATAATGGGTTAGGTAAATGTT-CATGATAA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAA
99860359 GAATTCATGT
Statistics
Matches: 79, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
50 7 0.09
51 72 0.91
ACGTcount: A:0.34, C:0.06, G:0.26, T:0.35
Consensus pattern (51 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTCA
Found at i:99860288 original size:25 final size:25
Alignment explanation
Indices: 99860226--99860358 Score: 221
Period size: 25 Copynumber: 5.2 Consensus size: 25
99860216 TGATACAAAT
*
99860226 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTT-CA
99860252 TGATAATGGGTTAGGTAAATGTTCA
1 TGATAATGGGTTAGGTAAATGTTCA
*
99860277 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTT-CA
*
99860303 TGACAATGGGTTAGGTAAATGTTCA
1 TGATAATGGGTTAGGTAAATGTTCA
99860328 TGATAATGGGTTAGGTAAATGTTCA
1 TGATAATGGGTTAGGTAAATGTTCA
99860353 TGATAA
1 TGATAA
99860359 GAATTCATGT
Statistics
Matches: 101, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
25 56 0.55
26 45 0.45
ACGTcount: A:0.34, C:0.06, G:0.26, T:0.35
Consensus pattern (25 bp):
TGATAATGGGTTAGGTAAATGTTCA
Found at i:99861869 original size:25 final size:26
Alignment explanation
Indices: 99861841--99861889 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
99861831 TACAGTTTTA
99861841 CCCTAGAGATAAATT-ACCGAAATAC
1 CCCTAGAGATAAATTGACCGAAATAC
* * *
99861866 CCCTAGGGTTAAATTGACCTAAAT
1 CCCTAGAGATAAATTGACCGAAAT
99861890 GCATGTTTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 13 0.65
26 7 0.35
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.24
Consensus pattern (26 bp):
CCCTAGAGATAAATTGACCGAAATAC
Found at i:99866088 original size:26 final size:26
Alignment explanation
Indices: 99866051--99866185 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
99866041 TGATACAAAT
*
99866051 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
99866077 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
99866103 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
99866129 TGATAATGGGTTAGGTAAATGTT-CA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
99866154 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
99866180 TGATAA
1 TGATAA
99866186 GAATTTCATG
Statistics
Matches: 103, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
25 25 0.24
26 78 0.76
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:99867698 original size:26 final size:26
Alignment explanation
Indices: 99867669--99867721 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
99867659 TTTACAGTTT
99867669 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
99867695 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
99867721 T
1 T
99867722 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:99872178 original size:25 final size:25
Alignment explanation
Indices: 99872137--99872202 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
99872127 TAGTGCGCTC
* *
99872137 AAGTGTGATTGGCACTTCGGGGCTT
1 AAGTGTGATTGGCACTTCGAGGCAT
* *
99872162 AAGTGTGATCT-GTACTTCGATGCAT
1 AAGTGTGAT-TGGCACTTCGAGGCAT
*
99872187 AAGTGTGATTAGCACT
1 AAGTGTGATTGGCACT
99872203 CAGTGCTCTA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
24 1 0.03
25 32 0.94
26 1 0.03
ACGTcount: A:0.23, C:0.15, G:0.29, T:0.33
Consensus pattern (25 bp):
AAGTGTGATTGGCACTTCGAGGCAT
Found at i:99884532 original size:48 final size:48
Alignment explanation
Indices: 99884381--99884601 Score: 259
Period size: 48 Copynumber: 4.6 Consensus size: 48
99884371 TCCACATGTT
* * * * * * * *
99884381 GATGCCATATCCCAGATATAGTCTTATACGAAGC-CTCATATCGATGCT
1 GATGCCATGTCCCAGACATAGTCTTACAC-TAGCACACATATCAACGCC
* * * * *
99884429 GATGCCATGTTCTAGACATGGTCTAACACTAGCACA-ATATCATCGCC
1 GATGCCATGTCCCAGACATAGTCTTACACTAGCACACATATCAACGCC
* *
99884476 GATGCCATGTCCCAAACAT-GATCTTACACTGGCACACATATCAACGCC
1 GATGCCATGTCCCAGACATAG-TCTTACACTAGCACACATATCAACGCC
99884524 GATGCCATGTCCCAGACATAGTCTTACACTAGCACACATATCAACGCC
1 GATGCCATGTCCCAGACATAGTCTTACACTAGCACACATATCAACGCC
*
99884572 GATGCCATGCCCCAGACATAGTCTTACACT
1 GATGCCATGTCCCAGACATAGTCTTACACT
99884602 GCCTCTCATC
Statistics
Matches: 147, Mismatches: 22, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
46 1 0.01
47 39 0.27
48 106 0.72
49 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATAGTCTTACACTAGCACACATATCAACGCC
Found at i:99894779 original size:19 final size:20
Alignment explanation
Indices: 99894734--99894779 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
99894724 ATCAAAAACC
*
99894734 AAATTAAAATTAAATAATCA
1 AAATTAAAATTAAATAATAA
99894754 AAA-TAAAA-TAAATTAA-AA
1 AAATTAAAATTAAA-TAATAA
99894772 AAATTAAA
1 AAATTAAA
99894780 GAAGAGAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 8 0.35
19 12 0.52
20 3 0.13
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (20 bp):
AAATTAAAATTAAATAATAA
Found at i:99894962 original size:17 final size:17
Alignment explanation
Indices: 99894935--99894967 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
99894925 ACTAATCGAC
99894935 CAATACTCACTTATCTTT
1 CAATACTCACTT-TCTTT
99894953 CAAT-CTCACTTTCTT
1 CAATACTCACTTTCTT
99894968 GACTTGGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 7 0.47
18 4 0.27
ACGTcount: A:0.24, C:0.30, G:0.00, T:0.45
Consensus pattern (17 bp):
CAATACTCACTTTCTTT
Found at i:99915039 original size:23 final size:22
Alignment explanation
Indices: 99915008--99915053 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
99914998 TAATTTAAAC
*
99915008 AAATGTTTA-TATTTATATAATTA
1 AAATATTTATTATTTA-AT-ATTA
99915031 AAATATTTATTATTTAATATTA
1 AAATATTTATTATTTAATATTA
99915053 A
1 A
99915054 TAAATTGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 5 0.24
23 10 0.48
24 6 0.29
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
AAATATTTATTATTTAATATTA
Found at i:99915213 original size:30 final size:29
Alignment explanation
Indices: 99915163--99915225 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 29
99915153 TTATCATTAA
99915163 ATTAAAATAAAATTTAATATTAAATAATTT
1 ATTAAAATAAAATTTAATATT-AATAATTT
*
99915193 ATTAAAATAATGAA-TT-ATATTAATATTTT
1 ATTAAAATAA--AATTTAATATTAATAATTT
99915222 ATTA
1 ATTA
99915226 TATTATATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
29 11 0.37
30 15 0.50
31 2 0.07
32 2 0.07
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (29 bp):
ATTAAAATAAAATTTAATATTAATAATTT
Found at i:99915249 original size:14 final size:15
Alignment explanation
Indices: 99915186--99915249 Score: 51
Period size: 16 Copynumber: 4.1 Consensus size: 15
99915176 TTAATATTAA
99915186 ATAATT-TATTAAAAT
1 ATAATTATATT-AAAT
99915201 AATGAATTATATTAATAT
1 -AT-AATTATATTAA-AT
* * *
99915219 TTTATTATATTATAT
1 ATAATTATATTAAAT
99915234 ATAATTA-ATTAAAT
1 ATAATTATATTAAAT
99915248 AT
1 AT
99915250 TTATGTTTAG
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
14 8 0.21
15 7 0.18
16 11 0.28
17 7 0.18
18 6 0.15
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (15 bp):
ATAATTATATTAAAT
Found at i:99918291 original size:47 final size:47
Alignment explanation
Indices: 99918231--99918407 Score: 175
Period size: 47 Copynumber: 3.8 Consensus size: 47
99918221 GCTTAACCAA
* *
99918231 TGGTTTATCCACAACGTATTCTAGTCGGCAATCATCTGCTCCACCTG
1 TGGTTTATCCACAACGTATTCTAGTCGGTAGTCATCTGCTCCACCTG
* ** *
99918278 TGGTTTAAT-CACAATGTATTCTAGTCGGTAGTCATCTAAT-CAGCCAG
1 TGGTTT-ATCCACAACGTATTCTAGTCGGTAGTCATCTGCTCCA-CCTG
* * * *
99918325 TGGTTTATCCAC-ACGTATTTTAGTCAGTAGTCATCTGCGCGACCAT-
1 TGGTTTATCCACAACGTATTCTAGTCGGTAGTCATCTGCTCCACC-TG
* * *
99918371 TGGTTTATGCACAACGCATTCTAGTCAGTA-TCATCTG
1 TGGTTTATCCACAACGTATTCTAGTCGGTAGTCATCTG
99918408 TTTGACTAGT
Statistics
Matches: 107, Mismatches: 17, Indels: 13
0.78 0.12 0.09
Matches are distributed among these distances:
46 45 0.42
47 60 0.56
48 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.34
Consensus pattern (47 bp):
TGGTTTATCCACAACGTATTCTAGTCGGTAGTCATCTGCTCCACCTG
Found at i:99918392 original size:93 final size:93
Alignment explanation
Indices: 99918231--99918406 Score: 223
Period size: 93 Copynumber: 1.9 Consensus size: 93
99918221 GCTTAACCAA
* * * *
99918231 TGGTTTATCCACAACGTATTCTAGTCGGCAATCATCTGCTCCACCTGTGGTTTAATCACAATGTA
1 TGGTTTATCCACAACGTATTCTAGTCAGCAATCATCTGCGCCACCTGTGGTTTAATCACAACGCA
*
99918296 TTCTAGTCGGTAGTCATCTAATCAGCCAG
66 TTCTAGTCAGTA-TCATCTAATCAGCCAG
* * * *
99918325 TGGTTTATCCAC-ACGTATTTTAGTCAGTAGTCATCTGCGCGACCAT-TGGTTT-ATGCACAACG
1 TGGTTTATCCACAACGTATTCTAGTCAGCAATCATCTGCGCCACC-TGTGGTTTAAT-CACAACG
99918387 CATTCTAGTCAGTATCATCT
64 CATTCTAGTCAGTATCATCT
99918407 GTTTGACTAG
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
92 8 0.11
93 50 0.70
94 13 0.18
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (93 bp):
TGGTTTATCCACAACGTATTCTAGTCAGCAATCATCTGCGCCACCTGTGGTTTAATCACAACGCA
TTCTAGTCAGTATCATCTAATCAGCCAG
Found at i:99921508 original size:79 final size:79
Alignment explanation
Indices: 99921377--99921536 Score: 320
Period size: 79 Copynumber: 2.0 Consensus size: 79
99921367 CATCGTTTTC
99921377 ATCAAATTAGGGTAATATTCTGACTTTTTAGTATTAAATGAAGAGTGTTGTTAATTCAAATTGAG
1 ATCAAATTAGGGTAATATTCTGACTTTTTAGTATTAAATGAAGAGTGTTGTTAATTCAAATTGAG
99921442 TTTTAAATGATTAT
66 TTTTAAATGATTAT
99921456 ATCAAATTAGGGTAATATTCTGACTTTTTAGTATTAAATGAAGAGTGTTGTTAATTCAAATTGAG
1 ATCAAATTAGGGTAATATTCTGACTTTTTAGTATTAAATGAAGAGTGTTGTTAATTCAAATTGAG
99921521 TTTTAAATGATTAT
66 TTTTAAATGATTAT
99921535 AT
1 AT
99921537 TTAGATTTAA
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 81 1.00
ACGTcount: A:0.36, C:0.05, G:0.16, T:0.43
Consensus pattern (79 bp):
ATCAAATTAGGGTAATATTCTGACTTTTTAGTATTAAATGAAGAGTGTTGTTAATTCAAATTGAG
TTTTAAATGATTAT
Found at i:99928224 original size:15 final size:16
Alignment explanation
Indices: 99928204--99928237 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
99928194 GATTCCAATA
*
99928204 AAATGTGATTGT-TGG
1 AAATGTAATTGTCTGG
99928219 AAATGTAATTGTCTGG
1 AAATGTAATTGTCTGG
99928235 AAA
1 AAA
99928238 ATTATTTTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.35
Consensus pattern (16 bp):
AAATGTAATTGTCTGG
Found at i:99928900 original size:19 final size:19
Alignment explanation
Indices: 99928867--99928914 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
99928857 TAAACAATTC
99928867 AATAATATAAA--TAATAT
1 AATAATATAAATTTAATAT
*
99928884 AA-AATATGAAATTTAATTT
1 AATAATAT-AAATTTAATAT
99928903 AATAATATAAAT
1 AATAATATAAAT
99928915 AGTAGATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 5 0.19
17 5 0.19
19 11 0.42
20 5 0.19
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
AATAATATAAATTTAATAT
Found at i:99931102 original size:21 final size:22
Alignment explanation
Indices: 99931078--99931127 Score: 75
Period size: 21 Copynumber: 2.3 Consensus size: 22
99931068 ATCCCCGGTC
*
99931078 CACACGGCCGTATGCCTCTA-T
1 CACACGGCCGTATGCCCCTATT
*
99931099 CACACGGCCGTGTGCCCCTATT
1 CACACGGCCGTATGCCCCTATT
99931121 CACACGG
1 CACACGG
99931128 GTGTTTGACC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 18 0.69
22 8 0.31
ACGTcount: A:0.18, C:0.40, G:0.22, T:0.20
Consensus pattern (22 bp):
CACACGGCCGTATGCCCCTATT
Found at i:99933165 original size:28 final size:28
Alignment explanation
Indices: 99933112--99933264 Score: 117
Period size: 28 Copynumber: 5.5 Consensus size: 28
99933102 AAAATTCAAT
** * *
99933112 GGTCATATTGCAACGATCAGAGTCCAAC
1 GGTCATATTATAACGGTCAGATTCCAAC
* * * *
99933140 GTTCATATTCTAACGGTTAGATTCCAAT
1 GGTCATATTATAACGGTCAGATTCCAAC
* * * *
99933168 GGCCATATTATAATGGTCAAATTCTAAC
1 GGTCATATTATAACGGTCAGATTCCAAC
* *
99933196 AGTCATATTGTAACGGTCAGATTCCAAC
1 GGTCATATTATAACGGTCAGATTCCAAC
* * ** *
99933224 GGTCATATTGTCACTATCAGATTCCAAT
1 GGTCATATTATAACGGTCAGATTCCAAC
**
99933252 GACCATATTATAA
1 GGTCATATTATAA
99933265 TGATAAGATT
Statistics
Matches: 95, Mismatches: 30, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
28 95 1.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (28 bp):
GGTCATATTATAACGGTCAGATTCCAAC
Found at i:99933222 original size:84 final size:84
Alignment explanation
Indices: 99933113--99933266 Score: 218
Period size: 84 Copynumber: 1.8 Consensus size: 84
99933103 AAATTCAATG
* * * *
99933113 GTCATATTGCAACGATCAGAGTCCAACGTTCATATTCTAACGGTTAGATTCCAATGGCCATATTA
1 GTCATATTGCAACGATCAGAGTCCAACGGTCATATTCTAACGATCAGATTCCAATGACCATATTA
99933178 TAATGGTCAAATTCTAACA
66 TAATGGTCAAATTCTAACA
* * * * * *
99933197 GTCATATTGTAACGGTCAGATTCCAACGGTCATATTGTCACTATCAGATTCCAATGACCATATTA
1 GTCATATTGCAACGATCAGAGTCCAACGGTCATATTCTAACGATCAGATTCCAATGACCATATTA
99933262 TAATG
66 TAATG
99933267 ATAAGATTTT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
84 60 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (84 bp):
GTCATATTGCAACGATCAGAGTCCAACGGTCATATTCTAACGATCAGATTCCAATGACCATATTA
TAATGGTCAAATTCTAACA
Found at i:99933224 original size:14 final size:14
Alignment explanation
Indices: 99933112--99933232 Score: 71
Period size: 14 Copynumber: 8.6 Consensus size: 14
99933102 AAAATTCAAT
*
99933112 GGTCATATTGCAAC
1 GGTCATATTCCAAC
* * *
99933126 GATCAGAGTCCAAC
1 GGTCATATTCCAAC
* *
99933140 GTTCATATTCTAAC
1 GGTCATATTCCAAC
* * *
99933154 GGTTAGATTCCAAT
1 GGTCATATTCCAAC
* ** *
99933168 GGCCATATTATAAT
1 GGTCATATTCCAAC
* *
99933182 GGTCAAATTCTAAC
1 GGTCATATTCCAAC
* **
99933196 AGTCATATTGTAAC
1 GGTCATATTCCAAC
*
99933210 GGTCAGATTCCAAC
1 GGTCATATTCCAAC
99933224 GGTCATATT
1 GGTCATATT
99933233 GTCACTATCA
Statistics
Matches: 77, Mismatches: 30, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
14 77 1.00
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.31
Consensus pattern (14 bp):
GGTCATATTCCAAC
Found at i:99939143 original size:18 final size:18
Alignment explanation
Indices: 99939122--99939156 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
99939112 TTTGAAAGAG
*
99939122 TTGAGAGAATTAGGAGAT
1 TTGAAAGAATTAGGAGAT
99939140 TTGAAAGAATTAGGAGA
1 TTGAAAGAATTAGGAGA
99939157 ATAAGATGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.31, T:0.26
Consensus pattern (18 bp):
TTGAAAGAATTAGGAGAT
Found at i:99940359 original size:41 final size:41
Alignment explanation
Indices: 99940313--99940395 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
99940303 TGTCAAATTG
99940313 AAAGAGAAAAGAAAATAATTCAATTCCAAATGGAAATAGGA
1 AAAGAGAAAAGAAAATAATTCAATTCCAAATGGAAATAGGA
* * *
99940354 AAAGAGAATAGAGAATAATTCAATTCCAAATTGAAATAGGA
1 AAAGAGAAAAGAAAATAATTCAATTCCAAATGGAAATAGGA
99940395 A
1 A
99940396 TACAAAAGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.57, C:0.07, G:0.17, T:0.19
Consensus pattern (41 bp):
AAAGAGAAAAGAAAATAATTCAATTCCAAATGGAAATAGGA
Found at i:99940500 original size:6 final size:6
Alignment explanation
Indices: 99940480--99940531 Score: 52
Period size: 6 Copynumber: 8.2 Consensus size: 6
99940470 AAACTAATTT
*
99940480 AATATAA AATCAAA AAT-AA AATAAA AATAAA AATAAA TAAAATAA AATAAA
1 AATA-AA AAT-AAA AATAAA AATAAA AATAAA AATAAA -AATA-AA AATAAA
99940531 A
1 A
99940532 TATTTCTATA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
5 5 0.13
6 17 0.44
7 14 0.36
8 3 0.08
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (6 bp):
AATAAA
Found at i:99940519 original size:4 final size:5
Alignment explanation
Indices: 99940492--99940533 Score: 59
Period size: 5 Copynumber: 8.2 Consensus size: 5
99940482 TATAAAATCA
99940492 AAAAT AAAAT AAAAAT AAAA- ATAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT -AAAAT AAAAT A-AAAT AAAAT AAAAT AAAAT A
99940534 TTTCTATACT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
4 1 0.03
5 27 0.79
6 6 0.18
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:99940519 original size:21 final size:20
Alignment explanation
Indices: 99940493--99940531 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
99940483 ATAAAATCAA
99940493 AAATAAAATAAAAATAAAAAT
1 AAATAAAAT-AAAATAAAAAT
99940514 AAATAAAATAAAATAAAA
1 AAATAAAATAAAATAAAA
99940532 TATTTCTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (20 bp):
AAATAAAATAAAATAAAAAT
Found at i:99946037 original size:12 final size:12
Alignment explanation
Indices: 99946020--99946044 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
99946010 TATGTTAGTC
99946020 TACTTTCGAGGT
1 TACTTTCGAGGT
99946032 TACTTTCGAGGT
1 TACTTTCGAGGT
99946044 T
1 T
99946045 TATGCACTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.16, G:0.24, T:0.44
Consensus pattern (12 bp):
TACTTTCGAGGT
Found at i:99948753 original size:15 final size:16
Alignment explanation
Indices: 99948735--99948764 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
99948725 TTTTTTTTTT
99948735 TGGGTGGGG-GGGTTC
1 TGGGTGGGGTGGGTTC
99948750 TGGGTGGGGTGGGTT
1 TGGGTGGGGTGGGTT
99948765 GCAATCTGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.00, C:0.03, G:0.67, T:0.30
Consensus pattern (16 bp):
TGGGTGGGGTGGGTTC
Found at i:99955011 original size:3 final size:3
Alignment explanation
Indices: 99954997--99955065 Score: 54
Period size: 3 Copynumber: 23.7 Consensus size: 3
99954987 GAGTGCCGAA
* * *
99954997 AAT AAT AA- AAT AAT AAT AA- AAT AAT AAG AAT AAA AATT AAA AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT
* * *
99955041 AA- AAT AAT AAT GAC AAC AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
99955066 ATGAATAAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 8
0.74 0.14 0.11
Matches are distributed among these distances:
2 6 0.12
3 44 0.85
4 2 0.04
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (3 bp):
AAT
Found at i:99955013 original size:11 final size:11
Alignment explanation
Indices: 99954997--99955066 Score: 59
Period size: 11 Copynumber: 5.8 Consensus size: 11
99954987 GAGTGCCGAA
99954997 AATAATAAAAT
1 AATAATAAAAT
99955008 AATAATAAAAT
1 AATAATAAAAT
99955019 AATAAGAATAAAAATT
1 AAT---AAT-AAAA-T
*
99955035 AAAAATAAAAT
1 AATAATAAAAT
* *
99955046 AATAATGACAAC
1 AATAAT-AAAAT
99955058 AATAATAAA
1 AATAATAAA
99955067 TGAATAAAAG
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
11 22 0.46
12 13 0.27
13 3 0.06
14 3 0.06
15 4 0.08
16 3 0.06
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (11 bp):
AATAATAAAAT
Found at i:99955067 original size:27 final size:27
Alignment explanation
Indices: 99955003--99955067 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
99954993 CGAAAATAAT
*
99955003 AAAATAAT-AATAAAATAATAAGAATA
1 AAAATAATAAATAAAATAATAAGAACA
99955029 AAAATTAA-AAATAAAATAATAATG-ACA
1 AAAA-TAATAAATAAAATAATAA-GAACA
*
99955056 ACAATAATAAAT
1 AAAATAATAAAT
99955068 GAATAAAAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
26 7 0.21
27 25 0.76
28 1 0.03
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (27 bp):
AAAATAATAAATAAAATAATAAGAACA
Found at i:99956774 original size:42 final size:43
Alignment explanation
Indices: 99956617--99956767 Score: 216
Period size: 44 Copynumber: 3.5 Consensus size: 43
99956607 TCATTTGAAC
* * **
99956617 CCACTGCAACTTTAGGG-GTATAAGATTTGTCGCTTTAATCTACT
1 CCACTGCAACTTTAGGGAG-ATAA-ATTTGTGGCTTCAATCTGTT
*
99956661 CCACTGCAACTTCAGGGAGATAAAATTTGTGGCTTCAATCTGTT
1 CCACTGCAACTTTAGGGAGAT-AAATTTGTGGCTTCAATCTGTT
99956705 CCACTGCAACTTTAGGGAGA-AAATTTGTGGCTTCAATCTGTT
1 CCACTGCAACTTTAGGGAGATAAATTTGTGGCTTCAATCTGTT
99956747 CCACTGCAACTTTAGGGAGAT
1 CCACTGCAACTTTAGGGAGAT
99956768 GATTTGTAAC
Statistics
Matches: 98, Mismatches: 6, Indels: 7
0.88 0.05 0.06
Matches are distributed among these distances:
42 42 0.43
44 53 0.54
45 3 0.03
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (43 bp):
CCACTGCAACTTTAGGGAGATAAATTTGTGGCTTCAATCTGTT
Found at i:99957091 original size:44 final size:44
Alignment explanation
Indices: 99957028--99957142 Score: 131
Period size: 44 Copynumber: 2.6 Consensus size: 44
99957018 CGTCAGCCTA
*
99957028 CTCCACTGCAACTTCAGGGAGATAAGACTTACAACTTCAACCTG
1 CTCCACTGCAACTTTAGGGAGATAAGACTTACAACTTCAACCTG
** * * * **
99957072 CTCCACTGCAACTTTAGGGAGATAAGGTTTATAGCTTTAATTTG
1 CTCCACTGCAACTTTAGGGAGATAAGACTTACAACTTCAACCTG
** *
99957116 CTATACTGCAACTTTAGAGAGATAAGA
1 CTCCACTGCAACTTTAGGGAGATAAGA
99957143 TTTTCTATTT
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 59 1.00
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (44 bp):
CTCCACTGCAACTTTAGGGAGATAAGACTTACAACTTCAACCTG
Found at i:99976249 original size:14 final size:14
Alignment explanation
Indices: 99976230--99976256 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
99976220 GTTAAAATAA
99976230 TTTCTTTGCCATAT
1 TTTCTTTGCCATAT
99976244 TTTCTTTGCCATA
1 TTTCTTTGCCATA
99976257 CTCAGTTTCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.22, G:0.07, T:0.56
Consensus pattern (14 bp):
TTTCTTTGCCATAT
Found at i:99980259 original size:6 final size:6
Alignment explanation
Indices: 99980248--99980288 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
99980238 ATGGTCCAAG
99980248 TGATAT TGATAT TGATAT TGATAT TGATAT TGATAT TGATA
1 TGATAT TGATAT TGATAT TGATAT TGATAT TGATAT TGATA
99980289 AATGTTTGCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.49
Consensus pattern (6 bp):
TGATAT
Found at i:99993937 original size:20 final size:20
Alignment explanation
Indices: 99993905--99993944 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
99993895 TAAAATTTTT
*
99993905 ATTTTATGGTTTTATTTAAG
1 ATTTTATGGTTTTAATTAAG
99993925 ATTTT-TGGTTTTTAATTAAG
1 ATTTTATGG-TTTTAATTAAG
99993945 GGTGTGTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.25, C:0.00, G:0.15, T:0.60
Consensus pattern (20 bp):
ATTTTATGGTTTTAATTAAG
Found at i:99999829 original size:25 final size:26
Alignment explanation
Indices: 99999796--99999845 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
99999786 TGGGAAGTTG
*
99999796 ATTATTGTT-ATTAAATTTTAATAAT
1 ATTATTGTTAAATAAATTTTAATAAT
*
99999821 ATTATTGTTAAATATATTTTAATAA
1 ATTATTGTTAAATAAATTTTAATAA
99999846 AAATAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (26 bp):
ATTATTGTTAAATAAATTTTAATAAT
Found at i:99999924 original size:12 final size:11
Alignment explanation
Indices: 99999909--99999975 Score: 50
Period size: 12 Copynumber: 5.9 Consensus size: 11
99999899 TCTAATAAAG
99999909 TAATATATAATT
1 TAATA-ATAATT
* *
99999921 TAATAACATTCT
1 TAATAATAAT-T
99999933 TAAT-ATAATTAT
1 TAATAATAA-T-T
99999945 TAATAAT-ATT
1 TAATAATAATT
99999955 TAATAATAATTT
1 TAATAATAA-TT
99999967 TAAT-ATAAT
1 TAATAATAAT
99999976 ATTATTAAGA
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
10 9 0.20
11 11 0.24
12 23 0.51
13 2 0.04
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (11 bp):
TAATAATAATT
Found at i:99999970 original size:34 final size:36
Alignment explanation
Indices: 99999909--99999996 Score: 101
Period size: 36 Copynumber: 2.4 Consensus size: 36
99999899 TCTAATAAAG
*
99999909 TAATATATAATTTAATAACATTCTTAATAT-A-ATTAT
1 TAATA-AT-ATTTAATAAAATTCTTAATATAATATTAT
99999945 TAATAATATTTAATAATAATT-TTAATATAATATTAT
1 TAATAATATTTAATAA-AATTCTTAATATAATATTAT
*
99999981 TAAGAATATTTCAATA
1 TAATAATATTT-AATA
99999997 TCTAATATAT
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
34 16 0.35
35 6 0.13
36 20 0.43
37 4 0.09
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (36 bp):
TAATAATATTTAATAAAATTCTTAATATAATATTAT
Found at i:100000270 original size:21 final size:21
Alignment explanation
Indices: 100000244--100000284 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
100000234 TATTAGTGAA
100000244 ATAAAAA-CATTCAAATTTTAC
1 ATAAAAATCATT-AAATTTTAC
*
100000265 ATAAAAATTATTAAATTTTA
1 ATAAAAATCATTAAATTTTA
100000285 GTAACATTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (21 bp):
ATAAAAATCATTAAATTTTAC
Found at i:100007263 original size:33 final size:33
Alignment explanation
Indices: 100007193--100007281 Score: 106
Period size: 33 Copynumber: 2.7 Consensus size: 33
100007183 CGTTCATAGT
* * * *
100007193 GCCATAACCCGATTATGGTCTTATCATTAGAAT
1 GCCATAACCCAACTATGGTCTTATCATCAGAAC
* *
100007226 GCCATAACCCAACTATTGTCTTATCATCAGGAC
1 GCCATAACCCAACTATGGTCTTATCATCAGAAC
* *
100007259 GCCATAGCCCAGCTATGGTCTTA
1 GCCATAACCCAACTATGGTCTTA
100007282 CATATATACA
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (33 bp):
GCCATAACCCAACTATGGTCTTATCATCAGAAC
Found at i:100008550 original size:16 final size:17
Alignment explanation
Indices: 100008519--100008551 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
100008509 ATAACAATTA
100008519 AATTTAACCTCTTTTAC
1 AATTTAACCTCTTTTAC
*
100008536 AATTTAATC-CTTTTAC
1 AATTTAACCTCTTTTAC
100008552 CTTAATTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.30, C:0.21, G:0.00, T:0.48
Consensus pattern (17 bp):
AATTTAACCTCTTTTAC
Found at i:100011003 original size:43 final size:44
Alignment explanation
Indices: 100010935--100011070 Score: 139
Period size: 51 Copynumber: 3.0 Consensus size: 44
100010925 TTATAAATCC
* * *
100010935 GAACTCATTGAGTGGTCCAAGTTCATTATGGATGTG-AGCATCT
1 GAACTCGTTGAGTGGTCCGAGTTCATTATGGATGTGTAACATCT
* * *
100010978 GAGCTCGTTGAGTGGTCTGAGTTCATGATGGATGCGACGCCTGTAACATCT
1 GAACTCGTTGAGTGGTCCGAGTTCAT--T--ATG-GATG--TGTAACATCT
*
100011029 GAACTCGTTGAGTGGTCCGAGTTCATTATGGATGTGTTACAT
1 GAACTCGTTGAGTGGTCCGAGTTCATTATGGATGTGTAACAT
100011071 GTTATAAGGT
Statistics
Matches: 75, Mismatches: 10, Indels: 15
0.75 0.10 0.15
Matches are distributed among these distances:
43 22 0.29
44 7 0.09
45 1 0.01
46 3 0.04
47 6 0.08
48 3 0.04
49 1 0.01
50 2 0.03
51 30 0.40
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (44 bp):
GAACTCGTTGAGTGGTCCGAGTTCATTATGGATGTGTAACATCT
Found at i:100021107 original size:19 final size:19
Alignment explanation
Indices: 100021074--100021120 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
100021064 CAATAAGAAT
100021074 AACAATAAAATAAT-AATA
1 AACAATAAAATAATAAATA
*
100021092 AACACTAAATATAATAAATA
1 AACAATAAA-ATAATAAATA
100021112 AA-AATAAAA
1 AACAATAAAA
100021121 AAGTAAAGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 9 0.36
19 10 0.40
20 6 0.24
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.21
Consensus pattern (19 bp):
AACAATAAAATAATAAATA
Found at i:100025035 original size:40 final size:40
Alignment explanation
Indices: 100024950--100025041 Score: 116
Period size: 40 Copynumber: 2.3 Consensus size: 40
100024940 GATTATGTTC
* * *
100024950 GGCATTAAGTGTGCGATTTGAAATAGCTTCGGCTATAAATA
1 GGCACTAAGTGTGCGAATTGAAATAGCTTCGACTAT-AATA
*
100024991 -GCACTAAGTGTGCGAATTGGAATAGCTTCGACTAT-ATGA
1 GGCACTAAGTGTGCGAATTGAAATAGCTTCGACTATAAT-A
100025030 GGCACTAAGTGT
1 GGCACTAAGTGT
100025042 ACCATATCGA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
38 2 0.04
39 1 0.02
40 42 0.93
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (40 bp):
GGCACTAAGTGTGCGAATTGAAATAGCTTCGACTATAATA
Found at i:100041609 original size:68 final size:72
Alignment explanation
Indices: 100041537--100041674 Score: 212
Period size: 72 Copynumber: 2.0 Consensus size: 72
100041527 TTTAATAGAT
* **
100041537 TTAATATTAAATTTAATTTAATACTTATC-T-TA-A-CAATATTTTATTAATTTAATATTAAAGT
1 TTAATATTAAATTTAATTTAATACTTATCTTGTAGATAAATATCCTATTAATTTAATATTAAAGT
100041598 GATTATC
66 GATTATC
*
100041605 TTAATATTAAATTTAATTTAATATTTATCTTGTAGATAAATATCCTATTAATTTAATATTAAAGT
1 TTAATATTAAATTTAATTTAATACTTATCTTGTAGATAAATATCCTATTAATTTAATATTAAAGT
100041670 GATTA
66 GATTA
100041675 AATTTAATCA
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
68 28 0.45
69 1 0.02
70 2 0.03
71 1 0.02
72 30 0.48
ACGTcount: A:0.41, C:0.05, G:0.04, T:0.49
Consensus pattern (72 bp):
TTAATATTAAATTTAATTTAATACTTATCTTGTAGATAAATATCCTATTAATTTAATATTAAAGT
GATTATC
Found at i:100044303 original size:16 final size:17
Alignment explanation
Indices: 100044282--100044314 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
100044272 AAAGTCACAA
*
100044282 ATTTAA-GTTTTGCAAG
1 ATTTAACGTTATGCAAG
100044298 ATTTAACGTTATGCAAG
1 ATTTAACGTTATGCAAG
100044315 CTAGTATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.39
Consensus pattern (17 bp):
ATTTAACGTTATGCAAG
Found at i:100046730 original size:17 final size:17
Alignment explanation
Indices: 100046710--100046754 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
100046700 AACGCCCGTC
100046710 CACCACGCACGTTAGCA
1 CACCACGCACGTTAGCA
*
100046727 CACCACGCACGTTGGCA
1 CACCACGCACGTTAGCA
*
100046744 CACCAAGCACG
1 CACCACGCACG
100046755 ACCCCCAGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.29, C:0.42, G:0.20, T:0.09
Consensus pattern (17 bp):
CACCACGCACGTTAGCA
Found at i:100047882 original size:29 final size:26
Alignment explanation
Indices: 100047849--100047914 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 26
100047839 TTGACTTCCT
100047849 TTTATTTTATGTAAATATTCTCTCTTAAA
1 TTTA-TTTATGTAAATATTCT-T-TTAAA
* *
100047878 TTTA-TTATATATATATTCTTTTAAA
1 TTTATTTATGTAAATATTCTTTTAAA
100047903 TTTATTTATGTA
1 TTTATTTATGTA
100047915 TAATTTGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
25 9 0.27
26 7 0.21
27 13 0.39
29 4 0.12
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (26 bp):
TTTATTTATGTAAATATTCTTTTAAA
Found at i:100047906 original size:25 final size:26
Alignment explanation
Indices: 100047863--100047916 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 26
100047853 TTTTATGTAA
100047863 ATATTCTCTCTTAAATTTATTATATAT
1 ATATTCTCTCTTAAATTTATT-TATAT
*
100047890 ATATTCT-T-TTAAATTTATTTATGT
1 ATATTCTCTCTTAAATTTATTTATAT
100047914 ATA
1 ATA
100047917 ATTTGGTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 7 0.27
25 11 0.42
26 1 0.04
27 7 0.27
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.57
Consensus pattern (26 bp):
ATATTCTCTCTTAAATTTATTTATAT
Found at i:100048668 original size:127 final size:128
Alignment explanation
Indices: 100048516--100048766 Score: 387
Period size: 128 Copynumber: 2.0 Consensus size: 128
100048506 ATTTTCGTCT
* * *
100048516 CGTGTTTTGGAAATCATAAGGTGATCTCAG-TTTTTGGAGGCTTAAAATATCGTATCCTAACGTG
1 CGTGTTTTGGAAATCATAAGGTGATCTCAGTTTTTTAGAGGCTTAAAATATCCTATCCTAACATG
* * *
100048580 CTGGATGTGGTATTTTATTCCTTTGGAACGAGTGAATCTTAAAATCCAACTTGAGTTGTTTGG
66 CTGGATGTGGTATTTAATTCCTTTGAAACGAGTGAATCTTAAAATCCAACATGAGTTGTTTGG
* * * * *
100048643 CGTGTTTTGGGAATCATGAGGTGATCTCAGTTTTTTAGAGGTTTAAAATATCCTGTCTTAACATG
1 CGTGTTTTGGAAATCATAAGGTGATCTCAGTTTTTTAGAGGCTTAAAATATCCTATCCTAACATG
*
100048708 CTGGATGTGGTATTTAATTCCTTTGAAACGAGTGAATCTTAAAATCCATCATGAGTTGT
66 CTGGATGTGGTATTTAATTCCTTTGAAACGAGTGAATCTTAAAATCCAACATGAGTTGT
100048767 GCACACATTT
Statistics
Matches: 111, Mismatches: 12, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
127 28 0.25
128 83 0.75
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (128 bp):
CGTGTTTTGGAAATCATAAGGTGATCTCAGTTTTTTAGAGGCTTAAAATATCCTATCCTAACATG
CTGGATGTGGTATTTAATTCCTTTGAAACGAGTGAATCTTAAAATCCAACATGAGTTGTTTGG
Found at i:100060093 original size:45 final size:45
Alignment explanation
Indices: 100060035--100060131 Score: 133
Period size: 45 Copynumber: 2.2 Consensus size: 45
100060025 AGTTGCAGGA
* * *
100060035 AGCAGACCAAAAATTACATA-TCTTATCTCTATGTATTGGCTATGG
1 AGCAGATCAAAAATGACA-AGTCTTATCTCTATGTATCGGCTATGG
* *
100060080 AGCAGATCGAAAATGGCAAGTCTTATCTCTATGTATCGGCTATGG
1 AGCAGATCAAAAATGACAAGTCTTATCTCTATGTATCGGCTATGG
100060125 AGCAGAT
1 AGCAGAT
100060132 TTTAGCCACT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 1 0.02
45 45 0.98
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (45 bp):
AGCAGATCAAAAATGACAAGTCTTATCTCTATGTATCGGCTATGG
Found at i:100060174 original size:177 final size:177
Alignment explanation
Indices: 100059865--100060879 Score: 1325
Period size: 177 Copynumber: 5.7 Consensus size: 177
100059855 GCGACATCGG
* *
100059865 TAAAAATTACAGATCTTATCTCCATGTATCGGCTATGAAGCAGATCGACAATGGCGAGTCTTATC
1 TAAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATC
* * *
100059930 TCCATGTATCGGCTATGGAGCAAATTTTAGTCACCAGCCTTATCTCTCTAAAGTTGCAGTGGAGC
66 TCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTTGCAGTGGAGC
*
100059995 AGGCTCAATATGCAAGTCTTATCTTCTTGAAGTTGCAGGAAGCAGAC
131 AGGCTCAATATGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGAC
* * * * *
100060042 CAAAAATTACATATCTTATCTCTATGTATTGGCTATGGAGCAGATCGAAAATGGCAAGTCTTATC
1 TAAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATC
* * * * ** *
100060107 TCTATGTATCGGCTATGGAGCAGATTTTAGCCACTAGCCTTATCTCTTTGAGGAAGCAAG-AGAG
66 TCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTTGC-AGTGGAG
* * * *
100060171 CAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGAC
130 CAGGCTCAATATGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGAC
* * * * *
100060219 TGAAAATTACATATCTTATCTCCATGTATCGGCTATGGGGTAGATCGAAAATGGCAAGTCTTATC
1 TAAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATC
100060284 TCCATGTATTC-GCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTTGCAGTGGAG
66 TCCATGTA-TCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTTGCAGTGGAG
* * **
100060348 CAGGCTCAATATGCAAGTATTATCTTCTTGAAGTTGCATAAAGCAGAC
130 CAGGCTCAATATGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGAC
* * * ** * *
100060396 TAAAAATAATAGATCTTATTTCCATGTATTAGCTATGGAGTAGATCGAAAATGGCGTGTCTTATC
1 TAAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATC
* * * * * *
100060461 TCCATGTATCGACTATGGAGCAGATTTTAGCCACCAACCTTATCTCTGTGAGGTAGCAAG-AGAG
66 TCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTTGC-AGTGGAG
* * * **
100060525 CAGGTTGAAGATATAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGAC
130 CAGGCTCAATATGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGAC
* * * *
100060573 TGAAAATTACAGATCTTATCTCCATGTATTGGCTATGGGGTAGATCGAAAATGGCGAGTCTTATC
1 TAAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATC
* * *
100060638 TCCATGTATCAGCTATGGAGCAAATTTTAGCCACCAGCCTTATTTCTCTGAAGTTGCAGTGGAGC
66 TCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTTGCAGTGGAGC
* *
100060703 AGGCTCAATATGCAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGAC
131 AGGCTCAATATGCAAGTCTTATCTTCCTGAAGTTGC-AGGAAGCAGAC
* * * * * *
100060751 TGAAAATAACAGATCTTATTTCCACGTATCGGCTATGGAGCAGATCGAAGATGGCGTGTCTTATC
1 TAAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATC
* * * * * * * *
100060816 TCCATGTATCGACTATGGAGTAGGTTTTAGCCACCGGCTTTGTCTCCCTGAAGTTACAGTGGAG
66 TCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTTGCAGTGGAG
100060880 TAGGTTGAAG
Statistics
Matches: 721, Mismatches: 110, Indels: 13
0.85 0.13 0.02
Matches are distributed among these distances:
176 6 0.01
177 588 0.82
178 127 0.18
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (177 bp):
TAAAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATGGCGAGTCTTATC
TCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTTGCAGTGGAGC
AGGCTCAATATGCAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGAC
Found at i:100060521 original size:354 final size:353
Alignment explanation
Indices: 100059867--100060850 Score: 1556
Period size: 354 Copynumber: 2.8 Consensus size: 353
100059857 GACATCGGTA
** * *
100059867 AAAATTACAGATCTTATCTCCATGTATCGGCTATGAAGCAGATCGACAATGGCGAGTCTTATCTC
1 AAAATTACAGATCTTATCTCCATGTATCGGCTATGGGGTAGATCGAAAATGGCGAGTCTTATCTC
* * *
100059932 CATGTATCGGCTATGGAGCAAATTTTAGTCACCAGCCTTATCTCTCTAAAGTTGCAGTGGAGCAG
66 CATGTATCAGCTATGGAGCAAATTTTAGCCACCAGCCTTATCTCTCTGAAGTTGCAGTGGAGCAG
* * * * *
100059997 GCTCAATATGCAAGTCTTATCTTCTTGAAGTTGCAGGAAGCAGACCAAAAATTACATATCTTATC
131 GCTCAATATGCAAGTCTTATCTTCTTGAAGTTGCA-AAAGCAGACTAAAAATAACAGATCTTATT
* ** * *
100060062 TCTATGTATTGGCTATGGAGCAGATCGAAAATGGCAAGTCTTATCTCTATGTATCGGCTATGGAG
195 TCCATGTATTGGCTATGGAGCAGATCGAAAATGGCGTGTCTTATCTCCATGTATCGACTATGGAG
* * *
100060127 CAGATTTTAGCCACTAGCCTTATCTCTTTGAGGAAGCAAGAGAGCAGGTTGAAGATACAAGTCTT
260 CAGATTTTAGCCACCAACCTTATCTCTGTGAGGAAGCAAGAGAGCAGGTTGAAGATACAAGTCTT
100060192 ATCTTCCTGAAGTTGCAGGAAGCAGACTG
325 ATCTTCCTGAAGTTGCAGGAAGCAGACTG
* *
100060221 AAAATTACATATCTTATCTCCATGTATCGGCTATGGGGTAGATCGAAAATGGCAAGTCTTATCTC
1 AAAATTACAGATCTTATCTCCATGTATCGGCTATGGGGTAGATCGAAAATGGCGAGTCTTATCTC
*
100060286 CATGTATTC-GCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGTTGCAGTGGAGCA
66 CATGTA-TCAGCTATGGAGCAAATTTTAGCCACCAGCCTTATCTCTCTGAAGTTGCAGTGGAGCA
* *
100060350 GGCTCAATATGCAAGTATTATCTTCTTGAAGTTGCATAAAGCAGACTAAAAATAATAGATCTTAT
130 GGCTCAATATGCAAGTCTTATCTTCTTGAAGTTGCA-AAAGCAGACTAAAAATAACAGATCTTAT
* *
100060415 TTCCATGTATTAGCTATGGAGTAGATCGAAAATGGCGTGTCTTATCTCCATGTATCGACTATGGA
194 TTCCATGTATTGGCTATGGAGCAGATCGAAAATGGCGTGTCTTATCTCCATGTATCGACTATGGA
* *
100060480 GCAGATTTTAGCCACCAACCTTATCTCTGTGAGGTAGCAAGAGAGCAGGTTGAAGATATAAGTCT
259 GCAGATTTTAGCCACCAACCTTATCTCTGTGAGGAAGCAAGAGAGCAGGTTGAAGATACAAGTCT
100060545 TATCTTCCTGAAGTTGCAGGAAGCAGACTG
324 TATCTTCCTGAAGTTGCAGGAAGCAGACTG
*
100060575 AAAATTACAGATCTTATCTCCATGTATTGGCTATGGGGTAGATCGAAAATGGCGAGTCTTATCTC
1 AAAATTACAGATCTTATCTCCATGTATCGGCTATGGGGTAGATCGAAAATGGCGAGTCTTATCTC
*
100060640 CATGTATCAGCTATGGAGCAAATTTTAGCCACCAGCCTTATTTCTCTGAAGTTGCAGTGGAGCAG
66 CATGTATCAGCTATGGAGCAAATTTTAGCCACCAGCCTTATCTCTCTGAAGTTGCAGTGGAGCAG
* * * *
100060705 GCTCAATATGCAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAATAACAGATCTTAT
131 GCTCAATATGCAAGTCTTATCTTCTTGAAGTTGCAA--AAGCAGACTAAAAATAACAGATCTTAT
* * *
100060770 TTCCACGTATCGGCTATGGAGCAGATCGAAGATGGCGTGTCTTATCTCCATGTATCGACTATGGA
194 TTCCATGTATTGGCTATGGAGCAGATCGAAAATGGCGTGTCTTATCTCCATGTATCGACTATGGA
* *
100060835 GTAGGTTTTAGCCACC
259 GCAGATTTTAGCCACC
100060851 GGCTTTGTCT
Statistics
Matches: 579, Mismatches: 47, Indels: 7
0.91 0.07 0.01
Matches are distributed among these distances:
353 3 0.01
354 475 0.82
355 101 0.17
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (353 bp):
AAAATTACAGATCTTATCTCCATGTATCGGCTATGGGGTAGATCGAAAATGGCGAGTCTTATCTC
CATGTATCAGCTATGGAGCAAATTTTAGCCACCAGCCTTATCTCTCTGAAGTTGCAGTGGAGCAG
GCTCAATATGCAAGTCTTATCTTCTTGAAGTTGCAAAAGCAGACTAAAAATAACAGATCTTATTT
CCATGTATTGGCTATGGAGCAGATCGAAAATGGCGTGTCTTATCTCCATGTATCGACTATGGAGC
AGATTTTAGCCACCAACCTTATCTCTGTGAGGAAGCAAGAGAGCAGGTTGAAGATACAAGTCTTA
TCTTCCTGAAGTTGCAGGAAGCAGACTG
Found at i:100062389 original size:29 final size:27
Alignment explanation
Indices: 100062356--100062425 Score: 79
Period size: 29 Copynumber: 2.5 Consensus size: 27
100062346 TTAACTTCCT
100062356 TTTATTTTATGTAAATATTCTCTCTTAAA
1 TTTATTTTATGTAAATATTCT-T-TTAAA
* *
100062385 TTTATTATATATATATATATTCTTTTAAA
1 TTTATT-T-TATGTAAATATTCTTTTAAA
100062414 TTTA-TTTATGTA
1 TTTATTTTATGTA
100062426 TAATTTGGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
26 5 0.14
27 1 0.03
28 1 0.03
29 15 0.42
30 2 0.06
31 12 0.33
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.59
Consensus pattern (27 bp):
TTTATTTTATGTAAATATTCTTTTAAA
Found at i:100063190 original size:127 final size:128
Alignment explanation
Indices: 100063043--100063282 Score: 392
Period size: 128 Copynumber: 1.9 Consensus size: 128
100063033 ATTTTCGTCT
* *
100063043 CGTGTTTTGGAAATCATGAGGTGATCTCA-ATTTTTGGAGGCTTAAAATATCGTGTCCTAACGTG
1 CGTGTTTTGGAAATCATGAGGTGATCTCAGATTTTTAGAGGCTTAAAATATCATGTCCTAACGTG
* *
100063107 CTGGATGTGGTATTTTATTCCTTTGGAACGAGTGAATCGTAAAATCCAACTTGAGTTGTTTCG
66 CTGGATGTGGTATTTAATTCCTTTGGAACGAGCGAATCGTAAAATCCAACTTGAGTTGTTTCG
* * *
100063170 CGTGTTTTGGGAATCATGAGGTGATCTCAGTTTTTTAGAGGTTTAAAATATCATGTCCTAACGTG
1 CGTGTTTTGGAAATCATGAGGTGATCTCAGATTTTTAGAGGCTTAAAATATCATGTCCTAACGTG
* *
100063235 CTGGATGTGGTATTTAATTCCTTTGGAATGAGCGAATCTTAAAATCCA
66 CTGGATGTGGTATTTAATTCCTTTGGAACGAGCGAATCGTAAAATCCA
100063283 TCACGAGTTG
Statistics
Matches: 103, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
127 28 0.27
128 75 0.73
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.37
Consensus pattern (128 bp):
CGTGTTTTGGAAATCATGAGGTGATCTCAGATTTTTAGAGGCTTAAAATATCATGTCCTAACGTG
CTGGATGTGGTATTTAATTCCTTTGGAACGAGCGAATCGTAAAATCCAACTTGAGTTGTTTCG
Found at i:100067176 original size:118 final size:117
Alignment explanation
Indices: 100066969--100067209 Score: 446
Period size: 118 Copynumber: 2.1 Consensus size: 117
100066959 TCCAAAAAAT
100066969 TAATTAGTACATTTTCCAAATATCTTCATTTCAACATCTTAAATTAATTAGTGTAATCAATTTAG
1 TAATTAGTACATTTTCCAAATATCTTCATTTCAACATCTTAAATTAATTAGTGTAATCAATTTAG
100067034 TCCAAAAAATTAGAGTCAACATCTTAAAAAACGGAAAAAATTAATTTTATTG
66 TCCAAAAAATTAGAGTCAACATCTTAAAAAACGGAAAAAATTAATTTTATTG
100067086 TAATTAGTACATTTTCCAAATATCTTCATTTTCAACATCTTAAATTAATTAGTGTAATCAATTTA
1 TAATTAGTACATTTTCCAAATATCTTCA-TTTCAACATCTTAAATTAATTAGTGTAATCAATTTA
* * *
100067151 GTCCAAAAAATTAGAGTCAACATCTTAAAAAAGGGGAAAAATTAATTTTGTTG
65 GTCCAAAAAATTAGAGTCAACATCTTAAAAAACGGAAAAAATTAATTTTATTG
100067204 TAATTA
1 TAATTA
100067210 ATTCAATAAA
Statistics
Matches: 120, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
117 28 0.23
118 92 0.77
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.37
Consensus pattern (117 bp):
TAATTAGTACATTTTCCAAATATCTTCATTTCAACATCTTAAATTAATTAGTGTAATCAATTTAG
TCCAAAAAATTAGAGTCAACATCTTAAAAAACGGAAAAAATTAATTTTATTG
Found at i:100071846 original size:3 final size:3
Alignment explanation
Indices: 100071840--100071917 Score: 50
Period size: 3 Copynumber: 25.7 Consensus size: 3
100071830 ATTATATCTT
* * * * *
100071840 TAA TAA TAA TCA TAA TAA TAA TAC TTA TAA TATT TAA TAA TCA T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA
* * * *
100071885 CAA TAA TAA TAC TTA TAA TATT TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TA
100071918 CAATAGTAAA
Statistics
Matches: 55, Mismatches: 17, Indels: 6
0.71 0.22 0.08
Matches are distributed among these distances:
2 1 0.02
3 50 0.91
4 4 0.07
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:100071868 original size:33 final size:33
Alignment explanation
Indices: 100071823--100071922 Score: 148
Period size: 33 Copynumber: 3.0 Consensus size: 33
100071813 TATGTTGAAA
* * *
100071823 AATAATAATTAT-ATCTTTAATAATAATCATAAT
1 AATAATACTTATAATATTTAATAATAAT-ACAAT
*
100071856 AATAATACTTATAATATTTAATAATCATACAAT
1 AATAATACTTATAATATTTAATAATAATACAAT
100071889 AATAATACTTATAATATTTAATAATAATACAAT
1 AATAATACTTATAATATTTAATAATAATACAAT
100071922 A
1 A
100071923 GTAAAAATAT
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
33 48 0.79
34 13 0.21
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (33 bp):
AATAATACTTATAATATTTAATAATAATACAAT
Found at i:100071891 original size:11 final size:11
Alignment explanation
Indices: 100071841--100071922 Score: 51
Period size: 11 Copynumber: 7.4 Consensus size: 11
100071831 TTATATCTTT
*
100071841 AATAATAATCAT
1 AATAATAAT-AC
100071853 AATAATAATAC
1 AATAATAATAC
* **
100071864 TTATAAT-ATTT
1 -AATAATAATAC
*
100071875 AATAATCATAC
1 AATAATAATAC
100071886 AATAATAATAC
1 AATAATAATAC
* **
100071897 TTATAAT-ATTT
1 -AATAATAATAC
100071908 AATAATAATAC
1 AATAATAATAC
100071919 AATA
1 AATA
100071923 GTAAAAATAT
Statistics
Matches: 52, Mismatches: 14, Indels: 9
0.69 0.19 0.12
Matches are distributed among these distances:
10 10 0.19
11 23 0.44
12 19 0.37
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (11 bp):
AATAATAATAC
Found at i:100072355 original size:15 final size:16
Alignment explanation
Indices: 100072324--100072356 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
100072314 AATTGCATGG
*
100072324 TTAATTACAATAAAAA
1 TTAATTACAAGAAAAA
100072340 TTAATT-CAAGAAAAA
1 TTAATTACAAGAAAAA
100072355 TT
1 TT
100072357 TTTTTGTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (16 bp):
TTAATTACAAGAAAAA
Found at i:100074048 original size:21 final size:18
Alignment explanation
Indices: 100074017--100074055 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 18
100074007 TAAAATAGAT
100074017 AATATATAAAATAGTTTAA
1 AATATATAAAATA-TTTAA
100074036 AATATATGAAAAATATTTAA
1 AATATAT--AAAATATTTAA
100074056 TAAATAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 5 0.28
21 6 0.33
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (18 bp):
AATATATAAAATATTTAA
Found at i:100074369 original size:5 final size:5
Alignment explanation
Indices: 100074353--100074383 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
100074343 GACAAAATTA
100074353 AAAAG TAAAAG AAAAG AAAAG AAAAG AAAAG
1 AAAAG -AAAAG AAAAG AAAAG AAAAG AAAAG
100074384 GATTTGATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.03
Consensus pattern (5 bp):
AAAAG
Found at i:100075370 original size:12 final size:12
Alignment explanation
Indices: 100075353--100075389 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
100075343 TGTAGAACTT
100075353 TTTTATTTTTGG
1 TTTTATTTTTGG
100075365 TTTTA-TTTT-G
1 TTTTATTTTTGG
100075375 TTTTATTTTTTGG
1 TTTTA-TTTTTGG
100075388 TT
1 TT
100075390 GTTGGCCTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
10 6 0.27
11 4 0.18
12 9 0.41
13 3 0.14
ACGTcount: A:0.08, C:0.00, G:0.14, T:0.78
Consensus pattern (12 bp):
TTTTATTTTTGG
Found at i:100075844 original size:178 final size:179
Alignment explanation
Indices: 100075571--100075923 Score: 467
Period size: 178 Copynumber: 2.0 Consensus size: 179
100075561 AACTTGTAGC
* ** *
100075571 TTCGATTTACATCAATATAGTTTCAGGGAGAAGAGATTTGTAGCTTCGATATACTCCGTTGGAAC
1 TTCGATTTACATCAATATAGTTTCAAGGAGAAGAGATTTGTAGCTTCGATATACTCCACTGAAAC
* * * *
100075636 TTAAAGTAGACAAGAATTGGTAATTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGC
66 TCAAAGGAGACAAGAATTGGTAACTTCAACCTACTCCACTGCAACTTCAGGGAGATAAGGTTTGC
* *
100075701 GTATTTTTATCCT-ACCTACTACAACTTCAGAGAGATAAAGATTGCAAT
131 GTATTTTTACCCTGACCTACTACAACTTCAGAAAGATAAAGATTGCAAT
* * * * * *
100075749 TTCGATTTAC-TCCAATGTATTTTCAAGGAGAAGAGATTTTTAGCTTCGTTCTACTCTACTGAAA
1 TTCGATTTACAT-CAATATAGTTTCAAGGAGAAGAGATTTGTAGCTTCGATATACTCCACTGAAA
* * *
100075813 CTCAAAGGAGATAAGAATTGGTAACTTCAACCTACTCTATTGCAACTTCAGGGAGATAAGGTTTG
65 CTCAAAGGAGACAAGAATTGGTAACTTCAACCTACTCCACTGCAACTTCAGGGAGATAAGGTTTG
* ** * *
100075878 TGTATTTTTACCCTGTTCTACTGCAACTTCAGAAAGATAAGGATTG
130 CGTATTTTTACCCTGACCTACTACAACTTCAGAAAGATAAAGATTG
100075924 TGGCTTCGAT
Statistics
Matches: 149, Mismatches: 24, Indels: 3
0.85 0.14 0.02
Matches are distributed among these distances:
177 1 0.01
178 122 0.82
179 26 0.17
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (179 bp):
TTCGATTTACATCAATATAGTTTCAAGGAGAAGAGATTTGTAGCTTCGATATACTCCACTGAAAC
TCAAAGGAGACAAGAATTGGTAACTTCAACCTACTCCACTGCAACTTCAGGGAGATAAGGTTTGC
GTATTTTTACCCTGACCTACTACAACTTCAGAAAGATAAAGATTGCAAT
Found at i:100076089 original size:41 final size:43
Alignment explanation
Indices: 100075897--100076093 Score: 136
Period size: 44 Copynumber: 4.5 Consensus size: 43
100075887 ACCCTGTTCT
* * *
100075897 ACTGCAACTTCAGAAAGATAAGGA-TTG-TGGCTTCGATCTGCTCC
1 ACTGCAACTTCAGAGAGATAA-GACTTGCT-AC-TCAATCTGCTCC
* * * ** *
100075941 ACTGCAACTTCAGGGAAATAA-AATCCACTATCTTCAGTCTGCTCC
1 ACTGCAACTTCAGAGAGATAAGACT-TGCTA-C-TCAATCTGCTCC
* *
100075986 ACTACAACTTCAGAGAGATAAGACTTGCTACTTCAACCTGCTCC
1 ACTGCAACTTCAGAGAGATAAGACTTGCTAC-TCAATCTGCTCC
* ** *
100076030 ACTGCTACTTCATG-GAGATAAGGTTTGCTA-T-GATCTGCTCC
1 ACTGCAACTTCA-GAGAGATAAGACTTGCTACTCAATCTGCTCC
*
100076071 ACTGCAACTTTAGAGAGATAAGA
1 ACTGCAACTTCAGAGAGATAAGA
100076094 TCTGTTTATT
Statistics
Matches: 121, Mismatches: 25, Indels: 17
0.74 0.15 0.10
Matches are distributed among these distances:
40 1 0.01
41 26 0.21
42 2 0.02
43 1 0.01
44 54 0.45
45 35 0.29
46 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.27
Consensus pattern (43 bp):
ACTGCAACTTCAGAGAGATAAGACTTGCTACTCAATCTGCTCC
Found at i:100080965 original size:19 final size:20
Alignment explanation
Indices: 100080941--100080985 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
100080931 TTGTGACATT
*
100080941 CAATGCATATG-ATGAAATG
1 CAATGCAGATGCATGAAATG
*
100080960 CAATGCAGATGCGTGAAATG
1 CAATGCAGATGCATGAAATG
100080980 -AATGCA
1 CAATGCA
100080986 AAAAGAGACG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.22
Consensus pattern (20 bp):
CAATGCAGATGCATGAAATG
Found at i:100083169 original size:21 final size:18
Alignment explanation
Indices: 100083138--100083176 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 18
100083128 TAAAATAGAT
100083138 AATATATAAAATAGTTTAA
1 AATATATAAAATA-TTTAA
100083157 AATATATGAAAAATATTTAA
1 AATATAT--AAAATATTTAA
100083177 TAAATAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 5 0.28
21 6 0.33
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (18 bp):
AATATATAAAATATTTAA
Found at i:100084486 original size:12 final size:12
Alignment explanation
Indices: 100084469--100084507 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
100084459 TGTAGAACTT
100084469 TTTTATTTTTGG
1 TTTTATTTTTGG
100084481 TTTTA-TTTT-G
1 TTTTATTTTTGG
100084491 TTTTATTTTTTGG
1 TTTTA-TTTTTGG
100084504 TTTT
1 TTTT
100084508 TGGGCCCCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
10 6 0.25
11 4 0.17
12 9 0.38
13 5 0.21
ACGTcount: A:0.08, C:0.00, G:0.13, T:0.79
Consensus pattern (12 bp):
TTTTATTTTTGG
Found at i:100086528 original size:21 final size:21
Alignment explanation
Indices: 100086502--100086544 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
100086492 AATGAGGAGC
100086502 ATTAGGAGAAGGTTGAACTCA
1 ATTAGGAGAAGGTTGAACTCA
100086523 ATTAGGAGAAGGTTGAACTCA
1 ATTAGGAGAAGGTTGAACTCA
100086544 A
1 A
100086545 GGGACAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.09, G:0.28, T:0.23
Consensus pattern (21 bp):
ATTAGGAGAAGGTTGAACTCA
Found at i:100092422 original size:20 final size:20
Alignment explanation
Indices: 100092397--100092442 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
100092387 ATTGGGCCTT
100092397 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
100092417 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
100092436 GCCCATA
1 GCCCATA
100092443 ACAAAATAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:100096471 original size:132 final size:132
Alignment explanation
Indices: 100096241--100096602 Score: 528
Period size: 132 Copynumber: 2.8 Consensus size: 132
100096231 GGAATCTTCG
* * * * * * * **
100096241 ATTATTTTGAACAAATGAAAAATCGCAACCCAGCACGATAGGGCACAATT-CTCGAATCACCAAA
1 ATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGTTAGGGCACGATTCCGCGAATTGCCAAA
* * **
100096305 CATTGAACATTTCCTTCGTTTCAAAGAGTTTTTAGGAAACATGAATGAAATTCTAAAGGGACATT
66 TATCGAACATCGCCTTCGTTTCAAAGAGTTTTTAGGAAACATGAATGAAATTCTAAAGGGACATT
100096370 CA
131 CA
* *
100096372 ATTATTTTGAGCAAACGAGAAATTACAGCCCAGCACGTTAGGGCACGATTCCGCGAATTGCCAAA
1 ATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGTTAGGGCACGATTCCGCGAATTGCCAAA
100096437 TATCGAACATCGCCTTCGTTTCAAAGAGTTTTTAGGAAACATGAATGAAATTCTAAAGGGACATT
66 TATCGAACATCGCCTTCGTTTCAAAGAGTTTTTAGGAAACATGAATGAAATTCTAAAGGGACATT
**
100096502 TG
131 CA
* *
100096504 ATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGTTAGGGCACGATTCCGAGAATTGTCAAA
1 ATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGTTAGGGCACGATTCCGCGAATTGCCAAA
* *
100096569 TATCGAACATCGCCTTCGTTTTAAAGAATTTTTA
66 TATCGAACATCGCCTTCGTTTCAAAGAGTTTTTA
100096603 AATGAATAAT
Statistics
Matches: 207, Mismatches: 23, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
131 42 0.20
132 165 0.80
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (132 bp):
ATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGTTAGGGCACGATTCCGCGAATTGCCAAA
TATCGAACATCGCCTTCGTTTCAAAGAGTTTTTAGGAAACATGAATGAAATTCTAAAGGGACATT
CA
Found at i:100099602 original size:133 final size:133
Alignment explanation
Indices: 100099376--100099635 Score: 340
Period size: 133 Copynumber: 2.0 Consensus size: 133
100099366 ATCTGTAATA
* ** * * *
100099376 TTCAGCTTACTCTGCTACAAGTTTAGAGAGATAGGATGGTGGCTTAAATCTGCTTCACTGCAACT
1 TTCAGCCTACTCCACTACAACTTTAGAGAGATAGGATGATGGCTTAAATCTACTTCACTGCAACT
*
100099441 TCAAGAAGACAAGATTCACCATTTTCGATCTGCTCCACTGCAACTTCAGGGAAACAAGATCTACA
66 TCAAGAAGACAAGATTCACCATCTTCGATCTGCTCCACTGCAACTTCAGGGAAACAAGATCTACA
100099506 ATC
131 ATC
* * * *
100099509 TTCAGCCTACTCCACTACAACTTTAGGGAGCTAGGATGATGGCTTAAATCTACTTTATTGCAACT
1 TTCAGCCTACTCCACTACAACTTTAGAGAGATAGGATGATGGCTTAAATCTACTTCACTGCAACT
* * ** ** ** *
100099574 TCAGGAAGACTAGATTTGCTGTCTTCGATCTGCTCTGCTGCAACTTCAGGGAGACAAGATCT
66 TCAAGAAGACAAGATTCACCATCTTCGATCTGCTCCACTGCAACTTCAGGGAAACAAGATCT
100099636 GTAGAATTCA
Statistics
Matches: 107, Mismatches: 20, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
133 107 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.29
Consensus pattern (133 bp):
TTCAGCCTACTCCACTACAACTTTAGAGAGATAGGATGATGGCTTAAATCTACTTCACTGCAACT
TCAAGAAGACAAGATTCACCATCTTCGATCTGCTCCACTGCAACTTCAGGGAAACAAGATCTACA
ATC
Found at i:100111270 original size:127 final size:128
Alignment explanation
Indices: 100111127--100111710 Score: 326
Period size: 132 Copynumber: 4.5 Consensus size: 128
100111117 AGAAAATCGA
* * * * * * *
100111127 AACCCAGCACAGTAGGGCACGACTCCTCGAATTTCTAGATATCAAACATTGCCTT-ATTTT-AGA
1 AACCCAGCACA-TAGGGCACAACTCCCCGAATTGCCAAACATCAAACATTACCTTCATTTTAAGA
* *
100111190 -ATTTAAAGAGCATGAGTGAAATTCTAAAGGAATCTTCGATTATATTGGACAAA-CAAGAAACCG
65 GATTTAAAGA-CATGAGTGAAATTCCAAAGGAATCTTCGATTATATTGAACAAATCAA-AAACCG
100111253 C
128 C
* * * *
100111254 AACCCAGCACGATAGGGCACAATTCCCCGAATTGCCAAACATCGAATATTACCTTCGTTTTGAAG
1 AACCCAGCAC-ATAGGGCACAACTCCCCGAATTGCCAAACATCAAACATTACCTTCATTTT-AAG
* * * * * *
100111319 AGTTTTTAAAGACATGAGTGAAATTCCAAAGGAATCTTTGATTGTTTTGAACAAATGAAAAATCG
64 AG-ATTTAAAGACATGAGTGAAATTCCAAAGGAATCTTCGATTATATTGAACAAATCAAAAACCG
100111384 C
128 C
* * * * * * *
100111385 AACCCAGCACAATAGGGCACAA-TTCTCGAATCGCCAAACATCGAACATTTCCTTCGTTTCAAAG
1 AACCCAGCAC-ATAGGGCACAACTCCCCGAATTGCCAAACATCAAACATTACCTTCATTT-TAAG
* * * * * *
100111449 AGTTTTTAGGAA-ACATGAATGAAATTCTAAAGGGA-CATTCGATTAT-TTTAAGCAAA-CGAGA
64 AG-ATTTA--AAGACATGAGTGAAATTCCAAAGGAATC-TTCGATTATATTGAA-CAAATC-AAA
**
100111510 AATTGC
123 AACCGC
* * * * * * * * *
100111516 AACCCAGCACGTTAGGGCACGATTCCGCGAATTGCCAAATATCGAACATCACCTTCGTTTCAAAG
1 AACCCAGCAC-ATAGGGCACAACTCCCCGAATTGCCAAACATCAAACATTACCTTCATTT-TAAG
* * * * * * * *
100111581 AGTTTTTAGGAA-ACATGAATGAAATTCTAAAGGGA-CATTCGATTATTTTGAGCAAATGAGAAA
64 AG-ATTTA--AAGACATGAGTGAAATTCCAAAGGAATC-TTCGATTATATTGAACAAATCAAAAA
**
100111644 TTGC
125 CCGC
* * ** * * * * ** *
100111648 AACACAGCACGTTAGGGCAGGATTCCGCGAATTGCCAAATATCGAACATCGCCTTCGTTTTAA
1 AACCCAGCAC-ATAGGGCACAACTCCCCGAATTGCCAAACATCAAACATTACCTTCATTTTAA
100111711 AGAATTTTTA
Statistics
Matches: 390, Mismatches: 51, Indels: 28
0.83 0.11 0.06
Matches are distributed among these distances:
127 43 0.11
128 5 0.01
130 51 0.13
131 124 0.32
132 164 0.42
133 3 0.01
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (128 bp):
AACCCAGCACATAGGGCACAACTCCCCGAATTGCCAAACATCAAACATTACCTTCATTTTAAGAG
ATTTAAAGACATGAGTGAAATTCCAAAGGAATCTTCGATTATATTGAACAAATCAAAAACCGC
Found at i:100111584 original size:262 final size:263
Alignment explanation
Indices: 100111200--100111720 Score: 647
Period size: 262 Copynumber: 2.0 Consensus size: 263
100111190 ATTTAAAGAG
* *
100111200 CATGAGTGAAATTCTAAAGGAATCTTCGATTATATTGGACAAACAAGAAACCGCAACCCAGCACG
1 CATGAATGAAATTCTAAAGGAATCTTCGATTATATTAGACAAACAAGAAACCGCAACCCAGCACG
* * **
100111265 ATAGGGCACAATTCCCCGAATTGCCAAACATCGAATATTACCTTCGTTTTGAAGAGTTTTTA-AA
66 ATAGGGCACAATTCCCCGAATTGCCAAACATCGAACATCACCTTCGTTTCAAAGAGTTTTTAGAA
* * * *
100111329 GACATGAGTGAAATTCCAAAGGAATC-TTTGATTGTTTTGAACAAATGAAAAATCGCAACCCAGC
131 -ACATGAATGAAATTCCAAAGGAA-CATTCGATTATTTTGAACAAATGAAAAATCGCAACACAGC
* ** *
100111393 ACAATAGGGCACAATT-CTCGAATCGCCAAACATCGAACATTTCCTTCGTTTCAAAGAGTTTTTA
194 ACAATAGGGCACAATTCCGCGAATCGCCAAACATCGAACATCGCCTTCGTTTCAAAGAATTTTTA
100111457 GGAAA
259 GGAAA
* * * **
100111462 CATGAATGAAATTCTAAAGGGA-CATTCGATTATTTTA-AGCAAACGAGAAATTGCAACCCAGCA
1 CATGAATGAAATTCTAAAGGAATC-TTCGATTATATTAGA-CAAACAAGAAACCGCAACCCAGCA
* * * *
100111525 CGTTAGGGCACGATTCCGCGAATTGCCAAATATCGAACATCACCTTCGTTTCAAAGAGTTTTTAG
64 CGATAGGGCACAATTCCCCGAATTGCCAAACATCGAACATCACCTTCGTTTCAAAGAGTTTTTA-
* * * * *
100111590 GAAACATGAATGAAATTCTAAAGGGACATTCGATTATTTTGAGCAAATGAGAAATTGCAACACAG
128 GAAACATGAATGAAATTCCAAAGGAACATTCGATTATTTTGAACAAATGAAAAATCGCAACACAG
** ** * * *
100111655 CACGTTAGGGCAGGATTCCGCGAATTGCCAAATATCGAACATCGCCTTCGTTTTAAAGAATTTTT
193 CACAATAGGGCACAATTCCGCGAATCGCCAAACATCGAACATCGCCTTCGTTTCAAAGAATTTTT
100111720 A
258 A
100111721 AATGAATAAT
Statistics
Matches: 218, Mismatches: 35, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
261 2 0.01
262 109 0.50
263 64 0.29
264 43 0.20
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.26
Consensus pattern (263 bp):
CATGAATGAAATTCTAAAGGAATCTTCGATTATATTAGACAAACAAGAAACCGCAACCCAGCACG
ATAGGGCACAATTCCCCGAATTGCCAAACATCGAACATCACCTTCGTTTCAAAGAGTTTTTAGAA
ACATGAATGAAATTCCAAAGGAACATTCGATTATTTTGAACAAATGAAAAATCGCAACACAGCAC
AATAGGGCACAATTCCGCGAATCGCCAAACATCGAACATCGCCTTCGTTTCAAAGAATTTTTAGG
AAA
Found at i:100111585 original size:132 final size:132
Alignment explanation
Indices: 100111200--100111720 Score: 606
Period size: 132 Copynumber: 4.0 Consensus size: 132
100111190 ATTTAAAGAG
* * * * *
100111200 CATGAGTGAAATTCTAAAGGAATCTTCGATTATATT-GGACAAACAAGAAACCGCAACCCAGCAC
1 CATGAATGAAATTCTAAAGGAATCTTCGATTATTTTAAG-CAAACGAGAAATCGCAACCCAGCAC
* * * **
100111264 GATAGGGCACAATTCCCCGAATTGCCAAACATCGAATATTACCTTCGTTTTGAAGAGTTTTTA--
65 GATAGGGCACAATTCCGCGAATTGCCAAACATCGAACATCACCTTCGTTTCAAAGAGTTTTTAGG
100111327 AAGA
130 AA-A
* * * * * *
100111331 CATGAGTGAAATTCCAAAGGAATCTTTGATTGTTTTGAA-CAAATGAAAAATCGCAACCCAGCAC
1 CATGAATGAAATTCTAAAGGAATCTTCGATTATTTT-AAGCAAACGAGAAATCGCAACCCAGCAC
* * * **
100111395 AATAGGGCACAATT-CTCGAATCGCCAAACATCGAACATTTCCTTCGTTTCAAAGAGTTTTTAGG
65 GATAGGGCACAATTCCGCGAATTGCCAAACATCGAACATCACCTTCGTTTCAAAGAGTTTTTAGG
100111459 AAA
130 AAA
* *
100111462 CATGAATGAAATTCTAAAGGGA-CATTCGATTATTTTAAGCAAACGAGAAATTGCAACCCAGCAC
1 CATGAATGAAATTCTAAAGGAATC-TTCGATTATTTTAAGCAAACGAGAAATCGCAACCCAGCAC
* * *
100111526 GTTAGGGCACGATTCCGCGAATTGCCAAATATCGAACATCACCTTCGTTTCAAAGAGTTTTTAGG
65 GATAGGGCACAATTCCGCGAATTGCCAAACATCGAACATCACCTTCGTTTCAAAGAGTTTTTAGG
100111591 AAA
130 AAA
* * * * *
100111594 CATGAATGAAATTCTAAAGGGA-CATTCGATTATTTTGAGCAAATGAGAAATTGCAACACAGCAC
1 CATGAATGAAATTCTAAAGGAATC-TTCGATTATTTTAAGCAAACGAGAAATCGCAACCCAGCAC
* ** * * * *
100111658 GTTAGGGCAGGATTCCGCGAATTGCCAAATATCGAACATCGCCTTCGTTTTAAAGAATTTTTA
65 GATAGGGCACAATTCCGCGAATTGCCAAACATCGAACATCACCTTCGTTTCAAAGAGTTTTTA
100111721 AATGAATAAT
Statistics
Matches: 344, Mismatches: 39, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
130 45 0.13
131 129 0.38
132 170 0.49
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.26
Consensus pattern (132 bp):
CATGAATGAAATTCTAAAGGAATCTTCGATTATTTTAAGCAAACGAGAAATCGCAACCCAGCACG
ATAGGGCACAATTCCGCGAATTGCCAAACATCGAACATCACCTTCGTTTCAAAGAGTTTTTAGGA
AA
Found at i:100113082 original size:26 final size:26
Alignment explanation
Indices: 100113046--100113155 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
100113036 TGATACAAAT
100113046 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
100113072 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* * *
100113098 TGCTAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
100113124 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
100113150 TGATAA
1 TGATAA
100113156 GAATATCATG
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:100118756 original size:12 final size:12
Alignment explanation
Indices: 100118739--100118763 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
100118729 TGCACCGTAT
100118739 CGGTAATAGTAA
1 CGGTAATAGTAA
100118751 CGGTAATAGTAA
1 CGGTAATAGTAA
100118763 C
1 C
100118764 AGTAGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.24
Consensus pattern (12 bp):
CGGTAATAGTAA
Found at i:100119688 original size:11 final size:11
Alignment explanation
Indices: 100119669--100119708 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
100119659 CTAGTTTTCC
*
100119669 CTTTTTCTTTT
1 CTTTCTCTTTT
100119680 CTTTCTCTTTT
1 CTTTCTCTTTT
*
100119691 CTTTCTTTTTT
1 CTTTCTCTTTT
100119702 CTTTCTC
1 CTTTCTC
100119709 CCCATTTTCG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (11 bp):
CTTTCTCTTTT
Found at i:100119749 original size:15 final size:15
Alignment explanation
Indices: 100119731--100119760 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
100119721 TCATGTTCTA
100119731 TTCTTTCTATTATTT
1 TTCTTTCTATTATTT
*
100119746 TTCTTTCTTTTATTT
1 TTCTTTCTATTATTT
100119761 AACTATTATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (15 bp):
TTCTTTCTATTATTT
Found at i:100119825 original size:19 final size:19
Alignment explanation
Indices: 100119801--100119839 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
100119791 AATACTTATT
*
100119801 TATTATTTA-TACATGTGTA
1 TATTA-TTAGTACATATGTA
100119820 TATTATTAGTACATATGTA
1 TATTATTAGTACATATGTA
100119839 T
1 T
100119840 CCATATATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.51
Consensus pattern (19 bp):
TATTATTAGTACATATGTA
Found at i:100119887 original size:15 final size:14
Alignment explanation
Indices: 100119864--100119902 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
100119854 ACACTTGTCT
100119864 TTTATTTATTATAC
1 TTTATTTATTATAC
*
100119878 TTTATATTATTATATT
1 TTTAT-TTATTATA-C
100119894 TTTATTTAT
1 TTTATTTAT
100119903 AATTATTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 5 0.23
15 12 0.55
16 5 0.23
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTATTTATTATAC
Found at i:100120724 original size:21 final size:21
Alignment explanation
Indices: 100120685--100120724 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
100120675 TCTGTCAATT
*
100120685 ACTAAGCTTTCAATTCTTTTA
1 ACTAAGCTTTCAATGCTTTTA
100120706 ACTAAGCTTTCTAA-GCTTT
1 ACTAAGCTTTC-AATGCTTT
100120725 CAATTCTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.28, C:0.20, G:0.07, T:0.45
Consensus pattern (21 bp):
ACTAAGCTTTCAATGCTTTTA
Found at i:100120740 original size:21 final size:21
Alignment explanation
Indices: 100120716--100120757 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
100120706 ACTAAGCTTT
100120716 CTAAGCTTTCAATTCTTTTAA
1 CTAAGCTTTCAATTCTTTTAA
100120737 CTAAGCTTTCAATTCTTTTAA
1 CTAAGCTTTCAATTCTTTTAA
100120758 TTCAGTAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.05, T:0.48
Consensus pattern (21 bp):
CTAAGCTTTCAATTCTTTTAA
Found at i:100120760 original size:30 final size:30
Alignment explanation
Indices: 100120686--100120746 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
100120676 CTGTCAATTA
100120686 CTAAGCTTTCAATTCTTTTAACTAAGCTTT
1 CTAAGCTTTCAATTCTTTTAACTAAGCTTT
100120716 CTAAGCTTTCAATTCTTTTAACTAAGCTTT
1 CTAAGCTTTCAATTCTTTTAACTAAGCTTT
100120746 C
1 C
100120747 AATTCTTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.26, C:0.21, G:0.07, T:0.46
Consensus pattern (30 bp):
CTAAGCTTTCAATTCTTTTAACTAAGCTTT
Found at i:100125160 original size:15 final size:15
Alignment explanation
Indices: 100125140--100125171 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
100125130 GATATTTTAA
*
100125140 TTATATTATAATATG
1 TTATATTATAACATG
100125155 TTATATTATAACATG
1 TTATATTATAACATG
100125170 TT
1 TT
100125172 TTTTTAACCT
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:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (15 bp):
TTATATTATAACATG
Found at i:100127721 original size:26 final size:25
Alignment explanation
Indices: 100127676--100127724 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
100127666 CAAGTTGGCT
100127676 TCTTATTTATTTTACAATTAATTAA
1 TCTTATTTATTTTACAATTAATTAA
*
100127701 TCTTTTTTACTTTTATC-ATTAATT
1 TCTTATTTA-TTTTA-CAATTAATT
100127725 GTTATATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 8 0.38
26 12 0.57
27 1 0.05
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (25 bp):
TCTTATTTATTTTACAATTAATTAA
Found at i:100130284 original size:22 final size:22
Alignment explanation
Indices: 100130256--100130299 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
100130246 ATATTAGTTC
100130256 AACCTATTATAAAACTATCCAT
1 AACCTATTATAAAACTATCCAT
100130278 AACCTATTATAAAACTATCCAT
1 AACCTATTATAAAACTATCCAT
100130300 TTTCGTACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.23, G:0.00, T:0.32
Consensus pattern (22 bp):
AACCTATTATAAAACTATCCAT
Found at i:100131304 original size:23 final size:22
Alignment explanation
Indices: 100131274--100131316 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
100131264 ACCTACACAA
100131274 CATAACATAACACCAATTTAAG
1 CATAACATAACACCAATTTAAG
*
100131296 CATATACATACCACCAATTTA
1 CATA-ACATAACACCAATTTA
100131317 GCCACAACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.47, C:0.26, G:0.02, T:0.26
Consensus pattern (22 bp):
CATAACATAACACCAATTTAAG
Found at i:100132081 original size:42 final size:42
Alignment explanation
Indices: 100131973--100132081 Score: 139
Period size: 43 Copynumber: 2.6 Consensus size: 42
100131963 ATACCAATGT
* * *
100131973 CATATCCCAGATATGGTCTTACATGTGATCTCGTATCGATGC
1 CATATCCCAGATATGGTCTTACACGAGATCTCATATCGATGC
* *
100132015 CAATAGCCCAGTTATGGTCTTACACGA-AGTCTCATATCGATGC
1 C-ATATCCCAGATATGGTCTTACACGAGA-TCTCATATCGATGC
*
100132058 CATATCCTAGATATGGTCTTACAC
1 CATATCCCAGATATGGTCTTACAC
100132082 ATAAATCTCA
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
42 22 0.39
43 35 0.61
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (42 bp):
CATATCCCAGATATGGTCTTACACGAGATCTCATATCGATGC
Found at i:100134308 original size:16 final size:16
Alignment explanation
Indices: 100134287--100134324 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
100134277 ATTTGTGCGT
100134287 ATAAAGAAGTTTTATG
1 ATAAAGAAGTTTTATG
**
100134303 ATAAAGTCGTTTTATG
1 ATAAAGAAGTTTTATG
100134319 ATAAAG
1 ATAAAG
100134325 TCTTTAGTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.42, C:0.03, G:0.18, T:0.37
Consensus pattern (16 bp):
ATAAAGAAGTTTTATG
Found at i:100134325 original size:16 final size:16
Alignment explanation
Indices: 100134295--100134326 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
100134285 GTATAAAGAA
100134295 GTTTTATGATAAAGTC
1 GTTTTATGATAAAGTC
100134311 GTTTTATGATAAAGTC
1 GTTTTATGATAAAGTC
100134327 TTTAGTCATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (16 bp):
GTTTTATGATAAAGTC
Found at i:100134920 original size:2 final size:2
Alignment explanation
Indices: 100134913--100134955 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
100134903 TAGGTATGTT
100134913 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
100134955 T
1 T
100134956 TAAAACAACT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Done.