Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_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: 11160956
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 53 of 55
Found at i:10655153 original size:24 final size:24
Alignment explanation
Indices: 10655067--10655140 Score: 78
Period size: 24 Copynumber: 3.1 Consensus size: 24
10655057 ACATGGATTC
* * *
10655067 TGATCTGATACTTGACTTGGA-TTC
1 TGATATGATACTTGACCT-GATTTA
* * *
10655091 TGATCTGTTACTTGACCTGATTTC
1 TGATATGATACTTGACCTGATTTA
10655115 TGATATGATACTTGACCTGATTTA
1 TGATATGATACTTGACCTGATTTA
10655139 TG
1 TG
10655141 TTTTGATTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 2 0.05
24 42 0.95
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.43
Consensus pattern (24 bp):
TGATATGATACTTGACCTGATTTA
Found at i:10657331 original size:13 final size:13
Alignment explanation
Indices: 10657331--10657406 Score: 71
Period size: 13 Copynumber: 5.3 Consensus size: 13
10657321 CCGTTGACCC
10657331 GACCCGACCCGTT
1 GACCCGACCCGTT
*
10657344 TACCCGACCCGTT
1 GACCCGACCCGTT
10657357 GACCCGACTCGACCCGTT
1 GA--C--C-CGACCCGTT
10657375 GACCCGACCCGTT
1 GACCCGACCCGTT
*
10657388 GACCGTTGACCCGTT
1 GACC--CGACCCGTT
10657403 GACC
1 GACC
10657407 GTTGACCGTT
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
13 26 0.49
14 1 0.02
15 13 0.25
16 1 0.02
17 1 0.02
18 11 0.21
ACGTcount: A:0.16, C:0.43, G:0.22, T:0.18
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:10657332 original size:18 final size:18
Alignment explanation
Indices: 10657309--10657385 Score: 101
Period size: 18 Copynumber: 4.6 Consensus size: 18
10657299 ACCGGTCACA
10657309 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
10657327 ACCCGACCCGACCCGTT-
1 ACCCGACCCGACCCGTTG
*
10657344 ----TACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
*
10657358 ACCCGACTCGACCCGTTG
1 ACCCGACCCGACCCGTTG
10657376 ACCCGACCCG
1 ACCCGACCCG
10657386 TTGACCGTTG
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
13 12 0.24
18 38 0.76
ACGTcount: A:0.17, C:0.49, G:0.21, T:0.13
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:10657352 original size:31 final size:31
Alignment explanation
Indices: 10657313--10657391 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
10657303 GTCACAACCC
10657313 GACCCGACCCGTTGACCCGACCCGACCCGTT
1 GACCCGACCCGTTGACCCGACCCGACCCGTT
* *
10657344 TACCCGACCCGTTGACCCGACTCGACCCGTT
1 GACCCGACCCGTTGACCCGACCCGACCCGTT
10657375 GACCCGACCCGTTGACC
1 GACCCGACCCGTTGACC
10657392 GTTGACCCGT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.16, C:0.47, G:0.22, T:0.15
Consensus pattern (31 bp):
GACCCGACCCGTTGACCCGACCCGACCCGTT
Found at i:10657360 original size:8 final size:8
Alignment explanation
Indices: 10657349--10657420 Score: 75
Period size: 8 Copynumber: 9.5 Consensus size: 8
10657339 CCGTTTACCC
10657349 GACCCGTT
1 GACCCGTT
*
10657357 GACCCGACTC
1 GACCCG--TT
10657367 GACCCGTT
1 GACCCGTT
10657375 GACCC---
1 GACCCGTT
10657380 GACCCGTT
1 GACCCGTT
10657388 GA-CCGTT
1 GACCCGTT
10657395 GACCCGTT
1 GACCCGTT
10657403 GA-CCGTT
1 GACCCGTT
10657410 GA-CCGTT
1 GACCCGTT
10657417 GACC
1 GACC
10657421 GGAGTTGACC
Statistics
Matches: 55, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
5 5 0.09
7 21 0.38
8 22 0.40
10 7 0.13
ACGTcount: A:0.15, C:0.39, G:0.25, T:0.21
Consensus pattern (8 bp):
GACCCGTT
Found at i:10657395 original size:7 final size:7
Alignment explanation
Indices: 10657383--10657421 Score: 69
Period size: 7 Copynumber: 5.4 Consensus size: 7
10657373 TTGACCCGAC
10657383 CCGTTGA
1 CCGTTGA
10657390 CCGTTGA
1 CCGTTGA
10657397 CCCGTTGA
1 -CCGTTGA
10657405 CCGTTGA
1 CCGTTGA
10657412 CCGTTGA
1 CCGTTGA
10657419 CCG
1 CCG
10657422 GAGTTGACCA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 24 0.77
8 7 0.23
ACGTcount: A:0.13, C:0.33, G:0.28, T:0.26
Consensus pattern (7 bp):
CCGTTGA
Found at i:10657400 original size:15 final size:15
Alignment explanation
Indices: 10657367--10657421 Score: 80
Period size: 15 Copynumber: 3.9 Consensus size: 15
10657357 GACCCGACTC
*
10657367 GACCCGTTGACC--C
1 GACCCGTTGACCGTT
10657380 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
10657395 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
10657410 GA-CCGTTGACCG
1 GACCCGTTGACCG
10657422 GAGTTGACCA
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
13 12 0.31
14 10 0.26
15 17 0.44
ACGTcount: A:0.15, C:0.36, G:0.27, T:0.22
Consensus pattern (15 bp):
GACCCGTTGACCGTT
Found at i:10659905 original size:48 final size:48
Alignment explanation
Indices: 10659853--10659984 Score: 137
Period size: 48 Copynumber: 2.8 Consensus size: 48
10659843 AATATTTTAC
*
10659853 CTGATTTTCGATTTGATTTCTGATCTGATACTTGACATGGATTCTGAT
1 CTGATTTTCGAATTGATTTCTGATCTGATACTTGACATGGATTCTGAT
* * *
10659901 CTGA-TATCTGACATGGA-TTCTGATCTGATACTTGACTTGGATTCTGAT
1 CTGATTTTC-GA-ATTGATTTCTGATCTGATACTTGACATGGATTCTGAT
** *
10659949 CTG-TTACTT-GACCTGATTTCTGATATGATACTTGAC
1 CTGATT--TTCGAATTGATTTCTGATCTGATACTTGAC
10659985 CTGATTTATG
Statistics
Matches: 69, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
47 5 0.07
48 60 0.87
49 3 0.04
50 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.42
Consensus pattern (48 bp):
CTGATTTTCGAATTGATTTCTGATCTGATACTTGACATGGATTCTGAT
Found at i:10659991 original size:24 final size:24
Alignment explanation
Indices: 10659870--10659984 Score: 162
Period size: 24 Copynumber: 4.8 Consensus size: 24
10659860 TCGATTTGAT
10659870 TTCTGATCTGATACTTGACATGGA
1 TTCTGATCTGATACTTGACATGGA
10659894 TTCTGATCTGATA-TCTGACATGGA
1 TTCTGATCTGATACT-TGACATGGA
*
10659918 TTCTGATCTGATACTTGACTTGGA
1 TTCTGATCTGATACTTGACATGGA
* *
10659942 TTCTGATCTGTTACTTGACCT-GA
1 TTCTGATCTGATACTTGACATGGA
*
10659965 TTTCTGATATGATACTTGAC
1 -TTCTGATCTGATACTTGAC
10659985 CTGATTTATG
Statistics
Matches: 83, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
23 3 0.04
24 79 0.95
25 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.41
Consensus pattern (24 bp):
TTCTGATCTGATACTTGACATGGA
Found at i:10660007 original size:24 final size:24
Alignment explanation
Indices: 10659921--10659994 Score: 78
Period size: 24 Copynumber: 3.1 Consensus size: 24
10659911 ACATGGATTC
* * *
10659921 TGATCTGATACTTGACTTGGA-TTC
1 TGATATGATACTTGACCT-GATTTA
* * *
10659945 TGATCTGTTACTTGACCTGATTTC
1 TGATATGATACTTGACCTGATTTA
10659969 TGATATGATACTTGACCTGATTTA
1 TGATATGATACTTGACCTGATTTA
10659993 TG
1 TG
10659995 TTTTGATTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 2 0.05
24 42 0.95
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.43
Consensus pattern (24 bp):
TGATATGATACTTGACCTGATTTA
Found at i:10660867 original size:23 final size:22
Alignment explanation
Indices: 10660823--10660867 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
10660813 AATGTCATAG
* *
10660823 GGGAATCGATACCCCCACAGGA
1 GGGAACCGATACCCCCAAAGGA
*
10660845 GGGAACCGATTCCCCCTAAAGGA
1 GGGAACCGATACCCCC-AAAGGA
10660868 AAATTAGGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.31, C:0.31, G:0.27, T:0.11
Consensus pattern (22 bp):
GGGAACCGATACCCCCAAAGGA
Found at i:10661670 original size:2 final size:2
Alignment explanation
Indices: 10661663--10661731 Score: 131
Period size: 2 Copynumber: 35.0 Consensus size: 2
10661653 GATGATAGGA
10661663 AT AT AT AT AT AT AT AT AT AT AT AT AT -T 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 AT AT AT
10661704 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
10661732 GATAAAGTAT
Statistics
Matches: 66, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 65 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:10662325 original size:21 final size:21
Alignment explanation
Indices: 10662300--10662366 Score: 125
Period size: 21 Copynumber: 3.2 Consensus size: 21
10662290 GTATATGATT
10662300 CTTAAGGAATGATATGTGGTC
1 CTTAAGGAATGATATGTGGTC
*
10662321 CTTAAGGAATGATATATGGTC
1 CTTAAGGAATGATATGTGGTC
10662342 CTTAAGGAATGATATGTGGTC
1 CTTAAGGAATGATATGTGGTC
10662363 CTTA
1 CTTA
10662367 TGGACATTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.30, C:0.10, G:0.25, T:0.34
Consensus pattern (21 bp):
CTTAAGGAATGATATGTGGTC
Found at i:10662425 original size:22 final size:22
Alignment explanation
Indices: 10662383--10662425 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
10662373 TTATTATATG
**
10662383 GCACTATGGTGCAATTCTACGT
1 GCACTATGGTGCAATGATACGT
*
10662405 GCACTTTGGTGCAATGATACG
1 GCACTATGGTGCAATGATACG
10662426 ATCTGTGGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (22 bp):
GCACTATGGTGCAATGATACGT
Found at i:10666110 original size:21 final size:21
Alignment explanation
Indices: 10666068--10666110 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
10666058 TTTCTAGGCT
* * *
10666068 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
10666089 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
10666110 A
1 A
10666111 ACGAACAAGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:10666183 original size:23 final size:22
Alignment explanation
Indices: 10666139--10666183 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
10666129 AATGTCATAG
* *
10666139 GGGAATCGATACCCCCACAGGA
1 GGGAACCGATACCCCCAAAGGA
*
10666161 GGGAACCGATTCCCCCTAAAGGA
1 GGGAACCGATACCCCC-AAAGGA
10666184 AAATTAGGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.31, C:0.31, G:0.27, T:0.11
Consensus pattern (22 bp):
GGGAACCGATACCCCCAAAGGA
Found at i:10666976 original size:2 final size:2
Alignment explanation
Indices: 10666969--10666998 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
10666959 GATGATATGA
10666969 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
10666999 GATAAAGTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10667592 original size:21 final size:21
Alignment explanation
Indices: 10667567--10667612 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
10667557 GTATATGATT
10667567 CTTAAGGAATGATATGTGGTC
1 CTTAAGGAATGATATGTGGTC
10667588 CTTAAGGAATGATATGTGGTC
1 CTTAAGGAATGATATGTGGTC
10667609 CTTA
1 CTTA
10667613 TGGACATTAT
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:0.28, C:0.11, G:0.26, T:0.35
Consensus pattern (21 bp):
CTTAAGGAATGATATGTGGTC
Found at i:10670316 original size:19 final size:19
Alignment explanation
Indices: 10670292--10670330 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
10670282 TGGAAATGCT
10670292 GACGATGTCGTTAGATCTG
1 GACGATGTCGTTAGATCTG
10670311 GACGATGTCGTTAGATCTG
1 GACGATGTCGTTAGATCTG
10670330 G
1 G
10670331 GATATTCCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.15, G:0.33, T:0.31
Consensus pattern (19 bp):
GACGATGTCGTTAGATCTG
Found at i:10675197 original size:106 final size:106
Alignment explanation
Indices: 10675012--10675990 Score: 1712
Period size: 106 Copynumber: 9.3 Consensus size: 106
10675002 GGAGGATATC
*
10675012 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
10675077 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
10675118 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATAACTTCCT
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
10675183 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
10675224 ACTCCATACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACCTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
10675289 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGAAATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
10675330 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA-CAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* *
10675394 AATTTCAGAGCCAATTTCAACTTCACAGCGAATGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
10675435 ACTCTAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
10675500 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
10675541 ACTCCAGAAAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCT
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
10675606 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
10675647 ACTCCATACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACCTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
10675712 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGAAATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
10675753 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA-CAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
10675817 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGAAATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
10675858 ACTCCAGATAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA-CAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
10675922 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
10675963 ACTCTAGACAACACAAGTTCAACTTCAC
1 ACTCCAGACAACGCAAGTTCAACTTCAC
10675991 AGTGAAGGGG
Statistics
Matches: 831, Mismatches: 41, Indels: 3
0.95 0.05 0.00
Matches are distributed among these distances:
105 277 0.33
106 554 0.67
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:10675588 original size:317 final size:318
Alignment explanation
Indices: 10675012--10675990 Score: 1721
Period size: 317 Copynumber: 3.1 Consensus size: 318
10675002 GGAGGATATC
*
10675012 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
10675077 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
* *
10675142 TCACGACGAAGGGACCGCTGGTTGTCAATAAATAACTTCCTAATTTCAGAGCCAATTTCAACTTC
131 TCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTC
* * *
10675207 ACAGCGAAGGATATTGGACTCCATACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
196 ACAACGAAGGATATTGGACTCCAGAAAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
* * *
10675272 TCAATAAACAACCTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGAAATTGG
261 TCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
10675330 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA-CAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* * *
10675394 AATTTCAGAGCCAATTTCAACTTCACAGCGAATGATATTGGACTCTAGACAACGCAAGTTCAACT
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
*
10675459 TCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTC
131 TCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTC
10675524 ACAACGAAGGATATTGGACTCCAGAAAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
196 ACAACGAAGGATATTGGACTCCAGAAAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
*
10675589 TCAATAAACAACTTCCTAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
261 TCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
10675647 ACTCCATACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACCTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
10675712 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGAAATTGGACTCCAGACAACGCAAGTTCAACT
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
*
10675777 TCACGACGAAGGGACCGCTGGTTGTCAA-CAACAACTTCCCAATTTCAGAGCCAATTTCAACTTC
131 TCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTC
* *
10675841 ACAACGAAGGAAATTGGACTCCAGATAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
196 ACAACGAAGGATATTGGACTCCAGAAAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
*
10675906 TCAA-CAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
261 TCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
10675963 ACTCTAGACAACACAAGTTCAACTTCAC
1 ACTCCAGACAACGCAAGTTCAACTTCAC
10675991 AGTGAAGGGG
Statistics
Matches: 629, Mismatches: 31, Indels: 4
0.95 0.05 0.01
Matches are distributed among these distances:
316 76 0.12
317 402 0.64
318 151 0.24
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (318 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
TCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTC
ACAACGAAGGATATTGGACTCCAGAAAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
TCAATAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:10675803 original size:423 final size:423
Alignment explanation
Indices: 10675012--10675990 Score: 1843
Period size: 423 Copynumber: 2.3 Consensus size: 423
10675002 GGAGGATATC
10675012 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
10675077 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
*
10675142 TCACGACGAAGGGACCGCTGGTTGTCAATAAATAACTTCCTAATTTCAGAGCCAATTTCAACTTC
131 TCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCTAATTTCAGAGCCAATTTCAACTTC
10675207 ACAGCGAAGGATATTGGACTCCATACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
196 ACAGCGAAGGATATTGGACTCCATACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
10675272 TCAATAAACAACCTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGAAATTGGACTCCAG
261 TCAATAAACAACCTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGAAATTGGACTCCAG
10675337 ACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCAG
326 ACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCAG
* * *
10675402 AGCCAATTTCAACTTCACAGCGAATGATATTGG
391 AGCCAATTTCAACTTCACAACGAAGGAAATTGG
*
10675435 ACTCTAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
*
10675500 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGAAAACGCAAGTTCAACT
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
10675565 TCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCTAATTTCAGAGCCAATTTCAACTTC
131 TCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCTAATTTCAGAGCCAATTTCAACTTC
10675630 ACAGCGAAGGATATTGGACTCCATACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
196 ACAGCGAAGGATATTGGACTCCATACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
10675695 TCAATAAACAACCTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGAAATTGGACTCCAG
261 TCAATAAACAACCTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGAAATTGGACTCCAG
10675760 ACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCAG
326 ACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCAG
10675825 AGCCAATTTCAACTTCACAACGAAGGAAATTGG
391 AGCCAATTTCAACTTCACAACGAAGGAAATTGG
* * *
10675858 ACTCCAGATAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA-CAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
* * *
10675922 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCTAGACAACACAAGTTCAACT
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
10675987 TCAC
131 TCAC
10675991 AGTGAAGGGG
Statistics
Matches: 542, Mismatches: 14, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
422 75 0.14
423 467 0.86
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (423 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
TCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCTAATTTCAGAGCCAATTTCAACTTC
ACAGCGAAGGATATTGGACTCCATACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
TCAATAAACAACCTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGAAATTGGACTCCAG
ACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCAG
AGCCAATTTCAACTTCACAACGAAGGAAATTGG
Found at i:10677508 original size:25 final size:27
Alignment explanation
Indices: 10677452--10677516 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
10677442 CATCTATTTG
10677452 CTTTATTT-TATTTATATGTATATTTCT
1 CTTTATTTATA-TTATATGTATATTTCT
10677479 CTTTATTTATATTACTAT-TAT-TTTCT
1 CTTTATTTATATTA-TATGTATATTTCT
10677505 -TTTATTTATATT
1 CTTTATTTATATT
10677517 TTATTTCTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
25 12 0.33
26 5 0.14
27 14 0.39
28 5 0.14
ACGTcount: A:0.23, C:0.08, G:0.02, T:0.68
Consensus pattern (27 bp):
CTTTATTTATATTATATGTATATTTCT
Found at i:10677531 original size:25 final size:24
Alignment explanation
Indices: 10677482--10677532 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 24
10677472 TATTTCTCTT
*
10677482 TATTTATATTACTATTATT-TTCTTT
1 TATTTATATT-TTATT-TTATTCTTT
10677507 TATTTATATTTTATTTCTATTCTTT
1 TATTTATATTTTATTT-TATTCTTT
10677532 T
1 T
10677533 TATATACGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 1 0.04
24 5 0.22
25 17 0.74
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.71
Consensus pattern (24 bp):
TATTTATATTTTATTTTATTCTTT
Found at i:10677818 original size:20 final size:20
Alignment explanation
Indices: 10677795--10677845 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
10677785 ACCAAACCTT
*
10677795 TATCCTTTTTTTCAAATTTG
1 TATCCTTTTTTTCAAATTCG
* *
10677815 TATCCCTTGTTTCAAATTCG
1 TATCCTTTTTTTCAAATTCG
10677835 TATCCCTTTTT
1 TAT-CCTTTTT
10677846 CTATTTCCGA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.18, C:0.22, G:0.06, T:0.55
Consensus pattern (20 bp):
TATCCTTTTTTTCAAATTCG
Found at i:10699924 original size:15 final size:15
Alignment explanation
Indices: 10699904--10700053 Score: 142
Period size: 15 Copynumber: 9.5 Consensus size: 15
10699894 TAATAAGGTT
10699904 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
10699919 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
10699934 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
10699949 ATTTACTTTAAAATA
1 ATTTATTTTAAAATA
* *
10699964 AATTATTATAAAATATGGA
1 ATTTATT-TTAAA-AT--A
10699983 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
10700001 ATTTA-TTTAAAATA
1 ATTTATTTTAAAATA
* *
10700015 ATTTATTAGTATAAATTG
1 ATTTATT--T-TAAAATA
10700033 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
10700047 ATTTATT
1 ATTTATT
10700054 AGTATGGATT
Statistics
Matches: 112, Mismatches: 12, Indels: 23
0.76 0.08 0.16
Matches are distributed among these distances:
14 24 0.21
15 54 0.48
16 5 0.04
17 3 0.03
18 13 0.12
19 1 0.01
20 2 0.02
21 4 0.04
22 6 0.05
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:10700036 original size:18 final size:18
Alignment explanation
Indices: 10700015--10700071 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
10700005 ATTTAAAATA
10700015 ATTTATTAGTATAAATTG
1 ATTTATTAGTATAAATTG
*
10700033 ATTTATT--T-TAAA-TA
1 ATTTATTAGTATAAATTG
**
10700047 ATTTATTAGTATGGATTG
1 ATTTATTAGTATAAATTG
10700065 ATTTATT
1 ATTTATT
10700072 TTAAAATATA
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 8 0.26
15 4 0.13
16 2 0.06
17 2 0.06
18 15 0.48
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (18 bp):
ATTTATTAGTATAAATTG
Found at i:10700046 original size:32 final size:31
Alignment explanation
Indices: 10700001--10700130 Score: 134
Period size: 32 Copynumber: 4.4 Consensus size: 31
10699991 TTTTAAAATA
* *
10700001 ATTTATTTAAAATAATTTATTAGTATAAATTG
1 ATTTATTTTAAATAATTTATTAGTAT-GATTG
10700033 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTAT-GATTG
10700065 ATTTATTTT--A-AA---A-TA-TA-GATTG
1 ATTTATTTTAAATAATTTATTAGTATGATTG
* *
10700087 ATTTATTTTACATAATTTATTAGTATGTATTA
1 ATTTATTTTAAATAATTTATTAGTATG-ATTG
10700119 ATTTATTTTAAA
1 ATTTATTTTAAA
10700131 ATATGGATTG
Statistics
Matches: 83, Mismatches: 5, Indels: 20
0.77 0.05 0.19
Matches are distributed among these distances:
22 14 0.17
24 3 0.04
25 4 0.05
26 1 0.01
28 1 0.01
29 4 0.05
30 3 0.04
31 1 0.01
32 52 0.63
ACGTcount: A:0.38, C:0.01, G:0.08, T:0.53
Consensus pattern (31 bp):
ATTTATTTTAAATAATTTATTAGTATGATTG
Found at i:10700073 original size:79 final size:75
Alignment explanation
Indices: 10699881--10700079 Score: 235
Period size: 79 Copynumber: 2.5 Consensus size: 75
10699871 TATTAAAATA
*
10699881 ATTTTAAATAATTTA-ATAAGG-TT-ATTTATTTTAAAATAATTTATTTTAAAATAATTTATTAT
1 ATTTTAAATAATTTATATATGGATTGATTTATTTTAAAATAATTTATTTTAAAATAATTTATTAT
10699943 AAAATAATTT
66 AAAATAATTT
*
10699953 ACTTTAAAATAAATTATTATAAAATATGGATTGATTTATTTTAAAATAATTTA-TTTAAAATAAT
1 A-TTTTAAAT-AA-T-TTAT---ATATGGATTGATTTATTTTAAAATAATTTATTTTAAAATAAT
*
10700017 TTATTAGTATAAATTGATTT
59 TTATTA-TA-AAA-TAATTT
10700037 ATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATA
1 ATTTTAAATAATTTA-TA-TATGGATTGATTTATTTTAAAATA
10700080 TAGATTGATT
Statistics
Matches: 108, Mismatches: 4, Indels: 23
0.80 0.03 0.17
Matches are distributed among these distances:
72 1 0.01
73 7 0.06
74 2 0.02
75 1 0.01
76 3 0.03
78 1 0.01
79 24 0.22
80 8 0.07
81 21 0.19
82 24 0.22
83 10 0.09
84 6 0.06
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.50
Consensus pattern (75 bp):
ATTTTAAATAATTTATATATGGATTGATTTATTTTAAAATAATTTATTTTAAAATAATTTATTAT
AAAATAATTT
Found at i:10700093 original size:54 final size:54
Alignment explanation
Indices: 10700024--10700640 Score: 473
Period size: 54 Copynumber: 11.6 Consensus size: 54
10700014 AATTTATTAG
*
10700024 TATAAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
* * *
10700078 TATAGATTGATTTATTTTACATAATTTATTAGTATGTATTAATTTATTTTAAAA
1 TATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
* * *
10700132 TATGGATTGATTTATTATT--AT-A---GTT-GTGTGGATTGATTTATTTT--AA
1 TATAGATTGATTTATT-TTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
* * * * * *
10700178 -ATA-ATTTA-TTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAAAA
1 TATAGATTGATTTA-TTTTAAATAATTTA--TT--AGTATGGATTGATTTATTTTAAAA
* *
10700234 TAT-GAATTGATTTATTTTAAATAATTTATTTGTATAGATTGATTTATTTTAAAA
1 TATAG-ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
*
10700288 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
** ** * ** * * *
10700342 TAT-GAATTGATTTATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATTTATTAG
1 TATAG-ATTGATTTATTTTAAATA-ATTTATTAGTATGGA-TTGATTTATTTTA-AAA
*
10700396 TATAGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAA
1 TATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
* * *
10700450 TATTGATTGATTTA--TT--AT--TGTAGTT-GTATAGATTGATTTATTTT--AA
1 TATAGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAA
* * * * * * ***
10700496 -ATA-ATTTA-TTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTG
1 TATAGATTGATTTA-TTTTAAATAATTTA--TT--AGTATGGATTGATTTA-T-TT-TA-AAA
*
10700556 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
*
10700610 TATGGATTGATTTATTTTAAATAATTTATTA
1 TATAGATTGATTTATTTTAAATAATTTATTA
10700641 TTGTAGTTGT
Statistics
Matches: 444, Mismatches: 70, Indels: 98
0.73 0.11 0.16
Matches are distributed among these distances:
43 7 0.02
44 9 0.02
45 5 0.01
46 6 0.01
48 38 0.09
49 4 0.01
50 5 0.01
51 4 0.01
52 6 0.01
53 14 0.03
54 260 0.59
55 18 0.04
56 11 0.02
57 4 0.01
58 29 0.07
59 3 0.01
60 2 0.00
61 2 0.00
62 14 0.03
63 3 0.01
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (54 bp):
TATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
Found at i:10700189 original size:80 final size:78
Alignment explanation
Indices: 10700056--10700628 Score: 672
Period size: 80 Copynumber: 7.2 Consensus size: 78
10700046 AATTTATTAG
** * *
10700056 TATGGATTGATTTATTTTA-A--AATATAGATTGATTTATTTTACATAATTTATTAGTATGTATT
1 TATGGATTGATTTATTTTATAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATG-ATT
*
10700118 AATTTATTTTAAAA
65 GATTTATTTTAAAA
*
10700132 TATGGATTGATTTATTATTATAGTTGTGTGGATTGATTTATTTTAAATAATTTATTAGTATGAAT
1 TATGGATTGATTTATT-TTATAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATG-AT
10700197 TGATTTATTTTAAAA
64 TGATTTATTTTAAAA
** * *
10700212 TATGGATTGATTTATTTTA-A--AATATGAATTGATTTATTTTAAATAATTTATTTGTATAGATT
1 TATGGATTGATTTATTTTATAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTAT-GATT
10700274 GATTTATTTTAAAA
65 GATTTATTTTAAAA
*
10700288 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AA-AA--TA-T-G-
1 TATGGATTGATTTATTTT--AT-A---GTT-GTATGGATTGATTTATTTTAAATAATTTATTAGT
10700346 A--ATTGATTTATTTTAAAA
59 ATGATTGATTTATTTTAAAA
* * *
10700364 TATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAATAATTTATTTGT
1 TATGGATTGATTTATTTT--AT-A---GTT-GTATGGATTGATTTATTTTAAATAATTTATTAGT
10700429 ATGGATTGATTTATTTTAAAA
59 AT-GATTGATTTATTTTAAAA
* * *
10700450 TATTGATTGATTTATTATTGTAGTTGTATAGATTGATTTATTTTAAATAATTTATTAGTATGAAT
1 TATGGATTGATTTATT-TTATAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATG-AT
10700515 TGATTTATTTTAAAA
64 TGATTTATTTTAAAA
*
10700530 TATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGAT
1 TATGGATTGATTTATT-TTATAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTAT-GAT
10700595 TGATTTATTTTAAAA
64 TGATTTATTTTAAAA
10700610 TATGGATTGATTTATTTTA
1 TATGGATTGATTTATTTTA
10700629 AATAATTTAT
Statistics
Matches: 446, Mismatches: 23, Indels: 53
0.85 0.04 0.10
Matches are distributed among these distances:
76 149 0.33
77 6 0.01
78 5 0.01
79 7 0.02
80 213 0.48
81 5 0.01
82 3 0.01
83 1 0.00
84 3 0.01
85 3 0.01
86 49 0.11
87 2 0.00
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (78 bp):
TATGGATTGATTTATTTTATAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGATTG
ATTTATTTTAAAA
Found at i:10700215 original size:22 final size:22
Alignment explanation
Indices: 10700190--10700384 Score: 129
Period size: 22 Copynumber: 8.0 Consensus size: 22
10700180 AATTTATTAG
10700190 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
10700212 TATGGATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
10700234 TATGAATTGATTTATTTTAAATAA
1 TATGAATTGATTTATTTT-AA-AA
* * *
10700258 TTTATTTGTATAGATTGATTTATTTTAAAA
1 --TA--TGAATTGATTTA-TT---TTAAAA
*
10700288 TATGGATTGATTTATTTTAAATAA
1 TATGAATTGATTTATTTT-AA-AA
* * *
10700312 TTTATTAGTATGGATTGATTTATTTTAAAA
1 --TA-T-GAATTGATTTA-TT---TTAAAA
10700342 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
10700364 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
10700385 TAATTTATTA
Statistics
Matches: 138, Mismatches: 15, Indels: 40
0.72 0.08 0.21
Matches are distributed among these distances:
22 66 0.48
23 4 0.03
24 4 0.03
25 4 0.03
26 21 0.15
27 2 0.01
28 21 0.15
29 4 0.03
30 4 0.03
31 4 0.03
32 4 0.03
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:10700392 original size:14 final size:14
Alignment explanation
Indices: 10700373--10700426 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
10700363 ATATGGATTG
10700373 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
10700387 ATTTATTAGTATAGATTG
1 ATTTATT--T-TA-AATA
10700405 ATTTATTTTAAATA
1 ATTTATTTTAAATA
10700419 ATTTATTT
1 ATTTATTT
10700427 GTATGGATTG
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 17 0.53
15 2 0.06
16 2 0.06
17 2 0.06
18 9 0.28
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:10700613 original size:22 final size:22
Alignment explanation
Indices: 10700588--10700630 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
10700578 AATTTATTAG
10700588 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
10700610 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
10700631 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:10700690 original size:31 final size:31
Alignment explanation
Indices: 10700655--10700713 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
10700645 AGTTGTATGG
* *
10700655 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGCAAAACTAAA
10700686 ATTATTTAAATCTCAGTATTGCAAAACT
1 ATTATTTAAATCTCAGTATTGCAAAACT
10700714 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGCAAAACTAAA
Found at i:10701519 original size:20 final size:20
Alignment explanation
Indices: 10701494--10701535 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
10701484 ATGGATTATA
*
10701494 TATATATATATAAGTCTATC
1 TATATATATATAAGTCCATC
10701514 TATATATATATAAGTCCATC
1 TATATATATATAAGTCCATC
10701534 TA
1 TA
10701536 GATGGCTTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.43
Consensus pattern (20 bp):
TATATATATATAAGTCCATC
Found at i:10704452 original size:15 final size:15
Alignment explanation
Indices: 10704428--10704458 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
10704418 ATAATATAAT
10704428 AAATAAAAAATTAAA
1 AAATAAAAAATTAAA
*
10704443 AAATATAAAATTAAA
1 AAATAAAAAATTAAA
10704458 A
1 A
10704459 TTTTACTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AAATAAAAAATTAAA
Found at i:10715871 original size:35 final size:35
Alignment explanation
Indices: 10715825--10715900 Score: 116
Period size: 35 Copynumber: 2.2 Consensus size: 35
10715815 AAAACAGTCC
* *
10715825 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
**
10715860 TCAATTTCATTCTAAACCTTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
10715895 TCAATT
1 TCAATT
10715901 ATGTCAGATT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.39, C:0.22, G:0.01, T:0.37
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:10716431 original size:130 final size:130
Alignment explanation
Indices: 10716285--10716532 Score: 406
Period size: 130 Copynumber: 1.9 Consensus size: 130
10716275 TATTTATATA
* **
10716285 ATCAATTTGGTCCTAAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATATGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATATGACATGTG
*
10716350 TTAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
* *
10716415 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATTATTTAACCAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATATGACATGTG
* * * *
10716480 TTAACCCATGATCATGATATATGTTATTGGTGACACATGTCACCACCTAATTA
66 TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTA
10716533 GAAGAAAATT
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 108 1.00
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATATGACATGTG
TTAACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:10716563 original size:130 final size:129
Alignment explanation
Indices: 10716299--10716563 Score: 291
Period size: 130 Copynumber: 2.0 Consensus size: 129
10716289 ATTTGGTCCT
* **
10716299 AAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATATGACATGTGTTAACACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATATGACATGTGTTAACACATGATCA
* *** * * **** *
10716364 TGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCTATCAATTTGGTCCT
66 TGACACATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGT-CA
* * *
10716429 AAATTAAATAAAATTTAATAAATTAATTATTTAACCAGGATCTGACATGTGTTAACCCATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATATGACATGTGTTAACACATGATCA
* * * *
10716494 TGATATATGTTATTGGTGACACATGTCACCACCTAATTAGAAGAAAATTAAGTTA-CAAAGAAGT
66 TGACACATGTCATTGGTGACACATGTCACCACCTAATT--AAGAAAA-TAAGCTATCAAAGAAGT
10716558 -A
128 CA
10716559 AAATT
1 AAATT
10716564 TGGGTCTTGG
Statistics
Matches: 111, Mismatches: 21, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
130 98 0.88
132 8 0.07
133 5 0.05
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (129 bp):
AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATATGACATGTGTTAACACATGATCA
TGACACATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGTCA
Found at i:10717015 original size:16 final size:18
Alignment explanation
Indices: 10716994--10717027 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
10716984 ATTTCTTATT
10716994 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
10717010 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
10717028 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:10717085 original size:28 final size:28
Alignment explanation
Indices: 10717027--10717085 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
10717017 TAAATGATTC
* ** *
10717027 ATACATTAATATATGAATATATTTTTTT
1 ATACATTAATATATAAATATACATTTAT
10717055 ATACATCTAA-ATATAAATATACATTTAT
1 ATACAT-TAATATATAAATATACATTTAT
10717083 ATA
1 ATA
10717086 ATATATTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 23 0.88
29 3 0.12
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.46
Consensus pattern (28 bp):
ATACATTAATATATAAATATACATTTAT
Found at i:10720218 original size:14 final size:14
Alignment explanation
Indices: 10720199--10720225 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10720189 GTTCGTGAAC
10720199 GTTCGGTTATGTTT
1 GTTCGGTTATGTTT
10720213 GTTCGGTTATGTT
1 GTTCGGTTATGTT
10720226 CGTTTACGTT
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:0.07, C:0.07, G:0.30, T:0.56
Consensus pattern (14 bp):
GTTCGGTTATGTTT
Found at i:10720240 original size:24 final size:24
Alignment explanation
Indices: 10720199--10720249 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
10720189 GTTCGTGAAC
* * *
10720199 GTTCGGTTATGTTTGTTCGGTTAT
1 GTTCGGTTACGTTCGTTCAGTTAT
* *
10720223 GTTCGTTTACGTTCGTTCATTTAT
1 GTTCGGTTACGTTCGTTCAGTTAT
10720247 GTT
1 GTT
10720250 TAACCCAATC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.10, C:0.12, G:0.24, T:0.55
Consensus pattern (24 bp):
GTTCGGTTACGTTCGTTCAGTTAT
Found at i:10721332 original size:16 final size:16
Alignment explanation
Indices: 10721311--10721348 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
10721301 CTCCAACGTT
10721311 TATGTTCGTGTTCGTC
1 TATGTTCGTGTTCGTC
*
10721327 TATGTTCGTGTTCGTT
1 TATGTTCGTGTTCGTC
10721343 TATGTT
1 TATGTT
10721349 TGTTTATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.08, C:0.13, G:0.24, T:0.55
Consensus pattern (16 bp):
TATGTTCGTGTTCGTC
Found at i:10723591 original size:13 final size:15
Alignment explanation
Indices: 10723557--10723590 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
10723547 ATACCTAAAT
10723557 CTAAAATATTAAACC
1 CTAAAATATTAAACC
*
10723572 CTAAAATA-TAACCC
1 CTAAAATATTAAACC
10723586 CTAAA
1 CTAAA
10723591 TCTTAAGTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.53, C:0.24, G:0.00, T:0.24
Consensus pattern (15 bp):
CTAAAATATTAAACC
Found at i:10725149 original size:54 final size:54
Alignment explanation
Indices: 10725054--10725225 Score: 242
Period size: 54 Copynumber: 3.2 Consensus size: 54
10725044 TGAATAAGTT
* * * *
10725054 CCCACGCCTTAAGT-AGAGA-TTCTTTTGCAG-TAGCTCGGGATGGATAAGCCGTG
1 CCCACGCCTTAACTGA-AGACTTCTTCTGC-GTTAGCTCCGGATGAATAAGCCGTG
10725107 CCCACGCCTTAACTGAAGACTTCTTCTGCGTTAGCTCCGGATGAATAAGCCGTG
1 CCCACGCCTTAACTGAAGACTTCTTCTGCGTTAGCTCCGGATGAATAAGCCGTG
* *
10725161 CCCAAGCCTTAACTGAAGACTTCTTCTGCGTTAGCTCTGGATGAATAAGCCGTG
1 CCCACGCCTTAACTGAAGACTTCTTCTGCGTTAGCTCCGGATGAATAAGCCGTG
*
10725215 CCCATGCCTTA
1 CCCACGCCTTA
10725226 TGCGAACGCC
Statistics
Matches: 109, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
53 17 0.16
54 92 0.84
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (54 bp):
CCCACGCCTTAACTGAAGACTTCTTCTGCGTTAGCTCCGGATGAATAAGCCGTG
Found at i:10727825 original size:16 final size:16
Alignment explanation
Indices: 10727804--10727834 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
10727794 ATAAAAAAAT
10727804 GAACATAAACGAACAC
1 GAACATAAACGAACAC
10727820 GAACATAAACGAACA
1 GAACATAAACGAACA
10727835 ATTTTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.23, G:0.13, T:0.06
Consensus pattern (16 bp):
GAACATAAACGAACAC
Found at i:10727929 original size:16 final size:16
Alignment explanation
Indices: 10727904--10727952 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
10727894 TAATAAATAA
*
10727904 ACGAATATAAACGAAC
1 ACGAACATAAACGAAC
10727920 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
10727936 ACGAGCATAAACGAAC
1 ACGAACATAAACGAAC
10727952 A
1 A
10727953 TAAACGTTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.55, C:0.22, G:0.14, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:10729821 original size:17 final size:17
Alignment explanation
Indices: 10729799--10729832 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10729789 TCCATAAATC
*
10729799 CAAAATCCAACAATCCA
1 CAAAATCAAACAATCCA
*
10729816 CAAAATCAAACATTCCA
1 CAAAATCAAACAATCCA
10729833 AAATATTCAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.32, G:0.00, T:0.15
Consensus pattern (17 bp):
CAAAATCAAACAATCCA
Found at i:10731349 original size:19 final size:19
Alignment explanation
Indices: 10731318--10731358 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
10731308 TATGTATAGT
10731318 TTTAATAACAACA-ACATAA
1 TTTAATAACAACACA-ATAA
10731337 TTTAATCAA-AACACAATAA
1 TTTAAT-AACAACACAATAA
10731356 TTT
1 TTT
10731359 GAAAATTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.32
Consensus pattern (19 bp):
TTTAATAACAACACAATAA
Found at i:10731400 original size:26 final size:24
Alignment explanation
Indices: 10731355--10731414 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 24
10731345 AAACACAATA
10731355 ATTTGAAAATTAACATTTTTTTTT
1 ATTTGAAAATTAACATTTTTTTTT
10731379 ATTTCGAAAATTTAA-ATTTTTTTTT
1 ATTT-GAAAA-TTAACATTTTTTTTT
10731404 -TTTGGAAAATT
1 ATTT-GAAAATT
10731415 CTTGTGTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
23 2 0.06
24 12 0.36
25 15 0.45
26 4 0.12
ACGTcount: A:0.33, C:0.03, G:0.07, T:0.57
Consensus pattern (24 bp):
ATTTGAAAATTAACATTTTTTTTT
Found at i:10731803 original size:21 final size:21
Alignment explanation
Indices: 10731777--10731816 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
10731767 CAGAACCCCA
*
10731777 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
10731798 GGGGGGAATCGATTCCCCT
1 GGGGGGAATCGATTCCCCT
10731817 TTAAAGGGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.25, G:0.38, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:10731825 original size:23 final size:21
Alignment explanation
Indices: 10731778--10731830 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
10731768 AGAACCCCAG
* *
10731778 GGGGGTATCGATTCCCCTGTG
1 GGGGGAATCGATTCCCCTGTA
*
10731799 GGGGGAATCGATTCCCCTTTAAA
1 GGGGGAATCGATTCCCCTGT--A
10731822 GGGGGAATC
1 GGGGGAATC
10731831 AGTTCCCTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 18 0.67
23 9 0.33
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.25
Consensus pattern (21 bp):
GGGGGAATCGATTCCCCTGTA
Found at i:10735691 original size:22 final size:21
Alignment explanation
Indices: 10735649--10735688 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
10735639 GAGTTTGTTT
10735649 TCATTTTTCAATTTTAAAACA
1 TCATTTTTCAATTTTAAAACA
10735670 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
10735689 ACAATTTCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:10738655 original size:14 final size:14
Alignment explanation
Indices: 10738638--10738701 Score: 54
Period size: 14 Copynumber: 5.1 Consensus size: 14
10738628 TGAACATAAG
10738638 CGAACATAACCGAA
1 CGAACATAACCGAA
10738652 CGAACAT-A---AA
1 CGAACATAACCGAA
10738662 CGAACATAACC--A
1 CGAACATAACCGAA
*
10738674 --AATATAACCGAA
1 CGAACATAACCGAA
*
10738686 CGGACATAACCGAA
1 CGAACATAACCGAA
10738700 CG
1 CG
10738702 TTCACGAACG
Statistics
Matches: 40, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
10 17 0.43
11 1 0.03
12 2 0.05
13 1 0.03
14 19 0.47
ACGTcount: A:0.50, C:0.27, G:0.14, T:0.09
Consensus pattern (14 bp):
CGAACATAACCGAA
Found at i:10738670 original size:34 final size:34
Alignment explanation
Indices: 10738629--10738700 Score: 99
Period size: 34 Copynumber: 2.1 Consensus size: 34
10738619 ATAAATGAAT
* *
10738629 GAACATAAGCGAACATAACCGAACGAACATAAAC
1 GAACATAACCAAACATAACCGAACGAACATAAAC
* * *
10738663 GAACATAACCAAATATAACCGAACGGACATAACC
1 GAACATAACCAAACATAACCGAACGAACATAAAC
10738697 GAAC
1 GAAC
10738701 GTTCACGAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.51, C:0.25, G:0.14, T:0.10
Consensus pattern (34 bp):
GAACATAACCAAACATAACCGAACGAACATAAAC
Found at i:10743252 original size:19 final size:19
Alignment explanation
Indices: 10743228--10743269 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
10743218 TTTTAAAATC
*
10743228 AAAATCAGGTTATCAACCT
1 AAAATCAGATTATCAACCT
*
10743247 AAAATCAGATTTTCAACCT
1 AAAATCAGATTATCAACCT
10743266 AAAA
1 AAAA
10743270 CCTGTTTTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.48, C:0.19, G:0.07, T:0.26
Consensus pattern (19 bp):
AAAATCAGATTATCAACCT
Found at i:10743304 original size:38 final size:38
Alignment explanation
Indices: 10743248--10743347 Score: 155
Period size: 38 Copynumber: 2.6 Consensus size: 38
10743238 TATCAACCTA
* *
10743248 AAATCAGATTTTCAACCTAAAACCTGTTTTCCAAACAT
1 AAATAAGATTTTCAACCTAAAACCTATTTTCCAAACAT
*
10743286 AAATTAGATTTTCAACCTAAAACCTATTTTCCAAACAT
1 AAATAAGATTTTCAACCTAAAACCTATTTTCCAAACAT
* *
10743324 AAATAAGGTTTCCAACCTAAAACC
1 AAATAAGATTTTCAACCTAAAACC
10743348 AGATTTCTAC
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 57 1.00
ACGTcount: A:0.42, C:0.23, G:0.05, T:0.30
Consensus pattern (38 bp):
AAATAAGATTTTCAACCTAAAACCTATTTTCCAAACAT
Found at i:10743314 original size:18 final size:18
Alignment explanation
Indices: 10743240--10743353 Score: 61
Period size: 18 Copynumber: 6.0 Consensus size: 18
10743230 AATCAGGTTA
10743240 TCAACCTAAAATCAGATTT
1 TCAACCTAAAA-CAGATTT
*
10743259 TCAACCTAAAACCTG-TTT
1 TCAACCTAAAA-CAGATTT
* **
10743277 TCCAAACATAAATTAGATTT
1 T-C-AACCTAAAACAGATTT
**
10743297 TCAACCTAAAACCTATTT
1 TCAACCTAAAACAGATTT
* *
10743315 TCCAAACATAAATA-AGGTTT
1 T-C-AACCTAAA-ACAGATTT
*
10743335 CCAACCTAAAACCAGATTT
1 TCAACCTAAAA-CAGATTT
10743354 CTACGTTAAC
Statistics
Matches: 69, Mismatches: 18, Indels: 16
0.67 0.17 0.16
Matches are distributed among these distances:
17 1 0.01
18 23 0.33
19 23 0.33
20 21 0.30
21 1 0.01
ACGTcount: A:0.41, C:0.23, G:0.05, T:0.31
Consensus pattern (18 bp):
TCAACCTAAAACAGATTT
Found at i:10743354 original size:19 final size:19
Alignment explanation
Indices: 10743241--10743354 Score: 65
Period size: 19 Copynumber: 6.0 Consensus size: 19
10743231 ATCAGGTTAT
* *
10743241 CAACCTAAAATCAGATTTT
1 CAACCTAAAACCAGATTTC
* *
10743260 CAACCTAAAACCTGTTTTC
1 CAACCTAAAACCAGATTTC
* ** *
10743279 CAAAC-ATAAATTAGATTTT
1 CAACCTA-AAACCAGATTTC
*
10743298 CAACCTAAAACCTA-TTTTC
1 CAACCTAAAACC-AGATTTC
* *
10743317 CAAACATAAATA--AGGTTTC
1 C-AACCTAAA-ACCAGATTTC
10743336 CAACCTAAAACCAGATTTC
1 CAACCTAAAACCAGATTTC
10743355 TACGTTAACT
Statistics
Matches: 68, Mismatches: 19, Indels: 16
0.66 0.18 0.16
Matches are distributed among these distances:
17 1 0.01
18 9 0.13
19 48 0.71
20 9 0.13
21 1 0.01
ACGTcount: A:0.41, C:0.24, G:0.05, T:0.30
Consensus pattern (19 bp):
CAACCTAAAACCAGATTTC
Found at i:10745445 original size:29 final size:25
Alignment explanation
Indices: 10745378--10745425 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
10745368 CATGGCAACC
10745378 CTACGAGGCACTTTCGAGTGCAATT
1 CTACGAGGCACTTTCGAGTGCAATT
10745403 CTACGAGGCACTTTCGAGTGCAA
1 CTACGAGGCACTTTCGAGTGCAA
10745426 ATATATCTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (25 bp):
CTACGAGGCACTTTCGAGTGCAATT
Found at i:10745532 original size:2 final size:2
Alignment explanation
Indices: 10745525--10745551 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10745515 TATATTTAAA
10745525 AT 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 AT A
10745552 ATAAAAATAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10746781 original size:21 final size:21
Alignment explanation
Indices: 10746757--10746804 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
10746747 AAAAGATTGT
* * *
10746757 CCAGGGGGTACAGCTTTCCCC
1 CCAGGGGGAACAGATTCCCCC
10746778 CCA-GGGGAACAGATTCCCCC
1 CCAGGGGGAACAGATTCCCCC
10746798 CCAGGGG
1 CCAGGGG
10746805 TACCGATGCC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.19, C:0.38, G:0.31, T:0.12
Consensus pattern (21 bp):
CCAGGGGGAACAGATTCCCCC
Found at i:10746816 original size:20 final size:20
Alignment explanation
Indices: 10746774--10746817 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
10746764 GTACAGCTTT
*
10746774 CCCCCCAGGGGAACAGATTC
1 CCCCCCAGGGGAACAGATGC
* *
10746794 CCCCCCAGGGGTACCGATGC
1 CCCCCCAGGGGAACAGATGC
10746814 CCCC
1 CCCC
10746818 TGTCTAACGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.18, C:0.48, G:0.25, T:0.09
Consensus pattern (20 bp):
CCCCCCAGGGGAACAGATGC
Found at i:10748800 original size:27 final size:27
Alignment explanation
Indices: 10748766--10748820 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
10748756 TTTTCAAATG
*
10748766 TTTTGATTTTATAAATTTTAAATTTTT
1 TTTTGATTTTATAAATTTTAAAATTTT
10748793 TTTTGATTTTATAAATTTTAAAATTTT
1 TTTTGATTTTATAAATTTTAAAATTTT
10748820 T
1 T
10748821 GACCTAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (27 bp):
TTTTGATTTTATAAATTTTAAAATTTT
Found at i:10749614 original size:21 final size:21
Alignment explanation
Indices: 10749565--10749627 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
10749555 CAGATTGTCT
* *
10749565 AGGGGGTACAGATTCCCCCTGC
1 AGGGGGTACCGATTCCCCC-CC
**
10749587 AACGGGTACCGATTCCCCCCC
1 AGGGGGTACCGATTCCCCCCC
10749608 AGGGGGTACCGATTCCCCCC
1 AGGGGGTACCGATTCCCCCC
10749628 TGTCTAACGA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
21 19 0.54
22 16 0.46
ACGTcount: A:0.17, C:0.40, G:0.27, T:0.16
Consensus pattern (21 bp):
AGGGGGTACCGATTCCCCCCC
Found at i:10751497 original size:23 final size:24
Alignment explanation
Indices: 10751457--10751501 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
10751447 TATCGGTCTA
10751457 AATTTTATAAATTCTATTTTTTTT
1 AATTTTATAAATTCTATTTTTTTT
* *
10751481 AATTTT-TTAATTTTATTTTTT
1 AATTTTATAAATTCTATTTTTT
10751502 AATATGAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (24 bp):
AATTTTATAAATTCTATTTTTTTT
Found at i:10753118 original size:31 final size:31
Alignment explanation
Indices: 10753052--10753135 Score: 96
Period size: 31 Copynumber: 2.7 Consensus size: 31
10753042 ATAGTTGAGG
* * * **
10753052 GACTAAAATCGAACGGACTGATAACGTTAGG
1 GACTGAAATCGGACGGACCGATAACGTTAAA
*
10753083 GACTGAAATCGGACGGACCGATAATGTTAAA
1 GACTGAAATCGGACGGACCGATAACGTTAAA
* *
10753114 GACTGATATCGGACAGACCGAT
1 GACTGAAATCGGACGGACCGAT
10753136 GGCGTTAGTG
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.37, C:0.18, G:0.26, T:0.19
Consensus pattern (31 bp):
GACTGAAATCGGACGGACCGATAACGTTAAA
Found at i:10753390 original size:15 final size:16
Alignment explanation
Indices: 10753365--10753397 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
10753355 ATCCTTACAT
10753365 TTGAGTTTTTTTAATA
1 TTGAGTTTTTTTAATA
10753381 TTGA-TTTTTTTAATA
1 TTGAGTTTTTTTAATA
10753396 TT
1 TT
10753398 CTAGGTGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.67
Consensus pattern (16 bp):
TTGAGTTTTTTTAATA
Found at i:10753639 original size:21 final size:20
Alignment explanation
Indices: 10753553--10753710 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
10753543 AAATGACCAA
**
10753553 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
10753572 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
10753592 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
10753612 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * * *
10753633 GAAAATCGCGATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
10753654 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
10753674 CAATAATCGCAACGCGAATAT
1 CAA-AATCGCAACGCGATTTT
*
10753695 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
10753711 ACACATAATC
Statistics
Matches: 102, Mismatches: 31, Indels: 11
0.71 0.22 0.08
Matches are distributed among these distances:
19 16 0.16
20 42 0.41
21 44 0.43
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:10753742 original size:20 final size:20
Alignment explanation
Indices: 10753678--10754061 Score: 371
Period size: 20 Copynumber: 19.4 Consensus size: 20
10753668 GATTTTCAAT
* ** *
10753678 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
10753698 AATCGCAACGCG-AACACAT-
1 AATCGCAACGCGTATC-CGTA
10753717 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
10753737 AATCGCAACGTGTATCCGT-
1 AATCGCAACGCGTATCCGTA
**
10753756 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
10753776 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
10753796 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* * *
10753816 AATCGCAAACG-ATAATACTTAA
1 AATCGC-AACGCGT-ATCCGT-A
10753838 AATCGCAA-GCGGTATCCGTA
1 AATCGCAACGC-GTATCCGTA
*
10753858 AATCGCAACGTGTATCCGT-
1 AATCGCAACGCGTATCCGTA
10753877 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
10753897 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
10753917 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
10753937 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
10753957 AATCGCAA--CGTATCCGT-
1 AATCGCAACGCGTATCCGTA
*
10753974 -ATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
10753993 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
10754013 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
10754033 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
10754053 AATCACAAC
1 AATCGCAAC
10754062 ACTGAAATTT
Statistics
Matches: 303, Mismatches: 40, Indels: 42
0.79 0.10 0.11
Matches are distributed among these distances:
16 7 0.02
17 1 0.00
18 12 0.04
19 51 0.17
20 209 0.69
21 15 0.05
22 8 0.03
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.21
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:10753858 original size:101 final size:101
Alignment explanation
Indices: 10753736--10754061 Score: 343
Period size: 96 Copynumber: 3.3 Consensus size: 101
10753726 GCGTATCCGT
** * *
10753736 AAATCGCAACGTGTATCCGT-AATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTATATC
1 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATCCGT-AATCGCAACGCGTATCCGTAAATC
10753800 GCAACGCGTATCCGTAAATCGCAAACGATAATACTTA
65 GCAACGCGTATCCGTAAATCGCAAACGATAATACTTA
*
10753837 AAATCGCAAGCG-GTATCCGTAAATCGCAACGTGTATCCGTAATCGCAACGCGTATCCGTAAATC
1 AAATCGCAA-CGTGTATCCGTAAATCGCAACGCGTATCCGTAATCGCAACGCGTATCCGTAAATC
* * * *
10753901 GCAATGCGTATCCGTAAATCGC-AACGCGT-ATCCGT-
65 GCAACGCGTATCCGTAAATCGCAAACG-ATAATACTTA
* *
10753936 AAATCGCAACGAT-AATCCGTAAATCGCAA--CGTATCCGT-ATCGCAACG-ATAATCCGTAAAT
1 AAATCGCAACG-TGTATCCGTAAATCGCAACGCGTATCCGTAATCGCAACGCGT-ATCCGTAAAT
* * * * *
10753996 CGCAACGAGAATCTGTAAATCGC-AACGATAATCCGT-
64 CGCAACGCGTATCCGTAAATCGCAAACGATAATACTTA
* * * *
10754032 AAATCGCAACGAGAATCTGTAAATCACAAC
1 AAATCGCAACGTGTATCCGTAAATCGCAAC
10754062 ACTGAAATTT
Statistics
Matches: 196, Mismatches: 20, Indels: 22
0.82 0.08 0.09
Matches are distributed among these distances:
95 2 0.01
96 73 0.37
97 8 0.04
98 2 0.01
99 24 0.12
100 8 0.04
101 61 0.31
102 18 0.09
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (101 bp):
AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATCCGTAATCGCAACGCGTATCCGTAAATCG
CAACGCGTATCCGTAAATCGCAAACGATAATACTTA
Found at i:10753860 original size:121 final size:118
Alignment explanation
Indices: 10753717--10754061 Score: 459
Period size: 121 Copynumber: 2.9 Consensus size: 118
10753707 GCGAACACAT
**
10753717 AATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTAATCGCAACGCGTATGGGTAAATCGC
1 AATCGCAACG-GTATCCGTAAATCGCAACGTGTATCCGTAATCGCAACGCGTATCCGTAAATCGC
* *
10753782 AATGCGTATCCGTATATCGCAACGCGTATCCGTAAATCGCAAACGATAATACTTAA
65 AATGCGTATCCGTAAATCGCAACGCGTATCCGTAAATCGC-AACGATAATACGT-A
10753838 AATCGCAAGCGGTATCCGTAAATCGCAACGTGTATCCGTAATCGCAACGCGTATCCGTAAATCGC
1 AATCGCAA-CGGTATCCGTAAATCGCAACGTGTATCCGTAATCGCAACGCGTATCCGTAAATCGC
*
10753903 AATGCGTATCCGTAAATCGCAACGCGTATCCGTAAATCGCAACGATAATCCGTA
65 AATGCGTATCCGTAAATCGCAACGCGTATCCGTAAATCGCAACGATAATACGTA
* * * *
10753957 AATCGCAAC-GTATCCGT--ATCGCAACGAT-AATCCGTAAATCGCAACGAGAATCTGTAAATCG
1 AATCGCAACGGTATCCGTAAATCGCAACG-TGTATCCGT-AATCGCAACGCGTATCCGTAAATCG
* * * *
10754018 CAA--CGATAATCCGTAAATCGCAACGAGAATCTGTAAATCACAAC
64 CAATGCG-T-ATCCGTAAATCGCAACGCGTATCCGTAAATCGCAAC
10754062 ACTGAAATTT
Statistics
Matches: 206, Mismatches: 13, Indels: 15
0.88 0.06 0.06
Matches are distributed among these distances:
114 2 0.01
115 16 0.08
116 58 0.28
117 8 0.04
118 1 0.00
119 9 0.04
120 11 0.05
121 99 0.48
122 2 0.01
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.22
Consensus pattern (118 bp):
AATCGCAACGGTATCCGTAAATCGCAACGTGTATCCGTAATCGCAACGCGTATCCGTAAATCGCA
ATGCGTATCCGTAAATCGCAACGCGTATCCGTAAATCGCAACGATAATACGTA
Found at i:10757245 original size:19 final size:19
Alignment explanation
Indices: 10757223--10757689 Score: 526
Period size: 19 Copynumber: 27.1 Consensus size: 19
10757213 CGGAAAATAC
*
10757223 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
10757242 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
10757256 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
10757276 AATCGCAA--CG--A-G--
1 AATCGCAATGCGAAATGAA
10757288 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
10757307 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
10757326 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
10757340 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
10757359 AATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAA
*
10757377 AATCGCAATGCGAAATGGA
1 AATCGCAATGCGAAATGAA
*
10757396 AATCGCAATGCGAAATGGA
1 AATCGCAATGCGAAATGAA
10757415 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
10757434 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
10757448 AATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAA
10757466 AATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAA
*
10757484 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
10757498 AATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAA
10757516 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
10757535 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
10757549 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
10757568 AATCGC-ATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
10757586 AATCGCAATGCG-AA--AA
1 AATCGCAATGCGAAATGAA
10757602 AATCGC-ATGCG-AATGAA
1 AATCGCAATGCGAAATGAA
10757619 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
10757638 AATCGCAA--CG-AA-G--
1 AATCGCAATGCGAAATGAA
10757651 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
10757670 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
10757689 A
1 A
10757690 TCGGGACGAG
Statistics
Matches: 393, Mismatches: 9, Indels: 92
0.80 0.02 0.19
Matches are distributed among these distances:
12 8 0.02
13 9 0.02
14 52 0.13
15 13 0.03
16 28 0.07
17 24 0.06
18 90 0.23
19 156 0.40
20 13 0.03
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:10757317 original size:51 final size:50
Alignment explanation
Indices: 10757251--10757715 Score: 631
Period size: 51 Copynumber: 9.0 Consensus size: 50
10757241 AAATCCCAAC
10757251 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAATCGCAATGCGAA
10757302 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAAC--GAGAATCGCAATGCGAA
10757354 ATGAAAATCGCAATGCGAAATG-AAATCGCAATGCGAAATGGAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A--G-AATCGCAATGCGAA
*
10757410 ATGGAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACG--AGAATCGCAATGCGAA
10757462 ATG-AAATCGCAATGCGAAATG-AAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAAC--GAGAATCGCAATGCGAA
10757512 ATG-AAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAAC--GAGAATCGCAATGCGAA
*
10757563 ATGAAAATCGC-ATGCGAAATGAAAATCGCAATGCGAAAAAATCGC-ATGCG-A
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--AGAATCGCAATGCGAA
10757614 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACG-AGAATCGCAATGCGAA
**
10757665 ATGAAAATCGCAATGCGAAATG-AAATCGGGACGAGATAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAG--AATCGCAATGCGAA
10757716 TTATAAACGC
Statistics
Matches: 386, Mismatches: 5, Indels: 46
0.88 0.01 0.11
Matches are distributed among these distances:
49 10 0.03
50 80 0.21
51 146 0.38
52 89 0.23
53 11 0.03
55 6 0.02
56 35 0.09
57 9 0.02
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.14
Consensus pattern (50 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAATCGCAATGCGAA
Found at i:10757687 original size:70 final size:72
Alignment explanation
Indices: 10757288--10757689 Score: 474
Period size: 70 Copynumber: 5.8 Consensus size: 72
10757278 TCGCAACGAG
*
10757288 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG-A-GAGAATCGCAAT
1 AATCGCAA--CGAAATG-AAATCGCAATGCGAAATGAAAATCGCAATGCGAATGAAAATCGCAAT
10757349 GCGAAATGAA
63 GCGAAATGAA
* *
10757359 AATCGCAATGCGAAATGAAATCGCAATGCGAAATGGAAATCGCAATGCGAAATGGAAATCGCAAT
1 AATCGCAA--CGAAATGAAATCGCAATGCGAAATGAAAATCGCAATGCG-AATGAAAATCGCAAT
10757424 GCGAAATGAA
63 GCGAAATGAA
10757434 AATCGCAACGAAA-G-AATCGCAATGCGAAATG-AAATCGCAATGCGAAATG-AAATCGCAA--C
1 AATCGCAACGAAATGAAATCGCAATGCGAAATGAAAATCGCAATGCG-AATGAAAATCGCAATGC
*
10757493 G--A-GAG
65 GAAATGAA
*
10757498 AATCGCAATGCGAAATGAAATCGCAATGCGAAATGAAAATCGCAA--CG-A-GAGAATCGCAATG
1 AATCGCAA--CGAAATGAAATCGCAATGCGAAATGAAAATCGCAATGCGAATGAAAATCGCAATG
10757559 CGAAATGAA
64 CGAAATGAA
*
10757568 AATCGCATGCGAAATGAAAATCGCAATGCG-AA--AAAATCGC-ATGCGAATGAAAATCGCAATG
1 AATCGCA-ACGAAATG-AAATCGCAATGCGAAATGAAAATCGCAATGCGAATGAAAATCGCAATG
10757629 CGAAATGAA
64 CGAAATGAA
10757638 AATCGCAACG-AA-G-AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
1 AATCGCAACGAAATGAAATCGCAATGCGAAATGAAAATCGCAATGCG-AATGAAA
10757690 TCGGGACGAG
Statistics
Matches: 295, Mismatches: 9, Indels: 55
0.82 0.03 0.15
Matches are distributed among these distances:
64 11 0.04
65 22 0.07
66 8 0.03
67 16 0.05
68 29 0.10
69 36 0.12
70 102 0.35
71 34 0.12
72 3 0.01
73 5 0.02
74 1 0.00
75 28 0.09
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.14
Consensus pattern (72 bp):
AATCGCAACGAAATGAAATCGCAATGCGAAATGAAAATCGCAATGCGAATGAAAATCGCAATGCG
AAATGAA
Found at i:10757813 original size:19 final size:19
Alignment explanation
Indices: 10757723--10757805 Score: 113
Period size: 20 Copynumber: 4.6 Consensus size: 19
10757713 GAATTATAAA
10757723 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
10757742 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
10757762 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
10757778 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
10757795 CGCATTGCGAT
1 CGCATTGCGAT
10757806 AGTCATTTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
14 6 0.11
16 7 0.12
17 7 0.12
19 17 0.30
20 19 0.34
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.43
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:10757930 original size:14 final size:14
Alignment explanation
Indices: 10757911--10757947 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
10757901 CATCAATTAC
10757911 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
10757925 ACAAATCATCTTTT
1 ACAAATCAACTTTT
10757939 ACAAATCAA
1 ACAAATCAA
10757948 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:10759902 original size:14 final size:14
Alignment explanation
Indices: 10759883--10759939 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
10759873 GCGAAATGAA
*
10759883 AATCGCAACGACAG
1 AATCGCAACGAAAG
10759897 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
10759914 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
10759930 AATCGCAACG
1 AATCGCAACG
10759940 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:10759910 original size:33 final size:33
Alignment explanation
Indices: 10759864--10759956 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
10759854 GCGAAACCAA
*
10759864 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
10759897 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
10759930 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
10759957 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:10759921 original size:19 final size:19
Alignment explanation
Indices: 10759843--10759961 Score: 123
Period size: 19 Copynumber: 6.8 Consensus size: 19
10759833 CACGAAACTT
**
10759843 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATG
10759862 AAAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
*
10759881 AAAATCGCAA--CGACA-G
1 AAAATCGCAACGCGAAATG
*
10759897 --AATCGCAATGCGAAATG
1 AAAATCGCAACGCGAAATG
10759914 AAAATCGCAA--CGAAA-G
1 AAAATCGCAACGCGAAATG
10759930 --AATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
*
10759947 AAAATCGCAATGCGA
1 AAAATCGCAACGCGA
10759962 TTTTGGTTTC
Statistics
Matches: 85, Mismatches: 5, Indels: 20
0.77 0.05 0.18
Matches are distributed among these distances:
14 16 0.19
16 11 0.13
17 11 0.13
19 47 0.55
ACGTcount: A:0.47, C:0.23, G:0.20, T:0.10
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:10759979 original size:19 final size:19
Alignment explanation
Indices: 10759957--10760085 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
10759947 AAAATCGCAA
10759957 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
10759976 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
10759990 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
10760009 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
10760023 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
10760042 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
10760061 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
10760081 TGCGA
1 TGCGA
10760086 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:10759999 original size:33 final size:33
Alignment explanation
Indices: 10759957--10760048 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
10759947 AAAATCGCAA
10759957 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
10759990 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
10760023 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
10760049 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:10760294 original size:92 final size:92
Alignment explanation
Indices: 10760129--10760501 Score: 668
Period size: 91 Copynumber: 4.1 Consensus size: 92
10760119 TTGAATGGAT
10760129 AAATTTACTTTCAACC-AAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGAC-AATACTATTTCACAGTGTTAAAGAATACAC
10760193 AG-TTAGCAGAATTGGCAGCAACCGAAC
65 AGTTTAGCAGAATTGGCAGCAACCGAAC
10760220 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGAC-AATACTATTTCACAGTGTTAAAGAATACAC
10760284 AGTTTAGCAGAATTGGCAGCAACCGAAC
65 AGTTTAGCAGAATTGGCAGCAACCGAAC
10760312 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAATA-TATTTCACAGTGTTAAAGAATACACA
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAATACTATTTCACAGTGTTAAAGAATACACA
10760376 GTTTAGCAGAATTGGCAGCAACCGAAC
66 GTTTAGCAGAATTGGCAGCAACCGAAC
10760403 -AATTTACTTT-AACCAAAAGACAAAACAAAGACAATACTATTTCACAGTGTTAAAGAATACACA
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAATACTATTTCACAGTGTTAAAGAATACACA
* *
10760466 TTTTAGCAGAATTGGCAGCAACCGAAT
66 GTTTAGCAGAATTGGCAGCAACCGAAC
10760493 AAATTTACT
1 AAATTTACT
10760502 AAGCAATCTA
Statistics
Matches: 276, Mismatches: 2, Indels: 8
0.97 0.01 0.03
Matches are distributed among these distances:
89 26 0.09
90 61 0.22
91 108 0.39
92 81 0.29
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.23
Consensus pattern (92 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAATACTATTTCACAGTGTTAAAGAATACACA
GTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:10760461 original size:181 final size:183
Alignment explanation
Indices: 10760129--10760501 Score: 666
Period size: 181 Copynumber: 2.0 Consensus size: 183
10760119 TTGAATGGAT
10760129 AAATTTACTTTCAACCAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACA
1 AAATTTACTTTCAACCAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACA
10760194 GTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA
66 GTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA
10760259 TATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
10760312 AAATTTACTTTCAACCAAAAGACAAAACAAAGAC-AATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACC-AAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
10760375 AGTTTAGCAGAATTGGCAGCAACCGAAC-AATTTACTTT-AACCAAAAGACAAAACAAAGAC-AA
65 AG-TTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
* *
10760437 TACTATTTCACAGTGTTAAAGAATACACATTTTAGCAGAATTGGCAGCAACCGAAT
129 TA-TATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
10760493 AAATTTACT
1 AAATTTACT
10760502 AAGCAATCTA
Statistics
Matches: 185, Mismatches: 2, Indels: 8
0.95 0.01 0.04
Matches are distributed among these distances:
180 4 0.02
181 82 0.44
182 37 0.20
183 45 0.24
184 17 0.09
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.23
Consensus pattern (183 bp):
AAATTTACTTTCAACCAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACA
GTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA
TATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:10762271 original size:14 final size:14
Alignment explanation
Indices: 10762252--10762306 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
10762242 TTTGGTTTCG
10762252 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
10762266 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
10762285 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
10762299 CGTTGCGA
1 CGTTGCGA
10762307 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:10762284 original size:33 final size:33
Alignment explanation
Indices: 10762236--10762306 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
10762226 ACAATCGCAA
**
10762236 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
10762269 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
10762302 TGCGA
1 TGCGA
10762307 CAGTCATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:10762314 original size:33 final size:33
Alignment explanation
Indices: 10762247--10762328 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
10762237 GCGATTTTGG
***
10762247 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
10762280 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
10762313 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
10762329 TTCATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:10762333 original size:20 final size:20
Alignment explanation
Indices: 10762259--10762347 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
10762249 TCGCGTTGCG
10762259 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
10762279 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
10762292 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
10762312 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
10762332 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
10762348 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:10762468 original size:33 final size:33
Alignment explanation
Indices: 10762426--10762496 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
10762416 AATACTAACT
*
10762426 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
10762459 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
10762492 TGAAA
1 TGAAA
10762497 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:10762729 original size:22 final size:22
Alignment explanation
Indices: 10762677--10762731 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
10762667 TGGTTGTGAG
**
10762677 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
10762699 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
10762721 GGATTTCTTCG
1 GGATTTCTTCG
10762732 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:10762902 original size:20 final size:20
Alignment explanation
Indices: 10762877--10763069 Score: 210
Period size: 20 Copynumber: 9.6 Consensus size: 20
10762867 CTTTAAATAT
10762877 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
10762897 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
10762919 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
10762938 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* * **
10762958 GGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
10762978 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
10762998 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
10763018 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
10763038 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
10763058 CGCGTTGCGATT
1 CGCGTTGCGATT
10763070 ATTGAAAATC
Statistics
Matches: 144, Mismatches: 24, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 125 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:10763064 original size:60 final size:60
Alignment explanation
Indices: 10762877--10763069 Score: 242
Period size: 60 Copynumber: 3.2 Consensus size: 60
10762867 CTTTAAATAT
**
10762877 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * * *** *
10762938 CGCGTTGCGATATACGGATAGGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
10762998 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
10763058 CGCGTTGCGATT
1 CGCGTTGCGATT
10763070 ATTGAAAATC
Statistics
Matches: 109, Mismatches: 23, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
60 82 0.75
61 27 0.25
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:10765169 original size:15 final size:15
Alignment explanation
Indices: 10765149--10765195 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
10765139 ATGCATAGGC
10765149 TTGGAGAATGAGCTT
1 TTGGAGAATGAGCTT
*
10765164 TTGGAGGA-G-GC--
1 TTGGAGAATGAGCTT
10765175 TTGGAGAATGAGCTT
1 TTGGAGAATGAGCTT
10765190 TTGGAG
1 TTGGAG
10765196 GAGCCTTTGC
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
11 7 0.27
12 1 0.04
13 4 0.15
14 1 0.04
15 13 0.50
ACGTcount: A:0.23, C:0.06, G:0.40, T:0.30
Consensus pattern (15 bp):
TTGGAGAATGAGCTT
Found at i:10765174 original size:26 final size:26
Alignment explanation
Indices: 10765145--10765198 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
10765135 TTCCATGCAT
10765145 AGGCTTGGAGAATGAGCTTTTGGAGG
1 AGGCTTGGAGAATGAGCTTTTGGAGG
10765171 AGGCTTGGAGAATGAGCTTTTGGAGG
1 AGGCTTGGAGAATGAGCTTTTGGAGG
10765197 AG
1 AG
10765199 CCTTTGCCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.24, C:0.07, G:0.43, T:0.26
Consensus pattern (26 bp):
AGGCTTGGAGAATGAGCTTTTGGAGG
Found at i:10776669 original size:15 final size:15
Alignment explanation
Indices: 10776649--10776678 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10776639 GTACGCAACA
10776649 AGAAAAAAGAGAGAG
1 AGAAAAAAGAGAGAG
*
10776664 AGAAAAAATAGAGAG
1 AGAAAAAAGAGAGAG
10776679 TAATTCAACT
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:0.67, C:0.00, G:0.30, T:0.03
Consensus pattern (15 bp):
AGAAAAAAGAGAGAG
Found at i:10789263 original size:50 final size:52
Alignment explanation
Indices: 10789203--10789300 Score: 137
Period size: 50 Copynumber: 1.9 Consensus size: 52
10789193 AATACTTTGC
* ** *
10789203 TTAGGATGAAAACCCGAGAGGGCGTCCTAAGTTGA-AAAA-AAAAAGAACGT
1 TTAGGATGAAAACCCGAAAGGGCACCCTAAATTGAGAAAAGAAAAAGAACGT
*
10789253 TTAGGGTGAAAACCCGAAAGGGCACCCTAAATTGAGAAAAGAAAAAGA
1 TTAGGATGAAAACCCGAAAGGGCACCCTAAATTGAGAAAAGAAAAAGA
10789301 GGAAAAAAGA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
50 30 0.73
51 4 0.10
52 7 0.17
ACGTcount: A:0.46, C:0.14, G:0.26, T:0.14
Consensus pattern (52 bp):
TTAGGATGAAAACCCGAAAGGGCACCCTAAATTGAGAAAAGAAAAAGAACGT
Found at i:10790258 original size:105 final size:105
Alignment explanation
Indices: 10790072--10790730 Score: 1100
Period size: 105 Copynumber: 6.3 Consensus size: 105
10790062 AGGTTTTACC
* * *
10790072 CAGAGTCAATTTCAACTTCACAACGAAGGATGTTGGACTCTAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
10790137 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCCCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCCCAATTT
*
10790177 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCTAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
10790242 ACGGAGGGACCACTGGTTGTCAACAAACATTTCCCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCCCAATTT
10790282 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
10790347 ACGAAGGGACCGCTGGTTGTCAATAAACA------AA-TT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCCCAATTT
* *
10790380 CAGGGCCAATTTTAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
10790445 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCCCAATTT
*
10790485 CAAAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
10790550 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCCCAATTT
*
10790590 CAGAGCCAATTTCAACTTCACAACGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
10790655 ACGAAGGGACCACTGGTTGTCAACAAACATTTCTCAAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTC-CCAATTT
10790696 -AGAGCCAATTTCAACTTCACAACGAAGGATATTGG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
10790731 GCTCGGAACA
Statistics
Matches: 525, Mismatches: 21, Indels: 16
0.93 0.04 0.03
Matches are distributed among these distances:
98 93 0.18
99 2 0.00
104 2 0.00
105 424 0.81
106 4 0.01
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.22
Consensus pattern (105 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACAAACATTTCCCAATTT
Found at i:10790643 original size:308 final size:311
Alignment explanation
Indices: 10790072--10790730 Score: 1108
Period size: 308 Copynumber: 2.1 Consensus size: 311
10790062 AGGTTTTACC
* * *
10790072 CAGAGTCAATTTCAACTTCACAACGAAGGATGTTGGACTCTAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
10790137 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACG
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCCCAAATTCAAAGCCAATTTCAACTTCACAACG
* *
10790202 AAGGATATTGGACTCTAGACAACGCAAGTTCAACTTCACGACGGAGGGACCACTGGTTGTCAACA
131 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAACA
* *
10790267 AACATTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGC
196 AACATTTCCCAAATTCAGAGCCAATTTCAACTTCACAACGAAAGATATTGGACTCCAGACAACGC
* *
10790332 AAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA-TAA-A-CAAATT
261 AAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAACAAACATCAAATT
* *
10790380 CAGGGCCAATTTTAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
10790445 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATTCAAAGCCAATTTCAACTTCACAACG
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCCCAAATTCAAAGCCAATTTCAACTTCACAACG
*
10790510 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACA
131 AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAACA
*
10790575 AACATTTCTCAAATTCAGAGCCAATTTCAACTTCACAACGAAAGATATTGGACTCCAGACAACGC
196 AACATTTCCCAAATTCAGAGCCAATTTCAACTTCACAACGAAAGATATTGGACTCCAGACAACGC
10790640 AAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAACAAACATTTCTCAAATT
261 AAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAACAAACA----TCAAATT
*
10790695 TAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
10790731 GCTCGGAACA
Statistics
Matches: 325, Mismatches: 19, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
308 283 0.87
309 2 0.01
310 1 0.00
315 39 0.12
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.22
Consensus pattern (311 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACAAACATTTCCCAAATTCAAAGCCAATTTCAACTTCACAACG
AAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAACA
AACATTTCCCAAATTCAGAGCCAATTTCAACTTCACAACGAAAGATATTGGACTCCAGACAACGC
AAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAACAAACATCAAATT
Found at i:10793486 original size:82 final size:82
Alignment explanation
Indices: 10793349--10793592 Score: 303
Period size: 82 Copynumber: 3.0 Consensus size: 82
10793339 TGAAAAAACA
* *
10793349 CCACTATAGATGAAACCTATTGCGGCATTTTTATACAATCGCCGCTAAAGGACTACTATGTCACG
1 CCACTATAGATG-AACCTATTGCGGCATTTTTATACAAACGCCGCTAAAGTACTACTATGTCACG
10793414 GCGTTTGTTTAAAAAAGG
65 GCGTTTGTTTAAAAAAGG
* **
10793432 CCACTATAGATGAACCTATTGCGGC-TTTTGTATAAAAACGCCGCTAAAGTACTACTATGTTGCG
1 CCACTATAGATGAACCTATTGCGGCATTTT-TATACAAACGCCGCTAAAGTACTACTATGTCACG
*
10793496 GCGTTTG-TTAAAAAATG
65 GCGTTTGTTTAAAAAAGG
* ** * ** * *
10793513 TCACTATAGATGAACCCTATTGCAACATTTTTATACAAATGATGCTAAAGTACTACTTTGTCAAG
1 CCACTATAGATGAA-CCTATTGCGGCATTTTTATACAAACGCCGCTAAAGTACTACTATGTCACG
*
10793578 GCGTTTTGTATAAAA
65 GCG-TTTGTTTAAAA
10793593 CTGCAGCTAA
Statistics
Matches: 138, Mismatches: 18, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
81 26 0.19
82 87 0.63
83 20 0.14
84 5 0.04
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (82 bp):
CCACTATAGATGAACCTATTGCGGCATTTTTATACAAACGCCGCTAAAGTACTACTATGTCACGG
CGTTTGTTTAAAAAAGG
Found at i:10793510 original size:41 final size:40
Alignment explanation
Indices: 10793388--10793510 Score: 101
Period size: 41 Copynumber: 3.0 Consensus size: 40
10793378 TTTATACAAT
**
10793388 CGCCGCTAAAGGACTACTATGTCACGGCGTTTGTTTAAAAAA
1 CGCCGCTAAA-GACTACTATGTTGCGGCGTTTG-TTAAAAAA
* * * *
10793430 GGCCACTATAGA-TGAACCTA--TTGCGGCTTTTG-TATAAAAA
1 CGCCGCTAAAGACT--A-CTATGTTGCGGCGTTTGTTA-AAAAA
10793470 CGCCGCTAAAGTACTACTATGTTGCGGCGTTTGTTAAAAAA
1 CGCCGCTAAAG-ACTACTATGTTGCGGCGTTTGTTAAAAAA
10793511 TGTCACTATA
Statistics
Matches: 62, Mismatches: 10, Indels: 19
0.68 0.11 0.21
Matches are distributed among these distances:
39 5 0.08
40 15 0.24
41 28 0.45
42 11 0.18
43 3 0.05
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (40 bp):
CGCCGCTAAAGACTACTATGTTGCGGCGTTTGTTAAAAAA
Found at i:10793583 original size:164 final size:166
Alignment explanation
Indices: 10793293--10793592 Score: 390
Period size: 164 Copynumber: 1.8 Consensus size: 166
10793283 GACAATGACA
* * * * * *
10793293 TTTGTATAAAAACGCCGCTAAAGTATTACTCTTTTGTGATATTTTTTGAAAAAACACCACTATAG
1 TTTGTATAAAAACGCCGCTAAAGTACTACTATGTTGCGACATTTGTTGAAAAAACACCACTATAG
** * *
10793358 ATGAAACCTATTGCGGCATTTTTATACAATCGCCGCTAAAGGACTACTATGTCACGGCG-TTTGT
66 ATGAAACCTATTGCAACATTTTTATACAATCGACGCTAAAGGACTACTATGTCAAGGCGTTTTGT
*
10793422 TTAAAAAAGGCCACTATAGATGAACCTATTGCGGCT
131 ATAAAAAAGGCCACTATAGATGAACCTATTGCGGCT
* * ***
10793458 TTTGTATAAAAACGCCGCTAAAGTACTACTATGTTGCGGCGTTTGTT-AAAAAATGTCACTATAG
1 TTTGTATAAAAACGCCGCTAAAGTACTACTATGTTGCGACATTTGTTGAAAAAACACCACTATAG
* * * *
10793522 ATGAACCCTATTGCAACATTTTTATACAAAT-GATGCTAAAGTACTACTTTGTCAAGGCGTTTTG
66 ATGAAACCTATTGCAACATTTTTATAC-AATCGACGCTAAAGGACTACTATGTCAAGGCGTTTTG
10793586 TATAAAA
130 TATAAAA
10793593 CTGCAGCTAA
Statistics
Matches: 113, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
164 61 0.54
165 52 0.46
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (166 bp):
TTTGTATAAAAACGCCGCTAAAGTACTACTATGTTGCGACATTTGTTGAAAAAACACCACTATAG
ATGAAACCTATTGCAACATTTTTATACAATCGACGCTAAAGGACTACTATGTCAAGGCGTTTTGT
ATAAAAAAGGCCACTATAGATGAACCTATTGCGGCT
Found at i:10793997 original size:29 final size:29
Alignment explanation
Indices: 10793963--10794058 Score: 97
Period size: 29 Copynumber: 3.3 Consensus size: 29
10793953 TCCATTTTAG
10793963 TACCTAAACTTTCAATTTATTCAAAATCA
1 TACCTAAACTTTCAATTTATTCAAAATCA
* * * ** *
10793992 TACCTAAAGTTT-ATTTTTGTTTC-ATTTTA
1 TACCTAAACTTTCA-ATTT-ATTCAAAATCA
10794021 GTACCTAAACTTTCAATTTATTCAAAATCA
1 -TACCTAAACTTTCAATTTATTCAAAATCA
10794051 TACCTAAA
1 TACCTAAA
10794059 GTTTATTTTT
Statistics
Matches: 50, Mismatches: 12, Indels: 10
0.69 0.17 0.14
Matches are distributed among these distances:
28 1 0.02
29 28 0.56
30 20 0.40
31 1 0.02
ACGTcount: A:0.36, C:0.18, G:0.03, T:0.43
Consensus pattern (29 bp):
TACCTAAACTTTCAATTTATTCAAAATCA
Found at i:10794028 original size:30 final size:29
Alignment explanation
Indices: 10793991--10794079 Score: 83
Period size: 29 Copynumber: 3.0 Consensus size: 29
10793981 ATTCAAAATC
10793991 ATACCTAAAGTTTATTTTTGTTTCATTTT
1 ATACCTAAAGTTTATTTTTGTTTCATTTT
* * * ** *
10794020 AGTACCTAAACTTTCA-ATTT-ATTCAAAATC
1 A-TACCTAAAGTTT-ATTTTTGTTTC-ATTTT
10794050 ATACCTAAAGTTTATTTTTGTTTCATTTT
1 ATACCTAAAGTTTATTTTTGTTTCATTTT
10794079 A
1 A
10794080 ATACTTCATC
Statistics
Matches: 43, Mismatches: 12, Indels: 10
0.66 0.18 0.15
Matches are distributed among these distances:
28 1 0.02
29 21 0.49
30 20 0.47
31 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.06, T:0.51
Consensus pattern (29 bp):
ATACCTAAAGTTTATTTTTGTTTCATTTT
Found at i:10794037 original size:59 final size:59
Alignment explanation
Indices: 10793945--10794079 Score: 252
Period size: 59 Copynumber: 2.3 Consensus size: 59
10793935 TTAAACTATC
* *
10793945 ATTTTTGGTCCATTTTAGTACCTAAACTTTCAATTTATTCAAAATCATACCTAAAGTTT
1 ATTTTTGTTTCATTTTAGTACCTAAACTTTCAATTTATTCAAAATCATACCTAAAGTTT
10794004 ATTTTTGTTTCATTTTAGTACCTAAACTTTCAATTTATTCAAAATCATACCTAAAGTTT
1 ATTTTTGTTTCATTTTAGTACCTAAACTTTCAATTTATTCAAAATCATACCTAAAGTTT
10794063 ATTTTTGTTTCATTTTA
1 ATTTTTGTTTCATTTTA
10794080 ATACTTCATC
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 74 1.00
ACGTcount: A:0.30, C:0.15, G:0.06, T:0.49
Consensus pattern (59 bp):
ATTTTTGTTTCATTTTAGTACCTAAACTTTCAATTTATTCAAAATCATACCTAAAGTTT
Found at i:10794382 original size:26 final size:26
Alignment explanation
Indices: 10794353--10794443 Score: 71
Period size: 26 Copynumber: 3.5 Consensus size: 26
10794343 TATATTTTTG
10794353 TTATAATTTAAATTGATATAATTCAT
1 TTATAATTTAAATTGATATAATTCAT
* * * *
10794379 TTATAA-TAATAATT-TTCTGAATTTA-
1 TTATAATTTA-AATTGATAT-AATTCAT
* *
10794404 TTATAGTTTAAATTGATATGATTCAT
1 TTATAATTTAAATTGATATAATTCAT
*
10794430 ATATAATTGTAAAT
1 TTATAATT-TAAAT
10794444 ATAATTTAAA
Statistics
Matches: 47, Mismatches: 12, Indels: 11
0.67 0.17 0.16
Matches are distributed among these distances:
25 17 0.36
26 25 0.53
27 5 0.11
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (26 bp):
TTATAATTTAAATTGATATAATTCAT
Found at i:10798635 original size:20 final size:20
Alignment explanation
Indices: 10798607--10798658 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
10798597 CGTTAAGGAA
10798607 TGCATCGATGCACTCTACAG
1 TGCATCGATGCACTCTACAG
* * *
10798627 TGTATCGATGCACTGTAGAG
1 TGCATCGATGCACTCTACAG
10798647 TGCATCGATGCA
1 TGCATCGATGCA
10798659 TACCTTCATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (20 bp):
TGCATCGATGCACTCTACAG
Found at i:10806949 original size:21 final size:21
Alignment explanation
Indices: 10806925--10806969 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
10806915 TTAATATAAT
10806925 TTCTTTAATTTTATCAGTTTA
1 TTCTTTAATTTTATCAGTTTA
10806946 TTCTTTAATTTTATCAGTTTA
1 TTCTTTAATTTTATCAGTTTA
10806967 TTC
1 TTC
10806970 CAAAATTAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.22, C:0.11, G:0.04, T:0.62
Consensus pattern (21 bp):
TTCTTTAATTTTATCAGTTTA
Found at i:10806976 original size:21 final size:21
Alignment explanation
Indices: 10806931--10806976 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
10806921 TAATTTCTTT
***
10806931 AATTTTATCAGTTTATTCTTT
1 AATTTTATCAGTTTATTCCAA
10806952 AATTTTATCAGTTTATTCCAA
1 AATTTTATCAGTTTATTCCAA
10806973 AATT
1 AATT
10806977 AACTGTACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.11, G:0.04, T:0.54
Consensus pattern (21 bp):
AATTTTATCAGTTTATTCCAA
Found at i:10809079 original size:8 final size:9
Alignment explanation
Indices: 10809051--10809077 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
10809041 TAATTTATAA
10809051 TAATATTTT
1 TAATATTTT
10809060 TAATATTTT
1 TAATATTTT
10809069 TAATATTTT
1 TAATATTTT
10809078 AAAAAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TAATATTTT
Found at i:10811052 original size:31 final size:31
Alignment explanation
Indices: 10811014--10811167 Score: 265
Period size: 31 Copynumber: 5.0 Consensus size: 31
10811004 GGGTCGAGGG
10811014 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
10811045 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
10811076 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
*
10811107 TTACCTATGTTCTTCGGGACATATGGACTGA
1 TTACCTATGTTCTTCGGGACATATGGACTGT
* *
10811138 TTACCTAGGTTCTTCGGAATC-TATGGACTG
1 TTACCTATGTTCTTCGGGA-CATATGGACTG
10811168 GTCCTTCGGG
Statistics
Matches: 119, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
31 118 0.99
32 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACTGT
Found at i:10812503 original size:17 final size:18
Alignment explanation
Indices: 10812481--10812514 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10812471 TTAGCCGGTC
10812481 CGGTTC-GAACGGTTCAA
1 CGGTTCTGAACGGTTCAA
*
10812498 CGGTTCTGACCGGTTCA
1 CGGTTCTGAACGGTTCA
10812515 CTAATAGCGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.18, C:0.26, G:0.29, T:0.26
Consensus pattern (18 bp):
CGGTTCTGAACGGTTCAA
Found at i:10814170 original size:3 final size:3
Alignment explanation
Indices: 10814162--10814221 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
10814152 ATCAATGAAA
10814162 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
10814210 AAT AAT AAT AAT
1 AAT AAT AAT AAT
10814222 GAAGGATCAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10821950 original size:39 final size:38
Alignment explanation
Indices: 10821896--10821969 Score: 96
Period size: 39 Copynumber: 1.9 Consensus size: 38
10821886 AGAAATTTAA
* * *
10821896 AAATTTGAAGATATATTTAATTTATA-ATATTGTTATTTC
1 AAATTTAAAAATATA-TTAATATATATATATT-TTATTTC
10821935 AAATTTAAAAATATATTAATATATATATATTTTAT
1 AAATTTAAAAATATATTAATATATATATATTTTAT
10821970 AAATAAGATA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
38 13 0.42
39 18 0.58
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.50
Consensus pattern (38 bp):
AAATTTAAAAATATATTAATATATATATATTTTATTTC
Found at i:10823338 original size:40 final size:41
Alignment explanation
Indices: 10823238--10823352 Score: 119
Period size: 44 Copynumber: 2.8 Consensus size: 41
10823228 GTTGATGCTT
* * *
10823238 GCTGGAAGCTGCTTGAATGA-GGACGTGGAAGGGCTGCTGGCA
1 GCTGGAAGCTGCTGGAAT-ATGCACGTGG-AGGGATGCTGGCA
* *
10823280 GTGCTGGAAGCTGTTGGAATTTGCACGTGGAGGGATGCTGGCA
1 --GCTGGAAGCTGCTGGAATATGCACGTGGAGGGATGCTGGCA
*
10823323 -CTGGAAGCTGCTGGAA-ATGCACGTTGAGGG
1 GCTGGAAGCTGCTGGAATATGCACGTGGAGGG
10823353 GCTGCTGTCG
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
39 12 0.19
40 15 0.24
43 12 0.19
44 23 0.37
ACGTcount: A:0.21, C:0.16, G:0.42, T:0.22
Consensus pattern (41 bp):
GCTGGAAGCTGCTGGAATATGCACGTGGAGGGATGCTGGCA
Found at i:10823359 original size:40 final size:41
Alignment explanation
Indices: 10823238--10823359 Score: 124
Period size: 40 Copynumber: 2.9 Consensus size: 41
10823228 GTTGATGCTT
* *
10823238 GCTGGAAGCTGCTTGAATGA-GGACGTGGAAGGGCTGCTGGCA
1 GCTGGAAGCTGCTGGAAT-ATGCACGTGG-AGGGCTGCTGGCA
* * *
10823280 GTGCTGGAAGCTGTTGGAATTTGCACGTGGAGGGATGCTGGCA
1 --GCTGGAAGCTGCTGGAATATGCACGTGGAGGGCTGCTGGCA
*
10823323 -CTGGAAGCTGCTGGAA-ATGCACGTTGAGGGGCTGCTG
1 GCTGGAAGCTGCTGGAATATGCACGTGGA-GGGCTGCTG
10823360 TCGTTGGTTG
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
39 9 0.13
40 23 0.34
43 12 0.18
44 23 0.34
ACGTcount: A:0.20, C:0.16, G:0.42, T:0.22
Consensus pattern (41 bp):
GCTGGAAGCTGCTGGAATATGCACGTGGAGGGCTGCTGGCA
Found at i:10823996 original size:112 final size:110
Alignment explanation
Indices: 10823867--10824614 Score: 858
Period size: 112 Copynumber: 6.7 Consensus size: 110
10823857 ATAGAGTCAT
* *
10823867 GCAAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCGTCAGATGATAAGTTCTTCTCA
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCAGA-GAT-AGTTCTTCTCA
** *
10823932 TTATGAACTTTCTCTGGAAAAATTGATCCATCGAGTGATGAATTCAA
64 TTATGAACTTTCTCTGGAAATGTTGATCCATCAAGTGATGAATTCAA
* * **
10823979 GCAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCATCTTCAGATGAGTTCTTCTCA
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTC-AGAGAT-AGTTCTTCTCA
* * * *
10824044 TTATGAACTCTAC-CTGGCAATGTTGATCCATCGAGTGATGAATTCGA
64 TTATGAACT-TTCTCTGGAAATGTTGATCCATCAAGTGATGAATTCAA
* **
10824091 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTCA
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTC-AGAGAT-AGTTCTTCTCA
* * * * *
10824156 TTATGAACTTCCTCTGGAAAAGTTAATCGATCAAGTGATGAATTCAG
64 TTATGAACTTTCTCTGGAAATGTTGATCCATCAAGTGATGAATTCAA
* * * *
10824203 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTATTCTTCCTTTTCAGATA-AGTTCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTT-C--TTCAGAGATAGTTCTTCTC
*
10824267 ATTATGAACTTTCTCTGGAAATGTTGATCCATCAAGTGATGAATTCGA
63 ATTATGAACTTTCTCTGGAAATGTTGATCCATCAAGTGATGAATTCAA
* * * **
10824315 GCAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTTTTATTCATTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTC-TTC-AGAGAT-AGTTCTTCTC
** * **
10824380 ATTATGAACACT-TCTGGAAATGTTGATCCATCAAGTGATGGATTTGA
63 ATTATGAACTTTCTCTGGAAATGTTGATCCATCAAGTGATGAATTCAA
*
10824427 GCAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCCTCTTCCTTCTTCAGACG--AGTTCTTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAAC-T--TCTT-CTTCTTCAGA-GATAGTTCTTC
* * * ** *
10824490 TCATTATGAACTTTCTCTGGCAATGCTAATCCATCGGGTGATGAATTAAA
61 TCATTATGAACTTTCTCTGGAAATGTTGATCCATCAAGTGATGAATTCAA
* **
10824540 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTT-CTTC-AGAGAT-AGTTCTTCTC
10824605 ATTATGAACT
63 ATTATGAACT
10824615 CTACCTGGCA
Statistics
Matches: 550, Mismatches: 66, Indels: 39
0.84 0.10 0.06
Matches are distributed among these distances:
109 3 0.01
110 12 0.02
111 6 0.01
112 409 0.74
113 104 0.19
114 3 0.01
115 10 0.02
116 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (110 bp):
GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCAGAGATAGTTCTTCTCATT
ATGAACTTTCTCTGGAAATGTTGATCCATCAAGTGATGAATTCAA
Found at i:10824162 original size:224 final size:224
Alignment explanation
Indices: 10823867--10824614 Score: 1056
Period size: 224 Copynumber: 3.3 Consensus size: 224
10823857 ATAGAGTCAT
* *
10823867 GCAAAAGGTTGAACAAGTTCTTCTTATTATGAACTTC-T-T-CTTCGTCAGATGATAAGTTCTTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATG---AGTTCTTC
* * *
10823929 TCATTATGAACTTTCTCTGGAAAAATTGATCCATCGAGTGATGAATTCAAGCAAAAGATTGAACA
63 TCATTATGAACTTTCTCTGGAAAAGTTGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAACA
*
10823994 AGTTCTTCTCATTATGAACTTCTTCTTCATCTTCAGATGAGTTCTTCTCATTATGAACTCTAC-C
128 AGTTCTTCTCATTATGAACTTCTTCTTCATCTTCAGATGAGTTCTTCTCATTATGAACT-TTCTC
10824058 TGGCAATGTTGATCCATCGAGTGATGAATTCGA
192 TGGCAATGTTGATCCATCGAGTGATGAATTCGA
10824091 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTCA
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTCA
* * * * *
10824156 TTATGAACTTCCTCTGGAAAAGTTAATCGATCAAGTGATGAATTCAGGCAAAAGGTTGAACAAAT
66 TTATGAACTTTCTCTGGAAAAGTTGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAACAAGT
* * * * * *
10824221 TCTTCTCATTATGAATTTATTCTTCCTTTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGA
131 TCTTCTCATTATGAACTTCTTCTTCATCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGC
*
10824286 AATGTTGATCCATCAAGTGATGAATTCGA
196 AATGTTGATCCATCGAGTGATGAATTCGA
* * * *
10824315 GCAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTTTTATTCATTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTT-CTCCTTCTTCAGATGAGTTCTTCTC
** * * ** *
10824380 ATTATGAACACT-TCTGGAAATGTTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTAAACAAG
65 ATTATGAACTTTCTCTGGAAAAGTTGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAACAAG
* * *
10824444 TTCTTCTCATTATGAACTTCCTCTTCCTTCTTCAGACGAGTTCTTCTCATTATGAACTTTCTCTG
130 TTCTTCTCATTATGAACTTCTTCTT-CATCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* * * **
10824509 GCAATGCTAATCCATCGGGTGATGAATTAAA
194 GCAATGTTGATCCATCGAGTGATGAATTCGA
*
10824540 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTC-TCCTTCTTCAGATGAGTTCTTCTC
10824605 ATTATGAACT
65 ATTATGAACT
10824615 CTACCTGGCA
Statistics
Matches: 463, Mismatches: 54, Indels: 13
0.87 0.10 0.02
Matches are distributed among these distances:
223 2 0.00
224 289 0.62
225 160 0.35
226 1 0.00
227 11 0.02
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (224 bp):
GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTTTCTCTGGAAAAGTTGATCCATCAAGTGATGAATTCAAGCAAAAGGTTGAACAAGT
TCTTCTCATTATGAACTTCTTCTTCATCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGC
AATGTTGATCCATCGAGTGATGAATTCGA
Found at i:10824296 original size:336 final size:336
Alignment explanation
Indices: 10823749--10824614 Score: 1148
Period size: 336 Copynumber: 2.5 Consensus size: 336
10823739 GAATTAAGGC
* * * *
10823749 AAGGTTGAATAAATTCTTCTCATTATGAATTTCTTCTCCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTCATTAT
* * * * *
10823814 GAAC-TCTTCCGGAAATGTTGATGCTGAT-ATATCTTCTTCTGTGAT-AGAGTCATGCAAAAGGT
66 GAACTTCCTCTGGAAATGTTAAT-C-GATCA-A---------GTGATGA-ATTCAAGCAAAAGGT
* * * ***
10823876 TGAACAAGTTCTTCTTATTATGAACTTCTTCTT-CGTCAGATGATAAGTTCTTCTCATTATGAAC
118 TGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTTTCA-GATAAGTTCTTCTCATTATGAAC
* *
10823940 TTTCTCTGGAAAAATTGATCCATCGAGTGATGAATTCAAGCAAAAGATTGAACAAGTTCTTCTCA
182 TTTCTCTGGAAAAATTGATCCATCAAGTGATGAATTCAAGCAAAAGATTAAACAAGTTCTTCTCA
* * *
10824005 TTATGAACTTCTTCTTCA-TCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTG
247 TTATGAACTTCTTATTCATTCTTCAGATGAGTTCTTCTCATTATGAACACT-CCTGGAAATGTTG
*
10824069 ATCCATCGAGTGATGAATTCGAGCAA
311 ATCCATCAAGTGATGAATTCGAGCAA
10824095 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTCATTAT
* *
10824160 GAACTTCCTCTGGAAAAGTTAATCGATCAAGTGATGAATTCAGGCAAAAGGTTGAACAAATTCTT
66 GAACTTCCTCTGGAAATGTTAATCGATCAAGTGATGAATTCAAGCAAAAGGTTGAACAAATTCTT
* * **
10824225 CTCATTATGAATTTATTCTTCCTTTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAATG
131 CTCATTATGAACTTCTTCTTCCTTTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAAAA
* * *
10824290 TTGATCCATCAAGTGATGAATTCGAGCAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTTTTA
196 TTGATCCATCAAGTGATGAATTCAAGCAAAAGATTAAACAAGTTCTTCTCATTATGAACTTCTTA
*
10824355 TTCATTCTTCAGATGAGTTCTTCTCATTATGAACACTTCTGGAAATGTTGATCCATCAAGTGATG
261 TTCATTCTTCAGATGAGTTCTTCTCATTATGAACACTCCTGGAAATGTTGATCCATCAAGTGATG
* *
10824420 GATTTGAGCAA
326 AATTCGAGCAA
* * *
10824431 AAGGTTAAACAAGTTCTTCTCATTATGAACTTCCTCTTCCTTCTTCAGACGAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTC-TCCTTCTTCAGATGAGTTCTTCTCATTA
* * * * ** *
10824496 TGAACTTTCTCTGGCAATGCTAATCCATCGGGTGATGAATTAAAGCAAAAGGTTGAACAAATTCT
65 TGAACTTCCTCTGGAAATGTTAATCGATCAAGTGATGAATTCAAGCAAAAGGTTGAACAAATTCT
*
10824561 TCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
130 TCTCATTATGAACTTCTTCTTCCTT-TTCAGATAAGTTCTTCTCATTATGAACT
10824615 CTACCTGGCA
Statistics
Matches: 466, Mismatches: 47, Indels: 22
0.87 0.09 0.04
Matches are distributed among these distances:
336 213 0.46
337 141 0.30
338 27 0.06
345 4 0.01
346 67 0.14
347 14 0.03
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (336 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCTTCTTCAGATGAGTTCTTCTCATTAT
GAACTTCCTCTGGAAATGTTAATCGATCAAGTGATGAATTCAAGCAAAAGGTTGAACAAATTCTT
CTCATTATGAACTTCTTCTTCCTTTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGAAAAA
TTGATCCATCAAGTGATGAATTCAAGCAAAAGATTAAACAAGTTCTTCTCATTATGAACTTCTTA
TTCATTCTTCAGATGAGTTCTTCTCATTATGAACACTCCTGGAAATGTTGATCCATCAAGTGATG
AATTCGAGCAA
Done.