Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, 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: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 80 of 125
Found at i:16111322 original size:13 final size:13
Alignment explanation
Indices: 16111277--16111326 Score: 52
Period size: 13 Copynumber: 4.1 Consensus size: 13
16111267 AGATAATTAT
16111277 AAATAATAA-A-A
1 AAATAATAAGATA
16111288 AAATAATAAGAT-
1 AAATAATAAGATA
**
16111300 AAATCCTAAGATA
1 AAATAATAAGATA
*
16111313 AAATATTAAGATA
1 AAATAATAAGATA
16111326 A
1 A
16111327 TTCTAATTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 9 0.28
12 11 0.34
13 12 0.38
ACGTcount: A:0.66, C:0.04, G:0.06, T:0.24
Consensus pattern (13 bp):
AAATAATAAGATA
Found at i:16112118 original size:2 final size:2
Alignment explanation
Indices: 16112111--16112150 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
16112101 TTTATCAAAC
16112111 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16112151 AAGAAGAAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:16117881 original size:3 final size:3
Alignment explanation
Indices: 16117875--16117933 Score: 86
Period size: 3 Copynumber: 20.3 Consensus size: 3
16117865 TATACAATAG
* *
16117875 TAT TAT TAT CA- TAT TAT TAT TAG TA- TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
16117921 TAT TAT TAT TAT T
1 TAT TAT TAT TAT T
16117934 TATTTCTTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
2 3 0.06
3 48 0.94
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:16118342 original size:21 final size:20
Alignment explanation
Indices: 16118303--16118351 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
16118293 TCTGAAATTT
* * *
16118303 TTTGATTTGGATTTTTGGGG
1 TTTGATTTGAATCTTTGGGC
16118323 TTTGATTTGAAGTCTTTGGGC
1 TTTGATTTGAA-TCTTTGGGC
*
16118344 TTAGATTT
1 TTTGATTT
16118352 AGGTTTCTGG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.14, C:0.04, G:0.29, T:0.53
Consensus pattern (20 bp):
TTTGATTTGAATCTTTGGGC
Found at i:16118832 original size:14 final size:13
Alignment explanation
Indices: 16118802--16118882 Score: 67
Period size: 13 Copynumber: 6.2 Consensus size: 13
16118792 CCTTTTTCTA
16118802 TTTTATTTTTATTT
1 TTTTA-TTTTATTT
*
16118816 TTTGATTTTATTT
1 TTTTATTTTATTT
**
16118829 TTTTAGCTTA-TT
1 TTTTATTTTATTT
**
16118841 TCAT-TTTTAGTTT
1 TTTTATTTTA-TTT
16118854 TTTTATTTTATTT
1 TTTTATTTTATTT
*
16118867 TTTCAATTTTATTT
1 TTT-TATTTTATTT
16118881 TT
1 TT
16118883 GAGAAATTTT
Statistics
Matches: 52, Mismatches: 11, Indels: 8
0.73 0.15 0.11
Matches are distributed among these distances:
11 3 0.06
12 4 0.08
13 25 0.48
14 20 0.38
ACGTcount: A:0.16, C:0.04, G:0.04, T:0.77
Consensus pattern (13 bp):
TTTTATTTTATTT
Found at i:16122490 original size:19 final size:20
Alignment explanation
Indices: 16122452--16122496 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
16122442 ATTAATATAA
16122452 GCAATCGCTTGCCTTTAAAG
1 GCAATCGCTTGCCTTTAAAG
16122472 GCAATCGCTTGCC-TTAAAG
1 GCAATCGCTTGCCTTTAAAG
16122491 GCAATC
1 GCAATC
16122497 AACTCCTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (20 bp):
GCAATCGCTTGCCTTTAAAG
Found at i:16123617 original size:8 final size:8
Alignment explanation
Indices: 16123604--16123635 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
16123594 GAAACTTTGT
16123604 ATTGTGAG
1 ATTGTGAG
16123612 ATTGTGAG
1 ATTGTGAG
16123620 ATTGTGAG
1 ATTGTGAG
16123628 ATTGTGAG
1 ATTGTGAG
16123636 CTTAAGAGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (8 bp):
ATTGTGAG
Found at i:16136400 original size:11 final size:11
Alignment explanation
Indices: 16136384--16136411 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
16136374 ACTAAGATTA
16136384 AAGAAAATAAG
1 AAGAAAATAAG
16136395 AAGAAAATAAG
1 AAGAAAATAAG
16136406 AAGAAA
1 AAGAAA
16136412 GGCTTATGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.75, C:0.00, G:0.18, T:0.07
Consensus pattern (11 bp):
AAGAAAATAAG
Found at i:16141762 original size:63 final size:63
Alignment explanation
Indices: 16141695--16141907 Score: 202
Period size: 61 Copynumber: 3.4 Consensus size: 63
16141685 TTAAATATAG
* * *
16141695 TTATTCAAGGCGATTTTGGCCAAAAAAGCCTTAAATAACATCCATTCAATTTTTTGTAAGGGA
1 TTATTCAAGGTGATTTTGGCCAAAAAAACCTTGAATAACATCCATTCAATTTTTTGTAAGGGA
* * ** * * * * ***
16141758 TTATTTAAGGTGATTTTTGCCAAAAACTCCTTGAAT-A-GTCC-TTTACTTTTTTTTTTTTGGA
1 TTATTCAAGGTGATTTTGGCCAAAAAAACCTTGAATAACATCCATTCA-ATTTTTTGTAAGGGA
* *** *
16141819 TTATTCAAAGTG-TTTTTAACAAAAAAACCTTGAATAACA-CCATTCAATTTTTTGTAAGGAA
1 TTATTCAAGGTGATTTTGGCCAAAAAAACCTTGAATAACATCCATTCAATTTTTTGTAAGGGA
*
16141880 TTATTCAAGGTGTTTTTGGCCAAAAAAA
1 TTATTCAAGGTGATTTTGGCCAAAAAAA
16141908 ATAAAAGAGG
Statistics
Matches: 114, Mismatches: 31, Indels: 11
0.73 0.20 0.07
Matches are distributed among these distances:
60 22 0.19
61 46 0.40
62 16 0.14
63 30 0.26
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (63 bp):
TTATTCAAGGTGATTTTGGCCAAAAAAACCTTGAATAACATCCATTCAATTTTTTGTAAGGGA
Found at i:16142013 original size:130 final size:130
Alignment explanation
Indices: 16141862--16142122 Score: 354
Period size: 130 Copynumber: 2.0 Consensus size: 130
16141852 ATAACACCAT
*
16141862 TCAATTTTTTGTAAGGAATTATTCAAGGTG-TTTTTGGCCAAAAAAAAT-AAAAGAGGATTATTG
1 TCAATTTTTTGTAAGGAATTATTCAAGATGTTTTTTGGCC--AAAAAATGAAAAG-GGATTATTG
* * * *
16141925 AA-GC-TGTTTTGGTAAAAAACACCTTGAATAAT-TCTTTCTAAAAAATT-AGAGGGGATTATTC
63 AAGGCGT-TTTTGGCAAAAAACACCTTGAATAATCCCTTT-TAAAAAATTGA-AAGAGATTATTC
16141986 AAGGCG
125 AAGGCG
* *
16141992 TCAATTTTTTGTAAGGGATTATTCAAGATGTTTTTTGTCCAAAAAATGAAAAGGGATTATTGAAG
1 TCAATTTTTTGTAAGGAATTATTCAAGATGTTTTTTGGCCAAAAAATGAAAAGGGATTATTGAAG
*
16142057 GCGTTTTTGGCAAAAAACACTTTGAATAATCCCTTTTAAAAAATTGAAAGAGATTATTCAAGGCG
66 GCGTTTTTGGCAAAAAACACCTTGAATAATCCCTTTTAAAAAATTGAAAGAGATTATTCAAGGCG
16142122 T
1 T
16142123 ATGTGGCAAA
Statistics
Matches: 117, Mismatches: 8, Indels: 12
0.85 0.06 0.09
Matches are distributed among these distances:
129 18 0.15
130 85 0.73
131 14 0.12
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.34
Consensus pattern (130 bp):
TCAATTTTTTGTAAGGAATTATTCAAGATGTTTTTTGGCCAAAAAATGAAAAGGGATTATTGAAG
GCGTTTTTGGCAAAAAACACCTTGAATAATCCCTTTTAAAAAATTGAAAGAGATTATTCAAGGCG
Found at i:16142222 original size:61 final size:60
Alignment explanation
Indices: 16142048--16142243 Score: 207
Period size: 62 Copynumber: 3.2 Consensus size: 60
16142038 TGAAAAGGGA
* * * * * *
16142048 TTATTGAAGGCGTTTTTGGCAAAAAACACTTTGAATAATCCCTTTTAAAAAATTGAAAGAGA
1 TTATTCAAGGCGTTTGTGGCAAAAAACACCTTAAATAATCCCCTTTAAAAAATTG--AGAGG
* * * *
16142110 TTATTCAAGGCGTATGTGGCAAAAAATACCTTCAATAATCCCC-TCACAAAAATTGAGTTAGG
1 TTATTCAAGGCGTTTGTGGCAAAAAACACCTTAAATAATCCCCTTTA-AAAAATTGAG--AGG
* *
16142172 TTATTCAAGGTGTTTGTGACAAAAAA-ACCTTAAATAATCCCCTTTAAAAAATTAGAGAGG
1 TTATTCAAGGCGTTTGTGGCAAAAAACACCTTAAATAATCCCCTTTAAAAAATT-GAGAGG
16142232 ATTATTCAAGGC
1 -TTATTCAAGGC
16142244 ATTTTTTGAC
Statistics
Matches: 113, Mismatches: 15, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
60 5 0.04
61 34 0.30
62 74 0.65
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.30
Consensus pattern (60 bp):
TTATTCAAGGCGTTTGTGGCAAAAAACACCTTAAATAATCCCCTTTAAAAAATTGAGAGG
Found at i:16143269 original size:25 final size:25
Alignment explanation
Indices: 16143232--16143287 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
16143222 TATTTTATTT
* *
16143232 AAAT-TTAATTATAAATACATTTATA
1 AAATATTAATTAT-AATAAATTTAAA
16143257 AAATATTAA-TATAATAAATTTAAA
1 AAATATTAATTATAATAAATTTAAA
16143281 ATAATAT
1 A-AATAT
16143288 GAGGATCGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 11 0.41
25 12 0.44
26 4 0.15
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (25 bp):
AAATATTAATTATAATAAATTTAAA
Found at i:16143988 original size:22 final size:23
Alignment explanation
Indices: 16143954--16143996 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
16143944 TTCAAGTTTT
*
16143954 ATATATATATTTTTTATTTTTGG
1 ATATATATATTTTTAATTTTTGG
16143977 ATATA-ATATTTTTAATTTTT
1 ATATATATATTTTTAATTTTT
16143997 AATAATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (23 bp):
ATATATATATTTTTAATTTTTGG
Found at i:16152858 original size:23 final size:23
Alignment explanation
Indices: 16152830--16152873 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
16152820 TTTAAGTAAA
16152830 AATACTTTATAATCAATGAAAGT
1 AATACTTTATAATCAATGAAAGT
16152853 AATACTTTATAATCAATGAAA
1 AATACTTTATAATCAATGAAA
16152874 ATAAATTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.50, C:0.09, G:0.07, T:0.34
Consensus pattern (23 bp):
AATACTTTATAATCAATGAAAGT
Found at i:16154745 original size:25 final size:25
Alignment explanation
Indices: 16154698--16154745 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
16154688 AATTTTTTAC
* *
16154698 TTTTTTTAAAAAAAATTATATTTGA
1 TTTTTTTAAAAAAAATCAAATTTGA
**
16154723 TTTTTTTGTAAAAAATCAAATTT
1 TTTTTTTAAAAAAAATCAAATTT
16154746 CAAAATTTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (25 bp):
TTTTTTTAAAAAAAATCAAATTTGA
Found at i:16154843 original size:23 final size:20
Alignment explanation
Indices: 16154817--16154863 Score: 67
Period size: 23 Copynumber: 2.2 Consensus size: 20
16154807 ATATTTTAAA
16154817 AAAATCATATTTTTGAATTTATT
1 AAAATCATA-TTTT-AATTT-TT
16154840 AAAATCATATTTTAATTTTT
1 AAAATCATATTTTAATTTTT
16154860 AAAA
1 AAAA
16154864 ATTTAATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 6 0.25
21 5 0.21
22 4 0.17
23 9 0.38
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (20 bp):
AAAATCATATTTTAATTTTT
Found at i:16155952 original size:17 final size:17
Alignment explanation
Indices: 16155913--16155977 Score: 67
Period size: 17 Copynumber: 3.8 Consensus size: 17
16155903 GAAAATTTTC
* *
16155913 AAAAAAATTCAATATAT
1 AAAAAATTTCAAAATAT
**
16155930 TGAAAATTTCAAAATAT
1 AAAAAATTTCAAAATAT
* *
16155947 AAAAAATTTAAAAATAC
1 AAAAAATTTCAAAATAT
*
16155964 AAAAACTTTCAAAA
1 AAAAAATTTCAAAA
16155978 AATGAAATTA
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 38 1.00
ACGTcount: A:0.63, C:0.08, G:0.02, T:0.28
Consensus pattern (17 bp):
AAAAAATTTCAAAATAT
Found at i:16157934 original size:20 final size:20
Alignment explanation
Indices: 16157911--16157948 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
16157901 GAAATGATGC
16157911 ATGAAAGATTG-AAGAATGTG
1 ATGAAAGA-TGCAAGAATGTG
*
16157931 ATGATAGATGCAAGAATG
1 ATGAAAGATGCAAGAATG
16157949 AAAACAAAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.12
20 14 0.88
ACGTcount: A:0.45, C:0.03, G:0.29, T:0.24
Consensus pattern (20 bp):
ATGAAAGATGCAAGAATGTG
Found at i:16159418 original size:28 final size:29
Alignment explanation
Indices: 16159372--16159432 Score: 81
Period size: 28 Copynumber: 2.1 Consensus size: 29
16159362 TAGAACTAGT
16159372 AAATGCATTGGATGAAAT-ATA-ACCTTAC
1 AAATGCATTGGATGAAATAATAGA-CTTAC
**
16159400 AAATGCATTGGATTTAATAATAGACTTAC
1 AAATGCATTGGATGAAATAATAGACTTAC
16159429 AAAT
1 AAAT
16159433 TCTACTTGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 16 0.55
29 12 0.41
30 1 0.03
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.31
Consensus pattern (29 bp):
AAATGCATTGGATGAAATAATAGACTTAC
Found at i:16161437 original size:18 final size:18
Alignment explanation
Indices: 16161414--16161462 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
16161404 TATAACCTTT
*
16161414 ACCACCAATATTACTCTC
1 ACCACCAATATTACCCTC
*
16161432 ACCACC-ATCATTACCCTT
1 ACCACCAAT-ATTACCCTC
*
16161450 AGCACCAATATTA
1 ACCACCAATATTA
16161463 TTTTCACAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 2 0.08
18 22 0.85
19 2 0.08
ACGTcount: A:0.35, C:0.37, G:0.02, T:0.27
Consensus pattern (18 bp):
ACCACCAATATTACCCTC
Found at i:16161492 original size:18 final size:18
Alignment explanation
Indices: 16161471--16161519 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
16161461 TATTTTCACA
*
16161471 ACTAGCATTACCTTTATC
1 ACTAGCATTACCTTTACC
* *
16161489 ACTAGTATTACCCTTACC
1 ACTAGCATTACCTTTACC
* *
16161507 ACCAACATTACCT
1 ACTAGCATTACCT
16161520 CACCGTTAAC
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.31, C:0.33, G:0.04, T:0.33
Consensus pattern (18 bp):
ACTAGCATTACCTTTACC
Found at i:16162996 original size:18 final size:18
Alignment explanation
Indices: 16162966--16163003 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
16162956 AGTAATTTGA
16162966 TTTAATTTGTTTTTTCAT
1 TTTAATTTGTTTTTTCAT
*
16162984 TTTAAGTTT-TTTTTTTAT
1 TTTAA-TTTGTTTTTTCAT
16163002 TT
1 TT
16163004 CAACATGTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.16, C:0.03, G:0.05, T:0.76
Consensus pattern (18 bp):
TTTAATTTGTTTTTTCAT
Found at i:16164525 original size:30 final size:30
Alignment explanation
Indices: 16164491--16164547 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
16164481 AAAAAGCCCT
16164491 AATTTAATCAAACCATTCAAGTTAGTGGAA
1 AATTTAATCAAACCATTCAAGTTAGTGGAA
16164521 AATTTAATCAAACCATTCAAGTTAGTG
1 AATTTAATCAAACCATTCAAGTTAGTG
16164548 AAAGTAAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (30 bp):
AATTTAATCAAACCATTCAAGTTAGTGGAA
Found at i:16164562 original size:29 final size:30
Alignment explanation
Indices: 16164499--16164564 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
16164489 CTAATTTAAT
** *
16164499 CAAACCATTCAAGTTAGTGGAAAATTTAAT
1 CAAACCATTCAAGTTAGTGGAAAATAAAAC
*
16164529 CAAACCATTCAAGTTAGT-GAAAGTAAAAC
1 CAAACCATTCAAGTTAGTGGAAAATAAAAC
16164558 CAAACCA
1 CAAACCA
16164565 CCAATCAATC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 14 0.44
30 18 0.56
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.23
Consensus pattern (30 bp):
CAAACCATTCAAGTTAGTGGAAAATAAAAC
Found at i:16166325 original size:19 final size:19
Alignment explanation
Indices: 16166297--16166335 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
16166287 AAAAAACTGA
16166297 TTAATATGTTATTTTGAAT
1 TTAATATGTTATTTTGAAT
*
16166316 TTAATTTGTTATTTTGAAT
1 TTAATATGTTATTTTGAAT
16166335 T
1 T
16166336 ATATGTTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (19 bp):
TTAATATGTTATTTTGAAT
Found at i:16169600 original size:22 final size:21
Alignment explanation
Indices: 16169548--16169610 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
16169538 AATATTTATT
*
16169548 AAATCATACCATGCAATAAATC
1 AAAT-ATATCATGCAATAAATC
16169570 -AA-A-ATCATGCAATAAATC
1 AAATATATCATGCAATAAATC
*
16169588 AAATTATATCATGTAATAAATC
1 AAA-TATATCATGCAATAAATC
16169610 A
1 A
16169611 TGCAATAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
18 14 0.40
19 3 0.09
21 3 0.09
22 15 0.43
ACGTcount: A:0.52, C:0.16, G:0.05, T:0.27
Consensus pattern (21 bp):
AAATATATCATGCAATAAATC
Found at i:16169628 original size:18 final size:18
Alignment explanation
Indices: 16169605--16169664 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 18
16169595 ATCATGTAAT
*
16169605 AAATCATGCAATAATACA
1 AAATCATGCAATAATATA
* * * *
16169623 AAATCATACCAT-TTATT
1 AAATCATGCAATAATATA
16169640 AAATCATGCAATAATATA
1 AAATCATGCAATAATATA
16169658 AAATCAT
1 AAATCAT
16169665 ATCATGCAAA
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
17 12 0.38
18 20 0.62
ACGTcount: A:0.52, C:0.15, G:0.03, T:0.30
Consensus pattern (18 bp):
AAATCATGCAATAATATA
Found at i:16169650 original size:35 final size:35
Alignment explanation
Indices: 16169571--16169670 Score: 123
Period size: 35 Copynumber: 2.9 Consensus size: 35
16169561 CAATAAATCA
* *
16169571 AAATCATGCAATAA-ATC-AAATTATATCATGTAAT
1 AAATCATGCAATAATA-CAAAATCATACCATGTAAT
* *
16169605 AAATCATGCAATAATACAAAATCATACCATTTATT
1 AAATCATGCAATAATACAAAATCATACCATGTAAT
* *
16169640 AAATCATGCAATAATATAAAATCATATCATG
1 AAATCATGCAATAATACAAAATCATACCATG
16169671 CAAAAATTAA
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
34 15 0.26
35 42 0.74
ACGTcount: A:0.50, C:0.14, G:0.05, T:0.31
Consensus pattern (35 bp):
AAATCATGCAATAATACAAAATCATACCATGTAAT
Found at i:16169789 original size:29 final size:24
Alignment explanation
Indices: 16169757--16169981 Score: 108
Period size: 24 Copynumber: 9.9 Consensus size: 24
16169747 TCACACAAAT
* * *
16169757 AATATATTAATAGTCATGCAATTA
1 AATATAATAATAATCATGCAATAA
16169781 AATATAATAATAATCATGCAATAA
1 AATATAATAATAATCATGCAATAA
* *
16169805 AATATAATCAT-A-CA--AAAT-A
1 AATATAATAATAATCATGCAATAA
* *
16169824 TAT-TAATAATCAA--A--CAATTA
1 AATATAATAAT-AATCATGCAATAA
* *
16169844 AATATATTAATAATCATGCAATCA
1 AATATAATAATAATCATGCAATAA
*
16169868 AAT-TAA-ATATAATCATACAAGTAA
1 AATATAATA-ATAATCATGCAA-TAA
** *
16169892 ACATAT--TAATAATCATAAAATTA
1 A-ATATAATAATAATCATGCAATAA
* *
16169915 AATA-AATTAATAATCTTGCAATTA
1 AATATAA-TAATAATCATGCAATAA
**
16169939 AAT-TAA-ATATAATCATAAAAT-A
1 AATATAATA-ATAATCATGCAATAA
*
16169961 AATATATTAATAATCATGCAA
1 AATATAATAATAATCATGCAA
16169982 ATATATTAAT
Statistics
Matches: 156, Mismatches: 25, Indels: 41
0.70 0.11 0.18
Matches are distributed among these distances:
18 6 0.04
19 7 0.04
20 9 0.06
21 6 0.04
22 12 0.08
23 39 0.25
24 73 0.47
25 3 0.02
26 1 0.01
ACGTcount: A:0.55, C:0.09, G:0.03, T:0.33
Consensus pattern (24 bp):
AATATAATAATAATCATGCAATAA
Found at i:16169899 original size:71 final size:70
Alignment explanation
Indices: 16169739--16169976 Score: 298
Period size: 71 Copynumber: 3.5 Consensus size: 70
16169729 TAATGCAATC
* * ** *
16169739 AAATATAATCACACAAAT-AATATATTAATAGTCATGCAATTAAATATAATAATAATCATGCAAT
1 AAATATAATCATACAAATAAATATATTAATAATCAAACAATTAAATATATTAATAATCATGCAAT
16169803 --A--
66 AAATT
16169804 AAATATAATCATAC--A-AAATATATTAATAATCAAACAATTAAATATATTAATAATCATGCAAT
1 AAATATAATCATACAAATAAATATATTAATAATCAAACAATTAAATATATTAATAATCATGCAAT
16169866 CAAATT
66 -AAATT
* * * *
16169872 AAATATAATCATACAAGTAAACATATTAATAATCATAA-AATTAAATAAATTAATAATCTTGCAA
1 AAATATAATCATACAAATAAATATATTAATAATCA-AACAATTAAATATATTAATAATCATGCAA
16169936 TTAAATT
65 -TAAATT
16169943 AAATATAATCATA-AAATAAATATATTAATAATCA
1 AAATATAATCATACAAATAAATATATTAATAATCA
16169977 TGCAAATATA
Statistics
Matches: 151, Mismatches: 11, Indels: 17
0.84 0.06 0.09
Matches are distributed among these distances:
63 43 0.28
65 13 0.09
66 1 0.01
68 14 0.09
70 19 0.13
71 58 0.38
72 3 0.02
ACGTcount: A:0.56, C:0.09, G:0.03, T:0.32
Consensus pattern (70 bp):
AAATATAATCATACAAATAAATATATTAATAATCAAACAATTAAATATATTAATAATCATGCAAT
AAATT
Found at i:16169973 original size:17 final size:17
Alignment explanation
Indices: 16169937--16169994 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
16169927 ATCTTGCAAT
* * *
16169937 TAAATTAAATATAATCA
1 TAAAATAAATATATTAA
16169954 TAAAATAAATATATTAA
1 TAAAATAAATATATTAA
*
16169971 TAATCATGCAAATATATTAA
1 TAA-AAT--AAATATATTAA
16169991 TAAA
1 TAAA
16169995 TCACACAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
17 17 0.52
18 2 0.06
20 14 0.42
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (17 bp):
TAAAATAAATATATTAA
Found at i:16170087 original size:24 final size:23
Alignment explanation
Indices: 16170048--16170110 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 23
16170038 ATATAATAGG
* * *
16170048 TAATCATGTAAATAAATATATTAA
1 TAATCATGCAATTAAATATAGT-A
16170072 TAATCATGCAATTAAAT-TAGTA
1 TAATCATGCAATTAAATATAGTA
16170094 -AATCATGCAATTAAATA
1 TAATCATGCAATTAAATA
16170111 AATCATGCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 16 0.46
22 1 0.03
23 3 0.09
24 15 0.43
ACGTcount: A:0.51, C:0.08, G:0.06, T:0.35
Consensus pattern (23 bp):
TAATCATGCAATTAAATATAGTA
Found at i:16170114 original size:17 final size:17
Alignment explanation
Indices: 16170073--16170172 Score: 67
Period size: 17 Copynumber: 5.5 Consensus size: 17
16170063 ATATATTAAT
16170073 AATCATGCAATTAAATTAGTA
1 AATCATGCAATT-AA--A-TA
16170094 AATCATGCAATTAAATA
1 AATCATGCAATTAAATA
*
16170111 AATCATGCAAATAAATA
1 AATCATGCAATTAAATA
* * * *
16170128 TATTAGGCAAATAAAT-
1 AATCATGCAATTAAATA
* *
16170144 TATCATGCAAATGTAATATT
1 AATCATGC-AAT-TAA-ATA
16170164 AATCATGCA
1 AATCATGCA
16170173 TATAAAATAT
Statistics
Matches: 67, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
16 6 0.09
17 33 0.49
18 4 0.06
19 3 0.04
20 9 0.13
21 12 0.18
ACGTcount: A:0.49, C:0.11, G:0.09, T:0.31
Consensus pattern (17 bp):
AATCATGCAATTAAATA
Found at i:16171195 original size:43 final size:42
Alignment explanation
Indices: 16171151--16171292 Score: 180
Period size: 43 Copynumber: 3.4 Consensus size: 42
16171141 GGCTTCAACT
* * *
16171151 TTTGGAAAATAAAATGCTCCCCCATAACTGAGATTTTGAAAC
1 TTTGAAAAATAAAATGCTCCCCCATAACTGAGGTTTTAAAAC
* * * *
16171193 TTTTGAAAAATAAAATGCTCTCTCATAACTAAGGCTTTAAAAC
1 -TTTGAAAAATAAAATGCTCCCCCATAACTGAGGTTTTAAAAC
*
16171236 TTTGAAAAAT-AAATGCT-CCCCATAACCGAGGTTTTAAAAC
1 TTTGAAAAATAAAATGCTCCCCCATAACTGAGGTTTTAAAAC
16171276 TTTGAAAAAATAAAATG
1 TTTG-AAAAATAAAATG
16171293 AGATATTTGA
Statistics
Matches: 85, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
40 22 0.26
41 13 0.15
42 15 0.18
43 35 0.41
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.30
Consensus pattern (42 bp):
TTTGAAAAATAAAATGCTCCCCCATAACTGAGGTTTTAAAAC
Found at i:16177421 original size:62 final size:62
Alignment explanation
Indices: 16177352--16177479 Score: 256
Period size: 62 Copynumber: 2.1 Consensus size: 62
16177342 ATTCTATCAA
16177352 AATATGAAGTAATCATGTAATCATGCAATAAATATTAAATCATACCATGCAATAAATCTTGC
1 AATATGAAGTAATCATGTAATCATGCAATAAATATTAAATCATACCATGCAATAAATCTTGC
16177414 AATATGAAGTAATCATGTAATCATGCAATAAATATTAAATCATACCATGCAATAAATCTTGC
1 AATATGAAGTAATCATGTAATCATGCAATAAATATTAAATCATACCATGCAATAAATCTTGC
16177476 AATA
1 AATA
16177480 AATAAAATCA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 66 1.00
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.30
Consensus pattern (62 bp):
AATATGAAGTAATCATGTAATCATGCAATAAATATTAAATCATACCATGCAATAAATCTTGC
Found at i:16177471 original size:17 final size:17
Alignment explanation
Indices: 16177449--16177507 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
16177439 CAATAAATAT
16177449 TAAATCATACCATGCAA
1 TAAATCATACCATGCAA
* * * *
16177466 TAAATCTTGCAAT-AAA
1 TAAATCATACCATGCAA
*
16177482 TAAAATCATATCATGCAA
1 T-AAATCATACCATGCAA
16177500 TAAATCAT
1 TAAATCAT
16177508 TCAAAAATAT
Statistics
Matches: 31, Mismatches: 9, Indels: 4
0.70 0.20 0.09
Matches are distributed among these distances:
16 3 0.10
17 25 0.81
18 3 0.10
ACGTcount: A:0.49, C:0.17, G:0.05, T:0.29
Consensus pattern (17 bp):
TAAATCATACCATGCAA
Found at i:16177503 original size:18 final size:18
Alignment explanation
Indices: 16177480--16177533 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
16177470 TCTTGCAATA
16177480 AATAAAATCATATCATGC
1 AATAAAATCATATCATGC
***
16177498 AAT-AAATCAT-TCAAAA
1 AATAAAATCATATCATGC
16177514 ATATAAAATCATATCATGC
1 A-ATAAAATCATATCATGC
16177533 A
1 A
16177534 CAAATTATCA
Statistics
Matches: 27, Mismatches: 6, Indels: 5
0.71 0.16 0.13
Matches are distributed among these distances:
16 4 0.15
17 9 0.33
18 10 0.37
19 4 0.15
ACGTcount: A:0.54, C:0.15, G:0.04, T:0.28
Consensus pattern (18 bp):
AATAAAATCATATCATGC
Found at i:16177527 original size:35 final size:35
Alignment explanation
Indices: 16177432--16177533 Score: 136
Period size: 34 Copynumber: 2.9 Consensus size: 35
16177422 GTAATCATGT
* * *
16177432 AATCATGCAATAAATATTAAATCATACCATGCAATA
1 AATCATTCAA-AAATATAAAATCATATCATGCAATA
*
16177468 AATC-TTGCAATAA-ATAAAATCATATCATGCAATA
1 AATCATT-CAAAAATATAAAATCATATCATGCAATA
16177502 AATCATTCAAAAATATAAAATCATATCATGCA
1 AATCATTCAAAAATATAAAATCATATCATGCA
16177534 CAAATTATCA
Statistics
Matches: 58, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
34 28 0.48
35 23 0.40
36 7 0.12
ACGTcount: A:0.51, C:0.16, G:0.05, T:0.28
Consensus pattern (35 bp):
AATCATTCAAAAATATAAAATCATATCATGCAATA
Found at i:16177644 original size:24 final size:24
Alignment explanation
Indices: 16177617--16177884 Score: 133
Period size: 24 Copynumber: 11.6 Consensus size: 24
16177607 ATCACACAAA
* * *
16177617 TAAATGTATTAATAGTCATGTAAT
1 TAAATATATTAATAATCACGTAAT
16177641 TAAATATATTAATAATCACGTAA-
1 TAAATATATTAATAATCACGTAAT
* *
16177664 TAAA-ATA-TAATCAT-AC-CAA-
1 TAAATATATTAATAATCACGTAAT
* *
16177683 TAAATATATTAATAATCAAGCAAT
1 TAAATATATTAATAATCACGTAAT
* *
16177707 TAAATATATTGAA-AATCATGCAAT
1 TAAATATATT-AATAATCACGTAAT
* * * *
16177731 CAAATTAAATATAATCAT-AC--AAA
1 TAAA-TATAT-TAATAATCACGTAAT
* *
16177754 TAAATATATTAATAATCATGCAAT
1 TAAATATATTAATAATCACGTAAT
* *
16177778 TAAATATATTAATAATCAAGCAAT
1 TAAATATATTAATAATCACGTAAT
* * *
16177802 TAAATTAAATATAATCAT-AC--AAA
1 TAAA-TATAT-TAATAATCACGTAAT
*
16177825 CAAATATATTAATAATCA--T-A-
1 TAAATATATTAATAATCACGTAAT
*
16177845 CAAATATATTAATAAATCATAC-TAA-
1 TAAATATATTAAT-AATC--ACGTAAT
16177870 TAAATATATTAATAA
1 TAAATATATTAATAA
16177885 CATGCAATCA
Statistics
Matches: 196, Mismatches: 27, Indels: 42
0.74 0.10 0.16
Matches are distributed among these distances:
19 6 0.03
20 18 0.09
21 29 0.15
22 14 0.07
23 18 0.09
24 75 0.38
25 27 0.14
26 9 0.05
ACGTcount: A:0.54, C:0.09, G:0.03, T:0.34
Consensus pattern (24 bp):
TAAATATATTAATAATCACGTAAT
Found at i:16177746 original size:47 final size:48
Alignment explanation
Indices: 16177604--16177842 Score: 180
Period size: 47 Copynumber: 5.1 Consensus size: 48
16177594 GCAATCAAAT
* * * * * *
16177604 ATAATCACA-CAAATAAATGTATTAATAGTCATGTAATTAAATATATTA
1 ATAATCA-AGCAATTAAATATATTAATAATCATGCAATCAAATATAATA
* * * * *
16177652 ATAATCACGTAA-TAAA-ATA-TAATCAT-A-CCAAT-AAATATATTA
1 ATAATCAAGCAATTAAATATATTAATAATCATGCAATCAAATATAATA
16177694 ATAATCAAGCAATTAAATATATTGAA-AATCATGCAATCAAAT-TAA-A
1 ATAATCAAGCAATTAAATATATT-AATAATCATGCAATCAAATATAATA
* * *
16177740 TATAATCATA-CAAATAAATATATTAATAATCATGCAATTAAATATATTA
1 -ATAATCA-AGCAATTAAATATATTAATAATCATGCAATCAAATATAATA
* * * *
16177789 ATAATCAAGCAATTAAAT-TA-AATATAATCATACAAACAAATATATTA
1 ATAATCAAGCAATTAAATATATTA-ATAATCATGCAATCAAATATAATA
16177836 ATAATCA
1 ATAATCA
16177843 TACAAATATA
Statistics
Matches: 156, Mismatches: 20, Indels: 31
0.75 0.10 0.15
Matches are distributed among these distances:
42 20 0.13
43 7 0.04
44 4 0.03
45 8 0.05
46 9 0.06
47 76 0.49
48 31 0.20
49 1 0.01
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.32
Consensus pattern (48 bp):
ATAATCAAGCAATTAAATATATTAATAATCATGCAATCAAATATAATA
Found at i:16177779 original size:42 final size:44
Alignment explanation
Indices: 16177578--16177884 Score: 132
Period size: 47 Copynumber: 6.9 Consensus size: 44
16177568 TCATTCATGC
* * * *
16177578 AAATATA-T-ATAGTCATGCAATCAAATATAATCA-CA-CAAAT
1 AAATATATTAATAATCATGCAATTAAATATAATAATAAGCAAAT
* * * * * **
16177618 AAATGTATTAATAGTCATGTAATTAAATATATTAATAATCACGT
1 AAATATATTAATAATCATGCAATTAAATATAATAATAAGCAAAT
* * * * *
16177662 -AATAAAAT-ATAATCATACCAATAAATATATTAATAATCAAGCAATT
1 AAATATATTAATAATCAT-GCAATTAA-ATA-TAATAAT-AAGCAAAT
* *
16177708 AAATATATTGAA-AATCATGCAATCAAATTAAATATAATCATA-CAAAT
1 AAATATATT-AATAATCATGCAATTAAA-TATA-ATAAT-A-AGCAAAT
*
16177755 AAATATATTAATAATCATGCAATTAAATATATTAATAATCAAGCAATT
1 AAATATATTAATAATCATGCAATT-AA-ATA-TAATAAT-AAGCAAAT
* * ** * * * *
16177803 AAAT-TA-AATATAATCATACAAACAAATATATTAATAATCATAC
1 AAATATATTA-ATAATCATGCAATTAAATATAATAATAAGCAAAT
* *
16177846 AAATATATTAATAAATCATACTAA-TAAATATATTAATAA
1 AAATATATTAAT-AATCATGC-AATTAAATATAATAATAA
16177885 CATGCAATCA
Statistics
Matches: 204, Mismatches: 39, Indels: 43
0.71 0.14 0.15
Matches are distributed among these distances:
40 6 0.03
41 1 0.00
42 28 0.14
43 19 0.09
44 16 0.08
45 32 0.16
46 14 0.07
47 59 0.29
48 26 0.13
49 3 0.01
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (44 bp):
AAATATATTAATAATCATGCAATTAAATATAATAATAAGCAAAT
Found at i:16177843 original size:71 final size:71
Alignment explanation
Indices: 16177600--16177843 Score: 338
Period size: 71 Copynumber: 3.5 Consensus size: 71
16177590 TCATGCAATC
* * * * *
16177600 AAATATAATCACACAAATAAATGTATTAATAGTCATGTAATTAAATATATTAATAATC-A-C--G
1 AAATATAATCATACAAATAAATATATTAATAATCATGCAATTAAATATATTAATAATCAAGCAAT
*
16177661 T-AATA
66 TAAATT
* * *
16177666 AAATATAATCATACCAATAAATATATTAATAATCAAGCAATTAAATATATTGAA-AATCATGCAA
1 AAATATAATCATACAAATAAATATATTAATAATCATGCAATTAAATATATT-AATAATCAAGCAA
*
16177730 TCAAATT
65 TTAAATT
16177737 AAATATAATCATACAAATAAATATATTAATAATCATGCAATTAAATATATTAATAATCAAGCAAT
1 AAATATAATCATACAAATAAATATATTAATAATCATGCAATTAAATATATTAATAATCAAGCAAT
16177802 TAAATT
66 TAAATT
*
16177808 AAATATAATCATACAAACAAATATATTAATAATCAT
1 AAATATAATCATACAAATAAATATATTAATAATCAT
16177844 ACAAATATAT
Statistics
Matches: 156, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
66 49 0.31
67 2 0.01
68 1 0.01
70 2 0.01
71 102 0.65
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.32
Consensus pattern (71 bp):
AAATATAATCATACAAATAAATATATTAATAATCATGCAATTAAATATATTAATAATCAAGCAAT
TAAATT
Found at i:16177847 original size:20 final size:21
Alignment explanation
Indices: 16177824--16177871 Score: 80
Period size: 20 Copynumber: 2.3 Consensus size: 21
16177814 AATCATACAA
16177824 ACAAATATATTAAT-AATCAT
1 ACAAATATATTAATAAATCAT
16177844 ACAAATATATTAATAAATCAT
1 ACAAATATATTAATAAATCAT
*
16177865 ACTAATA
1 ACAAATA
16177872 AATATATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.33
Consensus pattern (21 bp):
ACAAATATATTAATAAATCAT
Found at i:16177856 original size:47 final size:46
Alignment explanation
Indices: 16177641--16177884 Score: 193
Period size: 47 Copynumber: 5.3 Consensus size: 46
16177631 GTCATGTAAT
* * *
16177641 TAAATATATTAATAATCACG-TAAT--A-AAATATAATCATACCAA
1 TAAATATATTAATAATCAAGCAAATAAATAAATATAATCATACAAA
* * * *
16177683 TAAATATATTAATAATCAAGCAATTAAATATATTGAAAATCATGC-AA
1 TAAATATATTAATAATCAAGCAAATAAATA-AAT-ATAATCATACAAA
* * * *
16177730 TCAAAT-TA-AATATAATCATA-CAAATAAATATATTAATAATCATGCAAT
1 T-AAATATATTA-ATAATCA-AGCAAATAAATA-AAT-ATAATCATACAAA
*
16177778 TAAATATATTAATAATCAAGCAATTAAATTAAATATAATCATACAAA
1 TAAATATATTAATAATCAAGCAAATAAA-TAAATATAATCATACAAA
* * * *
16177825 CAAATATATTAATAATCATA-CAAATATATTAATA-AATCATACTAA
1 TAAATATATTAATAATCA-AGCAAATAAATAAATATAATCATACAAA
16177870 TAAATATATTAATAA
1 TAAATATATTAATAA
16177885 CATGCAATCA
Statistics
Matches: 165, Mismatches: 22, Indels: 27
0.77 0.10 0.13
Matches are distributed among these distances:
42 19 0.12
43 2 0.01
45 25 0.15
46 7 0.04
47 75 0.45
48 34 0.21
49 3 0.02
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.33
Consensus pattern (46 bp):
TAAATATATTAATAATCAAGCAAATAAATAAATATAATCATACAAA
Found at i:16177861 original size:12 final size:12
Alignment explanation
Indices: 16177846--16177884 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
16177836 ATAATCATAC
16177846 AAATATATTAAT
1 AAATATATTAAT
*
16177858 AAATCATACTAAT
1 AAAT-ATATTAAT
16177871 AAATATATTAAT
1 AAATATATTAAT
16177883 AA
1 AA
16177885 CATGCAATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 13 0.54
13 11 0.46
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (12 bp):
AAATATATTAAT
Found at i:16177945 original size:17 final size:17
Alignment explanation
Indices: 16177908--16177965 Score: 57
Period size: 16 Copynumber: 3.5 Consensus size: 17
16177898 GCATAAATAT
* *
16177908 AATAAATA-ATCATGCA
1 AATAAATATATCAGGTA
*
16177924 AATAAATATATTAGGTA
1 AATAAATATATCAGGTA
*
16177941 AATAAAT-TATCATGTA
1 AATAAATATATCAGGTA
16177957 AATATAATA
1 AATA-AATA
16177966 GTAATCATGC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
16 19 0.56
17 15 0.44
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (17 bp):
AATAAATATATCAGGTA
Found at i:16177974 original size:20 final size:18
Alignment explanation
Indices: 16177901--16178022 Score: 76
Period size: 20 Copynumber: 6.7 Consensus size: 18
16177891 ATCACACGCA
16177901 TAAATATAATAAATAATCATG
1 TAAATATAAT--AT-ATCATG
* * *
16177922 CAAATA-AATATATTAGG
1 TAAATATAATATATCATG
16177939 TAAATA-AAT-TATCATG
1 TAAATATAATATATCATG
16177955 TAAATATAATAGTAATCATG
1 TAAATATAATA-T-ATCATG
*
16177975 CAAATATAATATTAGTCATG
1 TAAATATAATA-TA-TCATG
* * *
16177995 CAAAAATAA-ATACCATG
1 TAAATATAATATATCATG
16178012 T-AATA-AATATA
1 TAAATATAATATA
16178023 AAAATAGGAG
Statistics
Matches: 83, Mismatches: 12, Indels: 17
0.74 0.11 0.15
Matches are distributed among these distances:
15 2 0.02
16 17 0.20
17 19 0.23
18 4 0.05
19 3 0.04
20 33 0.40
21 5 0.06
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.32
Consensus pattern (18 bp):
TAAATATAATATATCATG
Found at i:16180810 original size:32 final size:32
Alignment explanation
Indices: 16180760--16180821 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
16180750 CTTAGCTTCC
* * *
16180760 ATCCGATTAGTGATCACTCTGATATCATTTGT
1 ATCCAATTAGTGATCACTCAGATACCATTTGT
*
16180792 ATCCAATTGGTGATCACTCAGATACCATTT
1 ATCCAATTAGTGATCACTCAGATACCATTT
16180822 ATAGAGATCC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (32 bp):
ATCCAATTAGTGATCACTCAGATACCATTTGT
Found at i:16182445 original size:19 final size:19
Alignment explanation
Indices: 16182416--16182455 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
16182406 GAGTGTCATA
16182416 TTTACTTTAATGCTAATATT
1 TTTACTTTAAT-CTAATATT
*
16182436 TTTA-TTTAATTTAATATT
1 TTTACTTTAATCTAATATT
16182454 TT
1 TT
16182456 AAATAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 6 0.32
20 4 0.21
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (19 bp):
TTTACTTTAATCTAATATT
Found at i:16182775 original size:15 final size:16
Alignment explanation
Indices: 16182757--16182786 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
16182747 TCTTTTATTA
16182757 TTATTTTTT-TTTTGC
1 TTATTTTTTATTTTGC
16182772 TTATTTTTTATTTTG
1 TTATTTTTTATTTTG
16182787 TTTTCATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.10, C:0.03, G:0.07, T:0.80
Consensus pattern (16 bp):
TTATTTTTTATTTTGC
Found at i:16183718 original size:23 final size:23
Alignment explanation
Indices: 16183692--16183737 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
16183682 TTTTAGATAT
16183692 TCCATAGAATGGTGAAAACTTAA
1 TCCATAGAATGGTGAAAACTTAA
16183715 TCCATAGAATGGTGAAAACTTAA
1 TCCATAGAATGGTGAAAACTTAA
16183738 AATTTTTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.26
Consensus pattern (23 bp):
TCCATAGAATGGTGAAAACTTAA
Found at i:16187066 original size:6 final size:6
Alignment explanation
Indices: 16187050--16187098 Score: 89
Period size: 6 Copynumber: 8.2 Consensus size: 6
16187040 GTGGGTGGGG
*
16187050 CAGGCT TAGGCT CAGGCT CAGGCT CAGGCT CAGGCT CAGGCT CAGGCT
1 CAGGCT CAGGCT CAGGCT CAGGCT CAGGCT CAGGCT CAGGCT CAGGCT
16187098 C
1 C
16187099 TAGAGCAGAG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.16, C:0.33, G:0.33, T:0.18
Consensus pattern (6 bp):
CAGGCT
Found at i:16189178 original size:29 final size:29
Alignment explanation
Indices: 16189131--16189239 Score: 96
Period size: 30 Copynumber: 3.7 Consensus size: 29
16189121 AAGATTCGGA
* *
16189131 TTTTAAGGGTTTGGATTTAAGTTTTGAGGG
1 TTTT-AGGGTTTGGTTTTAAGTTTTGAAGG
* *
16189161 TTTTAGGGTTTGGTTTTAAGGTATGGAAGG
1 TTTTAGGGTTTGGTTTTAA-GTTTTGAAGG
* *
16189191 -TTTAGGGTTTTGATTTTAGAG-TTTGAAGA
1 TTTTAGGG-TTTGGTTTTA-AGTTTTGAAGG
*
16189220 TTTAAGGGTTTCGGTTTTAA
1 TTTTAGGGTTT-GGTTTTAA
16189240 AATTTGAGAT
Statistics
Matches: 64, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
29 30 0.47
30 33 0.52
31 1 0.02
ACGTcount: A:0.21, C:0.01, G:0.31, T:0.47
Consensus pattern (29 bp):
TTTTAGGGTTTGGTTTTAAGTTTTGAAGG
Found at i:16189193 original size:30 final size:29
Alignment explanation
Indices: 16189131--16189239 Score: 96
Period size: 29 Copynumber: 3.7 Consensus size: 29
16189121 AAGATTCGGA
* * *
16189131 TTTTAAGGGTTTGGATTTAAGTTTTGAGGG
1 TTTT-AGGGTTTGGTTTTAAGGTTTGAAGG
*
16189161 TTTTAGGGTTTGGTTTTAAGGTATGGAAGG
1 TTTTAGGGTTTGGTTTTAAGGT-TTGAAGG
* *
16189191 -TTTAGGGTTTTGATTTT-AGAGTTTGAAGA
1 TTTTAGGG-TTTGGTTTTAAG-GTTTGAAGG
*
16189220 TTTAAGGGTTTCGGTTTTAA
1 TTTTAGGGTTT-GGTTTTAA
16189240 AATTTGAGAT
Statistics
Matches: 64, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
29 33 0.52
30 30 0.47
31 1 0.02
ACGTcount: A:0.21, C:0.01, G:0.31, T:0.47
Consensus pattern (29 bp):
TTTTAGGGTTTGGTTTTAAGGTTTGAAGG
Found at i:16189246 original size:30 final size:29
Alignment explanation
Indices: 16189132--16189301 Score: 93
Period size: 29 Copynumber: 5.8 Consensus size: 29
16189122 AGATTCGGAT
* * *
16189132 TTTAAGGGTTTGGATTT-AAGTTTTGAGGG
1 TTTAAGGGTTTGGTTTTAAAG-TTTGAAGA
* * * *
16189161 TTTTAGGGTTTGGTTTTAAGGTATGGAAGG
1 TTTAAGGGTTTGGTTTTAAAGT-TTGAAGA
* *
16189191 TTT-AGGGTTTTGATTTTAGAGTTTGAAGA
1 TTTAAGGG-TTTGGTTTTAAAGTTTGAAGA
*
16189220 TTTAAGGGTTTCGGTTTTAAAATTTG-AGA
1 TTTAAGGGTTT-GGTTTTAAAGTTTGAAGA
* *
16189249 TTT--GGAGTTTTGATTTAAGAGTTTG--GA
1 TTTAAGG-GTTTGGTTTTAA-AGTTTGAAGA
* *
16189276 TTTTAAAGGTTTGGATTTAAGAGTTT
1 -TTTAAGGGTTTGGTTTTAA-AGTTT
16189302 AAAGGTTTGG
Statistics
Matches: 113, Mismatches: 18, Indels: 20
0.75 0.12 0.13
Matches are distributed among these distances:
27 10 0.09
28 12 0.11
29 54 0.48
30 37 0.33
ACGTcount: A:0.24, C:0.01, G:0.29, T:0.46
Consensus pattern (29 bp):
TTTAAGGGTTTGGTTTTAAAGTTTGAAGA
Found at i:16189305 original size:22 final size:22
Alignment explanation
Indices: 16189277--16189345 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 22
16189267 GAGTTTGGAT
16189277 TTTAAAGGTTTGGATTTAAGAG
1 TTTAAAGGTTTGGATTTAAGAG
* *
16189299 TTTAAAGGTTTGGAATTTCAGAC
1 TTTAAAGGTTTGG-ATTTAAGAG
* *
16189322 TTTAGGAGGTTTTGGATTTTAGAG
1 TTTA-AAGG-TTTGGATTTAAGAG
16189346 ATTTTGGATT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
22 13 0.33
23 11 0.28
24 10 0.26
25 5 0.13
ACGTcount: A:0.28, C:0.03, G:0.28, T:0.42
Consensus pattern (22 bp):
TTTAAAGGTTTGGATTTAAGAG
Found at i:16189311 original size:58 final size:57
Alignment explanation
Indices: 16189187--16189312 Score: 132
Period size: 58 Copynumber: 2.2 Consensus size: 57
16189177 TAAGGTATGG
* * *
16189187 AAGGTTTAGG-GTTTTGATTTTAGAGTTTGAAGATTTAAGGGTTTCGGTTTTAAAATTT
1 AAGGTTT-GGAGTTTTGATTTAAGAGTTTG-AGATTTAAAGGTTTCGGATTTAAAATTT
* * *
16189245 GAGATTTGGAGTTTTGATTTAAGAGTTTG-GATTTTAAAGGTTT-GGATTTAAGAGTTT
1 AAGGTTTGGAGTTTTGATTTAAGAGTTTGAGA-TTTAAAGGTTTCGGATTTAA-AATTT
16189302 AAAGGTTTGGA
1 -AAGGTTTGGA
16189313 ATTTCAGACT
Statistics
Matches: 56, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
56 9 0.16
57 16 0.29
58 31 0.55
ACGTcount: A:0.27, C:0.01, G:0.28, T:0.44
Consensus pattern (57 bp):
AAGGTTTGGAGTTTTGATTTAAGAGTTTGAGATTTAAAGGTTTCGGATTTAAAATTT
Found at i:16189350 original size:9 final size:8
Alignment explanation
Indices: 16189331--16189455 Score: 68
Period size: 7 Copynumber: 15.9 Consensus size: 8
16189321 CTTTAGGAGG
16189331 TTTT-GGA
1 TTTTAGGA
16189338 TTTTAGAGA
1 TTTTAG-GA
16189347 TTTT-GGA
1 TTTTAGGA
*
16189354 TTTTAAGGG
1 TTTT-AGGA
*
16189363 GTTT-GGA
1 TTTTAGGA
*
16189370 TTTAAGGGA
1 TTTTA-GGA
*
16189379 TATT-GGA
1 TTTTAGGA
*
16189386 TTTTAGGGG
1 TTTTA-GGA
*
16189395 GTTT-GGA
1 TTTTAGGA
*
16189402 TTTAAGGA
1 TTTTAGGA
16189410 TTTT-GGA
1 TTTTAGGA
*
16189417 TTTTAAGA
1 TTTTAGGA
16189425 TTTT-GGA
1 TTTTAGGA
16189432 TTTTAAGGGA
1 TTTT-A-GGA
16189442 TTTT-GGA
1 TTTTAGGA
16189449 TTTTAGG
1 TTTTAGG
16189456 GGTTTTAGAA
Statistics
Matches: 88, Mismatches: 16, Indels: 27
0.67 0.12 0.21
Matches are distributed among these distances:
7 44 0.50
8 16 0.18
9 21 0.24
10 7 0.08
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.47
Consensus pattern (8 bp):
TTTTAGGA
Found at i:16189371 original size:32 final size:32
Alignment explanation
Indices: 16189332--16189460 Score: 174
Period size: 32 Copynumber: 4.1 Consensus size: 32
16189322 TTTAGGAGGT
* *
16189332 TTTGGATTTTAGAGATTTTGGATTTTAAGGGG
1 TTTGGATTTAAGGGATTTTGGATTTTAAGGGG
* *
16189364 TTTGGATTTAAGGGATATTGGATTTTAGGGGG
1 TTTGGATTTAAGGGATTTTGGATTTTAAGGGG
**
16189396 TTTGGATTTAA-GGATTTTGGATTTTAA-GAT
1 TTTGGATTTAAGGGATTTTGGATTTTAAGGGG
16189426 TTTGGATTTTAAGGGATTTTGGATTTT-AGGGG
1 TTTGGA-TTTAAGGGATTTTGGATTTTAAGGGG
16189458 TTT
1 TTT
16189461 TAGAAACCTA
Statistics
Matches: 84, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
30 7 0.08
31 20 0.24
32 57 0.68
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (32 bp):
TTTGGATTTAAGGGATTTTGGATTTTAAGGGG
Found at i:16189413 original size:63 final size:64
Alignment explanation
Indices: 16189322--16189457 Score: 195
Period size: 63 Copynumber: 2.1 Consensus size: 64
16189312 AATTTCAGAC
* * *
16189322 TTTAGGAGGTTTTGGATTTTAGAGATTTTGGATTTTAAGGGGTTTGGA-TTTAAGGGATATTGGA
1 TTTAGG-GGGTTTGGATTTAAGAGATTTTGGATTTTAA-GAGTTTGGATTTTAAGGGATATTGGA
16189386 T
64 T
* *
16189387 TTTAGGGGGTTTGGATTTAAG-GATTTTGGATTTTAAGATTTTGGATTTTAAGGGATTTTGGAT
1 TTTAGGGGGTTTGGATTTAAGAGATTTTGGATTTTAAGAGTTTGGATTTTAAGGGATATTGGAT
16189450 TTTAGGGG
1 TTTAGGGG
16189458 TTTTAGAAAC
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
62 7 0.11
63 39 0.60
64 13 0.20
65 6 0.09
ACGTcount: A:0.22, C:0.00, G:0.32, T:0.46
Consensus pattern (64 bp):
TTTAGGGGGTTTGGATTTAAGAGATTTTGGATTTTAAGAGTTTGGATTTTAAGGGATATTGGAT
Found at i:16189461 original size:16 final size:16
Alignment explanation
Indices: 16189331--16189461 Score: 142
Period size: 16 Copynumber: 8.2 Consensus size: 16
16189321 CTTTAGGAGG
*
16189331 TTTTGGATTTTAGAGA
1 TTTTGGATTTTAGGGA
16189347 TTTTGGATTTTAAGGG-
1 TTTTGGATTTT-AGGGA
* *
16189363 GTTTGGATTTAAGGGA
1 TTTTGGATTTTAGGGA
* *
16189379 TATTGGATTTTAGGGG
1 TTTTGGATTTTAGGGA
* *
16189395 GTTTGGA-TTTAAGGA
1 TTTTGGATTTTAGGGA
*
16189410 TTTTGGATTTTA-AGA
1 TTTTGGATTTTAGGGA
16189425 TTTTGGATTTTAAGGGA
1 TTTTGGATTTT-AGGGA
*
16189442 TTTTGGATTTTAGGGG
1 TTTTGGATTTTAGGGA
16189458 TTTT
1 TTTT
16189462 AGAAACCTAG
Statistics
Matches: 95, Mismatches: 15, Indels: 10
0.79 0.12 0.08
Matches are distributed among these distances:
15 29 0.31
16 50 0.53
17 16 0.17
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.48
Consensus pattern (16 bp):
TTTTGGATTTTAGGGA
Found at i:16189630 original size:3 final size:3
Alignment explanation
Indices: 16189617--16189650 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
16189607 TCTCATATAT
16189617 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
16189651 TAAAGATTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:16189834 original size:18 final size:18
Alignment explanation
Indices: 16189785--16189837 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
16189775 ACTTTTTAAG
*
16189785 CATTTTTAATA-TATATTT
1 CATTTTTATTATTAT-TTT
* *
16189803 AATTATTATCTATTATTTT
1 CATTTTTAT-TATTATTTT
16189822 CATTTTTATTATTATT
1 CATTTTTATTATTATT
16189838 AAAACAATTA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
18 13 0.46
19 12 0.43
20 3 0.11
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (18 bp):
CATTTTTATTATTATTTT
Found at i:16190061 original size:17 final size:18
Alignment explanation
Indices: 16190039--16190074 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
16190029 TGGTTTAATT
16190039 AGCGGTTCG-GGCGATTC
1 AGCGGTTCGAGGCGATTC
*
16190056 AGCGGTTCGAGTCGATTC
1 AGCGGTTCGAGGCGATTC
16190074 A
1 A
16190075 ACCGGTTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.17, C:0.22, G:0.36, T:0.25
Consensus pattern (18 bp):
AGCGGTTCGAGGCGATTC
Found at i:16190997 original size:14 final size:14
Alignment explanation
Indices: 16190980--16191009 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
16190970 TTTGTCTTTT
16190980 TTTTTTAATTATAA
1 TTTTTTAATTATAA
16190994 TTTTTTAATTATAA
1 TTTTTTAATTATAA
16191008 TT
1 TT
16191010 AAACAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTTTTAATTATAA
Found at i:16191370 original size:38 final size:36
Alignment explanation
Indices: 16191272--16191370 Score: 119
Period size: 36 Copynumber: 2.7 Consensus size: 36
16191262 CGCAAGTCAT
*
16191272 AGAAATAAAAACGACTGGGATTAAACCGTAAGTTGG
1 AGAAATAAAAACGACTGGGATTAAACCATAAGTTGG
* * *
16191308 AGAAATAAAAGCGATTGGGATTAAACCATGAGTT-G
1 AGAAATAAAAACGACTGGGATTAAACCATAAGTTGG
*
16191343 AGAAACTATAAGAATGACTGGGATTAAA
1 AGAAA-TA-AA-AACGACTGGGATTAAA
16191371 TCGCAAGTCA
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
35 6 0.11
36 32 0.60
37 2 0.04
38 13 0.25
ACGTcount: A:0.45, C:0.09, G:0.24, T:0.21
Consensus pattern (36 bp):
AGAAATAAAAACGACTGGGATTAAACCATAAGTTGG
Found at i:16191472 original size:37 final size:37
Alignment explanation
Indices: 16191410--16191490 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
16191400 ATTAAAATGC
* ** *
16191410 AAGTCAAGAAGTAAAGAATTGATCGGGACAACACCGT
1 AAGTCAAGAAGTAAAAAATCAATCGGGACAACAACGT
* *
16191447 GAGTCGAGAAGTAAAAAATCAATCGGGACAACAACGT
1 AAGTCAAGAAGTAAAAAATCAATCGGGACAACAACGT
16191484 AAGTCAA
1 AAGTCAA
16191491 AATCATGAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.46, C:0.16, G:0.23, T:0.15
Consensus pattern (37 bp):
AAGTCAAGAAGTAAAAAATCAATCGGGACAACAACGT
Found at i:16191642 original size:34 final size:34
Alignment explanation
Indices: 16191598--16191684 Score: 138
Period size: 34 Copynumber: 2.6 Consensus size: 34
16191588 ACTAAGGATT
* *
16191598 AGGATTAAACCGCGAATCAGAGAATAAAGAGATC
1 AGGATTAAACCGTGAATCAGAGAATAAAGAGACC
*
16191632 GGGATTAAACCGTGAATCAGAGAATAAAGAGACC
1 AGGATTAAACCGTGAATCAGAGAATAAAGAGACC
*
16191666 AGGATTAAATCGTGAATCA
1 AGGATTAAACCGTGAATCA
16191685 AAAAATGACA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 48 1.00
ACGTcount: A:0.45, C:0.14, G:0.24, T:0.17
Consensus pattern (34 bp):
AGGATTAAACCGTGAATCAGAGAATAAAGAGACC
Found at i:16191837 original size:174 final size:171
Alignment explanation
Indices: 16191652--16192035 Score: 455
Period size: 174 Copynumber: 2.2 Consensus size: 171
16191642 CGTGAATCAG
* *
16191652 AGAATAAAGAGACCAGGATTAAATCGTGAATCAAAAAATGACATTAACTTGGATTGAATCACAAG
1 AGAATAAAGAGATCAGGATTAAATCATGAATCAAAAAATGACATTAACTTGGATTGAATCACAAG
* * * * *
16191717 TCAAAAAATGAGGAGACCGGGAATAAACCACTAGTTAGAGGTTAACAACAACAATCAAGATTAGA
66 TCAAAAAATAAGGAAACCGGGAATAAACCACGAGTCAGAGG---ACAACAACAATCAAGATTAAA
** * * *
16191782 CTGTGATTTTAAATTAAA-ACGATCGGGATTGAATCACGAATTGA
128 CTGCAACTTTAAATTAAAGA-GATCGGGATTGAATCACAAATCGA
* * * * *
16191826 AGAATAAAGAGATCGGGACTAAACCATAAATAAAAAAATGACATTAACTTGGATTGAATCACAAG
1 AGAATAAAGAGATCAGGATTAAATCATGAATCAAAAAATGACATTAACTTGGATTGAATCACAAG
* * * * * *
16191891 TTAAAAAATAAGGAAACCTGGATTGAACCACGAGTCAGAGGATAACAACAATCGAGATTAAACTG
66 TCAAAAAATAAGGAAACCGGGAATAAACCACGAGTCAGAGGACAACAACAATCAAGATTAAACTG
* **
16191956 CAACTTTGAATTAAAGAGATCGGGATTGAATCGTAAATCGA
131 CAACTTTAAATTAAAGAGATCGGGATTGAATCACAAATCGA
* * * *
16191997 AGAATAAAAAGATCAAGATTAAATCATGAGTCAGAAAAT
1 AGAATAAAGAGATCAGGATTAAATCATGAATCAAAAAAT
16192036 AAAATGATCG
Statistics
Matches: 174, Mismatches: 35, Indels: 5
0.81 0.16 0.02
Matches are distributed among these distances:
171 82 0.47
172 1 0.01
174 91 0.52
ACGTcount: A:0.47, C:0.13, G:0.19, T:0.22
Consensus pattern (171 bp):
AGAATAAAGAGATCAGGATTAAATCATGAATCAAAAAATGACATTAACTTGGATTGAATCACAAG
TCAAAAAATAAGGAAACCGGGAATAAACCACGAGTCAGAGGACAACAACAATCAAGATTAAACTG
CAACTTTAAATTAAAGAGATCGGGATTGAATCACAAATCGA
Found at i:16193283 original size:28 final size:26
Alignment explanation
Indices: 16193252--16193303 Score: 68
Period size: 28 Copynumber: 1.9 Consensus size: 26
16193242 TTTTCTCATT
16193252 TTTTCCCTTTTTTATGTTTTTTTTAATA
1 TTTTCCCTTTTTT-T-TTTTTTTTAATA
**
16193280 TTTTTTCTTTTTTTTTTTTTTTAA
1 TTTTCCCTTTTTTTTTTTTTTTAA
16193304 GCAAAATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 10 0.45
27 1 0.05
28 11 0.50
ACGTcount: A:0.12, C:0.08, G:0.02, T:0.79
Consensus pattern (26 bp):
TTTTCCCTTTTTTTTTTTTTTTAATA
Found at i:16193283 original size:30 final size:26
Alignment explanation
Indices: 16193249--16193303 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 26
16193239 TTCTTTTCTC
16193249 ATTTTTTCCCTTTTTTATGTTTTTTTTAAT
1 ATTTTTT--CTTTTTT-T-TTTTTTTTAAT
16193279 ATTTTTTCTTTTTTTTTTTTTTTAA
1 ATTTTTTCTTTTTTTTTTTTTTTAA
16193304 GCAAAATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 10 0.40
27 1 0.04
28 7 0.28
30 7 0.28
ACGTcount: A:0.13, C:0.07, G:0.02, T:0.78
Consensus pattern (26 bp):
ATTTTTTCTTTTTTTTTTTTTTTAAT
Found at i:16204778 original size:29 final size:29
Alignment explanation
Indices: 16204715--16204790 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
16204705 AAGATTCGGA
* * *
16204715 TTTTAAGGGTTTGGATTTAAGTTTTGAGGG
1 TTTT-AGGGTTTGGATTTAAGTATGGAAGG
*
16204745 TTTTAGGGTTTGGTTTTAAGGTATGGAAGG
1 TTTTAGGGTTTGGATTTAA-GTATGGAAGG
*
16204775 -TTTAGGGTTTTGATTT
1 TTTTAGGGTTTGGATTT
16204791 TAGAGTTTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
29 28 0.72
30 11 0.28
ACGTcount: A:0.18, C:0.00, G:0.33, T:0.49
Consensus pattern (29 bp):
TTTTAGGGTTTGGATTTAAGTATGGAAGG
Found at i:16204870 original size:14 final size:14
Alignment explanation
Indices: 16204838--16204864 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16204828 TGAGGTTTGG
16204838 GGTTTGGATTTAAA
1 GGTTTGGATTTAAA
16204852 GGTTTGGATTTAA
1 GGTTTGGATTTAA
16204865 GCGTTTAAAG
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:0.26, C:0.00, G:0.30, T:0.44
Consensus pattern (14 bp):
GGTTTGGATTTAAA
Found at i:16204897 original size:22 final size:22
Alignment explanation
Indices: 16204830--16204909 Score: 67
Period size: 24 Copynumber: 3.6 Consensus size: 22
16204820 TTAAAATTTG
*
16204830 AGGTTTGGGGTTTGGA-TTTAA
1 AGGTTTGGGATTTGGACTTTAA
*
16204851 AGGTTT-GGATTT-AAGCGTTTAA
1 AGGTTTGGGATTTGGA-C-TTTAA
16204873 AGGTTTGGGATTTCGGACTTTAA
1 AGGTTTGGGATTT-GGACTTTAA
* *
16204896 GGGGTTTTGGATTT
1 -AGGTTTGGGATTT
16204910 TAGGGGTTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
19 1 0.02
20 5 0.11
21 6 0.13
22 11 0.23
23 11 0.23
24 12 0.26
25 1 0.02
ACGTcount: A:0.20, C:0.04, G:0.34, T:0.42
Consensus pattern (22 bp):
AGGTTTGGGATTTGGACTTTAA
Found at i:16204916 original size:16 final size:16
Alignment explanation
Indices: 16204879--16205045 Score: 157
Period size: 16 Copynumber: 10.5 Consensus size: 16
16204869 TTAAAGGTTT
* *
16204879 GGGATTTCGGACTTTAA
1 GGGATTTTGGA-TTTTA
*
16204896 GGGGTTTTGGATTTTA
1 GGGATTTTGGATTTTA
*
16204912 GGGGTTTTGGATTTTA
1 GGGATTTTGGATTTTA
* *
16204928 TGGG-GTTTGGATTTAA
1 -GGGATTTTGGATTTTA
16204944 GGGATTTTGGATTTTATA
1 GGGATTTTGGA-TTT-TA
16204962 GGG--TTTGGA-TTTA
1 GGGATTTTGGATTTTA
*
16204975 AGGATTTTGGATTTTA
1 GGGATTTTGGATTTTA
*
16204991 -AGATTTTGGATTTTA
1 GGGATTTTGGATTTTA
*
16205006 -AGATTTTGGATTTTA
1 GGGATTTTGGATTTTA
16205021 GGAGATTTTGGATTTTA
1 GG-GATTTTGGATTTTA
*
16205038 GGGGTTTT
1 GGGATTTT
16205046 AGAAACCTAG
Statistics
Matches: 130, Mismatches: 11, Indels: 19
0.81 0.07 0.12
Matches are distributed among these distances:
13 4 0.03
14 2 0.02
15 38 0.29
16 51 0.39
17 31 0.24
18 4 0.03
ACGTcount: A:0.20, C:0.01, G:0.31, T:0.48
Consensus pattern (16 bp):
GGGATTTTGGATTTTA
Found at i:16204983 original size:15 final size:16
Alignment explanation
Indices: 16204880--16205037 Score: 155
Period size: 15 Copynumber: 9.9 Consensus size: 16
16204870 TAAAGGTTTG
* *
16204880 GGATTTCGGACTTTAA
1 GGATTTTGGATTTTAA
* *
16204896 GGGGTTTTGGATTTTAG
1 -GGATTTTGGATTTTAA
* *
16204913 GGGTTTTGGATTTTAT
1 GGATTTTGGATTTTAA
**
16204929 GGGGTTTGGA-TTTAA
1 GGATTTTGGATTTTAA
16204944 GGGATTTTGGATTTTATA
1 -GGATTTTGGATTTTA-A
*
16204962 GG-GTTTGGA-TTTAA
1 GGATTTTGGATTTTAA
16204976 GGATTTTGGATTTTAA
1 GGATTTTGGATTTTAA
16204992 -GATTTTGGATTTTAA
1 GGATTTTGGATTTTAA
*
16205007 -GATTTTGGATTTTAG
1 GGATTTTGGATTTTAA
16205022 GAGATTTTGGATTTTA
1 G-GATTTTGGATTTTA
16205038 GGGGTTTTAG
Statistics
Matches: 122, Mismatches: 12, Indels: 14
0.82 0.08 0.09
Matches are distributed among these distances:
14 3 0.02
15 43 0.35
16 43 0.35
17 32 0.26
18 1 0.01
ACGTcount: A:0.21, C:0.01, G:0.30, T:0.48
Consensus pattern (16 bp):
GGATTTTGGATTTTAA
Found at i:16206531 original size:23 final size:23
Alignment explanation
Indices: 16206487--16206531 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
16206477 GCACCAACCC
*
16206487 TTTGCATTTTGTTTTTTTTTCTG
1 TTTGCATTTTGTTTTTTCTTCTG
*
16206510 TTTGGATTTT-TTTTTGTCTTCT
1 TTTGCATTTTGTTTTT-TCTTCT
16206532 TTCTTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.04, C:0.09, G:0.13, T:0.73
Consensus pattern (23 bp):
TTTGCATTTTGTTTTTTCTTCTG
Found at i:16206554 original size:15 final size:15
Alignment explanation
Indices: 16206536--16206567 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
16206526 TCTTCTTTCT
16206536 TTTTTTTAATTATAA
1 TTTTTTTAATTATAA
*
16206551 TTTTTTTTATTATAA
1 TTTTTTTAATTATAA
16206566 TT
1 TT
16206568 AAACAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTTTTAATTATAA
Found at i:16206581 original size:3 final size:3
Alignment explanation
Indices: 16206575--16206603 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
16206565 ATTAAACAAA
16206575 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
16206604 AAAATATAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:16209404 original size:22 final size:20
Alignment explanation
Indices: 16209379--16209430 Score: 59
Period size: 23 Copynumber: 2.5 Consensus size: 20
16209369 ATTTGGTAAG
*
16209379 ATTTGATTTTTTGGTTTTTTT
1 ATTTAATTTTTT-GTTTTTTT
16209400 AATTTTAATTTTTTGTTTTTTT
1 -A-TTTAATTTTTTGTTTTTTT
*
16209422 ATTTTATTT
1 ATTTAATTT
16209431 GGGCCATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 7 0.26
21 1 0.04
22 9 0.33
23 10 0.37
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (20 bp):
ATTTAATTTTTTGTTTTTTT
Found at i:16209410 original size:23 final size:21
Alignment explanation
Indices: 16209384--16209427 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
16209374 GTAAGATTTG
16209384 ATTTTTTGGTTTTTTTAATTTTA
1 ATTTTTT-GTTTTTTT-ATTTTA
16209407 ATTTTTTGTTTTTTTATTTTA
1 ATTTTTTGTTTTTTTATTTTA
16209428 TTTGGGCCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 6 0.29
22 8 0.38
23 7 0.33
ACGTcount: A:0.16, C:0.00, G:0.07, T:0.77
Consensus pattern (21 bp):
ATTTTTTGTTTTTTTATTTTA
Found at i:16209607 original size:26 final size:27
Alignment explanation
Indices: 16209571--16209625 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 27
16209561 TAATTTTTGG
* *
16209571 TATGATTTTTATATGATTG-TGATATT
1 TATGATATTTACATGATTGATGATATT
16209597 TATGATATTTACATGATTGCATGATATT
1 TATGATATTTACATGATTG-ATGATATT
16209625 T
1 T
16209626 TTTACAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 17 0.68
28 8 0.32
ACGTcount: A:0.29, C:0.04, G:0.15, T:0.53
Consensus pattern (27 bp):
TATGATATTTACATGATTGATGATATT
Found at i:16212006 original size:134 final size:134
Alignment explanation
Indices: 16211845--16212196 Score: 493
Period size: 134 Copynumber: 2.6 Consensus size: 134
16211835 TTTAATGCTT
16211845 ATTTTTGGGGATTACTTATAAGATTTTTTTTTGAGATTATTTAA-GTAATTTTCTGAAAAGTAAG
1 ATTTTTGGGGATTACTTATAAGATTTTTTTTTGAGATTATTTAAGGTAATTTTCTGAAAA-TAAG
* * * *
16211909 CCTATTACTTATAAGATTTTTTGAAAAATTATTTAAGGT-TTTTTTTGTCAGAAAACATCTTAAA
65 CATATTACTTATAAGATTTTTTAAAAAATTATTT-AGGTCGTTTTTGGTCAGAAAACATCTTAAA
16211973 TAATGC
129 TAATGC
16211979 ATTTTTGGGGATTACTTATAAGATTTTTTTTTGAGATTATTTAAGGT-ATTTTCTGAAAAATAAG
1 ATTTTTGGGGATTACTTATAAGATTTTTTTTTGAGATTATTTAAGGTAATTTTCTG-AAAATAAG
*
16212043 CATATTACTTATAAGATTTTTTTAAAAAATTATTTATGTCGTTTTTGGTCAGAAAACATCTTAAA
65 CATATTACTTATAAGA-TTTTTTAAAAAATTATTTAGGTCGTTTTTGGTCAGAAAACATCTTAAA
16212108 TAATGC
129 TAATGC
* * * * * * *
16212114 ---TTTGGGGATTACTTACAA-AATTTTTTTGGGGATTATTTAAGGTATTTTTTTTTAAAATAAG
1 ATTTTTGGGGATTACTTATAAGATTTTTTTTTGAGATTATTTAAGGTA-ATTTTCTGAAAATAAG
*
16212175 CAAATTACTTATAAGATTTTTT
65 CATATTACTTATAAGATTTTTT
16212197 TTGGGATTAT
Statistics
Matches: 199, Mismatches: 13, Indels: 15
0.88 0.06 0.07
Matches are distributed among these distances:
131 28 0.14
132 40 0.20
133 5 0.03
134 74 0.37
135 52 0.26
ACGTcount: A:0.33, C:0.06, G:0.14, T:0.47
Consensus pattern (134 bp):
ATTTTTGGGGATTACTTATAAGATTTTTTTTTGAGATTATTTAAGGTAATTTTCTGAAAATAAGC
ATATTACTTATAAGATTTTTTAAAAAATTATTTAGGTCGTTTTTGGTCAGAAAACATCTTAAATA
ATGC
Found at i:16212191 original size:132 final size:133
Alignment explanation
Indices: 16211847--16212245 Score: 486
Period size: 134 Copynumber: 3.0 Consensus size: 133
16211837 TAATGCTTAT
* * * *
16211847 TTTTGGGGATTACTTATAAGATTTTTTTTTGAGATTATTTAA-GTAATTTTCTGAAAAGTAAGCC
1 TTTTGGGGATTACTTATAAGATTTTTTTTTGAGATTATTTAAGGT-ATTTTTTTAAAAATAAGCA
* * *
16211911 TATTACTTATAAGA-TTTTTTGAAAAATTATTTAAGGTTTTTTTTGTCAGAAAACATCTTAAATA
65 TATTACTTATAAGATTTTTTTAAAAAATTATTTAAGGTGTTTTTGGTCAGAAAACATCTTAAATA
16211975 ATGC
130 ATGC
* *
16211979 ATTTTTGGGGATTACTTATAAGATTTTTTTTTGAGATTATTTAAGGTATTTTCTGAAAAATAAGC
1 --TTTTGGGGATTACTTATAAGATTTTTTTTTGAGATTATTTAAGGTATTTTTTTAAAAATAAGC
*
16212044 ATATTACTTATAAGATTTTTTTAAAAAATTATTT-ATGTCGTTTTTGGTCAGAAAACATCTTAAA
64 ATATTACTTATAAGATTTTTTTAAAAAATTATTTAAGGT-GTTTTTGGTCAGAAAACATCTTAAA
16212108 TAATGC
128 TAATGC
* * * * *
16212114 -TTTGGGGATTACTTACAA-AATTTTTTTGGGGATTATTTAAGGTATTTTTTTTTAAAATAAGCA
1 TTTTGGGGATTACTTATAAGATTTTTTTTTGAGATTATTTAAGGTA-TTTTTTTAAAAATAAGCA
* **** ** * * *
16212177 AATTACTTATAAGATTTTTTT-TGGGATTATTTAAGGCATTTTTGATCAGAAAATAACTTAAATA
65 TATTACTTATAAGATTTTTTTAAAAAATTATTTAAGGTGTTTTTGGTCAGAAAACATCTTAAATA
16212241 ATGC
130 ATGC
16212245 T
1 T
16212246 GATCAATTTT
Statistics
Matches: 235, Mismatches: 24, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
131 57 0.24
132 54 0.23
134 76 0.32
135 48 0.20
ACGTcount: A:0.34, C:0.07, G:0.14, T:0.46
Consensus pattern (133 bp):
TTTTGGGGATTACTTATAAGATTTTTTTTTGAGATTATTTAAGGTATTTTTTTAAAAATAAGCAT
ATTACTTATAAGATTTTTTTAAAAAATTATTTAAGGTGTTTTTGGTCAGAAAACATCTTAAATAA
TGC
Found at i:16212270 original size:61 final size:62
Alignment explanation
Indices: 16212204--16212363 Score: 152
Period size: 60 Copynumber: 2.6 Consensus size: 62
16212194 TTTTTGGGAT
* * *
16212204 TATTTAAGGCATTTTTGATCAGAAAATAACTTAAATAATGCTGA-TCAATTTTT-T-AGAGAAC
1 TATTTAAGGCATTTTTGATCAAAAAATAACTTAAATAAT-CTCATTCAATTTTTGTGAAAG-AC
* * * * * *
16212265 TATTTAAAG-TTTTTTTATTAAAAAATACCTTAAATAATCTCATTCAATTTTTGTGAAAGAT
1 TATTTAAGGCATTTTTGATCAAAAAATAACTTAAATAATCTCATTCAATTTTTGTGAAAGAC
* *
16212326 TATTTAAGGCATTTTTTGGT-AAAAAA-ATCTTAAATAAT
1 TATTTAAGGCA-TTTTTGATCAAAAAATAACTTAAATAAT
16212364 TAAAAAAAAA
Statistics
Matches: 80, Mismatches: 14, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
59 3 0.04
60 33 0.41
61 29 0.36
62 9 0.11
63 6 0.08
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (62 bp):
TATTTAAGGCATTTTTGATCAAAAAATAACTTAAATAATCTCATTCAATTTTTGTGAAAGAC
Found at i:16214503 original size:31 final size:28
Alignment explanation
Indices: 16214468--16214525 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
16214458 CTTAAATGAG
*
16214468 TTAAATAGATATATTTTTATTAAAATAAAAT
1 TTAAATA-ATATA-TATT-TTAAAATAAAAT
*
16214499 TTAAATAATTTATATTTTAAAATAAAA
1 TTAAATAATATATATTTTAAAATAAAA
16214526 AATATTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 11 0.44
29 3 0.12
30 4 0.16
31 7 0.28
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (28 bp):
TTAAATAATATATATTTTAAAATAAAAT
Found at i:16215114 original size:16 final size:16
Alignment explanation
Indices: 16215089--16215122 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
16215079 TGAATTAAAC
*
16215089 TTTTAGAATATTTATA
1 TTTTAAAATATTTATA
*
16215105 TTTTAAAATATTTTTA
1 TTTTAAAATATTTATA
16215121 TT
1 TT
16215123 AGTTCAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (16 bp):
TTTTAAAATATTTATA
Found at i:16218074 original size:24 final size:24
Alignment explanation
Indices: 16218042--16218091 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
16218032 CCTTTGGTCT
*
16218042 TGTTGGTATTTATTTTAGTGCATG
1 TGTTGGTATTTATTTTAATGCATG
16218066 TGTTGGTATTTATTTTAATGCATG
1 TGTTGGTATTTATTTTAATGCATG
16218090 TG
1 TG
16218092 CTCCATTGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.18, C:0.04, G:0.24, T:0.54
Consensus pattern (24 bp):
TGTTGGTATTTATTTTAATGCATG
Found at i:16220372 original size:21 final size:21
Alignment explanation
Indices: 16220346--16220388 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
16220336 TGACATCTTT
* *
16220346 AAGAATCTGTCAACAATCACC
1 AAGAATCTATCAACAATAACC
*
16220367 AAGAATCTATCAATAATAACC
1 AAGAATCTATCAACAATAACC
16220388 A
1 A
16220389 TCATTAAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.49, C:0.23, G:0.07, T:0.21
Consensus pattern (21 bp):
AAGAATCTATCAACAATAACC
Found at i:16228634 original size:348 final size:348
Alignment explanation
Indices: 16227993--16228686 Score: 927
Period size: 348 Copynumber: 2.0 Consensus size: 348
16227983 GGCCAGAGCG
* ** * * *
16227993 GACAATACCTCACAAGGGTGTGAACCATGACGGTCAGGTTGATCTGAAACATCGGATGAGTAGTT
1 GACAATACCTCACAAGGGTGTGAACCATGACAGAAAGGTTGATCTGAAACATCGAAAGAGTAATT
* *
16228058 GCTTGGGTTTCAGAGCCATGCGAGTTCGACACTTAAGTCTCGATCCGTGACAAATGGTATCAGAG
66 GCTTGGGTCTCAGAGCCATGCGAGTTCGACACTTAAGTCTCAATCCGTGACAAATGGTATCAGAG
* * * *
16228123 CCAGCCCTAAACCGTTCGATCCATGTCGAGCTCCTCGAGGGAAGTAGGTCGGGTGATCAGCCTCC
131 CCAGCCCTAAACCGTTCGATCCATGCCAAGCACCTCGAAGGAAGTAGGTCGGGTGATCAGCCTCC
* * *
16228188 ATGATGAGGGCGTCACGAGGTTGGGTGGGGAAAAATGTCACGGACCTAAGAAAGAGTCCTGAATC
196 ATGACGAGGGCGTCACAAGGTTGGGTGGGGAAAAATGTCACAGACCTAAGAAAGAGTCCTGAATC
* * ****
16228253 CCACATCGAACATAATAGGAGGGTCATTGGGGTATAAAAGGGTTTACACCA-CTTTTTTCTTGTG
261 CCACATCGAACATAATAGGAGGGTCACTGGGGTATAAAAGGGTTCACACCATC-TCAACCTTGTG
16228317 AGGCACCTTTTGTAGGATAAAATT
325 AGGCACCTTTTGTAGGATAAAATT
* * * * *
16228341 GACAATACCTCACAAGGGTGTGAATCATGGCAGAAAGGTTGATCTGAGACGTCGAAAGGGTGAA-
1 GACAATACCTCACAAGGGTGTGAACCATGACAGAAAGGTTGATCTGAAACATCGAAAGAGT-AAT
* * *
16228405 TG-TCTGGGTCTCGGAGCCATGC-AGGTTTGGA-ACTTAAGTCTCAA-CTCGTGACAAGTGGTAT
65 TGCT-TGGGTCTCAGAGCCATGCGA-G-TTCGACACTTAAGTCTCAATC-CGTGACAAATGGTAT
* * *
16228466 CAGAGCCAGCCCTACACCGTTCGATCCATGCCAAGCACCTCGAAGGAGGTAGG-CAGGGTGGTCA
126 CAGAGCCAGCCCTAAACCGTTCGATCCATGCCAAGCACCTCGAAGGAAGTAGGTC-GGGTGATCA
* *
16228530 GCCTCCGTGACGAGGGCGTCACAAGGTTGGGT-GGGAGAGAATGTCACAGACCTAAGAAAGAGTC
190 GCCTCCATGACGAGGGCGTCACAAGGTTGGGTGGGGA-AAAATGTCACAGACCTAAGAAAGAGTC
* *
16228594 TTGAATCCCACATCGAACATAATAGGAGGGTCACTGGGGTATAAAAGGGTTCACACTATCTCAAC
254 CTGAATCCCACATCGAACATAATAGGAGGGTCACTGGGGTATAAAAGGGTTCACACCATCTCAAC
*
16228659 CTTGTGAGGTACCTTTTGTAGGATAAAA
319 CTTGTGAGGCACCTTTTGTAGGATAAAA
16228687 CTATGAGGCT
Statistics
Matches: 301, Mismatches: 37, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
347 8 0.03
348 287 0.95
349 6 0.02
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.23
Consensus pattern (348 bp):
GACAATACCTCACAAGGGTGTGAACCATGACAGAAAGGTTGATCTGAAACATCGAAAGAGTAATT
GCTTGGGTCTCAGAGCCATGCGAGTTCGACACTTAAGTCTCAATCCGTGACAAATGGTATCAGAG
CCAGCCCTAAACCGTTCGATCCATGCCAAGCACCTCGAAGGAAGTAGGTCGGGTGATCAGCCTCC
ATGACGAGGGCGTCACAAGGTTGGGTGGGGAAAAATGTCACAGACCTAAGAAAGAGTCCTGAATC
CCACATCGAACATAATAGGAGGGTCACTGGGGTATAAAAGGGTTCACACCATCTCAACCTTGTGA
GGCACCTTTTGTAGGATAAAATT
Found at i:16239126 original size:12 final size:12
Alignment explanation
Indices: 16239094--16239145 Score: 79
Period size: 12 Copynumber: 4.3 Consensus size: 12
16239084 ATCATATTAA
16239094 AAATCATGCAAGT
1 AAATCATGCAA-T
*
16239107 ATATCATGCAAT
1 AAATCATGCAAT
16239119 AAATCATGCAAT
1 AAATCATGCAAT
16239131 AAATCATGCAA-
1 AAATCATGCAAT
16239142 AAAT
1 AAAT
16239146 TAAATAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
11 4 0.11
12 23 0.62
13 10 0.27
ACGTcount: A:0.50, C:0.15, G:0.10, T:0.25
Consensus pattern (12 bp):
AAATCATGCAAT
Found at i:16239247 original size:18 final size:19
Alignment explanation
Indices: 16239207--16239262 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
16239197 AAATTAGACC
*
16239207 CATGCAAAATATATATAAAT
1 CATGCAAAA-AAATATAAAT
*
16239227 CATG-AAATAAAT-TAAATT
1 CATGCAAAAAAATATAAA-T
16239245 CATGCAAAAAAATATAAA
1 CATGCAAAAAAATATAAA
16239263 ATAATCATGT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 4 0.13
18 8 0.27
19 10 0.33
20 8 0.27
ACGTcount: A:0.59, C:0.09, G:0.05, T:0.27
Consensus pattern (19 bp):
CATGCAAAAAAATATAAAT
Found at i:16239260 original size:39 final size:40
Alignment explanation
Indices: 16239165--16239264 Score: 116
Period size: 38 Copynumber: 2.5 Consensus size: 40
16239155 ATGTAATAGA
* * *
16239165 TCATGCAAAAATATATAATAAACCATGCAATTAAATTAGAC
1 TCATGCAAAAATATAT-ATAAATCATGCAAATAAATTAAAC
* *
16239206 CCATGC-AAAATATATATAAATCATG-AAATAAATTAAAT
1 TCATGCAAAAATATATATAAATCATGCAAATAAATTAAAC
*
16239244 TCATGCAAAAAAATATA-AAAT
1 TCATGCAAAAATATATATAAAT
16239265 AATCATGTAA
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
38 19 0.37
39 18 0.35
40 9 0.18
41 5 0.10
ACGTcount: A:0.55, C:0.12, G:0.06, T:0.27
Consensus pattern (40 bp):
TCATGCAAAAATATATATAAATCATGCAAATAAATTAAAC
Found at i:16239269 original size:41 final size:41
Alignment explanation
Indices: 16239165--16239271 Score: 121
Period size: 39 Copynumber: 2.7 Consensus size: 41
16239155 ATGTAATAGA
* * *
16239165 TCATGCAAAAATATATAATAAACCATGCAATTAAATTAGAC
1 TCATGCAAAAATATATAATAAATCATGCAAATAAATTAAAC
* *
16239206 CCATGC-AAAATATAT-ATAAATCATG-AAATAAATTAAAT
1 TCATGCAAAAATATATAATAAATCATGCAAATAAATTAAAC
* *
16239244 TCATGCAAAAAAATATAAAATAATCATG
1 TCATGCAAAAATATATAATA-AATCATG
16239272 TAATTAATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
38 15 0.27
39 17 0.31
40 11 0.20
41 12 0.22
ACGTcount: A:0.54, C:0.12, G:0.07, T:0.27
Consensus pattern (41 bp):
TCATGCAAAAATATATAATAAATCATGCAAATAAATTAAAC
Found at i:16243526 original size:22 final size:23
Alignment explanation
Indices: 16243480--16243528 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
16243470 TCTATCATAC
*
16243480 AAATCATGCATAAATATAAAAAA
1 AAATCATGCAAAAATATAAAAAA
*
16243503 AAATCATGCAAAAAT-TAAATAA
1 AAATCATGCAAAAATATAAAAAA
16243525 AAAT
1 AAAT
16243529 ATAATAAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 10 0.42
23 14 0.58
ACGTcount: A:0.65, C:0.08, G:0.04, T:0.22
Consensus pattern (23 bp):
AAATCATGCAAAAATATAAAAAA
Found at i:16243546 original size:20 final size:22
Alignment explanation
Indices: 16243523--16243566 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
16243513 AAAATTAAAT
16243523 AAAA-ATATAATAAATCATGCA
1 AAAATATATAATAAATCATGCA
16243544 AAAATATATAATAAATCATGCA
1 AAAATATATAATAAATCATGCA
16243566 A
1 A
16243567 TTAAATTAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.61, C:0.09, G:0.05, T:0.25
Consensus pattern (22 bp):
AAAATATATAATAAATCATGCA
Found at i:16243624 original size:37 final size:37
Alignment explanation
Indices: 16243533--16243630 Score: 99
Period size: 37 Copynumber: 2.5 Consensus size: 37
16243523 AAAAATATAA
*
16243533 TAAATCATGCAAAAATATATAATAAATCATGCAATTAAAT
1 TAAATCATGC-AAAATAT-T-ATAAATCATGCAAGTAAAT
** **
16243573 TAGACCCAAACAAAATATTATAAATCATGC-AGTAAAT
1 TA-AATCATGCAAAATATTATAAATCATGCAAGTAAAT
16243610 TAAATTCATGCAAAATATTAT
1 TAAA-TCATGCAAAATATTAT
16243631 GAAAAAATAT
Statistics
Matches: 47, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
36 1 0.02
37 21 0.45
38 11 0.23
39 1 0.02
40 9 0.19
41 4 0.09
ACGTcount: A:0.52, C:0.12, G:0.06, T:0.30
Consensus pattern (37 bp):
TAAATCATGCAAAATATTATAAATCATGCAAGTAAAT
Found at i:16243629 original size:18 final size:19
Alignment explanation
Indices: 16243524--16243630 Score: 60
Period size: 18 Copynumber: 5.5 Consensus size: 19
16243514 AAATTAAATA
*
16243524 AAAATATAATAAATCATGC
1 AAAATATTATAAATCATGC
16243543 AAAAATATATAATAAATCATGC
1 -AAAATAT-T-ATAAATCATGC
* ** **
16243565 AATTAA-ATTA-GACCCAAAC
1 AA--AATATTATAAATCATGC
16243584 AAAATATTATAAATCATGC
1 AAAATATTATAAATCATGC
* *
16243603 AGTAA-ATTA-AATTCATGC
1 A-AAATATTATAAATCATGC
16243621 AAAATATTAT
1 AAAATATTAT
16243631 GAAAAAATAT
Statistics
Matches: 64, Mismatches: 14, Indels: 19
0.66 0.14 0.20
Matches are distributed among these distances:
17 4 0.06
18 17 0.27
19 15 0.23
20 10 0.16
21 3 0.05
22 13 0.20
23 2 0.03
ACGTcount: A:0.54, C:0.11, G:0.06, T:0.29
Consensus pattern (19 bp):
AAAATATTATAAATCATGC
Found at i:16243801 original size:5 final size:5
Alignment explanation
Indices: 16243791--16243859 Score: 50
Period size: 5 Copynumber: 12.8 Consensus size: 5
16243781 ATAAGAGTAA
* * *
16243791 AAAAT AAAAT AATCA- AAAAT AAAAT AAAAT AAAAAT AAAAAA AAAAA
1 AAAAT AAAAT AA-AAT AAAAT AAAAT AAAAT -AAAAT -AAAAT AAAAT
16243838 AAAAT GAAAAT GAAAAT GAAAA
1 AAAAT -AAAAT -AAAAT -AAAA
16243860 ATAGAAACCT
Statistics
Matches: 56, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
4 1 0.02
5 28 0.50
6 27 0.48
ACGTcount: A:0.80, C:0.01, G:0.04, T:0.14
Consensus pattern (5 bp):
AAAAT
Found at i:16243808 original size:15 final size:15
Alignment explanation
Indices: 16243790--16243838 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
16243780 TATAAGAGTA
16243790 AAAAATAAAAT-AAT
1 AAAAATAAAATAAAT
16243804 CAAAAATAAAATAAAAT
1 -AAAAATAAAAT-AAAT
16243821 AAAAATAAAA-AAA-
1 AAAAATAAAATAAAT
16243834 AAAAA
1 AAAAA
16243839 AAATGAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
13 5 0.16
14 3 0.09
15 11 0.34
16 10 0.31
17 3 0.09
ACGTcount: A:0.84, C:0.02, G:0.00, T:0.14
Consensus pattern (15 bp):
AAAAATAAAATAAAT
Found at i:16243814 original size:6 final size:6
Alignment explanation
Indices: 16243790--16243862 Score: 64
Period size: 6 Copynumber: 12.2 Consensus size: 6
16243780 TATAAGAGTA
16243790 AAAAAT AAAATAAT CAAAAAT -AAAAT -AAAAT AAAAAT AAAAA- AAAAA-
1 AAAAAT -AAA-AAT -AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
* *
16243837 AAAAAT GAAAAT GAAAAT GAAAAAT A
1 AAAAAT AAAAAT AAAAAT -AAAAAT A
16243863 GAAACCTATA
Statistics
Matches: 59, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
5 20 0.34
6 22 0.37
7 11 0.19
8 6 0.10
ACGTcount: A:0.79, C:0.01, G:0.04, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:16243847 original size:12 final size:11
Alignment explanation
Indices: 16243791--16243841 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
16243781 ATAAGAGTAA
16243791 AAAATAAAATAAT
1 AAAA-AAAA-AAT
*
16243804 CAAAAATAAAAT
1 -AAAAAAAAAAT
*
16243816 AAAATAAAAAT
1 AAAAAAAAAAT
16243827 AAAAAAAAAA-
1 AAAAAAAAAAT
16243837 AAAAA
1 AAAAA
16243842 TGAAAATGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
10 5 0.15
11 18 0.55
12 3 0.09
13 3 0.09
14 4 0.12
ACGTcount: A:0.84, C:0.02, G:0.00, T:0.14
Consensus pattern (11 bp):
AAAAAAAAAAT
Found at i:16243860 original size:22 final size:21
Alignment explanation
Indices: 16243789--16243860 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 21
16243779 ATATAAGAGT
16243789 AAAAAATAAAATAATCAAAAATAA
1 AAAAAAT-AAA-AAT-AAAAATAA
*
16243813 AATAAAATAAAAATAAAAAAAAA
1 AA-AAAATAAAAAT-AAAAATAA
* * *
16243836 AAAAAATGAAAATGAAAATGA
1 AAAAAATAAAAATAAAAATAA
16243857 AAAA
1 AAAA
16243861 TAGAAACCTA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
21 9 0.22
22 10 0.24
23 12 0.29
24 5 0.12
25 5 0.12
ACGTcount: A:0.81, C:0.01, G:0.04, T:0.14
Consensus pattern (21 bp):
AAAAAATAAAAATAAAAATAA
Found at i:16244842 original size:18 final size:17
Alignment explanation
Indices: 16244811--16244844 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
16244801 TTTTTCAACA
16244811 TTTTTTCTTTCTTTCTT
1 TTTTTTCTTTCTTTCTT
*
16244828 TTTTTTGTTTACTTTCT
1 TTTTTTCTTT-CTTTCT
16244845 AACTTTAACC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.79
Consensus pattern (17 bp):
TTTTTTCTTTCTTTCTT
Found at i:16244873 original size:17 final size:16
Alignment explanation
Indices: 16244851--16244885 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
16244841 TTCTAACTTT
16244851 AACCAAAAAGAAAATTA
1 AACCAAAAA-AAAATTA
*
16244868 AACCAAAAATAAATTA
1 AACCAAAAAAAAATTA
16244884 AA
1 AA
16244886 ATCAAAATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.71, C:0.11, G:0.03, T:0.14
Consensus pattern (16 bp):
AACCAAAAAAAAATTA
Found at i:16248088 original size:40 final size:39
Alignment explanation
Indices: 16248012--16248149 Score: 131
Period size: 40 Copynumber: 3.5 Consensus size: 39
16248002 TGGGGTTTCA
* *
16248012 AGGTTTGAAGGTTTTAGTGTT-TTA-GTATTCTAGGGTTTTG
1 AGGTTTTAAGGTTTTAG-GTTGTAAGGT-TT-TAGGGTTTTG
* * *
16248052 AGGTTTTAAAGTTTTAGGATT-TCATGGTTTTGGGGTTTTG
1 AGGTTTTAAGGTTTTAGG-TTGT-AAGGTTTTAGGGTTTTG
*
16248092 AGGTTTTTAAGGTTTTAAGTTGTAAGGTTTTAGGGTTTTG
1 AGG-TTTTAAGGTTTTAGGTTGTAAGGTTTTAGGGTTTTG
16248132 AAGG-TTTAAGGTTTTAGG
1 -AGGTTTTAAGGTTTTAGG
16248150 GTTTGAAGAT
Statistics
Matches: 82, Mismatches: 10, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
39 14 0.17
40 47 0.57
41 19 0.23
42 2 0.02
ACGTcount: A:0.20, C:0.01, G:0.30, T:0.49
Consensus pattern (39 bp):
AGGTTTTAAGGTTTTAGGTTGTAAGGTTTTAGGGTTTTG
Found at i:16248121 original size:24 final size:25
Alignment explanation
Indices: 16248092--16248146 Score: 71
Period size: 23 Copynumber: 2.3 Consensus size: 25
16248082 TGGGGTTTTG
16248092 AGGTTTTTAAGGTTTT-AA-GTTGTA
1 AGGTTTTTAAGGTTTTGAAGGTT-TA
*
16248116 AGG-TTTTAGGGTTTTGAAGGTTTA
1 AGGTTTTTAAGGTTTTGAAGGTTTA
16248140 AGGTTTT
1 AGGTTTT
16248147 AGGGTTTGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 11 0.41
24 10 0.37
25 6 0.22
ACGTcount: A:0.22, C:0.00, G:0.29, T:0.49
Consensus pattern (25 bp):
AGGTTTTTAAGGTTTTGAAGGTTTA
Found at i:16248144 original size:7 final size:8
Alignment explanation
Indices: 16248005--16248153 Score: 85
Period size: 8 Copynumber: 18.6 Consensus size: 8
16247995 TGGTTTTTGG
*
16248005 GGTTTCAA
1 GGTTTTAA
*
16248013 GGTTTGAA
1 GGTTTTAA
16248021 GGTTTT-A
1 GGTTTTAA
16248028 GTGTTTT-A
1 G-GTTTTAA
*
16248036 -GTATTCTAG
1 GGT-TT-TAA
*
16248045 GGTTTTGA
1 GGTTTTAA
16248053 GGTTTTAA
1 GGTTTTAA
*
16248061 AGTTTT-A
1 GGTTTTAA
* *
16248068 GGATTTCAT
1 GG-TTTTAA
**
16248077 GGTTTTGG
1 GGTTTTAA
*
16248085 GGTTTTGA
1 GGTTTTAA
16248093 GGTTTTTAA
1 GG-TTTTAA
16248102 GGTTTTAA
1 GGTTTTAA
*
16248110 -GTTGTAA
1 GGTTTTAA
*
16248117 GGTTTTAG
1 GGTTTTAA
16248125 GGTTTTGAA
1 GGTTTT-AA
16248134 GG-TTTAA
1 GGTTTTAA
*
16248141 GGTTTTAG
1 GGTTTTAA
16248149 GGTTT
1 GGTTT
16248154 GAAGATTTTT
Statistics
Matches: 110, Mismatches: 20, Indels: 22
0.72 0.13 0.14
Matches are distributed among these distances:
6 2 0.02
7 16 0.15
8 76 0.69
9 14 0.13
10 2 0.02
ACGTcount: A:0.19, C:0.02, G:0.30, T:0.49
Consensus pattern (8 bp):
GGTTTTAA
Found at i:16250540 original size:20 final size:19
Alignment explanation
Indices: 16250515--16250582 Score: 79
Period size: 18 Copynumber: 3.7 Consensus size: 19
16250505 GAAAGAATGC
16250515 CATGCAAATATATTAATTAT
1 CATGCAAATATA-TAATTAT
*
16250535 CATGC-AATA-ATAATAAT
1 CATGCAAATATATAATTAT
* *
16250552 TATGTAAATATATAA-TAT
1 CATGCAAATATATAATTAT
16250570 CATGCAAATATAT
1 CATGCAAATATAT
16250583 TATCATGCAA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
17 9 0.22
18 18 0.45
19 8 0.20
20 5 0.12
ACGTcount: A:0.49, C:0.09, G:0.06, T:0.37
Consensus pattern (19 bp):
CATGCAAATATATAATTAT
Found at i:16250597 original size:18 final size:17
Alignment explanation
Indices: 16250515--16250599 Score: 66
Period size: 17 Copynumber: 4.8 Consensus size: 17
16250505 GAAAGAATGC
16250515 CATGCAAATATATTAATTAT
1 CATGCAAA-ATA-T-ATTAT
*
16250535 CATGCAATAATA-ATAAT
1 CATGCAA-AATATATTAT
* * *
16250552 TATGTAAATATATAATAT
1 CATGCAAA-ATATATTAT
16250570 CATGC-AAATATATTAT
1 CATGCAAAATATATTAT
16250586 CATGCAATAATATA
1 CATGCAA-AATATA
16250600 AAATACCATA
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
16 14 0.27
17 15 0.29
18 12 0.23
20 10 0.19
21 1 0.02
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.36
Consensus pattern (17 bp):
CATGCAAAATATATTAT
Found at i:16250598 original size:16 final size:17
Alignment explanation
Indices: 16250515--16250598 Score: 66
Period size: 16 Copynumber: 4.8 Consensus size: 17
16250505 GAAAGAATGC
16250515 CATGCAAATATATTAATTAT
1 CATGC-AATATA-T-ATTAT
*
16250535 CATGCAATA-ATAATAAT
1 CATGCAATATAT-ATTAT
* * *
16250552 TATGTAAATATATAATAT
1 CATG-CAATATATATTAT
16250570 CATGCAA-ATATATTAT
1 CATGCAATATATATTAT
16250586 CATGCAATA-ATAT
1 CATGCAATATATAT
16250599 AAAATACCAT
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
16 19 0.36
17 12 0.23
18 11 0.21
19 6 0.11
20 5 0.09
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.37
Consensus pattern (17 bp):
CATGCAATATATATTAT
Found at i:16250743 original size:19 final size:20
Alignment explanation
Indices: 16250709--16250780 Score: 58
Period size: 19 Copynumber: 3.6 Consensus size: 20
16250699 ATGCAATTAA
* *
16250709 ATATCATTCAAATATAATATT
1 ATATCATGC-AATATAATATC
* *
16250730 A-ATCATGTAATATAGTATC
1 ATATCATGCAATATAATATC
*
16250749 ATATCATGCAATA-AATATA
1 ATATCATGCAATATAATATC
* *
16250768 AAATTATGCAATA
1 ATATCATGCAATA
16250781 ATAACAATAA
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
19 25 0.61
20 15 0.37
21 1 0.02
ACGTcount: A:0.49, C:0.10, G:0.06, T:0.36
Consensus pattern (20 bp):
ATATCATGCAATATAATATC
Found at i:16250871 original size:32 final size:31
Alignment explanation
Indices: 16250835--16251038 Score: 128
Period size: 32 Copynumber: 7.2 Consensus size: 31
16250825 AATCACAATT
*
16250835 AATAATCATGCAATTAAATATATCATCATGCA
1 AATAA-CATGCAATTAAATATATAATCATGCA
*
16250867 AAT-A-AT--AA-T--ATATA-AACCATGCA
1 AATAACATGCAATTAAATATATAATCATGCA
*
16250890 AATAAACATGCAATTAAATACATAATCATGCA
1 AAT-AACATGCAATTAAATATATAATCATGCA
*
16250922 AATAA-A---AA-T-ATTA-ATAATCATGCA
1 AATAACATGCAATTAAATATATAATCATGCA
* *
16250946 ATTAGACATGCAATCAAATATATAATCATGCA
1 AATA-ACATGCAATTAAATATATAATCATGCA
* **
16250978 AAT-A-AT--AA-T-ATTA-ATAATCATATA
1 AATAACATGCAATTAAATATATAATCATGCA
*
16251002 AATAAACATGTAATTAAATATATAATCATGCA
1 AAT-AACATGCAATTAAATATATAATCATGCA
16251034 AATAA
1 AATAA
16251039 TAATGCAAAA
Statistics
Matches: 131, Mismatches: 16, Indels: 51
0.66 0.08 0.26
Matches are distributed among these distances:
23 10 0.08
24 31 0.24
25 8 0.06
26 6 0.05
27 8 0.06
28 2 0.02
29 9 0.07
30 3 0.02
31 15 0.11
32 39 0.30
ACGTcount: A:0.53, C:0.12, G:0.05, T:0.29
Consensus pattern (31 bp):
AATAACATGCAATTAAATATATAATCATGCA
Found at i:16250877 original size:20 final size:20
Alignment explanation
Indices: 16250839--16250895 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 20
16250829 ACAATTAATA
*
16250839 ATCATGCAATTAAATATATC
1 ATCATGCAAATAAATATATC
*
16250859 ATCATGCAAATAATAATATATAA
1 ATCATGCAAAT-A-AATATAT-C
*
16250882 ACCATGCAAATAAA
1 ATCATGCAAATAAA
16250896 CATGCAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 10 0.32
21 3 0.10
22 8 0.26
23 10 0.32
ACGTcount: A:0.53, C:0.14, G:0.05, T:0.28
Consensus pattern (20 bp):
ATCATGCAAATAAATATATC
Found at i:16250939 original size:24 final size:24
Alignment explanation
Indices: 16250911--16251007 Score: 77
Period size: 24 Copynumber: 3.7 Consensus size: 24
16250901 AATTAAATAC
16250911 ATAATCATGCAAATAAAAATATTA
1 ATAATCATGCAAATAAAAATATTA
* *
16250935 ATAATCATGCAATTAGACATGCAATCAAATA
1 ATAATCATGCAAATA-A-A---AAT--ATTA
*
16250966 TATAATCATGCAAATAATAATATTA
1 -ATAATCATGCAAATAAAAATATTA
**
16250991 ATAATCATATAAATAAA
1 ATAATCATGCAAATAAA
16251008 CATGTAATTA
Statistics
Matches: 57, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
24 28 0.49
25 4 0.07
26 1 0.02
27 3 0.05
29 3 0.05
31 4 0.07
32 14 0.25
ACGTcount: A:0.55, C:0.10, G:0.05, T:0.30
Consensus pattern (24 bp):
ATAATCATGCAAATAAAAATATTA
Found at i:16250965 original size:56 final size:56
Alignment explanation
Indices: 16250835--16251042 Score: 294
Period size: 56 Copynumber: 3.7 Consensus size: 56
16250825 AATCACAATT
* * *
16250835 AATAATCATGCAATTAAATATATCATCATGCAAATAATAATA-T-ATAAACCATGCA
1 AATAAACATGCAATTAAATATATAATCATGCAAATAATAATATTAAT-AATCATGCA
* *
16250890 AATAAACATGCAATTAAATACATAATCATGCAAATAAAAATATTAATAATCATGCA
1 AATAAACATGCAATTAAATATATAATCATGCAAATAATAATATTAATAATCATGCA
* * * **
16250946 ATTAGACATGCAATCAAATATATAATCATGCAAATAATAATATTAATAATCATATA
1 AATAAACATGCAATTAAATATATAATCATGCAAATAATAATATTAATAATCATGCA
*
16251002 AATAAACATGTAATTAAATATATAATCATGCAAATAATAAT
1 AATAAACATGCAATTAAATATATAATCATGCAAATAATAAT
16251043 GCAAAAATCA
Statistics
Matches: 135, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
55 38 0.28
56 95 0.70
57 2 0.01
ACGTcount: A:0.53, C:0.12, G:0.05, T:0.30
Consensus pattern (56 bp):
AATAAACATGCAATTAAATATATAATCATGCAAATAATAATATTAATAATCATGCA
Found at i:16250975 original size:20 final size:20
Alignment explanation
Indices: 16250952--16251034 Score: 59
Period size: 20 Copynumber: 4.3 Consensus size: 20
16250942 TGCAATTAGA
16250952 CATGCAATCAAATATATAAT
1 CATGCAATCAAATATATAAT
*
16250972 CATGCAA--ATAATA-ATATT
1 CATGCAATCA-AATATATAAT
* * * *
16250990 AAT--AATCATATAAATAAA
1 CATGCAATCAAATATATAAT
* *
16251008 CATGTAATTAAATATATAAT
1 CATGCAATCAAATATATAAT
16251028 CATGCAA
1 CATGCAA
16251035 ATAATAATGC
Statistics
Matches: 46, Mismatches: 11, Indels: 12
0.67 0.16 0.17
Matches are distributed among these distances:
16 2 0.04
17 3 0.07
18 13 0.28
19 4 0.09
20 24 0.52
ACGTcount: A:0.53, C:0.11, G:0.05, T:0.31
Consensus pattern (20 bp):
CATGCAATCAAATATATAAT
Found at i:16251057 original size:11 final size:12
Alignment explanation
Indices: 16251023--16251057 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
16251013 AATTAAATAT
16251023 ATAATCATGCAA
1 ATAATCATGCAA
*
16251035 ATAATAATGCAA
1 ATAATCATGCAA
16251047 A-AATCATGCAA
1 ATAATCATGCAA
16251058 TCACGTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.54, C:0.14, G:0.09, T:0.23
Consensus pattern (12 bp):
ATAATCATGCAA
Found at i:16251690 original size:13 final size:12
Alignment explanation
Indices: 16251659--16251697 Score: 62
Period size: 12 Copynumber: 3.2 Consensus size: 12
16251649 TTGACTAAAA
16251659 AAAC-AAAAATT
1 AAACAAAAAATT
16251670 AAACAAAAAATT
1 AAACAAAAAATT
16251682 AAACTAAAAAATT
1 AAAC-AAAAAATT
16251695 AAA
1 AAA
16251698 ATACAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 4 0.15
12 11 0.42
13 11 0.42
ACGTcount: A:0.74, C:0.08, G:0.00, T:0.18
Consensus pattern (12 bp):
AAACAAAAAATT
Found at i:16252044 original size:43 final size:43
Alignment explanation
Indices: 16251969--16252377 Score: 208
Period size: 43 Copynumber: 9.1 Consensus size: 43
16251959 TTTTACTTGA
* *
16251969 AAAATGCTCCC-CATAAATGAGGCTTTAAAACTTTTGAAAAAT
1 AAAATGCTCCCTCATAACTGAGGCTTTGAAACTTTTGAAAAAT
* * *
16252011 AAAATGCTCCCTCATAACTAAGGTTTTGAAACTTTTGAGGCTTTGAAACTTTT
1 AAAATGCTCCCTCATAACTGAGGCTTTGAAACTTTTGA-------AAA---AT
* * *
16252064 GAAAATAAAATGCTCCCCTCA-AACTGAGGATTTTAAAC-TTTAAAAAAT
1 -AAAA-----TGCT-CCCTCATAACTGAGGCTTTGAAACTTTTGAAAAAT
* * * *
16252112 AAAATGCTTCCCT-TTAGCTAAGGCTCTGAAACTTTTG-AAAAT
1 AAAATGC-TCCCTCATAACTGAGGCTTTGAAACTTTTGAAAAAT
* * * *
16252154 AAAATGCT-CATCGACAACTAAGGCTTT-AGAATTTTTGAAAAAT
1 AAAATGCTCCCTC-ATAACTGAGGCTTTGA-AACTTTTGAAAAAT
* * *
16252197 AAAATGCTCTCC-CACAATTGAGGCTTTGGAACTTTTGAAAAAT
1 AAAATGCTC-CCTCATAACTGAGGCTTTGAAACTTTTGAAAAAT
* * * *
16252240 AAAATGCTCTCC-CATAATTGAGGCTTTGGAATTTTTAAAAAATTAAAT
1 AAAATGCTC-CCTCATAACTGAGGCTTTGAAACTTTT---GAA--AAAT
*
16252288 AAAATGCTCCCTCACAACTGAGGCTTTGAAAC-TTTGAAAAAT
1 AAAATGCTCCCTCATAACTGAGGCTTTGAAACTTTTGAAAAAT
* * * * ** * * *
16252330 AAAATGGTCTCTCACAATTGAATCTTTAAAACTTTTGCAAAAC
1 AAAATGCTCCCTCATAACTGAGGCTTTGAAACTTTTGAAAAAT
16252373 AAAAT
1 AAAAT
16252378 AAGATCATTC
Statistics
Matches: 288, Mismatches: 44, Indels: 69
0.72 0.11 0.17
Matches are distributed among these distances:
40 2 0.01
41 2 0.01
42 89 0.31
43 111 0.39
44 3 0.01
45 1 0.00
46 2 0.01
47 9 0.03
48 30 0.10
50 3 0.01
51 3 0.01
53 1 0.00
54 4 0.01
58 4 0.01
59 18 0.06
60 6 0.02
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (43 bp):
AAAATGCTCCCTCATAACTGAGGCTTTGAAACTTTTGAAAAAT
Done.