Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167993.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_25, 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: 17943224
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 94000 characters in sequence are not A, C, G, or T
File 75 of 100
Found at i:13477568 original size:18 final size:17
Alignment explanation
Indices: 13477545--13477578 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
13477535 TAAATTTAAA
13477545 TTTTAATATTTATAATTT
1 TTTTAATATTTA-AATTT
*
13477563 TTTTAATTTTTAAATT
1 TTTTAATATTTAAATT
13477579 CAGATTACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTAATATTTAAATTT
Found at i:13477656 original size:31 final size:31
Alignment explanation
Indices: 13477619--13477680 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
13477609 TTATATTCAT
*
13477619 TTAATAAATTATTATATT-ATTAAATAATCAA
1 TTAATAAATTATAAT-TTAATTAAATAATCAA
13477650 TTAATAAATTATAATTTAATTAAATAATCAA
1 TTAATAAATTATAATTTAATTAAATAATCAA
13477681 AATGGATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 2 0.07
31 27 0.93
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (31 bp):
TTAATAAATTATAATTTAATTAAATAATCAA
Found at i:13477669 original size:23 final size:24
Alignment explanation
Indices: 13477612--13477674 Score: 58
Period size: 23 Copynumber: 2.7 Consensus size: 24
13477602 ACATTTATTA
* * *
13477612 TATTCATTTAATAAATTATTATAT
1 TATTAATTTAATAAATTAATAAAT
* *
13477636 TATTAA-ATAATCAATTAATAAAT
1 TATTAATTTAATAAATTAATAAAT
13477659 TA-TAATTTAATTAAAT
1 TATTAATTTAA-TAAAT
13477675 AATCAAAATG
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
22 3 0.10
23 18 0.60
24 9 0.30
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (24 bp):
TATTAATTTAATAAATTAATAAAT
Found at i:13488694 original size:20 final size:20
Alignment explanation
Indices: 13488669--13488709 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
13488659 GTAAGTTAAA
*
13488669 TGTAGTGCGAGAACTGAAGG
1 TGTAGTACGAGAACTGAAGG
13488689 TGTAGTACGAGAACTGAAGG
1 TGTAGTACGAGAACTGAAGG
13488709 T
1 T
13488710 AGATAACTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.32, C:0.10, G:0.37, T:0.22
Consensus pattern (20 bp):
TGTAGTACGAGAACTGAAGG
Found at i:13502532 original size:20 final size:20
Alignment explanation
Indices: 13502504--13502543 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
13502494 ATATTTATAA
*
13502504 TTCTTTACAAAAGTGCTGCT
1 TTCTCTACAAAAGTGCTGCT
13502524 TTCTCTACAAAAGTGCTGCT
1 TTCTCTACAAAAGTGCTGCT
13502544 ATTCAACCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.38
Consensus pattern (20 bp):
TTCTCTACAAAAGTGCTGCT
Found at i:13503229 original size:23 final size:22
Alignment explanation
Indices: 13503199--13503242 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
13503189 TTTTTTTGTA
**
13503199 TACTTATTTCTAAAATTAATATT
1 TACTTATTAATAAAA-TAATATT
13503222 TACTTATTAATAAAATAATAT
1 TACTTATTAATAAAATAATAT
13503243 CATTTGATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (22 bp):
TACTTATTAATAAAATAATATT
Found at i:13507121 original size:15 final size:17
Alignment explanation
Indices: 13507093--13507126 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
13507083 AATTTTTTAA
13507093 TTATTTAAAGTAAAATT
1 TTATTTAAAGTAAAATT
13507110 TTATTT-AA-TAAAATT
1 TTATTTAAAGTAAAATT
13507125 TT
1 TT
13507127 TTGCATTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
16 2 0.12
17 6 0.35
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
TTATTTAAAGTAAAATT
Found at i:13508677 original size:2 final size:2
Alignment explanation
Indices: 13508670--13508731 Score: 80
Period size: 2 Copynumber: 33.0 Consensus size: 2
13508660 TTTAGAGGTG
13508670 TA TA TA TA TA TA T- TA T- TA TA TA TA TA TA TA TA TA -A TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13508708 TA TA T- TA TA TA TA TA GTA TA TA TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA
13508732 ATCCATAGGC
Statistics
Matches: 54, Mismatches: 0, Indels: 12
0.82 0.00 0.18
Matches are distributed among these distances:
1 5 0.09
2 47 0.87
3 2 0.04
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13519353 original size:11 final size:11
Alignment explanation
Indices: 13519337--13519366 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
13519327 GAACTCAAGC
13519337 ATTTATTTTAT
1 ATTTATTTTAT
13519348 ATTTATTTTAT
1 ATTTATTTTAT
13519359 AGTTTATT
1 A-TTTATT
13519367 ATATTAATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.67
12 6 0.33
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (11 bp):
ATTTATTTTAT
Found at i:13521702 original size:20 final size:20
Alignment explanation
Indices: 13521677--13521717 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
13521667 GTAAGTTAAA
13521677 TGTAGTGCGAGAACTGAAGG
1 TGTAGTGCGAGAACTGAAGG
13521697 TGTAGTGCGAGAACTGAAGG
1 TGTAGTGCGAGAACTGAAGG
13521717 T
1 T
13521718 AGATAACTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.10, G:0.39, T:0.22
Consensus pattern (20 bp):
TGTAGTGCGAGAACTGAAGG
Found at i:13535746 original size:21 final size:21
Alignment explanation
Indices: 13535722--13535771 Score: 64
Period size: 24 Copynumber: 2.2 Consensus size: 21
13535712 CTATTCTCTG
*
13535722 CTTAAATTACTTATTGTTGCA
1 CTTAAATCACTTATTGTTGCA
13535743 CTTAAGTAATCACTTATTGTTGCA
1 CTT-A--AATCACTTATTGTTGCA
13535767 CTTAA
1 CTTAA
13535772 GTTTCAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
21 4 0.16
22 1 0.04
23 1 0.04
24 19 0.76
ACGTcount: A:0.30, C:0.16, G:0.10, T:0.44
Consensus pattern (21 bp):
CTTAAATCACTTATTGTTGCA
Found at i:13536585 original size:2 final size:2
Alignment explanation
Indices: 13536578--13536604 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13536568 TAAACATAAA
13536578 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
13536605 CACACATACA
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:13537166 original size:23 final size:22
Alignment explanation
Indices: 13537124--13537167 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
13537114 ATTTGTAAAT
13537124 TAAAATTTTAAAATCATTAAAAA
1 TAAAATTTTAAAAT-ATTAAAAA
13537147 TAAATATTCTTAAAAT-TTAAA
1 TAAA-ATT-TTAAAATATTAAA
13537168 TATTTAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 9 0.47
24 3 0.16
25 7 0.37
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (22 bp):
TAAAATTTTAAAATATTAAAAA
Found at i:13537830 original size:28 final size:29
Alignment explanation
Indices: 13537799--13537854 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
13537789 AACAATTATA
*
13537799 AAAAAT-AAATATTATATTTAAA-ATTTTT
1 AAAAATAAAATATCATA-TTAAATATTTTT
*
13537827 AAAATTAAAATATCATATTAAATATTTT
1 AAAAATAAAATATCATATTAAATATTTT
13537855 ATTGTAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 10 0.42
29 14 0.58
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (29 bp):
AAAAATAAAATATCATATTAAATATTTTT
Found at i:13540729 original size:15 final size:17
Alignment explanation
Indices: 13540701--13540734 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
13540691 AATTTTTTAA
13540701 TTATTTAAAGTAAAATT
1 TTATTTAAAGTAAAATT
13540718 TTATTT-AA-TAAAATT
1 TTATTTAAAGTAAAATT
13540733 TT
1 TT
13540735 TTGCATTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
16 2 0.12
17 6 0.35
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
TTATTTAAAGTAAAATT
Found at i:13544771 original size:80 final size:80
Alignment explanation
Indices: 13544614--13544763 Score: 185
Period size: 80 Copynumber: 1.9 Consensus size: 80
13544604 ACTTCATCTC
* ** * ** * *
13544614 CATTTTAATACTTCCTTTTCATGATAAGGGTGTTATATTTACTCCATGAAATTAATATCTTATGA
1 CATTTCAATACTTCCCCTTCATGATAAAGGTGTTATATTTACGACATGAAATTAATATCTCATCA
*
13544679 TAGGTCCCTTATTTT
66 TAAGTCCCTTATTTT
* *
13544694 CATTTCAATACTTCCCCTTCATGATAAATGTGTTATATTTACGATATGAAATTAATATCTCA-CA
1 CATTTCAATACTTCCCCTTCATGATAAAGGTGTTATATTTACGACATGAAATTAATATCTCATCA
13544758 CTAAGT
66 -TAAGT
13544764 TTGTTATTGT
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
79 1 0.02
80 57 0.98
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.43
Consensus pattern (80 bp):
CATTTCAATACTTCCCCTTCATGATAAAGGTGTTATATTTACGACATGAAATTAATATCTCATCA
TAAGTCCCTTATTTT
Found at i:13544898 original size:30 final size:30
Alignment explanation
Indices: 13544862--13544923 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
13544852 ATTAAATTTA
*
13544862 TTGTCATTGATTTTAAGTTGAATGATCATT
1 TTGTCATTGATTTTAAGCTGAATGATCATT
13544892 TTGTCATTGATTTTAAGCTGAATGATCATT
1 TTGTCATTGATTTTAAGCTGAATGATCATT
13544922 TT
1 TT
13544924 AAAATTTAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.26, C:0.08, G:0.16, T:0.50
Consensus pattern (30 bp):
TTGTCATTGATTTTAAGCTGAATGATCATT
Found at i:13550919 original size:18 final size:18
Alignment explanation
Indices: 13550905--13550959 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 18
13550895 GAAAAAAAAC
13550905 AAGAAAAAAGGAAAAAGA
1 AAGAAAAAAGGAAAAAGA
*
13550923 AAGAAAAAATG-AAAAG-
1 AAGAAAAAAGGAAAAAGA
* * *
13550939 ATGAAAAAATGAAAAAAA
1 AAGAAAAAAGGAAAAAGA
13550957 AAG
1 AAG
13550960 TTTTGTGATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
16 10 0.32
17 9 0.29
18 12 0.39
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.05
Consensus pattern (18 bp):
AAGAAAAAAGGAAAAAGA
Found at i:13550924 original size:26 final size:27
Alignment explanation
Indices: 13550895--13550958 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
13550885 TAAATGCCTC
*
13550895 GAAAAAAAACAAGAAAA-AAGGAAAAA-
1 GAAAAAAAA-AAGAAAAGAAGAAAAAAT
* *
13550921 GAAAGAAAAAATGAAAAGATGAAAAAAT
1 GAAA-AAAAAAAGAAAAGAAGAAAAAAT
13550949 GAAAAAAAAA
1 GAAAAAAAAA
13550959 GTTTTGTGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
26 10 0.31
27 18 0.56
28 4 0.12
ACGTcount: A:0.78, C:0.02, G:0.16, T:0.05
Consensus pattern (27 bp):
GAAAAAAAAAAGAAAAGAAGAAAAAAT
Found at i:13550936 original size:8 final size:8
Alignment explanation
Indices: 13550925--13550955 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
13550915 GAAAAAGAAA
13550925 GAAAAAAT
1 GAAAAAAT
*
13550933 GAAAAGAT
1 GAAAAAAT
13550941 GAAAAAAT
1 GAAAAAAT
13550949 GAAAAAA
1 GAAAAAA
13550956 AAAGTTTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.10
Consensus pattern (8 bp):
GAAAAAAT
Found at i:13551665 original size:19 final size:20
Alignment explanation
Indices: 13551632--13551683 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 20
13551622 AGAGGCATTT
13551632 AAAAA-AAAGACAAAAA-AA
1 AAAAAGAAAGACAAAAACAA
*
13551650 AAAACGAAAG-CAAAAACAA
1 AAAAAGAAAGACAAAAACAA
*
13551669 GAAAAGAAAGACAAA
1 AAAAAGAAAGACAAA
13551684 TCTAAAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 10 0.36
19 14 0.50
20 4 0.14
ACGTcount: A:0.79, C:0.10, G:0.12, T:0.00
Consensus pattern (20 bp):
AAAAAGAAAGACAAAAACAA
Found at i:13552151 original size:10 final size:10
Alignment explanation
Indices: 13552136--13552207 Score: 64
Period size: 9 Copynumber: 7.6 Consensus size: 10
13552126 AAGAAGGTGA
13552136 AAAAAAAGAG
1 AAAAAAAGAG
13552146 -AAAAAA-AG
1 AAAAAAAGAG
13552154 AAAAAAAGAG
1 AAAAAAAGAG
*
13552164 --AAAAAGTG
1 AAAAAAAGAG
*
13552172 AAAGAAAGAAG
1 AAAAAAAG-AG
*
13552183 AAAATAAGA-
1 AAAAAAAGAG
*
13552192 AAAAAAAAAG
1 AAAAAAAGAG
13552202 AAAAAA
1 AAAAAA
13552208 GGAAATGAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
8 9 0.18
9 19 0.39
10 14 0.29
11 7 0.14
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.03
Consensus pattern (10 bp):
AAAAAAAGAG
Found at i:13552155 original size:8 final size:8
Alignment explanation
Indices: 13552137--13552212 Score: 57
Period size: 8 Copynumber: 9.4 Consensus size: 8
13552127 AGAAGGTGAA
13552137 AAAAAAGAG
1 AAAAAA-AG
13552146 AAAAAAAG
1 AAAAAAAG
13552154 AAAAAAAG
1 AAAAAAAG
*
13552162 AGAAAAAGTG
1 A-AAAAA-AG
*
13552172 AAAGAAAG
1 AAAAAAAG
*
13552180 AAGAAAA-
1 AAAAAAAG
* *
13552187 TAAGAAA-
1 AAAAAAAG
13552194 AAAAAAAG
1 AAAAAAAG
*
13552202 AAAAAAGG
1 AAAAAAAG
13552210 AAA
1 AAA
13552213 TGAATAGGTG
Statistics
Matches: 53, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
7 9 0.17
8 27 0.51
9 15 0.28
10 2 0.04
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (8 bp):
AAAAAAAG
Found at i:13552159 original size:18 final size:18
Alignment explanation
Indices: 13552136--13552212 Score: 82
Period size: 18 Copynumber: 4.2 Consensus size: 18
13552126 AAGAAGGTGA
13552136 AAAAAAAGAGAAAAAAAG
1 AAAAAAAGAGAAAAAAAG
**
13552154 AAAAAAAGAGAAAAAGTG
1 AAAAAAAGAGAAAAAAAG
* *
13552172 AAAGAAAGAAGAAAATAAG
1 AAAAAAAG-AGAAAAAAAG
* *
13552191 AAAAAAAAAAGAAAAAAGG
1 -AAAAAAAGAGAAAAAAAG
13552210 AAA
1 AAA
13552213 TGAATAGGTG
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
18 26 0.55
19 15 0.32
20 6 0.13
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (18 bp):
AAAAAAAGAGAAAAAAAG
Found at i:13552166 original size:59 final size:56
Alignment explanation
Indices: 13552095--13552212 Score: 155
Period size: 59 Copynumber: 2.1 Consensus size: 56
13552085 GAATTGACTC
* * *
13552095 AAAAAAAAAGAAAAAGTGAAAGAATGGAGAAAAGAAGGTGAAAAAAAAGAGAAAAAAAG
1 AAAAAAAAAGAAAAAGTGAAAGAAAGAAGAAAAGAA---GAAAAAAAAAAGAAAAAAAG
* * *
13552154 AAAAAAAGAGAAAAAGTGAAAGAAAGAAGAAAATAAGAAAAAAAAAAGAAAAAAGG
1 AAAAAAAAAGAAAAAGTGAAAGAAAGAAGAAAAGAAGAAAAAAAAAAGAAAAAAAG
13552210 AAA
1 AAA
13552213 TGAATAGGTG
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
56 21 0.40
59 32 0.60
ACGTcount: A:0.75, C:0.00, G:0.21, T:0.04
Consensus pattern (56 bp):
AAAAAAAAAGAAAAAGTGAAAGAAAGAAGAAAAGAAGAAAAAAAAAAGAAAAAAAG
Found at i:13552173 original size:37 final size:38
Alignment explanation
Indices: 13552136--13552206 Score: 101
Period size: 38 Copynumber: 1.9 Consensus size: 38
13552126 AAGAAGGTGA
*
13552136 AAAAAAAG-AGAAAAAAAG-AAAAAAAGAGAAAAAGTG
1 AAAAAAAGAAGAAAAAAAGAAAAAAAAAAGAAAAAGTG
* *
13552172 AAAGAAAGAAGAAAATAAGAAAAAAAAAAGAAAAA
1 AAAAAAAGAAGAAAAAAAGAAAAAAAAAAGAAAAA
13552207 AGGAAATGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
36 7 0.23
37 9 0.30
38 14 0.47
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (38 bp):
AAAAAAAGAAGAAAAAAAGAAAAAAAAAAGAAAAAGTG
Found at i:13552201 original size:26 final size:26
Alignment explanation
Indices: 13552134--13552213 Score: 79
Period size: 26 Copynumber: 2.9 Consensus size: 26
13552124 AAAAGAAGGT
* *
13552134 GAAAAAAAAGAGAAAAAAAGAAAAAAA
1 GAAAAAAAAAAG-AAAAAAGAAAATAA
* *
13552161 GAGAAAAAGTGAAAGAAAGAAGAAAATAA
1 GA-AAAAA--AAAAGAAAAAAGAAAATAA
*
13552190 GAAAAAAAAAAGAAAAAAGGAAAT
1 GAAAAAAAAAAGAAAAAAGAAAAT
13552214 GAATAGGTGG
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
26 14 0.33
27 2 0.05
28 10 0.23
29 14 0.33
30 3 0.07
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.04
Consensus pattern (26 bp):
GAAAAAAAAAAGAAAAAAGAAAATAA
Found at i:13553639 original size:12 final size:11
Alignment explanation
Indices: 13553624--13553657 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
13553614 GGCAACTAGG
*
13553624 AAAAAGAGAAA
1 AAAAAAAGAAA
13553635 AAAAAAAGAAGA
1 AAAAAAAGAA-A
13553647 AAAAAAAGAAA
1 AAAAAAAGAAA
13553658 GTTTTGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (11 bp):
AAAAAAAGAAA
Found at i:13553642 original size:13 final size:14
Alignment explanation
Indices: 13553624--13553653 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
13553614 GGCAACTAGG
13553624 AAAAAG-AGAAAAA
1 AAAAAGAAGAAAAA
13553637 AAAAAGAAGAAAAA
1 AAAAAGAAGAAAAA
13553651 AAA
1 AAA
13553654 GAAAGTTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (14 bp):
AAAAAGAAGAAAAA
Found at i:13556110 original size:31 final size:31
Alignment explanation
Indices: 13556074--13556134 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
13556064 GTTAGCACCC
* *
13556074 ATGAAAATTTAAGCTTAGTTTAGCTAGCACT
1 ATGAAAATTTAAGCCTAATTTAGCTAGCACT
13556105 ATGAAAATTTAAGCCTAATTTAGCTAGCAC
1 ATGAAAATTTAAGCCTAATTTAGCTAGCAC
13556135 CCAGGTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.33
Consensus pattern (31 bp):
ATGAAAATTTAAGCCTAATTTAGCTAGCACT
Found at i:13556113 original size:93 final size:93
Alignment explanation
Indices: 13555984--13556217 Score: 276
Period size: 93 Copynumber: 2.5 Consensus size: 93
13555974 ATCATTAAGA
* * * *
13555984 AAAATTTAAGCTCACTTTAGTTGGCATCTATG-AAATTTAAGCCTAGTTTAACTAGCACCCAGGT
1 AAAATTTAAGCTTAGTTTAGCTGGCACCTATGAAAATTTAAGCCTAGTTTAACTAGCACCCAGGT
* * *
13556048 TTTAAACCTAATTTTTGTTAGCACCCATG
66 TTTAAACCCAATTTTT-CTAGCACCCAAG
* * *
13556077 AAAATTTAAGCTTAGTTTAGCTAGCA-CTATGAAAATTTAAGCCTAATTTAGCTAGCACCCAGGT
1 AAAATTTAAGCTTAGTTTAGCTGGCACCTATGAAAATTTAAGCCTAGTTTAACTAGCACCCAGGT
* * *
13556141 TTTAAGCCCAGTTTTTCTAGCACCTAAG
66 TTTAAACCCAATTTTTCTAGCACCCAAG
* *
13556169 AAAAGATTAAGCTTAGTTTTAGCTGGCACCCAT-AAAACTTTAAGCCTAG
1 AAAA-TTTAAGCTTAG-TTTAGCTGGCACCTATGAAAA-TTTAAGCCTAG
13556218 ATTAGTTGGC
Statistics
Matches: 120, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
92 18 0.15
93 75 0.62
94 14 0.12
95 13 0.11
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (93 bp):
AAAATTTAAGCTTAGTTTAGCTGGCACCTATGAAAATTTAAGCCTAGTTTAACTAGCACCCAGGT
TTTAAACCCAATTTTTCTAGCACCCAAG
Found at i:13556365 original size:126 final size:127
Alignment explanation
Indices: 13556168--13556398 Score: 290
Period size: 126 Copynumber: 1.8 Consensus size: 127
13556158 TAGCACCTAA
* * * * *
13556168 GAAAAGATTAAGCTTAGTTTTAGCTGGCACCCATAAAACTTTAAGCCTAGATTAGTTGGCACCTT
1 GAAAAGATTAAGCCTAGGTTTAGCTAGCACCCATAAAACTTTAAGCCTAAATTAGTTGACACCTT
* * *
13556233 TGAAAATTTAAACCCAGTTTAGATGGTACTTAAGTTTTAAGCTCAATTGTTTTGGCACTCGT
66 TAAAAATTTAAACCCAGTTTAGATGGCACCTAAGTTTTAAGCTCAATTGTTTTGGCACTCGT
*
13556295 GAAAGGATTAAGCCT-GGTTTAGCTAGCACCCATGAAAA-TTTAAGTCC-AAATTAGTTGACA-C
1 GAAAAGATTAAGCCTAGGTTTAGCTAGCACCCAT-AAAACTTTAAG-CCTAAATTAGTTGACACC
* * * *
13556356 TTATAAAAATTTAAGCTCAGTTTAGCTGGCACCTAGGTTTTAA
64 TT-TAAAAATTTAAACCCAGTTTAGATGGCACCTAAGTTTTAA
13556399 ACCCAATTTC
Statistics
Matches: 88, Mismatches: 13, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
125 3 0.03
126 66 0.75
127 19 0.22
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.33
Consensus pattern (127 bp):
GAAAAGATTAAGCCTAGGTTTAGCTAGCACCCATAAAACTTTAAGCCTAAATTAGTTGACACCTT
TAAAAATTTAAACCCAGTTTAGATGGCACCTAAGTTTTAAGCTCAATTGTTTTGGCACTCGT
Found at i:13556440 original size:63 final size:60
Alignment explanation
Indices: 13556361--13556506 Score: 157
Period size: 61 Copynumber: 2.4 Consensus size: 60
13556351 GACACTTATA
* * * * *
13556361 AAAATTTAAGCTCAGTTTAGCTGGCACCTAGGTTTTAAACCCAATTTCTTTTTGGCACCCATG
1 AAAATTTAAGC-CAGTTTAGCTGACACCTAAGTTTT-AACCCAAGTT-TTTCTAGCACCCATG
* * * * *
13556424 AAAATTTAAGTCCAGTTTAGTTGACACCTAAGTTTTGAGCCTAGTTTTTCTAGCATCCATG
1 AAAATTTAAG-CCAGTTTAGCTGACACCTAAGTTTTAACCCAAGTTTTTCTAGCACCCATG
13556485 AAAATTTAAGCCCAGTTTAGCT
1 AAAATTTAAG-CCAGTTTAGCT
13556507 AGCGCTTATG
Statistics
Matches: 70, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
61 32 0.46
62 6 0.09
63 31 0.44
64 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.36
Consensus pattern (60 bp):
AAAATTTAAGCCAGTTTAGCTGACACCTAAGTTTTAACCCAAGTTTTTCTAGCACCCATG
Found at i:13556518 original size:32 final size:32
Alignment explanation
Indices: 13556482--13556631 Score: 121
Period size: 32 Copynumber: 4.8 Consensus size: 32
13556472 TCTAGCATCC
* *
13556482 ATGAAAATTTAAGCCCAGTTTAGCTAGCGCTT
1 ATGAAAATTTAAGCCTAGTTTAGCTAGCACTT
* *
13556514 ATGAAGATTTAAGCCTAATTTAG-TAGGCA-TT
1 ATGAAAATTTAAGCCTAGTTTAGCTA-GCACTT
*** * **
13556545 -T-AGGTTTTATG-CTCAGTTTTTCTAGCACTT
1 ATGAAAATTTAAGCCT-AGTTTAGCTAGCACTT
* * *
13556575 ATGAAACTTTAAGCTTAGTTTAGCTAGCACAT
1 ATGAAAATTTAAGCCTAGTTTAGCTAGCACTT
*
13556607 ATGAAAATTTAAACCTAGTTTAGCT
1 ATGAAAATTTAAGCCTAGTTTAGCT
13556632 TAAACCTATA
Statistics
Matches: 90, Mismatches: 21, Indels: 14
0.72 0.17 0.11
Matches are distributed among these distances:
28 2 0.02
29 14 0.16
30 5 0.06
31 5 0.06
32 63 0.70
33 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (32 bp):
ATGAAAATTTAAGCCTAGTTTAGCTAGCACTT
Found at i:13556536 original size:93 final size:93
Alignment explanation
Indices: 13556421--13556629 Score: 228
Period size: 93 Copynumber: 2.2 Consensus size: 93
13556411 TTTGGCACCC
*
13556421 ATGAAAATTTAAGTCC-AGTTTAGTTGACACCTAAGTTTTGA-GC-CTAGTTTTTCTAGCA-TCC
1 ATGAAAATTTAAG-CCTAGTTTAGTAGACACCTAAGTTTT-ATGCTC-AGTTTTTCTAGCACT-C
* *
13556482 ATGAAAATTTAAGCCCAGTTTAGCTAGCGCTT
62 ATGAAAATTTAAGCCCAGTTTAGCTAGCACAT
* * * ** * *
13556514 ATGAAGATTTAAGCCTAATTTAGTAGGCATTTAGGTTTTATGCTCAGTTTTTCTAGCACTTATGA
1 ATGAAAATTTAAGCCTAGTTTAGTAGACACCTAAGTTTTATGCTCAGTTTTTCTAGCACTCATGA
* **
13556579 AACTTTAAGCTTAGTTTAGCTAGCACAT
66 AAATTTAAGCCCAGTTTAGCTAGCACAT
*
13556607 ATGAAAATTTAAACCTAGTTTAG
1 ATGAAAATTTAAGCCTAGTTTAG
13556630 CTTAAACCTA
Statistics
Matches: 96, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
92 3 0.03
93 91 0.95
94 2 0.02
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (93 bp):
ATGAAAATTTAAGCCTAGTTTAGTAGACACCTAAGTTTTATGCTCAGTTTTTCTAGCACTCATGA
AAATTTAAGCCCAGTTTAGCTAGCACAT
Found at i:13558938 original size:13 final size:13
Alignment explanation
Indices: 13558920--13558944 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13558910 ATAATAAGTA
13558920 TTTTAAAAAATGT
1 TTTTAAAAAATGT
13558933 TTTTAAAAAATG
1 TTTTAAAAAATG
13558945 ATGATTCTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (13 bp):
TTTTAAAAAATGT
Found at i:13559065 original size:13 final size:13
Alignment explanation
Indices: 13559032--13559074 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
13559022 AAAAAATTAT
* *
13559032 TAAACAATAAAAA
1 TAAATAATAATAA
*
13559045 TGAAATAATAGTAA
1 T-AAATAATAATAA
13559059 TAAATAATAATAA
1 TAAATAATAATAA
13559072 TAA
1 TAA
13559075 TTTTTAGTGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
13 15 0.60
14 10 0.40
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (13 bp):
TAAATAATAATAA
Found at i:13559107 original size:3 final size:3
Alignment explanation
Indices: 13559099--13559144 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
13559089 GGAGAAAAGT
13559099 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
13559145 ATTTTTGGAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:13559278 original size:79 final size:79
Alignment explanation
Indices: 13559183--13559332 Score: 248
Period size: 79 Copynumber: 1.9 Consensus size: 79
13559173 TTTGCTCCGG
13559183 AAGTTTGCCTAAATATT-GAAGATTTTTAGAAAAGTTCATAAATTTTTAAAAACCTATATGTAAA
1 AAGTTTGCCTAAATATTAG-AGATTTTTAGAAAAGTTCATAAATTTTTAAAAACCTATATGTAAA
13559247 CCCTAAATGCTCTAA
65 CCCTAAATGCTCTAA
* * * *
13559262 AAGTTTGCTTAGATATTAGAGATTTTTAGAGAAGTTCATAAATTTTTAAAAACTTATATGTAAAC
1 AAGTTTGCCTAAATATTAGAGATTTTTAGAAAAGTTCATAAATTTTTAAAAACCTATATGTAAAC
13559327 CCTAAA
66 CCTAAA
13559333 CCCTAAATGA
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
79 65 0.98
80 1 0.02
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.37
Consensus pattern (79 bp):
AAGTTTGCCTAAATATTAGAGATTTTTAGAAAAGTTCATAAATTTTTAAAAACCTATATGTAAAC
CCTAAATGCTCTAA
Found at i:13559359 original size:20 final size:21
Alignment explanation
Indices: 13559308--13559360 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
13559298 CATAAATTTT
* *
13559308 TAAAAACTTATATGTAAACCC
1 TAAAACCTTAAATGTAAACCC
* *
13559329 T-AAACCCTAAATG-AAACTC
1 TAAAACCTTAAATGTAAACCC
13559348 TAAAACCTTAAAT
1 TAAAACCTTAAAT
13559361 CCACCAAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 6 0.23
20 19 0.73
21 1 0.04
ACGTcount: A:0.49, C:0.21, G:0.04, T:0.26
Consensus pattern (21 bp):
TAAAACCTTAAATGTAAACCC
Found at i:13559548 original size:24 final size:24
Alignment explanation
Indices: 13559502--13559548 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
13559492 GTGATTCTTT
* **
13559502 AAAAAAATAATAATAAAGTTAAAC
1 AAAAAAATAAAAATAAAAATAAAC
*
13559526 AAAAGAATAAAAATAAAAATAAA
1 AAAAAAATAAAAATAAAAATAAA
13559549 ATCTTAAATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.17
Consensus pattern (24 bp):
AAAAAAATAAAAATAAAAATAAAC
Found at i:13562143 original size:10 final size:10
Alignment explanation
Indices: 13562128--13562170 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
13562118 TAGGCCAAGC
13562128 TTTTCTTTTT
1 TTTTCTTTTT
*
13562138 TTTTCTTTTG
1 TTTTCTTTTT
*
13562148 TTTTATTTATT
1 TTTTCTTT-TT
13562159 TTATTCTTTTT
1 TT-TTCTTTTT
13562170 T
1 T
13562171 AGTCTAATGG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
10 16 0.59
11 6 0.22
12 5 0.19
ACGTcount: A:0.07, C:0.07, G:0.02, T:0.84
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:13563059 original size:6 final size:6
Alignment explanation
Indices: 13563048--13563078 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
13563038 TGATGCATGC
13563048 ATATGT ATATGT ATATGT ATATGT ATATGT A
1 ATATGT ATATGT ATATGT ATATGT ATATGT A
13563079 CATATATGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.48
Consensus pattern (6 bp):
ATATGT
Found at i:13570079 original size:21 final size:21
Alignment explanation
Indices: 13570055--13570095 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
13570045 ATTTGTATGA
13570055 TTGCATGATATTATATTATTG
1 TTGCATGATATTATATTATTG
*
13570076 TTGCATGATTTTATATTATT
1 TTGCATGATATTATATTATT
13570096 ATTTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.05, G:0.12, T:0.56
Consensus pattern (21 bp):
TTGCATGATATTATATTATTG
Found at i:13570830 original size:19 final size:21
Alignment explanation
Indices: 13570806--13570847 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
13570796 TAAGATCCTC
13570806 ATATTATA-TAC-CATATATA
1 ATATTATATTACACATATATA
13570825 ATATTATATTACAACATATATA
1 ATATTATATTAC-ACATATATA
13570847 A
1 A
13570848 AAACCTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 8 0.40
20 3 0.15
22 9 0.45
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (21 bp):
ATATTATATTACACATATATA
Found at i:13571007 original size:47 final size:46
Alignment explanation
Indices: 13570920--13571013 Score: 127
Period size: 47 Copynumber: 2.0 Consensus size: 46
13570910 AAATAATTAA
*
13570920 ATATTATTATCTTTTTATACTTTTAAATATATAATTTTTAAAAATAT
1 ATATAATTATCTTTTTATACTTTTAAATATATAA-TTTTAAAAATAT
* *
13570967 ATATAATTATCTTTTTATATATTTTTAAATATATAA-TTTAAATATAT
1 ATATAATTATC-TTTT-TATACTTTTAAATATATAATTTTAAAAATAT
13571014 TGTTACCAAC
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
47 20 0.48
48 4 0.10
49 18 0.43
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.55
Consensus pattern (46 bp):
ATATAATTATCTTTTTATACTTTTAAATATATAATTTTAAAAATAT
Found at i:13579714 original size:12 final size:12
Alignment explanation
Indices: 13579697--13579722 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13579687 AAGATCCATC
13579697 AAGGTTCTTGAT
1 AAGGTTCTTGAT
13579709 AAGGTTCTTGAT
1 AAGGTTCTTGAT
13579721 AA
1 AA
13579723 CTACTTTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (12 bp):
AAGGTTCTTGAT
Found at i:13580513 original size:27 final size:27
Alignment explanation
Indices: 13580447--13580514 Score: 118
Period size: 27 Copynumber: 2.5 Consensus size: 27
13580437 GGCCAAAGTT
*
13580447 GTAACTCATTATAGCTTCATTCCTCTG
1 GTAACTCATTATGGCTTCATTCCTCTG
*
13580474 GTAACTCGTTATGGCTTCATTCCTCTG
1 GTAACTCATTATGGCTTCATTCCTCTG
13580501 GTAACTCATTATGG
1 GTAACTCATTATGG
13580515 TCCATATTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.40
Consensus pattern (27 bp):
GTAACTCATTATGGCTTCATTCCTCTG
Found at i:13582159 original size:12 final size:12
Alignment explanation
Indices: 13582144--13582168 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13582134 TATTAATGTT
13582144 TATTGTATTTAA
1 TATTGTATTTAA
13582156 TATTGTATTTAA
1 TATTGTATTTAA
13582168 T
1 T
13582169 TTTTTATGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (12 bp):
TATTGTATTTAA
Found at i:13582299 original size:35 final size:36
Alignment explanation
Indices: 13582246--13582314 Score: 122
Period size: 35 Copynumber: 1.9 Consensus size: 36
13582236 TTTTTTATGT
13582246 ATTTAATTTTTTGTATGTAATAAACTATTATATTGC
1 ATTTAATTTTTTGTATGTAATAAACTATTATATTGC
*
13582282 ATTTAATTTTTT-TATGTAATAAACTATTGTATT
1 ATTTAATTTTTTGTATGTAATAAACTATTATATT
13582315 ATAATAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 20 0.62
36 12 0.38
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.55
Consensus pattern (36 bp):
ATTTAATTTTTTGTATGTAATAAACTATTATATTGC
Found at i:13583825 original size:64 final size:63
Alignment explanation
Indices: 13583755--13583899 Score: 161
Period size: 63 Copynumber: 2.3 Consensus size: 63
13583745 AAAAATTGAT
* * *
13583755 AAAAAATGCCTTCAATAA-TCTATACAAAAAATTTTGCAA-GGGATTATTGAAGGCATTTTTGGC
1 AAAAAATACCTTCAATAATTCTATACAAAAAA--TTG-AATAGAATTATTGAAGGCATTTTTGGC
13583818 C
63 C
* * * *
13583819 AAAAAATACCTTGAATAATTTTTTACAAAAAATTGAATAGAATTATTGAAGGCATTTTTGG-T
1 AAAAAATACCTTCAATAATTCTATACAAAAAATTGAATAGAATTATTGAAGGCATTTTTGGCC
* *
13583881 AAAAAACACCTTGAATAAT
1 AAAAAATACCTTCAATAAT
13583900 CCCTTTCAGA
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
62 20 0.28
63 24 0.34
64 16 0.23
65 11 0.15
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.32
Consensus pattern (63 bp):
AAAAAATACCTTCAATAATTCTATACAAAAAATTGAATAGAATTATTGAAGGCATTTTTGGCC
Found at i:13584550 original size:62 final size:62
Alignment explanation
Indices: 13584444--13584630 Score: 248
Period size: 62 Copynumber: 3.0 Consensus size: 62
13584434 ACTAAGCTAT
* *
13584444 TTCAATGTTTTTGTTAAGGGATTATTCAAGGCTTTTTTGACCAAAAACACCTTGAATAATCTTA
1 TTCAAT-TTTTTG-TAAGGGATTATTCAAGGCTTTTTTGGCCAAAAACACATTGAATAATCTTA
* * ** * *
13584508 TTCAATTTTTTGTAAAGGATTATTCAAGGTTTTTTTGGCCAAAAATGCTTTGAATAATCCTA
1 TTCAATTTTTTGTAAGGGATTATTCAAGGCTTTTTTGGCCAAAAACACATTGAATAATCTTA
* * * *
13584570 TTCAATTTTTTGTAAGGGATTATTCTAGGCGTTTCTGGCTAAAAACACATTGAATAATCTT
1 TTCAATTTTTTGTAAGGGATTATTCAAGGCTTTTTTGGCCAAAAACACATTGAATAATCTT
13584631 TCAAAAAAAA
Statistics
Matches: 106, Mismatches: 17, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
62 94 0.89
63 6 0.06
64 6 0.06
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.42
Consensus pattern (62 bp):
TTCAATTTTTTGTAAGGGATTATTCAAGGCTTTTTTGGCCAAAAACACATTGAATAATCTTA
Found at i:13585994 original size:24 final size:24
Alignment explanation
Indices: 13585954--13586000 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
13585944 AAACCATATC
* *
13585954 ATATTATGATTATAAATA-AATTA
1 ATATTATAATTAAAAATATAATTA
13585977 ATATTAATAATTAAAAATATAATT
1 ATATT-ATAATTAAAAATATAATT
13586001 CAAAAAAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 11 0.55
25 4 0.20
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
ATATTATAATTAAAAATATAATTA
Found at i:13589776 original size:19 final size:19
Alignment explanation
Indices: 13589754--13589801 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
13589744 ATTATATGTG
13589754 AATTTGATTATTAATTAAA
1 AATTTGATTATTAATTAAA
* *
13589773 AA-TTAATTTATTAATTAAT
1 AATTTGA-TTATTAATTAAA
*
13589792 TATTTGATTA
1 AATTTGATTA
13589802 ATTATATAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
18 3 0.13
19 17 0.74
20 3 0.13
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (19 bp):
AATTTGATTATTAATTAAA
Found at i:13589968 original size:27 final size:27
Alignment explanation
Indices: 13589920--13589973 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
13589910 TTTTGACAAG
* *
13589920 TTTAATAAAAAAATTTATTTTTATATA
1 TTTAATAAAAAAATTAAATTTTATATA
** *
13589947 TTTAATATTAAAATTAAATTTTTTATA
1 TTTAATAAAAAAATTAAATTTTATATA
13589974 AAATTAAAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (27 bp):
TTTAATAAAAAAATTAAATTTTATATA
Found at i:13590025 original size:13 final size:13
Alignment explanation
Indices: 13590007--13590031 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13589997 ATGTTAAAAA
13590007 TTTAAAATATAAT
1 TTTAAAATATAAT
13590020 TTTAAAATATAA
1 TTTAAAATATAA
13590032 AAAAATAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTAAAATATAAT
Found at i:13590928 original size:24 final size:21
Alignment explanation
Indices: 13590894--13590948 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 21
13590884 AAAAAAATTT
13590894 TAAA-TTTTATAAATTTACTTAAA
1 TAAATTTTTATAAA-TT--TTAAA
*
13590917 TAAGTTTTTAT-AATTTTAAA
1 TAAATTTTTATAAATTTTAAA
13590937 TAAATTTTTATA
1 TAAATTTTTATA
13590949 CTTTTATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
20 15 0.54
22 2 0.07
23 5 0.18
24 6 0.21
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (21 bp):
TAAATTTTTATAAATTTTAAA
Found at i:13590937 original size:20 final size:20
Alignment explanation
Indices: 13590912--13590959 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
13590902 ATAAATTTAC
*
13590912 TTAAATAAGTTTTTATAATT
1 TTAAATAAATTTTTATAATT
*
13590932 TTAAATAAATTTTTATACTT
1 TTAAATAAATTTTTATAATT
13590952 TTATAATA
1 TTA-AATA
13590960 TTCAAATAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 21 0.84
21 4 0.16
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (20 bp):
TTAAATAAATTTTTATAATT
Found at i:13590981 original size:28 final size:28
Alignment explanation
Indices: 13590922--13590982 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
13590912 TTAAATAAGT
* * *
13590922 TTTTATAATTTTAAATAAATTTTTATAC
1 TTTTATAATTTCAAATAAATTTTGATAA
*
13590950 TTTTATAATATTCAAATAAGTTTTGA-AA
1 TTTTATAAT-TTCAAATAAATTTTGATAA
13590978 TTTTA
1 TTTTA
13590983 ATTTACATCT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 15 0.54
29 13 0.46
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.54
Consensus pattern (28 bp):
TTTTATAATTTCAAATAAATTTTGATAA
Found at i:13591128 original size:25 final size:25
Alignment explanation
Indices: 13591058--13591132 Score: 73
Period size: 29 Copynumber: 2.8 Consensus size: 25
13591048 TTTTATTTAA
*
13591058 ATAAAAACTTT-TTTGAAAAT-AAAGT
1 ATAAAAA-TTTATTT-AAAATAAAACT
13591083 ATAAAAATTTATTTGAATAAAATAAAACT
1 ATAAAAATTTA-TT---TAAAATAAAACT
13591112 ATAAAAATTTATTTAAAATAA
1 ATAAAAATTTATTTAAAATAA
13591133 GTAAAATAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
24 3 0.07
25 15 0.35
26 2 0.05
28 7 0.16
29 16 0.37
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.36
Consensus pattern (25 bp):
ATAAAAATTTATTTAAAATAAAACT
Found at i:13593749 original size:16 final size:16
Alignment explanation
Indices: 13593695--13593751 Score: 50
Period size: 16 Copynumber: 3.8 Consensus size: 16
13593685 GTTTGGCTCG
*
13593695 AAATATTAAT-TAATA
1 AAATATTAATATATTA
*
13593710 AAATA-T-ATAT-TTT
1 AAATATTAATATATTA
* *
13593723 TAATTTTAATATATTA
1 AAATATTAATATATTA
13593739 AAATATTAATATA
1 AAATATTAATATA
13593752 AAAATAATTT
Statistics
Matches: 31, Mismatches: 7, Indels: 7
0.69 0.16 0.16
Matches are distributed among these distances:
13 6 0.19
14 3 0.10
15 9 0.29
16 13 0.42
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AAATATTAATATATTA
Found at i:13594213 original size:21 final size:20
Alignment explanation
Indices: 13594188--13594235 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
13594178 CTTTAGTCAA
13594188 TTAAATATAAGAATAAAAGA-T
1 TTAAATAT-AGAATAAAA-ATT
* *
13594209 TTAAAGATAGATTAAAAATT
1 TTAAATATAGAATAAAAATT
13594229 TTAAATA
1 TTAAATA
13594236 ATAATGATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 1 0.04
20 15 0.65
21 7 0.30
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.33
Consensus pattern (20 bp):
TTAAATATAGAATAAAAATT
Found at i:13594240 original size:3 final size:3
Alignment explanation
Indices: 13594232--13594267 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
13594222 AAAAATTTTA
*
13594232 AAT AAT AAT GAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
13594268 TTACTTGGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:13604041 original size:29 final size:29
Alignment explanation
Indices: 13604009--13604068 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
13603999 ATTATTAATA
*
13604009 AATA-ATAAAAT-ATAGCAAATATATTTATT
1 AATATATAAAATAATA--AAATATATATATT
*
13604038 AATATATTAAATAATAAAATATATATATT
1 AATATATAAAATAATAAAATATATATATT
13604067 AA
1 AA
13604069 ATTAACAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 18 0.67
30 6 0.22
31 3 0.11
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (29 bp):
AATATATAAAATAATAAAATATATATATT
Found at i:13604877 original size:38 final size:40
Alignment explanation
Indices: 13604810--13604886 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 40
13604800 GGCATGACTT
13604810 TAGAACTTGAATTTGAAAAAAAAAATCAAATTAT-TATAG
1 TAGAACTTGAATTTGAAAAAAAAAATCAAATTATATATAG
13604849 TAGAACTTGAATTTG-AAAAAAAAATCAAATTATATATA
1 TAGAACTTGAATTTGAAAAAAAAAATCAAATTATATATA
13604887 ATTTGAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
38 18 0.49
39 19 0.51
ACGTcount: A:0.55, C:0.05, G:0.09, T:0.31
Consensus pattern (40 bp):
TAGAACTTGAATTTGAAAAAAAAAATCAAATTATATATAG
Found at i:13606855 original size:15 final size:15
Alignment explanation
Indices: 13606837--13606870 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
13606827 ATTAATTCTT
13606837 AAAATAAATATATAA
1 AAAATAAATATATAA
* *
13606852 AAAATTAATATTTAA
1 AAAATAAATATATAA
13606867 AAAA
1 AAAA
13606871 AATTTATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAATAAATATATAA
Found at i:13613763 original size:15 final size:15
Alignment explanation
Indices: 13613743--13613771 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
13613733 ATAGTTCCAT
13613743 TTGTTGTATGATCAC
1 TTGTTGTATGATCAC
13613758 TTGTTGTATGATCA
1 TTGTTGTATGATCA
13613772 AACGCTTAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.10, G:0.21, T:0.48
Consensus pattern (15 bp):
TTGTTGTATGATCAC
Found at i:13618650 original size:17 final size:17
Alignment explanation
Indices: 13618628--13618661 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
13618618 TCTTGGTATA
*
13618628 GCATTTGACTGTTAGTT
1 GCATTTGACCGTTAGTT
13618645 GCATTTGACCGTTAGTT
1 GCATTTGACCGTTAGTT
13618662 ATAGTGATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.15, G:0.24, T:0.44
Consensus pattern (17 bp):
GCATTTGACCGTTAGTT
Found at i:13621414 original size:161 final size:159
Alignment explanation
Indices: 13621015--13622659 Score: 1291
Period size: 161 Copynumber: 10.3 Consensus size: 159
13621005 GATTACAAAC
* * * * * *
13621015 ACATAAATCGCAACTTATTCATGCATATCAAGCATGGAAGCTAAGGTAAAACATTC-GAACAAGT
1 ACATAAA-CGTAACTTATTCATGCATATCAAGCATGGAAACCAAGTTCAATCATTCAG-ACAAGT
* * * *
13621079 TTAATATCATGTATTGGTGCTATCTAAATTGTTAAAATAGAACTATAACTACAAAATTATATTTT
64 TTAATATCATGTATTAGAGCTATCTAAACTGTTAAAATAGAAATATAACTACAAAATTATATTTT
* * * * *
13621144 TATCCTTTTACGATACAAAAGTCCTAAATAG
129 TACCCTTTAATGACACAAAAGTCCTAAACAG
* *** * * *
13621175 ACATAAACTGTAACTTTTTCACATATATCAAGTATAGAAACCAAGTTCAATTATTCAGACAAGTT
1 ACATAAAC-GTAACTTATTCATGCATATCAAGCATGGAAACCAAGTTCAATCATTCAGACAAGTT
*
13621240 TAATATCATGTATTAGAGCTATCTAAACTGTTAAAATAGAAATATAACTATAAAATTATATTTTT
65 TAATATCATGTATTAGAGCTATCTAAACTGTTAAAATAGAAATATAACTACAAAATTATATTTTT
* * ** *
13621305 GCCCATTAACAACACAAAAGATCCTAAATAG
130 ACCCTTTAATGACACAAAAG-TCCTAAACAG
** * * * * * *
13621336 ACATAAATCGTAACTTATTCATGCATATCAAGTGTGGCAGCCAATTTCAAACATTTAGATAAGTT
1 ACATAAA-CGTAACTTATTCATGCATATCAAGCATGGAAACCAAGTTCAATCATTCAGACAAGTT
* *
13621401 TAATATCATGTATTAGAGCTATCTAAATTGTTAAAATAGAAATATAATTACAAAATTATATTTTT
65 TAATATCATGTATTAGAGCTATCTAAACTGTTAAAATAGAAATATAACTACAAAATTATATTTTT
* * * *
13621466 ACCCTTTGATGATATAAAAAGTCCTAAACAA
130 ACCCTTTAATGACA-CAAAAGTCCTAAACAG
** * * * * *
13621497 ACATAAACCACAACTTATTCATGCATATCAAGCATGAAAACTAAGTTCAATAATTCAAATAAGTT
1 ACATAAA-CGTAACTTATTCATGCATATCAAGCATGGAAACCAAGTTCAATCATTCAGACAAGTT
* * * * * * *
13621562 TAATATCATGTATTGGAGCTATCCAAATTGTTAAAACATAACTAT-ACTACAAAATTATATTTCT
65 TAATATCATGTATTAGAGCTATCTAAACTGTTAAAATAGAAATATAACTACAAAATTATATTTTT
* * * *
13621626 ACCTTTTAATGGCACAAAAAATCTTAAACAG
130 ACCCTTTAATGACAC-AAAAGTCCTAAACAG
* * * ** * * * * *
13621657 AGACAAAC-TACAACTTTTTCACACATATTAAGCGTGGAAACCAAATTCAATCATTCAAACAATT
1 ACATAAACGT--AACTTATTCATGCATATCAAGCATGGAAACCAAGTTCAATCATTCAGACAAGT
* * * ** * ** * * *
13621721 TTAATATCATATATT-GAAGCTACCTAAACTATTAAAATAGAGCTATAATTGTATATTTACATTT
64 TTAATATCATGTATTAG-AGCTATCTAAACTGTTAAAATAGAAATATAACTACAAAATTATATTT
* * * * *
13621785 TTGCCCATTGAA-GGCATAGAAAGTCCCAAACAG
128 TTACCC-TTTAATGACACA-AAAGTCCTAAACAG
* * * ** * ** * *
13621818 ACATATACTGAAAACTTATTCATGCGTATCAAGTGTGG-AACCAATTTCAATCATTTGGATAAAT
1 ACATAAAC-G-TAACTTATTCATGCATATCAAGCATGGAAACCAAGTTCAATCATTCAGACAAGT
* * **
13621882 TTAGTATCATGTA-TA-A---A--T----TGTTAAAATAGAAATATAATTGTAAAATTATATTTT
64 TTAATATCATGTATTAGAGCTATCTAAACTGTTAAAATAGAAATATAACTACAAAATTATATTTT
* *
13621936 TACCCTTTGATGGTACA-AAAAGTCCTAAATAG
129 TACCCTTTAAT-G-ACACAAAAGTCCTAAACAG
* ** * *
13621968 ACATAAACTGTAACTTTTTCACACATATCAAGCATGGAATCCAAGTTCAATCATTCGGACAAGTT
1 ACATAAAC-GTAACTTATTCATGCATATCAAGCATGGAAACCAAGTTCAATCATTCAGACAAGTT
* * * * **
13622033 TAATATAATATATTAGAGCTATCTAAATTGTT-AAATAGAATTATAACTACAAAATTATACCTTT
65 TAATATCATGTATTAGAGCTATCTAAACTGTTAAAATAGAAATATAACTACAAAATTATATTTTT
** *
13622097 AATCTTTAATGGCACAACAAG-CCTTAAACAG
130 ACCCTTTAATGACACAA-AAGTCC-TAAACAG
* * * * * * * *
13622128 ACATAAATCGTAACTTATTCATGTATATCAAGCATAGTAACCAATTTCAGTTATTCAAATAAGTT
1 ACATAAA-CGTAACTTATTCATGCATATCAAGCATGGAAACCAAGTTCAATCATTCAGACAAGTT
* * * * * * * * * *
13622193 TAATATCATGT-TTTGAAACTATTTAAACTATTAAAACATAAATATAATTGCAAATTTACATTTT
65 TAATATCATGTATTAG-AGCTATCTAAACTGTTAAAATAGAAATATAACTACAAAATTATATTTT
* * * *
13622257 TGCCCCTTAATGGCACAAAAAGTCCTAAATAG
129 TACCCTTTAATGACAC-AAAAGTCCTAAACAG
* * * * *
13622289 ACATAAATCGTAACTTATTCATGCATATCAAGCGTGGCAATCAAGTTCAAACATTCAAACAAGTT
1 ACATAAA-CGTAACTTATTCATGCATATCAAGCATGGAAACCAAGTTCAATCATTCAGACAAGTT
* * * *
13622354 TAATATTATGTATTGGAGCTATCTAAACTGTTAAAATAGAAATATAACTATAAATTTATATTTTT
65 TAATATCATGTATTAGAGCTATCTAAACTGTTAAAATAGAAATATAACTACAAAATTATATTTTT
* ** *
13622419 ACCCTTTGACAACACAAAAAGTCTTAAACAG
130 ACCCTTTAATGACAC-AAAAGTCCTAAACAG
* ** * * * ** * *
13622450 ACATAAACCATAACTTATTCATGCATATCAAGTGTGGCAACCAAGTTTAAGCATTTGGATAAGTG
1 ACATAAA-CGTAACTTATTCATGCATATCAAGCATGGAAACCAAGTTCAATCATTCAGACAAGTT
* * * * * * *
13622515 TAATATCATGTACTAGAGCTATCTAAACTATTAAAACATAAAT-TTATTGCAAAATTATATTTTT
65 TAATATCATGTATTAGAGCTATCTAAACTGTTAAAATAGAAATATAACTACAAAATTATATTTTT
* * * * *
13622579 GCCATTTGATGACACAAAAAGTCTTAAATAG
130 ACCCTTTAATGACAC-AAAAGTCCTAAACAG
* * * *
13622610 ACATAAACTATAACTTATTTATGTATATCAAGCATGGAAATCAAGTTCAA
1 ACATAAAC-GTAACTTATTCATGCATATCAAGCATGGAAACCAAGTTCAA
13622660 ATATTTGGAT
Statistics
Matches: 1176, Mismatches: 268, Indels: 82
0.77 0.18 0.05
Matches are distributed among these distances:
149 23 0.02
150 86 0.07
151 4 0.00
152 3 0.00
154 1 0.00
155 1 0.00
156 1 0.00
157 1 0.00
158 2 0.00
159 13 0.01
160 442 0.38
161 562 0.48
162 37 0.03
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (159 bp):
ACATAAACGTAACTTATTCATGCATATCAAGCATGGAAACCAAGTTCAATCATTCAGACAAGTTT
AATATCATGTATTAGAGCTATCTAAACTGTTAAAATAGAAATATAACTACAAAATTATATTTTTA
CCCTTTAATGACACAAAAGTCCTAAACAG
Found at i:13621618 original size:321 final size:320
Alignment explanation
Indices: 13621015--13622660 Score: 1432
Period size: 321 Copynumber: 5.2 Consensus size: 320
13621005 GATTACAAAC
* * * * * *
13621015 ACATAAATCGCAACTTATTCATGCATATCAAGCATGGAAGCTAAGGTAAAACATTC-GAACAAGT
1 ACATAAA-CGTAACTTATTCATGCATATCAAGCGTGGAAACCAAGTTCAAACATTCAG-ACAAGT
* * *
13621079 TTAATATCATGTATTGGTGCTATCTAAATTGTTAAAATAGAACTATAACTACAAAATTATATTTT
64 TTAATATCATGTATTAGAGCTATCTAAATTGTTAAAATAGAAATATAACTACAAAATTATATTTT
* * * * ** * ***
13621144 TATCCTTTTACGATAC-AAAAGTCCTAAATAGACATAAACTGTAACTTTTTCACATATATCAAGT
129 TACCCTTTGACGACACAAAAAGTCCTAAACAGACATAAACCATAACTTATTCATGCATATCAAGT
* *
13621208 AT-AGAAACCAAGTTCAATTATTCAGACAAGTTTAATATCATGTATTAGAGCTATCTAAACTGTT
194 ATGA-AAACCAAGTTCAATCATTCAGATAAGTTTAATATCATGTATTAGAGCTATCTAAACTGTT
* * * ** **
13621272 AAAATAGAAATATAACTATAAAATTATATTTTTGCCCATTAACAACACAAAAGATCCTAAATAG
258 AAAACATAAATATAATTGCAAAATTATATTTTTGCCCATTAATGACACAAAA-ATCCTAAATAG
* * * * * *
13621336 ACATAAATCGTAACTTATTCATGCATATCAAGTGTGGCAGCCAATTTCAAACATTTAGATAAGTT
1 ACATAAA-CGTAACTTATTCATGCATATCAAGCGTGGAAACCAAGTTCAAACATTCAGACAAGTT
*
13621401 TAATATCATGTATTAGAGCTATCTAAATTGTTAAAATAGAAATATAATTACAAAATTATATTTTT
65 TAATATCATGTATTAGAGCTATCTAAATTGTTAAAATAGAAATATAACTACAAAATTATATTTTT
* * * * * *
13621466 ACCCTTTGATGATATAAAAAGTCCTAAACAAACATAAACCACAACTTATTCATGCATATCAAGCA
130 ACCCTTTGACGACACAAAAAGTCCTAAACAGACATAAACCATAACTTATTCATGCATATCAAGTA
* * * * * *
13621531 TGAAAACTAAGTTCAATAATTCAAATAAGTTTAATATCATGTATTGGAGCTATCCAAATTGTTAA
195 TGAAAACCAAGTTCAATCATTCAGATAAGTTTAATATCATGTATTAGAGCTATCTAAACTGTTAA
* * * * * ** * * *
13621596 AACATAACTAT-ACTACAAAATTATATTTCTACCTTTTAATGGCACAAAAAATCTTAAACAG
260 AACATAAATATAATTGCAAAATTATATTTTTGCCCATTAATGACAC-AAAAATCCTAAATAG
* * * ** * * * * *
13621657 AGACAAAC-TACAACTTTTTCACACATATTAAGCGTGGAAACCAAATTCAATCATTCAAACAATT
1 ACATAAACGT--AACTTATTCATGCATATCAAGCGTGGAAACCAAGTTCAAACATTCAGACAAGT
* * * * ** * ** * * *
13621721 TTAATATCATATATT-GAAGCTACCTAAACTATTAAAATAGAGCTATAATTGTATATTTACATTT
64 TTAATATCATGTATTAG-AGCTATCTAAATTGTTAAAATAGAAATATAACTACAAAATTATATTT
* * * * * * * * * * *
13621785 TTGCCCATTGAAGGCATAGAAAGTCCCAAACAGACATATACTGAAAACTTATTCATGCGTATCAA
128 TTACCCTTTGACGACACAAAAAGTCCTAAACAGACATAAAC-CATAACTTATTCATGCATATCAA
* * * ** * *
13621850 GTGTG-GAACCAATTTCAATCATTTGGATAAATTTAGTATCATGTA-TA-A---A--T----TGT
192 GTATGAAAACCAAGTTCAATCATTCAGATAAGTTTAATATCATGTATTAGAGCTATCTAAACTGT
* * * * * * **
13621903 TAAAATAGAAATATAATTGTAAAATTATATTTTTACCCTTTGATGGTACAAAAAGTCCTAAATAG
257 TAAAACATAAATATAATTGCAAAATTATATTTTTGCCCATTAATGACACAAAAA-TCCTAAATAG
* ** * * * *
13621968 ACATAAACTGTAACTTTTTCACACATATCAAGCATGGAATCCAAGTTCAATCATTCGGACAAGTT
1 ACATAAAC-GTAACTTATTCATGCATATCAAGCGTGGAAACCAAGTTCAAACATTCAGACAAGTT
* * * **
13622033 TAATATAATATATTAGAGCTATCTAAATTGTT-AAATAGAATTATAACTACAAAATTATACCTTT
65 TAATATCATGTATTAGAGCTATCTAAATTGTTAAAATAGAAATATAACTACAAAATTATATTTTT
** * * * * * * * *
13622097 AATCTTTAATGGCACAACAAG-CCTTAAACAGACATAAATCGTAACTTATTCATGTATATCAAGC
130 ACCCTTTGACGACACAAAAAGTCC-TAAACAGACATAAACCATAACTTATTCATGCATATCAAGT
* * * * * * * * *
13622161 AT-AGTAACCAATTTCAGTTATTCAAATAAGTTTAATATCATGT-TTTGAAACTATTTAAACTAT
194 ATGA-AAACCAAGTTCAATCATTCAGATAAGTTTAATATCATGTATTAG-AGCTATCTAAACTGT
* * * *
13622224 TAAAACATAAATATAATTGCAAATTTACATTTTTGCCCCTTAATGGCACAAAAAGTCCTAAATAG
257 TAAAACATAAATATAATTGCAAAATTATATTTTTGCCCATTAATGACACAAAAA-TCCTAAATAG
* * *
13622289 ACATAAATCGTAACTTATTCATGCATATCAAGCGTGGCAATCAAGTTCAAACATTCAAACAAGTT
1 ACATAAA-CGTAACTTATTCATGCATATCAAGCGTGGAAACCAAGTTCAAACATTCAGACAAGTT
* * * * *
13622354 TAATATTATGTATTGGAGCTATCTAAACTGTTAAAATAGAAATATAACTATAAATTTATATTTTT
65 TAATATCATGTATTAGAGCTATCTAAATTGTTAAAATAGAAATATAACTACAAAATTATATTTTT
* * *
13622419 ACCCTTTGACAACACAAAAAGTCTTAAACAGACATAAACCATAACTTATTCATGCATATCAAGTG
130 ACCCTTTGACGACACAAAAAGTCCTAAACAGACATAAACCATAACTTATTCATGCATATCAAGTA
** * * ** * * *
13622484 TGGCAACCAAGTTTAAGCATTTGGATAAGTGTAATATCATGTACTAGAGCTATCTAAACTATTAA
195 TGAAAACCAAGTTCAATCATTCAGATAAGTTTAATATCATGTATTAGAGCTATCTAAACTGTTAA
* * *
13622549 AACATAAAT-TTATTGCAAAATTATATTTTTG-CCATTTGATGACACAAAAAGTCTTAAATAG
260 AACATAAATATAATTGCAAAATTATATTTTTGCCCA-TTAATGACACAAAAA-TCCTAAATAG
* * * * *
13622610 ACATAAACTATAACTTATTTATGTATATCAAGCATGGAAATCAAGTTCAAA
1 ACATAAAC-GTAACTTATTCATGCATATCAAGCGTGGAAACCAAGTTCAAA
13622661 TATTTGGATA
Statistics
Matches: 1059, Mismatches: 231, Indels: 70
0.78 0.17 0.05
Matches are distributed among these distances:
309 22 0.02
310 97 0.09
311 114 0.11
312 2 0.00
313 1 0.00
315 1 0.00
316 1 0.00
317 1 0.00
319 2 0.00
320 6 0.01
321 544 0.51
322 264 0.25
323 4 0.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (320 bp):
ACATAAACGTAACTTATTCATGCATATCAAGCGTGGAAACCAAGTTCAAACATTCAGACAAGTTT
AATATCATGTATTAGAGCTATCTAAATTGTTAAAATAGAAATATAACTACAAAATTATATTTTTA
CCCTTTGACGACACAAAAAGTCCTAAACAGACATAAACCATAACTTATTCATGCATATCAAGTAT
GAAAACCAAGTTCAATCATTCAGATAAGTTTAATATCATGTATTAGAGCTATCTAAACTGTTAAA
ACATAAATATAATTGCAAAATTATATTTTTGCCCATTAATGACACAAAAATCCTAAATAG
Found at i:13624006 original size:33 final size:33
Alignment explanation
Indices: 13623963--13624040 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 33
13623953 AGGGTTTCAA
13623963 TTAGATGTTTAGGAT-TAACATTTAGATTTAGGGT
1 TTAGA-GTTTAGG-TGTAACATTTAGATTTAGGGT
* * *
13623997 TTAGAGTTTAAGTGTAAGATTTTGATTTAGGGT
1 TTAGAGTTTAGGTGTAACATTTAGATTTAGGGT
*
13624030 TTGGA-TTTAGG
1 TTAGAGTTTAGG
13624041 GTTTTAAGTT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
32 6 0.16
33 27 0.71
34 5 0.13
ACGTcount: A:0.27, C:0.01, G:0.27, T:0.45
Consensus pattern (33 bp):
TTAGAGTTTAGGTGTAACATTTAGATTTAGGGT
Found at i:13625669 original size:145 final size:143
Alignment explanation
Indices: 13625450--13625719 Score: 332
Period size: 145 Copynumber: 1.9 Consensus size: 143
13625440 GGATTGTAAA
* * * * * * *
13625450 GCACTAAAAATCATGAAATATTATGAAATTAAGATTTAAAAATTTTTGTGAAAATCTGATCTTGT
1 GCACCAAAAATCATCAAATATTATAAAATCAAGATTTAAAAATTTTTGTGAAAATCTGACCTCGA
* ** *
13625515 GAAAGTCAAATTATGAAAA-TA-CTCGTAAGGGGTATTTTGGGTAATTTTACACCTTTTAAGGTG
66 GAAAGTCAAATTA--AAAATTACCT-ATAAGGGGTATTTT-AATAATTTCACACCTTTTAAGGTG
13625578 TTAATGTGATTTTGAAT
127 TTAATGTGATTTTGAAT
* *
13625595 GCACCAAAAATCATCAAATATTATAAAATCATGATTTGAAAATTTTTGTGAAAAATC-GACCTCG
1 GCACCAAAAATCATCAAATATTATAAAATCAAGATTTAAAAATTTTTGTG-AAAATCTGACCTCG
*
13625659 AGAATA-TCAAATTAAAAATTACCTATAAGGGGTATTTTAATAATTTCACATCTTTTAAGGT
65 AGAA-AGTCAAATTAAAAATTACCTATAAGGGGTATTTTAATAATTTCACACCTTTTAAGGT
13625720 ACAATTAGGG
Statistics
Matches: 107, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
143 23 0.21
144 15 0.14
145 62 0.58
146 7 0.07
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (143 bp):
GCACCAAAAATCATCAAATATTATAAAATCAAGATTTAAAAATTTTTGTGAAAATCTGACCTCGA
GAAAGTCAAATTAAAAATTACCTATAAGGGGTATTTTAATAATTTCACACCTTTTAAGGTGTTAA
TGTGATTTTGAAT
Found at i:13626564 original size:30 final size:30
Alignment explanation
Indices: 13626524--13626583 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
13626514 TGCTATTACT
* *
13626524 ATAGGTAGGTAACTTCTAAAAATCTGTCTA
1 ATAGGCAGGTAACTTCTAAAAATCTATCTA
*
13626554 ATAGGCAGGTAACTTTTAAAAATCTATCTA
1 ATAGGCAGGTAACTTCTAAAAATCTATCTA
13626584 GAAAAGGGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (30 bp):
ATAGGCAGGTAACTTCTAAAAATCTATCTA
Found at i:13626707 original size:51 final size:50
Alignment explanation
Indices: 13626564--13626719 Score: 174
Period size: 50 Copynumber: 3.1 Consensus size: 50
13626554 ATAGGCAGGT
* * *
13626564 AACTTTT-AAAAATCTATCT-AGAAAAGGGTTCCTATTAACATAGGCAACG
1 AACTTTTAAAAAATCTATCTGAAAAAAGGGTTCATA-TAACATAGGCAATG
* * * *
13626613 AACTTTAAAAAAATCTATCTGAAAAAA-AGCTCATATGAACATAGCCAATG
1 AACTTTTAAAAAATCTATCTGAAAAAAGGGTTCATAT-AACATAGGCAATG
** *
13626663 AACTTTTAAAAAATCTATCTGAAAAAAGGGTTTTTAGTAGCATAGGCAATG
1 AACTTTTAAAAAATCTATCTGAAAAAAGGGTTCATA-TAACATAGGCAATG
13626714 AACTTT
1 AACTTT
13626720 AAGAAAAAAA
Statistics
Matches: 88, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
49 7 0.08
50 54 0.61
51 26 0.30
52 1 0.01
ACGTcount: A:0.44, C:0.14, G:0.13, T:0.29
Consensus pattern (50 bp):
AACTTTTAAAAAATCTATCTGAAAAAAGGGTTCATATAACATAGGCAATG
Found at i:13637008 original size:11 final size:11
Alignment explanation
Indices: 13636992--13637020 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
13636982 AAAGAAGCAA
13636992 ACAAAAAAATT
1 ACAAAAAAATT
13637003 AC-AAAAAATT
1 ACAAAAAAATT
13637013 ACAAAAAA
1 ACAAAAAA
13637021 TAAAAGAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.76, C:0.10, G:0.00, T:0.14
Consensus pattern (11 bp):
ACAAAAAAATT
Found at i:13637018 original size:9 final size:10
Alignment explanation
Indices: 13636995--13637021 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
13636985 GAAGCAAACA
13636995 AAAAAATTAC
1 AAAAAATTAC
13637005 AAAAAATTAC
1 AAAAAATTAC
13637015 AAAAAAT
1 AAAAAAT
13637022 AAAAGAAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.74, C:0.07, G:0.00, T:0.19
Consensus pattern (10 bp):
AAAAAATTAC
Found at i:13637044 original size:9 final size:9
Alignment explanation
Indices: 13637031--13637068 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
13637021 TAAAAGAAGC
13637031 AAAAAGA-A
1 AAAAAGAGA
13637039 AGAAAAGAGA
1 A-AAAAGAGA
13637049 AAAAAGAGA
1 AAAAAGAGA
*
13637058 AAAAAGGGA
1 AAAAAGAGA
13637067 AA
1 AA
13637069 CTTAGACTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
8 1 0.04
9 24 0.89
10 2 0.07
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (9 bp):
AAAAAGAGA
Found at i:13638147 original size:115 final size:112
Alignment explanation
Indices: 13637798--13638168 Score: 337
Period size: 115 Copynumber: 3.2 Consensus size: 112
13637788 ACTCATTCCA
* * * *
13637798 ATCTTGGCTCAATCCAAATCATTTTCTTAACTTGCGGCATCATCTCGGTCATTCATCTTTGTCCT
1 ATCTTGGCTCAGTCCAGATCATTTTTTTAACTTGC-GCATCATC-CGGTCATTCATCTTTGACCT
* * *
13637863 CGACTCAATCCTAGTCATTTTTAGACTCACAACATCATCTCAGTCATTT
64 CGACTCGATCCTAGTCATTTTCAGACTCACAGCATCATCTCAGTCATTT
* * * ** *
13637912 AATCTTAGATCAGTCCAGATCATTTTTTTGACTTGCGACATCATCCTAATCATTCATCTATGACC
1 -ATCTTGGCTCAGTCCAGATCATTTTTTTAACTTGCG-CATCATCC-GGTCATTCATCTTTGACC
* * * * ** * * * *
13637977 TTGACTTGGTCCTAGTCACTTTCAGACTCATGGCATTATCCCTGTCAGTTG
63 TCGACTCGATCCTAGTCATTTTCAGACTCACAGCATCATCTCAGTCA-TTT
* * * * *
13638028 ATCTTGGCTCAGTCTAGACCATTTTTTTTACTTGCAGCATCATCGCGGTTATTTATCTTTGACCT
1 ATCTTGGCTCAGTCCAGATCATTTTTTTAACTTGC-GCATCATC-CGGTCATTCATCTTTGACCT
* * * * *
13638093 CGACTCGATCCTGGTCATTTTCAAACTCGCAGCATCGTCTCAATCATTCT
64 CGACTCGATCCTAGTCATTTTCAGACTCACAGCATCATCTCAGTCATT-T
* * *
13638143 ATCTTGACTCAGTCTAGATCACTTTT
1 ATCTTGGCTCAGTCCAGATCATTTTT
13638169 CTGACTTATG
Statistics
Matches: 199, Mismatches: 51, Indels: 12
0.76 0.19 0.05
Matches are distributed among these distances:
114 4 0.02
115 191 0.96
116 4 0.02
ACGTcount: A:0.22, C:0.26, G:0.13, T:0.38
Consensus pattern (112 bp):
ATCTTGGCTCAGTCCAGATCATTTTTTTAACTTGCGCATCATCCGGTCATTCATCTTTGACCTCG
ACTCGATCCTAGTCATTTTCAGACTCACAGCATCATCTCAGTCATTT
Found at i:13638462 original size:34 final size:33
Alignment explanation
Indices: 13638423--13638486 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
13638413 AATCTTTGTG
* * *
13638423 AATTTAGAACTTTTACGAAACTTGGAATCTTGCA
1 AATTTAAAAC-TTTACAAAACTTGAAATCTTGCA
*
13638457 AATTTAAAACTTTGCAAAACTTGAAATCTT
1 AATTTAAAACTTTACAAAACTTGAAATCTT
13638487 ATGAAATTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 17 0.65
34 9 0.35
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (33 bp):
AATTTAAAACTTTACAAAACTTGAAATCTTGCA
Found at i:13639202 original size:51 final size:50
Alignment explanation
Indices: 13639065--13639213 Score: 138
Period size: 51 Copynumber: 2.9 Consensus size: 50
13639055 AACTGTAATT
* * **
13639065 GAGAGATTTTTTAGATTTAATTTCAGAATCAATTGGCATTAAAAGTGATGTG
1 GAGAGATTTTTGAGATTT-ATTTCAAAATCAATTCACATTAAAA-TGATGTG
* * * * * *
13639117 GAAAGATTGTCGAGATTTAATTCGATAATTAATTCACATTAAAATGATAG-G
1 GAGAGATTTTTGAGATTTATTTC-AAAATCAATTCACATTAAAATGAT-GTG
* *
13639168 GAGAGATTTTTGGGATTTGATTTCAAAATCAATTCTCATTAAAATG
1 GAGAGATTTTTGAGATTT-ATTTCAAAATCAATTCACATTAAAATG
13639214 GTAACCAAAT
Statistics
Matches: 77, Mismatches: 17, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
51 42 0.55
52 35 0.45
ACGTcount: A:0.37, C:0.07, G:0.19, T:0.37
Consensus pattern (50 bp):
GAGAGATTTTTGAGATTTATTTCAAAATCAATTCACATTAAAATGATGTG
Found at i:13639764 original size:15 final size:15
Alignment explanation
Indices: 13639729--13639767 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
13639719 GATTCTATTT
* *
13639729 TTCTTCTTTTGTTTA
1 TTCTTATTTAGTTTA
13639744 -TCTTATTTAGTTTA
1 TTCTTATTTAGTTTA
13639758 TTCTTATTTA
1 TTCTTATTTA
13639768 CTCTTATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (15 bp):
TTCTTATTTAGTTTA
Found at i:13641743 original size:26 final size:26
Alignment explanation
Indices: 13641714--13641765 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
13641704 TTTTTGCCTT
*
13641714 TTTTTGTT-TGCTTCTTTTTTCTTTTC
1 TTTTTGTTCTGATT-TTTTTTCTTTTC
*
13641740 TTTTTTTTCTGATTTTTTTTCTTTTC
1 TTTTTGTTCTGATTTTTTTTCTTTTC
13641766 ATTTCTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.02, C:0.13, G:0.06, T:0.79
Consensus pattern (26 bp):
TTTTTGTTCTGATTTTTTTTCTTTTC
Found at i:13641748 original size:14 final size:14
Alignment explanation
Indices: 13641661--13641775 Score: 58
Period size: 15 Copynumber: 7.9 Consensus size: 14
13641651 CCTTTTATTC
13641661 TCTTTTCTTTCTTTT
1 TCTTTTCTTT-TTTT
13641676 TGC--TTCTTTTTTT
1 T-CTTTTCTTTTTTT
* *
13641689 T-TTAATGTTTTATTT
1 TCTT-TTCTTTT-TTT
*
13641704 T-TTTTGCCTTTTTT
1 TCTTTT-CTTTTTTT
* *
13641718 TGTTTGCTTCTTTTT
1 TCTTTTCTT-TTTTT
13641733 TCTTTTCTTTTTTT
1 TCTTTTCTTTTTTT
*
13641747 TCTGATTTTTTTTCTTT
1 TCT--TTTCTTTT-TTT
*
13641764 TCATTTCTTTTT
1 TCTTTTCTTTTT
13641776 CCCTTTTATT
Statistics
Matches: 77, Mismatches: 12, Indels: 23
0.69 0.11 0.21
Matches are distributed among these distances:
13 5 0.06
14 27 0.35
15 32 0.42
16 8 0.10
17 5 0.06
ACGTcount: A:0.04, C:0.13, G:0.05, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTTT
Found at i:13646244 original size:84 final size:84
Alignment explanation
Indices: 13646124--13646361 Score: 243
Period size: 84 Copynumber: 2.8 Consensus size: 84
13646114 TCATGCTCAA
* * * *
13646124 AGGACTTGGAGACTACA-CTTGAAGGTCTTATAAATCTCGACTCTAAAATAGATTCAGCTCAAAA
1 AGGACTTAGAGATTACACCTAG-AGGTCTTACAAATCTCGACTCTAAAATAGATTCAGCTCAAAA
*
13646188 GCCTTACAAA-CTTTGCCCA-G
65 GACTTACAAATC-TTG-CCAGG
* * * *
13646208 ATGACTTAGAGATTACACCTAGAGGTTTTACAAATCTCGACTCTAAAATAGATTTAGCTCATAAG
1 AGGACTTAGAGATTACACCTAGAGGTCTTACAAATCTCGACTCTAAAATAGATTCAGCTCAAAAG
*
13646273 ACTTACAAATCTTGCTAGG
66 ACTTACAAATCTTGCCAGG
** * * * * *
13646292 AGGACTTAGAGATTA-TGCTTGAGGGTCTTACAAAACTCGAAC-CTAAAACAGATTCAACTTAAA
1 AGGACTTAGAGATTACACCTAGA-GGTCTTACAAATCTCG-ACTCTAAAATAGATTCAGCTCAAA
13646355 AGACTTA
64 AGACTTA
13646362 TGAATCTTAT
Statistics
Matches: 128, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
83 6 0.05
84 116 0.91
85 6 0.05
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (84 bp):
AGGACTTAGAGATTACACCTAGAGGTCTTACAAATCTCGACTCTAAAATAGATTCAGCTCAAAAG
ACTTACAAATCTTGCCAGG
Found at i:13647680 original size:17 final size:18
Alignment explanation
Indices: 13647644--13647676 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
13647634 TCTTTACTTT
13647644 TTTTGTTTTTGATATTCA
1 TTTTGTTTTTGATATTCA
13647662 TTTT-TTTTT-ATATTC
1 TTTTGTTTTTGATATTC
13647677 CATTATGCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 5 0.33
18 4 0.27
ACGTcount: A:0.15, C:0.06, G:0.06, T:0.73
Consensus pattern (18 bp):
TTTTGTTTTTGATATTCA
Found at i:13649053 original size:3 final size:3
Alignment explanation
Indices: 13649045--13649073 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
13649035 TATAATTTTA
13649045 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
13649074 ATTAATTAAT
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:13650015 original size:9 final size:8
Alignment explanation
Indices: 13649995--13650042 Score: 51
Period size: 8 Copynumber: 5.5 Consensus size: 8
13649985 TTTTATTTTA
13649995 TTTTTATT
1 TTTTTATT
*
13650003 TTTTCATT
1 TTTTTATT
13650011 TTTTTAATT
1 TTTTT-ATT
13650020 TTAATTTATT
1 TT--TTTATT
13650030 TTTGTTATT
1 TTT-TTATT
13650039 TTTT
1 TTTT
13650043 AAATATTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
8 13 0.38
9 13 0.38
10 5 0.15
11 3 0.09
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (8 bp):
TTTTTATT
Found at i:13650027 original size:27 final size:29
Alignment explanation
Indices: 13649981--13650042 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 29
13649971 TTTGTAAGTC
* *
13649981 TTTTTTTTATTTTATTTTTATTTTT-TCA
1 TTTTTTTAATTTTATATTTATTTTTGTCA
*
13650009 TTTTTTTAATTTTA-ATTTATTTTTGTTA
1 TTTTTTTAATTTTATATTTATTTTTGTCA
13650037 TTTTTT
1 TTTTTT
13650043 AAATATTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
27 9 0.30
28 21 0.70
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.81
Consensus pattern (29 bp):
TTTTTTTAATTTTATATTTATTTTTGTCA
Found at i:13650078 original size:18 final size:18
Alignment explanation
Indices: 13650035--13650080 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
13650025 TTATTTTTGT
*
13650035 TATTTTTTA-AATATTTT
1 TATTTTTTATAATATTTA
**
13650052 TATAATTTATAATATTTA
1 TATTTTTTATAATATTTA
13650070 TATTTTTTATA
1 TATTTTTTATA
13650081 TTAAAAATAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TATTTTTTATAATATTTA
Found at i:13650081 original size:9 final size:9
Alignment explanation
Indices: 13649983--13650082 Score: 52
Period size: 9 Copynumber: 11.2 Consensus size: 9
13649973 TGTAAGTCTT
13649983 TTTTTTAT-
1 TTTTTTATA
*
13649991 TTTATTTTTA
1 TTT-TTTATA
13650001 TTTTTTCAT-
1 TTTTTT-ATA
13650010 TTTTTTA-A
1 TTTTTTATA
13650018 TTTTAATT-TA
1 TTTT--TTATA
13650028 TTTTTGT-TA
1 TTTTT-TATA
*
13650037 TTTTTTAAA
1 TTTTTTATA
13650046 TATTTTTATA
1 T-TTTTTATA
*
13650056 --ATTTATA
1 TTTTTTATA
* *
13650063 ATATTTATA
1 TTTTTTATA
13650072 TTTTTTATA
1 TTTTTTATA
13650081 TT
1 TT
13650083 AAAAATAAAT
Statistics
Matches: 73, Mismatches: 7, Indels: 23
0.71 0.07 0.22
Matches are distributed among these distances:
7 6 0.08
8 10 0.14
9 39 0.53
10 18 0.25
ACGTcount: A:0.25, C:0.01, G:0.01, T:0.73
Consensus pattern (9 bp):
TTTTTTATA
Found at i:13652409 original size:34 final size:34
Alignment explanation
Indices: 13652333--13652410 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 34
13652323 TGGATTCCAT
* **
13652333 AAACCTATTTGAAAAAGATTTTTTTCTTTTTTTT
1 AAACTTATTTGAAAAAGATTTTTTTCTTTTTTAG
* *
13652367 ATATTTATTTGAAAAAGATTTTTTAT-TTTTTTAG
1 AAACTTATTTGAAAAAGATTTTTT-TCTTTTTTAG
13652401 AAACTTATTT
1 AAACTTATTT
13652411 ACTTTCAGCA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
34 35 0.97
35 1 0.03
ACGTcount: A:0.32, C:0.05, G:0.06, T:0.56
Consensus pattern (34 bp):
AAACTTATTTGAAAAAGATTTTTTTCTTTTTTAG
Found at i:13652489 original size:5 final size:5
Alignment explanation
Indices: 13652463--13652551 Score: 55
Period size: 5 Copynumber: 18.4 Consensus size: 5
13652453 TAAATTTATC
* * *
13652463 AAATAA AAATA AAAT- CAGTA AAATA AAA-A AACTA CAAATA AAATA AAATA
1 AAAT-A AAATA AAATA AAATA AAATA AAATA AAATA -AAATA AAATA AAATA
** *
13652513 AGCT- TAA-A AAATA AAATA AAAT- AAAT- AAATA TAAATA AA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA -AAATA AA
13652552 TGAAAAATAA
Statistics
Matches: 64, Mismatches: 12, Indels: 15
0.70 0.13 0.16
Matches are distributed among these distances:
4 15 0.23
5 36 0.56
6 13 0.20
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:13652504 original size:20 final size:23
Alignment explanation
Indices: 13652481--13652537 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
13652471 ATAAAATCAG
*
13652481 TAAAATAAAA-AAAC-T-ACAAA
1 TAAAATAAAATAAACTTAAAAAA
*
13652501 TAAAATAAAATAAGCTTAAAAAA
1 TAAAATAAAATAAACTTAAAAAA
13652524 TAAAATAAAATAAA
1 TAAAATAAAATAAA
13652538 TAAATATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 10 0.32
21 3 0.10
22 1 0.03
23 17 0.55
ACGTcount: A:0.74, C:0.05, G:0.02, T:0.19
Consensus pattern (23 bp):
TAAAATAAAATAAACTTAAAAAA
Found at i:13652552 original size:10 final size:10
Alignment explanation
Indices: 13652517--13652562 Score: 53
Period size: 9 Copynumber: 4.8 Consensus size: 10
13652507 AAAATAAGCT
13652517 TAAA-AAATA
1 TAAATAAATA
13652526 -AAATAAA-A
1 TAAATAAATA
13652534 TAAATAAATA
1 TAAATAAATA
13652544 TAAATAAATGA
1 TAAATAAAT-A
*
13652555 AAAATAAA
1 TAAATAAA
13652563 ACCTGCCATC
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
8 4 0.12
9 10 0.31
10 10 0.31
11 8 0.25
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (10 bp):
TAAATAAATA
Found at i:13652561 original size:15 final size:14
Alignment explanation
Indices: 13652463--13652562 Score: 53
Period size: 15 Copynumber: 6.9 Consensus size: 14
13652453 TAAATTTATC
13652463 AAATAAAAATAAAAT
1 AAATAAAAAT-AAAT
* * *
13652478 CAGT-AAAATAAAA
1 AAATAAAAATAAAT
*
13652491 AAACTACAAATAAAAT
1 AAA-TAAAAAT-AAAT
***
13652507 AAAATAAGCTTAAA-
1 -AAATAAAAATAAAT
13652521 AAAT-AAAATAAAAT
1 AAATAAAAAT-AAAT
*
13652535 AAATAAATATAAAT
1 AAATAAAAATAAAT
13652549 AAATGAAAAATAAA
1 AAAT-AAAAATAAA
13652563 ACCTGCCATC
Statistics
Matches: 61, Mismatches: 16, Indels: 16
0.66 0.17 0.17
Matches are distributed among these distances:
12 2 0.03
13 11 0.18
14 18 0.30
15 21 0.34
16 6 0.10
17 3 0.05
ACGTcount: A:0.73, C:0.04, G:0.03, T:0.20
Consensus pattern (14 bp):
AAATAAAAATAAAT
Found at i:13653406 original size:3 final size:3
Alignment explanation
Indices: 13653400--13653515 Score: 93
Period size: 3 Copynumber: 40.7 Consensus size: 3
13653390 GATGATGATG
* * * *
13653400 ATA ATA ATA ATA ATA ATA ATT ATT CTA ATA ATA ATA ATA ACA ATGA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A
* *
13653446 A-A AT- ATA AT- ATA ATA AGA GTA AT- ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
13653490 GT- GTA ATG ATA ATA AT- ATA AT- ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
13653516 GTAATGTGGT
Statistics
Matches: 91, Mismatches: 14, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
2 14 0.15
3 75 0.82
4 2 0.02
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:13653468 original size:14 final size:14
Alignment explanation
Indices: 13653451--13653515 Score: 62
Period size: 14 Copynumber: 4.6 Consensus size: 14
13653441 AATGAAAATA
13653451 TAATATAATAAGAG
1 TAATATAATAAGAG
* *
13653465 TAATATAATAATAA
1 TAATATAATAAGAG
*
13653479 TAATAATAAT-AGTG
1 TAAT-ATAATAAGAG
*
13653493 TAATGATAATAATA-
1 TAAT-ATAATAAGAG
13653507 TAATATAAT
1 TAATATAAT
13653516 GTAATGTGGT
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
13 5 0.12
14 30 0.73
15 6 0.15
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (14 bp):
TAATATAATAAGAG
Found at i:13653478 original size:42 final size:42
Alignment explanation
Indices: 13653427--13653515 Score: 110
Period size: 42 Copynumber: 2.1 Consensus size: 42
13653417 AATTATTCTA
13653427 ATAATAATAATAACAATGAA-AATATAAT-ATAATAAGAGTAAT
1 ATAATAATAATAACAAT-AATAATATAATGATAATAAGA-TAAT
* * * *
13653469 ATAATAATAATAATAATAATAGTGTAATGATAATAATATAAT
1 ATAATAATAATAACAATAATAATATAATGATAATAAGATAAT
13653511 ATAAT
1 ATAAT
13653516 GTAATGTGGT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
41 2 0.05
42 31 0.76
43 8 0.20
ACGTcount: A:0.60, C:0.01, G:0.07, T:0.33
Consensus pattern (42 bp):
ATAATAATAATAACAATAATAATATAATGATAATAAGATAAT
Found at i:13667816 original size:63 final size:63
Alignment explanation
Indices: 13667744--13667871 Score: 238
Period size: 63 Copynumber: 2.0 Consensus size: 63
13667734 TGGAAGCATA
*
13667744 TGTGCATATGCTTTTATAATGTTAAATATATGCTTGAATTGTATTGAAATGCTTACACATGTT
1 TGTGCATATGCTTTTATAATCTTAAATATATGCTTGAATTGTATTGAAATGCTTACACATGTT
*
13667807 TGTGCATATGCTTTTATAATCTTAAATATATGTTTGAATTGTATTGAAATGCTTACACATGTT
1 TGTGCATATGCTTTTATAATCTTAAATATATGCTTGAATTGTATTGAAATGCTTACACATGTT
13667870 TG
1 TG
13667872 GATTAAAGTG
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.45
Consensus pattern (63 bp):
TGTGCATATGCTTTTATAATCTTAAATATATGCTTGAATTGTATTGAAATGCTTACACATGTT
Found at i:13670421 original size:16 final size:16
Alignment explanation
Indices: 13670397--13670427 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13670387 CAAATATATC
*
13670397 AAGATGTGTGAATTTG
1 AAGAAGTGTGAATTTG
13670413 AAGAAGTGTGAATTT
1 AAGAAGTGTGAATTT
13670428 TTTTCATTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.29, T:0.35
Consensus pattern (16 bp):
AAGAAGTGTGAATTTG
Found at i:13675451 original size:13 final size:13
Alignment explanation
Indices: 13675389--13675580 Score: 149
Period size: 13 Copynumber: 14.2 Consensus size: 13
13675379 TCCAAACTCG
13675389 AAACCCTAAATCC-
1 AAACCCTAAA-CCT
* *
13675402 AAATCC-AAACCC
1 AAACCCTAAACCT
*
13675414 AAACTCTAAACCTT
1 AAACCCTAAACC-T
* *
13675428 AAAATCCTAAATCT
1 -AAACCCTAAACCT
* *
13675442 AAACCCTAAATCA
1 AAACCCTAAACCT
13675455 AAACCCTAAACCT
1 AAACCCTAAACCT
*
13675468 AAACCTTAAACTCTTACCT
1 AAACCCT-AA-----ACCT
13675487 AAACCCTAAACCT
1 AAACCCTAAACCT
13675500 AAACCCT-AACCT
1 AAACCCTAAACCT
13675512 AAACCCTAAACCT
1 AAACCCTAAACCT
*
13675525 AAACCCTAACCCT
1 AAACCCTAAACCT
*
13675538 AAACCATAAAACCT
1 AAACCCT-AAACCT
13675552 -AACCCTAAACCTT
1 AAACCCTAAACC-T
*
13675565 AAAACCCTAAATCT
1 -AAACCCTAAACCT
13675579 AA
1 AA
13675581 CCTAGACCCC
Statistics
Matches: 146, Mismatches: 18, Indels: 30
0.75 0.09 0.15
Matches are distributed among these distances:
11 2 0.01
12 24 0.16
13 80 0.55
14 9 0.06
15 19 0.13
18 2 0.01
19 10 0.07
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.19
Consensus pattern (13 bp):
AAACCCTAAACCT
Found at i:13675470 original size:6 final size:6
Alignment explanation
Indices: 13675408--13675563 Score: 109
Period size: 6 Copynumber: 24.0 Consensus size: 6
13675398 ATCCAAATCC
* * * *
13675408 AAACCC AAACTCT AAACCTT AAAATCCT AAATCT AAACCCT AAATCA AAACCCT
1 AAACCT AAAC-CT AAACC-T -AAA-CCT AAACCT AAA-CCT AAACCT AAA-CCT
*
13675462 AAACCT AAACCTT AAACTCT -TACCT AAACCCT AAACCT AAACCCT -AACCT
1 AAACCT AAACC-T AAAC-CT AAACCT AAA-CCT AAACCT AAA-CCT AAACCT
* *
13675512 AAACCCT AAACCT AAACCCT AACCCT AAACCAT AAAACCT AACCCT AAACCT
1 AAA-CCT AAACCT AAA-CCT AAACCT AAACC-T -AAACCT AAACCT AAACCT
13675564 TAAAACCCTA
Statistics
Matches: 121, Mismatches: 13, Indels: 32
0.73 0.08 0.19
Matches are distributed among these distances:
5 5 0.04
6 58 0.48
7 46 0.38
8 10 0.08
9 2 0.02
ACGTcount: A:0.46, C:0.35, G:0.00, T:0.19
Consensus pattern (6 bp):
AAACCT
Found at i:13675502 original size:25 final size:25
Alignment explanation
Indices: 13675459--13675580 Score: 140
Period size: 25 Copynumber: 4.7 Consensus size: 25
13675449 AAATCAAAAC
* *
13675459 CCTAAA-CCTAAACCTTAAACTCTTA
1 CCTAAACCCTAAACC-TAAACCCTAA
13675484 CCTAAACCCTAAACCTAAACCCTAA
1 CCTAAACCCTAAACCTAAACCCTAA
13675509 CCTAAACCCTAAACCTAAACCCTAA
1 CCTAAACCCTAAACCTAAACCCTAA
*
13675534 CCCTAAACCATAAAACCT-AACCCTAAA
1 -CCTAAACCCT-AAACCTAAACCCT-AA
*
13675561 CCTTAAAACCCTAAATCTAA
1 CC-T-AAACCCTAAACCTAA
13675581 CCTAGACCCC
Statistics
Matches: 85, Mismatches: 5, Indels: 11
0.84 0.05 0.11
Matches are distributed among these distances:
25 39 0.46
26 25 0.29
27 14 0.16
28 7 0.08
ACGTcount: A:0.44, C:0.36, G:0.00, T:0.20
Consensus pattern (25 bp):
CCTAAACCCTAAACCTAAACCCTAA
Found at i:13675542 original size:7 final size:7
Alignment explanation
Indices: 13675389--13675575 Score: 132
Period size: 7 Copynumber: 28.4 Consensus size: 7
13675379 TCCAAACTCG
13675389 AAACCCT
1 AAACCCT
*
13675396 AAATCC-
1 AAACCCT
*
13675402 AAATCC-
1 AAACCCT
13675408 AAACCC-
1 AAACCCT
*
13675414 AAACTCT
1 AAACCCT
*
13675421 AAACCTT
1 AAACCCT
*
13675428 AAAATCCT
1 -AAACCCT
*
13675436 AAA-TCT
1 AAACCCT
13675442 AAACCCT
1 AAACCCT
* *
13675449 AAA-TCA
1 AAACCCT
13675455 AAACCCT
1 AAACCCT
13675462 AAA-CCT
1 AAACCCT
*
13675468 AAACCTT
1 AAACCCT
*
13675475 AAACTCT
1 AAACCCT
*
13675482 -TA-CCT
1 AAACCCT
13675487 AAACCCT
1 AAACCCT
13675494 AAA-CCT
1 AAACCCT
13675500 AAACCCT
1 AAACCCT
13675507 -AA-CCT
1 AAACCCT
13675512 AAACCCT
1 AAACCCT
13675519 AAA-CCT
1 AAACCCT
13675525 AAACCCT
1 AAACCCT
13675532 -AACCCT
1 AAACCCT
*
13675538 AAACCAT
1 AAACCCT
*
13675545 AAAACCT
1 AAACCCT
13675552 -AACCCT
1 AAACCCT
*
13675558 AAACCTT
1 AAACCCT
13675565 AAAACCCT
1 -AAACCCT
13675573 AAA
1 AAA
13675576 TCTAACCTAG
Statistics
Matches: 141, Mismatches: 25, Indels: 28
0.73 0.13 0.14
Matches are distributed among these distances:
5 5 0.04
6 60 0.43
7 65 0.46
8 11 0.08
ACGTcount: A:0.47, C:0.35, G:0.00, T:0.19
Consensus pattern (7 bp):
AAACCCT
Found at i:13675732 original size:20 final size:21
Alignment explanation
Indices: 13675687--13675734 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
13675677 CATTCTTTGT
*
13675687 CATTCATATTACATTGTCATG
1 CATTCATATTACATTGTCAAG
*
13675708 CATTCATATTATATT-TCAAG
1 CATTCATATTACATTGTCAAG
13675728 CATTCAT
1 CATTCAT
13675735 CATTTTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 11 0.44
21 14 0.56
ACGTcount: A:0.31, C:0.19, G:0.06, T:0.44
Consensus pattern (21 bp):
CATTCATATTACATTGTCAAG
Found at i:13676669 original size:18 final size:18
Alignment explanation
Indices: 13676646--13676691 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
13676636 TTTCCTTGTT
**
13676646 TTAAAAAAATTTTAAAAA
1 TTAAAAAAATTGGAAAAA
13676664 TTAAAAAAATTGGAAAAA
1 TTAAAAAAATTGGAAAAA
*
13676682 TGAAAAAAAT
1 TTAAAAAAAT
13676692 GTTTTAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (18 bp):
TTAAAAAAATTGGAAAAA
Found at i:13676783 original size:25 final size:25
Alignment explanation
Indices: 13676755--13676884 Score: 172
Period size: 25 Copynumber: 5.2 Consensus size: 25
13676745 TTGTGTTTTA
*
13676755 CATTTCATGCATATTTTAATTATAT
1 CATTTCATGCATATTTTAATTATGT
*
13676780 CATTTCATGCATATTGTAATTATGT
1 CATTTCATGCATATTTTAATTATGT
* * *
13676805 CATTCCATTACATATTTTAA-AATGT
1 CATTTCA-TGCATATTTTAATTATGT
* *
13676830 TATTTCATGCATATTTTAAGTATGT
1 CATTTCATGCATATTTTAATTATGT
*
13676855 CATTTTATGCATATTTTAATTATGT
1 CATTTCATGCATATTTTAATTATGT
13676880 CATTT
1 CATTT
13676885 ATTATATATT
Statistics
Matches: 90, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
24 11 0.12
25 69 0.77
26 10 0.11
ACGTcount: A:0.30, C:0.12, G:0.08, T:0.51
Consensus pattern (25 bp):
CATTTCATGCATATTTTAATTATGT
Found at i:13677427 original size:15 final size:16
Alignment explanation
Indices: 13677407--13677445 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 16
13677397 GAAACATTAG
13677407 AAAAAAAT-GAAAAAT
1 AAAAAAATGGAAAAAT
13677422 AAAAAAATGGGAAAAAT
1 AAAAAAAT-GGAAAAAT
13677439 AAAAAAA
1 AAAAAAA
13677446 AATCTTTAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 8 0.36
17 14 0.64
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAAAAATGGAAAAAT
Found at i:13682535 original size:107 final size:104
Alignment explanation
Indices: 13682370--13682569 Score: 253
Period size: 107 Copynumber: 1.9 Consensus size: 104
13682360 ATAACAAAAT
* *
13682370 AAAAATTTAAATAAAAGCCTTACCAACAGATTGGAGGTAATCATTTTTTAAAAAAATAAGATTTT
1 AAAAATTTAAATAAAAACCTTACCAACAGATTAGAGGTAATCATTTTTT-AAAAAATAAGATTTT
13682435 ACCAACATATT-GGAAGACCTTATAATTTTATTTATTTCAA
65 ACCAACATATTGGGAAG-CCTTATAATTTTATTTATTTCAA
* * *
13682475 AAAAATATATAAATAAAATACCTTACCAACATATTAGAGGGCTAAT-ATTTTTT-CAAAATAAGG
1 AAAAAT-T-TAAATAAAA-ACCTTACCAACAGATTAGA-GG-TAATCATTTTTTAAAAAATAAGA
* *
13682538 TTTTACGAACATATTGGGAAGCCTTATTATTT
61 TTTTACCAACATATTGGGAAGCCTTATAATTT
13682570 CTTAAAAGAT
Statistics
Matches: 82, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
105 6 0.07
106 1 0.01
107 41 0.50
108 21 0.26
109 9 0.11
110 4 0.05
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (104 bp):
AAAAATTTAAATAAAAACCTTACCAACAGATTAGAGGTAATCATTTTTTAAAAAATAAGATTTTA
CCAACATATTGGGAAGCCTTATAATTTTATTTATTTCAA
Found at i:13687413 original size:20 final size:21
Alignment explanation
Indices: 13687390--13687434 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 21
13687380 CATTTAAACA
13687390 ATTTATCATTTTTTT-ATTTT
1 ATTTATCATTTTTTTAATTTT
*
13687410 ATTTATCTTTTTTTTAATTTT
1 ATTTATCATTTTTTTAATTTT
13687431 ATTT
1 ATTT
13687435 TTTAGCAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (21 bp):
ATTTATCATTTTTTTAATTTT
Found at i:13687424 original size:21 final size:20
Alignment explanation
Indices: 13687390--13687434 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
13687380 CATTTAAACA
*
13687390 ATTTATCATTTTTTTATTTT
1 ATTTATCATTTTTTAATTTT
*
13687410 ATTTATCTTTTTTTTAATTTT
1 ATTTATC-ATTTTTTAATTTT
13687431 ATTT
1 ATTT
13687435 TTTAGCAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (20 bp):
ATTTATCATTTTTTAATTTT
Found at i:13687698 original size:19 final size:19
Alignment explanation
Indices: 13687661--13687716 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
13687651 AAATCTTAAA
*
13687661 CAAATAACAAAAAT-CAAAT
1 CAAATAA-AAAAATAAAAAT
13687680 CAAATAAAAAAATAAAAAT
1 CAAATAAAAAAATAAAAAT
* * *
13687699 AAAATAGAAAAAGAAAAA
1 CAAATAAAAAAATAAAAA
13687717 CTTACAAATG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
18 6 0.19
19 26 0.81
ACGTcount: A:0.77, C:0.07, G:0.04, T:0.12
Consensus pattern (19 bp):
CAAATAAAAAAATAAAAAT
Found at i:13689068 original size:35 final size:35
Alignment explanation
Indices: 13689022--13689108 Score: 93
Period size: 40 Copynumber: 2.3 Consensus size: 35
13689012 TGACAACTTT
* * *
13689022 TGAAAATTTAAAAAGACTCCTCTGACTAGAGGCTA
1 TGAAACTTTAAAAAGACTCCTCTAACTAGAGGCAA
13689057 TGAAACTTTAAATTCAAAAGACTCCTCTAACTAGAGGCAA
1 TGAAACTTT--A---AAAAGACTCCTCTAACTAGAGGCAA
*
13689097 TGGAACTTTAAA
1 TGAAACTTTAAA
13689109 TATTAAAAGG
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
35 10 0.23
37 1 0.02
38 1 0.02
40 31 0.72
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.26
Consensus pattern (35 bp):
TGAAACTTTAAAAAGACTCCTCTAACTAGAGGCAA
Found at i:13689077 original size:40 final size:40
Alignment explanation
Indices: 13689032--13689263 Score: 241
Period size: 40 Copynumber: 5.8 Consensus size: 40
13689022 TGAAAATTTA
*
13689032 AAAAGACTCCTCTGACTAGAGGCTATGAAACTTTAAATTC
1 AAAAGACTCCTCTGACTAGAGGCAATGAAACTTTAAATTC
* * *
13689072 AAAAGACTCCTCTAACTAGAGGCAATGGAACTTTAAATATT
1 AAAAGACTCCTCTGACTAGAGGCAATGAAACTTTAAAT-TC
** * * * * *
13689113 AAAAGGTTCATTTGACTAGAGGCAACGAAACTTAAAATTTG
1 AAAAGACTCCTCTGACTAGAGGCAATGAAACTTTAAA-TTC
* * * *
13689154 AAAA-ACTCCTCTGACCAGAGGTAATAAAACTTTAAATTT
1 AAAAGACTCCTCTGACTAGAGGCAATGAAACTTTAAATTC
* *
13689193 AAAAGGCTCGTCTGACTAGAGGCAATGAAACTTTAAATTC
1 AAAAGACTCCTCTGACTAGAGGCAATGAAACTTTAAATTC
* * * **
13689233 AAAAGGCTCCTCTAACCAGAGATAATGAAAC
1 AAAAGACTCCTCTGACTAGAGGCAATGAAAC
13689264 CTTAGATGGC
Statistics
Matches: 155, Mismatches: 34, Indels: 6
0.79 0.17 0.03
Matches are distributed among these distances:
39 6 0.04
40 113 0.73
41 35 0.23
42 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (40 bp):
AAAAGACTCCTCTGACTAGAGGCAATGAAACTTTAAATTC
Found at i:13689129 original size:81 final size:80
Alignment explanation
Indices: 13689025--13689253 Score: 289
Period size: 81 Copynumber: 2.8 Consensus size: 80
13689015 CAACTTTTGA
* * * *
13689025 AAATTTAAAAAGACTCCTCTGACTAGAGGCTATGAAACTTTAAATTCAAAAGACTCCTCTAACTA
1 AAATTT-AAAAGGCTCATCTGACTAGAGGCAATGAAACTTTAAATTCAAAAGACTCCTCTAACCA
**
13689090 GAGGCAATGGAACTTT
65 GAGGCAATAAAACTTT
* * * * * *
13689106 AAATATTAAAAGGTTCATTTGACTAGAGGCAACGAAACTTAAAATTTGAAAA-ACTCCTCTGACC
1 AAAT-TTAAAAGGCTCATCTGACTAGAGGCAATGAAACTTTAAA-TTCAAAAGACTCCTCTAACC
*
13689170 AGAGGTAATAAAACTTT
64 AGAGGCAATAAAACTTT
* *
13689187 AAATTTAAAAGGCTCGTCTGACTAGAGGCAATGAAACTTTAAATTCAAAAGGCTCCTCTAACCAG
1 AAATTTAAAAGGCTCATCTGACTAGAGGCAATGAAACTTTAAATTCAAAAGACTCCTCTAACCAG
13689252 AG
66 AG
13689254 ATAATGAAAC
Statistics
Matches: 124, Mismatches: 21, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
79 6 0.05
80 48 0.39
81 62 0.50
82 8 0.06
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.26
Consensus pattern (80 bp):
AAATTTAAAAGGCTCATCTGACTAGAGGCAATGAAACTTTAAATTCAAAAGACTCCTCTAACCAG
AGGCAATAAAACTTT
Found at i:13689625 original size:117 final size:117
Alignment explanation
Indices: 13689482--13689706 Score: 288
Period size: 117 Copynumber: 1.9 Consensus size: 117
13689472 AATGCTCTTC
* * * *
13689482 TGACGAGAGGCAACGAAACTTTAAATTCAAAAAGCTCCTCTAAGTGGAGGCAACAAAACTTTAAA
1 TGACGAGAGGCAACAAAACTTTAAATTCAAAAAGCTCCTCTAACTAGAGGCAACAAAACTTGAAA
** *
13689547 TGGCTCTTTTAACCAAAGGCAATAAAACTTTAAATTAAAAAAAAGGCTCATT
66 TGAATCTTTTAACCAAAGGAAATAAAACTTTAAATTAAAAAAAAGGCTCATT
* * * * * *
13689599 TGACTAGAGGTAACAAAACTTTAAATTCAAAAGGCTCTTCTAACTAGAGGCCATAAAACTTGAAA
1 TGACGAGAGGCAACAAAACTTTAAATTCAAAAAGCTCCTCTAACTAGAGGCAACAAAACTTGAAA
* * * * *
13689664 TGAATCTTTTGATCATAGGAAATGAAACTTTAAATTAGAAAAA
66 TGAATCTTTTAACCAAAGGAAATAAAACTTTAAATTAAAAAAA
13689707 GTTGAGAGGC
Statistics
Matches: 90, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
117 90 1.00
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (117 bp):
TGACGAGAGGCAACAAAACTTTAAATTCAAAAAGCTCCTCTAACTAGAGGCAACAAAACTTGAAA
TGAATCTTTTAACCAAAGGAAATAAAACTTTAAATTAAAAAAAAGGCTCATT
Found at i:13689645 original size:40 final size:40
Alignment explanation
Indices: 13689461--13689664 Score: 143
Period size: 40 Copynumber: 5.2 Consensus size: 40
13689451 GTAATGAAAT
* * * * * *
13689461 TTTATATTGAAAATGCTCTTCTGACGAGAGGCAACGAAAC
1 TTTAAATTCAAAAGGCTCTTCTAACTAGAGGCAACAAAAC
* * * *
13689501 TTTAAATTCAAAAAGCTCCTCTAAGTGGAGGCAACAAAAC
1 TTTAAATTCAAAAGGCTCTTCTAACTAGAGGCAACAAAAC
* * * *
13689541 TTTAAA-T-----GGCTCTTTTAACCAAAGGCAATAAAAC
1 TTTAAATTCAAAAGGCTCTTCTAACTAGAGGCAACAAAAC
* * *
13689575 TTTAAATTAAAAAAAAGGCTCATT-TGACTAGAGGTAACAAAAC
1 TTTAAATT---CAAAAGGCTC-TTCTAACTAGAGGCAACAAAAC
* *
13689618 TTTAAATTCAAAAGGCTCTTCTAACTAGAGGCCATAAAAC
1 TTTAAATTCAAAAGGCTCTTCTAACTAGAGGCAACAAAAC
*
13689658 TTGAAAT
1 TTTAAAT
13689665 GAATCTTTTG
Statistics
Matches: 125, Mismatches: 28, Indels: 22
0.71 0.16 0.13
Matches are distributed among these distances:
34 25 0.20
35 1 0.01
39 3 0.02
40 67 0.54
43 27 0.22
44 2 0.02
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.27
Consensus pattern (40 bp):
TTTAAATTCAAAAGGCTCTTCTAACTAGAGGCAACAAAAC
Found at i:13695760 original size:69 final size:69
Alignment explanation
Indices: 13695674--13695812 Score: 172
Period size: 69 Copynumber: 2.0 Consensus size: 69
13695664 GTCATACTTG
** * * * *
13695674 TACAAACTAGTTCATTAATTTTAGCAATCAATTTTTCATCATAAAAGGTGCTGACAGGCTTAAAA
1 TACAAACTAGTTCATTAACCTTAACAATCAATTTCTCATCATAAAAGATGCTAACAGGCTTAAAA
13695739 TTCA
66 TTCA
* * * *
13695743 TACAAACTAGCTT-ATTAACCTTAACACTCAATTTCTCTTCATAAAAGATGGTAATAGGCTTAAA
1 TACAAACTAG-TTCATTAACCTTAACAATCAATTTCTCATCATAAAAGATGCTAACAGGCTTAAA
13695807 ATTCA
65 ATTCA
13695812 T
1 T
13695813 TTGGTAAGGC
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
69 57 0.97
70 2 0.03
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (69 bp):
TACAAACTAGTTCATTAACCTTAACAATCAATTTCTCATCATAAAAGATGCTAACAGGCTTAAAA
TTCA
Found at i:13700628 original size:3 final size:3
Alignment explanation
Indices: 13700611--13700664 Score: 60
Period size: 3 Copynumber: 19.0 Consensus size: 3
13700601 ACCATATTAC
* * *
13700611 ATT A-T ATT A-T ATT ATT ATC ATT A-T ACT ATT ATT ATT ATT GTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
13700656 ATT ATT ATT
1 ATT ATT ATT
13700665 TCTTTATATT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
2 6 0.14
3 37 0.86
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:13701542 original size:5 final size:5
Alignment explanation
Indices: 13701488--13701584 Score: 51
Period size: 5 Copynumber: 19.6 Consensus size: 5
13701478 GATTGTAGAT
* * * **
13701488 TTTTT TTTTCA TTTTA TTTT- TATTT- TTTGA TTTTA TTTT- TTTAA GCTTA
1 TTTTA TTTT-A TTTTA TTTTA T-TTTA TTTTA TTTTA TTTTA TTTTA TTTTA
* * *
13701537 TTTTA TTTTA TTTTTA GTTT- TTTTA TTTTA -CTAA TTTTA TTTTTA TTT
1 TTTTA TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA TTT
13701585 GATAAATTTT
Statistics
Matches: 69, Mismatches: 15, Indels: 16
0.69 0.15 0.16
Matches are distributed among these distances:
4 11 0.16
5 44 0.64
6 14 0.20
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (5 bp):
TTTTA
Done.