Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009624.1 Hibiscus syriacus cultivar Beakdansim tig00117016_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 8249038
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 34 of 38
Found at i:6893325 original size:23 final size:22
Alignment explanation
Indices: 6893275--6893333 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 22
6893265 TTGTGCAGAT
6893275 TGTATCGATACCC-CTTCAACG
1 TGTATCGATACCCTCTTCAACG
* *
6893296 TGTATCGATACCCTCTTTTAATG
1 TGTATCGATACCCTC-TTCAACG
6893319 TGTATCGATAACCCT
1 TGTATCGAT-ACCCT
6893334 ATAAGGGTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 13 0.39
22 1 0.03
23 14 0.42
24 5 0.15
ACGTcount: A:0.24, C:0.27, G:0.14, T:0.36
Consensus pattern (22 bp):
TGTATCGATACCCTCTTCAACG
Found at i:6896107 original size:74 final size:75
Alignment explanation
Indices: 6895984--6896145 Score: 218
Period size: 74 Copynumber: 2.2 Consensus size: 75
6895974 TAAATAGGGA
* * *
6895984 GGTACCGATACCCTCATAGGGTGTACTGATACCCCTATGCCAATTTTGGCTCCGAGAAAAACAAA
1 GGTACCGATACCCCCATAGAGTGTACCGATACCCCTATGCCAATTTTGGCTCCGAGAAAAACAAA
*
6896049 ATGCCCAATG
66 ATGCCCAACG
* * * * *
6896059 GGTACCGTTACCCCCATAGAG-GTACCGATACCCTTGTGTCAATTTTGGCTCCGAGAAAAACAGA
1 GGTACCGATACCCCCATAGAGTGTACCGATACCCCTATGCCAATTTTGGCTCCGAGAAAAACAAA
*
6896123 ATGCCTAACG
66 ATGCCCAACG
*
6896133 GGTACCAATACCC
1 GGTACCGATACCC
6896146 TCTTTAAGGT
Statistics
Matches: 75, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
74 57 0.76
75 18 0.24
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (75 bp):
GGTACCGATACCCCCATAGAGTGTACCGATACCCCTATGCCAATTTTGGCTCCGAGAAAAACAAA
ATGCCCAACG
Found at i:6896162 original size:74 final size:75
Alignment explanation
Indices: 6895984--6896167 Score: 194
Period size: 74 Copynumber: 2.5 Consensus size: 75
6895974 TAAATAGGGA
* * * * * * *
6895984 GGTACCGATACCCTCATAGGGTGTACTGAT-ACCCCTATGCCAATTTTGGCTCCGAGAAAAACAA
1 GGTACCAATACCCCCATAGAG-GTACCGATAACCCTTGTGTCAATTTTGGCTCCGAGAAAAACAA
*
6896048 AATGCCCAATG
65 AATGCCCAACG
** *
6896059 GGTACCGTTACCCCCATAGAGGTACCGAT-ACCCTTGTGTCAATTTTGGCTCCGAGAAAAACAGA
1 GGTACCAATACCCCCATAGAGGTACCGATAACCCTTGTGTCAATTTTGGCTCCGAGAAAAACAAA
*
6896123 ATGCCTAACG
66 ATGCCCAACG
** *
6896133 GGTACCAATACCCTCTTTA-AGGTATCGATAACCCT
1 GGTACCAATACCC-CCATAGAGGTACCGATAACCCT
6896168 AGTCATTTAA
Statistics
Matches: 92, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
74 66 0.72
75 26 0.28
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (75 bp):
GGTACCAATACCCCCATAGAGGTACCGATAACCCTTGTGTCAATTTTGGCTCCGAGAAAAACAAA
ATGCCCAACG
Found at i:6904168 original size:25 final size:25
Alignment explanation
Indices: 6904135--6904188 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
6904125 GTATTCACAG
*
6904135 ATAATATTCACATACCGAATCATCA
1 ATAATATTCACATACAGAATCATCA
*
6904160 ATAATATTCACATATAGAATCATCA
1 ATAATATTCACATACAGAATCATCA
6904185 ATAA
1 ATAA
6904189 GCATGATAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.48, C:0.19, G:0.04, T:0.30
Consensus pattern (25 bp):
ATAATATTCACATACAGAATCATCA
Found at i:6913576 original size:15 final size:16
Alignment explanation
Indices: 6913545--6913577 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6913535 TCAAGTTGAA
6913545 TAAAATACCTCTATTT
1 TAAAATACCTCTATTT
*
6913561 TAAAATTCCT-TATTT
1 TAAAATACCTCTATTT
6913576 TA
1 TA
6913578 TTCTTGAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (16 bp):
TAAAATACCTCTATTT
Found at i:6914719 original size:2 final size:2
Alignment explanation
Indices: 6914712--6914740 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6914702 CTTCAAATGC
6914712 AT 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 AT A
6914741 ACATTTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6919802 original size:25 final size:25
Alignment explanation
Indices: 6919769--6919829 Score: 90
Period size: 24 Copynumber: 2.5 Consensus size: 25
6919759 GATTTTAGAG
6919769 AATT-TTTTAAAAAATAATTATTTT
1 AATTCTTTTAAAAAATAATTATTTT
* *
6919793 TATTCTTTT-AAAAATAATTCTTTT
1 AATTCTTTTAAAAAATAATTATTTT
6919817 AATTCTTTTAAAA
1 AATTCTTTTAAAA
6919830 TTAAATAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 25 0.78
25 7 0.22
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (25 bp):
AATTCTTTTAAAAAATAATTATTTT
Found at i:6929999 original size:52 final size:52
Alignment explanation
Indices: 6929937--6930039 Score: 197
Period size: 52 Copynumber: 2.0 Consensus size: 52
6929927 AAATTGGACA
6929937 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
1 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
*
6929989 CATAGAAATAGGAGACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAG
1 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAG
6930040 AATATTATAA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (52 bp):
CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
Found at i:6934604 original size:52 final size:52
Alignment explanation
Indices: 6934542--6934644 Score: 197
Period size: 52 Copynumber: 2.0 Consensus size: 52
6934532 AAATTGGACA
6934542 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
1 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
*
6934594 CATAGAAATAGGAGACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAG
1 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAG
6934645 AATATTATAA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (52 bp):
CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
Found at i:6935504 original size:43 final size:43
Alignment explanation
Indices: 6935437--6935525 Score: 142
Period size: 43 Copynumber: 2.1 Consensus size: 43
6935427 AACAAGGAAA
* * * *
6935437 CAACCTTCATCCTAGGGGTGACAAAAAGAGTTCCACGAGGTTC
1 CAACCTCCATCCCAGGAGTCACAAAAAGAGTTCCACGAGGTTC
6935480 CAACCTCCATCCCAGGAGTCACAAAAAGAGTTCCACGAGGTTC
1 CAACCTCCATCCCAGGAGTCACAAAAAGAGTTCCACGAGGTTC
6935523 CAA
1 CAA
6935526 ACTCATCAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.33, C:0.29, G:0.20, T:0.18
Consensus pattern (43 bp):
CAACCTCCATCCCAGGAGTCACAAAAAGAGTTCCACGAGGTTC
Found at i:6950129 original size:22 final size:22
Alignment explanation
Indices: 6950087--6950128 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
6950077 TGAAAGGATA
*
6950087 AAAGAAATGATTTAATGAAAAG
1 AAAGAAATGATTTAAGGAAAAG
*
6950109 AAAGAAATGGTTT-AGGAAAA
1 AAAGAAATGATTTAAGGAAAA
6950129 ATAATGAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.57, C:0.00, G:0.21, T:0.21
Consensus pattern (22 bp):
AAAGAAATGATTTAAGGAAAAG
Found at i:6960166 original size:50 final size:50
Alignment explanation
Indices: 6960108--6960257 Score: 246
Period size: 50 Copynumber: 3.0 Consensus size: 50
6960098 GCGCATGAAA
* *
6960108 ACTTTGGCGCCAAAATGAATAAGCACATCACCATTCAGCCAAGGGAGGTG
1 ACTTTGGCGCCAAGATGAACAAGCACATCACCATTCAGCCAAGGGAGGTG
6960158 ACTTTGGCGCCAAGATGAACAAGCACATCACCATTCAGCCAAGGGAGGTG
1 ACTTTGGCGCCAAGATGAACAAGCACATCACCATTCAGCCAAGGGAGGTG
* * *
6960208 ACTTTGGTGCCAAGATGAACAAACATATCACCATTCAGCCAAGGAGAGGT
1 ACTTTGGCGCCAAGATGAACAAGCACATCACCATTCAGCCAAGG-GAGGT
6960258 TGATTCATGC
Statistics
Matches: 94, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
50 89 0.95
51 5 0.05
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.18
Consensus pattern (50 bp):
ACTTTGGCGCCAAGATGAACAAGCACATCACCATTCAGCCAAGGGAGGTG
Found at i:6960388 original size:17 final size:19
Alignment explanation
Indices: 6960347--6960388 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
6960337 TCACTTAGTT
*
6960347 AATTATGTACTTTCATTAG
1 AATTATGTACTTTCAGTAG
*
6960366 AGTTATGTAC-TT-AGTAG
1 AATTATGTACTTTCAGTAG
6960383 AATTAT
1 AATTAT
6960389 TAGGTGCCTA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 9 0.45
18 2 0.10
19 9 0.45
ACGTcount: A:0.33, C:0.07, G:0.14, T:0.45
Consensus pattern (19 bp):
AATTATGTACTTTCAGTAG
Found at i:6965257 original size:2 final size:2
Alignment explanation
Indices: 6965250--6965295 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
6965240 CTTAAACACA
6965250 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6965292 AT AT
1 AT AT
6965296 TTTTCATGAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6979720 original size:14 final size:14
Alignment explanation
Indices: 6979701--6979741 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
6979691 GAAAAAATTC
6979701 AGAAAAAAAG-AAA
1 AGAAAAAAAGAAAA
6979714 AGAAAAAGAAGAAAA
1 AGAAAAA-AAGAAAA
*
6979729 AGTAAAAAAGAAA
1 AGAAAAAAAGAAA
6979742 GCAAGCCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 7 0.28
14 9 0.36
15 9 0.36
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.02
Consensus pattern (14 bp):
AGAAAAAAAGAAAA
Found at i:6983858 original size:23 final size:23
Alignment explanation
Indices: 6983831--6983903 Score: 58
Period size: 24 Copynumber: 3.0 Consensus size: 23
6983821 ATTGGAGTAC
6983831 AAAAAGAAAAGAAAAAAAGAAGAA
1 AAAAAGAAAAGAAAAAAAGAA-AA
*
6983855 AAAATTCAGAAAAAAAATAAAAG-AAA
1 AAAA---AGAAAAGAAA-AAAAGAAAA
* *
6983881 AAGAAGAAAAAGTAAAAAAGAAA
1 AAAAAG-AAAAGAAAAAAAGAAA
6983904 GCAAGCCAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
23 7 0.18
24 12 0.31
26 5 0.13
27 10 0.26
28 5 0.13
ACGTcount: A:0.79, C:0.01, G:0.14, T:0.05
Consensus pattern (23 bp):
AAAAAGAAAAGAAAAAAAGAAAA
Found at i:6988013 original size:14 final size:13
Alignment explanation
Indices: 6987996--6988064 Score: 57
Period size: 14 Copynumber: 4.9 Consensus size: 13
6987986 ATTGGAGTAC
*
6987996 AAAAAGAAAAGAA
1 AAAAAGAAAAAAA
6988009 AAAAAGAATAAAAA
1 AAAAAGAA-AAAAA
***
6988023 ATTCAGAAAAAAA
1 AAAAAGAAAAAAA
6988036 ATAAAAGAAAAAGAA
1 A-AAAAGAAAAA-AA
6988051 GAAAAAGTAAAAAA
1 -AAAAAG-AAAAAA
6988065 GAAAGCAAGC
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
13 14 0.32
14 16 0.36
15 8 0.18
16 6 0.14
ACGTcount: A:0.80, C:0.01, G:0.12, T:0.07
Consensus pattern (13 bp):
AAAAAGAAAAAAA
Found at i:6988023 original size:23 final size:22
Alignment explanation
Indices: 6987996--6988069 Score: 57
Period size: 21 Copynumber: 3.5 Consensus size: 22
6987986 ATTGGAGTAC
*
6987996 AAAAAGAAAAGAAAAAAAGAAT
1 AAAAAAAAAAGAAAAAAAGAAT
***
6988018 AAAAAATTCAG-AAAAAA-AAT
1 AAAAAAAAAAGAAAAAAAGAAT
*
6988038 AAAAGAAAAAGAAGAAAAAG--T
1 AAAAAAAAAAGAA-AAAAAGAAT
*
6988059 AAAAAAGAAAG
1 AAAAAAAAAAG
6988070 CAAGCCAAAG
Statistics
Matches: 39, Mismatches: 10, Indels: 7
0.70 0.18 0.12
Matches are distributed among these distances:
20 10 0.26
21 17 0.44
22 12 0.31
ACGTcount: A:0.78, C:0.01, G:0.14, T:0.07
Consensus pattern (22 bp):
AAAAAAAAAAGAAAAAAAGAAT
Found at i:6995866 original size:12 final size:12
Alignment explanation
Indices: 6995838--6995878 Score: 57
Period size: 12 Copynumber: 3.3 Consensus size: 12
6995828 TTATCCATAC
6995838 TATTTCATTTCAT
1 TATTTCATTT-AT
6995851 TATTT-ATCTTAT
1 TATTTCAT-TTAT
6995863 TATTTCATTTAT
1 TATTTCATTTAT
6995875 TATT
1 TATT
6995879 CCCATATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 17 0.65
13 9 0.35
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.66
Consensus pattern (12 bp):
TATTTCATTTAT
Found at i:6996111 original size:11 final size:11
Alignment explanation
Indices: 6996097--6996150 Score: 58
Period size: 11 Copynumber: 4.7 Consensus size: 11
6996087 ACAAAAAGAA
6996097 AAGAAAAAAAG
1 AAGAAAAAAAG
6996108 AAGAAAAAATTCAG
1 AAGAAAAAA---AG
6996122 AA-AAAAAAAG
1 AAGAAAAAAAG
6996132 AA-AAGAAAAAG
1 AAGAA-AAAAAG
6996143 AAGAAAAA
1 AAGAAAAA
6996151 GTCAAAAAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
10 6 0.16
11 20 0.53
12 2 0.05
13 6 0.16
14 4 0.11
ACGTcount: A:0.80, C:0.02, G:0.15, T:0.04
Consensus pattern (11 bp):
AAGAAAAAAAG
Found at i:6996158 original size:32 final size:35
Alignment explanation
Indices: 6996089--6996158 Score: 99
Period size: 37 Copynumber: 2.0 Consensus size: 35
6996079 ATTGGAGTAC
*
6996089 AAAAAGAAAAGAAAAAAAGAAGAAAAAATTCAGAAAA
1 AAAAAGAAAAG-AAAAAAGAAGAAAAAAGTCA-AAAA
6996126 AAAAAGAAAAG-AAAAAGAAG-AAAAAGTCAAAAA
1 AAAAAGAAAAGAAAAAAGAAGAAAAAAGTCAAAAA
6996159 GAAAGCAAGC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 4 0.12
34 8 0.25
35 9 0.28
37 11 0.34
ACGTcount: A:0.79, C:0.03, G:0.14, T:0.04
Consensus pattern (35 bp):
AAAAAGAAAAGAAAAAAGAAGAAAAAAGTCAAAAA
Found at i:7006311 original size:77 final size:79
Alignment explanation
Indices: 7006217--7006366 Score: 182
Period size: 77 Copynumber: 1.9 Consensus size: 79
7006207 AATTAATAAA
* * * *
7006217 TAAAATATTATTTAATTAATTCAAATTAA-ATAT-ACATT-AAAGACTTATAATCTGAATTACAA
1 TAAAAAATTATTAAATTAATTCAAA-TAATATATCA-ATTAAAAGAATTATAATCTAAATTACAA
7006279 TC-TTTAATGTTTATT
64 TCTTTTAATGTTTATT
* * * *
7006294 TAAAAAATTATTAAATTATTTCGAATAATATATCAATTAAAAGAATTGTAATCTAAATTACATTC
1 TAAAAAATTATTAAATTAATTCAAATAATATATCAATTAAAAGAATTATAATCTAAATTACAATC
7006359 TTTTAATG
66 TTTTAATG
7006367 CTTACTTACT
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
76 3 0.05
77 28 0.46
78 23 0.38
79 7 0.11
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (79 bp):
TAAAAAATTATTAAATTAATTCAAATAATATATCAATTAAAAGAATTATAATCTAAATTACAATC
TTTTAATGTTTATT
Found at i:7020396 original size:48 final size:48
Alignment explanation
Indices: 7020320--7020420 Score: 141
Period size: 48 Copynumber: 2.1 Consensus size: 48
7020310 TATAGTATTG
* * * *
7020320 ATACGAAAATGCAACATATGCATTAAACAAAATCGATC-ATTAACCATC
1 ATACAAAAATGAAACATATGCATTAAACAAAATAGATCGA-TAAACATC
*
7020368 ATACAAAAATGAAACTTATGCATTAAACAAAATAGATCGATAAACATC
1 ATACAAAAATGAAACATATGCATTAAACAAAATAGATCGATAAACATC
7020416 ATACA
1 ATACA
7020421 CAACGTATGT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
48 46 0.98
49 1 0.02
ACGTcount: A:0.51, C:0.18, G:0.08, T:0.23
Consensus pattern (48 bp):
ATACAAAAATGAAACATATGCATTAAACAAAATAGATCGATAAACATC
Found at i:7021643 original size:9 final size:10
Alignment explanation
Indices: 7021634--7021676 Score: 54
Period size: 9 Copynumber: 4.5 Consensus size: 10
7021624 GGAATTTTAG
7021634 TTTAAATAGT
1 TTTAAATAGT
*
7021644 TTTAAGT-GT
1 TTTAAATAGT
7021653 TTTAAATAGT
1 TTTAAATAGT
*
7021663 TTTAAGT-GT
1 TTTAAATAGT
7021672 TTTAA
1 TTTAA
7021677 TTAGGATTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
9 15 0.52
10 14 0.48
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (10 bp):
TTTAAATAGT
Found at i:7021658 original size:19 final size:19
Alignment explanation
Indices: 7021634--7021676 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
7021624 GGAATTTTAG
7021634 TTTAAATAGTTTTAAGTGT
1 TTTAAATAGTTTTAAGTGT
7021653 TTTAAATAGTTTTAAGTGT
1 TTTAAATAGTTTTAAGTGT
7021672 TTTAA
1 TTTAA
7021677 TTAGGATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (19 bp):
TTTAAATAGTTTTAAGTGT
Found at i:7022347 original size:17 final size:17
Alignment explanation
Indices: 7022322--7022355 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
7022312 CTTTATCTCA
7022322 ATTTATTTATTTAATTT
1 ATTTATTTATTTAATTT
*
7022339 ATTTGTTTATTTAATTT
1 ATTTATTTATTTAATTT
7022356 TTATCTCATT
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:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (17 bp):
ATTTATTTATTTAATTT
Found at i:7022441 original size:15 final size:14
Alignment explanation
Indices: 7022421--7022478 Score: 57
Period size: 15 Copynumber: 4.1 Consensus size: 14
7022411 TTTTAAAATC
7022421 ATTATTTATTATTTT
1 ATTATTT-TTATTTT
**
7022436 ATTATTTTCCTTTT
1 ATTATTTTTATTTT
7022450 -TTA-TTTTATTTT
1 ATTATTTTTATTTT
*
7022462 ATTTTATTTTATTTT
1 ATTAT-TTTTATTTT
7022477 AT
1 AT
7022479 CTTTTCAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 7 0.20
13 5 0.14
14 5 0.14
15 18 0.51
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (14 bp):
ATTATTTTTATTTT
Found at i:7022456 original size:5 final size:5
Alignment explanation
Indices: 7022448--7022478 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
7022438 TATTTTCCTT
7022448 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T
7022479 CTTTTCAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:7023149 original size:21 final size:21
Alignment explanation
Indices: 7023123--7023167 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
7023113 TAAAGATTGG
7023123 TTATTTTATTTACCTCCAAAT
1 TTATTTTATTTACCTCCAAAT
7023144 TTATTTTATTTACCTCCAAAT
1 TTATTTTATTTACCTCCAAAT
7023165 TTA
1 TTA
7023168 GTTAATTCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.18, G:0.00, T:0.53
Consensus pattern (21 bp):
TTATTTTATTTACCTCCAAAT
Found at i:7026991 original size:292 final size:292
Alignment explanation
Indices: 7026466--7027029 Score: 1083
Period size: 292 Copynumber: 1.9 Consensus size: 292
7026456 TTTTACAGGA
*
7026466 ATTTAACTTGGAAATCAAAGACAAAAACGGATACGAAAATCTGGTAGTGAATCACTTGAATCGAA
1 ATTTAACTTGGAAATCAAAGACAAAAACGGATACAAAAATCTGGTAGTGAATCACTTGAATCGAA
7026531 TTCCCCTTTCCACATCTGACCCACAACTTAGAGAAGAATTTCCTGAAGAAAAACTGATGGTGGTG
66 TTCCCCTTTCCACATCTGACCCACAACTTAGAGAAGAATTTCCTGAAGAAAAACTGATGGTGGTG
7026596 CAAAGCATAAGTCCATAGTTTGTGGATATGCTCAATTATTTGGCCACATGTAAATTACCATTATA
131 CAAAGCATAAGTCCATAGTTTGTGGATATGCTCAATTATTTGGCCACATGTAAATTACCATTATA
*
7026661 TTTACCAAGATCTAAAATCAATCGAATAAAGCGTGAATGCTGATACTATATCTGAGACAATCCTT
196 TTTACCAAGATCTAAAATCAATCGAATAAAGCGTGAATGCCGATACTATATCTGAGACAATCCTT
7026726 ATTTATGGAAGCGAAAATCAAAGACAATCCTT
261 ATTTATGGAAGCGAAAATCAAAGACAATCCTT
*
7026758 ATTTAACTTGGAAATCAAAGACAAAAACGGATGCAAAAATCTGGTAGTGAATCACTTGAATCGAA
1 ATTTAACTTGGAAATCAAAGACAAAAACGGATACAAAAATCTGGTAGTGAATCACTTGAATCGAA
7026823 TTCCCCTTTCCACATCTGACCCACAACTTAGAGAAGAATTTCCTGAAGAAAAACTGATGGTGGTG
66 TTCCCCTTTCCACATCTGACCCACAACTTAGAGAAGAATTTCCTGAAGAAAAACTGATGGTGGTG
7026888 CAAAGCATAAGTCCATAGTTTGTGGATATGCTCAATTATTTGGCCACATGTAAATTACCATTATA
131 CAAAGCATAAGTCCATAGTTTGTGGATATGCTCAATTATTTGGCCACATGTAAATTACCATTATA
* *
7026953 TTTACCGAGATCTAAAATCAATCGAATAAAGTGTGAATGCCGATACTATATCTGAGACAATCCTT
196 TTTACCAAGATCTAAAATCAATCGAATAAAGCGTGAATGCCGATACTATATCTGAGACAATCCTT
7027018 ATTTATGGAAGC
261 ATTTATGGAAGC
7027030 CCTGCTCGAA
Statistics
Matches: 267, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
292 267 1.00
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (292 bp):
ATTTAACTTGGAAATCAAAGACAAAAACGGATACAAAAATCTGGTAGTGAATCACTTGAATCGAA
TTCCCCTTTCCACATCTGACCCACAACTTAGAGAAGAATTTCCTGAAGAAAAACTGATGGTGGTG
CAAAGCATAAGTCCATAGTTTGTGGATATGCTCAATTATTTGGCCACATGTAAATTACCATTATA
TTTACCAAGATCTAAAATCAATCGAATAAAGCGTGAATGCCGATACTATATCTGAGACAATCCTT
ATTTATGGAAGCGAAAATCAAAGACAATCCTT
Found at i:7029577 original size:15 final size:15
Alignment explanation
Indices: 7029554--7029584 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7029544 AAACTTATGA
7029554 TTTTGATATGTTAAT
1 TTTTGATATGTTAAT
*
7029569 TTTTTATATGTTAAT
1 TTTTGATATGTTAAT
7029584 T
1 T
7029585 GATGAATGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.10, T:0.65
Consensus pattern (15 bp):
TTTTGATATGTTAAT
Found at i:7030740 original size:11 final size:11
Alignment explanation
Indices: 7030706--7030742 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
7030696 TTTATCTCAA
7030706 TTTATTT-A-T
1 TTTATTTAATT
7030715 TTTATTTATATT
1 TTTATTTA-ATT
7030727 TTTATTTAATT
1 TTTATTTAATT
7030738 TTTAT
1 TTTAT
7030743 CTCATTATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 7 0.28
11 9 0.36
12 9 0.36
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTATTTAATT
Found at i:7030811 original size:11 final size:11
Alignment explanation
Indices: 7030795--7030827 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
7030785 TTATTACTAG
7030795 TTTTATTATTT
1 TTTTATTATTT
7030806 TTTTATT-TTT
1 TTTTATTATTT
7030816 TATTTATTATTT
1 T-TTTATTATTT
7030828 ACCGTAAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 4 0.20
11 13 0.65
12 3 0.15
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTATTATTT
Found at i:7030889 original size:23 final size:25
Alignment explanation
Indices: 7030851--7030899 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
7030841 GAAATCATTA
* *
7030851 TTTATTTTTTTATTATTTTC-CTTT
1 TTTATTTTATTATTATTCTCTCTTT
7030875 TTTATTTTATT-TTATTCTCTCTTT
1 TTTATTTTATTATTATTCTCTCTTT
7030899 T
1 T
7030900 CAATTTCATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (25 bp):
TTTATTTTATTATTATTCTCTCTTT
Found at i:7033554 original size:25 final size:25
Alignment explanation
Indices: 7033520--7033574 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
7033510 CTGTCTCGAG
7033520 ACATAGGCCACAGATTTCCCTTCCT
1 ACATAGGCCACAGATTTCCCTTCCT
7033545 ACATAGGCCACAGATTTCCCTTCCT
1 ACATAGGCCACAGATTTCCCTTCCT
*
7033570 GCATA
1 ACATA
7033575 AGCACACATC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.25, C:0.35, G:0.13, T:0.27
Consensus pattern (25 bp):
ACATAGGCCACAGATTTCCCTTCCT
Found at i:7037292 original size:48 final size:48
Alignment explanation
Indices: 7037221--7037320 Score: 155
Period size: 48 Copynumber: 2.1 Consensus size: 48
7037211 AATAGTACTG
* *
7037221 ATACGAAAATGAAACATATGCATTAAACAAAATTGATCGATAACCATC
1 ATACGAAAATGAAACATATGCATTAAACAAAATCGATCGATAAACATC
* * *
7037269 ATACGAAAATGCAACTTATGCATTAAACAAAATCGATCGATAAACATT
1 ATACGAAAATGAAACATATGCATTAAACAAAATCGATCGATAAACATC
7037317 ATAC
1 ATAC
7037321 ACAATGTATG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.49, C:0.17, G:0.10, T:0.24
Consensus pattern (48 bp):
ATACGAAAATGAAACATATGCATTAAACAAAATCGATCGATAAACATC
Found at i:7041453 original size:32 final size:32
Alignment explanation
Indices: 7041410--7041478 Score: 111
Period size: 32 Copynumber: 2.2 Consensus size: 32
7041400 GAGCTAGGAT
*
7041410 TAAAACATTGTGACCCTAGTATAAAGAAGCTG
1 TAAAACATTGTGACCCTAATATAAAGAAGCTG
* *
7041442 TAAAACTTTGTGACCCTAATATAAATAAGCTG
1 TAAAACATTGTGACCCTAATATAAAGAAGCTG
7041474 TAAAA
1 TAAAA
7041479 ACAACGAATG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.28
Consensus pattern (32 bp):
TAAAACATTGTGACCCTAATATAAAGAAGCTG
Found at i:7042318 original size:3 final size:3
Alignment explanation
Indices: 7042310--7042344 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
7042300 TGTCCGGGTC
7042310 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
7042345 TACATCTTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:7042501 original size:19 final size:21
Alignment explanation
Indices: 7042463--7042502 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
7042453 CAAAAAATAA
7042463 CCCAGTACAAGCTGACCCAGAG
1 CCCAGTACAAGC-GACCCAGAG
7042485 CCCAGTACAA-C-ACCCAGA
1 CCCAGTACAAGCGACCCAGA
7042503 AACCCAGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
21 1 0.06
22 10 0.56
ACGTcount: A:0.35, C:0.40, G:0.17, T:0.07
Consensus pattern (21 bp):
CCCAGTACAAGCGACCCAGAG
Found at i:7047346 original size:15 final size:16
Alignment explanation
Indices: 7047307--7047339 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7047297 AACGCATACC
7047307 AATTTTTTGTCTTAAA
1 AATTTTTTGTCTTAAA
7047323 AATTATTTT-TCTTAAA
1 AATT-TTTTGTCTTAAA
7047339 A
1 A
7047340 TTGTTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.55
Consensus pattern (16 bp):
AATTTTTTGTCTTAAA
Found at i:7048522 original size:6 final size:6
Alignment explanation
Indices: 7048511--7048535 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
7048501 ACATTTGACA
7048511 TTTCAG TTTCAG TTTCAG TTTCAG T
1 TTTCAG TTTCAG TTTCAG TTTCAG T
7048536 AAATTAAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (6 bp):
TTTCAG
Found at i:7057946 original size:21 final size:21
Alignment explanation
Indices: 7057905--7057948 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
7057895 TTCTTTTATT
*
7057905 TCTTTTGATATCTTATGTTCA
1 TCTTTTGATATCTTATATTCA
7057926 TCTTTTGATATCTT-TCATTCA
1 TCTTTTGATATCTTAT-ATTCA
7057947 TC
1 TC
7057949 ATATCCCTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.18, C:0.18, G:0.07, T:0.57
Consensus pattern (21 bp):
TCTTTTGATATCTTATATTCA
Found at i:7069567 original size:20 final size:21
Alignment explanation
Indices: 7069542--7069580 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
7069532 CTTTCTCGTG
7069542 TTTCAA-TCCCTAAATCCCCT
1 TTTCAATTCCCTAAATCCCCT
*
7069562 TTTCAATTCCCTCAATCCC
1 TTTCAATTCCCTAAATCCC
7069581 TAACCCTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.23, C:0.41, G:0.00, T:0.36
Consensus pattern (21 bp):
TTTCAATTCCCTAAATCCCCT
Found at i:7073151 original size:20 final size:21
Alignment explanation
Indices: 7073126--7073164 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
7073116 CTTTCTCGTG
7073126 TTTCAA-TCCCTAAATCCCCT
1 TTTCAATTCCCTAAATCCCCT
*
7073146 TTTCAATTCCCTCAATCCC
1 TTTCAATTCCCTAAATCCC
7073165 TAACCCTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.23, C:0.41, G:0.00, T:0.36
Consensus pattern (21 bp):
TTTCAATTCCCTAAATCCCCT
Found at i:7073641 original size:21 final size:21
Alignment explanation
Indices: 7073614--7073664 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
7073604 TATTAGGTTT
* *
7073614 GATATATATTGTATTTAATGTAT
1 GATAT-TA-TGTAGTTAATGTAG
7073637 GATATTATGTAGTTAATGTAG
1 GATATTATGTAGTTAATGTAG
7073658 GATATTA
1 GATATTA
7073665 CTTTACATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 19 0.73
22 2 0.08
23 5 0.19
ACGTcount: A:0.35, C:0.00, G:0.18, T:0.47
Consensus pattern (21 bp):
GATATTATGTAGTTAATGTAG
Found at i:7093562 original size:3 final size:3
Alignment explanation
Indices: 7093554--7093579 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
7093544 ACAAACTATC
7093554 GTT GTT GTT GTT GTT GTT GTT GTT GT
1 GTT GTT GTT GTT GTT GTT GTT GTT GT
7093580 CGTTATTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.35, T:0.65
Consensus pattern (3 bp):
GTT
Found at i:7094372 original size:21 final size:21
Alignment explanation
Indices: 7094326--7094372 Score: 53
Period size: 20 Copynumber: 2.2 Consensus size: 21
7094316 CATGAATTAA
*
7094326 ATAATTTAAAAATAATATAATT
1 ATAA-TTAAAAATAATAAAATT
7094348 -TAATTAAAAGATAA-AAAATT
1 ATAATTAAAA-ATAATAAAATT
7094368 ATAAT
1 ATAAT
7094373 GAAGAATGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (21 bp):
ATAATTAAAAATAATAAAATT
Found at i:7099964 original size:34 final size:34
Alignment explanation
Indices: 7099884--7099966 Score: 87
Period size: 34 Copynumber: 2.4 Consensus size: 34
7099874 GCATTTAAAT
* *
7099884 CATCTAGTTCATTTAGGGAAGTAGTTCATTTATG
1 CATCTAGTTCATTTAGGGAAGTAGTTCATTCATA
* * * * *
7099918 CCTTTAGATCATTTA-GTAAGCTATTTCATTCATA
1 CATCTAGTTCATTTAGGGAAG-TAGTTCATTCATA
7099952 CATCTAGTTCATTTA
1 CATCTAGTTCATTTA
7099967 ATAAAGTTGG
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
33 4 0.11
34 34 0.89
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (34 bp):
CATCTAGTTCATTTAGGGAAGTAGTTCATTCATA
Found at i:7100649 original size:16 final size:16
Alignment explanation
Indices: 7100628--7100658 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7100618 ACATATAGGA
7100628 TGTCCACATTCATCCT
1 TGTCCACATTCATCCT
*
7100644 TGTCCATATTCATCC
1 TGTCCACATTCATCC
7100659 CCCATTTCTC
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:0.19, C:0.35, G:0.06, T:0.39
Consensus pattern (16 bp):
TGTCCACATTCATCCT
Found at i:7101728 original size:20 final size:20
Alignment explanation
Indices: 7101690--7101729 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
7101680 GGAGTGTTTC
7101690 GTGAGGTTTTTCCTTTTATTT
1 GTGAGGTTTTT-CTTTTATTT
7101711 GTGAGGTTATTT-TTTTATT
1 GTGAGGTT-TTTCTTTTATT
7101730 ACTAATTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 8 0.44
22 3 0.17
ACGTcount: A:0.12, C:0.05, G:0.20, T:0.62
Consensus pattern (20 bp):
GTGAGGTTTTTCTTTTATTT
Found at i:7103441 original size:18 final size:17
Alignment explanation
Indices: 7103417--7103461 Score: 63
Period size: 18 Copynumber: 2.6 Consensus size: 17
7103407 ATTCATGCAT
7103417 CTAGTTCATTAAATAAA
1 CTAGTTCATTAAATAAA
* *
7103434 GTTAGTTCATTAATTAAA
1 -CTAGTTCATTAAATAAA
7103452 CTAGTTCATT
1 CTAGTTCATT
7103462 CATTGAACTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.42
Consensus pattern (17 bp):
CTAGTTCATTAAATAAA
Found at i:7103458 original size:17 final size:17
Alignment explanation
Indices: 7103417--7103488 Score: 81
Period size: 17 Copynumber: 4.2 Consensus size: 17
7103407 ATTCATGCAT
*
7103417 CTAGTTCATTAAATAAA
1 CTAGTTCATTAATTAAA
*
7103434 GTTAGTTCATTAATTAAA
1 -CTAGTTCATTAATTAAA
* *
7103452 CTAGTTCATTCATTGAA
1 CTAGTTCATTAATTAAA
* *
7103469 CTATTTCATTTATTAAA
1 CTAGTTCATTAATTAAA
7103486 CTA
1 CTA
7103489 AATCTTAATT
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
17 31 0.67
18 15 0.33
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.43
Consensus pattern (17 bp):
CTAGTTCATTAATTAAA
Found at i:7104783 original size:21 final size:22
Alignment explanation
Indices: 7104734--7104783 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
7104724 ACCACACTTC
7104734 TTTCATTTGCAAACTACTTCAA
1 TTTCATTTGCAAACTACTTCAA
* * * *
7104756 ATCCATTTGCATACT-TTTCAA
1 TTTCATTTGCAAACTACTTCAA
7104777 TTTCATT
1 TTTCATT
7104784 CTTTATTTGT
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.28, C:0.22, G:0.04, T:0.46
Consensus pattern (22 bp):
TTTCATTTGCAAACTACTTCAA
Found at i:7107241 original size:33 final size:33
Alignment explanation
Indices: 7107204--7107274 Score: 81
Period size: 34 Copynumber: 2.1 Consensus size: 33
7107194 CCTTTACAAC
*
7107204 TCCCTAGTTTTTTAC-GGGATAAACTAGAACCTT
1 TCCCTAG-CTTTTACAGGGATAAACTAGAACCTT
* * *
7107237 TCCCTAGCTTTTACATGGGCTTAGCTAGAACCTT
1 TCCCTAGCTTTTACA-GGGATAAACTAGAACCTT
7107271 TCCC
1 TCCC
7107275 CTTTACAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
32 6 0.19
33 7 0.22
34 19 0.59
ACGTcount: A:0.23, C:0.27, G:0.15, T:0.35
Consensus pattern (33 bp):
TCCCTAGCTTTTACAGGGATAAACTAGAACCTT
Found at i:7107721 original size:54 final size:54
Alignment explanation
Indices: 7107637--7107752 Score: 196
Period size: 54 Copynumber: 2.1 Consensus size: 54
7107627 ATTGCAGCCA
* *
7107637 GGGTGCATGGATGCATTGTAGGGTGCATCGATGCACTATGCATCGGTACACTTG
1 GGGTGCATGGATGCACTGCAGGGTGCATCGATGCACTATGCATCGGTACACTTG
* *
7107691 GTGTGCATGGATGCACTGCAGGGTGCATCGATGCACTGTGCATCGGTACACTTG
1 GGGTGCATGGATGCACTGCAGGGTGCATCGATGCACTATGCATCGGTACACTTG
7107745 GGGTGCAT
1 GGGTGCAT
7107753 CGGTACACTA
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.19, C:0.20, G:0.34, T:0.27
Consensus pattern (54 bp):
GGGTGCATGGATGCACTGCAGGGTGCATCGATGCACTATGCATCGGTACACTTG
Found at i:7107752 original size:19 final size:19
Alignment explanation
Indices: 7107675--7107761 Score: 69
Period size: 19 Copynumber: 4.7 Consensus size: 19
7107665 CGATGCACTA
*
7107675 TGCATCGGTACACTTGGTG
1 TGCATCGGTACACTTGGGG
*
7107694 TGCAT-GGATGCAC-TGCAGGG
1 TGCATCGG-TACACTTG--GGG
* *
7107714 TGCATCGATGCAC-T---G
1 TGCATCGGTACACTTGGGG
7107729 TGCATCGGTACACTTGGGG
1 TGCATCGGTACACTTGGGG
7107748 TGCATCGGTACACT
1 TGCATCGGTACACT
7107762 AATTGCATTC
Statistics
Matches: 55, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
15 12 0.22
16 1 0.02
18 4 0.07
19 24 0.44
20 13 0.24
21 1 0.02
ACGTcount: A:0.18, C:0.23, G:0.32, T:0.26
Consensus pattern (19 bp):
TGCATCGGTACACTTGGGG
Found at i:7107815 original size:20 final size:20
Alignment explanation
Indices: 7107790--7107862 Score: 82
Period size: 20 Copynumber: 3.9 Consensus size: 20
7107780 AGTAGTCACA
7107790 GGTGCATGGATACACTTCAG
1 GGTGCATGGATACACTTCAG
* *
7107810 GGTGCATCGATGCAC-T-A-
1 GGTGCATGGATACACTTCAG
*
7107827 -GTGCATGGATACACTACAG
1 GGTGCATGGATACACTTCAG
*
7107846 GGTGTATGGATACACTT
1 GGTGCATGGATACACTT
7107863 TGACACCCTT
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
16 12 0.29
18 2 0.05
19 1 0.02
20 27 0.64
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (20 bp):
GGTGCATGGATACACTTCAG
Found at i:7110644 original size:22 final size:23
Alignment explanation
Indices: 7110606--7110656 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 23
7110596 ATCGGCACAT
7110606 TGTTCACGGGTACTGTTCATCAC
1 TGTTCACGGGTACTGTTCATCAC
*
7110629 TGTTCAC-GGTATTGTTCATCAC
1 TGTTCACGGGTACTGTTCATCAC
*
7110651 TATTCA
1 TGTTCA
7110657 TAAAAATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 19 0.73
23 7 0.27
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.39
Consensus pattern (23 bp):
TGTTCACGGGTACTGTTCATCAC
Found at i:7117083 original size:81 final size:81
Alignment explanation
Indices: 7116985--7117157 Score: 337
Period size: 81 Copynumber: 2.1 Consensus size: 81
7116975 CCAATTCAAG
*
7116985 GCATTCAAGGTTGATGTTATCACCCATTAAAGGCCATTCACGTTCAAGCAAGGGAACATGTAATT
1 GCATTCAAGGCTGATGTTATCACCCATTAAAGGCCATTCACGTTCAAGCAAGGGAACATGTAATT
7117050 ACTAAATTCAAACTTT
66 ACTAAATTCAAACTTT
7117066 GCATTCAAGGCTGATGTTATCACCCATTAAAGGCCATTCACGTTCAAGCAAGGGAACATGTAATT
1 GCATTCAAGGCTGATGTTATCACCCATTAAAGGCCATTCACGTTCAAGCAAGGGAACATGTAATT
7117131 ACTAAATTCAAACTTT
66 ACTAAATTCAAACTTT
7117147 GCATTCAAGGC
1 GCATTCAAGGC
7117158 CTTTATCATG
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 91 1.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (81 bp):
GCATTCAAGGCTGATGTTATCACCCATTAAAGGCCATTCACGTTCAAGCAAGGGAACATGTAATT
ACTAAATTCAAACTTT
Found at i:7117316 original size:16 final size:16
Alignment explanation
Indices: 7117295--7117326 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7117285 GACATGTAGG
*
7117295 TTGTCCACATTTATCC
1 TTGTCCACATTCATCC
7117311 TTGTCCACATTCATCC
1 TTGTCCACATTCATCC
7117327 CCCCTTTCTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.34, G:0.06, T:0.41
Consensus pattern (16 bp):
TTGTCCACATTCATCC
Found at i:7118648 original size:2 final size:2
Alignment explanation
Indices: 7118641--7118666 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7118631 TTCCTCTCGC
7118641 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
7118667 TCCCCTCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7124569 original size:80 final size:80
Alignment explanation
Indices: 7124418--7124570 Score: 207
Period size: 80 Copynumber: 1.9 Consensus size: 80
7124408 TATTATGCTT
** * * * * * *
7124418 AAGCCATCCAAGATTGACTCGACTTCACGACGAACGGGTTAACCACGATTTCAAATTCATGACGA
1 AAGCCATCCAAGATCAACTCGACTTCACGAAGAAAGGATCAACCACGATTTCAAATTCATAACAA
*
7124483 ATGATATCGTGCTCA
66 AGGATATCGTGCTCA
* *
7124498 AAGCCATCCAATATCAACTCGACTTCACGAAGAAAGGATCAACCACGATTTCAACTTCATAACAA
1 AAGCCATCCAAGATCAACTCGACTTCACGAAGAAAGGATCAACCACGATTTCAAATTCATAACAA
7124563 AGGATATC
66 AGGATATC
7124571 ATGATCAAGA
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
80 62 1.00
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.22
Consensus pattern (80 bp):
AAGCCATCCAAGATCAACTCGACTTCACGAAGAAAGGATCAACCACGATTTCAAATTCATAACAA
AGGATATCGTGCTCA
Found at i:7124957 original size:22 final size:22
Alignment explanation
Indices: 7124932--7125159 Score: 193
Period size: 22 Copynumber: 10.0 Consensus size: 22
7124922 TATATGTGGT
*
7124932 TTTGAAGATATATAATATATAA
1 TTTGAAAATATATAATATATAA
*
7124954 TTTGAAAAATATATAATATAGT-T
1 TTTG-AAAATATATAATATA-TAA
* *
7124977 TTTGAAAATATATTATATAGT-T
1 TTTGAAAATATATAATATA-TAA
7124999 TTTGAATATATATATAATATATAA
1 TTTGAA-A-ATATATAATATATAA
*
7125023 TATTGAAAAATATATAATATAGT-T
1 T-TTG-AAAATATATAATATA-TAA
7125047 TTTGAAAATATAT--TATATAA
1 TTTGAAAATATATAATATATAA
7125067 TTTTTGAAAATATATAATATATAA
1 --TTTGAAAATATATAATATATAA
*
7125091 TTTTTGAAAATATATAATATAGT-T
1 --TTTGAAAATATATAATATA-TAA
7125115 TTTGAAAATATAT--TATATAA
1 TTTGAAAATATATAATATATAA
7125135 TTTTTGAAAAAATATATAATATATA
1 --TTTG--AAAATATATAATATATA
7125160 TAATTTTTGA
Statistics
Matches: 176, Mismatches: 9, Indels: 38
0.79 0.04 0.17
Matches are distributed among these distances:
19 2 0.01
20 8 0.05
22 66 0.38
23 23 0.13
24 63 0.36
25 6 0.03
26 8 0.05
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (22 bp):
TTTGAAAATATATAATATATAA
Found at i:7125101 original size:68 final size:68
Alignment explanation
Indices: 7124931--7125159 Score: 372
Period size: 70 Copynumber: 3.3 Consensus size: 68
7124921 ATATATGTGG
*
7124931 TTTTGAAGATATATAATATATAA-TTTGAAAAATATATAATATAGTTTTTGAAAATATATTATAT
1 TTTTGAAAATATATAATATATAATTTTGAAAAATATATAATATAGTTTTTGAAAATATATTATAT
*
7124995 AGT
66 AAT
*
7124998 TTTTGAATATATATATAATATATAATATTGAAAAATATATAATATAGTTTTTGAAAATATATTAT
1 TTTTGAA-A-ATATATAATATATAATTTTGAAAAATATATAATATAGTTTTTGAAAATATATTAT
7125063 ATAAT
64 ATAAT
7125068 TTTTGAAAATATATAATATATAATTTTTG-AAAATATATAATATAGTTTTTGAAAATATATTATA
1 TTTTGAAAATATATAATATATAA-TTTTGAAAAATATATAATATAGTTTTTGAAAATATATTATA
7125132 TAAT
65 TAAT
7125136 TTTTGAAAAAATATATAATATATA
1 TTTTG--AAAATATATAATATATA
7125160 TAATTTTTGA
Statistics
Matches: 152, Mismatches: 4, Indels: 9
0.92 0.02 0.05
Matches are distributed among these distances:
67 7 0.05
68 59 0.39
69 20 0.13
70 66 0.43
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (68 bp):
TTTTGAAAATATATAATATATAATTTTGAAAAATATATAATATAGTTTTTGAAAATATATTATAT
AAT
Found at i:7126035 original size:5 final size:5
Alignment explanation
Indices: 7126025--7126049 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
7126015 TTTCCTGATC
7126025 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
7126050 ATTGTTTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:7126137 original size:12 final size:12
Alignment explanation
Indices: 7126120--7126146 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
7126110 GGATCAAATT
7126120 TTTAAATTTTAA
1 TTTAAATTTTAA
7126132 TTTAAATTTTAA
1 TTTAAATTTTAA
7126144 TTT
1 TTT
7126147 TCGCAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
TTTAAATTTTAA
Found at i:7127963 original size:32 final size:32
Alignment explanation
Indices: 7127914--7127999 Score: 97
Period size: 32 Copynumber: 2.7 Consensus size: 32
7127904 TTATATATTG
* *
7127914 TTGAATTTTTTTTAC-TTTATATTCTTTTTGTA
1 TTGAATTTTATTCACTTTTA-ATTCTTTTTGTA
*
7127946 TTGAATTTTATTCACTTTTAATTCTTTTTTTA
1 TTGAATTTTATTCACTTTTAATTCTTTTTGTA
*
7127978 TTGCATTTT-TAT-ACTTTTAATT
1 TTGAATTTTAT-TCACTTTTAATT
7128000 ATAATTAATA
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
31 11 0.23
32 33 0.69
33 4 0.08
ACGTcount: A:0.21, C:0.08, G:0.05, T:0.66
Consensus pattern (32 bp):
TTGAATTTTATTCACTTTTAATTCTTTTTGTA
Found at i:7127994 original size:22 final size:22
Alignment explanation
Indices: 7127951--7127995 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
7127941 TTGTATTGAA
*
7127951 TTTTATTCACTTTTAATTCTTT
1 TTTTATTCACTTTTAATACTTT
*
7127973 TTTTATTGCA-TTTTTATACTTT
1 TTTTATT-CACTTTTAATACTTT
7127995 T
1 T
7127996 AATTATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.18, C:0.11, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTTATTCACTTTTAATACTTT
Found at i:7128518 original size:10 final size:10
Alignment explanation
Indices: 7128503--7128559 Score: 53
Period size: 10 Copynumber: 5.5 Consensus size: 10
7128493 ACTTTTTTTA
7128503 AAAAATCAAT
1 AAAAATCAAT
7128513 AAAAATGCAAT
1 AAAAAT-CAAT
*
7128524 AAAAA-GAATT
1 AAAAATCAA-T
*
7128534 AAAAATGAAT
1 AAAAATCAAT
*
7128544 AAAATTCAAT
1 AAAAATCAAT
7128554 ACAAAA
1 A-AAAA
7128560 AGAATATAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
9 2 0.05
10 22 0.56
11 15 0.38
ACGTcount: A:0.68, C:0.07, G:0.05, T:0.19
Consensus pattern (10 bp):
AAAAATCAAT
Found at i:7128528 original size:21 final size:20
Alignment explanation
Indices: 7128503--7128575 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 20
7128493 ACTTTTTTTA
7128503 AAAAATCAATAAAAATGCAAT
1 AAAAATCAATAAAAATG-AAT
*
7128524 AAAAA-GAATTAAAAATGAAT
1 AAAAATCAA-TAAAAATGAAT
* *
7128544 AAAATTCAATACAAAAAGAAT
1 AAAAATCAATA-AAAATGAAT
*
7128565 ATAAATTCAAT
1 A-AAAATCAAT
7128576 TTTTTTTTCA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
20 11 0.25
21 24 0.55
22 9 0.20
ACGTcount: A:0.66, C:0.07, G:0.05, T:0.22
Consensus pattern (20 bp):
AAAAATCAATAAAAATGAAT
Found at i:7128536 original size:32 final size:32
Alignment explanation
Indices: 7128500--7128569 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
7128490 TTCACTTTTT
7128500 TTAAAAAATCAATAAAAATGCAAT-AAAAAGAA
1 TTAAAAAATCAAT-AAAATGCAATAAAAAAGAA
* *
7128532 TT-AAAAATGAATAAAATTCAATACAAAAAGAA
1 TTAAAAAATCAATAAAATGCAATA-AAAAAGAA
7128564 TATAAA
1 T-TAAA
7128570 TTCAATTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
30 9 0.28
31 9 0.28
32 11 0.34
33 1 0.03
34 2 0.06
ACGTcount: A:0.67, C:0.06, G:0.06, T:0.21
Consensus pattern (32 bp):
TTAAAAAATCAATAAAATGCAATAAAAAAGAA
Found at i:7128559 original size:22 final size:22
Alignment explanation
Indices: 7128534--7128575 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
7128524 AAAAAGAATT
7128534 AAAAATGAATA-AAATTCAATAC
1 AAAAA-GAATATAAATTCAATAC
7128556 AAAAAGAATATAAATTCAAT
1 AAAAAGAATATAAATTCAAT
7128576 TTTTTTTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.64, C:0.07, G:0.05, T:0.24
Consensus pattern (22 bp):
AAAAAGAATATAAATTCAATAC
Found at i:7130008 original size:37 final size:38
Alignment explanation
Indices: 7129937--7130008 Score: 119
Period size: 37 Copynumber: 1.9 Consensus size: 38
7129927 CCCAAACCCG
7129937 ACCCGAATAGCACACTTAAAAAAACCCGACCCGACTCA
1 ACCCGAATAGCACACTTAAAAAAACCCGACCCGACTCA
* *
7129975 ACCCGAATATCACACTT-AAAAAACCCGATCCGAC
1 ACCCGAATAGCACACTTAAAAAAACCCGACCCGAC
7130009 CCGAACAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
37 16 0.50
38 16 0.50
ACGTcount: A:0.42, C:0.36, G:0.10, T:0.12
Consensus pattern (38 bp):
ACCCGAATAGCACACTTAAAAAAACCCGACCCGACTCA
Found at i:7130227 original size:36 final size:36
Alignment explanation
Indices: 7130158--7130229 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 36
7130148 AACCCGAACC
*
7130158 CGACCCGGATATCACACTTAAAAAATCCTGACCGACT
1 CGACCCGAATATCACACTTAAAAAA-CCTGACCGACT
7130195 CGACCCGAATATCACACTTAAAAAA-CTGGACCGAC
1 CGACCCGAATATCACACTTAAAAAACCT-GACCGAC
7130230 CCGAACAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
35 2 0.06
36 7 0.21
37 24 0.73
ACGTcount: A:0.38, C:0.32, G:0.14, T:0.17
Consensus pattern (36 bp):
CGACCCGAATATCACACTTAAAAAACCTGACCGACT
Found at i:7130307 original size:216 final size:219
Alignment explanation
Indices: 7129881--7130415 Score: 788
Period size: 216 Copynumber: 2.4 Consensus size: 219
7129871 ATATAAGGTA
* *
7129881 AAATTATATATATTTTTCGGGTCGATCCGGTTTTTTTCACCCTAAACCCAAACCCGACCCGAATA
1 AAATTATATATA-TTTTCGGGTCGATCCGGTTTTTTTCACCCTAAACCCGAACCCGACCCGGATA
*
7129946 GCACACTTAAAAAAACCCGACCCGACTCAACCCGAATATCACACTTAAAAAACCCGATCCGACCC
65 TCACACTTAAAAAAACCCGACCCGACTCAACCCGAATATCACACTTAAAAAACCCGATCCGACCC
* *
7130011 GAACAAAATAAAGTTTCATCGGACCCGACCCGACCCGAAATAATAAAAAATTATTTTTATTTAAT
130 GAACAAAATAAAATTTCAT----CCCGACCCGACCCGAAATAATAAAAAAATATTTTTATTTAAT
7130076 AAAAACAATGACTTAATCCGACCCGACCC
191 AAAAACAATGACTTAATCCGACCCGACCC
* *
7130105 AAATTATATATATTTTCGGGTCGGTCCAGTTTTTTTCACCCTAAACCCGAACCCGACCCGGATAT
1 AAATTATATATATTTTCGGGTCGATCCGGTTTTTTTCACCCTAAACCCGAACCCGACCCGGATAT
* * * **
7130170 CACACTTAAAAAATCCTGA-CCGACTCGACCCGAATATCACACTTAAAAAACTGGA-CCGACCCG
66 CACACTTAAAAAAACCCGACCCGACTCAACCCGAATATCACACTTAAAAAACCCGATCCGACCCG
7130233 AACAAAATAAAATTTCAT-CCGACCCGACCCGAAATAATAAAAAAATATTTTTATTTAATAAAAA
131 AACAAAATAAAATTTCATCCCGACCCGACCCGAAATAATAAAAAAATATTTTTATTTAATAAAAA
* *
7130297 CAGTGACTTAATCTGACCCGACCC
196 CAATGACTTAATCCGACCCGACCC
* * * *
7130321 GAATTATATATATTTTTGGGTCGATCCGGTTTTTTTCACCATAAAGCCGAACCCGACCCGACCCG
1 AAATTATATATATTTTCGGGTCGATCCGGTTTTTTTCACCCTAAACCCGAACCCGACCCG----G
*
7130386 AATATCACACTTAAAAAAACCCGATCCGAC
62 -ATATCACACTTAAAAAAACCCGACCCGAC
7130416 CAAAATAAAG
Statistics
Matches: 283, Mismatches: 22, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
216 121 0.43
220 1 0.00
221 46 0.16
222 38 0.13
223 65 0.23
224 12 0.04
ACGTcount: A:0.37, C:0.27, G:0.12, T:0.24
Consensus pattern (219 bp):
AAATTATATATATTTTCGGGTCGATCCGGTTTTTTTCACCCTAAACCCGAACCCGACCCGGATAT
CACACTTAAAAAAACCCGACCCGACTCAACCCGAATATCACACTTAAAAAACCCGATCCGACCCG
AACAAAATAAAATTTCATCCCGACCCGACCCGAAATAATAAAAAAATATTTTTATTTAATAAAAA
CAATGACTTAATCCGACCCGACCC
Found at i:7131675 original size:14 final size:12
Alignment explanation
Indices: 7131656--7131694 Score: 51
Period size: 14 Copynumber: 3.0 Consensus size: 12
7131646 ATCACTAATC
7131656 TAATAAAATAATA
1 TAATAAAATAA-A
7131669 TTAATAAAATAAA
1 -TAATAAAATAAA
7131682 TAACTAAAATAAA
1 TAA-TAAAATAAA
7131695 ATAAACTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 3 0.12
13 10 0.42
14 11 0.46
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (12 bp):
TAATAAAATAAA
Found at i:7131741 original size:7 final size:7
Alignment explanation
Indices: 7131720--7131752 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
7131710 ACATTGACCG
7131720 TATAATA
1 TATAATA
7131727 TATAAATA
1 TAT-AATA
7131735 TATAATA
1 TATAATA
7131742 TATAATA
1 TATAATA
7131749 TATA
1 TATA
7131753 TCCATAATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 18 0.72
8 7 0.28
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
TATAATA
Found at i:7135557 original size:129 final size:129
Alignment explanation
Indices: 7135320--7135661 Score: 497
Period size: 129 Copynumber: 2.6 Consensus size: 129
7135310 ATATATAGTT
* *
7135320 ATTTCCGATCGAGAATAAATGACAACTCATGCCTTAAAGCAGTCATTTATTACTCCAATCGAAAT
1 ATTTCCAATCGAGAATAAATGAC--CTCTTGCCTTAAAGCAGTCATTTATTACTCCAATCGAAAT
* * *
7135385 GAA-AGATATCATTATTTCGTCTTAAAATTCAATATTGATTCGAGAGAAAATGGTAATATCAAAT
64 GAAGAGATATCACTATTTCGTCTTAAAAATCAATATTGATTCGAGAGAAAATAGTAATATCAAAT
7135449 G
129 G
*
7135450 ATTTTCAATCGAGAATAAATGACCTCTTGCCTTAAAGCAGTCATTTATTACTCCAATCGAAATGA
1 ATTTCCAATCGAGAATAAATGACCTCTTGCCTTAAAGCAGTCATTTATTACTCCAATCGAAATGA
* * *
7135515 AGAGATATCACTATTTCGTCTTAAAAATCAATATTGATTCGAGAGAAAATATTAATATCTAATT
66 AGAGATATCACTATTTCGTCTTAAAAATCAATATTGATTCGAGAGAAAATAGTAATATCAAATG
* * * * *
7135579 ATTTCCAATCTAGAATAAATAACCTCTCATGCCTTAAAGAAGTCATTTATTAATCCAACCGAAAT
1 ATTTCCAATCGAGAATAAATGACCTCT--TGCCTTAAAGCAGTCATTTATTACTCCAATCGAAAT
* *
7135644 GAAGAGATTTTACTATTT
64 GAAGAGATATCACTATTT
7135662 TCAATATCTA
Statistics
Matches: 192, Mismatches: 17, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
128 42 0.22
129 80 0.42
130 21 0.11
131 49 0.26
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (129 bp):
ATTTCCAATCGAGAATAAATGACCTCTTGCCTTAAAGCAGTCATTTATTACTCCAATCGAAATGA
AGAGATATCACTATTTCGTCTTAAAAATCAATATTGATTCGAGAGAAAATAGTAATATCAAATG
Found at i:7137637 original size:90 final size:88
Alignment explanation
Indices: 7137523--7137686 Score: 292
Period size: 90 Copynumber: 1.8 Consensus size: 88
7137513 TCTCGAATAT
*
7137523 TTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCCAATATGATTAG
1 TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAA-CCCCAATATGATTAG
7137588 GGTAACTTGGATATAAGAGGATTA
65 GGTAACTTGGATATAAGAGGATTA
*
7137612 TTAAATTCTAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATTAG
1 TTAAATTC-AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCCAATATGATTAG
7137677 GGTAACTTGG
65 GGTAACTTGG
7137687 CAATAAAAGG
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
89 31 0.43
90 41 0.57
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.38
Consensus pattern (88 bp):
TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCCAATATGATTAGG
GTAACTTGGATATAAGAGGATTA
Found at i:7139218 original size:3 final size:3
Alignment explanation
Indices: 7139206--7139264 Score: 109
Period size: 3 Copynumber: 19.7 Consensus size: 3
7139196 ATAATAATAT
*
7139206 TAC TAA TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
7139254 TAC TAC TAC TA
1 TAC TAC TAC TA
7139265 ATAATAATAA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.36, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
TAC
Found at i:7139269 original size:3 final size:3
Alignment explanation
Indices: 7139263--7139329 Score: 127
Period size: 3 Copynumber: 22.7 Consensus size: 3
7139253 CTACTACTAC
7139263 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7139311 TAA TAA TAA TAA TAA -AA TA
1 TAA TAA TAA TAA TAA TAA TA
7139330 TTGAGGTGAA
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 61 0.97
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:7139616 original size:20 final size:20
Alignment explanation
Indices: 7139587--7139643 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
7139577 TATCTTGCCT
7139587 AAAGGTCTTATAGATGGCTCG
1 AAAGG-CTTATAGATGGCTCG
**
7139608 -AAGGACTTATCATCTGGCTCG
1 AAAGG-CTTAT-AGATGGCTCG
7139629 AAAGGCTTATAGATG
1 AAAGGCTTATAGATG
7139644 ATCCAAAGGA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
20 12 0.41
21 13 0.45
22 4 0.14
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (20 bp):
AAAGGCTTATAGATGGCTCG
Found at i:7140180 original size:42 final size:42
Alignment explanation
Indices: 7140079--7140186 Score: 114
Period size: 42 Copynumber: 2.6 Consensus size: 42
7140069 GCTCGAAGGT
* * *
7140079 CTTATGGATGGCCCGAAGGATTTA-TCATCTTCTTCAAAAGG
1 CTTATAGATGGCCCGAAGGATTTACTCATCTGCTTCAAAAGA
* * *
7140120 CTTATAGATGACCTGAAGGATTTACTCATCATGC-TCTAAAGA
1 CTTATAGATGGCCCGAAGGATTTACTCATC-TGCTTCAAAAGA
*
7140162 CTTACT-GATGGCCCGAAGGAATTAC
1 CTTA-TAGATGGCCCGAAGGATTTAC
7140187 CAATTTTGGA
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
41 21 0.38
42 31 0.56
43 3 0.05
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (42 bp):
CTTATAGATGGCCCGAAGGATTTACTCATCTGCTTCAAAAGA
Found at i:7140437 original size:243 final size:244
Alignment explanation
Indices: 7139588--7140674 Score: 1472
Period size: 243 Copynumber: 4.5 Consensus size: 244
7139578 ATCTTGCCTA
* * * * * *
7139588 AAGGTCTTATAGATGGCTCGAAGGACTTATCATCTGGCTCGAAAGGCTTATAGATGATCCAAAGG
1 AAGGTCTTATGGATGGCCCGAAAGACTTATCATCTTGCTCGAAAGGCTTATAGATGACCCGAAGG
* * * * *
7139653 ATTTTCTTATCATGCTCGAAAGACTTATTGACGGCCCGAAGGATTTACCAATTTTGGAAATAGTT
66 ATTTACTCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGTT
*
7139718 TACTAGGTAAGAAACTTT-GAAATT-TTTTCTTACATTTCAAAAATTTCAATTTTCAGATTTAAA
131 TACTAGGTAAGAAACTTTGGAAATTATTTTCTTACTTTTCAAAAATTTCAATTTTCAGATTTAAA
* *
7139781 TGAGAAACTTTTCTCATTTTTCGAAAAACATAG-GAAAACATCATGGCTG
196 TGAGAAACTTTTCTCATTTTTCGAAAAACAT-GTGAAAACATCATGCCCG
* ** * * *
7139830 AAGGTCTTCTGGATGGCCCGAATA-ACTTGCCATCTTGATTGAAAGGCTTATAGATGACCTGAAG
1 AAGGTCTTATGGATGGCCCGAA-AGACTTATCATCTTGCTCGAAAGGCTTATAGATGACCCGAAG
* * * *
7139894 GATTTACTCATCATGCTTGAAAGACTTACTGATAGCCCGAAGCACTTACCAATTTTGGAAATAAT
65 GATTTACTCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGT
* *
7139959 TTACTAGGTAAGAAACTTTGGAAATTTTTTTCTTACTTTTCAAAAATTTCAATTTTCAGGTTTAA
130 TTACTAGGTAAGAAACTTTGGAAATTATTTTCTTACTTTTCAAAAATTTCAATTTTCAGATTTAA
* * * *
7140024 ATTAGAAACTTTTCTTATTTTTCGAAAAACATGTGAAAACATCCTGCTCG
195 ATGAGAAACTTTTCTCATTTTTCGAAAAACATGTGAAAACATCATGCCCG
* * * *
7140074 AAGGTCTTATGGATGGCCCGAAGGATTTATCATCTT-CTTCAAAAGGCTTATAGATGACCTGAAG
1 AAGGTCTTATGGATGGCCCGAAAGACTTATCATCTTGC-TCGAAAGGCTTATAGATGACCCGAAG
* *
7140138 GATTTACTCATCATGCTCTAAAGACTTACTGATGGCCCGAAGGAATTACCAATTTTGGAAATAGT
65 GATTTACTCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGT
* * * *
7140203 TTACTAAGTAAGAAACATTGGAAATCATTTTCTTACTTTTCAAAAATTTCAATTTTCATATTTAA
130 TTACTAGGTAAGAAACTTTGGAAATTATTTTCTTACTTTTCAAAAATTTCAATTTTCAGATTTAA
* * *
7140268 ATGAGAAACTTTAT-TCATTTTTC-AAAAACATGTGAAAACAACCTGCCCA
195 ATGAGAAACTTT-TCTCATTTTTCGAAAAACATGTGAAAACATCATGCCCG
* * *
7140317 AAGGTCTTATGGATAGCCC-ACAAGACTTATAATCTTGCTCGAAAGGCTTATAGATAACCCGAAG
1 AAGGTCTTATGGATGGCCCGA-AAGACTTATCATCTTGCTCGAAAGGCTTATAGATGACCCGAAG
* *
7140381 GATTTACACATCATGCTCGAAAGACCTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGT
65 GATTTACTCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGT
* *
7140446 TTACTAGGTAAGAAACTTTGGAAATTATTTTCTTACTTTTCAAAAATTTCATTTTTCATATTTAA
130 TTACTAGGTAAGAAACTTTGGAAATTATTTTCTTACTTTTCAAAAATTTCAATTTTCAGATTTAA
** * * *
7140511 ATGAGAATTTTTTCTCATCTTTC-AAAAACATGTGAAATCATCATGCCTG
195 ATGAGAAACTTTTCTCATTTTTCGAAAAACATGTGAAAACATCATGCCCG
* * * * ** * *
7140560 AAGGTATTATGGATGGCCCGAATGACTTATCATCTTACTCAAAAGGCTTACGGATGACTCAAAGG
1 AAGGTCTTATGGATGGCCCGAAAGACTTATCATCTTGCTCGAAAGGCTTATAGATGACCCGAAGG
* * *
7140625 ATTTAATCATCATGCTCAAAAGACTTACTGATGGCTCGAAGGACTTACCA
66 ATTTACTCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCA
7140675 TGTAATAAAC
Statistics
Matches: 741, Mismatches: 93, Indels: 21
0.87 0.11 0.02
Matches are distributed among these distances:
242 128 0.17
243 341 0.46
244 271 0.37
245 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Consensus pattern (244 bp):
AAGGTCTTATGGATGGCCCGAAAGACTTATCATCTTGCTCGAAAGGCTTATAGATGACCCGAAGG
ATTTACTCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGTT
TACTAGGTAAGAAACTTTGGAAATTATTTTCTTACTTTTCAAAAATTTCAATTTTCAGATTTAAA
TGAGAAACTTTTCTCATTTTTCGAAAAACATGTGAAAACATCATGCCCG
Found at i:7140635 original size:42 final size:42
Alignment explanation
Indices: 7140588--7140667 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
7140578 CGAATGACTT
* *
7140588 ATCATCTTACTCAAAAGGCTTACGGATGACTCAAAGGATTTA
1 ATCATCATACTCAAAAGACTTACGGATGACTCAAAGGATTTA
* * * *
7140630 ATCATCATGCTCAAAAGACTTACTGATGGCTCGAAGGA
1 ATCATCATACTCAAAAGACTTACGGATGACTCAAAGGA
7140668 CTTACCATGT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (42 bp):
ATCATCATACTCAAAAGACTTACGGATGACTCAAAGGATTTA
Found at i:7144794 original size:31 final size:31
Alignment explanation
Indices: 7144728--7144793 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
7144718 TTGTCTTAGG
* * *
7144728 TTTTTCATCAGAATCTACTTTTTTTTATGTA
1 TTTTTCATCAGAATCTACTCTTTTTGATGGA
*
7144759 TTTTTCATCCGAATCTAC-CTTTTTGATGGA
1 TTTTTCATCAGAATCTACTCTTTTTGATGGA
7144789 TTTTT
1 TTTTT
7144794 TTCCTTTTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 14 0.45
31 17 0.55
ACGTcount: A:0.20, C:0.15, G:0.09, T:0.56
Consensus pattern (31 bp):
TTTTTCATCAGAATCTACTCTTTTTGATGGA
Found at i:7145341 original size:12 final size:12
Alignment explanation
Indices: 7145324--7145370 Score: 78
Period size: 12 Copynumber: 4.0 Consensus size: 12
7145314 TTAGGTGCTG
7145324 GAAACAAGATAA
1 GAAACAAGATAA
7145336 GAAACAAGATAA
1 GAAACAAGATAA
*
7145348 GAAACAAGATTA
1 GAAACAAGATAA
7145360 -AAACAAGATAA
1 GAAACAAGATAA
7145371 ATAAAATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
11 10 0.30
12 23 0.70
ACGTcount: A:0.66, C:0.09, G:0.15, T:0.11
Consensus pattern (12 bp):
GAAACAAGATAA
Found at i:7145367 original size:23 final size:24
Alignment explanation
Indices: 7145324--7145370 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
7145314 TTAGGTGCTG
7145324 GAAACAAGATAAGAAACAAGATAA
1 GAAACAAGATAAGAAACAAGATAA
*
7145348 GAAACAAGATTA-AAACAAGATAA
1 GAAACAAGATAAGAAACAAGATAA
7145371 ATAAAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.66, C:0.09, G:0.15, T:0.11
Consensus pattern (24 bp):
GAAACAAGATAAGAAACAAGATAA
Found at i:7150760 original size:155 final size:156
Alignment explanation
Indices: 7150538--7151035 Score: 602
Period size: 155 Copynumber: 3.2 Consensus size: 156
7150528 TTATGATCAC
* * * * * *
7150538 GTGGTTCAAATTTAGTAAAAAA-GACTT-CAATTAAGGATGAATCGAAGAAATATGAAAATTATG
1 GTGGTTCAAATTTGGTAAAAAATGACTTAAAATAAAGGATGAATTGAAGAAATAAGGAAATTAT-
*
7150601 AAAAATTAAGGGACTAAATTGAAAAATAGAAAATTTGTTATAAAAAATAGTAATTGAAAGTACAT
65 AAAAATTAAGGGACTAAATTGAAAAATAGAAAATTTGTTATAAAAAATAGAAATTGAAAGTACAT
* *
7150666 ATGTATTCTACGATGGTTTATGAGCAT
130 ATGTATTCTAAGATGGTTTAGGAGCAT
* *
7150693 GTGGTTCAAATTTGGTAAAAAAGGACTTAAAATAAAGGA-AAATTGAAGAAATAAGGAAATTATA
1 GTGGTTCAAATTTGGTAAAAAATGACTTAAAATAAAGGATGAATTGAAGAAATAAGGAAATTATA
* * * *
7150757 AAAA-TGAGGTAATAAATTGAAAAATAGAAAAAATTT-TTAT-CAAAATGAGAAATTGAAAGTAC
66 AAAATTAAGGGACTAAATTGAAAAATAG--AAAATTTGTTATAAAAAAT-AGAAATTGAAAGTAC
*
7150819 ATATGTCTTCTAAGATGGTTTAGGAGCAT
128 ATATGTATTCTAAGATGGTTTAGGAGCAT
* * **
7150848 GTGGTTCAAATTTGGTGAAAAACTTACTTAAAATAAATTATGAATTGAAGAAATAAGGAAATTAT
1 GTGGTTCAAATTTGGT-AAAAAATGACTTAAAATAAAGGATGAATTGAAGAAATAAGGAAATTAT
* * * * * *
7150913 AAAAATGAAAGGG-CTAAATTGAAAAATTGAAAATTTGTTATCAAAAAAGAGGAATT--CA-TAT
65 AAAAAT-TAAGGGACTAAATTGAAAAATAGAAAATTTGTTAT-AAAAAATAGAAATTGAAAGTAC
7150974 ATATGTATTCTAAGATGGTTTAGGAGCAT
128 ATATGTATTCTAAGATGGTTTAGGAGCAT
** *
7151003 GTGGTTCAAATTTCATAAAACATGACTTAAAAT
1 GTGGTTCAAATTTGGTAAAAAATGACTTAAAAT
7151036 TTGTTTAAAA
Statistics
Matches: 294, Mismatches: 37, Indels: 25
0.83 0.10 0.07
Matches are distributed among these distances:
154 39 0.13
155 130 0.44
156 58 0.20
157 40 0.14
158 20 0.07
159 7 0.02
ACGTcount: A:0.47, C:0.06, G:0.18, T:0.30
Consensus pattern (156 bp):
GTGGTTCAAATTTGGTAAAAAATGACTTAAAATAAAGGATGAATTGAAGAAATAAGGAAATTATA
AAAATTAAGGGACTAAATTGAAAAATAGAAAATTTGTTATAAAAAATAGAAATTGAAAGTACATA
TGTATTCTAAGATGGTTTAGGAGCAT
Found at i:7153388 original size:14 final size:14
Alignment explanation
Indices: 7153369--7153395 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7153359 ATATATATAT
7153369 GTGTATGTGTGTGC
1 GTGTATGTGTGTGC
7153383 GTGTATGTGTGTG
1 GTGTATGTGTGTG
7153396 TGCGTGTGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.04, G:0.44, T:0.44
Consensus pattern (14 bp):
GTGTATGTGTGTGC
Found at i:7153395 original size:16 final size:16
Alignment explanation
Indices: 7153374--7153412 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
7153364 TATATGTGTA
7153374 TGTGTGTGCGTGTATG
1 TGTGTGTGCGTGTATG
*
7153390 TGTGTGTGCGTGTGTG
1 TGTGTGTGCGTGTATG
*
7153406 TGAGTGT
1 TGTGTGT
7153413 AAGTGCGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.05, C:0.05, G:0.46, T:0.44
Consensus pattern (16 bp):
TGTGTGTGCGTGTATG
Found at i:7153405 original size:14 final size:14
Alignment explanation
Indices: 7153369--7153407 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 14
7153359 ATATATATAT
*
7153369 GTGTATGTGTGTGC
1 GTGTGTGTGTGTGC
7153383 GTGTATGTGTGTGTGC
1 GTG--TGTGTGTGTGC
7153399 GTGTGTGTG
1 GTGTGTGTG
7153408 AGTGTAAGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 9 0.41
16 13 0.59
ACGTcount: A:0.05, C:0.05, G:0.46, T:0.44
Consensus pattern (14 bp):
GTGTGTGTGTGTGC
Found at i:7153406 original size:20 final size:20
Alignment explanation
Indices: 7153366--7153466 Score: 75
Period size: 20 Copynumber: 5.0 Consensus size: 20
7153356 TATATATATA
* *
7153366 TATGTGTATGTGTGTGCGTG
1 TATGTGTATGTGCGTGTGTG
*
7153386 TATGTGTGTGTGCGTGTGTG
1 TATGTGTATGTGCGTGTGTG
*
7153406 TGA-GTGTAAGTGCGTGTGTG
1 T-ATGTGTATGTGCGTGTGTG
*
7153426 TGA-GTGTAAGTGCACGTGTGTG
1 T-ATGTGTATGTG--CGTGTGTG
* *
7153448 -A-GTGTCTGTGCATGTGTG
1 TATGTGTATGTGCGTGTGTG
7153466 T
1 T
7153467 GTCTATTTCT
Statistics
Matches: 69, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
18 7 0.10
20 53 0.77
21 1 0.01
22 8 0.12
ACGTcount: A:0.12, C:0.07, G:0.42, T:0.40
Consensus pattern (20 bp):
TATGTGTATGTGCGTGTGTG
Found at i:7153407 original size:10 final size:10
Alignment explanation
Indices: 7153389--7153467 Score: 59
Period size: 10 Copynumber: 7.9 Consensus size: 10
7153379 GTGCGTGTAT
7153389 GTGTGTGTGC
1 GTGTGTGTGC
*
7153399 GTGTGTGTGA
1 GTGTGTGTGC
**
7153409 GTGTAAGTGC
1 GTGTGTGTGC
*
7153419 GTGTGTGTGA
1 GTGTGTGTGC
**
7153429 GTGTAAGTGC
1 GTGTGTGTGC
** *
7153439 ACGTGTGTGA
1 GTGTGTGTGC
*
7153449 GTGTCTGTGC
1 GTGTGTGTGC
*
7153459 ATGTGTGTG
1 GTGTGTGTG
7153468 TCTATTTCTG
Statistics
Matches: 48, Mismatches: 21, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
10 48 1.00
ACGTcount: A:0.11, C:0.08, G:0.44, T:0.37
Consensus pattern (10 bp):
GTGTGTGTGC
Found at i:7153467 original size:20 final size:20
Alignment explanation
Indices: 7153395--7153467 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
7153385 GTATGTGTGT
*
7153395 GTGCGTGTGTGTGAGTGTAA
1 GTGCATGTGTGTGAGTGTAA
*
7153415 GTGCGTGTGTGTGAGTGTAA
1 GTGCATGTGTGTGAGTGTAA
* **
7153435 GTGCACGTGTGTGAGTGTCT
1 GTGCATGTGTGTGAGTGTAA
7153455 GTGCATGTGTGTG
1 GTGCATGTGTGTG
7153468 TCTATTTCTG
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.12, C:0.08, G:0.44, T:0.36
Consensus pattern (20 bp):
GTGCATGTGTGTGAGTGTAA
Found at i:7154538 original size:26 final size:25
Alignment explanation
Indices: 7154507--7154591 Score: 68
Period size: 26 Copynumber: 3.3 Consensus size: 25
7154497 GCTAAATTAG
7154507 AAATAAACAGTGACTAAATTAAAATA
1 AAATAAACA-TGACTAAATTAAAATA
* **
7154533 AAATAAA-ATAGCAGT-AGCT-AAATCA
1 AAATAAACAT-G-ACTAAATTAAAAT-A
7154558 GAAATAAACACTGACTAAATTAAAATA
1 -AAATAAACA-TGACTAAATTAAAATA
7154585 AAATAAA
1 AAATAAA
7154592 ACCAAATTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 16
0.67 0.09 0.24
Matches are distributed among these distances:
24 5 0.11
25 5 0.11
26 25 0.56
27 5 0.11
28 5 0.11
ACGTcount: A:0.61, C:0.09, G:0.08, T:0.21
Consensus pattern (25 bp):
AAATAAACATGACTAAATTAAAATA
Found at i:7154561 original size:52 final size:52
Alignment explanation
Indices: 7154493--7154592 Score: 182
Period size: 52 Copynumber: 1.9 Consensus size: 52
7154483 AATAAAAAAT
* *
7154493 AGTAGCTAAATTAGAAATAAACAGTGACTAAATTAAAATAAAATAAAATAGC
1 AGTAGCTAAATCAGAAATAAACACTGACTAAATTAAAATAAAATAAAATAGC
7154545 AGTAGCTAAATCAGAAATAAACACTGACTAAATTAAAATAAAATAAAA
1 AGTAGCTAAATCAGAAATAAACACTGACTAAATTAAAATAAAATAAAA
7154593 CCAAATTATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.59, C:0.09, G:0.10, T:0.22
Consensus pattern (52 bp):
AGTAGCTAAATCAGAAATAAACACTGACTAAATTAAAATAAAATAAAATAGC
Found at i:7158081 original size:73 final size:73
Alignment explanation
Indices: 7157939--7158179 Score: 367
Period size: 74 Copynumber: 3.3 Consensus size: 73
7157929 TCATGTATCA
* *
7157939 GAAACTATCTCAAGCGAGATGAATCTTGTTATAAGAAAAACAATCTCAATTGAGATAAATCTTCT
1 GAAACTATCTCAAGCGAGATGAATCTTGTT-TTAGAAAAACAATCTCAAGTGAGATAAATCTTCT
7158004 GTTTCGAGT
65 GTTTCGAGT
* * *
7158013 GAAACTATCTCAAGCGAGATGAATCATT-TTTTAGGAAAACAATCTCAAGTAAGATAAATCCTCT
1 GAAACTATCTCAAGCGAGATGAATC-TTGTTTTAGAAAAACAATCTCAAGTGAGATAAATCTTCT
*
7158077 GTTTCTAGT
65 GTTTCGAGT
* *
7158086 GAAACTATCTCAAGCGAGATGAATCTTGTTTTAAGAAAAACAATATCAAGTGAGCTAAATCTTCT
1 GAAACTATCTCAAGCGAGATGAATCTTGTTTT-AGAAAAACAATCTCAAGTGAGATAAATCTTCT
*
7158151 ATTTCGAGT
65 GTTTCGAGT
7158160 GAAACTATCTCAAGCGAGAT
1 GAAACTATCTCAAGCGAGAT
7158180 AAAATTTTTG
Statistics
Matches: 151, Mismatches: 13, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
72 2 0.01
73 66 0.44
74 81 0.54
75 2 0.01
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (73 bp):
GAAACTATCTCAAGCGAGATGAATCTTGTTTTAGAAAAACAATCTCAAGTGAGATAAATCTTCTG
TTTCGAGT
Found at i:7158258 original size:147 final size:146
Alignment explanation
Indices: 7157939--7158259 Score: 373
Period size: 147 Copynumber: 2.2 Consensus size: 146
7157929 TCATGTATCA
* * * * *
7157939 GAAACTATCTCAAGCGAGATGAATCTTGTTATAAGAAAAACAATCTCAATTGAGATAAATCTTCT
1 GAAACAATCTCAAACGAGATAAATCTTGTTATAAGAAAAACAATATCAAGTGAGATAAATCTTCT
* * *
7158004 GTTTCGAGTGAAACTATCTCAAGCGAGATGAATCATTTTTTAGGAAAACAATCTCAAGTAAGATA
66 ATTTCGAGTGAAACTATCTCAAGCGAGATAAAT-ATTTTTTAGGAAAACAATCTCAAGCAAGATA
7158069 AATCCTCTGTTTCTAGT
130 AATCCTCTGTTTCTAGT
* * * * *
7158086 GAAACTATCTCAAGCGAGATGAATCTTGTTTTAAGAAAAACAATATCAAGTGAGCTAAATCTTCT
1 GAAACAATCTCAAACGAGATAAATCTTGTTATAAGAAAAACAATATCAAGTGAGATAAATCTTCT
* * *
7158151 ATTTCGAGTGAAACTATCTCAAGCGAGATAAA-ATTTTTGCTTCGAGTAAAACTATCTCAAGCGA
66 ATTTCGAGTGAAACTATCTCAAGCGAGATAAATA-TTTT--TT--AGGAAAACAATCTCAAGCAA
*
7158215 GATGAAT-CT-TGTTT-TAG-
126 GATAAATCCTCTGTTTCTAGT
* *
7158232 GAAAACAATCTCAAATGGGATAAATCTT
1 G-AAACAATCTCAAACGAGATAAATCTT
7158260 ATGTTTCGAG
Statistics
Matches: 152, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
145 1 0.01
146 5 0.03
147 115 0.76
148 7 0.05
149 2 0.01
150 22 0.14
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (146 bp):
GAAACAATCTCAAACGAGATAAATCTTGTTATAAGAAAAACAATATCAAGTGAGATAAATCTTCT
ATTTCGAGTGAAACTATCTCAAGCGAGATAAATATTTTTTAGGAAAACAATCTCAAGCAAGATAA
ATCCTCTGTTTCTAGT
Found at i:7158268 original size:73 final size:74
Alignment explanation
Indices: 7158191--7158333 Score: 198
Period size: 73 Copynumber: 1.9 Consensus size: 74
7158181 AAATTTTTGC
* * * *
7158191 TTCGAGTAAAACTATCTCAAGCGAGATGAATCTTGTTTTAGGAAAA-CAATCTCAAATGGGATAA
1 TTCGAGTAAAACTATCTCAAGCGAGATAAATCTTGGTTTAGGAAAAGCAACCTCAAATGAGATAA
7158255 ATCTTATGT
66 ATCTTATGT
* * * * *
7158264 TTCGAGTGAAACTATCTCAAGGGAGATAAATCTTGGTTTATGAAAAGTAACCTCAAGTGAGATAA
1 TTCGAGTAAAACTATCTCAAGCGAGATAAATCTTGGTTTAGGAAAAGCAACCTCAAATGAGATAA
7158329 ATCTT
66 ATCTT
7158334 TGTATTAAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
73 41 0.68
74 19 0.32
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (74 bp):
TTCGAGTAAAACTATCTCAAGCGAGATAAATCTTGGTTTAGGAAAAGCAACCTCAAATGAGATAA
ATCTTATGT
Found at i:7158291 original size:111 final size:112
Alignment explanation
Indices: 7158087--7158293 Score: 335
Period size: 111 Copynumber: 1.9 Consensus size: 112
7158077 GTTTCTAGTG
* * *
7158087 AAACTATCTCAAGCGAGATGAATCTTGTTTTAAGAAAAACAATATCAAGTGAGCTAAATCTTCTA
1 AAACTATCTCAAGCGAGATGAATCTTGTTTTAAGAAAAACAATATCAAATGAGATAAATCTTATA
7158152 TTTCGAGTGAAACTATCTCAAGCGAGATAAAATTTTTGCTTCGAGTA
66 TTTCGAGTGAAACTATCTCAAGCGAGATAAAATTTTTGCTTCGAGTA
* * * *
7158199 AAACTATCTCAAGCGAGATGAATCTTGTTTT-AGGAAAACAATCTCAAATGGGATAAATCTTATG
1 AAACTATCTCAAGCGAGATGAATCTTGTTTTAAGAAAAACAATATCAAATGAGATAAATCTTATA
*
7158263 TTTCGAGTGAAACTATCTCAAGGGAGATAAA
66 TTTCGAGTGAAACTATCTCAAGCGAGATAAA
7158294 TCTTGGTTTA
Statistics
Matches: 87, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
111 56 0.64
112 31 0.36
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.30
Consensus pattern (112 bp):
AAACTATCTCAAGCGAGATGAATCTTGTTTTAAGAAAAACAATATCAAATGAGATAAATCTTATA
TTTCGAGTGAAACTATCTCAAGCGAGATAAAATTTTTGCTTCGAGTA
Found at i:7169448 original size:19 final size:19
Alignment explanation
Indices: 7169426--7169493 Score: 61
Period size: 19 Copynumber: 3.7 Consensus size: 19
7169416 TTTTTTGAAA
*
7169426 TTTTGGCTTTTTTGGCTTT
1 TTTTGGCTTTTTTGCCTTT
* *
7169445 TTTTTGTTTTTTTGCC--T
1 TTTTGGCTTTTTTGCCTTT
*
7169462 TTTT-GTTTTTTTGCCTTT
1 TTTTGGCTTTTTTGCCTTT
* *
7169480 TTTTTGTTTTTTTG
1 TTTTGGCTTTTTTG
7169494 AAAAAAAATA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
16 11 0.26
17 5 0.12
18 5 0.12
19 22 0.51
ACGTcount: A:0.00, C:0.09, G:0.15, T:0.76
Consensus pattern (19 bp):
TTTTGGCTTTTTTGCCTTT
Found at i:7169455 original size:35 final size:36
Alignment explanation
Indices: 7169415--7169496 Score: 112
Period size: 35 Copynumber: 2.3 Consensus size: 36
7169405 TCGTTTACAA
*
7169415 TTTTTTTGAAATTTTGGCTTTTTTGGCTTTTTTTTG
1 TTTTTTTGAAATTTTGGCTTTTTTGCCTTTTTTTTG
** * *
7169451 TTTTTTTG-CCTTTTTGTTTTTTTGCCTTTTTTTTG
1 TTTTTTTGAAATTTTGGCTTTTTTGCCTTTTTTTTG
7169486 TTTTTTTGAAA
1 TTTTTTTGAAA
7169497 AAAAATAGCA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
35 30 0.79
36 8 0.21
ACGTcount: A:0.07, C:0.07, G:0.13, T:0.72
Consensus pattern (36 bp):
TTTTTTTGAAATTTTGGCTTTTTTGCCTTTTTTTTG
Found at i:7169489 original size:8 final size:8
Alignment explanation
Indices: 7169443--7169493 Score: 57
Period size: 8 Copynumber: 6.0 Consensus size: 8
7169433 TTTTTTGGCT
7169443 TTTTTTTG
1 TTTTTTTG
7169451 TTTTTTTG
1 TTTTTTTG
**
7169459 CCTTTTTG
1 TTTTTTTG
7169467 TTTTTTTG
1 TTTTTTTG
7169475 CCTTTTTTTTG
1 ---TTTTTTTG
7169486 TTTTTTTG
1 TTTTTTTG
7169494 AAAAAAAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
8 28 0.78
11 8 0.22
ACGTcount: A:0.00, C:0.08, G:0.12, T:0.80
Consensus pattern (8 bp):
TTTTTTTG
Found at i:7179097 original size:30 final size:30
Alignment explanation
Indices: 7179063--7179137 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
7179053 TTTTAATGAA
7179063 TATTTAATTTGGAATAATT-AATTAAGATTT
1 TATTTAATTTGGAATAATTAAATT-AGATTT
** *
7179093 TATTTAATTTATAAAAATTAAATTAGATTT
1 TATTTAATTTGGAATAATTAAATTAGATTT
*
7179123 TAATTAATTTGGAAT
1 TATTTAATTTGGAAT
7179138 TACAAACCCT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
30 33 0.89
31 4 0.11
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (30 bp):
TATTTAATTTGGAATAATTAAATTAGATTT
Found at i:7182175 original size:798 final size:798
Alignment explanation
Indices: 7180639--7182236 Score: 3169
Period size: 798 Copynumber: 2.0 Consensus size: 798
7180629 AAACCTAGAG
7180639 GTTAATAATTTGGATGAATCATGAGTTAATTTGAACAACAGTTGTTCACCAAATGGAGGAGTTAC
1 GTTAATAATTTGGATGAATCATGAGTTAATTTGAACAACAGTTGTTCACCAAATGGAGGAGTTAC
7180704 ATGAGATGTAATTAATAAGGTGTTACTTACCCAAATAACCATTCTCCTAAAATAAAAACCAAAGT
66 ATGAGATGTAATTAATAAGGTGTTACTTACCCAAATAACCATTCTCCTAAAATAAAAACCAAAGT
*
7180769 TGATTTATGAATAGGGTGAAATATGGATCCCTACTTACTATAAAAAACTTTCAAGTTATTGTTTT
131 TGATTTATGAATAGGGTGAAATATGGATCCCTACTTACTATAAAAAACTTTCAAGTCATTGTTTT
7180834 CGAAATTAAAACATGAGGGCTTTTAATTTCGAATAAAATAGTGGGAGTAATTTATTAAAAAAATT
196 CGAAATTAAAACATGAGGGCTTTTAATTTCGAATAAAATAGTGGGAGTAATTTATTAAAAAAATT
7180899 TATTTATAAATTTTTAAACCTGGTAAATTTACTTACATCGTATGTTTTCATTGTTGTAGACTTAA
261 TATTTATAAATTTTTAAACCTGGTAAATTTACTTACATCGTATGTTTTCATTGTTGTAGACTTAA
7180964 TGGCAAACAACACACTTTCATTGCGATCGATCATTAAGAAGGATAAGCTAAATGGCATAAACTTC
326 TGGCAAACAACACACTTTCATTGCGATCGATCATTAAGAAGGATAAGCTAAATGGCATAAACTTC
7181029 CTTGACTGGTTCTGTAATTTGTGAATTGTTCTCAAACAATAAATGAAAGAATATGTCATAAAAGA
391 CTTGACTGGTTCTGTAATTTGTGAATTGTTCTCAAACAATAAATGAAAGAATATGTCATAAAAGA
7181094 AATTGTTCTTGATAAACTGGCACGTAATGCTTATAGAGCTGGCAAAGACAAATTTAGGAAACATA
456 AATTGTTCTTGATAAACTGGCACGTAATGCTTATAGAGCTGGCAAAGACAAATTTAGGAAACATA
7181159 TGAATACTATGATAGATGTGGGATGTTTAATACTTGCCACCATGACTCTTGAGCTTCAGAAGCAA
521 TGAATACTATGATAGATGTGGGATGTTTAATACTTGCCACCATGACTCTTGAGCTTCAGAAGCAA
7181224 TATGAGGACATGGTTACATATGAGATGATTCAAAGTCTCAAGGAATTGTATAAGGGGAAAGCACG
586 TATGAGGACATGGTTACATATGAGATGATTCAAAGTCTCAAGGAATTGTATAAGGGGAAAGCACG
7181289 TCAAGAGAGGTGTGAGACCTCTAAAGCTCTATTTCAATGCAAAATGAGTGAGGGATCTCTTGTAG
651 TCAAGAGAGGTGTGAGACCTCTAAAGCTCTATTTCAATGCAAAATGAGTGAGGGATCTCTTGTAG
7181354 GAGCTCACGTAATCAAGATGATGGGCGATATCCAAATGTTGGATAAGTTGGGATTTCCACTCAAA
716 GAGCTCACGTAATCAAGATGATGGGCGATATCCAAATGTTGGATAAGTTGGGATTTCCACTCAAA
7181419 GATAAATTGGACACTGAT
781 GATAAATTGGACACTGAT
7181437 GTTAATAATTTGGATGAATCATGAGTTAATTTGAACAACAGTTGTTCACCAAATGGAGGAGTTAC
1 GTTAATAATTTGGATGAATCATGAGTTAATTTGAACAACAGTTGTTCACCAAATGGAGGAGTTAC
7181502 ATGAGATGTAATTAATAAGGTGTTACTTACCCAAATAACCATTCTCCTAAAATAAAAACCAAAGT
66 ATGAGATGTAATTAATAAGGTGTTACTTACCCAAATAACCATTCTCCTAAAATAAAAACCAAAGT
7181567 TGATTTATGAATAGGGTGAAATATGGATCCCTACTTACTATAAAAAACTTTCAAGTCATTGTTTT
131 TGATTTATGAATAGGGTGAAATATGGATCCCTACTTACTATAAAAAACTTTCAAGTCATTGTTTT
7181632 CGAAATTAAAACATGAGGGCTTTTAATTTCGAATAAAATAGTGGGAGTAATTTATTAAAAAAATT
196 CGAAATTAAAACATGAGGGCTTTTAATTTCGAATAAAATAGTGGGAGTAATTTATTAAAAAAATT
7181697 TATTTATAAATTTTTAAACCTGGTAAATTTACTTACATCGTATGTTTTCATTGTTGTAGACTTAA
261 TATTTATAAATTTTTAAACCTGGTAAATTTACTTACATCGTATGTTTTCATTGTTGTAGACTTAA
*
7181762 TGGCAAACAAGACACTTTCATTGCGATCGATCATTAAGAAGGATAAGCTAAATGGCATAAACTTC
326 TGGCAAACAACACACTTTCATTGCGATCGATCATTAAGAAGGATAAGCTAAATGGCATAAACTTC
7181827 CTTGACTGGTTCTGTAATTTGTGAATTGTTCTCAAACAATAAATGAAAGAATATGTCATAAAAGA
391 CTTGACTGGTTCTGTAATTTGTGAATTGTTCTCAAACAATAAATGAAAGAATATGTCATAAAAGA
7181892 AATTGTTCTTGATAAACTGGCACGTAATGCTTATAGAGCTGGCAAAGACAAATTTAGGAAACATA
456 AATTGTTCTTGATAAACTGGCACGTAATGCTTATAGAGCTGGCAAAGACAAATTTAGGAAACATA
7181957 TGAATACTATGATAGATGTGGGATGTTTAATACTTGCCACCATGACTCTTGAGCTTCAGAAGCAA
521 TGAATACTATGATAGATGTGGGATGTTTAATACTTGCCACCATGACTCTTGAGCTTCAGAAGCAA
*
7182022 TATGAGGACATGGTTACATATGAGATGATTCAAAGTCTCAAGGAATTGTATGAGGGGAAAGCACG
586 TATGAGGACATGGTTACATATGAGATGATTCAAAGTCTCAAGGAATTGTATAAGGGGAAAGCACG
7182087 TCAAGAGAGGTGTGAGACCTCTAAAGCTCTATTTCAATGCAAAATGAGTGAGGGATCTCTTGTAG
651 TCAAGAGAGGTGTGAGACCTCTAAAGCTCTATTTCAATGCAAAATGAGTGAGGGATCTCTTGTAG
7182152 GAGCTCACGTAATCAAGATGATGGGCGATATCCAAATGTTGGATAAGTTGGGATTTCCACTCAAA
716 GAGCTCACGTAATCAAGATGATGGGCGATATCCAAATGTTGGATAAGTTGGGATTTCCACTCAAA
7182217 GATAAATTGGACACTGAT
781 GATAAATTGGACACTGAT
7182235 GT
1 GT
7182237 CATCTTGCAA
Statistics
Matches: 797, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
798 797 1.00
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.31
Consensus pattern (798 bp):
GTTAATAATTTGGATGAATCATGAGTTAATTTGAACAACAGTTGTTCACCAAATGGAGGAGTTAC
ATGAGATGTAATTAATAAGGTGTTACTTACCCAAATAACCATTCTCCTAAAATAAAAACCAAAGT
TGATTTATGAATAGGGTGAAATATGGATCCCTACTTACTATAAAAAACTTTCAAGTCATTGTTTT
CGAAATTAAAACATGAGGGCTTTTAATTTCGAATAAAATAGTGGGAGTAATTTATTAAAAAAATT
TATTTATAAATTTTTAAACCTGGTAAATTTACTTACATCGTATGTTTTCATTGTTGTAGACTTAA
TGGCAAACAACACACTTTCATTGCGATCGATCATTAAGAAGGATAAGCTAAATGGCATAAACTTC
CTTGACTGGTTCTGTAATTTGTGAATTGTTCTCAAACAATAAATGAAAGAATATGTCATAAAAGA
AATTGTTCTTGATAAACTGGCACGTAATGCTTATAGAGCTGGCAAAGACAAATTTAGGAAACATA
TGAATACTATGATAGATGTGGGATGTTTAATACTTGCCACCATGACTCTTGAGCTTCAGAAGCAA
TATGAGGACATGGTTACATATGAGATGATTCAAAGTCTCAAGGAATTGTATAAGGGGAAAGCACG
TCAAGAGAGGTGTGAGACCTCTAAAGCTCTATTTCAATGCAAAATGAGTGAGGGATCTCTTGTAG
GAGCTCACGTAATCAAGATGATGGGCGATATCCAAATGTTGGATAAGTTGGGATTTCCACTCAAA
GATAAATTGGACACTGAT
Found at i:7188108 original size:112 final size:113
Alignment explanation
Indices: 7187941--7188157 Score: 339
Period size: 112 Copynumber: 1.9 Consensus size: 113
7187931 CGTGACTACT
* * *
7187941 TTCATTCACTCATATGCACATATCTTCCATTTATTAAAAAAGAGTATCCAAGTAATA-CATGACA
1 TTCATTAACTCATATGCACATATCTACCATTTATTAAAAAAGAGTATCCAAGTAATACCACGACA
7188005 AAGAAGAGCGTCCCTCTATAGTTATGCCAAACCATTTATTAAACATAA
66 AAGAAGAGCGTCCCTCTATAGTTATGCCAAACCATTTATTAAACATAA
* * *
7188053 TTCATTAACTCATATGCACGTATCTACCATTTATTAAAATAGAGTAT-TAAGGTAATACCACGAC
1 TTCATTAACTCATATGCACATATCTACCATTTATTAAAAAAGAGTATCCAA-GTAATACCACGAC
* *
7188117 AAAGAAGAGTGTCCCTCTATAGTTATGCCAAAGCATTTATT
65 AAAGAAGAGCGTCCCTCTATAGTTATGCCAAACCATTTATT
7188158 TGAAATTAAA
Statistics
Matches: 95, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
111 2 0.02
112 49 0.52
113 44 0.46
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (113 bp):
TTCATTAACTCATATGCACATATCTACCATTTATTAAAAAAGAGTATCCAAGTAATACCACGACA
AAGAAGAGCGTCCCTCTATAGTTATGCCAAACCATTTATTAAACATAA
Found at i:7199885 original size:21 final size:20
Alignment explanation
Indices: 7199860--7199898 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
7199850 TATCAAAGTC
*
7199860 TTTGTTGAAGCCATTAAATCT
1 TTTGTCGAAGCCA-TAAATCT
*
7199881 TTTGTCGAGGCCATAAAT
1 TTTGTCGAAGCCATAAAT
7199899 TTATGCAGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.38
Consensus pattern (20 bp):
TTTGTCGAAGCCATAAATCT
Found at i:7206497 original size:43 final size:42
Alignment explanation
Indices: 7206450--7206540 Score: 173
Period size: 43 Copynumber: 2.1 Consensus size: 42
7206440 TAGTCAAGTG
7206450 AAAATGTCAAGGCAAAATAGAATGTAAACACGAGAATTATGTT
1 AAAATGTCAAGGCAAAATAGAATGTAAACACGAGAATTATG-T
7206493 AAAATGTCAAGGCAAAATAGAATGTAAACACGAGAATTATGT
1 AAAATGTCAAGGCAAAATAGAATGTAAACACGAGAATTATGT
7206535 AAAATG
1 AAAATG
7206541 ACTTTGTAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 7 0.15
43 41 0.85
ACGTcount: A:0.51, C:0.09, G:0.19, T:0.22
Consensus pattern (42 bp):
AAAATGTCAAGGCAAAATAGAATGTAAACACGAGAATTATGT
Found at i:7208700 original size:30 final size:31
Alignment explanation
Indices: 7208634--7208700 Score: 102
Period size: 30 Copynumber: 2.2 Consensus size: 31
7208624 TAATGAATAT
*
7208634 TTAA-TTCAAAATAATTAAATAAGATTTTAT
1 TTAATTTCAAAATAATTAAATAAGATTTTAA
*
7208664 TTAATTTC-AAATAATTAAATTAGATTTTAA
1 TTAATTTCAAAATAATTAAATAAGATTTTAA
7208694 TTAATTT
1 TTAATTT
7208701 GCAATTAGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
30 31 0.91
31 3 0.09
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (31 bp):
TTAATTTCAAAATAATTAAATAAGATTTTAA
Found at i:7211361 original size:29 final size:30
Alignment explanation
Indices: 7211319--7211375 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
7211309 TTTTATTTCG
*
7211319 GGGAGTAAACTGAATTTTGA-TTAAATTTA
1 GGGAGTAAAATGAATTTTGATTTAAATTTA
* *
7211348 GGGATTAAAATGAATTTTTATTTAAATT
1 GGGAGTAAAATGAATTTTGATTTAAATT
7211376 AAAGCCTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.39, C:0.02, G:0.18, T:0.42
Consensus pattern (30 bp):
GGGAGTAAAATGAATTTTGATTTAAATTTA
Found at i:7213413 original size:14 final size:14
Alignment explanation
Indices: 7213394--7213434 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
7213384 CATGAGTTAG
7213394 AGTCAGTAAATGTC
1 AGTCAGTAAATGTC
7213408 AGTCAGTAAATGTC
1 AGTCAGTAAATGTC
* *
7213422 AGTAAGTACATGT
1 AGTCAGTAAATGT
7213435 GTTTAGAGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (14 bp):
AGTCAGTAAATGTC
Found at i:7217405 original size:19 final size:21
Alignment explanation
Indices: 7217373--7217415 Score: 56
Period size: 19 Copynumber: 2.1 Consensus size: 21
7217363 TGTGTTTAAG
7217373 TTGACTTTCTATGC-AAA-AT
1 TTGACTTTCTATGCTAAATAT
7217392 TTGACTTT-TGATGCTAAATAT
1 TTGACTTTCT-ATGCTAAATAT
7217413 TTG
1 TTG
7217416 TATTTTATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
18 1 0.05
19 12 0.57
20 3 0.14
21 5 0.24
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.47
Consensus pattern (21 bp):
TTGACTTTCTATGCTAAATAT
Found at i:7218126 original size:20 final size:19
Alignment explanation
Indices: 7218101--7218150 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 19
7218091 ATAATGATAA
7218101 TAATTTCATAATGAATACTT
1 TAATTTCATAATGAAT-CTT
7218121 TAATTTCATAATGAATCTT
1 TAATTTCATAATGAATCTT
7218140 TCAATTTCATA
1 T-AATTTCATA
7218151 TTTTTGGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 4 0.14
20 25 0.86
ACGTcount: A:0.38, C:0.12, G:0.04, T:0.46
Consensus pattern (19 bp):
TAATTTCATAATGAATCTT
Found at i:7223261 original size:22 final size:22
Alignment explanation
Indices: 7223235--7223290 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
7223225 ATACTCATGA
* *
7223235 TGGTATAGATACCCTAATATGG
1 TGGTATCGATACCCTAATACGG
*
7223257 TGGTATCGATACCCTAGTACGG
1 TGGTATCGATACCCTAATACGG
*
7223279 TGCTATCGATAC
1 TGGTATCGATAC
7223291 TCTAGCTAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (22 bp):
TGGTATCGATACCCTAATACGG
Found at i:7223308 original size:21 final size:20
Alignment explanation
Indices: 7223258--7223310 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 20
7223248 CTAATATGGT
*
7223258 GGTATCGATACCCTAGTACG
1 GGTATCGATACCCTAGTAAG
*
7223278 GTGCTATCGATACTCTAGCTAAG
1 G-G-TATCGATACCCTAG-TAAG
7223301 GGTATCGATA
1 GGTATCGATA
7223311 TTGTCCAGTC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
20 1 0.04
21 9 0.32
22 14 0.50
23 4 0.14
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (20 bp):
GGTATCGATACCCTAGTAAG
Found at i:7224758 original size:49 final size:49
Alignment explanation
Indices: 7224596--7224770 Score: 140
Period size: 48 Copynumber: 3.6 Consensus size: 49
7224586 CTAAGGGTAC
* * * * *
7224596 CCACCCTC-AATGAAAATCTATGAAGGGATTGAGCGCTCCTAACAGAGT
1 CCACCCTCAAATAAAAATCTATAAAGGGTTTGAGCGCTCCCAAGAGAGT
** * * * * * * * *
7224644 CTTCCCTCAAACAGAAATCAAAAAAGAGCTTGATCGCTCCCAAGCGAGT
1 CCACCCTCAAATAAAAATCTATAAAGGGTTTGAGCGCTCCCAAGAGAGT
* * * * *
7224693 TCTCCCT-TAATAAAAATCTATAAAGGGTTTGAGCACTCCCAAGTGAGT
1 CCACCCTCAAATAAAAATCTATAAAGGGTTTGAGCGCTCCCAAGAGAGT
*
7224741 CCACCCTCAAATAAAAATCTA-CAAGGGTTT
1 CCACCCTCAAATAAAAATCTATAAAGGGTTT
7224771 ATGTGCTCCT
Statistics
Matches: 95, Mismatches: 30, Indels: 4
0.74 0.23 0.03
Matches are distributed among these distances:
48 50 0.53
49 45 0.47
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (49 bp):
CCACCCTCAAATAAAAATCTATAAAGGGTTTGAGCGCTCCCAAGAGAGT
Found at i:7235064 original size:48 final size:48
Alignment explanation
Indices: 7234992--7235136 Score: 132
Period size: 48 Copynumber: 3.0 Consensus size: 48
7234982 GTTCTCTCTC
* *
7234992 AAATGAAAATTACCAAAGGATTTGAGCGCTCCCAAAAGAGCTCACCCT-
1 AAATGAAAATT-CCAAAGGGTTTGAGCGCTCCCAAAAGAGCCCACCCTA
* * * **
7235040 CAATGAAAATCTCCAAAGGGTTTGAGCACTCCCTAGTGAGCCCACCCTA
1 AAATGAAAAT-TCCAAAGGGTTTGAGCGCTCCCAAAAGAGCCCACCCTA
** * * *
7235089 AAATGAAAATTTTGAAAGGGTTTGAGTGCTCTCAAGCA-AGCCCACCCT
1 AAATGAAAA-TTCCAAAGGGTTTGAGCGCTCCCAA-AAGAGCCCACCCT
7235137 TACAAAACTT
Statistics
Matches: 77, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
48 39 0.51
49 37 0.48
50 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (48 bp):
AAATGAAAATTCCAAAGGGTTTGAGCGCTCCCAAAAGAGCCCACCCTA
Found at i:7235111 original size:49 final size:48
Alignment explanation
Indices: 7234992--7235114 Score: 138
Period size: 48 Copynumber: 2.5 Consensus size: 48
7234982 GTTCTCTCTC
* * * *
7234992 AAATGAAAATTACCAAAGGATTTGAGCGCTCCCAAAAGAGCTCACCCT
1 AAATGAAAATTTCCAAAGGGTTTGAGCACTCCCAAAAGAGCCCACCCT
* * * **
7235040 CAATGAAAATCTCCAAAGGGTTTGAGCACTCCCTAGTGAGCCCACCCT
1 AAATGAAAATTTCCAAAGGGTTTGAGCACTCCCAAAAGAGCCCACCCT
**
7235088 AAAATGAAAATTTTGAAAGGGTTTGAG
1 -AAATGAAAATTTCCAAAGGGTTTGAG
7235115 TGCTCTCAAG
Statistics
Matches: 61, Mismatches: 13, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
48 39 0.64
49 22 0.36
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.22
Consensus pattern (48 bp):
AAATGAAAATTTCCAAAGGGTTTGAGCACTCCCAAAAGAGCCCACCCT
Found at i:7235922 original size:13 final size:13
Alignment explanation
Indices: 7235904--7235929 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7235894 AAAGGTAATG
7235904 ATACAGCTTCAGC
1 ATACAGCTTCAGC
7235917 ATACAGCTTCAGC
1 ATACAGCTTCAGC
7235930 CTATTTTGAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.31, G:0.15, T:0.23
Consensus pattern (13 bp):
ATACAGCTTCAGC
Done.