Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 174 of 276
Found at i:57158560 original size:44 final size:43
Alignment explanation
Indices: 57158424--57158574 Score: 157
Period size: 44 Copynumber: 3.5 Consensus size: 43
57158414 CAATACCAAC
* * * *
57158424 GTCCCAGACGTGGTCTTACATGT-AATCAAACATCGATGCCACT
1 GTCCCAGACATGGTCTTACATGTAAAACAAA-ATCGATGACAAT
* * * *
57158467 ATCCCAGACAGGGTCTTACA--CAAAATC-AGATACGATGACAAT
1 GTCCCAGACATGGTCTTACATGTAAAA-CAAAAT-CGATGACAAT
57158509 GTCCCAGACATGGTCTTACATGTAAAACAAAAGTCGATGACAAT
1 GTCCCAGACATGGTCTTACATGTAAAACAAAA-TCGATGACAAT
*
57158553 GTCCCAGACGTGGTCTTACATG
1 GTCCCAGACATGGTCTTACATG
57158575 ATATCACATA
Statistics
Matches: 88, Mismatches: 13, Indels: 13
0.77 0.11 0.11
Matches are distributed among these distances:
41 2 0.02
42 29 0.33
43 19 0.22
44 37 0.42
45 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACATGTAAAACAAAATCGATGACAAT
Found at i:57159046 original size:70 final size:70
Alignment explanation
Indices: 57158950--57159097 Score: 242
Period size: 70 Copynumber: 2.1 Consensus size: 70
57158940 ACAACACATT
* * * *
57158950 TTAATTTGCTAAACACCATGATTTTGTCCTAATTTGGACAGCCAATAATTTATAGTATTACAGCA
1 TTAATTAGCTAAACACCATAAATTTGTCCTAATTTGGACAGCCAATAATTTACAGTATTACAGCA
57159015 GCATA
66 GCATA
* *
57159020 TTAATTAGCTAAGCACCATAAATTTGTCCTAATTTGGACAGCCAATAATTTACAGTATTACAGTA
1 TTAATTAGCTAAACACCATAAATTTGTCCTAATTTGGACAGCCAATAATTTACAGTATTACAGCA
57159085 GCATA
66 GCATA
57159090 TTAATTAG
1 TTAATTAG
57159098 TAATAAACTA
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
70 72 1.00
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (70 bp):
TTAATTAGCTAAACACCATAAATTTGTCCTAATTTGGACAGCCAATAATTTACAGTATTACAGCA
GCATA
Found at i:57164114 original size:42 final size:42
Alignment explanation
Indices: 57164050--57164133 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
57164040 GAAATGTGAT
57164050 TGTAAAGTTGAAGTATGAGAAATGCGGACTGAATATATGAGG
1 TGTAAAGTTGAAGTATGAGAAATGCGGACTGAATATATGAGG
* *
57164092 TGTAAAGTTGAAGTATGTGAAATGCGGATTGAATATATGAGG
1 TGTAAAGTTGAAGTATGAGAAATGCGGACTGAATATATGAGG
57164134 CACTAAGTGT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.37, C:0.04, G:0.31, T:0.29
Consensus pattern (42 bp):
TGTAAAGTTGAAGTATGAGAAATGCGGACTGAATATATGAGG
Found at i:57175262 original size:40 final size:40
Alignment explanation
Indices: 57175207--57175355 Score: 262
Period size: 40 Copynumber: 3.7 Consensus size: 40
57175197 TATTTGGATG
*
57175207 ATAACCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
57175247 ATAACCGGGCTAAGTCCCGAAAGCATTTCTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
57175287 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
57175327 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
57175356 AGCAAGTAGC
Statistics
Matches: 103, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 103 1.00
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:57175369 original size:80 final size:80
Alignment explanation
Indices: 57175207--57175378 Score: 258
Period size: 80 Copynumber: 2.2 Consensus size: 80
57175197 TATTTGGATG
57175207 ATAACCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAACCGGGCTAAGTCCCGAAAGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAACCGGGCTAAGTCCCGAAAGCA
* *
57175272 TTTCTGCGAGTTACT
66 TTTCAGCAAGTTACT
* * *
57175287 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAACCGGGCTAAGTCCCGAAAGCA
*
57175352 TTTGAGCAAG-TAGCT
66 TTTCAGCAAGTTA-CT
*
57175367 ATATCC-GGCTAA
1 ATAACCGGGCTAA
57175379 ATTTCGAAGG
Statistics
Matches: 84, Mismatches: 7, Indels: 3
0.89 0.07 0.03
Matches are distributed among these distances:
79 8 0.10
80 76 0.90
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.24
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAACCGGGCTAAGTCCCGAAAGCA
TTTCAGCAAGTTACT
Found at i:57175388 original size:39 final size:40
Alignment explanation
Indices: 57175207--57175380 Score: 201
Period size: 40 Copynumber: 4.4 Consensus size: 40
57175197 TATTTGGATG
* *
57175207 ATAACCGGGCTAAGTCCCGAAGGCATTTGTA-CGAGTTACT
1 ATAACCGGGCTAAATCCCGAAGGCATTTG-AGCAAGTTACT
* * ** *
57175247 ATAACCGGGCTAAGTCCCGAAAGCATTTCTGCGAGTTACT
1 ATAACCGGGCTAAATCCCGAAGGCATTTGAGCAAGTTACT
* * *
57175287 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACT
1 ATAACCGGGCTAAATCCCGAAGGCATTTGAGCAAGTTACT
*
57175327 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCT
1 ATAACCGGGCTAAATCCCGAAGGCATTTGAGCAAGTTA-CT
*
57175367 ATATCC-GGCTAAAT
1 ATAACCGGGCTAAAT
57175381 TTCGAAGGTA
Statistics
Matches: 122, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
39 9 0.07
40 113 0.93
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAATCCCGAAGGCATTTGAGCAAGTTACT
Found at i:57182540 original size:40 final size:40
Alignment explanation
Indices: 57182378--57182526 Score: 210
Period size: 40 Copynumber: 3.7 Consensus size: 40
57182368 TATTTGGATG
* * *
57182378 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
57182418 A-ATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGTGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
57182458 ATAACCCGGATAAGTCCCGAAGGCATTTGTTCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
57182498 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
57182527 AGCAAGTAGC
Statistics
Matches: 95, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
39 1 0.01
40 93 0.98
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:57182559 original size:39 final size:40
Alignment explanation
Indices: 57182378--57182559 Score: 154
Period size: 40 Copynumber: 4.6 Consensus size: 40
57182368 TATTTGGATG
* * * * *
57182378 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACC
1 ATAACCGGGCTAAATCCCGAAGGCATTTGAGCAAGTTACT
* * * **
57182418 A-ATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGTGTTACT
1 ATA-ACCGGGCTAAATCCCGAAGGCATTTGAGCAAGTTACT
* * * ** *
57182458 ATAACCCGGATAAGTCCCGAAGGCATTTGTTCGAGTTACT
1 ATAACCGGGCTAAATCCCGAAGGCATTTGAGCAAGTTACT
*
57182498 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCT
1 ATAACCGGGCTAAATCCCGAAGGCATTTGAGCAAGTTA-CT
* *
57182538 ATATCC-GGCTAAATTCCGAAGG
1 ATAACCGGGCTAAATCCCGAAGG
57182560 TACTTGGTTT
Statistics
Matches: 121, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
39 17 0.14
40 103 0.85
41 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAATCCCGAAGGCATTTGAGCAAGTTACT
Found at i:57188432 original size:27 final size:27
Alignment explanation
Indices: 57188402--57188653 Score: 241
Period size: 27 Copynumber: 9.4 Consensus size: 27
57188392 CACCTTAATC
*
57188402 AAAATACCCTCAGTTTGTAAAATTACA
1 AAAATACCCTCAGTTTGTAAAATTACT
*
57188429 AAAATACCC-CTAGTTTGTAAAATTACC
1 AAAATACCCTC-AGTTTGTAAAATTACT
* *
57188456 GAAATACCCTCTGTTTGTAAAATTAC-
1 AAAATACCCTCAGTTTGTAAAATTACT
* * *
57188482 CAAATACCCCCTAATTTGTAAAATTACT
1 AAAATACCCTC-AGTTTGTAAAATTACT
*
57188510 AAAATACCC-CTGATTTGTAAAATTACT
1 AAAATACCCTCAG-TTTGTAAAATTACT
* *
57188537 AAAATACCC-C-GAATTGTAAAATTATT
1 AAAATACCCTCAG-TTTGTAAAATTACT
* *
57188563 AAAATACCATC-GATTTGTAAAATTACC
1 AAAATACCCTCAG-TTTGTAAAATTACT
* *
57188590 AAAATACCTTTAGTTTGTAAAATTACT
1 AAAATACCCTCAGTTTGTAAAATTACT
* *
57188617 AAAATACCC-CTGTAGTGTAAAATTACCT
1 AAAATACCCTCAGT-TTGTAAAATTA-CT
57188645 -AAATACCCT
1 AAAATACCCT
57188654 TATAGTGTAA
Statistics
Matches: 192, Mismatches: 23, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
26 34 0.18
27 146 0.76
28 12 0.06
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (27 bp):
AAAATACCCTCAGTTTGTAAAATTACT
Found at i:57188461 original size:54 final size:53
Alignment explanation
Indices: 57188402--57188668 Score: 299
Period size: 54 Copynumber: 5.0 Consensus size: 53
57188392 CACCTTAATC
* * *
57188402 AAAATACCCTCAGTTTGTAAAATTACAAAAATACCCCTAGTTTGTAAAATTACC
1 AAAATACCCTCTGTTTGTAAAATTACCAAAATACCCCTA-TTTGTAAAATTACT
*
57188456 GAAATACCCTCTGTTTGTAAAATTACC-AAATACCCCCTAATTTGTAAAATTACT
1 AAAATACCCTCTGTTTGTAAAATTACCAAAATA-CCCCT-ATTTGTAAAATTACT
* * * *
57188510 AAAATACCC-CTGATTTGTAAAATTACTAAAATACCCCGAATTGTAAAATTATT
1 AAAATACCCTCTG-TTTGTAAAATTACCAAAATACCCCTATTTGTAAAATTACT
* **
57188563 AAAATACCATC-GATTTGTAAAATTACCAAAATACCTTTAGTTTGTAAAATTACT
1 AAAATACCCTCTG-TTTGTAAAATTACCAAAATACCCCTA-TTTGTAAAATTACT
* * * *
57188617 AAAATACCC-CTGTAGTGTAAAATTACCTAAATACCCTTATAGTGTAAAATTA
1 AAAATACCCTCTGT-TTGTAAAATTACCAAAATACCCCTAT-TTGTAAAATTA
57188669 TCGAAATACC
Statistics
Matches: 183, Mismatches: 21, Indels: 18
0.82 0.09 0.08
Matches are distributed among these distances:
53 56 0.31
54 121 0.66
55 6 0.03
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (53 bp):
AAAATACCCTCTGTTTGTAAAATTACCAAAATACCCCTATTTGTAAAATTACT
Found at i:57188589 original size:107 final size:108
Alignment explanation
Indices: 57188402--57188652 Score: 307
Period size: 107 Copynumber: 2.3 Consensus size: 108
57188392 CACCTTAATC
* * * * * *
57188402 AAAATA-CCCTCAGTTTGTAAAATTACAAAAATACCCCTAGTTTGTAAAATTACCGAAATACCCT
1 AAAATACCCCTGA-TTTGTAAAATTACTAAAATACCCCGAGATTGTAAAATTACCAAAATACCAT
57188466 CTGTTTGTAAAATTACC-AAATACCCCCTAATTTGTAAAATTACT
65 CTGTTTGTAAAATTACCAAAATA-CCCCTAATTTGTAAAATTACT
**
57188510 AAAATACCCCTGATTTGTAAAATTACTAAAATACCCCGA-ATTGTAAAATTATTAAAATACCATC
1 AAAATACCCCTGATTTGTAAAATTACTAAAATACCCCGAGATTGTAAAATTACCAAAATACCATC
** *
57188574 -GATTTGTAAAATTACCAAAATACCTTTAGTTTGTAAAATTACT
66 TG-TTTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACT
*
57188617 AAAATACCCCTG-TAGTGTAAAATTACCT-AAATACCC
1 AAAATACCCCTGAT-TTGTAAAATTA-CTAAAATACCC
57188653 TTATAGTGTA
Statistics
Matches: 126, Mismatches: 12, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
106 2 0.02
107 82 0.65
108 37 0.29
109 5 0.04
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (108 bp):
AAAATACCCCTGATTTGTAAAATTACTAAAATACCCCGAGATTGTAAAATTACCAAAATACCATC
TGTTTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACT
Found at i:57188659 original size:27 final size:27
Alignment explanation
Indices: 57188416--57188681 Score: 196
Period size: 27 Copynumber: 9.9 Consensus size: 27
57188406 TACCCTCAGT
**
57188416 TTGTAAAATTACAAAAATACCCCTAGT-
1 TTGTAAAATTACCTAAATACCCCTA-TA
* *
57188443 TTGTAAAATTACCGAAATACCCTCTGT-
1 TTGTAAAATTACCTAAATACCC-CTATA
57188470 TTGTAAAATTACC-AAATACCCCCTA-A
1 TTGTAAAATTACCTAAATA-CCCCTATA
57188496 TTTGTAAAATTA-CTAAAATACCCCTGAT-
1 -TTGTAAAATTACCT-AAATACCCCT-ATA
*
57188524 TTGTAAAATTA-CTAAAATACCCCGA-A
1 TTGTAAAATTACCT-AAATACCCCTATA
* * *
57188550 TTGTAAAATTA-TTAAAATACCATCGAT-
1 TTGTAAAATTACCT-AAATACC-CCTATA
* **
57188577 TTGTAAAATTACCAAAATACCTTTAGT-
1 TTGTAAAATTACCTAAATACCCCTA-TA
*
57188604 TTGTAAAATTA-CTAAAATACCCCTGTA
1 TTGTAAAATTACCT-AAATACCCCTATA
* *
57188631 GTGTAAAATTACCTAAATACCCTTATA
1 TTGTAAAATTACCTAAATACCCCTATA
* * *
57188658 GTGTAAAATTATCGAAATACCCCT
1 TTGTAAAATTACCTAAATACCCCT
57188682 GTAGGGTAAA
Statistics
Matches: 202, Mismatches: 21, Indels: 32
0.79 0.08 0.13
Matches are distributed among these distances:
26 33 0.16
27 159 0.79
28 10 0.05
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (27 bp):
TTGTAAAATTACCTAAATACCCCTATA
Found at i:57188680 original size:134 final size:134
Alignment explanation
Indices: 57188416--57188668 Score: 311
Period size: 134 Copynumber: 1.9 Consensus size: 134
57188406 TACCCTCAGT
* *
57188416 TTGTAAAATTACAAAAATACCCCTAGTTTGTAAAATTACCGAAATACCCTCTGTTTGTAAAATTA
1 TTGTAAAATTACAAAAATACCCCGAGTTTGTAAAATTACCAAAATACCCTCTGTTTGTAAAATTA
* * *
57188481 CCAAATACCCCCTAATTTGTAAAATTACTAAAATACCCCTGATTTGTAAAATTACTAAAATACCC
66 CAAAATACCCCCTAATGTGTAAAATTACTAAAATACCCCTGATGTGTAAAATTACTAAAATACCC
57188546 CGAA
131 CGAA
** * *
57188550 TTGTAAAATTATTAAAATACCATCGA-TTTGTAAAATTACCAAAATA-CCTTTAGTTTGTAAAAT
1 TTGTAAAATTACAAAAATACC-CCGAGTTTGTAAAATTACCAAAATACCCTCT-GTTTGTAAAAT
* *
57188613 TACTAAAATA-CCCCT-GTAGTGTAAAATTACCT-AAATA-CCCTTATAGTGTAAAATTA
64 TAC-AAAATACCCCCTAAT-GTGTAAAATTA-CTAAAATACCCCTGAT-GTGTAAAATTA
57188669 TCGAAATACC
Statistics
Matches: 102, Mismatches: 11, Indels: 12
0.82 0.09 0.10
Matches are distributed among these distances:
133 11 0.11
134 82 0.80
135 9 0.09
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.33
Consensus pattern (134 bp):
TTGTAAAATTACAAAAATACCCCGAGTTTGTAAAATTACCAAAATACCCTCTGTTTGTAAAATTA
CAAAATACCCCCTAATGTGTAAAATTACTAAAATACCCCTGATGTGTAAAATTACTAAAATACCC
CGAA
Found at i:57189141 original size:27 final size:27
Alignment explanation
Indices: 57189111--57189185 Score: 71
Period size: 27 Copynumber: 2.8 Consensus size: 27
57189101 TTGCCAATTG
*
57189111 TATTTACTTGTGGCTATGTGCCTATCA
1 TATTTACTTGTGGCTATGTGCCGATCA
* * *
57189138 TATTTA-TTGATGACTCTGTGTCGATCA
1 TATTTACTTG-TGGCTATGTGCCGATCA
***
57189165 TATTTACCCATGGCTATGTGC
1 TATTTACTTGTGGCTATGTGC
57189186 AAATTATATT
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
26 3 0.08
27 33 0.92
ACGTcount: A:0.20, C:0.19, G:0.19, T:0.43
Consensus pattern (27 bp):
TATTTACTTGTGGCTATGTGCCGATCA
Found at i:57190178 original size:27 final size:25
Alignment explanation
Indices: 57190140--57190406 Score: 230
Period size: 27 Copynumber: 10.0 Consensus size: 25
57190130 AAAACCTCGA
57190140 TTTGTAAAATTACAGAAATACCCCTAG
1 TTTGTAAAATTAC-GAAATACCCCT-G
* **
57190167 TTTGTAAAATTACCAAAATACCCTCAA
1 TTTGTAAAATTA-CGAAATACCC-CTG
* * **
57190194 TTTGAAAAATTACCAAATACCCGCAA
1 TTTGTAAAATTACGAAATACCC-CTG
*
57190220 TATGTAAAATTACTGAAATACCCCTG
1 TTTGTAAAATTAC-GAAATACCCCTG
57190246 ATTTGTAAAATTATCGAAATACCCCTG
1 -TTTGTAAAATTA-CGAAATACCCCTG
** *
57190273 ATTTGTAAAATTATTAAAATACCCAT-
1 -TTTGTAAAATTA-CGAAATACCCCTG
57190299 TTTGTAAAATTACCGAAATACCCCTG
1 TTTGTAAAATTA-CGAAATACCCCTG
*
57190325 ATTTGTAAAATTATTGAAATACCCCTG
1 -TTTGTAAAATTA-CGAAATACCCCTG
* * *
57190352 TAGTGTAAAATTACCTAAATACCCTTG
1 T-TTGTAAAATTA-CGAAATACCCCTG
*
57190379 TAGTGTAAAATTATCGAAATACCCCTG
1 T-TTGTAAAATTA-CGAAATACCCCTG
57190406 T
1 T
57190407 AGGGCAAAAT
Statistics
Matches: 203, Mismatches: 29, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
25 21 0.10
26 25 0.12
27 154 0.76
28 3 0.01
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.32
Consensus pattern (25 bp):
TTTGTAAAATTACGAAATACCCCTG
Found at i:57190293 original size:54 final size:53
Alignment explanation
Indices: 57190138--57190405 Score: 262
Period size: 54 Copynumber: 5.0 Consensus size: 53
57190128 TTAAAACCTC
***
57190138 GATTTGTAAAATTACAGAAATACCCCT-AGTTTGTAAAATTACCAAAATA-CCCT
1 GATTTGTAAAATTAC-GAAATACCCCTGA-TTTGTAAAATTATTGAAATACCCCT
* * * * * *
57190191 CAATTTGAAAAATTACCAAATACCCGC-AATATGTAAAATTACTGAAATACCCCT
1 -GATTTGTAAAATTACGAAATACCC-CTGATTTGTAAAATTATTGAAATACCCCT
* *
57190245 GATTTGTAAAATTATCGAAATACCCCTGATTTGTAAAATTATTAAAATACCCAT
1 GATTTGTAAAATTA-CGAAATACCCCTGATTTGTAAAATTATTGAAATACCCCT
57190299 --TTTGTAAAATTACCGAAATACCCCTGATTTGTAAAATTATTGAAATACCCCT
1 GATTTGTAAAATTA-CGAAATACCCCTGATTTGTAAAATTATTGAAATACCCCT
* * * * *
57190351 G-TAGTGTAAAATTACCTAAATACCCTTG-TAGTGTAAAATTATCGAAATACCCCT
1 GAT-TTGTAAAATTA-CGAAATACCCCTGAT-TTGTAAAATTATTGAAATACCCCT
57190405 G
1 G
57190406 TAGGGCAAAA
Statistics
Matches: 184, Mismatches: 22, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
52 49 0.27
53 40 0.22
54 95 0.52
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (53 bp):
GATTTGTAAAATTACGAAATACCCCTGATTTGTAAAATTATTGAAATACCCCT
Found at i:57190372 original size:106 final size:105
Alignment explanation
Indices: 57190142--57190402 Score: 305
Period size: 106 Copynumber: 2.5 Consensus size: 105
57190132 AACCTCGATT
* *
57190142 TGTAAAATTACAGAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCTCAATTTGAAAAATTA
1 TGTAAAATTACCGAAATACCCCTGA-TTTGTAAAATTATCAAAATA-CC-CAATTTGAAAAATTA
*
57190206 CCAAATACCCGCAATATGTAAAATTACTGAAATACCCCTGATT
63 CCAAATACCCGCAATATGTAAAATTACTGAAATACCCCTGATG
* * * *
57190249 TGTAAAATTATCGAAATACCCCTGATTTGTAAAATTATTAAAATACCCATTTTGTAAAATTACCG
1 TGTAAAATTACCGAAATACCCCTGATTTGTAAAATTATCAAAATACCCAATTTGAAAAATTACC-
* * *
57190314 AAATACCC-CTGATTTGTAAAATTATTGAAATACCCCTG-TAG
65 AAATACCCGC-AATATGTAAAATTACTGAAATACCCCTGAT-G
* * * *
57190355 TGTAAAATTACCTAAATACCCTTG-TAGTGTAAAATTATCGAAATACCC
1 TGTAAAATTACCGAAATACCCCTGAT-TTGTAAAATTATCAAAATACCC
57190403 CTGTAGGGCA
Statistics
Matches: 133, Mismatches: 16, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
105 18 0.14
106 75 0.56
107 39 0.29
108 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.31
Consensus pattern (105 bp):
TGTAAAATTACCGAAATACCCCTGATTTGTAAAATTATCAAAATACCCAATTTGAAAAATTACCA
AATACCCGCAATATGTAAAATTACTGAAATACCCCTGATG
Found at i:57190864 original size:27 final size:27
Alignment explanation
Indices: 57190816--57190917 Score: 71
Period size: 27 Copynumber: 3.8 Consensus size: 27
57190806 ATCTTGACTA
* * *
57190816 TGGCTTTGTGCCAATTACATTTACCTG
1 TGGCTATGTGCCAATCATATTTACCTG
* *
57190843 TGGCTATGTGCCTATCATATTTA-TTG
1 TGGCTATGTGCCAATCATATTTACCTG
* * *** **
57190869 ATGACTCTGTGTTGATCATATTTACCCA
1 -TGGCTATGTGCCAATCATATTTACCTG
*
57190897 TGGCTATGTGCCAATTATATT
1 TGGCTATGTGCCAATCATATT
57190918 ACCATTGTTG
Statistics
Matches: 54, Mismatches: 19, Indels: 4
0.70 0.25 0.05
Matches are distributed among these distances:
26 2 0.04
27 52 0.96
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.42
Consensus pattern (27 bp):
TGGCTATGTGCCAATCATATTTACCTG
Found at i:57193496 original size:55 final size:53
Alignment explanation
Indices: 57193371--57193559 Score: 218
Period size: 55 Copynumber: 3.5 Consensus size: 53
57193361 AACTTAACAT
* * * *
57193371 TGCCATGTCTTGACATGGTCTTACGTAGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAGAACTCATCAA
* * *
57193424 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG-AACTCATCAA
* * * *
57193479 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAGAACTCATCAA
* *
57193533 TTCCATGCCTTGGCATGGTCTTACATG
1 TGCCATGCCTTGACATGGTCTTACATG
57193560 ATATCCTTAT
Statistics
Matches: 115, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
52 2 0.02
53 33 0.29
54 34 0.30
55 44 0.38
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAGAACTCATCAA
Found at i:57193646 original size:47 final size:46
Alignment explanation
Indices: 57193530--57193753 Score: 177
Period size: 47 Copynumber: 4.8 Consensus size: 46
57193520 TAGAACTTAT
* * * * * * *
57193530 CAATTCCATGCCTTGGCATGGTCTTACATGATATCCTTATCTTA-C
1 CAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGTCATATG
* ***
57193575 CAAATGTCATGTTCCAAACATGGTCTTACATGGTATCCTTGTCATAGTG
1 C-AATGCCATG-TCTTGACATGGTCTTACATGGTATCCTTGTCATA-TG
** ** *
57193624 CAATGCCACATCTTGATGTGGTCTTACATGG-AGTCCTTAATCA-ATG
1 CAATGCCATGTCTTGACATGGTCTTACATGGTA-TCCTT-GTCATATG
* * * * *
57193670 CCAATGCCATGTCTTAACATGGTCTTACATGGGATCCTTGCCTTA-C
1 -CAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGTCATATG
57193716 CAATGCCATGTCTTGACATGGTCTTACATGGTATCCTT
1 CAATGCCATGTCTTGACATGGTCTTACATGGTATCCTT
57193754 AACTGTCAAT
Statistics
Matches: 139, Mismatches: 31, Indels: 18
0.74 0.16 0.10
Matches are distributed among these distances:
45 37 0.27
46 11 0.08
47 80 0.58
48 10 0.07
49 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (46 bp):
CAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGTCATATG
Found at i:57200338 original size:14 final size:16
Alignment explanation
Indices: 57200306--57200344 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
57200296 ATTTATATAA
*
57200306 CATATATCACCTATTT
1 CATATATCACCTATGT
57200322 CATATATCA-CT-TGT
1 CATATATCACCTATGT
57200336 CATATATCA
1 CATATATCA
57200345 TCATTTTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.50
15 2 0.09
16 9 0.41
ACGTcount: A:0.33, C:0.23, G:0.03, T:0.41
Consensus pattern (16 bp):
CATATATCACCTATGT
Found at i:57203365 original size:5 final size:5
Alignment explanation
Indices: 57203350--57203384 Score: 63
Period size: 5 Copynumber: 7.2 Consensus size: 5
57203340 AAATTCCAAC
57203350 TTTTA -TTTA TTTTA TTTTA TTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T
57203385 ATATACCATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.14
5 25 0.86
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:57204281 original size:39 final size:39
Alignment explanation
Indices: 57204209--57204402 Score: 201
Period size: 39 Copynumber: 4.9 Consensus size: 39
57204199 CCAGTCACTA
* * * *
57204209 GCACAAAGCCTTCGGGACTTTAAGCCCGGATAT-ATTCCC
1 GCACATAGCCTAC-GGACTTTAAGTCCGAATATAATTCCC
* * *
57204248 AGCACGTAGCCTACGGACCTTAAGTCCGAATATAATTCCT
1 -GCACATAGCCTACGGACTTTAAGTCCGAATATAATTCCC
* * * * *
57204288 GCATATAGCCTGCTGACTTTAAGTCAGAATATAATTCTC
1 GCACATAGCCTACGGACTTTAAGTCCGAATATAATTCCC
* *
57204327 GCATATAGCCTACGGACTTTAAGTCCGGATATAATTCCC
1 GCACATAGCCTACGGACTTTAAGTCCGAATATAATTCCC
* * * *
57204366 GCACATAGCCTGCGGACTTTTAGTCTGGATATAATTC
1 GCACATAGCCTACGGACTTTAAGTCCGAATATAATTC
57204403 TCAAATATCA
Statistics
Matches: 129, Mismatches: 24, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 114 0.88
40 15 0.12
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (39 bp):
GCACATAGCCTACGGACTTTAAGTCCGAATATAATTCCC
Found at i:57204353 original size:78 final size:78
Alignment explanation
Indices: 57204254--57204404 Score: 230
Period size: 78 Copynumber: 1.9 Consensus size: 78
57204244 TCCCAGCACG
* * *
57204254 TAGCCTACGGACCTTAAGTCCGAATATAATTCCTGCATATAGCCTGCTGACTTTAAGTCAGAATA
1 TAGCCTACGGACCTTAAGTCCGAATATAATTCCCGCACATAGCCTGCGGACTTTAAGTCAGAATA
57204319 TAATTCTCGCATA
66 TAATTCTCGCATA
* * * * *
57204332 TAGCCTACGGACTTTAAGTCCGGATATAATTCCCGCACATAGCCTGCGGACTTTTAGTCTGGATA
1 TAGCCTACGGACCTTAAGTCCGAATATAATTCCCGCACATAGCCTGCGGACTTTAAGTCAGAATA
57204397 TAATTCTC
66 TAATTCTC
57204405 AAATATCATG
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
78 65 1.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (78 bp):
TAGCCTACGGACCTTAAGTCCGAATATAATTCCCGCACATAGCCTGCGGACTTTAAGTCAGAATA
TAATTCTCGCATA
Found at i:57208224 original size:14 final size:14
Alignment explanation
Indices: 57208205--57208231 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
57208195 CCTAATGACG
57208205 AGATTGTTACAGAA
1 AGATTGTTACAGAA
57208219 AGATTGTTACAGA
1 AGATTGTTACAGA
57208232 GGTTAGAAGC
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:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (14 bp):
AGATTGTTACAGAA
Found at i:57208307 original size:106 final size:106
Alignment explanation
Indices: 57208122--57208364 Score: 486
Period size: 106 Copynumber: 2.3 Consensus size: 106
57208112 AGGAATGTGT
57208122 CAGAGGTTAGAAGCCTCCTAGGCTTAGCCGGTTATTACAGATGGTTTGTTAAAGGATTTTCCATG
1 CAGAGGTTAGAAGCCTCCTAGGCTTAGCCGGTTATTACAGATGGTTTGTTAAAGGATTTTCCATG
57208187 ATTGTTACCCTAATGACGAGATTGTTACAGAAAGATTGTTA
66 ATTGTTACCCTAATGACGAGATTGTTACAGAAAGATTGTTA
57208228 CAGAGGTTAGAAGCCTCCTAGGCTTAGCCGGTTATTACAGATGGTTTGTTAAAGGATTTTCCATG
1 CAGAGGTTAGAAGCCTCCTAGGCTTAGCCGGTTATTACAGATGGTTTGTTAAAGGATTTTCCATG
57208293 ATTGTTACCCTAATGACGAGATTGTTACAGAAAGATTGTTA
66 ATTGTTACCCTAATGACGAGATTGTTACAGAAAGATTGTTA
57208334 CAGAGGTTAGAAGCCTCCTAGGCTTAGCCGG
1 CAGAGGTTAGAAGCCTCCTAGGCTTAGCCGG
57208365 ATGATGCATC
Statistics
Matches: 137, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
106 137 1.00
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (106 bp):
CAGAGGTTAGAAGCCTCCTAGGCTTAGCCGGTTATTACAGATGGTTTGTTAAAGGATTTTCCATG
ATTGTTACCCTAATGACGAGATTGTTACAGAAAGATTGTTA
Found at i:57208330 original size:14 final size:14
Alignment explanation
Indices: 57208311--57208337 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
57208301 CCTAATGACG
57208311 AGATTGTTACAGAA
1 AGATTGTTACAGAA
57208325 AGATTGTTACAGA
1 AGATTGTTACAGA
57208338 GGTTAGAAGC
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:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (14 bp):
AGATTGTTACAGAA
Found at i:57210992 original size:59 final size:59
Alignment explanation
Indices: 57210897--57211010 Score: 210
Period size: 59 Copynumber: 1.9 Consensus size: 59
57210887 ATTTGTAAAG
*
57210897 TTTGTAGAATGGGTAGTAAGATGTATGGTTTAATAAGAAATGTGGGCTTCTGTGAGTAA
1 TTTGTAAAATGGGTAGTAAGATGTATGGTTTAATAAGAAATGTGGGCTTCTGTGAGTAA
*
57210956 TTTGTAAAATGGGTAGTAAGATGTATGGTTTGATAAGAAATGTGGGCTTCTGTGA
1 TTTGTAAAATGGGTAGTAAGATGTATGGTTTAATAAGAAATGTGGGCTTCTGTGA
57211011 TATGTTATAT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.30, C:0.04, G:0.31, T:0.36
Consensus pattern (59 bp):
TTTGTAAAATGGGTAGTAAGATGTATGGTTTAATAAGAAATGTGGGCTTCTGTGAGTAA
Found at i:57211912 original size:27 final size:27
Alignment explanation
Indices: 57211874--57211929 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
57211864 CGAAAAACTC
*
57211874 TTATGAATGAACCTCGCATATGATGAT
1 TTATGAATGAACCCCGCATATGATGAT
* *
57211901 TTATGAATGAACCCCGTATGTGATGAT
1 TTATGAATGAACCCCGCATATGATGAT
57211928 TT
1 TT
57211930 TTCGGTAAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (27 bp):
TTATGAATGAACCCCGCATATGATGAT
Found at i:57245065 original size:51 final size:51
Alignment explanation
Indices: 57244989--57245087 Score: 162
Period size: 51 Copynumber: 1.9 Consensus size: 51
57244979 TAGTTTCATA
** *
57244989 GAAAATTTATGGAATTTGATTTTGAGTTTTTTAACTCGAGATATGATTAGG
1 GAAAATTTATGGAATTTGATTTTGAGTTTCGTAACTCAAGATATGATTAGG
*
57245040 GAAAATTTATGGAATTTTATTTTGAGTTTCGTAACTCAAGATATGATT
1 GAAAATTTATGGAATTTGATTTTGAGTTTCGTAACTCAAGATATGATT
57245088 TTTTTAGCGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.32, C:0.05, G:0.19, T:0.43
Consensus pattern (51 bp):
GAAAATTTATGGAATTTGATTTTGAGTTTCGTAACTCAAGATATGATTAGG
Found at i:57245641 original size:15 final size:15
Alignment explanation
Indices: 57245592--57245649 Score: 64
Period size: 15 Copynumber: 3.9 Consensus size: 15
57245582 GAGATGACAT
57245592 GAAATCCAAGATAAA
1 GAAATCCAAGATAAA
* * *
57245607 GAAGTCCAAAACAATA
1 GAAATCCAAGATAA-A
57245623 -AAATCCAAGATAAA
1 GAAATCCAAGATAAA
*
57245637 GAAATCAAAGATA
1 GAAATCCAAGATA
57245650 CAATATCATA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
14 1 0.03
15 32 0.94
16 1 0.03
ACGTcount: A:0.60, C:0.14, G:0.12, T:0.14
Consensus pattern (15 bp):
GAAATCCAAGATAAA
Found at i:57247207 original size:94 final size:94
Alignment explanation
Indices: 57247046--57247234 Score: 360
Period size: 94 Copynumber: 2.0 Consensus size: 94
57247036 CCCGTACCTG
* *
57247046 AGGCCGGGATAAGGTACGAGGCATTATCAGACTTAAACATACACATACATGTAAAATCGGGTGAT
1 AGGCCGGGATAAGGTACAAGGCATTATCAGACTTAAACATACACATACATGTAAAATCCGGTGAT
57247111 AAGATTTTAACTAATTCAAAAACATTCAA
66 AAGATTTTAACTAATTCAAAAACATTCAA
57247140 AGGCCGGGATAAGGTACAAGGCATTATCAGACTTAAACATACACATACATGTAAAATCCGGTGAT
1 AGGCCGGGATAAGGTACAAGGCATTATCAGACTTAAACATACACATACATGTAAAATCCGGTGAT
57247205 AAGATTTTAACTAATTCAAAAACATTCAA
66 AAGATTTTAACTAATTCAAAAACATTCAA
57247234 A
1 A
57247235 CACATGTATA
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
94 93 1.00
ACGTcount: A:0.42, C:0.16, G:0.17, T:0.24
Consensus pattern (94 bp):
AGGCCGGGATAAGGTACAAGGCATTATCAGACTTAAACATACACATACATGTAAAATCCGGTGAT
AAGATTTTAACTAATTCAAAAACATTCAA
Found at i:57247439 original size:19 final size:19
Alignment explanation
Indices: 57247390--57247439 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
57247380 GCGTGGTCAC
*
57247390 ACACGCCCGTGTGGCTCGG
1 ACACGCCCGTGTGGCTCAG
* **
57247409 ACACACTTGTGTGGCTCAG
1 ACACGCCCGTGTGGCTCAG
57247428 ACACGCCCGTGT
1 ACACGCCCGTGT
57247440 CCTCAGCCCA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.16, C:0.34, G:0.30, T:0.20
Consensus pattern (19 bp):
ACACGCCCGTGTGGCTCAG
Found at i:57256510 original size:24 final size:24
Alignment explanation
Indices: 57256483--57256528 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
57256473 TATAATATGG
* * *
57256483 AAATGACTATTTTGCCCCTAGGTA
1 AAATGACCATTATACCCCTAGGTA
57256507 AAATGACCATTATACCCCTAGG
1 AAATGACCATTATACCCCTAGG
57256529 GTTTAATTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (24 bp):
AAATGACCATTATACCCCTAGGTA
Found at i:57256693 original size:25 final size:25
Alignment explanation
Indices: 57256639--57256722 Score: 91
Period size: 26 Copynumber: 3.4 Consensus size: 25
57256629 AGGAAGTGCA
* **
57256639 AAAAGGGCTTTTTCCCCAGTTTACC
1 AAAAGGGCTTTTGCCCCAGTTTTTC
57256664 GAAAAGGGCTTTTGCCCCAGTTTTTC
1 -AAAAGGGCTTTTGCCCCAGTTTTTC
* *
57256690 AAAAGGGC-TTTGCCTCAGTTATT-
1 AAAAGGGCTTTTGCCCCAGTTTTTC
57256713 AAAAGAGGCT
1 AAAAG-GGCT
57256723 AGGCCTCCAG
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 5 0.10
24 16 0.31
25 8 0.16
26 22 0.43
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (25 bp):
AAAAGGGCTTTTGCCCCAGTTTTTC
Found at i:57256708 original size:24 final size:23
Alignment explanation
Indices: 57256665--57256722 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 23
57256655 CAGTTTACCG
*
57256665 AAAAGGGCTTTTGCCCCAGTTTTT
1 AAAAGGGC-TTTGCCCCAGTTATT
*
57256689 CAAAAGGGCTTTGCCTCAGTTATT
1 -AAAAGGGCTTTGCCCCAGTTATT
57256713 AAAAGAGGCT
1 AAAAG-GGCT
57256723 AGGCCTCCAG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
23 5 0.17
24 17 0.57
25 8 0.27
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (23 bp):
AAAAGGGCTTTGCCCCAGTTATT
Found at i:57266644 original size:39 final size:40
Alignment explanation
Indices: 57266536--57266720 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
57266526 TCGAATGATG
* *
57266536 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
57266575 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
57266616 TCCGGGCTAAG-CCTGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
57266655 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
57266694 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
57266721 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
39 35 0.28
40 80 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:57266672 original size:79 final size:81
Alignment explanation
Indices: 57266536--57266718 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
57266526 TCGAATGATG
* *
57266536 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
57266600 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
57266615 TTCCGGGCTAAG-CCTGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
57266677 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
57266695 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
57266719 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 29 0.33
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:57266742 original size:79 final size:78
Alignment explanation
Indices: 57266537--57266753 Score: 228
Period size: 79 Copynumber: 2.7 Consensus size: 78
57266527 CGAATGATGT
* *
57266537 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAG-TCCGAAGGCATT
*
57266600 TGTGCGAGTTACTAATT
62 TGTGCGAGTTACTAATA
* * *
57266617 CCGGGCTAAG-CCTGAAGGCATTGGTGCGAGTTA-CTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAGT-CCGAAGGCATTT
57266680 GTGCGAGTTACT-ATAA
63 GTGCGAGTTACTAAT-A
* ** *
57266696 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTT-AAGTCCGAAGG
57266754 TACGTGATTC
Statistics
Matches: 115, Mismatches: 13, Indels: 19
0.78 0.09 0.13
Matches are distributed among these distances:
78 3 0.03
79 67 0.58
80 45 0.39
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGTCCGAAGGCATTTGTG
CGAGTTACTAATA
Found at i:57268523 original size:40 final size:40
Alignment explanation
Indices: 57268371--57268516 Score: 172
Period size: 40 Copynumber: 3.6 Consensus size: 40
57268361 TTGAATGATG
* * * *
57268371 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
57268411 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
57268451 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTCCTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
57268492 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
57268517 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
39 1 0.01
40 81 0.88
41 10 0.11
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:57268523 original size:80 final size:80
Alignment explanation
Indices: 57268371--57268549 Score: 188
Period size: 80 Copynumber: 2.2 Consensus size: 80
57268361 TTGAATGATG
* *
57268371 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
57268436 GTGCGAGTTA-CTAAA
66 GAACGAG-TAGCTAAA
* * * *
57268451 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGT-TCCTATAACCGGGCTATG-TCCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACC-ATAACCGGACTAAGAT-CCGAAGGCA
*
57268513 TTTGAACGAGTAGCTATA
63 TTTGAACGAGTAGCTAAA
* *
57268531 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
57268550 TACGTGATTT
Statistics
Matches: 84, Mismatches: 11, Indels: 9
0.81 0.11 0.09
Matches are distributed among these distances:
79 19 0.23
80 58 0.69
81 7 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGTAGCTAAA
Found at i:57268530 original size:40 final size:39
Alignment explanation
Indices: 57268372--57268535 Score: 154
Period size: 40 Copynumber: 4.1 Consensus size: 39
57268362 TGAATGATGT
* * *
57268372 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ACTATAA
*
57268412 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTATAA
* *
57268451 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTCCTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAA
* ** *
57268492 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTATAA
57268532 CCGG
1 CCGG
57268536 TTAAATTCCG
Statistics
Matches: 104, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
39 3 0.03
40 90 0.87
41 11 0.11
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAA
Found at i:57276625 original size:40 final size:40
Alignment explanation
Indices: 57276347--57276618 Score: 304
Period size: 40 Copynumber: 6.8 Consensus size: 40
57276337 TCGAATGATG
* * * * *
57276347 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTAC-GAGTTACTAAA
*
57276387 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTACGAGTTACTAAA
*
57276427 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTACGAGTTACTAAA
* * * *
57276467 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTACGAGTTACTAAA
* *
57276507 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAA
* *
57276546 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTA-AA
* *
57276587 -CCGGGCTATGTCCCGAAGGCATTTGAACGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGT
57276619 AGCTATATAC
Statistics
Matches: 208, Mismatches: 19, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
39 34 0.16
40 165 0.79
41 9 0.04
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAA
Found at i:57276644 original size:119 final size:119
Alignment explanation
Indices: 57276400--57276617 Score: 298
Period size: 119 Copynumber: 1.8 Consensus size: 119
57276390 GGACTAAGAT
*
57276400 CCGAAGGCATTTGTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTA
1 CCGAAGGCATTGGTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTA
** *
57276465 AATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
66 AATCCGGACTAAGATCCGAAGGCATTTGAACGAGATACTAATTACGGGCTAAGC
* ** *
57276519 CCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACT
1 CCGAAGGCATTGGTACGAGTTACTAAATCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACT
* *
57276583 ATAA-CCGGGCTATG-TCCCGAAGGCATTTGAACGAG
65 A-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAG
57276618 TAGCTATATA
Statistics
Matches: 87, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
118 2 0.02
119 83 0.95
120 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (119 bp):
CCGAAGGCATTGGTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTA
AATCCGGACTAAGATCCGAAGGCATTTGAACGAGATACTAATTACGGGCTAAGC
Found at i:57279854 original size:46 final size:46
Alignment explanation
Indices: 57279787--57279961 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
57279777 TGTAACCCGC
*
57279787 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* * *
57279833 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* ** *
57279883 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
57279926 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
57279962 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 60 0.57
47 26 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:57279907 original size:93 final size:93
Alignment explanation
Indices: 57279794--57279965 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
57279784 CGCCCATAAG
** *
57279794 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGAACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
57279859 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
57279887 CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
57279952 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
57279966 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:57285081 original size:46 final size:46
Alignment explanation
Indices: 57285004--57285100 Score: 160
Period size: 46 Copynumber: 2.1 Consensus size: 46
57284994 CGCTTCTTAA
* *
57285004 AATTTCCATATGATTGCCCAGCTGAAACTTGGGAATGAGGATTCAT
1 AATTCCCATATGATTGCCCAGCTGAAACTTGGGAACGAGGATTCAT
*
57285050 AATTCCCATATGATTGCCCAGCTGAAGCTTGGGAACGAGGATTCAT
1 AATTCCCATATGATTGCCCAGCTGAAACTTGGGAACGAGGATTCAT
57285096 -ATTCC
1 AATTCC
57285101 TTGACTTTCC
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
45 5 0.10
46 43 0.90
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (46 bp):
AATTCCCATATGATTGCCCAGCTGAAACTTGGGAACGAGGATTCAT
Found at i:57287469 original size:46 final size:46
Alignment explanation
Indices: 57287411--57287631 Score: 388
Period size: 46 Copynumber: 4.8 Consensus size: 46
57287401 TGTAACCCGC
* * * * * *
57287411 CCATAAGCGAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
57287457 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
57287503 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
57287549 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
57287595 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
57287632 TGCTCAACCA
Statistics
Matches: 169, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 169 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:57293299 original size:39 final size:40
Alignment explanation
Indices: 57293199--57293383 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
57293189 TCGAATGATG
* * *
57293199 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAAT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
57293238 ATCCGGACTAAGAT-CCGAAGGCATTTGTCCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
57293279 TCCTGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
57293318 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
57293357 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
57293384 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 34 0.28
40 79 0.65
41 9 0.07
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:57293405 original size:79 final size:77
Alignment explanation
Indices: 57293235--57293416 Score: 188
Period size: 79 Copynumber: 2.3 Consensus size: 77
57293225 GCTAAGTGAA
* * *
57293235 TATATCCGGACTAAGATCCGAAGGCATTTGTCCGAGTTACTAATTCCTGGCTAAGCCCGAAGGCA
1 TATATCCGG-TTAAG-TCCGAAGGCATTTGTCCGAGTTACTAATACCGGGCTAAGCCCGAAGGCA
**
57293300 TTGGTGCGAGTTAC
64 TTGGAACGAGTTAC
* * *
57293314 TAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGG
1 TATATCC-GGTTAAGT-CCGAAGGCATTTGTCCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGG
*
57293378 CATTTGAACGAG-TAGC
62 CATTGGAACGAGTTA-C
*
57293394 TATATCCGGTTAAATTCCGAAGG
1 TATATCCGGTT-AAGTCCGAAGG
57293417 TACGTGATTC
Statistics
Matches: 86, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
78 3 0.03
79 54 0.63
80 29 0.34
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (77 bp):
TATATCCGGTTAAGTCCGAAGGCATTTGTCCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATT
GGAACGAGTTAC
Found at i:57295255 original size:40 final size:40
Alignment explanation
Indices: 57295195--57295374 Score: 215
Period size: 40 Copynumber: 4.5 Consensus size: 40
57295185 TATTCGAATG
57295195 ATATCCGGGCTAAGTCCCGAAGGC-TTCTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATT-TATGCTAGTGACT
* * *
57295235 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACT
*
57295275 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
* * * * **
57295315 ATATCCGGGCTAAGACCCGAAGGC-CTTGTGCGAGTGGTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
*
57295354 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
57295375 ATACTTAGGT
Statistics
Matches: 121, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
38 13 0.11
39 16 0.13
40 89 0.74
41 3 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
Found at i:57295328 original size:80 final size:79
Alignment explanation
Indices: 57295195--57295374 Score: 247
Period size: 80 Copynumber: 2.3 Consensus size: 79
57295185 TATTCGAATG
* *
57295195 ATATCCGGGCTAAGTCCCGAAGGCTTCTATGCTAGTGACTATATCCGGACTAAGATCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCTTCTATGCTAGTGACCATATCCGGACTAAGACCCGAAGGC-
* *
57295260 TTTGTGCTAGCGACT
65 CTTGTGCGAGCGACT
*
57295275 ATATCCGGGCTAAGTCCCGAAGGCATT-TATGCTAGTGACCATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC-TTCTATGCTAGTGACCATATCCGGACTAAGACCCGAAGGC
* **
57295339 CTTGTGCGAGTGGTT
65 CTTGTGCGAGCGACT
*
57295354 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
57295375 ATACTTAGGT
Statistics
Matches: 90, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
78 14 0.16
79 16 0.18
80 58 0.64
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.24
Consensus pattern (79 bp):
ATATCCGGGCTAAGTCCCGAAGGCTTCTATGCTAGTGACCATATCCGGACTAAGACCCGAAGGCC
TTGTGCGAGCGACT
Found at i:57303422 original size:40 final size:40
Alignment explanation
Indices: 57303362--57303545 Score: 230
Period size: 40 Copynumber: 4.6 Consensus size: 40
57303352 TATTCGAATG
*
57303362 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * *
57303402 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * *
57303442 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
57303482 ATATCCGGGCTAAG-TCTCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGATC-CGAAGGCATTTATGCTAGTGACT
* *
57303522 GTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
57303546 CTTGTGTGAG
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.02
40 119 0.95
41 4 0.03
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:57303495 original size:80 final size:80
Alignment explanation
Indices: 57303362--57303545 Score: 255
Period size: 80 Copynumber: 2.3 Consensus size: 80
57303352 TATTCGAATG
* * *
57303362 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGATC-CGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAG-TCTCGAAGGC
* *
57303426 ATTTGTGCGAGTTG-CT
65 ATTTATGCGAG-TGACC
* *
57303442 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCTCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCTCGAAGGCA
*
57303507 TTTATGCTAGTGACC
66 TTTATGCGAGTGACC
*
57303522 GTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
57303546 CTTGTGTGAG
Statistics
Matches: 93, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
79 4 0.04
80 89 0.96
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCTCGAAGGCA
TTTATGCGAGTGACC
Found at i:57307792 original size:28 final size:28
Alignment explanation
Indices: 57307735--57307887 Score: 229
Period size: 28 Copynumber: 5.5 Consensus size: 28
57307725 TAAATTGTGC
* *
57307735 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
57307762 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
57307790 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
57307818 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
* * *
57307846 AGCACTAGGTGTGCGAG-CTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
57307873 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
57307888 GACTTAATAT
Statistics
Matches: 116, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 37 0.32
28 79 0.68
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:57307876 original size:83 final size:83
Alignment explanation
Indices: 57307735--57307887 Score: 236
Period size: 83 Copynumber: 1.8 Consensus size: 83
57307725 TAAATTGTGC
* *
57307735 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTCTGATTATATAGCACTAAGT
57307800 GTGCGAGTTTGACTATGT
66 GTGCGAGTTTGACTATGT
* * * *
57307818 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAGGTGTGCGAG-CTGATTATATAGCACTGAG
1 AGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAGTCTGATTATATAGCACTAAG
57307882 TGTGCG
65 TGTGCG
57307888 GACTTAATAT
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
83 38 0.60
84 25 0.40
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.31
Consensus pattern (83 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTCTGATTATATAGCACTAAGT
GTGCGAGTTTGACTATGT
Found at i:57311655 original size:45 final size:46
Alignment explanation
Indices: 57311559--57311655 Score: 162
Period size: 46 Copynumber: 2.1 Consensus size: 46
57311549 TCACCTTGGG
*
57311559 GTGCACCAGTATTGTTTGTGAAAAAGAAGGACGGAACCATGAGGTT
1 GTGCATCAGTATTGTTTGTGAAAAAGAAGGACGGAACCATGAGGTT
57311605 GTGCATCAGTATT-TTTGGTGAAAAAGAAGGA-GGAACCATGAGGTT
1 GTGCATCAGTATTGTTT-GTGAAAAAGAAGGACGGAACCATGAGGTT
57311650 GTGCAT
1 GTGCAT
57311656 TGACTATCGT
Statistics
Matches: 49, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
45 23 0.47
46 26 0.53
ACGTcount: A:0.32, C:0.11, G:0.31, T:0.26
Consensus pattern (46 bp):
GTGCATCAGTATTGTTTGTGAAAAAGAAGGACGGAACCATGAGGTT
Found at i:57316238 original size:27 final size:28
Alignment explanation
Indices: 57316154--57316251 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
57316144 CATGAGATTG
* * * *
57316154 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
57316183 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
57316211 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
57316238 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
57316252 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:57316262 original size:27 final size:27
Alignment explanation
Indices: 57316182--57316264 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
57316172 TAAATTGTAC
* *
57316182 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
57316210 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
57316237 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
57316264 A
1 A
57316265 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:57316265 original size:29 final size:27
Alignment explanation
Indices: 57316154--57316265 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
57316144 CATGAGATTG
** * *
57316154 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
57316183 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
57316211 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
57316238 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
57316266 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:57317872 original size:25 final size:26
Alignment explanation
Indices: 57317812--57317882 Score: 92
Period size: 26 Copynumber: 2.8 Consensus size: 26
57317802 AGGAAGTGCA
57317812 AAAAGGGCTTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTTGCCCCAGTTTACCG
** **
57317838 AAAAGGGCTTTTGCCTTAGTTTTTC-
1 AAAAGGGCTTTTGCCCCAGTTTACCG
57317863 AAAAGGGC-TTTGCCCCAGTT
1 AAAAGGGCTTTTGCCCCAGTT
57317883 ATTAAAAGAG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
24 10 0.26
25 8 0.21
26 21 0.54
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.32
Consensus pattern (26 bp):
AAAAGGGCTTTTGCCCCAGTTTACCG
Found at i:57331721 original size:46 final size:46
Alignment explanation
Indices: 57331671--57331846 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
57331661 TGGTTGAGCA
*
57331671 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
57331717 TCCGAACTCGTTGAGTTGAGTCCGAGTT--CGTA-AGATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* *
57331762 CATCCGAACTCGTTGAGTTGAGTCCGGGTTCACTTATGGATGCAAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
57331810 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
57331847 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 5 0.05
44 3 0.03
45 2 0.02
46 61 0.56
47 27 0.25
48 2 0.02
49 3 0.03
50 6 0.06
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:57331827 original size:93 final size:93
Alignment explanation
Indices: 57331668--57331839 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
57331658 GGATGGTTGA
* * *
57331668 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
57331733 TGAGTCCGAGTTCGTAAGATGTAACTAG
66 TGAGTCCGAGTTCGTAAGATGTAACTAG
* *
57331761 GCATCCGAACTCGTTGAGTTGAGTCCGGGTTCACTTATGGATGCAAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
57331826 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
57331840 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTAAGATGTAACTAG
Found at i:57341367 original size:38 final size:38
Alignment explanation
Indices: 57341316--57341471 Score: 231
Period size: 38 Copynumber: 4.1 Consensus size: 38
57341306 TCGAAATATG
* *
57341316 ATATCCCGGTTAAATCCCGCAGGCTTCGTACTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
* *
57341354 ATATCCGGGTTAAATCCTGCAGGCTTCGTGCTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
*
57341392 ATATCCGGGTTAAATCCCACAGGCTTCGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
* * * *
57341430 ATATCCGGGCTAAATCCTGCAGGCCTAGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
57341468 ATAT
1 ATAT
57341472 TTGGGCCTTT
Statistics
Matches: 106, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 106 1.00
ACGTcount: A:0.22, C:0.23, G:0.24, T:0.31
Consensus pattern (38 bp):
ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
Found at i:57354112 original size:29 final size:29
Alignment explanation
Indices: 57354079--57354134 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
57354069 CCTAAACTCG
57354079 TCAAATTATTCCAATTGAGGTAAAATTCT
1 TCAAATTATTCCAATTGAGGTAAAATTCT
57354108 TCAAATTATTCCAATTGAGGTAAAATT
1 TCAAATTATTCCAATTGAGGTAAAATT
57354135 TCGACTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (29 bp):
TCAAATTATTCCAATTGAGGTAAAATTCT
Found at i:57354800 original size:39 final size:39
Alignment explanation
Indices: 57354757--57354867 Score: 121
Period size: 39 Copynumber: 3.1 Consensus size: 39
57354747 CAAAGCAGAA
57354757 ATTTAATTGTTTCATTTCATTGCACAATTAAATACCTAT
1 ATTTAATTGTTTCATTTCATTGCACAATTAAATACCTAT
* * ** *
57354796 ATTTAATTGTTTCATTTC----CAC---CAAA-GCAGAA
1 ATTTAATTGTTTCATTTCATTGCACAATTAAATACCTAT
57354827 ATTTAATTGTTTCATTTCATTGCACAATTAAATACCTAT
1 ATTTAATTGTTTCATTTCATTGCACAATTAAATACCTAT
57354866 AT
1 AT
57354868 ACAACCTCCT
Statistics
Matches: 54, Mismatches: 10, Indels: 16
0.68 0.12 0.20
Matches are distributed among these distances:
31 20 0.37
32 3 0.06
35 6 0.11
38 3 0.06
39 22 0.41
ACGTcount: A:0.34, C:0.16, G:0.06, T:0.43
Consensus pattern (39 bp):
ATTTAATTGTTTCATTTCATTGCACAATTAAATACCTAT
Found at i:57373739 original size:48 final size:48
Alignment explanation
Indices: 57373636--57373910 Score: 299
Period size: 48 Copynumber: 5.8 Consensus size: 48
57373626 TAAAGTACCA
** * * *
57373636 ATGCCATGTCCCCGACATGGTCTTACA-T-GAATC-TAATATCATCGCTG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCA-CAT-ATATCATCACCG
* * *
57373683 ATGCCATGTCTCAAACATGGTCTTAGACTGGCACACATATCATCACCG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCACATATATCATCACCG
* *
57373731 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCACCG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCACATATATCATCACCG
* * * **
57373779 GTGCCATGTCCCAAACATGGTCTTATA-TAGGCACATAAATCATTGCCG
1 ATGCCATGTCCCAAACATGGTCTTACACT-GGCACATATATCATCACCG
* *
57373827 ATGCCATGTCCCAAACATGGTCTTAC-GTAGGCATATATATCATCACCG
1 ATGCCATGTCCCAAACATGGTCTTACACT-GGCACATATATCATCACCG
* * *
57373875 ATGCCATGTCCTAGACATGGTCTTACACAGGCACAT
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCACAT
57373911 TTAGCACGGT
Statistics
Matches: 191, Mismatches: 31, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
47 23 0.12
48 166 0.87
49 2 0.01
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (48 bp):
ATGCCATGTCCCAAACATGGTCTTACACTGGCACATATATCATCACCG
Found at i:57386247 original size:93 final size:93
Alignment explanation
Indices: 57386134--57386306 Score: 303
Period size: 93 Copynumber: 1.9 Consensus size: 93
57386124 CGCCCATAAG
*
57386134 CGAACTCGGACTCAACTCAACGAGCTCA-AGCGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCAGA-CATTCGCATCCATAAGTGAACTCGGACTCAACTC
57386198 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
* *
57386227 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
57386292 ACGAGTTCGGATGCC
66 ACGAGTTCGGATGCC
57386307 CAAACATCCT
Statistics
Matches: 76, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
93 75 0.99
94 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:57386300 original size:46 final size:47
Alignment explanation
Indices: 57386127--57386302 Score: 211
Period size: 46 Copynumber: 3.8 Consensus size: 47
57386117 TGTAACCCGC
* * *
57386127 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC-AAGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
* *
57386173 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-A-TTCGCAT
*
57386223 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA-CATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
*
57386266 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
57386303 TGCCCAAACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.55
47 30 0.27
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (47 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
Found at i:57386321 original size:46 final size:45
Alignment explanation
Indices: 57386135--57386321 Score: 157
Period size: 46 Copynumber: 4.0 Consensus size: 45
57386125 GCCCATAAGC
* * * * *
57386135 GAACTCGGACTCAACTCAACGAGCTCAAGCG-TTCGCATCCAT-AAGT
1 GAACTCGGACTCAACTCAACGAGTTC--G-GATGCCCATACATCTAGT
* *
57386181 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATCT-AGT
* * * *
57386228 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCATACATCTAGT
*
57386274 GAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACAT-CTAGT
57386320 GA
1 GA
57386322 CATGTCACTT
Statistics
Matches: 113, Mismatches: 18, Indels: 20
0.75 0.12 0.13
Matches are distributed among these distances:
43 1 0.01
44 12 0.11
45 1 0.01
46 62 0.55
47 32 0.28
48 1 0.01
49 4 0.04
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCTAGT
Found at i:57396064 original size:28 final size:28
Alignment explanation
Indices: 57396001--57396098 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
57395991 ATATTAAGTC
*
57396001 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
57396028 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
57396056 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
57396085 CGCACACTTAGTGC
1 CGCACACTTAGTGC
57396099 CAATCTCAGG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:57403195 original size:25 final size:25
Alignment explanation
Indices: 57403165--57403215 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
57403155 TACGTATTTA
57403165 ACCACATAAAACTTTTACCATTCTC
1 ACCACATAAAACTTTTACCATTCTC
57403190 ACCACATAAAACTTTTACCATTCTC
1 ACCACATAAAACTTTTACCATTCTC
57403215 A
1 A
57403216 TACTTTATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.31, G:0.00, T:0.31
Consensus pattern (25 bp):
ACCACATAAAACTTTTACCATTCTC
Found at i:57404832 original size:40 final size:40
Alignment explanation
Indices: 57404795--57405017 Score: 274
Period size: 40 Copynumber: 5.6 Consensus size: 40
57404785 GCTACTCGTT
* *
57404795 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
57404835 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
57404875 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
57404914 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
57404954 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
57404995 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAACCCG
57405018 CACATCATTC
Statistics
Matches: 161, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 39 0.24
40 109 0.68
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:57404906 original size:79 final size:80
Alignment explanation
Indices: 57404795--57405017 Score: 301
Period size: 79 Copynumber: 2.8 Consensus size: 80
57404785 GCTACTCGTT
* *
57404795 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
57404860 ATTTAGTAACTCGCA
66 ATTTAGTAACTCGCA
* *
57404875 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
57404938 GATTTAGTAACTCGCA
65 GATTTAGTAACTCGCA
* * * * * *
57404954 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CATAGCCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCC
57405017 G
64 G
57405018 CACATCATTC
Statistics
Matches: 128, Mismatches: 10, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
78 3 0.02
79 70 0.55
80 46 0.36
81 9 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATTTAGTAACTCGCA
Found at i:57404979 original size:119 final size:120
Alignment explanation
Indices: 57404795--57405017 Score: 310
Period size: 119 Copynumber: 1.9 Consensus size: 120
57404785 GCTACTCGTT
* *
57404795 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
57404860 ATTTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* **
57404914 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAACCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* *
57404977 GGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
64 GGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCG
57405018 CACATCATTC
Statistics
Matches: 91, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
118 3 0.03
119 69 0.76
120 19 0.21
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:57425451 original size:21 final size:21
Alignment explanation
Indices: 57425424--57425472 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
57425414 TCAAATAGGC
*
57425424 ACTTTTAACATATAGCATACA
1 ACTTTTAACATATAGCAGACA
*
57425445 GCTTTTAACATATAGCAGACA
1 ACTTTTAACATATAGCAGACA
57425466 ACTTTTA
1 ACTTTTA
57425473 CATTTTACAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.39, C:0.18, G:0.08, T:0.35
Consensus pattern (21 bp):
ACTTTTAACATATAGCAGACA
Found at i:57427442 original size:27 final size:27
Alignment explanation
Indices: 57427412--57427821 Score: 508
Period size: 27 Copynumber: 15.2 Consensus size: 27
57427402 AAAGTACTCC
57427412 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
57427439 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
57427466 C-AGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* * *
57427493 C-AGTTTACAGAATTATCGTTTTATCAT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
57427520 C-AGTTTATAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
57427547 CAATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
57427574 CGATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
57427601 CTG-TTTACAGAATTACTGTTTTACCCT
1 C-GATTTACAGAATTACCGTTTTACCCT
57427628 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
57427655 C-AGTTTACAAAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
57427682 CAATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
57427709 CGATTTGTAAAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
57427736 TGATTTACAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
57427763 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
57427790 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
57427817 TGATT
1 CGATT
57427822 GTGAAATTAC
Statistics
Matches: 331, Mismatches: 44, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
26 4 0.01
27 323 0.98
28 4 0.01
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:57427856 original size:27 final size:27
Alignment explanation
Indices: 57427826--57428021 Score: 232
Period size: 27 Copynumber: 7.3 Consensus size: 27
57427816 TTGATTGTGA
*
57427826 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
57427853 AATTTCCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
57427880 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
57427907 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
57427934 AATTATCGAAATA-CCCTCGTAGGGTAG
1 AATTACCGAAATACCCCT-GTAGGGTAG
* *
57427961 AAATACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* ** * *
57427988 AATTACCGAGATACCGTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
57428015 AATTACC
1 AATTACC
57428022 ATTTTGCCCC
Statistics
Matches: 143, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
26 4 0.03
27 135 0.94
28 4 0.03
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:57428258 original size:27 final size:26
Alignment explanation
Indices: 57428220--57428302 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
57428210 CGGAGGAAGC
*
57428220 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
57428247 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
57428273 GTATTTGGTGACTCTGGCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
57428300 GTT
1 GTT
57428303 GACCGATCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.19, C:0.22, G:0.23, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:57428662 original size:27 final size:28
Alignment explanation
Indices: 57428604--57428681 Score: 70
Period size: 27 Copynumber: 2.9 Consensus size: 28
57428594 GTATTCTGTT
* * *
57428604 AGGTGGGTTTGCCACATTATCTG-ATTC
1 AGGTGGCTCTGCCACAATATCTGTATTC
*
57428631 TGGTGGCTCTGCCACAATATCTGTA-TC
1 AGGTGGCTCTGCCACAATATCTGTATTC
* ** *
57428658 AGGTGACTCTATCACGATATCTGT
1 AGGTGGCTCTGCCACAATATCTGT
57428682 TCTGGCAGCC
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
27 40 0.98
28 1 0.02
ACGTcount: A:0.21, C:0.22, G:0.23, T:0.35
Consensus pattern (28 bp):
AGGTGGCTCTGCCACAATATCTGTATTC
Found at i:57428850 original size:6 final size:6
Alignment explanation
Indices: 57428833--57428983 Score: 168
Period size: 6 Copynumber: 25.2 Consensus size: 6
57428823 CACGTAATTT
* * *
57428833 TGATTT TGATTC TGATTC TG-TTAC TAATAC TGATTC TGATTC TGATTC
1 TGATTC TGATTC TGATTC TGATT-C TGATTC TGATTC TGATTC TGATTC
57428881 TGATTC TG-TTAC TGATTC TGATTC TGATTC TGATTC TGATTC TGATTC
1 TGATTC TGATT-C TGATTC TGATTC TGATTC TGATTC TGATTC TGATTC
* *
57428929 TG-TTAC TAATAT- TGATTT TGATTC TGATTC TG-TTAC TGATTC TGATTC
1 TGATT-C TGAT-TC TGATTC TGATTC TGATTC TGATT-C TGATTC TGATTC
*
57428977 TTATTC T
1 TGATTC T
57428984 CATTTTGGTT
Statistics
Matches: 126, Mismatches: 9, Indels: 20
0.81 0.06 0.13
Matches are distributed among these distances:
5 9 0.07
6 110 0.87
7 6 0.05
8 1 0.01
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.52
Consensus pattern (6 bp):
TGATTC
Found at i:57434189 original size:43 final size:43
Alignment explanation
Indices: 57434108--57434268 Score: 112
Period size: 43 Copynumber: 3.8 Consensus size: 43
57434098 TACATGTATC
* * *
57434108 GCATCTATTATGAACTCGGACCACTCAATGAGCCTAGATTCTT
1 GCATCCATAATGAACTCGGACCACTCAACGAGCCTAGATTCTT
* *
57434151 GCATCCATAATGAACTCGGACCA-TGCAACGAGCTTAGATGC-T
1 GCATCCATAATGAACTCGGACCACT-CAACGAGCCTAGATTCTT
* ** * * * * * *
57434193 ACATATATCATGAAATTGGACCACTCAACAAG-TTCAGATTCTC
1 GCATCCATAATGAACTCGGACCACTCAACGAGCCT-AGATTCTT
* ** * *
57434236 ACATATATCACGAACTCGGACCACTCAACGAGC
1 GCATCCATAATGAACTCGGACCACTCAACGAGC
57434269 TCGGATTTCT
Statistics
Matches: 95, Mismatches: 18, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
41 2 0.02
42 30 0.32
43 63 0.66
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (43 bp):
GCATCCATAATGAACTCGGACCACTCAACGAGCCTAGATTCTT
Found at i:57435709 original size:14 final size:14
Alignment explanation
Indices: 57435690--57435720 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
57435680 AATAAGCAAA
57435690 TGAGCATTTAAGAG
1 TGAGCATTTAAGAG
57435704 TGAGCATTTAAGAG
1 TGAGCATTTAAGAG
57435718 TGA
1 TGA
57435721 TAAATGGCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.29, T:0.29
Consensus pattern (14 bp):
TGAGCATTTAAGAG
Found at i:57438334 original size:28 final size:28
Alignment explanation
Indices: 57438303--57438368 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
57438293 CAATGCCTCG
* *
57438303 CACACTAAGTGCCATACTTGATATCTCA
1 CACACTAAGTGCCACACTCGATATCTCA
*
57438331 CACACTAAGTGCCACACTCGATATCTCG
1 CACACTAAGTGCCACACTCGATATCTCA
57438359 CACACTAAGT
1 CACACTAAGT
57438369 ACCGTACGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.32, C:0.32, G:0.12, T:0.24
Consensus pattern (28 bp):
CACACTAAGTGCCACACTCGATATCTCA
Found at i:57438794 original size:37 final size:37
Alignment explanation
Indices: 57438753--57438835 Score: 148
Period size: 37 Copynumber: 2.2 Consensus size: 37
57438743 ACATTTTTCA
* *
57438753 CAATTTTGTCCTTATGACATAAAATTGCAAATTCATG
1 CAATTTAGTCCTTATCACATAAAATTGCAAATTCATG
57438790 CAATTTAGTCCTTATCACATAAAATTGCAAATTCATG
1 CAATTTAGTCCTTATCACATAAAATTGCAAATTCATG
57438827 CAATTTAGT
1 CAATTTAGT
57438836 ACAAACCCAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (37 bp):
CAATTTAGTCCTTATCACATAAAATTGCAAATTCATG
Found at i:57442027 original size:25 final size:25
Alignment explanation
Indices: 57441988--57442051 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
57441978 TGTGGTCGAA
*
57441988 TATATATTTCATTTACAAAATAACAC
1 TATACATTTCATTTACAAAATAAC-C
*
57442014 -ATACATTTCATTTACAAAATCACC
1 TATACATTTCATTTACAAAATAACC
*
57442038 TATACTTTTCATTT
1 TATACATTTCATTT
57442052 GGCCAATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 1 0.03
25 33 0.97
ACGTcount: A:0.39, C:0.19, G:0.00, T:0.42
Consensus pattern (25 bp):
TATACATTTCATTTACAAAATAACC
Found at i:57442449 original size:41 final size:41
Alignment explanation
Indices: 57442403--57442569 Score: 230
Period size: 41 Copynumber: 4.0 Consensus size: 41
57442393 GCTAAGCATA
* *
57442403 AAGCCT-AGTATAATACATCGGCACAGAGCCTGCTAGGCAAT
1 AAGCCTGA-TATAATACACCGGCACAAAGCCTGCTAGGCAAT
* *
57442444 AAGCCTGATATAATACACCGGCATATAAAGCTTGCTAGGCAA-
1 AAGCCTGATATAATACACCGGC--ACAAAGCCTGCTAGGCAAT
* *
57442486 AAGCCTGATATAATAAACCGGCACAAGGCCTGCTAGGCAAT
1 AAGCCTGATATAATACACCGGCACAAAGCCTGCTAGGCAAT
*
57442527 AAGCCTGATTTAATACACCGGCACAAAGCCTGCTAGGCAAT
1 AAGCCTGATATAATACACCGGCACAAAGCCTGCTAGGCAAT
57442568 AA
1 AA
57442570 AGCCCGAATA
Statistics
Matches: 111, Mismatches: 11, Indels: 8
0.85 0.08 0.06
Matches are distributed among these distances:
40 15 0.14
41 59 0.53
42 22 0.20
43 15 0.14
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.19
Consensus pattern (41 bp):
AAGCCTGATATAATACACCGGCACAAAGCCTGCTAGGCAAT
Found at i:57442572 original size:83 final size:83
Alignment explanation
Indices: 57442392--57442573 Score: 246
Period size: 83 Copynumber: 2.2 Consensus size: 83
57442382 ACATAAAATT
* * *
57442392 TGCTAAGCATAAAGCCTAGTATAATACATCGGCACAGAGCCTGCTAGGCAATAAGCCTGATATAA
1 TGCTAGGCATAAAGCCTAGTATAATAAACCGGCACAGAGCCTGCTAGGCAATAAGCCTGATATAA
* *
57442457 TACACCGGCATATAAAGCT
66 TACACCGGCA-ACAAAGCC
*
57442476 TGCTAGGCA-AAAGCCT-GATATAATAAACCGGCACA-AGGCCTGCTAGGCAATAAGCCTGATTT
1 TGCTAGGCATAAAGCCTAG-TATAATAAACCGGCACAGA-GCCTGCTAGGCAATAAGCCTGATAT
57442538 AATACACCGGC-ACAAAGCC
64 AATACACCGGCAACAAAGCC
57442557 TGCTAGGCAATAAAGCC
1 TGCTAGGC-ATAAAGCC
57442574 CGAATATCAC
Statistics
Matches: 88, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
81 14 0.16
82 3 0.03
83 63 0.72
84 8 0.09
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.19
Consensus pattern (83 bp):
TGCTAGGCATAAAGCCTAGTATAATAAACCGGCACAGAGCCTGCTAGGCAATAAGCCTGATATAA
TACACCGGCAACAAAGCC
Found at i:57449154 original size:41 final size:41
Alignment explanation
Indices: 57449097--57449191 Score: 156
Period size: 41 Copynumber: 2.3 Consensus size: 41
57449087 ACATAAAATT
* *
57449097 TGCTAGGC-ATAAAGCCTAGTATAATACACCGGCACAGAGCC
1 TGCTAGGCAAT-AAGCCTAATATAATACACCGGCACAAAGCC
57449138 TGCTAGGCAATAAGCCTAATATAATACACCGGCACAAAGCC
1 TGCTAGGCAATAAGCCTAATATAATACACCGGCACAAAGCC
57449179 TGCTAGGCAATAA
1 TGCTAGGCAATAA
57449192 AGCCCGAATA
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
41 49 0.96
42 2 0.04
ACGTcount: A:0.37, C:0.25, G:0.20, T:0.18
Consensus pattern (41 bp):
TGCTAGGCAATAAGCCTAATATAATACACCGGCACAAAGCC
Found at i:57453628 original size:40 final size:40
Alignment explanation
Indices: 57453534--57453678 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
57453524 TACTCGAATG
*
57453534 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
57453575 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
57453615 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
57453655 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
57453679 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:57461668 original size:40 final size:40
Alignment explanation
Indices: 57461574--57461718 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
57461564 TACTCGAATG
*
57461574 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
57461615 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * * *
57461655 ATATCCGGGCTAAGTCCCGAAGGCATTTATACTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* * *
57461695 ATATTCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
57461719 CTTGTGCGAG
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 60 0.67
41 28 0.31
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:57476780 original size:133 final size:133
Alignment explanation
Indices: 57476542--57476806 Score: 487
Period size: 133 Copynumber: 2.0 Consensus size: 133
57476532 CATCGTTGGG
57476542 ATTTTTACGAGCGTATTAATTGAAATTATTACAGCAAGATCGCTCATTCCCAAACCAAGTACCTT
1 ATTTTTACGAGCGTATTAATTGAAATTATTACAGCAAGATCGCTCATTCCCAAACCAAGTACCTT
* *
57476607 CGGAATTTAACCGGATATAGCTACTTGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACT
66 CGGAATTTAACCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACT
57476672 CGT
131 CGT
57476675 ATTTTTACGAGCGTATTAATTGAAATTATTACAGCAAGATCGCTCATTCCCAAACCAAGTACCTT
1 ATTTTTACGAGCGTATTAATTGAAATTATTACAGCAAGATCGCTCATTCCCAAACCAAGTACCTT
*
57476740 CGGAATTTAACCGGTTATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAAC
66 CGGAATTTAACCGGATATAGCT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAAC
57476804 TCG
130 TCG
57476807 CACAAAAGCC
Statistics
Matches: 128, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
132 1 0.01
133 127 0.99
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (133 bp):
ATTTTTACGAGCGTATTAATTGAAATTATTACAGCAAGATCGCTCATTCCCAAACCAAGTACCTT
CGGAATTTAACCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACT
CGT
Found at i:57476796 original size:40 final size:40
Alignment explanation
Indices: 57476750--57476876 Score: 195
Period size: 40 Copynumber: 3.2 Consensus size: 40
57476740 CGGAATTTAA
57476750 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
57476790 CCGGTTATAGTAACTCGCACAAAAGCCTTCGGG-CTTAGC
1 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
57476829 CCGG-AATTAGTCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGTTA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
57476869 CCGGTTAT
1 CCGGTTAT
57476877 CATTCGAATA
Statistics
Matches: 78, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
38 1 0.01
39 33 0.42
40 43 0.55
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:57480582 original size:16 final size:16
Alignment explanation
Indices: 57480561--57480593 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
57480551 TTGTAACCCC
57480561 CCAAAAATCCCGAAAT
1 CCAAAAATCCCGAAAT
*
57480577 CCAAAAATCTCGAAAT
1 CCAAAAATCCCGAAAT
57480593 C
1 C
57480594 TTGAATTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.48, C:0.30, G:0.06, T:0.15
Consensus pattern (16 bp):
CCAAAAATCCCGAAAT
Found at i:57482119 original size:28 final size:28
Alignment explanation
Indices: 57482065--57482149 Score: 109
Period size: 28 Copynumber: 3.0 Consensus size: 28
57482055 GTGAGCATGA
* *
57482065 ATATGAATGTGACTGGGCCTAACGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
*
57482093 ATATAAATGTGATTTGGGCCT-ATGGGCC
1 ATATGAATGTGA-TTGGGCCTAATGGGCC
* *
57482121 ATATGAATATGATTGGGCTTAATGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
57482149 A
1 A
57482150 GACACAGGTA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
27 7 0.14
28 35 0.71
29 7 0.14
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.28
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCCTAATGGGCC
Found at i:57483460 original size:42 final size:42
Alignment explanation
Indices: 57483352--57483467 Score: 126
Period size: 42 Copynumber: 2.7 Consensus size: 42
57483342 AACGGGGACA
* * * *
57483352 ATGCCGACGTCCCAGACGTGGTCTTACATGTAATTCAGTATCG
1 ATGCCGATGTCCCAGACATGGTCTTACACG-AAGTCAGTATCG
** * *
57483395 ATGCCTTTGTGCCAGACAGGGTCTTACACGAAGTCAG-ATACG
1 ATGCCGATGTCCCAGACATGGTCTTACACGAAGTCAGTAT-CG
*
57483437 ATGCCGATGTCCCAAACATGGTCTTACACGA
1 ATGCCGATGTCCCAGACATGGTCTTACACGA
57483468 CATATCAAAT
Statistics
Matches: 59, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
41 2 0.03
42 34 0.58
43 23 0.39
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (42 bp):
ATGCCGATGTCCCAGACATGGTCTTACACGAAGTCAGTATCG
Found at i:57490048 original size:40 final size:40
Alignment explanation
Indices: 57489992--57490110 Score: 184
Period size: 40 Copynumber: 3.0 Consensus size: 40
57489982 GAATGCACAT
* * * * *
57489992 CACCAGCATGATTGCTCTTTGGGACCTAGCCTGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
57490032 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
57490072 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTATA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
57490111 TAAATCTCAA
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 73 1.00
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:57490233 original size:54 final size:54
Alignment explanation
Indices: 57490151--57490260 Score: 220
Period size: 54 Copynumber: 2.0 Consensus size: 54
57490141 TATAACAATA
57490151 CACATTAGTATATCATTTACATTACTTGAATACAAACACAACATGCTTATCGAC
1 CACATTAGTATATCATTTACATTACTTGAATACAAACACAACATGCTTATCGAC
57490205 CACATTAGTATATCATTTACATTACTTGAATACAAACACAACATGCTTATCGAC
1 CACATTAGTATATCATTTACATTACTTGAATACAAACACAACATGCTTATCGAC
57490259 CA
1 CA
57490261 TTCAACTTCC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.39, C:0.23, G:0.07, T:0.31
Consensus pattern (54 bp):
CACATTAGTATATCATTTACATTACTTGAATACAAACACAACATGCTTATCGAC
Found at i:57491503 original size:37 final size:37
Alignment explanation
Indices: 57491450--57492292 Score: 1659
Period size: 37 Copynumber: 22.8 Consensus size: 37
57491440 CGAATAGTCC
* * *
57491450 CCACACGTAGTTATCGGGTCTTACCCAGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
57491487 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
57491524 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
57491561 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
57491598 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
57491635 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
57491672 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
57491709 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
57491746 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
57491783 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
57491820 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
57491857 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
57491894 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
57491931 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
57491968 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
57492005 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
57492042 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
57492079 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
57492116 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
57492153 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
57492190 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
57492227 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
57492264 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
57492293 ATATATTTCC
Statistics
Matches: 803, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 803 1.00
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
Found at i:57492497 original size:48 final size:48
Alignment explanation
Indices: 57492442--57493154 Score: 1220
Period size: 48 Copynumber: 14.9 Consensus size: 48
57492432 CATTTCCTAT
*
57492442 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATTC
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAC
*
57492490 ATATTTCACACTAGCCATTCGGCTTTAGCACATATACATA--TC-T-C
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAC
57492534 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAC
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAC
57492582 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAC
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAC
57492630 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAC
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAC
57492678 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAC
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAC
57492726 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAC
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAC
*
57492774 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATTC
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAC
* * *
57492822 ATATTTCACACTAGCCATTCGGCTTTAGCATATATACATATCTCATATAT
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC--ATAC
*
57492872 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC--ATAC
* * *
57492922 ATATTTCACATTAGTCATTCGGCTTTACCACATATACATATGTCATAC
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAC
* *
57492970 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCCCATAC
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAC
*
57493018 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATAC
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAC
*
57493066 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATAT-TCCATTC
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCT-CATAC
57493114 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATAT
1 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATAT
57493155 ATATTTATCT
Statistics
Matches: 639, Mismatches: 19, Indels: 14
0.95 0.03 0.02
Matches are distributed among these distances:
44 40 0.06
45 1 0.00
46 4 0.01
47 2 0.00
48 501 0.78
50 91 0.14
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.35
Consensus pattern (48 bp):
ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAC
Found at i:57498072 original size:18 final size:18
Alignment explanation
Indices: 57498049--57498084 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
57498039 TATGTTGCCT
57498049 TTGTGGCGTACTATGTTA
1 TTGTGGCGTACTATGTTA
*
57498067 TTGTGGCGTACTTTGTTA
1 TTGTGGCGTACTATGTTA
57498085 AGTCTGTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.11, G:0.28, T:0.47
Consensus pattern (18 bp):
TTGTGGCGTACTATGTTA
Found at i:57507335 original size:43 final size:43
Alignment explanation
Indices: 57507214--57507358 Score: 147
Period size: 43 Copynumber: 3.4 Consensus size: 43
57507204 TCCTAGATAT
* * *
57507214 GGTCTTACATGTTATCAC-ATATCGATGCCACTGTCCCACACAG
1 GGTCTTACATGTAATCGCAATA-CAATGCCACTGTCCCACACAG
* * * *
57507257 GGTCTTACACG-AAGTCG-ATTA-ATGATGTCGA-TGTCCCACACAT
1 GGTCTTACATGTAA-TCGCAATACA--ATG-CCACTGTCCCACACAG
57507300 GGTCTTACATGTAATCGCAATACAATGCCACTGTCCCACACAG
1 GGTCTTACATGTAATCGCAATACAATGCCACTGTCCCACACAG
57507343 GGTCTTACATGTAATC
1 GGTCTTACATGTAATC
57507359 ACATCTCGGT
Statistics
Matches: 82, Mismatches: 11, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
42 3 0.04
43 71 0.87
44 7 0.09
45 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.28
Consensus pattern (43 bp):
GGTCTTACATGTAATCGCAATACAATGCCACTGTCCCACACAG
Found at i:57515342 original size:41 final size:41
Alignment explanation
Indices: 57515247--57515344 Score: 114
Period size: 41 Copynumber: 2.4 Consensus size: 41
57515237 GTGATATTCG
* *
57515247 GGCTTTATGCCTACCAGGCTTTGTGCCGGTGTGTTATATCA
1 GGCTTTATGCCTAGCAGGCTTTGTGCCGGTGTATTATATCA
57515288 GGCCTATTA--CCTAGCAGGCTCTT-TGCCGGTGTATTATA-CTA
1 GG-CT-TTATGCCTAGCAGGCT-TTGTGCCGGTGTATTATATC-A
57515329 GGCTTTATGCCTAGCA
1 GGCTTTATGCCTAGCA
57515345 AATTTTATCT
Statistics
Matches: 49, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
39 3 0.06
40 3 0.06
41 36 0.73
42 4 0.08
43 3 0.06
ACGTcount: A:0.17, C:0.23, G:0.24, T:0.35
Consensus pattern (41 bp):
GGCTTTATGCCTAGCAGGCTTTGTGCCGGTGTATTATATCA
Found at i:57518245 original size:22 final size:23
Alignment explanation
Indices: 57518198--57518248 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
57518188 CATCTCATTG
*
57518198 GAGCTTACTAATTTAGCTCGAAA
1 GAGCTTACTAATTCAGCTCGAAA
*
57518221 GAGCTTA-TTATTCAGCTC-AACA
1 GAGCTTACTAATTCAGCTCGAA-A
57518243 GAGCTT
1 GAGCTT
57518249 GCCGTTTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 2 0.08
22 16 0.64
23 7 0.28
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (23 bp):
GAGCTTACTAATTCAGCTCGAAA
Found at i:57529942 original size:47 final size:47
Alignment explanation
Indices: 57529867--57530124 Score: 383
Period size: 47 Copynumber: 5.5 Consensus size: 47
57529857 TTCGGGACTT
* * * * * *
57529867 ATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCC-C
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
*
57529913 TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
1 -ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
57529961 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
* *
57530008 ATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
* *
57530055 ATCACATATATACACTTTCACATTCATCACACCGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
* *
57530102 ATCACATATATATACATTCACAT
1 ATCACATATATACACTTTCACAT
57530125 CACAATTATC
Statistics
Matches: 196, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
47 195 0.99
48 1 0.01
ACGTcount: A:0.29, C:0.32, G:0.09, T:0.31
Consensus pattern (47 bp):
ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTC
Found at i:57532474 original size:37 final size:37
Alignment explanation
Indices: 57532424--57532502 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
57532414 TTATTACGAA
* * *
57532424 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
57532461 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
57532498 GTCTT
1 GTCTT
57532503 TAGAGCTCGA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:57532698 original size:47 final size:47
Alignment explanation
Indices: 57532620--57533200 Score: 820
Period size: 47 Copynumber: 12.2 Consensus size: 47
57532610 CCCTTCGGGA
* * * * * **
57532620 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
57532667 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
**
57532714 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* * *
57532761 CTTATCACATATATATACACTTTCAAATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* **
57532810 CTTATCGCGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* * *
57532857 CTTATCACATATATATACACTTTCAAATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
57532906 CTTATCGCACATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* * *
57532953 CTTATCACATATATATACACTTTCAAATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* **
57533002 CTTATCGCGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
*
57533049 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAAGC
57533098 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
*
57533145 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
57533192 CTTATCACA
1 CTTATCACA
57533201 ATTTAGAATT
Statistics
Matches: 474, Mismatches: 52, Indels: 16
0.87 0.10 0.03
Matches are distributed among these distances:
47 306 0.65
49 168 0.35
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
Found at i:57532815 original size:96 final size:96
Alignment explanation
Indices: 57532635--57533199 Score: 922
Period size: 96 Copynumber: 5.9 Consensus size: 96
57532625 CACATTTATG
* * * ** * * *
57532635 CACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCAC--ATATATACACTTTCACATTCATC
1 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATACACTTTCAAATTCATC
*
57532698 ACATCGGCCATTAAGCCTTATCACGCATATA
66 ACATCGGCCATTAGGCCTTATCACGCATATA
57532729 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATACACTTTCAAATTCATC
1 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATACACTTTCAAATTCATC
* *
57532794 ACATCGGCTATTAGGCCTTATCGCGCATATA
66 ACATCGGCCATTAGGCCTTATCACGCATATA
57532825 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATACACTTTCAAATTCATC
1 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATACACTTTCAAATTCATC
* * *
57532890 ACATCGGCTATTAGGCCTTATCGCACATATA
66 ACATCGGCCATTAGGCCTTATCACGCATATA
57532921 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATACACTTTCAAATTCATC
1 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATACACTTTCAAATTCATC
* *
57532986 ACATCGGCTATTAGGCCTTATCGCGCATATA
66 ACATCGGCCATTAGGCCTTATCACGCATATA
*
57533017 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATACACTTTCACATTCATC
1 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATACACTTTCAAATTCATC
**
57533082 ACATCGGCCATTAGGCCTTATCACATATATA
66 ACATCGGCCATTAGGCCTTATCACGCATATA
*
57533113 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCAC--ATATATACACTTTCACATTCATC
1 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATACACTTTCAAATTCATC
57533176 ACATCGGCCATTAGGCCTTATCAC
66 ACATCGGCCATTAGGCCTTATCAC
57533200 AATTTAGAAT
Statistics
Matches: 451, Mismatches: 18, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
94 80 0.18
96 371 0.82
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (96 bp):
CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATACACTTTCAAATTCATC
ACATCGGCCATTAGGCCTTATCACGCATATA
Found at i:57536733 original size:19 final size:19
Alignment explanation
Indices: 57536697--57536735 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
57536687 TTTTCATCAT
* *
57536697 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
57536716 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
57536735 A
1 A
57536736 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:57537248 original size:28 final size:29
Alignment explanation
Indices: 57537164--57537241 Score: 90
Period size: 28 Copynumber: 2.8 Consensus size: 29
57537154 AGCATGGCTG
* * * *
57537164 CCAGATACAGA-AA-ATGTGACAGAGTCA
1 CCAGATACAGATAATTTGTGGCAGTGCCA
*
57537191 CCAGATACAGATATTTTGTGGCAGTGCCA
1 CCAGATACAGATAATTTGTGGCAGTGCCA
57537220 CCAGA-ACAGATAATTTGTGGCA
1 CCAGATACAGATAATTTGTGGCA
57537242 TAGCCACTAG
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
27 11 0.26
28 17 0.40
29 15 0.35
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (29 bp):
CCAGATACAGATAATTTGTGGCAGTGCCA
Found at i:57537404 original size:28 final size:28
Alignment explanation
Indices: 57537358--57537421 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
57537348 AATTAACCCA
*
57537358 AGGGGTATAAAGGTCATTTAGCATACAT
1 AGGGGTATAAAGGTAATTTAGCATACAT
* *
57537386 AGGGGTATAATGGTAATTTTGCATACAT
1 AGGGGTATAAAGGTAATTTAGCATACAT
57537414 AGGGGTAT
1 AGGGGTAT
57537422 TCTAGTAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (28 bp):
AGGGGTATAAAGGTAATTTAGCATACAT
Found at i:57542225 original size:27 final size:27
Alignment explanation
Indices: 57541521--57542224 Score: 1038
Period size: 27 Copynumber: 26.2 Consensus size: 27
57541511 ATCAAGAAAG
*
57541521 TTACTGAAATACCCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
57541548 TTACCGAAATA-CCCTGTAAGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
57541574 TTACTGAAATACCCCTGTA-GGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
57541600 TTACCGAAATACCCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
57541627 TTACCGAAATACCCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
**
57541654 TTACCGAAATACCCCAATAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
* * *
57541681 TTACTGAAATACCCTTGTACGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
** * *
57541708 TTACTAAAATACCCCTATATGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
* * *
57541735 TTATCGAAATACCCTTATAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
57541762 TTACCGAAATACACCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
57541789 TTACCGAAATACCCCTGTAGGGTAAAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
** *
57541816 TTACTAAAATACCCCTATAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
57541843 TTACTGAAATACCCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
**
57541870 TTACTAAAATACCCC-GTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
57541896 TTACCGAAATACCCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
57541923 TTACCGAAATACCCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
57541950 TTACCGAAATACCCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
57541977 TTACCGAAATACCCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
57542004 TTACCGAAATACCCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
57542031 TTACCGAAATACCCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
* * *
57542058 TTACCGTAATACCCATGTAGGCTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
* * *
57542085 TTACCGTAATACCCATGTAGGCTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
* *
57542112 TTATCGAAATACCCCTATAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
57542139 TTACTGAAATACCCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
**
57542166 TTACTAAAATACCCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
* * *
57542193 TTACC-AAGATACCCTTGTGGGGTAAAA
1 TTACCGAA-ATACCCCTGTAGGGTAGAA
57542220 TTACC
1 TTACC
57542225 ATTTTGCCCC
Statistics
Matches: 622, Mismatches: 51, Indels: 8
0.91 0.07 0.01
Matches are distributed among these distances:
26 75 0.12
27 547 0.88
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (27 bp):
TTACCGAAATACCCCTGTAGGGTAGAA
Found at i:57542518 original size:27 final size:26
Alignment explanation
Indices: 57542448--57542554 Score: 83
Period size: 27 Copynumber: 4.0 Consensus size: 26
57542438 TGGAGGAAGC
* *
57542448 GTTCTGGTGGCTATGTCACAAATATCT
1 GTTCAGGTGGCTATGCCAC-AATATCT
*
57542475 GTTTCTA-GT-GTTATGCCACAAATATCT
1 G-TTC-AGGTGGCTATGCCAC-AATATCT
*
57542502 GTTCAGGTGGCTCTGCCACAATATCT
1 GTTCAGGTGGCTATGCCACAATATCT
* * * *
57542528 GTATCTGGTGACTCTGTCACAATATCT
1 GT-TCAGGTGGCTATGCCACAATATCT
57542555 ATTGACAGAT
Statistics
Matches: 67, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
25 1 0.01
26 14 0.21
27 47 0.70
28 5 0.07
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.36
Consensus pattern (26 bp):
GTTCAGGTGGCTATGCCACAATATCT
Found at i:57542891 original size:27 final size:27
Alignment explanation
Indices: 57542861--57542917 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
57542851 ATTCTGTTAA
* * *
57542861 GTGGCTTTGCCATATTATCTG-ATTCTG
1 GTGGCTCTGCCACAATATCTGTA-TCTG
57542888 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
57542915 GTG
1 GTG
57542918 ACTTCGTCAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 25 0.96
28 1 0.04
ACGTcount: A:0.16, C:0.21, G:0.25, T:0.39
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTATCTG
Found at i:57543084 original size:29 final size:29
Alignment explanation
Indices: 57543036--57543820 Score: 1543
Period size: 29 Copynumber: 27.1 Consensus size: 29
57543026 CTGGATTGGG
57543036 TTGGGATTGCATTCACATTCTAATTTTGA
1 TTGGGATTGCATTCACATTCTAATTTTGA
** *
57543065 TTCTGTTTGCATTCACATTCTAATTTTGA
1 TTGGGATTGCATTCACATTCTAATTTTGA
57543094 TTGGGATTGCATTCACATTCTAATTTTGA
1 TTGGGATTGCATTCACATTCTAATTTTGA
57543123 TTGGGATTGCATTCACATTCTAATTTTGA
1 TTGGGATTGCATTCACATTCTAATTTTGA
57543152 TTGGGATTGCATTCACATTCTAATTTTGA
1 TTGGGATTGCATTCACATTCTAATTTTGA
57543181 TTGGGATTGCATTCACATTCTAATTTTGA
1 TTGGGATTGCATTCACATTCTAATTTTGA
57543210 TTGGGATTGCATTCACATTCTAATTTTGA
1 TTGGGATTGCATTCACATTCTAATTTTGA
57543239 TTGGGATTGCATTCACATTCTAATTTTGA
1 TTGGGATTGCATTCACATTCTAATTTTGA
57543268 TTGGGATTGCATTCACATTCTAATTTTGA
1 TTGGGATTGCATTCACATTCTAATTTTGA
57543297 TTGGGATTGCATTCACATTCTAATTTTGA
1 TTGGGATTGCATTCACATTCTAATTTTGA
57543326 TTGGGATTGCATTCACATTCTAATTTTGA
1 TTGGGATTGCATTCACATTCTAATTTTGA
57543355 TTGGGATTGCATTCACATTCTAATTTTGA
1 TTGGGATTGCATTCACATTCTAATTTTGA
57543384 TTGGGATTGCATTCACATTCTAATTTTGA
1 TTGGGATTGCATTCACATTCTAATTTTGA
57543413 TTGGGATTGCATTCACATTCTAATTTTGA
1 TTGGGATTGCATTCACATTCTAATTTTGA
57543442 TTGGGATTGCATTCACATTCTAATTTTGA
1 TTGGGATTGCATTCACATTCTAATTTTGA
57543471 TTGGGATTGCATTCACATTCTAATTTTGA
1 TTGGGATTGCATTCACATTCTAATTTTGA
57543500 TTGGGATTGCATTCACATTCTAATTTTGA
1 TTGGGATTGCATTCACATTCTAATTTTGA
57543529 TTGGGATTGCATTCACATTCTAATTTTGA
1 TTGGGATTGCATTCACATTCTAATTTTGA
57543558 TTGGGATTGCATTCACATTCTAATTTTGA
1 TTGGGATTGCATTCACATTCTAATTTTGA
57543587 TTGGGATTGCATTCACATTCTAATTTTGA
1 TTGGGATTGCATTCACATTCTAATTTTGA
57543616 TTGGGATTGCATTCACATTCTAATTTTGA
1 TTGGGATTGCATTCACATTCTAATTTTGA
57543645 TTGGGATTGCATTCACATTCTAATTTTGA
1 TTGGGATTGCATTCACATTCTAATTTTGA
57543674 TTGGGATTGCATTCACATTCTAATTTTGA
1 TTGGGATTGCATTCACATTCTAATTTTGA
57543703 TTGGGATTGCATTCACATTCTAATTTTGA
1 TTGGGATTGCATTCACATTCTAATTTTGA
57543732 TTGGGATTGCATTCACATTCTAATTTTGA
1 TTGGGATTGCATTCACATTCTAATTTTGA
57543761 TTGGGATTGCATTCACATTCTAATTTTGA
1 TTGGGATTGCATTCACATTCTAATTTTGA
57543790 TTGGGATTGCATTCACATTCTAATTTTGA
1 TTGGGATTGCATTCACATTCTAATTTTGA
57543819 TT
1 TT
57543821 CTGTTACCTG
Statistics
Matches: 750, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
29 750 1.00
ACGTcount: A:0.24, C:0.14, G:0.17, T:0.45
Consensus pattern (29 bp):
TTGGGATTGCATTCACATTCTAATTTTGA
Found at i:57543843 original size:6 final size:6
Alignment explanation
Indices: 57543806--57543899 Score: 59
Period size: 6 Copynumber: 15.3 Consensus size: 6
57543796 TTGCATTCAC
* * *
57543806 ATTCTA ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCT- ACTTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG A-TTCTG
* * * *
57543855 -TCACCTG ATTCTG ATTCTG ATTCTC ATTTTG ATTCTA ATTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT
57543900 AATGTTTCTT
Statistics
Matches: 67, Mismatches: 13, Indels: 16
0.70 0.14 0.17
Matches are distributed among these distances:
5 4 0.06
6 55 0.82
7 6 0.09
8 2 0.03
ACGTcount: A:0.20, C:0.19, G:0.12, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:57543854 original size:31 final size:31
Alignment explanation
Indices: 57543819--57543878 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
57543809 CTAATTTTGA
*
57543819 TTCTGTTACCTGATACTGATTCTGATTCTAC
1 TTCTGTCACCTGATACTGATTCTGATTCTAC
*
57543850 TTCTGTCACCTGATTCTGATTCTGATTCT
1 TTCTGTCACCTGATACTGATTCTGATTCT
57543879 CATTTTGATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.17, C:0.23, G:0.13, T:0.47
Consensus pattern (31 bp):
TTCTGTCACCTGATACTGATTCTGATTCTAC
Found at i:57546096 original size:173 final size:174
Alignment explanation
Indices: 57545795--57546140 Score: 649
Period size: 173 Copynumber: 2.0 Consensus size: 174
57545785 TTGAGCCGAG
57545795 AACGGGCTTTAGGCCCATTCGTATTGTTATCCCTATTTAGAATACTTTAGTTTACCAAAGTACAC
1 AACGGGCTTTAGGCCCATTCGTATTGTTATCCCTATTTAGAATACTTTAGTTTACCAAAGTACAC
*
57545860 CCGATTTATAGAATTACCGTTTTACCTTTGGTTTATAAAATTACCAAAATACCCTCGATCAGGAA
66 CCGATTTATAGAATTACCGTTTTACCTTTGGTTTACAAAATTACCAAAATACCCTCGATCAGGAA
57545925 AGTTACCGAAATACCCCTGTAAGGTAGAATTACCGAAATACCCT
131 AGTTACCGAAATACCCCTGTAAGGTAGAATTACCGAAATACCCT
* *
57545969 AACGGGCTTTA-GCCCATTCGTATTGTTATCCCTGTTTAGAATACTTTAGTTTACCAAAGTACCC
1 AACGGGCTTTAGGCCCATTCGTATTGTTATCCCTATTTAGAATACTTTAGTTTACCAAAGTACAC
*
57546033 CCGATTTATAGAATTAGCGTTTTACCTTTGGTTTACAAAATTACCAAAATACCCTCGATCAGGAA
66 CCGATTTATAGAATTACCGTTTTACCTTTGGTTTACAAAATTACCAAAATACCCTCGATCAGGAA
57546098 AGTTACCGAAATACCCCTGTAAGGTAGAATTACCGAAATACCC
131 AGTTACCGAAATACCCCTGTAAGGTAGAATTACCGAAATACCC
57546141 CTGTAGGGTA
Statistics
Matches: 168, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
173 157 0.93
174 11 0.07
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (174 bp):
AACGGGCTTTAGGCCCATTCGTATTGTTATCCCTATTTAGAATACTTTAGTTTACCAAAGTACAC
CCGATTTATAGAATTACCGTTTTACCTTTGGTTTACAAAATTACCAAAATACCCTCGATCAGGAA
AGTTACCGAAATACCCCTGTAAGGTAGAATTACCGAAATACCCT
Found at i:57546130 original size:27 final size:27
Alignment explanation
Indices: 57546100--57547433 Score: 1792
Period size: 27 Copynumber: 49.2 Consensus size: 27
57546090 ATCAGGAAAG
*
57546100 TTACCGAAATACCCCTGTAAGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
57546127 TTACCGAAATACCCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
* *
57546154 TTACCGAAATACCCCTATACGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
** * * *
57546181 TTACTAAAATACCCTTATATGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
* *
57546208 TTATCGAAATACCCTTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
* *
57546235 TTATCAAAATACCCCTGTAGTCCAGTAGGGTAGAA
1 TTACCGAAATACCCC-----T---GTAGGGTAGAA
*
57546270 TTACCGAAATACACCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
* *
57546297 TTACCGAAATACCCCTATATGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
57546324 TTACCGAAATACCCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
57546351 TTACCGAAATAACCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
** * *
57546378 TTACTAAAATACCCCTATATGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
57546405 TTACCGAAATACCCTTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
57546432 TTACCGAAATACCCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
57546459 TTACCGAAATAACCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
** * *
57546486 TTACTAAAATACCCCTATATGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
57546513 TTACCGAAATACCCTTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
57546540 TTACCGAAATACCTCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
57546567 TTATCGAAATACCCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
* *
57546594 TTACCGAAAAACCCCTGTAGTGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
* *
57546621 TTATCGAAATACCCCTGTAGTGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
** * *
57546648 TTACTAAAATACCCCTATATGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
57546675 TTACCGAAATACCCTTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
57546702 TTACCGAAATACCCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
* * *
57546729 TTACTGAAATACCCCTGTACGTTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
** * *
57546756 TTACTAAAATACCCCTATATGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
57546783 TTACCGAAATACCCTTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
57546810 TTACCGAAATACCCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
* *
57546837 TTACTGAAATACCCCTGTACGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
** * * *
57546864 TTACTAAAATACCCCTATATGGAAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
57546891 TTACCGAAATACCCTTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
* *
57546918 TTACCGAAATACCCCCGTAGGATAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
***
57546945 TTTTTGAAATACCCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
57546972 TTACCGAAATACCCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
* *
57546999 TTACCGTAATACCCATGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
57547026 TTACCGAAATACCCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
* *
57547053 TTATCAAAATACCCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
57547080 TTACCG-AATACCCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
57547106 TTACTGAAATACCCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
** * *
57547133 TTACTAAAATACCCCTATATGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
57547160 TTACCGAAATACCCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
* *
57547187 TTATCGAAATACCCCAGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
57547214 TTACCGAAATACCCCTGTATGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
* ** * **
57547241 TTTCTAAAATACCCCTATATAGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
57547268 TTACCGAAATACCCTTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
57547295 TTA-CGAAATACCCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
57547321 TTACCGAAATACCCCTATAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
* * *
57547348 TTACCAAAATAACCCTATAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
*
57547375 TTACTGAAATACCCCTGTAGGGTAGAA
1 TTACCGAAATACCCCTGTAGGGTAGAA
* * *
57547402 TTACC-AAGATACCCTTGTGGGGTAAAA
1 TTACCGAA-ATACCCCTGTAGGGTAGAA
57547429 TTACC
1 TTACC
57547434 ATTTTGCCCC
Statistics
Matches: 1149, Mismatches: 147, Indels: 22
0.87 0.11 0.02
Matches are distributed among these distances:
26 52 0.05
27 1072 0.93
30 1 0.00
32 1 0.00
35 23 0.02
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (27 bp):
TTACCGAAATACCCCTGTAGGGTAGAA
Found at i:57547703 original size:27 final size:28
Alignment explanation
Indices: 57547658--57547766 Score: 127
Period size: 27 Copynumber: 4.0 Consensus size: 28
57547648 GCAGGAAGCG
*
57547658 TTCTGGTGGCTATGTCACAAATATCTGT
1 TTCTGGTGGCTATGCCACAAATATCTGT
*
57547686 TTCTGGT-GTTATGCCACAAATATCTG-
1 TTCTGGTGGCTATGCCACAAATATCTGT
*
57547712 TTCTGGTGGCTCTGCCAC-AATATCTGT
1 TTCTGGTGGCTATGCCACAAATATCTGT
* * * *
57547739 ATCTGGTGACTCTGTCAC-AATATCTGT
1 TTCTGGTGGCTATGCCACAAATATCTGT
57547766 T
1 T
57547767 GACTGATCGA
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
26 15 0.21
27 49 0.69
28 7 0.10
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.39
Consensus pattern (28 bp):
TTCTGGTGGCTATGCCACAAATATCTGT
Done.