Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 111 of 333
Found at i:35635663 original size:55 final size:55
Alignment explanation
Indices: 35635602--35635713 Score: 170
Period size: 55 Copynumber: 2.0 Consensus size: 55
35635592 ATATCAGTTT
* * *
35635602 CCTACTCAGATCAGATTATCAGAATATCAGATCACATGAAAAAGGGTTTGATTAG
1 CCTACTCAAATCAGACTATCAGAATATCAGATCACATGAAAAAAGGTTTGATTAG
* * *
35635657 CCTACTCAAATTAGACTATTAGAATATCAGGTCACATGAAAAAAGGTTTGATTAG
1 CCTACTCAAATCAGACTATCAGAATATCAGATCACATGAAAAAAGGTTTGATTAG
35635712 CC
1 CC
35635714 CTTACAGATC
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (55 bp):
CCTACTCAAATCAGACTATCAGAATATCAGATCACATGAAAAAAGGTTTGATTAG
Found at i:35637458 original size:75 final size:76
Alignment explanation
Indices: 35637354--35637535 Score: 217
Period size: 81 Copynumber: 2.3 Consensus size: 76
35637344 AATTAATGGC
* * *
35637354 GGTGGAGCCATTCCAAATGGCCCCACCACTTTA-T-G-TTAGGTTTTTTTTTAAATTTTAAAAAA
1 GGTGGAGCCATTCTAAATGGCGCCACCACTTTAGTAGTTTAGG-TTTTTTTTAAA-TTAAAAAAA
35637416 TATTATTCTATTT
64 TATTATTCTATTT
* *
35637429 GGTGGAGTCATTCTAAATGACGCCACCACTTTATGTCAGTTTTTTAGGTTTTTTTTAAATTAAAA
1 GGTGGAGCCATTCTAAATGGCGCCACCACTTTA-GT-AG---TTTAGGTTTTTTTTAAATTAAAA
*
35637494 AAATATTATTTTATTT
61 AAATATTATTCTATTT
*
35637510 GGTGGAACCATTCTAAATGGCGCCAC
1 GGTGGAGCCATTCTAAATGGCGCCAC
35637536 TAGTGTAATC
Statistics
Matches: 90, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
75 29 0.32
77 1 0.01
79 1 0.01
81 43 0.48
82 11 0.12
83 5 0.06
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (76 bp):
GGTGGAGCCATTCTAAATGGCGCCACCACTTTAGTAGTTTAGGTTTTTTTTAAATTAAAAAAATA
TTATTCTATTT
Found at i:35638543 original size:9 final size:9
Alignment explanation
Indices: 35638531--35638565 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
35638521 TTAAATTTAA
35638531 AAAAAAACT
1 AAAAAAACT
*
35638540 AAAAGAAATT
1 AAAA-AAACT
35638550 AAAAAAACT
1 AAAAAAACT
35638559 AAAAAAA
1 AAAAAAA
35638566 TAATAACATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.80, C:0.06, G:0.03, T:0.11
Consensus pattern (9 bp):
AAAAAAACT
Found at i:35638555 original size:19 final size:18
Alignment explanation
Indices: 35638531--35638566 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
35638521 TTAAATTTAA
35638531 AAAAAAACTAAAAGAAATT
1 AAAAAAACTAAAA-AAATT
35638550 AAAAAAACTAAAAAAAT
1 AAAAAAACTAAAAAAAT
35638567 AATAACATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.78, C:0.06, G:0.03, T:0.14
Consensus pattern (18 bp):
AAAAAAACTAAAAAAATT
Found at i:35642730 original size:33 final size:33
Alignment explanation
Indices: 35642693--35642798 Score: 99
Period size: 33 Copynumber: 3.2 Consensus size: 33
35642683 ACTCTTTGTT
35642693 TGGTGTGTTGGTTGGACTAGCTCTTATAAGCAC
1 TGGTGTGTTGGTTGGACTAGCTCTTATAAGCAC
* * *
35642726 TGGTGT-TATGGTTGGATTAACTCTTA-AGATCAC
1 TGGTGTGT-TGGTTGGACTAGCTCTTATA-AGCAC
* * * * * *
35642759 TAGTGTGATGGTTGGACTAGTTCTTCTGAGCAT
1 TGGTGTGTTGGTTGGACTAGCTCTTATAAGCAC
35642792 TGGTGTG
1 TGGTGTG
35642799 CTGGAGGGAT
Statistics
Matches: 56, Mismatches: 13, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
32 2 0.04
33 54 0.96
ACGTcount: A:0.19, C:0.12, G:0.30, T:0.39
Consensus pattern (33 bp):
TGGTGTGTTGGTTGGACTAGCTCTTATAAGCAC
Found at i:35645400 original size:43 final size:43
Alignment explanation
Indices: 35645353--35645446 Score: 104
Period size: 42 Copynumber: 2.2 Consensus size: 43
35645343 TCCTAGACGT
* * * *
35645353 GGTCTTACAT-GTAATCAGATATCGATGCC-ACTGTCCCAGATAG
1 GGTCTTACATCGAAATCAAATA-CGATGCCGA-TGTCCCAAACAG
*
35645396 GGTCTTAC-TCGAAATCAAATACGATGCCGATGTCCCAAACAT
1 GGTCTTACATCGAAATCAAATACGATGCCGATGTCCCAAACAG
35645438 GGTCTTACA
1 GGTCTTACA
35645447 CATAAATCTC
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
42 25 0.58
43 18 0.42
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (43 bp):
GGTCTTACATCGAAATCAAATACGATGCCGATGTCCCAAACAG
Found at i:35645442 original size:42 final size:41
Alignment explanation
Indices: 35645342--35645498 Score: 127
Period size: 43 Copynumber: 3.7 Consensus size: 41
35645332 TAATGCCAAC
* * * * *
35645342 GTCCTAGACGTGGTCTTACATGTAATCAGATATCGATGCCACT
1 GTCCCAGACATGGTCTTACACGAAATCAAATA-CGATGCCA-T
* * *
35645385 GTCCCAGATAGGGTCTTACTCGAAATCAAATACGATGCCGAT
1 GTCCCAGACATGGTCTTACACGAAATCAAATACGATGCC-AT
* * *
35645427 GTCCCAAACATGGTCTTACACATAAATCTCAAAT-CGATGCCAAC
1 GTCCCAGACATGGTCTTACAC-GAAA--TCAAATACGATGCC-AT
* *
35645471 GTCCCAGACGTAGTCTTACACGAAATCA
1 GTCCCAGACATGGTCTTACACGAAATCA
35645499 CATATCGAAA
Statistics
Matches: 91, Mismatches: 19, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
41 3 0.03
42 25 0.27
43 31 0.34
44 26 0.29
45 6 0.07
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (41 bp):
GTCCCAGACATGGTCTTACACGAAATCAAATACGATGCCAT
Found at i:35645645 original size:28 final size:28
Alignment explanation
Indices: 35645598--35645651 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 28
35645588 TTTCTCAATT
*
35645598 TCACATATTCAACTTCTATAACCATTCG
1 TCACATATTCAACTTCTATAAACATTCG
35645626 TCACA-ATTCAA-TATCATATAAACATT
1 TCACATATTCAACT-TC-TATAAACATT
35645652 AATAAATCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 1 0.04
27 8 0.35
28 14 0.61
ACGTcount: A:0.39, C:0.24, G:0.02, T:0.35
Consensus pattern (28 bp):
TCACATATTCAACTTCTATAAACATTCG
Found at i:35655365 original size:42 final size:43
Alignment explanation
Indices: 35655265--35655365 Score: 123
Period size: 43 Copynumber: 2.4 Consensus size: 43
35655255 GGGCTTCAAC
*
35655265 CCCCTAAGCAATAGGGTAACAAGCCAAATTTTCAAACCTTAAA
1 CCCCTAAGCAATAGGGTAACAAGCCAAATTTACAAACCTTAAA
* * *** * *
35655308 CCCCTAAGCAGTAGGGTAACAGGTTGAATTTACAGATC-TAAA
1 CCCCTAAGCAATAGGGTAACAAGCCAAATTTACAAACCTTAAA
35655350 CCCCTAAGCAATAGGG
1 CCCCTAAGCAATAGGG
35655366 AAATAGGTCG
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 19 0.39
43 30 0.61
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.21
Consensus pattern (43 bp):
CCCCTAAGCAATAGGGTAACAAGCCAAATTTACAAACCTTAAA
Found at i:35657844 original size:9 final size:9
Alignment explanation
Indices: 35657832--35657857 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
35657822 TCATATATTT
35657832 TTTTGTTTG
1 TTTTGTTTG
35657841 TTTTGTTTG
1 TTTTGTTTG
35657850 TTTTGTTT
1 TTTTGTTT
35657858 CCATTATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (9 bp):
TTTTGTTTG
Found at i:35666911 original size:49 final size:48
Alignment explanation
Indices: 35666833--35667001 Score: 146
Period size: 49 Copynumber: 3.5 Consensus size: 48
35666823 TTTGTGTGTT
* * * *
35666833 AGTGTAAGACCTATCTGGCATATGGCATCGACAC-CGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACAT-GCATCGAC-CTCGATAGATGAAAGCC
* * * *
35666882 AGTGTAAGACCTGTCTGGGACACGACATCGGCCTCGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATG-CATCGACCTCGATAGATGAAAGCC
* ** * **
35666931 AGTGTAAGACCTGTTTGGGACATGCATCGAATTTGAT-G-TGCTAGCC
1 AGTGTAAGACCTGTCTGGGACATGCATCGACCTCGATAGATGAAAGCC
*
35666977 AATGTAAGACCATGTCTGGGACATG
1 AGTGTAAGACC-TGTCTGGGACATG
35667002 GCGTCGACAT
Statistics
Matches: 97, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
46 15 0.15
47 12 0.12
48 11 0.11
49 59 0.61
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCTGTCTGGGACATGCATCGACCTCGATAGATGAAAGCC
Found at i:35668757 original size:36 final size:36
Alignment explanation
Indices: 35668710--35668779 Score: 131
Period size: 36 Copynumber: 1.9 Consensus size: 36
35668700 GTAACATAAA
35668710 GGCTTGGAAAATAGCCTAAGTGTTGGCCACACAGAC
1 GGCTTGGAAAATAGCCTAAGTGTTGGCCACACAGAC
*
35668746 GGCTTGGAAAATAGCTTAAGTGTTGGCCACACAG
1 GGCTTGGAAAATAGCCTAAGTGTTGGCCACACAG
35668780 GCTGAGACAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.30, C:0.20, G:0.29, T:0.21
Consensus pattern (36 bp):
GGCTTGGAAAATAGCCTAAGTGTTGGCCACACAGAC
Found at i:35687392 original size:48 final size:48
Alignment explanation
Indices: 35687322--35687413 Score: 123
Period size: 48 Copynumber: 1.9 Consensus size: 48
35687312 ACTGTGATTA
* * * *
35687322 ATGATATTTGTGTCTGTGTAAGACCATGTCTGGGTCATGGCATCGGTG
1 ATGATATGTGTGTCTGTATAAGACCATGTCTAGGACATGGCATCGGTG
*
35687370 ATGATATGTGTG-CTAGTATAAGATCATGTCTAGGACATGGCATC
1 ATGATATGTGTGTCT-GTATAAGACCATGTCTAGGACATGGCATC
35687414 AACAGTGACA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
47 2 0.05
48 36 0.95
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (48 bp):
ATGATATGTGTGTCTGTATAAGACCATGTCTAGGACATGGCATCGGTG
Found at i:35695321 original size:60 final size:60
Alignment explanation
Indices: 35695184--35695332 Score: 160
Period size: 60 Copynumber: 2.5 Consensus size: 60
35695174 CTATTCAGAA
* * * * *
35695184 ATCAGAGT-TAACTGGGCCTTAGCACATATTAATATTAATCTGGGCCATAGCCCCTTATAGT
1 ATCAGAGTAT-ACTGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCATTAAAGT
*
35695245 ATCAGAGTATACTGGGCCTAGCCCATATCAGTATCAATCTGGGCCATAGCCCTATTACAAGT
1 ATCAGAGTATACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTA-AAGT
* * *
35695307 -TGAGA-TATATTGGGCCTTGCCCATAT
1 ATCAGAGTATACTGGGCCTAGCCCATAT
35695333 TAACACAGTT
Statistics
Matches: 76, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
60 49 0.64
61 23 0.30
62 4 0.05
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (60 bp):
ATCAGAGTATACTGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTAAAGT
Found at i:35695350 original size:20 final size:20
Alignment explanation
Indices: 35695325--35695370 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
35695315 ATTGGGCCTT
35695325 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
35695345 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
35695364 GCCCATA
1 GCCCATA
35695371 ACAAAACAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:35695379 original size:19 final size:20
Alignment explanation
Indices: 35695337--35695380 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
35695327 CCATATTAAC
** *
35695337 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
35695357 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
35695376 ACAGT
1 ACAGT
35695381 CTCATATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:35703335 original size:52 final size:52
Alignment explanation
Indices: 35703257--35703369 Score: 217
Period size: 52 Copynumber: 2.2 Consensus size: 52
35703247 ATCTCTTAAC
35703257 AAAACTTTAGGGAAAGTTTAGAAACCTTCTAATCATATCAAAGCAAGTTGAA
1 AAAACTTTAGGGAAAGTTTAGAAACCTTCTAATCATATCAAAGCAAGTTGAA
35703309 AAAACTTTAGGGAAAGTTTAGAAACCTTCTAATCATATCAAAGCAAGTTGAA
1 AAAACTTTAGGGAAAGTTTAGAAACCTTCTAATCATATCAAAGCAAGTTGAA
35703361 AAACACTTT
1 AAA-ACTTT
35703370 GAAACATCCT
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 55 0.92
53 5 0.08
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.27
Consensus pattern (52 bp):
AAAACTTTAGGGAAAGTTTAGAAACCTTCTAATCATATCAAAGCAAGTTGAA
Found at i:35707933 original size:42 final size:41
Alignment explanation
Indices: 35707840--35708002 Score: 134
Period size: 42 Copynumber: 3.9 Consensus size: 41
35707830 TAGGGTTACC
* * *
35707840 GAGACTAT-GTGTAAGACCATATCTGGGATATGGCATCATTAC
1 GAGACT-TCGTGTAAGACCATATATGGGATATGGCATGA-TAT
*
35707882 GAGACTTCGTGTAAGACCATATTTGGGATATGGCATGGATAT
1 GAGACTTCGTGTAAGACCATATATGGGATATGGCAT-GATAT
* * *
35707924 GACG-TTTCGTGTAAGACCATAGATGGGCTATCGGCATCGATAT
1 GA-GACTTCGTGTAAGACCATATATGGGATAT-GGCAT-GATAT
* * * * *
35707967 GAGA-TCCCATCTAAGACTATATCTGGGATATGGCAT
1 GAGACT-TCGTGTAAGACCATATATGGGATATGGCAT
35708003 TAGTGTAGTA
Statistics
Matches: 100, Mismatches: 15, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
41 1 0.01
42 67 0.67
43 32 0.32
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (41 bp):
GAGACTTCGTGTAAGACCATATATGGGATATGGCATGATAT
Found at i:35710561 original size:79 final size:80
Alignment explanation
Indices: 35710393--35710577 Score: 207
Period size: 79 Copynumber: 2.3 Consensus size: 80
35710383 GCTACTCGTT
* * *
35710393 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCAGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
35710457 AATTTAGTAACTCGCA
65 AATATAGTAACTAGCA
* **
35710473 CAAATGCCTTCAGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAATGCCTTCAGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
* * *
35710536 GATATGGTCACTTAGCA
65 AATATAGTAAC-TAGCA
*
35710553 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCAGGACTTAGCCCGGA
35710578 CATCATTCAA
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 3 0.03
79 53 0.60
80 33 0.37
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCAGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGA
ATATAGTAACTAGCA
Found at i:35710577 original size:40 final size:40
Alignment explanation
Indices: 35710393--35710577 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
35710383 GCTACTCGTT
* *
35710393 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
35710433 CAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
35710473 CAAATGCCTTCAGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
35710512 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
35710553 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
35710578 CATCATTCAA
Statistics
Matches: 123, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 78 0.63
41 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:35712163 original size:20 final size:20
Alignment explanation
Indices: 35712138--35712218 Score: 126
Period size: 20 Copynumber: 4.0 Consensus size: 20
35712128 TGGGCTGTCA
*
35712138 CATGTCCCAAGCCACACAGG
1 CATGTCCCAAGCCACACGGG
35712158 CATGTCCCAAGCCACACGGG
1 CATGTCCCAAGCCACACGGG
* *
35712178 CGTGTCCCAAGCCACGCGGG
1 CATGTCCCAAGCCACACGGG
*
35712198 CATGTCCCAAGCCACGCGGG
1 CATGTCCCAAGCCACACGGG
35712218 C
1 C
35712219 GTGTGGCTCT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 57 1.00
ACGTcount: A:0.22, C:0.41, G:0.27, T:0.10
Consensus pattern (20 bp):
CATGTCCCAAGCCACACGGG
Found at i:35712200 original size:40 final size:40
Alignment explanation
Indices: 35712140--35712222 Score: 139
Period size: 40 Copynumber: 2.1 Consensus size: 40
35712130 GGCTGTCACA
35712140 TGTCCCAAGCCACACAGGCATGTCCCAAGCCACACGGGCG
1 TGTCCCAAGCCACACAGGCATGTCCCAAGCCACACGGGCG
* * *
35712180 TGTCCCAAGCCACGCGGGCATGTCCCAAGCCACGCGGGCG
1 TGTCCCAAGCCACACAGGCATGTCCCAAGCCACACGGGCG
35712220 TGT
1 TGT
35712223 GGCTCTTAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.20, C:0.39, G:0.29, T:0.12
Consensus pattern (40 bp):
TGTCCCAAGCCACACAGGCATGTCCCAAGCCACACGGGCG
Found at i:35713146 original size:45 final size:45
Alignment explanation
Indices: 35713082--35713427 Score: 244
Period size: 45 Copynumber: 7.7 Consensus size: 45
35713072 AGGAAATGAT
35713082 TAAGACCATAGTTGAAAGACACTATGGCACTATACCAAAAATAAA
1 TAAGACCATAGTTGAAAGACACTATGGCACTATACCAAAAATAAA
*
35713127 TAAGACCACAGTTGAAAGACACTATGGCACTATACCAAAAATAAA
1 TAAGACCATAGTTGAAAGACACTATGGCACTATACCAAAAATAAA
* * * *
35713172 TAAGACCATAGTTGAAAGACACTATGGCACCATACCAGAAACAAG
1 TAAGACCATAGTTGAAAGACACTATGGCACTATACCAAAAATAAA
* * * *** * * * *
35713217 TAAGACCATGGCTAAAAGATGTTATGGCA-TCATGATTC---TATCGAG
1 TAAGACCATAGTTGAAAGACACTATGGCACT-AT-A-CCAAAAAT-AAA
* * * *
35713262 TAAGACCATAGCTGAAAGACACTATGGCA-T-CACGAATCAAAGAAA
1 TAAGACCATAGTTGAAAGACACTATGGCACTATACCAA--AAATAAA
* * *
35713307 TAAGACCATAGTTAAAAGACAC-ATGGCA--ACACGACAGAAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGGCACTATAC--CA-AAAATAAA
* * * * * ** *
35713352 TAAGACCATGGTTGAAAGACAGTATGGCGTCAAGA-TGAGAATAAA
1 TAAGACCATAGTTGAAAGACACTATGGC-ACTATACCAAAAATAAA
* *
35713397 TAAGACCATGGTTGAAAGACACCATGGCACT
1 TAAGACCATAGTTGAAAGACACTATGGCACT
35713428 CTCCAATCAT
Statistics
Matches: 237, Mismatches: 47, Indels: 35
0.74 0.15 0.11
Matches are distributed among these distances:
42 1 0.00
44 11 0.05
45 213 0.90
46 8 0.03
47 2 0.01
49 2 0.01
ACGTcount: A:0.44, C:0.18, G:0.19, T:0.19
Consensus pattern (45 bp):
TAAGACCATAGTTGAAAGACACTATGGCACTATACCAAAAATAAA
Found at i:35713378 original size:135 final size:135
Alignment explanation
Indices: 35713127--35713379 Score: 302
Period size: 135 Copynumber: 1.9 Consensus size: 135
35713117 CAAAAATAAA
* * * *
35713127 TAAGACCACAGTTGAAAGACACTATGGCACTATACCAAAAATAAATAAGACCATAGTTGAAAGAC
1 TAAGACCACAGCTGAAAGACACTATGGCACTACACCAAAAAGAAATAAGACCATAGTTAAAAGAC
* * * *
35713192 ACTATGGCACCATACCAGAAACAAGTAAGACCATGGCTAAAAGATGTTATGGCATCATGATTCTA
66 ACTATGGCAACAGACCAGAAACAAATAAGACCATGGCTAAAAGAAGTTATGGCATCATGATTCTA
35713257 TCGAG
131 TCGAG
* *
35713262 TAAGACCATAGCTGAAAGACACTATGGCA-T-CACGAATCAAAGAAATAAGACCATAGTTAAAAG
1 TAAGACCACAGCTGAAAGACACTATGGCACTACACCAA--AAAGAAATAAGACCATAGTTAAAAG
* *
35713325 ACAC-ATGGCAACACGA-CAGAAA-ATGAATAAGACCATGGTTGAAAGACAG-TATGGC
64 ACACTATGGCAACA-GACCAGAAACA--AATAAGACCATGGCTAAAAGA-AGTTATGGC
35713380 GTCAAGATGA
Statistics
Matches: 100, Mismatches: 12, Indels: 12
0.81 0.10 0.10
Matches are distributed among these distances:
133 5 0.05
134 15 0.15
135 79 0.79
136 1 0.01
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.19
Consensus pattern (135 bp):
TAAGACCACAGCTGAAAGACACTATGGCACTACACCAAAAAGAAATAAGACCATAGTTAAAAGAC
ACTATGGCAACAGACCAGAAACAAATAAGACCATGGCTAAAAGAAGTTATGGCATCATGATTCTA
TCGAG
Found at i:35715642 original size:20 final size:20
Alignment explanation
Indices: 35715617--35715659 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
35715607 GTGTTACATT
35715617 TGGTATTTATAGTAGAGGGA
1 TGGTATTTATAGTAGAGGGA
35715637 TGGTATTTATAGTAGAGGGA
1 TGGTATTTATAGTAGAGGGA
35715657 TGG
1 TGG
35715660 AATAGGAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (20 bp):
TGGTATTTATAGTAGAGGGA
Found at i:35722659 original size:73 final size:73
Alignment explanation
Indices: 35722540--35722687 Score: 296
Period size: 73 Copynumber: 2.0 Consensus size: 73
35722530 CATCAAAATC
35722540 AAAAATTAAAGCTTGGGTTTTGTAGTACTCGAAGCAACGATCTCAAAAACGTAAAAATTATCAAA
1 AAAAATTAAAGCTTGGGTTTTGTAGTACTCGAAGCAACGATCTCAAAAACGTAAAAATTATCAAA
35722605 AATCGACT
66 AATCGACT
35722613 AAAAATTAAAGCTTGGGTTTTGTAGTACTCGAAGCAACGATCTCAAAAACGTAAAAATTATCAAA
1 AAAAATTAAAGCTTGGGTTTTGTAGTACTCGAAGCAACGATCTCAAAAACGTAAAAATTATCAAA
35722678 AATCGACT
66 AATCGACT
35722686 AA
1 AA
35722688 GAACAAACCT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 75 1.00
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.26
Consensus pattern (73 bp):
AAAAATTAAAGCTTGGGTTTTGTAGTACTCGAAGCAACGATCTCAAAAACGTAAAAATTATCAAA
AATCGACT
Found at i:35727505 original size:43 final size:42
Alignment explanation
Indices: 35727289--35727505 Score: 124
Period size: 43 Copynumber: 5.1 Consensus size: 42
35727279 GGCTTTGAGC
*
35727289 CTAGCAGGCGTAATGCCGGTGAAATGATATCAGACTTAAAGGT
1 CTAGCAGGCGTAATGCCGGTG-AATGATATCGGACTTAAAGGT
* * * ** ** *
35727332 CTAGCAAGCTTTAA-GCTGGTGAAT-ATTAT-GGGGTT-CCGAGC
1 CTAGCAGGC-GTAATGCCGGTGAATGA-TATCGGACTTAAAG-GT
* * *
35727373 CTAGCAGGCGTAATGTCGATGGAATGATATTGGACTTAAAGGT
1 CTAGCAGGCGTAATGCCGGT-GAATGATATCGGACTTAAAGGT
* * ** * *** *
35727416 CTAGCAAGCTTTAA-GCTAGTGAAT-ATTATCGGGCTCCGA-GC
1 CTAGCAGGC-GTAATGCCGGTGAATGA-TATCGGACTTAAAGGT
35727457 CTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGT
1 CTAGCAGGCGTAATGCCGGTG-AATGATATCGGACTTAAAGGT
35727500 CTAGCA
1 CTAGCA
35727506 AGCTTATTGC
Statistics
Matches: 120, Mismatches: 40, Indels: 28
0.64 0.21 0.15
Matches are distributed among these distances:
40 7 0.06
41 31 0.26
42 37 0.31
43 38 0.32
44 7 0.06
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (42 bp):
CTAGCAGGCGTAATGCCGGTGAATGATATCGGACTTAAAGGT
Found at i:35727521 original size:84 final size:84
Alignment explanation
Indices: 35727276--35727510 Score: 380
Period size: 84 Copynumber: 2.8 Consensus size: 84
35727266 GTGATGAATT
** *
35727276 TCGGGCTTTGAGCCTAGCAGGCGTAATGCCGGTGAAATGATATCAGACTTAAAGGTCTAGCAAGC
1 TCGGGCTCCGAGCCTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCAAGC
*
35727341 TTTAAGCTGGTGAATATTA
66 TTTAAGCTAGTGAATATTA
* * * * * *
35727360 TGGGGTTCCGAGCCTAGCAGGCGTAATGTCGATGGAATGATATTGGACTTAAAGGTCTAGCAAGC
1 TCGGGCTCCGAGCCTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCAAGC
35727425 TTTAAGCTAGTGAATATTA
66 TTTAAGCTAGTGAATATTA
35727444 TCGGGCTCCGAGCCTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCAAGC
1 TCGGGCTCCGAGCCTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCAAGC
35727509 TT
66 TT
35727511 ATTGCCAGTG
Statistics
Matches: 135, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
84 135 1.00
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (84 bp):
TCGGGCTCCGAGCCTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCAAGC
TTTAAGCTAGTGAATATTA
Found at i:35731451 original size:56 final size:56
Alignment explanation
Indices: 35731386--35731505 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
35731376 ACAAGGGATG
35731386 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
35731442 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
35731498 ATGGGCAA
1 ATGGGCAA
35731506 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:35733604 original size:40 final size:40
Alignment explanation
Indices: 35733520--35733744 Score: 134
Period size: 40 Copynumber: 5.7 Consensus size: 40
35733510 TTGAATGCTG
* * * * *
35733520 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGACTAAGACCCGAAGGCATTTGTGCGAGA-T-ACTAAA
*
35733560 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGACTAAGACCCGAAGGCATTTGTGCGAGATACTAAA
** * *
35733599 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGACTAAGACCCGAAGGCATTTGTGCGAGATACTAAA
** ** * * * *
35733640 TCCGGGTTAATTCCCGAAGGCATTCGTGCAAGTTATTAAA
1 TCCGGACTAAGACCCGAAGGCATTTGTGCGAGATACTAAA
* ** * * * *
35733680 TCTGGGTTATGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGACTAAGACCCGAAGGCATTTGTGCGAGATACTAAA
* * * *
35733719 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGACTAAGACCCGAAGGCATTTG
35733745 AACGAGGAGC
Statistics
Matches: 152, Mismatches: 28, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
39 34 0.22
40 105 0.69
41 12 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGACTAAGACCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:35733657 original size:80 final size:79
Alignment explanation
Indices: 35733573--35733744 Score: 195
Period size: 79 Copynumber: 2.2 Consensus size: 79
35733563 GGACTAAGAT
* *
35733573 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCAAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
35733637 AAATCCGGGTTAAT-TC
64 AAAACCGGGCT-ATGTC
* * * * * * * *
35733653 CCGAAGGCATTCGTGCAAGTTATTAAATCTGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCAAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
35733718 AACCGGGCTATGTC
66 AACCGGGCTATGTC
35733732 CCGAAGGCATTTG
1 CCGAAGGCATTTG
35733745 AACGAGGAGC
Statistics
Matches: 77, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
78 2 0.03
79 36 0.47
80 36 0.47
81 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCAAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTATGTC
Found at i:35733730 original size:39 final size:39
Alignment explanation
Indices: 35733573--35733742 Score: 182
Period size: 40 Copynumber: 4.3 Consensus size: 39
35733563 GGACTAAGAT
* * *
35733573 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
1 CCGAAGGCA-TTGTGCGAGTTACTAAA-TCCGGGTTATGTC
* *
35733613 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAT-TC
1 CCGAAGG-CATTGTGCGAGTTACTAAATCCGGGTT-ATGTC
* * *
35733653 CCGAAGGCATTCGTGCAAGTTATTAAATCTGGGTTATGTC
1 CCGAAGGCATT-GTGCGAGTTACTAAATCCGGGTTATGTC
* * *
35733693 CCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
35733732 CCGAAGGCATT
1 CCGAAGGCATT
35733743 TGAACGAGGA
Statistics
Matches: 111, Mismatches: 14, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
39 38 0.34
40 68 0.61
41 5 0.05
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
Found at i:35740696 original size:40 final size:40
Alignment explanation
Indices: 35740651--35740842 Score: 120
Period size: 40 Copynumber: 4.8 Consensus size: 40
35740641 AAGTGAATAT
* *
35740651 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATAC-AA
1 ATCCGGACTAAGACCCGAAGGCATTTGTACGAGATACTAA
** * *
35740690 ATTCCGGGTTAAGCCCCGAAGGCCTTTGTACGAGATACTAA
1 A-TCCGGACTAAGACCCGAAGGCATTTGTACGAGATACTAA
** ** * * * * *
35740731 ATCCGGGTTAATTCCCGAAGGCATTCGTGCAAGTTATTAA
1 ATCCGGACTAAGACCCGAAGGCATTTGTACGAGATACTAA
** * * *
35740771 ATCCGGGTTATGTCCCGAAGGCATTGTGT--GAGTTACTAA
1 ATCCGGACTAAGACCCGAAGGCATT-TGTACGAGATACTAA
* * * * *
35740810 AACCGGGCTATGTCCCGAAGGCATTTGAACGAG
1 ATCCGGACTAAGACCCGAAGGCATTTGTACGAG
35740843 GAGCTATATC
Statistics
Matches: 126, Mismatches: 22, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 87 0.69
41 5 0.04
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (40 bp):
ATCCGGACTAAGACCCGAAGGCATTTGTACGAGATACTAA
Found at i:35740816 original size:39 final size:39
Alignment explanation
Indices: 35740665--35740834 Score: 182
Period size: 40 Copynumber: 4.3 Consensus size: 39
35740655 GGACTAAGAT
* *
35740665 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
1 CCGAAGGCA-TTGTGCGAGATACTAAA-TCCGGGTTATGTC
* *
35740705 CCGAAGGCCTTTGTACGAGATACTAAATCCGGGTTAAT-TC
1 CCGAAGG-CATTGTGCGAGATACTAAATCCGGGTT-ATGTC
* * *
35740745 CCGAAGGCATTCGTGCAAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATT-GTGCGAGATACTAAATCCGGGTTATGTC
* * * *
35740785 CCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTGTGCGAGATACTAAATCCGGGTTATGTC
35740824 CCGAAGGCATT
1 CCGAAGGCATT
35740835 TGAACGAGGA
Statistics
Matches: 111, Mismatches: 14, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
39 39 0.35
40 67 0.60
41 5 0.05
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTGTGCGAGATACTAAATCCGGGTTATGTC
Found at i:35743205 original size:40 final size:40
Alignment explanation
Indices: 35743161--35743385 Score: 294
Period size: 40 Copynumber: 5.7 Consensus size: 40
35743151 AGTGACCATA
35743161 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
35743201 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
*
35743241 TCCGGACTAAGATCCAAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
* * * *
35743281 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
** * *
35743320 TCCGGGTTAAG-TCCCGAAGGCATTTGTGTGAGTTACT-AT
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
* * * *
35743359 AACCGGGCTATGACCCGAAGGCATTTG
1 -TCCGGACTAAGATCCGAAGGCATTTG
35743386 AACGAGTAGC
Statistics
Matches: 168, Mismatches: 14, Indels: 6
0.89 0.07 0.03
Matches are distributed among these distances:
39 35 0.21
40 133 0.79
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:35743340 original size:79 final size:80
Alignment explanation
Indices: 35743160--35743385 Score: 314
Period size: 79 Copynumber: 2.8 Consensus size: 80
35743150 AAGTGACCAT
* *
35743160 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAATTCCGGACTAAGATCCGAAGGCATT
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGACCCGAAGGCATT
35743225 TGTGCGAGATACTAA
66 TGTGCGAGATACTAA
* *
35743240 TTCCGGACTAAGATCCAAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCCGAAGGCATT
1 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGACCCGAAGGCATT
*
35743304 TGTGCGAGTTACTAA
66 TGTGCGAGATACTAA
** * * * *
35743319 ATCCGGGTTAAG-TCCCGAAGGCATTTGTGTGAGTTACT-ATAACCGGGCTATGACCCGAAGGCA
1 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT-TCCGGGCTAAGACCCGAAGGCA
35743382 TTTG
64 TTTG
35743386 AACGAGTAGC
Statistics
Matches: 130, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
78 3 0.02
79 64 0.49
80 63 0.48
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAA
Found at i:35743404 original size:119 final size:120
Alignment explanation
Indices: 35743158--35743404 Score: 288
Period size: 119 Copynumber: 2.1 Consensus size: 120
35743148 CTAAGTGACC
* *
35743158 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAATTCCGGACTAAGATCCGAAGGCA
1 ATATCCGGACTAAGACCCGAAGGCATTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCA
* * **
35743223 TTTGTGCGAGATACTAATTCCGGACTAAGATCCAAAGGCATTTGTGCGAGATACT
66 TTTGTGCGAGATACTAATACCGGACTAAGACCCAAAGGCATTTGAACGAGATACT
* * **
35743278 A-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGG
1 ATA-TCCGGACTAAGACCCGAAGGCATTTGTGCGAGATACTAAATCCGGACTAAGAT-CCGAAGG
* * * * *
35743340 CATTTGTGTGAGTTACT-ATAACCGGGCTATGACCCGAAGGCATTTGAACGAG-TAGCT
64 CATTTGTGCGAGATACTAAT-ACCGGACTAAGACCCAAAGGCATTTGAACGAGATA-CT
35743397 ATATCCGG
1 ATATCCGG
35743405 TTAAATTCCG
Statistics
Matches: 107, Mismatches: 15, Indels: 11
0.80 0.11 0.08
Matches are distributed among these distances:
118 5 0.05
119 90 0.84
120 12 0.11
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (120 bp):
ATATCCGGACTAAGACCCGAAGGCATTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCA
TTTGTGCGAGATACTAATACCGGACTAAGACCCAAAGGCATTTGAACGAGATACT
Found at i:35743407 original size:79 final size:77
Alignment explanation
Indices: 35743168--35743418 Score: 274
Period size: 79 Copynumber: 3.2 Consensus size: 77
35743158 ATATCCGGAC
* *
35743168 TAAGATCCGAAGGCATTTGTGCGAGATACTAATTCCGGACTAAGATCCGAAGGCATTTGTGCGAG
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
35743233 ATACTAATTCCGGAC
65 ATACTAA-TCCGG-T
*
35743248 TAAGATCCAAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAG
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
35743312 TTACTAAATCCGGGT
65 ATACT-AATCC-GGT
* * * * **
35743327 TAAGTCCCGAAGGCATTTGTGTGAGTTACT-ATAACCGGGCTATGACCCGAAGGCATTTGAACGA
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAT-TCCGGGCTAAGACCCGAAGGCATTTGTGCGA
35743391 G-TAGCTATATCCGGT
64 GATA-CTA-ATCCGGT
*
35743406 TAAATTCCGAAGG
1 T-AAGTCCGAAGG
35743419 TACGTGATTT
Statistics
Matches: 150, Mismatches: 13, Indels: 17
0.83 0.07 0.09
Matches are distributed among these distances:
78 3 0.02
79 74 0.49
80 73 0.49
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (77 bp):
TAAGTCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGACCCGAAGGCATTTGTGCGAGA
TACTAATCCGGT
Found at i:35749525 original size:18 final size:18
Alignment explanation
Indices: 35749502--35749539 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
35749492 AATTTAAAAC
35749502 TATCATACTGACACTCAA
1 TATCATACTGACACTCAA
35749520 TATCATACTGACACTCAA
1 TATCATACTGACACTCAA
35749538 TA
1 TA
35749540 GGGCCTTAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.26, G:0.05, T:0.29
Consensus pattern (18 bp):
TATCATACTGACACTCAA
Found at i:35753867 original size:12 final size:11
Alignment explanation
Indices: 35753852--35753894 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 11
35753842 CTTTCATAAA
35753852 AATTGTATATTT
1 AATT-TATATTT
35753864 AATTATATATTTT
1 AATT-TATA-TTT
35753877 AAATTTATATTT
1 -AATTTATATTT
35753889 AATTTA
1 AATTTA
35753895 GTTATATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 6 0.21
12 11 0.39
13 7 0.25
14 4 0.14
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (11 bp):
AATTTATATTT
Found at i:35757665 original size:45 final size:45
Alignment explanation
Indices: 35757583--35757692 Score: 121
Period size: 45 Copynumber: 2.4 Consensus size: 45
35757573 CCAGACATGG
* * * *
35757583 TCTTACACGTAACCACATATATCGATGATAACATCCCAAATGTGA
1 TCTTACACGAAAACACATATATCGATGACAACATCCCAAACGTGA
* * * * *
35757628 TTTTACACGAAAACACATATATCGATGCCAACGTCCCAGACGTGG
1 TCTTACACGAAAACACATATATCGATGACAACATCCCAAACGTGA
**
35757673 TCTTACATAAAAACACATAT
1 TCTTACACGAAAACACATAT
35757693 CAAAATCCTA
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.25
Consensus pattern (45 bp):
TCTTACACGAAAACACATATATCGATGACAACATCCCAAACGTGA
Found at i:35769332 original size:42 final size:42
Alignment explanation
Indices: 35769167--35769380 Score: 146
Period size: 42 Copynumber: 5.0 Consensus size: 42
35769157 AAATAACAAA
* ** * *
35769167 GCCATGTCCCCGACATGGTCTTACATG-GGTTTACATACCGAT
1 GCCATGTCCCAGACATGGTCTTACATGAAATCT-CATATCGAT
* * * *
35769209 GCCATATCCCAAATATGGTCTTAC--GAAGTCTCATGTTGATGCTGAT
1 GCCATGTCCCAGACATGGTCTTACATGAAATCTCA---T-AT-C-GAT
* * * * *
35769255 GCCATGTCCCAGACAAGGTCTTATACGAGACCTCATATCGAT
1 GCCATGTCCCAGACATGGTCTTACATGAAATCTCATATCGAT
* *
35769297 GCCATGTCCCAGACATGGTCTTACATGAAATCTCATATCAAC
1 GCCATGTCCCAGACATGGTCTTACATGAAATCTCATATCGAT
* * * * * *
35769339 GCCATATCCCATATATGGTTTTACATGAAATCACATACCGAT
1 GCCATGTCCCAGACATGGTCTTACATGAAATCTCATATCGAT
35769381 TCCGATGCCA
Statistics
Matches: 133, Mismatches: 30, Indels: 18
0.73 0.17 0.10
Matches are distributed among these distances:
40 3 0.02
41 3 0.02
42 92 0.69
43 2 0.02
44 3 0.02
45 2 0.02
46 22 0.17
48 6 0.05
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (42 bp):
GCCATGTCCCAGACATGGTCTTACATGAAATCTCATATCGAT
Found at i:35769434 original size:48 final size:48
Alignment explanation
Indices: 35769382--35769563 Score: 238
Period size: 48 Copynumber: 3.8 Consensus size: 48
35769372 CATACCGATT
* * * * * *
35769382 CCGATGCCATATCCCAAATATGGTCTTACACTGGCACACTTATCAATG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCAACG
* *
35769430 CCGATGCCATGTCCCAGACATGATCTTACACTGGCTCTCATATCAACG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCAACG
* * ** * *
35769478 TCGATGCCATGTCCTAGTCATGGTCTTACACTAGCTCTCATATCAACA
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCAACG
35769526 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCT
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCT
35769564 TATAAATCAT
Statistics
Matches: 115, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 115 1.00
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.27
Consensus pattern (48 bp):
CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCAACG
Found at i:35775947 original size:47 final size:47
Alignment explanation
Indices: 35775895--35776253 Score: 540
Period size: 47 Copynumber: 7.6 Consensus size: 47
35775885 GATAATTGTG
* *
35775895 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
35775942 ATGTGAAAGTGTACATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
35775989 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
35776036 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
35776085 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
35776134 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * *
35776181 ATGTGAAAGTGTATATATGTGACAGGGCC-AAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAA-TGGCCGATGTGATGA
*
35776228 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
35776254 TCCCGAAGGG
Statistics
Matches: 287, Mismatches: 22, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
46 2 0.01
47 192 0.67
49 93 0.32
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:35776186 original size:192 final size:188
Alignment explanation
Indices: 35775895--35776253 Score: 594
Period size: 192 Copynumber: 1.9 Consensus size: 188
35775885 GATAATTGTG
*
35775895 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTACATAT
1 ATGTGAATGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTACATAT
*
35775960 GTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAA-TGG
66 GTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCC-AAGTGG
*
35776024 CCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
130 CCAACGTGATGAATGTGAAAGTGTATA-A-ATGTGATAAGGCCTAATGGCCGATGTGATGA
*
35776085 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTACAT
* * *
35776150 ATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCAAGTG
64 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCAAGTG
*
35776215 GCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
129 GCCAACGTGATGAATGTGAAAGTGTATAAATGTGATAAG
35776254 TCCCGAAGGG
Statistics
Matches: 158, Mismatches: 8, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
190 15 0.09
191 5 0.03
192 138 0.87
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (188 bp):
ATGTGAATGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTACATAT
GTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCAAGTGGC
CAACGTGATGAATGTGAAAGTGTATAAATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:35781894 original size:39 final size:39
Alignment explanation
Indices: 35781847--35781929 Score: 132
Period size: 39 Copynumber: 2.2 Consensus size: 39
35781837 CCTTAATTCC
35781847 TCGA-GCCTTGAACGGATTTAGACATCAAACCATTGATA
1 TCGAGGCCTTGAACGGATTTAGACATCAAACCATTGATA
* *
35781885 TCGAGGCCTTGAATGGATTTAGACATCGAACCATTGATA
1 TCGAGGCCTTGAACGGATTTAGACATCAAACCATTGATA
*
35781924 TTGAGG
1 TCGAGG
35781930 GATTATGTAG
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
38 4 0.10
39 37 0.90
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (39 bp):
TCGAGGCCTTGAACGGATTTAGACATCAAACCATTGATA
Found at i:35782127 original size:6 final size:6
Alignment explanation
Indices: 35782116--35782176 Score: 122
Period size: 6 Copynumber: 10.2 Consensus size: 6
35782106 CATTTTTTTG
35782116 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
35782164 AAAAAT AAAAAT A
1 AAAAAT AAAAAT A
35782177 TATGAGCTCG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 55 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:35789888 original size:17 final size:17
Alignment explanation
Indices: 35789862--35789897 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
35789852 TTTAGACCAA
*
35789862 AATCACATATACAATTC
1 AATCAAATATACAATTC
*
35789879 AATCAAATATACACTTC
1 AATCAAATATACAATTC
35789896 AA
1 AA
35789898 AATATGCATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (17 bp):
AATCAAATATACAATTC
Found at i:35807084 original size:40 final size:40
Alignment explanation
Indices: 35807029--35807285 Score: 351
Period size: 40 Copynumber: 6.5 Consensus size: 40
35807019 CGGATGATAA
* * *
35807029 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
35807069 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
35807109 CCGGGCTAAGTCCCGAAGGAATTTGTGCCAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
35807149 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
35807189 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
35807229 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
35807268 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
35807286 TACTTGGCTT
Statistics
Matches: 195, Mismatches: 20, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
38 15 0.08
39 16 0.08
40 164 0.84
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:35811408 original size:15 final size:15
Alignment explanation
Indices: 35811388--35811417 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
35811378 CAAGTTGTCA
35811388 AGTATCCAAATCTAT
1 AGTATCCAAATCTAT
35811403 AGTATCCAAATCTAT
1 AGTATCCAAATCTAT
35811418 TCTAAGGTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (15 bp):
AGTATCCAAATCTAT
Found at i:35811971 original size:21 final size:20
Alignment explanation
Indices: 35811943--35811981 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
35811933 CAAAACTTGT
35811943 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
35811963 ATAATCTATCATCAAACAT
1 ATAA-CTATCATCAAACAT
35811982 CAAAACACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:35814300 original size:16 final size:16
Alignment explanation
Indices: 35814279--35814315 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
35814269 TTCTTTGTTG
35814279 TTTTTATATATCCATT
1 TTTTTATATATCCATT
35814295 TTTTTATATATCCATT
1 TTTTTATATATCCATT
35814311 TTTTT
1 TTTTT
35814316 TAAAAAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.22, C:0.11, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTTATATATCCATT
Found at i:35825785 original size:21 final size:20
Alignment explanation
Indices: 35825748--35825789 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
35825738 TGTTCAAGGA
*
35825748 AAGCCGATTGATCCATCTAAG
1 AAGCCGATTCATCCATC-AAG
35825769 AAGCCAGATTCAT-CATCAAG
1 AAGCC-GATTCATCCATCAAG
35825789 A
1 A
35825790 CTGAAGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 9 0.47
22 6 0.32
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.21
Consensus pattern (20 bp):
AAGCCGATTCATCCATCAAG
Found at i:35832920 original size:132 final size:132
Alignment explanation
Indices: 35832665--35832922 Score: 302
Period size: 132 Copynumber: 2.0 Consensus size: 132
35832655 TTACCTCACC
* * * ** **
35832665 TTAGAAAATATGAGTGAAATTCCAAAGAGATATTCGATTATTTTGAACAAATGGGAAATTGCAAC
1 TTAGAAAATATGAGGGAAATTCCAAAGAGATATTCAATTATTTCGAACAAATGAAAAAGCGCAAC
* * * * * *
35832730 CCAGCACGATAGGGTACTATTCCTCGAATCGCCAAACATTGAATATCGCCTTCGTTTTAAAGGGT
66 CCAACACGATAGGGCACGATTCCTCAAATCGCCAAACATTGAACATCGCCTTAGTTTTAAAGGGT
35832795 TT
131 TT
* * * * * *
35832797 TTAGAAAATGTGAGGGAAATTCCGAAGGGATCTTCAATTGTTTCGAACCAATGAAAAAGCGCAAC
1 TTAGAAAATATGAGGGAAATTCCAAAGAGATATTCAATTATTTCGAACAAATGAAAAAGCGCAAC
* * *
35832862 CCAACATGATAGGGCACGATT-CTCAAATCGCCAAACATTGAACATCGTCTTTATTTTTAAA
66 CCAACACGATAGGGCACGATTCCTCAAATCGCCAAACATTGAACATCG-CCTTAGTTTTAAA
35832923 TAATTTTTTA
Statistics
Matches: 103, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
131 24 0.23
132 79 0.77
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.28
Consensus pattern (132 bp):
TTAGAAAATATGAGGGAAATTCCAAAGAGATATTCAATTATTTCGAACAAATGAAAAAGCGCAAC
CCAACACGATAGGGCACGATTCCTCAAATCGCCAAACATTGAACATCGCCTTAGTTTTAAAGGGT
TT
Found at i:35833107 original size:131 final size:131
Alignment explanation
Indices: 35832969--35833299 Score: 341
Period size: 131 Copynumber: 2.5 Consensus size: 131
35832959 TGTTTGATCG
** *
35832969 TTTTGAGCAAACGAGAAATCAAAACCCAGTACGATAGGGCATGATT-C-TCGAATTG-TCAAACA
1 TTTTGAGCAAACGAGAAATCAAAACCCAACACGATAGGGCACGATTACGT-GAATTGCT-AAACA
* * *
35833031 CCGAATATTGCCTTTGTTTTAAATAATTTTTAGAAGATATGAATGAAATTTTGAAG-GGATACTT
64 CCGAATATTGCCTCTGTTTTAAA-AATTTTTAAAAGACATGAATGAAATTTTGAAGTGG-TA-TT
35833095 -GATTA
126 CGATTA
* *** * * *
35833100 TTTTGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTACGTGAATTGCTAAATATC
1 TTTTGAGCAAACGAGAAATCAAAACCCAACACGATAGGGCACGATTACGTGAATTGCTAAACACC
* * * *
35833165 GAATCTTGTCTCTGTTTTGAAAATTTTTAAAAGACATGAGTGAAATTTTGAAGTGGTATTCGATT
66 GAATATTGCCTCTGTTTTAAAAATTTTTAAAAGACATGAATGAAATTTTGAAGTGGTATTCGATT
35833230 A
131 A
*** * * * * *
35833231 TTTTGAGCAAACGCA-AAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAACAT
1 TTTTGAGCAAACG-AGAAATCAAAACCCAACACGATAGGGCACGATTACGTGAATTGCTAAACAC
35833295 CGAAT
65 CGAAT
35833300 CTCGTCTTCG
Statistics
Matches: 172, Mismatches: 22, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
130 2 0.01
131 137 0.80
132 31 0.18
133 2 0.01
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (131 bp):
TTTTGAGCAAACGAGAAATCAAAACCCAACACGATAGGGCACGATTACGTGAATTGCTAAACACC
GAATATTGCCTCTGTTTTAAAAATTTTTAAAAGACATGAATGAAATTTTGAAGTGGTATTCGATT
A
Found at i:35833300 original size:131 final size:130
Alignment explanation
Indices: 35833003--35833315 Score: 407
Period size: 131 Copynumber: 2.4 Consensus size: 130
35832993 CCCAGTACGA
* * * * * * * *
35833003 TAGGGCATGATTCTCGAATTGTCAAACACCGAATATTGCCTTTGTTTTAAATAATTTTTAGAAGA
1 TAGGGCACGATTCGCGAATTGCCAAACATCGAATCTTGTC-TTGTTTTGAATAATTTTTAAAAGA
* *
35833068 TATGAATGAAATTTTGAAGGGATACTTGATTATTTTGAGCAAACGCGAAATTGCAACCCAACACG
65 CATGAATGAAATTTTGAAGGGATACTTGATTATTTTGAGCAAACGCAAAATTGCAACCCAACACG
35833133 T
130 T
* * *
35833134 TAGGGCACGATTACGTGAATTGCTAAATATCGAATCTTGTCTCTGTTTTGAA-AATTTTTAAAAG
1 TAGGGCACGATT-CGCGAATTGCCAAACATCGAATCTTGTCT-TGTTTTGAATAATTTTTAAAAG
*
35833198 ACATGAGTGAAATTTTGAAGTGG-TA-TTCGATTATTTTGAGCAAACGCAAAATTGCAACCCAAC
64 ACATGAATGAAATTTTGAAG-GGATACTT-GATTATTTTGAGCAAACGCAAAATTGCAACCCAAC
35833261 ACGT
127 ACGT
*
35833265 TAGGGCACGATTCCGCGAATTGCCAAACATCGAATCTCGTCTTCGTTTTGA
1 TAGGGCACGATT-CGCGAATTGCCAAACATCGAATCTTGTCTT-GTTTTGA
35833316 GGGATTTTTG
Statistics
Matches: 158, Mismatches: 19, Indels: 10
0.84 0.10 0.05
Matches are distributed among these distances:
130 3 0.02
131 125 0.79
132 30 0.19
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.32
Consensus pattern (130 bp):
TAGGGCACGATTCGCGAATTGCCAAACATCGAATCTTGTCTTGTTTTGAATAATTTTTAAAAGAC
ATGAATGAAATTTTGAAGGGATACTTGATTATTTTGAGCAAACGCAAAATTGCAACCCAACACGT
Found at i:35835749 original size:18 final size:17
Alignment explanation
Indices: 35835696--35835750 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
35835686 TTTGTTGGTT
35835696 TTTTATTATATTTATT-TA
1 TTTTATT-T-TTTATTATA
* *
35835714 -TTCATTTTTTATTTTA
1 TTTTATTTTTTATTATA
35835730 TTTTATTTTTTATATATA
1 TTTTATTTTTTAT-TATA
35835748 TTT
1 TTT
35835751 GGGTTTTTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 6 0.19
16 3 0.10
17 16 0.52
18 6 0.19
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTATTTTTTATTATA
Found at i:35836120 original size:44 final size:44
Alignment explanation
Indices: 35836027--35836818 Score: 948
Period size: 44 Copynumber: 18.0 Consensus size: 44
35836017 AAGATCTGTC
* *
35836027 ATCTTCGATTTGCTCTCTGTCAATCACAGAGACGCCAAATCTG-T
1 ATCTTCGATCTGCTCTCTGACAAT-ACAGAGACGCCAAATCTGCT
*
35836071 GATCTTCGATCTGCCCTCTGACAATACAGAGACGCCAAATCTGCT
1 -ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT
* *
35836116 ATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCT
1 ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT
* * * *
35836160 ATCTTTGATCTACCCTCTGACAAT-CAGAGATGCCAAATCTGCT
1 ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT
* * *
35836203 ATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTACT
1 ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT
* * *
35836247 ATATTCGATCTGCTCTC-CACCAATACAGAGACGCCAAATCTTCT
1 ATCTTCGATCTGCTCTCTGA-CAATACAGAGACGCCAAATCTGCT
* * * *
35836291 ATCTTCGATCTACTCTCTGTCAACACAGAGATGCCAAATCTGCT
1 ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT
* * * *
35836335 ATTTTCGATCTGCTCTCTGCCAATACAGAGACGTCAAATCTACT
1 ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT
* * * * *
35836379 AGCTTCGATTTGCACTCTGTCAATCACAGAGACGTCAAATCTG-T
1 ATCTTCGATCTGCTCTCTGACAAT-ACAGAGACGCCAAATCTGCT
*
35836423 GATCTTCGATCTGCCCTCTGACAATACAGAGACGCCAAATCTGCT
1 -ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT
* * *
35836468 ATCTTCGATCTACCCTCTGACAAT-CAGAGATGCCAAATCTGCT
1 ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT
* * *
35836511 ATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTACT
1 ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT
* * * *
35836555 ATATTTGATCTGCTCTC-CACCAATACAGAGACGCCAAATCTTCT
1 ATCTTCGATCTGCTCTCTGA-CAATACAGAGACGCCAAATCTGCT
* * * * *
35836599 ATCTTCGATCTACTCTCAGTCAACACAGAGATGCCAAATCTGCT
1 ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT
* * * ** *
35836643 ATTTTCGATCTACTCTCTGCCAATACAGAGACTTCGAATCTGCT
1 ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT
* * * *
35836687 AGCTTCGATCTGCTCTCCGCCAATATAGAGACGCCAAATCTGCT
1 ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT
* **
35836731 ATCTTCGATCTGCCCTCTGACAATACAGAGATTCCAAATCTGCT
1 ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT
* * *
35836775 ATCTTCGATCTACTCTCTGCCAATACAGAGATGCCAAATCTGCT
1 ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT
35836819 GGATTGGCTA
Statistics
Matches: 641, Mismatches: 96, Indels: 21
0.85 0.13 0.03
Matches are distributed among these distances:
43 75 0.12
44 506 0.79
45 60 0.09
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (44 bp):
ATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT
Found at i:35836595 original size:308 final size:306
Alignment explanation
Indices: 35836030--35836818 Score: 1274
Period size: 308 Copynumber: 2.6 Consensus size: 306
35836020 ATCTGTCATC
* * * * * *
35836030 TTCGATTTGCTCTCTGTCAATCACAGAGACGCCAAATCTGTGATCTTCGATCTGCCCTCTGACAA
1 TTCGATCTGCTCTCTGCCAAT-ACAGAGACGTCAAATCTCT-AGCTTCGATCTGCACTCTGACAA
* * *
35836095 TACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGCT
64 TACAGAGACGCCAAATCTGCTATCTTCGATCTGCCCTCTGACAATACAGAGACGCCAAATCTGCT
*
35836160 ATCTTTGATCTACCCTCTGACAATCAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCA
129 ATCTTCGATCTACCCTCTGACAATCAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCA
35836225 ATACAGAGACGCCAAATCTACTATATTCGATCTGCTCTCCACCAATACAGAGACGCCAAATCTTC
194 ATACAGAGACGCCAAATCTACTATATTCGATCTGCTCTCCACCAATACAGAGACGCCAAATCTTC
*
35836290 TATCTTCGATCTACTCTCTGTCAACACAGAGATGCCAAATCTGCTATT
259 TATCTTCGATCTACTCTCAGTCAACACAGAGATGCCAAATCTGCTATT
* *
35836338 TTCGATCTGCTCTCTGCCAATACAGAGACGTCAAATCTACTAGCTTCGATTTGCACTCTGTCAAT
1 TTCGATCTGCTCTCTGCCAATACAGAGACGTCAAATCT-CTAGCTTCGATCTGCACTCTGACAAT
*
35836403 CACAGAGACGTCAAATCTG-TGATCTTCGATCTGCCCTCTGACAATACAGAGACGCCAAATCTGC
65 -ACAGAGACGCCAAATCTGCT-ATCTTCGATCTGCCCTCTGACAATACAGAGACGCCAAATCTGC
35836467 TATCTTCGATCTACCCTCTGACAATCAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCCGCC
128 TATCTTCGATCTACCCTCTGACAATCAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCCGCC
*
35836532 AATACAGAGACGCCAAATCTACTATATTTGATCTGCTCTCCACCAATACAGAGACGCCAAATCTT
193 AATACAGAGACGCCAAATCTACTATATTCGATCTGCTCTCCACCAATACAGAGACGCCAAATCTT
35836597 CTATCTTCGATCTACTCTCAGTCAACACAGAGATGCCAAATCTGCTATT
258 CTATCTTCGATCTACTCTCAGTCAACACAGAGATGCCAAATCTGCTATT
* * * * * *
35836646 TTCGATCTACTCTCTGCCAATACAGAGACTTCGAATCTGCTAGCTTCGATCTGCTCTCCGCCAAT
1 TTCGATCTGCTCTCTGCCAATACAGAGACGTCAAATCT-CTAGCTTCGATCTGCACTCTGACAAT
* **
35836711 ATAGAGACGCCAAATCTGCTATCTTCGATCTGCCCTCTGACAATACAGAGATTCCAAATCTGCTA
65 ACAGAGACGCCAAATCTGCTATCTTCGATCTGCCCTCTGACAATACAGAGACGCCAAATCTGCTA
* *
35836776 TCTTCGATCTACTCTCTGCCAATACAGAGATGCCAAATCTGCT
130 TCTTCGATCTACCCTCTGACAAT-CAGAGATGCCAAATCTGCT
35836819 GGATTGGCTA
Statistics
Matches: 447, Mismatches: 29, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
307 117 0.26
308 330 0.74
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (306 bp):
TTCGATCTGCTCTCTGCCAATACAGAGACGTCAAATCTCTAGCTTCGATCTGCACTCTGACAATA
CAGAGACGCCAAATCTGCTATCTTCGATCTGCCCTCTGACAATACAGAGACGCCAAATCTGCTAT
CTTCGATCTACCCTCTGACAATCAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCAAT
ACAGAGACGCCAAATCTACTATATTCGATCTGCTCTCCACCAATACAGAGACGCCAAATCTTCTA
TCTTCGATCTACTCTCAGTCAACACAGAGATGCCAAATCTGCTATT
Found at i:35846724 original size:40 final size:40
Alignment explanation
Indices: 35846572--35846717 Score: 181
Period size: 40 Copynumber: 3.6 Consensus size: 40
35846562 TTGAATGATG
* * * *
35846572 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
35846612 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
35846652 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
35846693 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35846718 AACGAGTAGC
Statistics
Matches: 93, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
39 1 0.01
40 82 0.88
41 10 0.11
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:35846724 original size:80 final size:80
Alignment explanation
Indices: 35846572--35846750 Score: 195
Period size: 80 Copynumber: 2.2 Consensus size: 80
35846562 TTGAATGATG
* *
35846572 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
35846637 GTGCGAGTTA-CTAAA
66 GAACGAG-TAGCTAAA
* * * * *
35846652 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
*
35846715 TTGAACGAGTAGCTATA
64 TTGAACGAGTAGCTAAA
* *
35846732 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
35846751 TACGTGATTT
Statistics
Matches: 84, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
79 17 0.20
80 60 0.71
81 7 0.08
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGTAGCTAAA
Found at i:35853909 original size:40 final size:40
Alignment explanation
Indices: 35853757--35853902 Score: 181
Period size: 40 Copynumber: 3.6 Consensus size: 40
35853747 TTGAATGATG
* * * *
35853757 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
35853797 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
35853837 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
35853878 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35853903 AACGAGTAGC
Statistics
Matches: 93, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
39 1 0.01
40 82 0.88
41 10 0.11
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:35853909 original size:80 final size:80
Alignment explanation
Indices: 35853757--35853935 Score: 195
Period size: 80 Copynumber: 2.2 Consensus size: 80
35853747 TTGAATGATG
* *
35853757 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
35853822 GTGCGAGTTA-CTAAA
66 GAACGAG-TAGCTAAA
* * * * *
35853837 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
*
35853900 TTGAACGAGTAGCTATA
64 TTGAACGAGTAGCTAAA
* *
35853917 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
35853936 TACGTGATTT
Statistics
Matches: 84, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
79 17 0.20
80 60 0.71
81 7 0.08
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGTAGCTAAA
Found at i:35858898 original size:40 final size:40
Alignment explanation
Indices: 35858668--35858925 Score: 306
Period size: 40 Copynumber: 6.5 Consensus size: 40
35858658 CGGATGATAA
* * * *
35858668 CCGGGCTAAGTCCCGGAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
* * * *
35858708 CCGGGCTAAGTCCCAAAGGCATTTGTGTGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
35858748 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
35858788 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
35858828 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
35858868 CCGGGCTATGTCCCGAAGGTATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
35858908 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
35858926 TACTTGGCTT
Statistics
Matches: 194, Mismatches: 22, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
39 15 0.08
40 179 0.92
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:35865515 original size:27 final size:27
Alignment explanation
Indices: 35865485--35865662 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
35865475 ATATTGAGTC
* *
35865485 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
35865512 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
35865539 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** **
35865567 CGCACACTTAGTGCCGCATGGTCAGTT
1 CGCACACTTAGTGCTACATAATCAACT
* **
35865594 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
35865621 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
35865648 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
35865663 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:35865624 original size:82 final size:81
Alignment explanation
Indices: 35865511--35865661 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 81
35865501 TATAATCAAC
* *
35865511 TCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCACACTT
35865576 AGTGCCGCATGGTCAGT
65 AGTGCCGCATGGTCAGT
* **
35865593 TCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
1 TCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
35865657 AGTGC
65 AGTGC
35865662 TGTACAATTT
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.25
82 47 0.75
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
GTGCCGCATGGTCAGT
Found at i:35873570 original size:27 final size:27
Alignment explanation
Indices: 35873540--35873717 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
35873530 ATATTGAGTC
* *
35873540 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
35873567 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
35873594 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** **
35873622 CGCACACTTAGTGCCGCATGGTCAGTT
1 CGCACACTTAGTGCTACATAATCAACT
* **
35873649 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
35873676 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
35873703 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
35873718 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:35873679 original size:82 final size:81
Alignment explanation
Indices: 35873566--35873716 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 81
35873556 TATAATCAAC
* *
35873566 TCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCACACTT
35873631 AGTGCCGCATGGTCAGT
65 AGTGCCGCATGGTCAGT
* **
35873648 TCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
1 TCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
35873712 AGTGC
65 AGTGC
35873717 TGTACAATTT
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.25
82 47 0.75
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
GTGCCGCATGGTCAGT
Found at i:35891008 original size:27 final size:27
Alignment explanation
Indices: 35890978--35891155 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
35890968 ATATTGAGTC
* * * *
35890978 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
35891005 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
35891032 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
35891060 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
35891087 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
35891114 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
35891141 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
35891156 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:35891117 original size:82 final size:81
Alignment explanation
Indices: 35890999--35891154 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
35890989 TGCTATATAA
* *
35890999 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
35891064 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
35891081 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
35891145 CACTTAGTGC
65 CACTTAGTGC
35891155 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:35916965 original size:26 final size:26
Alignment explanation
Indices: 35916929--35916981 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
35916919 CCCCATGGAG
35916929 TAAGACTCGTCACAATTATAACACAA
1 TAAGACTCGTCACAATTATAACACAA
35916955 TAAGACTCGTCACAATTATAACACAA
1 TAAGACTCGTCACAATTATAACACAA
35916981 T
1 T
35916982 CCCTTAGCCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.45, C:0.23, G:0.08, T:0.25
Consensus pattern (26 bp):
TAAGACTCGTCACAATTATAACACAA
Found at i:35928867 original size:40 final size:40
Alignment explanation
Indices: 35928661--35928858 Score: 238
Period size: 40 Copynumber: 4.9 Consensus size: 40
35928651 GCGTTTGGAT
* * *
35928661 AAAACACGCCGCTATAAATCGAGAATTAGCGGCT-CTTTTTG
1 AAAA-ACGCCGCTATAGATAGAGCATTAGCGG-TGCTTTTTG
* *
35928702 AAAAACGCCGCTATAGATAGAACATTAGCGGCGCTTTTTG
1 AAAAACGCCGCTATAGATAGAGCATTAGCGGTGCTTTTTG
* *
35928742 AAAAACGCCGTTATAGATAGAGCATTAGCGG-GACTTTTTA
1 AAAAACGCCGCTATAGATAGAGCATTAGCGGTG-CTTTTTG
* *
35928782 AAAAACGCCACTATAGATCGAGCATTAGCGGTGCTTTTTG
1 AAAAACGCCGCTATAGATAGAGCATTAGCGGTGCTTTTTG
* * * *
35928822 AAAAATGCCGCTATAGGTTGACCATTAGCGGTGCTTT
1 AAAAACGCCGCTATAGATAGAGCATTAGCGGTGCTTT
35928859 CTAAAAAATC
Statistics
Matches: 137, Mismatches: 17, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 1 0.01
40 131 0.96
41 5 0.04
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.27
Consensus pattern (40 bp):
AAAAACGCCGCTATAGATAGAGCATTAGCGGTGCTTTTTG
Found at i:35928963 original size:40 final size:40
Alignment explanation
Indices: 35928906--35929011 Score: 149
Period size: 40 Copynumber: 2.6 Consensus size: 40
35928896 AGCTTTAGTG
*
35928906 GCATTAGCGGCACTTTTTGAAAAACGCCGCTATAGATCGA
1 GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGA
* * *
35928946 GCATTAGCGGCGTTTTTTGAAAAATGCCGCTATAGGTCGA
1 GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGA
* * *
35928986 CCATTAGCAGCGCTTTCTGAAAAACG
1 GCATTAGCGGCGCTTTTTGAAAAACG
35929012 TCGCAAAAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (40 bp):
GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGA
Found at i:35929021 original size:143 final size:143
Alignment explanation
Indices: 35928763--35929080 Score: 451
Period size: 143 Copynumber: 2.2 Consensus size: 143
35928753 TATAGATAGA
* * * *
35928763 GCATTAGCGGGACTTTTTAAAAAACGCCACTATAGATCGAGCATTAGCGGTGCTTTTTGAAAAAT
1 GCATTAGCGGCACTTTTTGAAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTGAAAAAT
* * *
35928828 GCCGCTATAGGTTGACCATTAGCGGTGCTTTCTAAAAAATCACCGCAAAAAAATTAAGCACA-AT
66 GCCGCTATAGGTCGACCATTAGCAGCGCTTTCTAAAAAATCACCGC-AAAAAATTAAGCACATAT
35928892 GTTAAGCTTTAGTG
130 GTTAAGCTTTAGTG
*
35928906 GCATTAGCGGCACTTTTTGAAAAACGCCGCTATAGATCGAGCATTAGCGGCGTTTTTTGAAAAAT
1 GCATTAGCGGCACTTTTTGAAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTGAAAAAT
* ** *
35928971 GCCGCTATAGGTCGACCATTAGCAGCGCTTTCTGAAAAA-CGTCGCAAAAAATTAATCACACTTT
66 GCCGCTATAGGTCGACCATTAGCAGCGCTTTCTAAAAAATCACCGCAAAAAATTAAGCACA---T
*
35929035 ATGTTGAGCTTTAGTG
128 ATGTTAAGCTTTAGTG
* *
35929051 GCATTAGTGGCGCTTTTTGAAAAACGCCGC
1 GCATTAGCGGCACTTTTTGAAAAACGCCGC
35929081 AAAAAAATTA
Statistics
Matches: 156, Mismatches: 15, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
141 14 0.09
142 4 0.03
143 95 0.61
145 43 0.28
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (143 bp):
GCATTAGCGGCACTTTTTGAAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTGAAAAAT
GCCGCTATAGGTCGACCATTAGCAGCGCTTTCTAAAAAATCACCGCAAAAAATTAAGCACATATG
TTAAGCTTTAGTG
Found at i:35929189 original size:14 final size:14
Alignment explanation
Indices: 35929150--35929303 Score: 89
Period size: 14 Copynumber: 10.8 Consensus size: 14
35929140 TAGTTACTAT
*
35929150 TTTAAGGTTTAGGG
1 TTTATGGTTTAGGG
*
35929164 ATTATGGGTTTAGGG
1 TTTAT-GGTTTAGGG
* *
35929179 ATTATGGTTTATGG
1 TTTATGGTTTAGGG
35929193 TTTATGGTTTATGGG
1 TTTATGGTTTA-GGG
*
35929208 -TTATAGGTTAAGGG
1 TTTAT-GGTTTAGGG
* *
35929222 -TTAGGGTTTAAGG
1 TTTATGGTTTAGGG
* *
35929235 TTTAGGGGGTTAGGG
1 TTTA-TGGTTTAGGG
*
35929250 TTTAAGGTTTAGGGG
1 TTTATGGTTTA-GGG
* * * *
35929265 TTAAGGGTTAAAGG
1 TTTATGGTTTAGGG
*
35929279 TTTAT-GTTTTGTGG
1 TTTATGGTTTAG-GG
*
35929293 TTTAAGGTTTA
1 TTTATGGTTTA
35929304 AAAGATAGGG
Statistics
Matches: 108, Mismatches: 24, Indels: 15
0.73 0.16 0.10
Matches are distributed among these distances:
13 10 0.09
14 50 0.46
15 48 0.44
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.44
Consensus pattern (14 bp):
TTTATGGTTTAGGG
Found at i:35929190 original size:22 final size:21
Alignment explanation
Indices: 35929158--35929282 Score: 98
Period size: 22 Copynumber: 5.9 Consensus size: 21
35929148 ATTTTAAGGT
* *
35929158 TTAGGGATTATGGGTTTAGGG
1 TTAGGGTTTATAGGTTTAGGG
* *
35929179 ATTATGGTTTAT-GGTTTATGGT
1 -TTAGGGTTTATAGGTTTA-GGG
*
35929201 TTATGGG-TTATAGGTTAAGGG
1 TTA-GGGTTTATAGGTTTAGGG
35929222 TTAGGGTTTA-AGGTTTAGGGGG
1 TTAGGGTTTATAGGTTTA--GGG
35929244 TTAGGGTTTA-AGGTTTAGGGG
1 TTAGGGTTTATAGGTTTA-GGG
*
35929265 TTAAGGG-TTAAAGGTTTA
1 TT-AGGGTTTATAGGTTTA
35929283 TGTTTTGTGG
Statistics
Matches: 88, Mismatches: 7, Indels: 16
0.79 0.06 0.14
Matches are distributed among these distances:
20 9 0.10
21 30 0.34
22 49 0.56
ACGTcount: A:0.22, C:0.00, G:0.38, T:0.41
Consensus pattern (21 bp):
TTAGGGTTTATAGGTTTAGGG
Found at i:35929304 original size:7 final size:7
Alignment explanation
Indices: 35929150--35929304 Score: 69
Period size: 7 Copynumber: 21.7 Consensus size: 7
35929140 TAGTTACTAT
35929150 TTTAAGG
1 TTTAAGG
*
35929157 TTTAGGG
1 TTTAAGG
* *
35929164 ATTATGGG
1 TTTA-AGG
*
35929172 TTTAGGG
1 TTTAAGG
* *
35929179 ATTATGG
1 TTTAAGG
*
35929186 TTTATGG
1 TTTAAGG
*
35929193 TTTATGG
1 TTTAAGG
*
35929200 TTTATGG
1 TTTAAGG
*
35929207 GTTATAGG
1 TTTA-AGG
35929215 -TTAAGG
1 TTTAAGG
* *
35929221 GTTAGGG
1 TTTAAGG
35929228 TTTAAGG
1 TTTAAGG
*
35929235 TTTAGGGG
1 TTTA-AGG
* *
35929243 GTTAGGG
1 TTTAAGG
35929250 TTTAAGG
1 TTTAAGG
*
35929257 TTTAGGG
1 TTTAAGG
*
35929264 GTTAAGGG
1 TTTAA-GG
*
35929272 TTAAAGG
1 TTTAAGG
* *
35929279 TTTATGT
1 TTTAAGG
**
35929286 TTTGTGG
1 TTTAAGG
35929293 TTTAAGG
1 TTTAAGG
35929300 TTTAA
1 TTTAA
35929305 AAGATAGGGG
Statistics
Matches: 116, Mismatches: 27, Indels: 10
0.76 0.18 0.07
Matches are distributed among these distances:
6 3 0.03
7 95 0.82
8 18 0.16
ACGTcount: A:0.21, C:0.00, G:0.35, T:0.43
Consensus pattern (7 bp):
TTTAAGG
Found at i:35936244 original size:41 final size:41
Alignment explanation
Indices: 35936187--35936269 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
35936177 ATGCAATGAG
*
35936187 TAAGAACTTCAACATGAAAAAGATGATAACTACTCTATATA
1 TAAGAACTTCAACATGAAAAAGATGATAACTACTCTAGATA
35936228 TAAGAACTTCAACATGAAAAAGATGATAACTACTCTAGATA
1 TAAGAACTTCAACATGAAAAAGATGATAACTACTCTAGATA
35936269 T
1 T
35936270 GAAATTTGAG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.48, C:0.14, G:0.11, T:0.27
Consensus pattern (41 bp):
TAAGAACTTCAACATGAAAAAGATGATAACTACTCTAGATA
Found at i:35936835 original size:55 final size:55
Alignment explanation
Indices: 35936706--35936836 Score: 131
Period size: 55 Copynumber: 2.4 Consensus size: 55
35936696 GAAGGTTCAT
** * *
35936706 GCCCGTGTTGTTTTGGCA-GTTCACCCACGGTTGCTTGGCACGAGCGTGTCGCAT
1 GCCCGTGTTGTTTTGGCAGGTTCACCCACGGTTGCAAGGCACGAGCATGTCGCAC
** * ** * *
35936760 GCCCGTGTTAATTTGACAGGTTCGGCCACGGTTTCAAGGCAC-AGGCATGTTGCAC
1 GCCCGTGTTGTTTTGGCAGGTTCACCCACGGTTGCAAGGCACGA-GCATGTCGCAC
*
35936815 GCTCGTGTTGTTTTGGCAGGTT
1 GCCCGTGTTGTTTTGGCAGGTT
35936837 TGCCCATGGC
Statistics
Matches: 60, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
54 16 0.27
55 44 0.73
ACGTcount: A:0.14, C:0.24, G:0.31, T:0.31
Consensus pattern (55 bp):
GCCCGTGTTGTTTTGGCAGGTTCACCCACGGTTGCAAGGCACGAGCATGTCGCAC
Found at i:35941592 original size:17 final size:18
Alignment explanation
Indices: 35941570--35941603 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
35941560 CACATTGAAG
35941570 TGTTTT-ATTGAAAACCT
1 TGTTTTCATTGAAAACCT
35941587 TGTTTTCATTGAAAACC
1 TGTTTTCATTGAAAACC
35941604 CTTCTTTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (18 bp):
TGTTTTCATTGAAAACCT
Found at i:35942902 original size:28 final size:28
Alignment explanation
Indices: 35942859--35942961 Score: 125
Period size: 28 Copynumber: 3.7 Consensus size: 28
35942849 TGGCCCCTTT
* *
35942859 AGGCCCAATCTCATTCATTTGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
* * * * *
35942887 GGGCCTAACCACATTCATACGGCCCATT
1 AGGCCCAATCACATTCATATGGCCCATC
* *
35942915 AGGCCCAATCACTTTCATATGGCCCGTC
1 AGGCCCAATCACATTCATATGGCCCATC
35942943 AGGCCCAATCACATTCATA
1 AGGCCCAATCACATTCATA
35942962 GTCATACAAT
Statistics
Matches: 60, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 60 1.00
ACGTcount: A:0.25, C:0.35, G:0.16, T:0.24
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:35944513 original size:42 final size:41
Alignment explanation
Indices: 35944461--35944635 Score: 118
Period size: 43 Copynumber: 4.1 Consensus size: 41
35944451 TTATGCTCTT
* ** * *
35944461 TAGCGGCGTTTATGGGAAAAGCATTGCTACAGGTTTGTTCTA
1 TAGCGACGTTTATGGG-AAAGCACCGCTAAAGGTCTGTTCTA
*
35944503 TAGCGACGTTTGTGGGAAAGCACCGCTAAAGGTCTGTTCTA
1 TAGCGACGTTTATGGGAAAGCACCGCTAAAGGTCTGTTCTA
* * * * ** *
35944544 TAGC-AGCATTTGTGGGAAAAAGCGCCGCGAAAGACCATGTTCTT
1 TAGCGA-CGTTTATGGG--AAAGCACCGCTAAAGGTC-TGTTCTA
* * * * *
35944588 TAGCGACATTTGTTGGGAAAGCGCCGCTAAAGGCCATGTTCTT
1 TAGCGACGTTT-ATGGGAAAGCACCGCTAAAGGTC-TGTTCTA
35944631 TAGCG
1 TAGCG
35944636 GCATTTTTTT
Statistics
Matches: 112, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
40 1 0.01
41 34 0.30
42 14 0.12
43 43 0.38
44 15 0.13
45 5 0.04
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (41 bp):
TAGCGACGTTTATGGGAAAGCACCGCTAAAGGTCTGTTCTA
Found at i:35944625 original size:43 final size:42
Alignment explanation
Indices: 35944496--35944641 Score: 170
Period size: 43 Copynumber: 3.4 Consensus size: 42
35944486 GCTACAGGTT
* * *
35944496 TGTTCTATAGCGACGTTTGTGGGAAAGCACCGCTAAAGGTC-
1 TGTTCTATAGCGACATTTGTGGGAAAGCGCCGCTAAAGGCCA
* *
35944537 TGTTCTATAGC-AGCATTTGTGGGAAAAAGCGCCGCGAAAGACCA
1 TGTTCTATAGCGA-CATTTGTGGG--AAAGCGCCGCTAAAGGCCA
*
35944581 TGTTCTTTAGCGACATTTGTTGGGAAAGCGCCGCTAAAGGCCA
1 TGTTCTATAGCGACATTTG-TGGGAAAGCGCCGCTAAAGGCCA
* *
35944624 TGTTCTTTAGCGGCATTT
1 TGTTCTATAGCGACATTT
35944642 TTTTTACATA
Statistics
Matches: 90, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
40 1 0.01
41 20 0.22
43 48 0.53
44 16 0.18
45 5 0.06
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (42 bp):
TGTTCTATAGCGACATTTGTGGGAAAGCGCCGCTAAAGGCCA
Found at i:35947651 original size:51 final size:50
Alignment explanation
Indices: 35947596--35947744 Score: 127
Period size: 51 Copynumber: 3.1 Consensus size: 50
35947586 CTACCACATA
35947596 ACATGTAACACATCCATAATGAACTCGAACCTCTCAACGAGCTCGGATGTT
1 ACATGTAACACATCCATAATGAACTCGAACCTCTCAACGAGCTCGGATG-T
* * * * *
35947647 ACATG-AATCATATCCATCATGAACTC-AGACCTCTGAACGAGCCCGAATG-
1 ACATGTAA-CACATCCATAATGAACTCGA-ACCTCTCAACGAGCTCGGATGT
* * *
35947696 -C-T-T---GCATCCATAATGAACTCGAATCTCTCAATGAGCTCGGATGCT
1 ACATGTAACACATCCATAATGAACTCGAACCTCTCAACGAGCTCGGATG-T
35947741 ACAT
1 ACAT
35947745 ACCTCACGAA
Statistics
Matches: 77, Mismatches: 13, Indels: 20
0.70 0.12 0.18
Matches are distributed among these distances:
43 30 0.39
44 1 0.01
46 1 0.01
47 2 0.03
48 1 0.01
50 3 0.04
51 39 0.51
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (50 bp):
ACATGTAACACATCCATAATGAACTCGAACCTCTCAACGAGCTCGGATGT
Found at i:35947779 original size:42 final size:43
Alignment explanation
Indices: 35947733--35947854 Score: 124
Period size: 42 Copynumber: 2.9 Consensus size: 43
35947723 TCAATGAGCT
35947733 CGGATGCTACATACCTCACGAACCCAGACCACTCAACCAA-CC
1 CGGATGCTACATACCTCACGAACCCAGACCACTCAACCAAGCC
* * * * * *
35947775 CGGATGCTTGCAT-CCATAATGAACTCAGACCTCTCAA-CAAGCT
1 CGGATGC-TACATACC-TCACGAACCCAGACCACTCAACCAAGCC
* **
35947818 CAGATGCTACATACCTCACGAACCTGGACCACTCAAC
1 CGGATGCTACATACCTCACGAACCCAGACCACTCAAC
35947855 GAGTTCAGAC
Statistics
Matches: 61, Mismatches: 14, Indels: 9
0.73 0.17 0.11
Matches are distributed among these distances:
42 31 0.51
43 30 0.49
ACGTcount: A:0.32, C:0.37, G:0.14, T:0.17
Consensus pattern (43 bp):
CGGATGCTACATACCTCACGAACCCAGACCACTCAACCAAGCC
Found at i:35947818 original size:85 final size:85
Alignment explanation
Indices: 35947688--35947854 Score: 255
Period size: 85 Copynumber: 2.0 Consensus size: 85
35947678 TCTGAACGAG
* ** *
35947688 CCCGAATGCTTGCATCCATAATGAACTCGAATCTCTCAATGAGCTCGGATGCTACATACCTCACG
1 CCCGAATGCTTGCATCCATAATGAACTCGAACCTCTCAACAAGCTCAGATGCTACATACCTCACG
35947753 AACCCAGACCACTCAACCAA
66 AACCCAGACCACTCAACCAA
*
35947773 CCCGGATGCTTGCATCCATAATGAACTC-AGACCTCTCAACAAGCTCAGATGCTACATACCTCAC
1 CCCGAATGCTTGCATCCATAATGAACTCGA-ACCTCTCAACAAGCTCAGATGCTACATACCTCAC
**
35947837 GAACCTGGACCACTCAAC
65 GAACCCAGACCACTCAAC
35947855 GAGTTCAGAC
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
84 1 0.01
85 73 0.99
ACGTcount: A:0.31, C:0.35, G:0.14, T:0.20
Consensus pattern (85 bp):
CCCGAATGCTTGCATCCATAATGAACTCGAACCTCTCAACAAGCTCAGATGCTACATACCTCACG
AACCCAGACCACTCAACCAA
Found at i:35947824 original size:43 final size:43
Alignment explanation
Indices: 35947658--35947825 Score: 146
Period size: 43 Copynumber: 3.9 Consensus size: 43
35947648 CATGAATCAT
* * * * *
35947658 ATCCATCATGAACTCAGACCTCTGAACGAGCCCGAATGCTTGC
1 ATCCATAATGAACTCAGACCTCTCAACAAGCTCGGATGCTTGC
* ** *
35947701 ATCCATAATGAACTC-GAATCTCTCAATGAGCTCGGATGC-TAC
1 ATCCATAATGAACTCAG-ACCTCTCAACAAGCTCGGATGCTTGC
* * * * *
35947743 ATACC-TCACGAACCCAGACCACTCAACCAA-CCCGGATGCTTGC
1 AT-CCATAATGAACTCAGACCTCTCAA-CAAGCTCGGATGCTTGC
*
35947786 ATCCATAATGAACTCAGACCTCTCAACAAGCTCAGATGCT
1 ATCCATAATGAACTCAGACCTCTCAACAAGCTCGGATGCT
35947826 ACATACCTCA
Statistics
Matches: 96, Mismatches: 22, Indels: 14
0.73 0.17 0.11
Matches are distributed among these distances:
42 32 0.33
43 64 0.67
ACGTcount: A:0.31, C:0.33, G:0.15, T:0.21
Consensus pattern (43 bp):
ATCCATAATGAACTCAGACCTCTCAACAAGCTCGGATGCTTGC
Found at i:35949984 original size:28 final size:28
Alignment explanation
Indices: 35949942--35949996 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
35949932 CAATCCATAA
*
35949942 CATACTCAATGTCTCACACACTAAGTGC
1 CATACTCAATATCTCACACACTAAGTGC
* *
35949970 CATACTCGATATCTCATACACTAAGTG
1 CATACTCAATATCTCACACACTAAGTG
35949997 TCGTACATAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.33, C:0.29, G:0.11, T:0.27
Consensus pattern (28 bp):
CATACTCAATATCTCACACACTAAGTGC
Found at i:35950047 original size:40 final size:40
Alignment explanation
Indices: 35950003--35950087 Score: 107
Period size: 40 Copynumber: 2.1 Consensus size: 40
35949993 AGTGTCGTAC
**
35950003 ATAGCCAAAGCTATCTCAAATTGCACACTAAGCGCCATAT
1 ATAGCCAAAGCTATCTCAAATCACACACTAAGCGCCATAT
* * * * *
35950043 ATAGCCGAAGCTATGTCGAATCACATACTAAGTGCCATAT
1 ATAGCCAAAGCTATCTCAAATCACACACTAAGCGCCATAT
35950083 ATAGC
1 ATAGC
35950088 AGAAGTTATG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.24
Consensus pattern (40 bp):
ATAGCCAAAGCTATCTCAAATCACACACTAAGCGCCATAT
Found at i:35956520 original size:18 final size:19
Alignment explanation
Indices: 35956490--35956557 Score: 111
Period size: 19 Copynumber: 3.6 Consensus size: 19
35956480 ATCTTTTAAT
35956490 ATTGCATATCATATCTAAG
1 ATTGCATATCATATCTAAG
*
35956509 ATTGCA-ATCATATCTAAT
1 ATTGCATATCATATCTAAG
*
35956527 ATTGCATATCGTATCTAAG
1 ATTGCATATCATATCTAAG
35956546 ATTGCATATCAT
1 ATTGCATATCAT
35956558 TGAAGATTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
18 17 0.39
19 27 0.61
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATTGCATATCATATCTAAG
Found at i:35956532 original size:37 final size:38
Alignment explanation
Indices: 35956486--35956557 Score: 128
Period size: 37 Copynumber: 1.9 Consensus size: 38
35956476 TCATATCTTT
35956486 TAATATTGCATATCATATCTAAGATTGCA-ATCATATC
1 TAATATTGCATATCATATCTAAGATTGCATATCATATC
*
35956523 TAATATTGCATATCGTATCTAAGATTGCATATCAT
1 TAATATTGCATATCATATCTAAGATTGCATATCAT
35956558 TGAAGATTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
37 28 0.85
38 5 0.15
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (38 bp):
TAATATTGCATATCATATCTAAGATTGCATATCATATC
Found at i:35956964 original size:45 final size:45
Alignment explanation
Indices: 35956909--35957183 Score: 281
Period size: 45 Copynumber: 6.1 Consensus size: 45
35956899 GGAAGGCGAT
* * * *
35956909 ATCTGCTATCTTTGATCTGCTTCCCATCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTTCCCGTCTAATACAGAGATGCCAA
*
35956954 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTTCCCGTCTAATACAGAGATGCCAA
* *
35956999 ATCTGTTATC-TCTAATTTGC-TCCACGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTC-GATCTGCTTCC-CGTCTAATACAGAGATGCCAA
* * *
35957044 ATCTGTTATCTTCAATTTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTTCCCGTCTAATACAGAGATGCCAA
* * * * * * *
35957089 ATCTGTCATCTTGGATCTGCTT--CGATGTAA-ACACATGAAGGTCAG
1 ATCTGTTATCTTCGATCTGCTTCCCG-TCTAATACAGA-G-ATGCCAA
* *
35957134 ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTG-T-TATCTTCGATCTGCTTCCCGTCTAATACAGAGATGCCAA
35957181 ATC
1 ATC
35957184 ATCTTGGATC
Statistics
Matches: 190, Mismatches: 28, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
43 6 0.03
44 9 0.05
45 140 0.74
46 5 0.03
47 19 0.10
48 5 0.03
49 6 0.03
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.32
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTTCCCGTCTAATACAGAGATGCCAA
Found at i:35957254 original size:78 final size:78
Alignment explanation
Indices: 35957123--35957417 Score: 430
Period size: 78 Copynumber: 3.8 Consensus size: 78
35957113 ATGTAAACAC
35957123 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
35957188 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * *
35957201 ATGAAGGTCCA-ATCTGTTATGTCTTTGATCTGCTCCCCGTCTAATACAAAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
*
35957265 TTGGGTCTGCTTCA
65 TTGGATCTGCTTCA
* * * * *
35957279 ATGAAGGTCAAATCTGCTGTGTCTTTGATCTACTCCTCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
35957344 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * * * * **
35957357 ATAAAGGTCAGATCTACTATGTCTTCGATCTGCTCTCTGTCAAATATGGAGATGCCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
35957418 TGTTTCTTCG
Statistics
Matches: 193, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
77 2 0.01
78 189 0.98
79 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:35971940 original size:22 final size:21
Alignment explanation
Indices: 35971905--35971980 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
35971895 AAAAGGTATC
* *
35971905 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
35971926 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
35971949 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
35971968 T-GAAATCATATCT
1 TACAAATCATATCT
35971981 AAGATTGTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
18 7 0.16
19 9 0.20
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.42, C:0.16, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:35971956 original size:17 final size:19
Alignment explanation
Indices: 35971941--35972066 Score: 192
Period size: 19 Copynumber: 6.9 Consensus size: 19
35971931 AATCATATCT
35971941 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
35971960 TCTAAGATTG-AAATCATA
1 TCTAAGATTGCATATCATA
35971978 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
35971995 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
35972014 TCTAAAATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
35972032 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
35972049 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
35972067 TGAAGATTAT
Statistics
Matches: 98, Mismatches: 4, Indels: 10
0.88 0.04 0.09
Matches are distributed among these distances:
17 32 0.33
18 32 0.33
19 34 0.35
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:35971997 original size:35 final size:36
Alignment explanation
Indices: 35971941--35972066 Score: 184
Period size: 35 Copynumber: 3.5 Consensus size: 36
35971931 AATCATATCT
*
35971941 TCTAAGATTGCATATCATATCTAAGATTGAAATCATA
1 TCTAAGATTGC-TATCATATCTAAGATTGATATCATA
35971978 TCTAAGATTG-TATCATATCTAAGATTGCATATCATA
1 TCTAAGATTGCTATCATATCTAAGATTG-ATATCATA
* *
35972014 TCTAAAATTGCAATCATATCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATATCTAAGATTGATATCATA
35972049 TCTAAGATTGCATATCAT
1 TCTAAGATTGC-TATCAT
35972067 TGAAGATTAT
Statistics
Matches: 81, Mismatches: 5, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
35 34 0.42
36 21 0.26
37 26 0.32
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.37
Consensus pattern (36 bp):
TCTAAGATTGCTATCATATCTAAGATTGATATCATA
Found at i:35972010 original size:14 final size:15
Alignment explanation
Indices: 35971955--35972064 Score: 78
Period size: 17 Copynumber: 6.5 Consensus size: 15
35971945 AGATTGCATA
35971955 TCATATCTAAGATTG
1 TCATATCTAAGATTG
35971970 AAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
35971988 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
*
35972005 CATATCATATCTAAAATTG
1 ----TCATATCTAAGATTG
35972024 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
35972042 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
35972059 -CATATC
1 TCATATC
35972065 ATTGAAGATT
Statistics
Matches: 84, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
14 6 0.07
17 32 0.38
18 30 0.36
19 16 0.19
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:35972014 original size:54 final size:54
Alignment explanation
Indices: 35971941--35972066 Score: 234
Period size: 54 Copynumber: 2.3 Consensus size: 54
35971931 AATCATATCT
*
35971941 TCTAAGATTGCATATCATATCTAAGATTGAAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAAATTGAAATCATATCTAAGATTGTATCATA
*
35971995 TCTAAGATTGCATATCATATCTAAAATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAAATTGAAATCATATCTAAGATTGTATCATA
35972049 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
35972067 TGAAGATTAT
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 70 1.00
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.37
Consensus pattern (54 bp):
TCTAAGATTGCATATCATATCTAAAATTGAAATCATATCTAAGATTGTATCATA
Found at i:35977473 original size:30 final size:29
Alignment explanation
Indices: 35977428--35977498 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 29
35977418 TAAAAATATC
*
35977428 TAAAAAATAAAAAAAT-AATACTAATAACTT
1 TAAAAAATAAAAAAATCAAT-C-AATAAATT
* *
35977458 TAAAAATTAAGAAAATCAATCAATAAATT
1 TAAAAAATAAAAAAATCAATCAATAAATT
*
35977487 TAATAAA-AAAAA
1 TAAAAAATAAAAA
35977499 TCAATCTAAC
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
28 4 0.12
29 12 0.35
30 15 0.44
31 3 0.09
ACGTcount: A:0.68, C:0.06, G:0.01, T:0.25
Consensus pattern (29 bp):
TAAAAAATAAAAAAATCAATCAATAAATT
Found at i:35982142 original size:24 final size:24
Alignment explanation
Indices: 35982110--35982167 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
35982100 CTACATGCTA
*
35982110 GTGTATTTAGCAAACCTCAAGTAG
1 GTGTATTTAGCAAACCTCAAGCAG
*
35982134 GTGTATTTAGCAGACCTCAAGCAG
1 GTGTATTTAGCAAACCTCAAGCAG
35982158 GTGTATTTAG
1 GTGTATTTAG
35982168 TAGGCTTTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (24 bp):
GTGTATTTAGCAAACCTCAAGCAG
Found at i:35990688 original size:46 final size:46
Alignment explanation
Indices: 35990574--35990688 Score: 103
Period size: 46 Copynumber: 2.5 Consensus size: 46
35990564 ACTCCGCTAA
*
35990574 AACTTCA-AGGAGATAAGAATTG-GTAATTTCAGCCTGCTTCACTAC
1 AACTTCAGA-GAGATAAGAATTGTGTAATTTCAGCCTACTTCACTAC
* * * * * * *
35990619 AACTTCAGGGAGACAATG-TTTGTGTATTTTTATCCTAC-TCTACTGC
1 AACTTCAGAGAGATAA-GAATTGTGTAATTTCAGCCTACTTC-ACTAC
35990665 AACTTCAGAGAGATAAGAATTGTG
1 AACTTCAGAGAGATAAGAATTGTG
35990689 GCTTCGATCT
Statistics
Matches: 54, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
45 19 0.35
46 35 0.65
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.32
Consensus pattern (46 bp):
AACTTCAGAGAGATAAGAATTGTGTAATTTCAGCCTACTTCACTAC
Found at i:35990770 original size:88 final size:88
Alignment explanation
Indices: 35990528--35990783 Score: 207
Period size: 88 Copynumber: 2.9 Consensus size: 88
35990518 TCCGCTCCAG
* *
35990528 TGTAATTTCA-GGAAAAGAGATTTGTAGCTTCGATCTACTCCGCTAAAACTTCAAGGAGATAAGA
1 TGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGAAACTTCAAGGAGATAAGA
* * *
35990592 ATTGGTAATTTCAGCCTGCTTCAC
66 ATT-GTAACTTCAGCCTACTTCAA
** * * * ** ** *
35990616 TACAACTTCAGGGAGACA-ATGTTTGTGTA-TTTTTATCCTACTCTACTGCAACTTC-AGAGAGA
1 TGTAATTTCAGGGAGA-AGA-GATT-TGTAGCTTCGAT-CTACTCCGCTGAAACTTCAAG-GAGA
** * *
35990678 TAAGAATTGTGGCTTC-GATCTACTTTAA
61 TAAGAATTGTAACTTCAG-CCTACTTCAA
* *
35990706 TGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGGTAAGA
1 TGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGAAACTTCAAGGAGATAAGA
*
35990771 ATTGGTAATTTCA
66 ATT-GTAACTTCA
35990784 ACTTGCTCCA
Statistics
Matches: 123, Mismatches: 33, Indels: 22
0.69 0.19 0.12
Matches are distributed among these distances:
88 37 0.30
89 21 0.17
90 35 0.28
91 30 0.24
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (88 bp):
TGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGAAACTTCAAGGAGATAAGA
ATTGTAACTTCAGCCTACTTCAA
Found at i:35990904 original size:45 final size:45
Alignment explanation
Indices: 35990829--35990959 Score: 115
Period size: 43 Copynumber: 3.0 Consensus size: 45
35990819 GCGACTTGTA
* * * * *
35990829 GCTTCAATCTGTTCCGCTACAACTTCAGGGAAATAAGATTTGCTG
1 GCTTAAATCTGCTCCACTGCAACTTTAGGGAAATAAGATTTGCTG
* * * * * * *
35990874 TCTTCAGTCTGCTCCACTGTAACTTTAGGGAGATAAG--CTGATG
1 GCTTAAATCTGCTCCACTGCAACTTTAGGGAAATAAGATTTGCTG
*
35990917 GCTTAAATCTGCTCCATTGCAACTTTA-GGAAGATAAGATTTGC
1 GCTTAAATCTGCTCCACTGCAACTTTAGGGAA-ATAAGATTTGC
35990960 CATAATTTGT
Statistics
Matches: 65, Mismatches: 18, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
42 3 0.05
43 31 0.48
45 31 0.48
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.32
Consensus pattern (45 bp):
GCTTAAATCTGCTCCACTGCAACTTTAGGGAAATAAGATTTGCTG
Found at i:35993827 original size:46 final size:46
Alignment explanation
Indices: 35993787--35993875 Score: 133
Period size: 46 Copynumber: 1.9 Consensus size: 46
35993777 ATTTGTGGTT
* * *
35993787 TCTTCCATCCATCCCACTGCAACTCAGGGGTATAGGATTTGTACCA
1 TCTTCAATCCATCCCACTACAACTCAGGGGTATAAGATTTGTACCA
* *
35993833 TCTTCAATCCATCCCACTATAGCTCAGGGGTATAAGATTTGTA
1 TCTTCAATCCATCCCACTACAACTCAGGGGTATAAGATTTGTA
35993876 TCCCACTGCA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (46 bp):
TCTTCAATCCATCCCACTACAACTCAGGGGTATAAGATTTGTACCA
Found at i:35994685 original size:21 final size:19
Alignment explanation
Indices: 35994655--35994711 Score: 62
Period size: 21 Copynumber: 2.9 Consensus size: 19
35994645 TCGCCTTAGC
*
35994655 CTCTCCTTTTTCTTTCTTTCT
1 CTCTCTTTTTTCTTT-TTT-T
*
35994676 CTCTCTTTTTTATTTTTTT
1 CTCTCTTTTTTCTTTTTTT
*
35994695 TTCT-TTTTTTCTTTTTT
1 CTCTCTTTTTTCTTTTTT
35994712 GAGGTCTCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 12 0.38
19 4 0.12
20 3 0.09
21 13 0.41
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (19 bp):
CTCTCTTTTTTCTTTTTTT
Found at i:35995303 original size:13 final size:13
Alignment explanation
Indices: 35995285--35995309 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35995275 TTTGTATTGT
35995285 TTTGTTTGTTTTA
1 TTTGTTTGTTTTA
35995298 TTTGTTTGTTTT
1 TTTGTTTGTTTT
35995310 TTATTTTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.04, C:0.00, G:0.16, T:0.80
Consensus pattern (13 bp):
TTTGTTTGTTTTA
Found at i:35995307 original size:22 final size:23
Alignment explanation
Indices: 35995275--35995322 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
35995265 CCCACGATCT
35995275 TTTGTATTGTTTTGTT-TGTTTTA
1 TTTGTATTGTTTT-TTATGTTTTA
*
35995298 TTTGT-TTGTTTTTTATTTTTTA
1 TTTGTATTGTTTTTTATGTTTTA
35995320 TTT
1 TTT
35995323 TTTATTTAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 2 0.09
22 16 0.70
23 5 0.22
ACGTcount: A:0.08, C:0.00, G:0.12, T:0.79
Consensus pattern (23 bp):
TTTGTATTGTTTTTTATGTTTTA
Found at i:35995323 original size:6 final size:7
Alignment explanation
Indices: 35995293--35995329 Score: 56
Period size: 7 Copynumber: 5.1 Consensus size: 7
35995283 GTTTTGTTTG
35995293 TTTTATT
1 TTTTATT
*
35995300 TGTTTGTT
1 T-TTTATT
35995308 TTTTATT
1 TTTTATT
35995315 TTTTATT
1 TTTTATT
35995322 TTTTATT
1 TTTTATT
35995329 T
1 T
35995330 AGGAATTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
7 21 0.78
8 6 0.22
ACGTcount: A:0.11, C:0.00, G:0.05, T:0.84
Consensus pattern (7 bp):
TTTTATT
Found at i:36003490 original size:46 final size:45
Alignment explanation
Indices: 36003437--36003612 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 45
36003427 TATTTAGGCA
36003437 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
36003483 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
36003530 TCCGAGCTCGTAGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*
36003576 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
36003613 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 13, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 67 0.61
47 31 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:36003590 original size:93 final size:93
Alignment explanation
Indices: 36003431--36003604 Score: 296
Period size: 93 Copynumber: 1.9 Consensus size: 93
36003421 CTAGGATATT
* *
36003431 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTG
1 TAGGCATCCGAACTCGTAGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTG
36003496 AGTTGAGTCCGAGTTCGAGAGATGTAAC
66 AGTTGAGTCCGAGTTCGAGAGATGTAAC
* *
36003524 TAGGCATCCGAGCTCGTAGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CTCGAGCTCGTT
1 TAGGCATCCGAACTCGTAGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTC-CGAACTCGTT
36003588 GAGTTGAGTCCGAGTTC
65 GAGTTGAGTCCGAGTTC
36003605 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
92 1 0.01
93 75 0.99
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
TAGGCATCCGAACTCGTAGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTG
AGTTGAGTCCGAGTTCGAGAGATGTAAC
Found at i:36012541 original size:20 final size:20
Alignment explanation
Indices: 36012512--36012565 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
36012502 TGGAGGCAAC
36012512 GCACATGCCCGTGTGCTTTG
1 GCACATGCCCGTGTGCTTTG
*
36012532 GCACACGCCCGTGTGCTTTG
1 GCACATGCCCGTGTGCTTTG
36012552 GCACATGCCCGTGT
1 GCACATGCCCGTGT
36012566 CCCCTACTCG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.11, C:0.33, G:0.30, T:0.26
Consensus pattern (20 bp):
GCACATGCCCGTGTGCTTTG
Found at i:36013621 original size:88 final size:88
Alignment explanation
Indices: 36013434--36013607 Score: 312
Period size: 88 Copynumber: 2.0 Consensus size: 88
36013424 CATGCCATTG
* * *
36013434 AACAAAATAAGAGTATCTATATACTAAAGCTAGACAAGATGATAGTGTGTTGATTCTCCAATCGT
1 AACAAAATAAGAGTATCTATATACCAAAGCTAGACAAGATGATAGTGTGTTGATTCTCCAACCAT
36013499 CTCCCAATCTTCACGAGTCCAGA
66 CTCCCAATCTTCACGAGTCCAGA
*
36013522 AACAAAATAAGAGTATCTATATACCAAAGCTAGACAAGATGATAGTGTGTTGATTCTTCAACCAT
1 AACAAAATAAGAGTATCTATATACCAAAGCTAGACAAGATGATAGTGTGTTGATTCTCCAACCAT
36013587 CTCCCAATCTTCACGAGTCCA
66 CTCCCAATCTTCACGAGTCCA
36013608 CGAGCTCTGT
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
88 82 1.00
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (88 bp):
AACAAAATAAGAGTATCTATATACCAAAGCTAGACAAGATGATAGTGTGTTGATTCTCCAACCAT
CTCCCAATCTTCACGAGTCCAGA
Found at i:36017864 original size:28 final size:28
Alignment explanation
Indices: 36017822--36018027 Score: 157
Period size: 28 Copynumber: 7.3 Consensus size: 28
36017812 ATAAGTAAGT
*
36017822 CTTTGTGGCTATCTCTATTAAAAGAAGC
1 CTTTGTGGCGATCTCTATTAAAAGAAGC
* * * *
36017850 CTTTATGACGATCTC-AGTTATAAGAATC
1 CTTTGTGGCGATCTCTA-TTAAAAGAAGC
* * *
36017878 ATTTGTGGTGA--TCTATTAAATGAAGC
1 CTTTGTGGCGATCTCTATTAAAAGAAGC
* * * *
36017904 CTTTGTGGCTATATCTGTTAAAGGAAGC
1 CTTTGTGGCGATCTCTATTAAAAGAAGC
* *
36017932 CTTTGTGGCTATCTCTGTTAAAAGGAAGC
1 CTTTGTGGCGATCTCTATTAAAA-GAAGC
* *
36017961 CTCTGTGGTGATCTCTATTAAAAAGGAAGC
1 CTTTGTGGCGATCTCTATT-AAAA-GAAGC
* ** * *
36017991 CCTTGTTACAATCTCTATCAAAAGAATGC
1 CTTTGTGGCGATCTCTATTAAAAGAA-GC
36018020 CTTTGTGG
1 CTTTGTGG
36018028 TGTAATATGA
Statistics
Matches: 138, Mismatches: 33, Indels: 13
0.75 0.18 0.07
Matches are distributed among these distances:
26 18 0.13
27 2 0.01
28 65 0.47
29 31 0.22
30 22 0.16
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (28 bp):
CTTTGTGGCGATCTCTATTAAAAGAAGC
Found at i:36017937 original size:54 final size:54
Alignment explanation
Indices: 36017835--36017939 Score: 122
Period size: 54 Copynumber: 1.9 Consensus size: 54
36017825 TGTGGCTATC
* *
36017835 TCTATTAAAAGAAGCCTTTATGACGATCTCAGTTATAAGAATCATTTGTGGTGA
1 TCTATTAAAAGAAGCCTTTATGACGATATCAGTTATAAGAAGCATTTGTGGTGA
* * * * * *
36017889 TCTATTAAATGAAGCCTTTGTGGCTATATCTGTTA-AAGGAAGCCTTTGTGG
1 TCTATTAAAAGAAGCCTTTATGACGATATCAGTTATAA-GAAGCATTTGTGG
36017940 CTATCTCTGT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
53 2 0.05
54 40 0.95
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (54 bp):
TCTATTAAAAGAAGCCTTTATGACGATATCAGTTATAAGAAGCATTTGTGGTGA
Found at i:36021754 original size:26 final size:26
Alignment explanation
Indices: 36021718--36021767 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
36021708 TCTCATCCCT
36021718 ATTTTACCCCTAACAAAATTTTGACG
1 ATTTTACCCCTAACAAAATTTTGACG
*
36021744 ATTTTACCCCTAGCAAAATTTTGA
1 ATTTTACCCCTAACAAAATTTTGA
36021768 TGAATTTGCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.36
Consensus pattern (26 bp):
ATTTTACCCCTAACAAAATTTTGACG
Found at i:36022349 original size:29 final size:29
Alignment explanation
Indices: 36022308--36022370 Score: 119
Period size: 29 Copynumber: 2.2 Consensus size: 29
36022298 TATGTTACCC
36022308 TAATA-GGATATCCTTGATCTCTTTGGGA
1 TAATATGGATATCCTTGATCTCTTTGGGA
36022336 TAATATGGATATCCTTGATCTCTTTGGGA
1 TAATATGGATATCCTTGATCTCTTTGGGA
36022365 TAATAT
1 TAATAT
36022371 TCATTCTCCC
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 5 0.15
29 29 0.85
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.41
Consensus pattern (29 bp):
TAATATGGATATCCTTGATCTCTTTGGGA
Found at i:36041970 original size:27 final size:27
Alignment explanation
Indices: 36041940--36042117 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
36041930 ATATTGAGTC
* *
36041940 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
36041967 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
36041994 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** **
36042022 CGCACACTTAGTGCCGCATGGTCAGTT
1 CGCACACTTAGTGCTACATAATCAACT
* **
36042049 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
36042076 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
36042103 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36042118 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:36042079 original size:82 final size:81
Alignment explanation
Indices: 36041966--36042116 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 81
36041956 TATAATCAAC
* *
36041966 TCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCACACTT
36042031 AGTGCCGCATGGTCAGT
65 AGTGCCGCATGGTCAGT
* **
36042048 TCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
1 TCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
36042112 AGTGC
65 AGTGC
36042117 TGTACAATTT
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.25
82 47 0.75
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
GTGCCGCATGGTCAGT
Found at i:36051804 original size:85 final size:85
Alignment explanation
Indices: 36051681--36051850 Score: 340
Period size: 85 Copynumber: 2.0 Consensus size: 85
36051671 AAAAGCTAAG
36051681 TTAGAGTCTCGAGTTTTGAAGAAGAGACAAATGGGTAAATCATTTCAGTCCTCAACTAAGAAACC
1 TTAGAGTCTCGAGTTTTGAAGAAGAGACAAATGGGTAAATCATTTCAGTCCTCAACTAAGAAACC
36051746 AAGAGAGTTTAATACTCGAT
66 AAGAGAGTTTAATACTCGAT
36051766 TTAGAGTCTCGAGTTTTGAAGAAGAGACAAATGGGTAAATCATTTCAGTCCTCAACTAAGAAACC
1 TTAGAGTCTCGAGTTTTGAAGAAGAGACAAATGGGTAAATCATTTCAGTCCTCAACTAAGAAACC
36051831 AAGAGAGTTTAATACTCGAT
66 AAGAGAGTTTAATACTCGAT
36051851 CGAGTGTTTC
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 85 1.00
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (85 bp):
TTAGAGTCTCGAGTTTTGAAGAAGAGACAAATGGGTAAATCATTTCAGTCCTCAACTAAGAAACC
AAGAGAGTTTAATACTCGAT
Found at i:36057246 original size:28 final size:28
Alignment explanation
Indices: 36057215--36057271 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
36057205 TGTTGCTATT
36057215 TATTTGCATGTGAACTTACTAAGCTTTA
1 TATTTGCATGTGAACTTACTAAGCTTTA
*
36057243 TATTTTCATGTGAACTTACTAAGCTTTA
1 TATTTGCATGTGAACTTACTAAGCTTTA
36057271 T
1 T
36057272 GCTTACTCCC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.28, C:0.14, G:0.12, T:0.46
Consensus pattern (28 bp):
TATTTGCATGTGAACTTACTAAGCTTTA
Done.