Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 109 of 161
Found at i:34744543 original size:9 final size:9
Alignment explanation
Indices: 34744525--34744560 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
34744515 ATAGTTTAAG
34744525 ATTCGAATT
1 ATTCGAATT
*
34744534 ATTTGAATT
1 ATTCGAATT
*
34744543 ATTCGAGTT
1 ATTCGAATT
34744552 ATTCGAATT
1 ATTCGAATT
34744561 CGAAAACTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.31, C:0.08, G:0.14, T:0.47
Consensus pattern (9 bp):
ATTCGAATT
Found at i:34744629 original size:9 final size:9
Alignment explanation
Indices: 34744612--34744651 Score: 71
Period size: 9 Copynumber: 4.4 Consensus size: 9
34744602 TCGAGTTGAT
34744612 TCGAATAAC
1 TCGAATAAC
*
34744621 TCGATTAAC
1 TCGAATAAC
34744630 TCGAATAAC
1 TCGAATAAC
34744639 TCGAATAAC
1 TCGAATAAC
34744648 TCGA
1 TCGA
34744652 TTCGTTTAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.40, C:0.23, G:0.12, T:0.25
Consensus pattern (9 bp):
TCGAATAAC
Found at i:34746943 original size:16 final size:15
Alignment explanation
Indices: 34746916--34746955 Score: 62
Period size: 16 Copynumber: 2.6 Consensus size: 15
34746906 AACGATATAT
*
34746916 AGATTTCAATGAAAC
1 AGATTTCAATGAAAA
34746931 AGATTTGCAATGAAAA
1 AGATTT-CAATGAAAA
34746947 AGATTTCAA
1 AGATTTCAA
34746956 ACAACAGCAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.47, C:0.10, G:0.15, T:0.28
Consensus pattern (15 bp):
AGATTTCAATGAAAA
Found at i:34750984 original size:23 final size:22
Alignment explanation
Indices: 34750939--34750996 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
34750929 AAAGGGTATC
* * *
34750939 TACAAATTAAATC-TCTAATAT
1 TACAAATCATATCTTCTAAGAT
34750960 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
34750983 TACATATCATATCT
1 TACAAATCATATCT
34750997 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.38
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:34750999 original size:19 final size:19
Alignment explanation
Indices: 34750975--34751049 Score: 96
Period size: 19 Copynumber: 3.8 Consensus size: 19
34750965 AATCATATCT
34750975 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
* *
34750994 TCTAAGATTGCATATATCTTA
1 TCTAAGATT--ACATATCATA
*
34751015 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
34751034 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
34751050 CTCGAAGATT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 32 0.65
21 17 0.35
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:34751016 original size:21 final size:21
Alignment explanation
Indices: 34750986--34751048 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
34750976 CTAAGATTAC
34750986 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
*
34751007 ATATCTTATCTAAGATTGC--
1 ATATCATATCTAAGATTGCAT
34751026 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
34751047 AT
1 AT
34751049 CCTCGAAGAT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.47
21 20 0.53
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.40
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:34751549 original size:44 final size:44
Alignment explanation
Indices: 34751483--34751770 Score: 146
Period size: 44 Copynumber: 6.6 Consensus size: 44
34751473 ACTCGATGTG
* * *
34751483 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCTGTGGTTTTA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTA
* * * *
34751527 ATCTGCTCCACTGCAACTTCAGAGAGACAGGATTTGT-TTATTTA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGT-TTTA
* * * * *** *
34751571 GTATGCCCCACTGCAACTTCAGGGAGATAAGAT-TCGCCATCTTCA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCT-GTGGT-TTTA
* *
34751616 ATCTGC-CTCATTGCAACTTCAG-GAGGATAAGA-CT-TGATTACTTA
1 ATCTGCTC-CACTGCAACTTCAGAGA-GATAAGATCTGTGGTT--TTA
* * * * * ***
34751660 GTCTGCTCCACTGCAACTTTAGGGAGATAAGA-C--TAGATACG
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTA
* ***
34751701 ATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTA
** * *
34751744 ATCCACTCCATTGCAACTTCAGGGAGA
1 ATCTGCTCCACTGCAACTTCAGAGAGA
34751771 CAAGGCTTGG
Statistics
Matches: 183, Mismatches: 47, Indels: 28
0.71 0.18 0.11
Matches are distributed among these distances:
40 21 0.11
41 7 0.04
42 1 0.01
43 13 0.07
44 109 0.60
45 32 0.17
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTA
Found at i:34751936 original size:132 final size:132
Alignment explanation
Indices: 34751762--34752306 Score: 903
Period size: 132 Copynumber: 4.1 Consensus size: 132
34751752 CATTGCAACT
* * *
34751762 TCAGGGAGACAAGGCTTGGTGGCTTAAATCAGCTTCCCACTATCTTGGAAAGATATGATTTGCCG
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCG
* * * *
34751827 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCTGCTGCT
66 TCTTCAATCTTCTCCACTACTGCTTAGGGAGATAAAATCTACAATCTTCAACCTACTCTACTGCT
34751892 GC
131 GC
*
34751894 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTTCG
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCG
34751959 TCTTCAATCTTCTCCACTACTGCTTAGGGAGATAAAATCTACAATCTTCAACCTACTCTACTGCT
66 TCTTCAATCTTCTCCACTACTGCTTAGGGAGATAAAATCTACAATCTTCAACCTACTCTACTGCT
34752024 GC
131 GC
*
34752026 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTTCG
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCG
34752091 TCTTCAATCTTCTCCACTACTGCTTAGGGAGATAAAATCTACAATCTTCAACCTACTCTACTGCT
66 TCTTCAATCTTCTCCACTACTGCTTAGGGAGATAAAATCTACAATCTTCAACCTACTCTACTGCT
34752156 GC
131 GC
*
34752158 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGAAAAGATTTTCCG
1 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCG
* * * * * ** *
34752223 TAC-TCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACGATCCTCAACCTACTCCGCTGT
66 T-CTTCAATCTTCTCCACTACTGCTTAGGGAGATAAAATCTACAATCTTCAACCTACTCTACTGC
34752287 TGC
130 TGC
*
34752290 TCAAGGAGACAAGGCTT
1 TCAGGGAGACAAGGCTT
34752307 AGTGTTTCAC
Statistics
Matches: 393, Mismatches: 19, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
132 392 1.00
133 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (132 bp):
TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCG
TCTTCAATCTTCTCCACTACTGCTTAGGGAGATAAAATCTACAATCTTCAACCTACTCTACTGCT
GC
Found at i:34751992 original size:44 final size:44
Alignment explanation
Indices: 34751944--34752125 Score: 131
Period size: 44 Copynumber: 4.1 Consensus size: 44
34751934 TATCTTGGAA
34751944 AGATAAGATTTTTCGTCTTCAATCTTCTCCACTACTGCTTAGGG
1 AGATAAGATTTTTCGTCTTCAATCTTCTCCACTACTGCTTAGGG
* * * * * * * * *
34751988 AGATAA-AATCTACAATCTTCAACCTACTCTACTGCTGCTCAGGG
1 AGATAAGATTTTTC-GTCTTCAATCTTCTCCACTACTGCTTAGGG
* * ** * * * *
34752032 AGACAAGGCTTGGT-GGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAA-GATTTTTCGTCTTCAATCTTC-T-CCACTACTGCTTAGG-G
34752076 AGATAAGATTTTTCGTCTTCAATCTTCTCCACTACTGCTTAGGG
1 AGATAAGATTTTTCGTCTTCAATCTTCTCCACTACTGCTTAGGG
34752120 AGATAA
1 AGATAA
34752126 AATCTACAAT
Statistics
Matches: 96, Mismatches: 32, Indels: 20
0.65 0.22 0.14
Matches are distributed among these distances:
42 6 0.06
43 12 0.12
44 69 0.72
45 4 0.04
46 5 0.05
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (44 bp):
AGATAAGATTTTTCGTCTTCAATCTTCTCCACTACTGCTTAGGG
Found at i:34753015 original size:32 final size:32
Alignment explanation
Indices: 34752974--34753038 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
34752964 TCTAAATAAT
34752974 AGTCATGTTTCAGGCTCCTGTATTATTCAGAA
1 AGTCATGTTTCAGGCTCCTGTATTATTCAGAA
*
34753006 AGTCATGTTTCAGGCTCCTGTATTATTTAGAA
1 AGTCATGTTTCAGGCTCCTGTATTATTCAGAA
34753038 A
1 A
34753039 CTTATAGAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.38
Consensus pattern (32 bp):
AGTCATGTTTCAGGCTCCTGTATTATTCAGAA
Found at i:34758357 original size:23 final size:21
Alignment explanation
Indices: 34758312--34758361 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 21
34758302 ATATTTGTTT
*
34758312 TAAAAA-AATAAATAAATAAA
1 TAAAAACAACAAATAAATAAA
34758332 TAAAAACAACAAATATATATAAA
1 TAAAAACAACAAATA-A-ATAAA
34758355 TAAAAAC
1 TAAAAAC
34758362 TAATTAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 6 0.23
21 7 0.27
22 1 0.04
23 12 0.46
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.20
Consensus pattern (21 bp):
TAAAAACAACAAATAAATAAA
Found at i:34759018 original size:23 final size:22
Alignment explanation
Indices: 34758975--34759032 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
34758965 AAAGGGTATC
* *
34758975 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
34758996 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
34759019 TACATATCATATCT
1 TACAAATCATATCT
34759033 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:34759035 original size:19 final size:19
Alignment explanation
Indices: 34758988--34759085 Score: 106
Period size: 19 Copynumber: 4.8 Consensus size: 19
34758978 AAATTAAATC
*
34758988 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
34759008 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
34759030 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
34759051 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
34759070 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
34759086 CTCGAAGATT
Statistics
Matches: 69, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
19 33 0.48
21 18 0.26
22 7 0.10
23 11 0.16
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:34759048 original size:21 final size:21
Alignment explanation
Indices: 34759022--34759084 Score: 112
Period size: 21 Copynumber: 3.1 Consensus size: 21
34759012 CTAAGATTAC
34759022 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
34759043 ATATCATATCTAAGATTGC--
1 ATATCATATCTAAGATTGCAT
34759062 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
34759083 AT
1 AT
34759085 CCTCGAAGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
19 19 0.47
21 21 0.52
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:34762519 original size:22 final size:23
Alignment explanation
Indices: 34762493--34762545 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 23
34762483 CAAAAATTAT
34762493 ATAAAAA-TAATATAAATAATAA
1 ATAAAAATTAATATAAATAATAA
34762515 ATAAACGAAATTAATATAAATAATAA
1 AT-AA--AAATTAATATAAATAATAA
34762541 A-AAAA
1 ATAAAA
34762546 CAATGACATG
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
22 4 0.15
23 2 0.07
24 2 0.07
25 3 0.11
26 16 0.59
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (23 bp):
ATAAAAATTAATATAAATAATAA
Found at i:34764402 original size:44 final size:44
Alignment explanation
Indices: 34764351--34764462 Score: 154
Period size: 44 Copynumber: 2.5 Consensus size: 44
34764341 GATCTGCTCT
* * *
34764351 CTGCAACTTTAGAGAGATAGGATCTA-TGGTTTTAATCCGCTCCA
1 CTGCAACTTCAGGGAGATAGGAT-TATTGGCTTTAATCCGCTCCA
*
34764395 CTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCA
1 CTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCCGCTCCA
* *
34764439 CTACAACTTCAGGGAGATAAGATT
1 CTGCAACTTCAGGGAGATAGGATT
34764463 CGCCCTATTC
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
43 2 0.03
44 59 0.97
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (44 bp):
CTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCCGCTCCA
Found at i:34774585 original size:79 final size:82
Alignment explanation
Indices: 34774474--34774658 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
34774464 GCTACTCGTT
* *
34774474 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
34774537 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
34774554 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
34774617 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
34774634 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
34774659 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:34774658 original size:40 final size:40
Alignment explanation
Indices: 34774455--34774658 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
34774445 CGGAATTTAA
** *
34774455 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
34774495 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
34774535 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
34774574 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
34774614 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
34774654 CCGGA
1 CCGGA
34774659 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:34782526 original size:79 final size:78
Alignment explanation
Indices: 34782424--34782646 Score: 272
Period size: 79 Copynumber: 2.8 Consensus size: 78
34782414 GCTCCTCGTT
* *
34782424 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
34782489 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* *
34782504 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
*
34782568 ATTAGTATCTCGCA
65 ATTAGTAACTCGCA
* * * * *
34782582 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
34782645 GA
63 GA
34782647 CATCATTCAA
Statistics
Matches: 125, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
78 45 0.36
79 60 0.48
80 20 0.16
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:34782541 original size:39 final size:40
Alignment explanation
Indices: 34782424--34782646 Score: 280
Period size: 39 Copynumber: 5.7 Consensus size: 40
34782414 GCTCCTCGTT
* *
34782424 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
34782464 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
34782504 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
34782543 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
34782582 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
34782623 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
34782647 CATCATTCAA
Statistics
Matches: 167, Mismatches: 10, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 88 0.53
40 67 0.40
41 10 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:34788241 original size:22 final size:21
Alignment explanation
Indices: 34788216--34788270 Score: 76
Period size: 20 Copynumber: 2.6 Consensus size: 21
34788206 GAAAATAAAG
*
34788216 AAATATATATATAGAAATTAT
1 AAATATATATATAGAAAATAT
*
34788237 AAA-ATATGTATAGAAAATAT
1 AAATATATATATAGAAAATAT
34788257 AATATATATATATA
1 AA-ATATATATATA
34788271 CGTATATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 17 0.59
21 4 0.14
22 8 0.28
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.36
Consensus pattern (21 bp):
AAATATATATATAGAAAATAT
Found at i:34793633 original size:2 final size:2
Alignment explanation
Indices: 34793626--34793660 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
34793616 GAAACAAAGC
34793626 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
34793661 CCTTCGATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:34794534 original size:31 final size:29
Alignment explanation
Indices: 34794496--34794567 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 29
34794486 CTAACGGCTC
34794496 AGTGACTAAAATGTTA-CAATGCGATAACATA
1 AGTGACTAAAATG-TAGCAATGC-A-AACATA
* * *
34794527 AGTGACTAAAACGTAGCATTTCAAACATA
1 AGTGACTAAAATGTAGCAATGCAAACATA
34794556 AGTGACTAAAAT
1 AGTGACTAAAAT
34794568 ATAATCTGAG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 17 0.47
30 3 0.08
31 16 0.44
ACGTcount: A:0.46, C:0.14, G:0.15, T:0.25
Consensus pattern (29 bp):
AGTGACTAAAATGTAGCAATGCAAACATA
Found at i:34795540 original size:25 final size:24
Alignment explanation
Indices: 34795503--34795549 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
34795493 TTTAATTAAT
34795503 TTTTTAAATTAAATATTA-TAATTA
1 TTTTTAAATTAAAT-TTAGTAATTA
*
34795527 TTTTTAATTATAAATTTAGTAAT
1 TTTTTAAAT-TAAATTTAGTAAT
34795550 ATGATAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (24 bp):
TTTTTAAATTAAATTTAGTAATTA
Found at i:34796790 original size:31 final size:31
Alignment explanation
Indices: 34796755--34796817 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
34796745 TGGTAATTTT
34796755 GGAGATTAATTTGAAAAGCTTACAAATTTAA
1 GGAGATTAATTTGAAAAGCTTACAAATTTAA
*
34796786 GGAGATTAGTTTGAAAAGCTTACAAATTTAA
1 GGAGATTAATTTGAAAAGCTTACAAATTTAA
34796817 G
1 G
34796818 CGGGCTTTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.43, C:0.06, G:0.19, T:0.32
Consensus pattern (31 bp):
GGAGATTAATTTGAAAAGCTTACAAATTTAA
Found at i:34797502 original size:24 final size:24
Alignment explanation
Indices: 34797458--34797504 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
34797448 TGCGCACCAT
* *
34797458 TATATGAGTGCCCTTTATGGGACG
1 TATATGAGAGCCATTTATGGGACG
*
34797482 TATATGAGAGCCATTTGTGGGAC
1 TATATGAGAGCCATTTATGGGAC
34797505 ATAAAGGACT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.32
Consensus pattern (24 bp):
TATATGAGAGCCATTTATGGGACG
Found at i:34799059 original size:21 final size:21
Alignment explanation
Indices: 34799021--34799060 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
34799011 TATGTCAATG
*
34799021 ACTACACTTTGTCATCAATCA
1 ACTACACTTAGTCATCAATCA
34799042 ACTACACATTAGTC-TCAAT
1 ACTACAC-TTAGTCATCAAT
34799061 GAATTATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.35, C:0.28, G:0.05, T:0.33
Consensus pattern (21 bp):
ACTACACTTAGTCATCAATCA
Found at i:34802783 original size:18 final size:18
Alignment explanation
Indices: 34802760--34802814 Score: 58
Period size: 21 Copynumber: 2.9 Consensus size: 18
34802750 TAAGACTAAG
34802760 TTTAAAAAATAAATTATT
1 TTTAAAAAATAAATTATT
34802778 TTT-AAAAATAAGATTAATT
1 TTTAAAAAATAA-ATT-ATT
*
34802797 TATTAAACAATATAATTA
1 T-TTAAAAAATA-AATTA
34802815 CATTTGGTGC
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
17 8 0.26
18 6 0.19
19 4 0.13
20 3 0.10
21 9 0.29
22 1 0.03
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (18 bp):
TTTAAAAAATAAATTATT
Found at i:34802786 original size:17 final size:18
Alignment explanation
Indices: 34802764--34802814 Score: 59
Period size: 17 Copynumber: 2.7 Consensus size: 18
34802754 ACTAAGTTTA
34802764 AAAAATAAATTATTT-TT
1 AAAAATAAATTATTTATT
34802781 AAAAATAAGATTAATTTATT
1 AAAAATAA-ATT-ATTTATT
34802801 AAACAATATAATTA
1 AAA-AATA-AATTA
34802815 CATTTGGTGC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
17 8 0.28
18 3 0.10
19 4 0.14
20 6 0.21
21 7 0.24
22 1 0.03
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (18 bp):
AAAAATAAATTATTTATT
Found at i:34804414 original size:19 final size:19
Alignment explanation
Indices: 34804390--34804432 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
34804380 AAGAAAGGTT
34804390 TTCCTAGGATAATCGGAAC
1 TTCCTAGGATAATCGGAAC
34804409 TTCCTAGGATAATCGGAAC
1 TTCCTAGGATAATCGGAAC
34804428 TTCCT
1 TTCCT
34804433 TGTCTGCTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (19 bp):
TTCCTAGGATAATCGGAAC
Found at i:34808481 original size:141 final size:142
Alignment explanation
Indices: 34808209--34808499 Score: 521
Period size: 141 Copynumber: 2.0 Consensus size: 142
34808199 ATTTTTTTAG
*
34808209 TCCAATAACTTAGCAGACATGTCCATCTTTTATCACCTTCTTTACGGGGTCAAGTAGTCAACCCC
1 TCCAAT-ACTTAGAAGACATGTCCATCTTTTATCACCTTCTTTACGGGGTCAAGTAGTCAACCCC
* *
34808274 TATACCCAAAATTGCATGGTCTTGCCGTCTACATGGATAATTTGTGCATGACCATCTTTTATTTA
65 TATACCCAAAATTGCATGGTCTTGCCATCCACATGGATAATTTGTGCATGACCATCTTTTATTTA
34808339 TTTAAATCATGTC
130 TTTAAATCATGTC
34808352 TCCAATACTTAGAAGACATGTCCATCTTTTATCACCTTCTTTACGGGGTCAAGTAGTCAACCCC-
1 TCCAATACTTAGAAGACATGTCCATCTTTTATCACCTTCTTTACGGGGTCAAGTAGTCAACCCCT
* *
34808416 ATGCCCAAAATTGCATGGTCTTGTCATCCACATGGATAATTTGTGCATGACCATCTTTTATTTAT
66 ATACCCAAAATTGCATGGTCTTGCCATCCACATGGATAATTTGTGCATGACCATCTTTTATTTAT
34808481 TTAAATCATGTC
131 TTAAATCATGTC
34808493 TCCAATA
1 TCCAATA
34808500 GCCTACCTAC
Statistics
Matches: 143, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
141 80 0.56
142 57 0.40
143 6 0.04
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (142 bp):
TCCAATACTTAGAAGACATGTCCATCTTTTATCACCTTCTTTACGGGGTCAAGTAGTCAACCCCT
ATACCCAAAATTGCATGGTCTTGCCATCCACATGGATAATTTGTGCATGACCATCTTTTATTTAT
TTAAATCATGTC
Found at i:34818716 original size:53 final size:53
Alignment explanation
Indices: 34818651--34818753 Score: 143
Period size: 53 Copynumber: 1.9 Consensus size: 53
34818641 ATGGCATTGA
*
34818651 AAGAAAACCATATCGTATAAGATTGTAACTGGTAGGTTATGGCATCATATAGG
1 AAGAAAACCATATCGTATAAGACTGTAACTGGTAGGTTATGGCATCATATAGG
* * * * **
34818704 AAGAAGACCATATCGTGTAAGACTGTAATTGGTGGGTTATGTTATCATAT
1 AAGAAAACCATATCGTATAAGACTGTAACTGGTAGGTTATGGCATCATAT
34818754 GAAAAATTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
53 43 1.00
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.31
Consensus pattern (53 bp):
AAGAAAACCATATCGTATAAGACTGTAACTGGTAGGTTATGGCATCATATAGG
Found at i:34818997 original size:28 final size:26
Alignment explanation
Indices: 34818909--34819003 Score: 75
Period size: 28 Copynumber: 3.4 Consensus size: 26
34818899 ATGAAAAGAC
34818909 ACCTTTGTGGCGAGA-CTCTAAAAGGAA
1 ACCTTTGTGGC-A-ATCTCTAAAAGGAA
* *
34818936 AGCCTTTGTGGCAATCTCTGGATATGGAA
1 A-CCTTTGTGGCAATCTCT--AAAAGGAA
* *
34818965 GCCTTTGTGGCTATCTCTAAAAAGGAA
1 ACCTTTGTGGCAATCTCT-AAAAGGAA
*
34818992 TACCTTAGTGGC
1 -ACCTTTGTGGC
34819004 GCCATTAAAG
Statistics
Matches: 54, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
26 1 0.02
27 12 0.22
28 35 0.65
29 6 0.11
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.28
Consensus pattern (26 bp):
ACCTTTGTGGCAATCTCTAAAAGGAA
Found at i:34820855 original size:24 final size:24
Alignment explanation
Indices: 34820828--34820890 Score: 81
Period size: 25 Copynumber: 2.6 Consensus size: 24
34820818 CAGCTCGAAA
*
34820828 GAGCATCTCGTTATTAGCTCTCAT
1 GAGCATCCCGTTATTAGCTCTCAT
* *
34820852 GAGCATCCCGATATTTCGCTCTCAT
1 GAGCATCCCGTTA-TTAGCTCTCAT
*
34820877 GAGCTTCCCGTTAT
1 GAGCATCCCGTTAT
34820891 ATGGTTCTTG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
24 12 0.36
25 21 0.64
ACGTcount: A:0.19, C:0.29, G:0.17, T:0.35
Consensus pattern (24 bp):
GAGCATCCCGTTATTAGCTCTCAT
Found at i:34821097 original size:24 final size:25
Alignment explanation
Indices: 34821070--34821150 Score: 83
Period size: 25 Copynumber: 3.3 Consensus size: 25
34821060 TTCCCGATAT
*
34821070 TGGCTCGCTTGAACTTCCTGTTA-A
1 TGGCTCGCTTGAGCTTCCTGTTACA
* * **
34821094 TGGCTCTCTGGAGCTTCCCATTACA
1 TGGCTCGCTTGAGCTTCCTGTTACA
* * *
34821119 TGGCTCACATGAGCTTCCTGTTATA
1 TGGCTCGCTTGAGCTTCCTGTTACA
34821144 TGGCTCG
1 TGGCTCG
34821151 AAAGAGCTTC
Statistics
Matches: 44, Mismatches: 12, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
24 18 0.41
25 26 0.59
ACGTcount: A:0.16, C:0.27, G:0.22, T:0.35
Consensus pattern (25 bp):
TGGCTCGCTTGAGCTTCCTGTTACA
Found at i:34821182 original size:25 final size:25
Alignment explanation
Indices: 34821056--34821187 Score: 76
Period size: 25 Copynumber: 5.3 Consensus size: 25
34821046 TGTCTCTCCG
* **
34821056 GAGCTTCCCGATAT-TGGCTCGCTT
1 GAGCTTCCCGTTATATGGCTCGAAT
* * **
34821080 GAACTTCCTGTTA-ATGGCTC-TCT
1 GAGCTTCCCGTTATATGGCTCGAAT
* *
34821103 GGAGCTTCCCATTACATGGCTC-ACAT
1 -GAGCTTCCCGTTATATGGCTCGA-AT
* *
34821129 GAGCTTCCTGTTATATGGCTCGAAA
1 GAGCTTCCCGTTATATGGCTCGAAT
* *
34821154 GAGCTTCCCGCT-TATGTGCTCGTAT
1 GAGCTTCCCGTTATATG-GCTCGAAT
34821179 GAGCATTCC
1 GAGC-TTCC
34821188 TGAATATGAA
Statistics
Matches: 83, Mismatches: 18, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
23 1 0.01
24 30 0.36
25 46 0.55
26 6 0.07
ACGTcount: A:0.18, C:0.27, G:0.22, T:0.33
Consensus pattern (25 bp):
GAGCTTCCCGTTATATGGCTCGAAT
Found at i:34825625 original size:16 final size:17
Alignment explanation
Indices: 34825595--34825633 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
34825585 TAGGCACCAC
*
34825595 TATTTTTTAATAAATTT
1 TATTTTTTAATAAATAT
34825612 TATTTTTTAA-AAATAT
1 TATTTTTTAATAAATAT
34825628 TATTTT
1 TATTTT
34825634 ATTAGTGGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TATTTTTTAATAAATAT
Found at i:34825993 original size:31 final size:33
Alignment explanation
Indices: 34825925--34825993 Score: 79
Period size: 31 Copynumber: 2.1 Consensus size: 33
34825915 GGTCGGTAGT
* * *
34825925 GAAAAAAAAAGAGGGAAAGAAAGGAGAGGAAGGA
1 GAAAAAAAAAGAGGAAAAGAAA-GAGAAGAAGAA
*
34825959 GAAAAAAGAA-AGGAAAAGAAA-AGAAGAAGAA
1 GAAAAAAAAAGAGGAAAAGAAAGAGAAGAAGAA
34825990 GAAA
1 GAAA
34825994 TAAATAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
31 12 0.39
33 10 0.32
34 9 0.29
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (33 bp):
GAAAAAAAAAGAGGAAAAGAAAGAGAAGAAGAA
Found at i:34826064 original size:17 final size:17
Alignment explanation
Indices: 34826044--34826081 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
34826034 TTTTTTTTTA
*
34826044 ATTTAAAGGGATTAGTT
1 ATTTAAAGAGATTAGTT
34826061 ATTTAAAGAGATTAGTT
1 ATTTAAAGAGATTAGTT
34826078 ATTT
1 ATTT
34826082 TTTTGTATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.18, T:0.45
Consensus pattern (17 bp):
ATTTAAAGAGATTAGTT
Found at i:34826283 original size:101 final size:102
Alignment explanation
Indices: 34826162--34826647 Score: 511
Period size: 112 Copynumber: 4.6 Consensus size: 102
34826152 TTATTTTGTT
34826162 TTATAAATTGTTTGTGTTTAGTTTAGTGTT-TTGTGAATTTTTATGAATGTAAATTTTTTTAAAT
1 TTATAAATTGTTTGTGTTTAGTTTAGTGTTATTGTGAATTTTTATGAATGTAAATTTTTTTAAAT
* *
34826226 TATTTTAAAGTCATTTTGTTAGTAATTTATGATTAAG
66 TATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
* * *
34826263 TTATAAATTGTTTGTATTTAGTTTAGTTTAATATTTATTGTGATTTTTTATGAATGTAAAATTTT
1 TTATAAATTGTTTG----T-GTTTAGTTTAGT-GTTATTGTGAATTTTTATGAATGT--AA----
* * *
34826328 ATGTTTTTTTAAATTATTTGAAAGTTATTTTGTTAGTAATTTTATAATTATG
54 A--TTTTTTTAAATTATTTTAAAGTTATTTTGTTAGTAA-TTTATGATTAGG
* * *
34826380 CTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAAT-TCAATTTTTTT-AA
1 TTATAAATTGTTTGTGTTTAGTTTAGTG-TTATTGTGAATTTTTATGAATGTAAATTTTTTTAAA
*
34826443 TTATTTTAAAGTTATTTTGTTAGGAATTTATGATTAGG
65 TTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
* * *
34826481 TTATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGACTTTTTATAAATGTAATTTTTTGTGTG
1 TTATAAATTGTTTGTGTTTAGTTTAGTG-TTATTGTGAATTTTTATGAATGTAA--------AT-
34826546 TTTTTTAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
56 TTTTTTAAATTATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
* *
34826593 TTATAAATT-ATT-TGTTTAGTTTAATGTGTATTGTG-ATTTGTTAT-AATGT-AATTTT
1 TTATAAATTGTTTGTGTTTAGTTTAGTGT-TATTGTGAATTT-TTATGAATGTAAATTTT
34826648 ATTTTTTTAT
Statistics
Matches: 330, Mismatches: 25, Indels: 62
0.79 0.06 0.15
Matches are distributed among these distances:
99 3 0.01
100 1 0.00
101 71 0.22
102 28 0.08
103 7 0.02
105 2 0.01
106 11 0.03
107 2 0.01
108 20 0.06
109 10 0.03
110 27 0.08
111 9 0.03
112 80 0.24
113 1 0.00
114 1 0.00
116 34 0.10
117 23 0.07
ACGTcount: A:0.27, C:0.01, G:0.15, T:0.57
Consensus pattern (102 bp):
TTATAAATTGTTTGTGTTTAGTTTAGTGTTATTGTGAATTTTTATGAATGTAAATTTTTTTAAAT
TATTTTAAAGTTATTTTGTTAGTAATTTATGATTAGG
Found at i:34826447 original size:218 final size:213
Alignment explanation
Indices: 34826163--34826663 Score: 661
Period size: 218 Copynumber: 2.3 Consensus size: 213
34826153 TATTTTGTTT
*
34826163 TATAAATTGTTTGTGTTTAGTTTAGTG-TT-TTGTGAATTTTTATGAATGTAAATTTTTTTAAAT
1 TATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAAT-TAAATTTTTTT-AAT
*
34826226 TATTTTAAAGTCATTTTGTTAGTAATTTATGATTAAGTTATAAATTGTTTGTATTTAGTTTAGTT
64 TATTTTAAAGTCATTTTGTTAGGAATTTATGATTAAGTTATAAATTGTTTG----T-GTTTAGTT
* *
34826291 TAATATTTATTGTGATTTTTTATGAATGTAAAATTTTATGT-TTTTTTAAATTATTTGAAAGTTA
124 TAATATTTATTGTGACTTTTTATAAATGTAAAATTTTATGTGTTTTTTAAATTATTTGAAAGTTA
*
34826355 TTTTGTTAGTAATTTTATAATTATGC
189 TTTTGTTAGTAA-TTTATAATTAGGC
*
34826381 TATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATTCAATTTTTTTAATTA
1 TATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATTAAATTTTTTTAATTA
* * * *
34826446 TTTTAAAGTTATTTTGTTAGGAATTTATGATTAGGTTATAAATTGTTTGTGTTTAGTTTAGTGTT
66 TTTTAAAGTCATTTTGTTAGGAATTTATGATTAAGTTATAAATTGTTTGTGTTTAGTTTAATATT
** * *
34826511 TATTGTGACTTTTTATAAATGTAATTTTTTGTGTGTTTTTTAAATTATTTTAAAGTTATTTTGTT
131 TATTGTGACTTTTTATAAATGTAAAATTTTATGTGTTTTTTAAATTATTTGAAAGTTATTTTGTT
* *
34826576 AGTAATTTATGATTAGGT
196 AGTAATTTATAATTAGGC
* * * **
34826594 TATAAATT-ATT-TGTTTAGTTTAATGTGTATTGTGATTTGTTATAATGTAATTTTATTTTTTTA
1 TATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTT-TT-T-ATG-AATTAAATTTTTTTA
*
34826657 TTTATTT
62 ATTATTT
34826664 GACAATTTTT
Statistics
Matches: 254, Mismatches: 22, Indels: 17
0.87 0.08 0.06
Matches are distributed among these distances:
211 25 0.10
212 4 0.02
213 61 0.24
214 38 0.15
215 19 0.07
218 78 0.31
219 12 0.05
220 17 0.07
ACGTcount: A:0.27, C:0.01, G:0.14, T:0.58
Consensus pattern (213 bp):
TATAAATTGTTTGTGTTTAGTTTAGTGTTTATTGTGATTTTTTATGAATTAAATTTTTTTAATTA
TTTTAAAGTCATTTTGTTAGGAATTTATGATTAAGTTATAAATTGTTTGTGTTTAGTTTAATATT
TATTGTGACTTTTTATAAATGTAAAATTTTATGTGTTTTTTAAATTATTTGAAAGTTATTTTGTT
AGTAATTTATAATTAGGC
Found at i:34828468 original size:32 final size:32
Alignment explanation
Indices: 34828418--34828485 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
34828408 AAAAAATAAA
*
34828418 TAAGGAGGACTTACAAGGCAATTAGCCACATT
1 TAAGAAGGACTTACAAGGCAATTAGCCACATT
*
34828450 TAAGAAGGGCTTACAAGGCAATTAGCCACATT
1 TAAGAAGGACTTACAAGGCAATTAGCCACATT
34828482 TAAG
1 TAAG
34828486 GTTTGTATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.22
Consensus pattern (32 bp):
TAAGAAGGACTTACAAGGCAATTAGCCACATT
Found at i:34830904 original size:43 final size:43
Alignment explanation
Indices: 34830847--34830965 Score: 161
Period size: 43 Copynumber: 2.8 Consensus size: 43
34830837 AATGCCATCA
* *
34830847 TCCCAGACGTGGTCTTATATGTAATCACATATCGATGCC-ACTG
1 TCCCAGACGTGGTCTTACACGTAATCACATATCGATGCCGAC-G
*
34830890 TCCCAGACAG-GGTCTTACACGTAATCAGATATCGATGCCGACG
1 TCCCAGAC-GTGGTCTTACACGTAATCACATATCGATGCCGACG
* *
34830933 TCCCAGACGTGGTCTTACACGAAAACACATATC
1 TCCCAGACGTGGTCTTACACGTAATCACATATC
34830966 AGAGTCCTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
42 1 0.01
43 63 0.94
44 3 0.04
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (43 bp):
TCCCAGACGTGGTCTTACACGTAATCACATATCGATGCCGACG
Found at i:34831892 original size:28 final size:28
Alignment explanation
Indices: 34831852--34831908 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
34831842 TATGTTTGTT
34831852 TTTATTATAATAA-CTTTATAATATATTA
1 TTTATTATAATAACCTTTATAAT-TATTA
*
34831880 TTTATTATTATAACCTTTATAATTATTA
1 TTTATTATAATAACCTTTATAATTATTA
34831908 T
1 T
34831909 AAAAACTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 18 0.67
29 9 0.33
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (28 bp):
TTTATTATAATAACCTTTATAATTATTA
Found at i:34832119 original size:14 final size:15
Alignment explanation
Indices: 34832100--34832129 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
34832090 TAACGAAGCT
34832100 TTCACACAT-ATAAA
1 TTCACACATAATAAA
34832114 TTCACACATAATAAA
1 TTCACACATAATAAA
34832129 T
1 T
34832130 ACAGAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:34835804 original size:25 final size:26
Alignment explanation
Indices: 34835776--34835824 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
34835766 ATAAGCATTA
* *
34835776 AACTAAATAAATAA-TTTATAATAGT
1 AACTAAAAAAATAACTTTAAAATAGT
34835801 AACTAAAAAAATAACTTTAAAATA
1 AACTAAAAAAATAACTTTAAAATA
34835825 AATTAAAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.61, C:0.06, G:0.02, T:0.31
Consensus pattern (26 bp):
AACTAAAAAAATAACTTTAAAATAGT
Found at i:34837668 original size:16 final size:16
Alignment explanation
Indices: 34837647--34837679 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
34837637 AAAAATGGCT
34837647 CTAAAAATTTGAGGCC
1 CTAAAAATTTGAGGCC
34837663 CTAAAAATTTGAGGCC
1 CTAAAAATTTGAGGCC
34837679 C
1 C
34837680 ACCAATGGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.24
Consensus pattern (16 bp):
CTAAAAATTTGAGGCC
Found at i:34837738 original size:13 final size:13
Alignment explanation
Indices: 34837720--34837744 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34837710 TCTTCATTGC
34837720 TTTTGAAAAATGT
1 TTTTGAAAAATGT
34837733 TTTTGAAAAATG
1 TTTTGAAAAATG
34837745 CTGTGGAAAA
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:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (13 bp):
TTTTGAAAAATGT
Found at i:34837779 original size:26 final size:26
Alignment explanation
Indices: 34837717--34837782 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
34837707 AGTTCTTCAT
**
34837717 TGCTTTTGAAAAATGTTTTTGAAAAA
1 TGCTTTTGAAAAATACTTTTGAAAAA
* * * * *
34837743 TGCTGTGGAAAAGTACTTTTGAGAAG
1 TGCTTTTGAAAAATACTTTTGAAAAA
34837769 TGCTTTTGAAAAAT
1 TGCTTTTGAAAAAT
34837783 TTGAGTTTGG
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (26 bp):
TGCTTTTGAAAAATACTTTTGAAAAA
Found at i:34838008 original size:17 final size:18
Alignment explanation
Indices: 34837995--34838054 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
34837985 TTAATTAATA
34837995 TTAATTAG-TTATTAAAT
1 TTAATTAGATTATTAAAT
34838012 TTAATTAGATTATATAAAT
1 TTAATTAGATTAT-TAAAT
* * *
34838031 TATATTTAAATTTTTAAAT
1 T-TAATTAGATTATTAAAT
*
34838050 ATAAT
1 TTAAT
34838055 AATTAAATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
17 8 0.23
18 7 0.20
19 11 0.31
20 9 0.26
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (18 bp):
TTAATTAGATTATTAAAT
Found at i:34839893 original size:7 final size:7
Alignment explanation
Indices: 34839883--34839915 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
34839873 TAATTCATGT
34839883 TTAATTA
1 TTAATTA
34839890 TTAATTA
1 TTAATTA
34839897 TTAATTA
1 TTAATTA
34839904 TTAATTA
1 TTAATTA
34839911 TTAAT
1 TTAAT
34839916 ATAAAGATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
TTAATTA
Found at i:34854959 original size:29 final size:29
Alignment explanation
Indices: 34854926--34854992 Score: 107
Period size: 29 Copynumber: 2.3 Consensus size: 29
34854916 AATCTGATTT
*
34854926 CATTCATAAGTGAATAATGGCATAATGCC
1 CATTCATAAGTGAATAATGGAATAATGCC
34854955 CATTCATAAGTGAATAATGGAATAATGCC
1 CATTCATAAGTGAATAATGGAATAATGCC
* *
34854984 AATACATAA
1 CATTCATAA
34854993 AACCAAGCAC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (29 bp):
CATTCATAAGTGAATAATGGAATAATGCC
Found at i:34857389 original size:25 final size:24
Alignment explanation
Indices: 34857361--34857416 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 24
34857351 TGTGAAATAA
*
34857361 CATGAGCACAAAAGTGATAAGATAT
1 CATGAGCACAAAAATGATAAGA-AT
* * *
34857386 CATGAACACAAAAATGCTAATAAT
1 CATGAGCACAAAAATGATAAGAAT
34857410 CATGAGC
1 CATGAGC
34857417 GCCGAAGTAC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 8 0.31
25 18 0.69
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.20
Consensus pattern (24 bp):
CATGAGCACAAAAATGATAAGAAT
Found at i:34859288 original size:19 final size:20
Alignment explanation
Indices: 34859264--34859318 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
34859254 GAATTATAGT
34859264 GATACCAAAAATTCTAAAG-
1 GATACCAAAAATTCTAAAGC
* * *
34859283 GATACCAATATTTCTAATGC
1 GATACCAAAAATTCTAAAGC
*
34859303 AATACCAAAAATTCTA
1 GATACCAAAAATTCTA
34859319 TAGAATACAA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.47, C:0.18, G:0.07, T:0.27
Consensus pattern (20 bp):
GATACCAAAAATTCTAAAGC
Found at i:34859309 original size:20 final size:20
Alignment explanation
Indices: 34859265--34859338 Score: 64
Period size: 19 Copynumber: 3.8 Consensus size: 20
34859255 AATTATAGTG
* * *
34859265 ATACCAAAAATTCTAA-AGG
1 ATACCAATATTTCTAATAGA
34859284 ATACCAATATTTCTAAT-GCA
1 ATACCAATATTTCTAATAG-A
* *
34859304 ATACCAAAAATTCT-ATAGA
1 ATACCAATATTTCTAATAGA
*
34859323 ATACAAATATTTCTAA
1 ATACCAATATTTCTAA
34859339 CATAAACAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
19 29 0.67
20 14 0.33
ACGTcount: A:0.49, C:0.16, G:0.05, T:0.30
Consensus pattern (20 bp):
ATACCAATATTTCTAATAGA
Found at i:34861098 original size:6 final size:6
Alignment explanation
Indices: 34861087--34861130 Score: 52
Period size: 6 Copynumber: 7.0 Consensus size: 6
34861077 TTTAGCCATT
* *
34861087 TTTTTA TTTTTA TTTTAATA TTTTTA TTTTTA ATTTAA TTTTTA
1 TTTTTA TTTTTA TTTT--TA TTTTTA TTTTTA TTTTTA TTTTTA
34861131 CATTCTAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
6 26 0.81
8 6 0.19
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (6 bp):
TTTTTA
Found at i:34861110 original size:20 final size:19
Alignment explanation
Indices: 34861086--34861129 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
34861076 ATTTAGCCAT
*
34861086 TTTTTTATTTTTATTTTAA
1 TTTTTTATTTTTAATTTAA
34861105 TATTTTTATTTTTAATTTAA
1 T-TTTTTATTTTTAATTTAA
34861125 TTTTT
1 TTTTT
34861130 ACATTCTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTTTATTTTTAATTTAA
Found at i:34864439 original size:4 final size:4
Alignment explanation
Indices: 34864430--34864456 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
34864420 AAACCTTATT
34864430 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
34864457 TCTACAGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:34868210 original size:19 final size:20
Alignment explanation
Indices: 34868174--34868228 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
34868164 TTTGTTTAGT
*
34868174 TATTTATT-TATTATTTTTAA
1 TATTTATTAT-TTATTTTGAA
34868194 TATTTATTATTTATTTTGAA
1 TATTTATTATTTATTTTGAA
*
34868214 -ATTTCTTATTT-TTTT
1 TATTTATTATTTATTTT
34868229 CTAAATCTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 4 0.12
19 10 0.31
20 17 0.53
21 1 0.03
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (20 bp):
TATTTATTATTTATTTTGAA
Found at i:34868234 original size:19 final size:18
Alignment explanation
Indices: 34868175--34868239 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 18
34868165 TTGTTTAGTT
*
34868175 ATTTATTTATTATTTTTAA
1 ATTTA-TTATTTTTTTTAA
*
34868194 TATTTATTATTTATTTTGAA
1 -ATTTATTATTT-TTTTTAA
*
34868214 ATTTCTTATTTTTTTCTAA
1 ATTTATTATTTTTTT-TAA
*
34868233 ATCTATT
1 ATTTATT
34868240 TGGTTTTTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
18 4 0.11
19 22 0.59
20 11 0.30
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.66
Consensus pattern (18 bp):
ATTTATTATTTTTTTTAA
Found at i:34876529 original size:29 final size:28
Alignment explanation
Indices: 34876463--34876529 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 28
34876453 GCTGTCTCTG
*
34876463 AAAGAAAGCCATTTTGGCGATCTCTATT
1 AAAGAAAGCCATTTTGGAGATCTCTATT
*
34876491 AAATAGAAGCC-TTTATGGAGATCTCTATT
1 AAAGA-AAGCCATTT-TGGAGATCTCTATT
34876520 ATAAGAAAGC
1 A-AAGAAAGC
34876530 TTTTGTGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
28 7 0.21
29 23 0.70
30 3 0.09
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (28 bp):
AAAGAAAGCCATTTTGGAGATCTCTATT
Found at i:34876650 original size:25 final size:25
Alignment explanation
Indices: 34876615--34876663 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
34876605 AAACGAATAG
* *
34876615 CTTTGTGGCTATCTCCGTTAAATGC
1 CTTTGTAGCTATCTCAGTTAAATGC
34876640 CTTTGTAGCTATCTCAGTTAAATG
1 CTTTGTAGCTATCTCAGTTAAATG
34876664 AATGCCTTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.41
Consensus pattern (25 bp):
CTTTGTAGCTATCTCAGTTAAATGC
Found at i:34876651 original size:54 final size:54
Alignment explanation
Indices: 34876586--34876692 Score: 135
Period size: 54 Copynumber: 2.0 Consensus size: 54
34876576 ATAAGGAAGT
* * * *
34876586 CTTTGTGGCTATCCCTGTTAAACGAATAG-CTTTGTGGCTATCTCCGTTAAATGC
1 CTTTGTAGCTATCCCAGTTAAACGAAT-GCCTTCGTGACTATCTCCGTTAAATGC
* * *
34876640 CTTTGTAGCTATCTCAGTTAAATGAATGCCTTCGTGACTATCTCTGTTAAATG
1 CTTTGTAGCTATCCCAGTTAAACGAATGCCTTCGTGACTATCTCCGTTAAATG
34876693 GGTGCATTTG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
53 1 0.02
54 44 0.98
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.38
Consensus pattern (54 bp):
CTTTGTAGCTATCCCAGTTAAACGAATGCCTTCGTGACTATCTCCGTTAAATGC
Found at i:34876709 original size:29 final size:29
Alignment explanation
Indices: 34876586--34876776 Score: 153
Period size: 29 Copynumber: 6.8 Consensus size: 29
34876576 ATAAGGAAGT
* *
34876586 CTTTGTGGCTATCCCTGTTAAACGAATAG-
1 CTTTGTGGCTATCTCTGTTAAATGAAT-GC
*
34876615 CTTTGTGGCTATCTCCGTT--A--AATGC
1 CTTTGTGGCTATCTCTGTTAAATGAATGC
* *
34876640 CTTTGTAGCTATCTCAGTTAAATGAATGC
1 CTTTGTGGCTATCTCTGTTAAATGAATGC
* * **
34876669 CTTCGTGACTATCTCTGTTAAATGGGTGC
1 CTTTGTGGCTATCTCTGTTAAATGAATGC
* * * *
34876698 ATTTGTGGCTATCTTTGTTAAAAGGATGC
1 CTTTGTGGCTATCTCTGTTAAATGAATGC
* * * **
34876727 CTTTGTAGCCATCTCTATTAAGGGAATGC
1 CTTTGTGGCTATCTCTGTTAAATGAATGC
34876756 C-TTGTGGC-ATACTCTGTTAAA
1 CTTTGTGGCTAT-CTCTGTTAAA
34876777 AGGACACCTT
Statistics
Matches: 129, Mismatches: 27, Indels: 13
0.76 0.16 0.08
Matches are distributed among these distances:
24 1 0.01
25 20 0.16
27 4 0.03
28 14 0.11
29 90 0.70
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.38
Consensus pattern (29 bp):
CTTTGTGGCTATCTCTGTTAAATGAATGC
Found at i:34877077 original size:20 final size:21
Alignment explanation
Indices: 34877031--34877078 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
34877021 CCTGAAGATA
34877031 ATGATAAGATTAGTAAGTATG
1 ATGATAAGATTAGTAAGTATG
*
34877052 --GAATAAGA-TATTAAGTATG
1 ATG-ATAAGATTAGTAAGTATG
34877071 ATGATAAG
1 ATGATAAG
34877079 GTAAATGAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
19 11 0.48
20 11 0.48
21 1 0.04
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (21 bp):
ATGATAAGATTAGTAAGTATG
Found at i:34877229 original size:23 final size:23
Alignment explanation
Indices: 34877199--34877245 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
34877189 AAGAAATGTG
*
34877199 ATAGTCTTAGTATTGTACCTGCC
1 ATAGTCTTAGTATTGTACCAGCC
34877222 ATAGTCTTAGTATTGTACCAGCC
1 ATAGTCTTAGTATTGTACCAGCC
34877245 A
1 A
34877246 AAGAAGGGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (23 bp):
ATAGTCTTAGTATTGTACCAGCC
Found at i:34881555 original size:50 final size:50
Alignment explanation
Indices: 34881444--34881691 Score: 225
Period size: 50 Copynumber: 4.9 Consensus size: 50
34881434 GTTAGGGTAA
*
34881444 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC---GAG---ATG
* *
34881500 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCATCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATG
** * * * *
34881550 AGAGGTCCCCCGTAAGACCATGTATGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATG
** * * * *
34881600 AGAACTCCCATGTAAGACCATATTTGGGATATGGAATTGGCAGTAC-A-A-G
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-T-CGAGATG
* **
34881649 AAACATCCCATGTAAGACCATGTCTGGGACATGG-ATTTGGCAT
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCA-TTGGCAT
34881692 GTTATTATCA
Statistics
Matches: 162, Mismatches: 27, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
48 2 0.01
49 35 0.22
50 79 0.49
51 1 0.01
52 1 0.01
53 3 0.02
56 41 0.25
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATG
Found at i:34887176 original size:14 final size:14
Alignment explanation
Indices: 34887157--34887186 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
34887147 TGTGCCAAGA
34887157 ATACATGCTTTAAT
1 ATACATGCTTTAAT
*
34887171 ATACATTCTTTAAT
1 ATACATGCTTTAAT
34887185 AT
1 AT
34887187 GGAAATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.13, G:0.03, T:0.47
Consensus pattern (14 bp):
ATACATGCTTTAAT
Found at i:34887476 original size:10 final size:10
Alignment explanation
Indices: 34887461--34887485 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
34887451 ATTATTGTAA
34887461 ATATAATATC
1 ATATAATATC
34887471 ATATAATATC
1 ATATAATATC
34887481 ATATA
1 ATATA
34887486 TTAATTGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (10 bp):
ATATAATATC
Found at i:34888816 original size:6 final size:6
Alignment explanation
Indices: 34888805--34888837 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
34888795 AAAAATTATA
*
34888805 AAAATT AAAATT -AAATC AAAATT AAAATT AAAA
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAA
34888838 AATATAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 4 0.17
6 20 0.83
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (6 bp):
AAAATT
Found at i:34888866 original size:22 final size:21
Alignment explanation
Indices: 34888833--34888874 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
34888823 AAATTAAAAT
*
34888833 TAAAAAATATAAAAAATTTCA
1 TAAAAAAAATAAAAAATTTCA
*
34888854 TAAAATAAAATAAAAAGTTTC
1 TAAAA-AAAATAAAAAATTTC
34888875 GAGTACACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (21 bp):
TAAAAAAAATAAAAAATTTCA
Found at i:34889430 original size:43 final size:43
Alignment explanation
Indices: 34889382--34889603 Score: 166
Period size: 43 Copynumber: 5.2 Consensus size: 43
34889372 ACGTCGCTAA
*
34889382 CTTTAGCGGCGTTTTTCACAAAAACGCCGCTAAAGATCATGGT
1 CTTTAGCGGCGTTTTTCACAAAAACGCCGCTAAAGATCATGGC
* * ** *
34889425 CTTTAGCGGCGCTTTTAACGCAAACGCCGCTAAAGATCATGAC
1 CTTTAGCGGCGTTTTTCACAAAAACGCCGCTAAAGATCATGGC
* * * *
34889468 ATTTAACGGTAC-TTTTGC-CACAAACGCCGCTAAAGATCATGGC
1 CTTTAGCGG--CGTTTTTCACAAAAACGCCGCTAAAGATCATGGC
* * * * *
34889511 CTTCAGCGGCGCTTATACTACAAATA--CCGCTAAAGATCATGAC
1 CTTTAGCGGCG-TTTTTC-ACAAAAACGCCGCTAAAGATCATGGC
* ** * * * *
34889554 CTTTAGCAGCGCTTTGGC-CACAAACGTCGCTAAAAATCATGAC
1 CTTTAGCGGCG-TTTTTCACAAAAACGCCGCTAAAGATCATGGC
34889597 CTTTAGC
1 CTTTAGC
34889604 TTCTAGAACA
Statistics
Matches: 141, Mismatches: 30, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
41 5 0.04
43 128 0.91
44 3 0.02
45 5 0.04
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (43 bp):
CTTTAGCGGCGTTTTTCACAAAAACGCCGCTAAAGATCATGGC
Found at i:34889502 original size:86 final size:86
Alignment explanation
Indices: 34889403--34889603 Score: 251
Period size: 86 Copynumber: 2.3 Consensus size: 86
34889393 TTTTTCACAA
* * * *
34889403 AAACGCCGCTAAAGATCATGGTCTTTAGCGGCGCTTTTAAC-GCAAACGCCGCTAAAGATCATGA
1 AAACGCCGCTAAAGATCATGGCCTTTAGCGGCGCTTAT-ACTACAAACACCGCTAAAGATCATGA
* * *
34889467 CATTTAACGGTACTTTTGCCAC
65 CATTTAACAGCACTTTGGCCAC
* *
34889489 AAACGCCGCTAAAGATCATGGCCTTCAGCGGCGCTTATACTACAAATACCGCTAAAGATCATGAC
1 AAACGCCGCTAAAGATCATGGCCTTTAGCGGCGCTTATACTACAAACACCGCTAAAGATCATGAC
* * *
34889554 CTTTAGCAGCGCTTTGGCCAC
66 ATTTAACAGCACTTTGGCCAC
* * *
34889575 AAACGTCGCTAAAAATCATGACCTTTAGC
1 AAACGCCGCTAAAGATCATGGCCTTTAGC
34889604 TTCTAGAACA
Statistics
Matches: 98, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
85 2 0.02
86 96 0.98
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (86 bp):
AAACGCCGCTAAAGATCATGGCCTTTAGCGGCGCTTATACTACAAACACCGCTAAAGATCATGAC
ATTTAACAGCACTTTGGCCAC
Found at i:34890745 original size:47 final size:46
Alignment explanation
Indices: 34890691--34890782 Score: 121
Period size: 46 Copynumber: 2.0 Consensus size: 46
34890681 CCCTACATGT
*
34890691 GCCATCATGTCAGATGTAGAAAAGGCTTAATATGTAATGATAAAAAG
1 GCCATCAT-TCAGATGTAGAAAAGGCTTAATATGTAATGACAAAAAG
**** *
34890738 GCCATCATTTTTTTGTGGAAAAGGCTTAATATGTAATGACAAAAA
1 GCCATCATTCAGATGTAGAAAAGGCTTAATATGTAATGACAAAAA
34890783 TGGAAGCAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
46 31 0.79
47 8 0.21
ACGTcount: A:0.40, C:0.11, G:0.20, T:0.29
Consensus pattern (46 bp):
GCCATCATTCAGATGTAGAAAAGGCTTAATATGTAATGACAAAAAG
Found at i:34893907 original size:40 final size:39
Alignment explanation
Indices: 34893863--34894010 Score: 161
Period size: 40 Copynumber: 3.7 Consensus size: 39
34893853 TTATTTTTGC
* * * *
34893863 GGCGTTTTTAAAATAACACTGCTAAAGCTCAATCTATAGT
1 GGCGTTTTTAAAA-AACGCCGCTAATGCTCGATCTATAGT
* *
34893903 GGCGTTTCTTCAAAAACGCCGCTAATGCTCGATCTATAGC
1 GGCGTTT-TTAAAAAACGCCGCTAATGCTCGATCTATAGT
* * *
34893943 AGCATTTTTTAAAAAGCGCCGCTAATGCTCGATCTATAGT
1 GGC-GTTTTTAAAAAACGCCGCTAATGCTCGATCTATAGT
* *
34893983 GGCGTTTTTTAAAAAGCGCCACTAATGC
1 GGCG-TTTTTAAAAAACGCCGCTAATGC
34894011 CTTGTATTTT
Statistics
Matches: 91, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
40 83 0.91
41 8 0.09
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (39 bp):
GGCGTTTTTAAAAAACGCCGCTAATGCTCGATCTATAGT
Found at i:34894545 original size:15 final size:15
Alignment explanation
Indices: 34894506--34894547 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
34894496 CCTTAAACCG
*
34894506 TAATCCCT-AATCCA
1 TAATCCCTAAACCCA
34894520 TAATCCCTAAACCCA
1 TAATCCCTAAACCCA
* *
34894535 TACTCCTTAAACC
1 TAATCCCTAAACC
34894548 TTAAAATAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 8 0.33
15 16 0.67
ACGTcount: A:0.36, C:0.38, G:0.00, T:0.26
Consensus pattern (15 bp):
TAATCCCTAAACCCA
Found at i:34895031 original size:82 final size:82
Alignment explanation
Indices: 34894893--34895046 Score: 254
Period size: 82 Copynumber: 1.9 Consensus size: 82
34894883 TAAAAAAATT
* * *
34894893 TTAGCAGCGCTTTTTCAAAAACGCCGCTAAAGCACCTAGCATTAGCGGCGCTTTTTCAAAAACGC
1 TTAGCAGCGCTTTTCCAAAAACGCCGCTAAAGCACCGAGCATTAGCGGCGCATTTTCAAAAACGC
34894958 CGCTAAAACACAAAGCA
66 CGCTAAAACACAAAGCA
* * *
34894975 TTAGCAGCGCTTTTCCAAAAACGCCGCTAAATCCCCGAGCATTAGTGGCGCATTTTCAAAAACGC
1 TTAGCAGCGCTTTTCCAAAAACGCCGCTAAAGCACCGAGCATTAGCGGCGCATTTTCAAAAACGC
34895040 CGCTAAA
66 CGCTAAA
34895047 GCCCCGAAAG
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
82 66 1.00
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (82 bp):
TTAGCAGCGCTTTTCCAAAAACGCCGCTAAAGCACCGAGCATTAGCGGCGCATTTTCAAAAACGC
CGCTAAAACACAAAGCA
Found at i:34895052 original size:41 final size:41
Alignment explanation
Indices: 34894893--34895053 Score: 214
Period size: 41 Copynumber: 3.9 Consensus size: 41
34894883 TAAAAAAATT
* *
34894893 TTAGCAGCGCTTTTTCAAAAACGCCGCTAAAGCACCTAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCACCGAGCA
* **
34894934 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAACACAAAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCACCGAGCA
* * * *
34894975 TTAGCAGCGCTTTTCCAAAAACGCCGCTAAATCCCCGAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCACCGAGCA
* * *
34895016 TTAGTGGCGCATTTTCAAAAACGCCGCTAAAGCCCCGA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCACCGA
34895054 AAGGTAAGAA
Statistics
Matches: 105, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 105 1.00
ACGTcount: A:0.32, C:0.30, G:0.18, T:0.20
Consensus pattern (41 bp):
TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCACCGAGCA
Found at i:34896755 original size:3 final size:3
Alignment explanation
Indices: 34896747--34896785 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
34896737 GAGGGGTTGT
34896747 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
34896786 ACTCCCAGCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:34897518 original size:17 final size:16
Alignment explanation
Indices: 34897496--34897548 Score: 58
Period size: 13 Copynumber: 3.4 Consensus size: 16
34897486 ATAAAAAACT
34897496 TTTAAATAATTCAATGA
1 TTTAAATAATTCAAT-A
*
34897513 TTTAAATAA---AATT
1 TTTAAATAATTCAATA
34897526 TTTAAATAATTCAATA
1 TTTAAATAATTCAATA
*
34897542 ATTAAAT
1 TTTAAAT
34897549 TGTAACTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
13 9 0.30
14 3 0.10
16 9 0.30
17 9 0.30
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (16 bp):
TTTAAATAATTCAATA
Found at i:34897531 original size:30 final size:31
Alignment explanation
Indices: 34897478--34897548 Score: 101
Period size: 30 Copynumber: 2.3 Consensus size: 31
34897468 AATAACTTAG
34897478 TGATTTAAATAAAAAACTTTTAAATAATTCAA
1 TGATTTAAAT-AAAAACTTTTAAATAATTCAA
*
34897510 TGATTTAAAT-AAAATTTTTAAATAATTCAA
1 TGATTTAAATAAAAACTTTTAAATAATTCAA
*
34897540 T-AATTAAAT
1 TGATTTAAAT
34897549 TGTAACTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
29 7 0.19
30 20 0.54
32 10 0.27
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.41
Consensus pattern (31 bp):
TGATTTAAATAAAAACTTTTAAATAATTCAA
Found at i:34916984 original size:40 final size:40
Alignment explanation
Indices: 34916927--34917016 Score: 110
Period size: 40 Copynumber: 2.3 Consensus size: 40
34916917 ATTGTTAAAT
* *
34916927 CAACCG-AACACATCAGACAAAAGCTCATGAGAGCTAATC
1 CAACCGAAACACACCAGACAAAAGCTCATAAGAGCTAATC
* ** *
34916966 CAACCGAAACACGCCAGACAGTAGCTTATAAGAGCTAATC
1 CAACCGAAACACACCAGACAAAAGCTCATAAGAGCTAATC
*
34917006 CAACTGAAACA
1 CAACCGAAACA
34917017 TGTTGAACCT
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
39 6 0.14
40 37 0.86
ACGTcount: A:0.43, C:0.28, G:0.16, T:0.13
Consensus pattern (40 bp):
CAACCGAAACACACCAGACAAAAGCTCATAAGAGCTAATC
Found at i:34924729 original size:6 final size:6
Alignment explanation
Indices: 34924718--34924749 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
34924708 CCAGGCATTG
34924718 GGGTTA GGGTTA GGGTTA GGGTTA GGGTTA GG
1 GGGTTA GGGTTA GGGTTA GGGTTA GGGTTA GG
34924750 AGGATTTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.16, C:0.00, G:0.53, T:0.31
Consensus pattern (6 bp):
GGGTTA
Found at i:34927656 original size:28 final size:30
Alignment explanation
Indices: 34927598--34927662 Score: 98
Period size: 28 Copynumber: 2.2 Consensus size: 30
34927588 AAAAATGGTC
*
34927598 ATTAAACTATTATCTTCCTTTTATTTTAGTT
1 ATTAAACTATTATCTT-CTTTTAATTTAGTT
34927629 ATTAAACTATTAT-TT-TTTTAATTTAGTT
1 ATTAAACTATTATCTTCTTTTAATTTAGTT
34927657 ATTAAA
1 ATTAAA
34927663 ATTTTTGAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
28 18 0.55
30 2 0.06
31 13 0.39
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.57
Consensus pattern (30 bp):
ATTAAACTATTATCTTCTTTTAATTTAGTT
Found at i:34928805 original size:42 final size:42
Alignment explanation
Indices: 34928691--34928871 Score: 192
Period size: 42 Copynumber: 4.4 Consensus size: 42
34928681 TTTATGTGAA
* * *
34928691 AAAACGCCGCTATAGAACATGACCTTTAGTGGCG-TTTCTTACA
1 AAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTT-TT-CC
* * *
34928734 AAAATGCCGCTATAGAACATGACCTTTAGCGGTGCTTTTTCC
1 AAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTTCC
* *
34928776 AAAACGCCACTAAAGTACATGACCTTTAGCGGCGCTTTTT-C
1 AAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTTCC
* * *
34928817 ACAAA---CGCTTAAGAACATGACCTTTAGCGGCACTTTTCCC
1 A-AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTTCC
*
34928857 AAAATGCCGCTAAAG
1 AAAACGCCGCTAAAG
34928872 GTTATGTTCT
Statistics
Matches: 117, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
39 31 0.26
40 2 0.02
41 2 0.02
42 46 0.39
43 33 0.28
44 3 0.03
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (42 bp):
AAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTTCC
Found at i:34928884 original size:81 final size:80
Alignment explanation
Indices: 34928691--34928895 Score: 207
Period size: 81 Copynumber: 2.5 Consensus size: 80
34928681 TTTATGTGAA
* * * * *
34928691 AAAACGCCGCTATAGAACATGACCTTTAGTGGCGTTTCTTACAAAAATGCCGC-TATAGAACATG
1 AAAACGCCACTAAAGTACATGACCTTTAGCGGCGTTT-TT-CACAAA---CGCTTA-AGAACATG
** *
34928755 ACCTTTAGCGGTGCTTTTTCC
60 ACCTTTAGCGGCACTTTTCCC
34928776 AAAACGCCACTAAAGTACATGACCTTTAGCGGCGCTTTTTCACAAACGCTTAAGAACATGACCTT
1 AAAACGCCACTAAAGTACATGACCTTTAGCGGCG-TTTTTCACAAACGCTTAAGAACATGACCTT
34928841 TAGCGGCACTTTTCCC
65 TAGCGGCACTTTTCCC
* * * **
34928857 AAAATGCCGCTAAAGGT-TATGTTCTTTAGCGGCGTTTTT
1 AAAACGCCACTAAA-GTACATGACCTTTAGCGGCGTTTTT
34928896 AGTAAAAGCG
Statistics
Matches: 104, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
80 5 0.05
81 55 0.53
82 4 0.04
84 5 0.05
85 32 0.31
86 3 0.03
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (80 bp):
AAAACGCCACTAAAGTACATGACCTTTAGCGGCGTTTTTCACAAACGCTTAAGAACATGACCTTT
AGCGGCACTTTTCCC
Found at i:34932001 original size:54 final size:54
Alignment explanation
Indices: 34931919--34932027 Score: 200
Period size: 54 Copynumber: 2.0 Consensus size: 54
34931909 GTAATGGTTT
* *
34931919 AATTGAATCGTTGTGAAAAAGAACATATCGATGTGCTTGTACCCAAGATCTATC
1 AATTGAATCATGGTGAAAAAGAACATATCGATGTGCTTGTACCCAAGATCTATC
34931973 AATTGAATCATGGTGAAAAAGAACATATCGATGTGCTTGTACCCAAGATCTATC
1 AATTGAATCATGGTGAAAAAGAACATATCGATGTGCTTGTACCCAAGATCTATC
34932027 A
1 A
34932028 TCAAAGTGTC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (54 bp):
AATTGAATCATGGTGAAAAAGAACATATCGATGTGCTTGTACCCAAGATCTATC
Found at i:34934580 original size:50 final size:50
Alignment explanation
Indices: 34934465--34934763 Score: 373
Period size: 50 Copynumber: 5.9 Consensus size: 50
34934455 GATAATAACA
* * * ** * *
34934465 TGCCAAAGCCATGTCCTAGACATGGTGTTACATGGGATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTTATCTCGG
* * * **
34934516 TGCCCATGCCATGTCCCAAACATGGTCTTACGGGGGACCTCTTATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
* *
34934566 TGCCAACGCCATGTCCCAGACATGGTCTTACATGTGACCTCTCATCTCGGTGCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT--TATC--T-CGG
* * *
34934621 TGCCAATGCCATGTCCCAGACATGGTCTTACATGTGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
* *
34934671 TGCCAACGCCATGTCCCAGACATGATCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
34934721 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTT
34934764 TACCCAAATG
Statistics
Matches: 217, Mismatches: 26, Indels: 11
0.85 0.10 0.04
Matches are distributed among these distances:
50 136 0.63
51 31 0.14
52 3 0.01
53 2 0.01
54 1 0.00
55 44 0.20
ACGTcount: A:0.20, C:0.31, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
Found at i:34934645 original size:105 final size:100
Alignment explanation
Indices: 34934465--34934763 Score: 400
Period size: 105 Copynumber: 2.9 Consensus size: 100
34934455 GATAATAACA
* * * * ** * *
34934465 TGCCAAAGCCATGTCCTAGACATGGTGTTACATGGGATGTTCTCATATCGGTGCCCATGCCATGT
1 TGCCAACGCCATGTCCCAGACATGATCTTACATGGGA-CCTCTCATCTCGGTGCCAATGCCATGT
* **
34934530 CCCAAACATGGTCTTACGGGGGACCTCTTATCTCGG
65 CCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
* *
34934566 TGCCAACGCCATGTCCCAGACATGGTCTTACATGTGACCTCTCATCTCGGTGCGGTGCCAATGCC
1 TGCCAACGCCATGTCCCAGACATGATCTTACATGGGACCTCTCA--TC--T-CGGTGCCAATGCC
* *
34934631 ATGTCCCAGACATGGTCTTACATGTGACCTCTCATCTCGG
61 ATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
*
34934671 TGCCAACGCCATGTCCCAGACATGATCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTC
1 TGCCAACGCCATGTCCCAGACATGATCTTACATGGGACCTCTCATCTCGGTGCCAATGCCATGTC
34934736 CCAGACATGGTCTTACATGGGACCTCTT
66 CCAGACATGGTCTTACATGGGACCTCTT
34934764 TACCCAAATG
Statistics
Matches: 175, Mismatches: 18, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
100 48 0.27
101 34 0.19
102 1 0.01
103 2 0.01
104 1 0.01
105 89 0.51
ACGTcount: A:0.20, C:0.31, G:0.22, T:0.26
Consensus pattern (100 bp):
TGCCAACGCCATGTCCCAGACATGATCTTACATGGGACCTCTCATCTCGGTGCCAATGCCATGTC
CCAGACATGGTCTTACATGGGACCTCTTATCTCGG
Found at i:34934700 original size:155 final size:156
Alignment explanation
Indices: 34934465--34934762 Score: 454
Period size: 155 Copynumber: 1.9 Consensus size: 156
34934455 GATAATAACA
* * ** * *
34934465 TGCCAAAGCCATGTCCTAGACATGGTGTTACATGGGATGTTCTCATATCGGTGCCCATGCCATGT
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCATATCGGTGCCAACGCCATGT
* * *
34934530 CCCAAACATGGTCTTACGGGGGACCTCTTATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTT
66 CCCAAACATGATCTTACAGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTT
*
34934595 ACATGTGACCTCTCATCTCGGTGCGG
131 ACATGGGACCTCTCATCTCGGTGCGG
* * *
34934621 TGCCAATGCCATGTCCCAGACATGGTCTTACATGTGA-CCTCTCATCTCGGTGCCAACGCCATGT
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCATATCGGTGCCAACGCCATGT
* *
34934685 CCCAGACATGATCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTT
66 CCCAAACATGATCTTACAGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTT
34934750 ACATGGGACCTCT
131 ACATGGGACCTCT
34934763 TTACCCAAAT
Statistics
Matches: 127, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
155 94 0.74
156 33 0.26
ACGTcount: A:0.20, C:0.31, G:0.22, T:0.26
Consensus pattern (156 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCATATCGGTGCCAACGCCATGT
CCCAAACATGATCTTACAGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTT
ACATGGGACCTCTCATCTCGGTGCGG
Found at i:34942206 original size:50 final size:50
Alignment explanation
Indices: 34942092--34942334 Score: 306
Period size: 50 Copynumber: 4.8 Consensus size: 50
34942082 GATAATAACA
* * * ** *
34942092 TGCCAAAGCCATGTCCTAGACATGGTGTTACATGGGATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * **
34942143 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
** * * *
34942193 TTTCAACGCCATGTCCCAAACATGGTCTAACATGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
34942243 TGCCAACACCATGTCCCATACATGGTCTTACATGGGACCTTTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
34942293 TGCCAACGCCATGTCCCAGACATGGTCTTACATAGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
34942335 TTACCCAAAT
Statistics
Matches: 163, Mismatches: 29, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
50 132 0.81
51 31 0.19
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:34945875 original size:20 final size:20
Alignment explanation
Indices: 34945854--34945891 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
34945844 TATCTTAAAT
34945854 TTTAAAAT-AAAAATAAAAA
1 TTTAAAATCAAAAATAAAAA
*
34945873 TTTAGAATCAAAAATAAAA
1 TTTAAAATCAAAAATAAAA
34945892 TAAATAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (20 bp):
TTTAAAATCAAAAATAAAAA
Found at i:34945892 original size:19 final size:18
Alignment explanation
Indices: 34945849--34945905 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 18
34945839 CAAGTTATCT
*
34945849 TAAATTTTAAAATAAAAA
1 TAAAATTTAAAATAAAAA
*
34945867 TAAAAATTTAGAATCAAAAA
1 T-AAAATTTAAAAT-AAAAA
*
34945887 TAAAA-TAAATAATAAAAA
1 TAAAATTTAA-AATAAAAA
34945905 T
1 T
34945906 TGGATTAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
18 9 0.28
19 17 0.53
20 6 0.19
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (18 bp):
TAAAATTTAAAATAAAAA
Found at i:34946253 original size:72 final size:72
Alignment explanation
Indices: 34946163--34946396 Score: 211
Period size: 72 Copynumber: 3.2 Consensus size: 72
34946153 TAATATTACC
* * ** * *
34946163 GAATAAACGATTTTACTTAATATCAAAACTCAATAAATCAAATTAATTTAATC-TTCTCAAAACA
1 GAATAAACGGTTTTACTTAATATCAAAACTCAATAAATCAAACTAAAATAACCTTTCTAAAAACA
*
34946227 TATAACTT
66 CATAA-TT
* * ** * *
34946235 GAATAAACGGTTTTACTTAATACCAAAACTCAATGAATTGAACTAAAATAGCCTTTTTAAAAACA
1 GAATAAACGGTTTTACTTAATATCAAAACTCAATAAATCAAACTAAAATAACCTTTCTAAAAACA
34946300 CATAATT
66 CATAATT
* * * * ** * *
34946307 GAATAAACAGTTCTACTTCATATCAAAATTCAATAAATTGAACTAAATTAA-CTTTTTCAAAAAC
1 GAATAAACGGTTTTACTTAATATCAAAACTCAATAAATCAAACTAAAATAACCTTTCT-AAAAAC
*
34946371 GCATAATT
65 ACATAATT
* * *
34946379 TAACAAGCGGTTTTACTT
1 GAATAAACGGTTTTACTT
34946397 TGTATAACAG
Statistics
Matches: 133, Mismatches: 27, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
71 6 0.05
72 114 0.86
73 13 0.10
ACGTcount: A:0.45, C:0.15, G:0.06, T:0.33
Consensus pattern (72 bp):
GAATAAACGGTTTTACTTAATATCAAAACTCAATAAATCAAACTAAAATAACCTTTCTAAAAACA
CATAATT
Found at i:34946483 original size:99 final size:99
Alignment explanation
Indices: 34946307--34946495 Score: 272
Period size: 99 Copynumber: 1.9 Consensus size: 99
34946297 ACACATAATT
* * *
34946307 GAATAAACAGTTCTACTTCATATCAAAATTCAATAAATTGAACTAAATTAACTTTTTCAAAAACG
1 GAATAAACAGTTCCACTTAATATCAAAACTCAATAAATTGAACTAAATTAACTTTTTCAAAAACG
* *
34946372 CATAATTTAACAAGCGGTTTTACTTTGTATAACA
66 CATAATTGAACAAACGGTTTTACTTTGTATAACA
** *
34946406 GAATAAATGGTTCCACTTAATATCAAAACTCAATAAATTGAACTAAATTAACCTTTTT-AAAAAT
1 GAATAAACAGTTCCACTTAATATCAAAACTCAATAAATTGAACTAAATTAA-CTTTTTCAAAAAC
* *
34946470 TCATAATTGAACAAACGTTTTTACTT
65 GCATAATTGAACAAACGGTTTTACTT
34946496 AATATCAAAT
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
99 73 0.92
100 6 0.08
ACGTcount: A:0.43, C:0.15, G:0.07, T:0.35
Consensus pattern (99 bp):
GAATAAACAGTTCCACTTAATATCAAAACTCAATAAATTGAACTAAATTAACTTTTTCAAAAACG
CATAATTGAACAAACGGTTTTACTTTGTATAACA
Found at i:34946584 original size:71 final size:72
Alignment explanation
Indices: 34946397--34946604 Score: 235
Period size: 71 Copynumber: 2.9 Consensus size: 72
34946387 GGTTTTACTT
* * *
34946397 TGTATAAC-AGAATAAATGGTTCCACTTAATATCAAAACTCAATAAATTGAACTAAATTAACCTT
1 TGTATAACTA-AATAAACGGTTTCACTTAATATCAAAACTTAATAAATTGAACTAAATTAACCTT
*
34946461 TTTAAAAA
65 TCTAAAAA
* * * * * * ** *
34946469 T-TCATAATTGAACAAACGTTTTTACTTAATATC-AAATTTCAATAAATCAAACTAAATTAAGC-
1 TGT-ATAACTAAATAAACGGTTTCACTTAATATCAAAACTT-AATAAATTGAACTAAATTAACCT
34946531 TTCTAAAAA
64 TTCTAAAAA
*
34946540 TGTATAACTAAATAAACGGTTTCGCTTAATATCAAAACTTAATAAATTGAACTAAATTAACCTTT
1 TGTATAACTAAATAAACGGTTTCACTTAATATCAAAACTTAATAAATTGAACTAAATTAACCTTT
34946605 TTTAAAAACA
Statistics
Matches: 107, Mismatches: 23, Indels: 12
0.75 0.16 0.08
Matches are distributed among these distances:
71 57 0.53
72 50 0.47
ACGTcount: A:0.46, C:0.14, G:0.06, T:0.34
Consensus pattern (72 bp):
TGTATAACTAAATAAACGGTTTCACTTAATATCAAAACTTAATAAATTGAACTAAATTAACCTTT
CTAAAAA
Found at i:34946621 original size:243 final size:243
Alignment explanation
Indices: 34946177--34946639 Score: 551
Period size: 243 Copynumber: 1.9 Consensus size: 243
34946167 AAACGATTTT
* * * *
34946177 ACTTAATATCAAAACTCAATAAATCAAATTAATTTAATCTTCTCAAAACATATAACTTGAATAAA
1 ACTTAATATCAAAACTCAATAAATCAAACTAAATTAACCTTCTCAAAACATATAACTTGAACAAA
* ** * *
34946242 CGGTTTTACTTAATACCAAAACTCAATGAATTGAACTAAAATAGCCTTTTTAAAAACACATAATT
66 CGGTTTTACTTAATACCAAAACTCAATAAATCAAACTAAAATAGCCTTTCTAAAAACACATAACT
* * *
34946307 GAATAAACAGTTCTACTTCATATCAAAATTCAATAAATTGAACTAAATTAACTTTTTCAAAAACG
131 AAATAAACAGTTCTACTTAATATCAAAATTCAATAAATTGAACTAAATTAACTTTTTCAAAAACA
* * *
34946372 CATAATTTAACAAGCGGTTTTACTTTGTATAACAGAATAAATGGTTCC
196 CATAATTAAACAAACGATTTTACTTTGTATAACAGAATAAATGGTTCC
** * *
34946420 ACTTAATATCAAAACTCAATAAATTGAACTAAATTAACCTTTTTAAAA-ATTCATAA-TTGAACA
1 ACTTAATATCAAAACTCAATAAATCAAACTAAATTAACCTTCTCAAAACA-T-ATAACTTGAACA
* * ** * ***
34946483 AACGTTTTTACTTAATATCAAATTTCAATAAATCAAACTAAATTAAG-C-TTCTAAAAATGTATA
64 AACGGTTTTACTTAATACCAAAACTCAATAAATCAAACTAAAAT-AGCCTTTCTAAAAACACATA
* * *
34946546 ACTAAATAAACGGTT-TCGCTTAATATCAAAACTT-AATAAATTGAACTAAATTAACCTTTTTTA
128 ACTAAATAAACAGTTCT-ACTTAATATCAAAA-TTCAATAAATTGAACTAAATTAA-CTTTTTCA
*
34946609 AAAACACATAATTAAATAAACGATTTTACTT
190 AAAACACATAATTAAACAAACGATTTTACTT
34946640 GATAATTAAA
Statistics
Matches: 183, Mismatches: 31, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
241 1 0.01
242 56 0.31
243 120 0.66
244 6 0.03
ACGTcount: A:0.46, C:0.15, G:0.06, T:0.34
Consensus pattern (243 bp):
ACTTAATATCAAAACTCAATAAATCAAACTAAATTAACCTTCTCAAAACATATAACTTGAACAAA
CGGTTTTACTTAATACCAAAACTCAATAAATCAAACTAAAATAGCCTTTCTAAAAACACATAACT
AAATAAACAGTTCTACTTAATATCAAAATTCAATAAATTGAACTAAATTAACTTTTTCAAAAACA
CATAATTAAACAAACGATTTTACTTTGTATAACAGAATAAATGGTTCC
Found at i:34949948 original size:48 final size:48
Alignment explanation
Indices: 34949907--34950020 Score: 149
Period size: 48 Copynumber: 2.4 Consensus size: 48
34949897 CAAGTAATTT
**
34949907 AAAGACTAAGAAAGAAAAGGGATGGGATTTT-AGAGTTTCAAGCAAAGA
1 AAAGACTAAGAAAGAAAAGGGACAGGATTTTAAG-GTTTCAAGCAAAGA
* *
34949955 AAAGTCTAGGAAAGAAAAGGGACAGGATTTTAAGGTTTCAAGCAAAGA
1 AAAGACTAAGAAAGAAAAGGGACAGGATTTTAAGGTTTCAAGCAAAGA
* * *
34950003 AATGATTGAGAAAGAAAA
1 AAAGACTAAGAAAGAAAA
34950021 TAATTCGTGC
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
48 54 0.96
49 2 0.04
ACGTcount: A:0.49, C:0.06, G:0.26, T:0.18
Consensus pattern (48 bp):
AAAGACTAAGAAAGAAAAGGGACAGGATTTTAAGGTTTCAAGCAAAGA
Found at i:34950151 original size:40 final size:40
Alignment explanation
Indices: 34950096--34950183 Score: 167
Period size: 40 Copynumber: 2.2 Consensus size: 40
34950086 TTTACGGCCA
*
34950096 CTATTGCTTACCTTTTGCAGCGTTTTTCCCATAAACGCCG
1 CTATTGCTTACCTTTTGCAGCATTTTTCCCATAAACGCCG
34950136 CTATTGCTTACCTTTTGCAGCATTTTTCCCATAAACGCCG
1 CTATTGCTTACCTTTTGCAGCATTTTTCCCATAAACGCCG
34950176 CTATTGCT
1 CTATTGCT
34950184 CTAATTATTG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.18, C:0.30, G:0.14, T:0.39
Consensus pattern (40 bp):
CTATTGCTTACCTTTTGCAGCATTTTTCCCATAAACGCCG
Found at i:34954303 original size:68 final size:67
Alignment explanation
Indices: 34954166--34954303 Score: 154
Period size: 68 Copynumber: 2.0 Consensus size: 67
34954156 TTTAATAAAT
* * ** *
34954166 TTAATATTAAATTAAATTTAATACTTATCTTAATAGTATTTTATTAAATTAATAGTAAAGTGATT
1 TTAATATTAAATTAAATCTAATACTTATCTTAATAATATTAGATTAAATTAATAGTAAAATGA-T
34954231 ATC
65 ATC
* * *
34954234 TTAATATTAAATTTAATCTAATATTTATC-TAGATAAATATTAGATTAAATTTAATATTAAAATG
1 TTAATATTAAATTAAATCTAATACTTATCTTA-AT-AATATTAGATTAAA-TTAATAGTAAAATG
34954298 A-ATC
63 ATATC
34954302 TT
1 TT
34954304 TTAATCAAAG
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
67 2 0.03
68 33 0.56
69 11 0.19
70 13 0.22
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.46
Consensus pattern (67 bp):
TTAATATTAAATTAAATCTAATACTTATCTTAATAATATTAGATTAAATTAATAGTAAAATGATA
TC
Found at i:34956770 original size:31 final size:31
Alignment explanation
Indices: 34956732--34956794 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
34956722 TATTTTCAAA
*
34956732 TAAGCTCCCTATGCAAGCTCTCTGTGATAAG
1 TAAGCTCCCTATGCAAGCTCTCTATGATAAG
**
34956763 TAAGCTCCCTATGTGAGCTCTCTATGATAAG
1 TAAGCTCCCTATGCAAGCTCTCTATGATAAG
34956794 T
1 T
34956795 CTTTGTGCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (31 bp):
TAAGCTCCCTATGCAAGCTCTCTATGATAAG
Found at i:34965155 original size:26 final size:26
Alignment explanation
Indices: 34965126--34965187 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 26
34965116 TACCTACAAT
*
34965126 AGTTTCAGAATATCATAACATTTATC
1 AGTTTCAGAATATCATAACATGTATC
* *
34965152 AGTTTCAGATTATCATAGCATGTATC
1 AGTTTCAGAATATCATAACATGTATC
*
34965178 AGTGTCAGAA
1 AGTTTCAGAA
34965188 CACTTACAGG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (26 bp):
AGTTTCAGAATATCATAACATGTATC
Found at i:34971281 original size:40 final size:39
Alignment explanation
Indices: 34971226--34971469 Score: 301
Period size: 40 Copynumber: 6.1 Consensus size: 39
34971216 ATAATTATTG
* *
34971226 CTGAATGCACTTACGTGTCCCTGTTTGTACTTCGGCACCC
1 CTGAATGCACATACGTG-CCCTGTTTGTACTTCGGTACCC
* *
34971266 CTGAATGCACTTACGTGCCTCTGTTTGTACTTTGGTACCC
1 CTGAATGCACATACGTGCC-CTGTTTGTACTTCGGTACCC
*
34971306 CTGAATGCACATACGTGCCCCTGTTTGTACTTTGGTACCC
1 CTGAATGCACATACGTG-CCCTGTTTGTACTTCGGTACCC
* * * *
34971346 TTGAATGCACATATGTGCCCCTGTTTATACTTCGATACCC
1 CTGAATGCACATACGTG-CCCTGTTTGTACTTCGGTACCC
* *
34971386 CTGAATGCACTTACATGCCCGTGTTTGTACTTCGGTACCC
1 CTGAATGCACATACGTGCCC-TGTTTGTACTTCGGTACCC
* * *
34971426 CTTAATGCACATGCGTGCCCTGTTTGTACCTT-GGTAACC
1 CTGAATGCACATACGTGCCCTGTTTGTA-CTTCGGTACCC
34971465 CTGAA
1 CTGAA
34971470 CCAAATAGTA
Statistics
Matches: 180, Mismatches: 20, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
39 23 0.13
40 155 0.86
41 2 0.01
ACGTcount: A:0.18, C:0.29, G:0.19, T:0.34
Consensus pattern (39 bp):
CTGAATGCACATACGTGCCCTGTTTGTACTTCGGTACCC
Found at i:34971443 original size:120 final size:120
Alignment explanation
Indices: 34971227--34971466 Score: 349
Period size: 120 Copynumber: 2.0 Consensus size: 120
34971217 TAATTATTGC
* * * * *
34971227 TGAATGCACTTACGTGTCCCTGTTTGTACTTCGGCACCCCTGAATGCACTTACGTGCCTCTGTTT
1 TGAATGCACATACGTGCCCCTGTTTATACTTCGACACCCCTGAATGCACTTACATGCCTCTGTTT
* *
34971292 GTACTTTGGTACCCCTGAATGCACATACGTGCCCCTGTTTGTACTTTGGT-ACCCT
66 GTACTTCGGTACCCCTGAATGCACATACGTG-CCCTGTTTGTACCTTGGTAACCCT
* *
34971347 TGAATGCACATATGTGCCCCTGTTTATACTTCGATACCCCTGAATGCACTTACATGCC-CGTGTT
1 TGAATGCACATACGTGCCCCTGTTTATACTTCGACACCCCTGAATGCACTTACATGCCTC-TGTT
* *
34971411 TGTACTTCGGTACCCCTTAATGCACATGCGTGCCCTGTTTGTACCTTGGTAACCCT
65 TGTACTTCGGTACCCCTGAATGCACATACGTGCCCTGTTTGTACCTTGGTAACCCT
34971467 GAACCAAATA
Statistics
Matches: 107, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
119 18 0.17
120 89 0.83
ACGTcount: A:0.17, C:0.29, G:0.19, T:0.34
Consensus pattern (120 bp):
TGAATGCACATACGTGCCCCTGTTTATACTTCGACACCCCTGAATGCACTTACATGCCTCTGTTT
GTACTTCGGTACCCCTGAATGCACATACGTGCCCTGTTTGTACCTTGGTAACCCT
Found at i:34979863 original size:28 final size:28
Alignment explanation
Indices: 34979825--34979893 Score: 93
Period size: 28 Copynumber: 2.5 Consensus size: 28
34979815 CCTGAGCCCT
* *
34979825 ATACAACAACAGTGTGGGCCTTAGCCAA
1 ATACAATAACAGTGCGGGCCTTAGCCAA
* *
34979853 ATATAATAACAGTGCGGGCCTTAGCCCA
1 ATACAATAACAGTGCGGGCCTTAGCCAA
*
34979881 ATACAGTAACAGT
1 ATACAATAACAGT
34979894 ACAATGCAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.20
Consensus pattern (28 bp):
ATACAATAACAGTGCGGGCCTTAGCCAA
Found at i:34980166 original size:27 final size:26
Alignment explanation
Indices: 34980136--34980359 Score: 148
Period size: 27 Copynumber: 8.3 Consensus size: 26
34980126 GGTATAACAT
*
34980136 TCATTTTACCCTTAAGATGTATTTCGG
1 TCATTTTACCCTT-AGAGGTATTTCGG
* **
34980163 TCATTTTACCATGCGAGGGTATTTCGG
1 TCATTTTACCCTTAGA-GGTATTTCGG
* *
34980190 TCATTTTACCCTTCGAGGGT-TTCTTGG
1 TCATTTTACCCTTAGA-GGTATT-TCGG
* *
34980217 TCATTCTACCCTGT-GAGGGTATTTCAG
1 TCATTTTACCCT-TAGA-GGTATTTCGG
* * * *
34980244 TCATTTTAACCTTTGGGGGTATTTCAG
1 TCATTTT-ACCCTTAGAGGTATTTCGG
* * * *
34980271 TTATTTTACCCTTTGAGGGTATTCCGA
1 TCATTTTACCCTTAGA-GGTATTTCGG
* * *
34980298 TCACTTTACCTTTCAGGGGTATTTCGG
1 TCATTTTACCCTT-AGAGGTATTTCGG
*
34980325 TCATTTTACCCTTCA-AGGGTATTTCGA
1 TCATTTTACCCTT-AGA-GGTATTTCGG
34980352 TCATTTTA
1 TCATTTTA
34980360 GGCCCATTAC
Statistics
Matches: 157, Mismatches: 31, Indels: 18
0.76 0.15 0.09
Matches are distributed among these distances:
26 10 0.06
27 138 0.88
28 9 0.06
ACGTcount: A:0.18, C:0.20, G:0.20, T:0.42
Consensus pattern (26 bp):
TCATTTTACCCTTAGAGGTATTTCGG
Found at i:34980219 original size:54 final size:54
Alignment explanation
Indices: 34980136--34980359 Score: 213
Period size: 54 Copynumber: 4.1 Consensus size: 54
34980126 GGTATAACAT
* * * *
34980136 TCATTTTACCCTT-AAGATGTATTTCGGTCATTTTACCATGCGAGGGTATTTCGG
1 TCATTTTACCCTTCGAG-GGTATTTCGGTCATTTTACCCTGCGAGGGTATTTCGA
* * *
34980190 TCATTTTACCCTTCGAGGGT-TTCTTGGTCATTCTACCCTGTGAGGGTATTTC-A
1 TCATTTTACCCTTCGAGGGTATT-TCGGTCATTTTACCCTGCGAGGGTATTTCGA
* * * * * ** *
34980243 GTCATTTTAACCTTTGGGGGTATTTCAGTTATTTTACCCTTTGAGGGTATTCCGA
1 -TCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTGCGAGGGTATTTCGA
* * * *
34980298 TCACTTTACCTTTC-AGGGGTATTTCGGTCATTTTACCCTTCAAGGGTATTTCGA
1 TCATTTTACCCTTCGA-GGGTATTTCGGTCATTTTACCCTGCGAGGGTATTTCGA
34980352 TCATTTTA
1 TCATTTTA
34980360 GGCCCATTAC
Statistics
Matches: 137, Mismatches: 27, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
53 2 0.01
54 130 0.95
55 5 0.04
ACGTcount: A:0.18, C:0.20, G:0.20, T:0.42
Consensus pattern (54 bp):
TCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTGCGAGGGTATTTCGA
Found at i:34980264 original size:81 final size:81
Alignment explanation
Indices: 34980154--34980359 Score: 206
Period size: 81 Copynumber: 2.5 Consensus size: 81
34980144 CCCTTAAGAT
* *
34980154 GTATTTCGGTCATTTT-ACC-ATGCGAGGGTATTTCGGTCATTTTACCCTTCGAGGGT-TTCTTG
1 GTATTTCGGTCATTTTAACCTTTG-G-GGGTATTTCGGTCATTTTACCCTTCGAGGGTATTC-CG
* *
34980216 GTCA-TTCTACCCTGTGA-GG
63 ATCACTT-TA-CCTGTCAGGG
* * * *
34980235 GTATTTCAGTCATTTTAACCTTTGGGGGTATTTCAGTTATTTTACCCTTTGAGGGTATTCCGATC
1 GTATTTCGGTCATTTTAACCTTTGGGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTCCGATC
*
34980300 ACTTTACCTTTCAGGG
66 ACTTTACCTGTCAGGG
* *** *
34980316 GTATTTCGGTCATTTTACCCTTCAAGGGTATTTCGATCATTTTA
1 GTATTTCGGTCATTTTAACCTTTGGGGGTATTTCGGTCATTTTA
34980360 GGCCCATTAC
Statistics
Matches: 103, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
80 5 0.05
81 87 0.84
82 9 0.09
83 2 0.02
ACGTcount: A:0.17, C:0.19, G:0.21, T:0.42
Consensus pattern (81 bp):
GTATTTCGGTCATTTTAACCTTTGGGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTCCGATC
ACTTTACCTGTCAGGG
Found at i:34987172 original size:15 final size:15
Alignment explanation
Indices: 34987152--34987188 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
34987142 CTTCGGGCGT
34987152 CCACATAACTTGCGC
1 CCACATAACTTGCGC
34987167 CCACATAACTTGCGC
1 CCACATAACTTGCGC
34987182 CCACATA
1 CCACATA
34987189 CTCAAAAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.30, C:0.41, G:0.11, T:0.19
Consensus pattern (15 bp):
CCACATAACTTGCGC
Found at i:34988579 original size:28 final size:28
Alignment explanation
Indices: 34988546--34988603 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
34988536 ATCAGTATAC
*
34988546 AATAGTGTGGGCCTAT-GCCCAATACAGT
1 AATAGTGTGAG-CTATAGCCCAATACAGT
*
34988574 AATAGTGTGAGCTTTAGCCCAATACAGT
1 AATAGTGTGAGCTATAGCCCAATACAGT
34988602 AA
1 AA
34988604 CAGTACAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 3 0.11
28 24 0.89
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (28 bp):
AATAGTGTGAGCTATAGCCCAATACAGT
Found at i:34988773 original size:26 final size:26
Alignment explanation
Indices: 34988716--34988778 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
34988706 CCAATATCGT
* * *
34988716 AGCAAAGCTACCAGTAATAGTGATCC
1 AGCAAAGCTGCCACTAATAGTGAACC
*
34988742 AACAAAGCTGCCACTAATAGT-AACAC
1 AGCAAAGCTGCCACTAATAGTGAAC-C
34988768 AGCAAAGCTGC
1 AGCAAAGCTGC
34988779 TAGTAGCAGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
25 2 0.06
26 29 0.94
ACGTcount: A:0.41, C:0.25, G:0.17, T:0.16
Consensus pattern (26 bp):
AGCAAAGCTGCCACTAATAGTGAACC
Found at i:34988982 original size:27 final size:27
Alignment explanation
Indices: 34988952--34989215 Score: 175
Period size: 27 Copynumber: 9.8 Consensus size: 27
34988942 TTCAACTCCT
**
34988952 AGGGGTATAACAGTCATTTTACCCTTC
1 AGGGGTATTTCAGTCATTTTACCCTTC
* *
34988979 AGGGATATTTCAGTCATTTTACCCTAC
1 AGGGGTATTTCAGTCATTTTACCCTTC
*
34989006 -GAGGGTATTTCGGTCATTTTACCCTTC
1 AG-GGGTATTTCAGTCATTTTACCCTTC
* * * * *
34989033 -GAGAGTTTTTTAGTCATTCTACCCTGC
1 AG-GGGTATTTCAGTCATTTTACCCTTC
34989060 -GAGGGTATTTC-GATCATTTTACCCTT-
1 AG-GGGTATTTCAG-TCATTTTACCCTTC
* ** *
34989086 TGAGGGTATTTGGGTCATTTTACCTTTC
1 AG-GGGTATTTCAGTCATTTTACCCTTC
* * *
34989114 GGGGGTATTTCAGTTATTTGACCCTTC
1 AGGGGTATTTCAGTCATTTTACCCTTC
** *
34989141 -GAGGGTATTTTGGTCACTTTACCCTTC
1 AG-GGGTATTTCAGTCATTTTACCCTTC
** *
34989168 -GAGGGTATTTTGGTTATTTTACCC-TC
1 AG-GGGTATTTCAGTCATTTTACCCTTC
* *
34989194 CGAGGGTATTTCGGTCATTTTA
1 AG-GGGTATTTCAGTCATTTTA
34989216 GACCCATTAC
Statistics
Matches: 195, Mismatches: 35, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
26 5 0.03
27 188 0.96
28 2 0.01
ACGTcount: A:0.18, C:0.19, G:0.22, T:0.41
Consensus pattern (27 bp):
AGGGGTATTTCAGTCATTTTACCCTTC
Found at i:34989048 original size:54 final size:54
Alignment explanation
Indices: 34988964--34989215 Score: 299
Period size: 54 Copynumber: 4.7 Consensus size: 54
34988954 GGGTATAACA
* *
34988964 GTCATTTTACCCTTC-AGGGATATTTCAGTCATTTTACCCTACGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGG-TATTTCGGTCATTTTACCCTTCGAGGGTATTTCG
* * ** * *
34989018 GTCATTTTACCCTTCGAGAGTTTTTTAGTCATTCTACCCTGCGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCG
* * * * * *
34989072 ATCATTTTACCCTTTGAGGGTATTTGGGTCATTTTACCTTTCGGGGGTATTTCA
1 GTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCG
* * * * *
34989126 GTTATTTGACCCTTCGAGGGTATTTTGGTCACTTTACCCTTCGAGGGTATTTTG
1 GTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCG
* *
34989180 GTTATTTTACCCTCCGAGGGTATTTCGGTCATTTTA
1 GTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTA
34989216 GACCCATTAC
Statistics
Matches: 167, Mismatches: 30, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
54 164 0.98
55 3 0.02
ACGTcount: A:0.17, C:0.20, G:0.21, T:0.42
Consensus pattern (54 bp):
GTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCG
Found at i:34989102 original size:81 final size:80
Alignment explanation
Indices: 34988962--34989213 Score: 283
Period size: 81 Copynumber: 3.1 Consensus size: 80
34988952 AGGGGTATAA
*
34988962 CAGTCATTTTACCCTTC-AGGGATATTTC-AGTCATTTTACCCTACGAGGGTATTTCGGTCATTT
1 CAGTCA-TTTACCCTTCGAGGG-TATTTCGA-TCATTTTACCCTTCGAGGGTATTTCGGTCATTT
*
34989025 TACCCTTCGAGAGTTTTT
63 TACCCTTCGAGAGTATTT
* * * *
34989043 TAGTCATTCTACCCTGCGAGGGTATTTCGATCATTTTACCCTTTGAGGGTATTTGGGTCATTTTA
1 CAGTCATT-TACCCTTCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGGTCATTTTA
* * *
34989108 CCTTTCGGGGGTATTT
65 CCCTTCGAGAGTATTT
* * * * * *
34989124 CAGTTATTTGACCCTTCGAGGGTATTTTGGTCACTTTACCCTTCGAGGGTATTTTGGTTATTTTA
1 CAGTCATTT-ACCCTTCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGGTCATTTTA
* *
34989189 CCCTCCGAGGGTATTT
65 CCCTTCGAGAGTATTT
*
34989205 CGGTCATTT
1 CAGTCATTT
34989214 TAGACCCATT
Statistics
Matches: 144, Mismatches: 23, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
80 3 0.02
81 136 0.94
82 5 0.03
ACGTcount: A:0.17, C:0.20, G:0.21, T:0.42
Consensus pattern (80 bp):
CAGTCATTTACCCTTCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCGGTCATTTTAC
CCTTCGAGAGTATTT
Found at i:34997268 original size:21 final size:21
Alignment explanation
Indices: 34997242--34997282 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
34997232 AATCAATTAC
*
34997242 AAAAAGTATCAATACGTTTTT
1 AAAAAGTATCAATACCTTTTT
34997263 AAAAAGTATCAATACCTTTT
1 AAAAAGTATCAATACCTTTT
34997283 ACTAGGTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (21 bp):
AAAAAGTATCAATACCTTTTT
Found at i:35000941 original size:12 final size:12
Alignment explanation
Indices: 35000917--35000951 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
35000907 ATTCAATAAT
35000917 ATTTAAAAA-CA
1 ATTTAAAAATCA
35000928 ATTTAAAAATCA
1 ATTTAAAAATCA
*
35000940 ATTTAAATATCA
1 ATTTAAAAATCA
35000952 TAAATCAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 9 0.41
12 13 0.59
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (12 bp):
ATTTAAAAATCA
Found at i:35002221 original size:13 final size:13
Alignment explanation
Indices: 35002200--35002235 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
35002190 TACATATATT
35002200 TTCATATAACCAA
1 TTCATATAACCAA
* *
35002213 TTCACATAACCAT
1 TTCATATAACCAA
35002226 TTCATATAAC
1 TTCATATAAC
35002236 TATTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.42, C:0.25, G:0.00, T:0.33
Consensus pattern (13 bp):
TTCATATAACCAA
Found at i:35004067 original size:32 final size:31
Alignment explanation
Indices: 35004025--35004084 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
35004015 TTATCAAATC
*
35004025 AAAATGTAAT-ATATTACTATATTTGATTCGTA
1 AAAATGTAATAATAATACT-TA-TTGATTCGTA
*
35004057 AAAATTTAATAATAATACTTATTGATTC
1 AAAATGTAATAATAATACTTATTGATTC
35004085 ACTCATCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
31 7 0.28
32 11 0.44
33 7 0.28
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (31 bp):
AAAATGTAATAATAATACTTATTGATTCGTA
Found at i:35013670 original size:52 final size:52
Alignment explanation
Indices: 35013585--35013687 Score: 134
Period size: 52 Copynumber: 2.0 Consensus size: 52
35013575 GTGCAATTCG
* *
35013585 TGGGTAAAATTACTGAAATACCCTCAATGGGTAAAACTACAAAAATACCCTA
1 TGGGTAAAATTACTAAAATACCCTCAATAGGTAAAACTACAAAAATACCCTA
*** * **
35013637 TGGGTAAAATTACTAAAATACCCTTGGTAGGTAAAATTACCGAAATACCCT
1 TGGGTAAAATTACTAAAATACCCTCAATAGGTAAAACTACAAAAATACCCT
35013688 CGATCAATAA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.25
Consensus pattern (52 bp):
TGGGTAAAATTACTAAAATACCCTCAATAGGTAAAACTACAAAAATACCCTA
Found at i:35013725 original size:27 final size:27
Alignment explanation
Indices: 35013585--35013727 Score: 146
Period size: 27 Copynumber: 5.4 Consensus size: 27
35013575 GTGCAATTCG
** *
35013585 TGGGTAAAATTACTGAAATACCCTCAA
1 TGGGTAAAATTACCAAAATACCCTCGA
* *
35013612 TGGGTAAAACTACAAAAATACCCT--A
1 TGGGTAAAATTACCAAAATACCCTCGA
* * *
35013637 TGGGTAAAATTACTAAAATACCCTTGG
1 TGGGTAAAATTACCAAAATACCCTCGA
* *
35013664 TAGGTAAAATTACCGAAATACCCTCGA
1 TGGGTAAAATTACCAAAATACCCTCGA
*** *
35013691 TCAATAAAATTACCAAAATATCCTCGA
1 TGGGTAAAATTACCAAAATACCCTCGA
35013718 TGGGTAAAAT
1 TGGGTAAAAT
35013728 GATCGAATTA
Statistics
Matches: 95, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
25 23 0.24
27 72 0.76
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (27 bp):
TGGGTAAAATTACCAAAATACCCTCGA
Done.