Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 432 of 438
Found at i:133090819 original size:77 final size:77
Alignment explanation
Indices: 133090711--133091073 Score: 343
Period size: 77 Copynumber: 4.5 Consensus size: 77
133090701 CCTTTCAAAA
133090711 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAA
*
133090776 TTTCTGTCTTTC
66 TTTCTGTTTTTC
* * * * *
133090788 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGATCACACACTGAGGTATTTTTT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGCTCACGCGCTGAGCTA--TTTT
* *
133090852 CAATTTATATTTTTC
63 CAATTTCTGTTTTTC
* * * * *** *
133090867 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTCAC-ATTTCGAGGTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCT-GAGCTATTTTCA
**
133090931 AAATCTGTTTTTC
65 ATTTCTGTTTTTC
* *
133090944 AGATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGA
1 A-A----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGA
*
133091009 GCTATTTTCAATTTCTATTTTTTTTTC
55 GCTATTTTCAATTTC----TGTTTTTC
133091036 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 AAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
133091074 TTTTTAATTT
Statistics
Matches: 232, Mismatches: 32, Indels: 39
0.77 0.11 0.13
Matches are distributed among these distances:
76 3 0.01
77 65 0.28
78 2 0.01
79 61 0.26
80 2 0.01
81 5 0.02
82 29 0.12
88 55 0.24
89 1 0.00
91 1 0.00
92 8 0.03
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.34
Consensus pattern (77 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAA
TTTCTGTTTTTC
Found at i:133090900 original size:79 final size:76
Alignment explanation
Indices: 133090711--133091075 Score: 264
Period size: 79 Copynumber: 4.5 Consensus size: 76
133090701 CCTTTCAAAA
* * * *
133090711 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTAGATCACACACTGAGCTATTTTCAA
* *
133090776 TTTCTGTCTTTC
65 TTTATATCTTTC
*
133090788 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTT-AGATCACACACTGAGCTA--TTTTC
*
133090853 AATTTATATTTTTC
63 AATTTATATCTTTC
* * ** * ** *
133090867 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTCACA-TTTCGAGGTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTAGATCACACACT-GAGCTATTTTC-
* *
133090931 AAATCTGTTTTTCAGATTCTGTTT
63 -AA------TTT-ATA-TCT-TTC
** * * * ***
133090955 TCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTAGATCACACACTGAGCTATTTTCAA
* *
133091020 TTTCTATTTTTTTTTC
65 -TT-TA--TATCTTTC
133091036 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTT
1 AAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCTT
133091076 TTTAATTTCT
Statistics
Matches: 232, Mismatches: 35, Indels: 38
0.76 0.11 0.12
Matches are distributed among these distances:
76 3 0.01
77 54 0.23
78 1 0.00
79 64 0.28
80 2 0.01
81 14 0.06
82 31 0.13
85 3 0.01
86 4 0.02
87 2 0.01
88 53 0.23
89 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (76 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTAGATCACACACTGAGCTATTTTCAAT
TTATATCTTTC
Found at i:133091030 original size:88 final size:88
Alignment explanation
Indices: 133090869--133091030 Score: 218
Period size: 88 Copynumber: 1.8 Consensus size: 88
133090859 TATTTTTCAA
* * * *
133090869 AAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTCACATTTCGAGGTATTTTCAAAA
1 AAAAATCAACTCACATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATCTCGAGCTATTTTCAAAA
*
133090934 TCTGTTTTTCAGATTCTGTTTTC
66 TCTATTTTTCAGATTCTGTTTTC
* * * *
133090957 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCT-GAGCTATTTTCAAT
1 AAAAATCAACTCACATTGCGAGAAGTGAGTTGAGCCTCGGCTCACAT-CTCGAGCTATTTTCAAA
*
133091021 TTCTATTTTT
65 ATCTATTTTT
133091031 TTTTCAAAAA
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
88 62 0.98
89 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (88 bp):
AAAAATCAACTCACATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATCTCGAGCTATTTTCAAAA
TCTATTTTTCAGATTCTGTTTTC
Found at i:133091091 original size:30 final size:30
Alignment explanation
Indices: 133091055--133091116 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
133091045 CAACTCATAT
133091055 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
133091085 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
133091115 TG
1 TG
133091117 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:133091217 original size:254 final size:244
Alignment explanation
Indices: 133090469--133091245 Score: 742
Period size: 254 Copynumber: 3.1 Consensus size: 244
133090459 GTTTTTCAAA
* ** * ** *
133090469 AAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTTAAG---ACATGCTGAGGTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGCTCACGCGCTGAGCTATTTTCAA
* * * * *
133090531 TTTCTGTTTTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAG--GACACGCTG
65 TTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTG
* * * * ** * * *
133090594 AGGTA--ATTTCAATTTCT-GTTGTCAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTC
130 AGGTATCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAACCTC
*** ** * * ** *
133090656 -AGGTCACACGCCGAGGTATTTTCAATTTCCGTTTTTCA-ATTTCTGCCTTTC
195 GA-GTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAGA-TTAAG-TTTTC
133090707 AAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTT
1 -----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTT
133090772 TCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACAC
61 TCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACAC
* *
133090837 ACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGA
126 ACTGAGGTATCTTTTCAATTTATATTTTTC-AAAAAATCAACTCACATTGCGAGAGGTGAGTTGA
* * * * **
133090902 GCCTCGGGTCACATTTCGAGGTATTTTCAAAATCTGTTTTTCAGATTCTGTTTTC
190 ACCTCGAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAGATTAAGTTTTC
* *
133090957 -AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAAT
* * *
133091021 TTCTATTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTA-ATTTC
66 TTC----TGTCTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--TTCAGA--TC
* * * * * * *
133091085 TGCGAGAGTTGAGTTGAGTCTTTT-AATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGG
122 -AC-ACA-CTGAGGT-A-TCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGCGAGAGG
133091148 TGAGTTGAACCTTC-AGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCA-AGTTAAG-TTTC
182 TGAGTTGAACC-TCGAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAGA-TTAAGTTTTC
133091210 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
133091246 TCAGGATCAC
Statistics
Matches: 456, Mismatches: 50, Indels: 45
0.83 0.09 0.08
Matches are distributed among these distances:
242 1 0.00
243 36 0.08
244 65 0.14
245 68 0.15
247 12 0.03
248 13 0.03
249 40 0.09
250 9 0.02
251 72 0.16
252 3 0.01
253 6 0.01
254 106 0.23
255 7 0.02
256 13 0.03
257 5 0.01
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (244 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAAT
TTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGA
GGTATCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAACCTCG
AGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAGATTAAGTTTTC
Found at i:133093513 original size:3 final size:3
Alignment explanation
Indices: 133093500--133093537 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
133093490 ACAAACAATG
*
133093500 ATA AAA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
133093538 GCAACGTAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:133093774 original size:20 final size:18
Alignment explanation
Indices: 133093755--133093794 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
133093745 ATATACATAA
*
133093755 AATATAATAACTATATAT
1 AATATAATAACTATACAT
133093773 AATATAATAA--ATACAT
1 AATATAATAACTATACAT
133093789 AATATA
1 AATATA
133093795 GTATTAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 11 0.52
18 10 0.48
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (18 bp):
AATATAATAACTATACAT
Found at i:133093894 original size:16 final size:16
Alignment explanation
Indices: 133093868--133093908 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
133093858 AATAATACTT
*
133093868 CATAAATATATACATA
1 CATATATATATACATA
* *
133093884 CATGTATATATATATA
1 CATATATATATACATA
133093900 CATATATAT
1 CATATATAT
133093909 GTTAAAAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.49, C:0.10, G:0.02, T:0.39
Consensus pattern (16 bp):
CATATATATATACATA
Found at i:133094659 original size:13 final size:13
Alignment explanation
Indices: 133094633--133094675 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
133094623 CCGGCTCCGT
**
133094633 CCGCCGCCATCCA
1 CCGCCGCCGGCCA
*
133094646 CTGCCGCCGGCCA
1 CCGCCGCCGGCCA
*
133094659 CCGTCGCCGGCCA
1 CCGCCGCCGGCCA
133094672 CCGC
1 CCGC
133094676 GCACGGTGGC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.09, C:0.58, G:0.26, T:0.07
Consensus pattern (13 bp):
CCGCCGCCGGCCA
Found at i:133096474 original size:23 final size:23
Alignment explanation
Indices: 133096448--133096492 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
133096438 AGATAATTGT
133096448 TTTA-AAAGAAAAAATAACTTTTA
1 TTTATAAA-AAAAAATAACTTTTA
* *
133096471 TTTATAAAATAAAATAATTTTT
1 TTTATAAAAAAAAATAACTTTT
133096493 CTCTCTTCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TTTATAAAAAAAAATAACTTTTA
Found at i:133100702 original size:20 final size:21
Alignment explanation
Indices: 133100669--133100709 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
133100659 AAATGTATAT
* *
133100669 AATAATATTGAAATGTGTAAA
1 AATAATAATGAAATGTCTAAA
133100690 AATAATAAT-AAATGTCTAAA
1 AATAATAATGAAATGTCTAAA
133100710 GTACTCTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (21 bp):
AATAATAATGAAATGTCTAAA
Found at i:133102324 original size:5 final size:5
Alignment explanation
Indices: 133102314--133102349 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
133102304 ATAATGTGAT
133102314 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA T
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA T
133102350 GTTATATAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
TAAAA
Found at i:133108616 original size:14 final size:13
Alignment explanation
Indices: 133108590--133108627 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
133108580 AGTGAAAAAG
133108590 ATTAATTATTATA
1 ATTAATTATTATA
133108603 ATTAATTAATTATA
1 ATTAATT-ATTATA
*
133108617 ATAAATT-TTAT
1 ATTAATTATTAT
133108628 GATTTAATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 4 0.17
13 7 0.30
14 12 0.52
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
ATTAATTATTATA
Found at i:133110814 original size:31 final size:32
Alignment explanation
Indices: 133110760--133110843 Score: 100
Period size: 30 Copynumber: 2.6 Consensus size: 32
133110750 ATAGTTTATA
* *
133110760 TTTTTATAATTTTTAAAAAATT-AAGT-TAAT
1 TTTTTATTATTTTTAAAAAATTAAAATATAAT
133110790 TTTTTATTATTTTTAAGAAAATTAAAATATAAT
1 TTTTTATTATTTTTAA-AAAATTAAAATATAAT
133110823 TTTATTATTATTAATTTAAAA
1 TTT-TTATTATT--TTTAAAA
133110844 TTTTACAAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
30 15 0.33
31 6 0.13
32 3 0.07
33 7 0.15
34 8 0.17
35 2 0.04
36 5 0.11
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (32 bp):
TTTTTATTATTTTTAAAAAATTAAAATATAAT
Found at i:133114053 original size:6 final size:6
Alignment explanation
Indices: 133114042--133114077 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
133114032 TCCCAAGGTA
133114042 TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT
1 TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT
133114078 AACTGTGAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TTATAT
Found at i:133123589 original size:18 final size:16
Alignment explanation
Indices: 133123544--133123590 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 16
133123534 TGGATAAGAT
133123544 TAATTTTGGGTTTGAA
1 TAATTTTGGGTTTGAA
*
133123560 TAATTTTAGGGTTTAGGA
1 TAATTTT-GGGTTT-GAA
133123578 TAAATTTTGGGTT
1 T-AATTTTGGGTT
133123591 ATGATTATCT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 7 0.26
17 6 0.22
18 8 0.30
19 6 0.22
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (16 bp):
TAATTTTGGGTTTGAA
Found at i:133125755 original size:13 final size:13
Alignment explanation
Indices: 133125737--133125761 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
133125727 TAATTATTAA
133125737 TTTTATTTTTTTC
1 TTTTATTTTTTTC
133125750 TTTTATTTTTTT
1 TTTTATTTTTTT
133125762 GGTACAAGTA
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:0.08, C:0.04, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTATTTTTTTC
Found at i:133127885 original size:54 final size:52
Alignment explanation
Indices: 133127701--133127891 Score: 213
Period size: 53 Copynumber: 3.6 Consensus size: 52
133127691 ATATTCCGGA
* * * * *
133127701 TATGGTCTTACACGAGAGCACTTATCACTTTTCTCCGATGCCATAGGCCAGC
1 TATGGTCTTATACGAGATCACTTATCACTTTTATCCGATGCCATAGCCCAAC
* * *
133127753 TATGGTCTTATACG-GATCACTTATATCACTTTAATCCGAAGGCATAGCCCAAC
1 TATGGTCTTATACGAGATCAC-T-TATCACTTTTATCCGATGCCATAGCCCAAC
* * *
133127806 TATGGTCTTATACGAAAAATCACTTATCACTTGTTTTTCGATGCCATAGCCCAAC
1 TATGGTCTTATACG--AGATCACTTATCACTT-TTATCCGATGCCATAGCCCAAC
*
133127861 TATGGTCTTATACAGATATCACTTATCACTT
1 TATGGTCTTATAC-GAGATCACTTATCACTT
133127892 GTTGCTATGG
Statistics
Matches: 117, Mismatches: 15, Indels: 12
0.81 0.10 0.08
Matches are distributed among these distances:
51 5 0.04
52 14 0.12
53 38 0.32
54 23 0.20
55 31 0.26
56 6 0.05
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.33
Consensus pattern (52 bp):
TATGGTCTTATACGAGATCACTTATCACTTTTATCCGATGCCATAGCCCAAC
Found at i:133135521 original size:54 final size:53
Alignment explanation
Indices: 133135311--133135518 Score: 217
Period size: 54 Copynumber: 3.9 Consensus size: 53
133135301 ATATATCATA
* * * * * * *
133135311 CCGATGCCATATCCCGGATATGGTCTGACATGG-GAGCACTTATCACTTTTCT
1 CCGATGCCATAGCCCAGCTATGGTCTTATATGGAGATCACTTATCACTTTTTT
* * *
133135363 CCGATGCCATAGCCCAACTATGGTCTTATA--CAGATCACTTATATCACTTTAATT
1 CCGATGCCATAGCCCAGCTATGGTCTTATATGGAGATCAC-T-TATCACTTT-TTT
* * *
133135417 -CGAAGCCATAGCCCAGCTATGGTCTTATACGGATATCACTTATCACTTGTTTT
1 CCGATGCCATAGCCCAGCTATGGTCTTATATGGAGATCACTTATCACTT-TTTT
* *
133135470 CCGATGCCATATCCCAGCTATGGTCTTATATGGATATCACTTATCACTT
1 CCGATGCCATAGCCCAGCTATGGTCTTATATGGAGATCACTTATCACTT
133135519 GTTGCTATGG
Statistics
Matches: 130, Mismatches: 18, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
51 5 0.04
52 25 0.19
53 46 0.35
54 48 0.37
55 6 0.05
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (53 bp):
CCGATGCCATAGCCCAGCTATGGTCTTATATGGAGATCACTTATCACTTTTTT
Found at i:133139034 original size:17 final size:17
Alignment explanation
Indices: 133139012--133139044 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
133139002 ATTCGATATA
*
133139012 ATCTGATCTTAAAATTT
1 ATCTGAACTTAAAATTT
133139029 ATCTGAACTTAAAATT
1 ATCTGAACTTAAAATT
133139045 GTTTAAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.42
Consensus pattern (17 bp):
ATCTGAACTTAAAATTT
Found at i:133140202 original size:20 final size:20
Alignment explanation
Indices: 133140149--133140213 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
133140139 GTTATTGAGC
* * *
133140149 TTAAATAATATATATTTATT
1 TTAAATAATTTAAATATATT
*
133140169 TTATA-AATTATAAATATATT
1 TTAAATAATT-TAAATATATT
* *
133140189 TTAAATAATTTAAAAATATA
1 TTAAATAATTTAAATATATT
133140209 TTAAA
1 TTAAA
133140214 ATAAGTCACT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
19 3 0.08
20 29 0.81
21 4 0.11
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
TTAAATAATTTAAATATATT
Found at i:133140215 original size:21 final size:22
Alignment explanation
Indices: 133140171--133140217 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
133140161 TATTTATTTT
* *
133140171 ATAAATTATAAATATATTTTAA
1 ATAAATTAAAAATATATTTAAA
*
133140193 ATAATTTAAAAATATA-TTAAA
1 ATAAATTAAAAATATATTTAAA
133140214 ATAA
1 ATAA
133140218 GTCACTTCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
ATAAATTAAAAATATATTTAAA
Found at i:133141092 original size:20 final size:20
Alignment explanation
Indices: 133141054--133141105 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
133141044 TTATGCCACA
133141054 TCAGGATTCTTATCCTGAATT
1 TCAGGATT-TTATCCTGAATT
*
133141075 TCAGGATTTTATCTTGAATT
1 TCAGGATTTTATCCTGAATT
* *
133141095 TTAGTATTTTA
1 TCAGGATTTTA
133141106 ATTTGGATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 20 0.71
21 8 0.29
ACGTcount: A:0.25, C:0.12, G:0.13, T:0.50
Consensus pattern (20 bp):
TCAGGATTTTATCCTGAATT
Found at i:133144542 original size:2 final size:2
Alignment explanation
Indices: 133144535--133144568 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
133144525 CTTGAATTGT
*
133144535 TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
133144569 AAAGATTGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:133145152 original size:5 final size:5
Alignment explanation
Indices: 133145142--133145166 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
133145132 CGAAAAAAGC
133145142 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
133145167 TGTCACACAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:133149595 original size:25 final size:26
Alignment explanation
Indices: 133149567--133149622 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
133149557 AATCAGCAGC
* *
133149567 AAGGAGAACAAAATAAAGAGAAAGA-
1 AAGGAGAACAAAAGAAAAAGAAAGAG
* *
133149592 AAGGAGAAGAGAAGAAAAAGAAAGAG
1 AAGGAGAACAAAAGAAAAAGAAAGAG
133149618 AAGGA
1 AAGGA
133149623 AAAAAGAAGG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 21 0.81
26 5 0.19
ACGTcount: A:0.66, C:0.02, G:0.30, T:0.02
Consensus pattern (26 bp):
AAGGAGAACAAAAGAAAAAGAAAGAG
Found at i:133149606 original size:21 final size:20
Alignment explanation
Indices: 133149582--133149620 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
133149572 GAACAAAATA
*
133149582 AAGAGAAAGAAAGGAGAAGAG
1 AAGAAAAAGAAA-GAGAAGAG
133149603 AAGAAAAAGAAAGAGAAG
1 AAGAAAAAGAAAGAGAAG
133149621 GAAAAAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (20 bp):
AAGAAAAAGAAAGAGAAGAG
Found at i:133149616 original size:15 final size:15
Alignment explanation
Indices: 133149576--133149626 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
133149566 CAAGGAGAAC
*
133149576 AAAATAAAGAGAA-A
1 AAAAGAAAGAGAAGA
*
133149590 GAAAGGAGAAGAGAAGA
1 -AAAAGA-AAGAGAAGA
133149607 AAAAGAAAGAGAAGGA
1 AAAAGAAAGAGAA-GA
133149623 AAAA
1 AAAA
133149627 AGAAGGTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 11 0.37
16 18 0.60
17 1 0.03
ACGTcount: A:0.71, C:0.00, G:0.27, T:0.02
Consensus pattern (15 bp):
AAAAGAAAGAGAAGA
Found at i:133149779 original size:26 final size:26
Alignment explanation
Indices: 133149724--133149781 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
133149714 GTTGTTAGTT
* * *
133149724 ATTAATATTGTCAGTAAAAAACCCTT
1 ATTATTATTGTCAGTAAAAAACCATA
* *
133149750 ATTATTATTGTTAGTAAAAAATCATA
1 ATTATTATTGTCAGTAAAAAACCATA
133149776 ATTATT
1 ATTATT
133149782 GTTAGTTATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (26 bp):
ATTATTATTGTCAGTAAAAAACCATA
Found at i:133153743 original size:17 final size:17
Alignment explanation
Indices: 133153721--133153759 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
133153711 CGGTAATAGT
133153721 ATGTTCCAATTTA-ATTA
1 ATGTTCCAA-TTAGATTA
133153738 ATGTTCCAATTAGATTA
1 ATGTTCCAATTAGATTA
133153755 ATGTT
1 ATGTT
133153760 GTAATGTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 3 0.14
17 18 0.86
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.46
Consensus pattern (17 bp):
ATGTTCCAATTAGATTA
Found at i:133164157 original size:83 final size:83
Alignment explanation
Indices: 133164050--133164813 Score: 1237
Period size: 83 Copynumber: 9.2 Consensus size: 83
133164040 GAAGCAGATC
* *
133164050 CAAGATGA-TTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATAGCAGATATGACTCTCA
1 CAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACGTTGCAGATATGACTCTCA
**
133164114 AGCGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
* * *
133164132 CAAGATGATTTGGCATCCTTGTGCTTACAAGGAA-AAATCTAGGACATAGCAGATATGACTCTC-
1 CAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACGTTGCAGATATGACTCTCA
* *
133164195 AACGTTCTCAAATAGACT
66 AATGTTCTCAAACAGACT
*
133164213 CAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACGTTGTAGATATGACTCTCA
1 CAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACGTTGCAGATATGACTCTCA
*
133164278 AATGTCCTCAAACAGACT
66 AATGTTCTCAAACAGACT
* * * *
133164296 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGATGACATAGCAGATATGACTCTCA
1 CAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACGTTGCAGATATGACTCTCA
*
133164361 AACGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
*
133164379 CAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACGTTGTAGATATGACTCTCA
1 CAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACGTTGCAGATATGACTCTCA
*
133164444 AACGTTCTCAAACAGACT
66 AATGTTCTCAAACAGACT
*
133164462 CAAGATGATTTGGCATCCTTGTGCTTATAAGGAACAAATCGAGGACGTTGCAGATATGACTCTCA
1 CAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACGTTGCAGATATGACTCTCA
*
133164527 AATGTTCTCAAACAGATT
66 AATGTTCTCAAACAGACT
*
133164545 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACGTTGCAGATATGACTCTCA
1 CAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACGTTGCAGATATGACTCTCA
*
133164610 AATGTCCTCAAACAGACT
66 AATGTTCTCAAACAGACT
133164628 CAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACGTTGCAGATATGACTCTCA
1 CAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACGTTGCAGATATGACTCTCA
*
133164693 AATGTCCTCAAACAGACT
66 AATGTTCTCAAACAGACT
* *
133164711 CAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCA
1 CAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACGTTGCAGATATGACTCTCA
* **
133164776 AATATTCTCAAGTAGACT
66 AATGTTCTCAAACAGACT
* *
133164794 CAAGATAATTTGACATCCTT
1 CAAGATGATTTGGCATCCTT
133164814 ACAAATCGAA
Statistics
Matches: 639, Mismatches: 40, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
81 50 0.08
82 61 0.10
83 528 0.83
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (83 bp):
CAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACGTTGCAGATATGACTCTCA
AATGTTCTCAAACAGACT
Found at i:133166673 original size:20 final size:19
Alignment explanation
Indices: 133166626--133166673 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
133166616 ATATAATCTT
133166626 TATTATGTT-TTATTTTCA
1 TATTATGTTATTATTTTCA
* *
133166644 TATTAT-TTATTGTTTTTA
1 TATTATGTTATTATTTTCA
133166662 TATATATGTTAT
1 TAT-TATGTTAT
133166674 GTATATCATG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 2 0.08
18 16 0.64
19 3 0.12
20 4 0.16
ACGTcount: A:0.25, C:0.02, G:0.06, T:0.67
Consensus pattern (19 bp):
TATTATGTTATTATTTTCA
Found at i:133169628 original size:15 final size:14
Alignment explanation
Indices: 133169606--133169653 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
133169596 TTTGAAAAAT
*
133169606 ATTTATATTTTTTA
1 ATTTATATTTATTA
133169620 ATTTAATATTTATTA
1 ATTT-ATATTTATTA
* *
133169635 A-TTATATATATTC
1 ATTTATATTTATTA
133169648 ATTTAT
1 ATTTAT
133169654 TAAAAATTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 9 0.31
14 10 0.34
15 10 0.34
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (14 bp):
ATTTATATTTATTA
Found at i:133172015 original size:274 final size:270
Alignment explanation
Indices: 133171468--133172503 Score: 933
Period size: 254 Copynumber: 3.9 Consensus size: 270
133171458 CTAATGATTG
* * * *
133171468 TGATGATTGTATCATTAGGGTGTTTGAATGGGTTTATTTTTAGAACTGTATTTTGGCAATCAAAA
1 TGATAATTGTATTATT-GGGTGTTTGAATGGGTTTATTTTAAG-ACTATATTTTGGCAATCAAAA
** * * * *
133171533 GTGGTTGTTTGTGGAAAGGGAAGATCTAATTTTAGTTATTGAGGATGGAAAAATAAGGATATAAT
64 GTAATTGTTTGTGGAAAAGGAAGATTTAATTTTAGTTATTGAGGATGGGAAAGTAAGG-------
* * * *
133171598 CATATAATATCAGCTAGAAGTGGTTAGGTTTGAGGGT-GGAGTTGTTTC-AACAATGATAGCTGA
122 -ATATAATATCAGCAAGAAGTGGTTTGGTTTGGGGGTCGGAGCTGTTTCGAA-AATGATAGCTGA
* * * *
133171661 AAAGAATGCTAACTGTTGGTATGGTGAATGAGTTGATGGATTACAAAGAACACATTGAAGATG-C
185 AAAGAATG-TTACTGCTGGTATGGTGAATGAGTTGATGGCTTAC-AAGAACACA-TGAAGATGTG
* *
133171725 AGCTTC-TTGGAAGAGTGATAATGAC
247 A-C-TCGTTGAAAGAGTGGTAATGAC
* * *
133171750 TGTGATAATTCTATTATTGGGGCGTTTGAATGGGTTTATTTTAAGACTATATTTTGGCAACCAAA
1 --TGATAATTGTATTATT-GGGTGTTTGAATGGGTTTATTTTAAGACTATATTTTGGCAATCAAA
* * *
133171815 AGTAATTGTCTGTGGAAAAGGAAGATTTAAATTCAGTTATTGAGGATGGGAAAGTAAGGATATAA
63 AGTAATTGTTTGTGGAAAAGGAAGATTTAATTTTAGTTATTGAGGATGGGAAAGTAAGGATATAA
* * * * *
133171880 TATCAGCTAGAAAT-GTTTGGTTTGGGGGT-GGAGCTGTTTCGAAAATGATAGCCGACAATAATG
128 TATCAGCAAGAAGTGGTTTGGTTTGGGGGTCGGAGCTGTTTCGAAAATGATAGCTGAAAAGAATG
* *
133171943 TTAGCTACTGGTATGGTGAATGAATTGATGGCTTACATAGAACACATGGAAGATGTGACTCGTTG
193 TTA-CTGCTGGTATGGTGAATGAGTTGATGGCTTACA-AGAACACAT-GAAGATGTGACTCGTTG
133172008 AAAGAGTGGTAATGAC
255 AAAGAGTGGTAATGAC
*
133172024 ---------------T--GTGTTTGAATGGGTTTATTTTGAGACTATATTTTGGCAATCAAAAGT
1 TGATAATTGTATTATTGGGTGTTTGAATGGGTTTATTTTAAGACTATATTTTGGCAATCAAAAGT
* * *
133172072 GATTGTTTGTGGAAAAGGAAGATTTAATTTTAGTTA-TGAGGACTGGGAAAGTAAGAATATCATA
66 AATTGTTTGTGGAAAAGGAAGATTTAATTTTAGTTATTGAGGA-TGGGAAAGTAAGGATATAATA
* ** ** * *
133172136 TCAGCAAGATGTTTTTTGGTTCAGGGTTCGG-GCTGTTTTGAAAATGATAGCTGAAAAGAATGTC
130 TCAGCAAGAAGTGGTTTGGTTTGGGGGTCGGAGCTGTTTCGAAAATGATAGCTGAAAAGAATGT-
* ** *
133172200 TACCGCTGGTATGAAGAATGAGTTGATGGC-T-C----ACACA-GAAGATGTGACTTGTTGAAAG
194 TACTGCTGGTATGGTGAATGAGTTGATGGCTTACAAGAACACATGAAGATGTGACTCGTTGAAAG
133172258 AGTGGTAATGAC
259 AGTGGTAATGAC
* * * *
133172270 TGATAATTGTATTATATGGGTATTCGAATGGGGTTTATTTTAGGACT-TCCTTTTGGCAATCAAA
1 TGATAATTGTATTAT-TGGGTGTTTGAAT-GGGTTTATTTTAAGACTAT-ATTTTGGCAATCAAA
* * * *
133172334 AGTAATTGTTTGTGGAAAAGTAAGATTTAGTTTTAGTTATTG-GGATGGGGAA-TAAAGGATATG
63 AGTAATTGTTTGTGGAAAAGGAAGATTTAATTTTAGTTATTGAGGATGGGAAAGT-AAGGATATA
* * * *
133172397 ATGTCAGCAAGAAGTGGTTTGGTTT-GGGATCAGGGGC-GTTTCGAAAATGATAGCTGAAAATAA
127 ATATCAGCAAGAAGTGGTTTGGTTTGGGGGTC-GGAGCTGTTTCGAAAATGATAGCTGAAAAGAA
* * * * * * *
133172460 TGTTTACTACTAGTGT-GAGAATGAGTTGATAGCTCACATGAACA
191 TG-TTACTGCTGGTATGGTGAATGAGTTGATGGCTTACAAGAACA
133172504 GATATAAGAT
Statistics
Matches: 627, Mismatches: 84, Indels: 97
0.78 0.10 0.12
Matches are distributed among these distances:
246 32 0.05
248 5 0.01
253 7 0.01
254 105 0.17
255 62 0.10
256 4 0.01
257 1 0.00
262 1 0.00
263 21 0.03
264 78 0.12
265 72 0.11
266 2 0.00
269 3 0.00
273 6 0.01
274 101 0.16
275 22 0.04
283 68 0.11
284 37 0.06
ACGTcount: A:0.32, C:0.08, G:0.27, T:0.33
Consensus pattern (270 bp):
TGATAATTGTATTATTGGGTGTTTGAATGGGTTTATTTTAAGACTATATTTTGGCAATCAAAAGT
AATTGTTTGTGGAAAAGGAAGATTTAATTTTAGTTATTGAGGATGGGAAAGTAAGGATATAATAT
CAGCAAGAAGTGGTTTGGTTTGGGGGTCGGAGCTGTTTCGAAAATGATAGCTGAAAAGAATGTTA
CTGCTGGTATGGTGAATGAGTTGATGGCTTACAAGAACACATGAAGATGTGACTCGTTGAAAGAG
TGGTAATGAC
Found at i:133181185 original size:41 final size:41
Alignment explanation
Indices: 133181128--133181252 Score: 223
Period size: 41 Copynumber: 3.0 Consensus size: 41
133181118 TTAGGCACTA
133181128 AAATGAAAACTCTTGAAATTCTATCTATTTTGGTTTACTTC
1 AAATGAAAACTCTTGAAATTCTATCTATTTTGGTTTACTTC
* *
133181169 AAATGAAAAGTCTTGAAATCCTATCTATTTTGGTTTACTTC
1 AAATGAAAACTCTTGAAATTCTATCTATTTTGGTTTACTTC
*
133181210 AAACGAAAACTCTTGAAATTCTATCTATTTTGGTTTACTTC
1 AAATGAAAACTCTTGAAATTCTATCTATTTTGGTTTACTTC
133181251 AA
1 AA
133181253 GTATTTTGGT
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 79 1.00
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (41 bp):
AAATGAAAACTCTTGAAATTCTATCTATTTTGGTTTACTTC
Found at i:133182464 original size:3 final size:3
Alignment explanation
Indices: 133182456--133183027 Score: 206
Period size: 3 Copynumber: 189.3 Consensus size: 3
133182446 CTATTTTGCC
133182456 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
** ** * * *
133182504 ATT ATT ATT CCT ACC ATT A-T ATT ACT ATT ATT ATT -TCC ACT ACTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT A-TT
* * * * *
133182549 -TC ATT ATT ATT ATT ACT ATT TTT GCTT ATT ACT ATT ATT ATT A-T
1 ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT
* * **
133182593 ACCTT ATT ATT ATT ATT ATT ATT ATT ATCT ATT GTC AAC ATT ATT ATT
1 A--TT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT
** * * * * *
133182641 ATT ATT ACC GTT AGT ATT ATT -TC ATT ACT ATT ATT -TT -TT ATT GTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
133182686 A-T ATT ACT ATC ATT GTT A-T ATT ATC ATT ATT ATT CTT ACCTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A--TT ATT
* * * * * ** * *
133182731 ATT ACT ACT ACT ACT ATT ATT CTT ATT AAC A-T AGT ATT ATT ATT CTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *** * * * *
133182778 -TCT A-T ACT ATT ATT ATT CCCC CTT -TT TTT ACAT ATT ATG ATT ATT
1 AT-T ATT ATT ATT ATT ATT -ATT ATT ATT ATT A-TT ATT ATT ATT ATT
* ** * * ** *
133182823 GTT ATT AAC ATAT ATT ATT ATC ATT AATGT ATT GTT ATT ATT ACA ACT
1 ATT ATT ATT AT-T ATT ATT ATT ATT -AT-T ATT ATT ATT ATT ATT ATT
* ** * *
133182871 ATT ATT ATT ATT TTT CATGT ATAT ATT AGC ATT -TAT ATT ATC GTT ATT
1 ATT ATT ATT ATT ATT -AT-T AT-T ATT ATT ATT AT-T ATT ATT ATT ATT
* * * * * *
133182919 ATT ACT ATT GTT AAT ATT CTT ATT ATT ACT ATT ATT -TT GATT CCTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT -ATT
* * * **
133182965 -TT ATT ATTT ATT ATC AAT A-T ATT ATA ATT ATT GCT ATT ATT ATT
1 ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
133183009 ATT ATC ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT A
133183028 ACATTTTTAA
Statistics
Matches: 415, Mismatches: 119, Indels: 70
0.69 0.20 0.12
Matches are distributed among these distances:
2 28 0.07
3 352 0.85
4 28 0.07
5 7 0.02
ACGTcount: A:0.30, C:0.10, G:0.03, T:0.57
Consensus pattern (3 bp):
ATT
Found at i:133182598 original size:22 final size:22
Alignment explanation
Indices: 133182573--133182614 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
133182563 ACTATTTTTG
133182573 CTTATTACTATTATTATTATAC
1 CTTATTACTATTATTATTATAC
*
133182595 CTTATTATTATTATTATTAT
1 CTTATTACTATTATTATTAT
133182615 TATTATCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.60
Consensus pattern (22 bp):
CTTATTACTATTATTATTATAC
Found at i:133183032 original size:15 final size:15
Alignment explanation
Indices: 133183000--133183032 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
133182990 AATTATTGCT
*
133183000 ATTATTATTATTATC
1 ATTATTATTATTAAC
133183015 ATTATTATTATTAAC
1 ATTATTATTATTAAC
133183030 ATT
1 ATT
133183033 TTTAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (15 bp):
ATTATTATTATTAAC
Found at i:133183131 original size:17 final size:17
Alignment explanation
Indices: 133183098--133183131 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
133183088 TTTTATTATC
*
133183098 ATTATTACTATCGTATT
1 ATTATTACTATCATATT
*
133183115 ATTATTACTATTATATT
1 ATTATTACTATCATATT
133183132 TTCATCTATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.09, G:0.03, T:0.56
Consensus pattern (17 bp):
ATTATTACTATCATATT
Found at i:133184609 original size:5 final size:5
Alignment explanation
Indices: 133184601--133184626 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
133184591 AAGAAAAGTA
133184601 AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A
133184627 GAGAGAGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:133184633 original size:2 final size:2
Alignment explanation
Indices: 133184626--133184691 Score: 132
Period size: 2 Copynumber: 33.0 Consensus size: 2
133184616 AAAATAAAAT
133184626 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
133184668 AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG
133184692 GGAGGGAGGG
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:133185630 original size:39 final size:39
Alignment explanation
Indices: 133185564--133185699 Score: 209
Period size: 39 Copynumber: 3.5 Consensus size: 39
133185554 TGATTTGAAA
* *
133185564 CCCGAAGTCTAGCTGAAGCACATAAGTGCTAAATGGAAG
1 CCCGAAGGCTAACTGAAGCACATAAGTGCTAAATGGAAG
* *
133185603 CCGGAAGGCTAACTGAAGCACACAAGTGCTAAATGGAAG
1 CCCGAAGGCTAACTGAAGCACATAAGTGCTAAATGGAAG
* * *
133185642 CCCGAAGGCTAACTGAAGCACATAAGTGTTGAACGGAAG
1 CCCGAAGGCTAACTGAAGCACATAAGTGCTAAATGGAAG
133185681 CCCGAAGGCTAACTGAAGC
1 CCCGAAGGCTAACTGAAGC
133185700 TCATCAGAGC
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 88 1.00
ACGTcount: A:0.36, C:0.22, G:0.27, T:0.15
Consensus pattern (39 bp):
CCCGAAGGCTAACTGAAGCACATAAGTGCTAAATGGAAG
Found at i:133187685 original size:2 final size:2
Alignment explanation
Indices: 133187673--133187724 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
133187663 TTTGTCGGAT
*
133187673 GA GA GA AA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
133187715 GA GA GA GA GA
1 GA GA GA GA GA
133187725 AAGCGATAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
GA
Found at i:133191012 original size:31 final size:31
Alignment explanation
Indices: 133190976--133191039 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
133190966 CCGAGGCTGA
*
133190976 AAGGGGTTC-AAAATATTATTTTTCAACTTTT
1 AAGGGGTACAAAAATATT-TTTTTCAACTTTT
*
133191007 AAGGGGTACAAAAATATTTTTTTTAACTTTT
1 AAGGGGTACAAAAATATTTTTTTCAACTTTT
133191038 AA
1 AA
133191040 AAGTAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 22 0.73
32 8 0.27
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (31 bp):
AAGGGGTACAAAAATATTTTTTTCAACTTTT
Found at i:133191051 original size:31 final size:32
Alignment explanation
Indices: 133190985--133191050 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 32
133190975 AAAGGGGTTC
** *
133190985 AAAATATTATTTTTCAACTTTTAAGGGGTACA
1 AAAATATTATTTTTCAACTTTTAAGAAGTAAA
*
133191017 AAAATATT-TTTTTTAACTTTTAA-AAGTAAA
1 AAAATATTATTTTTCAACTTTTAAGAAGTAAA
133191047 AAAA
1 AAAA
133191051 AAAAAACCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 8 0.27
31 14 0.47
32 8 0.27
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (32 bp):
AAAATATTATTTTTCAACTTTTAAGAAGTAAA
Found at i:133194833 original size:205 final size:206
Alignment explanation
Indices: 133194465--133194841 Score: 560
Period size: 205 Copynumber: 1.8 Consensus size: 206
133194455 TACTGGTAGT
* **
133194465 GTGCCTAATTAGTCATTCCCAGAGTTATAATAGGTTTCCCTTTCCTGTTTCCCATCGTTGCCACA
1 GTGCCTAATTAGCCATTCCCAGAGTTATAATAGGTTTCCCGGTCCTGTTTCCCATCGTTG-C-CA
* * * * *
133194530 CTGTTTTCGTGCTAAGGAATTGTTTGGAACATCTCAAACTCATAATCGAGCCTCACTTGAAACCT
64 CTGTTTTCATCCTAAGAAATTGCTTGGAACATCTCAAACTCATAATCCAGCCTCACTTGAAACCT
133194595 CAGGATTGATGAACATCGGGATAGTTTTCAAACATTGAGCTGATTGACCTCAATGGCTGCCCCAT
129 CAGGATTGATGAACATCGGGATAGTTTTCAAACATTGAGCTGATTGACCTCAATGGCTGCCCCAT
133194660 TTGTATTCTGGTA
194 TTGTATTCTGGTA
* * *
133194673 GTGCCTTATTAGCCATTCCCAGAGTTGTAATAGGTTTCCCGGT-CTGGTTTCCTATCGTTG-CAC
1 GTGCCTAATTAGCCATTCCCAGAGTTATAATAGGTTTCCCGGTCCT-GTTTCCCATCGTTGCCAC
* * **
133194736 TGTTTTCATCCTAAGAAATTGCTTGGAACATCTCGAACTCGTAATCCAGCCTTGCTTGAAACCTC
65 TGTTTTCATCCTAAGAAATTGCTTGGAACATCTCAAACTCATAATCCAGCCTCACTTGAAACCTC
* *
133194801 AGGATTGATGAACATTGGGATAGTTTTCAAACATTGTGCTG
130 AGGATTGATGAACATCGGGATAGTTTTCAAACATTGAGCTG
133194842 TTTTATTTGT
Statistics
Matches: 151, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
205 98 0.65
207 2 0.01
208 51 0.34
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.34
Consensus pattern (206 bp):
GTGCCTAATTAGCCATTCCCAGAGTTATAATAGGTTTCCCGGTCCTGTTTCCCATCGTTGCCACT
GTTTTCATCCTAAGAAATTGCTTGGAACATCTCAAACTCATAATCCAGCCTCACTTGAAACCTCA
GGATTGATGAACATCGGGATAGTTTTCAAACATTGAGCTGATTGACCTCAATGGCTGCCCCATTT
GTATTCTGGTA
Found at i:133209149 original size:48 final size:47
Alignment explanation
Indices: 133209017--133209177 Score: 154
Period size: 47 Copynumber: 3.5 Consensus size: 47
133209007 AGATAAGTCA
* * * **
133209017 CATGTTCCTAAATTAGTTTCCAACTGATTAACAATGTTTCCCTACTTT
1 CATGTTCATAAATTAGTTGCCAACTGATTAAGAATG-TTCCCTACCCT
* * * *
133209065 CAAGCTCA-AAATTAGTTGCCAACCGATT-AGTGATGTTCCCTTACCCT
1 CATGTTCATAAATTAGTTGCCAACTGATTAAG-AATGTTCCC-TACCCT
133209112 CATGTTCATAAATTAGTTGCCAACTGATTAAGAATGTT--C--CCCT
1 CATGTTCATAAATTAGTTGCCAACTGATTAAGAATGTTCCCTACCCT
* *
133209155 CTTGTTCTTAAATTAGTTGCCAA
1 CATGTTCATAAATTAGTTGCCAA
133209178 GAATATGCAT
Statistics
Matches: 94, Mismatches: 15, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
43 25 0.27
46 7 0.07
47 31 0.33
48 29 0.31
49 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (47 bp):
CATGTTCATAAATTAGTTGCCAACTGATTAAGAATGTTCCCTACCCT
Found at i:133213594 original size:2 final size:2
Alignment explanation
Indices: 133213587--133213617 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
133213577 TGGCAAATAC
*
133213587 TA TA TA TA TA TC TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
133213618 GAGAGAGAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:133215485 original size:38 final size:37
Alignment explanation
Indices: 133215369--133215487 Score: 107
Period size: 38 Copynumber: 3.1 Consensus size: 37
133215359 TATTAATTCG
* *
133215369 CATTTTTAACTAGTTTAATC-CATTTACTATAATTTGAT
1 CATTTTT-ACTAATTTAGTCTC-TTTACTATAATTTGAT
* ** * * *
133215407 -AGCTTTTAAAAATTTTAGTCTATTTATTATAATTTTAT
1 CA-TTTTTACTAA-TTTAGTCTCTTTACTATAATTTGAT
133215445 CATTTTTCACTAATTTAGTCTCTTTACTATAATTTGAT
1 CATTTTT-ACTAATTTAGTCTCTTTACTATAATTTGAT
133215483 CATTT
1 CATTT
133215488 CTAGTGTCTC
Statistics
Matches: 62, Mismatches: 14, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
37 3 0.05
38 55 0.89
39 4 0.06
ACGTcount: A:0.30, C:0.12, G:0.05, T:0.53
Consensus pattern (37 bp):
CATTTTTACTAATTTAGTCTCTTTACTATAATTTGAT
Found at i:133215618 original size:38 final size:38
Alignment explanation
Indices: 133215567--133215640 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 38
133215557 ATACTATACA
*
133215567 TTTTTCACAAATTTATTCCCTTTACTATAATTTGATTT
1 TTTTTCACAAATTTAATCCCTTTACTATAATTTGATTT
* * * *
133215605 TTTTTTACGAATTTAATCTCTTTATTATAATTTGAT
1 TTTTTCACAAATTTAATCCCTTTACTATAATTTGAT
133215641 CATTTCTAGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.27, C:0.12, G:0.04, T:0.57
Consensus pattern (38 bp):
TTTTTCACAAATTTAATCCCTTTACTATAATTTGATTT
Found at i:133215829 original size:5 final size:5
Alignment explanation
Indices: 133215819--133215857 Score: 78
Period size: 5 Copynumber: 7.8 Consensus size: 5
133215809 ATTAATTTGT
133215819 TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTAT
1 TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTAT
133215858 CATAAATTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.21, C:0.00, G:0.18, T:0.62
Consensus pattern (5 bp):
TTATG
Found at i:133220919 original size:15 final size:18
Alignment explanation
Indices: 133220885--133220919 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
133220875 AAAACCAAAA
133220885 TTTTTACAATATTCATTT
1 TTTTTACAATATTCATTT
133220903 TTTTTA-AAT-TTCATTT
1 TTTTTACAATATTCATTT
133220919 T
1 T
133220920 AAATTACATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 3 0.18
18 6 0.35
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTTTACAATATTCATTT
Found at i:133234771 original size:14 final size:15
Alignment explanation
Indices: 133234733--133234773 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
133234723 TAATTTCGTG
133234733 TAATTATAAATTATTA
1 TAATTAT-AATTATTA
*
133234749 T-ATTTTAATT-TTA
1 TAATTATAATTATTA
133234762 TAATTATAATTA
1 TAATTATAATTA
133234774 GTCAAATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
13 4 0.19
14 12 0.57
15 4 0.19
16 1 0.05
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TAATTATAATTATTA
Found at i:133235109 original size:31 final size:31
Alignment explanation
Indices: 133235073--133235142 Score: 104
Period size: 31 Copynumber: 2.3 Consensus size: 31
133235063 GTTATAACTT
* *
133235073 AGTCATTGAATAATTCGAAAGTTTTTATTTA
1 AGTCATTGAATAATTCAAAAATTTTTATTTA
* *
133235104 AGTCATGGAATTATTCAAAAATTTTTATTTA
1 AGTCATTGAATAATTCAAAAATTTTTATTTA
133235135 AGTCATTG
1 AGTCATTG
133235143 GACTGTTAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.36, C:0.07, G:0.13, T:0.44
Consensus pattern (31 bp):
AGTCATTGAATAATTCAAAAATTTTTATTTA
Found at i:133237723 original size:15 final size:15
Alignment explanation
Indices: 133237682--133237712 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
133237672 GTTGCTAAAT
*
133237682 ATAATAGTAATAGTA
1 ATAATAATAATAGTA
133237697 ATAATAATAATAGTA
1 ATAATAATAATAGTA
133237712 A
1 A
133237713 ATATGATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.10, T:0.32
Consensus pattern (15 bp):
ATAATAATAATAGTA
Found at i:133239392 original size:44 final size:44
Alignment explanation
Indices: 133239338--133239481 Score: 136
Period size: 44 Copynumber: 3.3 Consensus size: 44
133239328 ACCTATTACC
*
133239338 CTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCA
1 CTACTGCTTAGGGGTTTAAGGTTCTTCATCTTCGATCTGCTCCA
* * * * * *
133239382 CTACTGCTTAGGGAG-ATAA-GATCTGCAAT-TT-AACCTGTTACC-
1 CTACTGCTTAGGG-GTTTAAGGTTCTTC-ATCTTCGATCTGCT-CCA
* * *
133239424 CTACTGCTTAGGGGTTTAAGGTTCTTCTTCTTCGATCTACACCA
1 CTACTGCTTAGGGGTTTAAGGTTCTTCATCTTCGATCTGCTCCA
133239468 CTACTGCTTAGGGG
1 CTACTGCTTAGGGG
133239482 GATAAGATCT
Statistics
Matches: 76, Mismatches: 16, Indels: 16
0.70 0.15 0.15
Matches are distributed among these distances:
41 1 0.01
42 22 0.29
43 18 0.24
44 34 0.45
45 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (44 bp):
CTACTGCTTAGGGGTTTAAGGTTCTTCATCTTCGATCTGCTCCA
Found at i:133239392 original size:86 final size:86
Alignment explanation
Indices: 133239247--133239529 Score: 284
Period size: 86 Copynumber: 3.3 Consensus size: 86
133239237 TTTCAGCCTG
* * * * * *
133239247 TTACCCTACTGCTTAAGGGATTAAGGCTT-GTCATCTTTGATTTGTTTCC-CTACTGCTTAGGG-
1 TTACCCTACTGCTTAGGGGTTTAAGG-TTCTTCATCTTCGATCTG-CTCCACTACTGCTTAGGGA
** * *
133239309 TTTTAGATCTGTATACTCAACCTA
64 GATAAGATCTGCA-ACTCAACCTA
*
133239333 TTACCCTACTGCTTAGGGGTTTAAGGTTCTTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGA
1 TTACCCTACTGCTTAGGGGTTTAAGGTTCTTCATCTTCGATCTGCTCCACTACTGCTTAGGGAGA
* * *
133239398 TAAGATCTGCAATTTAACCTG
66 TAAGATCTGCAACTCAACCTA
* * * *
133239419 TTACCCTACTGCTTAGGGGTTTAAGGTTCTTCTTCTTCGATCTACACCACTACTGCTTAGGGGGA
1 TTACCCTACTGCTTAGGGGTTTAAGGTTCTTCATCTTCGATCTGCTCCACTACTGCTTAGGGAGA
* * **** *
133239484 TAAGATCTACAATTTGGTCTG
66 TAAGATCTGCAACTCAACCTA
*
133239505 TTTCCCTACTGCTTAGGGGTTTAAG
1 TTACCCTACTGCTTAGGGGTTTAAG
133239530 ATCCTATGAA
Statistics
Matches: 171, Mismatches: 23, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
85 5 0.03
86 157 0.92
87 9 0.05
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.37
Consensus pattern (86 bp):
TTACCCTACTGCTTAGGGGTTTAAGGTTCTTCATCTTCGATCTGCTCCACTACTGCTTAGGGAGA
TAAGATCTGCAACTCAACCTA
Found at i:133239881 original size:43 final size:43
Alignment explanation
Indices: 133239819--133240273 Score: 214
Period size: 43 Copynumber: 10.5 Consensus size: 43
133239809 CAGCCTATTA
*
133239819 CCCTACTGCTTAGGGGGTTAAGGCCCATC-TCTTTGATCTGTTT
1 CCCTACTGCTTA-GGGGTTAAGGCCCATCATCTTCGATCTGTTT
** *
133239862 CCCTACTGCTTAGGAGGTTAA-GATCTTCATCTTCGATCTGTTT
1 CCCTACTGCTTAGG-GGTTAAGGCCCATCATCTTCGATCTGTTT
* * ** * * *
133239905 CCCTACTGCCTAGGGAGATAA-GATC-TGCA-ATTCGGTCTGTTA
1 CCCTACTGCTTAGGG-GTTAAGGCCCAT-CATCTTCGATCTGTTT
* * * * *
133239947 CCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTT
1 CCCTACTGCTTAGGGG-TTAAGGCCCATCATCTTCGATCTGTTT
** ** * * *
133239991 CCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTC-AGCCTGTTA
1 CCCTACTGCTTA-GGGGTTAAGGCCCAT-CATCTTCGA-TCTGTTT
* * *** * * * *
133240036 CCCTACTGCTCAGGGGGTTAAAGCTTGTAAAT-TTGGCT-TGTTA
1 CCCTACTGCTTA-GGGGTTAAGGCCCAT-CATCTTCGATCTGTTT
* * *
133240079 CCCTACTGCATAGGGGGTTAAAGCCCATCATCTTTGATCTGTTT
1 CCCTACTGCTTA-GGGGTTAAGGCCCATCATCTTCGATCTGTTT
****
133240123 CCCTACTGCTTAAGGGGTTAA-GATTTTCATCTTCGATCTGTTT
1 CCCTACTGCTT-AGGGGTTAAGGCCCATCATCTTCGATCTGTTT
* * ** * * *
133240166 CCCTACTGCTTAGAGAGAT-AGGATC-TGCA-ATTCGGTCTGTTA
1 CCCTACTGCTTAG-GGGTTAAGGCCCAT-CATCTTCGATCTGTTT
* * * * * *
133240208 CCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGATTTGTTT
1 CCCTACTGCTTAGGGG-TTAAGGCCCATCATCTTCGATCTGTTT
133240252 CCCTACTGCTTAGGGGATTAAG
1 CCCTACTGCTTAGGGG-TTAAG
133240274 ATTTGTAAAT
Statistics
Matches: 317, Mismatches: 73, Indels: 43
0.73 0.17 0.10
Matches are distributed among these distances:
41 3 0.01
42 61 0.19
43 128 0.40
44 83 0.26
45 42 0.13
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (43 bp):
CCCTACTGCTTAGGGGTTAAGGCCCATCATCTTCGATCTGTTT
Found at i:133240261 original size:129 final size:127
Alignment explanation
Indices: 133239816--133240277 Score: 529
Period size: 129 Copynumber: 3.6 Consensus size: 127
133239806 TTTCAGCCTA
* * * *
133239816 TTACCCTACTGCTTAGGGGGTTAAGGCCCATC-TCTTTGATCTGTTTCCCTACTGCTTAGGAGGT
1 TTACCCTACCGATTAGGGGGTTAAGACCCATCGTCTTCGATCTGTTTCCCTACTGCTTAGG-GGT
* *
133239880 TAAGATCTTCATCTTCGATCTGTTTCCCTACTGCCTAGGGAGATAAGATCTGCAATTCGGTCTG
65 TAAGATTTTCATCTTCGATCTGTTTCCCTACTGCTTAGGGAGAT-AGATCTGCAATTCGGTCTG
* *
133239944 TTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
1 TTACCCTACCGATTAGGGGGTTAAGACCCATCGTCTTCGATCTGTTTCCCTACTGCTTA-GGGGT
** * * * * * * * * *
133240009 TAAGATCTGTAAATCTTC-AGCCTGTTACCCTACTGCTCAGGGGGTTAAAGCTTGTAAATTTGG-
65 TAAGAT-T-TTCATCTTCGA-TCTGTTTCCCTACTGCTTAGGGAGATAGATC-TG-CAATTCGGT
133240072 CTTG
125 C-TG
* * *
133240076 TTACCCTACTGCA-TAGGGGGTTAA-AGCCCATCATCTTTGATCTGTTTCCCTACTGCTTAAGGG
1 TTACCCTACCG-ATTAGGGGGTTAAGA-CCCATCGTCTTCGATCTGTTTCCCTACTGCTT-AGGG
*
133240139 GTTAAGATTTTCATCTTCGATCTGTTTCCCTACTGCTTAGAGAGATAGGATCTGCAATTCGGTCT
63 GTTAAGATTTTCATCTTCGATCTGTTTCCCTACTGCTTAGGGAGATA-GATCTGCAATTCGGTCT
133240204 G
127 G
* * *
133240205 TTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGATTTGTTTCCCTACTGCTTAGGGGAT
1 TTACCCTACCGATTAGGGGGTTAAGACCCATCGTCTTCGATCTGTTTCCCTACTGCTTAGGGG-T
133240270 TAAGATTT
65 TAAGATTT
133240278 GTAAATCTTC
Statistics
Matches: 275, Mismatches: 42, Indels: 33
0.79 0.12 0.09
Matches are distributed among these distances:
128 33 0.12
129 99 0.36
130 38 0.14
131 35 0.13
132 68 0.25
133 2 0.01
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.36
Consensus pattern (127 bp):
TTACCCTACCGATTAGGGGGTTAAGACCCATCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGTT
AAGATTTTCATCTTCGATCTGTTTCCCTACTGCTTAGGGAGATAGATCTGCAATTCGGTCTG
Found at i:133240283 original size:261 final size:260
Alignment explanation
Indices: 133239816--133240322 Score: 881
Period size: 261 Copynumber: 1.9 Consensus size: 260
133239806 TTTCAGCCTA
* *
133239816 TTACCCTACTGCTTAGGGGGTTAAGGCCCATCTCTTTGATCTGTTTCCCTACTGCTTAGGAGGTT
1 TTACCCTACTGCATAGGGGGTTAAAGCCCATCTCTTTGATCTGTTTCCCTACTGCTTAGGAGGTT
*
133239881 AAGATCTTCATCTTCGATCTGTTTCCCTACTGCCTAGGGAGATAAGATCTGCAATTCGGTCTGTT
66 AAGATCTTCATCTTCGATCTGTTTCCCTACTGCCTAGAGAGATAAGATCTGCAATTCGGTCTGTT
*
133239946 ACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTA
131 ACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGATTA
*
133240011 AGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTCAGGGGGTTAAAGCTTGTAAATTTGGCTTG
196 AGATCTGTAAATCTTCAGCCTGCTACCCTACTGCTCAGGGGGTTAAAGCTTGTAAATTTGGCTTG
133240076 TTACCCTACTGCATAGGGGGTTAAAGCCCATCATCTTTGATCTGTTTCCCTACTGCTTAAGG-GG
1 TTACCCTACTGCATAGGGGGTTAAAGCCCATC-TCTTTGATCTGTTTCCCTACTGCTT-AGGAGG
* * *
133240140 TTAAGATTTTCATCTTCGATCTGTTTCCCTACTGCTTAGAGAGATAGGATCTGCAATTCGGTCTG
64 TTAAGATCTTCATCTTCGATCTGTTTCCCTACTGCCTAGAGAGATAAGATCTGCAATTCGGTCTG
*
133240205 TTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGATTTGTTTCCCTACTGCTTAGGGGAT
129 TTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGAT
* * *
133240270 TAAGATTTGTAAATCTTCAGCCTGCTACCCTACTGCTTAGGGGGTTAAGGCTT
194 TAAGATCTGTAAATCTTCAGCCTGCTACCCTACTGCTCAGGGGGTTAAAGCTT
133240323 ATGAATTCAC
Statistics
Matches: 233, Mismatches: 12, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
260 30 0.13
261 200 0.86
262 3 0.01
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (260 bp):
TTACCCTACTGCATAGGGGGTTAAAGCCCATCTCTTTGATCTGTTTCCCTACTGCTTAGGAGGTT
AAGATCTTCATCTTCGATCTGTTTCCCTACTGCCTAGAGAGATAAGATCTGCAATTCGGTCTGTT
ACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGATTA
AGATCTGTAAATCTTCAGCCTGCTACCCTACTGCTCAGGGGGTTAAAGCTTGTAAATTTGGCTTG
Found at i:133252999 original size:15 final size:15
Alignment explanation
Indices: 133252958--133252988 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
133252948 GTTGCTAAAT
*
133252958 ATAATAGTAATAGTA
1 ATAATAATAATAGTA
133252973 ATAATAATAATAGTA
1 ATAATAATAATAGTA
133252988 A
1 A
133252989 ATATGATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.10, T:0.32
Consensus pattern (15 bp):
ATAATAATAATAGTA
Found at i:133255252 original size:16 final size:16
Alignment explanation
Indices: 133255207--133255253 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
133255197 ATTTTTTGGC
133255207 TAAATTTTTCGAGTTT
1 TAAATTTTTCGAGTTT
* * *
133255223 CAACTTTCTCGAGTTT
1 TAAATTTTTCGAGTTT
*
133255239 TAAATTTTTTGAGTT
1 TAAATTTTTCGAGTT
133255254 CGAATTTGTT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.23, C:0.11, G:0.13, T:0.53
Consensus pattern (16 bp):
TAAATTTTTCGAGTTT
Found at i:133266869 original size:21 final size:20
Alignment explanation
Indices: 133266830--133266869 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
133266820 TCCTGAGAGA
*
133266830 GGTTGAAGAAAGATGTAAAT
1 GGTTGAAGAAAAATGTAAAT
*
133266850 GGTTGGAAGAAAAATTTAAA
1 GGTT-GAAGAAAAATGTAAA
133266870 GAAATAGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.47, C:0.00, G:0.28, T:0.25
Consensus pattern (20 bp):
GGTTGAAGAAAAATGTAAAT
Found at i:133273394 original size:75 final size:73
Alignment explanation
Indices: 133273306--133273477 Score: 217
Period size: 75 Copynumber: 2.4 Consensus size: 73
133273296 GGTTTTCCTC
*** * * **
133273306 ATTGAAATACCATACCTACATTTTTTAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
133273370 TCAGTATGG
65 TCAGTATGG
*
133273379 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
133273444 CTCAGTATGG
64 CTCAGTATGG
133273454 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
133273478 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 57 0.65
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:133273475 original size:35 final size:35
Alignment explanation
Indices: 133273311--133273477 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
133273301 TCCTCATTGA
*** *
133273311 AATACCATACCTACATTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
133273346 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
133273386 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
133273421 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
133273456 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
133273478 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
35 88 0.75
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:133280877 original size:35 final size:35
Alignment explanation
Indices: 133280810--133280977 Score: 185
Period size: 35 Copynumber: 4.6 Consensus size: 35
133280800 TCCTCATTGA
*** *
133280810 AATACCATACCTACATTTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACA-TTTCACAACTCAGTAT-GGAT
* **
133280846 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
133280886 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
133280921 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
133280956 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
133280978 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 11
0.86 0.07 0.08
Matches are distributed among these distances:
35 74 0.63
36 14 0.12
39 3 0.03
40 27 0.23
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:133280936 original size:75 final size:73
Alignment explanation
Indices: 133280805--133280977 Score: 210
Period size: 75 Copynumber: 2.4 Consensus size: 73
133280795 GGTTTTCCTC
*** * * **
133280805 ATTGAAATACCATACCTACATTTTTTTAACTCGGTATGGGAAATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACA-TTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAAC
133280870 TCAGTATGG
65 TCAGTATGG
*
133280879 ATTTGATAATACCATACCTACATTTCACAGCTCAGTAT-GGATAATACCATACCTACATTTCACA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGGA-AATACCATACCTACATTTCACA
133280943 ACTCAGTATGG
63 ACTCAGTATGG
133280954 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
133280978 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 2 0.02
74 4 0.05
75 46 0.52
76 15 0.17
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:133284798 original size:44 final size:44
Alignment explanation
Indices: 133284750--133285161 Score: 273
Period size: 44 Copynumber: 9.6 Consensus size: 44
133284740 ATTTACAGAT
* *
133284750 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGAAC
1 CTTAAACCCCTAAGCAGTAGGGTAACAGATCGAAGACGAAGAAC
* * ** * *
133284794 CTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAA-TTGCAG-AT
1 CTTAAACCCCTAAGCAGTAGGGTAACAGATCGAAGACGAAGAAC
* *
133284836 CTT-ATCTCCCTAAGCAGTAGTGG-AGCAGATCGAAGACGAAGAAC
1 CTTAAAC-CCCTAAGCAGTAG-GGTAACAGATCGAAGACGAAGAAC
* * ** * *
133284880 CTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAA-TTGCAG-AT
1 CTTAAACCCCTAAGCAGTAGGGTAACAGATCGAAGACGAAGAAC
* *
133284922 CTT-ATCTCCCTAAGCAGTAGTGG-AGCAGATCGAAGACGAAGAAC
1 CTTAAAC-CCCTAAGCAGTAG-GGTAACAGATCGAAGACGAAGAAC
* * * * ** * *
133284966 CTTAAACCCTTAAGTAGTAGGGTAACAGGTTGAA-TTGCAG-AT
1 CTTAAACCCCTAAGCAGTAGGGTAACAGATCGAAGACGAAGAAC
* *
133285008 CTT-ATCTCCCTAAGCAGTAGTGG-AGCAGATCGAAGACGAAGAAC
1 CTTAAAC-CCCTAAGCAGTAG-GGTAACAGATCGAAGACGAAGAAC
* * * *
133285052 CTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTAC--AG-AT
1 CTTAAACCCCTAAGCAGTAGGGTAACAGATCGAA-GACGAAGAAC
* * * * *
133285094 C-TAAAACCCTAAGCAGTAGGGAAACAGATCAAAGATGACA-AGC
1 CTTAAACCCCTAAGCAGTAGGGTAACAGATCGAAGACGA-AGAAC
* * *
133285137 CTTAATCCTCTAAACAGTAGGGTAA
1 CTTAAACCCCTAAGCAGTAGGGTAA
133285162 TAGGCTGAAA
Statistics
Matches: 272, Mismatches: 72, Indels: 48
0.69 0.18 0.12
Matches are distributed among these distances:
40 1 0.00
41 33 0.12
42 75 0.28
43 34 0.12
44 121 0.44
45 8 0.03
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (44 bp):
CTTAAACCCCTAAGCAGTAGGGTAACAGATCGAAGACGAAGAAC
Found at i:133284836 original size:86 final size:86
Alignment explanation
Indices: 133284745--133285170 Score: 635
Period size: 86 Copynumber: 5.0 Consensus size: 86
133284735 TGAAAATTTA
* * *
133284745 CAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGATCGAAGACGAAGAACCTTAAACCCCTAAGC
1 CAGATCTTATCTCCCTAAGCAGTAGTGG-AGCAGATCGAAGACGAAGAACCTTAAACCCCTAAGC
133284809 AGTAGGGTAACAGGTTGAATTG
65 AGTAGGGTAACAGGTTGAATTG
133284831 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGAACCTTAAACCCCTAAGCA
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGAACCTTAAACCCCTAAGCA
133284896 GTAGGGTAACAGGTTGAATTG
66 GTAGGGTAACAGGTTGAATTG
* *
133284917 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGAACCTTAAACCCTTAAGTA
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGAACCTTAAACCCCTAAGCA
133284982 GTAGGGTAACAGGTTGAATTG
66 GTAGGGTAACAGGTTGAATTG
133285003 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGAACCTTAAACCCCTAAGCA
1 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGAACCTTAAACCCCTAAGCA
*
133285068 GTAGGGTAACAGGTTGAATTA
66 GTAGGGTAACAGGTTGAATTG
*** * * * * * * *
133285089 CAGATC-TAAAACCCTAAGCAGTAG-GGAAACAGATCAAAGATGACA-AGCCTTAATCCTCTAAA
1 CAGATCTTATCTCCCTAAGCAGTAGTGG-AGCAGATCGAAGACGA-AGAACCTTAAACCCCTAAG
* *
133285151 CAGTAGGGTAATAGGCTGAA
64 CAGTAGGGTAACAGGTTGAA
133285171 AATTAAATAT
Statistics
Matches: 317, Mismatches: 20, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
84 2 0.01
85 59 0.19
86 254 0.80
87 2 0.01
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (86 bp):
CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGAACCTTAAACCCCTAAGCA
GTAGGGTAACAGGTTGAATTG
Found at i:133290332 original size:31 final size:31
Alignment explanation
Indices: 133290294--133290356 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
133290284 CGACACCAAC
*
133290294 TTAGTCATGTAATTATTAAAATACCCTTATT
1 TTAGTCATGTAATCATTAAAATACCCTTATT
133290325 TTAGTCATGTAATCATTAAAATACCCTTATT
1 TTAGTCATGTAATCATTAAAATACCCTTATT
133290356 T
1 T
133290357 AAAGGGTAAT
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:0.35, C:0.14, G:0.06, T:0.44
Consensus pattern (31 bp):
TTAGTCATGTAATCATTAAAATACCCTTATT
Found at i:133291017 original size:56 final size:55
Alignment explanation
Indices: 133290918--133291029 Score: 206
Period size: 56 Copynumber: 2.0 Consensus size: 55
133290908 ATAGCTAGGG
*
133290918 TTTGTTTCAAGCTTGCAAGCCCATAGTAAGTGATTCCAGGCCCCGTTTTTAATGT
1 TTTGTTTCAAGCTTGCAAGCCCATAGTAAGTGATTCCAAGCCCCGTTTTTAATGT
133290973 TTTGTTTCAAGCTTGCAAGCTCCATAGTAAGTGATTCCAAGCCCCGTTTTTAATGT
1 TTTGTTTCAAGCTTGCAAGC-CCATAGTAAGTGATTCCAAGCCCCGTTTTTAATGT
133291029 T
1 T
133291030 CTTTACGTTT
Statistics
Matches: 55, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
55 20 0.36
56 35 0.64
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.38
Consensus pattern (55 bp):
TTTGTTTCAAGCTTGCAAGCCCATAGTAAGTGATTCCAAGCCCCGTTTTTAATGT
Found at i:133291385 original size:30 final size:30
Alignment explanation
Indices: 133291351--133291408 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
133291341 TTCGAGCTTT
133291351 GGGGCAAAAGT-GTAAATATGCAAAAGTTTA
1 GGGGCAAAA-TCGTAAATATGCAAAAGTTTA
* *
133291381 GGGGCAAAATCGTAAATTTTCAAAAGTT
1 GGGGCAAAATCGTAAATATGCAAAAGTT
133291409 AGAGTTAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.41, C:0.09, G:0.24, T:0.26
Consensus pattern (30 bp):
GGGGCAAAATCGTAAATATGCAAAAGTTTA
Found at i:133294728 original size:2 final size:2
Alignment explanation
Indices: 133294721--133294753 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
133294711 ATATTAAAAG
133294721 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
133294754 ATGTATACAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:133295330 original size:39 final size:39
Alignment explanation
Indices: 133295287--133295365 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
133295277 AAAAAAGCTG
* *
133295287 ATCCCACTCCCTCATGCTACTTTGTTTTATTATTAATTA
1 ATCCCACTCCCCCATGCCACTTTGTTTTATTATTAATTA
133295326 ATCCCACTCCCCCATGCCACTTTGTTTTATTATTAATTA
1 ATCCCACTCCCCCATGCCACTTTGTTTTATTATTAATTA
133295365 A
1 A
133295366 AACCATATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.24, C:0.28, G:0.05, T:0.43
Consensus pattern (39 bp):
ATCCCACTCCCCCATGCCACTTTGTTTTATTATTAATTA
Found at i:133295426 original size:24 final size:24
Alignment explanation
Indices: 133295395--133295450 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
133295385 TATATAATAT
133295395 AAAAAAAACCTTTTTTTTAAAACA
1 AAAAAAAACCTTTTTTTTAAAACA
*
133295419 AAAAAAAATCTTTTTTTTAAAACA
1 AAAAAAAACCTTTTTTTTAAAACA
133295443 AAAAAAAA
1 AAAAAAAA
133295451 GAGGTTAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (24 bp):
AAAAAAAACCTTTTTTTTAAAACA
Found at i:133296893 original size:44 final size:44
Alignment explanation
Indices: 133296825--133297144 Score: 505
Period size: 44 Copynumber: 7.3 Consensus size: 44
133296815 CAGAAACACC
* * *
133296825 AATCTGTTATTTTCAATCTGCTCTCCGCCACTACAGAGACGCCA
1 AATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCA
* * *
133296869 AATCTGTCATCTTCGATCTACTCTCCGCCACTACAGAGACGCCA
1 AATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCA
* * *
133296913 AATCTGTCATCTTCGATCTGCTCTCCGCCACTACAGAGATGCCA
1 AATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCA
* * *
133296957 AATCTGTCATCTTCGATCTGCTTTCTGCCGCTACAGAGACGCCA
1 AATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCA
133297001 AATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCA
1 AATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCA
*
133297045 AATCTGTTATCTTCGATCTGCTCTCCGTCGCTACAGAGACGCCA
1 AATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCA
* *
133297089 AATTTGTTATCTTCGATCTACTCTCCGCCGCTACAGAGACGCCA
1 AATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCA
133297133 AATCTGTTATCT
1 AATCTGTTATCT
133297145 GCTTAAATGA
Statistics
Matches: 258, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 258 1.00
ACGTcount: A:0.23, C:0.33, G:0.16, T:0.29
Consensus pattern (44 bp):
AATCTGTTATCTTCGATCTGCTCTCCGCCGCTACAGAGACGCCA
Found at i:133301203 original size:19 final size:19
Alignment explanation
Indices: 133301160--133301207 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
133301150 GGGAAAATCT
133301160 AATGCAAATGATGCAATAC
1 AATGCAAATGATGCAATAC
* * *
133301179 AGTGCACATGATGCAATGC
1 AATGCAAATGATGCAATAC
133301198 AATGCAAATG
1 AATGCAAATG
133301208 CATGGGATGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.42, C:0.17, G:0.21, T:0.21
Consensus pattern (19 bp):
AATGCAAATGATGCAATAC
Found at i:133305417 original size:12 final size:12
Alignment explanation
Indices: 133305400--133305424 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
133305390 TATGGGGTAT
133305400 TACAAGTAATAA
1 TACAAGTAATAA
133305412 TACAAGTAATAA
1 TACAAGTAATAA
133305424 T
1 T
133305425 TTTGGAATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.28
Consensus pattern (12 bp):
TACAAGTAATAA
Found at i:133306413 original size:39 final size:39
Alignment explanation
Indices: 133306370--133306448 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
133306360 AAAAAAGCTG
*
133306370 ATCCCACTCCCCCATGCTACTTTGTTTTATTATTAATTA
1 ATCCCACTCCCCCATGCCACTTTGTTTTATTATTAATTA
133306409 ATCCCACTCCCCCATGCCACTTTGTTTTATTATTAATTA
1 ATCCCACTCCCCCATGCCACTTTGTTTTATTATTAATTA
133306448 A
1 A
133306449 AACCATATTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.24, C:0.29, G:0.05, T:0.42
Consensus pattern (39 bp):
ATCCCACTCCCCCATGCCACTTTGTTTTATTATTAATTA
Found at i:133308297 original size:16 final size:16
Alignment explanation
Indices: 133308276--133308306 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
133308266 GCAACGGATA
133308276 CTTGTTCTTGACTGTT
1 CTTGTTCTTGACTGTT
133308292 CTTGTTCTTGACTGT
1 CTTGTTCTTGACTGT
133308307 CACCTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.19, G:0.19, T:0.55
Consensus pattern (16 bp):
CTTGTTCTTGACTGTT
Found at i:133310509 original size:26 final size:28
Alignment explanation
Indices: 133310472--133310535 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 28
133310462 TTGATAAGAA
**
133310472 ATAATAATATATATAATTT-AAAATTTAT
1 ATAATAA-ATATATAATTTCAAAAAATAT
*
133310500 ATAA-AAATATATATTTTCAAAAAATAT
1 ATAATAAATATATAATTTCAAAAAATAT
133310527 ATAATAAAT
1 ATAATAAAT
133310536 TTAGATAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
26 10 0.32
27 13 0.42
28 8 0.26
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (28 bp):
ATAATAAATATATAATTTCAAAAAATAT
Found at i:133310625 original size:18 final size:18
Alignment explanation
Indices: 133310602--133310645 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
133310592 TTTATCAACA
133310602 ATATTTTTATTT-TTATAT
1 ATATTTTTATTTATTAT-T
**
133310620 ATATTTAAATTTATTATT
1 ATATTTTTATTTATTATT
133310638 ATATTTTT
1 ATATTTTT
133310646 TAAAAACATT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
ATATTTTTATTTATTATT
Found at i:133310634 original size:22 final size:21
Alignment explanation
Indices: 133310607--133310649 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
133310597 CAACAATATT
*
133310607 TTTATTTTTATATATATTTAAA
1 TTTATTATTATAT-TATTTAAA
*
133310629 TTTATTATTATATTTTTTAAA
1 TTTATTATTATATTATTTAAA
133310650 AACATTTATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTATTATTATATTATTTAAA
Found at i:133312779 original size:19 final size:19
Alignment explanation
Indices: 133312755--133312793 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
133312745 CATTATATCT
133312755 TTTAAAGATATTTCTTTTA
1 TTTAAAGATATTTCTTTTA
133312774 TTTAAAGATATTTCTTTTA
1 TTTAAAGATATTTCTTTTA
133312793 T
1 T
133312794 AAAAAGCATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (19 bp):
TTTAAAGATATTTCTTTTA
Found at i:133312799 original size:19 final size:19
Alignment explanation
Indices: 133312758--133312799 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
133312748 TATATCTTTT
**
133312758 AAAGATATTTCTTTTATTT
1 AAAGATATTTCTTTTATAA
133312777 AAAGATATTTCTTTTATAA
1 AAAGATATTTCTTTTATAA
133312796 AAAG
1 AAAG
133312800 CATCAGAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.48
Consensus pattern (19 bp):
AAAGATATTTCTTTTATAA
Found at i:133314878 original size:3 final size:3
Alignment explanation
Indices: 133314865--133314950 Score: 72
Period size: 3 Copynumber: 28.3 Consensus size: 3
133314855 GAGGGCATAT
*
133314865 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATA AGAA ATA ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -ATA A-TA ATA ATA
* *
133314912 ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
133314951 AACAAAGCTC
Statistics
Matches: 68, Mismatches: 7, Indels: 16
0.75 0.08 0.18
Matches are distributed among these distances:
2 8 0.12
3 48 0.71
4 12 0.18
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:133314891 original size:18 final size:18
Alignment explanation
Indices: 133314861--133314950 Score: 92
Period size: 18 Copynumber: 4.7 Consensus size: 18
133314851 TGGAGAGGGC
133314861 ATATATAAT-ATAATAATA
1 ATATA-AATAATAATAATA
133314879 ATATAAATAATAATATATA
1 ATATAAATAATAATA-ATA
*
133314898 CATAAGAAATAATAATAATA
1 -AT-ATAAATAATAATAATA
* *
133314918 ATATAAATAATAGTAAAA
1 ATATAAATAATAATAATA
133314936 ATAATAAAATAATAA
1 AT-AT-AAATAATAA
133314951 AACAAAGCTC
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
17 3 0.05
18 26 0.43
19 7 0.11
20 13 0.21
21 12 0.20
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.31
Consensus pattern (18 bp):
ATATAAATAATAATAATA
Found at i:133314938 original size:27 final size:27
Alignment explanation
Indices: 133314865--133314951 Score: 87
Period size: 27 Copynumber: 3.4 Consensus size: 27
133314855 GAGGGCATAT
* *
133314865 ATAATAT-AATAATAATATAAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
*
133314891 AT-ATATACAT-A-AG-AAATAATAATA
1 ATAATATAAATAATAGTAAA-AATAATA
133314915 ATAATATAAATAATAGTAAAAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
133314942 A-AATAATAAA
1 ATAAT-ATAAA
133314952 ACAAAGCTCT
Statistics
Matches: 50, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
23 2 0.04
24 10 0.20
25 12 0.24
26 8 0.16
27 15 0.30
28 3 0.06
ACGTcount: A:0.67, C:0.01, G:0.02, T:0.30
Consensus pattern (27 bp):
ATAATATAAATAATAGTAAAAATAATA
Found at i:133315313 original size:25 final size:25
Alignment explanation
Indices: 133315286--133315369 Score: 95
Period size: 23 Copynumber: 3.5 Consensus size: 25
133315276 CTTCTTTCCA
*
133315286 AAAAAACAAAAAAAACA-C-CCTCC
1 AAAAAACAAAAAAAAAACCTCCTCC
133315309 AAAAAACAAAAAAAAAACCTCCTCC
1 AAAAAACAAAAAAAAAACCTCCTCC
* * *
133315334 --AAAACAAAGAACAATCCTCCTCC
1 AAAAAACAAAAAAAAAACCTCCTCC
*
133315357 AAAAAACCAAAAA
1 AAAAAACAAAAAA
133315370 CCCACCCCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
23 36 0.71
24 1 0.02
25 14 0.27
ACGTcount: A:0.63, C:0.29, G:0.01, T:0.07
Consensus pattern (25 bp):
AAAAAACAAAAAAAAAACCTCCTCC
Found at i:133315526 original size:4 final size:4
Alignment explanation
Indices: 133315517--133315547 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
133315507 GGCCAAGGTT
133315517 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
133315548 TTTGTGTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:133315935 original size:44 final size:44
Alignment explanation
Indices: 133315887--133316351 Score: 369
Period size: 44 Copynumber: 10.6 Consensus size: 44
133315877 TCTTCGATCC
*
133315887 GTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTT
1 GTTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACTT
* *
133315931 GTTCCCTATAAGCACAGGGATG-C-TATGCTGAAATCTTT-AA-TCT
1 GTTCCCTATAAGCACAGGGATGCCAAAT-CTGATAT-TTTCAACT-T
* * * * * * * * *
133315974 GCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTT
1 G-TTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACTT
*
133316019 GTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTT
1 GTTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACTT
* * *
133316063 GTTCCCTATAAGCACAGGGATGCC--ATGCTGAAATCTTTGATC-T
1 GTTCCCTATAAGCACAGGGATGCCAAAT-CTGATAT-TTTCAACTT
* * * * * * * *
133316106 GCTTCACC-GTAAGTACAGTGATGTCAAATCTGCTATCTTCGA-TCC
1 G-TTC-CCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACT-T
* *
133316151 GTTCCCTATAAGCACAGGGATGCCAAATCTGTTGTTTTCAACTT
1 GTTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACTT
* * *
133316195 GTTCCCTATAAGCACAGGGATGCC--ATGCTGAAATCTTTGATC-T
1 GTTCCCTATAAGCACAGGGATGCCAAAT-CTGATAT-TTTCAACTT
** * * * * * * * *
133316238 GCTTCATTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTT
1 G-TTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACTT
* *
133316283 GTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTT
1 GTTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACTT
133316327 GTTCCCTATAAGCACAGGGATGCCA
1 GTTCCCTATAAGCACAGGGATGCCA
133316352 TGCTGAAATC
Statistics
Matches: 325, Mismatches: 72, Indels: 48
0.73 0.16 0.11
Matches are distributed among these distances:
42 7 0.02
43 25 0.08
44 261 0.80
45 25 0.08
46 7 0.02
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (44 bp):
GTTCCCTATAAGCACAGGGATGCCAAATCTGATATTTTCAACTT
Found at i:133316068 original size:132 final size:132
Alignment explanation
Indices: 133315831--133316410 Score: 1018
Period size: 132 Copynumber: 4.4 Consensus size: 132
133315821 GATATCCGCT
*
133315831 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATTTGCTATCTTCGATCCGTTCCCTAT
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCCGTTCCCTAT
*
133315896 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCTATGCTG
66 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
133315961 AA
131 AA
* **
133315963 ATCTTTAATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCCGTTCCCTAT
133316028 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
66 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
133316093 AA
131 AA
* * *
133316095 ATCTTTGATCTGCTTCACCGTAAGTACAGTG-ATGTCAAATCTGCTATCTTCGATCCGTTCCCTA
1 ATCTTTGATCTGCTTCACTGTAAGCACAG-GAATGTCAGATCTGCTATCTTCGATCCGTTCCCTA
*
133316159 TAAGCACAGGGATGCCAAATCTGTTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCT
65 TAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCT
133316224 GAA
130 GAA
* **
133316227 ATCTTTGATCTGCTTCATTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCCGTTCCCTAT
*
133316292 AAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
66 AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
133316357 AA
131 AA
*
133316359 ATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
133316411 GTCTGCTCCT
Statistics
Matches: 425, Mismatches: 21, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
131 1 0.00
132 423 1.00
133 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.32
Consensus pattern (132 bp):
ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCCGTTCCCTAT
AAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
AA
Found at i:133316383 original size:88 final size:87
Alignment explanation
Indices: 133316008--133316405 Score: 326
Period size: 88 Copynumber: 4.5 Consensus size: 87
133315998 CAGATCTGCT
* * *
133316008 ATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATA
1 ATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTATTTTCAACTTGTTCCCTATA
133316073 AGCACAGGGATGCCATGCTGAA
66 AGCACAGGGATGCCATGCTGAA
* * * * * * * *
133316095 ATCTTTGATCTGCTTCACC-GTAAGTACAGTGATGTCAAATCTGCTATCTTCGA-TCCGTTCCCT
1 ATCTTCGATCTG-TTC-CCTATAAGCACAGGGATGCCAAATCTGCTATTTTCAACT-TGTTCCCT
**
133316158 ATAAGCACAGGGATGCCAAAT-CTGTT
63 ATAAGCACAGGGATGCC--ATGCTGAA
* * * ** * * **
133316184 GTTTTC-AACTTGTTCCCTATAAGCACAGGGATGCC--ATGCTGAAATCTTTGATC-TGCTTCAT
1 ATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAAAT-CTGCTAT-TTTCAACTTG-TTCCC
* * * **
133316245 TGTAAGCACAGGAATGTCA-GATCTGCT
62 TATAAGCACAGGGATGCCATG--CTGAA
* *
133316272 ATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATA
1 ATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTATTTTCAACTTGTTCCCTATA
133316337 AGCACAGGGATGCCATGCTGAA
66 AGCACAGGGATGCCATGCTGAA
* * * * *
133316359 ATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTAT
1 ATCTTCGATCTG-TTCCCTATAAGCACAGGGATGCCAAATCTGCTAT
133316406 CTTCGGTCTG
Statistics
Matches: 234, Mismatches: 57, Indels: 39
0.71 0.17 0.12
Matches are distributed among these distances:
86 3 0.01
87 33 0.14
88 176 0.75
89 18 0.08
90 4 0.02
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.32
Consensus pattern (87 bp):
ATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTATTTTCAACTTGTTCCCTATA
AGCACAGGGATGCCATGCTGAA
Found at i:133316547 original size:68 final size:68
Alignment explanation
Indices: 133316463--133316661 Score: 296
Period size: 68 Copynumber: 2.9 Consensus size: 68
133316453 TCTTCTTCCA
* * *
133316463 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCTCTCCAATGCCATTTCTA-GAAGAAGAGG
1 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTC-AGGAAGAAAAGA
*
133316527 T-TT
65 TCCT
* *
133316530 GCTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAAAAGA
1 -CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGA
133316595 TCCT
65 TCCT
*
133316599 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGGA-AAAAGA
1 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGA
133316662 AATTTGTAAT
Statistics
Matches: 120, Mismatches: 9, Indels: 5
0.90 0.07 0.04
Matches are distributed among these distances:
67 7 0.06
68 112 0.93
69 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (68 bp):
CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGAT
CCT
Found at i:133316791 original size:43 final size:43
Alignment explanation
Indices: 133316733--133317622 Score: 502
Period size: 43 Copynumber: 20.4 Consensus size: 43
133316723 CTATTTCCTA
* **
133316733 ACTGCTTAAGGGGTTAAGATCTGTAAATTCAACCTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATCTGTAAATTCGGCCTGTTACCCT
* * *
133316776 ACTGGTTAGGGGGTTAAGATTTGTAAATCTTCAGCCTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATCTGTAAA--TTCGGCCTGTTACCCT
* * * *
133316821 ACTGCTTAGGGGTTTAAGGTTTGTAAATTCGGCTTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATCTGTAAATTCGGCCTGTTACCCT
** * ** **** *
133316864 ACTGCTTAGGGGGTTAAAGCCCAT-CATTTTTTATCTGTTTCCCT
1 ACTGCTTAGGGGGTT-AAGATC-TGTAAATTCGGCCTGTTACCCT
* *
133316908 ACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCAGTTACCCT
1 ACTGCTTAGGGGGTTAAGATCTGTAAA--TTCGGCCTGTTACCCT
* * *
133316953 ACTGCTTAGGGGTTTAAG-GCTTGTAAATTCGGCTTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATC-TGTAAATTCGGCCTGTTACCCT
** * ** * ** *
133316996 ACTGCTTAGGGGGTTAAAGCCCAT-CATCTTTGATCTGTTTCCCT
1 ACTGCTTAGGGGGTT-AAGATC-TGTAAATTCGGCCTGTTACCCT
*
133317040 ACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATCTGTAAA--TTCGGCCTGTTACCCT
* * * *
133317085 ACTGCTTAGAGGGTTAAG-GCTTGTAAATTTGGCTTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATC-TGTAAATTCGGCCTGTTACCCT
** * ** ** *
133317128 ACTGCTTAGGGGGTTAAAGCCCAT-CATCTTCGATCTGTTTCCCT
1 ACTGCTTAGGGGGTT-AAGATC-TGTAAATTCGGCCTGTTACCCT
* ** *
133317172 ACTGCTTAGGGGGTTAAGATCT-T-CATCCTCGATCTGTTTCCCT
1 ACTGCTTAGGGGGTTAAGATCTGTAAAT--TCGGCCTGTTACCCT
* * * *
133317215 ACTGCTTAGGGAGATAAGATCTG-CAATTCGGTCTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATCTGTAAATTCGGCCTGTTACCCT
* * * * * ** *
133317257 ACCGATTAGGGGTTTAAGACCCTTCGT--CTTCGATCTGTTTCCCT
1 ACTGCTTAGGGGGTTAAGA-TC-T-GTAAATTCGGCCTGTTACCCT
*
133317301 ACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATCTGTAAA--TTCGGCCTGTTACCCT
* * *
133317346 ACTGCTTAGGGGGTTAAG-GCTTGTAAATTTGGCTTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATC-TGTAAATTCGGCCTGTTACCCT
** * ** ** *
133317389 ACTGCTTAGGGGGTTAAAGCCCAT-CATCTTCGATCTGTT-TCCT
1 ACTGCTTAGGGGGTT-AAGATC-TGTAAATTCGGCCTGTTACCCT
** ** *
133317432 ACTGCTTAGGGGGTTAAGATCT-TCATCTTCGATCTGTTTCCCT
1 ACTGCTTAGGGGGTTAAGATCTGT-AAATTCGGCCTGTTACCCT
* * * *
133317475 ACTGCTTAGGGAGATAAGATC--TACAATTCAGTCTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATCTGTA-AATTCGGCCTGTTACCCT
* * * * * ** *
133317517 ACCGATTAGGGGTTTAAGACCCTTCGT--CTTCGATCTGTTTCCCT
1 ACTGCTTAGGGGGTTAAGA-TC-T-GTAAATTCGGCCTGTTACCCT
* * *
133317561 ACTGCTTAGGGGGTTAAGATTTGTAAATCTTCAGCCTATTACCCT
1 ACTGCTTAGGGGGTTAAGATCTGTAAA--TTCGGCCTGTTACCCT
* *
133317606 ATTGCTTAGGGGCTTAA
1 ACTGCTTAGGGGGTTAA
133317623 AGCTTGTGAA
Statistics
Matches: 653, Mismatches: 151, Indels: 84
0.74 0.17 0.09
Matches are distributed among these distances:
41 7 0.01
42 78 0.12
43 226 0.35
44 165 0.25
45 176 0.27
47 1 0.00
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.36
Consensus pattern (43 bp):
ACTGCTTAGGGGGTTAAGATCTGTAAATTCGGCCTGTTACCCT
Found at i:133316902 original size:132 final size:131
Alignment explanation
Indices: 133316766--133317635 Score: 1140
Period size: 132 Copynumber: 6.6 Consensus size: 131
133316756 TAAATTCAAC
* * *
133316766 CTGTTACCCTACTGGTTAGGGGGTTAAGATTTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
* * **
133316831 GGTTTAAGGTTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATTTTTT
66 GG-TTAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCG
133316896 AT
130 AT
*
133316898 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCAGTTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
*
133316963 GGTTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTTG
66 GG-TTAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCG
133317028 AT
130 AT
133317030 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGA
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAG-
*
133317095 GGGTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCG
65 GGGTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCG
133317160 AT
130 AT
* * * *
133317162 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCT-T-CATCCTC-GATCTGTTTCCCTACTGCTTAG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAG-CCTGTTACCCTACTGCTTAG
* * * * * * * *
133317224 GGAGATAA-GATCTG-CAATTCGG-TCTGTTACCCTACCGATTA-GGGGTTTAAGACCCTTCGTC
65 GG-GTTAAGGCT-TGTAAATTCGGCT-TGTTACCCTACTGCTTAGGGGGTTAAAG-CCCATCATC
133317285 TTCGAT
126 TTCGAT
133317291 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTA-G
*
133317356 GGGTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCG
65 GGGTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCG
133317421 AT
130 AT
* * *
133317423 CTGTTT-CCTACTGCTTAGGGGGTTAAGATCT-T-CATCTTC-GATCTGTTTCCCTACTGCTTAG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAG-CCTGTTACCCTACTGCTTAG
* * * * * * * * *
133317484 GGAGATAA-G-ATCTACAATTCAG-TCTGTTACCCTACCGATTA-GGGGTTTAAGACCCTTCGTC
65 GG-GTTAAGGCTTGTA-AATTCGGCT-TGTTACCCTACTGCTTAGGGGGTTAAAG-CCCATCATC
133317545 TTCGAT
126 TTCGAT
* * *
133317551 CTGTTTCCCTACTGCTTAGGGGGTTAAGATTTGTAAATCTTCAGCCTATTACCCTATTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
* *
133317616 GGCTTAAAGCTTGTGAATTC
66 GG-TTAAGGCTTGTAAATTC
133317636 ACTGATTCTA
Statistics
Matches: 653, Mismatches: 59, Indels: 52
0.85 0.08 0.07
Matches are distributed among these distances:
127 13 0.02
128 54 0.08
129 122 0.19
130 33 0.05
131 81 0.12
132 335 0.51
133 15 0.02
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (131 bp):
CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
GGTTAAGGCTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGA
T
Found at i:133317579 original size:260 final size:260
Alignment explanation
Indices: 133316766--133317634 Score: 1325
Period size: 260 Copynumber: 3.3 Consensus size: 260
133316756 TAAATTCAAC
* * *
133316766 CTGTTACCCTACTGGTTAGGGGGTTAAGATTTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
* * * * **
133316831 GGTTTAAGGTTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATTTTTT
66 GGGTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCG
* * * *
133316896 ATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTC-AGCCAGTTACCCTACTGCTT
131 ATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCT-T-CATCTTCGA-TCTGTTTCCCTACTGCTT
* * * * * * * * *
133316960 AGGG-GTTTAAGGCTTGTA-AATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAA-AGCCCATCA
193 AGGGAG-ATAA-G-ATCTACAATTCGTC-TGTTACCCTACCGATTAGGGGTTTAAGA-CCCTTCG
*
133317022 TCTTTGAT
253 TCTTCGAT
*
133317030 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGA
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
133317095 GGGTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCG
66 GGGTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCG
*
133317160 ATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCCTCGATCTGTTTCCCTACTGCTTAGG
131 ATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGATCTGTTTCCCTACTGCTTAGG
*
133317225 GAGATAAGATCTGCAATTCGGTCTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGA
196 GAGATAAGATCTACAATTC-GTCTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGA
133317290 T
260 T
133317291 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
133317356 GGGTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCG
66 GGGTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCG
133317421 ATCTGTTT-CCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGATCTGTTTCCCTACTGCTTAGG
131 ATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGATCTGTTTCCCTACTGCTTAGG
133317485 GAGATAAGATCTACAATTCAGTCTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGA
196 GAGATAAGATCTACAATTC-GTCTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGA
133317550 T
260 T
* * *
133317551 CTGTTTCCCTACTGCTTAGGGGGTTAAGATTTGTAAATCTTCAGCCTATTACCCTATTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
* * *
133317616 GGCTTAAAGCTTGTGAATT
66 GGGTTAAGGCTTGTAAATT
133317635 CACTGATTCT
Statistics
Matches: 564, Mismatches: 36, Indels: 14
0.92 0.06 0.02
Matches are distributed among these distances:
260 199 0.35
261 178 0.32
262 30 0.05
263 3 0.01
264 154 0.27
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (260 bp):
CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
GGGTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCG
ATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGATCTGTTTCCCTACTGCTTAGG
GAGATAAGATCTACAATTCGTCTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGAT
Found at i:133317793 original size:66 final size:66
Alignment explanation
Indices: 133317687--133317813 Score: 236
Period size: 66 Copynumber: 1.9 Consensus size: 66
133317677 TCTATGCTTA
*
133317687 TGTCAAATGATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAAT
1 TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAAT
133317752 G
66 G
*
133317753 TGTCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAGATGTGTTAT
1 TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTAT
133317814 TATATGAATA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 59 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (66 bp):
TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAAT
G
Found at i:133318961 original size:8 final size:8
Alignment explanation
Indices: 133318950--133318995 Score: 58
Period size: 8 Copynumber: 5.8 Consensus size: 8
133318940 TTTTTTAGAA
133318950 TTTTTTTG
1 TTTTTTTG
133318958 TTTTTTTG
1 TTTTTTTG
* *
133318966 TGTTTTCG
1 TTTTTTTG
133318974 TGTTTTTTG
1 T-TTTTTTG
133318983 TTTTTTT-
1 TTTTTTTG
133318990 TTTTTT
1 TTTTTT
133318996 GCCTTTACCT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
7 6 0.18
8 21 0.64
9 6 0.18
ACGTcount: A:0.00, C:0.02, G:0.13, T:0.85
Consensus pattern (8 bp):
TTTTTTTG
Found at i:133319006 original size:6 final size:6
Alignment explanation
Indices: 133318993--133319028 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
133318983 TTTTTTTTTT
*
133318993 TTTGCC TTTACC TTTGCC TTTGCC TTTGCC TTTGCC
1 TTTGCC TTTGCC TTTGCC TTTGCC TTTGCC TTTGCC
133319029 ATATAACTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.03, C:0.33, G:0.14, T:0.50
Consensus pattern (6 bp):
TTTGCC
Found at i:133321839 original size:19 final size:20
Alignment explanation
Indices: 133321815--133321861 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
133321805 AGTGAAAGTT
133321815 TAATGCAAATGT-TGCAATG
1 TAATGCAAATGTATGCAATG
*
133321834 TAATGCAAATGTATGGAATG
1 TAATGCAAATGTATGCAATG
133321854 -AATGCAAA
1 TAATGCAAA
133321862 AGAAAGGAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.43, C:0.09, G:0.21, T:0.28
Consensus pattern (20 bp):
TAATGCAAATGTATGCAATG
Found at i:133324429 original size:39 final size:40
Alignment explanation
Indices: 133324266--133324430 Score: 89
Period size: 39 Copynumber: 4.1 Consensus size: 40
133324256 TAATAAGAAT
* *
133324266 AATATTAAAGTAAAGTAA-AC---AATAATACTATATATA
1 AATATTAAATTAAAGTAATACAAAAACAATACTATATATA
* * *
133324302 AATATATATATATGTATA-TAATAGAAATACACACTACTATA-ATAA
1 AATAT-TA-A-AT-TAAAGTAATACAAA-A-ACAATACTATATAT-A
* * * *
133324347 TAATAATAAA-TATAGAAATACAAAAAGCAA-A-TATAATAAA
1 -AATATTAAATTAAAGTAATACAAAAA-CAATACTAT-ATATA
133324387 AATATTAAATTAAAGTAATA-AAAAACAATACTATATATA
1 AATATTAAATTAAAGTAATACAAAAACAATACTATATATA
133324426 AATAT
1 AATAT
133324431 ATATATATAT
Statistics
Matches: 96, Mismatches: 14, Indels: 35
0.66 0.10 0.24
Matches are distributed among these distances:
36 5 0.05
37 2 0.02
38 4 0.04
39 30 0.31
40 19 0.20
41 8 0.08
42 7 0.07
43 1 0.01
44 4 0.04
45 12 0.12
46 4 0.04
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.30
Consensus pattern (40 bp):
AATATTAAATTAAAGTAATACAAAAACAATACTATATATA
Found at i:133324688 original size:3 final size:3
Alignment explanation
Indices: 133324675--133324760 Score: 65
Period size: 3 Copynumber: 28.3 Consensus size: 3
133324665 GAGGGCATAT
133324675 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* *
133324719 ATA ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
133324761 AACAAAGCTC
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
2 9 0.13
3 48 0.71
4 9 0.13
5 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:133324699 original size:12 final size:12
Alignment explanation
Indices: 133324675--133324757 Score: 73
Period size: 12 Copynumber: 6.8 Consensus size: 12
133324665 GAGGGCATAT
133324675 ATAATAT-AATA
1 ATAATATAAATA
133324686 ATAATATAAATA
1 ATAATATAAATA
133324698 ATAATATATACATGA
1 ATAATATA-A-AT-A
133324713 GA-AATA-ATAATA
1 -ATAATATA-AATA
133324725 ATAATATAAATA
1 ATAATATAAATA
* *
133324737 ATAGTAAAAATA
1 ATAATATAAATA
*
133324749 ATAAAATAA
1 ATAATATAA
133324758 TAAAACAAAG
Statistics
Matches: 60, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
11 8 0.13
12 37 0.62
13 4 0.07
14 5 0.08
15 5 0.08
16 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:133324719 original size:21 final size:18
Alignment explanation
Indices: 133324680--133324760 Score: 76
Period size: 18 Copynumber: 4.4 Consensus size: 18
133324670 CATATATAAT
*
133324680 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
133324698 ATAATATATACATGAGAAATA
1 ATAATA-ATA-AT-AGAAATA
*
133324719 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
* *
133324737 ATAGTAAAAATA-ATAA-A
1 ATAATAATAATAGA-AATA
133324754 ATAATAA
1 ATAATAA
133324761 AACAAAGCTC
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
17 8 0.15
18 24 0.44
19 5 0.09
20 5 0.09
21 12 0.22
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (18 bp):
ATAATAATAATAGAAATA
Found at i:133324748 original size:27 final size:27
Alignment explanation
Indices: 133324675--133324761 Score: 78
Period size: 27 Copynumber: 3.4 Consensus size: 27
133324665 GAGGGCATAT
* *
133324675 ATAATAT-AATAATAATATAAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
* *
133324701 AT-ATATACAT--GAG-AAATAATAATA
1 ATAATATAAATAATAGTAAA-AATAATA
133324725 ATAATATAAATAATAGTAAAAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
133324752 A-AATAATAAA
1 ATAAT-ATAAA
133324762 ACAAAGCTCT
Statistics
Matches: 48, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
23 2 0.04
24 10 0.21
25 11 0.23
26 7 0.15
27 15 0.31
28 3 0.06
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (27 bp):
ATAATATAAATAATAGTAAAAATAATA
Found at i:133325120 original size:19 final size:20
Alignment explanation
Indices: 133325092--133325130 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
133325082 TTCTTTCCAA
*
133325092 AAAAACAAAAAAACACCTCC
1 AAAAACAAAAAAAAACCTCC
133325112 AAAAA-AAAAAAAAACCTCC
1 AAAAACAAAAAAAAACCTCC
133325131 TCCAAAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.69, C:0.26, G:0.00, T:0.05
Consensus pattern (20 bp):
AAAAACAAAAAAAAACCTCC
Found at i:133325156 original size:23 final size:22
Alignment explanation
Indices: 133325087--133325162 Score: 91
Period size: 22 Copynumber: 3.4 Consensus size: 22
133325077 CAACCTTCTT
*
133325087 TCCAAAAAAACAAAAAAA-CACC
1 TCCAAAAAAA-AAAAAAACCTCC
133325109 TCCAAAAAAAAAAAAAACCTCC
1 TCCAAAAAAAAAAAAAACCTCC
* * *
133325131 TCCAAAACAAAGAACAATCCTCC
1 TCCAAAA-AAAAAAAAAACCTCC
133325154 TCCAAAAAA
1 TCCAAAAAA
133325163 CCAAAAACCC
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
21 7 0.15
22 22 0.46
23 19 0.40
ACGTcount: A:0.61, C:0.29, G:0.01, T:0.09
Consensus pattern (22 bp):
TCCAAAAAAAAAAAAAACCTCC
Found at i:133325326 original size:4 final size:4
Alignment explanation
Indices: 133325317--133325343 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
133325307 GGCCAAGGTT
133325317 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
133325344 TTTTTTGTGT
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:133338959 original size:13 final size:13
Alignment explanation
Indices: 133338935--133338969 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
133338925 CAATGATAAA
*
133338935 TATTATAGTATTT
1 TATTATAATATTT
*
133338948 TATTCTAATATTT
1 TATTATAATATTT
133338961 TATTATAAT
1 TATTATAAT
133338970 TCTTATATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (13 bp):
TATTATAATATTT
Found at i:133343675 original size:24 final size:25
Alignment explanation
Indices: 133343634--133343682 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
133343624 AACATCCACA
*
133343634 ATCAAATATATATACCGACA-ATAT
1 ATCAAATATATAAACCGACACATAT
133343658 ATCAAATAT-TAAACCCGACACATAT
1 ATCAAATATATAAA-CCGACACATAT
133343683 TCCTTTCATC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 3 0.14
24 15 0.68
25 4 0.18
ACGTcount: A:0.49, C:0.20, G:0.04, T:0.27
Consensus pattern (25 bp):
ATCAAATATATAAACCGACACATAT
Found at i:133345526 original size:22 final size:23
Alignment explanation
Indices: 133345500--133345561 Score: 83
Period size: 22 Copynumber: 2.8 Consensus size: 23
133345490 CAACTCTTAC
133345500 AAAAATAATCATTTTTCTAACAT
1 AAAAATAATCATTTTTCTAACAT
* *
133345523 -AAAATAATCATTTTT-TATCTT
1 AAAAATAATCATTTTTCTAACAT
*
133345544 AAAAAAAATCATTTTTCT
1 AAAAATAATCATTTTTCT
133345562 CGTTCTAACA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 4 0.12
22 29 0.85
23 1 0.03
ACGTcount: A:0.45, C:0.11, G:0.00, T:0.44
Consensus pattern (23 bp):
AAAAATAATCATTTTTCTAACAT
Found at i:133345527 original size:49 final size:44
Alignment explanation
Indices: 133345461--133345561 Score: 114
Period size: 49 Copynumber: 2.2 Consensus size: 44
133345451 TGAAACGATA
**
133345461 ATTTTTCTGGCATAAAATTAA-CAATTTTTCAACTCTTACAAAAATAATC
1 ATTTTTCTAACATAAAA-TAATC-ATTTTT-AA-TCTTA-AAAAA-AATC
*
133345510 ATTTTTCTAACATAAAATAATCATTTTTTATCTTAAAAAAAATC
1 ATTTTTCTAACATAAAATAATCATTTTTAATCTTAAAAAAAATC
133345554 ATTTTTCT
1 ATTTTTCT
133345562 CGTTCTAACA
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
44 12 0.25
45 5 0.10
46 5 0.10
47 1 0.02
48 9 0.19
49 16 0.33
ACGTcount: A:0.41, C:0.14, G:0.02, T:0.44
Consensus pattern (44 bp):
ATTTTTCTAACATAAAATAATCATTTTTAATCTTAAAAAAAATC
Found at i:133347003 original size:303 final size:303
Alignment explanation
Indices: 133346478--133347354 Score: 963
Period size: 303 Copynumber: 2.9 Consensus size: 303
133346468 ATAAAATTTT
133346478 AAATTTTAAATTTACCACTCAACCAAAGTTTCATTTTAATATA-TTTATATATTTTTATTTTAAT
1 AAATTTTAAATTTACCACTCAACCAAAGTTTCATTTTAATATATTTTATATATTTTTATTTTAAT
* * *
133346542 ATGTACAAATTATTATCTTCATAAATTGTATATCTATATCTATACTTACGATTAATAAAATCTCT
66 ATGCACAATTTATTATCTTCATCAATTGTATATCTATA--TATACTT-C-ATTAATAAAATCTCT
* * * * *** * * * *
133346607 AATTGAGTTGATGTCACAAGTTAACTGGGTA-TCAACTCGATTAGAAAAATTATGAAAAT-TCCC
127 AACTGAGTTGGTGTCACGAGTCAACCAAGCACT-AACTCGGTTAGGAAAATTACGAAAATGT-CC
* * * * *
133346670 TTTCATAATTAAAGTAAGTCATACTATTCGAGGGAATTTTAGTCTTTTCAGTTTAACAAAAATCA
190 TTTCGTAATTAAAGTAAGTCATATTATTCGAGGGTATTTTAGTCTTTTCATTTTAACAAAAACCA
* * * *
133346735 ATTAAAATTTGCAT-GG-GGGATTTGAACCGGCAATAATTGCATTAGTA
255 ATAAAAATTTGCATAGGTGGCAATTGAACCGGCAACAATTGCATTAGTA
* * * *
133346782 AAATCTTAAATTTACCACCCAACCAGAA-CTTCATTTTAATATATTTTATATATTTTTATTTTAT
1 AAATTTTAAATTTACCACTCAACCA-AAGTTTCATTTTAATATATTTTATATATTTTTATTTTAA
*
133346846 TATGCACATTTTATTATCTTCATCAATTGTATATCTATATATACTTCATTTTAATAAAATCTCTA
65 TATGCACAATTTATTATCTTCATCAATTGTATATCTATATATACTTCA--TTAATAAAATCTCTA
* * * *
133346911 ACT-ACGTTGGTGTCACGAGTCAACCAAACACTAGCTCGGTTAGGAAAATTACAAAAATGTTCTT
128 ACTGA-GTTGGTGTCACGAGTCAACCAAGCACTAACTCGGTTAGGAAAATTACGAAAATGTCCTT
* * * *
133346975 TCGTAATTAAAGTAACTCATATTATTCGAGAGTATTTTAGTCATTTCATTTTAACAGAAACCAAT
192 TCGTAATTAAAGTAAGTCATATTATTCGAGGGTATTTTAGTCTTTTCATTTTAACAAAAACCAAT
* * *
133347040 AAAAATTTGCATAAGGTGGCAATTGAACCTGCACCAATTGTATTAGTA
257 AAAAATTTGCAT-AGGTGGCAATTGAACCGGCAACAATTGCATTAGTA
* * *** *
133347088 AAATTTTAAATTTACCACTCAACCAAAGTTTCATTTTAGTATATTCTAGGCATTTTTATTTTAGT
1 AAATTTTAAATTTACCACTCAACCAAAGTTTCATTTTAATATATTTTATATATTTTTATTTTAAT
* * * * * **
133347153 ATGCACAATTTACTATCTCCGTCAGTTTTATATC--T-T-TAC-T-ATTAATAAAATCTCTGGCT
66 ATGCACAATTTATTATCTTCATCAATTGTATATCTATATATACTTCATTAATAAAATCTCTAACT
* * * * * *
133347212 GAGTTGGTGTCATGAGTCAATCATGCACCAACTCGGTTAGGGAAATTACGAAAATG-CCTTCCGT
131 GAGTTGGTGTCACGAGTCAACCAAGCACTAACTCGGTTAGGAAAATTACGAAAATGTCCTTTCGT
* * * * * *
133347276 AATGAAAGTAAGTCATATTATTCGAAGGTATTTTAATTTTTTTATTTTGACAAAAACCAATAAAA
196 AATTAAAGTAAGTCATATTATTCGAGGGTATTTTAGTCTTTTCATTTTAACAAAAACCAATAAAA
*
133347341 ATATGCATATGGTG
261 ATTTGCATA-GGTG
133347355 CGGGTTAGAC
Statistics
Matches: 483, Mismatches: 77, Indels: 33
0.81 0.13 0.06
Matches are distributed among these distances:
296 1 0.00
297 72 0.15
298 62 0.13
299 1 0.00
300 1 0.00
301 2 0.00
302 5 0.01
303 133 0.28
304 40 0.08
305 60 0.12
306 106 0.22
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (303 bp):
AAATTTTAAATTTACCACTCAACCAAAGTTTCATTTTAATATATTTTATATATTTTTATTTTAAT
ATGCACAATTTATTATCTTCATCAATTGTATATCTATATATACTTCATTAATAAAATCTCTAACT
GAGTTGGTGTCACGAGTCAACCAAGCACTAACTCGGTTAGGAAAATTACGAAAATGTCCTTTCGT
AATTAAAGTAAGTCATATTATTCGAGGGTATTTTAGTCTTTTCATTTTAACAAAAACCAATAAAA
ATTTGCATAGGTGGCAATTGAACCGGCAACAATTGCATTAGTA
Found at i:133347898 original size:9 final size:9
Alignment explanation
Indices: 133347884--133347908 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
133347874 TTTTATGAGG
133347884 TAATCAAAA
1 TAATCAAAA
133347893 TAATCAAAA
1 TAATCAAAA
133347902 TAATCAA
1 TAATCAA
133347909 TGTATAACTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (9 bp):
TAATCAAAA
Found at i:133349726 original size:21 final size:22
Alignment explanation
Indices: 133349702--133349743 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
133349692 CAAGTAAAGA
133349702 ATGAAAATCT-AAAATAATATG
1 ATGAAAATCTGAAAATAATATG
*
133349723 ATGAAAATCTGATAATAATAT
1 ATGAAAATCTGAAAATAATAT
133349744 CTCGGAATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.55, C:0.05, G:0.10, T:0.31
Consensus pattern (22 bp):
ATGAAAATCTGAAAATAATATG
Found at i:133353377 original size:52 final size:51
Alignment explanation
Indices: 133353246--133353381 Score: 166
Period size: 52 Copynumber: 2.6 Consensus size: 51
133353236 ATATCCCAAA
* *
133353246 TATGGCCTTATACGGAATCACATTATCACATCACACCGATTCCATAGCCCAGC
1 TATGGTCTTATACGGAA-CACA-TATCACATCACACCAATTCCATAGCCCAGC
* * **
133353299 TATGGTCTTATACGGGAACACGTATCATATTGCACCAATGT-CATAGCCCAGC
1 TATGGTCTTATAC-GGAACACATATCACATCACACCAAT-TCCATAGCCCAGC
133353351 TATGGTCTTATACGGAAGCACATATCACATC
1 TATGGTCTTATACGGAA-CACATATCACATC
133353382 TTTTCCGTCA
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
51 4 0.06
52 47 0.66
53 16 0.23
54 4 0.06
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.26
Consensus pattern (51 bp):
TATGGTCTTATACGGAACACATATCACATCACACCAATTCCATAGCCCAGC
Found at i:133354632 original size:14 final size:14
Alignment explanation
Indices: 133354615--133354642 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
133354605 AAAAAATTTC
133354615 TAAAACCACACTTA
1 TAAAACCACACTTA
133354629 TAAAACCACACTTA
1 TAAAACCACACTTA
133354643 ACTTTTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAAACCACACTTA
Found at i:133357207 original size:13 final size:13
Alignment explanation
Indices: 133357189--133357217 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
133357179 TGTAATTACG
133357189 TGAATCTACCATT
1 TGAATCTACCATT
133357202 TGAATCTACCATT
1 TGAATCTACCATT
133357215 TGA
1 TGA
133357218 GTTACGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (13 bp):
TGAATCTACCATT
Found at i:133366104 original size:24 final size:26
Alignment explanation
Indices: 133366077--133366124 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
133366067 TATGAACACG
133366077 TACAT-ATAATATA-ATAT-TAAAATA
1 TACATAAT-ATATACATATATAAAATA
133366101 TACATAATATATACATATATAAAA
1 TACATAATATATACATATATAAAA
133366125 CATGTATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 10 0.48
25 6 0.29
26 5 0.24
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (26 bp):
TACATAATATATACATATATAAAATA
Done.