Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 77 of 335
Found at i:25692928 original size:42 final size:42
Alignment explanation
Indices: 25692882--25692973 Score: 98
Period size: 40 Copynumber: 2.2 Consensus size: 42
25692872 CTCGGATGCC
* * * *
25692882 GAATCAGATATATATAATAGGGTCTTAGCCCAATCAGATATA
1 GAATCAGATAAATATAATAGGGCCTCAGCCCAATCAAATATA
* * *
25692924 GAATCA-A-AAATATATTAGGGCCTCAGTCCTATCAAATATA
1 GAATCAGATAAATATAATAGGGCCTCAGCCCAATCAAATATA
25692964 GAATGCAGAT
1 GAAT-CAGAT
25692974 CAGAATATTA
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
40 30 0.75
41 3 0.08
42 7 0.17
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.27
Consensus pattern (42 bp):
GAATCAGATAAATATAATAGGGCCTCAGCCCAATCAAATATA
Found at i:25702704 original size:16 final size:15
Alignment explanation
Indices: 25702683--25702713 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
25702673 GATGTAGTAG
25702683 AAATAAAATTAAAAAA
1 AAATAAAA-TAAAAAA
25702699 AAATAAAATAAAAAA
1 AAATAAAATAAAAAA
25702714 TATTTTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (15 bp):
AAATAAAATAAAAAA
Found at i:25709233 original size:2 final size:2
Alignment explanation
Indices: 25709226--25709264 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
25709216 GCAGAATTAG
25709226 AT AT AT 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 AT AT AT A
25709265 ATAGGGCCTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:25717141 original size:3 final size:3
Alignment explanation
Indices: 25717133--25717170 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
25717123 TTTTATATGT
* *
25717133 TTA TTA TTA -TA TTA TTA CTA TTA TTC TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
25717171 AGTATATTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:25717633 original size:22 final size:22
Alignment explanation
Indices: 25717607--25717678 Score: 67
Period size: 22 Copynumber: 3.2 Consensus size: 22
25717597 ATGTATTACA
25717607 TATATATGTATTTTTATTATAT
1 TATATATGTATTTTTATTATAT
*
25717629 TATATATATATTTTTCA-TATAT
1 TATATATGTATTTTT-ATTATAT
* * *
25717651 CATATACATGTGTTTTT-TAATAT
1 --TATATATGTATTTTTATTATAT
25717674 TATAT
1 TATAT
25717679 TTTATATATT
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
21 4 0.10
22 19 0.47
23 5 0.12
24 12 0.30
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.58
Consensus pattern (22 bp):
TATATATGTATTTTTATTATAT
Found at i:25722951 original size:48 final size:49
Alignment explanation
Indices: 25722893--25722996 Score: 131
Period size: 49 Copynumber: 2.1 Consensus size: 49
25722883 GTTCACACAC
* * *
25722893 CCGTGTCTATTTAACAGATTGT-AACACGGCCTAAGTCACAC-CACACGG
1 CCGTGTCTATTTAACAGACTCTAAACACGGCCTAAGCCAC-CTCACACGG
* *
25722941 CCGTGTCTATTTAGCAGACTCTAAACACGTCCTAAGCCACCTCACACGG
1 CCGTGTCTATTTAACAGACTCTAAACACGGCCTAAGCCACCTCACACGG
*
25722990 GCGTGTC
1 CCGTGTC
25722997 ACACGGGCGT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
48 20 0.42
49 28 0.58
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (49 bp):
CCGTGTCTATTTAACAGACTCTAAACACGGCCTAAGCCACCTCACACGG
Found at i:25723000 original size:13 final size:13
Alignment explanation
Indices: 25722982--25723009 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
25722972 CTAAGCCACC
25722982 TCACACGGGCGTG
1 TCACACGGGCGTG
25722995 TCACACGGGCGTG
1 TCACACGGGCGTG
25723008 TC
1 TC
25723010 CCTGTCGAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.32, G:0.36, T:0.18
Consensus pattern (13 bp):
TCACACGGGCGTG
Found at i:25724131 original size:18 final size:16
Alignment explanation
Indices: 25724100--25724159 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 16
25724090 AAAGCATATC
25724100 ATACTAAAAATTATGAG
1 ATAC-AAAAATTATGAG
25724117 ATTACAAATAATTATG-G
1 A-TACAAA-AATTATGAG
*
25724134 AATACAAAAAGTTACGAG
1 -ATACAAAAA-TTATGAG
25724152 ATACAAAA
1 ATACAAAA
25724160 TTCTAAGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
16 2 0.05
17 23 0.62
18 12 0.32
ACGTcount: A:0.55, C:0.08, G:0.12, T:0.25
Consensus pattern (16 bp):
ATACAAAAATTATGAG
Found at i:25724221 original size:19 final size:20
Alignment explanation
Indices: 25724181--25724221 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
25724171 TAGAAAAAAA
* *
25724181 AATACTAAAAATTATGAGAG
1 AATACAAAAAATCATGAGAG
25724201 AATACAAAAAATCATGA-AG
1 AATACAAAAAATCATGAGAG
25724220 AA
1 AA
25724222 ATATATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.61, C:0.07, G:0.12, T:0.20
Consensus pattern (20 bp):
AATACAAAAAATCATGAGAG
Found at i:25724227 original size:2 final size:2
Alignment explanation
Indices: 25724222--25724256 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
25724212 TCATGAAGAA
25724222 AT 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 AT A
25724257 AAAGAGAGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:25725103 original size:14 final size:13
Alignment explanation
Indices: 25725084--25725136 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 13
25725074 TAATTTGTAT
25725084 AATAATTAATTCAA
1 AATAATTAATT-AA
25725098 AATAATTAA--AA
1 AATAATTAATTAA
*
25725109 AATAATTATTTAA
1 AATAATTAATTAA
*
25725122 AA-AATTAATTTA
1 AATAATTAATTAA
25725134 AAT
1 AAT
25725137 CATAATCAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
11 10 0.30
12 10 0.30
13 4 0.12
14 9 0.27
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (13 bp):
AATAATTAATTAA
Found at i:25725112 original size:25 final size:23
Alignment explanation
Indices: 25725084--25725129 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
25725074 TAATTTGTAT
25725084 AATAATTAATTCAAAATAATTAAAA
1 AATAATT-ATTCAAAA-AATTAAAA
*
25725109 AATAATTATTTAAAAAATTAA
1 AATAATTATTCAAAAAATTAA
25725130 TTTAAATCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (23 bp):
AATAATTATTCAAAAAATTAAAA
Found at i:25725134 original size:28 final size:28
Alignment explanation
Indices: 25725096--25725158 Score: 67
Period size: 29 Copynumber: 2.3 Consensus size: 28
25725086 TAATTAATTC
*
25725096 AAAA-TAATTAAAAAATAAT-TATTTAA
1 AAAATTAATTAAAAAATAATCAATTTAA
**
25725122 AAAATTAATTTAAATCATAATCAATTTAA
1 AAAATTAA-TTAAAAAATAATCAATTTAA
*
25725151 CAAATTAA
1 AAAATTAA
25725159 AAGCACTTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 4 0.13
27 3 0.10
28 10 0.33
29 13 0.43
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (28 bp):
AAAATTAATTAAAAAATAATCAATTTAA
Found at i:25731694 original size:2 final size:2
Alignment explanation
Indices: 25731687--25731717 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
25731677 CCTCTTTGTT
25731687 TA TA TA TA TA TA 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
25731718 TTCTAGCTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:25732333 original size:2 final size:2
Alignment explanation
Indices: 25732326--25732351 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
25732316 CCCATTTTAA
25732326 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
25732352 ATCTACATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:25735062 original size:74 final size:74
Alignment explanation
Indices: 25734931--25735084 Score: 254
Period size: 74 Copynumber: 2.1 Consensus size: 74
25734921 CCCATCTAAA
* *
25734931 CTATCCAATTTACTTTCTTTGTTAGCCGAACCTAATCAACTTATACTTATCCGATTTTAAACCTA
1 CTAT-CAATTTACTTTCTTTGTTAGCCGAACCTAATCAACTTATACTTAGCCAATTTTAAACCTA
*
25734996 TTTCTATTAC
65 TTTCCATTAC
* *
25735006 CTATCAATTTACTTTCTTTGTTAGCCGAACTTAATCAACTTATACTTAGCCAATTTTGAACCTAT
1 CTATCAATTTACTTTCTTTGTTAGCCGAACCTAATCAACTTATACTTAGCCAATTTTAAACCTAT
25735071 TTCCATTAC
66 TTCCATTAC
25735080 CTATC
1 CTATC
25735085 TTTATATTTA
Statistics
Matches: 74, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
74 70 0.95
75 4 0.05
ACGTcount: A:0.28, C:0.24, G:0.06, T:0.42
Consensus pattern (74 bp):
CTATCAATTTACTTTCTTTGTTAGCCGAACCTAATCAACTTATACTTAGCCAATTTTAAACCTAT
TTCCATTAC
Found at i:25737542 original size:14 final size:14
Alignment explanation
Indices: 25737509--25737559 Score: 52
Period size: 13 Copynumber: 3.7 Consensus size: 14
25737499 GAAAAACAAT
*
25737509 AAAAGAAAG-TGAA
1 AAAAAAAAGATGAA
* *
25737522 AAGAAAATGA-GAA
1 AAAAAAAAGATGAA
25737535 AAAAAAAAGATGAA
1 AAAAAAAAGATGAA
25737549 AAAGAAAAAGA
1 AAA-AAAAAGA
25737560 ATGTAAGAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
13 17 0.57
14 6 0.20
15 7 0.23
ACGTcount: A:0.75, C:0.00, G:0.20, T:0.06
Consensus pattern (14 bp):
AAAAAAAAGATGAA
Found at i:25748944 original size:16 final size:16
Alignment explanation
Indices: 25748920--25748957 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
25748910 CTCTTCCAAT
25748920 TTTCCTATCCTTTTAA
1 TTTCCTATCCTTTTAA
* *
25748936 TTTCTTATCTTTTTAA
1 TTTCCTATCCTTTTAA
25748952 TTTCCT
1 TTTCCT
25748958 TTCCACTCTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.16, C:0.21, G:0.00, T:0.63
Consensus pattern (16 bp):
TTTCCTATCCTTTTAA
Found at i:25749949 original size:16 final size:14
Alignment explanation
Indices: 25749919--25749945 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
25749909 CCATATGTTT
25749919 TTTTAAAATATTTA
1 TTTTAAAATATTTA
25749933 TTTTAAAATATTT
1 TTTTAAAATATTT
25749946 TTATAAGACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTTAAAATATTTA
Found at i:25763181 original size:45 final size:45
Alignment explanation
Indices: 25763127--25763216 Score: 144
Period size: 45 Copynumber: 2.0 Consensus size: 45
25763117 ATATTGAAGA
*
25763127 AACTGGTTTATTGCAAATCAAAGATCAGGTGACAGATATTTTTAC
1 AACTGGTTTATTGCAAATCAAAGATCAGATGACAGATATTTTTAC
* **
25763172 AACTGGTTTATTGCAAATCAGAGATCAGATGATGGATATTTTTAC
1 AACTGGTTTATTGCAAATCAAAGATCAGATGACAGATATTTTTAC
25763217 TAAATTTTTC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.34
Consensus pattern (45 bp):
AACTGGTTTATTGCAAATCAAAGATCAGATGACAGATATTTTTAC
Found at i:25767685 original size:2 final size:2
Alignment explanation
Indices: 25767678--25767702 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
25767668 TGTAAAATTA
25767678 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 A
25767703 CACACAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:25779198 original size:28 final size:28
Alignment explanation
Indices: 25779166--25779220 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
25779156 AAAGTAATTT
*
25779166 CAAATTCAGAGATTTATATATATATATG
1 CAAATTCAGAGATATATATATATATATG
* *
25779194 CAAATTCATATATATATATATATATAT
1 CAAATTCAGAGATATATATATATATAT
25779221 ATATATATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (28 bp):
CAAATTCAGAGATATATATATATATATG
Found at i:25779206 original size:2 final size:2
Alignment explanation
Indices: 25779201--25779234 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
25779191 ATGCAAATTC
25779201 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25779235 GTTGCAGATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25780024 original size:8 final size:8
Alignment explanation
Indices: 25780011--25780054 Score: 63
Period size: 8 Copynumber: 5.5 Consensus size: 8
25780001 ACTTAACTAT
25780011 ATAATATA
1 ATAATATA
25780019 ATAATATA
1 ATAATATA
*
25780027 TTAATATA
1 ATAATATA
25780035 ATAAT-TAA
1 ATAATAT-A
25780043 ATAATATA
1 ATAATATA
25780051 ATAA
1 ATAA
25780055 AACATAAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
7 1 0.03
8 30 0.94
9 1 0.03
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
ATAATATA
Found at i:25780035 original size:13 final size:12
Alignment explanation
Indices: 25780018--25780055 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
25780008 TATATAATAT
25780018 AATAATATATTA
1 AATAATATATTA
25780030 ATATAATA-ATTA
1 A-ATAATATATTA
*
25780042 AATAATATAATA
1 AATAATATATTA
25780054 AA
1 AA
25780056 ACATAAAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
11 6 0.26
12 11 0.48
13 6 0.26
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
AATAATATATTA
Found at i:25788941 original size:28 final size:27
Alignment explanation
Indices: 25788908--25788967 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
25788898 GTGGATTATT
25788908 TTGAGATATT-TTTAATAGAGATTATAAG
1 TTGAGA-ATTATTT-ATAGAGATTATAAG
***
25788936 TTGAGAATTATTTATTTTGATTATAAG
1 TTGAGAATTATTTATAGAGATTATAAG
25788963 TTGAG
1 TTGAG
25788968 GTTTTTTCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 19 0.68
28 9 0.32
ACGTcount: A:0.35, C:0.00, G:0.18, T:0.47
Consensus pattern (27 bp):
TTGAGAATTATTTATAGAGATTATAAG
Found at i:25790542 original size:44 final size:44
Alignment explanation
Indices: 25790479--25790570 Score: 141
Period size: 44 Copynumber: 2.1 Consensus size: 44
25790469 TGTTCAGGGA
25790479 TACTTCGACCTTGAGTCGATGAGGCACTAATG-GTGTCGTACTGT
1 TACTTCGACCTTGAGTCGATGAGGCACT-ATGTGTGTCGTACTGT
* * *
25790523 TACTTCGACTTTGTGTCGATGAGGCACTTTGTGTGTCGTACTGT
1 TACTTCGACCTTGAGTCGATGAGGCACTATGTGTGTCGTACTGT
25790567 TACT
1 TACT
25790571 GATACTTTGG
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
43 2 0.05
44 42 0.95
ACGTcount: A:0.17, C:0.20, G:0.26, T:0.37
Consensus pattern (44 bp):
TACTTCGACCTTGAGTCGATGAGGCACTATGTGTGTCGTACTGT
Found at i:25790578 original size:44 final size:44
Alignment explanation
Indices: 25790493--25790579 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
25790483 TCGACCTTGA
**
25790493 GTCGATGAGGCACTAATGGTGTCGTACTGTTACTTCGACTTTGT
1 GTCGATGAGGCACTAATGGTGTCGTACTGTTACTGAGACTTTGT
* *
25790537 GTCGATGAGGCACT-TTGTGTGTCGTACTGTTACTGATACTTTG
1 GTCGATGAGGCACTAATG-GTGTCGTACTGTTACTGAGACTTTG
25790580 GTTTAATCCG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
43 2 0.05
44 36 0.95
ACGTcount: A:0.17, C:0.17, G:0.28, T:0.38
Consensus pattern (44 bp):
GTCGATGAGGCACTAATGGTGTCGTACTGTTACTGAGACTTTGT
Found at i:25793033 original size:20 final size:20
Alignment explanation
Indices: 25792991--25793034 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
25792981 TTTTAGTATC
*
25792991 ATTTTTATTTTTTAATATTT
1 ATTTTTATTTTTTAATATAT
25793011 ATTTTTATGTTTTTAA-ATAT
1 ATTTTTAT-TTTTTAATATAT
25793031 ATTT
1 ATTT
25793035 GATTTATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.70
Consensus pattern (20 bp):
ATTTTTATTTTTTAATATAT
Found at i:25793054 original size:26 final size:24
Alignment explanation
Indices: 25793005--25793064 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 24
25792995 TTATTTTTTA
* *
25793005 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTAAAAT
25793029 ATATTTGATTTATTATATTTTAAAAT
1 ATATTT-ATTT-TTATATTTTAAAAT
* *
25793055 TTTTTTATTT
1 ATATTTATTT
25793065 AATAAAATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 6 0.20
25 8 0.27
26 16 0.53
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTAAAAT
Found at i:25793064 original size:25 final size:26
Alignment explanation
Indices: 25793008--25793065 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
25792998 TTTTTTAATA
* *
25793008 TTTATTT-TTATGTTTTTAAATATAT
1 TTTATTTATTATATTTTAAAATATAT
* *
25793033 TTGATTTATTATATTTTAAAAT-TTT
1 TTTATTTATTATATTTTAAAATATAT
25793058 TTTATTTA
1 TTTATTTA
25793066 ATAAAATAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 15 0.56
26 12 0.44
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.67
Consensus pattern (26 bp):
TTTATTTATTATATTTTAAAATATAT
Found at i:25795002 original size:28 final size:28
Alignment explanation
Indices: 25794970--25795035 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
25794960 TTTACTTTCG
25794970 TTTTATTCTATTTACTTTA-ATTAATTAA
1 TTTTATTCTATTTACTTTATATTAA-TAA
* **
25794998 TTTTATTTTATTTGTTTTATATTAATAA
1 TTTTATTCTATTTACTTTATATTAATAA
*
25795026 TTTAATTCTA
1 TTTTATTCTA
25795036 ATTATCTATT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 27 0.84
29 5 0.16
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (28 bp):
TTTTATTCTATTTACTTTATATTAATAA
Found at i:25795429 original size:15 final size:14
Alignment explanation
Indices: 25795396--25795458 Score: 58
Period size: 14 Copynumber: 4.4 Consensus size: 14
25795386 ATAATATCAT
*
25795396 TATAATTTA-ATTA
1 TATAAATTATATTA
25795409 TCATAAATTCATATTA
1 T-ATAAATT-ATATTA
25795425 TATAAATTATATTTA
1 TATAAATTATA-TTA
*
25795440 TATATCATTA-ATTA
1 TATA-AATTATATTA
25795454 TATAA
1 TATAA
25795459 TTTAAAAAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
13 1 0.02
14 16 0.38
15 16 0.38
16 9 0.21
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (14 bp):
TATAAATTATATTA
Found at i:25795594 original size:17 final size:18
Alignment explanation
Indices: 25795559--25795594 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
25795549 TATTGTTCTA
*
25795559 TAATTCAACTTTTATCCT
1 TAATTCAACTTTAATCCT
25795577 TAATTCAA-TTTAATCCT
1 TAATTCAACTTTAATCCT
25795594 T
1 T
25795595 TTTTCTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.31, C:0.19, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATTCAACTTTAATCCT
Found at i:25800357 original size:3 final size:3
Alignment explanation
Indices: 25800351--25800390 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
25800341 ATAAGAGTAT
25800351 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
25800391 GATCTACAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:25800506 original size:37 final size:37
Alignment explanation
Indices: 25800435--25800506 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 37
25800425 AAAAAAATAT
* *
25800435 ATATAAAATATTTACAATAATGATGTAAATAAACAAC
1 ATATAAAATATTTACAATAATCATATAAATAAACAAC
25800472 ATATAAAATATTTGA-AATAA-CATATAAATGAAACA
1 ATATAAAATATTT-ACAATAATCATATAAAT-AAACA
25800507 TTTAAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 7 0.23
37 23 0.74
38 1 0.03
ACGTcount: A:0.58, C:0.07, G:0.06, T:0.29
Consensus pattern (37 bp):
ATATAAAATATTTACAATAATCATATAAATAAACAAC
Found at i:25801119 original size:22 final size:23
Alignment explanation
Indices: 25801032--25801116 Score: 66
Period size: 22 Copynumber: 3.7 Consensus size: 23
25801022 TTGAAAAAAG
*
25801032 AAAAGGAAAAAAAAAACAATGAA
1 AAAAGGAAAAAAAAAACAAGGAA
* *
25801055 TAAATATGAAAAAAAAAACAAGGTA
1 -AAA-AGGAAAAAAAAAACAAGGAA
** * * *
25801080 AGCA-GAGAACAAAAAGAA-GAA
1 AAAAGGAAAAAAAAAACAAGGAA
25801101 AAAAGGAAAAAAAAAA
1 AAAAGGAAAAAAAAAA
25801117 GAACAAAACT
Statistics
Matches: 46, Mismatches: 13, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
21 4 0.09
22 20 0.43
23 1 0.02
24 4 0.09
25 17 0.37
ACGTcount: A:0.74, C:0.05, G:0.15, T:0.06
Consensus pattern (23 bp):
AAAAGGAAAAAAAAAACAAGGAA
Found at i:25802185 original size:88 final size:88
Alignment explanation
Indices: 25801983--25802388 Score: 371
Period size: 88 Copynumber: 4.6 Consensus size: 88
25801973 GTGATCATAA
** * * * * *
25801983 GCTCAACTCATTTCTCGCAATATGAATTGACTTTT-AAAAACTAGACATT-AAAAACAGAA-ATT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAAC-AGAAATTGAAAAA-A-AATTTT
* * * **
25802045 GAAAAATAGCTCAGCACGTGAGCAAAG
63 G-AAAATACCTCAGCATGTGACCCGAG
* * * * * *
25802072 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA-AAACAGAATTTGCCAAACAGATTTTGG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTG-AAAAAAAATTTTGA
**
25802136 AAATACCTTGGCATGTGACCCGAG
65 AAATACCTCAGCATGTGACCCGAG
* * * *
25802160 GCTCAACTCACCTATCGTAATATGAGTTGATTTTTGA-AAAGCATAAATTGAAAAAACATTAATT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAA-CAGAAATTGAAAAAAAATT--TT
25802224 GAAAATACCTCAGC--GTG-CCTCGAG
63 GAAAATACCTCAGCATGTGACC-CGAG
* **
25802248 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGACGAACAGAAATTGAAAAATAAAAATTGA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAAAA-AAATTTTGA
* * *
25802312 AAAGACATCAGCATGTGAGCCGAG
65 AAATACCTCAGCATGTGACCCGAG
* *
25802336 GCTCAACTCACCTCTCGCGATATGAGTTGATTTTTGACAAACCGAAATTGAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAA
25802389 TTACCTCAGC
Statistics
Matches: 262, Mismatches: 41, Indels: 28
0.79 0.12 0.08
Matches are distributed among these distances:
86 14 0.05
87 21 0.08
88 142 0.54
89 68 0.26
90 17 0.06
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (88 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAAAAAAATTTTGAA
AATACCTCAGCATGTGACCCGAG
Found at i:25802562 original size:165 final size:163
Alignment explanation
Indices: 25802213--25802715 Score: 696
Period size: 165 Copynumber: 3.1 Consensus size: 163
25802203 TAAATTGAAA
* *
25802213 AAACATTAATTGAAAATACCTCAGCGTG-CCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAACATAAATTGAAATTACCTCAGCGTGTCCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTG
* * * * * * *
25802277 A----TTTTGACGAACAGAAATTGAAAAATAAAAATTGAAAAGACATCAGCATGTGAGCC-GAGG
65 ATTTTTTTTGAAGAACAGAAATTGGAAAACAGAAATTGAAAATACCTCA--ATGTG-CCCTGAGG
*
25802337 CTCAACTCACCTCTCGCGATATGAGTTGATTTTTGAC
127 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAC
** *
25802374 AAACCGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGA
1 AAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* *
25802439 TTTTTTTTGAAGAGCAGAAATTGGAAAACAGAAATCGAAAATACCTCAATGTGCCCTGAGGCTCA
66 TTTTTTTTGAAGAACAGAAATTGGAAAACAGAAATTGAAAATACCTCAATGTGCCCTGAGGCTCA
*
25802504 ACTCACCTTTCGCAATATGAGTTGATTTTTTTGAC
131 ACTCACCTCTCGCAATATGAGTTGA--TTTTTGAC
25802539 AAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* ** *
25802604 TTTTTTTTGAAAAACAGAAATT-GAAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTT
66 TTTTTTTTGAAGAACAGAAATTGGAAAA-CAGAAATTGAAAATACCTCAATGTGCCCTGAGGCTC
* *
25802668 AACTCACCTCTCGCAATATGAGCTGATTTTTGAA
130 AACTCACCTCTCGCAATATGAGTTGATTTTTGAC
25802702 AAACATAAATTGAA
1 AAACATAAATTGAA
25802716 GAAAACAGAA
Statistics
Matches: 305, Mismatches: 28, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
161 56 0.18
162 5 0.02
163 57 0.19
164 5 0.02
165 182 0.60
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (163 bp):
AAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTTTTGAAGAACAGAAATTGGAAAACAGAAATTGAAAATACCTCAATGTGCCCTGAGGCTCA
ACTCACCTCTCGCAATATGAGTTGATTTTTGAC
Found at i:25802592 original size:75 final size:76
Alignment explanation
Indices: 25802463--25802630 Score: 257
Period size: 75 Copynumber: 2.2 Consensus size: 76
25802453 CAGAAATTGG
* * *
25802463 AAAACAGAAATCGAAAATACCTCAATGTGCCCTGAGGCTCAACTCACCTTTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
25802528 A-TTTTTTTGA
66 ATTTTTTTTGA
* * * * *
25802538 CAAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
25802603 ATTTTTTTTGA
66 ATTTTTTTTGA
25802614 AAAACAGAAATTGAAAA
1 AAAACAGAAATTGAAAA
25802631 GCAGAAATTG
Statistics
Matches: 81, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
75 58 0.72
76 23 0.28
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.29
Consensus pattern (76 bp):
AAAACAGAAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTTTGA
Found at i:25802629 original size:14 final size:14
Alignment explanation
Indices: 25802610--25802644 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
25802600 TTGATTTTTT
25802610 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
*
25802624 TTGAAAAGCAGAAA
1 TTGAAAAACAGAAA
25802638 TTGAAAA
1 TTGAAAA
25802645 TACCTCAGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.60, C:0.06, G:0.17, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:25802698 original size:90 final size:89
Alignment explanation
Indices: 25802539--25802800 Score: 402
Period size: 89 Copynumber: 2.9 Consensus size: 89
25802529 TTTTTTTGAC
*
25802539 AAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
25802604 TTTTTTTTGAAAAACAGAAATTG-A-A
66 ---TTTTTGAAAAACAGAAATTGAAGA
* * * * *
25802629 AAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTTAACTCACCTCTCGCAATATGAGCTGA
1 AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
25802694 TTTTTGAAAAACATAAATTGAAGA
66 TTTTTGAAAAACAGAAATTGAAGA
* *
25802718 AAACAGAAATTGAAATTATCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
25802783 TTTTTGAAAAACAGAAAT
66 TTTTTGAAAAACAGAAAT
25802801 AAAACATCAG
Statistics
Matches: 155, Mismatches: 15, Indels: 5
0.89 0.09 0.03
Matches are distributed among these distances:
87 19 0.12
88 1 0.01
89 76 0.49
90 59 0.38
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.27
Consensus pattern (89 bp):
AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTGAAAAACAGAAATTGAAGA
Found at i:25802722 original size:16 final size:16
Alignment explanation
Indices: 25802701--25802731 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25802691 TGATTTTTGA
*
25802701 AAAACATAAATTGAAG
1 AAAACAGAAATTGAAG
25802717 AAAACAGAAATTGAA
1 AAAACAGAAATTGAA
25802732 ATTATCTCAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.06, G:0.13, T:0.16
Consensus pattern (16 bp):
AAAACAGAAATTGAAG
Found at i:25814828 original size:3 final size:3
Alignment explanation
Indices: 25814822--25814897 Score: 143
Period size: 3 Copynumber: 25.3 Consensus size: 3
25814812 ATAAGAGTAT
25814822 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
25814870 ATA ATA ATG ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
25814898 GATCTACAAT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:25815012 original size:37 final size:37
Alignment explanation
Indices: 25814941--25815012 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 37
25814931 CAAAAAATAT
* *
25814941 ATATAAAATATTTACAATAATGATGTAAATAAACAAC
1 ATATAAAATATTTACAATAATCATATAAATAAACAAC
25814978 ATATAAAATATTTGA-AATAA-CATATAAATGAAACA
1 ATATAAAATATTT-ACAATAATCATATAAAT-AAACA
25815013 TTTTAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 7 0.23
37 23 0.74
38 1 0.03
ACGTcount: A:0.58, C:0.07, G:0.06, T:0.29
Consensus pattern (37 bp):
ATATAAAATATTTACAATAATCATATAAATAAACAAC
Found at i:25819021 original size:5 final size:5
Alignment explanation
Indices: 25819011--25819048 Score: 51
Period size: 5 Copynumber: 7.4 Consensus size: 5
25819001 ACAATTGTGA
25819011 AAAAT AAAAT AAAAT AAAAT AAAA- AATAAT AATAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AA-AAT AA-AAT AA
25819049 TAAAGAACAC
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
4 2 0.06
5 21 0.68
6 8 0.26
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:25821034 original size:22 final size:23
Alignment explanation
Indices: 25821009--25821054 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
25820999 CAACCAAATC
25821009 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
25821031 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
25821054 A
1 A
25821055 CGTCATCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:25821060 original size:23 final size:22
Alignment explanation
Indices: 25821016--25821065 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
25821006 ATCAATTCAA
*
25821016 CATATTTTCAAGATAAATTCAT
1 CATATTTTCAAGATAAAGTCAT
*
25821038 GCATATTTAT-AAGATAACGTCAT
1 -CATATTT-TCAAGATAAAGTCAT
25821061 CATAT
1 CATAT
25821066 ATCTAAAACC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 5 0.21
23 18 0.75
24 1 0.04
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.38
Consensus pattern (22 bp):
CATATTTTCAAGATAAAGTCAT
Found at i:25826456 original size:6 final size:5
Alignment explanation
Indices: 25826421--25826459 Score: 53
Period size: 5 Copynumber: 7.6 Consensus size: 5
25826411 CAATTTGTGA
25826421 AAAAT AAAAT AAAAT AAAAT AAAA- AATAAT AATAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AA-AAT AA-AAT AAA
25826460 GAACACAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 2 0.06
5 22 0.69
6 8 0.25
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:25831544 original size:23 final size:23
Alignment explanation
Indices: 25831514--25831559 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
25831504 CTGTGGGACA
25831514 AATACAAATCATGGGTGTTGCAG
1 AATACAAATCATGGGTGTTGCAG
25831537 AATACAAATCATGGGTGTTGCAG
1 AATACAAATCATGGGTGTTGCAG
25831560 TGTTCGTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.26
Consensus pattern (23 bp):
AATACAAATCATGGGTGTTGCAG
Found at i:25834022 original size:2 final size:2
Alignment explanation
Indices: 25834015--25834047 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
25834005 TCTAGTCTTT
*
25834015 TC TC TC TC TT TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
25834048 TTGGCCTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (2 bp):
TC
Found at i:25834868 original size:6 final size:6
Alignment explanation
Indices: 25834857--25834896 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
25834847 ATAAACACAC
25834857 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATAC
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATAC
25834897 CAACTAAGCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
ATACAT
Found at i:25835124 original size:17 final size:17
Alignment explanation
Indices: 25835102--25835139 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
25835092 TCGTTTTTAA
25835102 TCAGCAAAAATAACTAT
1 TCAGCAAAAATAACTAT
25835119 TCAGCAAAAATAACTAT
1 TCAGCAAAAATAACTAT
25835136 TCAG
1 TCAG
25835140 AGTACTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.50, C:0.18, G:0.08, T:0.24
Consensus pattern (17 bp):
TCAGCAAAAATAACTAT
Found at i:25842726 original size:2 final size:2
Alignment explanation
Indices: 25842719--25842762 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
25842709 CAAGATTACA
25842719 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25842761 AT
1 AT
25842763 TTAGAATCAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25844203 original size:21 final size:21
Alignment explanation
Indices: 25844138--25844205 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
25844128 ATATTTTACT
* *
25844138 TTCTGTTCAACTCTTATGAGT
1 TTCTGTTCAGCTCTTATGAGC
* * *
25844159 TTATGTTTAGCTCTTACGAGC
1 TTCTGTTCAGCTCTTATGAGC
*
25844180 TTCTATTCAGCTCTTATGAGC
1 TTCTGTTCAGCTCTTATGAGC
25844201 TTCTG
1 TTCTG
25844206 ATCATCTTTC
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.18, C:0.21, G:0.16, T:0.46
Consensus pattern (21 bp):
TTCTGTTCAGCTCTTATGAGC
Found at i:25847932 original size:29 final size:28
Alignment explanation
Indices: 25847893--25847967 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 28
25847883 GTTTTATTAA
*
25847893 TTTATATTTTTT-T-ATAATCTATTAAATT
1 TTTATATTTTTTATAATAAT-TA-TAAGTT
*
25847921 TTTTTATATTTTTATAATAATTATAAGTT
1 TTTATAT-TTTTTATAATAATTATAAGTT
25847950 TTTATGATTTTTTATAAT
1 TTTAT-ATTTTTTATAAT
25847968 TTAAGTAGGT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
28 6 0.15
29 24 0.60
30 5 0.12
31 5 0.12
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (28 bp):
TTTATATTTTTTATAATAATTATAAGTT
Found at i:25847951 original size:28 final size:29
Alignment explanation
Indices: 25847901--25847973 Score: 77
Period size: 28 Copynumber: 2.7 Consensus size: 29
25847891 AATTTATATT
* *
25847901 TTTTTATAATCTATTA-AATTTTTTTAT-A
1 TTTTTATAAT-AATTATAAGTTTTTTATGA
25847929 TTTTTATAATAATTATAAG-TTTTTATGA
1 TTTTTATAATAATTATAAGTTTTTTATGA
25847957 TTTTT-T-ATAATT-TAAGT
1 TTTTTATAATAATTATAAGT
25847974 AGGTTTATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
25 4 0.10
26 6 0.15
27 12 0.30
28 18 0.45
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.62
Consensus pattern (29 bp):
TTTTTATAATAATTATAAGTTTTTTATGA
Found at i:25847960 original size:9 final size:9
Alignment explanation
Indices: 25847766--25847969 Score: 65
Period size: 10 Copynumber: 21.3 Consensus size: 9
25847756 CCAATTTAAG
25847766 TTTTTATAA
1 TTTTTATAA
25847775 TTTTTTTATAA
1 --TTTTTATAA
*
25847786 TATTTATAA
1 TTTTTATAA
*
25847795 GTTTATATTGAA
1 -TTTTTA-T-AA
* *
25847807 -TTTAATAT
1 TTTTTATAA
25847815 TTGTTTATAA
1 TT-TTTATAA
*
25847825 TTTTTGACAA
1 TTTTT-ATAA
*
25847835 TTTTTATTAT
1 TTTTTA-TAA
*
25847845 TTTTTAAGAA
1 TTTTT-ATAA
* *
25847855 TTCTAAT-A
1 TTTTTATAA
*
25847863 TGTTTTTTAA
1 T-TTTTATAA
*
25847873 TTTTAAATAA
1 TTTT-TATAA
*
25847883 GTTTTATTAA
1 TTTTTA-TAA
* *
25847893 TTTATAT-T
1 TTTTTATAA
25847901 TTTTTATAA
1 TTTTTATAA
*
25847910 TCTATTA-AA
1 T-TTTTATAA
*
25847919 TTTTTTTATA
1 TTTTTATA-A
25847929 TTTTTATAA
1 TTTTTATAA
**
25847938 TAATTATAA
1 TTTTTATAA
*
25847947 GTTTTTATGAT
1 -TTTTTAT-AA
25847958 TTTTTATAA
1 TTTTTATAA
25847967 TTT
1 TTT
25847970 AAGTAGGTTT
Statistics
Matches: 137, Mismatches: 38, Indels: 38
0.64 0.18 0.18
Matches are distributed among these distances:
8 12 0.09
9 40 0.29
10 71 0.52
11 12 0.09
12 2 0.01
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:25865003 original size:23 final size:21
Alignment explanation
Indices: 25864964--25865009 Score: 65
Period size: 23 Copynumber: 2.1 Consensus size: 21
25864954 TTTATATGGT
*
25864964 ATTATATTATTATAAAATTAA
1 ATTATATAATTATAAAATTAA
25864985 ATTATATAATATATCAAAATTAA
1 ATTATATAAT-TAT-AAAATTAA
25865008 AT
1 AT
25865010 AGAAACATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.41
22 3 0.14
23 10 0.45
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
ATTATATAATTATAAAATTAA
Found at i:25867998 original size:2 final size:2
Alignment explanation
Indices: 25867991--25868023 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
25867981 ATCTTGCCCC
25867991 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
25868024 ATTTAAATAA
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:25868330 original size:6 final size:6
Alignment explanation
Indices: 25868301--25868332 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
25868291 TTACACACAC
*
25868301 ACATAC ACATAT ACATAT ACATAT ACATAT AC
1 ACATAT ACATAT ACATAT ACATAT ACATAT AC
25868333 TTCTACTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (6 bp):
ACATAT
Found at i:25869348 original size:3 final size:3
Alignment explanation
Indices: 25869340--25869386 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
25869330 TGATAACATA
25869340 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
25869387 ATCTAAATTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:25869575 original size:12 final size:12
Alignment explanation
Indices: 25869560--25869593 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
25869550 ATTAAATAAA
25869560 TAAATAAAACAT
1 TAAATAAAACAT
* *
25869572 TAAACAATACAT
1 TAAATAAAACAT
25869584 TAAATAAAAC
1 TAAATAAAAC
25869594 CGTCTTTAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.65, C:0.12, G:0.00, T:0.24
Consensus pattern (12 bp):
TAAATAAAACAT
Found at i:25871431 original size:2 final size:2
Alignment explanation
Indices: 25871424--25871459 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
25871414 TTAGGTAAAA
25871424 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25871460 TATTATTTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25872685 original size:44 final size:45
Alignment explanation
Indices: 25872595--25872723 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
25872585 GACAGAACGA
*
25872595 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
25872641 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
25872685 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
25872724 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:25878746 original size:44 final size:45
Alignment explanation
Indices: 25878656--25878784 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
25878646 GACAGAACGA
*
25878656 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
25878702 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
25878746 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
25878785 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:25883809 original size:9 final size:9
Alignment explanation
Indices: 25883795--25883845 Score: 57
Period size: 9 Copynumber: 5.3 Consensus size: 9
25883785 TATACACATT
25883795 AAAAATATA
1 AAAAATATA
*
25883804 AAAAATAGA
1 AAAAATATA
25883813 AATAAATATAGA
1 AA-AAATAT--A
*
25883825 AAAAATTTA
1 AAAAATATA
25883834 AAAAATATA
1 AAAAATATA
25883843 AAA
1 AAA
25883846 TCTAGAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
9 22 0.63
10 5 0.14
11 5 0.14
12 3 0.09
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.22
Consensus pattern (9 bp):
AAAAATATA
Found at i:25883974 original size:22 final size:21
Alignment explanation
Indices: 25883923--25883998 Score: 71
Period size: 22 Copynumber: 3.4 Consensus size: 21
25883913 TATGTTGAAA
*
25883923 TTAATAATATTATTACAAAAAATG
1 TTAA-AATATT-TTA-AAAAAATT
*
25883947 TAAAAATATTTTAAAAAAAGTT
1 TTAAAATATTTTAAAAAAA-TT
* *
25883969 TTAAAATATTTTTATAAAATT
1 TTAAAATATTTTAAAAAAATT
*
25883990 CTAAAATAT
1 TTAAAATAT
25883999 AAAATTCTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
21 16 0.36
22 20 0.44
23 6 0.13
24 3 0.07
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (21 bp):
TTAAAATATTTTAAAAAAATT
Found at i:25883981 original size:23 final size:22
Alignment explanation
Indices: 25883923--25883987 Score: 60
Period size: 23 Copynumber: 2.9 Consensus size: 22
25883913 TATGTTGAAA
*
25883923 TTAATAATATTATTACAAAAAATG
1 TTAA-AATATTTTTA-AAAAAATG
* *
25883947 TAAAAATA-TTTTAAAAAAAGTT
1 TTAAAATATTTTTAAAAAAA-TG
*
25883969 TTAAAATATTTTTATAAAA
1 TTAAAATATTTTTAAAAAA
25883988 TTCTAAAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
21 6 0.18
22 12 0.35
23 13 0.38
24 3 0.09
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (22 bp):
TTAAAATATTTTTAAAAAAATG
Found at i:25883996 original size:8 final size:8
Alignment explanation
Indices: 25883983--25884019 Score: 58
Period size: 8 Copynumber: 4.8 Consensus size: 8
25883973 AATATTTTTA
25883983 TAAAATTC
1 TAAAATTC
*
25883991 TAAAA-TA
1 TAAAATTC
25883998 TAAAATTC
1 TAAAATTC
25884006 TAAAATTC
1 TAAAATTC
25884014 TAAAAT
1 TAAAAT
25884020 GGTATTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 6 0.23
8 20 0.77
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (8 bp):
TAAAATTC
Found at i:25884001 original size:15 final size:15
Alignment explanation
Indices: 25883981--25884011 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
25883971 AAAATATTTT
25883981 TATAAAATTCTAAAA
1 TATAAAATTCTAAAA
25883996 TATAAAATTCTAAAA
1 TATAAAATTCTAAAA
25884011 T
1 T
25884012 TCTAAAATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (15 bp):
TATAAAATTCTAAAA
Found at i:25884288 original size:15 final size:14
Alignment explanation
Indices: 25884252--25884281 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
25884242 CAGATTCTAT
*
25884252 ACAAAAAATAAAAA
1 ACAAATAATAAAAA
25884266 ACAAATAATAAAAA
1 ACAAATAATAAAAA
25884280 AC
1 AC
25884282 TATATAAGGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.80, C:0.10, G:0.00, T:0.10
Consensus pattern (14 bp):
ACAAATAATAAAAA
Found at i:25889470 original size:86 final size:85
Alignment explanation
Indices: 25889324--25889484 Score: 261
Period size: 86 Copynumber: 1.9 Consensus size: 85
25889314 GGGCAAGCAA
*
25889324 ACTCTTTTTGAAAGTTAGAAGCAGATAAATTTAGCTAAAAGAAAGAAAGAACAAAAGCAAAATTG
1 ACTCTTTTTGAAAGTTAGAAGCAGATAAATTTAACTAAAAGAAAGAAAGAACAAAAGCAAAATTG
25889389 ATAAAAAAAAAATGTATAAC
66 ATAAAAAAAAAATGTATAAC
* *
25889409 ACTCTTTTTGAAAGTTGGAAGCAGACTAAATTTAACTTAAAA-AAAGAAAGAACAAAGGCAAAAT
1 ACTCTTTTTGAAAGTTAGAAGCAGA-TAAATTTAAC-TAAAAGAAAGAAAGAACAAAAGCAAAAT
*
25889473 TGCTAAAAAAAA
64 TGATAAAAAAAA
25889485 TGTAAGTATT
Statistics
Matches: 70, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
85 24 0.34
86 41 0.59
87 5 0.07
ACGTcount: A:0.54, C:0.09, G:0.14, T:0.22
Consensus pattern (85 bp):
ACTCTTTTTGAAAGTTAGAAGCAGATAAATTTAACTAAAAGAAAGAAAGAACAAAAGCAAAATTG
ATAAAAAAAAAATGTATAAC
Found at i:25889908 original size:2 final size:2
Alignment explanation
Indices: 25889901--25889929 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
25889891 TGTATCTACT
25889901 TA TA TA TA TA 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 T
25889930 TTGAGGCCAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:25894458 original size:14 final size:15
Alignment explanation
Indices: 25894407--25894466 Score: 67
Period size: 14 Copynumber: 4.3 Consensus size: 15
25894397 GGTGGTTCCA
*
25894407 TGGGAA-GGTACTCG
1 TGGGAAGGGTACTTG
25894421 TGGGAA-GGTA-TTG
1 TGGGAAGGGTACTTG
*
25894434 T-GGATGGGTACTT-
1 TGGGAAGGGTACTTG
25894447 TGGGAAGGGTACTTG
1 TGGGAAGGGTACTTG
25894462 TGGGA
1 TGGGA
25894467 GGGAATACAT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
12 3 0.08
13 8 0.21
14 23 0.59
15 5 0.13
ACGTcount: A:0.20, C:0.07, G:0.45, T:0.28
Consensus pattern (15 bp):
TGGGAAGGGTACTTG
Found at i:25894825 original size:33 final size:35
Alignment explanation
Indices: 25894757--25894889 Score: 128
Period size: 35 Copynumber: 3.8 Consensus size: 35
25894747 AGTAATAAAT
*
25894757 GTCCTACTCCCACACATGGAGGAGGTTTACAAGAG
1 GTCCTACTCCCACACATGGAGGAGGCTTACAAGAG
* *
25894792 GTCCTACTCCCATATAT-GAGG-GGCTTACAAGAG
1 GTCCTACTCCCACACATGGAGGAGGCTTACAAGAG
* * * * * *
25894825 GTCTTGCTCCTACACATGAGAGAAGGCTTACAGGGG
1 GTCCTACTCCCACACATG-GAGGAGGCTTACAAGAG
* *
25894861 GTCCTTCTCCCACACAGGGA-GAGGGCTTA
1 GTCCTACTCCCACACATGGAGGA-GGCTTA
25894890 TAGAAAGTCC
Statistics
Matches: 78, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
33 23 0.29
34 5 0.06
35 26 0.33
36 24 0.31
ACGTcount: A:0.26, C:0.26, G:0.27, T:0.22
Consensus pattern (35 bp):
GTCCTACTCCCACACATGGAGGAGGCTTACAAGAG
Found at i:25905681 original size:222 final size:222
Alignment explanation
Indices: 25905295--25905738 Score: 870
Period size: 222 Copynumber: 2.0 Consensus size: 222
25905285 GCAGGATCTC
25905295 CTTCAAGATTGAAGATATCCATTCAATTTCTCTAAAAGTTTTGTTATTTTCCTAATTTTGAGATG
1 CTTCAAGATTGAAGATATCCATTCAATTTCTCTAAAAGTTTTGTTATTTTCCTAATTTTGAGATG
25905360 TTTTCCTCCCAAAGTATGAATTAAATTCCCTAGATACCTAGGGAAGATGAAACCTATGATGGATC
66 TTTTCCTCCCAAAGTATGAATTAAATTCCCTAGATACCTAGGGAAGATGAAACCTATGATGGATC
25905425 TTGTTATTTAATTTCTGAATTAAATGATAAATACTTGATTTCTTGATCTCAATTATGTGTATTTA
131 TTGTTATTTAATTTCTGAATTAAATGATAAATACTTGATTTCTTGATCTCAATTATGTGTATTTA
25905490 TTCCATGTTTTAATGTTTTCAAGATAT
196 TTCCATGTTTTAATGTTTTCAAGATAT
*
25905517 CTTCAAGATTGAAGATATCCATTCAATTTCTCTAAAAGTTTTGTTGTTTTCCTAATTTTGAGATG
1 CTTCAAGATTGAAGATATCCATTCAATTTCTCTAAAAGTTTTGTTATTTTCCTAATTTTGAGATG
*
25905582 TTTTCCTCCCAAAGTATGAATTAAATTCCCTAGATACCTAGGGAAGATGAAACTTATGATGGATC
66 TTTTCCTCCCAAAGTATGAATTAAATTCCCTAGATACCTAGGGAAGATGAAACCTATGATGGATC
25905647 TTGTTATTTAATTTCTGAATTAAATGATAAATACTTGATTTCTTGATCTCAATTATGTGTATTTA
131 TTGTTATTTAATTTCTGAATTAAATGATAAATACTTGATTTCTTGATCTCAATTATGTGTATTTA
25905712 TTCCATGTTTTAATGTTTTCAAGATAT
196 TTCCATGTTTTAATGTTTTCAAGATAT
25905739 TAATTCATGA
Statistics
Matches: 220, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
222 220 1.00
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.43
Consensus pattern (222 bp):
CTTCAAGATTGAAGATATCCATTCAATTTCTCTAAAAGTTTTGTTATTTTCCTAATTTTGAGATG
TTTTCCTCCCAAAGTATGAATTAAATTCCCTAGATACCTAGGGAAGATGAAACCTATGATGGATC
TTGTTATTTAATTTCTGAATTAAATGATAAATACTTGATTTCTTGATCTCAATTATGTGTATTTA
TTCCATGTTTTAATGTTTTCAAGATAT
Found at i:25907270 original size:2 final size:2
Alignment explanation
Indices: 25907263--25907683 Score: 828
Period size: 2 Copynumber: 211.5 Consensus size: 2
25907253 TTGAAGTGAA
25907263 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
25907305 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
25907347 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
25907389 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
25907431 AG AG AG AG AG AG A- 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
25907472 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
25907514 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
25907556 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
25907598 AG AG AG AG AG A- 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
25907639 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
25907681 AG A
1 AG A
25907684 ATCATTATAC
Statistics
Matches: 417, Mismatches: 0, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
1 2 0.00
2 415 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:25908158 original size:16 final size:16
Alignment explanation
Indices: 25908100--25908159 Score: 50
Period size: 16 Copynumber: 3.6 Consensus size: 16
25908090 CCTTTTTAAA
25908100 ATTTTTAAAAT-ACAAT
1 ATTTTTAAAATGA-AAT
*
25908116 TTTTTTAAAATGAAAAAT
1 ATTTTTAAAATG--AAAT
***
25908134 ATAACTAAAATGAAAT
1 ATTTTTAAAATGAAAT
25908150 ATTTTTAAAA
1 ATTTTTAAAA
25908160 CCAAATGTAA
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
16 21 0.64
18 11 0.33
19 1 0.03
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.40
Consensus pattern (16 bp):
ATTTTTAAAATGAAAT
Found at i:25910619 original size:13 final size:14
Alignment explanation
Indices: 25910601--25910630 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
25910591 TTCCCCTTTT
25910601 AAAATAAA-ATAAA
1 AAAATAAATATAAA
25910614 AAAATAAATATAAA
1 AAAATAAATATAAA
25910628 AAA
1 AAA
25910631 CACTCACAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (14 bp):
AAAATAAATATAAA
Found at i:25912193 original size:12 final size:12
Alignment explanation
Indices: 25912176--25912238 Score: 51
Period size: 11 Copynumber: 5.5 Consensus size: 12
25912166 ACATATACAT
*
25912176 GAAATAATAAAA
1 GAAATAATATAA
25912188 GAAAT-ATATAA
1 GAAATAATATAA
*
25912199 CAAATAATATAA
1 GAAATAATATAA
* *
25912211 GATAT-ATGTAA
1 GAAATAATATAA
* *
25912222 TAAATAACATAA
1 GAAATAATATAA
25912234 -AAATA
1 GAAATA
25912239 TATGAATAGT
Statistics
Matches: 40, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
11 22 0.55
12 18 0.45
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.25
Consensus pattern (12 bp):
GAAATAATATAA
Found at i:25912203 original size:23 final size:23
Alignment explanation
Indices: 25912177--25912241 Score: 78
Period size: 23 Copynumber: 2.9 Consensus size: 23
25912167 CATATACATG
*
25912177 AAATAATAAAAGAAATATATAAC
1 AAATAATATAAGAAATATATAAC
* * *
25912200 AAATAATATAAGATATATGTAAT
1 AAATAATATAAGAAATATATAAC
*
25912223 AAATAACATAA-AAATATAT
1 AAATAATATAAGAAATATAT
25912242 GAATAGTACG
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
22 6 0.17
23 29 0.83
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.28
Consensus pattern (23 bp):
AAATAATATAAGAAATATATAAC
Found at i:25912560 original size:31 final size:32
Alignment explanation
Indices: 25912493--25912560 Score: 93
Period size: 31 Copynumber: 2.1 Consensus size: 32
25912483 TTATAAGAAA
* *
25912493 ATATAACTAATAATATTGAAAATATATATATAT
1 ATATAAC-AATAATATTGAAAACACATATATAT
*
25912526 ATATAAC-ATAATATTTAAAACACATATATAT
1 ATATAACAATAATATTGAAAACACATATATAT
25912557 ATAT
1 ATAT
25912561 GATATATAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
31 25 0.78
33 7 0.22
ACGTcount: A:0.54, C:0.06, G:0.01, T:0.38
Consensus pattern (32 bp):
ATATAACAATAATATTGAAAACACATATATAT
Found at i:25912671 original size:22 final size:21
Alignment explanation
Indices: 25912646--25912694 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 21
25912636 TAAGACATAT
*
25912646 AATAAATATATT-TAATATAATA
1 AATAAA-ATATTAAAAT-TAATA
25912668 AATATAAATATTAAAATTAATA
1 AATA-AAATATTAAAATTAATA
25912690 AATAA
1 AATAA
25912695 CAGAAAATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
21 1 0.04
22 18 0.75
23 5 0.21
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
AATAAAATATTAAAATTAATA
Found at i:25912723 original size:21 final size:19
Alignment explanation
Indices: 25912697--25912736 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
25912687 ATAAATAACA
25912697 GAAAATGAAAACAAGTAAATT
1 GAAAAT-AAAAC-AGTAAATT
*
25912718 GAAAATAAAGCAGTAAATT
1 GAAAATAAAACAGTAAATT
25912737 AACAAAGAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 4 0.22
21 6 0.33
ACGTcount: A:0.60, C:0.05, G:0.15, T:0.20
Consensus pattern (19 bp):
GAAAATAAAACAGTAAATT
Found at i:25914371 original size:35 final size:35
Alignment explanation
Indices: 25914344--25914509 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
25914334 CATGGCAAAG
*
25914344 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
25914379 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
25914414 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
** * * * *
25914454 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGC
**
25914489 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
25914510 TTCAATGAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 79 0.70
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:25914463 original size:75 final size:75
Alignment explanation
Indices: 25914344--25914514 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 75
25914334 CATGGCAAAG
** *
25914344 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
25914403 CCATACTGAGC
65 CCATACCGAGC
25914414 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
25914479 CATACCGAGT
66 CATACCGAGC
**
25914489 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
25914515 TGAGGAAAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
70 18 0.20
73 4 0.05
74 5 0.06
75 61 0.69
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:25921851 original size:35 final size:35
Alignment explanation
Indices: 25921824--25921989 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
25921814 CATGGCAAAG
*
25921824 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
25921859 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
25921894 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
** * * * *
25921934 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGC
**
25921969 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
25921990 TTCAATGAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 79 0.70
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:25921943 original size:75 final size:75
Alignment explanation
Indices: 25921824--25921994 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 75
25921814 CATGGCAAAG
** *
25921824 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
25921883 CCATACTGAGC
65 CCATACCGAGC
25921894 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
25921959 CATACCGAGT
66 CATACCGAGC
**
25921969 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
25921995 TGAGGAAAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
70 18 0.20
73 4 0.05
74 5 0.06
75 61 0.69
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:25931818 original size:40 final size:40
Alignment explanation
Indices: 25931763--25931939 Score: 282
Period size: 40 Copynumber: 4.4 Consensus size: 40
25931753 TGTGCATAGT
*
25931763 ATTCGTGCGGGTTATTGTAACCGGGTTAAGTCCCGAAGGC
1 ATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGC
*
25931803 ATTCGTGCGGGTTATTATAACCGGGGTAAGTCCCGAAGGC
1 ATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGC
* * *
25931843 ATTCGTGTGGGTTATTATAACCGCGCTAAGTCCCGAAGGC
1 ATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGC
* *
25931883 ATTCGCGCGGGTTATTATAACCGGGTTTAGTCCCGAAGGC
1 ATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGC
*
25931923 ATTCGTGCTGGTTATTA
1 ATTCGTGCGGGTTATTA
25931940 CATCCGAGCC
Statistics
Matches: 125, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 125 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (40 bp):
ATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGC
Found at i:25931959 original size:80 final size:80
Alignment explanation
Indices: 25931793--25931959 Score: 237
Period size: 80 Copynumber: 2.1 Consensus size: 80
25931783 CCGGGTTAAG
*
25931793 TCCCGAAGGCATTCGTGCGGGTTATTATAACCGGGGTAAGTCCCGAAGGCATTCGTGTGGGTTAT
1 TCCCGAAGGCATTCGCGCGGGTTATTATAACCGGGGTAAGTCCCGAAGGCATTCGTGTGGGTTAT
* * * *
25931858 TATAACCGCGCTAAG
66 TACAACCGAGCCAAA
* *
25931873 TCCCGAAGGCATTCGCGCGGGTTATTATAACCGGGTTTAGTCCCGAAGGCATTCGTGCT-GGTTA
1 TCCCGAAGGCATTCGCGCGGGTTATTATAACCGGGGTAAGTCCCGAAGGCATTCGTG-TGGGTTA
*
25931937 TTACATCCGAGCCAAA
65 TTACAACCGAGCCAAA
*
25931953 TTCCGAA
1 TCCCGAA
25931960 AGTATTTATG
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
80 76 0.99
81 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCCGAAGGCATTCGCGCGGGTTATTATAACCGGGGTAAGTCCCGAAGGCATTCGTGTGGGTTAT
TACAACCGAGCCAAA
Found at i:25940883 original size:27 final size:26
Alignment explanation
Indices: 25940853--25941161 Score: 85
Period size: 27 Copynumber: 11.7 Consensus size: 26
25940843 ACTCAACTTG
25940853 TAAAATTACCAAAGTACCCCCGATTTA
1 TAAAATTACCAAA-TACCCCCGATTTA
* * * *
25940880 TAAAATTATCCGAATATCCTCGATTTG
1 TAAAATTA-CCAAATACCCCCGATTTA
* *
25940907 TAAAATTACTGAAATA------A--GA
1 TAAAATTAC-CAAATACCCCCGATTTA
* ** *
25940926 TAGAATTACCATTTTACCCTCGATTTA
1 TAAAATTACCA-AATACCCCCGATTTA
* * ** *
25940953 CAGAATTACCATTTTACCCTCGATTTA
1 TAAAATTACCA-AATACCCCCGATTTA
* * ** *
25940980 CAAAATTACTGAAATACCCTTGGTTTA
1 TAAAATTAC-CAAATACCCCCGATTTA
* ** **
25941007 CAAAATTACCCAAATACCATCGATCAA
1 TAAAATTA-CCAAATACCCCCGATTTA
* * *
25941034 TAAAATTACCAAAATACCCCTGGTTTG
1 TAAAATTACC-AAATACCCCCGATTTA
*** *
25941061 TAAAATTACCAAAATACCTTTGGTTTA
1 TAAAATTACC-AAATACCCCCGATTTA
* * * *
25941088 CAAAATTACCAAAATACCCCTGGTTTG
1 TAAAATTACC-AAATACCCCCGATTTA
* ** *
25941115 TAAAATTACTAAAATACCCTTTGGTTTA
1 TAAAATTAC-CAAATACCC-CCGATTTA
25941143 TAAAATTACCAAAATACCC
1 TAAAATTACC-AAATACCC
25941162 TTAGTTTGTA
Statistics
Matches: 219, Mismatches: 46, Indels: 33
0.73 0.15 0.11
Matches are distributed among these distances:
18 1 0.00
19 10 0.05
21 1 0.00
25 1 0.00
26 3 0.01
27 174 0.79
28 29 0.13
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.31
Consensus pattern (26 bp):
TAAAATTACCAAATACCCCCGATTTA
Found at i:25941014 original size:54 final size:53
Alignment explanation
Indices: 25940949--25941182 Score: 189
Period size: 54 Copynumber: 4.3 Consensus size: 53
25940939 TTACCCTCGA
* ** * ** *
25940949 TTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTGAAATACCCTTGG
1 TTTACAAAATTACCA-AATACCATCGATTTACAAAATTACCAAAATACCCCTGG
** *
25941003 TTTACAAAATTACCCAAATACCATCGATCAATAAAATTACCAAAATACCCCTGG
1 TTTACAAAATTA-CCAAATACCATCGATTTACAAAATTACCAAAATACCCCTGG
** * * *
25941057 TTTGTAAAATTACCAAAATACCTTTGGTTTACAAAATTACCAAAATACCCCTGG
1 TTTACAAAATTACC-AAATACCATCGATTTACAAAATTACCAAAATACCCCTGG
** * * * * * * *
25941111 TTTGTAAAATTACTAAAATACCCTTTGGTTTATAAAATTACCAAAATACCCTTAG
1 TTTACAAAATTAC-CAAATA-CCATCGATTTACAAAATTACCAAAATACCCCTGG
**
25941166 TTTGTAAAATTACCAAA
1 TTTACAAAATTACCAAA
25941183 ATATCCCTAG
Statistics
Matches: 153, Mismatches: 23, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
53 2 0.01
54 104 0.68
55 47 0.31
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.32
Consensus pattern (53 bp):
TTTACAAAATTACCAAATACCATCGATTTACAAAATTACCAAAATACCCCTGG
Found at i:25941176 original size:27 final size:27
Alignment explanation
Indices: 25940981--25941272 Score: 273
Period size: 27 Copynumber: 10.8 Consensus size: 27
25940971 CTCGATTTAC
** **
25940981 AAAATTACTGAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCTTGGTTTGT
* * * * ***
25941008 AAAATTACCCAAATACCATCGATCAAT
1 AAAATTACCAAAATACCCTTGGTTTGT
*
25941035 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* **
25941062 AAAATTACCAAAATACCTTTGGTTTAC
1 AAAATTACCAAAATACCCTTGGTTTGT
*
25941089 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* *
25941116 AAAATTACTAAAATACCCTTTGGTTTAT
1 AAAATTACCAAAATACCC-TTGGTTTGT
*
25941144 AAAATTACCAAAATACCCTTAGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
*
25941171 AAAATTACCAAAATATCCC-TAGTTTGT
1 AAAATTACCAAAATA-CCCTTGGTTTGT
* * * *
25941198 AAAATTATCGAAATACCTTTGATTTGT
1 AAAATTACCAAAATACCCTTGGTTTGT
* * **
25941225 GAAATTACCGAAATACCCTT-GTAGGGT
1 AAAATTACCAAAATACCCTTGGT-TTGT
* *
25941252 AGAATTATCAAAATACCCTTG
1 AAAATTACCAAAATACCCTTG
25941273 TAGGGTAGAA
Statistics
Matches: 215, Mismatches: 45, Indels: 9
0.80 0.17 0.03
Matches are distributed among these distances:
26 3 0.01
27 185 0.86
28 27 0.13
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTGGTTTGT
Found at i:25941202 original size:109 final size:109
Alignment explanation
Indices: 25941033--25941244 Score: 282
Period size: 109 Copynumber: 1.9 Consensus size: 109
25941023 CCATCGATCA
* * *
25941033 ATAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCTTTGGTTTACAAAATTACC
1 ATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCTCTAGTTTACAAAATTACC
* *
25941098 AAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGGTTT
66 AAAATACCCCTGATTTGTAAAATTACCAAAATACCCTTTGGTTT
* ** *
25941142 ATAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATATCC-CTAGTTTGTAAAATTAT
1 ATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATA-CCTCTAGTTTACAAAATTAC
* ** * *
25941206 CGAAATACCTTTGATTTGTGAAATTACCGAAATACCCTT
65 CAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTT
25941245 GTAGGGTAGA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
109 86 0.98
110 2 0.02
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.33
Consensus pattern (109 bp):
ATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCTCTAGTTTACAAAATTACC
AAAATACCCCTGATTTGTAAAATTACCAAAATACCCTTTGGTTT
Found at i:25941258 original size:136 final size:136
Alignment explanation
Indices: 25940981--25941271 Score: 338
Period size: 136 Copynumber: 2.1 Consensus size: 136
25940971 CTCGATTTAC
* * *
25940981 AAAATTACTGAAATACCC-TTGGTTTACAAAATTACCCAAATACCATCGATCAATAAAATTACCA
1 AAAATTACTAAAATACCCTTTGGTTTACAAAATTACCAAAATACCATAGATCAATAAAATTACCA
* *
25941045 AAATACCCCTGGTTTGTAAAATTACCAAAATACCTTTGGTTTACAAAATTACCAAAATACCCCTG
66 AAATACCCCTAGTTTGTAAAATTACCAAAATACCTTTGATTTACAAAATTACCAAAATACCCCTG
**
25941110 GTTTGT
131 GTGGGT
* * ***
25941116 AAAATTACTAAAATACCCTTTGGTTTATAAAATTACCAAAATACCCTTAG-TTTGTAAAATTACC
1 AAAATTACTAAAATACCCTTTGGTTTACAAAATTACCAAAATA-CCATAGATCAATAAAATTACC
* * * *** *
25941180 AAAATATCCCTAGTTTGTAAAATTATCGAAATACCTTTGATTTGTGAAATTACCGAAATA-CCCT
65 AAAATACCCCTAGTTTGTAAAATTACCAAAATACCTTTGATTTACAAAATTACCAAAATACCCCT
*
25941244 TGTAGGGT
130 GGT-GGGT
*
25941252 AGAATTA-TCAAAATACCCTT
1 AAAATTACT-AAAATACCCTT
25941272 GTAGGGTAGA
Statistics
Matches: 131, Mismatches: 21, Indels: 7
0.82 0.13 0.04
Matches are distributed among these distances:
135 24 0.18
136 103 0.79
137 4 0.03
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.32
Consensus pattern (136 bp):
AAAATTACTAAAATACCCTTTGGTTTACAAAATTACCAAAATACCATAGATCAATAAAATTACCA
AAATACCCCTAGTTTGTAAAATTACCAAAATACCTTTGATTTACAAAATTACCAAAATACCCCTG
GTGGGT
Found at i:25941265 original size:81 final size:80
Alignment explanation
Indices: 25941091--25941517 Score: 350
Period size: 81 Copynumber: 5.3 Consensus size: 80
25941081 TGGTTTACAA
** * *
25941091 AATTACCAAAATACCCCTGGT-TTGTAAAATTA-CTAAAATACCCTTTGGTTTA-TAAAATTACC
1 AATTACCAAAATACCCCT-GTAGGGTAAAATTATC-GAAATACCC-TT-G-TTAGTGAAATTACC
* * *
25941153 AAAATA-CCCT-TAGTTTGTAA
61 GAAATACCCCTGTAG--GGTAG
* ** * *
25941173 AATTACCAAAATATCCCTAGT-TTGTAAAATTATCGAAATACCTTTGATTTGTGAAATTACCGAA
1 AATTACCAAAATACCCCT-GTAGGGTAAAATTATCGAAATACCCTTG-TTAGTGAAATTACCGAA
*
25941237 ATACCCTTGTAGGGTAG
64 ATACCCCTGTAGGGTAG
* * * * * * *
25941254 AATTATCAAAATACCCTTGTAGGGTAGAATTACCGGAATACCCCTG-TAGGGTAGAATTACCGAA
1 AATTACCAAAATACCCCTGTAGGGTAAAATTATCGAAATACCCTTGTTAGTG-A-AATTACCGAA
25941318 ATACCCCTGTAGGGTAG
64 ATACCCCTGTAGGGTAG
* ** * * *
25941335 AATTATCGCAATTCCCCTGTAGGGTAAAATTATCGAAATACCCTTG-TAGGGTAGAATTACCAAA
1 AATTACCAAAATACCCCTGTAGGGTAAAATTATCGAAATACCCTTGTTAGTG-A-AATTACCGAA
*
25941399 ATACCCCTATAGGGTAG
64 ATACCCCTGTAGGGTAG
* * * * *
25941416 AATTACCGAAATACCCCTGTAGGGTAGAATTATCGCAATACCCCTG-TAGGGTAAAATTACCGAA
1 AATTACCAAAATACCCCTGTAGGGTAAAATTATCGAAATACCCTTGTTA--GTGAAATTACCGAA
25941480 ATACCCCTGTAGGGTAG
64 ATACCCCTGTAGGGTAG
* *
25941497 AATTATCGAAATACCCCTGTA
1 AATTACCAAAATACCCCTGTA
25941518 AGGTGGAATT
Statistics
Matches: 291, Mismatches: 45, Indels: 19
0.82 0.13 0.05
Matches are distributed among these distances:
79 3 0.01
80 6 0.02
81 236 0.81
82 41 0.14
83 5 0.02
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (80 bp):
AATTACCAAAATACCCCTGTAGGGTAAAATTATCGAAATACCCTTGTTAGTGAAATTACCGAAAT
ACCCCTGTAGGGTAG
Found at i:25941273 original size:27 final size:27
Alignment explanation
Indices: 25941227--25941556 Score: 446
Period size: 27 Copynumber: 12.3 Consensus size: 27
25941217 TGATTTGTGA
*
25941227 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
25941254 AATTATCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
25941281 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
25941308 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
25941335 AATTATCGCAATTCCCCTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
25941362 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
25941389 AATTACCAAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
25941416 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
25941443 AATTATCGCAATACCCCTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
25941470 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
25941497 AATTATCGAAATACCCCTGTAAGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
25941524 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
25941550 AATTACC
1 AATTACC
25941557 ATTTTTCCCT
Statistics
Matches: 266, Mismatches: 37, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
26 15 0.06
27 251 0.94
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:25942035 original size:22 final size:22
Alignment explanation
Indices: 25941983--25942047 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
25941973 TTAAAGCCTT
* *
25941983 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
25942005 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
* * *
25942027 TTGATTATGGTTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
25942048 ACGTATTTGC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:25944002 original size:26 final size:26
Alignment explanation
Indices: 25943973--25944080 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
25943963 TGGTACAAAT
25943973 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * * **
25943999 TGATAGTGGATTAGGTAACTAATCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
25944025 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
25944051 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
25944077 TGAT
1 TGAT
25944081 GGGCATTTCA
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 71 1.00
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:25946407 original size:40 final size:41
Alignment explanation
Indices: 25946318--25946467 Score: 221
Period size: 41 Copynumber: 3.7 Consensus size: 41
25946308 CGCTGACTCA
* *
25946318 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGGCCC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
* * * * * *
25946359 GAAGGCCCTTCGAAACTAGGTTCGG-TTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
25946399 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
25946440 AAAAGCCCTTCGAGACCAAGCTCGGATT
1 AAAAGCCCTTCGAGACCAAGCTCGGATT
25946468 TAAACCCCAA
Statistics
Matches: 94, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
40 32 0.34
41 62 0.66
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (41 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
Found at i:25954573 original size:41 final size:41
Alignment explanation
Indices: 25954524--25954632 Score: 130
Period size: 40 Copynumber: 2.7 Consensus size: 41
25954514 CGCTGACTCA
*
25954524 AAAAGCCCTTCGAGACCAAGCTCAGATTATGACATTGGCCC
1 AAAAGCCCTTCGAGACCAAGCTCAGATTATGACACTGGCCC
* * * * * * * *
25954565 GAAGGCCCTTCGAAACTAGGTTC-GGTTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCAGATTATGACACTGGCCC
25954605 AAAAGCCCTTCGAGACCAAGCTCAGATT
1 AAAAGCCCTTCGAGACCAAGCTCAGATT
25954633 TAAACCCCAA
Statistics
Matches: 51, Mismatches: 16, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
40 31 0.61
41 20 0.39
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (41 bp):
AAAAGCCCTTCGAGACCAAGCTCAGATTATGACACTGGCCC
Found at i:25957349 original size:27 final size:27
Alignment explanation
Indices: 25957309--25957449 Score: 182
Period size: 27 Copynumber: 5.2 Consensus size: 27
25957299 AGGAAGCGTC
*
25957309 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
25957336 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
25957362 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
* *
25957390 CTGGTGGCACTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
25957417 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
25957444 CTGGTG
1 CTGGTG
25957450 ACTTCGTCAA
Statistics
Matches: 100, Mismatches: 7, Indels: 14
0.83 0.06 0.12
Matches are distributed among these distances:
26 11 0.11
27 85 0.85
28 4 0.04
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.33
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:25957388 original size:54 final size:54
Alignment explanation
Indices: 25957306--25957449 Score: 245
Period size: 54 Copynumber: 2.7 Consensus size: 54
25957296 TGGAGGAAGC
*
25957306 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCACTGCCACATATATCT
25957360 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCACTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCACTGCCACATATATCT
* *
25957414 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
25957450 ACTTCGTCAA
Statistics
Matches: 86, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
53 6 0.07
54 80 0.93
ACGTcount: A:0.18, C:0.25, G:0.24, T:0.33
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCACTGCCACATATATCT
Found at i:25957463 original size:27 final size:26
Alignment explanation
Indices: 25957309--25957467 Score: 104
Period size: 27 Copynumber: 5.9 Consensus size: 26
25957299 AGGAAGCGTC
* * * *
25957309 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGACTCTGCCA-AAATATCTGTT
* * *
25957336 CTGGTGGCTCTGCCACATATATCTGTC
1 CTGGTGACTCTGCCA-AAATATCTGTT
* * * *
25957363 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGACTCTGCCA-AAATATCTGTT
* * *
25957390 CTGGTGGCACTGCCACATATATCTGTT
1 CTGGTGACTCTGCCA-AAATATCTGTT
* *
25957417 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGACTCTGCCAAAATATCTGT-T
*
25957444 CTGGTGACT-TCGTCAAAATATCTG
1 CTGGTGACTCT-GCCAAAATATCTG
25957468 GCAGCCTCGT
Statistics
Matches: 109, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
26 9 0.08
27 100 0.92
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.33
Consensus pattern (26 bp):
CTGGTGACTCTGCCAAAATATCTGTT
Found at i:25959572 original size:46 final size:46
Alignment explanation
Indices: 25959505--25959729 Score: 206
Period size: 46 Copynumber: 4.8 Consensus size: 46
25959495 TGTAACCCGC
*
25959505 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
* * * * *
25959551 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-TTCGCAT
* **** **
25959597 ACATCTCCCGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCAT-AAGTGAACTCGGACTCAACTCAACGAGTTCGGATG--T--TCGCAT
* * **
25959648 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
*
25959691 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
25959730 CCCAAATATC
Statistics
Matches: 142, Mismatches: 28, Indels: 18
0.76 0.15 0.10
Matches are distributed among these distances:
43 4 0.03
44 1 0.01
45 3 0.02
46 68 0.48
47 61 0.43
48 1 0.01
49 1 0.01
50 2 0.01
51 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
Found at i:25959622 original size:47 final size:47
Alignment explanation
Indices: 25959559--25959681 Score: 219
Period size: 47 Copynumber: 2.6 Consensus size: 47
25959549 ATCCATAAGT
* * *
25959559 GAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCCC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
25959606 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
25959653 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
25959682 CATTCGCATC
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.21
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:25965515 original size:26 final size:26
Alignment explanation
Indices: 25965486--25965593 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
25965476 TGGTACAAAT
25965486 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
25965512 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
25965538 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
25965564 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
25965590 TGAT
1 TGAT
25965594 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:25966776 original size:8 final size:8
Alignment explanation
Indices: 25966763--25966792 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
25966753 AGATCGGCAC
25966763 AAGCCGAA
1 AAGCCGAA
25966771 AAGCCGAA
1 AAGCCGAA
*
25966779 ATGCCGAA
1 AAGCCGAA
25966787 AAGCCG
1 AAGCCG
25966793 GTATTTTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.27, G:0.27, T:0.03
Consensus pattern (8 bp):
AAGCCGAA
Found at i:25967222 original size:27 final size:27
Alignment explanation
Indices: 25967182--25967322 Score: 191
Period size: 27 Copynumber: 5.2 Consensus size: 27
25967172 AGGAAGCGTC
*
25967182 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
25967209 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
25967235 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
*
25967263 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
25967290 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
25967317 CTGGTG
1 CTGGTG
25967323 ACTTCGTCAA
Statistics
Matches: 102, Mismatches: 5, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
26 11 0.11
27 87 0.85
28 4 0.04
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:25967261 original size:54 final size:54
Alignment explanation
Indices: 25967179--25967322 Score: 254
Period size: 54 Copynumber: 2.7 Consensus size: 54
25967169 TGGAGGAAGC
25967179 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
25967233 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* *
25967287 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
25967323 ACTTCGTCAA
Statistics
Matches: 87, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
53 6 0.07
54 81 0.93
ACGTcount: A:0.17, C:0.25, G:0.24, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:25972593 original size:26 final size:26
Alignment explanation
Indices: 25972564--25972671 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
25972554 TGGTACAAAT
25972564 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
25972590 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
25972616 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
25972642 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
25972668 TGAT
1 TGAT
25972672 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:25974291 original size:27 final size:27
Alignment explanation
Indices: 25974251--25974391 Score: 173
Period size: 27 Copynumber: 5.2 Consensus size: 27
25974241 AGGAAGCGTC
*
25974251 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
25974278 CTGGTGGCTCTGCCAC-ATATATTTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
25974304 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
* *
25974332 CTGGTGGCACTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
25974359 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
25974386 CTGGTG
1 CTGGTG
25974392 ACTTCGTCAA
Statistics
Matches: 98, Mismatches: 9, Indels: 14
0.81 0.07 0.12
Matches are distributed among these distances:
26 11 0.11
27 83 0.85
28 4 0.04
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:25974330 original size:54 final size:54
Alignment explanation
Indices: 25974248--25974391 Score: 236
Period size: 54 Copynumber: 2.7 Consensus size: 54
25974238 TGGAGGAAGC
* *
25974248 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATTT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCACTGCCACATATATCT
25974302 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCACTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCACTGCCACATATATCT
* *
25974356 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
25974392 ACTTCGTCAA
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
53 6 0.07
54 79 0.93
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCACTGCCACATATATCT
Found at i:25978952 original size:19 final size:19
Alignment explanation
Indices: 25978930--25978966 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
25978920 GGAATAATAT
*
25978930 ATATAGTAAAATATATAAC
1 ATATAATAAAATATATAAC
*
25978949 ATATAATAAAATTTATAA
1 ATATAATAAAATATATAA
25978967 ATAAAATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (19 bp):
ATATAATAAAATATATAAC
Found at i:25978957 original size:10 final size:10
Alignment explanation
Indices: 25978930--25978989 Score: 50
Period size: 10 Copynumber: 5.8 Consensus size: 10
25978920 GGAATAATAT
*
25978930 ATATAGTAAA
1 ATATAATAAA
*
25978940 ATAT-ATAAC
1 ATATAATAAA
25978949 ATATAATAAA
1 ATATAATAAA
25978959 ATTTATAAATAAA
1 A--TAT-AATAAA
* *
25978972 ATATATTATA
1 ATATAATAAA
25978982 ATATAATA
1 ATATAATA
25978990 TGATAAATAA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
9 7 0.17
10 20 0.50
11 3 0.08
12 3 0.08
13 7 0.17
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (10 bp):
ATATAATAAA
Found at i:25979091 original size:25 final size:24
Alignment explanation
Indices: 25979045--25979101 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
25979035 AACTAGTGTT
25979045 TATA-AAAATAAATAATACATATA
1 TATATAAAATAAATAATACATATA
* *
25979068 GTATTTAAAATAAATTAA-ATATATA
1 -TATATAAAATAAA-TAATACATATA
25979093 TATATAAAA
1 TATATAAAA
25979102 GGATTAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 11 0.39
25 14 0.50
26 3 0.11
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (24 bp):
TATATAAAATAAATAATACATATA
Found at i:25988723 original size:24 final size:25
Alignment explanation
Indices: 25988671--25988726 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 25
25988661 ACTCTCTCTT
*
25988671 GAGCCATAAAACGGGAAGCTTATAA
1 GAGCCATAAAACGGGAAGCTCATAA
* **
25988696 GAGCCAT-AATCGGGAAGCTCATGC
1 GAGCCATAAAACGGGAAGCTCATAA
25988720 GAGCCAT
1 GAGCCAT
25988727 TATTGGTAGC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 20 0.74
25 7 0.26
ACGTcount: A:0.36, C:0.21, G:0.27, T:0.16
Consensus pattern (25 bp):
GAGCCATAAAACGGGAAGCTCATAA
Found at i:25988917 original size:25 final size:24
Alignment explanation
Indices: 25988888--25988934 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
25988878 GCTATTAACG
**
25988888 GAAGCTCGTGAGAGCCATATATCAA
1 GAAGCTCAAGAGAGCCA-ATATCAA
25988913 GAAGCTCAAGAGAGCCAATATC
1 GAAGCTCAAGAGAGCCAATATC
25988935 GGGATGCTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.17
Consensus pattern (24 bp):
GAAGCTCAAGAGAGCCAATATCAA
Found at i:25988943 original size:24 final size:24
Alignment explanation
Indices: 25988860--25988967 Score: 74
Period size: 24 Copynumber: 4.5 Consensus size: 24
25988850 ATCACAAACA
* * *
25988860 ATCGGGATGCTCAAAAGAGCTATT
1 ATCGGGATGCTCAAGAGAGCCAAT
* * **
25988884 AAC-GGAAGCTCGTGAGAGCCATAT
1 ATCGGGATGCTCAAGAGAGCCA-AT
** *
25988908 ATCAAGAAGCTCAAGAGAGCCAAT
1 ATCGGGATGCTCAAGAGAGCCAAT
** *
25988932 ATCGGGATGCTCATCAGAGCTAAT
1 ATCGGGATGCTCAAGAGAGCCAAT
*
25988956 AACGGGATGCTC
1 ATCGGGATGCTC
25988968 TTACGAGCTT
Statistics
Matches: 64, Mismatches: 18, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
23 13 0.20
24 36 0.56
25 15 0.23
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.19
Consensus pattern (24 bp):
ATCGGGATGCTCAAGAGAGCCAAT
Done.