Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr1
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: 35726063
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1821929 characters in sequence are not A, C, G, or T
File 106 of 109
Found at i:34071545 original size:109 final size:107
Alignment explanation
Indices: 34071351--34071583 Score: 324
Period size: 109 Copynumber: 2.1 Consensus size: 107
34071341 TACGCATACT
* * *
34071351 AATATCCTTTTAAAAAAAATTTCAAAATGAGACAATGTTTTGTGTTTGGAAATTCGAGAAAACGT
1 AATATCCTTTT---AAAAACTTCAAAATAAGACAATGTTTTGCGTTTGGAAATTCGAGAAAACGT
* *
34071416 GCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATGGCCA
63 GCCCTAATGTGCTAGGTTTCGA--TTTCTCGTTCGACCAAATAGCCA
*
34071463 AATATCCTTTTAAAAACTTCAAAATAAGGCAATGTTTTGCGTTTTGG-AATTCGAGAAAACGTGC
1 AATATCCTTTTAAAAACTTCAAAATAAGACAATGTTTTGCG-TTTGGAAATTCGAGAAAACGTGC
* *
34071527 CCTAATGTGCTAGGTTTCGATTTCTCGTTGGACCAAATAGCCG
65 CCTAATGTGCTAGGTTTCGATTTCTCGTTCGACCAAATAGCCA
*
34071570 AATATCCTCTTAAA
1 AATATCCTTTTAAA
34071584 TCTTAATCCA
Statistics
Matches: 111, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
107 33 0.30
109 62 0.56
110 5 0.05
112 11 0.10
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.33
Consensus pattern (107 bp):
AATATCCTTTTAAAAACTTCAAAATAAGACAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
CTAATGTGCTAGGTTTCGATTTCTCGTTCGACCAAATAGCCA
Found at i:34078121 original size:27 final size:27
Alignment explanation
Indices: 34078082--34078135 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
34078072 ATTTGTTATG
34078082 TTTTTTTCAGAGAAAATTGATAGTGTT
1 TTTTTTTCAGAGAAAATTGATAGTGTT
** *
34078109 TTTTTTTTTGAGAAAATTGATGGTGTT
1 TTTTTTTCAGAGAAAATTGATAGTGTT
34078136 AACGGCAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.26, C:0.02, G:0.20, T:0.52
Consensus pattern (27 bp):
TTTTTTTCAGAGAAAATTGATAGTGTT
Found at i:34080948 original size:22 final size:23
Alignment explanation
Indices: 34080923--34080967 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
34080913 TCGTAATGAC
*
34080923 ATATGAAATTAACAATA-TAAAT
1 ATATCAAATTAACAATACTAAAT
*
34080945 ATATCAAATTAATAATACTAAAT
1 ATATCAAATTAACAATACTAAAT
34080968 GTATTACATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (23 bp):
ATATCAAATTAACAATACTAAAT
Found at i:34085623 original size:3 final size:3
Alignment explanation
Indices: 34085615--34085640 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
34085605 TTTTAAGCTT
34085615 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
34085641 TTAATATGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:34093625 original size:41 final size:40
Alignment explanation
Indices: 34093547--34093656 Score: 163
Period size: 41 Copynumber: 2.8 Consensus size: 40
34093537 GGCCCATTTT
34093547 TATTTT-AAAA-ATTTTAAAATT-AAAAAAATTAAAAAAG
1 TATTTTAAAAATATTTTAAAATTAAAAAAAATTAAAAAAG
34093584 TATTTTAAAAATATTTTAAAATTTAAAAAAAATTAAAAAAG
1 TATTTTAAAAATATTTTAAAA-TTAAAAAAAATTAAAAAAG
* * *
34093625 TATGTAAAAAATATTTTAAAATTAAACAAAAT
1 TATTTTAAAAATATTTTAAAATTAAAAAAAAT
34093657 AAATATATTT
Statistics
Matches: 66, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
37 6 0.09
38 4 0.06
39 9 0.14
40 12 0.18
41 35 0.53
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (40 bp):
TATTTTAAAAATATTTTAAAATTAAAAAAAATTAAAAAAG
Found at i:34094110 original size:13 final size:14
Alignment explanation
Indices: 34094094--34094123 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
34094084 GGACTGTTTA
34094094 TTTATTTA-TTGGT
1 TTTATTTATTTGGT
34094107 TTTATTTATTTGGT
1 TTTATTTATTTGGT
34094121 TTT
1 TTT
34094124 GGGCCCGGGA
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:0.13, C:0.00, G:0.13, T:0.73
Consensus pattern (14 bp):
TTTATTTATTTGGT
Found at i:34094540 original size:32 final size:32
Alignment explanation
Indices: 34094503--34094565 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
34094493 GACGATCGTG
*
34094503 GCCGCGGTAGAGCAACGACGGCCTAGTGGCCA
1 GCCGCGGCAGAGCAACGACGGCCTAGTGGCCA
*
34094535 GCCGCGGCAGAGCAACGGCGGCCTAGTGGCC
1 GCCGCGGCAGAGCAACGACGGCCTAGTGGCC
34094566 GGACTCAGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.19, C:0.33, G:0.40, T:0.08
Consensus pattern (32 bp):
GCCGCGGCAGAGCAACGACGGCCTAGTGGCCA
Found at i:34097639 original size:305 final size:305
Alignment explanation
Indices: 34097088--34097655 Score: 852
Period size: 305 Copynumber: 1.9 Consensus size: 305
34097078 GTTACATGCA
*
34097088 ATTACTAGTCTTATACTATTCATACAATTGTAGATTTAGTCCATATTCTCCAATTGGATCATTCT
1 ATTACTAGTCTTATACTATTCATACAATTGTAGATTTACTCCATATTCTCCAATTGGATCATTCT
* * * * * *
34097153 AAATCTCTGTATTTTTTGGATTTTGAAATTTCAGTATTAACGTAAAATGAATTTTGTTAATCCAT
66 AAATCTCTATACTTTTCGAATTTTAAAATTTCAATATTAACGTAAAATGAATTTTGTTAATCCAT
* * *
34097218 TAATTGGATTTTAGTGAGTAATATATGAAAAATAATAATCTAACATGACATTACACATATAATAA
131 TAACTGAATTTTAATGAGTAATATATGAAAAATAATAATCTAACATGACATTACACATATAATAA
* * * * ** **
34097283 AATGTTTGACGCATTAGATTTTGGAAATGGTAAAATTTTACTTAACGGTTTTAACAATTTATTAT
196 AATATATGACACATTAAATTTTAAAAATAATAAAATTTTACTTAACGGTTTTAACAATTTATTAT
34097348 TTGACGAATATTGAAAATTTAAAAAAAAAAGACTAAAAATGACCC
261 TTGACGAATATTGAAAATTTAAAAAAAAAAGACTAAAAATGACCC
* * * * * *
34097393 ATTACTAGTCTTGTACTATTCATACAGTTGTAGATTTACTCTATATTTTCTATTTGGATCATTCT
1 ATTACTAGTCTTATACTATTCATACAATTGTAGATTTACTCCATATTCTCCAATTGGATCATTCT
*
34097458 AAATCTCTATACTTTTCGAATTTTAAAATTTCAATCTTAACGTAAAAT-AATTTTTGTTAATCCA
66 AAATCTCTATACTTTTCGAATTTTAAAATTTCAATATTAACGTAAAATGAA-TTTTGTTAATCCA
* *
34097522 TTAACTGAATTTTAATGAGTAATATGTAGAAAAA-AATAATCTAACATGACATTACATATATAAT
130 TTAACTGAATTTTAATGAGTAATATAT-GAAAAATAATAATCTAACATGACATTACACATATAAT
*
34097586 AAAATATATGACACATTAAATTTTAAAAATAATAAATTTTTACTTAACGGTTTTAACAATTTATT
194 AAAATATATGACACATTAAATTTTAAAAATAATAAAATTTTACTTAACGGTTTTAACAATTTATT
34097651 ATTTG
259 ATTTG
34097656 GTGAGAATTA
Statistics
Matches: 233, Mismatches: 28, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
304 2 0.01
305 225 0.97
306 6 0.03
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.40
Consensus pattern (305 bp):
ATTACTAGTCTTATACTATTCATACAATTGTAGATTTACTCCATATTCTCCAATTGGATCATTCT
AAATCTCTATACTTTTCGAATTTTAAAATTTCAATATTAACGTAAAATGAATTTTGTTAATCCAT
TAACTGAATTTTAATGAGTAATATATGAAAAATAATAATCTAACATGACATTACACATATAATAA
AATATATGACACATTAAATTTTAAAAATAATAAAATTTTACTTAACGGTTTTAACAATTTATTAT
TTGACGAATATTGAAAATTTAAAAAAAAAAGACTAAAAATGACCC
Found at i:34098908 original size:15 final size:15
Alignment explanation
Indices: 34098888--34098917 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
34098878 TGTAAAATAA
*
34098888 TTTTTATAGTTTTTT
1 TTTTTATAATTTTTT
34098903 TTTTTATAATTTTTT
1 TTTTTATAATTTTTT
34098918 ATATTTTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (15 bp):
TTTTTATAATTTTTT
Found at i:34101672 original size:49 final size:48
Alignment explanation
Indices: 34101595--34101694 Score: 116
Period size: 47 Copynumber: 2.1 Consensus size: 48
34101585 ATATTTTAAA
*
34101595 ATTATTTTATGGTACAAATAAATTATAAAAATAAACTTAAA-TTAAAATAT
1 ATTATTTTATGGTACAAATAAATAAT-AAAA-AAA-TTAAATTTAAAATAT
* *
34101645 ATTATTTT-TTGTACAAATAACA-AATAAAAACATTAAATTTAAAATAT
1 ATTATTTTATGGTACAAATAA-ATAATAAAAAAATTAAATTTAAAATAT
34101692 ATT
1 ATT
34101695 TTTAAATTGA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
46 5 0.11
47 14 0.31
48 4 0.09
49 13 0.29
50 9 0.20
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (48 bp):
ATTATTTTATGGTACAAATAAATAATAAAAAAATTAAATTTAAAATAT
Found at i:34105250 original size:4 final size:4
Alignment explanation
Indices: 34105241--34105274 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
34105231 CGTCCAGCCC
34105241 AATA AATA AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AATA AA
34105275 CAAAGCAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:34109918 original size:98 final size:98
Alignment explanation
Indices: 34109749--34109938 Score: 344
Period size: 98 Copynumber: 1.9 Consensus size: 98
34109739 ACAATAAAAC
*
34109749 TTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATCCC
1 TTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATCCC
34109814 TTTAGAATCCCAAACTCGGAATATTTCATTTAA
66 TTTAGAATCCCAAACTCGGAATATTTCATTTAA
* *
34109847 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
1 TTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATCCC
*
34109912 TTTAGAATCTCAAACTCGGAATATTTC
66 TTTAGAATCCCAAACTCGGAATATTTC
34109939 CTTCATGATT
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 88 1.00
ACGTcount: A:0.38, C:0.24, G:0.11, T:0.27
Consensus pattern (98 bp):
TTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATCCC
TTTAGAATCCCAAACTCGGAATATTTCATTTAA
Found at i:34113563 original size:14 final size:14
Alignment explanation
Indices: 34113540--34113575 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
34113530 TGTTTTTTAG
34113540 TAAAAATATATATA
1 TAAAAATATATATA
*
34113554 TAAAACTATATATA
1 TAAAAATATATATA
*
34113568 TAATAATA
1 TAAAAATA
34113576 ATTATTTATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (14 bp):
TAAAAATATATATA
Found at i:34118216 original size:21 final size:21
Alignment explanation
Indices: 34118190--34118242 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
34118180 AGCTGAGGCG
*
34118190 GTGAGATTAGTTACAGTAGCA
1 GTGAGATTAGATACAGTAGCA
* * **
34118211 GTGAGATTGGATACTGTAGTG
1 GTGAGATTAGATACAGTAGCA
34118232 GTGAGATTAGA
1 GTGAGATTAGA
34118243 AACAATGGTG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.30, C:0.06, G:0.34, T:0.30
Consensus pattern (21 bp):
GTGAGATTAGATACAGTAGCA
Found at i:34121820 original size:16 final size:16
Alignment explanation
Indices: 34121799--34121831 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
34121789 AATCTTAATG
34121799 GAGCATGCATTGGAAA
1 GAGCATGCATTGGAAA
34121815 GAGCATGCATTGGAAA
1 GAGCATGCATTGGAAA
34121831 G
1 G
34121832 CTATGGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.12, G:0.33, T:0.18
Consensus pattern (16 bp):
GAGCATGCATTGGAAA
Found at i:34122331 original size:27 final size:27
Alignment explanation
Indices: 34122293--34122345 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
34122283 AACTGAGAAG
34122293 TGAATAGAAAACACAGAATATCTTATT
1 TGAATAGAAAACACAGAATATCTTATT
* *
34122320 TGAATAGAAAACACATAATATGTTAT
1 TGAATAGAAAACACAGAATATCTTAT
34122346 AGTTTCAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.49, C:0.09, G:0.11, T:0.30
Consensus pattern (27 bp):
TGAATAGAAAACACAGAATATCTTATT
Found at i:34126458 original size:21 final size:23
Alignment explanation
Indices: 34126412--34126457 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
34126402 AATAATATAA
34126412 TTAATTATAAATATAAAAATATT
1 TTAATTATAAATATAAAAATATT
* *
34126435 TTAATTA-AAATTTAAAATTATT
1 TTAATTATAAATATAAAAATATT
34126457 T
1 T
34126458 ATGAGAAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
TTAATTATAAATATAAAAATATT
Found at i:34130429 original size:4 final size:4
Alignment explanation
Indices: 34130420--34130468 Score: 98
Period size: 4 Copynumber: 12.2 Consensus size: 4
34130410 AAAAGAAGGT
34130420 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
34130468 A
1 A
34130469 GAGGGAGAGG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 45 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:34131344 original size:15 final size:15
Alignment explanation
Indices: 34131324--34131375 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 15
34131314 AGTGAATTGG
34131324 AAATAAAAATATATT
1 AAATAAAAATATATT
34131339 AAATAAAAACTAATTTATT
1 AAATAAAAA-T-A--TATT
34131358 AAA-AAAATATATATT
1 AAATAAAA-ATATATT
34131373 AAA
1 AAA
34131376 ATGATTTGAC
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
15 16 0.50
16 1 0.03
17 2 0.06
18 5 0.16
19 8 0.25
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (15 bp):
AAATAAAAATATATT
Found at i:34132114 original size:112 final size:112
Alignment explanation
Indices: 34131871--34132176 Score: 296
Period size: 112 Copynumber: 2.7 Consensus size: 112
34131861 TACCATAACA
* *
34131871 CGCCGC-AAAATCTCAAGACCAAAACACATCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCG
1 CGCCGCAAAAATCT-TA-ACCAAAACACATCGTTTT-GTCTTGATGTATATTAGAATTAGTGGCG
* * * * *
34131935 ATTATGATAAAACGCCGCTAAAGGAAGTATTAACGGCGCATTGTCGAAAG
63 CTTACGATAAAACGCCGCTAAAGCAAGTATTAACGGCGCATTGACAAAAG
* * * *
34131985 CGCCGCAAAAATCTTAACGAAAACGCATCGTTTTGTCTTGCTGTATATTAGCATTAGTGGCGCTT
1 CGCCGCAAAAATCTTAACCAAAACACATCGTTTTGTCTTGATGTATATTAGAATTAGTGGCGCTT
* * *
34132050 ACGA-AAACCCGCCGTTAAAGCAAGTATTAGCGGCGC-TT-ACAAAAAG
66 ACGATAAA-ACGCCGCTAAAGCAAGTATTAACGGCGCATTGAC-AAAAG
* * * ** * * * *
34132096 CGCCGCAGTATATGTTAACCAAAACACAGAGTTTGGTCTAGAGGTATATTAGAATTTGTGGCGCT
1 CGCCGCA-AAAATCTTAACCAAAACACATCGTTTTGTCTTGATGTATATTAGAATTAGTGGCGCT
* **
34132161 TATGGGAAAACGCCGC
65 TACGATAAAACGCCGC
34132177 AAAATATCCT
Statistics
Matches: 156, Mismatches: 31, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
110 1 0.01
111 16 0.10
112 106 0.68
113 19 0.12
114 7 0.04
115 7 0.04
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (112 bp):
CGCCGCAAAAATCTTAACCAAAACACATCGTTTTGTCTTGATGTATATTAGAATTAGTGGCGCTT
ACGATAAAACGCCGCTAAAGCAAGTATTAACGGCGCATTGACAAAAG
Found at i:34132309 original size:190 final size:186
Alignment explanation
Indices: 34131980--34132346 Score: 448
Period size: 190 Copynumber: 2.0 Consensus size: 186
34131970 GCGCATTGTC
* * * *
34131980 GAAAGCGCCGCAAAAATCTTAACGAAAACGCATCGTTTTGTCTTGCTGTATATTAGCATTAGTGG
1 GAAAACGCCGCAAAAATCCTAACCAAAACGCACCGTTTTGTCTTGCTGTATATTAGCATTAGTGG
* * * * * ** *
34132045 CGCTTACGAAAACCCGCCGTTAAAGCAAGTATTAGCGGCGCTTACAAAAAGCGCCGCAGTATATG
66 CGCTTAAGAAAACACGCCGCTAAAGCAAATATTAGCAGCGCTTACAAAAAGCGCCGCAAAATATC
* *
34132110 TTAACCAAAACACAGAGTTTGGTCTAGAGGTATATTAGAATTTGTGGCGCTTATGG
131 TTAACCAAAACACAGAGTTTGGTCTAGAGGTATACTAGAATTAGTGGCGCTTATGG
* * *
34132166 GAAAACGCCGCAAAATATCCTAACCAAAGCGCACCGTTTTGGTCTTGGTGTATGTTA-CAGTTAG
1 GAAAACGCCGCAAAA-ATCCTAACCAAAACGCACCGTTTT-GTCTTGCTGTATATTAGCA-TTAG
** * *** *
34132230 TGGCGCTTAAGGGAACACGCCGCTAAAGCATAATATTAGCAGCGTTTTGTGAGAAGCGCCGCAAA
63 TGGCGCTTAAGAAAACACGCCGCTAAAGCA-AATATTAGCAGCG-CTTACAAAAAGCGCCGCAAA
* *
34132295 ATATCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATACTAGAATTAGTGG
126 ATATCTTAACCAAAACACAGAGTTTGGTCTAGAGGTATACTAGAATTAGTGG
34132347 TGCAAAGGGA
Statistics
Matches: 150, Mismatches: 26, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
186 14 0.09
187 22 0.15
188 43 0.29
189 11 0.07
190 60 0.40
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (186 bp):
GAAAACGCCGCAAAAATCCTAACCAAAACGCACCGTTTTGTCTTGCTGTATATTAGCATTAGTGG
CGCTTAAGAAAACACGCCGCTAAAGCAAATATTAGCAGCGCTTACAAAAAGCGCCGCAAAATATC
TTAACCAAAACACAGAGTTTGGTCTAGAGGTATACTAGAATTAGTGGCGCTTATGG
Found at i:34132374 original size:113 final size:114
Alignment explanation
Indices: 34132171--34132463 Score: 344
Period size: 113 Copynumber: 2.6 Consensus size: 114
34132161 TATGGGAAAA
* * ** * *
34132171 CGCCGCAAAATATCCTAACCAAAGCGCACCGTTTTGGTCTTG-GTGTATGTTACAGTTAGTGGCG
1 CGCCGCAAAATATCCTAACCAAAACGCA-AGTTTTGGTCTTGAG-GTATACTAGAATTAGTGGCG
* *
34132235 CTTAAGGGAACACGCCGCTAAAGCATAATATTAGCAGCG-TTTTGTGAGAAG
64 CTAAAGGGAACACGCCGCTAAAGCATAATATTAGCAGCGCGTTTG-GAGAAG
* *
34132286 CGCCGCAAAATATCTTAACCAAAACGCAGAG-TTTGGTCTTGAGGTATACTAGAATTAGTGGTGC
1 CGCCGCAAAATATCCTAACCAAAACGCA-AGTTTTGGTCTTGAGGTATACTAGAATTAGTGGCGC
* * *
34132350 -AAAGGGAACACGCCGCTAAGGCATACTATTAGCGGCGCGTTTGGAGAAG
65 TAAAGGGAACACGCCGCTAAAGCATAATATTAGCAGCGCGTTTGGAGAAG
* * * *
34132399 CGCCGCAAAATTTCGTAACCAAAACGCAACGTTTTTGTCTTGATGTATAC-AGTAATTAGTGGCG
1 CGCCGCAAAATATCCTAACCAAAACGCAA-GTTTTGGTCTTGAGGTATACTAG-AATTAGTGGCG
34132463 C
64 C
34132464 ATAAGCGCCG
Statistics
Matches: 154, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
112 1 0.01
113 68 0.44
114 57 0.37
115 28 0.18
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (114 bp):
CGCCGCAAAATATCCTAACCAAAACGCAAGTTTTGGTCTTGAGGTATACTAGAATTAGTGGCGCT
AAAGGGAACACGCCGCTAAAGCATAATATTAGCAGCGCGTTTGGAGAAG
Found at i:34132500 original size:183 final size:184
Alignment explanation
Indices: 34132283--34132646 Score: 518
Period size: 184 Copynumber: 2.0 Consensus size: 184
34132273 GTTTTGTGAG
**
34132283 AAGCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATACTAGAATTAGTGGT
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATACTAGAATTAGTGAC
* *
34132348 GC-AAAGGGA-ACACGCCGCTAAGGCATACTATTAGCGGCGCGTTTGGAGAAGCGCCGCAAAATT
66 GCTAAAGGGAGA-ACGCCGCTAAAGCATACTATTAGCGGCGCGTTTGGAGAAGCGCCGCAAAATA
* * ** *
34132411 TCGTAACCAAAACGCAACGTTTTTGTCTTGATGTATACAGTAATTAGTGGCGCAT
130 TAGTAACCAAAACACAACGTTTAAGTCTTGATGTATACAGGAATTAGTGGCGCAT
* * *
34132466 AAGCGCCGCAAAATATGC-TCACCAAAACGCAGAGTTTTGTCTTGAGGTATATTAGAATTAGTGA
1 AAGCGCCGCAAAATAT-CTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATACTAGAATTAGTGA
* * * *
34132530 CGCTTATGGGAGAACGCTGCTAAAGCATACTATTAGCGGCGCGTTTTGAGAAGCGCCGCAAAATA
65 CGCTAAAGGGAGAACGCCGCTAAAGCATACTATTAGCGGCGCGTTTGGAGAAGCGCCGCAAAATA
* * *
34132595 TATTAACCAAAACACAGCGTTTAAGTCTTGATGTATACTGGAATTAGTGGCG
130 TAGTAACCAAAACACAACGTTTAAGTCTTGATGTATACAGGAATTAGTGGCG
34132647 TCCACGAGAA
Statistics
Matches: 159, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
183 60 0.38
184 98 0.62
185 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (184 bp):
AAGCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATACTAGAATTAGTGAC
GCTAAAGGGAGAACGCCGCTAAAGCATACTATTAGCGGCGCGTTTGGAGAAGCGCCGCAAAATAT
AGTAACCAAAACACAACGTTTAAGTCTTGATGTATACAGGAATTAGTGGCGCAT
Found at i:34132593 original size:297 final size:300
Alignment explanation
Indices: 34132171--34132738 Score: 738
Period size: 297 Copynumber: 1.9 Consensus size: 300
34132161 TATGGGAAAA
* * * * *
34132171 CGCCGCAAAATATCCTAACCAAAGCGCACCGTTTTGGTCTTGGTGTATGTTACAGTTAGTGGCGC
1 CGCCGCAAAATATCCTAACCAAAACGCACAGTTTTGGTCTTGGTGTATATTACAATTAGTGACGC
* *
34132236 TTAAGGGAACACGCCGCTAAAGCATAATATTAGCAGCGTTTTGTGAGAAGCGCCGCAAAATATCT
66 TTAAGGGAACACGCCGCTAAAGCATAATATTAGCAGCGGTTTGTGAGAAGCGCCGCAAAATATAT
* * * *
34132301 TAACCAAAACGCAGAGTTT-GGTCTTGAGGTATACTAGAATTAGTGGTG-CAAAGGGAACA-CGC
131 TAACCAAAACACAGAGTTTAAGTCTTGAGGTATACTAGAATTAGTGGCGTCAAAGAGAA-ATCGC
* * *
34132363 CGCTAAGGCATACTATTAGCGGCGCGTTTGGAGAAGCGCCGCAAAATTTCGTAACCAAAACGCA-
195 CGCTAAAGCATACTATTAGCGGCACGTTTGGAGAAGCGCCGCAAAATATCGTAACCAAAACGCAG
*
34132427 ACGTTTTTGTCTTGATGTATACAGTAATTAGTGGCGCATAAG
260 A-GTTTTGGTCTTGATGTATACAGTAATTAGTGGCGCATAAG
* * * *
34132469 CGCCGCAAAATATGCTCACCAAAACGCAGAGTTTT-GTCTTGAG-GTATATTAGAATTAGTGACG
1 CGCCGCAAAATATCCTAACCAAAACGCACAGTTTTGGTCTTG-GTGTATATTACAATTAGTGACG
* * * *
34132532 CTTATGGGAGA-ACGCTGCTAAAGCATACTATTAGCGGCGCGTTT-TGAGAAGCGCCGCAAAATA
65 CTTAAGGGA-ACACGCCGCTAAAGCATAATATTAGCAGCG-GTTTGTGAGAAGCGCCGCAAAATA
* * * * *
34132595 TATTAACCAAAACACAGCGTTTAAGTCTTGATGTATACTGGAATTAGTGGCGTCCACGAGAAATC
128 TATTAACCAAAACACAGAGTTTAAGTCTTGAGGTATACTAGAATTAGTGGCGTCAAAGAGAAATC
* * * * *
34132660 GCCGCTAAAGCATATTATTAGCGGCACTTTTTGAGAAGCGCCGGAAAATATCTTAACCAAAACGC
193 GCCGCTAAAGCATACTATTAGCGGCACGTTTGGAGAAGCGCCGCAAAATATCGTAACCAAAACGC
34132725 AGAGTTTTGGTCTT
258 AGAGTTTTGGTCTT
34132739 AACCATGCTT
Statistics
Matches: 230, Mismatches: 33, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
297 93 0.40
298 61 0.27
299 75 0.33
300 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.26
Consensus pattern (300 bp):
CGCCGCAAAATATCCTAACCAAAACGCACAGTTTTGGTCTTGGTGTATATTACAATTAGTGACGC
TTAAGGGAACACGCCGCTAAAGCATAATATTAGCAGCGGTTTGTGAGAAGCGCCGCAAAATATAT
TAACCAAAACACAGAGTTTAAGTCTTGAGGTATACTAGAATTAGTGGCGTCAAAGAGAAATCGCC
GCTAAAGCATACTATTAGCGGCACGTTTGGAGAAGCGCCGCAAAATATCGTAACCAAAACGCAGA
GTTTTGGTCTTGATGTATACAGTAATTAGTGGCGCATAAG
Found at i:34132738 original size:115 final size:114
Alignment explanation
Indices: 34132466--34132738 Score: 327
Period size: 115 Copynumber: 2.4 Consensus size: 114
34132456 AGTGGCGCAT
* *
34132466 AAGCGCCGCAAAATATGC-TCACCAAAACGCAGAGTTTTGTCTTGAGGTATATTAGAATTAGTGA
1 AAGCGCCGCAAAATAT-CTTAACCAAAACGCAGAGTTTTGTCTTGAGGTATACTAGAATTAGTGA
* * * * *
34132530 CGCTTATGGGAGAACGCTGCTAAAGCATACTATTAGCGGCGCGTTTTGAG
65 CGCTCACGAGAGAACGCCGCTAAAGCATACTATTAGCGGCACGTTTTGAG
* * * * * * *
34132580 AAGCGCCGCAAAATATATTAACCAAAACACAGCGTTTAAGTCTTGATGTATACTGGAATTAGTGG
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGAGTTT-TGTCTTGAGGTATACTAGAATTAGTGA
* *
34132645 CG-TCCACGAGA-AATCGCCGCTAAAGCATATTATTAGCGGCACTTTTTGAG
65 CGCT-CACGAGAGAA-CGCCGCTAAAGCATACTATTAGCGGCACGTTTTGAG
*
34132695 AAGCGCCGGAAAATATCTTAACCAAAACGCAGAGTTTTGGTCTT
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTT-GTCTT
34132739 AACCATGCTT
Statistics
Matches: 133, Mismatches: 21, Indels: 9
0.82 0.13 0.06
Matches are distributed among these distances:
114 35 0.26
115 98 0.74
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (114 bp):
AAGCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTTGTCTTGAGGTATACTAGAATTAGTGAC
GCTCACGAGAGAACGCCGCTAAAGCATACTATTAGCGGCACGTTTTGAG
Found at i:34136303 original size:116 final size:117
Alignment explanation
Indices: 34136097--34136341 Score: 339
Period size: 116 Copynumber: 2.1 Consensus size: 117
34136087 TTTGGTGTAG
* ** * * *
34136097 TGAGTCCGAAATTGAGAACTAGTAAGATGCATTCCTTCAACTGTTGCTCTTCTAAACAGTTTCAC
1 TGAGTCCAAAATTGAGAACTAGTAAGACACATTCCCTCAACTGATGCTCTTCTAAACAGTCTCAC
** * * *
34136162 TAGTGAAAATGCGGTGAGATAGAGAATAAATTGTATTGATGGCCTTAAATCC
66 TAGTGAAAATAAGGTGAGATAGAGAATAAATTGTACTGATGCCCTTAAACCC
* * *
34136214 TGAGTCCAAAATTGAGAACTGGTGAGACACGTTCCCTCAACTGATGCTCTTC-AAACAGTCTCAC
1 TGAGTCCAAAATTGAGAACTAGTAAGACACATTCCCTCAACTGATGCTCTTCTAAACAGTCTCAC
* *
34136278 TAGTGAAAATAAGGTGAGATGGAGAATAAATTGTACTGATGCCCTTTAACCC
66 TAGTGAAAATAAGGTGAGATAGAGAATAAATTGTACTGATGCCCTTAAACCC
34136330 TGAGTCCAAAAT
1 TGAGTCCAAAAT
34136342 AAAAGTCAAC
Statistics
Matches: 112, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
116 68 0.61
117 44 0.39
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.28
Consensus pattern (117 bp):
TGAGTCCAAAATTGAGAACTAGTAAGACACATTCCCTCAACTGATGCTCTTCTAAACAGTCTCAC
TAGTGAAAATAAGGTGAGATAGAGAATAAATTGTACTGATGCCCTTAAACCC
Found at i:34146189 original size:9 final size:9
Alignment explanation
Indices: 34146131--34146235 Score: 61
Period size: 9 Copynumber: 11.3 Consensus size: 9
34146121 TATTTTTTAA
34146131 TATATATTTT
1 TATA-ATTTT
* *
34146141 TAGATTTTT
1 TATAATTTT
**
34146150 TATAATACT
1 TATAATTTT
*
34146159 TATAAGTTAT
1 TATAA-TTTT
* *
34146169 TATTATTGT
1 TATAATTTT
34146178 TATAATTTT
1 TATAATTTT
34146187 TATAAGTTTAT
1 TATAA-TTT-T
*
34146198 T-CAATTTT
1 TATAATTTT
* *
34146206 AAT-ATATT
1 TATAATTTT
34146214 TATAATTTTT
1 TATAA-TTTT
34146224 TATAATTTT
1 TATAATTTT
34146233 TAT
1 TAT
34146236 GAGAAAATAT
Statistics
Matches: 71, Mismatches: 18, Indels: 13
0.70 0.18 0.13
Matches are distributed among these distances:
8 7 0.10
9 40 0.56
10 22 0.31
11 2 0.03
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (9 bp):
TATAATTTT
Found at i:34146234 original size:19 final size:18
Alignment explanation
Indices: 34146131--34146235 Score: 61
Period size: 19 Copynumber: 5.7 Consensus size: 18
34146121 TATTTTTTAA
* *
34146131 TATATATTTTTAGATTTTT
1 TATA-ATTTTTATAATTTT
** *
34146150 TATAATACTTATAAGTTAT
1 TATAATTTTTATAA-TTTT
* *
34146169 TATTATTGTTATAATTTT
1 TATAATTTTTATAATTTT
*
34146187 TATAAGTTTATT-CAATTTT
1 TATAA-TTT-TTATAATTTT
* *
34146206 AAT-ATATTTATAATTTTT
1 TATAATTTTTATAA-TTTT
34146224 TATAATTTTTAT
1 TATAATTTTTAT
34146236 GAGAAAATAT
Statistics
Matches: 63, Mismatches: 17, Indels: 12
0.68 0.18 0.13
Matches are distributed among these distances:
16 2 0.03
17 4 0.06
18 20 0.32
19 35 0.56
20 2 0.03
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (18 bp):
TATAATTTTTATAATTTT
Found at i:34152404 original size:18 final size:19
Alignment explanation
Indices: 34152378--34152421 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
34152368 AATATCGATA
*
34152378 AAATCGAGTTAATTC-ATC
1 AAATCGAGTCAATTCAATC
*
34152396 AAATTGAGTCAATTCAATC
1 AAATCGAGTCAATTCAATC
34152415 AAATCGA
1 AAATCGA
34152422 ATCAGTTAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.43, C:0.16, G:0.11, T:0.30
Consensus pattern (19 bp):
AAATCGAGTCAATTCAATC
Found at i:34152730 original size:13 final size:13
Alignment explanation
Indices: 34152712--34152738 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
34152702 ACTATCAGGA
34152712 TATTTACATCAAT
1 TATTTACATCAAT
34152725 TATTTACATCAAT
1 TATTTACATCAAT
34152738 T
1 T
34152739 TGTTATTCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.00, T:0.48
Consensus pattern (13 bp):
TATTTACATCAAT
Found at i:34163251 original size:12 final size:12
Alignment explanation
Indices: 34163230--34163259 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
34163220 AAATAAACTC
*
34163230 AAATATTAATTA
1 AAATAATAATTA
34163242 AAATAATAATTA
1 AAATAATAATTA
34163254 AAATAA
1 AAATAA
34163260 ATTATAACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAATAATAATTA
Found at i:34169740 original size:18 final size:21
Alignment explanation
Indices: 34169709--34169756 Score: 75
Period size: 19 Copynumber: 2.4 Consensus size: 21
34169699 TTTGCCAGTC
34169709 GAAAGAGAGAAAGAAGAA-GA
1 GAAAGAGAGAAAGAAGAAGGA
34169729 -AAAGAGAG-AAGAAGAAGGA
1 GAAAGAGAGAAAGAAGAAGGA
34169748 GAAAGAGAG
1 GAAAGAGAG
34169757 GGCGGGAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 8 0.31
19 10 0.38
20 8 0.31
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (21 bp):
GAAAGAGAGAAAGAAGAAGGA
Found at i:34169743 original size:21 final size:18
Alignment explanation
Indices: 34169709--34169756 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 18
34169699 TTTGCCAGTC
34169709 GAAAGAGAGAAAGAAGAA
1 GAAAGAGAGAAAGAAGAA
*
34169727 GAAAAGAGAGAAGAAGAAGGA
1 G-AAAGAGAG-A-AAGAAGAA
34169748 GAAAGAGAG
1 GAAAGAGAG
34169757 GGCGGGAAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 1 0.04
19 8 0.31
20 9 0.35
21 8 0.31
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (18 bp):
GAAAGAGAGAAAGAAGAA
Found at i:34171405 original size:11 final size:11
Alignment explanation
Indices: 34171378--34171468 Score: 59
Period size: 11 Copynumber: 8.5 Consensus size: 11
34171368 ATTAATCCTT
*
34171378 TCTCAATTATTC
1 TCTCAATT-TCC
34171390 TCTCAATTTCC
1 TCTCAATTTCC
*
34171401 TCTCAATTTGC
1 TCTCAATTTCC
*
34171412 TATCAATTTCC
1 TCTCAATTTCC
34171423 T-TCCAAATTT-C
1 TCT-C-AATTTCC
*
34171434 TCTCAA-ATCC
1 TCTCAATTTCC
* *
34171444 -AT--ATTTGC
1 TCTCAATTTCC
34171452 TCTCAATTTCC
1 TCTCAATTTCC
34171463 TCTCAA
1 TCTCAA
34171469 ATTTATCTTA
Statistics
Matches: 61, Mismatches: 10, Indels: 17
0.69 0.11 0.19
Matches are distributed among these distances:
7 1 0.02
8 2 0.03
9 3 0.05
10 4 0.07
11 37 0.61
12 14 0.23
ACGTcount: A:0.24, C:0.30, G:0.02, T:0.44
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:34171420 original size:22 final size:23
Alignment explanation
Indices: 34171378--34171423 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
34171368 ATTAATCCTT
* *
34171378 TCTCAATTATTCTCTCAATTTCC
1 TCTCAATTATGCTATCAATTTCC
34171401 TCTCAATT-TGCTATCAATTTCC
1 TCTCAATTATGCTATCAATTTCC
34171423 T
1 T
34171424 TCCAAATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.22, C:0.28, G:0.02, T:0.48
Consensus pattern (23 bp):
TCTCAATTATGCTATCAATTTCC
Found at i:34171439 original size:22 final size:21
Alignment explanation
Indices: 34171378--34171468 Score: 66
Period size: 22 Copynumber: 4.3 Consensus size: 21
34171368 ATTAATCCTT
34171378 TCTCAATTATTCTCTCAATTTCC
1 TCTCAA-T-TTCTCTCAATTTCC
*
34171401 TCTCAATTTGCTATCAATTTCC
1 TCTCAATTT-CTCTCAATTTCC
*
34171423 T-TCCAAATTTCTCTCAA-ATCC
1 TCT-C-AATTTCTCTCAATTTCC
*
34171444 -AT--ATTTGCTCTCAATTTCC
1 TCTCAATTT-CTCTCAATTTCC
34171463 TCTCAA
1 TCTCAA
34171469 ATTTATCTTA
Statistics
Matches: 54, Mismatches: 5, Indels: 19
0.69 0.06 0.24
Matches are distributed among these distances:
17 4 0.07
18 7 0.13
19 3 0.06
20 1 0.02
21 7 0.13
22 21 0.39
23 11 0.20
ACGTcount: A:0.24, C:0.30, G:0.02, T:0.44
Consensus pattern (21 bp):
TCTCAATTTCTCTCAATTTCC
Found at i:34171449 original size:17 final size:18
Alignment explanation
Indices: 34171424--34171457 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
34171414 TCAATTTCCT
34171424 TCCAAATTT-CTCTCAAA
1 TCCAAATTTGCTCTCAAA
*
34171441 TCCATATTTGCTCTCAA
1 TCCAAATTTGCTCTCAA
34171458 TTTCCTCTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.29, C:0.29, G:0.03, T:0.38
Consensus pattern (18 bp):
TCCAAATTTGCTCTCAAA
Found at i:34171458 original size:40 final size:40
Alignment explanation
Indices: 34171406--34171489 Score: 116
Period size: 40 Copynumber: 2.1 Consensus size: 40
34171396 TTTCCTCTCA
*
34171406 ATTTGCTATCAATTTCCT-TCCAAATTTCTCTCAAATCCAT
1 ATTTGCTATCAATTTCCTCT-CAAATTTATCTCAAATCCAT
* * *
34171446 ATTTGCTCTCAATTTCCTCTCAAATTTATCTTAAATCCCT
1 ATTTGCTATCAATTTCCTCTCAAATTTATCTCAAATCCAT
34171486 ATTT
1 ATTT
34171490 TTAATTATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 38 0.97
41 1 0.03
ACGTcount: A:0.26, C:0.26, G:0.02, T:0.45
Consensus pattern (40 bp):
ATTTGCTATCAATTTCCTCTCAAATTTATCTCAAATCCAT
Found at i:34172648 original size:7 final size:7
Alignment explanation
Indices: 34172636--34172661 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
34172626 TAGTCGATTG
34172636 GTATTTA
1 GTATTTA
34172643 GTATTTA
1 GTATTTA
34172650 GTATTTA
1 GTATTTA
34172657 GTATT
1 GTATT
34172662 ATATATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:34173351 original size:18 final size:18
Alignment explanation
Indices: 34173310--34173344 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
34173300 GCCAGGTGCG
*
34173310 TATCCTAACCCTTTTATA
1 TATCCTAACCCTTATATA
34173328 TATCCTAACCCTTATAT
1 TATCCTAACCCTTATAT
34173345 GTTTCCTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (18 bp):
TATCCTAACCCTTATATA
Found at i:34173854 original size:34 final size:33
Alignment explanation
Indices: 34173780--34173874 Score: 85
Period size: 34 Copynumber: 2.9 Consensus size: 33
34173770 ATTTTGATCT
* *
34173780 TATTTAATGTAATAAAATAGAAA-TTCTTTTATA
1 TATTTTATGT-ATAAAATAGAAATTTCTTTTACA
34173813 TTATTTTATGTACTAAAATAGAAATTTACTTTTACA
1 -TATTTTATGTA-TAAAATAGAAATTT-CTTTTACA
*
34173849 -CTTTTA---ATAAAATAGAAA-TTCTTTTA
1 TATTTTATGTATAAAATAGAAATTTCTTTTA
34173875 AATAAGGCAA
Statistics
Matches: 55, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
28 6 0.11
29 2 0.04
30 11 0.20
31 1 0.02
33 1 0.02
34 25 0.45
35 2 0.04
36 7 0.13
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.46
Consensus pattern (33 bp):
TATTTTATGTATAAAATAGAAATTTCTTTTACA
Found at i:34177603 original size:26 final size:27
Alignment explanation
Indices: 34177567--34177625 Score: 93
Period size: 28 Copynumber: 2.2 Consensus size: 27
34177557 TAAATAAATA
34177567 TTTTTATTC-TTTAATTTTAAAATATT
1 TTTTTATTCTTTTAATTTTAAAATATT
*
34177593 TTTTTATTCTTTTTATTTTTAAAATATT
1 TTTTTATTC-TTTTAATTTTAAAATATT
34177621 TTTTT
1 TTTTT
34177626 GTGTTTATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 9 0.30
28 21 0.70
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.71
Consensus pattern (27 bp):
TTTTTATTCTTTTAATTTTAAAATATT
Found at i:34179372 original size:14 final size:14
Alignment explanation
Indices: 34179353--34179387 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
34179343 TGACTTTTTT
*
34179353 TTCTAATGATACTA
1 TTCTAACGATACTA
34179367 TTCTAACGATACTA
1 TTCTAACGATACTA
34179381 TTCTAAC
1 TTCTAAC
34179388 ATGTAATTCG
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:0.34, C:0.20, G:0.06, T:0.40
Consensus pattern (14 bp):
TTCTAACGATACTA
Found at i:34180421 original size:49 final size:48
Alignment explanation
Indices: 34180349--34180467 Score: 175
Period size: 49 Copynumber: 2.5 Consensus size: 48
34180339 TTATTTATTT
* * **
34180349 AATTAGATTAATTGCAACATTAAAACTTGGAATAAACTTTGTGGTCACA
1 AATTAGATTAATTGCAACATTAAAACTTGAAACAAACTTTGTAAT-ACA
* *
34180398 AATTAGATTATTTGCAACATTAAAACTTGAAACAAACTTTGTAATATA
1 AATTAGATTAATTGCAACATTAAAACTTGAAACAAACTTTGTAATACA
34180446 AATTAGATTAATTGCAACATTA
1 AATTAGATTAATTGCAACATTA
34180468 CAATATTACA
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
48 23 0.37
49 40 0.63
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.34
Consensus pattern (48 bp):
AATTAGATTAATTGCAACATTAAAACTTGAAACAAACTTTGTAATACA
Found at i:34188124 original size:18 final size:18
Alignment explanation
Indices: 34188088--34188122 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
34188078 GGAAAAACCA
34188088 ATTTATCTTTTTATTTTT
1 ATTTATCTTTTTATTTTT
34188106 ATTTAT-TTTTTATTTTT
1 ATTTATCTTTTTATTTTT
34188123 TAAGAATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (18 bp):
ATTTATCTTTTTATTTTT
Found at i:34188629 original size:293 final size:294
Alignment explanation
Indices: 34188091--34188678 Score: 1169
Period size: 293 Copynumber: 2.0 Consensus size: 294
34188081 AAAACCAATT
34188091 TATCTTTTTATTTTTATTTATTTTTTATTTTTTAAGAATTATTTTTTGTTTTTTTCTAGGAGAAA
1 TATCTTTTTATTTTTATTTATTTTTTATTTTTTAAGAATTATTTTTTGTTTTTTTCTAGGAGAAA
34188156 ACTTAGGGTTACAGAAAATTACTTAGGGTTTTACAAGGAAAAACCATTTTTATTTTTAATTTCCT
66 ACTTAGGGTTACAGAAAATTACTTAGGGTTTTACAAGGAAAAACCATTTTTATTTTTAATTTCCT
34188221 TTATTTTTCCTTTTTCAGAGTTAATTTTTAGCTTTTTTTCCTTGAAAAGGAAAAAAAAATTCAAG
131 TTATTTTTCCTTTTTCAGAGTTAATTTTTAGCTTTTTTTCCTTGAAAAGGAAAAAAAAATTCAAG
34188286 TTTCCTTAGGGGAATACCTGGGTTTTTATAGACAATTGAGTTATAAGGAAAAACTTGGGTTTCTT
196 TTTCCTTAGGGGAATACCTGGGTTTTTATAGACAATTGAGTTATAAGGAAAAACTTGGGTTTCTT
34188351 CTCAATAGATGAATAAATCAATTTCCTAAAAAAA
261 CTCAATAGATGAATAAATCAATTTCCTAAAAAAA
34188385 TATCTTTTTA-TTTTATTTATTTTTTATTTTTTAAGAATTATTTTTTGTTTTTTTCTAGGAGAAA
1 TATCTTTTTATTTTTATTTATTTTTTATTTTTTAAGAATTATTTTTTGTTTTTTTCTAGGAGAAA
34188449 ACTTAGGGTTACAGAAAATTACTTAGGGTTTTACAAGGAAAAACCATTTTTATTTTTAATTTCCT
66 ACTTAGGGTTACAGAAAATTACTTAGGGTTTTACAAGGAAAAACCATTTTTATTTTTAATTTCCT
34188514 TTATTTTTCCTTTTTCAGAGTTAATTTTTAGCTTTTTTTCCTTGAAAAGGAAAAAAAAATTCAAG
131 TTATTTTTCCTTTTTCAGAGTTAATTTTTAGCTTTTTTTCCTTGAAAAGGAAAAAAAAATTCAAG
34188579 TTTCCTTAGGGGAATACCTGGGTTTTTATAGACAATTGAGTTATAAGGAAAAACTTGGGTTTCTT
196 TTTCCTTAGGGGAATACCTGGGTTTTTATAGACAATTGAGTTATAAGGAAAAACTTGGGTTTCTT
34188644 CTCAATAGATGAATAAATCAATTTCCTAAAAAAA
261 CTCAATAGATGAATAAATCAATTTCCTAAAAAAA
34188678 T
1 T
34188679 TCAAGTTTTT
Statistics
Matches: 294, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
293 284 0.97
294 10 0.03
ACGTcount: A:0.32, C:0.10, G:0.13, T:0.45
Consensus pattern (294 bp):
TATCTTTTTATTTTTATTTATTTTTTATTTTTTAAGAATTATTTTTTGTTTTTTTCTAGGAGAAA
ACTTAGGGTTACAGAAAATTACTTAGGGTTTTACAAGGAAAAACCATTTTTATTTTTAATTTCCT
TTATTTTTCCTTTTTCAGAGTTAATTTTTAGCTTTTTTTCCTTGAAAAGGAAAAAAAAATTCAAG
TTTCCTTAGGGGAATACCTGGGTTTTTATAGACAATTGAGTTATAAGGAAAAACTTGGGTTTCTT
CTCAATAGATGAATAAATCAATTTCCTAAAAAAA
Found at i:34189674 original size:21 final size:20
Alignment explanation
Indices: 34189641--34189688 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
34189631 CAAAATAAAG
34189641 AGGGCCACCCTC-TCTTGCCA
1 AGGGCCACCCTCTTC-TGCCA
*
34189661 AGGGACCACTCTCTTCTGCCA
1 AGGG-CCACCCTCTTCTGCCA
*
34189682 AAGGCCA
1 AGGGCCA
34189689 TTTTTGCCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 7 0.29
21 15 0.62
22 2 0.08
ACGTcount: A:0.21, C:0.40, G:0.21, T:0.19
Consensus pattern (20 bp):
AGGGCCACCCTCTTCTGCCA
Found at i:34190116 original size:42 final size:43
Alignment explanation
Indices: 34190020--34190116 Score: 133
Period size: 42 Copynumber: 2.3 Consensus size: 43
34190010 AGTAGGAGAC
*
34190020 ACATGCCCGTGTGGCCGGCCGTGTGCGCCCACACGGCCAGGAG
1 ACATGCCCGTGTGGCCGGCCGTGTGCGCCCACACAGCCAGGAG
* * ** *
34190063 ACACGCCCGTGTGGCCTGCCGTGTG-GCTTACACAGTCAGGAG
1 ACATGCCCGTGTGGCCGGCCGTGTGCGCCCACACAGCCAGGAG
34190105 ACATGCCCGTGT
1 ACATGCCCGTGT
34190117 CTTAGGCCGT
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
42 24 0.51
43 23 0.49
ACGTcount: A:0.15, C:0.34, G:0.34, T:0.16
Consensus pattern (43 bp):
ACATGCCCGTGTGGCCGGCCGTGTGCGCCCACACAGCCAGGAG
Found at i:34191086 original size:33 final size:32
Alignment explanation
Indices: 34191049--34191125 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 32
34191039 TGGCCCTGCC
** * *
34191049 ATGGTCTTACATTTGTAGTGCCATAACCCAGTT
1 ATGGTCTTACATCAG-AATGCCATAACCCAGCT
*
34191082 ATGGTCTTATCATCAGAATGCCATAGCCCAGCT
1 ATGGTCTTA-CATCAGAATGCCATAACCCAGCT
34191115 ATGGTCTTACA
1 ATGGTCTTACA
34191126 CATGTATCTA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
32 2 0.05
33 32 0.84
34 4 0.11
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.32
Consensus pattern (32 bp):
ATGGTCTTACATCAGAATGCCATAACCCAGCT
Found at i:34191173 original size:33 final size:33
Alignment explanation
Indices: 34191131--34191196 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
34191121 TTACACATGT
*
34191131 ATCTATACTGCCATGGTTCAACCATGGTCTTAC
1 ATCTATACTGCCATGGTCCAACCATGGTCTTAC
34191164 ATCTATACTGCCATGGTCCAACCATGGTCTTAC
1 ATCTATACTGCCATGGTCCAACCATGGTCTTAC
34191197 GTTCAATGTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.32
Consensus pattern (33 bp):
ATCTATACTGCCATGGTCCAACCATGGTCTTAC
Found at i:34191277 original size:105 final size:104
Alignment explanation
Indices: 34191164--34191401 Score: 342
Period size: 105 Copynumber: 2.3 Consensus size: 104
34191154 ATGGTCTTAC
*
34191164 ATCTATACTGCCATGGTCCAACCATGGTCTTACGTTCAATGTGTCATAAGC-CAGTTATGATCAT
1 ATCTATACTGCCATGGTCCAACCATGGTCTTACGTTCAAGGTGTCATAA-CTCAGTTATGATCAT
34191228 TTTATTAAAATGCCATAGCCCAGCTATGGTCTTACACATGT-
65 TTTATTAAAATGCCATAGCCCAGCTATGGTCTT--ACATGTA
* * **
34191269 ATCTATACTGCCATGGTCTAACCATGGTCTTACGTTCAAGGTGTCATAACTCAGTTATGGTGTTT
1 ATCTATACTGCCATGGTCCAACCATGGTCTTACGTTCAAGGTGTCATAACTCAGTTATGATCATT
* *
34191334 TTATTAAAATGCCATGGCCCAGCTATGGTCTTACATTTA
66 TTATTAAAATGCCATAGCCCAGCTATGGTCTTACATGTA
*
34191373 AAC-AT--TGCCATGGTCCAACCATGGTCTTA
1 ATCTATACTGCCATGGTCCAACCATGGTCTTA
34191402 TCAGTCAATT
Statistics
Matches: 122, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
101 23 0.19
103 7 0.06
104 3 0.02
105 89 0.73
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.34
Consensus pattern (104 bp):
ATCTATACTGCCATGGTCCAACCATGGTCTTACGTTCAAGGTGTCATAACTCAGTTATGATCATT
TTATTAAAATGCCATAGCCCAGCTATGGTCTTACATGTA
Found at i:34201396 original size:21 final size:21
Alignment explanation
Indices: 34201350--34201398 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
34201340 AAATAATAGT
*
34201350 AAAATAGCGAGAAAACAATGA
1 AAAATAGCGAGAAAACAATAA
* *
34201371 GAAATAGC-AGCAAAACAGTAA
1 AAAATAGCGAG-AAAACAATAA
34201392 AAAATAG
1 AAAATAG
34201399 TAAGAAAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.61, C:0.10, G:0.18, T:0.10
Consensus pattern (21 bp):
AAAATAGCGAGAAAACAATAA
Found at i:34204924 original size:2 final size:2
Alignment explanation
Indices: 34204912--34204940 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
34204902 GTGGTGGTGC
34204912 AT AT A- 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
34204941 GTCAATTCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:34205131 original size:120 final size:120
Alignment explanation
Indices: 34204918--34205157 Score: 471
Period size: 120 Copynumber: 2.0 Consensus size: 120
34204908 GTGCATATAA
34204918 TATATATATATATATATATATATGTCAATTCATTCCTTCTCTAACCCATCTACAAATGCATACCA
1 TATATATATATATATATATATATGTCAATTCATTCCTTCTCTAACCCATCTACAAATGCATACCA
34204983 CAATATTTGAGGAACCAAAGGGTCGTCAAATCTTCAATCAGAGGATCTGACACCT
66 CAATATTTGAGGAACCAAAGGGTCGTCAAATCTTCAATCAGAGGATCTGACACCT
*
34205038 TATATATATATATATATTTATATGTCAATTCATTCCTTCTCTAACCCATCTACAAATGCATACCA
1 TATATATATATATATATATATATGTCAATTCATTCCTTCTCTAACCCATCTACAAATGCATACCA
34205103 CAATATTTGAGGAACCAAAGGGTCGTCAAATCTTCAATCAGAGGATCTGACACCT
66 CAATATTTGAGGAACCAAAGGGTCGTCAAATCTTCAATCAGAGGATCTGACACCT
34205158 CCAAGGCTCC
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 119 1.00
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.32
Consensus pattern (120 bp):
TATATATATATATATATATATATGTCAATTCATTCCTTCTCTAACCCATCTACAAATGCATACCA
CAATATTTGAGGAACCAAAGGGTCGTCAAATCTTCAATCAGAGGATCTGACACCT
Found at i:34229580 original size:20 final size:20
Alignment explanation
Indices: 34229539--34229578 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
34229529 AATCAATTTT
*
34229539 TTTATATTTAACTATTTAAA
1 TTTATATTTAACTAATTAAA
*
34229559 TTTATATTTTAATTAATTAA
1 TTTATA-TTTAACTAATTAA
34229579 TTAATTGAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (20 bp):
TTTATATTTAACTAATTAAA
Found at i:34229604 original size:16 final size:16
Alignment explanation
Indices: 34229583--34229620 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
34229573 AATTAATTAA
34229583 TTGAG-TTATTTTATAT
1 TTGAGTTTA-TTTATAT
34229599 TTGAGTTTATTTATAT
1 TTGAGTTTATTTATAT
*
34229615 ATGAGT
1 TTGAGT
34229621 AATTGAATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 17 0.85
17 3 0.15
ACGTcount: A:0.26, C:0.00, G:0.16, T:0.58
Consensus pattern (16 bp):
TTGAGTTTATTTATAT
Found at i:34232112 original size:14 final size:15
Alignment explanation
Indices: 34232074--34232113 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
34232064 ACAATTTTAT
34232074 AACTTAAA--TTCAG
1 AACTTAAATTTTCAG
34232087 AACTTAAATTTTCAG
1 AACTTAAATTTTCAG
*
34232102 TACTT-AATTTTC
1 AACTTAAATTTTC
34232114 TGCATGGGTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 8 0.33
14 7 0.29
15 9 0.38
ACGTcount: A:0.38, C:0.15, G:0.05, T:0.42
Consensus pattern (15 bp):
AACTTAAATTTTCAG
Found at i:34240841 original size:45 final size:45
Alignment explanation
Indices: 34240792--34240880 Score: 128
Period size: 44 Copynumber: 2.0 Consensus size: 45
34240782 TTTAGTTGAA
*
34240792 TTTAATAAATT-AATATATCTAAATATTAATTTAGT-AAAAATAAAG
1 TTTAAT-AATTGAA-ATATCTAAATATTAATTAAGTAAAAAATAAAG
*
34240837 TTTAATAATTGCAATATCTAAATATTAATTAAGTAAAAAATAAA
1 TTTAATAATTGAAATATCTAAATATTAATTAAGTAAAAAATAAA
34240881 CATAAATAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
44 24 0.60
45 16 0.40
ACGTcount: A:0.54, C:0.03, G:0.04, T:0.38
Consensus pattern (45 bp):
TTTAATAATTGAAATATCTAAATATTAATTAAGTAAAAAATAAAG
Found at i:34240891 original size:45 final size:44
Alignment explanation
Indices: 34240806--34240891 Score: 127
Period size: 44 Copynumber: 1.9 Consensus size: 44
34240796 ATAAATTAAT
* ** *
34240806 ATATCTAAATATTAATTTAGTAAAAATAAAGTTTAATAATTGCA
1 ATATCTAAATATTAATTAAGTAAAAATAAACATAAATAATTGCA
34240850 ATATCTAAATATTAATTAAGTAAAAAATAAACATAAATAATT
1 ATATCTAAATATTAATTAAGT-AAAAATAAACATAAATAATT
34240892 ATAATACTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 20 0.54
45 17 0.46
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.36
Consensus pattern (44 bp):
ATATCTAAATATTAATTAAGTAAAAATAAACATAAATAATTGCA
Found at i:34259305 original size:39 final size:39
Alignment explanation
Indices: 34259251--34259336 Score: 118
Period size: 39 Copynumber: 2.2 Consensus size: 39
34259241 CAAAGAGAAT
* * * *
34259251 CATTGCTCGGTTATAAAGGTGTCAACAATAGGCTTTAAC
1 CATTGCTCGATTATAAAGATGTCAACAAGAGACTTTAAC
*
34259290 CATTGCTCGATTATAAAGATGTCCACAAGAGACTTTAAC
1 CATTGCTCGATTATAAAGATGTCAACAAGAGACTTTAAC
*
34259329 TATTGCTC
1 CATTGCTC
34259337 CCTAATACTG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.31
Consensus pattern (39 bp):
CATTGCTCGATTATAAAGATGTCAACAAGAGACTTTAAC
Found at i:34269559 original size:3 final size:3
Alignment explanation
Indices: 34269551--34269584 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
34269541 ATCATTTTCT
34269551 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
34269585 GTTTTATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:34269887 original size:15 final size:14
Alignment explanation
Indices: 34269863--34269896 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
34269853 TACCTACGTA
*
34269863 TATATGTACATATTT
1 TATATATACATA-TT
34269878 TATATATACATATT
1 TATATATACATATT
34269892 TATAT
1 TATAT
34269897 GTTCTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.53
Consensus pattern (14 bp):
TATATATACATATT
Found at i:34271059 original size:38 final size:38
Alignment explanation
Indices: 34271016--34271553 Score: 1076
Period size: 38 Copynumber: 14.2 Consensus size: 38
34271006 CAAGAAAAGT
34271016 GTTAGTCATATAGTTCTAAATTAATTTCTTGTTAGTTA
1 GTTAGTCATATAGTTCTAAATTAATTTCTTGTTAGTTA
34271054 GTTAGTCATATAGTTCTAAATTAATTTCTTGTTAGTTA
1 GTTAGTCATATAGTTCTAAATTAATTTCTTGTTAGTTA
34271092 GTTAGTCATATAGTTCTAAATTAATTTCTTGTTAGTTA
1 GTTAGTCATATAGTTCTAAATTAATTTCTTGTTAGTTA
34271130 GTTAGTCATATAGTTCTAAATTAATTTCTTGTTAGTTA
1 GTTAGTCATATAGTTCTAAATTAATTTCTTGTTAGTTA
34271168 GTTAGTCATATAGTTCTAAATTAATTTCTTGTTAGTTA
1 GTTAGTCATATAGTTCTAAATTAATTTCTTGTTAGTTA
34271206 GTTAGTCATATAGTTCTAAATTAATTTCTTGTTAGTTA
1 GTTAGTCATATAGTTCTAAATTAATTTCTTGTTAGTTA
34271244 GTTAGTCATATAGTTCTAAATTAATTTCTTGTTAGTTA
1 GTTAGTCATATAGTTCTAAATTAATTTCTTGTTAGTTA
34271282 GTTAGTCATATAGTTCTAAATTAATTTCTTGTTAGTTA
1 GTTAGTCATATAGTTCTAAATTAATTTCTTGTTAGTTA
34271320 GTTAGTCATATAGTTCTAAATTAATTTCTTGTTAGTTA
1 GTTAGTCATATAGTTCTAAATTAATTTCTTGTTAGTTA
34271358 GTTAGTCATATAGTTCTAAATTAATTTCTTGTTAGTTA
1 GTTAGTCATATAGTTCTAAATTAATTTCTTGTTAGTTA
34271396 GTTAGTCATATAGTTCTAAATTAATTTCTTGTTAGTTA
1 GTTAGTCATATAGTTCTAAATTAATTTCTTGTTAGTTA
34271434 GTTAGTCATATAGTTCTAAATTAATTTCTTGTTAGTTA
1 GTTAGTCATATAGTTCTAAATTAATTTCTTGTTAGTTA
34271472 GTTAGTCATATAGTTCTAAATTAATTTCTTGTTAGTTA
1 GTTAGTCATATAGTTCTAAATTAATTTCTTGTTAGTTA
34271510 GTTAGTCATATAGTTCTAAATTAATTTCTTGTTAGTTA
1 GTTAGTCATATAGTTCTAAATTAATTTCTTGTTAGTTA
34271548 GTTAGT
1 GTTAGT
34271554 AGTTTATTTT
Statistics
Matches: 500, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 500 1.00
ACGTcount: A:0.29, C:0.08, G:0.13, T:0.50
Consensus pattern (38 bp):
GTTAGTCATATAGTTCTAAATTAATTTCTTGTTAGTTA
Found at i:34272825 original size:164 final size:164
Alignment explanation
Indices: 34272554--34272915 Score: 724
Period size: 164 Copynumber: 2.2 Consensus size: 164
34272544 AGAGTGAAAC
34272554 AAATCTGAAGGGGATTAACTTACCAACAAGGAAAAACTACTCAGTTATGCCAATAATATCATAAA
1 AAATCTGAAGGGGATTAACTTACCAACAAGGAAAAACTACTCAGTTATGCCAATAATATCATAAA
34272619 AGAAGAAAACTTGAAGAACCCATTAACTTACCAACAAGGAAATCAGAAAGTACAGTTCGAAAGCT
66 AGAAGAAAACTTGAAGAACCCATTAACTTACCAACAAGGAAATCAGAAAGTACAGTTCGAAAGCT
34272684 TGAAGAAGCTGCAGCTAAGGCTTCAGCAACAAGG
131 TGAAGAAGCTGCAGCTAAGGCTTCAGCAACAAGG
34272718 AAATCTGAAGGGGATTAACTTACCAACAAGGAAAAACTACTCAGTTATGCCAATAATATCATAAA
1 AAATCTGAAGGGGATTAACTTACCAACAAGGAAAAACTACTCAGTTATGCCAATAATATCATAAA
34272783 AGAAGAAAACTTGAAGAACCCATTAACTTACCAACAAGGAAATCAGAAAGTACAGTTCGAAAGCT
66 AGAAGAAAACTTGAAGAACCCATTAACTTACCAACAAGGAAATCAGAAAGTACAGTTCGAAAGCT
34272848 TGAAGAAGCTGCAGCTAAGGCTTCAGCAACAAGG
131 TGAAGAAGCTGCAGCTAAGGCTTCAGCAACAAGG
34272882 AAATCTGAAGGGGATTAACTTACCAACAAGGAAA
1 AAATCTGAAGGGGATTAACTTACCAACAAGGAAA
34272916 TTGGCAGAGG
Statistics
Matches: 198, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
164 198 1.00
ACGTcount: A:0.45, C:0.18, G:0.19, T:0.19
Consensus pattern (164 bp):
AAATCTGAAGGGGATTAACTTACCAACAAGGAAAAACTACTCAGTTATGCCAATAATATCATAAA
AGAAGAAAACTTGAAGAACCCATTAACTTACCAACAAGGAAATCAGAAAGTACAGTTCGAAAGCT
TGAAGAAGCTGCAGCTAAGGCTTCAGCAACAAGG
Found at i:34278766 original size:23 final size:23
Alignment explanation
Indices: 34278723--34278768 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
34278713 TTATTGATTC
* *
34278723 CTATTTTTTTCATTTTCTATTTT
1 CTATTTTTTCCAATTTCTATTTT
34278746 CTATTTTTATCCAATTT-TATTTT
1 CTATTTTT-TCCAATTTCTATTTT
34278769 TAATTATTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.17, C:0.13, G:0.00, T:0.70
Consensus pattern (23 bp):
CTATTTTTTCCAATTTCTATTTT
Found at i:34282343 original size:16 final size:16
Alignment explanation
Indices: 34282306--34282345 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
34282296 TTAATAAAAT
* *
34282306 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
34282322 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
34282338 TAAAATTA
1 TAAAATTA
34282346 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:34282424 original size:59 final size:61
Alignment explanation
Indices: 34282355--34282534 Score: 265
Period size: 68 Copynumber: 2.9 Consensus size: 61
34282345 ATCAAATTAT
*
34282355 TAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTA
1 TAATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATC--A--A
34282420 TTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATC-A
1 -TAA-T-TATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAA
*
34282483 -AATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAA
1 TAATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAA
34282535 ACAAACTTGA
Statistics
Matches: 110, Mismatches: 2, Indels: 11
0.89 0.02 0.09
Matches are distributed among these distances:
59 48 0.44
60 1 0.01
61 2 0.02
63 1 0.01
66 3 0.03
67 1 0.01
68 54 0.49
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.46
Consensus pattern (61 bp):
TAATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAA
Found at i:34282451 original size:9 final size:9
Alignment explanation
Indices: 34282418--34282445 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
34282408 TTTATCAAAT
34282418 TATTAATTG
1 TATTAATTG
34282427 TATTAATTG
1 TATTAATTG
34282436 TATTAATTG
1 TATTAATTG
34282445 T
1 T
34282446 TGTAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:34282455 original size:68 final size:68
Alignment explanation
Indices: 34282334--34282504 Score: 319
Period size: 68 Copynumber: 2.5 Consensus size: 68
34282324 AAATTAATTG
*
34282334 TTAGTAAAATTATCAAATTATTAATTG--TTAATTGTATTAATTGTTGTAATAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
34282397 TGA
66 TGA
34282400 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
34282465 TGA
66 TGA
34282468 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGT
34282505 TGTAACAAAA
Statistics
Matches: 102, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
66 26 0.25
68 76 0.75
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (68 bp):
TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
TGA
Found at i:34282641 original size:22 final size:24
Alignment explanation
Indices: 34282601--34282644 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
34282591 AAATAAACTT
34282601 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
34282625 AAAATAAAAAA-TA-TATATTT
1 AAAATAAAAAACTATTATATTT
34282645 AATATTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 2 0.10
24 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAATAAAAAACTATTATATTTTA
Found at i:34284593 original size:19 final size:20
Alignment explanation
Indices: 34284571--34284612 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
34284561 ACTTCATTAA
34284571 ATAAAAATAAATTATTTT-T
1 ATAAAAATAAATTATTTTCT
* *
34284590 AT-AATATAAATTCTTTTCT
1 ATAAAAATAAATTATTTTCT
34284609 ATAA
1 ATAA
34284613 TCATCCCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
18 13 0.68
19 5 0.26
20 1 0.05
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (20 bp):
ATAAAAATAAATTATTTTCT
Found at i:34284600 original size:18 final size:19
Alignment explanation
Indices: 34284577--34284613 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
34284567 TTAAATAAAA
34284577 ATAAATTATTTT-TATAAT
1 ATAAATTATTTTCTATAAT
*
34284595 ATAAATTCTTTTCTATAAT
1 ATAAATTATTTTCTATAAT
34284614 CATCCCAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (19 bp):
ATAAATTATTTTCTATAAT
Found at i:34285463 original size:23 final size:23
Alignment explanation
Indices: 34285444--34285490 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
34285434 TTTAAATTTA
*
34285444 TTAT-TATTTTTTTTGAAAATAT
1 TTATGTATTTTTTTTAAAAATAT
*
34285466 TTATGTATTTTTTTTAAAAAAAT
1 TTATGTATTTTTTTTAAAAATAT
34285489 TT
1 TT
34285491 GTTAGAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (23 bp):
TTATGTATTTTTTTTAAAAATAT
Found at i:34296426 original size:42 final size:42
Alignment explanation
Indices: 34296367--34296466 Score: 173
Period size: 42 Copynumber: 2.4 Consensus size: 42
34296357 NNNNNNNNNN
*
34296367 GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGGATAATG
1 GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGGATAACG
* *
34296409 GGCACTAAGTGTGCGAAATTAAAATGATGATGTTGTATAACG
1 GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGGATAACG
34296451 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
34296467 TACCGAGAGC
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.35, C:0.10, G:0.28, T:0.27
Consensus pattern (42 bp):
GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGGATAACG
Found at i:34299145 original size:25 final size:25
Alignment explanation
Indices: 34299098--34299147 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
34299088 TGTATATATT
* *
34299098 ATATAAAAATAATTATATTTATTTA
1 ATATAAAAATAACTATATGTATTTA
34299123 ATATAAAAATAAACTA-ATGTATTTA
1 ATATAAAAAT-AACTATATGTATTTA
34299148 TTTCTTTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (25 bp):
ATATAAAAATAACTATATGTATTTA
Found at i:34306356 original size:17 final size:17
Alignment explanation
Indices: 34306317--34306364 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
34306307 TTTTTATGAA
* *
34306317 ATATTTTCAATTAT-AT
1 ATATTTTAAATTTTAAT
*
34306333 ATTTTTTAAATTTTAAT
1 ATATTTTAAATTTTAAT
*
34306350 ATATTTTATATTTTA
1 ATATTTTAAATTTTA
34306365 TTTCAATTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 11 0.42
17 15 0.58
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (17 bp):
ATATTTTAAATTTTAAT
Found at i:34306384 original size:28 final size:28
Alignment explanation
Indices: 34306327--34306383 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
34306317 ATATTTTCAA
34306327 TTATATATTTTTTAAATTTTAATATATT
1 TTATATATTTTTTAAATTTTAATATATT
* *
34306355 TTATAT-TTTATTTCAATTTTTATA-ATT
1 TTATATATTT-TTTAAATTTTAATATATT
34306382 TT
1 TT
34306384 TGGCTGATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 8 0.31
28 18 0.69
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (28 bp):
TTATATATTTTTTAAATTTTAATATATT
Found at i:34319781 original size:71 final size:67
Alignment explanation
Indices: 34319704--34319892 Score: 237
Period size: 63 Copynumber: 2.8 Consensus size: 67
34319694 ACATCATTTG
* * *
34319704 GGTAGTTCGAATGAAACTCATGTTCACAAGTAAAGAAGAAGAGAATTATACTTATATAAAAGGAT
1 GGTAGTTCGAATGAAGCCCAAGTTCACAAGTAAAGAAGAAGAGAATTATA--T-TAT-AAAGGAT
34319769 ATATTC
62 ATATTC
*
34319775 GGTAGTTCGAATGAAGCCCAAGTTCACAAGTAAA-AA-AAGAAGAA--A-ATTATACAGGATATA
1 GGTAGTTCGAATGAAGCCCAAGTTCACAAGTAAAGAAGAAG-AGAATTATATTATAAAGGATATA
34319835 TTC
65 TTC
* *
34319838 GGTAGTTAGAATGAAGCCCAAGTTCACAAGTAAAGAAGACGAGAATTATA-TATAA
1 GGTAGTTCGAATGAAGCCCAAGTTCACAAGTAAAGAAGAAGAGAATTATATTATAA
34319893 CAATTAAAAA
Statistics
Matches: 105, Mismatches: 7, Indels: 17
0.81 0.05 0.13
Matches are distributed among these distances:
63 45 0.43
64 9 0.09
65 3 0.03
66 5 0.05
67 2 0.02
68 1 0.01
69 3 0.03
70 6 0.06
71 31 0.30
ACGTcount: A:0.45, C:0.11, G:0.20, T:0.24
Consensus pattern (67 bp):
GGTAGTTCGAATGAAGCCCAAGTTCACAAGTAAAGAAGAAGAGAATTATATTATAAAGGATATAT
TC
Found at i:34327867 original size:90 final size:90
Alignment explanation
Indices: 34327765--34327976 Score: 370
Period size: 90 Copynumber: 2.4 Consensus size: 90
34327755 ATTAATGAAA
* *
34327765 ATAAAGGTGATTGCTATGTGTTGATTTCACCGGATACCAATGGTTATATAAGTGATTGTTATGTG
1 ATAAAGGTGATTGCTATGTGCTGATTTCACCGGATACCAATGGTTATATAAGTGATTGCTATGTG
*
34327830 CTGAATTCACCCGGTACCATTGAGT
66 CTGAATTCACCCGGTACCATTAAGT
*
34327855 ATAAAGGTGATTGTTATGTGCTGATTTCACCGGATACCAATGGTTATATAAGTGATTGCTATGTG
1 ATAAAGGTGATTGCTATGTGCTGATTTCACCGGATACCAATGGTTATATAAGTGATTGCTATGTG
*
34327920 CTGAATTCACCTGGTACCATTAAGT
66 CTGAATTCACCCGGTACCATTAAGT
*
34327945 ATAAAGGTGGTTGCTATGTGCTGATTTCACCG
1 ATAAAGGTGATTGCTATGTGCTGATTTCACCG
34327977 AGTACTATTG
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
90 115 1.00
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (90 bp):
ATAAAGGTGATTGCTATGTGCTGATTTCACCGGATACCAATGGTTATATAAGTGATTGCTATGTG
CTGAATTCACCCGGTACCATTAAGT
Found at i:34327966 original size:135 final size:135
Alignment explanation
Indices: 34327734--34327993 Score: 305
Period size: 135 Copynumber: 1.9 Consensus size: 135
34327724 AGGTGGATGC
** * *
34327734 TATGTGCTGATTGCACCGGATATTAATGAAAATAAAGGTGATTGCTATGTGTTGATTTCACCGGA
1 TATGTGCTGATTGCACCGGATACCAATGAAAATAAAGGTGATTGCTATGTGCTGAATTCACCGGA
* * *
34327799 TACCAATGGTTATATAAGTGATTGTTATGTGCTGAATTCACCCG-GTACCATTGAGTATAAAGGT
66 TACCAATAGTTATATAAGTGATTGCTATGTGCTGAATTCA-CCGAGTACCATTGACTATAAAGGT
34327863 GATTGT
130 GATTGT
* ***
34327869 TATGTGCTGATTTCACCGGATACCAATGGTTATATAA-GTGATTGCTATGTGCTGAATTCACCTG
1 TATGTGCTGATTGCACCGGATACCAATGAAAATA-AAGGTGATTGCTATGTGCTGAATTCACC-G
* * * *
34327933 G-TACCATTAAG-TATA-AAGGTGGTTGCTATGTGCTGATTTCACCGAGTACTATTGACTATAA
64 GATACCAAT-AGTTATATAA-GTGATTGCTATGTGCTGAATTCACCGAGTACCATTGACTATAA
34327994 GGTTGGTGCT
Statistics
Matches: 105, Mismatches: 15, Indels: 10
0.81 0.12 0.08
Matches are distributed among these distances:
134 5 0.05
135 95 0.90
136 5 0.05
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (135 bp):
TATGTGCTGATTGCACCGGATACCAATGAAAATAAAGGTGATTGCTATGTGCTGAATTCACCGGA
TACCAATAGTTATATAAGTGATTGCTATGTGCTGAATTCACCGAGTACCATTGACTATAAAGGTG
ATTGT
Found at i:34327993 original size:45 final size:45
Alignment explanation
Indices: 34327731--34327976 Score: 270
Period size: 45 Copynumber: 5.5 Consensus size: 45
34327721 TATAGGTGGA
* ** **
34327731 TGCTATGTGCTGATTGCACCGGATATTAATGAAAATAAAGGTGAT
1 TGCTATGTGCTGATTTCACCGGATACCAATGAGTATAAAGGTGAT
*
34327776 TGCTATGTGTTGATTTCACCGGATACCAATG-GTTATATAA-GTGAT
1 TGCTATGTGCTGATTTCACCGGATACCAATGAG-TATA-AAGGTGAT
* * *
34327821 TGTTATGTGCTGAATTCACCCGG-TACCATTGAGTATAAAGGTGAT
1 TGCTATGTGCTGATTTCA-CCGGATACCAATGAGTATAAAGGTGAT
*
34327866 TGTTATGTGCTGATTTCACCGGATACCAATG-GTTATATAA-GTGAT
1 TGCTATGTGCTGATTTCACCGGATACCAATGAG-TATA-AAGGTGAT
* * * *
34327911 TGCTATGTGCTGAATTCACCTGG-TACCATTAAGTATAAAGGTGGT
1 TGCTATGTGCTGATTTCACC-GGATACCAATGAGTATAAAGGTGAT
34327956 TGCTATGTGCTGATTTCACCG
1 TGCTATGTGCTGATTTCACCG
34327977 AGTACTATTG
Statistics
Matches: 172, Mismatches: 18, Indels: 23
0.81 0.08 0.11
Matches are distributed among these distances:
44 10 0.06
45 150 0.87
46 12 0.07
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.35
Consensus pattern (45 bp):
TGCTATGTGCTGATTTCACCGGATACCAATGAGTATAAAGGTGAT
Found at i:34340718 original size:29 final size:29
Alignment explanation
Indices: 34340686--34340771 Score: 75
Period size: 30 Copynumber: 2.9 Consensus size: 29
34340676 AATTAGGGTG
*
34340686 AAGTTTTCATTTTGGTCATTTAACTA-AAA
1 AAGTTTTCATTTT-GTCATTGAACTATAAA
* * * *
34340715 AAGTTATAATTTTGTCATTGAATTATTTAA
1 AAGTTTTCATTTTGTCATTGAACTA-TAAA
* *
34340745 AAGTTTTCATTTAAGACATTGAACTAT
1 AAGTTTTCATTT-TGTCATTGAACTAT
34340772 TCAATAGTCA
Statistics
Matches: 44, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
28 10 0.23
29 11 0.25
30 13 0.30
31 10 0.23
ACGTcount: A:0.36, C:0.08, G:0.10, T:0.45
Consensus pattern (29 bp):
AAGTTTTCATTTTGTCATTGAACTATAAA
Found at i:34342577 original size:16 final size:16
Alignment explanation
Indices: 34342540--34342587 Score: 80
Period size: 15 Copynumber: 3.1 Consensus size: 16
34342530 TTCGCTGTAT
34342540 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
34342556 -GGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
*
34342571 TGGAATAGAGGTGTAA
1 TGGAATAGAGGCGTAA
34342587 T
1 T
34342588 AGCAAATCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 15 0.50
16 15 0.50
ACGTcount: A:0.38, C:0.04, G:0.38, T:0.21
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:34342671 original size:39 final size:43
Alignment explanation
Indices: 34342567--34342675 Score: 127
Period size: 45 Copynumber: 2.6 Consensus size: 43
34342557 GAATAGAGGC
*
34342567 GTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAAT
1 GTAATGGAATAGAGGTGTAATAGCAAAT--ACTGTGTGGTTGAAT
* * * *
34342612 GTAATGGAATAGAGGCGTAATAG-TAAT-CT-TGTGTTTGATT
1 GTAATGGAATAGAGGTGTAATAGCAAATACTGTGTGGTTGAAT
34342652 G-AATGGAATAGAGGTGTAATAGCA
1 GTAATGGAATAGAGGTGTAATAGCA
34342676 TAATGNNNNN
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
39 20 0.36
40 9 0.16
41 2 0.04
44 3 0.05
45 22 0.39
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (43 bp):
GTAATGGAATAGAGGTGTAATAGCAAATACTGTGTGGTTGAAT
Found at i:34343135 original size:26 final size:28
Alignment explanation
Indices: 34343106--34343166 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
34343096 TATGAATTTG
*
34343106 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
34343132 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
34343160 TAAAATT
1 TATAATT
34343167 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:34343163 original size:101 final size:94
Alignment explanation
Indices: 34343006--34343290 Score: 276
Period size: 93 Copynumber: 3.0 Consensus size: 94
34342996 ACTATAAAAG
* * * *
34343006 ATAATTTGAAATAATTAATATTAAATATATTTTAATTAA-AATATATGATTTAATAAAATTTAAA
1 ATAATTTAAAATAATTAATATTAAATATAATTTAA-TAATAATATATAATTTCATAAAATTT---
* * *
34343070 ATAATTATAACTAATAAATTATATTTTATGAATTTGT
62 AT--TGATAA-TAA-AAATTATATTATATGAATTTAT
* * *
34343107 ATAATTTAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCATAAAA-TTCTTG
1 ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTATTG
* *
34343171 ATAATAAAAATTTTCTTATATGAATTTAT
66 ATAATAAAAATTATATTATATGAATTTAT
* * * *
34343200 ACAATTTAAAATAATTAATATTAAATATAA-TTATATAGTGATATATAATTTCATAAAA-TTCTT
1 ATAATTTAAAATAATTAATATTAAATATAATTTA-ATAATAATATATAATTTCATAAAATTTATT
* *
34343263 AATAAT-AAAATGT-TCTTATATGAATTTA
65 GATAATAAAAAT-TATATTATATGAATTTA
34343291 CTAAAATCAA
Statistics
Matches: 163, Mismatches: 18, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
92 23 0.14
93 78 0.48
94 3 0.02
95 5 0.03
97 1 0.01
100 5 0.03
101 48 0.29
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.45
Consensus pattern (94 bp):
ATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTATTG
ATAATAAAAATTATATTATATGAATTTAT
Found at i:34343206 original size:93 final size:92
Alignment explanation
Indices: 34343096--34343290 Score: 293
Period size: 93 Copynumber: 2.1 Consensus size: 92
34343086 AATTATATTT
* * * *
34343096 TATGAATTTGTATAATTTAAAATAATTATTATTACATATAATT-TAATAATAATATATAATTTCA
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTAT-ATAATAATATATAATTTCA
* *
34343160 TAAAATTCTTGATAATAAAAATTTTCTTA
65 TAAAATTCTTAATAAT-AAAATGTTCTTA
* *
34343189 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAGTGATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
34343254 AAAATTCTTAATAATAAAATGTTCTTA
66 AAAATTCTTAATAATAAAATGTTCTTA
34343281 TATGAATTTA
1 TATGAATTTA
34343291 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
92 21 0.23
93 71 0.76
94 1 0.01
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
AAAATTCTTAATAATAAAATGTTCTTA
Found at i:34344271 original size:3 final size:3
Alignment explanation
Indices: 34344250--34344296 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
34344240 GTATATTACT
* *
34344250 TTA TTA ATA TTA ATA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
34344297 GGATATTCCA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:34349820 original size:6 final size:6
Alignment explanation
Indices: 34349809--34349839 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
34349799 TTTAACCGAC
34349809 TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA T
1 TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA T
34349840 ATTCATTCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
TTAAAA
Found at i:34350716 original size:43 final size:44
Alignment explanation
Indices: 34350668--34350753 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 44
34350658 AGGTTAAATA
* * *
34350668 ATATTAAAATAACTTACATTAAT-AGAGTTTAAGTAAGAAACTG
1 ATATTAAAATAACATACACTAATCAGAGTTTAAGTAAAAAACTG
34350711 ATATTAAAATAACATACACTAATCAGAGTTTAAGTAAAAAACT
1 ATATTAAAATAACATACACTAATCAGAGTTTAAGTAAAAAACT
34350754 AAAAGTAAAG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
43 21 0.54
44 18 0.46
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.30
Consensus pattern (44 bp):
ATATTAAAATAACATACACTAATCAGAGTTTAAGTAAAAAACTG
Found at i:34363536 original size:13 final size:13
Alignment explanation
Indices: 34363518--34363544 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
34363508 TATGTTGTCT
34363518 ATATTTATAAATA
1 ATATTTATAAATA
34363531 ATATTTATAAATA
1 ATATTTATAAATA
34363544 A
1 A
34363545 ATGCTGGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATATTTATAAATA
Found at i:34376590 original size:6 final size:6
Alignment explanation
Indices: 34376575--34376605 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
34376565 AGTAATGGGT
*
34376575 TTTTAA TTTTAG TTTTAA TTTTAA TTTTAA T
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA T
34376606 AAGAATTGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (6 bp):
TTTTAA
Found at i:34377538 original size:12 final size:12
Alignment explanation
Indices: 34377521--34377552 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
34377511 ATTGATTATT
34377521 TGTAATTATCAA
1 TGTAATTATCAA
34377533 TGTAATTATCAA
1 TGTAATTATCAA
*
34377545 TCTAATTA
1 TGTAATTA
34377553 CACTCAATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (12 bp):
TGTAATTATCAA
Found at i:34382910 original size:165 final size:166
Alignment explanation
Indices: 34382638--34382969 Score: 657
Period size: 165 Copynumber: 2.0 Consensus size: 166
34382628 AAATTTTTTT
34382638 TTTCTTTTGATTTCCCTTTCACCAAATTGAACTTTGTGGAAATAATTCTAATTTTGTGTAAAAAG
1 TTTCTTTTGATTTCCCTTTCACCAAATTGAACTTTGTGGAAATAATTCTAATTTTGTGTAAAAAG
34382703 ACAGCAATGCTTACCTAATTATGTCTTCCATTGGTTTTATTGTCAACCATATGTTTGATTCAACT
66 ACAGCAATGCTTACCTAATTATGTCTTCCATTGGTTTTATTGTCAACCATATGTTTGATTCAACT
34382768 GGCTTCAGTCAATGTGAATAATAAT-ATAATAATAA
131 GGCTTCAGTCAATGTGAATAATAATAATAATAATAA
34382803 TTTCTTTTGATTTCCCTTTCACCAAATTGAACTTTGTGGAAATAATTCTAATTTTGTGTAAAAAG
1 TTTCTTTTGATTTCCCTTTCACCAAATTGAACTTTGTGGAAATAATTCTAATTTTGTGTAAAAAG
34382868 ACAGCAATGCTTACCTAATTATGTCTTCCATTGGTTTTATTGTCAACCATATGTTTGATTCAACT
66 ACAGCAATGCTTACCTAATTATGTCTTCCATTGGTTTTATTGTCAACCATATGTTTGATTCAACT
34382933 GGCTTCAGTCAATGTGAATAATAATAATAATAATAA
131 GGCTTCAGTCAATGTGAATAATAATAATAATAATAA
34382969 T
1 T
34382970 AATAATAATA
Statistics
Matches: 166, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
165 155 0.93
166 11 0.07
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.41
Consensus pattern (166 bp):
TTTCTTTTGATTTCCCTTTCACCAAATTGAACTTTGTGGAAATAATTCTAATTTTGTGTAAAAAG
ACAGCAATGCTTACCTAATTATGTCTTCCATTGGTTTTATTGTCAACCATATGTTTGATTCAACT
GGCTTCAGTCAATGTGAATAATAATAATAATAATAA
Found at i:34382957 original size:3 final size:3
Alignment explanation
Indices: 34382949--34382999 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
34382939 AGTCAATGTG
34382949 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
34382997 AAT
1 AAT
34383000 CCAACTTAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:34400641 original size:8 final size:8
Alignment explanation
Indices: 34400628--34400654 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
34400618 AAAGATCCAT
34400628 AAACCAGG
1 AAACCAGG
34400636 AAACCAGG
1 AAACCAGG
34400644 AAACCAGG
1 AAACCAGG
34400652 AAA
1 AAA
34400655 GAGAACCCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.56, C:0.22, G:0.22, T:0.00
Consensus pattern (8 bp):
AAACCAGG
Found at i:34403037 original size:214 final size:214
Alignment explanation
Indices: 34402658--34403087 Score: 815
Period size: 214 Copynumber: 2.0 Consensus size: 214
34402648 AACCACATTA
* * *
34402658 TGATCATGGTGAAACAGATTCCATATATAAGATCAAGGAGAACTGCAGAAGCATCATCCATTTGG
1 TGATCAAGGAGAAACAGATTCCATATATAAGATCAAGAAGAACTGCAGAAGCATCATCCATTTGG
34402723 GACTTAGTGAGCAACCCAGACTTTGTCTACATTGAGATGGTGTATCCTCACTATCTGAATAAAAT
66 GACTTAGTGAGCAACCCAGACTTTGTCTACATTGAGATGGTGTATCCTCACTATCTGAATAAAAT
*
34402788 GAGGAGTTTGAACTGCCCTGTAGGAGGTATTTCTCTCCTACGACATTGAAGATTTTCACCAACTT
131 GAGGAGTTTGAACTGCCCAGTAGGAGGTATTTCTCTCCTACGACATTGAAGATTTTCACCAACTT
34402853 TGGCACTTTCTTTTATATT
196 TGGCACTTTCTTTTATATT
34402872 TGATCAAGGAGAAACAGATTCCATATATAAGATCAAGAAGAACTGCAGAAGCATCATCCATTTGG
1 TGATCAAGGAGAAACAGATTCCATATATAAGATCAAGAAGAACTGCAGAAGCATCATCCATTTGG
*
34402937 GACTTAGTGAGCAACCCAGACTTTGTCTACATTGAGATGGTGTCTCCTCACTATCTGAATAAAAT
66 GACTTAGTGAGCAACCCAGACTTTGTCTACATTGAGATGGTGTATCCTCACTATCTGAATAAAAT
34403002 GAGGAGTTTGAACTGCCCAGTAGGAGGTATTTCTCTCCTACGACATTGAAGATTTTCACCAACTT
131 GAGGAGTTTGAACTGCCCAGTAGGAGGTATTTCTCTCCTACGACATTGAAGATTTTCACCAACTT
34403067 TGGCACTTTCTTTTATATT
196 TGGCACTTTCTTTTATATT
34403086 TG
1 TG
34403088 GACCAGTTGC
Statistics
Matches: 211, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
214 211 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (214 bp):
TGATCAAGGAGAAACAGATTCCATATATAAGATCAAGAAGAACTGCAGAAGCATCATCCATTTGG
GACTTAGTGAGCAACCCAGACTTTGTCTACATTGAGATGGTGTATCCTCACTATCTGAATAAAAT
GAGGAGTTTGAACTGCCCAGTAGGAGGTATTTCTCTCCTACGACATTGAAGATTTTCACCAACTT
TGGCACTTTCTTTTATATT
Found at i:34405798 original size:23 final size:24
Alignment explanation
Indices: 34405746--34405799 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 24
34405736 ACAAAAAGGT
*
34405746 AGATGTTGAACCAAAGAAAATAAC
1 AGATTTTGAACCAAAGAAAATAAC
34405770 ATGATTTTGAACCAAA-AAAACTAA-
1 A-GATTTTGAACCAAAGAAAA-TAAC
34405794 AGATTT
1 AGATTT
34405800 CAGAATACAC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 5 0.19
24 6 0.22
25 16 0.59
ACGTcount: A:0.52, C:0.11, G:0.13, T:0.24
Consensus pattern (24 bp):
AGATTTTGAACCAAAGAAAATAAC
Found at i:34413743 original size:17 final size:16
Alignment explanation
Indices: 34413715--34413767 Score: 97
Period size: 16 Copynumber: 3.2 Consensus size: 16
34413705 TTTGGTTCGC
34413715 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
34413731 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
34413748 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
34413764 TGTA
1 TGTA
34413768 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
16 20 0.56
17 16 0.44
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:34413832 original size:44 final size:45
Alignment explanation
Indices: 34413748--34413838 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
34413738 GGATTAGAGG
* * *
34413748 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
34413793 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
34413837 TG
1 TG
34413839 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:34417421 original size:485 final size:485
Alignment explanation
Indices: 34416512--34417558 Score: 2062
Period size: 485 Copynumber: 2.2 Consensus size: 485
34416502 AATGGGCATC
34416512 AAGGTGGTTTTTTTTCATAAGAAAATGTAATTAGAAGGGAGAAGAGATTTACAAATACAAATATT
1 AAGGTGGTTTTTTTTCATAAGAAAATGTAATTAGAAGGGAGAAGAGATTTACAAATACAAATATT
34416577 AAACCTCATATCATCAATTTGAAACCTACAGATTGGCATTAGCATATTTTTGGATTATCCTTGGA
66 AAACCTCATATCATCAATTTGAAACCTACAGATTGGCATTAGCATATTTTTGGATTATCCTTGGA
34416642 CTTGCAGAAAATAATTGATAAATTCCCCCAAGGTGGATGTAATTTGACGAATTTATAAAGGGATA
131 CTTGCAGAAAATAATTGATAAATTCCCCCAAGGTGGATGTAATTTGACGAATTTATAAAGGGATA
34416707 CCCTCAGTTCCTGGTTCTCATCTTTCTTTGCTAAATACATACAAGTTGAGGCATTCATTATATAA
196 CCCTCAGTTCCTGGTTCTCATCTTTCTTTGCTAAATACATACAAGTTGAGGCATTCATTATATAA
34416772 ATTGATGATCCAAGTAGTCTAGTTTTTCATTTGAATACAATACAGCAGCTGTATGTATGCATGTG
261 ATTGATGATCCAAGTAGTCTAGTTTTTCATTTGAATACAATACAGCAGCTGTATGTATGCATGTG
34416837 TGTTGTGTAAGCGCATAGATTGAAATATAGCATAGCATTAGCTCTTAATAAACCACTCCCATTTT
326 TGTTGTGTAAGCGCATAGATTGAAATATAGCATAGCATTAGCTCTTAATAAACCACTCCCATTTT
34416902 AGGTGGAACTGTGTAGACCTCTACCGCACTCGTTGCCCAGCATTTAGTCAGAGGATGTTCTCTCT
391 AGGTGGAACTGTGTAGACCTCTACCGCACTCGTTGCCCAGCATTTAGTCAGAGGATGTTCTCTCT
34416967 TCTTTTATCCCTTTATTCTACTCCTTTTTA
456 TCTTTTATCCCTTTATTCTACTCCTTTTTA
34416997 AAGGTGGTTTTTTTTCATAAGAAAATGTAATTAGAAGGGAGAAGAGATTTACAAATACAAATATT
1 AAGGTGGTTTTTTTTCATAAGAAAATGTAATTAGAAGGGAGAAGAGATTTACAAATACAAATATT
34417062 AAACCTCATATCATCAATTTGAAACCTACAGATTGGCATTAGCATATTTTTGGATTATCCTTGGA
66 AAACCTCATATCATCAATTTGAAACCTACAGATTGGCATTAGCATATTTTTGGATTATCCTTGGA
34417127 CTTGCAGAAAATAATTGATAAATTCCCCCAAGGTGGATGTAATTTGACGAATTTATAAAGGGATA
131 CTTGCAGAAAATAATTGATAAATTCCCCCAAGGTGGATGTAATTTGACGAATTTATAAAGGGATA
34417192 CCCTCAGTTCCTGGTTCTCATCTTTCTTTGCTAAATACATACAAGTTGAGGCATTCATTATATAA
196 CCCTCAGTTCCTGGTTCTCATCTTTCTTTGCTAAATACATACAAGTTGAGGCATTCATTATATAA
34417257 ATTGATGATCCAAGTAGTCTAGTTTTTCATTTGAATACAATACAGCAGCTGTATGTATGCATGTG
261 ATTGATGATCCAAGTAGTCTAGTTTTTCATTTGAATACAATACAGCAGCTGTATGTATGCATGTG
34417322 TGTTGTGTAAGCGCATAGATTGAAATATAGCATAGCATTAGCTCTTAATAAACCACTCCCATTTT
326 TGTTGTGTAAGCGCATAGATTGAAATATAGCATAGCATTAGCTCTTAATAAACCACTCCCATTTT
34417387 AGGTGGAACTGTGTAGACCTCTACCGCACTCGTTGCCCAGCATTTAGTCAGAGGATGTTCTCTCT
391 AGGTGGAACTGTGTAGACCTCTACCGCACTCGTTGCCCAGCATTTAGTCAGAGGATGTTCTCTCT
34417452 TCTTTTATCCCTTTATTCTACTCCTTTTTA
456 TCTTTTATCCCTTTATTCTACTCCTTTTTA
*
34417482 AAGGTGG--TTTTTTCAAAAAGAAAATGTAATTAGAAGGGAGAAGAGATTTACAAATACAAATAT
1 AAGGTGGTTTTTTTTC-ATAAGAAAATGTAATTAGAAGGGAGAAGAGATTTACAAATACAAATAT
34417545 TAAACCTCATATCA
65 TAAACCTCATATCA
34417559 GCAAATACAG
Statistics
Matches: 560, Mismatches: 1, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
483 7 0.01
484 61 0.11
485 492 0.88
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.35
Consensus pattern (485 bp):
AAGGTGGTTTTTTTTCATAAGAAAATGTAATTAGAAGGGAGAAGAGATTTACAAATACAAATATT
AAACCTCATATCATCAATTTGAAACCTACAGATTGGCATTAGCATATTTTTGGATTATCCTTGGA
CTTGCAGAAAATAATTGATAAATTCCCCCAAGGTGGATGTAATTTGACGAATTTATAAAGGGATA
CCCTCAGTTCCTGGTTCTCATCTTTCTTTGCTAAATACATACAAGTTGAGGCATTCATTATATAA
ATTGATGATCCAAGTAGTCTAGTTTTTCATTTGAATACAATACAGCAGCTGTATGTATGCATGTG
TGTTGTGTAAGCGCATAGATTGAAATATAGCATAGCATTAGCTCTTAATAAACCACTCCCATTTT
AGGTGGAACTGTGTAGACCTCTACCGCACTCGTTGCCCAGCATTTAGTCAGAGGATGTTCTCTCT
TCTTTTATCCCTTTATTCTACTCCTTTTTA
Found at i:34418110 original size:18 final size:18
Alignment explanation
Indices: 34418087--34418121 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
34418077 GTTTCAGACG
34418087 TGAGAAAGAAATGAGAAA
1 TGAGAAAGAAATGAGAAA
34418105 TGAGAAAGAAATGAGAA
1 TGAGAAAGAAATGAGAA
34418122 GACGGCTGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.29, T:0.11
Consensus pattern (18 bp):
TGAGAAAGAAATGAGAAA
Found at i:34424302 original size:19 final size:19
Alignment explanation
Indices: 34424278--34424314 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
34424268 TTACTTTCAA
34424278 TTTTT-GTTGATTTTCTTGC
1 TTTTTGGTTG-TTTTCTTGC
34424297 TTTTTGGTTGTTTTCTTG
1 TTTTTGGTTGTTTTCTTG
34424315 TATGGTGACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.03, C:0.08, G:0.19, T:0.70
Consensus pattern (19 bp):
TTTTTGGTTGTTTTCTTGC
Found at i:34433058 original size:1 final size:1
Alignment explanation
Indices: 34433011--34433048 Score: 76
Period size: 1 Copynumber: 38.0 Consensus size: 1
34433001 TCTCTCTTTC
34433011 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
34433049 GCATTTTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:34444999 original size:51 final size:51
Alignment explanation
Indices: 34444939--34445037 Score: 128
Period size: 51 Copynumber: 1.9 Consensus size: 51
34444929 ATATATATTA
*
34444939 TTTAGAATTAAGATCAAATTGAAACAATATGTAAACGATT-AAGGTTAATTT
1 TTTAGAATTAAGACCAAATTGAAACAATATGTAAACG-TTGAAGGTTAATTT
* * * * *
34444990 TTTAGAATTATGACCAATTTGACATAATATGTAAATGTTGAAGGTTAA
1 TTTAGAATTAAGACCAAATTGAAACAATATGTAAACGTTGAAGGTTAA
34445038 ATTTATTATT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 2 0.05
51 39 0.95
ACGTcount: A:0.42, C:0.06, G:0.15, T:0.36
Consensus pattern (51 bp):
TTTAGAATTAAGACCAAATTGAAACAATATGTAAACGTTGAAGGTTAATTT
Found at i:34446364 original size:61 final size:60
Alignment explanation
Indices: 34446260--34446400 Score: 158
Period size: 61 Copynumber: 2.4 Consensus size: 60
34446250 ATTGATGTTT
* * * * *
34446260 AATTTTTTTTTATCTAAGTTAGGTCTTGAAATTGATAATTGTTCCCACATTAGAGCTTAA
1 AATTTTTTTTTGTCTAAGTTAGGTCATGAAATTGACAAATGTTCCCACATTAGAACTTAA
* * * * * *
34446320 ATATTTTTTTTTGTCTGAGTTAGGTCATGAAGTTGGCAAATGTTCTCATATTAGAACTTGA
1 A-ATTTTTTTTTGTCTAAGTTAGGTCATGAAATTGACAAATGTTCCCACATTAGAACTTAA
*
34446381 AA-TTTATTTTGTCTAAGTTA
1 AATTTTTTTTTGTCTAAGTTA
34446401 ATCCTTAAAA
Statistics
Matches: 67, Mismatches: 13, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
59 16 0.24
60 2 0.03
61 49 0.73
ACGTcount: A:0.28, C:0.10, G:0.16, T:0.46
Consensus pattern (60 bp):
AATTTTTTTTTGTCTAAGTTAGGTCATGAAATTGACAAATGTTCCCACATTAGAACTTAA
Found at i:34446740 original size:10 final size:10
Alignment explanation
Indices: 34446725--34446749 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
34446715 GTTGTAAAAT
34446725 AAAATCATTA
1 AAAATCATTA
34446735 AAAATCATTA
1 AAAATCATTA
34446745 AAAAT
1 AAAAT
34446750 TAATAAACAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (10 bp):
AAAATCATTA
Found at i:34452098 original size:10 final size:10
Alignment explanation
Indices: 34452083--34452118 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
34452073 AGAATCGACG
34452083 AAAAATAAAT
1 AAAAATAAAT
*
34452093 AAAAATTAA-
1 AAAAATAAAT
34452102 AAAAATAAAT
1 AAAAATAAAT
34452112 AAAAATA
1 AAAAATA
34452119 CTAGAGAGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
9 8 0.35
10 15 0.65
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (10 bp):
AAAAATAAAT
Found at i:34457952 original size:21 final size:20
Alignment explanation
Indices: 34457924--34457962 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
34457914 TATAACTACA
*
34457924 TTAAATTATTTTTAAAATTT
1 TTAAATTATGTTTAAAATTT
34457944 TTAACATTATGTTTAAAAT
1 TTAA-ATTATGTTTAAAAT
34457963 GGAATTGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (20 bp):
TTAAATTATGTTTAAAATTT
Found at i:34458996 original size:31 final size:31
Alignment explanation
Indices: 34458951--34459016 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
34458941 AAAAAATAAT
* *
34458951 AATTCGACTCTTTTTGAAAGGTTGATGGTCA
1 AATTCGACTCTTTTTAAAAGCTTGATGGTCA
* *
34458982 AATTCGATTTTTTTTAAAAGCTTGATGGTCA
1 AATTCGACTCTTTTTAAAAGCTTGATGGTCA
34459013 AATT
1 AATT
34459017 TAGTTAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.11, G:0.18, T:0.42
Consensus pattern (31 bp):
AATTCGACTCTTTTTAAAAGCTTGATGGTCA
Found at i:34459056 original size:25 final size:26
Alignment explanation
Indices: 34459008--34459056 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
34458998 AAAGCTTGAT
* *
34459008 GGTCAAATTTAGTTAAAAAGAATAAG
1 GGTCAAATTTAGTAAAAAAAAATAAG
*
34459034 GGTCAAA-TTGGTAAAAAAAAATA
1 GGTCAAATTTAGTAAAAAAAAATA
34459057 TAAACATTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 13 0.65
26 7 0.35
ACGTcount: A:0.53, C:0.04, G:0.18, T:0.24
Consensus pattern (26 bp):
GGTCAAATTTAGTAAAAAAAAATAAG
Found at i:34463139 original size:153 final size:153
Alignment explanation
Indices: 34462833--34463130 Score: 535
Period size: 153 Copynumber: 1.9 Consensus size: 153
34462823 CTTATGTAAT
*
34462833 TACATCCAAATTCAATTACTAGGTGACTTTCCAAACATTACTTTAAGGTTTGTTTTGACATCGGA
1 TACATCCAAATCCAATTACTAGGTGACTTTCCAAACATTACTTTAAGGTTTGTTTTGACATCGGA
* *
34462898 GAGTAATTGGATGAAAGTGTAATTATCAAGGTAGTAAATGCAAGCTCTTGTAATTACAAGGAATT
66 GAGTAATTGGATGAAAGTGTAATTATCAAGGTAGTAAATACAAGCTCTTGTAACTACAAGGAATT
34462963 ATAATTCTCTAGACACATGTAGA
131 ATAATTCTCTAGACACATGTAGA
*
34462986 TACATCCAAGTCCAATTACTAGGTGACTTTCCAAACATTACTTTAAGGTTTGTTTTGACATCGGA
1 TACATCCAAATCCAATTACTAGGTGACTTTCCAAACATTACTTTAAGGTTTGTTTTGACATCGGA
*
34463051 GAGTAATTGGATGAAAGTGTAATTA-CTAAGGTAGTAAATACAAGCTCTTGTAACTACGAGGAAT
66 GAGTAATTGGATGAAAGTGTAATTATC-AAGGTAGTAAATACAAGCTCTTGTAACTACAAGGAAT
34463115 TATAATTCTCTAGACA
130 TATAATTCTCTAGACA
34463131 TGTTTAGATG
Statistics
Matches: 139, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
152 1 0.01
153 138 0.99
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (153 bp):
TACATCCAAATCCAATTACTAGGTGACTTTCCAAACATTACTTTAAGGTTTGTTTTGACATCGGA
GAGTAATTGGATGAAAGTGTAATTATCAAGGTAGTAAATACAAGCTCTTGTAACTACAAGGAATT
ATAATTCTCTAGACACATGTAGA
Found at i:34465227 original size:33 final size:31
Alignment explanation
Indices: 34465182--34465244 Score: 90
Period size: 33 Copynumber: 2.0 Consensus size: 31
34465172 TTAATTATTT
34465182 TTTAATTTTAAAAATTCAAACAAATATAAAAAA
1 TTTAATTTTAAAAATT-AAA-AAATATAAAAAA
* *
34465215 TTTATTTTTAAAAATTAAAAAGTATAAAAA
1 TTTAATTTTAAAAATTAAAAAATATAAAAA
34465245 TATATCTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 10 0.36
32 3 0.11
33 15 0.54
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.37
Consensus pattern (31 bp):
TTTAATTTTAAAAATTAAAAAATATAAAAAA
Found at i:34465255 original size:31 final size:33
Alignment explanation
Indices: 34465187--34465256 Score: 92
Period size: 31 Copynumber: 2.2 Consensus size: 33
34465177 TATTTTTTAA
*
34465187 TTTTAAAAATTCAAACAAATATAAAAAATTTAT
1 TTTTAAAAATTCAAACAAATATAAAAAATATAT
*
34465220 TTTTAAAAATT-AAA-AAGTAT-AAAAATATAT
1 TTTTAAAAATTCAAACAAATATAAAAAATATAT
34465250 CTTTTAA
1 -TTTTAA
34465257 TATTTTCAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 9 0.26
31 11 0.32
32 3 0.09
33 11 0.32
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.39
Consensus pattern (33 bp):
TTTTAAAAATTCAAACAAATATAAAAAATATAT
Found at i:34467780 original size:47 final size:47
Alignment explanation
Indices: 34467705--34467794 Score: 126
Period size: 47 Copynumber: 1.9 Consensus size: 47
34467695 TTGCTTCTGG
* * *
34467705 AAGTTAATATCATTGCATAGGTGCATTGATGGTAAATTTTGACTCTA
1 AAGTTAATATCATAGCATAGCTGCATTGATGGCAAATTTTGACTCTA
* * *
34467752 AAGTTAGTATGATAGCATAGCTGTATTGATGGCAAATTTTGAC
1 AAGTTAATATCATAGCATAGCTGCATTGATGGCAAATTTTGAC
34467795 AGAAAATACT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 37 1.00
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.37
Consensus pattern (47 bp):
AAGTTAATATCATAGCATAGCTGCATTGATGGCAAATTTTGACTCTA
Found at i:34468105 original size:53 final size:54
Alignment explanation
Indices: 34468009--34468122 Score: 194
Period size: 54 Copynumber: 2.1 Consensus size: 54
34467999 CTCAATTTTG
* *
34468009 GAAAAT-AAAAATTTGAAATACCATTTTTATCTTGTCTATTTTTTACATTATTA
1 GAAAATAAAAAATATGAAATACCATTTTTATCTTGTCTATTTTTTACATAATTA
*
34468062 GAAAATAAAAAATATGAAATCCCATTTTTATCTTGTCTATTTTTTACATAATTA
1 GAAAATAAAAAATATGAAATACCATTTTTATCTTGTCTATTTTTTACATAATTA
34468116 GAAAATA
1 GAAAATA
34468123 TCATTGTAAT
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
53 6 0.11
54 51 0.89
ACGTcount: A:0.41, C:0.10, G:0.06, T:0.43
Consensus pattern (54 bp):
GAAAATAAAAAATATGAAATACCATTTTTATCTTGTCTATTTTTTACATAATTA
Found at i:34476809 original size:15 final size:15
Alignment explanation
Indices: 34476789--34476820 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
34476779 ATCGAGCCAA
34476789 TAACAATTAAATGAT
1 TAACAATTAAATGAT
34476804 TAACAATTAAATGAT
1 TAACAATTAAATGAT
34476819 TA
1 TA
34476821 TTAATAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.34
Consensus pattern (15 bp):
TAACAATTAAATGAT
Found at i:34477826 original size:8 final size:9
Alignment explanation
Indices: 34477773--34477828 Score: 53
Period size: 9 Copynumber: 6.2 Consensus size: 9
34477763 AAATATATTT
34477773 ATTTTTT-A
1 ATTTTTTAA
34477781 ATTTTTT-A
1 ATTTTTTAA
**
34477789 ATTTTAAAA
1 ATTTTTTAA
34477798 TACTTTTTTAA
1 -A-TTTTTTAA
34477809 ATTTTTTAA
1 ATTTTTTAA
*
34477818 ATTTTTAAA
1 ATTTTTTAA
34477827 AT
1 AT
34477829 ACTTTTTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
8 13 0.32
9 19 0.47
10 2 0.05
11 6 0.15
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (9 bp):
ATTTTTTAA
Found at i:34477826 original size:30 final size:30
Alignment explanation
Indices: 34477774--34477850 Score: 113
Period size: 31 Copynumber: 2.6 Consensus size: 30
34477764 AATATATTTA
34477774 TTTTTTAATTTTTT-AA-TTTTAAAATACT
1 TTTTTTAATTTTTTAAATTTTTAAAATACT
*
34477802 TTTTTAAATTTTTTAAATTTTTAAAATACTT
1 TTTTTTAATTTTTTAAATTTTTAAAATAC-T
*
34477833 TTTTTTAATTTTTAAAAT
1 TTTTTTAATTTTTTAAAT
34477851 AAATTTTTGG
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
28 13 0.30
29 2 0.05
30 11 0.26
31 17 0.40
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.64
Consensus pattern (30 bp):
TTTTTTAATTTTTTAAATTTTTAAAATACT
Found at i:34477857 original size:22 final size:22
Alignment explanation
Indices: 34477806--34477858 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
34477796 AATACTTTTT
34477806 TAAATTTTTTAAATTTTTAAAA
1 TAAATTTTTTAAATTTTTAAAA
** *
34477828 TACTTTTTTTTAATTTTTAAAA
1 TAAATTTTTTAAATTTTTAAAA
34477850 TAAATTTTT
1 TAAATTTTT
34477859 GGTATTTTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (22 bp):
TAAATTTTTTAAATTTTTAAAA
Done.