Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 223 of 240
Found at i:67028817 original size:27 final size:30
Alignment explanation
Indices: 67028787--67028846 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
67028777 TTTACACTAT
*
67028787 TATATAC-ATT-TTTCTA-ATATTATAT-TG
1 TATATACTATTGTTTATATATA-TATATGTG
67028814 TATATACTATTGTTTATATATATATATGTG
1 TATATACTATTGTTTATATATATATATGTG
67028844 TAT
1 TAT
67028847 GTATTTATGT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
27 7 0.25
28 3 0.11
29 10 0.36
30 8 0.29
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (30 bp):
TATATACTATTGTTTATATATATATATGTG
Found at i:67029255 original size:38 final size:37
Alignment explanation
Indices: 67029171--67029265 Score: 97
Period size: 38 Copynumber: 2.5 Consensus size: 37
67029161 TATACGTACT
*
67029171 TATACATACTTAAATATATTTTTCATATTTCATAATTC
1 TATACATACTTAAATATATTTTGCATATTT-ATAATTC
* *
67029209 T-TATATACTTACATATATTTATGCATATTT-TACA-TC
1 TATACATACTTAAATATATTT-TGCATATTTATA-ATTC
*
67029245 ATATACATACTTATATATATT
1 -TATACATACTTAAATATATT
67029266 CTTTATATTC
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
36 4 0.08
37 19 0.40
38 25 0.52
ACGTcount: A:0.37, C:0.13, G:0.01, T:0.49
Consensus pattern (37 bp):
TATACATACTTAAATATATTTTGCATATTTATAATTC
Found at i:67033864 original size:19 final size:19
Alignment explanation
Indices: 67033837--67033910 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 19
67033827 TTATATTTAT
*
67033837 ATATATTATAATTTTTTACG
1 ATAT-TTATAATTTTTTAAG
** *
67033857 ATATTTATAAAATTTTAAA
1 ATATTTATAATTTTTTAAG
67033876 ATATTTTATATATTTTTTAAG
1 ATA-TTTATA-ATTTTTTAAG
*
67033897 ATTTTTAT-ATTTTT
1 ATATTTATAATTTTT
67033911 ATTAAAATTT
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
18 6 0.14
19 14 0.32
20 15 0.34
21 9 0.20
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.59
Consensus pattern (19 bp):
ATATTTATAATTTTTTAAG
Found at i:67033892 original size:20 final size:20
Alignment explanation
Indices: 67033869--67033920 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 20
67033859 ATTTATAAAA
67033869 TTTTAAAATATTTTATATATT
1 TTTTAAAAT-TTTTATATATT
*
67033890 TTTTAAGATTTTTATAT-TT
1 TTTTAAAATTTTTATATATT
67033909 TTATTAAAATTT
1 TT-TTAAAATTT
67033921 AATAATATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 4 0.14
20 16 0.57
21 8 0.29
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTTAAAATTTTTATATATT
Found at i:67033932 original size:48 final size:47
Alignment explanation
Indices: 67033829--67033933 Score: 115
Period size: 48 Copynumber: 2.2 Consensus size: 47
67033819 TTATATTTTT
*
67033829 ATATTTATATATATTATAATTTTTTACGATATTTATAAAATTTTAAA
1 ATATTTATATATATTATAAATTTTTACGATATTTATAAAATTTTAAA
* * * *
67033876 ATATTTTATATATTTTTTAAGATTTTTA-TATTTTTATTAAAA-TTTAATA
1 ATA-TTTATATATATTATAA-ATTTTTACGATATTTA-TAAAATTTTAA-A
67033925 ATATTTATA
1 ATATTTATA
67033934 GCCTTTATTG
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
47 3 0.06
48 31 0.63
49 15 0.31
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (47 bp):
ATATTTATATATATTATAAATTTTTACGATATTTATAAAATTTTAAA
Found at i:67034155 original size:86 final size:84
Alignment explanation
Indices: 67033986--67034197 Score: 268
Period size: 88 Copynumber: 2.5 Consensus size: 84
67033976 TAATAAAAGC
*
67033986 AGGGGCTTAATTGCTTTTTTGAAAAAGTTTGAGGGCTTTTTAATTCATTTTGAAAGTTCAAGTAC
1 AGGGGCTTAATTGCTTTTTTGAAAAAGCTTGAGGGCTTTTTAATTCATTTTGAAAGTTCAAGTAC
*
67034051 CCAATTGAGTGCAAAAAAAA
66 CCAAATGAGTGC-AAAAAAA
* * *
67034071 TAGGGGCTTAATTGCTTTTTTGAAAAGGCTTGAGGGTCTTTTTTGATGT-ATTTTGAAAGTTTAA
1 -AGGGGCTTAATTGCTTTTTTGAAAAAGCTTGAGGG-C-TTTTTAAT-TCATTTTGAAAGTTCAA
*
67034135 GTACCTAAATGAGTGCAAAAAAA
62 GTACCCAAATGAGTGCAAAAAAA
* * *
67034158 A--GGCTTAATTGCTTTTTTTGAAAAAGTTTGAAGACTTTTT
1 AGGGGCTTAATTGC-TTTTTTGAAAAAGCTTGAGGGCTTTTT
67034198 GCACCCTTAA
Statistics
Matches: 112, Mismatches: 10, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
83 5 0.04
84 12 0.11
85 17 0.15
86 34 0.30
87 8 0.07
88 35 0.31
89 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.39
Consensus pattern (84 bp):
AGGGGCTTAATTGCTTTTTTGAAAAAGCTTGAGGGCTTTTTAATTCATTTTGAAAGTTCAAGTAC
CCAAATGAGTGCAAAAAAA
Found at i:67034339 original size:21 final size:21
Alignment explanation
Indices: 67034301--67034341 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
67034291 TATAAATTAA
**
67034301 AATAATATAATATTTAATATG
1 AATAATATAATAAATAATATG
*
67034322 AATAATATATTAAATAATAT
1 AATAATATAATAAATAATAT
67034342 AGTTTTATGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (21 bp):
AATAATATAATAAATAATATG
Found at i:67035202 original size:32 final size:32
Alignment explanation
Indices: 67035166--67035231 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
67035156 GTATAAAAAT
* *
67035166 ATCTTTTTTTTAAATGTATAAAATGCACGGGG
1 ATCTTTTTTTTAAATGCATAAAATACACGGGG
67035198 ATCTTTTTTTTAAATGCATAAAATACACGGGG
1 ATCTTTTTTTTAAATGCATAAAATACACGGGG
67035230 AT
1 AT
67035232 TGCCATAGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (32 bp):
ATCTTTTTTTTAAATGCATAAAATACACGGGG
Found at i:67039099 original size:10 final size:9
Alignment explanation
Indices: 67039064--67039103 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
67039054 ACACATGATA
*
67039064 AAAAATGAT
1 AAAAATTAT
67039073 AAAAATTAT
1 AAAAATTAT
*
67039082 ATAAATTAAT
1 AAAAATT-AT
67039092 AAAAATTAT
1 AAAAATTAT
67039101 AAA
1 AAA
67039104 CAAATTTTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
9 19 0.70
10 8 0.30
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:67043375 original size:24 final size:26
Alignment explanation
Indices: 67043319--67043392 Score: 98
Period size: 24 Copynumber: 2.8 Consensus size: 26
67043309 GAAACAGTTG
67043319 ATATGAAAAATAAAATACGGGAAAAAAACA
1 ATATGAAAAATAAAATA-GGG---AAAACA
67043349 ATATGAAAAATAAAATAGGG-AAA-A
1 ATATGAAAAATAAAATAGGGAAAACA
67043373 ATATGAAAAATAAAATAGGG
1 ATATGAAAAATAAAATAGGG
67043393 GAGAAAGAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
24 21 0.48
25 3 0.07
29 3 0.07
30 17 0.39
ACGTcount: A:0.65, C:0.03, G:0.16, T:0.16
Consensus pattern (26 bp):
ATATGAAAAATAAAATAGGGAAAACA
Found at i:67043389 original size:14 final size:15
Alignment explanation
Indices: 67043323--67043375 Score: 65
Period size: 15 Copynumber: 3.5 Consensus size: 15
67043313 CAGTTGATAT
67043323 GAAAAATAAAATACGG
1 GAAAAATAAAATA-GG
*
67043339 GAAAAA-AACAATA-T
1 GAAAAATAA-AATAGG
67043353 GAAAAATAAAATAGG
1 GAAAAATAAAATAGG
67043368 GAAAAATA
1 GAAAAATA
67043376 TGAAAAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
14 10 0.31
15 12 0.38
16 10 0.31
ACGTcount: A:0.68, C:0.04, G:0.15, T:0.13
Consensus pattern (15 bp):
GAAAAATAAAATAGG
Found at i:67043408 original size:25 final size:24
Alignment explanation
Indices: 67043353--67043408 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 24
67043343 AAAACAATAT
* *
67043353 GAAAAATAAAATAGGGAAAAATAT
1 GAAAAATAAAATAGGGAAAAAGAA
*
67043377 GAAAAATAAAATAGGGGAGAAAGAA
1 GAAAAATAAAATA-GGGAAAAAGAA
*
67043402 GAGAAAT
1 GAAAAAT
67043409 GGTTGATTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 13 0.48
25 14 0.52
ACGTcount: A:0.64, C:0.00, G:0.23, T:0.12
Consensus pattern (24 bp):
GAAAAATAAAATAGGGAAAAAGAA
Found at i:67043443 original size:29 final size:29
Alignment explanation
Indices: 67043401--67043458 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
67043391 GGGAGAAAGA
67043401 AGAGAAATGGTTGATTTGAAAAATAAAAT
1 AGAGAAATGGTTGATTTGAAAAATAAAAT
* *
67043430 AGAGATATGGTTGATTTGGAAAATAAAAT
1 AGAGAAATGGTTGATTTGAAAAATAAAAT
67043459 TATCTAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.22, T:0.29
Consensus pattern (29 bp):
AGAGAAATGGTTGATTTGAAAAATAAAAT
Found at i:67046444 original size:24 final size:25
Alignment explanation
Indices: 67046397--67046444 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
67046387 CCGAGGGGAA
*
67046397 AATATGAAAAATGAAATAGTGAAAAC
1 AATATGAAAAA-GAAATAGAGAAAAC
67046423 AATATGAAAAA-AAATAGAGAAA
1 AATATGAAAAAGAAATAGAGAAA
67046445 TGGTTATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 10 0.48
26 11 0.52
ACGTcount: A:0.67, C:0.02, G:0.15, T:0.17
Consensus pattern (25 bp):
AATATGAAAAAGAAATAGAGAAAAC
Found at i:67046466 original size:21 final size:21
Alignment explanation
Indices: 67046432--67046479 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 21
67046422 CAATATGAAA
67046432 AAAAATAGAGAAATGGTT-AT
1 AAAAATAGAGAAATGGTTGAT
*
67046452 AAAAATGGAGAAAATGGTTGAT
1 AAAAATAGAG-AAATGGTTGAT
67046474 ATAAAA
1 A-AAAA
67046480 GTAAAATAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 9 0.38
21 8 0.33
22 3 0.12
23 4 0.17
ACGTcount: A:0.56, C:0.00, G:0.21, T:0.23
Consensus pattern (21 bp):
AAAAATAGAGAAATGGTTGAT
Found at i:67058225 original size:17 final size:17
Alignment explanation
Indices: 67058183--67058227 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
67058173 ACAAAAATAA
* *
67058183 TATATTTTTTATTATAT
1 TATATTTTATATTAAAT
67058200 T-TATATTTATATTAAAT
1 TATAT-TTTATATTAAAT
67058217 TATATTTTATA
1 TATATTTTATA
67058228 ATTTAAATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 3 0.12
17 18 0.75
18 3 0.12
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TATATTTTATATTAAAT
Found at i:67058320 original size:22 final size:23
Alignment explanation
Indices: 67058278--67058322 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
67058268 GTATTCGAAT
67058278 AATATATGAATTATATAAATTAA
1 AATATATGAATTATATAAATTAA
* *
67058301 AATATATTATTTA-ATAAATTAA
1 AATATATGAATTATATAAATTAA
67058323 GAAAATAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (23 bp):
AATATATGAATTATATAAATTAA
Found at i:67063515 original size:31 final size:28
Alignment explanation
Indices: 67063480--67063572 Score: 78
Period size: 31 Copynumber: 3.1 Consensus size: 28
67063470 AAATTATATG
67063480 TTTTTACGATAGTAAAAATATAATTTTATTA
1 TTTTTA-GA-AGT-AAAATATAATTTTATTA
* * * *
67063511 TTTTTAAAAAATAAATTATTATTTTATTA
1 TTTTT-AGAAGTAAAATATAATTTTATTA
*
67063540 TTTTTAGAAGGGTCAAAATGTAATTTTATTA
1 TTTTTAGAA--GT-AAAATATAATTTTATTA
67063571 TT
1 TT
67063573 ATTAATTTAA
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
28 3 0.06
29 20 0.41
30 3 0.06
31 22 0.45
32 1 0.02
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.51
Consensus pattern (28 bp):
TTTTTAGAAGTAAAATATAATTTTATTA
Found at i:67066117 original size:30 final size:30
Alignment explanation
Indices: 67066083--67066152 Score: 122
Period size: 30 Copynumber: 2.3 Consensus size: 30
67066073 GTCACTACTA
67066083 ACCATTTTCCGTTACAAACTTAACAGAGCT
1 ACCATTTTCCGTTACAAACTTAACAGAGCT
*
67066113 ACCATTTTCCGTTACAAACTTAACGGAGCT
1 ACCATTTTCCGTTACAAACTTAACAGAGCT
*
67066143 GCCATTTTCC
1 ACCATTTTCC
67066153 ATCCTTCTCC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.29, C:0.29, G:0.11, T:0.31
Consensus pattern (30 bp):
ACCATTTTCCGTTACAAACTTAACAGAGCT
Found at i:67067189 original size:17 final size:17
Alignment explanation
Indices: 67067152--67067199 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
67067142 GAATTTAGAA
*
67067152 GAATTTT-TGAATTAGT
1 GAATTTTGTGATTTAGT
*
67067168 GAATTTTGTGATTTATT
1 GAATTTTGTGATTTAGT
67067185 GAATTTTGTGATTTA
1 GAATTTTGTGATTTA
67067200 AAAAGAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 7 0.24
17 22 0.76
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (17 bp):
GAATTTTGTGATTTAGT
Found at i:67069561 original size:19 final size:20
Alignment explanation
Indices: 67069532--67069570 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
67069522 AATAAAGTTT
67069532 TATAGTATGTGTGTATGGTA
1 TATAGTATGTGTGTATGGTA
*
67069552 TATA-TATGTGTGTGTGGTA
1 TATAGTATGTGTGTATGGTA
67069571 ATTTAGATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (20 bp):
TATAGTATGTGTGTATGGTA
Found at i:67069822 original size:18 final size:19
Alignment explanation
Indices: 67069795--67069832 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
67069785 AATACATTTG
* *
67069795 TATTTGATG-CATGATAAT
1 TATTTAATGCCATGAGAAT
67069813 TATTTAATGCCATGAGAAT
1 TATTTAATGCCATGAGAAT
67069832 T
1 T
67069833 TGTTTATTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.34, C:0.08, G:0.16, T:0.42
Consensus pattern (19 bp):
TATTTAATGCCATGAGAAT
Found at i:67071222 original size:46 final size:46
Alignment explanation
Indices: 67071155--67071339 Score: 268
Period size: 46 Copynumber: 4.0 Consensus size: 46
67071145 CATGGCAAAG
*
67071155 TGTGAAAAATAGGTATGGTATTTCGAT-AAGAAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCGATGAAG-AAAACCATACTGAGT
*
67071201 TGTGAAAAGTAGGTATGGTATTTCGATAAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCGATGAAGAAAACCATACTGAGT
* **
67071247 TGTGAAAAGTAGGTATGGTGTTTC-AGTGAAGAAAGTCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCGA-TGAAGAAAACCATACTGAGT
*
67071293 TGTGAAAAGTAGGTATGGTATTCCCG-TGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATT-TCGATGAAGAAAACCATACTGAGT
67071339 T
1 T
67071340 ATAGCAATGT
Statistics
Matches: 126, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
45 1 0.01
46 121 0.96
47 4 0.03
ACGTcount: A:0.37, C:0.09, G:0.25, T:0.29
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTATTTCGATGAAGAAAACCATACTGAGT
Found at i:67076154 original size:46 final size:46
Alignment explanation
Indices: 67076076--67076201 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
67076066 ACATTGCTAT
* **
67076076 AACTCAGTATGGTTTTCTTCA-CGGGATACCATACCTACATTTCAC
1 AACTCAGTATGGTTTTCTTTATCGAAATACCATACCTACATTTCAC
*
67076121 AACTCAGTATGGTTTTCTTTATCGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTATCGAAATACCATACCTACATTTCAC
*
67076167 AACTCAGTATGGTTTTCCTTATCGAAATACCATAC
1 AACTCAGTATGGTTTTCTTTATCGAAATACCATAC
67076202 TTAATTTTCA
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
45 20 0.27
46 55 0.73
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.36
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTTATCGAAATACCATACCTACATTTCAC
Found at i:67077485 original size:16 final size:17
Alignment explanation
Indices: 67077439--67077486 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
67077429 AAATTCTTTT
67077439 TAAATCACAAAATTCAA
1 TAAATCACAAAATTCAA
*
67077456 TAAATCACAAAATTCAC
1 TAAATCACAAAATTCAA
*
67077473 TAATTCA-AAAATTC
1 TAAATCACAAAATTC
67077487 TTCTAAATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 7 0.24
17 22 0.76
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (17 bp):
TAAATCACAAAATTCAA
Found at i:67077675 original size:30 final size:30
Alignment explanation
Indices: 67077639--67077708 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
67077629 TGATAGAAGG
*
67077639 ATGGAAAATGACAGCTCCGTTAAGTCTGTA
1 ATGGAAAATGACAACTCCGTTAAGTCTGTA
** * * *
67077669 ATGGAAAATGGTAACTCTGTTACGTTTGTA
1 ATGGAAAATGACAACTCCGTTAAGTCTGTA
67077699 ATGGAAAATG
1 ATGGAAAATG
67077709 GTTAGTGGTG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.30
Consensus pattern (30 bp):
ATGGAAAATGACAACTCCGTTAAGTCTGTA
Found at i:67078560 original size:20 final size:20
Alignment explanation
Indices: 67078520--67078574 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
67078510 GTAAATATTC
* *
67078520 AATAATTTTATAATAGGTTT
1 AATAATTTTATAAGAGATTT
* *
67078540 AGTAGTTTTATAAGAGATTT
1 AATAATTTTATAAGAGATTT
*
67078560 AATAATTTTGTAAGA
1 AATAATTTTATAAGA
67078575 AATTCAATTA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (20 bp):
AATAATTTTATAAGAGATTT
Found at i:67078587 original size:20 final size:20
Alignment explanation
Indices: 67078503--67078587 Score: 55
Period size: 20 Copynumber: 4.3 Consensus size: 20
67078493 TAAACATTAG
* *
67078503 TAATTTTGTAA-ATATTCAA
1 TAATTTTATAAGAAATTCAA
* ** * *
67078522 TAATTTTATAATAGGTTTAG
1 TAATTTTATAAGAAATTCAA
* * *
67078542 TAGTTTTATAAGAGATTTAA
1 TAATTTTATAAGAAATTCAA
*
67078562 TAATTTTGTAAGAAATTCAA
1 TAATTTTATAAGAAATTCAA
*
67078582 TTATTT
1 TAATTT
67078588 ACAAAGTTGT
Statistics
Matches: 51, Mismatches: 14, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
19 10 0.20
20 41 0.80
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (20 bp):
TAATTTTATAAGAAATTCAA
Found at i:67078751 original size:57 final size:57
Alignment explanation
Indices: 67078637--67078758 Score: 145
Period size: 57 Copynumber: 2.1 Consensus size: 57
67078627 AAATTTTTCG
** * * * **
67078637 GTAATTTGGTAAGAGATTCAATAATTTACAAAATTATAAGAAATTAAGCAAGTATTA
1 GTAATTTTATAAGAGATTCAAAAATTTACAAAATTATAACAAACTAAGCAAACATTA
** * *
67078694 GTAATTTTATAAGAGATTCAAAAATTTACAATGTTATAACAAACTAGGTAAACATTA
1 GTAATTTTATAAGAGATTCAAAAATTTACAAAATTATAACAAACTAAGCAAACATTA
67078751 GTAATTTT
1 GTAATTTT
67078759 GAAAGAAATT
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.35
Consensus pattern (57 bp):
GTAATTTTATAAGAGATTCAAAAATTTACAAAATTATAACAAACTAAGCAAACATTA
Found at i:67078789 original size:20 final size:20
Alignment explanation
Indices: 67078750--67078826 Score: 63
Period size: 20 Copynumber: 4.0 Consensus size: 20
67078740 GGTAAACATT
* **
67078750 AGTAATTTTGAAAGAAATTC
1 AGTAATTTTGTAAGTGATTC
67078770 AGTAATTTTGTAAGTGATTC
1 AGTAATTTTGTAAGTGATTC
* * *
67078790 AATAAATTT-TAAGATG-TGC
1 AGTAATTTTGTAAG-TGATTC
67078809 AGTAA-TTTGTAAG-GATTC
1 AGTAATTTTGTAAGTGATTC
67078827 CAATAATATA
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
17 1 0.02
18 5 0.11
19 14 0.30
20 26 0.57
ACGTcount: A:0.38, C:0.05, G:0.18, T:0.39
Consensus pattern (20 bp):
AGTAATTTTGTAAGTGATTC
Found at i:67078833 original size:19 final size:18
Alignment explanation
Indices: 67078766--67078833 Score: 50
Period size: 19 Copynumber: 3.6 Consensus size: 18
67078756 TTTGAAAGAA
*
67078766 ATTCAGTAATTTTGTAAGTG
1 ATTCAATAA-TTTGTAAG-G
67078786 ATTCAATAAATTT-TAA-G
1 ATTCAAT-AATTTGTAAGG
*
67078803 ATGTGCAGTAATTTGTAAGG
1 AT-T-CAATAATTTGTAAGG
67078823 ATTCCAATAAT
1 ATT-CAATAAT
67078834 ATATATAGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 11
0.72 0.07 0.20
Matches are distributed among these distances:
17 3 0.08
18 6 0.15
19 16 0.41
20 12 0.31
21 2 0.05
ACGTcount: A:0.37, C:0.07, G:0.16, T:0.40
Consensus pattern (18 bp):
ATTCAATAATTTGTAAGG
Found at i:67082297 original size:19 final size:18
Alignment explanation
Indices: 67082260--67082300 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 18
67082250 TATAAAAACA
67082260 TTAATTAATATTTGAATT
1 TTAATTAATATTTGAATT
*
67082278 TTAATTGAATAATTTGATTT
1 TTAATT-AAT-ATTTGAATT
67082298 TTA
1 TTA
67082301 TAATGTTGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 6 0.30
19 3 0.15
20 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (18 bp):
TTAATTAATATTTGAATT
Found at i:67083047 original size:16 final size:16
Alignment explanation
Indices: 67083025--67083061 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
67083015 TCAAACGCTG
67083025 TTTAAAAA-ATTAATT
1 TTTAAAAATATTAATT
67083040 TATTAAAAATATTAATT
1 T-TTAAAAATATTAATT
67083057 TTTAA
1 TTTAA
67083062 TTGATTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 1 0.05
16 11 0.55
17 8 0.40
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TTTAAAAATATTAATT
Found at i:67085727 original size:18 final size:18
Alignment explanation
Indices: 67085713--67085761 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
67085703 ATACAGCTTG
67085713 TATGCATGCTGCAGCATT
1 TATGCATGCTGCAGCATT
*
67085731 TGTGCATGCTGCAGCATT
1 TATGCATGCTGCAGCATT
* *
67085749 TGTGCATGTTGCA
1 TATGCATGCTGCA
67085762 ATGTAATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.18, C:0.20, G:0.27, T:0.35
Consensus pattern (18 bp):
TATGCATGCTGCAGCATT
Found at i:67101146 original size:19 final size:20
Alignment explanation
Indices: 67101103--67101148 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
67101093 AAATTTTGGA
67101103 AATTTTTAATAAACATTTTG
1 AATTTTTAATAAACATTTTG
*
67101123 AATTTTTAA-AAATTATTTTG
1 AATTTTTAATAAA-CATTTTG
67101143 -ATTTTT
1 AATTTTT
67101149 TTGTAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (20 bp):
AATTTTTAATAAACATTTTG
Found at i:67102215 original size:16 final size:17
Alignment explanation
Indices: 67102194--67102225 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
67102184 TTATACACAT
67102194 GTAATT-ACAAAAAAAC
1 GTAATTAACAAAAAAAC
67102210 GTAATTAACAAAAAAA
1 GTAATTAACAAAAAAA
67102226 ATTACCAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.66, C:0.09, G:0.06, T:0.19
Consensus pattern (17 bp):
GTAATTAACAAAAAAAC
Found at i:67103358 original size:14 final size:15
Alignment explanation
Indices: 67103339--67103367 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
67103329 CTTTAGTAAA
67103339 TTTAATAGA-ATAAT
1 TTTAATAGAGATAAT
67103353 TTTAATAGAGATAAT
1 TTTAATAGAGATAAT
67103368 AATTGAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.41
Consensus pattern (15 bp):
TTTAATAGAGATAAT
Found at i:67110920 original size:25 final size:25
Alignment explanation
Indices: 67110872--67110920 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
67110862 TAATAAACAA
*
67110872 TTTAAAAAAATTAATTAGACTTTTT
1 TTTAAAAAAATTAATTAGAATTTTT
*
67110897 TTTAACAAAAATTCATTA-AATTTT
1 TTTAA-AAAAATTAATTAGAATTTT
67110921 AAAAATTCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (25 bp):
TTTAAAAAAATTAATTAGAATTTTT
Found at i:67112813 original size:21 final size:21
Alignment explanation
Indices: 67112761--67112813 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 21
67112751 TTTAAAAAAA
*
67112761 TTAACTCTATTAAACAATAAATG
1 TTAACT-T-TTAAAAAATAAATG
*
67112784 ATATA-TTTTAAAAAATAAATG
1 TTA-ACTTTTAAAAAATAAATG
67112805 TTAACTTTT
1 TTAACTTTT
67112814 TCCAATTTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
20 1 0.04
21 19 0.76
22 1 0.04
23 3 0.12
24 1 0.04
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.42
Consensus pattern (21 bp):
TTAACTTTTAAAAAATAAATG
Found at i:67121299 original size:22 final size:21
Alignment explanation
Indices: 67121269--67121313 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
67121259 TTTTTAAGTT
67121269 TTTTAAAAT-ATGTATAATTAA
1 TTTTAAAATAATGTAT-ATTAA
*
67121290 TTTTATAAATAATTTATATTAA
1 TTTTA-AAATAATGTATATTAA
67121312 TT
1 TT
67121314 ACTTCAAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 5 0.24
22 11 0.52
23 5 0.24
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
TTTTAAAATAATGTATATTAA
Found at i:67124565 original size:73 final size:73
Alignment explanation
Indices: 67124446--67124591 Score: 256
Period size: 73 Copynumber: 2.0 Consensus size: 73
67124436 CTAGCTCGGG
67124446 AACAAAATTCTCTACATAGTTACCATGAAACTCTCACAAAAACTCATATGAGACTAAATCTTGCC
1 AACAAAATTCTCTACATAGTTACCATGAAACTCTCACAAAAACTCATATGAGACTAAATCTTGCC
*
67124511 GCCCTCAA
66 GCCATCAA
* * *
67124519 AACAAAATTCTCTACATAGTTACCATGAAACTCTCACAAAAACTCATATGCGATTACATCTTGCC
1 AACAAAATTCTCTACATAGTTACCATGAAACTCTCACAAAAACTCATATGAGACTAAATCTTGCC
67124584 GCCATCAA
66 GCCATCAA
67124592 GAAAAGCCCT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
73 69 1.00
ACGTcount: A:0.39, C:0.27, G:0.08, T:0.25
Consensus pattern (73 bp):
AACAAAATTCTCTACATAGTTACCATGAAACTCTCACAAAAACTCATATGAGACTAAATCTTGCC
GCCATCAA
Found at i:67126644 original size:16 final size:17
Alignment explanation
Indices: 67126615--67126661 Score: 64
Period size: 15 Copynumber: 2.9 Consensus size: 17
67126605 GCTATATGAG
67126615 TACAAATAAAATAATAT
1 TACAAATAAAATAATAT
67126632 TACAAAT-AAATAATA-
1 TACAAATAAAATAATAT
*
67126647 -AGAAATAAAATAATA
1 TACAAATAAAATAATA
67126662 GTAGCGATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 5 0.18
15 8 0.29
16 8 0.29
17 7 0.25
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (17 bp):
TACAAATAAAATAATAT
Found at i:67126735 original size:25 final size:25
Alignment explanation
Indices: 67126704--67126752 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
67126694 ATACAGCTAT
* *
67126704 AATAATAATGATAATGACATTGATG
1 AATAATAATGAGAATGACAATGATG
67126729 AATAATAATGAGAATGACAATGAT
1 AATAATAATGAGAATGACAATGAT
67126753 AACTCAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.51, C:0.04, G:0.16, T:0.29
Consensus pattern (25 bp):
AATAATAATGAGAATGACAATGATG
Found at i:67126847 original size:3 final size:3
Alignment explanation
Indices: 67126841--67126881 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
67126831 TAAAAGGATG
* *
67126841 ATA ATA A-A ATA AAA ATA A-A ATA ATA ATG ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
67126882 ATATGCAAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 4 0.12
3 28 0.88
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:67126856 original size:28 final size:29
Alignment explanation
Indices: 67126825--67126882 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 29
67126815 AAAGTGTCGG
*
67126825 AAATAATAA-AAGGATGATAATAA-AATAA
1 AAATAA-AATAAGAATGATAATAATAATAA
*
67126853 AAATAAAATAATAATGATAATAATAATAA
1 AAATAAAATAAGAATGATAATAATAATAA
67126882 A
1 A
67126883 TATGCAAAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 2 0.08
28 18 0.69
29 6 0.23
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (29 bp):
AAATAAAATAAGAATGATAATAATAATAA
Found at i:67131193 original size:16 final size:17
Alignment explanation
Indices: 67131159--67131203 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
67131149 GGTTATGGAA
* *
67131159 GGGAGGGAGAGAGAGAG
1 GGGAAGGAGAGAGAAAG
67131176 GGGAAGGAGA-AGAAAG
1 GGGAAGGAGAGAGAAAG
*
67131192 GGAAAGGAGAGA
1 GGGAAGGAGAGA
67131204 TTGAAGCATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (17 bp):
GGGAAGGAGAGAGAAAG
Found at i:67131878 original size:31 final size:32
Alignment explanation
Indices: 67131807--67131878 Score: 92
Period size: 31 Copynumber: 2.3 Consensus size: 32
67131797 ATTTAATAGC
*
67131807 TTAGTGACTTAAATAAAAAACTTTTGAATAGT
1 TTAGTGACTTAAATAAAAAACTTTTGAATAAT
* * * *
67131839 TCAATGACTTAAAT-GAAAATTTTTGAATAAT
1 TTAGTGACTTAAATAAAAAACTTTTGAATAAT
67131870 TTAGTGACT
1 TTAGTGACT
67131879 ATTTTATAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
31 21 0.64
32 12 0.36
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.39
Consensus pattern (32 bp):
TTAGTGACTTAAATAAAAAACTTTTGAATAAT
Found at i:67135770 original size:51 final size:50
Alignment explanation
Indices: 67135685--67135792 Score: 162
Period size: 51 Copynumber: 2.1 Consensus size: 50
67135675 TCGAAATGAC
*
67135685 ATTTTTTTAATGGAGCCTATCTGAAAGGCACCAATGAATATTTTATATTAA
1 ATTTTTTTAATAGAGCCTATCTGAAAGGCACCAATGAATATTTTATATT-A
* * * *
67135736 ATTTTTTTAATAGCGCCTATCTGATAGGCGCCAATGAATTTTTTATATTA
1 ATTTTTTTAATAGAGCCTATCTGAAAGGCACCAATGAATATTTTATATTA
67135786 ATTTTTT
1 ATTTTTT
67135793 CTTTTAATAA
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
50 8 0.15
51 44 0.85
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.44
Consensus pattern (50 bp):
ATTTTTTTAATAGAGCCTATCTGAAAGGCACCAATGAATATTTTATATTA
Found at i:67136469 original size:34 final size:34
Alignment explanation
Indices: 67136398--67136491 Score: 156
Period size: 34 Copynumber: 2.8 Consensus size: 34
67136388 TATGAAGTTA
*
67136398 TTATTTATATTACAAAACCCCCT--AATATGAAG
1 TTATTTATATTACAAAACCCCCTAAAATAAGAAG
67136430 TTATTTATATTACAAAACCCCCTAAAATAAGAAG
1 TTATTTATATTACAAAACCCCCTAAAATAAGAAG
67136464 TTATTTATATTACAAAACCCCCTTAAAA
1 TTATTTATATTACAAAACCCCC-TAAAA
67136492 ATGTTAAGTA
Statistics
Matches: 58, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
32 23 0.40
34 30 0.52
35 5 0.09
ACGTcount: A:0.44, C:0.19, G:0.04, T:0.33
Consensus pattern (34 bp):
TTATTTATATTACAAAACCCCCTAAAATAAGAAG
Found at i:67136595 original size:8 final size:8
Alignment explanation
Indices: 67136550--67136578 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
67136540 TTAAAAATAT
67136550 ATTTTAAA
1 ATTTTAAA
67136558 ATTTTAAA
1 ATTTTAAA
67136566 ATTTTAAA
1 ATTTTAAA
67136574 ATTTT
1 ATTTT
67136579 CTCTGTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (8 bp):
ATTTTAAA
Found at i:67141076 original size:14 final size:14
Alignment explanation
Indices: 67141057--67141085 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
67141047 TTCATTGCCA
67141057 CGGTGGCGCTACGG
1 CGGTGGCGCTACGG
67141071 CGGTGGCGCTACGG
1 CGGTGGCGCTACGG
67141085 C
1 C
67141086 CAATAGCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.07, C:0.31, G:0.48, T:0.14
Consensus pattern (14 bp):
CGGTGGCGCTACGG
Found at i:67141941 original size:17 final size:18
Alignment explanation
Indices: 67141908--67141941 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
67141898 TTATCTTTTC
*
67141908 TTATTTGCTTGTATTATT
1 TTATTTGCATGTATTATT
67141926 TTATTTGCAT-TATTAT
1 TTATTTGCATGTATTAT
67141942 CAATATTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.21, C:0.06, G:0.09, T:0.65
Consensus pattern (18 bp):
TTATTTGCATGTATTATT
Found at i:67145871 original size:21 final size:21
Alignment explanation
Indices: 67145845--67145885 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
67145835 ATCTGCTTAA
* *
67145845 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
67145866 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
67145886 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:67152843 original size:13 final size:13
Alignment explanation
Indices: 67152825--67152849 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
67152815 AGGGTATTCT
67152825 AAATTATAGATAC
1 AAATTATAGATAC
67152838 AAATTATAGATA
1 AAATTATAGATA
67152850 TATTTTATGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.04, G:0.08, T:0.32
Consensus pattern (13 bp):
AAATTATAGATAC
Found at i:67152945 original size:21 final size:20
Alignment explanation
Indices: 67152916--67152964 Score: 55
Period size: 23 Copynumber: 2.4 Consensus size: 20
67152906 TTGTTTGAAC
67152916 TAATAA-TTTAAAATTACATT
1 TAATAATTTTAAAATTA-ATT
*
67152936 ATAATTATTTTTAAAATTAATT
1 -TAA-TAATTTTAAAATTAATT
67152958 TAATAAT
1 TAATAAT
67152965 ATTATAGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
20 3 0.12
21 6 0.25
22 5 0.21
23 10 0.42
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
TAATAATTTTAAAATTAATT
Found at i:67159104 original size:65 final size:65
Alignment explanation
Indices: 67159026--67159151 Score: 234
Period size: 65 Copynumber: 1.9 Consensus size: 65
67159016 TGATATATTT
*
67159026 TTTTACTTATTATAAATTAATAAAATTTGATTATATTTGTTTATATAGGTATTATTGTAGTTTTC
1 TTTTACTTATTATAAATTAATAAAATTTGATTATATTTGTTTATATAGATATTATTGTAGTTTTC
*
67159091 TTTTACTTGTTATAAATTAATAAAATTTGATTATATTTGTTTATATAGATATTATTGTAGT
1 TTTTACTTATTATAAATTAATAAAATTTGATTATATTTGTTTATATAGATATTATTGTAGT
67159152 GAATGGCTTG
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 59 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (65 bp):
TTTTACTTATTATAAATTAATAAAATTTGATTATATTTGTTTATATAGATATTATTGTAGTTTTC
Found at i:67171318 original size:17 final size:17
Alignment explanation
Indices: 67171280--67171318 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
67171270 CTTTCTTTTT
*
67171280 AAACACCTATTTACAAC
1 AAACACCCATTTACAAC
* *
67171297 GAACACCCATTTACAGC
1 AAACACCCATTTACAAC
67171314 AAACA
1 AAACA
67171319 ACCTTTTTGC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.31, G:0.05, T:0.18
Consensus pattern (17 bp):
AAACACCCATTTACAAC
Found at i:67173354 original size:34 final size:34
Alignment explanation
Indices: 67173309--67173376 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
67173299 GTCTCTAAAG
67173309 ATTGAACAAGACGAGAACAACAAACAAAGTAGAA
1 ATTGAACAAGACGAGAACAACAAACAAAGTAGAA
* *
67173343 ATTGAATAAGACGAGAACAACGAACAAAGTAGAA
1 ATTGAACAAGACGAGAACAACAAACAAAGTAGAA
67173377 TCAACCCTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.57, C:0.13, G:0.19, T:0.10
Consensus pattern (34 bp):
ATTGAACAAGACGAGAACAACAAACAAAGTAGAA
Found at i:67187490 original size:9 final size:8
Alignment explanation
Indices: 67187438--67187509 Score: 51
Period size: 8 Copynumber: 8.8 Consensus size: 8
67187428 TTTAATAAAT
67187438 ATTTTATA
1 ATTTTATA
*
67187446 ATTTTAAA
1 ATTTTATA
67187454 ACTTTTATA
1 A-TTTTATA
*
67187463 ACATTT-T-
1 A-TTTTATA
67187470 A-TTTATA
1 ATTTTATA
67187477 ATTTTATGA
1 ATTTTAT-A
67187486 ATTTTTAATA
1 A-TTTT-ATA
*
67187496 ATTTTAAA
1 ATTTTATA
67187504 ATTTTA
1 ATTTTA
67187510 AAATGGCTTA
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
5 3 0.06
6 1 0.02
7 2 0.04
8 22 0.42
9 17 0.32
10 6 0.11
11 2 0.04
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (8 bp):
ATTTTATA
Found at i:67187500 original size:31 final size:30
Alignment explanation
Indices: 67187425--67187501 Score: 77
Period size: 31 Copynumber: 2.5 Consensus size: 30
67187415 TGGTATTCTT
* *
67187425 ATTTTTAATAAATAT-TTTATAATTTTAAA
1 ATTTTTAATAATTTTATTTATAATTTTAAA
* *
67187454 ACTTTTATAA-CATTTTATTTATAATTTTATGA
1 A-TTTT-TAATAATTTTATTTATAATTTTA-AA
67187486 ATTTTTAATAATTTTA
1 ATTTTTAATAATTTTA
67187502 AAATTTTAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
29 1 0.03
30 10 0.26
31 25 0.66
32 2 0.05
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (30 bp):
ATTTTTAATAATTTTATTTATAATTTTAAA
Found at i:67188366 original size:19 final size:19
Alignment explanation
Indices: 67188331--67188368 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
67188321 AGCCGTTAAA
*
67188331 TTTTTTTAAAATTCTTTTT
1 TTTTTTTAAAATACTTTTT
67188350 TTTTTTTAGAAA-ACTTTTT
1 TTTTTTTA-AAATACTTTTT
67188369 AAAAAACTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.68
Consensus pattern (19 bp):
TTTTTTTAAAATACTTTTT
Found at i:67192159 original size:15 final size:15
Alignment explanation
Indices: 67192135--67192170 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
67192125 ATAAATTATA
67192135 AAAATTATTATT-TT
1 AAAATTATTATTCTT
67192149 AAAATTAATTATTCTT
1 AAAATT-ATTATTCTT
67192165 AAAATT
1 AAAATT
67192171 CATAAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 6 0.30
15 6 0.30
16 8 0.40
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
AAAATTATTATTCTT
Found at i:67192207 original size:50 final size:50
Alignment explanation
Indices: 67192098--67192208 Score: 117
Period size: 49 Copynumber: 2.3 Consensus size: 50
67192088 AAGCAATTAA
* * *
67192098 TTAAT-TTTTAA-AATTTTTAAAATTCAAATAAATTATAAAAATTATTATT
1 TTAATATTTTAATTATTCTTAAAATTCAAAAAAATTAT-AAAATTATTATT
*
67192147 TTAA-A-ATTAATTATTCTTAAAATTCATAAAAAATTAT-AAA-TATGTATT
1 TTAATATTTTAATTATTCTTAAAATTCA-AAAAAATTATAAAATTAT-TATT
67192195 TTAATATTTTAATT
1 TTAATATTTTAATT
67192209 TAAAATAATT
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
47 3 0.06
48 15 0.29
49 18 0.35
50 15 0.29
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.49
Consensus pattern (50 bp):
TTAATATTTTAATTATTCTTAAAATTCAAAAAAATTATAAAATTATTATT
Found at i:67195466 original size:20 final size:19
Alignment explanation
Indices: 67195441--67195513 Score: 58
Period size: 20 Copynumber: 3.7 Consensus size: 19
67195431 AATGCAGCAC
*
67195441 CAATATTTCTAACGCAATAT
1 CAATATTTCTAA-ACAATAT
*
67195461 CAATATTTTTTAATA-AATAT
1 CAATA-TTTCTAA-ACAATAT
* *
67195481 CAAAATTTCTAATACAATAA
1 CAATATTTCTAA-ACAATAT
*
67195501 CAATATTTTTAAA
1 CAATATTTCTAAA
67195514 TTGATATCAC
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
19 9 0.21
20 28 0.65
21 6 0.14
ACGTcount: A:0.47, C:0.12, G:0.01, T:0.40
Consensus pattern (19 bp):
CAATATTTCTAAACAATAT
Found at i:67195491 original size:40 final size:40
Alignment explanation
Indices: 67195445--67195528 Score: 105
Period size: 40 Copynumber: 2.1 Consensus size: 40
67195435 CAGCACCAAT
* * *
67195445 ATTTCTAACGCAATATCAATATTTTTTAATAAATATCAAA
1 ATTTCTAACACAATAACAATATTTTTAAATAAATATCAAA
* ** *
67195485 ATTTCTAATACAATAACAATATTTTTAAATTGATATCACA
1 ATTTCTAACACAATAACAATATTTTTAAATAAATATCAAA
67195525 ATTT
1 ATTT
67195529 ATAAGAGCAT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.42
Consensus pattern (40 bp):
ATTTCTAACACAATAACAATATTTTTAAATAAATATCAAA
Found at i:67201282 original size:9 final size:9
Alignment explanation
Indices: 67201268--67201292 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
67201258 TGCACGTGAA
67201268 CCACTTGCT
1 CCACTTGCT
67201277 CCACTTGCT
1 CCACTTGCT
67201286 CCACTTG
1 CCACTTG
67201293 AACTCTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.44, G:0.12, T:0.32
Consensus pattern (9 bp):
CCACTTGCT
Found at i:67203476 original size:29 final size:30
Alignment explanation
Indices: 67203422--67203480 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
67203412 AATTAGATCA
67203422 AATCAAAATTATATATATAAAATTACACAT
1 AATCAAAATTATATATATAAAATTACACAT
* * *
67203452 AATCAAAGTT-TATGTATATAATTACACAT
1 AATCAAAATTATATATATAAAATTACACAT
67203481 TAAATTATAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.51, C:0.10, G:0.03, T:0.36
Consensus pattern (30 bp):
AATCAAAATTATATATATAAAATTACACAT
Found at i:67216662 original size:3 final size:3
Alignment explanation
Indices: 67216654--67216748 Score: 106
Period size: 3 Copynumber: 31.0 Consensus size: 3
67216644 TTGTATTTTC
*
67216654 ATT ATT ATTT ATTT ATT CATT ATT A-T ATT ATT A-T ATT A-T ACT ATT
1 ATT ATT A-TT A-TT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
67216699 AGTT CTAT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 A-TT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
67216746 ATT
1 ATT
67216749 TACTCATTTA
Statistics
Matches: 82, Mismatches: 3, Indels: 14
0.83 0.03 0.14
Matches are distributed among these distances:
2 6 0.07
3 62 0.76
4 14 0.17
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:67217473 original size:72 final size:72
Alignment explanation
Indices: 67217356--67217491 Score: 218
Period size: 72 Copynumber: 1.9 Consensus size: 72
67217346 TCCTTTCAAA
* * *
67217356 CTCAAGTTTTAAACGATCTCGGGAATTAAGAGAAGATCGTGTCCTAGCTTACTGGGAATGATCCT
1 CTCAAGTTTTAAACAATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGAATGATCCT
67217421 TTTTTTC
66 TTTTTTC
* * *
67217428 CTCAAGTTTTAAACAATCTTGGGAATTAAGAAAAGATTGTGTCCTAACTTACTGGGCATGATCC
1 CTCAAGTTTTAAACAATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGAATGATCC
67217492 CCTTTTTTAA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
72 58 1.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (72 bp):
CTCAAGTTTTAAACAATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGAATGATCCT
TTTTTTC
Found at i:67218238 original size:7 final size:7
Alignment explanation
Indices: 67218228--67218252 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
67218218 GAAGAATTAA
67218228 GAAAGAT
1 GAAAGAT
67218235 GAAAGAT
1 GAAAGAT
67218242 GAAAGAT
1 GAAAGAT
67218249 GAAA
1 GAAA
67218253 AATTAATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.28, T:0.12
Consensus pattern (7 bp):
GAAAGAT
Found at i:67218754 original size:16 final size:15
Alignment explanation
Indices: 67218714--67218758 Score: 58
Period size: 13 Copynumber: 3.1 Consensus size: 15
67218704 AAACTAAAAA
*
67218714 TTTAAGTGTTGAATT
1 TTTAAGTGTTAAATT
67218729 TTT-A-TGTTAAATT
1 TTTAAGTGTTAAATT
67218742 TTATAAGTGTTAAATT
1 TT-TAAGTGTTAAATT
67218758 T
1 T
67218759 ATATTAGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 10 0.38
14 2 0.08
15 4 0.15
16 10 0.38
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (15 bp):
TTTAAGTGTTAAATT
Found at i:67218761 original size:15 final size:15
Alignment explanation
Indices: 67218716--67218761 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
67218706 ACTAAAAATT
*
67218716 TAAGTGTTGAATTT-
1 TAAGTGTTAAATTTA
*
67218730 TTA-TGTTAAATTTTA
1 TAAGTGTTAAA-TTTA
67218745 TAAGTGTTAAATTTA
1 TAAGTGTTAAATTTA
67218760 TA
1 TA
67218762 TTAGAAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
13 6 0.23
14 5 0.19
15 8 0.31
16 7 0.27
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (15 bp):
TAAGTGTTAAATTTA
Found at i:67230628 original size:23 final size:24
Alignment explanation
Indices: 67230602--67230651 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
67230592 AAGAGAACGA
67230602 AAAATAAAATAAAA-AAGAAAG-TT
1 AAAATAAAATAAAAGAA-AAAGATT
*
67230625 AAAATAACATAAAAGAAAAAGATT
1 AAAATAAAATAAAAGAAAAAGATT
67230649 AAA
1 AAA
67230652 TTGCTCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.74, C:0.02, G:0.08, T:0.16
Consensus pattern (24 bp):
AAAATAAAATAAAAGAAAAAGATT
Found at i:67232885 original size:28 final size:29
Alignment explanation
Indices: 67232833--67232917 Score: 84
Period size: 28 Copynumber: 2.9 Consensus size: 29
67232823 TTTATGTATA
* ** *
67232833 ATTA-TATTAAATTATTCAAGCATCATGT
1 ATTACTATTAAATTATTTAAATATCATAT
67232861 ATT-CTATTAAATTATTTAAATATCATAT
1 ATTACTATTAAATTATTTAAATATCATAT
* *
67232889 ATTATTATGTTAAATTATTTAAATGTCAT
1 ATTACTA--TTAAATTATTTAAATATCAT
67232918 TTATCATTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
28 26 0.55
29 2 0.04
31 19 0.40
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.48
Consensus pattern (29 bp):
ATTACTATTAAATTATTTAAATATCATAT
Found at i:67232905 original size:31 final size:31
Alignment explanation
Indices: 67232867--67232927 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
67232857 ATGTATTCTA
*
67232867 TTAAATTATTTAAATATCATATATTATTATG
1 TTAAATTATTTAAATATCATATATCATTATG
* *
67232898 TTAAATTATTTAAATGTCATTTATCATTAT
1 TTAAATTATTTAAATATCATATATCATTAT
67232928 ATTTAAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.52
Consensus pattern (31 bp):
TTAAATTATTTAAATATCATATATCATTATG
Found at i:67235005 original size:3 final size:3
Alignment explanation
Indices: 67234997--67235035 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
67234987 TTGACCCACT
67234997 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
67235036 GATGAAAGAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:67247371 original size:6 final size:7
Alignment explanation
Indices: 67247353--67247379 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
67247343 CGCCTCGTCA
67247353 ATTTTTC
1 ATTTTTC
67247360 ATTTTTC
1 ATTTTTC
67247367 ATTTTTC
1 ATTTTTC
67247374 ATTTTT
1 ATTTTT
67247380 TTAACTTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.11, G:0.00, T:0.74
Consensus pattern (7 bp):
ATTTTTC
Found at i:67253821 original size:72 final size:72
Alignment explanation
Indices: 67253505--67253808 Score: 437
Period size: 72 Copynumber: 4.2 Consensus size: 72
67253495 GAGGAAATGT
* * * * *
67253505 ACCATTAAATTGATTTTCTGAAACATCAAATACCTCCAAAGATGACAACTGCCCTATAGACAAGG
1 ACCATTTAATTGATTTTCTGAAACATCAAACAACTCCAAAGATGACAACTCCCCTATAGACAATG
67253570 GAATTTG
66 GAATTTG
* * * * * * *
67253577 GCCGTTTAATTGATTTTTTGAAACATCAAACCACTTCAGAGATGATAACTCCCCTATAGACAATG
1 ACCATTTAATTGATTTTCTGAAACATCAAACAACTCCAAAGATGACAACTCCCCTATAGACAATG
67253642 GAATTTG
66 GAATTTG
** * *
67253649 ACCATTTAATTGATTTTCTGAAACATCAAACTCCTCCAAAGATGACAGCTGCCCTATAGACAATG
1 ACCATTTAATTGATTTTCTGAAACATCAAACAACTCCAAAGATGACAACTCCCCTATAGACAATG
67253714 GAATTTG
66 GAATTTG
* * *
67253721 ACCATTTAATTGATTTTCTGAAACATCAAACAACTTCAGAGATGATAACTCCCCTATAGACAATG
1 ACCATTTAATTGATTTTCTGAAACATCAAACAACTCCAAAGATGACAACTCCCCTATAGACAATG
67253786 GAATTTG
66 GAATTTG
67253793 ACCATTTAATTGATTT
1 ACCATTTAATTGATTT
67253809 ACCGAAAGAT
Statistics
Matches: 203, Mismatches: 29, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
72 203 1.00
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (72 bp):
ACCATTTAATTGATTTTCTGAAACATCAAACAACTCCAAAGATGACAACTCCCCTATAGACAATG
GAATTTG
Found at i:67253821 original size:144 final size:144
Alignment explanation
Indices: 67253505--67253808 Score: 529
Period size: 144 Copynumber: 2.1 Consensus size: 144
67253495 GAGGAAATGT
*
67253505 ACCATTAAATTGATTTTCTGAAACATCAAATACCTCCAAAGATGACAACTGCCCTATAGACAAGG
1 ACCATTTAATTGATTTTCTGAAACATCAAATACCTCCAAAGATGACAACTGCCCTATAGACAAGG
* * * *
67253570 GAATTTGGCCGTTTAATTGATTTTTTGAAACATCAAACCACTTCAGAGATGATAACTCCCCTATA
66 GAATTTGACCATTTAATTGATTTTCTGAAACATCAAACAACTTCAGAGATGATAACTCCCCTATA
67253635 GACAATGGAATTTG
131 GACAATGGAATTTG
* *
67253649 ACCATTTAATTGATTTTCTGAAACATCAAACT-CCTCCAAAGATGACAGCTGCCCTATAGACAAT
1 ACCATTTAATTGATTTTCTGAAACATCAAA-TACCTCCAAAGATGACAACTGCCCTATAGACAAG
67253713 GGAATTTGACCATTTAATTGATTTTCTGAAACATCAAACAACTTCAGAGATGATAACTCCCCTAT
65 GGAATTTGACCATTTAATTGATTTTCTGAAACATCAAACAACTTCAGAGATGATAACTCCCCTAT
67253778 AGACAATGGAATTTG
130 AGACAATGGAATTTG
67253793 ACCATTTAATTGATTT
1 ACCATTTAATTGATTT
67253809 ACCGAAAGAT
Statistics
Matches: 152, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
144 151 0.99
145 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (144 bp):
ACCATTTAATTGATTTTCTGAAACATCAAATACCTCCAAAGATGACAACTGCCCTATAGACAAGG
GAATTTGACCATTTAATTGATTTTCTGAAACATCAAACAACTTCAGAGATGATAACTCCCCTATA
GACAATGGAATTTG
Found at i:67256100 original size:3 final size:3
Alignment explanation
Indices: 67256092--67256189 Score: 85
Period size: 3 Copynumber: 33.0 Consensus size: 3
67256082 CAAAACTTAG
* **
67256092 ATT ATT ATT ATT ATT ATT ACT ATT ATT ATT AGC ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * ** *
67256140 AGTT -TT ATT GTT ATT -TT ATT ACT ATT AAC ATT ATT A-T ATAA ATT
1 A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
67256184 ATT ATT
1 ATT ATT
67256190 GAATGTTATT
Statistics
Matches: 74, Mismatches: 16, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
2 6 0.08
3 64 0.86
4 4 0.05
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:67259279 original size:22 final size:21
Alignment explanation
Indices: 67259231--67259287 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 21
67259221 TCATTTTTTA
*
67259231 ATTT-TTATATATTTTAAAAT
1 ATTTATTATATTTTTTAAAAT
*
67259251 TTATTATTATATTTTTTGAAAAT
1 AT-TTATTATATTTTTT-AAAAT
*
67259274 ATTTA-TGTATTTTT
1 ATTTATTATATTTTT
67259288 ATATATTTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
20 1 0.03
21 10 0.33
22 13 0.43
23 6 0.20
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (21 bp):
ATTTATTATATTTTTTAAAAT
Found at i:67271410 original size:18 final size:19
Alignment explanation
Indices: 67271377--67271414 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
67271367 AGACTCCAGG
*
67271377 TCTGATTCTTTTCAATCAT
1 TCTGATTCTCTTCAATCAT
67271396 TCTGATT-TCTTCAATCAT
1 TCTGATTCTCTTCAATCAT
67271414 T
1 T
67271415 GCTTGCTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.21, C:0.21, G:0.05, T:0.53
Consensus pattern (19 bp):
TCTGATTCTCTTCAATCAT
Found at i:67277327 original size:24 final size:24
Alignment explanation
Indices: 67277300--67277352 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
67277290 ATATGGAAAG
* *
67277300 AAATAAAAAATATTTTATGCTAAT
1 AAATAAAAAATATATTATACTAAT
*
67277324 AAATATAAAATATATTATACTAAT
1 AAATAAAAAATATATTATACTAAT
67277348 AAATA
1 AAATA
67277353 CTAAACATCC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (24 bp):
AAATAAAAAATATATTATACTAAT
Found at i:67297387 original size:72 final size:72
Alignment explanation
Indices: 67297071--67297374 Score: 439
Period size: 72 Copynumber: 4.2 Consensus size: 72
67297061 GAGGAAATGT
* * * * * *
67297071 ACCATTAAATTGATTTTCTGAAACATCAAATACCTCCAAAGATGACAACTGCCCTATAGACAAGG
1 ACCATTTAATTGATTTTCTGAAACATCAAACAACTTCAAAGATGACAACTCCCCTATAGACAATG
67297136 GAATTTG
66 GAATTTG
* * * * * *
67297143 GCCGTTTAATTGATTTTTTGAAACATCAAACCACTTCAGAGATGATAACTCCCCTATAGACAATG
1 ACCATTTAATTGATTTTCTGAAACATCAAACAACTTCAAAGATGACAACTCCCCTATAGACAATG
67297208 GAATTTG
66 GAATTTG
* * *
67297215 ACCATTTAATTGATTTTCTGAAACATCAAAC-TCTTCCAAAGATGACAGCTGCCCTATAGACAAT
1 ACCATTTAATTGATTTTCTGAAACATCAAACAACTT-CAAAGATGACAACTCCCCTATAGACAAT
67297279 GGAATTTG
65 GGAATTTG
* *
67297287 ACCATTTAATTGATTTTCTGAAACATCAAACAACTTCAGAGATGATAACTCCCCTATAGACAATG
1 ACCATTTAATTGATTTTCTGAAACATCAAACAACTTCAAAGATGACAACTCCCCTATAGACAATG
67297352 GAATTTG
66 GAATTTG
67297359 ACCATTTAATTGATTT
1 ACCATTTAATTGATTT
67297375 ACCGAAAGAT
Statistics
Matches: 205, Mismatches: 25, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
71 3 0.01
72 199 0.97
73 3 0.01
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (72 bp):
ACCATTTAATTGATTTTCTGAAACATCAAACAACTTCAAAGATGACAACTCCCCTATAGACAATG
GAATTTG
Found at i:67297387 original size:144 final size:144
Alignment explanation
Indices: 67297071--67297374 Score: 520
Period size: 144 Copynumber: 2.1 Consensus size: 144
67297061 GAGGAAATGT
*
67297071 ACCATTAAATTGATTTTCTGAAACATCAAATACCTCCAAAGATGACAACTGCCCTATAGACAAGG
1 ACCATTTAATTGATTTTCTGAAACATCAAATACCTCCAAAGATGACAACTGCCCTATAGACAAGG
* * * *
67297136 GAATTTGGCCGTTTAATTGATTTTTTGAAACATCAAACCACTTCAGAGATGATAACTCCCCTATA
66 GAATTTGACCATTTAATTGATTTTCTGAAACATCAAACAACTTCAGAGATGATAACTCCCCTATA
67297201 GACAATGGAATTTG
131 GACAATGGAATTTG
* * *
67297215 ACCATTTAATTGATTTTCTGAAACATCAAACT-CTTCCAAAGATGACAGCTGCCCTATAGACAAT
1 ACCATTTAATTGATTTTCTGAAACATCAAA-TACCTCCAAAGATGACAACTGCCCTATAGACAAG
67297279 GGAATTTGACCATTTAATTGATTTTCTGAAACATCAAACAACTTCAGAGATGATAACTCCCCTAT
65 GGAATTTGACCATTTAATTGATTTTCTGAAACATCAAACAACTTCAGAGATGATAACTCCCCTAT
67297344 AGACAATGGAATTTG
130 AGACAATGGAATTTG
67297359 ACCATTTAATTGATTT
1 ACCATTTAATTGATTT
67297375 ACCGAAAGAT
Statistics
Matches: 151, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
144 150 0.99
145 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (144 bp):
ACCATTTAATTGATTTTCTGAAACATCAAATACCTCCAAAGATGACAACTGCCCTATAGACAAGG
GAATTTGACCATTTAATTGATTTTCTGAAACATCAAACAACTTCAGAGATGATAACTCCCCTATA
GACAATGGAATTTG
Found at i:67304385 original size:3 final size:3
Alignment explanation
Indices: 67304184--67304365 Score: 86
Period size: 3 Copynumber: 61.0 Consensus size: 3
67304174 CAAAACTTAG
* **
67304184 ATT ATT ATT ATT ATT ATT ACT ATT ATT ATT AGC ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * ** *
67304232 AGTT -TT ATT GTT ATT -TT ATT ACT ATT AAC ATT ATT A-T ATAA ATT
1 A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
* * ** * * * * *
67304276 ATT ATT GAAT GTT ATT GCT ATC ATT -TT TTT CTT ATT AAT ATT ATG
1 ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
67304321 AAT ATT ATT ATT GA-T ATA ATA ATA ATA ATA ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
67304366 TTCATTACCA
Statistics
Matches: 134, Mismatches: 36, Indels: 18
0.71 0.19 0.10
Matches are distributed among these distances:
2 9 0.07
3 118 0.88
4 7 0.05
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (3 bp):
ATT
Found at i:67307373 original size:22 final size:22
Alignment explanation
Indices: 67307329--67307373 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
67307319 TTTTTTAATT
*
67307329 TTATATATTTTAAAATTTATTA
1 TTATATATTTTAAAATATATTA
*
67307351 TTATATTTTTTGAAAATAT-TTA
1 TTATATATTTT-AAAATATATTA
67307373 T
1 T
67307374 GTATTTTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
TTATATATTTTAAAATATATTA
Found at i:67320453 original size:24 final size:24
Alignment explanation
Indices: 67320426--67320478 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
67320416 ATATGGAAAG
* *
67320426 AAATAAAAAATATTTTATGCTAAT
1 AAATAAAAAATATATTATACTAAT
*
67320450 AAATATAAAATATATTATACTAAT
1 AAATAAAAAATATATTATACTAAT
67320474 AAATA
1 AAATA
67320479 CTAAACATCC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (24 bp):
AAATAAAAAATATATTATACTAAT
Found at i:67332169 original size:23 final size:23
Alignment explanation
Indices: 67332136--67332191 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
67332126 ATAAAGGAAT
*
67332136 ATAATAATAATGA-CATAATTATA
1 ATAATAATAATAATCAT-ATTATA
*
67332159 ATAATATTAATAATCATATTATA
1 ATAATAATAATAATCATATTATA
*
67332182 GTAATAATAA
1 ATAATAATAA
67332192 ATAAATGAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 25 0.89
24 3 0.11
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.38
Consensus pattern (23 bp):
ATAATAATAATAATCATATTATA
Found at i:67332440 original size:23 final size:23
Alignment explanation
Indices: 67332390--67332458 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 23
67332380 TTAAGGATGT
* *
67332390 ATAAAA-A-ATAAAGAGGTAATA
1 ATAAAATAGATAAATAGATAATA
67332411 A-ATAAATAGATAAATAGATAATA
1 ATA-AAATAGATAAATAGATAATA
67332434 ATAAAATAG-T-AATA-ATAATA
1 ATAAAATAGATAAATAGATAATA
67332454 ATAAA
1 ATAAA
67332459 GACACAAAAG
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
20 12 0.29
21 8 0.19
22 2 0.05
23 19 0.45
24 1 0.02
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.25
Consensus pattern (23 bp):
ATAAAATAGATAAATAGATAATA
Found at i:67332446 original size:14 final size:15
Alignment explanation
Indices: 67332422--67332456 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
67332412 ATAAATAGAT
67332422 AAATAGATAATAATA
1 AAATAGATAATAATA
67332437 AAATAG-TAATAATA
1 AAATAGATAATAATA
67332451 ATAATA
1 A-AATA
67332457 AAGACACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.29
Consensus pattern (15 bp):
AAATAGATAATAATA
Found at i:67333105 original size:5 final size:5
Alignment explanation
Indices: 67333089--67333146 Score: 50
Period size: 5 Copynumber: 11.4 Consensus size: 5
67333079 TCTAAGGACC
*
67333089 AAAAT GAAAAT AAAAT AAAAT AAAGT GAAAAAT AAAA- AAAAT AAAA-
1 AAAAT -AAAAT AAAAT AAAAT AAAAT --AAAAT AAAAT AAAAT AAAAT
67333135 AATAA- AAAAT AA
1 AA-AAT AAAAT AA
67333147 GATATGACTA
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
4 8 0.18
5 28 0.62
6 5 0.11
7 4 0.09
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:67333135 original size:16 final size:16
Alignment explanation
Indices: 67333100--67333143 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
67333090 AAATGAAAAT
* *
67333100 AAAATAAAATAAAGTGA
1 AAAATAAAA-AAAATAA
67333117 AAAATAAAAAAAATAA
1 AAAATAAAAAAAATAA
67333133 AAAATAAAAAA
1 AAAATAAAAAA
67333144 TAAGATATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 16 0.64
17 9 0.36
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.14
Consensus pattern (16 bp):
AAAATAAAAAAAATAA
Found at i:67333141 original size:21 final size:22
Alignment explanation
Indices: 67333095--67333146 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
67333085 GACCAAAATG
* *
67333095 AAAATAAAATAAAATAAAGTGA
1 AAAATAAAATAAAATAAAATAA
67333117 AAAATAAAA-AAAATAAAAAATAA
1 AAAATAAAATAAAAT--AAAATAA
67333140 AAAATAA
1 AAAATAA
67333147 GATATGACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 5 0.19
22 9 0.35
23 12 0.46
ACGTcount: A:0.81, C:0.00, G:0.04, T:0.15
Consensus pattern (22 bp):
AAAATAAAATAAAATAAAATAA
Found at i:67337751 original size:35 final size:35
Alignment explanation
Indices: 67337712--67337783 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
67337702 ATCAAAGCAA
*
67337712 AAAAAATGTTTTGGATTAATCATAGAGAGGTCCCT
1 AAAAAATGTTTTGGATTAATCATAGAAAGGTCCCT
67337747 AAAAAATGTTTTGGATTAATCATAGAAAGGTCCCT
1 AAAAAATGTTTTGGATTAATCATAGAAAGGTCCCT
67337782 AA
1 AA
67337784 GTTTTTGTCA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.40, C:0.11, G:0.18, T:0.31
Consensus pattern (35 bp):
AAAAAATGTTTTGGATTAATCATAGAAAGGTCCCT
Found at i:67347708 original size:165 final size:167
Alignment explanation
Indices: 67347378--67347709 Score: 596
Period size: 165 Copynumber: 2.0 Consensus size: 167
67347368 CAAACCTAAG
* **
67347378 CCTGAAATTTTATCAATGCCCACCCCAAACCTGACCTAGTGTATGAATAGATTTAGAAATGAGTA
1 CCTGAAATTTTATCAAAGCCCACCCCAAACCCAACCTAGTGTATGAATAGATTTAGAAATGAGTA
67347443 ACGAAAATCATGGGGGGGGGGAGTAGGGACCGTTGCTTTTGAATTTTGATGCTCTTCATTTCTCT
66 ACGAAAATCATGGGGGGGGGGAGTAGGGACCGTTGCTTTTGAATTTTGATGCTCTTCATTTCTCT
* *
67347508 TGCTTTTTGTCATTATCCCAAATTTCCATGTAAAGTA
131 TGCTTTTGGTCATTATCCCAAATTTCCAGGTAAAGTA
*
67347545 CCTGAAATTTTATGAAAGCCCACCCCAAACCCAACCTAGTGTATGAATAGATTTAGAAATGAGTA
1 CCTGAAATTTTATCAAAGCCCACCCCAAACCCAACCTAGTGTATGAATAGATTTAGAAATGAGTA
67347610 ACGAAAATCAT-GGGGGGGGG-GTAGGGACCGTTGCTTTTGAATTTTGATGCTCTTCATTTCTCT
66 ACGAAAATCATGGGGGGGGGGAGTAGGGACCGTTGCTTTTGAATTTTGATGCTCTTCATTTCTCT
67347673 TGCTTTTGGTCATTATCCCAAATTTCCAGGTAAAGTA
131 TGCTTTTGGTCATTATCCCAAATTTCCAGGTAAAGTA
67347710 ACATTGACCT
Statistics
Matches: 159, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
165 78 0.49
166 9 0.06
167 72 0.45
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.33
Consensus pattern (167 bp):
CCTGAAATTTTATCAAAGCCCACCCCAAACCCAACCTAGTGTATGAATAGATTTAGAAATGAGTA
ACGAAAATCATGGGGGGGGGGAGTAGGGACCGTTGCTTTTGAATTTTGATGCTCTTCATTTCTCT
TGCTTTTGGTCATTATCCCAAATTTCCAGGTAAAGTA
Found at i:67349105 original size:10 final size:10
Alignment explanation
Indices: 67349090--67349114 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
67349080 ATCAAAATAG
67349090 AAACGATCTA
1 AAACGATCTA
67349100 AAACGATCTA
1 AAACGATCTA
67349110 AAACG
1 AAACG
67349115 TTATGAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.20, G:0.12, T:0.16
Consensus pattern (10 bp):
AAACGATCTA
Found at i:67360588 original size:306 final size:306
Alignment explanation
Indices: 67360035--67360590 Score: 986
Period size: 306 Copynumber: 1.8 Consensus size: 306
67360025 GCTTGCCCTC
*
67360035 AAGTATGGTTCCTATCTACTGTGAAAGTTAGATTCTACCATAAAAGAAATACTACTTCAAAGTTT
1 AAGTATGGTTCCTATCTACTGTGAAAGTTAGATTCTACCATAAAAGAAATACCACTTCAAAGTTT
* *
67360100 TATAAAAATCAGTCAAAAATGTATATGAAAAATAAAGAAAACCCTAAGCTTGCTTTAAGTAAAAT
66 TATAAAAATCAGTCAAAAATGCATATGAAAAATAAAGAAAACCCTAAGCTTGCTTTAAGTAAAAC
* *
67360165 AAAAAAAGCTTTCCAATTAATACACACAAAAATTAGAATCGACTTTAATTATTTAATGAAAATTA
131 AAAAAAAGCTTTCCAATTAATACACACAAAAATTAGAATCAACTTGAATTATTTAATGAAAATTA
67360230 GGGAAATTACCAAACCTACCAAGACACCCTATTTGTTTCCTCCTTTAGTCCCCAATATATATATA
196 GGGAAATTACCAAACCTACCAAGACACCCTATTTGTTTCCTCCTTTAGTCCCCAATATATATATA
67360295 TATATATACCACTCTAGAATAACGTATTTGAAGTGGTATTTCTTTT
261 TATATATACCACTCTAGAATAACGTATTTGAAGTGGTATTTCTTTT
* *
67360341 AAGTATGGTTCCTATCTACTGTGAAAGTTAGATTCTGCCATAACAGAAATACCACTTCAAAGTTT
1 AAGTATGGTTCCTATCTACTGTGAAAGTTAGATTCTACCATAAAAGAAATACCACTTCAAAGTTT
* *
67360406 TATAGAAATCAGTCAAAAATGCATATGAAAAATAAAGAGAACCCTAAGCTTGCTTTAAGTAAAAC
66 TATAAAAATCAGTCAAAAATGCATATGAAAAATAAAGAAAACCCTAAGCTTGCTTTAAGTAAAAC
* * *
67360471 AGAAAAAGTTTTTCAATTAATACACACAAAAATTAGAATCAACTTGAATTATTTAATGAAAATTA
131 AAAAAAAGCTTTCCAATTAATACACACAAAAATTAGAATCAACTTGAATTATTTAATGAAAATTA
* *
67360536 GGTAAATTACCAAACCTACCAAGACACTCTATTTGTTTCCTCCTTTAGTCCCCAA
196 GGGAAATTACCAAACCTACCAAGACACCCTATTTGTTTCCTCCTTTAGTCCCCAA
67360591 ATTATTATTT
Statistics
Matches: 236, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
306 236 1.00
ACGTcount: A:0.41, C:0.17, G:0.11, T:0.31
Consensus pattern (306 bp):
AAGTATGGTTCCTATCTACTGTGAAAGTTAGATTCTACCATAAAAGAAATACCACTTCAAAGTTT
TATAAAAATCAGTCAAAAATGCATATGAAAAATAAAGAAAACCCTAAGCTTGCTTTAAGTAAAAC
AAAAAAAGCTTTCCAATTAATACACACAAAAATTAGAATCAACTTGAATTATTTAATGAAAATTA
GGGAAATTACCAAACCTACCAAGACACCCTATTTGTTTCCTCCTTTAGTCCCCAATATATATATA
TATATATACCACTCTAGAATAACGTATTTGAAGTGGTATTTCTTTT
Found at i:67369706 original size:72 final size:72
Alignment explanation
Indices: 67369559--67369706 Score: 199
Period size: 72 Copynumber: 2.1 Consensus size: 72
67369549 GAGGAAATGT
* *
67369559 ACCATTTAATTGATTTTCTGAAACATCAAATAACTTCAAAGATGACAGCTCCCCTATAGACAATG
1 ACCATTTAATTGATTTTCTGAAACATCAAAGAACTTCAAAGATGAAAGCTCCCCTATAGACAATG
*
67369624 GAATTCG
66 GAATGCG
* * * **
67369631 ACCATTTAATTGATTTTCTGAAATATCAAAGAATTTCAAAGATGATAAG-TCCCCTATCGATGAT
1 ACCATTTAATTGATTTTCTGAAACATCAAAGAACTTCAAAGATGA-AAGCTCCCCTATAGACAAT
*
67369695 GGAATGGG
65 GGAATGCG
67369703 ACCA
1 ACCA
67369707 GAAATTTTGT
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
72 64 0.97
73 2 0.03
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (72 bp):
ACCATTTAATTGATTTTCTGAAACATCAAAGAACTTCAAAGATGAAAGCTCCCCTATAGACAATG
GAATGCG
Found at i:67378012 original size:7 final size:7
Alignment explanation
Indices: 67378000--67378024 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
67377990 TGTAGATGTC
67378000 AAAAAAG
1 AAAAAAG
67378007 AAAAAAG
1 AAAAAAG
67378014 AAAAAAG
1 AAAAAAG
67378021 AAAA
1 AAAA
67378025 TTTACGTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:67378635 original size:28 final size:28
Alignment explanation
Indices: 67378595--67378649 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
67378585 AAGAAAATAT
67378595 ATTTTGTTTAACTTGACTTGCAAGTAAG
1 ATTTTGTTTAACTTGACTTGCAAGTAAG
*
67378623 ATTTTGTTTAACTTGACTTGTAAGTAA
1 ATTTTGTTTAACTTGACTTGCAAGTAA
67378650 TGTCTTAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.29, C:0.09, G:0.16, T:0.45
Consensus pattern (28 bp):
ATTTTGTTTAACTTGACTTGCAAGTAAG
Found at i:67378729 original size:29 final size:29
Alignment explanation
Indices: 67378696--67378753 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
67378686 CCACCTTGAT
*
67378696 ATGAA-TTCTCAACAAATAAGTTCTTCACC
1 ATGAACTT-TCAACAAACAAGTTCTTCACC
*
67378725 ATGAACTTTTAACAAACAAGTTCTTCACC
1 ATGAACTTTCAACAAACAAGTTCTTCACC
67378754 TCTTTCACGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 24 0.92
30 2 0.08
ACGTcount: A:0.38, C:0.24, G:0.07, T:0.31
Consensus pattern (29 bp):
ATGAACTTTCAACAAACAAGTTCTTCACC
Found at i:67381445 original size:24 final size:24
Alignment explanation
Indices: 67381418--67381470 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
67381408 ATATGGAAAG
* *
67381418 AAATAAAAAATATTTTATGCTAAT
1 AAATAAAAAATATATTATACTAAT
**
67381442 AAATGTAAAATATATTATACTAAT
1 AAATAAAAAATATATTATACTAAT
67381466 AAATA
1 AAATA
67381471 CTAAACATCC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.36
Consensus pattern (24 bp):
AAATAAAAAATATATTATACTAAT
Found at i:67381450 original size:26 final size:24
Alignment explanation
Indices: 67381424--67381469 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
67381414 AAAGAAATAA
* *
67381424 AAAATATTTTATGCTAATAAATGT
1 AAAATATATTATACTAATAAATGT
67381448 AAAATATATTATACTAATAAAT
1 AAAATATATTATACTAATAAAT
67381470 ACTAAACATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.39
Consensus pattern (24 bp):
AAAATATATTATACTAATAAATGT
Found at i:67388886 original size:23 final size:23
Alignment explanation
Indices: 67388836--67388904 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 23
67388826 TTAAGGATGT
* *
67388836 ATAAAA-A-ATAAAGAGGTAATA
1 ATAAAATAGATAAATAGATAATA
67388857 A-ATAAATAGATAAATAGATAATA
1 ATA-AAATAGATAAATAGATAATA
67388880 ATAAAATAG-T-AATA-ATAATA
1 ATAAAATAGATAAATAGATAATA
67388900 ATAAA
1 ATAAA
67388905 GACACAAAAG
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
20 12 0.29
21 8 0.19
22 2 0.05
23 19 0.45
24 1 0.02
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.25
Consensus pattern (23 bp):
ATAAAATAGATAAATAGATAATA
Found at i:67388892 original size:14 final size:15
Alignment explanation
Indices: 67388868--67388902 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
67388858 ATAAATAGAT
67388868 AAATAGATAATAATA
1 AAATAGATAATAATA
67388883 AAATAG-TAATAATA
1 AAATAGATAATAATA
67388897 ATAATA
1 A-AATA
67388903 AAGACACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.29
Consensus pattern (15 bp):
AAATAGATAATAATA
Found at i:67392585 original size:24 final size:25
Alignment explanation
Indices: 67392558--67392605 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
67392548 TGTCAGCAAT
*
67392558 AATTTTTTA-TTTTATATATTTTTA
1 AATTTATTATTTTTATATATTTTTA
67392582 AATTTATTATTTTTATATATTTTT
1 AATTTATTATTTTTATATATTTTT
67392606 GTTGTTTAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (25 bp):
AATTTATTATTTTTATATATTTTTA
Found at i:67392603 original size:17 final size:18
Alignment explanation
Indices: 67392559--67392603 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 18
67392549 GTCAGCAATA
67392559 ATTTTT-TAT-TTTATAT
1 ATTTTTATATATTTATAT
67392575 ATTTTTA-A-ATTTAT-T
1 ATTTTTATATATTTATAT
67392590 ATTTTTATATATTT
1 ATTTTTATATATTT
67392604 TTGTTGTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
15 8 0.32
16 13 0.52
17 4 0.16
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTTTTATATATTTATAT
Found at i:67394175 original size:20 final size:20
Alignment explanation
Indices: 67394150--67394199 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
67394140 TGGCTTAAAA
67394150 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
67394170 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
67394187 GTGGTAGTGGATT
1 TTGGTAGTGGATT
67394200 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:67398813 original size:20 final size:20
Alignment explanation
Indices: 67398788--67398837 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
67398778 TGGCTTAAAA
67398788 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
67398808 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
67398825 GTGGTAGTGGATT
1 TTGGTAGTGGATT
67398838 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:67401274 original size:23 final size:25
Alignment explanation
Indices: 67401248--67401294 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
67401238 TGTCAGCAAT
67401248 AATTT-TTA-TTTTATATATTTTTA
1 AATTTATTATTTTTATATATTTTTA
67401271 AATTTATTATTTTTATATATTTTT
1 AATTTATTATTTTTATATATTTTT
67401295 GTTGTTTAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 5 0.23
24 3 0.14
25 14 0.64
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (25 bp):
AATTTATTATTTTTATATATTTTTA
Found at i:67404460 original size:23 final size:23
Alignment explanation
Indices: 67404416--67404458 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
67404406 ACCTTCTTTT
67404416 GTAACCATTAATTTTATTTTTAA
1 GTAACCATTAATTTTATTTTTAA
*
67404439 GTAACCTTTAA-TTTATTTTT
1 GTAACCATTAATTTTATTTTT
67404459 TATGGTAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.30, C:0.09, G:0.05, T:0.56
Consensus pattern (23 bp):
GTAACCATTAATTTTATTTTTAA
Found at i:67404892 original size:20 final size:20
Alignment explanation
Indices: 67404867--67404916 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
67404857 TGGCTTAAAA
67404867 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
67404887 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
67404904 GTGGTAGTGGATT
1 TTGGTAGTGGATT
67404917 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:67409531 original size:20 final size:20
Alignment explanation
Indices: 67409506--67409555 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
67409496 TGGCTTAAAA
67409506 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
67409526 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
67409543 GTGGTAGTGGATT
1 TTGGTAGTGGATT
67409556 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:67418579 original size:29 final size:29
Alignment explanation
Indices: 67418498--67418586 Score: 81
Period size: 31 Copynumber: 3.0 Consensus size: 29
67418488 GGTTAAATCA
* *
67418498 AAATTAAAGTTTCAAGTATATATTTGAACC
1 AAATTAAAG-TTCAAGTATATAATTGCACC
* * *
67418528 ACAATTAGAATTTCACG-AGTATAATTGCATC
1 A-AATTA-AAGTTCAAGTA-TATAATTGCACC
*
67418559 AAATTAAAGTTCATGTATATAATTGCAC
1 AAATTAAAGTTCAAGTATATAATTGCAC
67418587 ATTAAATCAA
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
29 17 0.36
30 8 0.17
31 20 0.43
32 2 0.04
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.35
Consensus pattern (29 bp):
AAATTAAAGTTCAAGTATATAATTGCACC
Found at i:67427539 original size:22 final size:21
Alignment explanation
Indices: 67427514--67427556 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
67427504 AAGGTCACCG
* *
67427514 TACATATCACTTCCTCCACATA
1 TACAAATCACATCC-CCACATA
*
67427536 TACAAATCTCATCCCCACATA
1 TACAAATCACATCCCCACATA
67427557 CAGATATAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (21 bp):
TACAAATCACATCCCCACATA
Found at i:67428907 original size:16 final size:15
Alignment explanation
Indices: 67428887--67428929 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
67428877 AAATTTTACA
*
67428887 AATTAAAAAATAATT
1 AATTAAAAAATAAAT
67428902 ATATT-AAAAATAAAT
1 A-ATTAAAAAATAAAT
67428917 AATATAAAAAATA
1 AAT-TAAAAAATA
67428930 TGATTTGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 2 0.08
15 12 0.50
16 10 0.42
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AATTAAAAAATAAAT
Found at i:67431981 original size:126 final size:126
Alignment explanation
Indices: 67431581--67431995 Score: 532
Period size: 127 Copynumber: 3.3 Consensus size: 126
67431571 GATAAAATCA
* * * * * * * * *
67431581 AAGCAAGATGATTTATCAAAAGGATTTTTGAAGTCGCGCCCACGTGTACGCGCTTTTGCTATAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* **
67431646 AGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATA--ATTTAAAAACGCTTC
66 AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAAACGCTTC
* * ** *
67431705 AAGCAGGATGTTTTATGAGAAGAATTTGTGAAATCGCACCCTTGTGGACGCACTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * *
67431770 TGGTCCTAAAAGAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGT-TAAAAAAAACGCTTC
66 AGGTCCTGAAA-AAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAT-AAAAAAACGCTTC
* *
67431832 AAGTAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGGGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * *
67431897 AGGTCCTGAAAAAATAATTTCGAGTTGACATTTCTAAGCAAATAGTATAAAAAAACGCTGC
66 AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAAACGCTTC
* *
67431958 AAGCAGGATGCTATT-TGAGAAGAATTTTTGAAAACGCG
1 AAGCAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCG
67431996 AAGAATTTGT
Statistics
Matches: 250, Mismatches: 35, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
124 60 0.24
125 32 0.13
126 77 0.31
127 81 0.32
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.29
Consensus pattern (126 bp):
AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAAACGCTTC
Found at i:67433339 original size:19 final size:19
Alignment explanation
Indices: 67433311--67433348 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
67433301 CTAATCATAC
67433311 AACAGCTTTAAC-AACTACT
1 AACAGCTTT-ACTAACTACT
*
67433330 AACAGTTTTACTAACTACT
1 AACAGCTTTACTAACTACT
67433349 CTAACAAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.39, C:0.24, G:0.05, T:0.32
Consensus pattern (19 bp):
AACAGCTTTACTAACTACT
Found at i:67433771 original size:21 final size:21
Alignment explanation
Indices: 67433745--67433784 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
67433735 ATTTACACCT
67433745 TTCATAAACGTCATTATTTTA
1 TTCATAAACGTCATTATTTTA
*
67433766 TTCATAAATGTCATTATTT
1 TTCATAAACGTCATTATTT
67433785 AAATAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.12, G:0.05, T:0.50
Consensus pattern (21 bp):
TTCATAAACGTCATTATTTTA
Done.