Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 406 of 427
Found at i:117864757 original size:18 final size:18
Alignment explanation
Indices: 117864716--117864757 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
117864706 CATTAAATTT
*
117864716 AAAATATCAAAAAGTAAT
1 AAAATATCAAAAAGTAAA
*
117864734 AAAATATCAAAGA-TAAA
1 AAAATATCAAAAAGTAAA
117864751 AATAATA
1 AA-AATA
117864758 AAATAAGCCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.69, C:0.05, G:0.05, T:0.21
Consensus pattern (18 bp):
AAAATATCAAAAAGTAAA
Found at i:117897603 original size:6 final size:6
Alignment explanation
Indices: 117897579--117897617 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
117897569 CAATTATTTT
*
117897579 TAATTAA TAATTAA TAATTA TAATTA TATTTA TAATTA T
1 TAATT-A TAATT-A TAATTA TAATTA TAATTA TAATTA T
117897618 CACAACTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
6 18 0.60
7 12 0.40
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
TAATTA
Found at i:117898584 original size:24 final size:24
Alignment explanation
Indices: 117898556--117898603 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
117898546 CTTCCAAACG
*
117898556 CTATTTTATTTCACAATATCATCA
1 CTATTTTATTTCACAAAATCATCA
117898580 CTATTTTATTTCACAAAATCATCA
1 CTATTTTATTTCACAAAATCATCA
117898604 TTCAACCATC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.21, G:0.00, T:0.44
Consensus pattern (24 bp):
CTATTTTATTTCACAAAATCATCA
Found at i:117899692 original size:13 final size:12
Alignment explanation
Indices: 117899658--117899697 Score: 57
Period size: 11 Copynumber: 3.4 Consensus size: 12
117899648 GTCGTTCTTA
117899658 TAAAAAACAAA-
1 TAAAAAACAAAG
117899669 TAAAAAA-AAAG
1 TAAAAAACAAAG
117899680 TAAAAACACAAAG
1 TAAAAA-ACAAAG
117899693 TAAAA
1 TAAAA
117899698 TTATTAGTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 3 0.12
11 13 0.50
12 1 0.04
13 9 0.35
ACGTcount: A:0.78, C:0.07, G:0.05, T:0.10
Consensus pattern (12 bp):
TAAAAAACAAAG
Found at i:117900098 original size:2 final size:2
Alignment explanation
Indices: 117900091--117900118 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
117900081 AATGGTAAAA
117900091 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
117900119 TTGAGGTTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:117904279 original size:6 final size:6
Alignment explanation
Indices: 117904268--117904294 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
117904258 TAGATATAAA
117904268 ATTTTG ATTTTG ATTTTG ATTTTG ATT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATT
117904295 AAACTATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.15, T:0.67
Consensus pattern (6 bp):
ATTTTG
Found at i:117905060 original size:21 final size:20
Alignment explanation
Indices: 117905028--117905066 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
117905018 ATTTTAAAAT
*
117905028 AGAAAAAATATAATATTACA
1 AGAAAAAATATAAAATTACA
117905048 AGAAAACAATATAAAATTA
1 AGAAAA-AATATAAAATTA
117905067 AAAAAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.23
Consensus pattern (20 bp):
AGAAAAAATATAAAATTACA
Found at i:117909344 original size:46 final size:46
Alignment explanation
Indices: 117909277--117909492 Score: 315
Period size: 46 Copynumber: 4.7 Consensus size: 46
117909267 GGCAACCTGA
117909277 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*
117909323 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* *
117909369 GTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*** * * *
117909415 GAACAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* * * *
117909461 GAGTAAGACCATAGTTGAAAGACACTATGGCA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCA
117909493 TCATGTCAAA
Statistics
Matches: 156, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 156 1.00
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
Found at i:117909472 original size:138 final size:130
Alignment explanation
Indices: 117909227--117909492 Score: 379
Period size: 138 Copynumber: 2.0 Consensus size: 130
117909217 AGTGTGCTCT
*
117909227 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGCAAGACCATGGT
* * * * * *
117909292 TGAAAGATACCATGGCAACCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
*
117909357 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAACAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG--A-G---TG--CAAG
*
117909422 ACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACT
58 ACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACC
117909487 ATGGCA
123 ATGGCA
117909493 TCATGTCAAA
Statistics
Matches: 119, Mismatches: 9, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
130 48 0.40
132 1 0.01
133 1 0.01
136 2 0.02
138 67 0.56
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (130 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGCAAGACCATGGT
TGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
Found at i:117910212 original size:17 final size:17
Alignment explanation
Indices: 117910190--117910224 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
117910180 TAAACAAATT
*
117910190 AAAATATATATACTTAA
1 AAAATATATACACTTAA
*
117910207 AAAATATGTACACTTAA
1 AAAATATATACACTTAA
117910224 A
1 A
117910225 TGCTTTTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.57, C:0.09, G:0.03, T:0.31
Consensus pattern (17 bp):
AAAATATATACACTTAA
Found at i:117910324 original size:36 final size:36
Alignment explanation
Indices: 117910281--117910352 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
117910271 TAGTATATAA
117910281 ATTTATCTACTTTTCCCATATTGACACTTATGATTT
1 ATTTATCTACTTTTCCCATATTGACACTTATGATTT
117910317 ATTTATCTACTTTTCCCATATTGACACTTATGATTT
1 ATTTATCTACTTTTCCCATATTGACACTTATGATTT
117910353 TTTTTTCCTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.25, C:0.19, G:0.06, T:0.50
Consensus pattern (36 bp):
ATTTATCTACTTTTCCCATATTGACACTTATGATTT
Found at i:117921587 original size:27 final size:28
Alignment explanation
Indices: 117921539--117921593 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
117921529 AATATATTTT
* *
117921539 TAAAATATAAATATTAAAAATATATAAA
1 TAAAAAATAAATAATAAAAATATATAAA
* *
117921567 TAAAAAAT-AATAATAATAATATTTAAA
1 TAAAAAATAAATAATAAAAATATATAAA
117921594 ATATCATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (28 bp):
TAAAAAATAAATAATAAAAATATATAAA
Found at i:117922258 original size:9 final size:9
Alignment explanation
Indices: 117922216--117922259 Score: 54
Period size: 9 Copynumber: 5.0 Consensus size: 9
117922206 AATTGATTTT
117922216 TTAATTAAA
1 TTAATTAAA
*
117922225 -TAATTTAA
1 TTAATTAAA
117922233 TTAATTAAA
1 TTAATTAAA
**
117922242 TTTTTTAAA
1 TTAATTAAA
117922251 TTAATTAAA
1 TTAATTAAA
117922260 GGAAAATGTT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
8 7 0.25
9 21 0.75
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (9 bp):
TTAATTAAA
Found at i:117922717 original size:15 final size:15
Alignment explanation
Indices: 117922697--117922731 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
117922687 GGTGCGCCCA
117922697 TTTCTTCTTCTTCT-T
1 TTTCTTC-TCTTCTCT
117922712 TTTCTTCTCTTCTCT
1 TTTCTTCTCTTCTCT
117922727 TTTCT
1 TTTCT
117922732 GATGGTAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTCTTCTCTTCTCT
Found at i:117923555 original size:15 final size:14
Alignment explanation
Indices: 117923535--117923567 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 14
117923525 GAGCAAACGT
117923535 GAAAGAAAGAAGAAA
1 GAAAGAAAGAA-AAA
117923550 GAAAGAAAGAAAAA
1 GAAAGAAAGAAAAA
117923564 GAAA
1 GAAA
117923568 AAGGGAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (14 bp):
GAAAGAAAGAAAAA
Found at i:117926498 original size:2 final size:2
Alignment explanation
Indices: 117926491--117926516 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
117926481 TCACATAAAC
117926491 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
117926517 TCACTTTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:117926862 original size:14 final size:14
Alignment explanation
Indices: 117926843--117926887 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
117926833 AAATGTAAAA
117926843 TGAAATAAAATAAG
1 TGAAATAAAATAAG
* *
117926857 TGAAATTAAATTAG
1 TGAAATAAAATAAG
*
117926871 -GAAATAAAATATG
1 TGAAATAAAATAAG
117926884 TGAA
1 TGAA
117926888 TTCTTAGCTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.58, C:0.00, G:0.16, T:0.27
Consensus pattern (14 bp):
TGAAATAAAATAAG
Found at i:117927455 original size:61 final size:61
Alignment explanation
Indices: 117927378--117927500 Score: 246
Period size: 61 Copynumber: 2.0 Consensus size: 61
117927368 TTGTGTTGTA
117927378 AGGTTTTAGCATGAGTTCATTTCTCACAATTCTCGATTGAAGTGATAACTGATCTAAAGCT
1 AGGTTTTAGCATGAGTTCATTTCTCACAATTCTCGATTGAAGTGATAACTGATCTAAAGCT
117927439 AGGTTTTAGCATGAGTTCATTTCTCACAATTCTCGATTGAAGTGATAACTGATCTAAAGCT
1 AGGTTTTAGCATGAGTTCATTTCTCACAATTCTCGATTGAAGTGATAACTGATCTAAAGCT
117927500 A
1 A
117927501 AACGGAGATT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (61 bp):
AGGTTTTAGCATGAGTTCATTTCTCACAATTCTCGATTGAAGTGATAACTGATCTAAAGCT
Found at i:117935540 original size:44 final size:45
Alignment explanation
Indices: 117935450--117935578 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
117935440 GACAGAACGA
*
117935450 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
117935496 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
117935540 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
117935579 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:117941223 original size:51 final size:50
Alignment explanation
Indices: 117941152--117941325 Score: 267
Period size: 51 Copynumber: 3.4 Consensus size: 50
117941142 CTGATCACAT
*
117941152 TTATCACTTGTCACTGATCAGATAAGTTTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
* * *
117941203 TTATCACTTGTCACTGATCAGATCAGAGTAGCTAAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
* * *
117941253 TTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
117941304 TTATCACTTGTCACTGATCAGA
1 TTATCACTTGTCACTGATCAGA
117941326 AGTACTCAAA
Statistics
Matches: 110, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
50 45 0.41
51 65 0.59
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (50 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
Found at i:117943351 original size:19 final size:19
Alignment explanation
Indices: 117943327--117943370 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
117943317 TCTGACTTTT
117943327 TTTTTTTACTTATTTATTA
1 TTTTTTTACTTATTTATTA
* *
117943346 TTTTTTTAGTTTTTTATTA
1 TTTTTTTACTTATTTATTA
117943365 TCTTTT
1 T-TTTT
117943371 ATCTTTTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.77
Consensus pattern (19 bp):
TTTTTTTACTTATTTATTA
Found at i:117943365 original size:26 final size:27
Alignment explanation
Indices: 117943328--117943378 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
117943318 CTGACTTTTT
*
117943328 TTTTTTACTTAT-TTATTATTTTTTTAG
1 TTTTTTACTTATCTT-TTATCTTTTTAG
117943355 TTTTTTA-TTATCTTTTATCTTTTT
1 TTTTTTACTTATCTTTTATCTTTTT
117943379 CTTTAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.16, C:0.06, G:0.02, T:0.76
Consensus pattern (27 bp):
TTTTTTACTTATCTTTTATCTTTTTAG
Found at i:117943499 original size:19 final size:22
Alignment explanation
Indices: 117943462--117943504 Score: 65
Period size: 19 Copynumber: 2.1 Consensus size: 22
117943452 ATTTGAAATG
117943462 TTTTATAATATATATTTTTAAA
1 TTTTATAATATATATTTTTAAA
117943484 TTTTA-AATAT-TA-TTTTAAA
1 TTTTATAATATATATTTTTAAA
117943503 TT
1 TT
117943505 ATTTTTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 9 0.43
20 2 0.10
21 5 0.24
22 5 0.24
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TTTTATAATATATATTTTTAAA
Found at i:117943509 original size:22 final size:22
Alignment explanation
Indices: 117943429--117943502 Score: 62
Period size: 23 Copynumber: 3.4 Consensus size: 22
117943419 TTTGTTATTA
* * *
117943429 ATTTTAAAAAATTTAAAATGTAT
1 ATTTT-AAAATTTTATAATATAT
* *
117943452 ATTTGAAATGTTTTATAATATAT
1 ATTTTAAA-ATTTTATAATATAT
*
117943475 ATTTTTAAATTTTA-AATAT-T
1 ATTTTAAAATTTTATAATATAT
117943495 ATTTTAAA
1 ATTTTAAA
117943503 TTATTTTTTA
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
20 8 0.20
21 5 0.12
22 8 0.20
23 20 0.49
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (22 bp):
ATTTTAAAATTTTATAATATAT
Found at i:117943514 original size:31 final size:35
Alignment explanation
Indices: 117943462--117943531 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 35
117943452 ATTTGAAATG
117943462 TTTTATAATATATATTTTTAAATTTTAAATATTA-
1 TTTTATAATATATATTTTTAAATTTTAAATATTAC
*
117943496 TTTTA-AAT-TAT-TTTTTAAATTTTGAATATTAC
1 TTTTATAATATATATTTTTAAATTTTAAATATTAC
117943528 TTTT
1 TTTT
117943532 TTAAACATTA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
31 19 0.56
32 7 0.21
33 3 0.09
34 5 0.15
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (35 bp):
TTTTATAATATATATTTTTAAATTTTAAATATTAC
Found at i:117943516 original size:12 final size:13
Alignment explanation
Indices: 117943483--117943516 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
117943473 ATATTTTTAA
117943483 ATTTTAAA-TATT
1 ATTTTAAATTATT
117943495 ATTTTAAATTATT
1 ATTTTAAATTATT
117943508 -TTTTAAATT
1 ATTTTAAATT
117943517 TTGAATATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 17 0.81
13 4 0.19
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
ATTTTAAATTATT
Found at i:117943545 original size:22 final size:21
Alignment explanation
Indices: 117943502--117943556 Score: 56
Period size: 22 Copynumber: 2.6 Consensus size: 21
117943492 ATTATTTTAA
** *
117943502 ATTATTTTTTAAATTTTGAAT
1 ATTATTTTTTAAACATTAAAT
117943523 ATTACTTTTTTAAACATTAAAT
1 ATTA-TTTTTTAAACATTAAAT
* *
117943545 ATAAATTTTTAA
1 ATTATTTTTTAA
117943557 TAATACAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
21 11 0.39
22 17 0.61
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.55
Consensus pattern (21 bp):
ATTATTTTTTAAACATTAAAT
Found at i:117943636 original size:11 final size:10
Alignment explanation
Indices: 117943610--117943683 Score: 51
Period size: 10 Copynumber: 6.8 Consensus size: 10
117943600 TTATTACTAG
*
117943610 TTTTTTAATA
1 TTTTTAAATA
117943620 TTTTTAAATA
1 TTTTTAAATA
*
117943630 TTATTT-AATT
1 TT-TTTAAATA
117943640 TGTTTTATAATA
1 T-TTTTA-AATA
*
117943652 TTTTAAATTATGA
1 TTTTTAA--AT-A
117943665 TTTTTAAATTA
1 TTTTTAAA-TA
117943676 TTTTTAAA
1 TTTTTAAA
117943684 GGTATTCGGC
Statistics
Matches: 51, Mismatches: 5, Indels: 15
0.72 0.07 0.21
Matches are distributed among these distances:
10 19 0.37
11 18 0.35
12 7 0.14
13 7 0.14
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (10 bp):
TTTTTAAATA
Found at i:117943660 original size:21 final size:21
Alignment explanation
Indices: 117943621--117943683 Score: 56
Period size: 21 Copynumber: 2.8 Consensus size: 21
117943611 TTTTTAATAT
*
117943621 TTTTAAATATTATTTAATTTG
1 TTTTAAATATTATTAAATTTG
117943642 TTTTATAATATT-TTAAATTATG
1 TTTTA-AATATTATTAAATT-TG
*
117943664 ATTTTTAAATTATTTTTAAA
1 --TTTTAAA-TATTATTAAA
117943684 GGTATTCGGC
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
21 11 0.31
22 8 0.23
23 2 0.06
24 9 0.26
25 5 0.14
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (21 bp):
TTTTAAATATTATTAAATTTG
Found at i:117948811 original size:4 final size:4
Alignment explanation
Indices: 117948802--117948833 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
117948792 AATTAATAAC
117948802 AAAT AAAT AAAT AAAT AAAT AAAT AAAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAA
117948834 ATAAGAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:117948870 original size:19 final size:21
Alignment explanation
Indices: 117948848--117948889 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
117948838 GAAAAAATAT
117948848 AAAACTTAAA-AAAAAGA-AA
1 AAAACTTAAAGAAAAAGACAA
*
117948867 AAAATTTAAAGAAAAAGACAA
1 AAAACTTAAAGAAAAAGACAA
117948888 AA
1 AA
117948890 GATAATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 9 0.45
20 7 0.35
21 4 0.20
ACGTcount: A:0.76, C:0.05, G:0.07, T:0.12
Consensus pattern (21 bp):
AAAACTTAAAGAAAAAGACAA
Found at i:117948914 original size:18 final size:19
Alignment explanation
Indices: 117948893--117948930 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
117948883 GACAAAAGAT
117948893 AATAAA-AAACTAAAAAAA
1 AATAAATAAACTAAAAAAA
**
117948911 AATAAATAAGGTAAAAAAA
1 AATAAATAAACTAAAAAAA
117948930 A
1 A
117948931 GAGTGAAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.79, C:0.03, G:0.05, T:0.13
Consensus pattern (19 bp):
AATAAATAAACTAAAAAAA
Found at i:117949281 original size:21 final size:22
Alignment explanation
Indices: 117949244--117949298 Score: 78
Period size: 21 Copynumber: 2.5 Consensus size: 22
117949234 GAAAGTTTAA
117949244 AATATTTAAATATTTAAAAAA-T
1 AATATTTAAA-ATTTAAAAAAGT
117949266 AATATTTAAAATTTAAAAAAGT
1 AATATTTAAAATTTAAAAAAGT
*
117949288 AAT-TTCAAAAT
1 AATATTTAAAAT
117949299 ATATATTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
21 17 0.55
22 14 0.45
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (22 bp):
AATATTTAAAATTTAAAAAAGT
Found at i:117949361 original size:22 final size:21
Alignment explanation
Indices: 117949288--117949361 Score: 60
Period size: 22 Copynumber: 3.2 Consensus size: 21
117949278 TTAAAAAAGT
117949288 AATTTCAAAATATATATTT-AA
1 AATTTC-AAATATATATTTAAA
* *
117949309 AATTTAAAAAATACATATTAATAAA
1 AATTT--CAAATATATATT--TAAA
117949334 ATATTTCAAATATATATTTCAAA
1 A-ATTTCAAATATATATTT-AAA
117949357 AATTT
1 AATTT
117949362 TAAAGTTAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
21 5 0.12
22 15 0.36
23 4 0.10
24 11 0.26
25 3 0.07
26 4 0.10
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (21 bp):
AATTTCAAATATATATTTAAA
Found at i:117949378 original size:47 final size:47
Alignment explanation
Indices: 117949289--117949380 Score: 116
Period size: 47 Copynumber: 2.0 Consensus size: 47
117949279 TAAAAAAGTA
*
117949289 ATTTCAAAATATATATTTAAAATTTAAAAAATACATATTAATAAAAT
1 ATTTCAAAATATATATTTAAAATTTAAAAAATACATAATAATAAAAT
* **
117949336 ATTTC-AAATATATATTTCAAAAATTTTAAAGTTA-ATAATAATAAA
1 ATTTCAAAATATATATTT--AAAATTTAAAAAATACATAATAATAAA
117949381 TAAAATAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
46 12 0.31
47 15 0.38
48 12 0.31
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.39
Consensus pattern (47 bp):
ATTTCAAAATATATATTTAAAATTTAAAAAATACATAATAATAAAAT
Found at i:117949389 original size:9 final size:9
Alignment explanation
Indices: 117949369--117949401 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
117949359 TTTTAAAGTT
117949369 AATAATAATA
1 AATAA-AATA
117949379 AATAAAATA
1 AATAAAATA
117949388 AAT-AAATA
1 AATAAAATA
117949396 AATAAA
1 AATAAA
117949402 GAGAAAAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.36
9 9 0.41
10 5 0.23
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
AATAAAATA
Found at i:117951398 original size:3 final size:3
Alignment explanation
Indices: 117951392--117951429 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
117951382 ATTATTATTA
117951392 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
117951430 TTAAAAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:117956254 original size:32 final size:32
Alignment explanation
Indices: 117956218--117956283 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
117956208 AATTAAAAAC
*
117956218 TTACCCTGAATATTGTAGAATTATACTCATAG
1 TTACCCTGAATATTGAAGAATTATACTCATAG
117956250 TTACCCTGAATATTGAAGAATTATACTCATAG
1 TTACCCTGAATATTGAAGAATTATACTCATAG
117956282 TT
1 TT
117956284 TTAAAGTTGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (32 bp):
TTACCCTGAATATTGAAGAATTATACTCATAG
Found at i:117959717 original size:4 final size:4
Alignment explanation
Indices: 117959708--117959733 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
117959698 AAAGAATTGC
117959708 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
117959734 GTAGAGTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:117964564 original size:30 final size:30
Alignment explanation
Indices: 117964530--117964592 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
117964520 ACTTAACAAG
117964530 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* *
117964560 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
117964590 CAA
1 CAA
117964593 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.14, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:117978580 original size:3 final size:3
Alignment explanation
Indices: 117978572--117978598 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
117978562 TCATTCAATT
117978572 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
117978599 ACAATAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:117990449 original size:21 final size:20
Alignment explanation
Indices: 117990412--117990450 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
117990402 AAGAAAGCTC
*
117990412 ATTAAAATTTATGAAAAATT
1 ATTAAAATTAATGAAAAATT
*
117990432 ATTAGAAATTAATTAAAAA
1 ATTA-AAATTAATGAAAAA
117990451 CAATAAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (20 bp):
ATTAAAATTAATGAAAAATT
Found at i:117991264 original size:13 final size:13
Alignment explanation
Indices: 117991246--117991270 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
117991236 CTACACCCTC
117991246 TTTTTTTTTTAAA
1 TTTTTTTTTTAAA
117991259 TTTTTTTTTTAA
1 TTTTTTTTTTAA
117991271 TAAATCGGTC
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:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTTTTTTAAA
Found at i:117994595 original size:18 final size:18
Alignment explanation
Indices: 117994572--117994607 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
117994562 TCGTCAACAA
*
117994572 AAAGACTTTTCTTGTGTC
1 AAAGACTTTTCTTCTGTC
117994590 AAAGACTTTTCTTCTGTC
1 AAAGACTTTTCTTCTGTC
117994608 TCTGTTCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.19, G:0.14, T:0.44
Consensus pattern (18 bp):
AAAGACTTTTCTTCTGTC
Found at i:117995309 original size:18 final size:17
Alignment explanation
Indices: 117995274--117995306 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
117995264 ATTTGACATT
*
117995274 TTTAAAATTAATTTTTA
1 TTTAAAAATAATTTTTA
117995291 TTTAAAAATAATTTTT
1 TTTAAAAATAATTTTT
117995307 TATAATTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTAAAAATAATTTTTA
Found at i:118000368 original size:18 final size:18
Alignment explanation
Indices: 118000345--118000379 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
118000335 ACCCACTTTA
118000345 TAATTAAAAATTAATTTT
1 TAATTAAAAATTAATTTT
**
118000363 TAATTAATTATTAATTT
1 TAATTAAAAATTAATTT
118000380 ATTTATTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TAATTAAAAATTAATTTT
Found at i:118002409 original size:2 final size:2
Alignment explanation
Indices: 118002402--118002433 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
118002392 CATATCTGTT
118002402 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
118002434 ATGTCTAGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:118004805 original size:15 final size:15
Alignment explanation
Indices: 118004785--118004814 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
118004775 TTTTTATGAA
118004785 AATAAAAACTAAATT
1 AATAAAAACTAAATT
118004800 AATAAAAACTAAATT
1 AATAAAAACTAAATT
118004815 GAAAATAGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (15 bp):
AATAAAAACTAAATT
Found at i:118005400 original size:20 final size:21
Alignment explanation
Indices: 118005366--118005407 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
118005356 TAATTTTAAA
*
118005366 AAATAAAAGAAACAAGAAAAAT
1 AAATAAAAG-AACAACAAAAAT
118005388 AAATAAAAG-ACAACAAAAAT
1 AAATAAAAGAACAACAAAAAT
118005408 TTTAATAGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
22 9 0.47
ACGTcount: A:0.76, C:0.07, G:0.07, T:0.10
Consensus pattern (21 bp):
AAATAAAAGAACAACAAAAAT
Found at i:118007142 original size:9 final size:9
Alignment explanation
Indices: 118007130--118007175 Score: 60
Period size: 9 Copynumber: 5.2 Consensus size: 9
118007120 CAATAAATAA
118007130 AAAATATAT
1 AAAATATAT
118007139 AAAATATAT
1 AAAATATAT
118007148 AAAAT-TAT
1 AAAATATAT
*
118007156 TAAATAT-T
1 AAAATATAT
118007164 AAAATAATAT
1 AAAAT-ATAT
118007174 AA
1 AA
118007176 TTTAAAAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
8 12 0.38
9 17 0.53
10 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
AAAATATAT
Found at i:118007162 original size:17 final size:17
Alignment explanation
Indices: 118007130--118007175 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
118007120 CAATAAATAA
118007130 AAAATATATAAAATATAT
1 AAAATATATAAAATAT-T
*
118007148 AAAAT-TATTAAATATT
1 AAAATATATAAAATATT
118007164 AAAATAATATAA
1 AAAAT-ATATAA
118007176 TTTAAAAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 6 0.25
17 9 0.38
18 9 0.38
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AAAATATATAAAATATT
Found at i:118014269 original size:21 final size:21
Alignment explanation
Indices: 118014219--118014290 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 21
118014209 ACTAATTATA
**
118014219 ATATATTTTTTATTTTAGAAT
1 ATATATTTTTTATTTTTTAAT
* *
118014240 -TTTAATTTTTATTTTTTAAT
1 ATATATTTTTTATTTTTTAAT
* *
118014260 ATATA-TTTTTACCTCTTTAAT
1 ATATATTTTTTA-TTTTTTAAT
118014281 ATATATTTTT
1 ATATATTTTT
118014291 AAATAAAGTC
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
20 22 0.54
21 15 0.37
22 4 0.10
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.65
Consensus pattern (21 bp):
ATATATTTTTTATTTTTTAAT
Found at i:118014580 original size:20 final size:22
Alignment explanation
Indices: 118014551--118014604 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
118014541 TATTTTATAT
118014551 TATT-AAAAATATATATAAA-A
1 TATTAAAAAATATATATAAATA
*
118014571 T-TTAAAAAATAATATTTAAATA
1 TATTAAAAAAT-ATATATAAATA
118014593 TATTAAAAAATA
1 TATTAAAAAATA
118014605 ATTTTAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
19 2 0.07
20 7 0.24
21 8 0.28
22 3 0.10
23 9 0.31
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
TATTAAAAAATATATATAAATA
Found at i:118014611 original size:36 final size:35
Alignment explanation
Indices: 118014538--118014648 Score: 98
Period size: 35 Copynumber: 2.9 Consensus size: 35
118014528 TAAAATATTT
*
118014538 AAATATTTTATATTATTAAAAATATATATAAAATTTAAAAA
1 AAATA-TTTAAATTATTAAAAA-ATATAT----TTTAAAAA
*
118014579 ATAATATTTAAATATATTAAAAAATA-ATTTTAAAAT
1 A-AATATTTAAAT-TATTAAAAAATATATTTTAAAAA
* *
118014615 AAATATTTTAATTTTTAAAAAATATATTATTAAA
1 AAATATTTAAATTATTAAAAAATATATT-TTAAA
118014649 CATTTCAAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 13
0.78 0.05 0.16
Matches are distributed among these distances:
34 11 0.18
35 13 0.21
36 13 0.21
40 2 0.03
41 10 0.16
42 13 0.21
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (35 bp):
AAATATTTAAATTATTAAAAAATATATTTTAAAAA
Found at i:118014632 original size:21 final size:22
Alignment explanation
Indices: 118014606--118014647 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
118014596 TAAAAAATAA
118014606 TTTTAAAATAA-ATATT-TTAAT
1 TTTTAAAA-AATATATTATTAAT
118014627 TTTTAAAAAATATATTATTAA
1 TTTTAAAAAATATATTATTAA
118014648 ACATTTCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 2 0.11
21 13 0.68
22 4 0.21
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TTTTAAAAAATATATTATTAAT
Found at i:118014633 original size:34 final size:36
Alignment explanation
Indices: 118014576--118014648 Score: 98
Period size: 34 Copynumber: 2.1 Consensus size: 36
118014566 TAAAATTTAA
118014576 AAAATAATATTTAAATATATTAAAAAATA-ATT-TT
1 AAAATAATATTTAAATATATTAAAAAATATATTATT
* *
118014610 AAAATAAATATTTTAAT-TTTTAAAAAATATATTATT
1 AAAAT-AATATTTAAATATATTAAAAAATATATTATT
118014646 AAA
1 AAA
118014649 CATTTCAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
34 16 0.47
35 13 0.38
36 5 0.15
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (36 bp):
AAAATAATATTTAAATATATTAAAAAATATATTATT
Found at i:118015294 original size:21 final size:21
Alignment explanation
Indices: 118015268--118015307 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
118015258 TAATAGAAAA
118015268 TAAAAAATAAAAATTATATTT
1 TAAAAAATAAAAATTATATTT
*
118015289 TAAAAAATATAAATTATAT
1 TAAAAAATAAAAATTATAT
118015308 AAAAATACAC
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
TAAAAAATAAAAATTATATTT
Found at i:118016036 original size:17 final size:18
Alignment explanation
Indices: 118016009--118016047 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
118015999 ATTTTTAAAT
118016009 AATAATGATTTTT-TTGAA
1 AATAATGATTTTTATT-AA
118016027 AATAAT-ATTTTTATTAA
1 AATAATGATTTTTATTAA
118016044 AATA
1 AATA
118016048 TTTCAAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (18 bp):
AATAATGATTTTTATTAA
Found at i:118016290 original size:15 final size:16
Alignment explanation
Indices: 118016272--118016301 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
118016262 AAATTAGTAA
118016272 AATTAATTT-TAGTTC
1 AATTAATTTATAGTTC
118016287 AATTAATTTATAGTT
1 AATTAATTTATAGTT
118016302 TTTTAGTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.37, C:0.03, G:0.07, T:0.53
Consensus pattern (16 bp):
AATTAATTTATAGTTC
Found at i:118017264 original size:32 final size:32
Alignment explanation
Indices: 118017211--118017290 Score: 115
Period size: 32 Copynumber: 2.5 Consensus size: 32
118017201 TATCTTTTAA
* *
118017211 ATAAATCCTAAACTTTTCTTTTTTTGGTGACAT
1 ATAAATCCT-AACTTTACTTTTTTTGGTGACAC
* *
118017244 ATAAATCCTAACTTTACTTTTTTTTGTGATAC
1 ATAAATCCTAACTTTACTTTTTTTGGTGACAC
118017276 ATAAATCCTAACTTT
1 ATAAATCCTAACTTT
118017291 CGAAATTACT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
32 34 0.79
33 9 0.21
ACGTcount: A:0.30, C:0.16, G:0.06, T:0.47
Consensus pattern (32 bp):
ATAAATCCTAACTTTACTTTTTTTGGTGACAC
Found at i:118017810 original size:14 final size:15
Alignment explanation
Indices: 118017786--118017815 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
118017776 ATTGAGTTTA
118017786 TCTTGCTTTTTTTTT
1 TCTTGCTTTTTTTTT
118017801 TCTT-CTTTTTTTTT
1 TCTTGCTTTTTTTTT
118017815 T
1 T
118017816 TACATTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.00, C:0.13, G:0.03, T:0.83
Consensus pattern (15 bp):
TCTTGCTTTTTTTTT
Found at i:118018265 original size:29 final size:30
Alignment explanation
Indices: 118018187--118018266 Score: 72
Period size: 29 Copynumber: 2.6 Consensus size: 30
118018177 TAATGGCGGT
* * *
118018187 AATAATTAAACTTGAATTTTTAAAAATTTAAA
1 AATAATGAAA-TTAAATTTCTAAAAA-TTAAA
* * * *
118018219 AATAAAGAGACTATATTTCTAAAAA-TAAA
1 AATAATGAAATTAAATTTCTAAAAATTAAA
118018248 AATAATGAAATTAAATTTC
1 AATAATGAAATTAAATTTC
118018267 AAATTTATAA
Statistics
Matches: 37, Mismatches: 11, Indels: 3
0.73 0.22 0.06
Matches are distributed among these distances:
29 19 0.51
31 11 0.30
32 7 0.19
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (30 bp):
AATAATGAAATTAAATTTCTAAAAATTAAA
Found at i:118018597 original size:28 final size:28
Alignment explanation
Indices: 118018566--118018626 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
118018556 TCATACCCAT
*
118018566 TTTTA-TCATTTACTTACTTTTAGTTAT-A
1 TTTTATTCATTTACTT-CTTGTA-TTATGA
*
118018594 TTTTATTTATTTACTTCTTGTATTATGA
1 TTTTATTCATTTACTTCTTGTATTATGA
118018622 TTTTA
1 TTTTA
118018627 AATTATACAC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 4 0.14
28 16 0.55
29 9 0.31
ACGTcount: A:0.23, C:0.08, G:0.05, T:0.64
Consensus pattern (28 bp):
TTTTATTCATTTACTTCTTGTATTATGA
Found at i:118018632 original size:29 final size:29
Alignment explanation
Indices: 118018564--118018632 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
118018554 TTTCATACCC
* * *
118018564 ATTTTTATCATTTACTTACTTTTAGTTAT
1 ATTTTAATTATTTACTTACTTGTAGTTAT
*
118018593 ATTTTATTTATTTACTT-CTTGTA-TTAT
1 ATTTTAATTATTTACTTACTTGTAGTTAT
118018620 GATTTTAAATTAT
1 -ATTTT-AATTAT
118018633 ACACAACCCT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
27 4 0.12
28 10 0.30
29 19 0.58
ACGTcount: A:0.26, C:0.07, G:0.04, T:0.62
Consensus pattern (29 bp):
ATTTTAATTATTTACTTACTTGTAGTTAT
Found at i:118019229 original size:15 final size:16
Alignment explanation
Indices: 118019204--118019234 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
118019194 TGGAAATCTC
118019204 GGTGCCCCCACCAAAG
1 GGTGCCCCCACCAAAG
118019220 GGTG-CCCCACCAAAG
1 GGTGCCCCCACCAAAG
118019235 CGTTTGTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.26, C:0.42, G:0.26, T:0.06
Consensus pattern (16 bp):
GGTGCCCCCACCAAAG
Found at i:118022799 original size:14 final size:14
Alignment explanation
Indices: 118022780--118022810 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
118022770 GGCGTCTTGT
118022780 TGCTCACTGGGGAA
1 TGCTCACTGGGGAA
118022794 TGCTCACTGGGGAA
1 TGCTCACTGGGGAA
118022808 TGC
1 TGC
118022811 GTTACTGCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.23, G:0.35, T:0.23
Consensus pattern (14 bp):
TGCTCACTGGGGAA
Found at i:118028787 original size:2 final size:2
Alignment explanation
Indices: 118028780--118028818 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
118028770 TAAATATCTT
118028780 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
118028819 AAGTAGGTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:118031994 original size:23 final size:24
Alignment explanation
Indices: 118031968--118032019 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
118031958 AAATACTACA
*
118031968 AAATAAAGTTTTAAT-TTTTATTT
1 AAATAAAGTTTTAATAATTTATTT
* * *
118031991 AAATCAATTTTTTATAATTTATTT
1 AAATAAAGTTTTAATAATTTATTT
118032015 AAATA
1 AAATA
118032020 CTTATAAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (24 bp):
AAATAAAGTTTTAATAATTTATTT
Found at i:118036351 original size:14 final size:15
Alignment explanation
Indices: 118036313--118036353 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
118036303 GAGAGAAACT
118036313 AAATAAAAAATTATTA
1 AAAT-AAAAATTATTA
**
118036329 AGTTAAAAATTATTA
1 AAATAAAAATTATTA
118036344 AAATAAAAAT
1 AAATAAAAAT
118036354 ATATATTTGA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 19 0.90
16 2 0.10
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (15 bp):
AAATAAAAATTATTA
Found at i:118038611 original size:6 final size:6
Alignment explanation
Indices: 118038581--118038620 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
118038571 ACCGAAGATT
* *
118038581 AGAAAA A-AAAA AAAAAA AGAAAA AGAAAA AGAAAG AGAAA
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAA
118038621 CATAAAAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 5 0.16
6 26 0.84
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:118050723 original size:2 final size:2
Alignment explanation
Indices: 118050716--118050741 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
118050706 AACATAAAAG
118050716 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
118050742 TATTTTTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:118052662 original size:2 final size:2
Alignment explanation
Indices: 118052655--118052684 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
118052645 TTAACTAAAG
118052655 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
118052685 TATTTTTGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:118053293 original size:14 final size:13
Alignment explanation
Indices: 118053250--118053297 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
118053240 CTTATTTCGA
118053250 TAAAATAAATAATT
1 TAAAATAAA-AATT
* *
118053264 TCAAATCAAACATT
1 TAAAAT-AAAAATT
118053278 TAAAATAAAAATTT
1 TAAAATAAAAA-TT
118053292 TAAAAT
1 TAAAAT
118053298 TGTGATTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 4 0.14
14 21 0.75
15 3 0.11
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.33
Consensus pattern (13 bp):
TAAAATAAAAATT
Found at i:118055298 original size:25 final size:26
Alignment explanation
Indices: 118055233--118055305 Score: 67
Period size: 25 Copynumber: 2.8 Consensus size: 26
118055223 TTTTATTTAA
* *
118055233 TTTAAGTTTATTTTCTTATATTATTTAT
1 TTTAAGTTT-TTTT-ATATATTATGTAT
* **
118055261 TTTAAATCGTTTTAT-TATTATGTAT
1 TTTAAGTTTTTTTATATATTATGTAT
*
118055286 TTTAAGTTTTTTTACATATT
1 TTTAAGTTTTTTTATATATT
118055306 TTAAACTATT
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
25 20 0.57
26 5 0.14
27 4 0.11
28 6 0.17
ACGTcount: A:0.26, C:0.04, G:0.05, T:0.64
Consensus pattern (26 bp):
TTTAAGTTTTTTTATATATTATGTAT
Found at i:118055342 original size:25 final size:24
Alignment explanation
Indices: 118055312--118055390 Score: 86
Period size: 25 Copynumber: 3.1 Consensus size: 24
118055302 TATTTTAAAC
118055312 TATTATTCATTTTAAATTTTATATA
1 TATTATT-ATTTTAAATTTTATATA
* *
118055337 TATTATTTATTTTAAACTATTATACA
1 TATTA-TTATTTTAAA-TTTTATATA
* *
118055363 TATTATTATTTTGAAGTTTTGTATA
1 TATTATTATTTT-AAATTTTATATA
118055388 TAT
1 TAT
118055391 ACCTTTTTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
25 29 0.64
26 16 0.36
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (24 bp):
TATTATTATTTTAAATTTTATATA
Found at i:118055363 original size:61 final size:60
Alignment explanation
Indices: 118055251--118055366 Score: 144
Period size: 61 Copynumber: 1.9 Consensus size: 60
118055241 TATTTTCTTA
* ** * *
118055251 TATTATTTATTTTAAATCGTTTTATTATTATGTATTTTAAGTTTTTTTACATATTTTAAAC
1 TATTATTCATTTTAAATC-TTTTATTATTATGTATTTTAAACTATTATACATATTTTAAAC
*
118055312 TATTATTCATTTTAAAT-TTTATATATATTATTTATTTTAAACTATTATACATATT
1 TATTATTCATTTTAAATCTTT-TAT-TATTATGTATTTTAAACTATTATACATATT
118055367 ATTATTTTGA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
59 3 0.06
60 3 0.06
61 41 0.87
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (60 bp):
TATTATTCATTTTAAATCTTTTATTATTATGTATTTTAAACTATTATACATATTTTAAAC
Found at i:118055502 original size:22 final size:21
Alignment explanation
Indices: 118055476--118055525 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
118055466 TTATATGTTA
118055476 ATTATTTTAAA-TTCTTTTACT
1 ATTATTTTAAACTT-TTTTACT
* *
118055497 ATTTATTGTAAACTTTTTTATT
1 A-TTATTTTAAACTTTTTTACT
118055519 ATTATTT
1 ATTATTT
118055526 ATTTTCAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
21 6 0.25
22 16 0.67
23 2 0.08
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.64
Consensus pattern (21 bp):
ATTATTTTAAACTTTTTTACT
Found at i:118055726 original size:24 final size:24
Alignment explanation
Indices: 118055690--118055750 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
118055680 ATATTATTTT
* *
118055690 ATTGTTTTGTATATTAGTGACTTTAA
1 ATTG-TTT-TATACTAGTGACTTAAA
* *
118055716 ATTGTTTTATACTATTTACTTAAA
1 ATTGTTTTATACTAGTGACTTAAA
118055740 ATTGTTTTATA
1 ATTGTTTTATA
118055751 GTATCTATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 24 0.77
25 3 0.10
26 4 0.13
ACGTcount: A:0.30, C:0.05, G:0.10, T:0.56
Consensus pattern (24 bp):
ATTGTTTTATACTAGTGACTTAAA
Found at i:118055765 original size:24 final size:24
Alignment explanation
Indices: 118055709--118055766 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
118055699 TATATTAGTG
*
118055709 ACTTTAAATTGTTTTATACTATTT
1 ACTTTAAATTGTTTTATACTATCT
* *
118055733 ACTTAAAATTGTTTTATAGTATCT
1 ACTTTAAATTGTTTTATACTATCT
*
118055757 ATTTTAAATT
1 ACTTTAAATT
118055767 TATTTTCCAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (24 bp):
ACTTTAAATTGTTTTATACTATCT
Found at i:118060096 original size:14 final size:15
Alignment explanation
Indices: 118060077--118060118 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
118060067 AAATATGAAA
118060077 TATTAAAATTAATT-
1 TATTAAAATTAATTG
118060091 TATTAAAATATTAATTG
1 TATT-AAA-ATTAATTG
*
118060108 TATAAAAATTA
1 TATTAAAATTA
118060119 TAAATGTGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 4 0.17
15 7 0.29
16 10 0.42
17 3 0.12
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (15 bp):
TATTAAAATTAATTG
Found at i:118060105 original size:16 final size:16
Alignment explanation
Indices: 118060063--118060116 Score: 51
Period size: 17 Copynumber: 3.5 Consensus size: 16
118060053 TATATATGTG
* *
118060063 ATTAAAATATGAA-AT
1 ATTAAAATATTAATTT
118060078 ATT-AAA-ATTAATTT
1 ATTAAAATATTAATTT
118060092 ATTAAAATATTAATTGT
1 ATTAAAATATTAATT-T
*
118060109 ATAAAAAT
1 ATTAAAAT
118060117 TATAAATGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
13 4 0.12
14 7 0.22
15 6 0.19
16 7 0.22
17 8 0.25
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.41
Consensus pattern (16 bp):
ATTAAAATATTAATTT
Found at i:118061357 original size:21 final size:20
Alignment explanation
Indices: 118061309--118061357 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
118061299 ACTTTTAATG
*
118061309 ATTATTATTTAAAAATAAAT
1 ATTATTTTTTAAAAATAAAT
*
118061329 A-TAGTTTTTCTAAATATAAAT
1 ATTA-TTTTT-TAAAAATAAAT
118061350 ATTATTTT
1 ATTATTTT
118061358 ATACGTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 2 0.08
20 5 0.21
21 15 0.62
22 2 0.08
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (20 bp):
ATTATTTTTTAAAAATAAAT
Found at i:118061434 original size:22 final size:22
Alignment explanation
Indices: 118061399--118061450 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
118061389 TATGATTTTG
* * *
118061399 ATATATATATTTATTACTTAAT
1 ATATATTTAATTATTACTTAAC
*
118061421 ATATATTTAATTATTATTTAAC
1 ATATATTTAATTATTACTTAAC
118061443 ATATATTT
1 ATATATTT
118061451 TAAAATTATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
ATATATTTAATTATTACTTAAC
Found at i:118070714 original size:46 final size:47
Alignment explanation
Indices: 118070647--118070876 Score: 290
Period size: 46 Copynumber: 5.0 Consensus size: 47
118070637 TTATCTTTGA
* * * * *
118070647 CATGATGCCATAGTGTCTTTCAACCATGGTCTTACTA-ATTTCCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTACATTTCATAT
* * * *
118070693 CATGTTACCATGGTATCTTTCAACCATGGTCTT-GTTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTACATTTCATAT
* * * *
118070739 CACGTTGCCATTGTATCTTTCAACTATGGTCTTA-TACATTCCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTACATTTCATAT
118070785 CATGTTGCCATGGTATCTTTCAACCATGGTCTTAC-ACATTTTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTACA--TTTCATAT
118070833 CATGTTGCCATGGTATCTTTCAACCATGGTCTTAC-ACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTACATTTCAT
118070877 TTCAAAAAAC
Statistics
Matches: 161, Mismatches: 18, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
45 1 0.01
46 115 0.71
48 45 0.28
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.41
Consensus pattern (47 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTACATTTCATAT
Found at i:118072755 original size:14 final size:13
Alignment explanation
Indices: 118072733--118072774 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 13
118072723 CTTTTATACT
118072733 AAATAAATAATAATA
1 AAAT-AATAA-AATA
118072748 AAATAATAAAACTA
1 AAATAATAAAA-TA
118072762 AAATAATAAAATA
1 AAATAATAAAATA
118072775 TCTCTTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 4 0.15
14 18 0.69
15 4 0.15
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATAATAAAATA
Found at i:118081475 original size:2 final size:2
Alignment explanation
Indices: 118081468--118081509 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
118081458 TCCCTCTCCG
118081468 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
118081510 ACACACACAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:118081514 original size:2 final size:2
Alignment explanation
Indices: 118081509--118081550 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
118081499 CTCTCTCTCT
118081509 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
118081551 GTTGATGAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:118086536 original size:22 final size:21
Alignment explanation
Indices: 118086506--118086552 Score: 85
Period size: 22 Copynumber: 2.2 Consensus size: 21
118086496 AAAGATAAGG
118086506 TTTTACTTTTACAAAATTATC
1 TTTTACTTTTACAAAATTATC
118086527 TTTTAACTTTTACAAAATTATC
1 TTTT-ACTTTTACAAAATTATC
118086549 TTTT
1 TTTT
118086553 CAATTAGACA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 4 0.16
22 21 0.84
ACGTcount: A:0.32, C:0.13, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTTACTTTTACAAAATTATC
Found at i:118086563 original size:22 final size:22
Alignment explanation
Indices: 118086516--118086563 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
118086506 TTTTACTTTT
**
118086516 ACAAAATTATCTTTTAACTTTT
1 ACAAAATTATCTTTTAACTTAG
118086538 ACAAAATTATCTTTTCAA-TTAG
1 ACAAAATTATCTTTT-AACTTAG
118086560 ACAA
1 ACAA
118086564 GATAGAATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 21 0.91
23 2 0.09
ACGTcount: A:0.42, C:0.15, G:0.02, T:0.42
Consensus pattern (22 bp):
ACAAAATTATCTTTTAACTTAG
Found at i:118090998 original size:12 final size:13
Alignment explanation
Indices: 118090970--118090998 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
118090960 CCCAAACTTG
118090970 AACTTGAACCACA
1 AACTTGAACCACA
118090983 AACTTGAACC-CA
1 AACTTGAACCACA
118090995 AACT
1 AACT
118090999 CTAAACCATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.45, C:0.31, G:0.07, T:0.17
Consensus pattern (13 bp):
AACTTGAACCACA
Found at i:118096769 original size:12 final size:12
Alignment explanation
Indices: 118096752--118096777 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
118096742 TTGAACAAGT
118096752 TTCTCCTCCTTC
1 TTCTCCTCCTTC
118096764 TTCTCCTCCTTC
1 TTCTCCTCCTTC
118096776 TT
1 TT
118096778 GTTGTCATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (12 bp):
TTCTCCTCCTTC
Found at i:118108610 original size:15 final size:17
Alignment explanation
Indices: 118108581--118108614 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
118108571 TCTCACTAAA
118108581 ATTTATATAATAAATAT
1 ATTTATATAATAAATAT
118108598 ATTTATA-AA-AAATAT
1 ATTTATATAATAAATAT
118108613 AT
1 AT
118108615 AAATAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 2 0.12
17 7 0.41
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATTTATATAATAAATAT
Found at i:118108622 original size:13 final size:14
Alignment explanation
Indices: 118108577--118108622 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 14
118108567 TATGTCTCAC
*
118108577 TAAAATTTATATAA
1 TAAAATATATATAA
*
118108591 TAAATATATTTATAA
1 TAAA-ATATATATAA
118108606 -AAAATATATA-AA
1 TAAAATATATATAA
118108618 TAAAA
1 TAAAA
118108623 ATAAAATCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
12 2 0.07
13 10 0.37
14 7 0.26
15 8 0.30
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
TAAAATATATATAA
Found at i:118116663 original size:16 final size:17
Alignment explanation
Indices: 118116622--118116663 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
118116612 ACGGTTGAAC
*
118116622 AAAAATA-ATTTATATT
1 AAAAATATATTTATATA
*
118116638 AAATATATATTTATA-A
1 AAAAATATATTTATATA
118116654 AAAAATATAT
1 AAAAATATAT
118116664 CAAGAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 15 0.68
17 7 0.32
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
AAAAATATATTTATATA
Found at i:118117055 original size:20 final size:20
Alignment explanation
Indices: 118117032--118117084 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
118117022 TAATCATTAT
*
118117032 AAATTTTTGTATAACCTTAA
1 AAATTTTAGTATAACCTTAA
* *
118117052 AAATTTTGGTATAATCTTAA
1 AAATTTTAGTATAACCTTAA
*
118117072 GAATTTTAGTATA
1 AAATTTTAGTATA
118117085 TTAAAATATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.45
Consensus pattern (20 bp):
AAATTTTAGTATAACCTTAA
Found at i:118117057 original size:40 final size:40
Alignment explanation
Indices: 118117007--118117084 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 40
118116997 TTAATAAATT
* *
118117007 CTTATAAATTTTGCT-TAATCATTATA-AATTTTTGTATAAC
1 CTTAAAAATTTTGCTATAATC-TTA-AGAATTTTAGTATAAC
*
118117047 CTTAAAAATTTTGGTATAATCTTAAGAATTTTAGTATA
1 CTTAAAAATTTTGCTATAATCTTAAGAATTTTAGTATA
118117085 TTAAAATATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
39 1 0.03
40 27 0.82
41 5 0.15
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.47
Consensus pattern (40 bp):
CTTAAAAATTTTGCTATAATCTTAAGAATTTTAGTATAAC
Found at i:118117196 original size:19 final size:19
Alignment explanation
Indices: 118117151--118117198 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
118117141 AGGTATACTT
*
118117151 TTAGAAATTTTGTAAATTA
1 TTAGAAATTTTGTAAAATA
*
118117170 TTAGAAATTTTGATAAAATC
1 TTAGAAATTTTG-TAAAATA
118117190 TTA-AAATTT
1 TTAGAAATTT
118117199 GTATGTAGCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 18 0.69
20 8 0.31
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.46
Consensus pattern (19 bp):
TTAGAAATTTTGTAAAATA
Found at i:118117231 original size:20 final size:20
Alignment explanation
Indices: 118117174--118117245 Score: 51
Period size: 20 Copynumber: 3.6 Consensus size: 20
118117164 AAATTATTAG
* *
118117174 AAATTTTGATAAAATCTT-A
1 AAATTTTGATATAAGCTTAA
*
118117193 AAA-TTTG-TATGTAGCCTTAA
1 AAATTTTGATAT-AAG-CTTAA
*
118117213 AAATTTTGATATAAGCTTAG
1 AAATTTTGATATAAGCTTAA
* *
118117233 AAACTTCGATATA
1 AAATTTTGATATA
118117246 TCAAAATATT
Statistics
Matches: 41, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
17 2 0.05
18 5 0.12
19 6 0.15
20 19 0.46
21 6 0.15
22 3 0.07
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (20 bp):
AAATTTTGATATAAGCTTAA
Found at i:118120021 original size:14 final size:14
Alignment explanation
Indices: 118119976--118120023 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
118119966 TTGGACAATT
*
118119976 TATTA-AAATATTA
1 TATTATAAATTTTA
118119989 T-TTATAAATGTTATA
1 TATTATAAAT-TT-TA
118120004 TATTATAAATTTTA
1 TATTATAAATTTTA
118120018 TATTAT
1 TATTAT
118120024 GTTTTACTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
12 3 0.10
13 5 0.17
14 9 0.30
15 5 0.17
16 8 0.27
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (14 bp):
TATTATAAATTTTA
Found at i:118123320 original size:2 final size:2
Alignment explanation
Indices: 118123313--118123343 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
118123303 TGTTTGACAA
118123313 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
118123344 TTTGTGCGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:118126845 original size:22 final size:20
Alignment explanation
Indices: 118126820--118126870 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 20
118126810 CGTCAGGTTA
*
118126820 ATTCAATTTTGAATTTTCTGT
1 ATTCAATTTTGAACTTTCT-T
* *
118126841 CATTCATTTTTGAGCTTTCTT
1 -ATTCAATTTTGAACTTTCTT
118126862 ATTCAATTT
1 ATTCAATTT
118126871 GCTGCTGCGT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 8 0.32
21 1 0.04
22 16 0.64
ACGTcount: A:0.22, C:0.14, G:0.08, T:0.57
Consensus pattern (20 bp):
ATTCAATTTTGAACTTTCTT
Found at i:118130323 original size:15 final size:16
Alignment explanation
Indices: 118130305--118130342 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
118130295 ACATGTAATT
118130305 TATTTATTA-AAATAA
1 TATTTATTATAAATAA
118130320 TATTT-TTATAAATAA
1 TATTTATTATAAATAA
*
118130335 TATATATT
1 TATTTATT
118130343 TTTAAAAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 3 0.15
15 15 0.75
16 2 0.10
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TATTTATTATAAATAA
Found at i:118130324 original size:19 final size:19
Alignment explanation
Indices: 118130302--118130349 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 19
118130292 TTTACATGTA
118130302 ATTTATTTATTAAAATAAT
1 ATTTATTTATTAAAATAAT
118130321 A-TT-TTTA-T-AAATAAT
1 ATTTATTTATTAAAATAAT
*
118130336 ATATATTT-TTAAAA
1 ATTTATTTATTAAAA
118130350 AGAAACCCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 9
0.71 0.03 0.26
Matches are distributed among these distances:
15 8 0.33
16 2 0.08
17 8 0.33
18 5 0.21
19 1 0.04
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
ATTTATTTATTAAAATAAT
Found at i:118130612 original size:2 final size:2
Alignment explanation
Indices: 118130605--118130642 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
118130595 TCTTATTCTC
118130605 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
118130643 CCAATCATAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:118130843 original size:20 final size:20
Alignment explanation
Indices: 118130801--118130843 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
118130791 TCTCTTAAAT
*
118130801 AAATAAAATTATTATTTTAA
1 AAATAAAATTATTATGTTAA
*
118130821 AAATTAAATT-TTATGTTAGA
1 AAATAAAATTATTATGTTA-A
118130841 AAA
1 AAA
118130844 AAGTATTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (20 bp):
AAATAAAATTATTATGTTAA
Found at i:118133589 original size:2 final size:2
Alignment explanation
Indices: 118133582--118133615 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
118133572 GAAAATGGCA
118133582 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
118133616 TGAAAAGGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:118143092 original size:7 final size:7
Alignment explanation
Indices: 118143080--118143123 Score: 88
Period size: 7 Copynumber: 6.3 Consensus size: 7
118143070 TTAAGTCCTT
118143080 TTTAAAA
1 TTTAAAA
118143087 TTTAAAA
1 TTTAAAA
118143094 TTTAAAA
1 TTTAAAA
118143101 TTTAAAA
1 TTTAAAA
118143108 TTTAAAA
1 TTTAAAA
118143115 TTTAAAA
1 TTTAAAA
118143122 TT
1 TT
118143124 AATTATTAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (7 bp):
TTTAAAA
Found at i:118145112 original size:30 final size:29
Alignment explanation
Indices: 118145057--118145119 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 29
118145047 AATAGCCCAA
*
118145057 TGACTTAAATGAAATTTTAAATAGTTCAG
1 TGACTTAAATGAAAATTTAAATAGTTCAG
*
118145086 TGACTTAAATGAAAACATTT-AATAGTTTAG
1 TGACTTAAATG-AAA-ATTTAAATAGTTCAG
118145116 TGAC
1 TGAC
118145120 CAAATTGTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 11 0.37
30 16 0.53
31 3 0.10
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.37
Consensus pattern (29 bp):
TGACTTAAATGAAAATTTAAATAGTTCAG
Found at i:118146301 original size:91 final size:91
Alignment explanation
Indices: 118146146--118146327 Score: 283
Period size: 91 Copynumber: 2.0 Consensus size: 91
118146136 TTCAGACTTG
* *
118146146 GATTCAGGTCGAAAAATAGGCCTAAAATTTTGTCTAAATTTAAACCAGATTAAAAATGCTAAATT
1 GATTCAGGTCGAAAAATAGGCCTAAAATTTTGTCCAAACTTAAACCAGATTAAAAATGCTAAATT
*
118146211 CGAGCTTAATACGATCTGCCCATATT
66 CGAGCTTAATACGACCTGCCCATATT
* * * *
118146237 GATTCGGGTCGAAAAATGGGCCTAAAATTTTGTCCAAACTTGAACTAGATTAAAAATGCTAAATT
1 GATTCAGGTCGAAAAATAGGCCTAAAATTTTGTCCAAACTTAAACCAGATTAAAAATGCTAAATT
* *
118146302 CGAGCTTGATACGACCTGTCCATATT
66 CGAGCTTAATACGACCTGCCCATATT
118146328 TAAAAAAAAA
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
91 82 1.00
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.30
Consensus pattern (91 bp):
GATTCAGGTCGAAAAATAGGCCTAAAATTTTGTCCAAACTTAAACCAGATTAAAAATGCTAAATT
CGAGCTTAATACGACCTGCCCATATT
Found at i:118146568 original size:36 final size:33
Alignment explanation
Indices: 118146528--118146602 Score: 89
Period size: 36 Copynumber: 2.2 Consensus size: 33
118146518 ACAATAGAAC
*
118146528 AATAA-TTATATAATATTCAAATGATAACAACAAAAT
1 AATAACTT-TATAATAATCAAATG---ACAACAAAAT
*
118146564 AATAACTTTATAATAATGAAATGACAACAAAAT
1 AATAACTTTATAATAATCAAATGACAACAAAAT
118146597 AATAAC
1 AATAAC
118146603 GAAATAACAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
33 16 0.44
36 18 0.50
37 2 0.06
ACGTcount: A:0.59, C:0.09, G:0.04, T:0.28
Consensus pattern (33 bp):
AATAACTTTATAATAATCAAATGACAACAAAAT
Found at i:118146642 original size:22 final size:22
Alignment explanation
Indices: 118146573--118146626 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
118146563 TAATAACTTT
* * *
118146573 ATAATAATGAAATGACAACAAA
1 ATAATAACGAAATAACAATAAA
118146595 ATAATAACGAAATAACAATAAA
1 ATAATAACGAAATAACAATAAA
118146617 ATAATAACGA
1 ATAATAACGA
118146627 GATAGTAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.65, C:0.09, G:0.07, T:0.19
Consensus pattern (22 bp):
ATAATAACGAAATAACAATAAA
Found at i:118149336 original size:18 final size:18
Alignment explanation
Indices: 118149315--118149363 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 18
118149305 TTATAAAATA
118149315 ATATTATATTAATTATAT
1 ATATTATATTAATTATAT
*
118149333 ATATTAAATAATAATTATAT
1 ATATT--ATATTAATTATAT
118149353 ATATTTATATT
1 ATA-TTATATT
118149364 TATATTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 5 0.19
19 4 0.15
20 15 0.58
21 2 0.08
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATATTATATTAATTATAT
Found at i:118149606 original size:17 final size:17
Alignment explanation
Indices: 118149584--118149617 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
118149574 AGTGCATTTT
*
118149584 TAAAATTTAATTTTAAA
1 TAAAATTTAATCTTAAA
118149601 TAAAATTTAATCTTAAA
1 TAAAATTTAATCTTAAA
118149618 AATTAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAAATTTAATCTTAAA
Found at i:118153121 original size:23 final size:24
Alignment explanation
Indices: 118153078--118153137 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
118153068 AAATTCTAGA
*
118153078 AAAATTATAAGAAATATATAT-TAT
1 AAAATT-TAAAAAATATATATATAT
118153102 AAAATTTAAAAAAT-TAATATATAT
1 AAAATTTAAAAAATAT-ATATATAT
*
118153126 AAAATTCAAAAA
1 AAAATTTAAAAA
118153138 TAAAAATAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 1 0.03
23 11 0.34
24 20 0.62
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (24 bp):
AAAATTTAAAAAATATATATATAT
Found at i:118153145 original size:25 final size:25
Alignment explanation
Indices: 118153093--118153145 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
118153083 TATAAGAAAT
* **
118153093 ATATATTATAAAATTTAAAAAATTA
1 ATATATTATAAAATTCAAAAAAAAA
118153118 ATATA-TATAAAATTCAAAAATAAAA
1 ATATATTATAAAATTCAAAAA-AAAA
118153143 ATA
1 ATA
118153146 AGAAATTAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 14 0.58
25 10 0.42
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (25 bp):
ATATATTATAAAATTCAAAAAAAAA
Found at i:118153770 original size:17 final size:16
Alignment explanation
Indices: 118153745--118153785 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
118153735 AAAGTGATAG
118153745 AATAGAAAAACTAAAA
1 AATAGAAAAACTAAAA
*
118153761 AATAGCAAAAAGTAAAA
1 AATAG-AAAAACTAAAA
118153778 AATA-AAAA
1 AATAGAAAA
118153786 TCTTATTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 4 0.17
16 5 0.22
17 14 0.61
ACGTcount: A:0.76, C:0.05, G:0.07, T:0.12
Consensus pattern (16 bp):
AATAGAAAAACTAAAA
Found at i:118157851 original size:96 final size:96
Alignment explanation
Indices: 118157751--118157944 Score: 266
Period size: 96 Copynumber: 2.0 Consensus size: 96
118157741 CCCTCAGAGC
* * * *
118157751 CAAGTTCC-TCCTGTCGCTCAAG-GAGATGCTTACTATACTCCCCCTGCCCAAACTCAGGAGATT
1 CAAGTTCCAT-CTGTCCCTC-AGCGAGATGCTTACTATACACCACCTGCCCAAACTCAGGAGACT
* * *
118157814 CCAAGTCAGCAATTCCCTATGCCTCCTACTCAG
64 CCAAGTCAACAATTCCCAATGCCTCCTACACAG
* *
118157847 CAAGTTCCATCTGTCCCTCAGCGAGATGCTTACTATACACCACCTGGCCAAACTCAGGAGGCTCC
1 CAAGTTCCATCTGTCCCTCAGCGAGATGCTTACTATACACCACCTGCCCAAACTCAGGAGACTCC
*
118157912 AAGTCAACACTTCCCAATGCCTCCTACACAG
66 AAGTCAACAATTCCCAATGCCTCCTACACAG
118157943 CA
1 CA
118157945 GCAACAGCCC
Statistics
Matches: 86, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
95 2 0.02
96 83 0.97
97 1 0.01
ACGTcount: A:0.26, C:0.36, G:0.15, T:0.23
Consensus pattern (96 bp):
CAAGTTCCATCTGTCCCTCAGCGAGATGCTTACTATACACCACCTGCCCAAACTCAGGAGACTCC
AAGTCAACAATTCCCAATGCCTCCTACACAG
Found at i:118166341 original size:23 final size:23
Alignment explanation
Indices: 118166311--118166356 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
118166301 CTGTGATGCT
118166311 ATAGATCCATTCATGTAAATGTC
1 ATAGATCCATTCATGTAAATGTC
118166334 ATAGATCCATTCATGTAAATGTC
1 ATAGATCCATTCATGTAAATGTC
118166357 CTTAACATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (23 bp):
ATAGATCCATTCATGTAAATGTC
Found at i:118178653 original size:26 final size:26
Alignment explanation
Indices: 118178580--118178765 Score: 161
Period size: 26 Copynumber: 7.2 Consensus size: 26
118178570 AAAGAAAATG
* *
118178580 AAATAAAATAATGTATAAAACAATTTG
1 AAAT-AAATAATATATAAAACAATTTA
* *
118178607 AAGTAAAT-A-GTATAAAACAATTTA
1 AAATAAATAATATATAAAACAATTTA
*
118178631 AAATAAATAATATGTAAAACAATTTA
1 AAATAAATAATATATAAAACAATTTA
* * *
118178657 AAACAAATAATATACAAAACATTTTA
1 AAATAAATAATATATAAAACAATTTA
*
118178683 AAGATAAATAATATATAGAACAATTTA
1 AA-ATAAATAATATATAAAACAATTTA
* * *
118178710 AACT--A-AGTA-ATAAAACTATTTA
1 AAATAAATAATATATAAAACAATTTA
*
118178732 AAAAAAATAATACGTA-AAAACAGATTTA
1 AAATAAATAATA--TATAAAACA-ATTTA
118178760 AAATAA
1 AAATAA
118178766 GCAATTTAAG
Statistics
Matches: 127, Mismatches: 22, Indels: 19
0.76 0.13 0.11
Matches are distributed among these distances:
22 13 0.10
23 3 0.02
24 23 0.18
25 5 0.04
26 42 0.33
27 30 0.24
28 11 0.09
ACGTcount: A:0.61, C:0.06, G:0.05, T:0.28
Consensus pattern (26 bp):
AAATAAATAATATATAAAACAATTTA
Found at i:118178654 original size:50 final size:49
Alignment explanation
Indices: 118178580--118178765 Score: 178
Period size: 50 Copynumber: 3.7 Consensus size: 49
118178570 AAAGAAAATG
* * *
118178580 AAATAAAATAATGTATAAAACAATTTGAAGTAAATAGTATAAAACAATTTA
1 AAAT-AAATAATATATAAAACAATTTAAAATAAATA-TATAAAACAATTTA
* * *
118178631 AAATAAATAATATGTAAAACAATTTAAAACAAATAATATACAAAACATTTTA
1 AAATAAATAATATATAAAACAATTTAAAATAAAT-ATAT--AAAACAATTTA
* * * *
118178683 AAGATAAATAATATATAGAACAATTTAAACTAAGTA-ATAAAACTATTTA
1 AA-ATAAATAATATATAAAACAATTTAAAATAAATATATAAAACAATTTA
*
118178732 AAAAAAATAATACGTA-AAAACAGATTTAAAATAA
1 AAATAAATAATA--TATAAAACA-ATTTAAAATAA
118178766 GCAATTTAAG
Statistics
Matches: 112, Mismatches: 16, Indels: 15
0.78 0.11 0.10
Matches are distributed among these distances:
48 9 0.08
49 16 0.14
50 40 0.36
51 7 0.06
52 13 0.12
53 27 0.24
ACGTcount: A:0.61, C:0.06, G:0.05, T:0.28
Consensus pattern (49 bp):
AAATAAATAATATATAAAACAATTTAAAATAAATATATAAAACAATTTA
Done.