Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 94 of 313
Found at i:31331258 original size:26 final size:26
Alignment explanation
Indices: 31331195--31331260 Score: 105
Period size: 26 Copynumber: 2.5 Consensus size: 26
31331185 TAAACCAAAT
*
31331195 TTTTCAAAAGCACTTCTCAAAAGCAC
1 TTTTCAAAAGCATTTCTCAAAAGCAC
* *
31331221 TTTTCCACAGCATTTCTCAAAAGCAC
1 TTTTCAAAAGCATTTCTCAAAAGCAC
31331247 TTTTCAAAAGCATT
1 TTTTCAAAAGCATT
31331261 GTCAAACTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.35, C:0.26, G:0.08, T:0.32
Consensus pattern (26 bp):
TTTTCAAAAGCATTTCTCAAAAGCAC
Found at i:31331883 original size:20 final size:20
Alignment explanation
Indices: 31331855--31331903 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
31331845 ATATATCTTG
* *
31331855 ATTTTATTTTATTCCAATCA
1 ATTTGATTTGATTCCAATCA
**
31331875 ATTTGATTTGATTTTAATCA
1 ATTTGATTTGATTCCAATCA
*
31331895 AATTGATTT
1 ATTTGATTT
31331904 AGTTGCTCCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.31, C:0.08, G:0.06, T:0.55
Consensus pattern (20 bp):
ATTTGATTTGATTCCAATCA
Found at i:31332376 original size:28 final size:32
Alignment explanation
Indices: 31332319--31332388 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 32
31332309 GTATCTGATA
*
31332319 ATTTAAATATAAATTATTCAATTTATATTT-T
1 ATTTATATATAAATTATTCAATTTATATTTAT
31332350 ATTTTATATATAAA-TATTC-A-TT-TATTTAT
1 A-TTTATATATAAATTATTCAATTTATATTTAT
31332379 ATTTATATAT
1 ATTTATATAT
31332389 TTGTTAGTCA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
28 14 0.39
29 4 0.11
30 1 0.03
31 6 0.17
32 11 0.31
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (32 bp):
ATTTATATATAAATTATTCAATTTATATTTAT
Found at i:31332380 original size:22 final size:23
Alignment explanation
Indices: 31332347--31332389 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
31332337 CAATTTATAT
31332347 TTTATTTTATATATAAATATTCA
1 TTTATTTTATATATAAATATTCA
* *
31332370 TTTA-TTTATATTTATATATT
1 TTTATTTTATATATAAATATT
31332390 TGTTAGTCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (23 bp):
TTTATTTTATATATAAATATTCA
Found at i:31332389 original size:14 final size:14
Alignment explanation
Indices: 31332339--31332390 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 14
31332329 AAATTATTCA
31332339 ATTTATAT-TTTAT
1 ATTTATATATTTAT
**
31332352 -TTTATATATAAAT
1 ATTTATATATTTAT
* *
31332365 ATTCATTTATTTAT
1 ATTTATATATTTAT
31332379 ATTTATATATTT
1 ATTTATATATTT
31332391 GTTAGTCAAC
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
12 7 0.24
13 3 0.10
14 19 0.66
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (14 bp):
ATTTATATATTTAT
Found at i:31332652 original size:86 final size:85
Alignment explanation
Indices: 31332509--31332804 Score: 370
Period size: 86 Copynumber: 3.5 Consensus size: 85
31332499 GATTTATTAC
*
31332509 ATTTTTTATTTTGTTTCCAAACAAGTATTAAAATTAAATAAAATAT-GTTTC-AGGATTTATTCC
1 ATTTTTTATTTTGTTTCCAAACTAGTATTAAAATTAAATAAAAT-TCGTTTCGA-GATTTATTCC
*
31332572 CGCCGTTCAACAGATGTTATTCT
64 CGCCGTTCAACAGATTTTATT-T
31332595 ATTTTTTTATTTT-TTTCCAAACTAGTATTAAAATTAAATAAAATTCGTTTCGAGATTTATTCCC
1 A-TTTTTTATTTTGTTTCCAAACTAGTATTAAAATTAAATAAAATTCGTTTCGAGATTTATTCCC
* * *
31332659 GCCATTTAATAGATTTTATTT
65 GCCGTTCAACAGATTTTATTT
* * *
31332680 CATTTTTTATTTTGTTTCCAAACGAGTATTAAAACTAAATAAAA-TCTGTTTTGAGATTTATTCC
1 -ATTTTTTATTTTGTTTCCAAACTAGTATTAAAATTAAATAAAATTC-GTTTCGAGATTTATTCC
* **
31332744 TGTTGTTCAACAGATTTTATTTT
64 CGCCGTTCAACAGATTTTA-TTT
*
31332767 ATTTTTTATTTTATTTCCAAA-TGAGTATTAAAA-TAAAT
1 ATTTTTTATTTTGTTTCCAAACT-AGTATTAAAATTAAAT
31332805 CCCGTAGTTC
Statistics
Matches: 186, Mismatches: 16, Indels: 17
0.85 0.07 0.08
Matches are distributed among these distances:
85 20 0.11
86 151 0.81
87 15 0.08
ACGTcount: A:0.32, C:0.11, G:0.09, T:0.47
Consensus pattern (85 bp):
ATTTTTTATTTTGTTTCCAAACTAGTATTAAAATTAAATAAAATTCGTTTCGAGATTTATTCCCG
CCGTTCAACAGATTTTATTT
Found at i:31332775 original size:12 final size:12
Alignment explanation
Indices: 31332758--31332782 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
31332748 GTTCAACAGA
31332758 TTTTATTTTATT
1 TTTTATTTTATT
31332770 TTTTATTTTATT
1 TTTTATTTTATT
31332782 T
1 T
31332783 CCAAATGAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTATTTTATT
Found at i:31332944 original size:22 final size:22
Alignment explanation
Indices: 31332916--31332961 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
31332906 CACATTAGCG
*
31332916 AACAAATATATAAATATAAATA
1 AACAAATATATAAATAAAAATA
* *
31332938 AACAAATATTTATATAAAAATA
1 AACAAATATATAAATAAAAATA
31332960 AA
1 AA
31332962 ATATAAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.28
Consensus pattern (22 bp):
AACAAATATATAAATAAAAATA
Found at i:31335142 original size:23 final size:22
Alignment explanation
Indices: 31335092--31335142 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 22
31335082 TACATTTGTG
31335092 TATTTAAATTAATTTTTACAAA
1 TATTTAAATTAATTTTTACAAA
*
31335114 TAATTTATATTAATTGTCTTA-AAA
1 T-ATTTAAATTAATT-T-TTACAAA
31335138 TATTT
1 TATTT
31335143 TTAAAAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 1 0.04
23 16 0.64
24 5 0.20
25 3 0.12
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (22 bp):
TATTTAAATTAATTTTTACAAA
Found at i:31336827 original size:47 final size:47
Alignment explanation
Indices: 31336758--31336849 Score: 130
Period size: 47 Copynumber: 2.0 Consensus size: 47
31336748 TGCCTGTCGA
* *
31336758 ATCATGGCTAATTGTGTTAATAATTATGGATCATTTTAGTAAGAGTG
1 ATCATAGCTAATTGTGTTAATAATTATGGATCATTTTAGAAAGAGTG
* * * *
31336805 ATCATAGCTTATTGTGTTAATAATTCTTGATTATTTTAGAAAGAG
1 ATCATAGCTAATTGTGTTAATAATTATGGATCATTTTAGAAAGAG
31336850 ATGTTTCTTC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 39 1.00
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.42
Consensus pattern (47 bp):
ATCATAGCTAATTGTGTTAATAATTATGGATCATTTTAGAAAGAGTG
Found at i:31340986 original size:18 final size:17
Alignment explanation
Indices: 31340965--31340999 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
31340955 TTATTATTTA
*
31340965 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
31340983 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
31341000 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:31340993 original size:28 final size:27
Alignment explanation
Indices: 31340923--31340995 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
31340913 TTTATTATCA
*
31340923 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
31340951 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
31340978 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
31340996 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:31341133 original size:18 final size:17
Alignment explanation
Indices: 31341112--31341146 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
31341102 TTATTATTAA
*
31341112 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
31341130 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
31341147 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:31341158 original size:147 final size:149
Alignment explanation
Indices: 31340884--31341158 Score: 500
Period size: 147 Copynumber: 1.9 Consensus size: 149
31340874 ATGATTATTG
*
31340884 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
*
31340949 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
31341014 AGAAATTTGTTTTGGTAAA
131 AGAAATTTGTTTTGGTAAA
* *
31341033 TTATT-TTATTTAAATTTTAATAAGATTA-TTAATATCAATAATAAATAATTTACTCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
31341096 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
31341159 ATATTCTTAT
Statistics
Matches: 122, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
147 94 0.77
148 23 0.19
149 5 0.04
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (149 bp):
TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
AGAAATTTGTTTTGGTAAA
Found at i:31341190 original size:54 final size:54
Alignment explanation
Indices: 31341132--31341310 Score: 128
Period size: 55 Copynumber: 3.1 Consensus size: 54
31341122 ATTAAAATAT
*
31341132 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
** * * * * *
31341186 ATAATATATGATACTGTAAAATAT-AAAATAACATAATTATTATTAAATAT-AATATAATTAAAA
1 ATAAT-T-T-A-A---TAAAAT-TCTTAATAA-TTAA-TATTCTT--ATATGAAT-TTACTCAAA
*
31341249 TAT
53 -AC
*
31341252 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
31341306 ATAAT
1 ATAAT
31341311 ATATGATACT
Statistics
Matches: 91, Mismatches: 18, Indels: 32
0.65 0.13 0.23
Matches are distributed among these distances:
54 10 0.11
55 11 0.12
56 4 0.04
57 7 0.08
58 5 0.05
59 11 0.12
61 11 0.12
62 5 0.05
63 7 0.08
64 4 0.04
65 11 0.12
66 5 0.05
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (54 bp):
ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
Found at i:31341192 original size:61 final size:61
Alignment explanation
Indices: 31341127--31341314 Score: 190
Period size: 61 Copynumber: 3.1 Consensus size: 61
31341117 TTTTAATTAA
*
31341127 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * * *
31341188 AATATATGATACT-GTAAAA-T-ATAA-AATAACATAATTATTAT-TAAATATAAT-ATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAATAATTA-AT-ATTCTTATATGAATTTACTCA-AATCAT
31341247 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
31341308 AATATAT
1 AATATAT
31341315 GATACTATAA
Statistics
Matches: 94, Mismatches: 23, Indels: 20
0.69 0.17 0.15
Matches are distributed among these distances:
58 6 0.06
59 29 0.31
60 16 0.17
61 37 0.39
62 6 0.06
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:31341253 original size:18 final size:17
Alignment explanation
Indices: 31341232--31341266 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
31341222 TTATTATTAA
31341232 ATATAATATAATTAAAAT
1 ATATAATATAA-TAAAAT
*
31341250 ATATAATTTAATAAAAT
1 ATATAATATAATAAAAT
31341267 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATATAATAAAAT
Found at i:31341398 original size:120 final size:120
Alignment explanation
Indices: 31341095--31341387 Score: 473
Period size: 120 Copynumber: 2.4 Consensus size: 120
31341085 CTCATATTTA
31341095 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
31341160 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAAGATAAAAT
* *
31341215 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
31341280 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AAATT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAAGATAAAAT
* * *
31341334 GCAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGACTTAATAAAATT
1 --AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
31341388 TAAAATAATT
Statistics
Matches: 160, Mismatches: 11, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
119 4 0.03
120 154 0.96
121 2 0.01
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.41
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAAGATAAAAT
Found at i:31342417 original size:8 final size:8
Alignment explanation
Indices: 31342400--31342431 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
31342390 TTCAATCACC
*
31342400 AAAACCAT
1 AAAACAAT
31342408 AAAACAAT
1 AAAACAAT
31342416 AAAACAAT
1 AAAACAAT
31342424 AAAACAAT
1 AAAACAAT
31342432 CTGTTTAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.72, C:0.16, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAACAAT
Found at i:31353274 original size:19 final size:21
Alignment explanation
Indices: 31353236--31353275 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
31353226 AAATGAAGGA
31353236 TTAAATAAATCGTTATGGATTT
1 TTAAATAAATC-TTATGGATTT
31353258 TTAAATAAAT-TTA-GGATT
1 TTAAATAAATCTTATGGATT
31353276 AAAGGGGGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.28
20 3 0.17
22 10 0.56
ACGTcount: A:0.40, C:0.03, G:0.12, T:0.45
Consensus pattern (21 bp):
TTAAATAAATCTTATGGATTT
Found at i:31357980 original size:22 final size:22
Alignment explanation
Indices: 31357954--31357995 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
31357944 CTCTTTTAAC
*
31357954 TTTTACTTTTA-AGAATTTAATA
1 TTTTAATTTTATA-AATTTAATA
31357976 TTTTAATTTTATAAATTTAA
1 TTTTAATTTTATAAATTTAA
31357996 AAATCTACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
TTTTAATTTTATAAATTTAATA
Found at i:31358236 original size:26 final size:26
Alignment explanation
Indices: 31358202--31358256 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
31358192 CTTTCCTTTA
*
31358202 ATATATAAATATAGATTA-AAAATTTT
1 ATATATAAATATA-ATTATAAAATTAT
* *
31358228 ATATTTAAATTTAATTATAAAATTAT
1 ATATATAAATATAATTATAAAATTAT
31358254 ATA
1 ATA
31358257 AATGCAGGTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 4 0.16
26 21 0.84
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (26 bp):
ATATATAAATATAATTATAAAATTAT
Found at i:31360863 original size:9 final size:9
Alignment explanation
Indices: 31360849--31360889 Score: 73
Period size: 9 Copynumber: 4.6 Consensus size: 9
31360839 TTTATACAAA
31360849 TAATTCGGT
1 TAATTCGGT
31360858 TAATTCGGT
1 TAATTCGGT
*
31360867 TAATTCGGG
1 TAATTCGGT
31360876 TAATTCGGT
1 TAATTCGGT
31360885 TAATT
1 TAATT
31360890 TTATATATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.24, C:0.10, G:0.22, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:31365513 original size:24 final size:21
Alignment explanation
Indices: 31365485--31365528 Score: 52
Period size: 24 Copynumber: 2.0 Consensus size: 21
31365475 TTTATCAAGA
31365485 TAAATATTAGATTAAATATAATAT
1 TAAATATT--ATTAAA-ATAATAT
*
31365509 TAAATCTTATTAAAATAATA
1 TAAATATTATTAAAATAATA
31365529 GAATGTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 6 0.32
22 6 0.32
24 7 0.37
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (21 bp):
TAAATATTATTAAAATAATAT
Found at i:31365599 original size:20 final size:18
Alignment explanation
Indices: 31365552--31365600 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
31365542 GTAGATAAAC
31365552 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
31365569 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
31365589 ATTAAATTAATA
1 ATTAAATTAATA
31365601 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:31365646 original size:37 final size:38
Alignment explanation
Indices: 31365552--31365649 Score: 100
Period size: 37 Copynumber: 2.6 Consensus size: 38
31365542 GTAGATAAAC
*
31365552 ATTAAATTAA-ATTTAA-TATTAAGATAATCACTTTAAT
1 ATTAAATTAATATTAAACTATTAAGATAATCAC-TTAAT
*
31365589 ATTAAATTAATA-AAATACTATTAAGATAAGT-A-TTAA-
1 ATTAAATTAATATTAA-ACTATTAAGATAA-TCACTTAAT
31365625 ATTAAATTTAATATTAAACTATTAA
1 ATTAAA-TTAATATTAAACTATTAA
31365650 ACTATTAAAC
Statistics
Matches: 52, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
36 6 0.12
37 29 0.56
38 4 0.08
39 12 0.23
40 1 0.02
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.41
Consensus pattern (38 bp):
ATTAAATTAATATTAAACTATTAAGATAATCACTTAAT
Found at i:31365649 original size:8 final size:8
Alignment explanation
Indices: 31365636--31365665 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
31365626 TTAAATTTAA
31365636 TATTAAAC
1 TATTAAAC
31365644 TATTAAAC
1 TATTAAAC
31365652 TATTAAAC
1 TATTAAAC
31365660 TATTAA
1 TATTAA
31365666 TATTTTTGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (8 bp):
TATTAAAC
Found at i:31367149 original size:20 final size:21
Alignment explanation
Indices: 31367110--31367150 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
31367100 AACTCAATTC
31367110 CAACAATTTCAAGCCCATAAT
1 CAACAATTTCAAGCCCATAAT
31367131 CAACAATTTCAAG-CCATAAT
1 CAACAATTTCAAGCCCATAAT
31367151 TTAAAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.44, C:0.27, G:0.05, T:0.24
Consensus pattern (21 bp):
CAACAATTTCAAGCCCATAAT
Found at i:31378778 original size:21 final size:21
Alignment explanation
Indices: 31378752--31378792 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
31378742 AGACGAGCAA
* *
31378752 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
31378773 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
31378793 TTGAGCAGAT
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:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:31384112 original size:19 final size:18
Alignment explanation
Indices: 31384084--31384119 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
31384074 GCAAGATAGT
31384084 AACCAAAGTTAAGCATCCC
1 AACCAAAGTTAA-CATCCC
*
31384103 AACCACAGTTAACATCC
1 AACCAAAGTTAACATCC
31384120 AATACACATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.42, C:0.33, G:0.08, T:0.17
Consensus pattern (18 bp):
AACCAAAGTTAACATCCC
Found at i:31385137 original size:259 final size:259
Alignment explanation
Indices: 31384678--31385199 Score: 1044
Period size: 259 Copynumber: 2.0 Consensus size: 259
31384668 CTGTGGATTG
31384678 CAACTGGGGTGGATAGAAATATACTTGAAGACCACAATGGGAGAATCCTGACCAAGGTTTTCAGA
1 CAACTGGGGTGGATAGAAATATACTTGAAGACCACAATGGGAGAATCCTGACCAAGGTTTTCAGA
31384743 TCTTCTACTTGTTGCACACTGCAAAGTCTCCATGGCTTTGCTATTGTGCCACTGCCATCGGTTTT
66 TCTTCTACTTGTTGCACACTGCAAAGTCTCCATGGCTTTGCTATTGTGCCACTGCCATCGGTTTT
31384808 AATGTCTCCTTCAGCTTTTAATGATGCTCGGTTGAGGAACCTGCAACAAAAGCATGTAATTGATT
131 AATGTCTCCTTCAGCTTTTAATGATGCTCGGTTGAGGAACCTGCAACAAAAGCATGTAATTGATT
31384873 TGGAAGCTTAGCTGTTAATTTATTCAGTCATGTTTTAAGAGTTGATAGGGTTTATACTTCATTT
196 TGGAAGCTTAGCTGTTAATTTATTCAGTCATGTTTTAAGAGTTGATAGGGTTTATACTTCATTT
31384937 CAACTGGGGTGGATAGAAATATACTTGAAGACCACAATGGGAGAATCCTGACCAAGGTTTTCAGA
1 CAACTGGGGTGGATAGAAATATACTTGAAGACCACAATGGGAGAATCCTGACCAAGGTTTTCAGA
31385002 TCTTCTACTTGTTGCACACTGCAAAGTCTCCATGGCTTTGCTATTGTGCCACTGCCATCGGTTTT
66 TCTTCTACTTGTTGCACACTGCAAAGTCTCCATGGCTTTGCTATTGTGCCACTGCCATCGGTTTT
31385067 AATGTCTCCTTCAGCTTTTAATGATGCTCGGTTGAGGAACCTGCAACAAAAGCATGTAATTGATT
131 AATGTCTCCTTCAGCTTTTAATGATGCTCGGTTGAGGAACCTGCAACAAAAGCATGTAATTGATT
31385132 TGGAAGCTTAGCTGTTAATTTATTCAGTCATGTTTTAAGAGTTGATAGGGTTTATACTTCATTT
196 TGGAAGCTTAGCTGTTAATTTATTCAGTCATGTTTTAAGAGTTGATAGGGTTTATACTTCATTT
31385196 CAAC
1 CAAC
31385200 ATCTATGATC
Statistics
Matches: 263, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
259 263 1.00
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.34
Consensus pattern (259 bp):
CAACTGGGGTGGATAGAAATATACTTGAAGACCACAATGGGAGAATCCTGACCAAGGTTTTCAGA
TCTTCTACTTGTTGCACACTGCAAAGTCTCCATGGCTTTGCTATTGTGCCACTGCCATCGGTTTT
AATGTCTCCTTCAGCTTTTAATGATGCTCGGTTGAGGAACCTGCAACAAAAGCATGTAATTGATT
TGGAAGCTTAGCTGTTAATTTATTCAGTCATGTTTTAAGAGTTGATAGGGTTTATACTTCATTT
Found at i:31394201 original size:5 final size:5
Alignment explanation
Indices: 31394164--31394239 Score: 57
Period size: 5 Copynumber: 14.8 Consensus size: 5
31394154 AAATTTTCTT
* * * *
31394164 GAATC GAGTC GAAT- GAGATG GAATTC GAATC GAGTC GAAT- GAGATG
1 GAATC GAATC GAATC GA-ATC GAA-TC GAATC GAATC GAATC GA-ATC
*
31394210 GAATTT GAATC GAATC GAATC GAATC GAAT
1 GAA-TC GAATC GAATC GAATC GAATC GAAT
31394240 TTATTTGTTC
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
4 4 0.07
5 42 0.72
6 12 0.21
ACGTcount: A:0.37, C:0.12, G:0.28, T:0.24
Consensus pattern (5 bp):
GAATC
Found at i:31394241 original size:26 final size:26
Alignment explanation
Indices: 31394162--31394229 Score: 118
Period size: 26 Copynumber: 2.6 Consensus size: 26
31394152 TGAAATTTTC
31394162 TTGAATCGAGTCGAATGAGATGGAAT
1 TTGAATCGAGTCGAATGAGATGGAAT
*
31394188 TCGAATCGAGTCGAATGAGATGGAAT
1 TTGAATCGAGTCGAATGAGATGGAAT
*
31394214 TTGAATCGAATCGAAT
1 TTGAATCGAGTCGAAT
31394230 CGAATCGAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.35, C:0.10, G:0.28, T:0.26
Consensus pattern (26 bp):
TTGAATCGAGTCGAATGAGATGGAAT
Found at i:31397356 original size:23 final size:22
Alignment explanation
Indices: 31397330--31397372 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
31397320 GATTATTATA
*
31397330 CTTAATATATATTTTAGAAATTG
1 CTTAAAATATATTTTA-AAATTG
*
31397353 CTTAAAATATTTTTTAAAAT
1 CTTAAAATATATTTTAAAAT
31397373 ATTTTTAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.49
Consensus pattern (22 bp):
CTTAAAATATATTTTAAAATTG
Found at i:31397380 original size:11 final size:12
Alignment explanation
Indices: 31397354--31397378 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
31397344 TAGAAATTGC
31397354 TTAAAATATTTT
1 TTAAAATATTTT
31397366 TTAAAATATTTT
1 TTAAAATATTTT
31397378 T
1 T
31397379 AATACTTGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTAAAATATTTT
Found at i:31400521 original size:12 final size:13
Alignment explanation
Indices: 31400504--31400550 Score: 55
Period size: 12 Copynumber: 3.8 Consensus size: 13
31400494 AACAAAGGAA
31400504 AATAA-AATAAAT
1 AATAATAATAAAT
*
31400516 AATAA-AGTAAAT
1 AATAATAATAAAT
*
31400528 AATAATGAT-AAT
1 AATAATAATAAAT
31400540 AATAATAATAA
1 AATAATAATAA
31400551 TGACAAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
12 27 0.93
13 2 0.07
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (13 bp):
AATAATAATAAAT
Found at i:31406966 original size:15 final size:15
Alignment explanation
Indices: 31406946--31406975 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
31406936 TATTCTATTT
*
31406946 ATATTAGGATAATTA
1 ATATTAAGATAATTA
31406961 ATATTAAGATAATTA
1 ATATTAAGATAATTA
31406976 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:31413471 original size:15 final size:15
Alignment explanation
Indices: 31413447--31413481 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
31413437 AAGAAACAAT
*
31413447 ATATATAATATAAAC
1 ATATACAATATAAAC
*
31413462 ATATACAATATATAC
1 ATATACAATATAAAC
31413477 ATATA
1 ATATA
31413482 TTAGAGATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (15 bp):
ATATACAATATAAAC
Found at i:31414301 original size:16 final size:16
Alignment explanation
Indices: 31414276--31414316 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
31414266 AAAAGAAAAA
31414276 GAGAGAGGGGAGAAAG
1 GAGAGAGGGGAGAAAG
*
31414292 GAGGGAGGGGAGAAAG
1 GAGAGAGGGGAGAAAG
31414308 GAGAGAGGG
1 GAGAGAGGG
31414317 ATTCCGGCCG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (16 bp):
GAGAGAGGGGAGAAAG
Found at i:31416214 original size:18 final size:20
Alignment explanation
Indices: 31416175--31416220 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
31416165 TATGAAAATG
31416175 ATACTATATAAAAAATATAT
1 ATACTATATAAAAAATATAT
31416195 ATAC-ATATAACAAAATATAT
1 ATACTATATAA-AAAATATAT
*
31416215 GTACTA
1 ATACTA
31416221 ACATTGGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 6 0.26
20 16 0.70
21 1 0.04
ACGTcount: A:0.57, C:0.09, G:0.02, T:0.33
Consensus pattern (20 bp):
ATACTATATAAAAAATATAT
Found at i:31416500 original size:15 final size:15
Alignment explanation
Indices: 31416476--31416510 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
31416466 GAAATAATAT
*
31416476 ATATATAATATAAAC
1 ATATACAATATAAAC
*
31416491 ATATACAATATATAC
1 ATATACAATATAAAC
31416506 ATATA
1 ATATA
31416511 TTAGAGATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (15 bp):
ATATACAATATAAAC
Found at i:31416752 original size:34 final size:34
Alignment explanation
Indices: 31416710--31416779 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
31416700 ATTGAGATAC
31416710 AAAAAGTTGCTATACTAATGAAATTATAAAAATA
1 AAAAAGTTGCTATACTAATGAAATTATAAAAATA
31416744 AAAAAGTTGCTATACTAATGAAATTATAAAAATA
1 AAAAAGTTGCTATACTAATGAAATTATAAAAATA
31416778 AA
1 AA
31416780 GTAATAGAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.57, C:0.06, G:0.09, T:0.29
Consensus pattern (34 bp):
AAAAAGTTGCTATACTAATGAAATTATAAAAATA
Found at i:31419365 original size:13 final size:13
Alignment explanation
Indices: 31419344--31419402 Score: 57
Period size: 13 Copynumber: 4.5 Consensus size: 13
31419334 CAACCCAATC
* *
31419344 TTTAATATTAAAT
1 TTTATTATTATAT
31419357 TTTATTATTATTAT
1 TTTATTATTA-TAT
*
31419371 TTTATT-TTATTT
1 TTTATTATTATAT
*
31419383 TTTATTATTTTAT
1 TTTATTATTATAT
*
31419396 TATATTA
1 TTTATTA
31419403 ATAAAATTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
12 8 0.21
13 22 0.58
14 8 0.21
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTATTATTATAT
Found at i:31419387 original size:7 final size:8
Alignment explanation
Indices: 31419355--31419398 Score: 54
Period size: 8 Copynumber: 5.2 Consensus size: 8
31419345 TTAATATTAA
31419355 ATTTTATT
1 ATTTTATT
31419363 ATTATTATTTT
1 ATT-TTA--TT
31419374 ATTTTATT
1 ATTTTATT
31419382 -TTTTATT
1 ATTTTATT
31419389 ATTTTATT
1 ATTTTATT
31419397 AT
1 AT
31419399 ATTAATAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
7 7 0.22
8 14 0.44
9 3 0.09
10 3 0.09
11 5 0.16
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (8 bp):
ATTTTATT
Found at i:31419389 original size:20 final size:20
Alignment explanation
Indices: 31419355--31419401 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
31419345 TTAATATTAA
31419355 ATTTTA-TTATTATTATTTT
1 ATTTTATTTATTATTATTTT
*
31419374 ATTTTATTTTTTATTATTTT
1 ATTTTATTTATTATTATTTT
*
31419394 ATTATATT
1 ATTTTATT
31419402 AATAAAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 6 0.24
20 19 0.76
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (20 bp):
ATTTTATTTATTATTATTTT
Found at i:31419401 original size:10 final size:11
Alignment explanation
Indices: 31419361--31419398 Score: 62
Period size: 10 Copynumber: 3.6 Consensus size: 11
31419351 TTAAATTTTA
31419361 TTATTATTATT
1 TTATTATTATT
31419372 TTATT-TTATT
1 TTATTATTATT
31419382 TT-TTATTATT
1 TTATTATTATT
31419392 TTATTAT
1 TTATTAT
31419399 ATTAATAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 2 0.08
10 14 0.56
11 9 0.36
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTATTATTATT
Found at i:31422804 original size:15 final size:15
Alignment explanation
Indices: 31422784--31422813 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
31422774 TATTCTATTT
*
31422784 ATATTAGGATAATTA
1 ATATTAAGATAATTA
31422799 ATATTAAGATAATTA
1 ATATTAAGATAATTA
31422814 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:31423560 original size:71 final size:71
Alignment explanation
Indices: 31423444--31423581 Score: 267
Period size: 71 Copynumber: 1.9 Consensus size: 71
31423434 TAACTGGCTT
*
31423444 ACTTGAGTCGAGAAGGATCATCCAAAAGCCAAGGATTGAGCCCAAGGCGGAATGAGACAACCGGA
1 ACTTGAGTCGAGAAGGATCATCCAAAAGCCAAGGATTGAGCCCAAGGCGGAATAAGACAACCGGA
31423509 GGCTGG
66 GGCTGG
31423515 ACTTGAGTCGAGAAGGATCATCCAAAAGCCAAGGATTGAGCCCAAGGCGGAATAAGACAACCGGA
1 ACTTGAGTCGAGAAGGATCATCCAAAAGCCAAGGATTGAGCCCAAGGCGGAATAAGACAACCGGA
31423580 GG
66 GG
31423582 TTGAAACTTC
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 66 1.00
ACGTcount: A:0.36, C:0.21, G:0.31, T:0.12
Consensus pattern (71 bp):
ACTTGAGTCGAGAAGGATCATCCAAAAGCCAAGGATTGAGCCCAAGGCGGAATAAGACAACCGGA
GGCTGG
Found at i:31425241 original size:18 final size:18
Alignment explanation
Indices: 31425220--31425257 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
31425210 AAAAATGAGA
*
31425220 TTGATAATGAAAAGGAAG
1 TTGAGAATGAAAAGGAAG
*
31425238 TTGAGAATGAAGAGGAAG
1 TTGAGAATGAAAAGGAAG
31425256 TT
1 TT
31425258 AAAACCGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.32, T:0.24
Consensus pattern (18 bp):
TTGAGAATGAAAAGGAAG
Found at i:31426188 original size:12 final size:12
Alignment explanation
Indices: 31426171--31426208 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
31426161 AAAGATATAT
31426171 AATATATTCCTA
1 AATATATTCCTA
*
31426183 AATATATTCTTA
1 AATATATTCCTA
*
31426195 AATATATGCCTA
1 AATATATTCCTA
31426207 AA
1 AA
31426209 AGATATACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.45, C:0.13, G:0.03, T:0.39
Consensus pattern (12 bp):
AATATATTCCTA
Found at i:31433678 original size:15 final size:15
Alignment explanation
Indices: 31433653--31433691 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
31433643 TTAAAATCTT
*
31433653 TAAAAATATAAAAATA
1 TAAAAA-ATAAAAAAA
31433669 TAAAAAATAAAAAAA
1 TAAAAAATAAAAAAA
*
31433684 TATAAAAT
1 TAAAAAAT
31433692 TATTAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 15 0.71
16 6 0.29
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
TAAAAAATAAAAAAA
Found at i:31433681 original size:7 final size:8
Alignment explanation
Indices: 31433653--31433700 Score: 60
Period size: 8 Copynumber: 5.8 Consensus size: 8
31433643 TTAAAATCTT
31433653 TAAAAATA
1 TAAAAATA
31433661 TAAAAATA
1 TAAAAATA
31433669 TAAAAAATA
1 T-AAAAATA
*
31433678 AAAAAATA
1 TAAAAATA
*
31433686 TAAAATTA
1 TAAAAATA
31433694 TTAAAAA
1 -TAAAAA
31433701 AATTACAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
8 22 0.65
9 12 0.35
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (8 bp):
TAAAAATA
Found at i:31433700 original size:17 final size:17
Alignment explanation
Indices: 31433654--31433690 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
31433644 TAAAATCTTT
31433654 AAAAATATAAAAATATA
1 AAAAATATAAAAATATA
*
31433671 AAAAATAAAAAAATATA
1 AAAAATATAAAAATATA
31433688 AAA
1 AAA
31433691 TTATTAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (17 bp):
AAAAATATAAAAATATA
Found at i:31433710 original size:20 final size:19
Alignment explanation
Indices: 31433676--31433752 Score: 59
Period size: 19 Copynumber: 3.8 Consensus size: 19
31433666 ATATAAAAAA
31433676 TAAAAAAA-TATAAAATTAT
1 TAAAAAAATTA-AAAATTAT
31433695 TAAAAAAATTACAAAAGATGT-T
1 TAAAAAAATT--AAAA-AT-TAT
**
31433717 TAAAAATTTTAAAAATTAT
1 TAAAAAAATTAAAAATTAT
*
31433736 TAAAATAATTAGAAAAT
1 TAAAAAAATTA-AAAAT
31433753 AGAAAATCTA
Statistics
Matches: 46, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
18 1 0.02
19 19 0.41
20 10 0.22
21 3 0.07
22 12 0.26
23 1 0.02
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.32
Consensus pattern (19 bp):
TAAAAAAATTAAAAATTAT
Found at i:31433775 original size:24 final size:22
Alignment explanation
Indices: 31433742--31433789 Score: 69
Period size: 24 Copynumber: 2.1 Consensus size: 22
31433732 TTATTAAAAT
*
31433742 AATTAGAAAATAGAAAATCTATAA
1 AATTACAAAA-AGAAAAT-TATAA
31433766 AATTACAAAAAGAAAATTATAA
1 AATTACAAAAAGAAAATTATAA
31433788 AA
1 AA
31433790 ATATTTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 7 0.30
23 7 0.30
24 9 0.39
ACGTcount: A:0.67, C:0.04, G:0.06, T:0.23
Consensus pattern (22 bp):
AATTACAAAAAGAAAATTATAA
Found at i:31433823 original size:27 final size:28
Alignment explanation
Indices: 31433793--31433848 Score: 80
Period size: 27 Copynumber: 2.0 Consensus size: 28
31433783 TATAAAAATA
*
31433793 TTTTAAAAAACTA-AAA-TTTACTATTTT
1 TTTTAAAAAA-TAGAAATTTTAATATTTT
31433820 TTTTAAAAAATAGAAATTTTAATATTTT
1 TTTTAAAAAATAGAAATTTTAATATTTT
31433848 T
1 T
31433849 AAAATTTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 2 0.08
27 13 0.50
28 11 0.42
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.50
Consensus pattern (28 bp):
TTTTAAAAAATAGAAATTTTAATATTTT
Found at i:31444380 original size:17 final size:18
Alignment explanation
Indices: 31444349--31444382 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
31444339 ATAAATTTTA
*
31444349 TATGTTAAATATTAATTT
1 TATGTAAAATATTAATTT
31444367 TATGTAAAAT-TTAATT
1 TATGTAAAATATTAATT
31444383 AGTATTTAGT
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:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (18 bp):
TATGTAAAATATTAATTT
Found at i:31444508 original size:20 final size:20
Alignment explanation
Indices: 31444448--31444509 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
31444438 GTCCACATAT
31444448 AATTCA-AAAAAATTAATAAA
1 AATTCATAAAAAATT-ATAAA
* *
31444468 AATAT-ATAAAAAAATAAAAA
1 AAT-TCATAAAAAATTATAAA
*
31444488 AATTCATAAAAAATTTTAAA
1 AATTCATAAAAAATTATAAA
31444508 AA
1 AA
31444510 ATTTTATCCA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
19 1 0.03
20 25 0.74
21 8 0.24
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (20 bp):
AATTCATAAAAAATTATAAA
Found at i:31451401 original size:26 final size:26
Alignment explanation
Indices: 31451353--31451402 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
31451343 TAATACGGTG
* *
31451353 TTAAAAATACATACATCATATAGTTA
1 TTAAAAATACATACATAAGATAGTTA
* *
31451379 TTAAAAATATATATATAAGATAGT
1 TTAAAAATACATACATAAGATAGT
31451403 ACAAAAACAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.36
Consensus pattern (26 bp):
TTAAAAATACATACATAAGATAGTTA
Found at i:31451780 original size:24 final size:26
Alignment explanation
Indices: 31451751--31451813 Score: 78
Period size: 24 Copynumber: 2.5 Consensus size: 26
31451741 ATATACGAAG
*
31451751 CAATTTAAAGTAGA-TAATATA-AA-A
1 CAATTTAAAATA-ATTAATATATAACA
31451775 CAATTTAAAATAATTAATATATAACA
1 CAATTTAAAATAATTAATATATAACA
*
31451801 TAATTTAAAATAA
1 CAATTTAAAATAA
31451814 AATAAAGCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
23 1 0.03
24 18 0.53
25 2 0.06
26 13 0.38
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (26 bp):
CAATTTAAAATAATTAATATATAACA
Found at i:31452075 original size:29 final size:28
Alignment explanation
Indices: 31452043--31452139 Score: 76
Period size: 29 Copynumber: 3.5 Consensus size: 28
31452033 AAGAATTTTA
*
31452043 AAATAACAGTATGT-AAAGATTTAAGAAAT
1 AAATAA-AGTATATGAAAGATTTAA-AAAT
*
31452072 AAATAATGTATATGAAAGATTTAAAAAT
1 AAATAAAGTATATGAAAGATTTAAAAAT
* * *
31452100 GACAGTAAA-TATAT-AAAAATTT-AAAAC
1 -A-AATAAAGTATATGAAAGATTTAAAAAT
*
31452127 AAATAATGTATAT
1 AAATAAAGTATAT
31452140 ATGTATAAAG
Statistics
Matches: 56, Mismatches: 8, Indels: 11
0.75 0.11 0.15
Matches are distributed among these distances:
25 4 0.07
26 6 0.11
27 4 0.07
28 16 0.29
29 22 0.39
30 4 0.07
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.30
Consensus pattern (28 bp):
AAATAAAGTATATGAAAGATTTAAAAAT
Found at i:31454818 original size:36 final size:37
Alignment explanation
Indices: 31454752--31454858 Score: 98
Period size: 36 Copynumber: 2.9 Consensus size: 37
31454742 AGGTGGTAAT
* * *
31454752 AATAATAATAATAACA--ATAATAATAGTAATAATAGTG
1 AATAATAATAAT-ACATGATGATAACAATAATAATAG-G
*
31454789 -ATAATAATAATACATTGATGAT-A-AATAATAAAAGG
1 AATAATAATAATACA-TGATGATAACAATAATAATAGG
* *
31454824 AATAATAATAATATATGTTGATAACAATAATAATA
1 AATAATAATAATACATGATGATAACAATAATAATA
31454859 TAAAATAGGA
Statistics
Matches: 58, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
35 10 0.17
36 34 0.59
37 10 0.17
38 4 0.07
ACGTcount: A:0.58, C:0.03, G:0.08, T:0.31
Consensus pattern (37 bp):
AATAATAATAATACATGATGATAACAATAATAATAGG
Found at i:31454855 original size:3 final size:3
Alignment explanation
Indices: 31454748--31454836 Score: 72
Period size: 3 Copynumber: 28.7 Consensus size: 3
31454738 GATAAGGTGG
* * * *
31454748 TAA TAA TAA TAA TAA TAA CAA TAA TAA TAG TAA TAA TAG TGA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
31454796 TAA TACA TTGA TGA TAAA TAA TAA -AA GGAA TAA TAA TAA TA
1 TAA TA-A -TAA TAA T-AA TAA TAA TAA -TAA TAA TAA TAA TA
31454837 TATGTTGATA
Statistics
Matches: 70, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
2 2 0.03
3 61 0.87
4 6 0.09
5 1 0.01
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:31457503 original size:41 final size:41
Alignment explanation
Indices: 31457436--31457518 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
31457426 ATCTCGATCG
* * *
31457436 ATATCACCAAACTCATTATACGCTTTGGATATGAAGTTACC
1 ATATCACCAAACTCATTACACACTTTGGATATAAAGTTACC
*
31457477 ATATCACCAAACTTATTACACACTTTGGATATAAAGTTACC
1 ATATCACCAAACTCATTACACACTTTGGATATAAAGTTACC
31457518 A
1 A
31457519 CACTCTTTTG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (41 bp):
ATATCACCAAACTCATTACACACTTTGGATATAAAGTTACC
Found at i:31461507 original size:2 final size:2
Alignment explanation
Indices: 31461502--31461526 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
31461492 TGTAGCCATT
31461502 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
31461527 CATGAGCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:31463262 original size:27 final size:27
Alignment explanation
Indices: 31463229--31463283 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
31463219 AGGATGACGG
* *
31463229 AAATAGGAGATAGTTGCAAAGATACTT
1 AAATAGGAGATAATGGCAAAGATACTT
31463256 AAATAGGAGATAATGGCAAAGATACTT
1 AAATAGGAGATAATGGCAAAGATACTT
31463283 A
1 A
31463284 GGTTTTCTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.47, C:0.07, G:0.22, T:0.24
Consensus pattern (27 bp):
AAATAGGAGATAATGGCAAAGATACTT
Found at i:31477830 original size:30 final size:30
Alignment explanation
Indices: 31477796--31477858 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
31477786 ACTTAATAAG
*
31477796 CAAATGCTTTTAAAATAATAAAAAAATTAA
1 CAAATGCCTTTAAAATAATAAAAAAATTAA
*
31477826 CAAATGCCTTTAAAATAATAAGAAAATTAA
1 CAAATGCCTTTAAAATAATAAAAAAATTAA
31477856 CAA
1 CAA
31477859 TAAAATAAAT
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:0.59, C:0.10, G:0.05, T:0.27
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAATAAAAAAATTAA
Found at i:31481991 original size:19 final size:19
Alignment explanation
Indices: 31481967--31482015 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
31481957 CATGGTTTTT
31481967 TAAAAAAATTATAAAAATA
1 TAAAAAAATTATAAAAATA
*
31481986 TAAAAAAAATT-TAAAATTA
1 T-AAAAAAATTATAAAAATA
*
31482005 TAAAAATATTA
1 TAAAAAAATTA
31482016 GAATTATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 8 0.31
19 9 0.35
20 9 0.35
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
TAAAAAAATTATAAAAATA
Found at i:31482009 original size:17 final size:17
Alignment explanation
Indices: 31481969--31482028 Score: 50
Period size: 17 Copynumber: 3.3 Consensus size: 17
31481959 TGGTTTTTTA
*
31481969 AAAAAATTATAAAAATATAA
1 AAAAAATT-T-AAAAT-TAT
31481989 AAAAAATTTAAAATTAT
1 AAAAAATTTAAAATTAT
*
31482006 -AAAAATATTAGAATTATT
1 AAAAAAT-TTAAAATTA-T
31482024 AAAAA
1 AAAAA
31482029 CAAAGTCTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
16 6 0.17
17 10 0.29
18 6 0.17
19 5 0.14
20 8 0.23
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (17 bp):
AAAAAATTTAAAATTAT
Found at i:31482557 original size:30 final size:31
Alignment explanation
Indices: 31482523--31482584 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
31482513 AAACCTTTTG
* * *
31482523 ACTTTTCTCTCAAAATTTTTAC-ACCTTCCC
1 ACTTTTCCCCCAAAACTTTTACTACCTTCCC
*
31482553 ACTTTTCCCCCAAAACTTTTACTCCCTTCCC
1 ACTTTTCCCCCAAAACTTTTACTACCTTCCC
31482584 A
1 A
31482585 TCCCAACCCC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 19 0.70
31 8 0.30
ACGTcount: A:0.23, C:0.39, G:0.00, T:0.39
Consensus pattern (31 bp):
ACTTTTCCCCCAAAACTTTTACTACCTTCCC
Found at i:31482724 original size:30 final size:31
Alignment explanation
Indices: 31482689--31482748 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
31482679 AACTTTTTAT
*
31482689 TTTCCCTCC-AAAATTTTTACTCCC-TCCCAC
1 TTTCCC-CCTAAAACTTTTACTCCCTTCCCAC
31482719 TTTCCCCCTAAAACTTTTACTCCCTTCCCA
1 TTTCCCCCTAAAACTTTTACTCCCTTCCCA
31482749 TCCCACCTCC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 2 0.07
30 20 0.74
31 5 0.19
ACGTcount: A:0.20, C:0.43, G:0.00, T:0.37
Consensus pattern (31 bp):
TTTCCCCCTAAAACTTTTACTCCCTTCCCAC
Found at i:31490293 original size:24 final size:23
Alignment explanation
Indices: 31490256--31490315 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 23
31490246 AAATTATCAT
* *
31490256 TTTGGATTTAAAATATTAA-TGAG
1 TTTGGCTTTTAAATATTAATTG-G
*
31490279 TATTGGCTTTTAAATTTTAATTGG
1 T-TTGGCTTTTAAATATTAATTGG
31490303 TTTGAGCTTTTAA
1 TTTG-GCTTTTAA
31490316 GAAAACTAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 4 0.13
24 25 0.81
25 2 0.06
ACGTcount: A:0.30, C:0.03, G:0.17, T:0.50
Consensus pattern (23 bp):
TTTGGCTTTTAAATATTAATTGG
Found at i:31494920 original size:19 final size:19
Alignment explanation
Indices: 31494898--31494935 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
31494888 AGATATTACA
31494898 ATTTTTTTTTTGTATTTCT
1 ATTTTTTTTTTGTATTTCT
*
31494917 ATTTTTTTTTTGTTTTTCT
1 ATTTTTTTTTTGTATTTCT
31494936 TAATTTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.08, C:0.05, G:0.05, T:0.82
Consensus pattern (19 bp):
ATTTTTTTTTTGTATTTCT
Found at i:31495622 original size:11 final size:11
Alignment explanation
Indices: 31495591--31495630 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
31495581 ACAATAACAA
*
31495591 CAAAATAGTAG
1 CAAAATAATAG
*
31495602 CAACATAATAG
1 CAAAATAATAG
*
31495613 TAAAATAATAG
1 CAAAATAATAG
31495624 CAAAATA
1 CAAAATA
31495631 GGGAGAAAAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.20
Consensus pattern (11 bp):
CAAAATAATAG
Found at i:31506286 original size:12 final size:13
Alignment explanation
Indices: 31506269--31506297 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
31506259 AGATACACAA
31506269 ATATATAA-AAAT
1 ATATATAACAAAT
31506281 ATATATAACAAAT
1 ATATATAACAAAT
31506294 ATAT
1 ATAT
31506298 TTGTTATGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (13 bp):
ATATATAACAAAT
Found at i:31508100 original size:18 final size:20
Alignment explanation
Indices: 31508077--31508120 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 20
31508067 CCAAAATTAT
*
31508077 TATTTTAGAATAT-TTTA-A
1 TATTTTAAAATATCTTTACA
*
31508095 TATTTTAAAATTTCTTTACA
1 TATTTTAAAATATCTTTACA
31508115 TATTTT
1 TATTTT
31508121 TTAGAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 11 0.50
19 4 0.18
20 7 0.32
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (20 bp):
TATTTTAAAATATCTTTACA
Found at i:31513409 original size:15 final size:15
Alignment explanation
Indices: 31513389--31513444 Score: 50
Period size: 15 Copynumber: 4.1 Consensus size: 15
31513379 ATTTAAAACA
* *
31513389 TAATTTTTATTATAT
1 TAATTTATAATATAT
31513404 TAATTTATAATATA-
1 TAATTTATAATATAT
31513418 T--TTTAT--TATAT
1 TAATTTATAATATAT
*
31513429 GAATTTATAATATAT
1 TAATTTATAATATAT
31513444 T
1 T
31513445 TTATTAATAC
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
10 4 0.12
12 5 0.16
13 5 0.16
14 1 0.03
15 17 0.53
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (15 bp):
TAATTTATAATATAT
Found at i:31513427 original size:25 final size:25
Alignment explanation
Indices: 31513393--31513450 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
31513383 AAAACATAAT
*
31513393 TTTTATTATATTAATTTATAATATA
1 TTTTATTATATGAATTTATAATATA
31513418 TTTTATTATATGAATTTATAATATA
1 TTTTATTATATGAATTTATAATATA
31513443 TTTTATTA
1 TTTTATTA
31513451 ATACATACTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (25 bp):
TTTTATTATATGAATTTATAATATA
Found at i:31513452 original size:13 final size:13
Alignment explanation
Indices: 31513393--31513453 Score: 58
Period size: 13 Copynumber: 4.8 Consensus size: 13
31513383 AAAACATAAT
31513393 TTTTATT-ATATTA
1 TTTTATTAATA-TA
*
31513406 ATTTA-TAATATA
1 TTTTATTAATATA
31513418 TTTTATT-ATATGA
1 TTTTATTAATAT-A
*
31513431 ATTTA-TAATATA
1 TTTTATTAATATA
31513443 TTTTATTAATA
1 TTTTATTAATA
31513454 CATACTATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
12 17 0.44
13 22 0.56
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (13 bp):
TTTTATTAATATA
Found at i:31514430 original size:10 final size:10
Alignment explanation
Indices: 31514417--31514447 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
31514407 TAAATTAACT
31514417 TAAAAATTTA
1 TAAAAATTTA
31514427 TAAAAATTTA
1 TAAAAATTTA
31514437 TAAAAATTTA
1 TAAAAATTTA
31514447 T
1 T
31514448 TTATATTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
TAAAAATTTA
Found at i:31515453 original size:15 final size:17
Alignment explanation
Indices: 31515433--31515467 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
31515423 TGTTAAACTA
31515433 TATTT-AAA-ATTATTT
1 TATTTAAAATATTATTT
31515448 TATTTAAAATATTATTT
1 TATTTAAAATATTATTT
31515465 TAT
1 TAT
31515468 CTACTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
16 3 0.17
17 10 0.56
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TATTTAAAATATTATTT
Found at i:31517059 original size:16 final size:16
Alignment explanation
Indices: 31517048--31517089 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
31517038 ATATAAAGAC
31517048 ATAAATAAATAAATGA
1 ATAAATAAATAAATGA
* *
31517064 GTAAATAAATATAT-A
1 ATAAATAAATAAATGA
31517079 ATAAA-AAATAA
1 ATAAATAAATAA
31517090 TGATGAGAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 5 0.23
15 5 0.23
16 12 0.55
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (16 bp):
ATAAATAAATAAATGA
Found at i:31517290 original size:3 final size:3
Alignment explanation
Indices: 31517276--31517562 Score: 142
Period size: 3 Copynumber: 95.7 Consensus size: 3
31517266 AGATCGCAAA
* * *
31517276 AAT AAT AGT AAT AAT AAT AAT ACT -AT AAT GA- AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * *
31517322 AAT AAT AAT AAT GAT GAT GAT GAT GAT GAT AA- AGAT AAA AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT
* * ** * * * *
31517367 AAT TAT AGAA AAT AAT TGT AAT AGT AAA AAT AAT AAT GAT AGT AAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
31517413 AAT AAT AAT AAC AAT AAT AA- ACAT AAAT AAT AGT AA- AAT AA- AA-
1 AAT AAT AAT AAT AAT AAT AAT A-AT -AAT AAT AAT AAT AAT AAT AAT
* * * *
31517456 AGAT AAA AAT AAT AAT AGT AAT AAT AAC AAT -GT CAAT AAAT AAT AAT
1 A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT -AAT AAT AAT
** * * * * *
31517503 GGT AAT AGT AAT AAC AAT AGT AAT AAT ACT AAAT AAT CAT AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
*
31517548 ATGT AAT AAT AAT AA
1 A-AT AAT AAT AAT AA
31517563 ATATAAAACC
Statistics
Matches: 213, Mismatches: 55, Indels: 32
0.71 0.18 0.11
Matches are distributed among these distances:
2 11 0.05
3 188 0.88
4 13 0.06
5 1 0.00
ACGTcount: A:0.60, C:0.03, G:0.08, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:31517497 original size:28 final size:27
Alignment explanation
Indices: 31517435--31517500 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 27
31517425 AATAATAAAC
31517435 ATAAATAATAGTAAAATAAAAAGATAA
1 ATAAATAATAGTAAAATAAAAAGATAA
* * *
31517462 AAATAATAATAGTAATAATAACAATG-TCA
1 ATA-AATAATAGTAA-AATAA-AAAGATAA
31517491 ATAAATAATA
1 ATAAATAATA
31517501 ATGGTAATAG
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
27 2 0.06
28 18 0.56
29 9 0.28
30 3 0.09
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.26
Consensus pattern (27 bp):
ATAAATAATAGTAAAATAAAAAGATAA
Found at i:31517537 original size:28 final size:28
Alignment explanation
Indices: 31517506--31517565 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
31517496 TAATAATGGT
* *
31517506 AATAGTAATAAC-AATAGTAATAATACTA
1 AATAATAATAACAAAT-GTAATAATAATA
* *
31517534 AATAATCATAATAAATGTAATAATAATA
1 AATAATAATAACAAATGTAATAATAATA
31517562 AATA
1 AATA
31517566 TAAAACCTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 24 0.89
29 3 0.11
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (28 bp):
AATAATAATAACAAATGTAATAATAATA
Found at i:31517546 original size:37 final size:35
Alignment explanation
Indices: 31517462--31517547 Score: 86
Period size: 34 Copynumber: 2.4 Consensus size: 35
31517452 AAAAAGATAA
*
31517462 AAATAATAATAGTAATAATAACAATGTCAATAAAT
1 AAATAATAATAATAATAATAACAATGTCAATAAAT
** *
31517497 -AATAATGGTAATAGTAATAACAATAGT-AATAATACT
1 AAATAATAATAATAATAATAACAAT-GTCAATAA-A-T
*
31517533 AAATAATCATAATAA
1 AAATAATAATAATAA
31517548 ATGTAATAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
34 25 0.62
35 3 0.08
36 1 0.03
37 11 0.28
ACGTcount: A:0.58, C:0.06, G:0.07, T:0.29
Consensus pattern (35 bp):
AAATAATAATAATAATAATAACAATGTCAATAAAT
Found at i:31518953 original size:88 final size:88
Alignment explanation
Indices: 31518855--31519245 Score: 444
Period size: 88 Copynumber: 4.4 Consensus size: 88
31518845 ATTTGCTCTG
* * * * * * * *
31518855 CTACTGCTTAGGGGGATATGATTTGTAATCTTCAGCCTGCTCCACTGCTGCTCAGGAAGATAAGG
1 CTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGCTCCACTACTGCTTAGGGAGATAAGA
* *
31518920 CTTACTGTCCTCGATCTGCTCCA
66 CTCACCGTCCTCGATCTGCTCCA
** * * * * *
31518943 CTACTGCTTAGGGAGATAAGATCTACAATTTTCAGCTTACTCTACTACTGCTTAGGGAGATAGGG
1 CTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGCTCCACTACTGCTTAGGGAGATAAGA
*
31519008 CTTACCGT-CTGCGATCTGCTCCA
66 CTCACCGTCCT-CGATCTGCTCCA
* * * *
31519031 CTACTGTTTAGGGAGATAAGATATGTAATTTTCAGCCTGCTTCTCTACTGCTTAGGGAGATAAGA
1 CTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGCTCCACTACTGCTTAGGGAGATAAGA
* *
31519096 CTCACCGTCTTCGATTTGCTCCA
66 CTCACCGTCCTCGATCTGCTCCA
* * * * *
31519119 CTACTGCTTAAGGAGATAAGATCTGTAACTTTCAACCTGTTTCC-CTACTGCTTAAGGAGATAAG
1 CTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTG-CTCCACTACTGCTTAGGGAGATAAG
* * *
31519183 ACTCACCGTCTTCGATCTACTCTA
65 ACTCACCGTCCTCGATCTGCTCCA
* *
31519207 CTACTACTTAGGAAGATAAGATCTGTAATTTTCAGCCTG
1 CTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTG
31519246 TTTCCCTACT
Statistics
Matches: 256, Mismatches: 44, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
87 2 0.01
88 251 0.98
89 3 0.01
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.32
Consensus pattern (88 bp):
CTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGCTCCACTACTGCTTAGGGAGATAAGA
CTCACCGTCCTCGATCTGCTCCA
Found at i:31519137 original size:44 final size:44
Alignment explanation
Indices: 31518891--31519227 Score: 183
Period size: 44 Copynumber: 7.7 Consensus size: 44
31518881 AATCTTCAGC
* * * * * *
31518891 CTGCTCCACTGCTGC-TCAGGAAGATAAGGCTTACTGTCCTCGAT
1 CTGCTCCACTACTGCTTAAGG-AGATAAGACTCACCGTCTTCGAT
* ** * *
31518935 CTGCTCCACTACTGCTTAGGGAGATAAGA-TCTACAATTTTC-AG
1 CTGCTCCACTACTGCTTAAGGAGATAAGACTC-ACCGTCTTCGAT
* * * * * * *
31518978 CTTACTCTACTACTGCTTAGGGAGATAGGGCTTACCGTCTGCGAT
1 C-TGCTCCACTACTGCTTAAGGAGATAAGACTCACCGTCTTCGAT
* * * * *
31519023 CTGCTCCACTACTGTTTAGGGAGATAAGA-T-A-TGTAATTTTC-AGC
1 CTGCTCCACTACTGCTTAAGGAGATAAGACTCACCG---TCTTCGA-T
* * *
31519067 CTGCTTCTCTACTGCTTAGGGAGATAAGACTCACCGTCTTCGAT
1 CTGCTCCACTACTGCTTAAGGAGATAAGACTCACCGTCTTCGAT
* * * * *
31519111 TTGCTCCACTACTGCTTAAGGAGATAAGATCTGTAAC-T-TTCAAC
1 CTGCTCCACTACTGCTTAAGGAGATAAGA-CT-CACCGTCTTCGAT
*
31519155 CTGTTTCC-CTACTGCTTAAGGAGATAAGACTCACCGTCTTCGAT
1 CTG-CTCCACTACTGCTTAAGGAGATAAGACTCACCGTCTTCGAT
* * *
31519199 CTACTCTACTACTACTT-AGGAAGATAAGA
1 CTGCTCCACTACTGCTTAAGG-AGATAAGA
31519228 TCTGTAATTT
Statistics
Matches: 220, Mismatches: 53, Indels: 40
0.70 0.17 0.13
Matches are distributed among these distances:
41 1 0.00
42 3 0.01
43 13 0.06
44 185 0.84
45 14 0.06
46 3 0.01
47 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (44 bp):
CTGCTCCACTACTGCTTAAGGAGATAAGACTCACCGTCTTCGAT
Found at i:31519545 original size:260 final size:261
Alignment explanation
Indices: 31519174--31519795 Score: 856
Period size: 260 Copynumber: 2.4 Consensus size: 261
31519164 TACTGCTTAA
* * * *
31519174 GGAGATAAGACTCACCGTCTTCGATCTACTCTACTACTACTTAGGAAGATAAGATCTGTAATTTT
1 GGAGATAAGACTCACCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATTTT
* * *
31519239 CAGCCTGTTTCCCTACTACCTAGGGGGATAAGGCTAGTGGCTTAAATCCATTCCATTGA-CACTA
66 CAGCCTGTTT-CCTACTGCTTAGGGGGATAAGGCTAGTGGCTTAAATCCACTCCATT-ACCACTA
31519303 CATGGAGATAAGATTCACTGTCCTCGATCTGCTACACTACAGCTTAGGGAGATAAGATCTATAAT
129 CATGGAGATAAGATTCACTGTCCTCGATCTGCTACACTACAGCTTAGGGAGATAAGATCTATAAT
* * * * *
31519368 TTTCAACCCGTTCCCTACTGGTTAAG-GGGATAAGGCTAGTGGCTTGAATCTGCTCCATTTTCGC
194 TTTCAACCCGTTCCCTACTGCTT-AGTGAGATAAGGCTAGTGGCTTAAATCTGCTCCA-TTGCAC
31519432 TACAT
257 TACAT
* * *
31519437 GGAGATAAG-CTCCCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAG-TCTGCAATCTT
1 GGAGATAAGACTCACCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATTTT
* * *
31519500 CAACCTGTTTCCTACTGCTTAGGGGGATAAGGCTAGTGGCTTAAATCCGCTCTATTACCACTACA
66 CAGCCTGTTTCCTACTGCTTAGGGGGATAAGGCTAGTGGCTTAAATCCACTCCATTACCACTACA
* * ** * * * *
31519565 TGGGGATAAGGTTTGCTGTCTTCGATCTGTTCCACTACTGCTTAGGGAGATAAGATCTATAATTT
131 TGGAGATAAGATTCACTGTCCTCGATCTGCTACACTACAGCTTAGGGAGATAAGATCTATAATTT
*
31519630 TCAACCTGTTCCCTACTGCTTAGTGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTGCACTACA
196 TCAACCCGTTCCCTACTGCTTAGTGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTGCACTACA
31519695 T
261 T
* * * * * * * *
31519696 AGAGATATGATTAATCATCTTTGATCTGCTCCACTACTACTTAGAGAGATAAGATCTGCAATTTT
1 GGAGATAAGACTCACCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATTTT
*
31519761 CAGCCTGTTCCCTACTGCTTAGGGGGATAAGGCTA
66 CAGCCTGTTTCCTACTGCTTAGGGGGATAAGGCTA
31519796 ATCGAAACTT
Statistics
Matches: 315, Mismatches: 40, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
259 19 0.06
260 188 0.60
261 61 0.19
262 38 0.12
263 9 0.03
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (261 bp):
GGAGATAAGACTCACCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATTTT
CAGCCTGTTTCCTACTGCTTAGGGGGATAAGGCTAGTGGCTTAAATCCACTCCATTACCACTACA
TGGAGATAAGATTCACTGTCCTCGATCTGCTACACTACAGCTTAGGGAGATAAGATCTATAATTT
TCAACCCGTTCCCTACTGCTTAGTGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTGCACTACA
T
Found at i:31519668 original size:131 final size:129
Alignment explanation
Indices: 31519174--31519795 Score: 733
Period size: 130 Copynumber: 4.8 Consensus size: 129
31519164 TACTGCTTAA
* * * * * *
31519174 GGAGATAAGACTCACCGTCTTCGATCTACTCTACTACTACTTAGGAAGATAAGATCTGTAATTTT
1 GGAGATAAGATTC-CTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTT
* * * **
31519239 CAGCCTGTTTCCCTACTACCTAGGGGGATAAGGCTAGTGGCTTAAATCCATTCCATTGACACTAC
65 CAACCTG-TTCCCTACTGCTTAGGGGGATAAGGCTAGTGGCTTAAATCCGCTCCATT-ACACTAC
31519304 AT
128 AT
* * * *
31519306 GGAGATAAGATTCACTGTCCTCGATCTGCTACACTACAGCTTAGGGAGATAAGATCTATAATTTT
1 GGAGATAAGATTC-CTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTT
* * * * * * *
31519371 CAACCCGTTCCCTACTGGTTAAGGGGATAAGGCTAGTGGCTTGAATCTGCTCCATTTTCGCTACA
65 CAACCTGTTCCCTACTGCTTAGGGGGATAAGGCTAGTGGCTTAAATCCGCTCCA-TTACACTACA
31519436 T
129 T
* * * * *
31519437 GGAGATAAGCTCCCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAG-TCTGCAATCTTC
1 GGAGATAAGATTCCTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTC
* *
31519501 AACCTGTTTCCTACTGCTTAGGGGGATAAGGCTAGTGGCTTAAATCCGCTCTATTACCACTACAT
66 AACCTGTTCCCTACTGCTTAGGGGGATAAGGCTAGTGGCTTAAATCCGCTCCATTA-CACTACAT
* * * * *
31519566 GGGGATAAGGTTTGCTGTCTTCGATCTGTTCCACTACTGCTTAGGGAGATAAGATCTATAATTTT
1 GGAGATAA-GATTCCTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTT
* * * *
31519631 CAACCTGTTCCCTACTGCTTAGTGAGATAAGGCTAGTGGCTTAAATCTGCTCCATTGCACTACAT
65 CAACCTGTTCCCTACTGCTTAGGGGGATAAGGCTAGTGGCTTAAATCCGCTCCATTACACTACAT
* * ** * * * * *
31519696 AGAGATATGATTAATCATCTTTGATCTGCTCCACTACTACTTAGAGAGATAAGATCTGCAATTTT
1 GGAGATAAGATTCCT-GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTT
*
31519761 CAGCCTGTTCCCTACTGCTTAGGGGGATAAGGCTA
65 CAACCTGTTCCCTACTGCTTAGGGGGATAAGGCTA
31519796 ATCGAAACTT
Statistics
Matches: 414, Mismatches: 71, Indels: 12
0.83 0.14 0.02
Matches are distributed among these distances:
128 2 0.00
129 73 0.18
130 161 0.39
131 116 0.28
132 62 0.15
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (129 bp):
GGAGATAAGATTCCTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTC
AACCTGTTCCCTACTGCTTAGGGGGATAAGGCTAGTGGCTTAAATCCGCTCCATTACACTACAT
Found at i:31531676 original size:3 final size:3
Alignment explanation
Indices: 31531670--31531905 Score: 128
Period size: 3 Copynumber: 78.0 Consensus size: 3
31531660 AGGATAGTAG
*
31531670 TAA TAA TAA TAA TAA TAA TAA TAA TAA -AGA TGAA -AA TAA TAA TTA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A T-AA TAA TAA TAA TAA
* ** * * * *
31531715 TAGA AAA TAA TTG TAA TAG TAA AAA TAA TAA TGA TAG TAA TAA TAA
1 TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
31531761 TAA TAA CAA TAA TAA -ACA TAAA TAA TAG TAA -AA TAA -AA -AGA TAA
1 TAA TAA TAA TAA TAA TA-A T-AA TAA TAA TAA TAA TAA TAA TA-A TAA
* * * * **
31531805 AAA TAA TAA TAG TAA TAA TAA CAA T-G TCAA TAAA TAA TAA TGG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA T-AA TAA TAA TAA TAA
* * * * * *
31531851 TAG TAA TAA CAA TAG TAA TAA TAC TAAA TAA TCA TAA TAA -ATG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TA-A TAA
31531897 TAA TAA TAA
1 TAA TAA TAA
31531906 ATATAAAACC
Statistics
Matches: 172, Mismatches: 45, Indels: 32
0.69 0.18 0.13
Matches are distributed among these distances:
2 11 0.06
3 146 0.85
4 13 0.08
5 2 0.01
ACGTcount: A:0.61, C:0.03, G:0.07, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:31531840 original size:28 final size:27
Alignment explanation
Indices: 31531778--31531843 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 27
31531768 AATAATAAAC
31531778 ATAAATAATAGTAAAATAAAAAGATAA
1 ATAAATAATAGTAAAATAAAAAGATAA
* * *
31531805 AAATAATAATAGTAATAATAACAATG-TCA
1 ATA-AATAATAGTAA-AATAA-AAAGATAA
31531834 ATAAATAATA
1 ATAAATAATA
31531844 ATGGTAATAG
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
27 2 0.06
28 18 0.56
29 9 0.28
30 3 0.09
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.26
Consensus pattern (27 bp):
ATAAATAATAGTAAAATAAAAAGATAA
Found at i:31531880 original size:28 final size:28
Alignment explanation
Indices: 31531849--31531908 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
31531839 TAATAATGGT
* *
31531849 AATAGTAATAAC-AATAGTAATAATACTA
1 AATAATAATAACAAAT-GTAATAATAATA
* *
31531877 AATAATCATAATAAATGTAATAATAATA
1 AATAATAATAACAAATGTAATAATAATA
31531905 AATA
1 AATA
31531909 TAAAACCCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 24 0.89
29 3 0.11
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (28 bp):
AATAATAATAACAAATGTAATAATAATA
Found at i:31531889 original size:37 final size:35
Alignment explanation
Indices: 31531805--31531890 Score: 86
Period size: 34 Copynumber: 2.4 Consensus size: 35
31531795 AAAAAGATAA
*
31531805 AAATAATAATAGTAATAATAACAATGTCAATAAAT
1 AAATAATAATAATAATAATAACAATGTCAATAAAT
** *
31531840 -AATAATGGTAATAGTAATAACAATAGT-AATAATACT
1 AAATAATAATAATAATAATAACAAT-GTCAATAA-A-T
*
31531876 AAATAATCATAATAA
1 AAATAATAATAATAA
31531891 ATGTAATAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
34 25 0.62
35 3 0.08
36 1 0.03
37 11 0.28
ACGTcount: A:0.58, C:0.06, G:0.07, T:0.29
Consensus pattern (35 bp):
AAATAATAATAATAATAATAACAATGTCAATAAAT
Found at i:31536868 original size:19 final size:20
Alignment explanation
Indices: 31536835--31536882 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
31536825 ATCTTTACAC
* *
31536835 ATTTATTTAATTTGACTTAA
1 ATTTATTTTATTTGAATTAA
31536855 ATTT-TTTTATTTGAATTAA
1 ATTTATTTTATTTGAATTAA
31536874 ATTTATTTT
1 ATTTATTTT
31536883 TAATCTTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.62
Consensus pattern (20 bp):
ATTTATTTTATTTGAATTAA
Found at i:31548664 original size:298 final size:298
Alignment explanation
Indices: 31548120--31548718 Score: 1054
Period size: 298 Copynumber: 2.0 Consensus size: 298
31548110 CTCATTTTTG
* *
31548120 TAACGCTCAATTTGACAAGATCCTTAAGAAATATGTAATTCACCACAGAACAGCTACCCCTTACC
1 TAACGCCCAATTTGACAAGATCCTTAAGAAATATGGAATTCACCACAGAACAGCTACCCCTTACC
* * *
31548185 ATCCTCAAACTAGTGGCCAAGTTGAAGTGGCAAACAAAGAGCTTAAACGTATCCTAGAAAAGATA
66 ATCCTCAAACTAGTGGCCAAGTCGAAGTGGCAAACAAAGAGCTTAAACGTATCCTAAAAAAGACA
* *
31548250 GTAAAATCGAACAGAAGGATTGGGGGATGAAAGTAGATGATGCTTTATGGACTTATAGAACTACT
131 GTAAAATCGAACAGAAAGATTGGGCGATGAAAGTAGATGATGCTTTATGGACTTATAGAACTACT
* *
31548315 TTTAAGACCCCCATAGGAAGATCACCTTACAAACTTGTTTATGGAAAAAGTTGTCATCTACCATT
196 TTTAAGACCCCCATAGGAACATCACCTTACAAAATTGTTTATGGAAAAAGTTGTCATCTACCATT
*
31548380 TGAGTTAGAACACAAGGCATTCTGGGCTATAAAATTTC
261 TGAGTTAGAACACAAGGCATTCTAGGCTATAAAATTTC
31548418 TAACGCCCAATTTGACAAGATCCTTAAGAAATATGGAATTCACCACAGAACAGCTACCCCTTACC
1 TAACGCCCAATTTGACAAGATCCTTAAGAAATATGGAATTCACCACAGAACAGCTACCCCTTACC
*
31548483 ATCCTCAAACTAGTGGCCAAGTCGAAGTGGCAGACAAAGAGCTTAAACGTATCCTAAAAAAGACA
66 ATCCTCAAACTAGTGGCCAAGTCGAAGTGGCAAACAAAGAGCTTAAACGTATCCTAAAAAAGACA
* *
31548548 GTAGAATCGAACAGAAAGATTGGGCGATGAAAGTAGATGATGCTTTATGGACTTATAGAACTGCT
131 GTAAAATCGAACAGAAAGATTGGGCGATGAAAGTAGATGATGCTTTATGGACTTATAGAACTACT
* *
31548613 TTTAAGACCCTCATAGGAACATCACCTTACAAAATTGTTTATGGGAAAAGTTGTCATCTACCATT
196 TTTAAGACCCCCATAGGAACATCACCTTACAAAATTGTTTATGGAAAAAGTTGTCATCTACCATT
*
31548678 TGAGTTAGAACACAAGGCATTCTAGGCTATAAATTTTC
261 TGAGTTAGAACACAAGGCATTCTAGGCTATAAAATTTC
31548716 TAA
1 TAA
31548719 ACATTGATCC
Statistics
Matches: 285, Mismatches: 16, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
298 285 1.00
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (298 bp):
TAACGCCCAATTTGACAAGATCCTTAAGAAATATGGAATTCACCACAGAACAGCTACCCCTTACC
ATCCTCAAACTAGTGGCCAAGTCGAAGTGGCAAACAAAGAGCTTAAACGTATCCTAAAAAAGACA
GTAAAATCGAACAGAAAGATTGGGCGATGAAAGTAGATGATGCTTTATGGACTTATAGAACTACT
TTTAAGACCCCCATAGGAACATCACCTTACAAAATTGTTTATGGAAAAAGTTGTCATCTACCATT
TGAGTTAGAACACAAGGCATTCTAGGCTATAAAATTTC
Found at i:31549740 original size:22 final size:20
Alignment explanation
Indices: 31549704--31549744 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
31549694 TTTTTATTTT
*
31549704 TATTTATTTTTTTAAGACTCG
1 TATTTATATTTTTAA-ACTCG
31549725 TATTTAATATTTTTAAACTC
1 TATTT-ATATTTTTAAACTC
31549745 TATCTATCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.29, C:0.10, G:0.05, T:0.56
Consensus pattern (20 bp):
TATTTATATTTTTAAACTCG
Found at i:31558260 original size:20 final size:21
Alignment explanation
Indices: 31558235--31558274 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
31558225 CACTTGGAAC
*
31558235 AGGGC-ACACGCCCATGTGGA
1 AGGGCAACACACCCATGTGGA
*
31558255 AGGGCAACACACCCTTGTGG
1 AGGGCAACACACCCATGTGG
31558275 CCCTGTTGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.25, C:0.30, G:0.33, T:0.12
Consensus pattern (21 bp):
AGGGCAACACACCCATGTGGA
Found at i:31559612 original size:49 final size:49
Alignment explanation
Indices: 31559555--31559684 Score: 190
Period size: 49 Copynumber: 2.7 Consensus size: 49
31559545 GTACATTAAA
* *
31559555 GTCGATGCCGTGTCCCAGACAGGTCTTACACTAACTTTCATATATCGAG-
1 GTCGATGCCATGTCCCAAACAGGTCTTACACTAACTTTCATATATCG-GT
* * *
31559604 GTCGATGCCATGTCCCACACAGGTCTTACACTAGCTTTCATCTATCGGT
1 GTCGATGCCATGTCCCAAACAGGTCTTACACTAACTTTCATATATCGGT
*
31559653 GTCGATGCCATGTCCTAAACAGGTCTTACACT
1 GTCGATGCCATGTCCCAAACAGGTCTTACACT
31559685 GACACTCAAC
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
48 1 0.01
49 73 0.99
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.29
Consensus pattern (49 bp):
GTCGATGCCATGTCCCAAACAGGTCTTACACTAACTTTCATATATCGGT
Found at i:31563980 original size:26 final size:26
Alignment explanation
Indices: 31563942--31564129 Score: 358
Period size: 26 Copynumber: 7.2 Consensus size: 26
31563932 CATGAAATTC
*
31563942 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
31563968 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
31563994 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
31564020 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
31564046 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
31564072 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
31564098 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
31564124 TTATCA
1 TTATCA
31564130 ATTTGTATCA
Statistics
Matches: 159, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 159 1.00
ACGTcount: A:0.36, C:0.27, G:0.06, T:0.31
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:31570036 original size:21 final size:20
Alignment explanation
Indices: 31570002--31570044 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
31569992 ATTGTCGAGG
31570002 AAGGAACAAGATGACTCAAGC
1 AAGGAACAAGATGA-TCAAGC
*
31570023 AAGG-ACAAGAATGATGAAGC
1 AAGGAACAAG-ATGATCAAGC
31570043 AA
1 AA
31570045 AAGCTGGGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.51, C:0.14, G:0.26, T:0.09
Consensus pattern (20 bp):
AAGGAACAAGATGATCAAGC
Found at i:31588079 original size:14 final size:14
Alignment explanation
Indices: 31588055--31588091 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
31588045 GCCATTCATC
31588055 TAGCTCCTCGATTTG
1 TAGC-CCTCGATTTG
31588070 TAGCCCTCGATTTG
1 TAGCCCTCGATTTG
31588084 TAGCCCTC
1 TAGCCCTC
31588092 ATTCTTCACG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 18 0.82
15 4 0.18
ACGTcount: A:0.14, C:0.32, G:0.19, T:0.35
Consensus pattern (14 bp):
TAGCCCTCGATTTG
Found at i:31597074 original size:3 final size:3
Alignment explanation
Indices: 31597066--31597108 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
31597056 TTTAGCAATT
* *
31597066 TTA TTA TTA TTA TTA CTA TTA TTA TTG TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
31597109 AATTGTTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:31608773 original size:47 final size:49
Alignment explanation
Indices: 31608722--31608832 Score: 149
Period size: 47 Copynumber: 2.3 Consensus size: 49
31608712 GTTTTGTAGT
*
31608722 AAAATGTCAAGGGGAGTTTACTTGACGTGGTGATCA--TTTTGTGT-TGC
1 AAAATGTCAAGGGGAGATTACTTGACGTGGTGATCAGTTTTTGT-TCTGC
* *
31608769 AAAATGTCTAA-GGGAGATTACTTGACGTGGTGATGAGTTTTTGTTCTGT
1 AAAATGTC-AAGGGGAGATTACTTGACGTGGTGATCAGTTTTTGTTCTGC
31608818 AAAATGTCAAGGGGA
1 AAAATGTCAAGGGGA
31608833 TCAGAATTTA
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
47 31 0.55
48 5 0.09
49 20 0.36
ACGTcount: A:0.27, C:0.09, G:0.30, T:0.34
Consensus pattern (49 bp):
AAAATGTCAAGGGGAGATTACTTGACGTGGTGATCAGTTTTTGTTCTGC
Found at i:31615275 original size:18 final size:18
Alignment explanation
Indices: 31615252--31615340 Score: 115
Period size: 18 Copynumber: 4.9 Consensus size: 18
31615242 CCCAACTACT
*
31615252 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
31615270 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
* * *
31615288 ATATACATGAATAGTATC
1 GTATACGTGAATAGTACC
* *
31615306 GTATACGTGAATAGTGCT
1 GTATACGTGAATAGTACC
31615324 GTATACGTGAATAGTAC
1 GTATACGTGAATAGTAC
31615341 TGTAAACGGT
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 59 1.00
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:31615309 original size:36 final size:36
Alignment explanation
Indices: 31615253--31615340 Score: 131
Period size: 36 Copynumber: 2.4 Consensus size: 36
31615243 CCAACTACTG
*
31615253 TATACGTGAACAGTACCGTATACGTGAATAGTGCCA
1 TATACGTGAATAGTACCGTATACGTGAATAGTGCCA
* * **
31615289 TATACATGAATAGTATCGTATACGTGAATAGTGCTG
1 TATACGTGAATAGTACCGTATACGTGAATAGTGCCA
31615325 TATACGTGAATAGTAC
1 TATACGTGAATAGTAC
31615341 TGTAAACGGT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 45 1.00
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.30
Consensus pattern (36 bp):
TATACGTGAATAGTACCGTATACGTGAATAGTGCCA
Found at i:31625624 original size:16 final size:16
Alignment explanation
Indices: 31625603--31625648 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
31625593 AATTGAGTTG
31625603 AGAAAATTATTTAATT
1 AGAAAATTATTTAATT
*
31625619 AGAAAATTAATTAATT
1 AGAAAATTATTTAATT
31625635 --AAAATTAATTTAAT
1 AGAAAATT-ATTTAAT
31625649 AAATAACATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
14 6 0.22
15 6 0.22
16 15 0.56
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (16 bp):
AGAAAATTATTTAATT
Found at i:31638959 original size:31 final size:31
Alignment explanation
Indices: 31638924--31639000 Score: 109
Period size: 31 Copynumber: 2.5 Consensus size: 31
31638914 CAACTTTAAA
* * * * *
31638924 AAAAGTAACAACTCAGTCACTAGCGTTATTG
1 AAAAGTGACAAATCAGTAACTAACGTTATCG
31638955 AAAAGTGACAAATCAGTAACTAACGTTATCG
1 AAAAGTGACAAATCAGTAACTAACGTTATCG
31638986 AAAAGTGACAAATCA
1 AAAAGTGACAAATCA
31639001 ATCATCCATT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.45, C:0.17, G:0.16, T:0.22
Consensus pattern (31 bp):
AAAAGTGACAAATCAGTAACTAACGTTATCG
Found at i:31639163 original size:28 final size:29
Alignment explanation
Indices: 31639139--31639196 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
31639129 TCCTTTTTTG
31639139 TTTTT-CATAAATGGCCCAATATTTTTAAT
1 TTTTTGCATAAATGGCCCAATATTTTT-AT
* * *
31639168 TTTTTGCGTAAATGGCTCAATATGTTTAT
1 TTTTTGCATAAATGGCCCAATATTTTTAT
31639197 ACTTCTTCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.48
Consensus pattern (29 bp):
TTTTTGCATAAATGGCCCAATATTTTTAT
Found at i:31645513 original size:18 final size:18
Alignment explanation
Indices: 31645490--31645582 Score: 150
Period size: 18 Copynumber: 5.2 Consensus size: 18
31645480 CCCAACTACT
*
31645490 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
31645508 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
31645526 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
*
31645544 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
31645562 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
31645580 GTA
1 GTA
31645583 AACGGTCGTA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:31645542 original size:36 final size:36
Alignment explanation
Indices: 31645490--31645582 Score: 168
Period size: 36 Copynumber: 2.6 Consensus size: 36
31645480 CCCAACTACT
*
31645490 GTATACGTGAACAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
*
31645526 GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
31645562 GTATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
31645583 AACGGTCGTA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 54 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
Found at i:31648083 original size:3 final size:3
Alignment explanation
Indices: 31648070--31648108 Score: 69
Period size: 3 Copynumber: 12.7 Consensus size: 3
31648060 GGATCCTCCA
31648070 AAT ATAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
31648109 AAGGTTGAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:31651058 original size:30 final size:32
Alignment explanation
Indices: 31651024--31651083 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
31651014 AAATTATTAT
31651024 TTTAATATAAT-A-AT-TAATAATATTTAAAAA
1 TTTAATATAATGATATGTAA-AATATTTAAAAA
31651054 TTTAATATAATGATATGTAAAATATTTAAA
1 TTTAATATAATGATATGTAAAATATTTAAA
31651084 TAATAATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
30 11 0.41
31 1 0.04
32 12 0.44
33 3 0.11
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (32 bp):
TTTAATATAATGATATGTAAAATATTTAAAAA
Found at i:31651064 original size:23 final size:24
Alignment explanation
Indices: 31651034--31651091 Score: 77
Period size: 23 Copynumber: 2.5 Consensus size: 24
31651024 TTTAATATAA
*
31651034 TAAT-TAATAATATTTAAAA-ATT
1 TAATATAATAATATGTAAAATATT
*
31651056 TAATATAATGATATGTAAAATATT
1 TAATATAATAATATGTAAAATATT
31651080 TAA-ATAATAATA
1 TAATATAATAATA
31651092 AATGTTAGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 4 0.13
23 21 0.68
24 6 0.19
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.41
Consensus pattern (24 bp):
TAATATAATAATATGTAAAATATT
Found at i:31654351 original size:10 final size:10
Alignment explanation
Indices: 31654338--31654389 Score: 54
Period size: 10 Copynumber: 5.2 Consensus size: 10
31654328 ATAAAAAAGA
31654338 AATTTAAAAT
1 AATTTAAAAT
*
31654348 AATTTTTAAA-
1 AA-TTTAAAAT
31654358 AATTTAAAAT
1 AATTTAAAAT
*
31654368 AATTCTTAAA-
1 AATT-TAAAAT
31654378 AATTTAAAAT
1 AATTTAAAAT
31654388 AA
1 AA
31654390 ATTTTTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
9 10 0.29
10 14 0.41
11 10 0.29
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (10 bp):
AATTTAAAAT
Found at i:31654362 original size:20 final size:20
Alignment explanation
Indices: 31654337--31654418 Score: 114
Period size: 20 Copynumber: 4.2 Consensus size: 20
31654327 TATAAAAAAG
31654337 AAATTTAAAATAATTTTTAA
1 AAATTTAAAATAATTTTTAA
*
31654357 AAATTTAAAATAATTCTTAA
1 AAATTTAAAATAATTTTTAA
31654377 AAATTTAAAATAAATTTTT-A
1 AAATTTAAAAT-AATTTTTAA
* *
31654397 AAATTCAAAAT-ATTTATAA
1 AAATTTAAAATAATTTTTAA
31654416 AAA
1 AAA
31654419 CTCCAAAATT
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
18 5 0.09
19 4 0.07
20 41 0.73
21 6 0.11
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (20 bp):
AAATTTAAAATAATTTTTAA
Found at i:31654427 original size:40 final size:40
Alignment explanation
Indices: 31654343--31654427 Score: 95
Period size: 40 Copynumber: 2.1 Consensus size: 40
31654333 AAAGAAATTT
* **
31654343 AAAATAATTTTTAAAAATTTAAAATAATTCTTAAAAATTT
1 AAAATAATTTTTAAAAATTCAAAATAATTCTTAAAAATCC
31654383 AAAATAAATTTTT-AAAATTCAAAAT-ATT-TATAAAAACTCC
1 AAAAT-AATTTTTAAAAATTCAAAATAATTCT-TAAAAA-TCC
31654423 AAAAT
1 AAAAT
31654428 TCATATTTCT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
38 1 0.03
39 9 0.23
40 22 0.56
41 7 0.18
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (40 bp):
AAAATAATTTTTAAAAATTCAAAATAATTCTTAAAAATCC
Found at i:31654452 original size:10 final size:10
Alignment explanation
Indices: 31654437--31654497 Score: 54
Period size: 10 Copynumber: 6.0 Consensus size: 10
31654427 TTCATATTTC
31654437 TTAAAAAATT
1 TTAAAAAATT
31654447 TT-AAAAATT
1 TTAAAAAATT
31654456 TTAAAAAAATT
1 TT-AAAAAATT
*
31654467 CTAAAAAATAT
1 TTAAAAAAT-T
* *
31654478 ATAAAGAAA-G
1 TTAAA-AAATT
31654488 TTAAAAAATT
1 TTAAAAAATT
31654498 AAAATTTTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
9 12 0.29
10 13 0.32
11 13 0.32
12 3 0.07
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (10 bp):
TTAAAAAATT
Found at i:31655287 original size:12 final size:12
Alignment explanation
Indices: 31655270--31655303 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
31655260 CGATCTGACC
31655270 ATATTAATTTTT
1 ATATTAATTTTT
*
31655282 ATATTATTTTTT
1 ATATTAATTTTT
31655294 ATA-TAATTTT
1 ATATTAATTTT
31655304 AAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:31655448 original size:30 final size:30
Alignment explanation
Indices: 31655412--31655474 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
31655402 ACTTAATAAG
31655412 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
* *
31655442 CAAATGTCTTTAAAATAATAATAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
31655472 CAA
1 CAA
31655475 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:0.11, G:0.03, T:0.29
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Done.