Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 343 of 345
Found at i:114095694 original size:31 final size:31
Alignment explanation
Indices: 114095633--114095694 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
114095623 TTTAATTTTT
* * *
114095633 TAGTTAAATTTGACCTTCAACATTTTAAAAA
1 TAGTCAAATTTGACCATCAACATTTAAAAAA
114095664 TAGTCAAATTTGACCATCAATC-TTTAAAAAA
1 TAGTCAAATTTGACCATCAA-CATTTAAAAAA
114095695 GAATTGAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 26 0.96
32 1 0.04
ACGTcount: A:0.44, C:0.15, G:0.06, T:0.35
Consensus pattern (31 bp):
TAGTCAAATTTGACCATCAACATTTAAAAAA
Found at i:114098296 original size:30 final size:29
Alignment explanation
Indices: 114098243--114098304 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 29
114098233 TTGTTTTTTA
*
114098243 TTATATATTTTATAATCAAATTAAATCGC
1 TTATATATTTTATAATCAAATTAAATCAC
*
114098272 TTATATTTTATTATTAAT-AAATTAAATCAC
1 TTATATATT-TTA-TAATCAAATTAAATCAC
114098302 TTA
1 TTA
114098305 CTGTTTTCGC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 8 0.28
30 17 0.59
31 4 0.14
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.48
Consensus pattern (29 bp):
TTATATATTTTATAATCAAATTAAATCAC
Found at i:114100188 original size:15 final size:14
Alignment explanation
Indices: 114100170--114100199 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
114100160 TATATTTATA
114100170 ATAATATATAATATT
1 ATAATATA-AATATT
114100185 ATAATATAAATATT
1 ATAATATAAATATT
114100199 A
1 A
114100200 AAAAGTGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
ATAATATAAATATT
Found at i:114101222 original size:22 final size:21
Alignment explanation
Indices: 114101172--114101222 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
114101162 CTGTTACTCT
*
114101172 CTACCCTCTTTAACCCTAAAAC
1 CTACCC-CTTTAACCCCAAAAC
* *
114101194 CTTCCCCTTTAAACCCCAAACC
1 CTACCCCTTT-AACCCCAAAAC
114101216 CTACCCC
1 CTACCCC
114101223 AATATCCCCT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.27, C:0.49, G:0.00, T:0.24
Consensus pattern (21 bp):
CTACCCCTTTAACCCCAAAAC
Found at i:114107470 original size:271 final size:271
Alignment explanation
Indices: 114106985--114107484 Score: 772
Period size: 271 Copynumber: 1.8 Consensus size: 271
114106975 TTTCCGAAGA
*
114106985 GTTAGACTCAGATCCAAGCTTTTTTTAATTTTGAAGGATTAAAAATTTTAAATTGGAATTAAATT
1 GTTAGACTCAGATCCAAGC-TTTTTTAATTTTGAAGGATT-AAAATTTTAAATTGAAATTAAATT
* *
114107050 GGATTTAGAATTTTAGGGTTTAACTTGAACTAGAGTGCTAGAAAAGTATTTTAAATCGAAACTAT
64 GGATTTAGAATTTTAGGATTTAACTTGAACTAGAGTGCTAGAAAAGCATTTTAAATCGAAACTAT
* * * *
114107115 ATTTGAAGGTTTTTTTTTTTCTATTTGAAGATTTGGATTACCTTGGTTAGTTGAATCTTTATTTT
129 ATTTGAAGGTTTTTTTTATCCTATTTGAAGATTTGAATTACCTTGGTTAGTTGAATCTTTATTTA
*
114107180 TATGAAAAATTCTTTGATTTTCTTGTTTGTAGGATTTGAATTTATTTTCCTTCAAATGTATTTTA
194 TATGAAAAATTCATTGATTTTCTTGTTTGTAGGATTTGAATTTATTTTCCTTCAAATGTATTTTA
114107245 GTTTTTTCTAACT
259 GTTTTTTCTAACT
* *
114107258 GTTAGACTCAGATCCAAGC-TTTTTAGTTTTGAAGGATT-GAATTTTAAAATTGAAATTAAATTG
1 GTTAGACTCAGATCCAAGCTTTTTTAATTTTGAAGGATTAAAATTTT-AAATTGAAATTAAATTG
* *
114107321 GATTTAGAATTTTAGGATTTAACTTGAACTGGAGTGCTAGAAAAGCATTTTAAAATTGAAACTAT
65 GATTTAGAATTTTAGGATTTAACTTGAACTAGAGTGCTAGAAAAGCATTTT-AAATCGAAACTAT
* *
114107386 ATTTGAAGGATTTTTTTTATCCT-TTTTAAGATTTGAATTAGCTTGGTTAGTTGAATCTTTATTT
129 ATTTGAAGG-TTTTTTTTATCCTATTTGAAGATTTGAATTACCTTGGTTAGTTGAATCTTTATTT
* * **
114107450 ATGTGGAAGTTTCATTGATTTTCTTGTTTGTAGGA
193 ATATGAAAAATTCATTGATTTTCTTGTTTGTAGGA
114107485 GTTATGCCCT
Statistics
Matches: 206, Mismatches: 18, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
269 6 0.03
270 64 0.31
271 106 0.51
272 11 0.05
273 19 0.09
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.46
Consensus pattern (271 bp):
GTTAGACTCAGATCCAAGCTTTTTTAATTTTGAAGGATTAAAATTTTAAATTGAAATTAAATTGG
ATTTAGAATTTTAGGATTTAACTTGAACTAGAGTGCTAGAAAAGCATTTTAAATCGAAACTATAT
TTGAAGGTTTTTTTTATCCTATTTGAAGATTTGAATTACCTTGGTTAGTTGAATCTTTATTTATA
TGAAAAATTCATTGATTTTCTTGTTTGTAGGATTTGAATTTATTTTCCTTCAAATGTATTTTAGT
TTTTTCTAACT
Found at i:114117349 original size:22 final size:23
Alignment explanation
Indices: 114117312--114117355 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
114117302 TTTTATATAA
*
114117312 TGTCTAATTTAGCATTTATTTTC
1 TGTCTAATTTAACATTTATTTTC
*
114117335 TGTC-AATTTAACATTTTTTTT
1 TGTCTAATTTAACATTTATTTT
114117356 AATTTAGCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.23, C:0.11, G:0.07, T:0.59
Consensus pattern (23 bp):
TGTCTAATTTAACATTTATTTTC
Found at i:114128378 original size:14 final size:15
Alignment explanation
Indices: 114128359--114128388 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
114128349 TAAACTTAAA
114128359 TTTAATAA-AATAAT
1 TTTAATAATAATAAT
114128373 TTTAATAATAATAAT
1 TTTAATAATAATAAT
114128388 T
1 T
114128389 GAACCTGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TTTAATAATAATAAT
Found at i:114130845 original size:59 final size:59
Alignment explanation
Indices: 114130716--114130847 Score: 176
Period size: 59 Copynumber: 2.2 Consensus size: 59
114130706 AAAAATTTGA
* * *
114130716 ATAGTTTGATGACCATTTTGTAACTTTTCATAGTTGGGTGACCAAAAAGAAAAAAAACC
1 ATAGTTAGGTGACCATTTTGTAACTTTTCATAGTTAGGTGACCAAAAAGAAAAAAAACC
* * * * *
114130775 ACAGTTGGGTGACCATTTTGTAACTTTTCATCGTTAGTTGACCAAAAA-AGAAAAAAATC
1 ATAGTTAGGTGACCATTTTGTAACTTTTCATAGTTAGGTGACCAAAAAGA-AAAAAAACC
114130834 ATAGTTAGGTGACC
1 ATAGTTAGGTGACC
114130848 TTTACTAAAA
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
58 1 0.02
59 62 0.98
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.30
Consensus pattern (59 bp):
ATAGTTAGGTGACCATTTTGTAACTTTTCATAGTTAGGTGACCAAAAAGAAAAAAAACC
Found at i:114131384 original size:14 final size:13
Alignment explanation
Indices: 114131367--114131417 Score: 50
Period size: 15 Copynumber: 3.7 Consensus size: 13
114131357 ATTTTTATTA
114131367 AATAAAATAAAAT
1 AATAAAATAAAAT
*
114131380 AAATAATCATAAAAT
1 -AATAA-AATAAAAT
114131395 -ATAAATATAAAACT
1 AATAAA-ATAAAA-T
114131409 AATAAAATA
1 AATAAAATA
114131418 TAAAATTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
13 10 0.32
14 9 0.29
15 12 0.39
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (13 bp):
AATAAAATAAAAT
Found at i:114131413 original size:22 final size:21
Alignment explanation
Indices: 114131367--114131421 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 21
114131357 ATTTTTATTA
114131367 AATAAAATA-AAATAAATAAT
1 AATAAAATATAAATAAATAAT
*
114131387 CATAAAATATAAATATAA-AACT
1 AATAAAATATAAATA-AATAA-T
114131409 AATAAAATATAAA
1 AATAAAATATAAA
114131422 ATTTATTCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 8 0.27
21 7 0.23
22 15 0.50
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (21 bp):
AATAAAATATAAATAAATAAT
Found at i:114134306 original size:13 final size:13
Alignment explanation
Indices: 114134282--114134325 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
114134272 TTGAAAAACA
114134282 AAAATTTG-AGGG
1 AAAATTTGAAGGG
114134294 AAAATTTGAAGGG
1 AAAATTTGAAGGG
** *
114134307 AAAATGAGAAGCG
1 AAAATTTGAAGGG
114134320 AAAATT
1 AAAATT
114134326 GCACTGGTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
12 8 0.30
13 19 0.70
ACGTcount: A:0.50, C:0.02, G:0.27, T:0.20
Consensus pattern (13 bp):
AAAATTTGAAGGG
Found at i:114140648 original size:21 final size:21
Alignment explanation
Indices: 114140624--114140666 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
114140614 GTTAATATCG
114140624 TTAAATTTTCAATTAAAATGT
1 TTAAATTTTCAATTAAAATGT
114140645 TTAAATTTTCAATTAAAATGT
1 TTAAATTTTCAATTAAAATGT
114140666 T
1 T
114140667 GCATGATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.49
Consensus pattern (21 bp):
TTAAATTTTCAATTAAAATGT
Found at i:114143817 original size:75 final size:76
Alignment explanation
Indices: 114143733--114143884 Score: 297
Period size: 75 Copynumber: 2.0 Consensus size: 76
114143723 ATTCAGTCAA
114143733 TAACTTAAAATATAATGTATGTATATATATATACACATTATTAGTCACCTAACTATTATTT-TTT
1 TAACTTAAAATATAATGTATGTATATATATATACACATTATTAGTCACCTAACTATTATTTCTTT
114143797 TTCTTTTTCGG
66 TTCTTTTTCGG
114143808 TAACTTAAAATATAATGTATGTATATATATATACACATTATTAGTCACCTAACTATTATTTCTTT
1 TAACTTAAAATATAATGTATGTATATATATATACACATTATTAGTCACCTAACTATTATTTCTTT
114143873 TTCTTTTTCGG
66 TTCTTTTTCGG
114143884 T
1 T
114143885 CACCCAATTA
Statistics
Matches: 76, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
75 61 0.80
76 15 0.20
ACGTcount: A:0.33, C:0.12, G:0.07, T:0.48
Consensus pattern (76 bp):
TAACTTAAAATATAATGTATGTATATATATATACACATTATTAGTCACCTAACTATTATTTCTTT
TTCTTTTTCGG
Found at i:114145072 original size:2 final size:2
Alignment explanation
Indices: 114145065--114145112 Score: 51
Period size: 2 Copynumber: 24.0 Consensus size: 2
114145055 AGTAAACCCA
* * * * *
114145065 AT AT AT AT AC AT AT AT AT AT AC AT AT AC AT AT GT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
114145107 AT AT AT
1 AT AT AT
114145113 GAATAAGACC
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (2 bp):
AT
Found at i:114150770 original size:21 final size:21
Alignment explanation
Indices: 114150746--114150787 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
114150736 CCATTAATTA
114150746 TATT-TGATTTAATTTTAATGT
1 TATTATGATTT-ATTTTAATGT
* *
114150767 TATTATTATTTTTTTTAATGT
1 TATTATGATTTATTTTAATGT
114150788 ATAGCTGAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (21 bp):
TATTATGATTTATTTTAATGT
Found at i:114155200 original size:21 final size:20
Alignment explanation
Indices: 114155176--114155214 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
114155166 TGGTATTTCA
* *
114155176 ATTTTTTTAACATAATTTTTT
1 ATTTTCTTAAAAT-ATTTTTT
114155197 ATTTTCTTAAAATATTTT
1 ATTTTCTTAAAATATTTT
114155215 GTTCATCATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (20 bp):
ATTTTCTTAAAATATTTTTT
Found at i:114157095 original size:177 final size:178
Alignment explanation
Indices: 114156792--114157150 Score: 632
Period size: 177 Copynumber: 2.0 Consensus size: 178
114156782 CCTTTACTTT
*
114156792 TAAAAAGGTTGTAGATGTAGTCACTATACTTTAATTTGGTTATTTTTAATTGGTAAAAAGACCTT
1 TAAAAAGGTTGTAGATGTAGTCACTATACTTTAATTTGGTTATTTTTAATCGGTAAAAAGACCTT
** *
114156857 TCTTGCTCCTCTCAATTTCAAAATTGAGCAAATTGGTTCCTCTCAAAAAAATTGGAGCAATTTAA
66 TCTAACCCCTCTCAATTTCAAAATTGAGCAAATTGGTTCCTCTCAAAAAAATTGGAGCAATTTAA
114156922 TCCCTGTCAATGTTGAAAGTGAGCAATTAAGGACAATTAATCAC-GACA
131 TCCCTGTCAATGTTGAAAGTGAGCAATTAAGGACAATTAATCACAG-CA
*
114156970 TAAAAA-GTTGTAGGTGTAGTCACTATACTTTAATTTGGTTATTTTTAATCGGTAAAAAGACCTT
1 TAAAAAGGTTGTAGATGTAGTCACTATACTTTAATTTGGTTATTTTTAATCGGTAAAAAGACCTT
*
114157034 TCTAACCCCTCTCAATTTCAAAATTGAGCAAATTGGTTCCTCTCAAAAGAATTGGAGCAATTTAA
66 TCTAACCCCTCTCAATTTCAAAATTGAGCAAATTGGTTCCTCTCAAAAAAATTGGAGCAATTTAA
*
114157099 TCCCTGTCAATGTTGAAAGTGAGCAATTAAGGATAATTAATCACAGCA
131 TCCCTGTCAATGTTGAAAGTGAGCAATTAAGGACAATTAATCACAGCA
114157147 TAAA
1 TAAA
114157151 TGTCATTCTG
Statistics
Matches: 173, Mismatches: 7, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
177 166 0.96
178 7 0.04
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (178 bp):
TAAAAAGGTTGTAGATGTAGTCACTATACTTTAATTTGGTTATTTTTAATCGGTAAAAAGACCTT
TCTAACCCCTCTCAATTTCAAAATTGAGCAAATTGGTTCCTCTCAAAAAAATTGGAGCAATTTAA
TCCCTGTCAATGTTGAAAGTGAGCAATTAAGGACAATTAATCACAGCA
Found at i:114171295 original size:6 final size:6
Alignment explanation
Indices: 114171279--114171319 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
114171269 CGAAAGGGAA
* * *
114171279 GGACCC AGACCT GGACCC GGACCT GGACCC GGACCC GGACC
1 GGACCC GGACCC GGACCC GGACCC GGACCC GGACCC GGACC
114171320 TAGATGGGGA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.20, C:0.44, G:0.32, T:0.05
Consensus pattern (6 bp):
GGACCC
Found at i:114171296 original size:12 final size:12
Alignment explanation
Indices: 114171279--114171319 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
114171269 CGAAAGGGAA
*
114171279 GGACCCAGACCT
1 GGACCCGGACCT
114171291 GGACCCGGACCT
1 GGACCCGGACCT
*
114171303 GGACCCGGACCC
1 GGACCCGGACCT
114171315 GGACC
1 GGACC
114171320 TAGATGGGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.20, C:0.44, G:0.32, T:0.05
Consensus pattern (12 bp):
GGACCCGGACCT
Found at i:114171307 original size:18 final size:18
Alignment explanation
Indices: 114171286--114171320 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
114171276 GAAGGACCCA
*
114171286 GACCTGGACCCGGACCTG
1 GACCCGGACCCGGACCTG
114171304 GACCCGGACCCGGACCT
1 GACCCGGACCCGGACCT
114171321 AGATGGGGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.43, G:0.31, T:0.09
Consensus pattern (18 bp):
GACCCGGACCCGGACCTG
Found at i:114178267 original size:4 final size:4
Alignment explanation
Indices: 114178258--114178282 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
114178248 TTGATTCTTT
114178258 TACA TACA TACA TACA TACA TACA T
1 TACA TACA TACA TACA TACA TACA T
114178283 TTATTTGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (4 bp):
TACA
Found at i:114181622 original size:8 final size:8
Alignment explanation
Indices: 114181609--114181638 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
114181599 TCCCTATACT
114181609 TTTAAAAA
1 TTTAAAAA
114181617 TTTAAAAA
1 TTTAAAAA
114181625 TTT-AAAA
1 TTTAAAAA
114181632 TTTAAAA
1 TTTAAAA
114181639 TAAAAGGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TTTAAAAA
Found at i:114184287 original size:117 final size:117
Alignment explanation
Indices: 114183936--114184535 Score: 575
Period size: 117 Copynumber: 5.0 Consensus size: 117
114183926 CGATGTTTCA
* * ** * ** *
114183936 AGTGAATAATTGCAGTTGATTGGTTTGTGATAGCCAGAAAACTGAGTTTAGGGTGTTTTGAGATT
1 AGTGAATTATTGCAGTTGGTTGGTACGTGATTGCTGGAAAACTGAGTTTAGGGTG-TTTGAGATA
* ** *
114184001 TA-AGTATAGGAGTGAGGATTTTAGTCTTGAAACGTCTGTGAGTTCAATTTTCG
65 TACA-TATAGGAGTGAGGATTTTAGTCTTGAAACGTCGGTGAGTTCGGTTTACG
* *
114184054 AGTGAATTATTGCATTTGGTTGGTAACTTGGTATGTGATTGCTGGAAAACCGAGTTTAGGGTGTT
1 AGTGAATTATTGCA----GTTGG----TTGGTACGTGATTGCTGGAAAACTGAGTTTAGGGTGTT
* *
114184119 TGAGATATACATATAGGAGTG-GAGATTTCAGTCTTG-AACTGTTGGTGAGTTCGGTTTACG
58 TGAGATATACATATAGGAGTGAG-GATTTTAGTCTTGAAAC-GTCGGTGAGTTCGGTTTACG
* * * * *
114184179 TGT-AATTTACTGCATTTGGTTGGTACGTGGTTGCTGGAAAACTGAGTTTAGGGCGTTTGAGATA
1 AGTGAA-TTATTGCAGTTGGTTGGTACGTGATTGCTGGAAAACTGAGTTTAGGGTGTTTGAGATA
* * * * * *
114184243 TACATATAGTAGTGAGGATTTTAGTCTTGAAACATCGTTGAGTTCAGTTTTCA
65 TACATATAGGAGTGAGGATTTTAGTCTTGAAACGTCGGTGAGTTCGGTTTACG
* *
114184296 AGTGAATTATTGCAGTTGGTTGGTACGTGATTGCTGGAAAACCGAGTTTAGGGTATTTGAGAT-T
1 AGTGAATTATTGCAGTTGGTTGGTACGTGATTGCTGGAAAACTGAGTTTAGGGTGTTTGAGATAT
* * * ** *
114184360 AATATATAGGAGTTAAGATTTTAGTCTCAAAACGTCGGTGAGTTTGGTTTACG
66 -ACATATAGGAGTGAGGATTTTAGTCTTGAAACGTCGGTGAGTTCGGTTTACG
* * * * *
114184413 AGTGAGTTTTTTGCAGTTGGTTGGTATGTGATTGCTGGAAAACTGAGTTTATGGTGTTTGAGATT
1 AGTGA-ATTATTGCAGTTGGTTGGTACGTGATTGCTGGAAAACTGAGTTTAGGGTGTTTGAGATA
** * ** * *
114184478 TATGTATGGGAGTGAACATTTTAGTCTTG-AACAGTTGGTGAGCTT-GGCTTACG
65 TACATATAGGAGTGAGGATTTTAGTCTTGAAAC-GTCGGTGAG-TTCGGTTTACG
114184531 AGTGA
1 AGTGA
114184536 GGTTTTTTCA
Statistics
Matches: 400, Mismatches: 62, Indels: 40
0.80 0.12 0.08
Matches are distributed among these distances:
116 1 0.00
117 181 0.45
118 113 0.28
119 3 0.01
121 4 0.01
122 4 0.01
124 6 0.01
125 56 0.14
126 32 0.08
ACGTcount: A:0.25, C:0.09, G:0.29, T:0.38
Consensus pattern (117 bp):
AGTGAATTATTGCAGTTGGTTGGTACGTGATTGCTGGAAAACTGAGTTTAGGGTGTTTGAGATAT
ACATATAGGAGTGAGGATTTTAGTCTTGAAACGTCGGTGAGTTCGGTTTACG
Found at i:114184473 original size:118 final size:116
Alignment explanation
Indices: 114183944--114184606 Score: 538
Period size: 117 Copynumber: 5.6 Consensus size: 116
114183934 CAAGTGAATA
* * * ** *
114183944 ATTGCAGTTGATTGGTTTGTGATAGCCAGAAAACTGAGTTTAGGGTGTTTTGAGATTTAA-GTAT
1 ATTGCAGTTGGTTGGTATGTGATTGCTGGAAAACTGAGTTTAGGGTG-TTTGAGA-TTAACATAT
* * ** * *
114184008 AGGAGTGAGGATTTTAGTCTTGAAACGTCTGTGAGTTCAATTTTCGAGTGAATT
64 AGGAGTGAAGATTTTAGTC-TGAAACGTCGGTGAGTTCGGTTTACGAGTGATTT
*
114184062 ATTGCATTTGGTTGGTAACTTGGTATGTGATTGCTGGAAAACCGAGTTTAGGGTGTTTGAGA-TA
1 ATTGCA----GTTGG----TTGGTATGTGATTGCTGGAAAACTGAGTTTAGGGTGTTTGAGATTA
* * * * *
114184126 TACATATAGGAGTGGAGATTTCAGTCTTG-AACTGTTGGTGAGTTCGGTTTACGTGTAATTT
58 -ACATATAGGAGTGAAGATTTTAGTC-TGAAAC-GTCGGTGAGTTCGGTTTACGAGTGATTT
* * * * *
114184187 ACTGCATTTGGTTGGTACGTGGTTGCTGGAAAACTGAGTTTAGGGCGTTTGAGA-TATACATATA
1 ATTGCAGTTGGTTGGTATGTGATTGCTGGAAAACTGAGTTTAGGGTGTTTGAGATTA-ACATATA
* * * * * * * *
114184251 GTAGTGAGGATTTTAGTCTTGAAACATCGTTGAGTTCAGTTTTCAAGTGAATT
65 GGAGTGAAGATTTTAGTC-TGAAACGTCGGTGAGTTCGGTTTACGAGTGATTT
* * * *
114184304 ATTGCAGTTGGTTGGTACGTGATTGCTGGAAAACCGAGTTTAGGGTATTTGAGATTAATATATAG
1 ATTGCAGTTGGTTGGTATGTGATTGCTGGAAAACTGAGTTTAGGGTGTTTGAGATTAACATATAG
* * *
114184369 GAGTTAAGATTTTAGTCTCAAAACGTCGGTGAGTTTGGTTTACGAGTGAGTTT
66 GAGTGAAGATTTTAGTCT-GAAACGTCGGTGAGTTCGGTTTACGAGTGA-TTT
* * * ** *
114184422 TTTGCAGTTGGTTGGTATGTGATTGCTGGAAAACTGAGTTTATGGTGTTTGAGATTTATGTATGG
1 ATTGCAGTTGGTTGGTATGTGATTGCTGGAAAACTGAGTTTAGGGTGTTTGAGATTAACATATAG
* * *
114184487 GAGTGAACATTTTAGTCTTG-AACAGTTGGTGAGCTT-GGCTTACGAGTGAGGTTT
66 GAGTGAAGATTTTAGTC-TGAAAC-GTCGGTGAG-TTCGGTTTACGAGTGA--TTT
* ** * * *
114184541 -TTTCAGTTGGTTTTTATGTGATTG-TCGG-GAACTG-GCTTTTGGGGTGTTTGAGATT-ACGTA
1 ATTGCAGTTGGTTGGTATGTGATTGCT-GGAAAACTGAG--TTTAGGGTGTTTGAGATTAACATA
114184601 TAGGAG
63 TAGGAG
114184607 AATTTTTCGG
Statistics
Matches: 447, Mismatches: 76, Indels: 45
0.79 0.13 0.08
Matches are distributed among these distances:
116 2 0.00
117 195 0.44
118 144 0.32
119 7 0.02
121 4 0.01
122 4 0.01
123 2 0.00
124 4 0.01
125 54 0.12
126 31 0.07
ACGTcount: A:0.24, C:0.08, G:0.30, T:0.38
Consensus pattern (116 bp):
ATTGCAGTTGGTTGGTATGTGATTGCTGGAAAACTGAGTTTAGGGTGTTTGAGATTAACATATAG
GAGTGAAGATTTTAGTCTGAAACGTCGGTGAGTTCGGTTTACGAGTGATTT
Found at i:114200181 original size:19 final size:19
Alignment explanation
Indices: 114200141--114200187 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
114200131 ATTTTTAAAA
114200141 ATTAATAATCATTAAAATT
1 ATTAATAATCATTAAAATT
114200160 ATTAA-AAT-ATTATAAATAT
1 ATTAATAATCATTA-AAAT-T
*
114200179 ATTATTAAT
1 ATTAATAAT
114200188 ATTTTTTAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
17 4 0.17
18 7 0.29
19 10 0.42
20 3 0.12
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTAATAATCATTAAAATT
Found at i:114209509 original size:21 final size:21
Alignment explanation
Indices: 114209485--114209526 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
114209475 TATTTTACAT
*
114209485 TATAAATTGAT-TAAAATTAAA
1 TATAAATT-ATATAAAAATAAA
*
114209506 TATATATTATATAAAAATAAA
1 TATAAATTATATAAAAATAAA
114209527 ATTCATTCTG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (21 bp):
TATAAATTATATAAAAATAAA
Found at i:114211057 original size:19 final size:19
Alignment explanation
Indices: 114211033--114211070 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
114211023 CGACCACAAA
114211033 CGATTTGTTTTAAAGTTTT
1 CGATTTGTTTTAAAGTTTT
114211052 CGATTTGTTTTAAAGTTTT
1 CGATTTGTTTTAAAGTTTT
114211071 ATGATATACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.05, G:0.16, T:0.58
Consensus pattern (19 bp):
CGATTTGTTTTAAAGTTTT
Found at i:114211241 original size:20 final size:21
Alignment explanation
Indices: 114211190--114211241 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
114211180 ATTTAAAATT
114211190 TTAATAAAAGAAATATATATAA
1 TTAATAAAAG-AATATATATAA
*
114211212 TGGTAGTAAAAG-ATATATATAA
1 T--TAATAAAAGAATATATATAA
114211234 TTAATAAA
1 TTAATAAA
114211242 TATTAAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 6 0.23
22 12 0.46
24 8 0.31
ACGTcount: A:0.58, C:0.00, G:0.10, T:0.33
Consensus pattern (21 bp):
TTAATAAAAGAATATATATAA
Found at i:114212881 original size:22 final size:20
Alignment explanation
Indices: 114212856--114212904 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
114212846 GTAAAAAAAT
114212856 TTATTTTTGAAAGTAATTTATA
1 TTATTTTTGAAAG-AATTT-TA
* *
114212878 TTA-TTATGAAAGAATTTTT
1 TTATTTTTGAAAGAATTTTA
114212897 TTATTTTT
1 TTATTTTT
114212905 ATATTAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 4 0.17
20 8 0.35
21 8 0.35
22 3 0.13
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (20 bp):
TTATTTTTGAAAGAATTTTA
Found at i:114217497 original size:18 final size:20
Alignment explanation
Indices: 114217466--114217504 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
114217456 CAATATTATA
114217466 AATTATAATATATGTATAAT
1 AATTATAATATATGTATAAT
*
114217486 AATTA-AAT-TATGTTTAAT
1 AATTATAATATATGTATAAT
114217504 A
1 A
114217505 TAATTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 10 0.56
19 3 0.17
20 5 0.28
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (20 bp):
AATTATAATATATGTATAAT
Found at i:114227211 original size:31 final size:31
Alignment explanation
Indices: 114227176--114227282 Score: 84
Period size: 31 Copynumber: 3.6 Consensus size: 31
114227166 TTAATATAAT
*
114227176 ATTTGGTATCTGAACTTTACACTTTTTACCA
1 ATTTGGTATCTAAACTTTACACTTTTTACCA
*
114227207 ATTTGGTA-C-AAAC--T--ATTTTTTAGCCCA
1 ATTTGGTATCTAAACTTTACACTTTTTA--CCA
* * * *
114227234 ATTTGGTACCTGAACTTGACACTTTTTTA-TA
1 ATTTGGTATCTAAACTTTACAC-TTTTTACCA
114227265 ATTTGGTATCTAAACTTT
1 ATTTGGTATCTAAACTTT
114227283 TTTGGGGCCC
Statistics
Matches: 58, Mismatches: 9, Indels: 18
0.68 0.11 0.21
Matches are distributed among these distances:
25 7 0.12
27 12 0.21
28 1 0.02
29 6 0.10
30 1 0.02
31 24 0.41
33 1 0.02
34 6 0.10
ACGTcount: A:0.27, C:0.17, G:0.11, T:0.45
Consensus pattern (31 bp):
ATTTGGTATCTAAACTTTACACTTTTTACCA
Found at i:114227247 original size:58 final size:60
Alignment explanation
Indices: 114227176--114227311 Score: 172
Period size: 58 Copynumber: 2.3 Consensus size: 60
114227166 TTAATATAAT
* *
114227176 ATTTGGTATCTGAACTTTACAC-TTTTTACCAATTTGGTA-C-AAACTATTTTT-TAGCCCA
1 ATTTGGTACCTGAACTTTACACTTTTTTA-CAATTTGGTATCTAAACT-TTTTTGGAGCCCA
* * *
114227234 ATTTGGTACCTGAACTTGACACTTTTTTATAATTTGGTATCTAAACTTTTTTGGGGCCCA
1 ATTTGGTACCTGAACTTTACACTTTTTTACAATTTGGTATCTAAACTTTTTTGGAGCCCA
*
114227294 ATTTGGTACCTAAACTTT
1 ATTTGGTACCTGAACTTT
114227312 TTCATTTAGG
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
58 29 0.43
59 12 0.18
60 26 0.39
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.43
Consensus pattern (60 bp):
ATTTGGTACCTGAACTTTACACTTTTTTACAATTTGGTATCTAAACTTTTTTGGAGCCCA
Found at i:114230911 original size:169 final size:167
Alignment explanation
Indices: 114230572--114230915 Score: 417
Period size: 169 Copynumber: 2.0 Consensus size: 167
114230562 ACGAGTTTTG
* *
114230572 TTACTTGCATGCTTCATTATTTTTGTCATTGTGTAATCACAAGGAGATTTGGTGCTAAATTGCCG
1 TTACTTGCATGCTTCATCATTTTTGTCATTGTGTAATCACAAGGAGATTTGGTGCTAAATTGCCC
* *
114230637 AATGATAATTTAGGTTACTTGTGTGAGTTCTATAACCATATGGTTTTACGAGAATCCCGATGAAC
66 AATGATAATTTAGGTTACTTGTGTGAGTCCTATAACCATACGGTTTTACGAGAA-CCCGATGAAC
** **
114230702 TTCACAAATGGTTGGAAACATCATCTCATAGTCTTTCA
130 TTCACAAACAGTAAGAAACATCATCTCATAGTCTTTCA
* *
114230740 TTACTTGCATGCTTCATCATTTTTGTCATTTGTGTGATTACAAGGAGATTTGGTGCTAAATTGCC
1 TTACTTGCATGCTTCATCATTTTTGTCA-TTGTGTAATCACAAGGAGATTTGGTGCTAAATTGCC
* * * * *
114230805 CTATGATGTAGTTTAGTTTACTTGTGTGAGTCCTATAACGATACGGTTTTATGAGAA-CCGAAT-
65 CAATGA--TAATTTAGGTTACTTGTGTGAGTCCTATAACCATACGGTTTTACGAGAACCCG-ATG
* * ** *
114230868 AAGCTTCACCAGCAGTCAAG-AATGTCATCTCTTAGTC-TTCA
127 AA-CTTCACAAACAGT-AAGAAACATCATCTCATAGTCTTTCA
114230909 TTACTTG
1 TTACTTG
114230916 TTTGCTTGCC
Statistics
Matches: 150, Mismatches: 20, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
168 27 0.18
169 54 0.36
170 25 0.17
171 44 0.29
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (167 bp):
TTACTTGCATGCTTCATCATTTTTGTCATTGTGTAATCACAAGGAGATTTGGTGCTAAATTGCCC
AATGATAATTTAGGTTACTTGTGTGAGTCCTATAACCATACGGTTTTACGAGAACCCGATGAACT
TCACAAACAGTAAGAAACATCATCTCATAGTCTTTCA
Found at i:114232364 original size:13 final size:13
Alignment explanation
Indices: 114232346--114232375 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
114232336 TCCTTGTACT
114232346 TTTTGTAAATTTA
1 TTTTGTAAATTTA
114232359 TTTTGTAAATTTA
1 TTTTGTAAATTTA
114232372 TTTT
1 TTTT
114232376 TATACCGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (13 bp):
TTTTGTAAATTTA
Found at i:114250221 original size:19 final size:20
Alignment explanation
Indices: 114250179--114250221 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
114250169 GAAAAAAATT
* * *
114250179 GAATAAAAGAATAATGATGT
1 GAATAAAAGAAAAAAGATGA
114250199 GAATAAAA-AAAAAAGATGA
1 GAATAAAAGAAAAAAGATGA
114250218 GAAT
1 GAAT
114250222 TTATTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.63, C:0.00, G:0.19, T:0.19
Consensus pattern (20 bp):
GAATAAAAGAAAAAAGATGA
Found at i:114250372 original size:15 final size:14
Alignment explanation
Indices: 114250344--114250370 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
114250334 GGATTTTATT
114250344 TTACTTTTTTTTTG
1 TTACTTTTTTTTTG
114250358 TTACTTTTTTTTT
1 TTACTTTTTTTTT
114250371 TGAACGACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.07, G:0.04, T:0.81
Consensus pattern (14 bp):
TTACTTTTTTTTTG
Found at i:114257296 original size:39 final size:41
Alignment explanation
Indices: 114257253--114257333 Score: 112
Period size: 39 Copynumber: 2.0 Consensus size: 41
114257243 AAATAAAAAA
* * *
114257253 ATTAAATAAGCCTAAC-TTTATCTAAATAAA-TATTTTTTT
1 ATTAAAAAACCCTAACATTTATCTAAATAAACAATTTTTTT
*
114257292 ATTAAAAAACCCTAACATTTGTCTAAATAAACAATTTTTTT
1 ATTAAAAAACCCTAACATTTATCTAAATAAACAATTTTTTT
114257333 A
1 A
114257334 AAATATAATC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
39 14 0.39
40 13 0.36
41 9 0.25
ACGTcount: A:0.43, C:0.12, G:0.02, T:0.42
Consensus pattern (41 bp):
ATTAAAAAACCCTAACATTTATCTAAATAAACAATTTTTTT
Found at i:114257330 original size:40 final size:39
Alignment explanation
Indices: 114257253--114257331 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 39
114257243 AAATAAAAAA
* * * *
114257253 ATTAAATAAGCCTAACTTTATCTAAATAAATATTTTTTT
1 ATTAAAAAACCCTAACTTTATCTAAATAAACAATTTTTT
*
114257292 ATTAAAAAACCCTAACATTTGTCTAAATAAACAATTTTTT
1 ATTAAAAAACCCTAAC-TTTATCTAAATAAACAATTTTTT
114257332 TAAAATATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
39 14 0.41
40 20 0.59
ACGTcount: A:0.43, C:0.13, G:0.03, T:0.42
Consensus pattern (39 bp):
ATTAAAAAACCCTAACTTTATCTAAATAAACAATTTTTT
Found at i:114257833 original size:18 final size:19
Alignment explanation
Indices: 114257799--114257834 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
114257789 TATTGATTAA
*
114257799 TTTTTATTTATTTGAAATT
1 TTTTTATTTATTAGAAATT
114257818 TTTTTATTT-TTAGAAAT
1 TTTTTATTTATTAGAAAT
114257835 ATTTATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (19 bp):
TTTTTATTTATTAGAAATT
Found at i:114257861 original size:22 final size:23
Alignment explanation
Indices: 114257826--114257879 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 23
114257816 TTTTTTTATT
114257826 TTTAGAAATATTTAT-AAAAAATA
1 TTTA-AAATATTTATCAAAAAATA
*
114257849 CTTTAAAAT-TTTATCAAAGAATA
1 -TTTAAAATATTTATCAAAAAATA
*
114257872 TTCAAAAT
1 TTTAAAAT
114257880 CCATAAAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 12 0.44
23 11 0.41
24 4 0.15
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.39
Consensus pattern (23 bp):
TTTAAAATATTTATCAAAAAATA
Found at i:114260634 original size:19 final size:20
Alignment explanation
Indices: 114260612--114260696 Score: 52
Period size: 19 Copynumber: 4.5 Consensus size: 20
114260602 TGATAAAAAA
114260612 ATAAAAATCA-ATAAAAGTT
1 ATAAAAATCAGATAAAAGTT
* * **
114260631 ATAAAAATTA-TTAAATTTT
1 ATAAAAATCAGATAAAAGTT
**
114260650 AT-AAAAT-ATTTAAAAGTT
1 ATAAAAATCAGATAAAAGTT
* * * *
114260668 ATTAAAATTAGAAAAAAATT
1 ATAAAAATCAGATAAAAGTT
114260688 ATAAAAATC
1 ATAAAAATC
114260697 TTAAAAAATT
Statistics
Matches: 51, Mismatches: 12, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
17 1 0.02
18 14 0.27
19 22 0.43
20 14 0.27
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (20 bp):
ATAAAAATCAGATAAAAGTT
Found at i:114260693 original size:9 final size:9
Alignment explanation
Indices: 114260597--114260695 Score: 58
Period size: 9 Copynumber: 10.7 Consensus size: 9
114260587 ACATGTGTCA
*
114260597 AAAAATGAT
1 AAAAATTAT
*
114260606 AAAAA-AAT
1 AAAAATTAT
*
114260614 AAAAATCAAT
1 AAAAAT-TAT
*
114260624 AAAAGTTAT
1 AAAAATTAT
114260633 AAAAATTATT
1 AAAAATTA-T
**
114260643 AAATTTTAT
1 AAAAATTAT
114260652 AAAATATT-T
1 AAAA-ATTAT
*
114260661 AAAAGTTAT
1 AAAAATTAT
* *
114260670 TAAAATTAGAA
1 AAAAATT--AT
114260681 AAAAATTAT
1 AAAAATTAT
114260690 AAAAAT
1 AAAAAT
114260696 CTTAAAAAAT
Statistics
Matches: 69, Mismatches: 14, Indels: 14
0.71 0.14 0.14
Matches are distributed among these distances:
8 9 0.13
9 36 0.52
10 17 0.25
11 7 0.10
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:114263492 original size:333 final size:335
Alignment explanation
Indices: 114262122--114263573 Score: 1438
Period size: 333 Copynumber: 4.4 Consensus size: 335
114262112 TCTGCACATG
** * * *
114262122 GGTGCTTGGATTCGGGTGTGA--GTGCACACGGGTGAGTTCAAAAAGGGTATTTTC--TGTGTTA
1 GGTGCTTGGATTTAGGTGTGAGTGTGCACACAGGTGTGTTCAAAAAGGGTATTTTCTATGTATTA
* * **
114262183 AGAGGATCTCTGGAAGATCATATTCCTATACTTGTGTTCAAGT-TAGAGGTGTCTATGAGTAAGA
66 AAAGGATCT-T-TAAGATCATATTCCTATACTTGTGTTCAAGTCTAGAGGTGTCTATGAGTTGGA
* * * * *
114262247 CCCAGCTCATGTGTAGTATCAACACTATATAGGTTTCATATTTTGGCCAAGTTCATTCTCGAGCT
129 CCAAGCTCATGTGTAGCATCAACACTACATAGGTCTCATATTTTGGCCAAGTTCATTCTCAAGCT
* * * * * * **
114262312 TAACATTTTTGTATAAATCTTCCCAAACACAGGGTGGGGCTTTGCACATGGGTCCTTGGACGGGT
194 TAATATTTTTGTCTAAACCTTCCCAAATACTGAGTGGGGCTTTGCACATGGGTCCTTGGA-AAGT
* * * * *
114262377 CTAGTTCAAGTATGTGTCAGACATGATTACTGCAAGAAAAGCGAGGGGAAGTGGTAGCTTTTTGG
258 CTAGTTCAAGTATGTGTCAGACACGATTACTTCAAGAAAAGCAAAGGGAAGTGTTAGCTTTTTGG
* * *
114262442 CTCCGGGTGCTAA
323 CTTCGGGAGCTAT
* ** * * *
114262455 GGTACTTGGATTTACCTGTGAGTGTGCACACAAGCGTGTTCAAAAAGGGTGTATTTTCTATGTGT
1 GGTGCTTGGATTTAGGTGTGAGTGTGCACACAGGTGTGTTCAAAAA-GG-GTATTTTCTATGTAT
* * ** * *** *
114262520 TAATAGGATCTCTGGAAGATCATATTGTTATATTTGTGTTTGGGTCT-GAGGTGTCTATGAGATG
64 TAAAAGGATCT-T-TAAGATCATATTCCTATACTTGTGTTCAAGTCTAGAGGTGTCTATGAGTTG
* * *
114262584 GACCAGGCTC--GTGTAGCATCAACACTACATAGGTCTCATATTTTGGCCAAGTTCATTCTTAGG
127 GACCAAGCTCATGTGTAGCATCAACACTACATAGGTCTCATATTTTGGCCAAGTTCATTCTCAAG
* * * * *
114262647 CTTTATA-TTATGTCTAAACCTTCCCAAATACTGGGTGGAGCTTTGCTCAT-GGT-C-T----AG
192 CTTAATATTTTTGTCTAAACCTTCCCAAATACTGAGTGGGGCTTTGCACATGGGTCCTTGGAAAG
** * * *
114262704 --TA---CAAGTATGTGTCAGACACGATTA-TTGGAGAAAAG--AGGGGAAGTGTTAACTTTTTT
257 TCTAGTTCAAGTATGTGTCAGACACGATTACTTCAAGAAAAGCAAAGGGAAGTGTTAGCTTTTTG
*
114262761 GCTTCGGGAGATAT
322 GCTTCGGGAGCTAT
* * ** * ** *
114262775 GGTGCCTGGGTTCGGGTGTGAGTGTGTACAC-GAGTAAGGTCAAAAAGGGTATTTTCTATGTATT
1 GGTGCTTGGATTTAGGTGTGAGTGTGCACACAG-GTGTGTTCAAAAAGGGTATTTTCTATGTATT
* * ***
114262839 AAAAAGATCTTTGGAAGATCATATTCCGATACTTGTGTTTGGGTC-AGAGGTGTCTATGAGTTGG
65 AAAAGGATCTTT--AAGATCATATTCCTATACTTGTGTTCAAGTCTAGAGGTGTCTATGAGTTGG
** * * * ***
114262903 ACCTGGCTCATGTGTAGCATTAACACTATATAGGTCTCATGTTTCCACCAAGTTCATTCTCAAGC
128 ACCAAGCTCATGTGTAGCATCAACACTACATAGGTCTCATATTTTGGCCAAGTTCATTCTCAAGC
* * * * * * **
114262968 TTGATATTCTTGTCTAAACCTTCTCGAATACTGGGTAGGGCTTTGGTCATGGGTCCTTGGAAAGG
193 TTAATATTTTTGTCTAAACCTTCCCAAATACTGAGTGGGGCTTTGCACATGGGTCCTTGGAAA-G
* * *
114263033 TCTAGTTCAAGTATGTGTCAGACACAATTACTTCAAGAAAAGCAAAGGTAAGTGTTAGGTTTTTG
257 TCTAGTTCAAGTATGTGTCAGACACGATTACTTCAAGAAAAGCAAAGGGAAGTGTTAGCTTTTTG
* * *
114263098 GCTTCGAGTGTTAT
322 GCTTCGGGAGCTAT
* * * *
114263112 GGTGCCTGGATTCT-GGTGTCAGTGTGCACACGGGTGTTTTC-AAAAGGGTATTTTCTATGTATT
1 GGTGCTTGGATT-TAGGTGTGAGTGTGCACACAGGTGTGTTCAAAAAGGGTATTTTCTATGTATT
* * * * * * **
114263175 AAGAGGAT-TTTTAGATCATATTCTTATACTTGTGTTCAAATCTAAAGGTATCTACAAGTTGGAC
65 AAAAGGATCTTTAAGATCATATTCCTATACTTGTGTTCAAGTCTAGAGGTGTCTATGAGTTGGAC
* * ** *
114263239 CAAGCTCATATGTAGCATCAACACTACATAGGTCTCATATTTTGGCCAAGTTCATTATCGGGCCT
130 CAAGCTCATGTGTAGCATCAACACTACATAGGTCTCATATTTTGGCCAAGTTCATTCTCAAGCTT
* *
114263304 AATATTTTTGTCTAAACCTTTCCAAATACT-AGTGGGGCTTTGCACATAGGTCCTTGGACAAGTC
195 AATATTTTTGTCTAAACCTTCCCAAATACTGAGTGGGGCTTTGCACATGGGTCCTTGGA-AAGTC
** *
114263368 TAGTTCAAGTATGTGTTGGACATGATTACTTCAAGAAAAGC-AAGGGAAGTGTTAGCTTTTTGGC
259 TAGTTCAAGTATGTGTCAGACACGATTACTTCAAGAAAAGCAAAGGGAAGTGTTAGCTTTTTGGC
114263432 TTCGGGAGCTAT
324 TTCGGGAGCTAT
*
114263444 GGTGCTTGGATTTAGGTGTGAGTGTGCACACAGGTGTGTTCGAAAAGGGTATTTTCTATGTATTA
1 GGTGCTTGGATTTAGGTGTGAGTGTGCACACAGGTGTGTTCAAAAAGGGTATTTTCTATGTATTA
* ** ** *
114263509 AAAGGATCTTTGAAAGATCATATTCCTGTACTCATGTTCAAGT-TAGAGGAATCTATGTGTTGGA
66 AAAGGATCTTT--AAGATCATATTCCTATACTTGTGTTCAAGTCTAGAGGTGTCTATGAGTTGGA
114263573 C
129 C
114263574 TGGGCTTGGG
Statistics
Matches: 913, Mismatches: 167, Indels: 76
0.79 0.14 0.07
Matches are distributed among these distances:
317 1 0.00
318 75 0.08
319 2 0.00
320 111 0.12
321 36 0.04
322 11 0.01
323 23 0.03
324 1 0.00
326 2 0.00
328 2 0.00
329 1 0.00
331 3 0.00
332 65 0.07
333 133 0.15
334 122 0.13
335 51 0.06
336 90 0.10
337 117 0.13
338 1 0.00
339 65 0.07
340 1 0.00
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (335 bp):
GGTGCTTGGATTTAGGTGTGAGTGTGCACACAGGTGTGTTCAAAAAGGGTATTTTCTATGTATTA
AAAGGATCTTTAAGATCATATTCCTATACTTGTGTTCAAGTCTAGAGGTGTCTATGAGTTGGACC
AAGCTCATGTGTAGCATCAACACTACATAGGTCTCATATTTTGGCCAAGTTCATTCTCAAGCTTA
ATATTTTTGTCTAAACCTTCCCAAATACTGAGTGGGGCTTTGCACATGGGTCCTTGGAAAGTCTA
GTTCAAGTATGTGTCAGACACGATTACTTCAAGAAAAGCAAAGGGAAGTGTTAGCTTTTTGGCTT
CGGGAGCTAT
Found at i:114263599 original size:669 final size:655
Alignment explanation
Indices: 114262122--114263603 Score: 1640
Period size: 657 Copynumber: 2.2 Consensus size: 655
114262112 TCTGCACATG
*
114262122 GGTGCTTGGATTCGGGTGTGA--GTGCACACGGGTGAGTTCAAAAAGGGTATTTTC--TGTGTTA
1 GGTGCTTGGATTCGGGTGTGAGTGTGCACAC-GGTGAGTTCAAAAAGGGTATTTTCTATGTATTA
* * * **
114262183 AGAGGATCTCTGGAAGATCATATTCCTATACTTGTGTTCAAGTTAGAGGTGTCTATGAGTAAGAC
65 AAAGGATCTTTGGAAGATCATATTCCTGTACTTGTGTTCAAGTTAGAGGTGTCTATGAGTTGGA-
** * * *** *
114262248 CCAGCTCATGTGTAGTATCAACACTATATAGGTTTCATATTTTGGCCAAGTTCATTCTCGAGCTT
129 CTGGCTCATGTGTAGCATCAACACTATATAGGTCTCATATTTCCACCAAGTTCATTCTCAAGCTT
* * * **
114262313 AACATTTTTGTATAAATCTTCCCAAACACAGGGTGGGGCTTTGCACATGGGTCCTTGGACGGGTC
194 AACATTCTTGTATAAACCTTCCCAAACACAGGGTAGGGCTTTGCACATGGGTCCTTGGAAAGGTC
** * *
114262378 TAGTTCAAGTATGTGTCAGACATGATTACTGCAAGAAAAGCGAGGGGAAGTGGTAGCTTTTTGGC
259 TAGTTCAAGTATGTGTCAGACACAATTACTGCAAGAAAAGCAAAGGGAAGTGGTAGCTTTTTGGC
* * *
114262443 TCCGGGTGCTAAGGTACTTGGATTTACCTGTGAGTGTGCACACAAGCGTGTTCAAAAAGGGTGTA
324 TCCGAGTGCTAAGGTACCTGGATTTACCTGTCAGTGTGCACACAAGCGTGTTCAAAAAGGGTGTA
* * * * **** * *
114262508 TTTTCTATGTGTTAATAGGATCTCTGGAAGATCATATTGTTATATTTGTGTTTGGGTCTGAGGTG
389 TTTTCTATGTATTAAGAGGATCTCTGGAAGATCATATTCTTATACTTGTGTTCAAATCTAAGGTA
** * *
114262573 TCTATGAGATGGACCAGGCTCGTGTAGCATCAACACTACATAGGTCTCATATTTTGGCCAAGTTC
454 TCTACAAGATGGACCAAGCTCATGTAGCATCAACACTACATAGGTCTCATATTTTGGCCAAGTTC
* * * * * *
114262638 ATTCTTAGGCTTTATATTATGTCTAAACCTTCCCAAATACTGGGTGGAGCTTTGCTCATGGTCTA
519 ATTATCAGGCCTAATATTATGTCTAAACCTTCCCAAATACTGAGTGGAGCTTTGCACATGGTCTA
** * *
114262703 GTACAAGTATGTGTCAGACACGATTATTGGAGAAAAGAGGGGAAGTGTTAACTTTTTTGCTTCGG
584 GTACAAGTATGTGTCAGACACGATTATTCAAGAAAAGAAGGGAAGTGTTAACTTTTTGGCTTCGG
114262768 GAGATAT
649 GAGATAT
* * * * *
114262775 GGTGCCTGGGTTCGGGTGTGAGTGTGTACACGAGTAAGGTCAAAAAGGGTATTTTCTATGTATTA
1 GGTGCTTGGATTCGGGTGTGAGTGTGCACACG-GTGAGTTCAAAAAGGGTATTTTCTATGTATTA
* *** *
114262840 AAAAGATCTTTGGAAGATCATATTCC-GATACTTGTGTTTGGGTCAGAGGTGTCTATGAGTTGGA
65 AAAGGATCTTTGGAAGATCATATTCCTG-TACTTGTGTTCAAGTTAGAGGTGTCTATGAGTTGGA
* *
114262904 CCTGGCTCATGTGTAGCATTAACACTATATAGGTCTCATGTTTCCACCAAGTTCATTCTCAAGCT
129 -CTGGCTCATGTGTAGCATCAACACTATATAGGTCTCATATTTCCACCAAGTTCATTCTCAAGCT
* * * * * * * **
114262969 TGATATTCTTGTCTAAACCTTCTCGAATACTGGGTAGGGCTTTGGTCATGGGTCCTTGGAAAGGT
193 TAACATTCTTGTATAAACCTTCCCAAACACAGGGTAGGGCTTTGCACATGGGTCCTTGGAAAGGT
* * * *
114263034 CTAGTTCAAGTATGTGTCAGACACAATTACTTCAAGAAAAGCAAAGGTAAGTGTTAGGTTTTTGG
258 CTAGTTCAAGTATGTGTCAGACACAATTACTGCAAGAAAAGCAAAGGGAAGTGGTAGCTTTTTGG
* * * * ** ** * *
114263099 CTTCGAGTGTTATGGTGCCTGGATTCT-GGTGTCAGTGTGCACACGGGTGTTTTC-AAAA-GG-G
323 CTCCGAGTGCTAAGGTACCTGGATT-TACCTGTCAGTGTGCACACAAGCGTGTTCAAAAAGGGTG
**
114263160 TATTTTCTATGTATTAAGAGGAT-T-T-TTAGATCATATTCTTATACTTGTGTTCAAATCTAAAG
387 TATTTTCTATGTATTAAGAGGATCTCTGGAAGATCATATTCTTATACTTGTGTTCAAATCT-AAG
*
114263222 GTATCTACAAGTTGGACCAAGCTCATATGTAGCATCAACACTACATAGGTCTCATATTTTGGCCA
451 GTATCTACAAGATGGACCAAGCTC--ATGTAGCATCAACACTACATAGGTCTCATATTTTGGCCA
* * * *
114263287 AGTTCATTATCGGGCCTAATATTTTTGTCTAAACCTTTCCAAATACT-AGTGGGGCTTTGCACAT
514 AGTTCATTATCAGGCCTAATA-TTATGTCTAAACCTTCCCAAATACTGAGTGGAGCTTTGCACAT
** *
114263351 AGGTCCTTGGACAAGTCTAGTTCAAGTATGTGTTGGACATGATTACTTCAAGAAAAGCAAGGGAA
578 -GGT-C-T-----AG--TA---CAAGTATGTGTCAGACACGATTA-TTCAAGAAAAG-AAGGGAA
* *
114263416 GTGTTAGCTTTTTGGCTTCGGGAGCTAT
628 GTGTTAACTTTTTGGCTTCGGGAGATAT
** * *
114263444 GGTGCTTGGATTTAGGTGTGAGTGTGCACACAGGTGTGTTCGAAAAGGGTATTTTCTATGTATTA
1 GGTGCTTGGATTCGGGTGTGAGTGTGCACAC-GGTGAGTTCAAAAAGGGTATTTTCTATGTATTA
* ** ** *
114263509 AAAGGATCTTTGAAAGATCATATTCCTGTACTCATGTTCAAGTTAGAGGAATCTATGTGTTGGAC
65 AAAGGATCTTTGGAAGATCATATTCCTGTACTTGTGTTCAAGTTAGAGGTGTCTATGAGTTGGAC
***
114263574 TGGGCTTGGGTGTAGCATCAACACTATATA
130 T-GGCTCATGTGTAGCATCAACACTATATA
114263604 TAATTTCTCA
Statistics
Matches: 679, Mismatches: 121, Indels: 42
0.81 0.14 0.05
Matches are distributed among these distances:
651 25 0.04
652 22 0.03
653 20 0.03
654 91 0.13
655 56 0.08
656 5 0.01
657 262 0.39
658 1 0.00
662 2 0.00
664 2 0.00
667 20 0.03
668 11 0.02
669 160 0.24
670 2 0.00
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.34
Consensus pattern (655 bp):
GGTGCTTGGATTCGGGTGTGAGTGTGCACACGGTGAGTTCAAAAAGGGTATTTTCTATGTATTAA
AAGGATCTTTGGAAGATCATATTCCTGTACTTGTGTTCAAGTTAGAGGTGTCTATGAGTTGGACT
GGCTCATGTGTAGCATCAACACTATATAGGTCTCATATTTCCACCAAGTTCATTCTCAAGCTTAA
CATTCTTGTATAAACCTTCCCAAACACAGGGTAGGGCTTTGCACATGGGTCCTTGGAAAGGTCTA
GTTCAAGTATGTGTCAGACACAATTACTGCAAGAAAAGCAAAGGGAAGTGGTAGCTTTTTGGCTC
CGAGTGCTAAGGTACCTGGATTTACCTGTCAGTGTGCACACAAGCGTGTTCAAAAAGGGTGTATT
TTCTATGTATTAAGAGGATCTCTGGAAGATCATATTCTTATACTTGTGTTCAAATCTAAGGTATC
TACAAGATGGACCAAGCTCATGTAGCATCAACACTACATAGGTCTCATATTTTGGCCAAGTTCAT
TATCAGGCCTAATATTATGTCTAAACCTTCCCAAATACTGAGTGGAGCTTTGCACATGGTCTAGT
ACAAGTATGTGTCAGACACGATTATTCAAGAAAAGAAGGGAAGTGTTAACTTTTTGGCTTCGGGA
GATAT
Found at i:114269057 original size:23 final size:22
Alignment explanation
Indices: 114269010--114269057 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
114269000 ATTATAGTTT
*
114269010 AATTTATTTAATTTAAAATAAA
1 AATTTATTTAATTGAAAATAAA
*
114269032 AATTTAATTT-ATTGAAATATATA
1 AATTT-ATTTAATTGAAA-ATAAA
114269055 AAT
1 AAT
114269058 AATTTTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (22 bp):
AATTTATTTAATTGAAAATAAA
Found at i:114273403 original size:18 final size:18
Alignment explanation
Indices: 114273380--114273415 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
114273370 CTAATAGAGT
114273380 GTGTATAACA-AAATTAAA
1 GTGTATAA-ATAAATTAAA
114273398 GTGTATAAATAAATTAAA
1 GTGTATAAATAAATTAAA
114273416 ATAAGATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 1 0.06
18 16 0.94
ACGTcount: A:0.56, C:0.03, G:0.11, T:0.31
Consensus pattern (18 bp):
GTGTATAAATAAATTAAA
Found at i:114277054 original size:47 final size:47
Alignment explanation
Indices: 114276985--114277107 Score: 185
Period size: 47 Copynumber: 2.6 Consensus size: 47
114276975 CGTTTGTAGG
114276985 ACAACCGAACATTGAAAACATTATATGAGGTACCAGAAGCATGGACT
1 ACAACCGAACATTGAAAACATTATATGAGGTACCAGAAGCATGGACT
** * *
114277032 ACAACCGAACAACGAAAACATTATATGAGGTGCTAGAAGCATGGACT
1 ACAACCGAACATTGAAAACATTATATGAGGTACCAGAAGCATGGACT
*
114277079 ACAACTGAACATTGAAAACATGT-TATGAG
1 ACAACCGAACATTGAAAACAT-TATATGAG
114277108 ATCAATAGAA
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
47 67 0.99
48 1 0.01
ACGTcount: A:0.43, C:0.18, G:0.20, T:0.20
Consensus pattern (47 bp):
ACAACCGAACATTGAAAACATTATATGAGGTACCAGAAGCATGGACT
Found at i:114282148 original size:22 final size:22
Alignment explanation
Indices: 114282122--114282201 Score: 90
Period size: 22 Copynumber: 3.5 Consensus size: 22
114282112 TTATTATTAC
114282122 TTTTAAAATTTTTGAAATATATA
1 TTTTAAAATTTTT-AAATATATA
114282145 -TTTAAAATATTTTATTAATATATA
1 TTTTAAAAT-TTTTA--AATATATA
* *
114282169 TTTTTTAAATTTTAAAATATATA
1 -TTTTAAAATTTTTAAATATATA
114282192 TTTTAAAATT
1 TTTTAAAATT
114282202 ATTTTTTTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
22 18 0.37
23 12 0.24
24 8 0.16
25 4 0.08
26 7 0.14
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (22 bp):
TTTTAAAATTTTTAAATATATA
Found at i:114282162 original size:13 final size:13
Alignment explanation
Indices: 114282129--114282178 Score: 50
Period size: 12 Copynumber: 3.8 Consensus size: 13
114282119 TACTTTTAAA
*
114282129 ATTTTTGAAATAT
1 ATTTTTTAAATAT
*
114282142 A-TATTTAAA-AT
1 ATTTTTTAAATAT
114282153 ATTTTATTAATATAT
1 ATTTT-TTAA-ATAT
114282168 ATTTTTTAAAT
1 ATTTTTTAAAT
114282179 TTTAAAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
11 3 0.10
12 8 0.27
13 7 0.23
14 5 0.17
15 7 0.23
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (13 bp):
ATTTTTTAAATAT
Found at i:114282164 original size:24 final size:24
Alignment explanation
Indices: 114282122--114282206 Score: 95
Period size: 23 Copynumber: 3.6 Consensus size: 24
114282112 TTATTATTAC
*
114282122 TTTTAAAAT-TTTTGAAATATATA
1 TTTTAAAATATTTTAAAATATATA
*
114282145 -TTTAAAATATTTTATTAATATATA
1 TTTTAAAATATTTTA-AAATATATA
**
114282169 TTTTTTAA-ATTTTAAAATATATA
1 TTTTAAAATATTTTAAAATATATA
114282192 TTTTAAAATTATTTT
1 TTTTAAAA-TATTTT
114282207 TTTTTAATTT
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
22 8 0.16
23 18 0.36
24 14 0.28
25 10 0.20
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.56
Consensus pattern (24 bp):
TTTTAAAATATTTTAAAATATATA
Found at i:114282184 original size:34 final size:33
Alignment explanation
Indices: 114282145--114282236 Score: 103
Period size: 36 Copynumber: 2.6 Consensus size: 33
114282135 GAAATATATA
114282145 TTTAAAATATTTTATTAATATATATTTTTTAAAT
1 TTTAAAATATTTT-TTAATATATATTTTTTAAAT
* * *
114282179 TTTAAAATATATATTTTAAAATTATTTTTTTTTAAT
1 TTTAAAATAT-T-TTTTAATA-TATATTTTTTAAAT
114282215 TTTAAATATTATTTTTTAATAT
1 TTTAAA-A-TATTTTTTAATAT
114282237 TTAAATATTT
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
34 10 0.20
35 7 0.14
36 27 0.55
37 2 0.04
38 3 0.06
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (33 bp):
TTTAAAATATTTTTTAATATATATTTTTTAAAT
Found at i:114282187 original size:47 final size:49
Alignment explanation
Indices: 114282108--114282206 Score: 132
Period size: 47 Copynumber: 2.1 Consensus size: 49
114282098 ATTTATTTTA
* *
114282108 TTTATTATTATTACTTTTAAAATTTTTGAAATATATA-TTTAAAA-TAT
1 TTTATTAATATTACTTTTAAAATTTTTAAAATATATATTTTAAAATTAT
* *
114282155 TTTATTAATATATATTTTTTAAA-TTTTAAAATATATATTTTAAAATTAT
1 TTTATTAATAT-TACTTTTAAAATTTTTAAAATATATATTTTAAAATTAT
114282204 TTT
1 TTT
114282207 TTTTTAATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
47 23 0.51
48 16 0.36
49 6 0.13
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (49 bp):
TTTATTAATATTACTTTTAAAATTTTTAAAATATATATTTTAAAATTAT
Found at i:114282188 original size:21 final size:21
Alignment explanation
Indices: 114282122--114282198 Score: 64
Period size: 21 Copynumber: 3.3 Consensus size: 21
114282112 TTATTATTAC
*
114282122 TTTTAAAATTTTTGAAATATATA
1 TTTT-AAA-TTTTAAAATATATA
* *
114282145 TTTAAAATATTTTATTAATATATATT
1 TTT-TAA-ATTTTA--AA-ATATATA
114282171 TTTTAAATTTTAAAATATATA
1 TTTTAAATTTTAAAATATATA
114282192 TTTTAAA
1 TTTTAAA
114282199 ATTATTTTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
21 13 0.30
22 2 0.05
23 9 0.20
24 7 0.16
25 4 0.09
26 9 0.20
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (21 bp):
TTTTAAATTTTAAAATATATA
Found at i:114282238 original size:22 final size:22
Alignment explanation
Indices: 114282189--114282245 Score: 73
Period size: 21 Copynumber: 2.6 Consensus size: 22
114282179 TTTAAAATAT
*
114282189 ATATTTTAAA-ATTATTTTTTT
1 ATATTTTAAATATTATTTTTTA
*
114282210 TTAATTTTAAATATTATTTTTTA
1 AT-ATTTTAAATATTATTTTTTA
114282233 ATA-TTTAAATATT
1 ATATTTTAAATATT
114282246 TTAAACTTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 11 0.35
22 9 0.29
23 11 0.35
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
ATATTTTAAATATTATTTTTTA
Found at i:114282331 original size:18 final size:18
Alignment explanation
Indices: 114282308--114282351 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
114282298 CGACATTTTT
*
114282308 TTTATTTTTTTCTTTATC
1 TTTATTTTTTTATTTATC
* *
114282326 TTTATTTATTTATTTATT
1 TTTATTTTTTTATTTATC
114282344 TTTATTTT
1 TTTATTTT
114282352 ATTTTATTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTATTTTTTTATTTATC
Found at i:114282437 original size:22 final size:23
Alignment explanation
Indices: 114282403--114282449 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
114282393 ATTTGAAATG
* *
114282403 TTTTATAATATATATTTTTTAAA
1 TTTTATAATATATATATTTAAAA
114282426 TTTTA-AATATATATATTTAAAA
1 TTTTATAATATATATATTTAAAA
114282448 TT
1 TT
114282450 ATTTTTCTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TTTTATAATATATATATTTAAAA
Found at i:114282703 original size:26 final size:26
Alignment explanation
Indices: 114282673--114282750 Score: 86
Period size: 26 Copynumber: 3.0 Consensus size: 26
114282663 CAAGTTTTTT
*
114282673 AAAATTAATAATAAAAAAATAAAATA
1 AAAATAAATAATAAAAAAATAAAATA
*
114282699 AAAATAAATAAATAAATAAAT-AAATA
1 AAAATAAAT-AATAAAAAAATAAAATA
* * *
114282725 AAGATAAAGAAAAAATAAAATAAAAT
1 AAAATAAATAATAAA-AAAATAAAAT
114282751 GTCAGAGAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
25 5 0.12
26 24 0.56
27 14 0.33
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (26 bp):
AAAATAAATAATAAAAAAATAAAATA
Found at i:114282709 original size:4 final size:4
Alignment explanation
Indices: 114282682--114282748 Score: 59
Period size: 4 Copynumber: 16.5 Consensus size: 4
114282672 TAAAATTAAT
*
114282682 AATA AAAA AATA AA-A TAA-A AATA AATA AATA AATA AATA AATAA AGATA
1 AATA AATA AATA AATA -AATA AATA AATA AATA AATA AATA AAT-A A-ATA
*
114282731 AAGA AA-A AATAA AATA AA
1 AATA AATA AAT-A AATA AA
114282749 ATGTCAGAGA
Statistics
Matches: 54, Mismatches: 3, Indels: 12
0.78 0.04 0.17
Matches are distributed among these distances:
3 6 0.11
4 38 0.70
5 8 0.15
6 2 0.04
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (4 bp):
AATA
Found at i:114283177 original size:21 final size:21
Alignment explanation
Indices: 114283143--114283183 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
114283133 AAAAAATAAT
** *
114283143 ATTTAAAATTTATATTTTAAA
1 ATTTAAAAAATATATATTAAA
114283164 ATTTAAAAAATATATATTAA
1 ATTTAAAAAATATATATTAA
114283184 TAAAATATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
ATTTAAAAAATATATATTAAA
Found at i:114283196 original size:13 final size:13
Alignment explanation
Indices: 114283164--114283213 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
114283154 ATATTTTAAA
114283164 ATTTAAAAAATAT
1 ATTTAAAAAATAT
114283177 ATATTAATAAAATAT
1 AT-TTAA-AAAATAT
*
114283192 -TTT-AAATATAT
1 ATTTAAAAAATAT
*
114283203 ATTTCAAAAAT
1 ATTTAAAAAAT
114283214 TTTAAAATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
11 6 0.19
12 4 0.13
13 9 0.29
14 5 0.16
15 7 0.23
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (13 bp):
ATTTAAAAAATAT
Found at i:114283212 original size:24 final size:23
Alignment explanation
Indices: 114283144--114283234 Score: 71
Period size: 23 Copynumber: 3.9 Consensus size: 23
114283134 AAAAATAATA
* *
114283144 TTTAAAATTTATATT-TTAAAAT
1 TTTAAAATATATATTAATAAAAT
*
114283166 TTAAAAAATATATATTAATAAAAT
1 TT-TAAAATATATATTAATAAAAT
* *
114283190 ATTTTAAATATATATTTCA-AAAAT
1 -TTTAAAATATATA-TTAATAAAAT
*
114283214 TTTAAAAT-TAATAATAATAAA
1 TTTAAAATAT-ATATTAATAAA
114283235 TAAATAAAAT
Statistics
Matches: 54, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
22 5 0.09
23 24 0.44
24 20 0.37
25 5 0.09
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (23 bp):
TTTAAAATATATATTAATAAAAT
Found at i:114283215 original size:22 final size:23
Alignment explanation
Indices: 114283115--114283219 Score: 67
Period size: 23 Copynumber: 4.6 Consensus size: 23
114283105 TTTGAAAGTT
**
114283115 TAAAATA-TTTAAATAT-TAAAA
1 TAAAATATTTTAAATATATATTA
* * * *
114283136 AAATAATATTTAAAATTTATATTT
1 TAA-AATATTTTAAATATATATTA
**
114283160 TAAAAT-TTAAAAAATATATATTAA
1 TAAAATATT-TTAAATATATATT-A
114283184 TAAAATATTTTAAATATATATT-
1 TAAAATATTTTAAATATATATTA
114283206 TCAAAA-ATTTTAAA
1 T-AAAATATTTTAAA
114283220 ATTAATAATA
Statistics
Matches: 65, Mismatches: 12, Indels: 13
0.72 0.13 0.14
Matches are distributed among these distances:
21 2 0.03
22 15 0.23
23 25 0.38
24 21 0.32
25 2 0.03
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (23 bp):
TAAAATATTTTAAATATATATTA
Found at i:114283221 original size:47 final size:47
Alignment explanation
Indices: 114283140--114283234 Score: 113
Period size: 47 Copynumber: 2.0 Consensus size: 47
114283130 TTAAAAAAAT
* * *
114283140 AATATTTAAAATTTATATTTTAAAATTTAAAAAA-TATATATTAATAA
1 AATATTTAAAATATATATTTAAAAATTTAAAAAATTA-ATAATAATAA
* *
114283187 AATATTTTAAATATATATTTCAAAAATTT-TAAAATTAATAATAATAA
1 AATATTTAAAATATATATTT-AAAAATTTAAAAAATTAATAATAATAA
114283234 A
1 A
114283235 TAAATAAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
47 32 0.78
48 9 0.22
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (47 bp):
AATATTTAAAATATATATTTAAAAATTTAAAAAATTAATAATAATAA
Found at i:114305337 original size:20 final size:20
Alignment explanation
Indices: 114305301--114305339 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
114305291 TTGAGGTGAG
114305301 TTTTCTTTTTCTTTTAAATGT
1 TTTTCTTTTTC-TTTAAATGT
114305322 TTTTCATTTTTC-TTAAAT
1 TTTTC-TTTTTCTTTAAAT
114305340 AAAATAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 5 0.29
22 6 0.35
ACGTcount: A:0.18, C:0.10, G:0.03, T:0.69
Consensus pattern (20 bp):
TTTTCTTTTTCTTTAAATGT
Found at i:114313055 original size:14 final size:15
Alignment explanation
Indices: 114313030--114313062 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
114313020 GTCCATTTAC
114313030 TTTAATTTTTCATAA
1 TTTAATTTTTCATAA
114313045 TTTAA-TTTTCATAA
1 TTTAATTTTTCATAA
114313059 TTTA
1 TTTA
114313063 CGAAAATTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (15 bp):
TTTAATTTTTCATAA
Found at i:114315194 original size:20 final size:20
Alignment explanation
Indices: 114315165--114315212 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
114315155 TAATTTTTTT
*
114315165 ATCTTCAACTCGAA-TCTTAA
1 ATCTTGAACTC-AACTCTTAA
114315185 ATCTTGAACTCAACTCTTAA
1 ATCTTGAACTCAACTCTTAA
114315205 ATCTTGAA
1 ATCTTGAA
114315213 TTTTGTGGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 2 0.08
20 24 0.92
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.35
Consensus pattern (20 bp):
ATCTTGAACTCAACTCTTAA
Found at i:114315551 original size:34 final size:34
Alignment explanation
Indices: 114315513--114315579 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
114315503 ACAAAAGAAA
114315513 CTGTGTCAATCACATAAAAACTGAGAAGCCATTT
1 CTGTGTCAATCACATAAAAACTGAGAAGCCATTT
114315547 CTGTGTCAATCACATAAAAACTGAGAAGCCATT
1 CTGTGTCAATCACATAAAAACTGAGAAGCCATT
114315580 CACACACACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.25
Consensus pattern (34 bp):
CTGTGTCAATCACATAAAAACTGAGAAGCCATTT
Found at i:114321855 original size:105 final size:105
Alignment explanation
Indices: 114321662--114321862 Score: 330
Period size: 105 Copynumber: 1.9 Consensus size: 105
114321652 ATGATCGTCC
* *
114321662 AGAAATCAATCTCGAGACTAATGTCAACTAAAAACTCGAACATATATCTTTTGTCACTTCACTTA
1 AGAAATCAATCTCGAGACTAATATCAACTAAAAACTCGAACATACATCTTTTGTCACTTCACTTA
* * * * *
114321727 TGATTCAACTGACTCCTCGTACTTTCGTTTAAGATTGTCT
66 TGATTCAACCGACTACGCATACTTTCATTTAAGATTGTCT
*
114321767 AGAAATCGATCTCGAGACTAATATCAACTAAAAACTCGAACATACATCTTTTGTCACTTCACTTA
1 AGAAATCAATCTCGAGACTAATATCAACTAAAAACTCGAACATACATCTTTTGTCACTTCACTTA
114321832 TGATTCAACCGACTACGCATACTTTCATTTA
66 TGATTCAACCGACTACGCATACTTTCATTTA
114321863 CCGCATGACG
Statistics
Matches: 88, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
105 88 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (105 bp):
AGAAATCAATCTCGAGACTAATATCAACTAAAAACTCGAACATACATCTTTTGTCACTTCACTTA
TGATTCAACCGACTACGCATACTTTCATTTAAGATTGTCT
Found at i:114325340 original size:25 final size:25
Alignment explanation
Indices: 114325312--114325369 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
114325302 GTTTTTTATT
*
114325312 ATAAATTATATAATATATAAT-AATA
1 ATAAATTATATAATAAATAATGAA-A
* * *
114325337 ATAAAATATATTATAAATATTGAAA
1 ATAAATTATATAATAAATAATGAAA
114325362 ATAAATTA
1 ATAAATTA
114325370 AGCCGGACCT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 25 0.93
26 2 0.07
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (25 bp):
ATAAATTATATAATAAATAATGAAA
Found at i:114325355 original size:16 final size:18
Alignment explanation
Indices: 114325308--114325356 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
114325298 TTTAGTTTTT
114325308 TATTATAAATTATATAATA
1 TATTATAAA-TATATAATA
* *
114325327 TATAAT-AATAATAAAATA
1 TATTATAAAT-ATATAATA
114325345 TATTATAAATAT
1 TATTATAAATAT
114325357 TGAAAATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
17 1 0.04
18 16 0.64
19 8 0.32
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TATTATAAATATATAATA
Found at i:114336502 original size:180 final size:180
Alignment explanation
Indices: 114336193--114336557 Score: 685
Period size: 180 Copynumber: 2.0 Consensus size: 180
114336183 GATATTGTAG
114336193 CAATACCGTAACGTGAAACAACTTTAGGATGAAAAATGTTAGGCGTGCTATGTTTTAAATGTTAG
1 CAATACCGTAACGTGAAACAACTTTAGGATGAAAAATGTTAGGCGTGCTATGTTTTAAATGTTAG
*
114336258 GTTAGAATTGTACTGAATTTGTTTTAGAAACTAGAACGATATATGTTAATGTAGTAAGGTTGACG
66 GTTAGAATTGTACTGAATTTGTTTTAGAAACTAGAACGATATATGCTAATGTAGTAAGGTTGACG
114336323 TATATAGCGTGAAAGATGTATCCTAAGAATAGTATTTTTGTATCGGTTTT
131 TATATAGCGTGAAAGATGTATCCTAAGAATAGTATTTTTGTATCGGTTTT
* *
114336373 CAATACTGTAACGTGAAACAACTTTAGGATGGAAAATGTTAGGCGTGCTATGTTTTAAATGTTAG
1 CAATACCGTAACGTGAAACAACTTTAGGATGAAAAATGTTAGGCGTGCTATGTTTTAAATGTTAG
*
114336438 GTTAGAATTGTACTGAATTTGTTTTAGAAACTGGAACGATATATGCTAATGTAGTAAGGTTGACG
66 GTTAGAATTGTACTGAATTTGTTTTAGAAACTAGAACGATATATGCTAATGTAGTAAGGTTGACG
*
114336503 TATATAGTGTGAAAGATGTATCCTAAGAATAGTATTTTTGTATCGGTTTT
131 TATATAGCGTGAAAGATGTATCCTAAGAATAGTATTTTTGTATCGGTTTT
114336553 CAATA
1 CAATA
114336558 ATGGTTTTTG
Statistics
Matches: 180, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
180 180 1.00
ACGTcount: A:0.33, C:0.09, G:0.22, T:0.36
Consensus pattern (180 bp):
CAATACCGTAACGTGAAACAACTTTAGGATGAAAAATGTTAGGCGTGCTATGTTTTAAATGTTAG
GTTAGAATTGTACTGAATTTGTTTTAGAAACTAGAACGATATATGCTAATGTAGTAAGGTTGACG
TATATAGCGTGAAAGATGTATCCTAAGAATAGTATTTTTGTATCGGTTTT
Found at i:114358656 original size:21 final size:22
Alignment explanation
Indices: 114358604--114358656 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
114358594 GTAAATTGAG
* *
114358604 TTTGGGTATTGTATTTGGGTTA
1 TTTGGGTTTTATATTTGGGTTA
*
114358626 -TTGGACTTTTATATTT-GGTTA
1 TTTGG-GTTTTATATTTGGGTTA
114358647 TTTGGGTTTT
1 TTTGGGTTTT
114358657 GTTATATTGG
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
21 13 0.52
22 12 0.48
ACGTcount: A:0.13, C:0.02, G:0.26, T:0.58
Consensus pattern (22 bp):
TTTGGGTTTTATATTTGGGTTA
Found at i:114359566 original size:25 final size:28
Alignment explanation
Indices: 114359524--114359575 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 28
114359514 TTAATTTTAA
114359524 TATTATATATACTATTA-TATTTTATTAC
1 TATTATATATACTATTATTA-TTTATTAC
114359552 TATTAT-TATA-T-TTATTATTTATTA
1 TATTATATATACTATTATTATTTATTA
114359576 GCATTAGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
25 10 0.43
26 3 0.13
27 4 0.17
28 6 0.26
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (28 bp):
TATTATATATACTATTATTATTTATTAC
Found at i:114359733 original size:29 final size:29
Alignment explanation
Indices: 114359701--114359756 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
114359691 ATATATTAGG
*
114359701 TATAT-TTTAAATTCTATATTACGTATATA
1 TATATATTT-AATACTATATTACGTATATA
* *
114359730 TATATATTTTATACTATATTATGTATA
1 TATATATTTAATACTATATTACGTATA
114359757 CATTCTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 20 0.87
30 3 0.13
ACGTcount: A:0.38, C:0.05, G:0.04, T:0.54
Consensus pattern (29 bp):
TATATATTTAATACTATATTACGTATATA
Found at i:114360149 original size:66 final size:64
Alignment explanation
Indices: 114360048--114360171 Score: 148
Period size: 66 Copynumber: 1.9 Consensus size: 64
114360038 ATTTGTTAGC
* *
114360048 ATTTTACTACTACTATTATTAATATTATTTTTTTAAT-CCATACTTATATGTATATATTATGTAA
1 ATTTTACTACTACTATTATTAATATTATATTTTTAATACCATA-TT-T-TGTACATATTATGTAA
114360112 AT
63 AT
114360114 ATTTTAAC-ACTA-TATTATGT-ATATATATATTTTTAATACCATATTTTGTACATATTAT
1 ATTTT-ACTACTACTATTAT-TAATAT-TATATTTTTAATACCATATTTTGTACATATTAT
114360172 TATATCTATT
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
64 11 0.21
65 11 0.21
66 23 0.44
67 7 0.13
ACGTcount: A:0.35, C:0.09, G:0.03, T:0.52
Consensus pattern (64 bp):
ATTTTACTACTACTATTATTAATATTATATTTTTAATACCATATTTTGTACATATTATGTAAAT
Found at i:114360157 original size:29 final size:28
Alignment explanation
Indices: 114360101--114360172 Score: 71
Period size: 29 Copynumber: 2.7 Consensus size: 28
114360091 TTATATGTAT
*
114360101 ATATTATGTA-A-A-TA-TTTTAACACT
1 ATATTATGTACATATTATTTTTAACACC
* *
114360125 ATATTATGTATATATATATTTTTAATACC
1 ATATTATGTACATAT-TATTTTTAACACC
*
114360154 ATATTTTGTACATATTATT
1 ATATTATGTACATATTATT
114360173 ATATCTATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
24 10 0.26
25 1 0.03
26 1 0.03
28 6 0.15
29 21 0.54
ACGTcount: A:0.38, C:0.07, G:0.04, T:0.51
Consensus pattern (28 bp):
ATATTATGTACATATTATTTTTAACACC
Found at i:114360244 original size:12 final size:12
Alignment explanation
Indices: 114360229--114360259 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
114360219 TACTTTTATA
*
114360229 TATTATTATATT
1 TATTATTATACT
114360241 TATTATTATACT
1 TATTATTATACT
114360253 TATTATT
1 TATTATT
114360260 TTCACTATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (12 bp):
TATTATTATACT
Found at i:114360249 original size:22 final size:22
Alignment explanation
Indices: 114360190--114360299 Score: 60
Period size: 22 Copynumber: 5.3 Consensus size: 22
114360180 TTTTCACCCC
*
114360190 TATTATA-TT-TTATTATATGT
1 TATTATATTTATTATTATATAT
*
114360210 GTA-TATATATACTT-TTATATAT
1 -TATTATATTTA-TTATTATATAT
*
114360232 TATTATATTTATTATTATA-CT
1 TATTATATTTATTATTATATAT
* *
114360253 TATTAT-TTTCACTATTGT-TACT
1 TATTATATTT-ATTATTATATA-T
*
114360275 TATTAT-TTTATT-TTA-ACAT
1 TATTATATTTATTATTATATAT
114360294 TATTAT
1 TATTAT
114360300 GTCAAACTTA
Statistics
Matches: 70, Mismatches: 10, Indels: 20
0.70 0.10 0.20
Matches are distributed among these distances:
19 7 0.10
20 10 0.14
21 22 0.31
22 29 0.41
23 2 0.03
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (22 bp):
TATTATATTTATTATTATATAT
Found at i:114371901 original size:42 final size:42
Alignment explanation
Indices: 114371854--114371937 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
114371844 ATAGACATAT
114371854 GAATCACAATTCAAGTTTTATGTACATAAAATGCACAAAATC
1 GAATCACAATTCAAGTTTTATGTACATAAAATGCACAAAATC
114371896 GAATCACAATTCAAGTTTTATGTACATAAAATGCACAAAATC
1 GAATCACAATTCAAGTTTTATGTACATAAAATGCACAAAATC
114371938 AAAATTCATG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.45, C:0.17, G:0.10, T:0.29
Consensus pattern (42 bp):
GAATCACAATTCAAGTTTTATGTACATAAAATGCACAAAATC
Found at i:114374310 original size:22 final size:21
Alignment explanation
Indices: 114374285--114374325 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
114374275 ATTTTATTTC
*
114374285 AAAAAGTTAAGTAATTAAATCG
1 AAAAAATTAA-TAATTAAATCG
*
114374307 AAAAAATTAATAGTTAAAT
1 AAAAAATTAATAATTAAAT
114374326 GATCAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.59, C:0.02, G:0.10, T:0.29
Consensus pattern (21 bp):
AAAAAATTAATAATTAAATCG
Found at i:114374333 original size:22 final size:25
Alignment explanation
Indices: 114374283--114374333 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 25
114374273 ATATTTTATT
114374283 TCAAAAAGTTAAGTAATTAAATCGA
1 TCAAAAAGTTAAGTAATTAAATCGA
*
114374308 --AAAAA-TTAA-TAGTTAAAT-GA
1 TCAAAAAGTTAAGTAATTAAATCGA
114374328 TCAAAA
1 TCAAAA
114374334 TAAAACTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
20 2 0.09
21 8 0.35
22 8 0.35
23 5 0.22
ACGTcount: A:0.57, C:0.06, G:0.10, T:0.27
Consensus pattern (25 bp):
TCAAAAAGTTAAGTAATTAAATCGA
Found at i:114376103 original size:22 final size:22
Alignment explanation
Indices: 114376078--114376122 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
114376068 AATATAATTT
*
114376078 TAAAT-TTAATTATAAGAATATA
1 TAAATATTAA-TATAAAAATATA
114376100 TAAATATTAATATAAAAATATA
1 TAAATATTAATATAAAAATATA
114376122 T
1 T
114376123 TTTTAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
TAAATATTAATATAAAAATATA
Found at i:114380187 original size:15 final size:15
Alignment explanation
Indices: 114380167--114380216 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
114380157 TTCAGAGTCT
114380167 TCATCTCTTTCAACA
1 TCATCTCTTTCAACA
* *
114380182 TCATCTCTTTCCACC
1 TCATCTCTTTCAACA
*
114380197 TCATCTCTTTCAACT
1 TCATCTCTTTCAACA
114380212 TCATC
1 TCATC
114380217 AGCATCTTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.42
Consensus pattern (15 bp):
TCATCTCTTTCAACA
Found at i:114383226 original size:31 final size:31
Alignment explanation
Indices: 114383191--114383255 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
114383181 AAATTAAAAG
114383191 TCATGACTAGAAAGGAGAAAGAAAATATTCA
1 TCATGACTAGAAAGGAGAAAGAAAATATTCA
114383222 TCATGACTAGAAAGGAGAAAGAAAATATTCA
1 TCATGACTAGAAAGGAGAAAGAAAATATTCA
114383253 TCA
1 TCA
114383256 CTTATGATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.51, C:0.11, G:0.18, T:0.20
Consensus pattern (31 bp):
TCATGACTAGAAAGGAGAAAGAAAATATTCA
Found at i:114386555 original size:144 final size:143
Alignment explanation
Indices: 114386230--114386958 Score: 836
Period size: 144 Copynumber: 5.0 Consensus size: 143
114386220 TATATTTATG
* *
114386230 TAAATTTAATTTAAAAAGTGCATTTGTTAATTAAGAAAGCACGCCTTACCAAATACGTTTTTGTC
1 TAAATTTAATTTAAAAAGTGCATTTGTTAATTAGGAAAGCACGCCTTACCAAATACATTTTTGTC
* * * * * *
114386295 TAACATCAGCTACTCAGTCAGCGTTGAGGACCCTGATTCTTTTTTTTTTTGTCTTTCATGACACA
66 TAACGTCAACCACCCAATCAGCGTT-AAGACCCT-A-----TTTTTTTTTGTCTTTCATGACACA
114386360 ATTTACTAATTACTTAGCTA
124 ATTTACTAATTACTTAGCTA
* *
114386380 TAAATTTAATTTTAAAAGTGCATTTGTTAATTAGGAAAGCACGCCTTACCAAATACATTTTT-AC
1 TAAATTTAATTTAAAAAGTGCATTTGTTAATTAGGAAAGCACGCCTTACCAAATACATTTTTGTC
* * *
114386444 TTAACGTCAGCCACCCAATCAGCGTTGAAGACCCTAATTTTTTTTGTCTTTCATGACCCAATTTA
66 -TAACGTCAACCACCCAATCAGCGTT-AAGACCCTATTTTTTTTTGTCTTTCATGACACAATTTA
114386509 CTAATTACTTAGCTA
129 CTAATTACTTAGCTA
* * *
114386524 TAAATTTAATTTAAAAAGTGCATTTGTTAATTAGGAAAGCATGCCTTACCAGATACGTTTTTGTC
1 TAAATTTAATTTAAAAAGTGCATTTGTTAATTAGGAAAGCACGCCTTACCAAATACATTTTTGTC
* * * *
114386589 TAACGTCAACCACCTAATCAACGTTAAGAACCTTGGTTTTTTGTTTTTTTTTTGTCTTTCATGAC
66 TAACGTCAACCACCCAATCAGCGTTAAG-ACC--------CT-ATTTTTTTTTGTCTTTCATGAC
114386654 ACAATTTACTAATTACTTAGCTA
121 ACAATTTACTAATTACTTAGCTA
* * * **
114386677 TAAATTTAATTTAAAAAGTGTATTTGTTAACTAGGAAAGCACACAATACCAAATACATTTTTGTC
1 TAAATTTAATTTAAAAAGTGCATTTGTTAATTAGGAAAGCACGCCTTACCAAATACATTTTTGTC
* * *
114386742 TAACGTCAACCACCCAATCAGCGTTAAGGACCC-CTTTTTTTTTGTCTTTCTTGACACAATTTCC
66 TAACGTCAACCACCCAATCAGCGTTAA-GACCCTATTTTTTTTTGTCTTTCATGACACAATTTAC
* *
114386806 TGATTACTTAGCTG
130 TAATTACTTAGCTA
* ** * * * * * * *
114386820 TAAATTTAAATTAAAAAGTGCATTTGTTAACGAAGAAAACACACCCTACCAGATACCTTTTTATC
1 TAAATTTAATTTAAAAAGTGCATTTGTTAATTAGGAAAGCACGCCTTACCAAATACATTTTTGTC
* * * *
114386885 TAACGTCAACCATCCAATCAACGTTAAAGA--CTTTTTTTTTTTGTCTTTCATAACACAATTTAC
66 TAACGTCAACCACCCAATCAGCGTT-AAGACCCTATTTTTTTTTGTCTTTCATGACACAATTTAC
*
114386948 TAATTGCTTAG
130 TAATTACTTAG
114386959 TTGTATTATA
Statistics
Matches: 507, Mismatches: 57, Indels: 38
0.84 0.09 0.06
Matches are distributed among these distances:
141 1 0.00
142 36 0.07
143 123 0.24
144 127 0.25
145 1 0.00
149 2 0.00
150 88 0.17
152 1 0.00
153 127 0.25
154 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (143 bp):
TAAATTTAATTTAAAAAGTGCATTTGTTAATTAGGAAAGCACGCCTTACCAAATACATTTTTGTC
TAACGTCAACCACCCAATCAGCGTTAAGACCCTATTTTTTTTTGTCTTTCATGACACAATTTACT
AATTACTTAGCTA
Found at i:114386789 original size:143 final size:142
Alignment explanation
Indices: 114386633--114386958 Score: 454
Period size: 143 Copynumber: 2.3 Consensus size: 142
114386623 GGTTTTTTGT
* *
114386633 TTTTTTTTTGTCTTTCATGACACAATTTACTAATTACTTAGCTATAAATTTAATTTAAAAAGTGT
1 TTTTTTTTTGTCTTTCATGACACAATTTACTAATTACTTAGCTATAAATTTAAATTAAAAAGTGC
* * * * *
114386698 ATTTGTTAACTAGGAAAGCACACAATACCAAATACATTTTTGTCTAACGTCAACCACCCAATCAG
66 ATTTGTTAACGAAGAAAACACACAATACCAAATACATTTTTATCTAACGTCAACCACCCAATCAA
*
114386763 CGTTAAGGACCCC
131 CGTTAAAGA-CCC
* * * *
114386776 TTTTTTTTTGTCTTTCTTGACACAATTTCCTGATTACTTAGCTGTAAATTTAAATTAAAAAGTGC
1 TTTTTTTTTGTCTTTCATGACACAATTTACTAATTACTTAGCTATAAATTTAAATTAAAAAGTGC
** * * *
114386841 ATTTGTTAACGAAGAAAACACACCCTACCAGATACCTTTTTATCTAACGTCAACCATCCAATCAA
66 ATTTGTTAACGAAGAAAACACACAATACCAAATACATTTTTATCTAACGTCAACCACCCAATCAA
**
114386906 CGTTAAAGACTT
131 CGTTAAAGACCC
* *
114386918 TTTTTTTTTGTCTTTCATAACACAATTTACTAATTGCTTAG
1 TTTTTTTTTGTCTTTCATGACACAATTTACTAATTACTTAG
114386959 TTGTATTATA
Statistics
Matches: 159, Mismatches: 24, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
142 37 0.23
143 122 0.77
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (142 bp):
TTTTTTTTTGTCTTTCATGACACAATTTACTAATTACTTAGCTATAAATTTAAATTAAAAAGTGC
ATTTGTTAACGAAGAAAACACACAATACCAAATACATTTTTATCTAACGTCAACCACCCAATCAA
CGTTAAAGACCC
Found at i:114386896 original size:296 final size:293
Alignment explanation
Indices: 114386228--114386958 Score: 966
Period size: 297 Copynumber: 2.5 Consensus size: 293
114386218 TATATATTTA
*
114386228 TGTAAATTTAATTTAAAAAGTGCATTTGTTAATTAAGAAAGCACGCCTTACCAAATACGTTTTTG
1 TGTAAATTTAATTTAAAAAGTGCATTTGTTAATTAAGAAAGCACGCCTTACCAGATACGTTTTTG
* * * * * * *
114386293 TCTAACATCAGCTA-CTCAGTCAGCGTTGAGGACCCTGATTCTTTTTTTTTTTGTCTTTCATGAC
66 TCTAACGTCAACCACCT-AATCAACGTTAAGAACCCTGATTCTTTTTTTTTTTGTCTTTCATGAC
* *
114386357 ACAATTTACTAATTACTTAGCTATAAATTTAATTTTAAAAGTGCATTTGTTAATTAGGAAAGCAC
130 ACAATTTACTAATTACTTAGCTATAAATTTAATTTAAAAAGTGCATTTGTTAACTAGGAAAGCAC
* ** *
114386422 GCCTTACCAAATACATTTTTACTTAACGTCAGCCACCCAATCAGCGTTGAAGACCCTAATTTTTT
195 ACAATACCAAATACATTTTTACTTAACGTCAACCACCCAATCAGCGTTGAAGACCCT-ATTTTTT
*
114386487 TTGTCTTTCATGACCCAATTTACTAATTACTTAGC
259 TTGTCTTTCATGACACAATTTACTAATTACTTAGC
* * *
114386522 TATAAATTTAATTTAAAAAGTGCATTTGTTAATTAGGAAAGCATGCCTTACCAGATACGTTTTTG
1 TGTAAATTTAATTTAAAAAGTGCATTTGTTAATTAAGAAAGCACGCCTTACCAGATACGTTTTTG
* * *
114386587 TCTAACGTCAACCACCTAATCAACGTTAAGAACCTTGGTTTTTTGTTTTTTTTTTGTCTTTCATG
66 TCTAACGTCAACCACCTAATCAACGTTAAGAACCCT-G-ATTCT-TTTTTTTTTTGTCTTTCATG
*
114386652 ACACAATTTACTAATTACTTAGCTATAAATTTAATTTAAAAAGTGTATTTGTTAACTAGGAAAGC
128 ACACAATTTACTAATTACTTAGCTATAAATTTAATTTAAAAAGTGCATTTGTTAACTAGGAAAGC
*
114386717 ACACAATACCAAATACATTTTT-GTCTAACGTCAACCACCCAATCAGCGTT-AAGGACCCCT-TT
193 ACACAATACCAAATACATTTTTACT-TAACGTCAACCACCCAATCAGCGTTGAA-GA-CCCTATT
* * *
114386779 TTTTTTGTCTTTCTTGACACAATTTCCTGATTACTTAGC
255 TTTTTTGTCTTTCATGACACAATTTACTAATTACTTAGC
* ** * * * * *
114386818 TGTAAATTTAAATTAAAAAGTGCATTTGTTAACGAAGAAAACACACCCTACCAGATACCTTTTTA
1 TGTAAATTTAATTTAAAAAGTGCATTTGTTAATTAAGAAAGCACGCCTTACCAGATACGTTTTTG
*
114386883 TCTAACGTCAACCATCC-AATCAACGTT-A-AA----GA--CTTTTTTTTTTTGTCTTTCATAAC
66 TCTAACGTCAACCA-CCTAATCAACGTTAAGAACCCTGATTCTTTTTTTTTTTGTCTTTCATGAC
*
114386939 ACAATTTACTAATTGCTTAG
130 ACAATTTACTAATTACTTAG
114386959 TTGTATTATA
Statistics
Matches: 388, Mismatches: 41, Indels: 25
0.85 0.09 0.06
Matches are distributed among these distances:
285 40 0.10
286 1 0.00
289 1 0.00
294 88 0.23
295 4 0.01
296 121 0.31
297 129 0.33
298 4 0.01
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (293 bp):
TGTAAATTTAATTTAAAAAGTGCATTTGTTAATTAAGAAAGCACGCCTTACCAGATACGTTTTTG
TCTAACGTCAACCACCTAATCAACGTTAAGAACCCTGATTCTTTTTTTTTTTGTCTTTCATGACA
CAATTTACTAATTACTTAGCTATAAATTTAATTTAAAAAGTGCATTTGTTAACTAGGAAAGCACA
CAATACCAAATACATTTTTACTTAACGTCAACCACCCAATCAGCGTTGAAGACCCTATTTTTTTT
GTCTTTCATGACACAATTTACTAATTACTTAGC
Found at i:114398442 original size:15 final size:15
Alignment explanation
Indices: 114398418--114398454 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
114398408 AGAAGATGCT
114398418 GATGAAGTTGAAAGA
1 GATGAAGTTGAAAGA
* *
114398433 GATGATGTTGAGAGA
1 GATGAAGTTGAAAGA
114398448 GATGAAG
1 GATGAAG
114398455 ACTCTGAATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.38, T:0.22
Consensus pattern (15 bp):
GATGAAGTTGAAAGA
Found at i:114401788 original size:18 final size:18
Alignment explanation
Indices: 114401746--114401780 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
114401736 TCGAAGCTAG
*
114401746 TTATGAAGATGACGATGC
1 TTATGAAGATGACAATGC
*
114401764 TTATGAAGATGATAATG
1 TTATGAAGATGACAATG
114401781 GCTTTGAACA
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:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (18 bp):
TTATGAAGATGACAATGC
Found at i:114403030 original size:34 final size:34
Alignment explanation
Indices: 114402992--114403061 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
114402982 CAAGCTTTTG
114402992 GTCGTTAATTTTTAAGTTTATATTTCTCTCATTA
1 GTCGTTAATTTTTAAGTTTATATTTCTCTCATTA
114403026 GTCGTTAATTTTTAAGTTTATATTTCTCTCATTA
1 GTCGTTAATTTTTAAGTTTATATTTCTCTCATTA
114403060 GT
1 GT
114403062 ACTTATTATT
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:0.23, C:0.11, G:0.10, T:0.56
Consensus pattern (34 bp):
GTCGTTAATTTTTAAGTTTATATTTCTCTCATTA
Found at i:114403212 original size:30 final size:30
Alignment explanation
Indices: 114403174--114403243 Score: 124
Period size: 30 Copynumber: 2.4 Consensus size: 30
114403164 TAAACTACAA
114403174 GTTT-AGTCACTTTATTTGCTTTAAATTAT
1 GTTTCAGTCACTTTATTTGCTTTAAATTAT
114403203 GTTTCAGTCACTTTATTTGCTTTAAATTAT
1 GTTTCAGTCACTTTATTTGCTTTAAATTAT
*
114403233 GTTTCAATCAC
1 GTTTCAGTCAC
114403244 CGAACTTCAA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
29 4 0.10
30 35 0.90
ACGTcount: A:0.24, C:0.14, G:0.10, T:0.51
Consensus pattern (30 bp):
GTTTCAGTCACTTTATTTGCTTTAAATTAT
Found at i:114403440 original size:28 final size:27
Alignment explanation
Indices: 114403401--114403458 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 27
114403391 ACCATTCACC
*
114403401 TTTTAAAAAGAGTTTAAATGGTATTTT
1 TTTTAAAAAGAGTTTAAATGATATTTT
114403428 TTTTGAAAAAGAGTTTAAATGATATTTT
1 TTTT-AAAAAGAGTTTAAATGATATTTT
114403456 TTT
1 TTT
114403459 ACGAGAATAC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 4 0.14
28 25 0.86
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (27 bp):
TTTTAAAAAGAGTTTAAATGATATTTT
Found at i:114418554 original size:18 final size:19
Alignment explanation
Indices: 114418515--114418556 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
114418505 CCTACAAGCA
* *
114418515 TTTATTTATTTTCTAATTT
1 TTTATTAATTTTCTAATGT
114418534 TTTATTAATTTT-TAATGT
1 TTTATTAATTTTCTAATGT
114418552 TTTAT
1 TTTAT
114418557 AGTATAGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (19 bp):
TTTATTAATTTTCTAATGT
Found at i:114419078 original size:31 final size:31
Alignment explanation
Indices: 114419036--114419120 Score: 102
Period size: 31 Copynumber: 2.8 Consensus size: 31
114419026 AAATTTTAAA
* *
114419036 ATTATATATGAATTTTAATTTAATGTGTAAT
1 ATTATACATGAATTTTAATTTAATGTGCAAT
*
114419067 ATTATACATGAATTTTAATTT--TGTGCGAT
1 ATTATACATGAATTTTAATTTAATGTGCAAT
* *
114419096 TTTATACATAAAATTTTAATTTAAT
1 ATTATACAT-GAATTTTAATTTAAT
114419121 TCAAATTTCA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 14 0.30
30 11 0.24
31 20 0.43
32 1 0.02
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.51
Consensus pattern (31 bp):
ATTATACATGAATTTTAATTTAATGTGCAAT
Found at i:114419223 original size:6 final size:6
Alignment explanation
Indices: 114419212--114419243 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
114419202 GTACGATTGG
*
114419212 ATCAAA ATCAAA ATCAAA ATTAAA ATCAAA AT
1 ATCAAA ATCAAA ATCAAA ATCAAA ATCAAA AT
114419244 TTCATATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.66, C:0.12, G:0.00, T:0.22
Consensus pattern (6 bp):
ATCAAA
Found at i:114420232 original size:53 final size:53
Alignment explanation
Indices: 114420174--114420279 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
114420164 AGAAATATTT
114420174 ATTTGTGAATTTTCTTTTAACCATTATTTTTTAATTTTAAAACATTGTTTTAC
1 ATTTGTGAATTTTCTTTTAACCATTATTTTTTAATTTTAAAACATTGTTTTAC
114420227 ATTTGTGAATTTTCTTTTAACCATTATTTTTTAATTTTAAAACATTGTTTTAC
1 ATTTGTGAATTTTCTTTTAACCATTATTTTTTAATTTTAAAACATTGTTTTAC
114420280 TTATTTTAAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.28, C:0.09, G:0.06, T:0.57
Consensus pattern (53 bp):
ATTTGTGAATTTTCTTTTAACCATTATTTTTTAATTTTAAAACATTGTTTTAC
Found at i:114435179 original size:21 final size:21
Alignment explanation
Indices: 114435133--114435179 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
114435123 AAAAGACAAA
*
114435133 AACAAGAAAATGAGATACATG
1 AACATGAAAATGAGATACATG
*
114435154 AACATGAAAATGAGATGCATG
1 AACATGAAAATGAGATACATG
*
114435175 GACAT
1 AACAT
114435180 ATGTATACCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.51, C:0.11, G:0.21, T:0.17
Consensus pattern (21 bp):
AACATGAAAATGAGATACATG
Found at i:114445127 original size:14 final size:14
Alignment explanation
Indices: 114445108--114445138 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
114445098 CCAGAATCTA
114445108 ATCTCATTATTTCT
1 ATCTCATTATTTCT
114445122 ATCTCATTATTTCT
1 ATCTCATTATTTCT
114445136 ATC
1 ATC
114445139 AGAGGAACAA
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:0.23, C:0.23, G:0.00, T:0.55
Consensus pattern (14 bp):
ATCTCATTATTTCT
Found at i:114448913 original size:110 final size:110
Alignment explanation
Indices: 114448777--114448977 Score: 339
Period size: 110 Copynumber: 1.8 Consensus size: 110
114448767 GCTTTAGTTC
* * * *
114448777 CAAAGCTTAAATATTAACTTAGTTAAGAAATTACTTAAAAATATTCTTTTAATAAAGAATTTAAT
1 CAAAGCTTAAATACTAACTCAATTAAGAAATTACTTAAAAATATTCTTTTAATAAAGAATATAAT
114448842 ATTAATATAATGGTATTTTCATCTTTTATTATTTTTATATGAACT
66 ATTAATATAATGGTATTTTCATCTTTTATTATTTTTATATGAACT
* *
114448887 CAAAGCTTGAATACTAACTCAATTAAGAAATTACTTAAAAGTATTCTTTTAATAAAGAATATAAT
1 CAAAGCTTAAATACTAACTCAATTAAGAAATTACTTAAAAATATTCTTTTAATAAAGAATATAAT
*
114448952 ATTAATATAATGGTATTTTCGTCTTT
66 ATTAATATAATGGTATTTTCATCTTT
114448978 ACAAGTCTAA
Statistics
Matches: 84, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
110 84 1.00
ACGTcount: A:0.41, C:0.08, G:0.07, T:0.43
Consensus pattern (110 bp):
CAAAGCTTAAATACTAACTCAATTAAGAAATTACTTAAAAATATTCTTTTAATAAAGAATATAAT
ATTAATATAATGGTATTTTCATCTTTTATTATTTTTATATGAACT
Found at i:114449826 original size:51 final size:51
Alignment explanation
Indices: 114449745--114449849 Score: 131
Period size: 51 Copynumber: 2.1 Consensus size: 51
114449735 ATTAGCATAA
* * * ** *
114449745 TAACAAATTTAGCCCTCAAAATTTATACATTCTGTCAATTTAGTCTTGATT
1 TAACAAATTTAGCCCACAAAATTTACACATTCTATCAAACTAATCTTGATT
*
114449796 TAACAAATTTAGCCCACAACATTCT-CACATTCTATCAAACTAATCTTGATT
1 TAACAAATTTAGCCCACAAAATT-TACACATTCTATCAAACTAATCTTGATT
114449847 TAA
1 TAA
114449850 TAATTTTATC
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
51 45 0.98
52 1 0.02
ACGTcount: A:0.36, C:0.21, G:0.06, T:0.37
Consensus pattern (51 bp):
TAACAAATTTAGCCCACAAAATTTACACATTCTATCAAACTAATCTTGATT
Found at i:114450248 original size:16 final size:16
Alignment explanation
Indices: 114450215--114450248 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
114450205 AACCATTGTT
* *
114450215 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
114450231 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
114450247 AA
1 AA
114450249 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:114453070 original size:21 final size:21
Alignment explanation
Indices: 114453044--114453084 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
114453034 AGACGAGCAA
* *
114453044 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
114453065 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
114453085 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:114455023 original size:16 final size:16
Alignment explanation
Indices: 114454990--114455023 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
114454980 GGAGATTGTT
* *
114454990 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
114455006 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
114455022 AA
1 AA
114455024 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:114457107 original size:11 final size:10
Alignment explanation
Indices: 114457087--114457118 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
114457077 TCCTTTTCTC
114457087 TCTTTTTTTT
1 TCTTTTTTTT
114457097 TCTTTTCTTTT
1 TCTTTT-TTTT
114457108 TCTTTTTTTT
1 TCTTTTTTTT
114457118 T
1 T
114457119 TTGTGAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 11 0.52
11 10 0.48
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TCTTTTTTTT
Found at i:114457119 original size:11 final size:11
Alignment explanation
Indices: 114457089--114457119 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
114457079 CTTTTCTCTC
114457089 TTTTTTTTTCT
1 TTTTTTTTTCT
*
114457100 TTTCTTTTTCT
1 TTTTTTTTTCT
114457111 TTTTTTTTT
1 TTTTTTTTT
114457120 TGTGAATTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (11 bp):
TTTTTTTTTCT
Found at i:114459498 original size:55 final size:55
Alignment explanation
Indices: 114459425--114459534 Score: 202
Period size: 55 Copynumber: 2.0 Consensus size: 55
114459415 TAAATAAATA
* *
114459425 TTATATACTTTGTTAAATGGGCATGTGTCATGCTCCAAATTTATTAAATGTGCAT
1 TTATATACTTTGTTAAATGGGCATGTGCCATGCTCCAAATTTATTAAATGGGCAT
114459480 TTATATACTTTGTTAAATGGGCATGTGCCATGCTCCAAATTTATTAAATGGGCAT
1 TTATATACTTTGTTAAATGGGCATGTGCCATGCTCCAAATTTATTAAATGGGCAT
114459535 GTGTCATGTC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (55 bp):
TTATATACTTTGTTAAATGGGCATGTGCCATGCTCCAAATTTATTAAATGGGCAT
Found at i:114459528 original size:31 final size:31
Alignment explanation
Indices: 114459492--114459550 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
114459482 ATATACTTTG
114459492 TTAAATGGGCATGTGCCATG-CTCCAAATTTA
1 TTAAATGGGCATGTGCCATGTC-CCAAATTTA
*
114459523 TTAAATGGGCATGTGTCATGTCCCAAAT
1 TTAAATGGGCATGTGCCATGTCCCAAAT
114459551 CAGCAGGGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 25 0.96
32 1 0.04
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (31 bp):
TTAAATGGGCATGTGCCATGTCCCAAATTTA
Found at i:114466746 original size:12 final size:12
Alignment explanation
Indices: 114466726--114466766 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 12
114466716 TTTTCTTAAT
*
114466726 TTTAAATATTTA
1 TTTATATATTTA
114466738 TTTATATATTTA
1 TTTATATATTTA
114466750 TATATATATATTTA
1 T-T-TATATATTTA
114466764 TTT
1 TTT
114466767 CTCAATATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 13 0.50
13 2 0.08
14 11 0.42
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
TTTATATATTTA
Found at i:114466774 original size:16 final size:16
Alignment explanation
Indices: 114466755--114466787 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
114466745 ATTTATATAT
114466755 ATATATTTATTTCTCA
1 ATATATTTATTTCTCA
114466771 ATATATTTATTTCTCA
1 ATATATTTATTTCTCA
114466787 A
1 A
114466788 GTCCACCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.55
Consensus pattern (16 bp):
ATATATTTATTTCTCA
Found at i:114467323 original size:18 final size:18
Alignment explanation
Indices: 114467282--114467323 Score: 54
Period size: 16 Copynumber: 2.4 Consensus size: 18
114467272 AAAAAATTAT
114467282 TATTATATATAAAAAGTA
1 TATTATATATAAAAAGTA
114467300 TA--ATATATGAAAAA-TA
1 TATTATATAT-AAAAAGTA
114467316 TATTATAT
1 TATTATAT
114467324 TCACATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
16 10 0.48
17 5 0.24
18 6 0.29
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (18 bp):
TATTATATATAAAAAGTA
Found at i:114471774 original size:28 final size:28
Alignment explanation
Indices: 114471696--114471774 Score: 99
Period size: 28 Copynumber: 2.9 Consensus size: 28
114471686 AACTATGGTT
*
114471696 TTAAAG-ATTAAATGCAGGAAAAGGACA
1 TTAAAGCATTAAATGCAGGAAAAAGACA
* *
114471723 TTAAAGCATTAAATGTAGGGAAAAGACA
1 TTAAAGCATTAAATGCAGGAAAAAGACA
*
114471751 TT-AAGACATTAAATGCAAGAAAAA
1 TTAAAG-CATTAAATGCAGGAAAAA
114471775 AGCTACTGTC
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
27 9 0.20
28 35 0.80
ACGTcount: A:0.53, C:0.08, G:0.19, T:0.20
Consensus pattern (28 bp):
TTAAAGCATTAAATGCAGGAAAAAGACA
Found at i:114471917 original size:16 final size:16
Alignment explanation
Indices: 114471898--114471931 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
114471888 ACTTCTTCAA
114471898 TTTTT-TTTTGTTAAAG
1 TTTTTCTTTT-TTAAAG
114471914 TTTTTCTTTTTTAAAG
1 TTTTTCTTTTTTAAAG
114471930 TT
1 TT
114471932 CACCAATGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.18, C:0.03, G:0.09, T:0.71
Consensus pattern (16 bp):
TTTTTCTTTTTTAAAG
Found at i:114477433 original size:3 final size:3
Alignment explanation
Indices: 114477425--114477452 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
114477415 AGTTTAGTAT
114477425 ATG ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG A
114477453 ATATGGTCTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:114479127 original size:15 final size:15
Alignment explanation
Indices: 114479088--114479125 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
114479078 GATTTAGTCT
*
114479088 CTATACTTTAAATTG
1 CTATATTTTAAATTG
*
114479103 CTATATTTTAACTTG
1 CTATATTTTAAATTG
114479118 -TATATTTT
1 CTATATTTT
114479126 TATAATGTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.29, C:0.11, G:0.05, T:0.55
Consensus pattern (15 bp):
CTATATTTTAAATTG
Found at i:114481947 original size:39 final size:40
Alignment explanation
Indices: 114481893--114481987 Score: 111
Period size: 39 Copynumber: 2.4 Consensus size: 40
114481883 CATTGATTTG
* * *
114481893 AAAATCAACAATTCAAAAATTTATATATAAAAAATT-GCA
1 AAAATCAATAATTCAAAAATTTAAATATAAAAAATTAACA
* * * *
114481932 AAAATCAATAGTTCAATAATTTAAATGTAATAAATTAACA
1 AAAATCAATAATTCAAAAATTTAAATATAAAAAATTAACA
*
114481972 AAAATTAATAATTCAA
1 AAAATCAATAATTCAA
114481988 GTTCATATGT
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
39 30 0.65
40 16 0.35
ACGTcount: A:0.58, C:0.08, G:0.03, T:0.31
Consensus pattern (40 bp):
AAAATCAATAATTCAAAAATTTAAATATAAAAAATTAACA
Found at i:114485790 original size:29 final size:29
Alignment explanation
Indices: 114485756--114485811 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
114485746 GACCCTGTAC
114485756 GTTTTTAAAATTT-AGAATTTAGTCCCTAT
1 GTTTTT-AAATTTAAGAATTTAGTCCCTAT
**
114485785 GTTTTTATTTTTAAGAATTTAGTCCCT
1 GTTTTTAAATTTAAGAATTTAGTCCCT
114485812 CTACCTATGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 20 0.83
ACGTcount: A:0.27, C:0.11, G:0.11, T:0.52
Consensus pattern (29 bp):
GTTTTTAAATTTAAGAATTTAGTCCCTAT
Found at i:114488058 original size:21 final size:21
Alignment explanation
Indices: 114488032--114488074 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
114488022 GGATTTTATA
114488032 TGTTTATTTTGTTTTGATTTT
1 TGTTTATTTTGTTTTGATTTT
*
114488053 TGTTTATTTTGTTTTGTTTTT
1 TGTTTATTTTGTTTTGATTTT
114488074 T
1 T
114488075 TGCAGGCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.07, C:0.00, G:0.14, T:0.79
Consensus pattern (21 bp):
TGTTTATTTTGTTTTGATTTT
Found at i:114498294 original size:17 final size:17
Alignment explanation
Indices: 114498272--114498305 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
114498262 ATCCACTAAT
*
114498272 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
114498289 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
114498306 AATCCACTAC
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:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:114502933 original size:17 final size:17
Alignment explanation
Indices: 114502911--114502944 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
114502901 ATCCACTAAT
*
114502911 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
114502928 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
114502945 AATCCACTAC
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:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:114510451 original size:18 final size:18
Alignment explanation
Indices: 114510428--114510479 Score: 95
Period size: 18 Copynumber: 2.9 Consensus size: 18
114510418 TGATGTGATA
*
114510428 TATTTTTCTAAAACATTT
1 TATTTTTCTAAAACATTC
114510446 TATTTTTCTAAAACATTC
1 TATTTTTCTAAAACATTC
114510464 TATTTTTCTAAAACAT
1 TATTTTTCTAAAACAT
114510480 GTGATGAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.35, C:0.13, G:0.00, T:0.52
Consensus pattern (18 bp):
TATTTTTCTAAAACATTC
Done.