Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168137.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_38, whole genome shotgun sequence
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: 382840
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.40
Warning! 2000 characters in sequence are not A, C, G, or T
File 6 of 8
Found at i:287520 original size:16 final size:15
Alignment explanation
Indices: 287482--287531 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
287472 TTATTAAATC
287482 TTATAATATTTTAAA
1 TTATAATATTTTAAA
287497 TTAT-ATATTCATT-AA
1 TTATAATATT--TTAAA
*
287512 TTATAATATATTTATA
1 TTATAATAT-TTTAAA
287528 TTAT
1 TTAT
287532 TAATTTTTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
14 5 0.17
15 12 0.41
16 11 0.38
17 1 0.03
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (15 bp):
TTATAATATTTTAAA
Found at i:287814 original size:21 final size:20
Alignment explanation
Indices: 287777--287815 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
287767 GTATTAATTA
**
287777 ATTTAAATAATTTTAATATT
1 ATTTAAATAATAATAATATT
287797 ATTTAAATTAATAATAATA
1 ATTTAAA-TAATAATAATA
287816 ATAATATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
ATTTAAATAATAATAATATT
Found at i:288854 original size:16 final size:17
Alignment explanation
Indices: 288815--288855 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
288805 CGATAATTGT
* *
288815 TAATTATTATTTATTGA
1 TAATTATTACTTATTAA
288832 TAA-TATTACTTA-TAA
1 TAATTATTACTTATTAA
288847 TAATTATTA
1 TAATTATTA
288856 AATTATCTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 5 0.24
16 13 0.62
17 3 0.14
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (17 bp):
TAATTATTACTTATTAA
Found at i:288938 original size:26 final size:26
Alignment explanation
Indices: 288883--288942 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
288873 AACAAGAATT
*
288883 TATAATTATAAATAATATTTATAAAC
1 TATAATTAAAAATAATATTTATAAAC
*
288909 TATAATATAAAAATGATATTTA-ATAA-
1 TATAAT-TAAAAATAATATTTATA-AAC
288935 TATAATTA
1 TATAATTA
288943 TTATATTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
25 2 0.07
26 13 0.43
27 15 0.50
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (26 bp):
TATAATTAAAAATAATATTTATAAAC
Found at i:288962 original size:15 final size:15
Alignment explanation
Indices: 288938--288980 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
288928 TTAATAATAT
*
288938 AATTATTATATTATA
1 AATTAATATATTATA
288953 AATTAATATATTAT-
1 AATTAATATATTATA
288967 -ATTAATA-ATTATA
1 AATTAATATATTATA
288980 A
1 A
288981 TATTTCTAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
12 5 0.20
13 7 0.28
15 13 0.52
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
AATTAATATATTATA
Found at i:288983 original size:20 final size:20
Alignment explanation
Indices: 288928--288984 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
288918 AAAATGATAT
288928 TTAATAA-TATAATTATTATA
1 TTAATAATTATAA-TATTATA
288948 TT-ATAAATTA-ATATATTATA
1 TTAAT-AATTATA-ATATTATA
288968 TTAATAATTATAATATT
1 TTAATAATTATAATATT
288985 TCTAAGTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
19 2 0.06
20 24 0.75
21 6 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TTAATAATTATAATATTATA
Found at i:289025 original size:20 final size:21
Alignment explanation
Indices: 288941--289026 Score: 61
Period size: 20 Copynumber: 4.0 Consensus size: 21
288931 ATAATATAAT
*
288941 TATTATATT-ATAAATTAATA
1 TATTATATTAATAAATTATTA
*
288961 TATTATATTAAT-AATTATAA
1 TATTATATTAATAAATTATTA
* * *
288981 TATTTCTAAGTAAAAATATAATATTA
1 TA-TTAT-ATTAATAA-AT--TATTA
289007 TATT-TATTAATAAATTATTA
1 TATTATATTAATAAATTATTA
289027 ATAATCAAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
20 22 0.43
21 5 0.10
22 6 0.12
23 7 0.14
24 3 0.06
25 2 0.04
26 6 0.12
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (21 bp):
TATTATATTAATAAATTATTA
Found at i:290154 original size:8 final size:8
Alignment explanation
Indices: 290114--290159 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
290104 ATTATGTTTA
*
290114 ATTAAAAT
1 ATTATAAT
290122 ATTATAAT
1 ATTATAAT
*
290130 -TTA-ACT
1 ATTATAAT
290136 ATTATTAAT
1 ATTA-TAAT
290145 ATTATAAT
1 ATTATAAT
290153 ATTATAA
1 ATTATAA
290160 GTATAACTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
6 2 0.06
7 6 0.19
8 18 0.56
9 6 0.19
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (8 bp):
ATTATAAT
Found at i:290281 original size:21 final size:21
Alignment explanation
Indices: 290243--290301 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
290233 ATTTGATTAG
290243 AAATAAATTAGT-ATAATTATT
1 AAAT-AATTAGTAATAATTATT
* * *
290264 TAATTATTAGTAATAATTGTT
1 AAATAATTAGTAATAATTATT
*
290285 AAATAATTATTAATAAT
1 AAATAATTAGTAATAAT
290302 AATTGAGATA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
20 6 0.19
21 25 0.81
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (21 bp):
AAATAATTAGTAATAATTATT
Found at i:290314 original size:24 final size:24
Alignment explanation
Indices: 290264--290325 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
290254 TATAATTATT
* **
290264 TAATTATTAGTAATAATTGTTAAA
1 TAATTATTAATAATAATTGAGAAA
*
290288 TAATTATTAATAATAATTGAGATA
1 TAATTATTAATAATAATTGAGAAA
290312 TAATTTATATAATA
1 TAA-TTAT-TAATA
290326 TTAAGTATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 23 0.72
25 4 0.12
26 5 0.16
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (24 bp):
TAATTATTAATAATAATTGAGAAA
Found at i:291700 original size:23 final size:22
Alignment explanation
Indices: 291665--291719 Score: 76
Period size: 23 Copynumber: 2.5 Consensus size: 22
291655 TTTATATTTA
291665 TTAATATTAATAAATTAAATAT
1 TTAATATTAATAAATTAAATAT
* *
291687 TTAATAATTAATAATTTATATAT
1 TTAAT-ATTAATAAATTAAATAT
291710 TTAA-ATTAAT
1 TTAATATTAAT
291720 TTATATTAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 6 0.20
22 5 0.17
23 19 0.63
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TTAATATTAATAAATTAAATAT
Found at i:291721 original size:18 final size:19
Alignment explanation
Indices: 291698--291738 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
291688 TAATAATTAA
*
291698 TAATTTATA-TATTTAAAT
1 TAATTTATATTAGTTAAAT
291716 TAATTTATATTAGTTAAAT
1 TAATTTATATTAGTTAAAT
291735 TAAT
1 TAAT
291739 ATAAAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (19 bp):
TAATTTATATTAGTTAAAT
Found at i:291901 original size:23 final size:23
Alignment explanation
Indices: 291864--291910 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
291854 AATTATTAAA
*
291864 TTAATTAAATAATAATTAAATAT
1 TTAATTAAATAATAAATAAATAT
* * *
291887 TTAATTAATTTATAAATAATTAT
1 TTAATTAAATAATAAATAAATAT
291910 T
1 T
291911 AAAATTACTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TTAATTAAATAATAAATAAATAT
Found at i:292206 original size:10 final size:10
Alignment explanation
Indices: 292191--292215 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
292181 ACCAGTCATA
292191 TTAATTATCT
1 TTAATTATCT
292201 TTAATTATCT
1 TTAATTATCT
292211 TTAAT
1 TTAAT
292216 ATTAATTTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (10 bp):
TTAATTATCT
Found at i:292429 original size:32 final size:32
Alignment explanation
Indices: 292363--292442 Score: 87
Period size: 32 Copynumber: 2.5 Consensus size: 32
292353 AAAATACTTA
* *
292363 ATTTAACA-ATTAAATTA-ATTTAGTTATTAAT
1 ATTTAA-ATATTAAATAATATTTAATTATTAAT
292394 ATTTATAA-ATTAATATAATATTTAATTA-TAAT
1 ATTTA-AATATTAA-ATAATATTTAATTATTAAT
292426 ATTTAAATATTAAATAA
1 ATTTAAATATTAAATAA
292443 ACTATTGTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
31 17 0.40
32 18 0.42
33 8 0.19
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (32 bp):
ATTTAAATATTAAATAATATTTAATTATTAAT
Found at i:295986 original size:138 final size:137
Alignment explanation
Indices: 295825--296082 Score: 342
Period size: 138 Copynumber: 1.9 Consensus size: 137
295815 ATGATTTTTA
* * * *
295825 TTTTGTCATAAAACAATTGTTTCTTTTCATACAAGCTTATTC-ATATTAAAATAATACTAATTTA
1 TTTTGTCATAAAACAATTGTTTCTATTCATACAAACTTATTCGA-AATAAAATAATACTAA-TCA
* *
295889 ATAA-TATTCCAAAAATTAGTAAGTAAGAGATTTAAAAAATAAATATGTTTACTAAACCAGTTCA
64 ATAAGTATTCCAAAAATTAATAAGTAAGAGATTTAAAAAA-AAATATGTTTACCAAACCAGTTCA
295953 AATAGTTTGG
128 AATAGTTTGG
*
295963 TTTTGTCATAAAAC-ATATGTTTCTATTCATACAAATTTATTCGAAATAAAATAATACTAATCAA
1 TTTTGTCATAAAACAAT-TGTTTCTATTCATACAAACTTATTCGAAATAAAATAATACTAATCAA
** ** * *
296027 TAAGTATTGTAAAAATTAATAAGTTGGAGATTTTAAAAAAAATTTGTTTACCAAAC
65 TAAGTATTCCAAAAATTAATAAGTAAGAGATTTAAAAAAAAATATGTTTACCAAAC
296083 AAATTTAAAT
Statistics
Matches: 104, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
137 23 0.22
138 80 0.77
139 1 0.01
ACGTcount: A:0.44, C:0.10, G:0.09, T:0.38
Consensus pattern (137 bp):
TTTTGTCATAAAACAATTGTTTCTATTCATACAAACTTATTCGAAATAAAATAATACTAATCAAT
AAGTATTCCAAAAATTAATAAGTAAGAGATTTAAAAAAAAATATGTTTACCAAACCAGTTCAAAT
AGTTTGG
Found at i:296406 original size:15 final size:15
Alignment explanation
Indices: 296386--296418 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
296376 ATACTAATTT
296386 ATTAATA-GTTAAAAA
1 ATTAATATG-TAAAAA
296401 ATTAATATGTAAAAA
1 ATTAATATGTAAAAA
296416 ATT
1 ATT
296419 TTAAAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 16 0.94
16 1 0.06
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (15 bp):
ATTAATATGTAAAAA
Found at i:296487 original size:181 final size:178
Alignment explanation
Indices: 295962--296553 Score: 645
Period size: 180 Copynumber: 3.3 Consensus size: 178
295952 AAATAGTTTG
** * *
295962 GTTTTGTCATAAAAC-ATATGTTTCTATTCATACAAATTTATTCGAAATAAAATAATACTAA-TC
1 GTTTTGTCATAAAACAAT-TGTTTCTATTCATACAAGCTTATTTGAAATAAAATAATACTAATTT
* ** * * ** *
296025 AATAAGTATTGTAAAAATTAATAAGTTGGAGATTTTAAAAA-AAATTTGTTTACCAAACAAATTT
65 AATAA-TATT-AAAAAATTAATAAG-TAAAAATTTTAAAAATAAATATGTTTACTGAAC-AATTC
* * ** * * *
296089 AAATAGTCATGTCCGTTTGAACTATTATCTATTTCAAATTGTTATGACATTTT
126 AAATAGTTATGACTATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTT
* * * *
296142 GTTTTGTCCTAAATCAATTGTTTCTATTTAAACAAGCTTATTCTG-AATAAAATAATA-TAAATT
1 GTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATT-TGAAATAAAATAATACT-AATT
* * * *
296205 TACTAATATTTCAAAAATTAATAAGTAAAAATTTTAAAAATAAATATGTTTTCTGAACATGTTCA
64 TAATAATA-TTAAAAAATTAATAAGTAAAAATTTTAAAAATAAATATGTTTACTGAACA-ATTCA
* *
296270 AATAGTTATGACTCTTTGAACAATTATCTATTTCAAATAGTTATGACCCTTT
127 AATAGTTATGACTATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTT
* * * *
296322 ATTTTGTCATAAACCAATTGTTTCTGTTCATACAAGCATATTTGAAATAAAATAATACTAATTTA
1 GTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTTGAAATAAAATAATACTAATTTA
* *
296387 TTAATAGTTAAAAAATTAATATGTAAAAAATTTTAAAAATAAATATGTTTACTGAACTAATTCAA
66 ATAATA-TTAAAAAATTAATAAGT-AAAAATTTTAAAAATAAATATGTTTACTGAAC-AATTCAA
* * * *
296452 ATCGTTATGACTATTTGAACAATTTTTTATTTCAAATAGTTATGATCTTTT
128 ATAGTTATGACTATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTT
* * * * *
296503 GTTTTGTCCTAAAACAATTGTTTCTATTCGTACAAGTTTATTCGGAATAAA
1 GTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTTGAAATAAA
296554 TTTATTTACT
Statistics
Matches: 346, Mismatches: 55, Indels: 21
0.82 0.13 0.05
Matches are distributed among these distances:
179 16 0.05
180 195 0.56
181 134 0.39
182 1 0.00
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.41
Consensus pattern (178 bp):
GTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTTGAAATAAAATAATACTAATTTA
ATAATATTAAAAAATTAATAAGTAAAAATTTTAAAAATAAATATGTTTACTGAACAATTCAAATA
GTTATGACTATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTT
Found at i:296800 original size:299 final size:303
Alignment explanation
Indices: 296284--296843 Score: 749
Period size: 299 Copynumber: 1.9 Consensus size: 303
296274 GTTATGACTC
* *
296284 TTTGAACAATTATCTATTTCAAATAGTTATGACCCTTTATTTTGTCATAAACCAATTGTTTCTGT
1 TTTGAACAATTATCTATTTCAAATAGTTATGACCCTTTATTTTGTCATAAAACAATTGTTTCTAT
* * * * *
296349 TCATACAAGCATATTTGAAATAAAATAATACTAATTTATTAATAGTTAAAAAATTAATATGTAAA
66 ACATACAAGAATATTTCAAAAAAAATAATACTAATCTATTAATAGTTAAAAAATTAATA-GTAAA
* * * *
296414 AAATTTTAAAAATAAATATGTTTACTGAACTAATTCAAATCGTTATGACTATTTGAACAATTTTT
130 AAATTTTAAAAATAAATATATTTACTGAACTAATTCAAATAGTTATGACAATTTGAACAATTATT
* * * * *
296479 TATTTCAAATAGTTATGATCTTTTGTTTTGTCCTAAAACAATTGTTTCTATTCGTACAAGTTTAT
195 TATATCAAATAGTTATGATC-TTTATTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTAT
296544 TCGGAATAAATTTATTTACTGAATAAGTCCAAATAGTCATGTCCA
259 TCGGAATAAATTTATTTACTGAATAAGTCCAAATAGTCATGTCCA
* * * *
296589 TTTGAATACTTATCTATTTTAAATAGTTATGA-CCTTTTTTTTGTCATAAAACAATTGTTTCTAT
1 TTTGAACAATTATCTATTTCAAATAGTTATGACCCTTTATTTTGTCATAAAACAATTGTTTCTAT
* ** *
296653 ACATACAA-AAT-TATTCAAAAAAAATAATACTAATCTATTAATATTTTGAAAATT-A-A-TAAG
66 ACATACAAGAATAT-TTCAAAAAAAATAATACTAATCTATTAATAGTTAAAAAATTAATAGTAAA
* * *
296713 AGA-TTTAAAAACTAAATTTATTTACTAGAA-TAGTTCAAATAGTTATGACAATTTGAACAATTA
130 AAATTTTAAAAA-TAAATATATTTACT-GAACTAATTCAAATAGTTATGACAATTTGAACAATTA
* * *
296776 TTTATATCAAATTGTTATGATCTTTATTTTGTCATAAAACAATTGTTTCTTTTCATATAAGCTTA
193 TTTATATCAAATAGTTATGATCTTTATTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTA
296841 TTC
258 TTC
296844 ATATTAAAAT
Statistics
Matches: 222, Mismatches: 30, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
298 48 0.22
299 66 0.30
300 3 0.01
301 1 0.00
302 2 0.01
303 37 0.17
304 36 0.16
305 29 0.13
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (303 bp):
TTTGAACAATTATCTATTTCAAATAGTTATGACCCTTTATTTTGTCATAAAACAATTGTTTCTAT
ACATACAAGAATATTTCAAAAAAAATAATACTAATCTATTAATAGTTAAAAAATTAATAGTAAAA
AATTTTAAAAATAAATATATTTACTGAACTAATTCAAATAGTTATGACAATTTGAACAATTATTT
ATATCAAATAGTTATGATCTTTATTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTC
GGAATAAATTTATTTACTGAATAAGTCCAAATAGTCATGTCCA
Found at i:296844 original size:175 final size:176
Alignment explanation
Indices: 296550--296873 Score: 436
Period size: 175 Copynumber: 1.8 Consensus size: 176
296540 TTATTCGGAA
* * * * * *
296550 TAAATTTATTTACTGAATAAGTCCAAATAGTCATGTCCATTTGAATACTTATCTATTTTAAATAG
1 TAAATTTATTTACTGAATAAGTCCAAATAGTCATGACAATTTGAACAATTATCTATATCAAATAG
*
296615 TTATGACCTTTTTTTTGTCATAAAACAATTGTTTCTATACATACAAAATTATTCA-AAAAAAATA
66 TTATGACCTTTATTTTGTCATAAAACAATTGTTTCTATACATACAAAATTATTCATAAAAAAATA
*
296679 ATACTAATCTATTAATATTTTGAAAATTAATAAGAGATTTAAAAAC
131 ATACTAATCTAATAATATTTTGAAAATTAATAAGAGATTTAAAAAC
* * * *
296725 TAAATTTATTTACTAGAAT-AGTTCAAATAGTTATGACAATTTGAACAATTATTTATATCAAATT
1 TAAATTTATTTACT-GAATAAGTCCAAATAGTCATGACAATTTGAACAATTATCTATATCAAATA
* * * * ** **
296789 GTTATGATCTTTATTTTGTCATAAAACAATTGTTTCTTTTCATATAAGCTTATTCATATTAAAAT
65 GTTATGACCTTTATTTTGTCATAAAACAATTGTTTCTATACATACAAAATTATTCATAAAAAAAT
*
296854 AATACTAATTTAATAATATT
130 AATACTAATCTAATAATATT
296874 CCAAAAATTA
Statistics
Matches: 126, Mismatches: 21, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
175 98 0.78
176 28 0.22
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.43
Consensus pattern (176 bp):
TAAATTTATTTACTGAATAAGTCCAAATAGTCATGACAATTTGAACAATTATCTATATCAAATAG
TTATGACCTTTATTTTGTCATAAAACAATTGTTTCTATACATACAAAATTATTCATAAAAAAATA
ATACTAATCTAATAATATTTTGAAAATTAATAAGAGATTTAAAAAC
Found at i:297181 original size:182 final size:179
Alignment explanation
Indices: 296598--297234 Score: 578
Period size: 182 Copynumber: 3.6 Consensus size: 179
296588 ATTTGAATAC
* *
296598 TTATCTATTTTAAATAGTTATGACCTTTT-TTTTGTCATAAAACAATTGTTTCTATACATACAAA
1 TTATCTATTTTAAATAGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCAATTCATACAAA
* * * **
296662 ATTATTCA-AAAAAAATAATACTAATCTATTAATATTTTGAAAATTAAT--AA-GAGATTTAAAA
66 CTTATTCAGAATAAAATAATACTAATTTATTAATATTTAAAAAATTAATAAAATGAGATTTAAAA
* * * * * *
296723 ACTAAATTTATTTACTAGAATAGTTCAAATAGTTATGACAATTTGAACAA
131 AATAAATCTGTTTA-TCGAATAGTTCAAATAGTTATGACTATTTAAACAA
* * * * * * ** * *
296773 TTATTTATATCAAATTGTTATGATC-TTTATTTTGTCATAAAACAATTGTTTCTTTTCATATAAG
1 TTATCTATTTTAAATAGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCAATTCATACAAA
* * * ** *
296837 CTTATTCATATTAAAATAATACTAATTTAATAATATTCCAAAAATTAGTAAGTAAT-AGATTTAA
66 CTTATTCAGAATAAAATAATACTAATTTATTAATATTTAAAAAATTAATAA--AATGAGATTTAA
* ** * * ** * *
296901 AAAATAAATGTGTTTGCCAAACCAGTTCAAATAGTTAAAACTA-TTAGGATAA
129 AAAATAAATCTGTTTATCGAA-TAGTTCAAATAGTTATGACTATTTA-AACAA
* * * *
296953 TTATCTATTTTAGATTAGTT-TGACCTTTTGTTTAGTCACAAAACAATTATTTCAATTCATACAA
1 TTATCTATTTTA-AATAGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCAATTCATACAA
* * * * *
297017 GCTTATTTAGAATAAATTAATGCTAATTTATTAACATTTAAAAAATTAATAAACATGAGATTTAA
65 ACTTATTCAGAATAAAATAATACTAATTTATTAATATTTAAAAAATTAATAAA-ATGAGATTT-A
* * *
297082 AAAAATAAATCTGTTTATCGAATAAATTAAAATAGATT-TGATTATTTAAACAA
128 AAAAATAAATCTGTTTATCGAAT-AGTTCAAATAG-TTATGACTATTTAAACAA
* * * *
297135 TTATCTA-TTTAAAGTCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCAGTTTATAAAA
1 TTATCTATTTTAAA-TAGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCAATTCATACAA
* *
297199 ACTTA-TCTGAAATAAAATAATACTACTTTATTAATA
65 ACTTATTCAG-AATAAAATAATACTAATTTATTAATA
297235 GTCATGTCCA
Statistics
Matches: 360, Mismatches: 82, Indels: 33
0.76 0.17 0.07
Matches are distributed among these distances:
174 3 0.01
175 58 0.16
176 32 0.09
179 5 0.01
180 58 0.16
181 94 0.26
182 105 0.29
183 5 0.01
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.41
Consensus pattern (179 bp):
TTATCTATTTTAAATAGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCAATTCATACAAA
CTTATTCAGAATAAAATAATACTAATTTATTAATATTTAAAAAATTAATAAAATGAGATTTAAAA
AATAAATCTGTTTATCGAATAGTTCAAATAGTTATGACTATTTAAACAA
Found at i:297468 original size:165 final size:169
Alignment explanation
Indices: 297245--298046 Score: 454
Period size: 181 Copynumber: 4.6 Consensus size: 169
297235 GTCATGTCCA
* * * * * * * *
297245 TTTGAACTATTCTCTATTTCAAATTGTTATAACATTTTGTTTTATCCTAAATCAATTGTTTCTAT
1 TTTGAACAATTATCTATTTCAAATAGTTATGACACTTTATTTTGTCCTAAAACAATTGTTTCTAT
* *
297310 TTAAACAAGCTTATTCTGAATAAAATAATA-TAA-ATTT-ATTAACAAGT-AAAAATTTTAAAAA
66 TCATACAAGCTTATTCTGAATAAAATAATATTAATATTTAATTAACAAGTAAAAAATTTTAAAAA
*
297371 TAAATATGTTT-TCTGAAC-ATGTTCAAATAGTTATGACTC
131 TAAATATGTTTAT-TGAACTA-ATTCAAATAGTTATGACTC
* * *
297410 TTTGAACAATTATCTATTTCAAATAGTTATGACCCTTTATTTTGTCATAAACCAATTGTTTCTAT
1 TTTGAACAATTATCTATTTCAAATAGTTATGACACTTTATTTTGTCCTAAAACAATTGTTTCTAT
* *
297475 TCATACAAGCATATT-TGAAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAGTAA
66 TCATACAAGCTTATTCTG-AAT---A-AA-A-TAA--TATTAATATTT----AATTAACAAGTAA
* *
297539 AAAATTTTAAAAATAAATATGTTTATTGAACTAATTCAAATCGTTATGACTG
118 AAAATTTTAAAAATAAATATGTTTATTGAACTAATTCAAATAGTTATGACTC
* * * * * *
297591 TTTGAACAATTTTTTTTTTCAAATAGTTATGA-TCTTTTTTTTCGTCCTAAAACAATTGTTTATA
1 TTTGAACAATTATCTATTTCAAATAGTTATGACACTTTATTTT-GTCCTAAAACAATTGTTTCTA
* * * * *
297655 TTCGTACAAGTTTATTCGGAATAAAATAATACTAATTAATTAATACTTTGAA-AGTTAGTAGGTA
65 TTCATACAAGCTTATTCTGAATAAAATAATATTAA-T-ATT--TA-ATT-AACA---AGTA---A
* * * * * * * * *
297719 AGAGATATAAAAAATAAATCTATTTACTGAA-TAAGTCCAAATAGTCATGTC-C
118 A-AAATTTTAAAAATAAATATGTTTATTGAACTAA-TTCAAATAGTTATGACTC
* * * * * *
297771 ATTTGAACACTTATCTATTTTAAATAGTTATGATC-TTTTTTTTTGTCATAAAACAATTGTTTTT
1 -TTTGAACAATTATCTATTTCAAATAGTTATGA-CACTTTATTTTGTCCTAAAACAATTGTTTCT
* * ** * * * * * *
297835 ATACATGCAAAATTATTC-AAAAAATAATAATACTAATCTATTAATATTTTAAAAATTAATAAGA
64 ATTCATACAAGCTTATTCTGAATAA-AATAATATTAA--TATT--TA-ATTAACAAGTAA-AA-A
* * * * **
297899 GA-TTTAAAAACTAAAT-TATTTACTAGAAC-AGTTCAGATAGTTATGACAA
121 -ATTTTAAAAA-TAAATATGTTTA-TTGAACTAATTCAAATAGTTATGACTC
* * * * *
297948 TTTGAACAATTAAT-TATATCAAATTGTTATGA-TCTTTATTTTGTCATAAAACAATTGTTTCTT
1 TTTGAACAATT-ATCTATTTCAAATAGTTATGACACTTTATTTTGTCCTAAAACAATTGTTTCTA
* * *
298011 TTCATATAAGCTTATTCAT-ATTAAAATAATACTAAT
65 TTCATACAAGCTTATTC-TGAATAAAATAATATTAAT
298047 TTAATAATAT
Statistics
Matches: 499, Mismatches: 86, Indels: 96
0.73 0.13 0.14
Matches are distributed among these distances:
164 2 0.00
165 70 0.14
168 1 0.00
169 2 0.00
170 1 0.00
171 3 0.01
173 9 0.02
174 7 0.01
175 63 0.13
176 54 0.11
177 19 0.04
178 4 0.01
180 28 0.06
181 224 0.45
182 12 0.02
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (169 bp):
TTTGAACAATTATCTATTTCAAATAGTTATGACACTTTATTTTGTCCTAAAACAATTGTTTCTAT
TCATACAAGCTTATTCTGAATAAAATAATATTAATATTTAATTAACAAGTAAAAAATTTTAAAAA
TAAATATGTTTATTGAACTAATTCAAATAGTTATGACTC
Found at i:297645 original size:647 final size:650
Alignment explanation
Indices: 296104--297832 Score: 1738
Period size: 647 Copynumber: 2.6 Consensus size: 650
296094 GTCATGTCCG
* * * * *
296104 TTTGAACTATTATCTATTTCAAATTGTTATGACATTTTGTTTTGTCCTAAATCAATTGTTTCTAT
1 TTTGAACAATTATCTATTTCAAATTGTTATGACACTTTATTTTGTCATAAAACAATTGTTTCTAT
* * *
296169 TTAAACAAGCTTATTCTG-AATAAAATAATA-TAAATTTACTAATATTTCAAAAATTAATAAGT-
66 TCATACAAGCTTATT-TGAAATAAAATAATACT-AATTTAATAATATTTCAAAAATTAATAAGTA
* *
296231 AAAAATTTTAAAAATAAATATGTTTTCTGAACATGTTCAAATAGTTATGACTCTTTGAACAATTA
129 AAAAATTTTAAAAATAAATATGTTTT-TGAACA-GTTCAAATAGTTATGACTATTTGAACAATTT
* * * * * ** *
296296 TCTATTTCAAATAGTTATGACCCTTTATTTTGTCATAAACCAATTGTTTCTGTTCATACAAGCAT
192 TTTTTTTCAAATAGTTATGA-CCTTTTTTTTGTCCTAAAACAATTGTTTCAATTCATACAAGCTT
* * * * *
296361 ATTTGAAATAAAATAATACTAATTTATTAATAGTTAAAAAATTAATATGTAAAAAATTTTAAAAA
256 ATTTG-AATAAAATAATACTAATTTATTAATATTTAAAAAATTAATAAGTAAGAGATTTAAAAAA
* * * * *
296426 TAAATATGTTTACTGAACT-AATTCAAATCGTTATGACTATTTGAACAATTTTTTATTTCAAATA
320 TAAATCTGTTTACTGAA-TAAATTCAAATAGTT-TGATTATTTGAACAATTATCTATTT-AAATA
* * * ** *
296490 GTTATGATCTTTTGTTTTGTCCTAAAACAATTGTTTCTATTCGTACAAGTTTATTCGGAATAAAT
382 GTTATGATCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATAAAAACTTATTCGAAATAAAT
* * * *
296555 TTATTTACTGAATAAGTCCAAATAGTCATGTCCATTTGAATACTTATCTATTTTAAATAGTTATG
447 ATATATACTGAATAAGT-CAAATAGTCATGTCCATTTGAATACTTATCTATTTCAAATAGTTATA
* * *
296620 ACCTTTTTTTTGTCATAAAACAATTGTTTCTATACATACAAAATTATTCAAAAAAAATAATACTA
511 ACATTTTTTTTATCATAAAACAATTGTTTCTATACAAACAAAATTATTCAAAAAAAATAATACTA
* * *
296685 ATCTATTAATATTTTGAAAATTAATAAGAGATTTAAAAACTAAATTTATTTACTAGAATAGTTCA
576 A--TATT-ATA-TTTGAAAAGTAATAAGAGATTTAAAAACTAAATATATTTACTAGAACAGTTCA
296750 AATAGTTATGACAA
637 AATAGTTATGACAA
* * * *
296764 TTTGAACAATTATTTATATCAAATTGTTATGA-TCTTTATTTTGTCATAAAACAATTGTTTCTTT
1 TTTGAACAATTATCTATTTCAAATTGTTATGACACTTTATTTTGTCATAAAACAATTGTTTCTAT
* * * * *
296828 TCATATAAGCTTA-TTCATATTAAAATAATACTAATTTAATAATATTCCAAAAATTAGTAAGTAA
66 TCATACAAGCTTATTTGA-AATAAAATAATACTAATTTAATAATATTTCAAAAATTAATAAGTAA
* * * * *** ** * * *
296892 TAGATTTAAAAAATAAATGTGTTTGCCAAACCAGTTCAAATAGTTAAAACTATTAGGATAATTAT
130 AAAATTTTAAAAATAAATATGTTT-TTGAA-CAGTTCAAATAGTTATGACTATTTGAACAATT-T
* * * * *
296957 CTATTTT-AGATTAGTT-TGACCTTTTGTTTAGTCAC-AAAACAATTATTTCAATTCATACAAGC
192 TTTTTTTCA-AATAGTTATGACCTTTT-TTTTGTC-CTAAAACAATTGTTTCAATTCATACAAGC
* * * ** *
297019 TTATTTAGAATAAATTAATGCTAATTTATTAACATTTAAAAAATTAATAAACATGAGATTTAAAA
254 TTATTT-GAATAAAATAATACTAATTTATTAATATTTAAAAAATTAATAAGTAAGAGATTT-AAA
* *
297084 AAATAAATCTGTTTA-TCGAATAAATTAAAATAGATTTGATTATTTAAACAATTATCTATTTAAA
317 AAATAAATCTGTTTACT-GAATAAATTCAAATAG-TTTGATTATTTGAACAATTATCTATTTAAA
* * *
297148 GTCGTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTC-AGTTTATAAAAACTTA-TCTGAAA
380 -TAGTTATGATCTTTTGTTTTGTCATAAAACAATTGTTTCTA-TTCATAAAAACTTATTC-GAAA
* * * * *
297211 TAAA-ATA-ATACT-ACTTTA-T-TAATAGTCATGTCCATTTGAACTA-TTCTCTATTTCAAATT
442 TAAATATATATACTGA-ATAAGTCAAATAGTCATGTCCATTTGAA-TACTTATCTATTTCAAATA
* * ** ** * *
297270 GTTATAACATTTTGTTTTATCCTAAATCAATTGTTTCTATTTAAACAAGCTTATTCTGAATAAAA
505 GTTATAACATTTT-TTTTATCATAAAACAATTGTTTCTATACAAACAAAATTATTC-AAAAAAAA
* * *
297335 TAATA-TAA-ATT-TA-TT-AACAAGTAA-AA-A-TTTTAAAAA-TAAATATGTTTTCT-GAACA
568 TAATACTAATATTATATTTGAA-AAGTAATAAGAGATTTAAAAACTAAATATATTTACTAGAACA
**
297390 TGTTCAAATAGTTATGACTC
632 -GTTCAAATAGTTATGACAA
* * *
297410 TTTGAACAATTATCTATTTCAAATAGTTATGACCCTTTATTTTGTCATAAACCAATTGTTTCTAT
1 TTTGAACAATTATCTATTTCAAATTGTTATGACACTTTATTTTGTCATAAAACAATTGTTTCTAT
* *
297475 TCATACAAGCATATTTGAAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAGTAAA
66 TCATACAAGCTTATTTGAAATAAAATAATACTAATTTAATAATATTTCAAAAATTAATAAGTAAA
* * *
297540 AAATTTTAAAAATAAATATGTTTATTGAACTAATTCAAATCGTTATGACTGTTTGAACAATTTTT
131 AAATTTTAAAAATAAATATGTTT-TTGAAC-AGTTCAAATAGTTATGACTATTTGAACAATTTTT
* * *
297605 TTTTTCAAATAGTTATGATCTTTTTTTTCGTCCTAAAACAATTGTTT-ATATTCGTACAAGTTTA
194 TTTTTCAAATAGTTATGACCTTTTTTTT-GTCCTAAAACAATTGTTTCA-ATTCATACAAGCTTA
* * * * * * *
297669 TTCGGAATAAAATAATACTAATTAATTAATACTTT-GAAAGTTAGTAGGTAAGAGATATAAAAAA
257 TT-TGAATAAAATAATACTAATTTATTAATA-TTTAAAAAATTAATAAGTAAGAGATTTAAAAAA
* * * * * *
297733 TAAATCTATTTACTGAATAAGTCCAAATAGTCATG-TCCATTTGAACACTTATCTATTTTAAATA
320 TAAATCTGTTTACTGAATAAATTCAAATAGT-TTGAT-TATTTGAACAATTATCTA-TTTAAATA
*
297797 GTTATGATCTTTTTTTTTGTCATAAAACAATTGTTT
382 GTTATGATCTTTTGTTTTGTCATAAAACAATTGTTT
297833 TTATACATGC
Statistics
Matches: 871, Mismatches: 160, Indels: 90
0.78 0.14 0.08
Matches are distributed among these distances:
645 6 0.01
646 157 0.18
647 219 0.25
648 7 0.01
649 4 0.00
650 7 0.01
652 2 0.00
654 3 0.00
656 44 0.05
657 40 0.05
658 14 0.02
659 85 0.10
660 168 0.19
661 113 0.13
662 2 0.00
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (650 bp):
TTTGAACAATTATCTATTTCAAATTGTTATGACACTTTATTTTGTCATAAAACAATTGTTTCTAT
TCATACAAGCTTATTTGAAATAAAATAATACTAATTTAATAATATTTCAAAAATTAATAAGTAAA
AAATTTTAAAAATAAATATGTTTTTGAACAGTTCAAATAGTTATGACTATTTGAACAATTTTTTT
TTTCAAATAGTTATGACCTTTTTTTTGTCCTAAAACAATTGTTTCAATTCATACAAGCTTATTTG
AATAAAATAATACTAATTTATTAATATTTAAAAAATTAATAAGTAAGAGATTTAAAAAATAAATC
TGTTTACTGAATAAATTCAAATAGTTTGATTATTTGAACAATTATCTATTTAAATAGTTATGATC
TTTTGTTTTGTCATAAAACAATTGTTTCTATTCATAAAAACTTATTCGAAATAAATATATATACT
GAATAAGTCAAATAGTCATGTCCATTTGAATACTTATCTATTTCAAATAGTTATAACATTTTTTT
TATCATAAAACAATTGTTTCTATACAAACAAAATTATTCAAAAAAAATAATACTAATATTATATT
TGAAAAGTAATAAGAGATTTAAAAACTAAATATATTTACTAGAACAGTTCAAATAGTTATGACAA
Found at i:297680 original size:181 final size:179
Alignment explanation
Indices: 297347--298370 Score: 774
Period size: 181 Copynumber: 5.7 Consensus size: 179
297337 ATATAAATTT
* * *
297347 ATTAACAAGTAAAA-ATTTTAAAAATAAATATGTTT-TCTGAACATGTTCAAATAGTTATGACTC
1 ATTAATAAGTAAAAGATTTTAAAAATAAATATGTTTAT-TGAACA-ATTCAAATAGTTATGACTA
* * *
297410 TTTGAACAATTATCTATTTCAAATAGTTATGACCCTTTATTTTGTCATAAACCAATTGTTTCTAT
64 TTTGAACAATTATTTATTTCAAATAGTTATGA-TCTTTATTTTGTCATAAAACAATTGTTTCTAT
* *
297475 TCATACAAGCATATTTGAAATAAAATAATACTAATTTATTAATATTTCAAAA
128 TCATACAAGCTTATTCGAAATAAAATAATACTAATTTATTAATATTTCAAAA
* * *
297527 ATTAATAAGTAAAAAATTTTAAAAATAAATATGTTTATTGAACTAATTCAAATCGTTATGACTGT
1 ATTAATAAGTAAAAGATTTTAAAAATAAATATGTTTATTGAAC-AATTCAAATAGTTATGACTAT
* * * * *
297592 TTGAACAATTTTTTTTTTCAAATAGTTATGATCTTTTTTTTCGTCCTAAAACAATTGTTTATATT
65 TTGAACAATTATTTATTTCAAATAGTTATGATCTTTATTTT-GTCATAAAACAATTGTTTCTATT
* * * * *
297657 CGTACAAGTTTATTCGGAATAAAATAATACTAATTAATTAATACTTT-GAAA
129 CATACAAGCTTATTCGAAATAAAATAATACTAATTTATTAATA-TTTCAAAA
* * * * * * * * * * * * * *
297708 GTTAGTAGGTAAGAGATATAAAAAATAAATCTATTTACTGAATAAGTCCAAATAGTCATGTCCAT
1 ATTAATAAGTAAAAGATTTTAAAAATAAATATGTTTATTGAACAA-TTCAAATAGTTATGACTAT
* * * * * *
297773 TTGAACACTTATCTATTTTAAATAGTTATGATCTTTTTTTTTGTCATAAAACAATTGTTTTTATA
65 TTGAACAATTATTTATTTCAAATAGTTATGATC-TTTATTTTGTCATAAAACAATTGTTTCTATT
* ** * * *
297838 CATGCAAAATTATTC-AAAAAATAATAATACTAATCTATTAATATTTTAAAA
129 CATACAAGCTTATTCGAAATAA-AATAATACTAATTTATTAATATTTCAAAA
* * * * *
297889 ATTAATAAG----AGA-TTTAAAAACTAAAT-TATTTACTAGAACAGTTCAGATAGTTATGACAA
1 ATTAATAAGTAAAAGATTTTAAAAA-TAAATATGTTTA-TTGAACAATTCAAATAGTTATGACTA
* * * *
297948 TTTGAACAATTAATTATATCAAATTGTTATGATCTTTATTTTGTCATAAAACAATTGTTTCTTTT
64 TTTGAACAATTATTTATTTCAAATAGTTATGATCTTTATTTTGTCATAAAACAATTGTTTCTATT
* * * *
298013 CATATAAGCTTATTC-ATATTAAAATAATACTAATTTAATAATATTCCAAAA
129 CATACAAGCTTATTCGA-AATAAAATAATACTAATTTATTAATATTTCAAAA
* * ** * * ** * * **
298064 ATTAGTTAGTAGCAGATTTAAAAAATAAATGTGTTT-GCGAACCAGTTTAAATAGTTAAAACTAT
1 ATTAATAAGTAAAAGATTTTAAAAATAAATATGTTTATTGAA-CAATTCAAATAGTTATGACTAT
* * * * * * * * * *
298128 TAGGATAATTATCTATTTTAGATCAGTT-TGACCTTT-TGTTTAGTCACAAAACAATTATTTCAA
65 TTGAACAATTATTTATTTCAAAT-AGTTATGATCTTTAT-TTT-GTCATAAAACAATTGTTTCTA
* * * * *
298191 TTCATATAAGCTTATT-TAGAATAAATTAATGCTAATTTATTAACA-TTCGAAAA
127 TTCATACAAGCTTATTCGA-AATAAAATAATACTAATTTATTAATATTTC-AAAA
* ** * * * * * * *
298244 ATTAATAAGCATGAGATTTAAAAAAATAAATTTATTTATCGAATAAATTAAAATAGATT-TGATT
1 ATTAATAAGTAAAAGATTT-TAAAAATAAATATGTTTATTGAA-CAATTCAAATAG-TTATGACT
* * * *
298308 ATTTAAATAATTATCTATTT-AAAGTCA-TTATGA-CATTTTGTTTTGTCATAAAACAATTGTTT
63 ATTTGAACAATTATTTATTTCAAA-T-AGTTATGATC--TTTATTTTGTCATAAAACAATTGTTT
298370 C
124 C
298371 AGTTTATAAA
Statistics
Matches: 672, Mismatches: 140, Indels: 62
0.77 0.16 0.07
Matches are distributed among these distances:
175 71 0.11
176 56 0.08
177 12 0.02
178 4 0.01
179 52 0.08
180 117 0.17
181 283 0.42
182 68 0.10
183 8 0.01
184 1 0.00
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.41
Consensus pattern (179 bp):
ATTAATAAGTAAAAGATTTTAAAAATAAATATGTTTATTGAACAATTCAAATAGTTATGACTATT
TGAACAATTATTTATTTCAAATAGTTATGATCTTTATTTTGTCATAAAACAATTGTTTCTATTCA
TACAAGCTTATTCGAAATAAAATAATACTAATTTATTAATATTTCAAAA
Found at i:298423 original size:11 final size:12
Alignment explanation
Indices: 298391--298425 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
298381 AACTTGTATG
298391 AATATATTTAAT
1 AATATATTTAAT
298403 AATATATTTAAT
1 AATATATTTAAT
298415 AAT-TATTTAAT
1 AATATATTTAAT
298426 CTAATTATGG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 8 0.35
12 15 0.65
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
AATATATTTAAT
Found at i:298504 original size:27 final size:27
Alignment explanation
Indices: 298440--298505 Score: 64
Period size: 29 Copynumber: 2.4 Consensus size: 27
298430 TTATGGTAAA
298440 TATAATAA-TATATTTATAAAATTAAT
1 TATAATAATTATATTTATAAAATTAAT
* *
298466 TATTAATTTAATTA-ATTTATCATAATTTAT
1 TA-TAA--TAATTATATTTAT-AAAATTAAT
298496 TATAATAATT
1 TATAATAATT
298506 GTTCTTTATA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
26 2 0.06
27 8 0.24
29 12 0.36
30 11 0.33
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (27 bp):
TATAATAATTATATTTATAAAATTAAT
Found at i:298888 original size:20 final size:20
Alignment explanation
Indices: 298874--298914 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
298864 ATTATTTATC
298874 GTAATTATAATTTATTAATA
1 GTAATTATAATTTATTAATA
* *
298894 TTAATTATAATGTAATTAATA
1 GTAATTATAAT-TTATTAATA
298915 TATTATGATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (20 bp):
GTAATTATAATTTATTAATA
Found at i:298913 original size:21 final size:20
Alignment explanation
Indices: 298875--298939 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 20
298865 TTATTTATCG
*
298875 TAATTATAATTTATTAATAT
1 TAATTATAATTAATTAATAT
298895 TAATTATAATGTAATTAATAT
1 TAATTATAAT-TAATTAATAT
* * *
298916 ATTATGATCATTAATTAATAT
1 -TAATTATAATTAATTAATAT
298937 TAA
1 TAA
298940 ATAATTATTA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
20 12 0.32
21 19 0.50
22 7 0.18
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (20 bp):
TAATTATAATTAATTAATAT
Found at i:298984 original size:23 final size:22
Alignment explanation
Indices: 298957--299002 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
298947 TTATAATTAA
*
298957 ATTAATTATTTTTGTTAACAATT
1 ATTAATTATTATT-TTAACAATT
*
298980 ATTAATTATTATTTTAATAATT
1 ATTAATTATTATTTTAACAATT
299002 A
1 A
299003 AATTTATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
ATTAATTATTATTTTAACAATT
Found at i:299019 original size:20 final size:18
Alignment explanation
Indices: 298988--299026 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
298978 TTATTAATTA
298988 TTATTTTAATAATTAAAT
1 TTATTTTAATAATTAAAT
*
299006 TTATTTATATATAATTTAAT
1 TTATTT-TA-ATAATTAAAT
299026 T
1 T
299027 ATAACTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 2 0.11
20 10 0.56
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTATTTTAATAATTAAAT
Found at i:299123 original size:23 final size:25
Alignment explanation
Indices: 299097--299151 Score: 60
Period size: 27 Copynumber: 2.2 Consensus size: 25
299087 GTTATTTGTA
299097 TTAAATAA-TA-AAATAATTATAAT
1 TTAAATAATTATAAATAATTATAAT
* *
299120 TTAACTAATTTATTAAATAATTATTAT
1 TTAAATAA-TTA-TAAATAATTATAAT
299147 TTAAA
1 TTAAA
299152 ATATTTAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
23 7 0.28
25 2 0.08
27 16 0.64
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
TTAAATAATTATAAATAATTATAAT
Found at i:301391 original size:25 final size:26
Alignment explanation
Indices: 301363--301431 Score: 85
Period size: 25 Copynumber: 2.8 Consensus size: 26
301353 TAATATTTAT
301363 TAAATTAATAAATAATTT-ATTAATA
1 TAAATTAATAAATAATTTAATTAATA
301388 TAAATT-A-AAATAATTTTAATTAATA
1 TAAATTAATAAATAA-TTTAATTAATA
301413 -AAATTAAT-AATAATATTAA
1 TAAATTAATAAATAAT-TTAA
301432 CAATAATATG
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
23 6 0.15
24 10 0.26
25 23 0.59
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (26 bp):
TAAATTAATAAATAATTTAATTAATA
Found at i:301438 original size:12 final size:12
Alignment explanation
Indices: 301336--301440 Score: 80
Period size: 12 Copynumber: 9.0 Consensus size: 12
301326 TAATATTGGC
*
301336 TAATAATATTA-
1 TAATAATAATAT
301347 TAATAATAATAT
1 TAATAATAATAT
*
301359 T--TATTAA-AT
1 TAATAATAATAT
301368 TAATAAATAATTTAT
1 TAAT-AATAA--TAT
301383 TAAT-ATAA-AT
1 TAATAATAATAT
*
301393 TAA-AATAATTT
1 TAATAATAATAT
*
301404 TAATTAATAAAAT
1 TAA-TAATAATAT
301417 TAATAATAATAT
1 TAATAATAATAT
*
301429 TAACAATAATAT
1 TAATAATAATAT
301441 GATTTATTAT
Statistics
Matches: 75, Mismatches: 8, Indels: 21
0.72 0.08 0.20
Matches are distributed among these distances:
9 3 0.04
10 14 0.19
11 15 0.20
12 24 0.32
13 13 0.17
15 6 0.08
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (12 bp):
TAATAATAATAT
Found at i:301485 original size:23 final size:22
Alignment explanation
Indices: 301433--301504 Score: 60
Period size: 23 Copynumber: 3.1 Consensus size: 22
301423 TAATATTAAC
301433 AATAATATGATTT-ATTATAATTGA
1 AATAAT-T-ATTTCATTATAATT-A
*
301457 ATTAA-TATTATCATTATAATTA
1 AATAATTATT-TCATTATAATTA
301479 TAATAATTATTTCA-TATTAATTA
1 -AATAATTATTTCATTA-TAATTA
301502 AAT
1 AAT
301505 TATACATATT
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
21 3 0.07
22 8 0.20
23 22 0.54
24 8 0.20
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (22 bp):
AATAATTATTTCATTATAATTA
Found at i:301709 original size:18 final size:17
Alignment explanation
Indices: 301675--301724 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 17
301665 AATATAAGTC
301675 TTATATTAGTAATATTA-
1 TTATATTA-TAATATTAT
301692 TTATACTTATATATATTAT
1 TTATA-TTATA-ATATTAT
301711 TTATATTATAATAT
1 TTATATTATAATAT
301725 AAGTTAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
17 11 0.37
18 14 0.47
19 5 0.17
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (17 bp):
TTATATTATAATATTAT
Found at i:301986 original size:6 final size:6
Alignment explanation
Indices: 301975--302001 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
301965 AATTGATTGT
301975 TTATAA TTATAA TTATAA TTATAA TTA
1 TTATAA TTATAA TTATAA TTATAA TTA
302002 AAATATAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTATAA
Found at i:302326 original size:21 final size:22
Alignment explanation
Indices: 302302--302347 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
302292 TTCTTAGTTA
*
302302 TAAATCTAATTGTATTT-ATTT
1 TAAATATAATTGTATTTAATTT
* *
302323 TAAATATTATTTTATTTAATTT
1 TAAATATAATTGTATTTAATTT
302345 TAA
1 TAA
302348 TAATCAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (22 bp):
TAAATATAATTGTATTTAATTT
Found at i:302742 original size:22 final size:22
Alignment explanation
Indices: 302702--302744 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
302692 TAAAATTTGT
*
302702 ATTATAATAAATATTATATTAA
1 ATTATAATAAATATAATATTAA
302724 ATTATAAT-AATAATAATATTA
1 ATTATAATAAAT-ATAATATTA
302745 GTTAATATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
ATTATAATAAATATAATATTAA
Found at i:303125 original size:29 final size:30
Alignment explanation
Indices: 303078--303155 Score: 83
Period size: 29 Copynumber: 2.6 Consensus size: 30
303068 CTATAATATA
*
303078 TATTAATTTTAAATATTAAATCT-AA-TTTATT
1 TATTAA-TTTAAA-ATTAAAT-TAAATTTTACT
303109 TATATAA-TTAAAATT-AATTAAATTTTACT
1 TAT-TAATTTAAAATTAAATTAAATTTTACT
303138 TATTAATTTAAAATTAAA
1 TATTAATTTAAAATTAAA
303156 ATAATTGTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
27 1 0.02
28 8 0.20
29 19 0.46
30 7 0.17
31 3 0.07
32 3 0.07
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (30 bp):
TATTAATTTAAAATTAAATTAAATTTTACT
Found at i:303206 original size:17 final size:17
Alignment explanation
Indices: 303164--303216 Score: 65
Period size: 17 Copynumber: 3.1 Consensus size: 17
303154 AAATAATTGT
303164 TATAATTAA--ATAATAA
1 TATAATTAATTATAAT-A
*
303180 TCTAATTTAATTATAATA
1 TATAA-TTAATTATAATA
303198 TATAATTAATTATAATA
1 TATAATTAATTATAATA
303215 TA
1 TA
303217 ATATAAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 4 0.12
17 18 0.56
18 5 0.16
19 5 0.16
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (17 bp):
TATAATTAATTATAATA
Found at i:303276 original size:21 final size:21
Alignment explanation
Indices: 303245--303294 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
303235 ATCAATGAAT
303245 TAATT-ATATTTA-ATTGAT-A
1 TAATTAATATTTATATT-ATAA
303264 TAATATAATATTTATATTATAA
1 TAAT-TAATATTTATATTATAA
303286 TAATTAATA
1 TAATTAATA
303295 AAAGAATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
19 4 0.15
20 1 0.04
21 14 0.52
22 8 0.30
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
TAATTAATATTTATATTATAA
Found at i:303333 original size:17 final size:18
Alignment explanation
Indices: 303300--303354 Score: 67
Period size: 19 Copynumber: 3.0 Consensus size: 18
303290 TAATAAAAGA
303300 ATATTATAAATGAATATAT
1 ATATTATAAA-GAATATAT
303319 -TATTATAAAGAATATAT
1 ATATTATAAAGAATATAT
* *
303336 AATATAACAAAGAATATAT
1 -ATATTATAAAGAATATAT
303355 GTTTAAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 8 0.25
18 9 0.28
19 15 0.47
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.36
Consensus pattern (18 bp):
ATATTATAAAGAATATAT
Found at i:304225 original size:177 final size:177
Alignment explanation
Indices: 303909--304230 Score: 432
Period size: 177 Copynumber: 1.8 Consensus size: 177
303899 TGACTTTTTC
*
303909 AACAATTATCTATTTCAAATAATTATAACCCTTTGTTTTGTCATAAACCAATTATTTCTATTCAT
1 AACAATTATCTATTTCAAATAATTATAACCCTTTGTTTTGTCATAAAACAATTATTTCTATTCAT
* *
303974 ATAAATGTATTCAAAATAAAATAATACTAATTTATTAATATTCCAAAAATTAATGAGTAAAAAAT
66 ACAAATGTATTCAAAATAAAATAATACTAATTGATTAATATTCCAAAAATTAATGAGTAAAAAAT
*
304039 TTTAAAAATAAATCTATTTACTTAGTTTAAATCGTCATGATTGTTTG
131 TTAAAAAATAAATCTATTTACTTAGTTTAAATCGTCATGATTGTTTG
* * * * * *
304086 AACAATTATTTATTTCAAATAATTATGATCTTTTGTTTTGTCCTAAAACAATTGTTTCTATTCAT
1 AACAATTATCTATTTCAAATAATTATAACCCTTTGTTTTGTCATAAAACAATTATTTCTATTCAT
* * *** * * ** *
304151 ACAAGTTTATTTGGAATAAAATAATACTAATTGATTAATACTT-TAAAAATTAGT-AGATAGGAG
66 ACAAATGTATTCAAAATAAAATAATACTAATTGATTAATA-TTCCAAAAATTAATGAG-TAAAAA
304214 ATTTAAAAAATAAATCT
129 ATTTAAAAAATAAATCT
304231 GTTTGTCGAA
Statistics
Matches: 123, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
176 2 0.02
177 119 0.97
178 2 0.02
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (177 bp):
AACAATTATCTATTTCAAATAATTATAACCCTTTGTTTTGTCATAAAACAATTATTTCTATTCAT
ACAAATGTATTCAAAATAAAATAATACTAATTGATTAATATTCCAAAAATTAATGAGTAAAAAAT
TTAAAAAATAAATCTATTTACTTAGTTTAAATCGTCATGATTGTTTG
Found at i:306216 original size:332 final size:333
Alignment explanation
Indices: 305609--306219 Score: 937
Period size: 332 Copynumber: 1.8 Consensus size: 333
305599 TGACAATATT
* * * **
305609 GTTTTCAGGATCAAGCACTTACCACTGCACCAAAAGTTGTAGCTGATAGTGAAAGTGCAACTCTA
1 GTTTTCAGGATCAAACACTTACCACTGCACCAAAAGCTATAGCTGATAGTGAAAGCACAACTCTA
305674 TTTCCTTATTCTCTTTTTGGTTGAGCAGAGCCCCATACTAAGCGATAGGTGGACATAAGAGGCTT
66 TTTCCTTATTCTCTTTTTGGTTGAGCAGAGCCCCATACTAAGCGATAGGTGGACATAAGAGGCTT
*
305739 CGTAAAGCCTTCATAGGATACCTCACCCACTGGGCCTCAACAGGTTGGGTTGCCATACATCAGAA
131 CGTAAAGCCTTCATAGGATACCTCACCCACTGGGCCTCAACAGGTTGGGTTGCCATACACCAGAA
* * * *
305804 TTTGATCCACCATGGGATACCTCACCCAAATGAACTAACATGCCAAGTCCCTAAGGGAGACTGTT
196 TCTGATCCACCATGGGATACCTCACCCAAAGGAACTAACATACCAAGTCCCTAAGGGAGACTGCT
305869 AGACCCCATAATCCAACAATCTCCCCCCTGTAGCACCTAAGGGACTTGAACCTACAACCTCGCTC
261 AGACCCCATAATCCAACAATCTCCCCCCTGTAGCACCTAAGGGACTTGAACCTACAACCTCGCTC
305934 TGATATCA
326 TGATATCA
* * *
305942 GTTTTCAGGATCAAACGCTTAGCACTGCACCAAAAGCTATAGCTGATAGTGAAGGCACAACTCTA
1 GTTTTCAGGATCAAACACTTACCACTGCACCAAAAGCTATAGCTGATAGTGAAAGCACAACTCTA
* * *
306007 TTTCCTTATTTTCTTTTTGG-T-ACGTAGAGCCCCATACTAAGTGATAGGTGGACATAA-AGGGC
66 TTTCCTTATTCTCTTTTTGGTTGA-GCAGAGCCCCATACTAAGCGATAGGTGGACATAAGA-GGC
* *
306069 TTCGTAAAGCCTTCATAGGATACCTCACCCATTGGGCCT-AGGCAGGTTGGGTTGCCATACACCA
129 TTCGTAAAGCCTTCATAGGATACCTCACCCACTGGGCCTCA-ACAGGTTGGGTTGCCATACACCA
* * * *
306133 GAATCTGATCCACCATGGGATACCTCACCCAGAGGAA-TCGACATACCGAGTCTCTAAGGGAGA-
193 GAATCTGATCCACCATGGGATACCTCACCCAAAGGAACT-AACATACCAAGTCCCTAAGGGAGAC
306196 TCGCTAGACCCCATAATCCAACAA
257 T-GCTAGACCCCATAATCCAACAA
306220 AATCGTTATG
Statistics
Matches: 251, Mismatches: 22, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
331 5 0.02
332 170 0.68
333 76 0.30
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (333 bp):
GTTTTCAGGATCAAACACTTACCACTGCACCAAAAGCTATAGCTGATAGTGAAAGCACAACTCTA
TTTCCTTATTCTCTTTTTGGTTGAGCAGAGCCCCATACTAAGCGATAGGTGGACATAAGAGGCTT
CGTAAAGCCTTCATAGGATACCTCACCCACTGGGCCTCAACAGGTTGGGTTGCCATACACCAGAA
TCTGATCCACCATGGGATACCTCACCCAAAGGAACTAACATACCAAGTCCCTAAGGGAGACTGCT
AGACCCCATAATCCAACAATCTCCCCCCTGTAGCACCTAAGGGACTTGAACCTACAACCTCGCTC
TGATATCA
Found at i:306566 original size:138 final size:137
Alignment explanation
Indices: 306405--306656 Score: 337
Period size: 138 Copynumber: 1.8 Consensus size: 137
306395 ATGATTTTTA
* * ** * * *
306405 TTTTGTCATAAAACAATTGTTTCTTTTCATACAAGCTTATTCTTATTAAAATAATACTACTTTAA
1 TTTTGTCATAAAACAATTGTTTCTATTCATACAAACTTATTCGAAATAAAATAATACTA-ATCAA
* *
306470 T-AATATTCCAAAAATTAGTAAGTAAGAGATTTAAAAAATAAATGTGTTTATCAAACCAGTTCAA
65 TAAATATTCCAAAAATTAATAAGTAAGAGATTTAAAAAAAAAAT-TGTTTATCAAACCAGTTCAA
306534 ATAGTTAGG
129 ATAGTTAGG
* *
306543 TTTTGTCGTAAAAC-ATATGTTTCTATTCATACAAATTTATTCGAAATAAAATAATACTAATCAA
1 TTTTGTCATAAAACAAT-TGTTTCTATTCATACAAACTTATTCGAAATAAAATAATACTAATCAA
* **
306607 TAAATATTCTAAAAATTAATAAGTTGGAGATTTAAAAAAAAAATTGTTTA
65 TAAATATTCCAAAAATTAATAAGTAAGAGATTTAAAAAAAAAATTGTTTA
306657 CTAAACAAAT
Statistics
Matches: 98, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
137 12 0.12
138 86 0.88
ACGTcount: A:0.44, C:0.10, G:0.09, T:0.38
Consensus pattern (137 bp):
TTTTGTCATAAAACAATTGTTTCTATTCATACAAACTTATTCGAAATAAAATAATACTAATCAAT
AAATATTCCAAAAATTAATAAGTAAGAGATTTAAAAAAAAAATTGTTTATCAAACCAGTTCAAAT
AGTTAGG
Found at i:306855 original size:180 final size:179
Alignment explanation
Indices: 306543--307132 Score: 669
Period size: 180 Copynumber: 3.3 Consensus size: 179
306533 AATAGTTAGG
* ** *
306543 TTTTGTCGTAAAAC-ATATGTTTCTATTCATACAAATTTATTC-GAAATAAAATAATACTAA-TC
1 TTTTGTCCTAAAACAAT-TGTTTCTATTCATACAAGCTTATTCTG-AATAAAATAATACTAATTT
* *** * * * * *
306605 AATAA-ATATTCTAAAAATTAATAAGTTGGAGA-TTTAAAAAAAAAATTGTTTACTAAACAAATT
64 ACTAATAT-TTC-AAAAATTAATAAGTAAAAAATTTTAAAATAAATA-TGTTTACTGAACTAATT
* * * * *
306668 TAAATAGTCATGTCTGTTTGAACTATTATCTATTTCAAATTGTTATGACATTTTG
126 CAAATAGTTATGTCTGTTTGAACAATTATCTATTTCAAATAGTTATGAC-TTTTA
* * *
306723 TTTTGTCCTAAATCAATTGTTTCTATTTAAACAAGCTTATTCTGAATAAAATAATA-TAAATTTA
1 TTTTGTCCTAAAACAATTGTTTCTATTCATACAAGCTTATTCTGAATAAAATAATACT-AATTTA
* *
306787 CTAATATTTCAAAAATTAATAAGT-AAAAATTTTAAAAATAAATATGTTTTCTGAAC-ATGTTCA
65 CTAATATTTCAAAAATTAATAAGTAAAAAATTTT-AAAATAAATATGTTTACTGAACTA-ATTCA
* * *
306850 AATAGTTATGACTCTTTGAACAATTATCTATTTCAAATAGTTATGACCCTTTA
128 AATAGTTATGTCTGTTTGAACAATTATCTATTTCAAATAGTTATGA-CTTTTA
* * *
306903 TTTTGTCATAAACCAATTGTTTCTATTCATACAAGCATATT-TGAAATAAAATAATACTAATTTA
1 TTTTGTCCTAAAACAATTGTTTCTATTCATACAAGCTTATTCTG-AATAAAATAATACTAATTTA
*
306967 TTAATATTTCAAAAATTAATAAGTAAAAAATTTTAAAATAAATATGTTTACTGAACTAATTCAAA
65 CTAATATTTCAAAAATTAATAAGTAAAAAATTTTAAAATAAATATGTTTACTGAACTAATTCAAA
* * * *
307032 TCGTTATGAT-TGTTTGAACAATTTTTTATTTCAAATAGTTATGATCTTTTT
130 TAGTTATG-TCTGTTTGAACAATTATCTATTTCAAATAGTTATGA-CTTTTA
* *
307083 TTTTGTCCTAAAACAATTGTTTCTATTCATACAAGTTTATTCGGAATAAA
1 TTTTGTCCTAAAACAATTGTTTCTATTCATACAAGCTTATTCTGAATAAA
307133 TCTATTTACT
Statistics
Matches: 350, Mismatches: 45, Indels: 30
0.82 0.11 0.07
Matches are distributed among these distances:
179 6 0.02
180 310 0.89
181 32 0.09
182 2 0.01
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (179 bp):
TTTTGTCCTAAAACAATTGTTTCTATTCATACAAGCTTATTCTGAATAAAATAATACTAATTTAC
TAATATTTCAAAAATTAATAAGTAAAAAATTTTAAAATAAATATGTTTACTGAACTAATTCAAAT
AGTTATGTCTGTTTGAACAATTATCTATTTCAAATAGTTATGACTTTTA
Found at i:307759 original size:182 final size:181
Alignment explanation
Indices: 307127--308657 Score: 928
Period size: 182 Copynumber: 8.6 Consensus size: 181
307117 GTTTATTCGG
* * * * * * * *
307127 AATAAATCTATTTA-CTGAATAAGTCCAAATAGTCATGTCCATTTGAACACTTATCTATTTTAAA
1 AATAAATCTGTTTATC-GAATAAGTTCAAATAATTATGACTATTTAAACAATTATCTA-TTTAAA
* * * * * ** *
307191 T-AGTTATGACCTTTT-TTTTGTCATAAAATAATTGTTTCTATACATGCAAAATTATTCA-AA-A
64 TCA-TTATGACATTTTGTTTTGTCATAAAACAATTGTTTCAATTCATACAAGCTTATTTAGAATA
* *
307252 AAATAATACTAATCTATTAATATTTTAAAAATTAAT-A--A-GAGATTT-AAAA
128 AAATAATACTAATTTATTAATATTTCAAAAATTAATAAGCATGAGATTTAAAAA
* * * * * * * * * *
307301 ACTAAATTTATTTACTAGAA-CAGTTCAAATAGTTATGACAATTTGAACAATTATTTATATAAAT
1 AATAAATCTGTTTA-TCGAATAAGTTCAAATAATTATGACTATTTAAACAATTATCTATTTAAAT
** * * ** * * * *
307365 TGTTATG--ATCTTTATTTTGTCATAAAACGATTGTTTCTTTTCATATAAGCTTATTCATATTAA
65 CATTATGACAT-TTTGTTTTGTCATAAAACAATTGTTTCAATTCATACAAGCTTATTTAGAATAA
* * ** *
307428 AATAATACTAATTTAATAATATTTCAAAAATTAATAAGTAACATATTT-AAAA
129 AATAATACTAATTTATTAATATTTCAAAAATTAATAAGCATGAGATTTAAAAA
* ** * ** * ** * * *
307480 AATAAATATGTTTGCCAAACCAGTTCAAATAGTTAAAACTA-TTAGGATAATTATCTATTTTAGA
1 AATAAATCTGTTTATCGAATAAGTTCAAATAATTATGACTATTTA-AACAATTATCTA-TTTAAA
* * * *
307544 TCAGTT-TGACCTTTTGTTTAGTCACAAAACAATTATTTCAATTCATACAAGCTTATTTAGAATA
64 TCA-TTATGACATTTTGTTTTGTCATAAAACAATTGTTTCAATTCATACAAGCTTATTTAGAATA
* * * *
307608 AATTAATGCTAATTTATTAACATTTGAAAAATTAATAAGCATGAGATTTAAAAA
128 AAATAATACTAATTTATTAATATTTCAAAAATTAATAAGCATGAGATTTAAAAA
* * * *
307662 AATAAATCTGTTTATCGAATAAATTAAAATAGATT-TTATTATTTAAACAATTATCTATTTAAAG
1 AATAAATCTGTTTATCGAATAAGTTCAAATA-ATTATGACTATTTAAACAATTATCTATTTAAA-
* * * * * * * *
307726 TCGTTATGATATTTTGTTTTGTCATAAAACAATTGTTTTAGTTTATAAAAACTTATCT-GAAATA
64 TCATTATGACATTTTGTTTTGTCATAAAACAATTGTTTCAATTCATACAAGCTTATTTAG-AATA
* ** *
307790 AAATAATACTACTTTATTAATATTTTGAAAATTAATAAGCA--AGATTTTTAAAA
128 AAATAATACTAATTTATTAATATTTCAAAAATTAATAAGCATGAGA-TTTAAAAA
* * * * * * * * *
307843 ACTAAAAT-TGTTT-TCCAAATCAGTTCAAATAATTATGGCTATTTGAATAAATATCAATCTCAA
1 AAT-AAATCTGTTTAT-CGAATAAGTTCAAATAATTATGACTATTTAAACAATTATCTAT-TTAA
** * * * * * *
307906 ATTGTTTTG--ATCTTTGTTTTCTCATAAAATAATTATTTCGA-TCATACATGCTTATTTAG-AT
63 ATCATTATGACAT-TTTGTTTTGTCATAAAACAATTGTTTCAATTCATACAAGCTTATTTAGAAT
* * * *
307967 AAAAATATTACTAATTTAATAATATTCCAAAAATTAAT-A--A-GAGA-TTCAAAA
127 -AAAATAATACTAATTTATTAATATTTCAAAAATTAATAAGCATGAGATTTAAAAA
* * * * *
308018 AATAAATGTGTTTATCGAACT-AGTTCAAATAGTTAAGACTA-TTAGAATAATTATCAATTTCAA
1 AATAAATCTGTTTATCGAA-TAAGTTCAAATAATTATGACTATTTA-AACAATTATCTATTT-AA
* * * ** * * * * * * *
308081 ATCATTCT-ACATTTTCTTTAGTCATGTAATAATGGCTTCAGTTCATACAAGCATATTTGGAAGA
63 ATCATTATGACATTTTGTTTTGTCATAAAACAATTGTTTCAATTCATACAAGCTTATTTAGAATA
* * *
308145 AAAGAATACTAATTTATTAACA-TTCAAAAAATTAATAATCATGAGATTTAAAAA
128 AAATAATACTAATTTATTAATATTTC-AAAAATTAATAAGCATGAGATTTAAAAA
* * * * * *
308199 AATAAATCTGTTTACCGAACAAGTTCGAATAATTATGGCTATTTGAACAATTATTTATTTAAAAT
1 AATAAATCTGTTTATCGAATAAGTTCAAATAATTATGACTATTTAAACAATTATCTATTT-AAAT
* * * * * ** *
308264 AATTATGACCA-TTTGTTTTGTCATAAAACAATTGTTTTAGTTCATAAAAGTTTATCCAAAATAA
65 CATTATGA-CATTTTGTTTTGTCATAAAACAATTGTTTCAATTCATACAAGCTTATTTAGAATAA
* * * *
308328 AATAATACTACTTTAGTAATATTTCAAAAATTAATAAGTAACT-A-ATTTAAAAT
129 AATAATACTAATTTATTAATATTTCAAAAATTAATAAG-CA-TGAGATTTAAAAA
* * * * * * * *
308381 AATAAATCAGTTTACCCAATCAGTTCAAATAATTAT-AGCCATTTAAAGAACTATTTATTTCAAA
1 AATAAATCTGTTTATCGAATAAGTTCAAATAATTATGA-CTATTTAAACAATTATCTATTT-AAA
* * *
308445 TTATTATTACCTTTTGTTTTGTCATAAAACAATTGTTTTTCAA--CATACAAGCTTATTT-GAAA
64 TCATTATGACATTTTGTTTTGTCATAAAACAATTG--TTTCAATTCATACAAGCTTATTTAG-AA
* * * *
308507 TAAAATAATACCAATTTATTAATATTTTAAGAATTAAT-A--A-GACATTT-AAAA
126 TAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAGCATGAGATTTAAAAA
** * * * * *
308558 AATAAATCAATTTATTGAACT-AGTTCAAATAGTTATGAC-ATTTGAATAATTTTCTATTTCAAA
1 AATAAATCTGTTTATCGAA-TAAGTTCAAATAATTATGACTATTTAAACAATTATCTATTT-AAA
** ** * * *
308621 TTGTTACAACCTTTTGTTCTATCATAAAACAATTGTT
64 TCATTATGACATTTTGTTTTGTCATAAAACAATTGTT
308658 AATAATTTAA
Statistics
Matches: 1051, Mismatches: 243, Indels: 126
0.74 0.17 0.09
Matches are distributed among these distances:
171 1 0.00
172 3 0.00
173 46 0.04
174 52 0.05
175 110 0.10
176 99 0.09
177 39 0.04
178 15 0.01
179 91 0.09
180 42 0.04
181 200 0.19
182 336 0.32
183 12 0.01
184 5 0.00
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (181 bp):
AATAAATCTGTTTATCGAATAAGTTCAAATAATTATGACTATTTAAACAATTATCTATTTAAATC
ATTATGACATTTTGTTTTGTCATAAAACAATTGTTTCAATTCATACAAGCTTATTTAGAATAAAA
TAATACTAATTTATTAATATTTCAAAAATTAATAAGCATGAGATTTAAAAA
Found at i:308281 original size:537 final size:534
Alignment explanation
Indices: 307167--308621 Score: 1540
Period size: 537 Copynumber: 2.7 Consensus size: 534
307157 AGTCATGTCC
* * * *
307167 ATTTGAACACTTATCTATTTTAAATAGTTATGACC-TTTTTTTTGTCATAAAATAATTGTTTCTA
1 ATTTGAACAATTATCTATTTAAAATAGTTATGACCATTTGTTTTGTCATAAAACAATTGTTT-TA
* * * * *
307231 -TACATGCAAAATTAT-TCAAA-AAAATAATACTAATCTATTAATATTTTAAAAATTAATAAG-A
65 GTTCAT-AAAAATTATCTAAAATAAAATAATACTACTTTATTAATATTTTAAAAATTAATAAGAA
* * * * * *
307292 GA-TTTAAAAACTAAATTTATTTACTAGAA-CAGTTCAAATAGTTATGACAATTTGAACAATTAT
129 GATTTTAAAAACTAAAATTGTTTACCA-AATCAGTTCAAATAATTATGGCAATTTGAACAAATAT
* * * * * *
307355 TTATAT-AAATTGTTATGATCTTTATTTTGTCATAAAACGATTGTTTCTTTTCATATAAGCTTAT
193 TTATATCAAATTGTTTTGATCTTTGTTTTGTCATAAAACAATTATTTC--ATCATACAAGCTTAT
* * *
307419 TCATATTAAAATAATACTAATTTAATAATATTTCAAAAATTAATAAGTAACATATTTAAAAAATA
256 TTAGATAAAAATAATACTAATTTAATAATATTTCAAAAATTAATAAG--AC--ATTTAAAAAATA
** * * * * * *
307484 AATATGTTTGCCAAACCAGTTCAAATAGTTAAAACTATTAGGATAATTATCTATTTTAGATCAGT
317 AATATGTTTATCGAACTAGTTCAAATAGTTAAGACTATTAGAATAATTATCTATTTCAAATCAGT
* * * * * * **
307549 TTGACCTTTTGTTTAGTCACAAAACAATTATTTCAATTCATACAAGCTTATTTAGAATAAATTAA
382 TTGACATTTTCTTTAGTCACAAAACAATGACTTCAATTCATACAAGCATATTTAGAAGAAAAGAA
* ** *
307614 TGCTAATTTATTAACATTTGAAAAATTAATAAGCATGAGATTTAAAAAAATAAATCTGTTTATCG
447 TACTAATTTATTAACATTCAAAAAATTAATAAGCATGAGATTTAAAAAAATAAATCTGTTTACCG
* * *
307679 AATAAATTAAAATAGATTTTATT
512 AACAAATTAAAATAGATTTGACT
* * * *
307702 ATTTAAACAATTATCTATTTAAAGTCGTTATGA-TATTTTGTTTTGTCATAAAACAATTGTTTTA
1 ATTTGAACAATTATCTATTTAAAATAGTTATGACCA-TTTGTTTTGTCATAAAACAATTGTTTTA
* * *
307766 GTTTATAAAAACTTATCTGAAATAAAATAATACTACTTTATTAATATTTTGAAAATTAATAAGCA
65 GTTCATAAAAA-TTATCTAAAATAAAATAATACTACTTTATTAATATTTTAAAAATTAATAAG-A
* * *
307831 AGATTTTTAAAAACTAAAATTGTTTTCCAAATCAGTTCAAATAATTATGGCTATTTGAATAAATA
128 AGA-TTTTAAAAACTAAAATTGTTTACCAAATCAGTTCAAATAATTATGGCAATTTGAACAAATA
** * * * *
307896 TCAATCTCAAATTGTTTTGATCTTTGTTTTCTCATAAAATAATTATTTCGATCATACATGCTTAT
192 TTTATATCAAATTGTTTTGATCTTTGTTTTGTCATAAAACAATTATTTC-ATCATACAAGCTTAT
* * * * *
307961 TTAGATAAAAATATTACTAATTTAATAATATTCCAAAAATTAATAAGAGATTCAAAAAATAAATG
256 TTAGATAAAAATAATACTAATTTAATAATATTTCAAAAATTAATAAGACATTTAAAAAATAAATA
*
308026 TGTTTATCGAACTAGTTCAAATAGTTAAGACTATTAGAATAATTATCAATTTCAAATCA-TTCT-
321 TGTTTATCGAACTAGTTCAAATAGTTAAGACTATTAGAATAATTATCTATTTCAAATCAGTT-TG
*** * * * *
308089 ACATTTTCTTTAGTCATGTAATAATGGCTTCAGTTCATACAAGCATATTTGGAAGAAAAGAATAC
385 ACATTTTCTTTAGTCACAAAACAATGACTTCAATTCATACAAGCATATTTAGAAGAAAAGAATAC
*
308154 TAATTTATTAACATTCAAAAAATTAATAATCATGAGATTTAAAAAAATAAATCTGTTTACCGAAC
450 TAATTTATTAACATTCAAAAAATTAATAAGCATGAGATTTAAAAAAATAAATCTGTTTACCGAAC
* ** *
308219 AAGTTCGAATA-ATTATGGCT
515 AAATTAAAATAGATT-TGACT
* *
308239 ATTTGAACAATTATTTATTTAAAATAATTATGACCATTTGTTTTGTCATAAAACAATTGTTTTAG
1 ATTTGAACAATTATCTATTTAAAATAGTTATGACCATTTGTTTTGTCATAAAACAATTGTTTTAG
* * * *
308304 TTCATAAAAGTTTATCCAAAATAAAATAATACTACTTTAGTAATATTTCAAAAATTAATAAGTAA
66 TTCATAAAA-ATTATCTAAAATAAAATAATACTACTTTATTAATATTTTAAAAATTAATAAG-AA
* * * * * * * * * *
308369 CTAATTTAAAATAAT-AAATCAGTTTACCCAATCAGTTCAAATAATTATAGCCATTTAAAGAACT
129 -GATTTTAAAA-ACTAAAAT-TGTTTACCAAATCAGTTCAAATAATTATGGCAATTTGAACAAAT
* * * * *
308433 ATTTATTTCAAATTATTATT-ACCTTTTGTTTTGTCATAAAACAATTGTTTTTCAACATACAAGC
191 ATTTATATCAAATTGTT-TTGATC-TTTGTTTTGTCATAAAACAA-T-TATTTCATCATACAAGC
* * * * *
308497 TTATTT-GAAATAAAATAATACCAATTTATTAATATTTTAAGAATTAATAAGACATTTAAAAAAT
252 TTATTTAGATA-AAAATAATACTAATTTAATAATATTTCAAAAATTAATAAGACATTTAAAAAAT
* * * * *
308561 AAATCA-ATTTATTGAACTAGTTCAAATAGTTATGAC-ATTTGAATAATTTTCTATTTCAAAT
316 AAAT-ATGTTTATCGAACTAGTTCAAATAGTTAAGACTATTAGAATAATTATCTATTTCAAAT
308622 TGTTACAACC
Statistics
Matches: 763, Mismatches: 132, Indels: 46
0.81 0.14 0.05
Matches are distributed among these distances:
535 34 0.04
536 34 0.04
537 249 0.33
538 157 0.21
539 45 0.06
540 96 0.13
541 7 0.01
542 106 0.14
543 35 0.05
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (534 bp):
ATTTGAACAATTATCTATTTAAAATAGTTATGACCATTTGTTTTGTCATAAAACAATTGTTTTAG
TTCATAAAAATTATCTAAAATAAAATAATACTACTTTATTAATATTTTAAAAATTAATAAGAAGA
TTTTAAAAACTAAAATTGTTTACCAAATCAGTTCAAATAATTATGGCAATTTGAACAAATATTTA
TATCAAATTGTTTTGATCTTTGTTTTGTCATAAAACAATTATTTCATCATACAAGCTTATTTAGA
TAAAAATAATACTAATTTAATAATATTTCAAAAATTAATAAGACATTTAAAAAATAAATATGTTT
ATCGAACTAGTTCAAATAGTTAAGACTATTAGAATAATTATCTATTTCAAATCAGTTTGACATTT
TCTTTAGTCACAAAACAATGACTTCAATTCATACAAGCATATTTAGAAGAAAAGAATACTAATTT
ATTAACATTCAAAAAATTAATAAGCATGAGATTTAAAAAAATAAATCTGTTTACCGAACAAATTA
AAATAGATTTGACT
Found at i:308703 original size:11 final size:11
Alignment explanation
Indices: 308689--308719 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
308679 ATATATAAAT
308689 TAATTATAATA
1 TAATTATAATA
308700 TAATTATAATA
1 TAATTATAATA
*
308711 TAATAATAA
1 TAATTATAA
308720 ATTATAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
TAATTATAATA
Found at i:308711 original size:29 final size:28
Alignment explanation
Indices: 308672--308726 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 28
308662 ATTTAATTGT
*
308672 TAATTATATAT-ATAAATTAATTATAATA
1 TAATTATATATAAT-AATAAATTATAATA
308700 TAATTATAATATAATAATAAATTATAA
1 TAATTAT-ATATAATAATAAATTATAA
308727 AATAGAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 7 0.29
29 15 0.62
30 2 0.08
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (28 bp):
TAATTATATATAATAATAAATTATAATA
Found at i:308737 original size:12 final size:12
Alignment explanation
Indices: 308683--308739 Score: 50
Period size: 11 Copynumber: 4.9 Consensus size: 12
308673 AATTATATAT
*
308683 ATAAAT-TAATT
1 ATAAATATAATA
*
308694 AT-AATATAATT
1 ATAAATATAATA
308705 AT-AATATAATA
1 ATAAATATAATA
308716 ATAAATTATAA-A
1 ATAAA-TATAATA
308728 ATAGAATATAAT
1 ATA-AATATAAT
308740 TTTAAATGTT
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
10 3 0.08
11 19 0.47
12 11 0.28
13 7 0.17
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (12 bp):
ATAAATATAATA
Found at i:308740 original size:18 final size:19
Alignment explanation
Indices: 308696--308745 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
308686 AATTAATTAT
* *
308696 AATATAATTATAATATAAT
1 AATATAATTATAAAATAAG
308715 AATA-AATTATAAAAT-AG
1 AATATAATTATAAAATAAG
*
308732 AATATAATTTTAAA
1 AATATAATTATAAA
308746 TGTTATATTC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 5 0.19
18 18 0.67
19 4 0.15
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
AATATAATTATAAAATAAG
Found at i:309091 original size:19 final size:18
Alignment explanation
Indices: 309066--309109 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
309056 AGCTATAAAT
*
309066 ATTAAAT-ATATTAATATA
1 ATTAAATAACATT-ATATA
309084 ATTTAAATAACATTATATA
1 A-TTAAATAACATTATATA
309103 ATTAAAT
1 ATTAAAT
309110 TAATACCTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 7 0.30
19 12 0.52
20 4 0.17
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTAAATAACATTATATA
Found at i:309413 original size:17 final size:16
Alignment explanation
Indices: 309383--309424 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
309373 ATTAATGATA
*
309383 TTATAATTAA-TATAAT
1 TTATAA-TAATTATAAG
309399 TTATTAATAATTATAAG
1 TTA-TAATAATTATAAG
309416 TTATAATAA
1 TTATAATAA
309425 ATATTTTGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (16 bp):
TTATAATAATTATAAG
Found at i:309540 original size:19 final size:20
Alignment explanation
Indices: 309504--309564 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 20
309494 ATTTCTAAAT
* *
309504 AATTTAATAGATAAATAATAA
1 AATTAAATA-ATATATAATAA
* *
309525 AGTTATA-AATATATAATTAA
1 AATTAAATAATATATAA-TAA
*
309545 AATTAAATAATATATTATAA
1 AATTAAATAATATATAATAA
309565 TTATTATAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
19 7 0.23
20 12 0.39
21 12 0.39
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (20 bp):
AATTAAATAATATATAATAA
Found at i:309553 original size:18 final size:18
Alignment explanation
Indices: 309530--309567 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
309520 AATAAAGTTA
309530 TAAAT-ATATAATTAAAAT
1 TAAATAATAT-ATTAAAAT
*
309548 TAAATAATATATTATAAT
1 TAAATAATATATTAAAAT
309566 TA
1 TA
309568 TTATAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAATAATATATTAAAAT
Found at i:309553 original size:33 final size:33
Alignment explanation
Indices: 309515--309577 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
309505 ATTTAATAGA
309515 TAAATAATAAAGTTATAAATA-TATAATTAAAAT
1 TAAATAATAAA-TTATAAATATTATAATTAAAAT
* *
309548 TAAATAATATATTATAATTATTATAATTAA
1 TAAATAATAAATTATAAATATTATAATTAA
309578 TTATAATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 8 0.30
33 19 0.70
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (33 bp):
TAAATAATAAATTATAAATATTATAATTAAAAT
Found at i:309582 original size:24 final size:24
Alignment explanation
Indices: 309555--309732 Score: 71
Period size: 25 Copynumber: 7.1 Consensus size: 24
309545 AATTAAATAA
309555 TATATTATAATTATTATAATTAAT
1 TATATTATAATTATTATAATTAAT
* * *
309579 TATAATATTAATTATTTTGGGATTTAAT
1 TATATTA-TAATTATTAT---AATTAAT
* * *
309607 TAT-TTAAAATTAGTAT--GT-AT
1 TATATTATAATTATTATAATTAAT
* * * *
309627 TATATAATTAACTAATATATATAAAT
1 TATATTA-TAATTATTATA-ATTAAT
*
309653 TATAAT-TAATATATTATTAATTAAT
1 TATATTATAAT-TATTA-TAATTAAT
*
309678 TATATTAATATATAATTAT-ATTAAT
1 TATATT-ATA-ATTATTATAATTAAT
*
309703 ATATATATTTAAGTTAATTATAATTAAT
1 -TATAT-TATAA-TT-ATTATAATTAAT
309731 TA
1 TA
309733 AATGGTTTTA
Statistics
Matches: 111, Mismatches: 23, Indels: 37
0.65 0.13 0.22
Matches are distributed among these distances:
20 5 0.05
21 3 0.03
22 7 0.06
24 9 0.08
25 30 0.27
26 24 0.22
27 16 0.14
28 17 0.15
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.51
Consensus pattern (24 bp):
TATATTATAATTATTATAATTAAT
Found at i:309664 original size:16 final size:15
Alignment explanation
Indices: 309645--309705 Score: 62
Period size: 16 Copynumber: 4.3 Consensus size: 15
309635 TAACTAATAT
309645 ATATAAATTATAATTA
1 ATATAAATTAT-ATTA
309661 ATAT--A-T-TATTA
1 ATATAAATTATATTA
309672 AT-T-AATTATATTA
1 ATATAAATTATATTA
309685 ATATATAATTATATTA
1 ATATA-AATTATATTA
309701 ATATA
1 ATATA
309706 TATATTTAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
10 1 0.03
11 7 0.18
12 2 0.05
13 8 0.21
14 2 0.05
16 19 0.49
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
ATATAAATTATATTA
Found at i:309672 original size:35 final size:35
Alignment explanation
Indices: 309627--309702 Score: 95
Period size: 35 Copynumber: 2.2 Consensus size: 35
309617 TAGTATGTAT
309627 TATATAATTAACTAATATATATAAAT-TATAATTAA
1 TATATAATTAACTAAT-TATATAAATATATAATTAA
* * *
309662 TATATTATTAATTAATTATATTAATATATAATT-A
1 TATATAATTAACTAATTATATAAATATATAATTAA
309696 TAT-TAAT
1 TATATAAT
309703 ATATATATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
33 3 0.08
34 12 0.33
35 21 0.58
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (35 bp):
TATATAATTAACTAATTATATAAATATATAATTAA
Found at i:309719 original size:18 final size:16
Alignment explanation
Indices: 309674--309733 Score: 72
Period size: 16 Copynumber: 3.8 Consensus size: 16
309664 TATTATTAAT
309674 TAATTATATTAATATA
1 TAATTATATTAATATA
309690 TAATTATATTAATATA
1 TAATTATATTAATATA
309706 TATATT-TAAGTTAAT-TA
1 TA-ATTAT-A-TTAATATA
309723 TAATTA-ATTAA
1 TAATTATATTAA
309734 ATGGTTTTAG
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
14 4 0.10
15 1 0.03
16 22 0.55
17 8 0.20
18 5 0.12
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (16 bp):
TAATTATATTAATATA
Found at i:310440 original size:38 final size:36
Alignment explanation
Indices: 310389--310490 Score: 91
Period size: 38 Copynumber: 2.7 Consensus size: 36
310379 GTGTATGTCT
*
310389 AAATAATTAATATATTAATCATATAATTATAAGTATTA
1 AAAT-ATTAATATATTAATCATATAATTATAA-TAATA
* *
310427 AAATATTTAATATAACTTTAT-A-ATAAATATAATAATA
1 AAATA-TTAATAT-A-TTAATCATATAATTATAATAATA
* *
310464 TAATATTAATATATTATAACATATAAT
1 AAATATTAATATATTA-ATCATATAAT
310491 AACATTTATA
Statistics
Matches: 51, Mismatches: 7, Indels: 13
0.72 0.10 0.18
Matches are distributed among these distances:
34 2 0.04
35 2 0.04
36 8 0.16
37 13 0.25
38 20 0.39
39 2 0.04
40 4 0.08
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (36 bp):
AAATATTAATATATTAATCATATAATTATAATAATA
Found at i:310810 original size:18 final size:16
Alignment explanation
Indices: 310787--310841 Score: 58
Period size: 18 Copynumber: 3.2 Consensus size: 16
310777 TTTGTTATAA
310787 ATAATTTATAATGTTATT
1 ATAATTTATAAT-TTA-T
310805 ATAA-TTATAATTTAT
1 ATAATTTATAATTTAT
*
310820 ATTATTTATCTAATTTAT
1 ATAATTTA--TAATTTAT
310838 ATAA
1 ATAA
310842 CAATAATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
15 4 0.12
16 6 0.19
17 7 0.22
18 15 0.47
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (16 bp):
ATAATTTATAATTTAT
Found at i:312626 original size:17 final size:17
Alignment explanation
Indices: 312591--312636 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
312581 ATAATATAAC
*
312591 TATAATTAATTATAGTTA
1 TATAATT-ATTATAATTA
312609 T-TAATTATTATAAATTA
1 TATAATTATTAT-AATTA
312626 TATAATT-TTAT
1 TATAATTATTAT
312637 TATACAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 5 0.20
17 14 0.56
18 6 0.24
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (17 bp):
TATAATTATTATAATTA
Found at i:312926 original size:145 final size:145
Alignment explanation
Indices: 312746--313016 Score: 413
Period size: 145 Copynumber: 1.9 Consensus size: 145
312736 TTTCAGATTA
* * *
312746 TTATGACATTTTGTTTGTCATAAAACAATTGTTTCTATTCAAACAAGCTTATTCTG-AACAAAAT
1 TTATGACACTTTGTTTGTCATAAAACAATTCTTTCTATTCAAACAAGCATATT-TGAAACAAAAT
*
312810 AATA-TAAATTTATTAATATTTCAAAAATTAATGAGT-AAAAATTTTAAAAATAAATATGTTTTC
65 AATACT-AATTTATTAATATTTCAAAAATTAATAAGTAAAAAATTTTAAAAATAAATATGTTTTC
312873 TGAACATGTTCAAATAG
129 TGAACATGTTCAAATAG
* * * * *
312890 TTATGACCCTTTGTTTTGTCATAAACCAATTCTTTCTGTTCATACAAGCATATTTGAAATAAAAT
1 TTATGACACTTTG-TTTGTCATAAAACAATTCTTTCTATTCAAACAAGCATATTTGAAACAAAAT
312955 AATACTAATTTATTAATATTTCAAAAATTAATAAGTAAAAAATTTTAAAAATAAATATGTTT
65 AATACTAATTTATTAATATTTCAAAAATTAATAAGTAAAAAATTTTAAAAATAAATATGTTT
313017 ACTAAGCTAA
Statistics
Matches: 114, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
144 13 0.11
145 75 0.66
146 26 0.23
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (145 bp):
TTATGACACTTTGTTTGTCATAAAACAATTCTTTCTATTCAAACAAGCATATTTGAAACAAAATA
ATACTAATTTATTAATATTTCAAAAATTAATAAGTAAAAAATTTTAAAAATAAATATGTTTTCTG
AACATGTTCAAATAG
Found at i:313188 original size:181 final size:177
Alignment explanation
Indices: 312881--314305 Score: 783
Period size: 176 Copynumber: 8.0 Consensus size: 177
312871 TCTGAACATG
* * * * * *
312881 TTCAAATAGTTATGACCCTTTGTTTTGTCATAAACCAATTCTTTCTGTTCATACAAGCATATTTG
1 TTCAAATAGTTATGA-TCTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTCG
* * * *
312946 AAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAGTAAAAAATTTTAAAAATAAAT
65 -AATAAAATAATACTAATTTATTAATATTT-AAAAATTAGTAAGTAAGAGATTTAAAAAATAAAT
* * * *
313011 ATGTTTACT-AAGCTAATTCAAATCGTTCTGACTATTTGAACAATTTTTTAT
128 ATATTTACTGAA--TAATTCAAATAGTTATGACTATTTGAACAATTATTTAT
* * *
313062 TTCAAATAGTTATGATATTTTGTTTTGTCCTAAAACAATTGTTTCTATTCATACAAGTTTATTTC
1 TTCAAATAGTTATGAT-CTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTA-TTC
* * * * *
313127 GAATAAAATAATACTAATTGATTAATACTTTGAAAGTTAGTAGGTAGGAGATTTAAAAAATAAAT
64 GAATAAAATAATACTAATTTATTAATA-TTTAAAAATTAGTAAGTAAGAGATTTAAAAAATAAAT
* * * * * * *
313192 CTATTTACTGAATAAGTCCAAATAGTGATGTCCATTTGAACAATTCTCTAT
128 ATATTTACTGAATAA-TTCAAATAGTTATGACTATTTGAACAATTATTTAT
* * * **
313243 TTCAAATAGTTATGA-CTTTTTTTTTGTCATAAAACAATTATTTCTATTCATGCAAAATTATTCA
1 TTCAAATAGTTATGATC-TTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTC-
* * *
313307 GAATAAAATAATACTGATCTATTAATATTTTAAAAA-T--TAA-TAAGAGATTTAAAAACTAAAT
64 GAATAAAATAATACTAATTTATTAATA-TTTAAAAATTAGTAAGTAAGAGATTTAAAAAATAAAT
* * * *
313368 TTATTTATTGGAATAGTTTAAATAGTTATGACTATTTGAACAATTATTTAT
128 ATATTTACT-GAATAATTCAAATAGTTATGACTATTTGAACAATTATTTAT
* ** * * *
313419 ATCAAATTTTTATGATCTTTATTTTGTCATAAAACAATTGTTTCTTTTCATATAAGCTTATTC-A
1 TTCAAATAGTTATGATCTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTCGA
* *
313483 TATTAAAATAATACTAATTTAATAATATTCCAAAAATTAGTAAGTAAGAGATTT---AAA-AAAT
66 -A-TAAAATAATACTAATTTATTAATATT-TAAAAATTAGTAAGTAAGAGATTTAAAAAATAAAT
* * * * * *
313544 A-A---A-TG--T-GTTCAAATAGTTAAGACTATTAGGATAATTATATAT
128 ATATTTACTGAATAATTCAAATAGTTATGACTATTTGAACAATTATTTAT
* * * * * * * * * *
313586 TTTAGATCA-TTTTTACTTTTTTGTTTAGTCACAAAATAATTATTTCAATTCATACAAG-TCTAT
1 TTCAAAT-AGTTATGA--TCTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCT-TA-
* * * * * * *
313649 TTAGAATAAATTAATACTAATTTATTAACATTAAAAAAATTAATAAGCATGAGATTTAAAAAAAT
61 TTCGAATAAAATAATACTAATTTATTAATATT-TAAAAATTAGTAAGTAAGAGATTT-AAAAAAT
* * * * * * *
313714 AAATCTGTTTA-TCAAATAAATTAAAATAGATT-TGATTATTTAAACAATTATATAT
124 AAATATATTTACT-GAAT-AATTCAAATAG-TTATGACTATTTGAACAATTATTTAT
* * * * * *
313769 TT-AAAGTTGTTATGACCTTTTGTTTTGTCATAAAACAATTGTGTC-AGTTTATAAAAACTTA-T
1 TTCAAA-TAGTTATGATC-TTTGTTTTGTCATAAAACAATTGTTTCTA-TTCATACAAGCTTATT
* * * * * *** *
313831 CTGAA-ATAAATAATACTACTTTGTTAATATTTTGAAAATTAATAAGCAAGCTTTTTAAAAACTA
63 C-GAATA-AAATAATACTAATTTATTAATA-TTTAAAAATTAGTAAGTAAGAGATTTAAAAAATA
* * ** * * * * * * **
313895 AA-ATCGTTTTCCAAATCAGTTCAAATAATTATGGCTGTTTGAATAAATATCAAT
125 AATAT-ATTTACTGAAT-AATTCAAATAGTTATGACTATTTGAACAATTATTTAT
* * * * * * *
313949 CTCAAATTGTTTTGATCTTTGTTTTCTCATAAAATAATTATTTCTGA-TCATACAAGCTTATT-T
1 TTCAAATAGTTATGATCTTTGTTTTGTCATAAAACAATTGTTTCT-ATTCATACAAGCTTATTCG
* *
314012 AGATAAAAATAATACTAATTTAATAATATTTTAAAAA-T--TAA-TAAGAGATTCAAAAAATAAA
65 A-AT-AAAATAATACTAATTTATTAATA-TTTAAAAATTAGTAAGTAAGAGATTTAAAAAATAAA
* * ** * * * * * **
314073 TGTGTTTACCAAACCAGTTCAAATAGTTAAGACTATTAGAATAATTATCAAT
127 TATATTTACTGAA-TAATTCAAATAGTTATGACTATTTGAACAATTATTTAT
* * ** * * * *
314125 TTCAAATCA-TCT-TGACCTTT-TCTTTAGTCGTGTAATAATTGCTTC-AGTTCAAACAAGTTTA
1 TTCAAAT-AGT-TATGATCTTTGT-TTT-GTCATAAAACAATTGTTTCTA-TTCATACAAGCTTA
* * * * * * *
314186 TTTGAAAGAAAATAATACTAATTTACTAACATTCAAAAAATTAATAA-TCATGAGATTTTAAAAA
61 TTCG-AATAAAATAATACTAATTTATTAATATT-TAAAAATTAGTAAGT-AAGAGA-TTTAAAAA
* * * * * *
314250 AT--ATATGTTTA-TCGAACAAGTTCGAATAATTATGGCTATTTGAATAATTATTTAT
122 ATAAATATATTTACT-GAATAA-TTCAAATAGTTATGACTATTTGAACAATTATTTAT
314305 T
1 T
314306 ATATTTATAA
Statistics
Matches: 960, Mismatches: 211, Indels: 147
0.73 0.16 0.11
Matches are distributed among these distances:
167 38 0.04
168 2 0.00
169 77 0.08
170 4 0.00
171 2 0.00
172 1 0.00
173 3 0.00
174 5 0.01
175 6 0.01
176 208 0.22
177 68 0.07
178 5 0.01
179 48 0.05
180 203 0.21
181 203 0.21
182 52 0.05
183 33 0.03
184 2 0.00
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.41
Consensus pattern (177 bp):
TTCAAATAGTTATGATCTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTCGA
ATAAAATAATACTAATTTATTAATATTTAAAAATTAGTAAGTAAGAGATTTAAAAAATAAATATA
TTTACTGAATAATTCAAATAGTTATGACTATTTGAACAATTATTTAT
Found at i:314325 original size:18 final size:18
Alignment explanation
Indices: 314302--314337 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
314292 AATAATTATT
* *
314302 TATTATATTTATAAATAA
1 TATTATAATAATAAATAA
314320 TATTATAATAATAAATAA
1 TATTATAATAATAAATAA
314338 CAAATTAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TATTATAATAATAAATAA
Found at i:314418 original size:30 final size:31
Alignment explanation
Indices: 314373--314432 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
314363 TATAACTAAT
314373 TAAATTTAATAAATTAATTA-TTAAACTTTAA
1 TAAATTTAATAAATTAATTATTTAAA-TTTAA
* *
314404 TAAA-TTAGTAAATTATTTATTTAAATTTA
1 TAAATTTAATAAATTAATTATTTAAATTTA
314433 TCCAAGCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 17 0.65
31 9 0.35
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (31 bp):
TAAATTTAATAAATTAATTATTTAAATTTAA
Found at i:315571 original size:20 final size:21
Alignment explanation
Indices: 315522--315571 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
315512 GCCCAGAACC
315522 GATCGATCCCTTCCTTGAGGG
1 GATCGATCCCTTCCTTGAGGG
* *
315543 GATCAATCCCTTGCC-T-AGGT
1 GATCGATCCCTT-CCTTGAGGG
315563 GATCGATCC
1 GATCGATCC
315572 ACTATGTGGG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 11 0.44
21 12 0.48
22 2 0.08
ACGTcount: A:0.18, C:0.30, G:0.24, T:0.28
Consensus pattern (21 bp):
GATCGATCCCTTCCTTGAGGG
Found at i:316543 original size:40 final size:40
Alignment explanation
Indices: 316488--316569 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
316478 TTAAGCAATG
* *
316488 CATGGCAAAACTCCCCCTTAATTTGTGCATCCTAATCTAA
1 CATGGCAAAACTCCCCCTCAATTTATGCATCCTAATCTAA
316528 CATGGCAAAACTCCCCCTCAATTTATGCATCCTAATCTAA
1 CATGGCAAAACTCCCCCTCAATTTATGCATCCTAATCTAA
316568 CA
1 CA
316570 CAACTCAACA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.32, C:0.32, G:0.09, T:0.28
Consensus pattern (40 bp):
CATGGCAAAACTCCCCCTCAATTTATGCATCCTAATCTAA
Found at i:322718 original size:18 final size:17
Alignment explanation
Indices: 322695--322755 Score: 63
Period size: 18 Copynumber: 3.5 Consensus size: 17
322685 AACCATTAAG
322695 TTATTAATTATAGTATAA
1 TTATTAATTATA-TATAA
322713 TTATT-ATATATAATATAA
1 TTATTAAT-TAT-ATATAA
322731 -TATTATATTATATATAA
1 TTATTA-ATTATATATAA
*
322748 ATATTAAT
1 TTATTAAT
322756 ATACTTATTA
Statistics
Matches: 38, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
17 14 0.37
18 21 0.55
19 3 0.08
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (17 bp):
TTATTAATTATATATAA
Found at i:322720 original size:14 final size:13
Alignment explanation
Indices: 322701--322766 Score: 61
Period size: 12 Copynumber: 5.4 Consensus size: 13
322691 TAAGTTATTA
322701 ATTATAGTATAATT
1 ATTATA-TATAATT
322715 ATTATATATAA-T
1 ATTATATATAATT
*
322727 A-TA-ATATTA-T
1 ATTATATATAATT
*
322737 ATTATATATAAAT
1 ATTATATATAATT
*
322750 ATTA-ATATACTT
1 ATTATATATAATT
322762 ATTAT
1 ATTAT
322767 CTATTTATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
10 7 0.16
11 4 0.09
12 17 0.39
13 10 0.23
14 6 0.14
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (13 bp):
ATTATATATAATT
Found at i:322740 original size:22 final size:24
Alignment explanation
Indices: 322714--322757 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
322704 ATAGTATAAT
322714 TATTATATAT-AATA-TAATATTA
1 TATTATATATAAATATTAATATTA
322736 TATTATATATAAATATTAATAT
1 TATTATATATAAATATTAATAT
322758 ACTTATTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 10 0.50
23 4 0.20
24 6 0.30
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (24 bp):
TATTATATATAAATATTAATATTA
Found at i:322743 original size:15 final size:18
Alignment explanation
Indices: 322703--322758 Score: 64
Period size: 17 Copynumber: 3.2 Consensus size: 18
322693 AGTTATTAAT
*
322703 TATAGTATAATTATTATA
1 TATAATATAATTATTATA
322721 TATAATATAA-TATTATA
1 TATAATATAATTATTATA
*
322738 T-TATATATAAATATTA-A
1 TATA-ATATAATTATTATA
322755 TATA
1 TATA
322759 CTTATTATCT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
16 2 0.06
17 16 0.47
18 16 0.47
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
TATAATATAATTATTATA
Found at i:322763 original size:22 final size:22
Alignment explanation
Indices: 322709--322763 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
322699 TAATTATAGT
322709 ATAAT-TATTATATATAATATA
1 ATAATATATTATATATAATATA
*
322730 ATATTATATTATATATAA-ATA
1 ATAATATATTATATATAATATA
*
322751 TTAATATACTTAT
1 ATAATATA-TTAT
322764 TATCTATTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 13 0.45
22 16 0.55
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
ATAATATATTATATATAATATA
Found at i:322910 original size:42 final size:42
Alignment explanation
Indices: 322842--322956 Score: 119
Period size: 42 Copynumber: 2.7 Consensus size: 42
322832 AATATTTATT
* *
322842 ATAATTATTTATAATTACTATTATAATATTATCTAATATAATCG
1 ATAATTATATATAATTACTATAATAATATTA-CT-ATATAATCG
*
322886 ATAATTATATA-AATTA-TATAATAATATTACTATATAATAACA
1 ATAATTATATATAATTACTATAATAATATTACTATATAAT--CG
*
322928 ATAATTAT-TAATAATTAATTATAATAATA
1 ATAATTATAT-ATAATT-ACTATAATAATA
322957 ACATAAATAT
Statistics
Matches: 62, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
40 7 0.11
41 3 0.05
42 22 0.35
43 9 0.15
44 11 0.18
45 10 0.16
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.44
Consensus pattern (42 bp):
ATAATTATATATAATTACTATAATAATATTACTATATAATCG
Found at i:322955 original size:16 final size:16
Alignment explanation
Indices: 322902--322957 Score: 57
Period size: 16 Copynumber: 3.7 Consensus size: 16
322892 ATATAAATTA
*
322902 TATAATAAT-ATTACT
1 TATAATAATAATTAAT
*
322917 ATATAATAACAA-TAAT
1 -TATAATAATAATTAAT
322933 TAT--TAATAATTAAT
1 TATAATAATAATTAAT
322947 TATAATAATAA
1 TATAATAATAA
322958 CATAAATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
13 5 0.15
14 7 0.21
15 3 0.09
16 17 0.52
17 1 0.03
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (16 bp):
TATAATAATAATTAAT
Found at i:323045 original size:18 final size:19
Alignment explanation
Indices: 323024--323062 Score: 71
Period size: 18 Copynumber: 2.1 Consensus size: 19
323014 TATTATTTAT
323024 TATTTAATAATTAA-ATAA
1 TATTTAATAATTAAGATAA
323042 TATTTAATAATTAAGATAA
1 TATTTAATAATTAAGATAA
323061 TA
1 TA
323063 AAGCTTAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (19 bp):
TATTTAATAATTAAGATAA
Found at i:323137 original size:17 final size:18
Alignment explanation
Indices: 323115--323155 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
323105 AAAAAATAGT
323115 TTATAAT-ATCAATAATA
1 TTATAATAATCAATAATA
*
323132 TTATAATAATCAATTATA
1 TTATAATAATCAATAATA
323150 -TATAAT
1 TTATAAT
323156 TTATTCGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (18 bp):
TTATAATAATCAATAATA
Found at i:323354 original size:22 final size:22
Alignment explanation
Indices: 323318--323359 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
323308 ACATAATAGC
323318 TAATTTTATATAATATCAATTT
1 TAATTTTATATAATATCAATTT
323340 TAATTGTTATA-AATATCAAT
1 TAATT-TTATATAATATCAAT
323360 AATTTATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (22 bp):
TAATTTTATATAATATCAATTT
Found at i:323444 original size:27 final size:25
Alignment explanation
Indices: 323375--323472 Score: 74
Period size: 26 Copynumber: 3.6 Consensus size: 25
323365 ATATATTTTA
*
323375 TAATAATAAGTAATTATTTTATAAGT
1 TAATAATAA-TAATTATTTAATAAGT
323401 TAATAA-AATAGACTTATTTAATTAAGTAT
1 TAATAATAATA-A-TTATTTAA-TAAG--T
* *
323430 ATAATAATAATTTATTATTTATTAA-T
1 -TAATAATAA-TAATTATTTAATAAGT
323456 TAATAATTAATAATTAT
1 TAATAA-TAATAATTAT
323473 ATATATTTTT
Statistics
Matches: 59, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
24 2 0.03
25 15 0.25
26 17 0.29
27 4 0.07
29 4 0.07
30 13 0.22
31 3 0.05
32 1 0.02
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (25 bp):
TAATAATAATAATTATTTAATAAGT
Found at i:323446 original size:22 final size:23
Alignment explanation
Indices: 323416--323463 Score: 55
Period size: 22 Copynumber: 2.1 Consensus size: 23
323406 AAATAGACTT
323416 ATTTAATTAAGTATATAA-TAATA
1 ATTTAATTAAGTAT-TAATTAATA
**
323439 ATTT-ATTATTTATTAATTAATA
1 ATTTAATTAAGTATTAATTAATA
323461 ATT
1 ATT
323464 AATAATTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 3 0.14
22 15 0.68
23 4 0.18
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
ATTTAATTAAGTATTAATTAATA
Found at i:323459 original size:25 final size:26
Alignment explanation
Indices: 323431--323508 Score: 79
Period size: 26 Copynumber: 2.9 Consensus size: 26
323421 ATTAAGTATA
323431 TAATAATAATTTATTAT-TTATTAAT
1 TAATAATAATTTATTATATTATTAAT
*
323456 TAATAATTAATAATTATATATATTTTTAAT
1 TAATAA-TAAT--TTAT-TATATTATTAAT
*
323486 T-ATAATATATTTATTGTATTATT
1 TAATAATA-ATTTATTATATTATT
323509 TCTATATAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
25 6 0.14
26 11 0.25
27 4 0.09
28 6 0.14
29 9 0.20
30 8 0.18
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.56
Consensus pattern (26 bp):
TAATAATAATTTATTATATTATTAAT
Found at i:323507 original size:19 final size:16
Alignment explanation
Indices: 323437--323497 Score: 58
Period size: 15 Copynumber: 3.9 Consensus size: 16
323427 TATATAATAA
323437 TAATT-TAT-TATTTAT
1 TAATTATATATATTT-T
**
323452 TAATTA-ATA-ATTAA
1 TAATTATATATATTTT
323466 TAATTATATATATTTT
1 TAATTATATATATTTT
323482 TAATTATAATATATTT
1 TAATTAT-ATATATTT
323498 ATTGTATTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
14 6 0.16
15 13 0.35
16 10 0.27
17 8 0.22
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TAATTATATATATTTT
Found at i:323863 original size:35 final size:35
Alignment explanation
Indices: 323795--323910 Score: 100
Period size: 35 Copynumber: 3.4 Consensus size: 35
323785 GTTATTAATT
*
323795 TTTTATATGATATTATATAAAAATATAATTTATAA
1 TTTTATATAATATTATATAAAAATATAATTTATAA
*
323830 TTTTATATAATTTTAT-TAAACAAT-TAATATTATAA
1 TTTTATATAATATTATATAAA-AATATAAT-TTATAA
* * *
323865 TTGTT-T-TAAT-TATATATAATAGTATAATATATAA
1 TT-TTATATAATAT-TATATAAAAATATAATTTATAA
*
323899 TTATAT-TAATAT
1 TTTTATATAATAT
323911 ATTTCAAATT
Statistics
Matches: 67, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
33 2 0.03
34 29 0.43
35 34 0.51
36 2 0.03
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.51
Consensus pattern (35 bp):
TTTTATATAATATTATATAAAAATATAATTTATAA
Found at i:323894 original size:15 final size:16
Alignment explanation
Indices: 323876--323942 Score: 52
Period size: 15 Copynumber: 4.2 Consensus size: 16
323866 TGTTTTAATT
323876 ATATATAA-TAGTA-TA
1 ATATATAATTA-TATTA
323891 ATATATAATTATATTA
1 ATATATAATTATATTA
*
323907 ATATATTTCAAAT-TATTA
1 ATATA--T-AATTATATTA
*
323925 ATATAGAATTA-ATTA
1 ATATATAATTATATTA
323940 ATA
1 ATA
323943 AAATATTAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
15 20 0.47
16 9 0.21
18 11 0.26
19 3 0.07
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (16 bp):
ATATATAATTATATTA
Found at i:324829 original size:176 final size:177
Alignment explanation
Indices: 324391--325048 Score: 585
Period size: 176 Copynumber: 3.7 Consensus size: 177
324381 TCTAATAGTT
*
324391 ATGATCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGTTTATTCAAAATAAAATAA
1 ATGATCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGATTATTCAAAATAAAATAA
* * * *
324456 TACTACTTTATTAATATTTTGCAAATTAATAGGTAGGAGATTTAAAAAATAAATTTGTTTACCAA
66 TACTAATTTATTAATATTTTGAAAATTAATA---A-GAGATTTAAAAAATAAATCTATTTACCAA
* ** *
324521 ACAAGTTCAAATAGTCATGTCCATTAGAACAATTATCTATTTCAAATTGTT
127 ACAAGTTCAAATAGTCATGTCCATTAGAACAATTATCTATCTCAAATCATA
* * * *
324572 ATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTTATACAAAATTATTCAAAAT-AAATCA
1 ATGATCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGATTATTCAAAATAAAATAA
** * * * *
324636 TTTTGATTTATTAATATTTTGAAAATTAATAAGAGATTTAAAAACTAAATCTATTTACTAAACCA
66 TACTAATTTATTAATATTTTGAAAATTAATAAGAGATTTAAAAAATAAATCTATTTACCAAACAA
* * * * *
324701 GTTTAAATAGTTATGAT-TATTTGAATAATTATCTATCTCAAATCATA
131 GTTCAAATAGTCATG-TCCATTAGAACAATTATCTATCTCAAATCATA
* * * * * *
324748 ATGATC-TTTATTTTGTCATACAACAATTGTTTCCT-TTCATACAAGCTTATTCGAATTAAAATG
1 ATGATCTTTTGTTTTGTCATAAAACAATTGTTT-CTATTCATACAAGATTATTCAAAATAAAATA
* ** * *
324811 ATACTAATTTAATAATATTTCAAAAATTAATAAGAGATTTAAAAAA-AAA-ATATGTTAGCCGAA
65 ATACTAATTTATTAATATTTTGAAAATTAATAAGAGATTTAAAAAATAAATCTAT-TTA-CCAAA
* * * * * * * * * * * *
324874 CTAGTTCAAACAGTTAAGACTATCAAAATAATTATTTATTTCAAATCATT
128 CAAGTTCAAATAGTCATGTCCATTAGAACAATTATCTATCTCAAATCATA
* * * * * * ***
324924 CT-ATCCTTTTGTTTAGTCATAAAATAATTATTTC-AGTTCATACAAGCTTCTTTGGAATAAAAT
1 ATGAT-CTTTTGTTTTGTCATAAAACAATTGTTTCTA-TTCATACAAGATTATTCAAAATAAAAT
* * *** *
324987 AATAATAATTTATTAACATTCAAAAAATTAAAGAAAGAGATTTAAAAAAATAAATCTATTTA
64 AATACTAATTTATTAATATTTTGAAAATT-AA-TAAGAGATTT-AAAAAATAAATCTATTTA
325049 ATGAACAATT
Statistics
Matches: 390, Mismatches: 72, Indels: 30
0.79 0.15 0.06
Matches are distributed among these distances:
174 3 0.01
175 49 0.13
176 158 0.41
177 69 0.18
178 2 0.01
179 9 0.02
180 37 0.09
181 60 0.15
182 3 0.01
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.40
Consensus pattern (177 bp):
ATGATCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGATTATTCAAAATAAAATAA
TACTAATTTATTAATATTTTGAAAATTAATAAGAGATTTAAAAAATAAATCTATTTACCAAACAA
GTTCAAATAGTCATGTCCATTAGAACAATTATCTATCTCAAATCATA
Found at i:325043 original size:356 final size:355
Alignment explanation
Indices: 324391--325048 Score: 754
Period size: 352 Copynumber: 1.8 Consensus size: 355
324381 TCTAATAGTT
* *
324391 ATGATCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGTTTATTCAAAATAAAATAA
1 ATGATCTTTTATTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTCAAAATAAAATAA
* * *** * *
324456 TACTACTTTATTAATATTTTGCAAATTAATAGGTAGGAGATTTAAAAAATAAATTTGTTTACCAA
66 TACTAATTTAATAATATTTCAAAAATTAATA-G-AGGAGATTTAAAAAAAAAATATGTTTACCAA
* * * * * **
324521 ACAAGTTCAAATAGTCATGTCCATTAGAACAATTATCTATTTCAAATTGTTATGACCTTTTGTTT
129 ACAAGTTCAAACAGTCAAGACCATCAAAACAATTATCTATTTCAAATCATTATGACCTTTTGTTT
* * * * ** * *
324586 TGTCATAAAACAATTGTTTCTATTTATACAAAATTATTCAAAATAAATCATTTTGATTTATTAAT
194 AGTCATAAAACAATTATTTCTATTCATACAAAATTATTCAAAATAAATAATAATAATTTATTAAC
*** * *
324651 ATTTTGAAAATTAATAAGAGATTTAAAAACTAAATCTATTTACTAAACCAGTTTAAATAGTTATG
259 ATTCAAAAAATTAAAAAGAGATTTAAAAAATAAATCTATTTACTAAACCAGTTTAAATAGTTATG
324716 ATTATTTGAATAATTATCTATCTCAAATCATA
324 ATTATTTGAATAATTATCTATCTCAAATCATA
* * * *
324748 ATGATC-TTTATTTTGTCATACAACAATTGTTTCCT-TTCATACAAGCTTATTCGAATTAAAATG
1 ATGATCTTTTATTTTGTCATAAAACAATTGTTT-CTATTCATACAAGCTTATTCAAAATAAAATA
*
324811 ATACTAATTTAATAATATTTCAAAAATTAATA-A-GAGATTTAAAAAAAAAATATG-TTAGCCGA
65 ATACTAATTTAATAATATTTCAAAAATTAATAGAGGAGATTTAAAAAAAAAATATGTTTA-CCAA
* * * * * *
324873 ACTAGTTCAAACAGTTAAGACTATCAAAATAATTATTTATTTCAAATCATTCT-ATCCTTTTGTT
129 ACAAGTTCAAACAGTCAAGACCATCAAAACAATTATCTATTTCAAATCATTATGA-CCTTTTGTT
* ** * ***
324937 TAGTCATAAAATAATTATTTC-AGTTCATACAAGCTTCTTTGGAATAAAATAATAATAATTTATT
193 TAGTCATAAAACAATTATTTCTA-TTCATACAAAATTATTCAAAAT-AAATAATAATAATTTATT
325001 AACATTCAAAAAATTAAAGAAAGAGATTTAAAAAAATAAATCTATTTA
256 AACATTCAAAAAATT-AA-AAAGAGATTT-AAAAAATAAATCTATTTA
325049 ATGAACAATT
Statistics
Matches: 246, Mismatches: 47, Indels: 17
0.79 0.15 0.05
Matches are distributed among these distances:
351 5 0.02
352 104 0.42
353 26 0.11
354 2 0.01
355 9 0.04
356 92 0.37
357 8 0.03
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.40
Consensus pattern (355 bp):
ATGATCTTTTATTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTCAAAATAAAATAA
TACTAATTTAATAATATTTCAAAAATTAATAGAGGAGATTTAAAAAAAAAATATGTTTACCAAAC
AAGTTCAAACAGTCAAGACCATCAAAACAATTATCTATTTCAAATCATTATGACCTTTTGTTTAG
TCATAAAACAATTATTTCTATTCATACAAAATTATTCAAAATAAATAATAATAATTTATTAACAT
TCAAAAAATTAAAAAGAGATTTAAAAAATAAATCTATTTACTAAACCAGTTTAAATAGTTATGAT
TATTTGAATAATTATCTATCTCAAATCATA
Found at i:325089 original size:356 final size:355
Alignment explanation
Indices: 324391--325092 Score: 745
Period size: 356 Copynumber: 2.0 Consensus size: 355
324381 TCTAATAGTT
* *
324391 ATGATCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGTTTATTCAAAATAAAATAA
1 ATGATCTTTTATTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTCAAAATAAAATAA
* * *** * *
324456 TACTACTTTATTAATATTTTGCAAATTAATAGGTAGGAGATTTAAAAAATAAATTTGTTTACCAA
66 TACTAATTTAATAATATTTCAAAAATTAATA-G-AGGAGATTTAAAAAAAAAATATGTTTACCAA
* * * * * **
324521 ACAAGTTCAAATAGTCATGTCCATTAGAACAATTATCTATTTCAAATTGTTATGACCTTTTGTTT
129 ACAAGTTCAAACAGTCAAGACCATCAAAACAATTATCTATTTCAAATCATTATGACCTTTTGTTT
* * * * ** * *
324586 TGTCATAAAACAATTGTTTCTATTTATACAAAATTATTCAAAATAAATCATTTTGATTTATTAAT
194 AGTCATAAAACAATTATTTCTATTCATACAAAATTATTCAAAATAAATAATAATAATTTATTAAC
*** * * * * * *
324651 ATTTTGAAAATTAATAAGAGATTTAAAAACTAAATCTATTTACTAAACCAGTTTAAATAGTTATG
259 ATTCAAAAAATTAAAAAGAGATTTAAAAAATAAATCTATTTAATAAACCAATTCAAATAGATATG
* ** *
324716 ATTATTTGAATAATTATCTATCTCAAATCATA
324 ACTATTCAAACAATTATCTATCTCAAATCATA
* * * *
324748 ATGATC-TTTATTTTGTCATACAACAATTGTTTCCT-TTCATACAAGCTTATTCGAATTAAAATG
1 ATGATCTTTTATTTTGTCATAAAACAATTGTTT-CTATTCATACAAGCTTATTCAAAATAAAATA
*
324811 ATACTAATTTAATAATATTTCAAAAATTAATA-A-GAGATTTAAAAAAAAAATATG-TTAGCCGA
65 ATACTAATTTAATAATATTTCAAAAATTAATAGAGGAGATTTAAAAAAAAAATATGTTTA-CCAA
* * * * * *
324873 ACTAGTTCAAACAGTTAAGACTATCAAAATAATTATTTATTTCAAATCATTCT-ATCCTTTTGTT
129 ACAAGTTCAAACAGTCAAGACCATCAAAACAATTATCTATTTCAAATCATTATGA-CCTTTTGTT
* ** * ***
324937 TAGTCATAAAATAATTATTTC-AGTTCATACAAGCTTCTTTGGAATAAAATAATAATAATTTATT
193 TAGTCATAAAACAATTATTTCTA-TTCATACAAAATTATTCAAAAT-AAATAATAATAATTTATT
*
325001 AACATTCAAAAAATTAAAGAAAGAGATTTAAAAAAATAAATCTATTTAATGAA-CAATTCCAAAT
256 AACATTCAAAAAATT-AA-AAAGAGATTT-AAAAAATAAATCTATTTAATAAACCAATT-CAAAT
325065 AGATATGACTATTCAAACAATTATCTAT
317 AGATATGACTATTCAAACAATTATCTAT
325093 TTAAAATTAT
Statistics
Matches: 280, Mismatches: 56, Indels: 19
0.79 0.16 0.05
Matches are distributed among these distances:
351 5 0.02
352 104 0.37
353 26 0.09
354 2 0.01
355 13 0.05
356 122 0.44
357 8 0.03
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.39
Consensus pattern (355 bp):
ATGATCTTTTATTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTCAAAATAAAATAA
TACTAATTTAATAATATTTCAAAAATTAATAGAGGAGATTTAAAAAAAAAATATGTTTACCAAAC
AAGTTCAAACAGTCAAGACCATCAAAACAATTATCTATTTCAAATCATTATGACCTTTTGTTTAG
TCATAAAACAATTATTTCTATTCATACAAAATTATTCAAAATAAATAATAATAATTTATTAACAT
TCAAAAAATTAAAAAGAGATTTAAAAAATAAATCTATTTAATAAACCAATTCAAATAGATATGAC
TATTCAAACAATTATCTATCTCAAATCATA
Found at i:325256 original size:24 final size:27
Alignment explanation
Indices: 325220--325275 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 27
325210 TATTATTTAA
325220 TTTAATACTATAA-TAA-ATAATTATT
1 TTTAATACTATAACTAATATAATTATT
325245 TTTAAT-CTATAACTAATATAATTATT
1 TTTAATACTATAACTAATATAATTATT
*
325271 ATTAA
1 TTTAA
325276 AATTATATGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 6 0.21
25 9 0.32
26 13 0.46
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.48
Consensus pattern (27 bp):
TTTAATACTATAACTAATATAATTATT
Found at i:325328 original size:16 final size:16
Alignment explanation
Indices: 325307--325337 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
325297 ATTTTGAAAA
325307 TTAAATTTTATGTATG
1 TTAAATTTTATGTATG
325323 TTAAATTTTATGTAT
1 TTAAATTTTATGTAT
325338 TAAATAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.58
Consensus pattern (16 bp):
TTAAATTTTATGTATG
Found at i:325342 original size:14 final size:14
Alignment explanation
Indices: 325306--325342 Score: 56
Period size: 16 Copynumber: 2.5 Consensus size: 14
325296 TATTTTGAAA
325306 ATTAAATTTTATGT
1 ATTAAATTTTATGT
325320 ATGTTAAATTTTATGT
1 A--TTAAATTTTATGT
325336 ATTAAAT
1 ATTAAAT
325343 AAATATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 7 0.33
16 14 0.67
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (14 bp):
ATTAAATTTTATGT
Found at i:325663 original size:21 final size:24
Alignment explanation
Indices: 325618--325667 Score: 70
Period size: 21 Copynumber: 2.2 Consensus size: 24
325608 ATATATTATT
*
325618 ATAATAAAATAATTAATTTATTAA
1 ATAATAAAATAATTAATTTAATAA
325642 ATAAT-AAATAATT-A-TTAATAA
1 ATAATAAAATAATTAATTTAATAA
325663 ATAAT
1 ATAAT
325668 TGTATTAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 11 0.44
22 1 0.04
23 8 0.32
24 5 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
ATAATAAAATAATTAATTTAATAA
Found at i:326079 original size:17 final size:17
Alignment explanation
Indices: 326045--326082 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
326035 ATATACTATT
*
326045 ATTATATTATTATTTAA
1 ATTATATTATTATATAA
326062 ATTATATTATT-TGATAA
1 ATTATATTATTAT-ATAA
326079 ATTA
1 ATTA
326083 AATAATTGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 1 0.05
17 18 0.95
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (17 bp):
ATTATATTATTATATAA
Found at i:326681 original size:28 final size:24
Alignment explanation
Indices: 326648--326711 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 24
326638 TATTTAAATA
326648 AATAATATATTATAATTATATACTAAT
1 AATAATATATTATAA-TATAT--TAAT
*
326675 AATTAATAAATTATAATATATTAAT
1 AA-TAATATATTATAATATATTAAT
*
326700 AATATTATATTA
1 AATAATATATTA
326712 ATTTGTTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
24 8 0.24
25 6 0.18
27 7 0.21
28 12 0.36
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (24 bp):
AATAATATATTATAATATATTAAT
Found at i:326714 original size:28 final size:28
Alignment explanation
Indices: 326644--326703 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
326634 ATATTATTTA
* * *
326644 AATAAATAATATATTATAATTATATACT
1 AATAATTAATAAATTATAATTATATAAT
326672 AATAATTAATAAATTATAA-TATATTAAT
1 AATAATTAATAAATTATAATTATA-TAAT
326700 AATA
1 AATA
326704 TTATATTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 4 0.14
28 24 0.86
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (28 bp):
AATAATTAATAAATTATAATTATATAAT
Found at i:327298 original size:9 final size:9
Alignment explanation
Indices: 327278--327306 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
327268 GTATAACTAA
327278 AATTAA-AT
1 AATTAATAT
327286 AATTAATAT
1 AATTAATAT
327295 AATTAATAT
1 AATTAATAT
327304 AAT
1 AAT
327307 ATCAAATAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 6 0.30
9 14 0.70
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (9 bp):
AATTAATAT
Found at i:327884 original size:31 final size:29
Alignment explanation
Indices: 327825--327958 Score: 103
Period size: 32 Copynumber: 4.4 Consensus size: 29
327815 GATTAAATAT
*
327825 TATTATATATTATTATAAT-TA-TTGTAA
1 TATTATATATTATTATAATATATTTTTAA
327852 TATTGATATATTATTATAATATATTTATTAA
1 TATT-ATATATTATTATAATATATTT-TTAA
* * *
327883 TAAATATATAATAATATTAATATATTTTTAA
1 T-ATTATATATTATTA-TAATATATTTTTAA
* * *
327914 TA-TATTATAAATATTAATTAATAAATTTTAAA
1 TATTA-TAT-ATTATT-A-TAATATATTTTTAA
*
327946 TAATATATATTAT
1 TATTATATATTAT
327959 AATTTCATGC
Statistics
Matches: 89, Mismatches: 8, Indels: 16
0.79 0.07 0.14
Matches are distributed among these distances:
27 4 0.04
28 15 0.17
29 4 0.04
30 6 0.07
31 27 0.30
32 31 0.35
33 2 0.02
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (29 bp):
TATTATATATTATTATAATATATTTTTAA
Found at i:328260 original size:6 final size:6
Alignment explanation
Indices: 328249--328287 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
328239 TCAATATTGT
* *
328249 TTAATA TTAATA CTAAT- TTAATA TTGATA TTAATA TTAA
1 TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAA
328288 GCTTTTTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
5 4 0.14
6 24 0.86
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (6 bp):
TTAATA
Found at i:328270 original size:17 final size:17
Alignment explanation
Indices: 328248--328287 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
328238 ATCAATATTG
328248 TTTAATATTAATACTAA
1 TTTAATATTAATACTAA
* *
328265 TTTAATATTGATATTAA
1 TTTAATATTAATACTAA
328282 TATTAA
1 T-TTAA
328288 GCTTTTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (17 bp):
TTTAATATTAATACTAA
Found at i:329470 original size:13 final size:13
Alignment explanation
Indices: 329452--329495 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
329442 CTAATCTGTA
329452 TATTAATATAAAT
1 TATTAATATAAAT
*
329465 TATTAATATATAT
1 TATTAATATAAAT
*
329478 TATGGAATATGAAAT
1 TAT-TAATAT-AAAT
329493 TAT
1 TAT
329496 ATTATTAATC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
13 15 0.58
14 5 0.19
15 6 0.23
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (13 bp):
TATTAATATAAAT
Found at i:329655 original size:13 final size:13
Alignment explanation
Indices: 329616--329660 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
329606 TTATAATTAT
329616 TTATAATATA-AA
1 TTATAATATATAA
* * *
329628 TCATATTAAATAA
1 TTATAATATATAA
329641 TTATAATATATAA
1 TTATAATATATAA
329654 TTATAAT
1 TTATAAT
329661 TTATTAAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
12 7 0.27
13 19 0.73
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (13 bp):
TTATAATATATAA
Found at i:329691 original size:40 final size:39
Alignment explanation
Indices: 329630--329776 Score: 92
Period size: 40 Copynumber: 3.7 Consensus size: 39
329620 AATATAAATC
* * *
329630 ATATTAAATAATTATA-ATATATAATTATAATTTATTA-AA
1 ATATTAAATTATT-TAGTTATATAATTAT-ATTTATAATAA
* *
329669 ATAATT-AATCTATTTAGTTATATATTTATTTTTATAATAA
1 AT-ATTAAAT-TATTTAGTTATATAATTATATTTATAATAA
* *
329709 ATATTAAATTATTTATTTA-ATAATTAATTACTTTATAATTA
1 ATATTAAATTATTTAGTTATATAATT-A-TA-TTTATAATAA
*
329750 ATA--ATATTAATTTAGTTAT-TAAATTAT
1 ATATTAAATT-ATTTAGTTATAT-AATTAT
329777 CTAATAATAA
Statistics
Matches: 86, Mismatches: 11, Indels: 22
0.72 0.09 0.18
Matches are distributed among these distances:
38 5 0.06
39 31 0.36
40 34 0.40
41 16 0.19
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (39 bp):
ATATTAAATTATTTAGTTATATAATTATATTTATAATAA
Found at i:329829 original size:21 final size:21
Alignment explanation
Indices: 329803--329860 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
329793 AGTTTAAATA
* *
329803 ATAATATTATTAATTATT-ATT
1 ATAATAGTAATAA-TATTAATT
329824 ATAATAGTAATAATATTAATT
1 ATAATAGTAATAATATTAATT
*
329845 ATAATAATAAATAATA
1 ATAATAGT-AATAATA
329861 GTCAAAATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.12
21 21 0.66
22 7 0.22
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (21 bp):
ATAATAGTAATAATATTAATT
Found at i:329854 original size:27 final size:27
Alignment explanation
Indices: 329799--329860 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
329789 TCTTAGTTTA
* * *
329799 AATAATAATATTATTAATTATTATTAT
1 AATAATAATAATATTAATTATAATAAT
*
329826 AATAGTAATAATATTAATTATAATAAT
1 AATAATAATAATATTAATTATAATAAT
329853 AAATAATA
1 -AATAATA
329861 GTCAAAATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 23 0.79
28 6 0.21
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (27 bp):
AATAATAATAATATTAATTATAATAAT
Found at i:329884 original size:31 final size:31
Alignment explanation
Indices: 329801--329885 Score: 77
Period size: 31 Copynumber: 2.8 Consensus size: 31
329791 TTAGTTTAAA
* * * *
329801 TAATAATATTATTAATTATTAT-TATAATAG
1 TAATAATATTAATAATAATAATAAATAATAG
*
329831 TAATAATATTAATTATAATAATAAATAATAG
1 TAATAATATTAATAATAATAATAAATAATAG
*
329862 TCAA-AATA-TAACTAATAGTAATAA
1 T-AATAATATTAA-TAATAATAATAA
329886 TTTTAATTAT
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
30 21 0.47
31 22 0.49
32 2 0.04
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (31 bp):
TAATAATATTAATAATAATAATAAATAATAG
Found at i:330095 original size:20 final size:22
Alignment explanation
Indices: 330070--330126 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
330060 ATTTATTAAG
330070 ATTATAATAA-ATATAATTAT-
1 ATTATAATAATATATAATTATA
* *
330090 ATTATAGTAATTATATATTTATA
1 ATTATAATAA-TATATAATTATA
*
330113 ATTATAATACTATA
1 ATTATAATAATATA
330127 AAAATATCTA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 9 0.30
22 13 0.43
23 8 0.27
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (22 bp):
ATTATAATAATATATAATTATA
Found at i:330102 original size:14 final size:14
Alignment explanation
Indices: 330070--330127 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
330060 ATTTATTAAG
*
330070 ATTATAATAAATATA
1 ATTAT-ATATATATA
330085 ATTATAT-TATAGTA
1 ATTATATATATA-TA
*
330099 ATTATATATTTATA
1 ATTATATATATATA
330113 ATTATA-ATACTATA
1 ATTATATATA-TATA
330127 A
1 A
330128 AAATATCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
13 5 0.14
14 24 0.65
15 8 0.22
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (14 bp):
ATTATATATATATA
Found at i:330686 original size:18 final size:19
Alignment explanation
Indices: 330650--330692 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
330640 TATACGAATG
330650 TAAATATTATTATTCATAT
1 TAAATATTATTATTCATAT
* *
330669 TAAAT-TTATTTTTTATAT
1 TAAATATTATTATTCATAT
*
330687 TGAATA
1 TAAATA
330693 ACTATAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (19 bp):
TAAATATTATTATTCATAT
Found at i:330856 original size:28 final size:29
Alignment explanation
Indices: 330824--330892 Score: 70
Period size: 32 Copynumber: 2.3 Consensus size: 29
330814 ATATTAGTGT
330824 TTATTAATTAT-TA-TAATAATTAAGTATA
1 TTATTAATTATCTATTAATAATTAAGT-TA
* *
330852 TTATTATTTAATCTATTTTATAATTAAGTTA
1 TTATTAATT-ATCTA-TTAATAATTAAGTTA
*
330883 TAATTAATTA
1 TTATTAATTA
330893 AATATGATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
28 8 0.24
29 2 0.06
30 3 0.09
31 9 0.27
32 11 0.33
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (29 bp):
TTATTAATTATCTATTAATAATTAAGTTA
Found at i:331043 original size:16 final size:17
Alignment explanation
Indices: 331022--331057 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
331012 TAATAAAAAT
331022 ATTATAATCATTA-ATA
1 ATTATAATCATTACATA
*
331038 ATTATAATTATTACATA
1 ATTATAATCATTACATA
331055 ATT
1 ATT
331058 TTTTAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTATAATCATTACATA
Found at i:331075 original size:28 final size:27
Alignment explanation
Indices: 331044--331099 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
331034 AATAATTATA
*
331044 ATTATT-ACATAATTTTTTAATATTAATT
1 ATTATTAAC-TAATTATTTAA-ATTAATT
331072 ATTATTAATCTAATTATTTAAATTAATT
1 ATTATTAA-CTAATTATTTAAATTAATT
331100 TATATTATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 13 0.52
29 11 0.44
30 1 0.04
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (27 bp):
ATTATTAACTAATTATTTAAATTAATT
Found at i:331098 original size:18 final size:18
Alignment explanation
Indices: 331075--331112 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
331065 ATTAATTATT
331075 ATTAATCTA-ATTATTTAA
1 ATTAATCTATATTA-TTAA
*
331093 ATTAATTTATATTATTAA
1 ATTAATCTATATTATTAA
331111 AT
1 AT
331113 AAAATAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTAATCTATATTATTAA
Found at i:331506 original size:25 final size:24
Alignment explanation
Indices: 331476--331540 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 24
331466 TTGATTTCTT
*
331476 TATTAATAATATTAAAAATCTATTA
1 TATTAATAATATTAAAAAT-AATTA
*
331501 TATTAAT-ATAGTATAATAATAATTA
1 TATTAATAATA-T-TAAAAATAATTA
331526 TATTAACTAATATTA
1 TATTAA-TAATATTA
331541 CTATAAATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
24 3 0.09
25 20 0.59
26 8 0.24
27 3 0.09
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.45
Consensus pattern (24 bp):
TATTAATAATATTAAAAATAATTA
Found at i:331800 original size:27 final size:27
Alignment explanation
Indices: 331770--331831 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
331760 ACAATTATTA
331770 TATATATAATTATTAA-ATATTTAATAC
1 TATA-ATAATTATTAACATATTTAATAC
**
331797 TATAATTGTTATTAACATATTTAATA-
1 TATAATAATTATTAACATATTTAATAC
331823 TATTAATAA
1 TA-TAATAA
331832 AATAAACTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 11 0.38
27 18 0.62
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (27 bp):
TATAATAATTATTAACATATTTAATAC
Found at i:332688 original size:22 final size:24
Alignment explanation
Indices: 332658--332723 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 24
332648 CTAAATCTTG
*
332658 TTTAGTATTAATTA-TATAA-TAA
1 TTTAATATTAATTATTATAACTAA
*
332680 TTTATTATTAA-TATTATAATCTAA
1 TTTAATATTAATTATTATAA-CTAA
332704 TTTAATATTATATTAATTAT
1 TTTAATATTA-ATT-ATTAT
332724 TGATATAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
21 2 0.06
22 15 0.42
24 12 0.33
25 1 0.03
26 1 0.03
27 5 0.14
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (24 bp):
TTTAATATTAATTATTATAACTAA
Found at i:332729 original size:18 final size:18
Alignment explanation
Indices: 332663--332734 Score: 57
Period size: 18 Copynumber: 4.2 Consensus size: 18
332653 TCTTGTTTAG
332663 TATTAATTATATAATA--A
1 TATTAATTAT-TAATATTA
332680 T-TT-ATTATTAATATTA
1 TATTAATTATTAATATTA
332696 TAATCTAA-T-TTAATATTA
1 T-AT-TAATTATTAATATTA
* *
332714 TATTAATTATTGATATAA
1 TATTAATTATTAATATTA
332732 TAT
1 TAT
332735 AATAATTGTC
Statistics
Matches: 45, Mismatches: 2, Indels: 15
0.73 0.03 0.24
Matches are distributed among these distances:
14 5 0.11
15 5 0.11
16 7 0.16
17 4 0.09
18 21 0.47
19 2 0.04
20 1 0.02
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (18 bp):
TATTAATTATTAATATTA
Found at i:333582 original size:15 final size:15
Alignment explanation
Indices: 333562--333615 Score: 108
Period size: 15 Copynumber: 3.6 Consensus size: 15
333552 GGTAATCTCT
333562 AACTCTTATGATTCA
1 AACTCTTATGATTCA
333577 AACTCTTATGATTCA
1 AACTCTTATGATTCA
333592 AACTCTTATGATTCA
1 AACTCTTATGATTCA
333607 AACTCTTAT
1 AACTCTTAT
333616 ACTTTTGATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 39 1.00
ACGTcount: A:0.33, C:0.20, G:0.06, T:0.41
Consensus pattern (15 bp):
AACTCTTATGATTCA
Found at i:339691 original size:28 final size:30
Alignment explanation
Indices: 339609--339692 Score: 81
Period size: 28 Copynumber: 2.8 Consensus size: 30
339599 TATAAATTAT
339609 TATAATAATT-ATAATAAT-TT-ATTTATAG
1 TATAAT-ATTAATAATAATATTAATTTATAG
339637 TATAATATTAATAATAATATTCATAATTTA-A-
1 TATAATATTAATAATAATA-T--TAATTTATAG
339668 TA-AATATTAAATAATAATATTAATT
1 TATAATATT-AATAATAATATTAATT
339693 GTTATATAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 14
0.78 0.00 0.22
Matches are distributed among these distances:
27 3 0.06
28 19 0.39
30 8 0.16
31 12 0.24
32 2 0.04
33 5 0.10
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (30 bp):
TATAATATTAATAATAATATTAATTTATAG
Found at i:339867 original size:7 final size:7
Alignment explanation
Indices: 339855--339981 Score: 64
Period size: 7 Copynumber: 17.0 Consensus size: 7
339845 TATATATTTG
339855 TTATT-A
1 TTATTAA
339861 TTAATTAA
1 TT-ATTAA
* *
339869 TAAATAA
1 TTATTAA
339876 TTATTAA
1 TTATTAA
*
339883 TTATTAG
1 TTATTAA
*
339890 TTA-TAG
1 TTATTAA
339896 TATATTAA
1 T-TATTAA
339904 TTA-TACTA
1 TTATTA--A
*
339912 TTAATAA
1 TTATTAA
339919 TTAATTAA
1 TT-ATTAA
339927 TTATGT-A
1 TTAT-TAA
339934 TTATTAA
1 TTATTAA
339941 TTATATAAA
1 TTAT-T-AA
*
339950 CTAATTAA
1 -TTATTAA
339958 TTATTAA
1 TTATTAA
339965 TATATTTAAA
1 T-TA-TT-AA
339975 TTATTAA
1 TTATTAA
339982 ACTAATTATA
Statistics
Matches: 96, Mismatches: 9, Indels: 31
0.71 0.07 0.23
Matches are distributed among these distances:
6 9 0.09
7 49 0.51
8 23 0.24
9 9 0.09
10 6 0.06
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (7 bp):
TTATTAA
Done.