Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168496.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_93, 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: 94084
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
File 1 of 2
Found at i:682 original size:21 final size:21
Alignment explanation
Indices: 658--701 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
648 ATTTAATAAT
658 TTAAATAATAATTAAATTAAA
1 TTAAATAATAATTAAATTAAA
* * *
679 TTAAATTATTATTAAATTTAA
1 TTAAATAATAATTAAATTAAA
700 TT
1 TT
702 TATTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TTAAATAATAATTAAATTAAA
Found at i:692 original size:16 final size:17
Alignment explanation
Indices: 673--706 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
663 TAATAATTAA
673 ATTAAA-TTAAATTATT
1 ATTAAATTTAAATTATT
*
689 ATTAAATTTAATTTATT
1 ATTAAATTTAAATTATT
706 A
1 A
707 ATTATAACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTAAATTTAAATTATT
Found at i:710 original size:21 final size:21
Alignment explanation
Indices: 654--711 Score: 55
Period size: 21 Copynumber: 2.7 Consensus size: 21
644 AACCATTTAA
* *
654 TAATTTAAATAATAATTAAATT
1 TAATTT-ATTAATTATTAAATT
* *
676 AAATTAAATT-ATTATTAAATT
1 TAATT-TATTAATTATTAAATT
697 TAATTTATTAATTAT
1 TAATTTATTAATTAT
712 AACAATATTA
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
20 3 0.11
21 19 0.68
22 6 0.21
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TAATTTATTAATTATTAAATT
Found at i:792 original size:21 final size:22
Alignment explanation
Indices: 758--800 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
748 CTAGTTAATA
*
758 CAATAATTGATATTATTATTAT
1 CAATAATTAATATTATTATTAT
780 CAAT-ATTAATATTATTATTAT
1 CAATAATTAATATTATTATTAT
801 TATATTAGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.51
Consensus pattern (22 bp):
CAATAATTAATATTATTATTAT
Found at i:1046 original size:19 final size:19
Alignment explanation
Indices: 996--1047 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
986 AATATTTATA
*
996 ATAATTATTTAATATTAATT
1 ATAATTA-TTAATATTAACT
* *
1016 AT-TTTGAATAATATTAACT
1 ATAATT-ATTAATATTAACT
1035 ATAATTATTAATA
1 ATAATTATTAATA
1048 AAAAAATAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 5
0.71 0.14 0.14
Matches are distributed among these distances:
19 20 0.80
20 5 0.20
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (19 bp):
ATAATTATTAATATTAACT
Found at i:1601 original size:14 final size:15
Alignment explanation
Indices: 1584--1612 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1574 TATTATTGTT
1584 TATTAATT-AATTAA
1 TATTAATTGAATTAA
1598 TATTAATTGAATTAA
1 TATTAATTGAATTAA
1613 CAAAAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (15 bp):
TATTAATTGAATTAA
Found at i:3198 original size:13 final size:14
Alignment explanation
Indices: 3157--3213 Score: 54
Period size: 12 Copynumber: 4.5 Consensus size: 14
3147 AATTAAATTA
3157 TATAATA-A-ATAT
1 TATAATATACATAT
*
3169 TATTATATA-ATA-
1 TATAATATACATAT
*
3181 CATAATATACA-AT
1 TATAATATACATAT
3194 TATAAT-TACATAT
1 TATAATATACATAT
3207 TATAATA
1 TATAATA
3214 ATTAATATGA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
12 18 0.50
13 18 0.50
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (14 bp):
TATAATATACATAT
Found at i:3327 original size:18 final size:19
Alignment explanation
Indices: 3304--3339 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
3294 ATTTATTATA
3304 ATAAATAGTAA-TAATATT
1 ATAAATAGTAACTAATATT
*
3322 ATAAATATTAACTAATAT
1 ATAAATAGTAACTAATAT
3340 ATGACTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (19 bp):
ATAAATAGTAACTAATATT
Found at i:3384 original size:18 final size:18
Alignment explanation
Indices: 3236--3386 Score: 53
Period size: 18 Copynumber: 8.1 Consensus size: 18
3226 CATAAAATAT
*
3236 TATTAATAATATTTAATTA
1 TATTAAT-ATATTAAATTA
* *
3255 TAATAATTTATTAAATTA
1 TATTAATATATTAAATTA
* *
3273 TTACATGATACTATATAAATTA
1 -TA-TTAATA-TAT-TAAATTA
* *
3295 T-TTATTATAATAAA-TA
1 TATTAATATATTAAATTA
* *
3311 GTAATAATATTATAAATATTA
1 -TATTAATA-TATTAA-ATTA
* * *
3332 -ACTAATATATGACTATTA
1 TATTAATATATTA-AATTA
3350 GT-TTAA-A-ATTGAAATTA
1 -TATTAATATATT-AAATTA
3367 TATTAATATATTAAATTA
1 TATTAATATATTAAATTA
3385 TA
1 TA
3387 ATAGCCAAAT
Statistics
Matches: 97, Mismatches: 19, Indels: 33
0.65 0.13 0.22
Matches are distributed among these distances:
16 3 0.03
17 15 0.15
18 34 0.35
19 27 0.28
20 5 0.05
21 6 0.06
22 7 0.07
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (18 bp):
TATTAATATATTAAATTA
Found at i:3861 original size:13 final size:14
Alignment explanation
Indices: 3831--3863 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
3821 GAAATATTAT
3831 TAATATTATCTAATA
1 TAAT-TTATCTAATA
3846 TAATTTATCT-ATA
1 TAATTTATCTAATA
3859 TAATT
1 TAATT
3864 ATAAATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.44
14 6 0.33
15 4 0.22
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (14 bp):
TAATTTATCTAATA
Found at i:3993 original size:15 final size:16
Alignment explanation
Indices: 3966--3995 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3956 CAATTATATT
3966 AATATTAATATAATTA
1 AATATTAATATAATTA
3982 AATATTAA-ATAATT
1 AATATTAATATAATT
3996 CATTTTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AATATTAATATAATTA
Found at i:4362 original size:19 final size:18
Alignment explanation
Indices: 4328--4367 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
4318 TTACTAATCG
*
4328 ATAATTAATAATTATATA
1 ATAAATAATAATTATATA
4346 ATAAATAATATATTATATA
1 ATAAATAATA-ATTATATA
4365 ATA
1 ATA
4368 TTTAAATGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
ATAAATAATAATTATATA
Found at i:4857 original size:181 final size:180
Alignment explanation
Indices: 4541--5665 Score: 944
Period size: 181 Copynumber: 6.3 Consensus size: 180
4531 ATTTATTAAA
* * * * * * * *
4541 TATTATTTTATTTCGAACAAACTTATATGAACAAAAACATTTGTTTTACGACAAAACAAAATGTC
1 TATTATTTTATTTCGAATAAGCTTGTATGAAGATAAACAATTGTTTTATGACAAAACAAAAGGTC
* * * * * * *
4606 ATAACGATTTGAAATAGATAATTATTCATATAGCCT-TAACTATTTGAATTGGTTCGGTAAACAA
66 ATAACGATTTGAAATAGATAATTGTTCAAATAG-TTATAACTATTTGAACTGATTCGATAAACAG
* * *
4670 ATTTATTTTTTAAATCTATCAGTTATTAAATTTCATAATATTACTAGATTAG
130 ATTTATTTTTTAAATCT-TCACTTATTAAATTTCATAATATTAATAAATTAG
* *
4722 TATTATTTTATTTCGAATAAGCTTGTATGAAGATAAATAATTGTTTTATGACAAAACAAAAGGTT
1 TATTATTTTATTTCGAATAAGCTTGTATGAAGATAAACAATTGTTTTATGACAAAACAAAAGGTC
* * * *
4787 ATAACGATTAGAAATATATAATGGTTCAAATAGTTATAACTATTTAAACTGATTCGATAAACAGA
66 ATAACGATTTGAAATAGATAATTGTTCAAATAGTTATAACTATTTGAACTGATTCGATAAACAGA
* * *
4852 TTTATTTTTTAAATCTCCTACTTATTAATTTTTCA-AATATTAGTAAATTAG
131 TTTATTTTTTAAATCTTC-ACTTATTAA-ATTTCATAATATTAATAAATTAG
* * * * * * * *
4903 TATTATTTTATTTTGAATAGGCTTGCACGATGAAAAACAATTGTCTTATGACAAAACAAAAGTTC
1 TATTATTTTATTTCGAATAAGCTTGTATGAAGATAAACAATTGTTTTATGACAAAACAAAAGGTC
* * * * ** * * *
4968 ATAATGATTTTAAATAGATAATTGTTTAAATGGCCATAATTATTTGAATTGATTCGATAAACTGA
66 ATAACGATTTGAAATAGATAATTGTTCAAATAGTTATAACTATTTGAACTGATTCGATAAACAGA
* * * * * * *
5033 TTTATGTTTTAAATCTCTAACTTATCAATTTTTATAATATTAATAAAGTAA
131 TTTATTTTTTAAATCT-TCACTTATTAAATTTCATAATATTAATAAATTAG
* * * * *
5084 TATTATTTTATTTC-AGATAAGCTTTTATGAA-CTGAAACAATTGTTTTATGATAAAATATAAGG
1 TATTATTTTATTTCGA-ATAAGCTTGTATGAAGAT-AAACAATTGTTTTATGACAAAACAAAAGG
* * * * * * *
5147 TCATAACGATTTTAAATAGATAATTGTTCAAATAGTAAAAAATATTTGAACT-TTTCGGTAAATA
64 TCATAACGATTTGAAATAGATAATTGTTCAAATAGTTATAACTATTTGAACTGATTCGATAAACA
* * * **
5211 GATTT-TTTTCTAATTTCTT-ACTTAAT-AATTTTTTGAATATTAATAAATTAG
129 GATTTATTTTTTAA-ATCTTCACTTATTAAATTTCAT-AATATTAATAAATTAG
* * * *
5262 TATTATTTTATTTCGAATAAG-TATGTATG-AGTTGAAGCAATTATTTTATGACTAAACAAAAGG
1 TATTATTTTATTTCGAATAAGCT-TGTATGAAGAT-AAACAATTGTTTTATGACAAAACAAAAGG
* * * * *
5325 TCAAAAATGATTTGAAATAGATAATTGTTCTAATAGTCT-TAACTATTTGAACTAATTC-AGCAA
64 TC-ATAACGATTTGAAATAGATAATTGTTCAAATAGT-TATAACTATTTGAACTGATTCGA-TAA
* * * * *
5388 ACACATTTATTTTTTAAATCCTT-ACTTATT-AATGTTTAGAATATTATTAATTTAG
126 ACAGATTTATTTTTTAAAT-CTTCACTTATTAAAT-TTCATAATATTAATAAATTAG
* * * * * * * * * *
5443 CAATATTTTA-CTCTAAATAAGCTTGT-TGAATAGAAATTAAATGTTTTAGGACAAAACAAAA-A
1 TATTATTTTATTTC-GAATAAGCTTGTATGAAGATAAA-CAATTGTTTTATGACAAAACAAAAGG
* * * * * * * *
5505 TCATAACAATTGGAGATAGATAATTGTTCAAATAGTCATAACTATTTGAATTGGTTCGGTAAAGA
64 TCATAACGATTTGAAATAGATAATTGTTCAAATAGTTATAACTATTTGAACTGATTCGATAAACA
* * * *
5570 GATTTAGTTTTTAAATC-T--CTTATTAATTTTCAAAATAGTAATAAA-TAG
129 GATTTATTTTTTAAATCTTCACTTATTAAATTTCATAATATTAATAAATTAG
** * *
5618 TATTATTTTA-TTCTGAATAATTTTGTATGAATAGAAACAATTGGTTTT
1 TATTATTTTATTTC-GAATAAGCTTGTATGAAGATAAACAATT-GTTTT
5666 GGAACATTAA
Statistics
Matches: 755, Mismatches: 161, Indels: 61
0.77 0.16 0.06
Matches are distributed among these distances:
175 26 0.03
176 33 0.04
177 11 0.01
178 71 0.09
179 112 0.15
180 44 0.06
181 449 0.59
182 9 0.01
ACGTcount: A:0.39, C:0.09, G:0.11, T:0.41
Consensus pattern (180 bp):
TATTATTTTATTTCGAATAAGCTTGTATGAAGATAAACAATTGTTTTATGACAAAACAAAAGGTC
ATAACGATTTGAAATAGATAATTGTTCAAATAGTTATAACTATTTGAACTGATTCGATAAACAGA
TTTATTTTTTAAATCTTCACTTATTAAATTTCATAATATTAATAAATTAG
Found at i:5908 original size:181 final size:181
Alignment explanation
Indices: 5662--6869 Score: 951
Period size: 180 Copynumber: 6.8 Consensus size: 181
5652 AAACAATTGG
* * * *
5662 TTTTGGAACATTAATAAATTTA-TATTATTTTATTTGAAATAAGCTTGA-ATGAATAGAACCAAT
1 TTTTGAAATATTAATAAA-TTAGTATTATTTTATTTCAAATAAGCTT-ATATGAATAGAAACAAT
* * *
5725 TGTTTTATAACAAAACAAAAGGTTGCAATGTTTTGAAATAGATAATTATT-AAGATAGTCATAAC
64 TGTTTTATGACAAAACAAAAGGTTACAATGATTTGAAATAGATAATTATTCAA-ATAGTCATAAC
* *
5789 TATTTGAACTTGTTCGATAAATAGATTTTTTTTTTAATTCTCTTACTTTTTAAT
128 TATTTGAACTTGTTCGATAAATAGATTTTTTTTTTAAATCTCTTACTTATTAAT
* * * *
5843 TTTTGGAATATTAATAAATTAGTATTATTTTATTTCAAATAAGCTAACATGAATTGAAACAATTG
1 TTTTGAAATATTAATAAATTAGTATTATTTTATTTCAAATAAGCTTATATGAATAGAAACAATTG
* * * *
5908 TTTTATTACAAAACAAAATGTTACAATGATTTGAAGTAGATAATTATTCAAATAGTCATGACTAT
66 TTTTATGACAAAACAAAAGGTTACAATGATTTGAAATAGATAATTATTCAAATAGTCATAACTAT
* * * ** *
5973 TTGAACTTGTTTGGTAAACT-TA-TTTTTTTAAAAATCTTTTACTTATTAAT
131 TTGAACTTGTTCGATAAA-TAGATTTTTTTTTTAAATCTCTTACTTATTAAT
* * * * * ** * *
6023 TGTTGAAATATTAATAAATCAATATTATTTTA-ATCTGAATAAGCTCGTATGGACAGAAACAATT
1 TTTTGAAATATTAATAAATTAGTATTATTTTATTTC-AAATAAGCTTATATGAATAGAAACAATT
* * * * *
6087 GTTTTATGACAAAACAAAAAAGTCATAA-GAATTTGAAATAAATAATTATTCAGATAGTCATAA-
65 GTTTTATGACAAAAC-AAAAGGTTACAATG-ATTTGAAATAGATAATTATTCAAATAGTCATAAC
* * * *
6150 TGATTTGAATTTGTTCGATAAATAG--TTTATTTTTAAATCTTTTAATTATTAAT
128 T-ATTTGAACTTGTTCGATAAATAGATTTTTTTTTTAAATCTCTTACTTATTAAT
* * * *
6203 TGTCTT--AATATTAATAAATTTGTATTATTTTA-TTCTAAGTAAGCTTATATGAACA-AATAAA
1 T-T-TTGAAATATTAATAAATTAGTATTATTTTATTTC-AAATAAGCTTATATGAATAGAA-ACA
** * * * * ** * * * *
6264 ATCATTATATGACAAACCAAAAGGTTA-TAGGATTCCAAATCA-ATAATTGTTCTAATTGCCATA
62 ATTGTTTTATGACAAAACAAAAGGTTACAATGATTTGAAAT-AGATAATTATTCAAATAGTCATA
* * * ** *
6327 ATTATTTAAACTTGTTCGGTAAATAGATTCATTTTTTAAATCTCTTAATTATTAAT
126 ACTATTTGAACTTGTTCGATAAATAGATTTTTTTTTTAAATCTCTTACTTATTAAT
* * * * *
6383 TTTT-AGAATATTAATAACA-TGGTATTATTTTATTTCCAATAACCTTATATGAACT-GTAATAA
1 TTTTGA-AATATTAATAA-ATTAGTATTATTTTATTTCAAATAAGCTTATATGAA-TAGAAACAA
* * * *
6445 GTT-TTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAACTATTCAAATAGTCAT--
63 -TTGTTTTATGACAAAACAAAAGGTTACAATGATTTGAAATAGATAATTATTCAAATAGTCATAA
* * * * * * * *
6507 -GA-TTG-TCTAG---G-T-AATCATATTTATTTCTAAAAT-TTTTAACTTATTAAT
127 CTATTTGAACTTGTTCGATAAAT-AGATTTTTTTTTTAAATCTCTT-ACTTATTAAT
* ** * * * *
6555 TGTCAAAATATTAATAAATTAGTATTATTTTAATCCAAATAAGCTTGTATGAATAGAAACAATTA
1 TTTTGAAATATTAATAAATTAGTATTATTTTATTTCAAATAAGCTTATATGAATAGAAACAATTG
* * * * * * * *
6620 TTTTATAACAGAACAAAATGTCATAAAGATTTGAAATAAATAATTACTCAAATAGTCATAACTAT
66 TTTTATGACAAAACAAAAGGTTACAATGATTTGAAATAGATAATTATTCAAATAGTCATAACTAT
** * * *
6685 TTGAACAAGTTTGATAAATAAATTTTATTTTTTAAA--TC--ACTTTTTAAT
131 TTGAACTTGTTCGATAAATAGATTTT-TTTTTTAAATCTCTTACTTATTAAT
* * * * * *
6733 TTTTGAAATATTAATAGATTAGTATTAGTTTATTTCTAATAAACTTATATGAACA-AAACCATTA
1 TTTTGAAATATTAATAAATTAGTATTATTTTATTTCAAATAAGCTTATATGAATAGAAACAATT-
* * * * *
6797 GTTTTATGACAAAACAAAAAGTAATAATGATTTGAAATATG-TAATTGTTCAAATAGTCATAATT
65 GTTTTATGACAAAACAAAAGGTTACAATGATTTGAAATA-GATAATTATTCAAATAGTCATAACT
*
6861 ATTTAAACT
129 ATTTGAACT
6870 GATTAGGTAA
Statistics
Matches: 823, Mismatches: 159, Indels: 93
0.77 0.15 0.09
Matches are distributed among these distances:
171 10 0.01
172 121 0.15
173 2 0.00
175 1 0.00
176 6 0.01
177 12 0.01
178 161 0.20
179 15 0.02
180 261 0.32
181 219 0.27
182 15 0.02
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (181 bp):
TTTTGAAATATTAATAAATTAGTATTATTTTATTTCAAATAAGCTTATATGAATAGAAACAATTG
TTTTATGACAAAACAAAAGGTTACAATGATTTGAAATAGATAATTATTCAAATAGTCATAACTAT
TTGAACTTGTTCGATAAATAGATTTTTTTTTTAAATCTCTTACTTATTAAT
Found at i:6185 original size:602 final size:600
Alignment explanation
Indices: 5071--6189 Score: 1378
Period size: 602 Copynumber: 1.9 Consensus size: 600
5061 TTTTTATAAT
* ** * *
5071 ATTAATAAAGTAATATTATTTTATTTCAGATAAGCTTTTATGAACTGAAACAATTGTTTTATGAT
1 ATTAATAAAGTAATATTATTTTATTTCAAATAAGCTTGAATGAACTGAAACAATTGTTTTATAAC
* * * *
5136 AAAATATAAGGTCATAACGATTTTAAATAGATAATTGTTCAAATAGTAAAAAATATTTGAACTTT
66 AAAACAAAAGGTCACAACGATTTTAAATAGATAATTATTCAAATAGTAAAAAATATTTGAACTTT
* *
5201 TCGGTAAATAGATTTTTTTCTAATTTCTTACTTAATAATTTTTTGAATATTAATAAATTAGTATT
131 TCGATAAATAGATTTTTTTCTAATTTCTTACTTAATAATTTTTGGAATATTAATAAATTAGTATT
* ** * * *
5266 ATTTTATTTCGAATAAGTATGTATGAGTTGAAGCAATTATTTTATGACTAAACAAAAGGTCAAAA
196 ATTTTATTTCAAATAAGTATACATGAATTGAAACAATTATTTTATGACAAAACAAAAGGTCAAAA
* * *
5331 ATGATTTGAAATAGATAATTGTTCTAATAGTCTTAACTATTTGAACTAATTCAGCAAACACATTT
261 ATGATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTAATTCAGCAAACACATTT
** * * * * * *
5396 ATTTTTTAAATCCTTACTTATTAATGTTTAGAATATTATTAATTTAGCAATATTTTACTCTAAAT
326 ATTTTAAAAATCCTTACTTATTAATGTTGAGAATATTAATAAATCAACAATATTTTAATCTAAAT
* * * * *
5461 AAGCTTGTTGAATAGAAATTAAATGTTTTAGGACAAAACAAAAATCATAACAATTGGAGATAGAT
391 AAGCTCGTTGAACAGAAATCAAATGTTTTAGGACAAAACAAAAATCATAACAATTGGAAATAAAT
* *
5526 AATTGTTCAAATAGTCATAACTATTTGAATTGGTTCGGTAAAGAGATTTAGTTTTTAAATCTCTT
456 AATTATTCAAATAGTCATAACTATTTGAATTGGTTCGATAAAGAGATTTAGTTTTTAAATCTCTT
5591 ATTAATTTTCAAAATAGTAATAAATAGTATTATTTTATTCTGAATAATTTTGTATGAATAGAAAC
521 ATTAATTTTCAAAATAGTAATAAATAGTATTATTTTATTCTGAATAATTTTGTATGAATAGAAAC
5656 AATTGGTTTTGGAAC
586 AATTGGTTTTGGAAC
* * * *
5671 ATTAATAAATTTATATTATTTTATTTGAAATAAGCTTGAATGAA-TAGAACCAATTGTTTTATAA
1 ATTAATAAAGTAATATTATTTTATTTCAAATAAGCTTGAATGAACT-GAAACAATTGTTTTATAA
** * * * *
5735 CAAAACAAAAGGTTGCAATG-TTTTGAAATAGATAATTATT-AAGATAGTCATAACTATTTGAAC
65 CAAAACAAAAGGTCACAACGATTTT-AAATAGATAATTATTCAA-ATAGTAAAAAATATTTGAAC
* **
5798 TTGTTCGATAAATAGATTTTTTTTTTAATTCTCTTACTTTTTAATTTTTGGAATATTAATAAATT
128 TT-TTCGATAAATAGA-TTTTTTTCTAATT-TCTTACTTAATAATTTTTGGAATATTAATAAATT
* * *
5863 AGTATTATTTTATTTCAAATAAGCTA-ACATGAATTGAAACAATTGTTTTATTACAAAACAAAAT
190 AGTATTATTTTATTTCAAATAAG-TATACATGAATTGAAACAATTATTTTATGACAAAACAAAAG
* * * * ** ** *
5927 GT-TACAATGATTTGAAGTAGATAATTATTCAAATAGTCATGACTATTTGAACTTGTTTGGTAAA
254 GTCAAAAATGATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTAATTCAGCAAA
** * * *
5991 CTTATTT-TTTTAAAAATCTTTTACTTATTAATTGTTGA-AATATTAATAAATCAATATTATTTT
319 CACATTTATTTTAAAAATC-CTTACTTATTAA-TGTTGAGAATATTAATAAATCAACAATATTTT
* * * * *
6054 AATCTGAATAAGCTCGTATGGACAGAAA-CAATTGTTTTATGACAAAACAAAAAAGTCATAAGAA
382 AATCTAAATAAGCTCGT-TGAACAGAAATCAAATGTTTTAGGACAAAAC-AAAAA-TCATAACAA
* * * *
6118 TTTGAAATAAATAATTATTCAGATAGTCATAA-TGATTTGAATTTGTTCGATAAATAG-TTTA-T
444 TTGGAAATAAATAATTATTCAAATAGTCATAACT-ATTTGAATTGGTTCGATAAAGAGATTTAGT
6180 TTTTAAATCT
508 TTTTAAATCT
6190 TTTAATTATT
Statistics
Matches: 432, Mismatches: 74, Indels: 24
0.82 0.14 0.05
Matches are distributed among these distances:
599 7 0.02
600 100 0.23
601 21 0.05
602 139 0.32
603 108 0.25
604 57 0.13
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.41
Consensus pattern (600 bp):
ATTAATAAAGTAATATTATTTTATTTCAAATAAGCTTGAATGAACTGAAACAATTGTTTTATAAC
AAAACAAAAGGTCACAACGATTTTAAATAGATAATTATTCAAATAGTAAAAAATATTTGAACTTT
TCGATAAATAGATTTTTTTCTAATTTCTTACTTAATAATTTTTGGAATATTAATAAATTAGTATT
ATTTTATTTCAAATAAGTATACATGAATTGAAACAATTATTTTATGACAAAACAAAAGGTCAAAA
ATGATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTAATTCAGCAAACACATTT
ATTTTAAAAATCCTTACTTATTAATGTTGAGAATATTAATAAATCAACAATATTTTAATCTAAAT
AAGCTCGTTGAACAGAAATCAAATGTTTTAGGACAAAACAAAAATCATAACAATTGGAAATAAAT
AATTATTCAAATAGTCATAACTATTTGAATTGGTTCGATAAAGAGATTTAGTTTTTAAATCTCTT
ATTAATTTTCAAAATAGTAATAAATAGTATTATTTTATTCTGAATAATTTTGTATGAATAGAAAC
AATTGGTTTTGGAAC
Found at i:8152 original size:177 final size:176
Alignment explanation
Indices: 7795--8772 Score: 716
Period size: 177 Copynumber: 5.5 Consensus size: 176
7785 ATCTCTTTAT
* ** * * * * *
7795 TATTAATAAATTAGTACTATTTTATTTTGAATAAGCTTATATGAACTAAAGCAACTCTTTTATGA
1 TATTAATAAATTAGTATTATTTTATTTCAAATAAGCTTGTAT-AA-AAAAACAATTGTTTTATGA
* * * * * * * *
7860 CAAATCAAAAGGTCATAATGATTTGAAATAGATAATTATTCAAATTGTCATGATTATTTGATCTA
64 CAAAACAAAAAGTCATAATGATTTGAAATATATAATTGTTCAAATAGTCATAACTATTTGAACTA
* * * * * * **
7925 GTGT-GGT-AA-ACA--TATTTTTAAAATTTTTTACTTACTAATTGTCAAAA
129 GT-TAGATAAATAGATTTATTTTTTAAA---TCTACTTATTAATTTTTGAAA
* * **
7972 TATTAATAAATTAGTATTATTTTAATGCAAATAAGCTTGTATAAATAGAAACAATTGTTTTACAA
1 TATTAATAAATTAGTATTATTTTATTTCAAATAAGCTTGTATAAA-A-AAACAATTGTTTTATGA
**
8037 CAAAACAAAAAGTCATAATGATTTGAAATCA-ATAATTACTCAAATAGTCATAACTATTTGAACT
64 CAAAACAAAAAGTCATAATGATTTGAAAT-ATATAATTGTTCAAATAGTCATAACTATTTGAACT
* * * *
8101 AGTTTGATACATAGATTTATTGTCTAAATC-ACTTATTAATTTTTGAAA
128 AGTTAGATAAATAGATTTATTTTTTAAATCTACTTATTAATTTTTGAAA
* * * * * * * * * * *
8149 TATTAGTAGATTAGTATTACTTTATTCCTAATAAACTTATAT-GAACAACATTTGTTGTATGACA
1 TATTAATAAATTAGTATTATTTTATTTCAAATAAGCTTGTATAAAAAAACAATTGTTTTATGACA
* * * *
8213 AAACAAAAAATAATAATGATTTGAAATATATAATTGTTCAAATAGT-ATAATTTTTTGAACTAGT
66 AAACAAAAAGTCATAATGATTTGAAATATATAATTGTTCAAATAGTCATAACTATTTGAACTAGT
* * * *
8277 TAGGTAAACAGAATTATTTTTTAAATCTCTTACTTATTACTTTTTGAAA
131 TAGATAAATAGATTTATTTTTTAAA--TC-TACTTATTAATTTTTGAAA
* * * * * * *
8326 TA--AAT---TTA-TTTTATTTTATTTCGAATAAGCTAGCATGAATTGAGAA-AATTATTTTATG
1 TATTAATAAATTAGTATTATTTTATTTCAAATAAGCTTGTAT-AA--AAAAACAATTGTTTTATG
* * * * * * *
8384 ACAAGACAAAAGGTCATAACGATTTGAAATAGATAATTGTTCATATAGTCTTAACTATTTGAATT
63 ACAAAACAAAAAGTCATAATGATTTGAAATATATAATTGTTCAAATAGTCATAACTATTTGAACT
* * ** * * *
8449 GGTTTGGCAAATAAATTTATTTTTTAAATCCCTTAGTTATTAATTTTTGGAA
128 AGTTAGATAAATAGATTTATTTTTTAAAT--C-TACTTATTAATTTTTGAAA
* * * ** * * *
8501 TATTATTATATTAGTATTTTTTTATTTTGAATAAGCTTGTATGAACATAAATAATTATTTTATGA
1 TATTAATAAATTAGTATTATTTTATTTCAAATAAGCTTGTAT-AA-AAAAACAATTGTTTTATGA
* * * * *
8566 CATAACAAAAGGTTATAATGATTTGAAGTATAGAATTGTTCAAATAGTCATAACTATTTGAACTA
64 CAAAACAAAAAGTCATAATGATTTGAAATATATAATTGTTCAAATAGTCATAACTATTTGAACTA
* * * *
8631 ATTCAG-TAAACATATTCATTTTTTAAATCT-CTTATTAATTTTTGAAA
129 GTT-AGATAAATAGATTTATTTTTTAAATCTACTTATTAATTTTTGAAA
* * * * *
8678 GATTAATAAATTATTATTATTTTATTTCAAATAATCATGTATGATAAAAAACAATTGTTATATGA
1 TATTAATAAATTAGTATTATTTTATTTCAAATAAGCTTGTAT-A-AAAAAACAATTGTTTTATGA
* * *
8743 CCAAAC-AAAAGATGATAACGATTTGAAATA
64 CAAAACAAAAAG-TCATAATGATTTGAAATA
8773 ATATCTTATT
Statistics
Matches: 630, Mismatches: 141, Indels: 60
0.76 0.17 0.07
Matches are distributed among these distances:
171 20 0.03
172 3 0.00
173 36 0.06
174 105 0.17
175 61 0.10
176 9 0.01
177 261 0.41
178 5 0.01
179 3 0.00
180 5 0.01
181 121 0.19
182 1 0.00
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.41
Consensus pattern (176 bp):
TATTAATAAATTAGTATTATTTTATTTCAAATAAGCTTGTATAAAAAAACAATTGTTTTATGACA
AAACAAAAAGTCATAATGATTTGAAATATATAATTGTTCAAATAGTCATAACTATTTGAACTAGT
TAGATAAATAGATTTATTTTTTAAATCTACTTATTAATTTTTGAAA
Found at i:8991 original size:17 final size:16
Alignment explanation
Indices: 8971--9014 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
8961 AATAATTTAA
8971 ATTACTTATTAATAATT
1 ATTA-TTATTAATAATT
8988 ATTATATATTAATAATT
1 ATTAT-TATTAATAATT
*
9005 TTTAATTATT
1 ATT-ATTATT
9015 TTTTAATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 1 0.04
17 21 0.88
18 2 0.08
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTATTATTAATAATT
Found at i:9021 original size:38 final size:37
Alignment explanation
Indices: 8960--9034 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 37
8950 CTTTATTTAG
8960 TAATAATTTAAATTACTTATTAATAATT-ATTATATAT
1 TAATAATTTAAATTACTTATTAAT-ATTAATTATATAT
* * *
8997 TAATAATTTTTAATTATTTTTTAATATTAATTATATAT
1 TAATAA-TTTAAATTACTTATTAATATTAATTATATAT
9035 AATTTGATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
37 9 0.27
38 24 0.73
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (37 bp):
TAATAATTTAAATTACTTATTAATATTAATTATATAT
Found at i:9398 original size:21 final size:22
Alignment explanation
Indices: 9354--9399 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
9344 AAATTGATTA
* *
9354 TTAAAATTAAATAGAATAATAT
1 TTAAAATTAAATACAATAAGAT
*
9376 TTAAAA-TAAATACAATTAGAT
1 TTAAAATTAAATACAATAAGAT
9397 TTA
1 TTA
9400 TAACTAAGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (22 bp):
TTAAAATTAAATACAATAAGAT
Found at i:10667 original size:13 final size:13
Alignment explanation
Indices: 10633--10667 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
10623 TTTTGTTTAT
*
10633 ATAAATATTTATA
1 ATAAATATTAATA
10646 ATCAAATATTAATA
1 AT-AAATATTAATA
10660 ATAAATAT
1 ATAAATAT
10668 ATTTTTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (13 bp):
ATAAATATTAATA
Found at i:10755 original size:18 final size:19
Alignment explanation
Indices: 10703--10749 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
10693 TTTAAATAAG
10703 TATTATTAATTAATTATTAA-
1 TATTA-TAATTAA-TATTAAT
10723 TATTATAATTAATATTAAT
1 TATTATAATTAATATTAAT
10742 TATT-TAAT
1 TATTATAAT
10750 AGATATAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 10 0.38
19 11 0.42
20 5 0.19
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TATTATAATTAATATTAAT
Found at i:10985 original size:26 final size:28
Alignment explanation
Indices: 10936--10989 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 28
10926 TTTAAAATTT
**
10936 AAATATTATATATATTATCTATTATTGC
1 AAATATTATATATATTATAAATTATTGC
10964 AAATA-TATA-ATATTATAAATTATTGC
1 AAATATTATATATATTATAAATTATTGC
10990 TATAAATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 15 0.62
27 4 0.17
28 5 0.21
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (28 bp):
AAATATTATATATATTATAAATTATTGC
Found at i:11448 original size:24 final size:24
Alignment explanation
Indices: 11421--11473 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
11411 ATTAACAAAT
* *
11421 ATTATATAAATTTA-TAATATATTA
1 ATTAAATAAATTAAGTAA-ATATTA
*
11445 ATTAAATTAATTAAGTAAATATTA
1 ATTAAATAAATTAAGTAAATATTA
11469 ATTAA
1 ATTAA
11474 TTAATAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (24 bp):
ATTAAATAAATTAAGTAAATATTA
Found at i:11473 original size:19 final size:18
Alignment explanation
Indices: 11449--11488 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
11439 ATATTAATTA
11449 AATTAATTAAGTAAATATT
1 AATTAATTAA-TAAATATT
11468 AATTAATTAATAAATATT
1 AATTAATTAATAAATATT
11486 AAT
1 AAT
11489 AATCTTATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (18 bp):
AATTAATTAATAAATATT
Found at i:11489 original size:24 final size:24
Alignment explanation
Indices: 11434--11483 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
11424 ATATAAATTT
11434 ATAATATATTAATTAAATTAATTAA
1 ATAA-ATATTAATTAAATTAATTAA
*
11459 GTAAATATTAATT-AATTAA-TAA
1 ATAAATATTAATTAAATTAATTAA
11481 ATA
1 ATA
11484 TTAATAATCT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 5 0.22
23 6 0.26
24 9 0.39
25 3 0.13
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (24 bp):
ATAAATATTAATTAAATTAATTAA
Found at i:11572 original size:17 final size:18
Alignment explanation
Indices: 11540--11585 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
11530 AAATAGTTTA
11540 ATTTTTAATATAAATA-T
1 ATTTTTAATATAAATATT
11557 ATTTTATAATAT-AATATT
1 ATTTT-TAATATAAATATT
11575 ATTTATTAATA
1 ATTT-TTAATA
11586 GTAAGTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 9 0.35
18 16 0.62
19 1 0.04
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTTTAATATAAATATT
Found at i:11752 original size:21 final size:20
Alignment explanation
Indices: 11707--11753 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
11697 TTAATTAATA
**
11707 ATATT-ATAATTATATTTAT
1 ATATTAATAATTATATAAAT
11726 ATTATTAATAATTATAGTAAAT
1 A-TATTAATAATTATA-TAAAT
11748 ATATTA
1 ATATTA
11754 TTTGAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 1 0.04
20 4 0.17
21 14 0.61
22 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
ATATTAATAATTATATAAAT
Found at i:12105 original size:26 final size:26
Alignment explanation
Indices: 12014--12105 Score: 62
Period size: 26 Copynumber: 3.4 Consensus size: 26
12004 TATTTTTAAC
*
12014 AATTAATTACTAA-ATTAATATAAATAT
1 AATTAATTATTAATA-TAATAT-AATAT
* * *
12041 ATTGTAATTAATAGTCATAATAGTAA-AT
1 AAT-TAATTATTAAT-ATAATA-TAATAT
* * *
12069 AGTTTACTATTAATATAATATAATAT
1 AATTAATTATTAATATAATATAATAT
12095 AATTAATTATT
1 AATTAATTATT
12106 TTGTTGTAAA
Statistics
Matches: 49, Mismatches: 11, Indels: 11
0.69 0.15 0.15
Matches are distributed among these distances:
25 3 0.06
26 16 0.33
27 9 0.18
28 12 0.24
29 7 0.14
30 2 0.04
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.43
Consensus pattern (26 bp):
AATTAATTATTAATATAATATAATAT
Found at i:12148 original size:13 final size:13
Alignment explanation
Indices: 12132--12156 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12122 ATTAAATTAA
12132 TATTATATAATTT
1 TATTATATAATTT
12145 TATTATATAATT
1 TATTATATAATT
12157 AAATATATGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TATTATATAATTT
Found at i:12517 original size:25 final size:23
Alignment explanation
Indices: 12488--12547 Score: 75
Period size: 25 Copynumber: 2.5 Consensus size: 23
12478 AATAATTAAA
*
12488 TAATTTAATTATAATTATAATTG
1 TAATTTAATTATAATAATAATTG
*
12511 ATGAATTTAATGATAATAATAATTG
1 -T-AATTTAATTATAATAATAATTG
*
12536 TTATTTAATTAT
1 TAATTTAATTAT
12548 TTATAAATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
23 9 0.29
24 2 0.06
25 20 0.65
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (23 bp):
TAATTTAATTATAATAATAATTG
Found at i:13352 original size:16 final size:16
Alignment explanation
Indices: 13277--13344 Score: 58
Period size: 14 Copynumber: 4.5 Consensus size: 16
13267 ATTTATTTTT
13277 AATTAATTAATAATTA
1 AATTAATTAATAATTA
13293 AA--ACA-T-ATATATTA
1 AATTA-ATTAATA-ATTA
* *
13307 AATTATTTAATGATT-
1 AATTAATTAATAATTA
13322 -ATTAATTAATAATTA
1 AATTAATTAATAATTA
13337 AATTAATT
1 AATTAATT
13345 GATTATTATA
Statistics
Matches: 40, Mismatches: 4, Indels: 16
0.67 0.07 0.27
Matches are distributed among these distances:
13 3 0.08
14 20 0.50
15 1 0.03
16 14 0.35
17 2 0.05
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (16 bp):
AATTAATTAATAATTA
Found at i:14036 original size:18 final size:17
Alignment explanation
Indices: 13995--14072 Score: 65
Period size: 18 Copynumber: 4.6 Consensus size: 17
13985 AAATAATAAT
*
13995 TTATTTAATATAATTTAA
1 TTATTTAATATAAATT-A
*
14013 TAATTTAATATAAATTA
1 TTATTTAATATAAATTA
*
14030 GTTATTT-GTATAATATTA
1 -TTATTTAATATAA-ATTA
14048 TTAATTT-ATA-AAATTA
1 TT-ATTTAATATAAATTA
14064 -TATTTAATA
1 TTATTTAATA
14073 GATAATTAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
14 4 0.08
15 4 0.08
16 4 0.08
17 10 0.20
18 29 0.57
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
TTATTTAATATAAATTA
Found at i:14258 original size:27 final size:26
Alignment explanation
Indices: 14228--14284 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
14218 TATAGTAATC
*
14228 ATATATATTAT-TTTAATTATAATTAA
1 ATATATATTATATTTAAATATAA-TAA
14254 A-ATATATTATATTTAAATATAATATA
1 ATATATATTATATTTAAATATAATA-A
14280 ATATA
1 ATATA
14285 CATGTCAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 11 0.41
26 13 0.48
27 3 0.11
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
ATATATATTATATTTAAATATAATAA
Found at i:14262 original size:16 final size:16
Alignment explanation
Indices: 14243--14281 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
14233 TATTATTTTA
14243 ATTATAATTAAAATAT
1 ATTATAATTAAAATAT
*
14259 ATTAT-ATTTAAATAT
1 ATTATAATTAAAATAT
*
14274 AATATAAT
1 ATTATAAT
14282 ATACATGTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
ATTATAATTAAAATAT
Found at i:14282 original size:25 final size:25
Alignment explanation
Indices: 14230--14284 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
14220 TAGTAATCAT
*
14230 ATATATTATTTTAATTATAATTAAA
1 ATATATTATTTTAAATATAATTAAA
*
14255 ATATATTATATTTAAATATAA-TATA
1 ATATATTAT-TTTAAATATAATTAAA
14280 ATATA
1 ATATA
14285 CATGTCAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 17 0.63
26 10 0.37
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
ATATATTATTTTAAATATAATTAAA
Found at i:14413 original size:36 final size:36
Alignment explanation
Indices: 14357--14427 Score: 90
Period size: 36 Copynumber: 1.9 Consensus size: 36
14347 CATAGTCATT
*
14357 TTATTTATATAACAATTATATTAATA-ATAATATTAA
1 TTATTTATATAACAAGTATA-TAATATATAATATTAA
* *
14393 TTATTTATATTATAAGTATATAATATTATAATATT
1 TTATTTATATAACAAGTATATAATA-TATAATATT
14428 TACTATATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
35 5 0.17
36 17 0.57
37 8 0.27
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (36 bp):
TTATTTATATAACAAGTATATAATATATAATATTAA
Found at i:14624 original size:14 final size:14
Alignment explanation
Indices: 14565--14624 Score: 56
Period size: 14 Copynumber: 4.4 Consensus size: 14
14555 AACCAATTTG
14565 TATAATTATAATTA-
1 TATAATTA-AATTAT
*
14579 TATAA-TAACTTAT
1 TATAATTAAATTAT
14592 TAGTAATTAAA-TAT
1 TA-TAATTAAATTAT
*
14606 T-TAATTAAATTCT
1 TATAATTAAATTAT
14619 TATAAT
1 TATAAT
14625 AATAATCGAT
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
12 12 0.32
13 7 0.18
14 16 0.42
15 3 0.08
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (14 bp):
TATAATTAAATTAT
Found at i:14740 original size:34 final size:33
Alignment explanation
Indices: 14662--14740 Score: 79
Period size: 34 Copynumber: 2.3 Consensus size: 33
14652 TACTAAATCC
* *
14662 AATATTATCTAATAAATTAAATATTAATTTAATT
1 AATATTAT-TAATAAATTAAATAATAATATAATT
*
14696 AATATATATTAATAATATTATATAAT-ATATAATT
1 AATAT-TATTAATAA-ATTAAATAATAATATAATT
*
14730 GGATATTATTA
1 -AATATTATTA
14741 CTTATGATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
34 23 0.61
35 15 0.39
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (33 bp):
AATATTATTAATAAATTAAATAATAATATAATT
Found at i:14915 original size:23 final size:24
Alignment explanation
Indices: 14889--14934 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
14879 AATCATTTGC
14889 ATTAATAACTA-TTAA-TATACAAA
1 ATTAATAA-TATTTAATTATACAAA
*
14912 ATTATTAATATTTAATTATACAA
1 ATTAATAATATTTAATTATACAA
14935 TTAACAACCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 2 0.10
23 11 0.55
24 7 0.35
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (24 bp):
ATTAATAATATTTAATTATACAAA
Found at i:14971 original size:11 final size:11
Alignment explanation
Indices: 14957--14999 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
14947 TAACTAATAT
14957 ATAATTATTAA
1 ATAATTATTAA
14968 ATAATCTATTAA
1 ATAAT-TATTAA
*
14980 TTAATTATTAA
1 ATAATTATTAA
14991 A-AA-TATTAA
1 ATAATTATTAA
15000 TATTATAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 6 0.21
10 2 0.07
11 11 0.38
12 10 0.34
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (11 bp):
ATAATTATTAA
Found at i:15030 original size:13 final size:13
Alignment explanation
Indices: 14997--15036 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
14987 TTAAAAATAT
14997 TAATA-TTA-TAA
1 TAATATTTATTAA
15008 TAATAGTTTATTAA
1 TAATA-TTTATTAA
15022 TAATATTTATTAA
1 TAATATTTATTAA
15035 TA
1 TA
15037 TAAGCTTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 5 0.19
13 13 0.50
14 8 0.31
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (13 bp):
TAATATTTATTAA
Found at i:15169 original size:19 final size:19
Alignment explanation
Indices: 15142--15208 Score: 62
Period size: 19 Copynumber: 3.3 Consensus size: 19
15132 AAACAAATTT
*
15142 TATAATAAAATTATAATAA
1 TATATTAAAATTATAATAA
*
15161 TATATTAAAATTTTAATTAA
1 TATATTAAAATTATAA-TAA
*
15181 TAATATTAATATCTATTGAATAA
1 T-ATATTAAAAT-TA-T-AATAA
15204 TATAT
1 TATAT
15209 ATTATTTATA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
19 14 0.36
20 4 0.10
21 9 0.23
22 5 0.13
23 5 0.13
24 2 0.05
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (19 bp):
TATATTAAAATTATAATAA
Found at i:15670 original size:39 final size:39
Alignment explanation
Indices: 15614--15692 Score: 99
Period size: 39 Copynumber: 2.0 Consensus size: 39
15604 ACATTCTAAA
* * *
15614 AATTAATTAGTTTAAATAATTATTAAATTATA-ATAATTT
1 AATTAAGTAGTTTAAATAATTAAT-AATTATATAAAATTT
15653 AATTAAGTA-TTTAAAATAATTAATAATTATATAAAATTT
1 AATTAAGTAGTTT-AAATAATTAATAATTATATAAAATTT
15692 A
1 A
15693 TTTTTATATT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
38 10 0.29
39 25 0.71
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.46
Consensus pattern (39 bp):
AATTAAGTAGTTTAAATAATTAATAATTATATAAAATTT
Found at i:15676 original size:26 final size:25
Alignment explanation
Indices: 15612--15676 Score: 60
Period size: 26 Copynumber: 2.5 Consensus size: 25
15602 TAACATTCTA
* *
15612 AAAATTAATTAGTTTAAATAATTATT
1 AAAA-TAATTAATTTAAATAAGTATT
*
15638 AAATTATAA-TAATTTAATTAAGTATTT
1 AAA--ATAATTAATTTAAATAAGTA-TT
15665 AAAATAATTAAT
1 AAAATAATTAAT
15677 AATTATATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
25 4 0.12
26 19 0.59
27 8 0.25
28 1 0.03
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (25 bp):
AAAATAATTAATTTAAATAAGTATT
Found at i:15689 original size:20 final size:22
Alignment explanation
Indices: 15645--15689 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
15635 ATTAAATTAT
*
15645 AATAATTTAATTAAGTATTTAA
1 AATAATTTAATTAAGTATATAA
*
15667 AATAA-TTAA-TAATTATATAA
1 AATAATTTAATTAAGTATATAA
15687 AAT
1 AAT
15690 TTATTTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 12 0.57
21 4 0.19
22 5 0.24
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
AATAATTTAATTAAGTATATAA
Found at i:16502 original size:27 final size:28
Alignment explanation
Indices: 16472--16532 Score: 81
Period size: 27 Copynumber: 2.2 Consensus size: 28
16462 ATCACAATTG
16472 TTATAATGTTATTAAA-AATAACAT-TAT
1 TTATAATGTTA-TAAATAATAACATATAT
* *
16499 TTATAATGTTATAAATATTAACTTATAT
1 TTATAATGTTATAAATAATAACATATAT
16527 TTATAA
1 TTATAA
16533 ATATGAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 4 0.13
27 17 0.57
28 9 0.30
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (28 bp):
TTATAATGTTATAAATAATAACATATAT
Found at i:16629 original size:40 final size:40
Alignment explanation
Indices: 16584--16662 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
16574 ATTAATATTA
16584 AAAATTA-TGACAATTTATAATTAATATTTATTATAAATTT
1 AAAATTAGTGA-AATTTATAATTAATATTTATTATAAATTT
* * *
16624 AAAATTAGTTAATTTTATAATTAATATTTATTATTAATT
1 AAAATTAGTGAAATTTATAATTAATATTTATTATAAATT
16663 ATTAATAACT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
40 33 0.94
41 2 0.06
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.51
Consensus pattern (40 bp):
AAAATTAGTGAAATTTATAATTAATATTTATTATAAATTT
Found at i:16701 original size:25 final size:24
Alignment explanation
Indices: 16649--16702 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
16639 TATAATTAAT
* *
16649 ATTTATTATTAATTATTAATAACT
1 ATTTATTATTAATTACTAATAACA
16673 ATTTATTTCATTAA-TACTAATAACA
1 ATTTA-TT-ATTAATTACTAATAACA
16698 ATTTA
1 ATTTA
16703 ATTAGTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 5 0.19
25 16 0.62
26 5 0.19
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (24 bp):
ATTTATTATTAATTACTAATAACA
Found at i:16931 original size:13 final size:14
Alignment explanation
Indices: 16906--16953 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
16896 TAATTATCCG
16906 AAATTATAATAATT
1 AAATTATAATAATT
16920 AAATTA-AATAATTT
1 AAATTATAATAA-TT
* *
16934 TAATTTTAAT-ATT
1 AAATTATAATAATT
16947 AAATTAT
1 AAATTAT
16954 TAAAATGATT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
13 12 0.43
14 13 0.46
15 3 0.11
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AAATTATAATAATT
Found at i:16937 original size:22 final size:22
Alignment explanation
Indices: 16907--16955 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
16897 AATTATCCGA
16907 AATTATAATAATTAA-ATTAAAT
1 AATTATAAT-ATTAATATTAAAT
* *
16929 AATTTTAATTTTAATATTAAAT
1 AATTATAATATTAATATTAAAT
*
16951 TATTA
1 AATTA
16956 AAATGATTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AATTATAATATTAATATTAAAT
Found at i:17031 original size:14 final size:15
Alignment explanation
Indices: 17007--17035 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
16997 TAATAACTAT
17007 ATATCATAATAAAAA
1 ATATCATAATAAAAA
17022 ATAT-ATAATAAAAA
1 ATATCATAATAAAAA
17036 TTAATAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (15 bp):
ATATCATAATAAAAA
Found at i:17274 original size:23 final size:22
Alignment explanation
Indices: 17243--17288 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
17233 ATAGTTAACA
* *
17243 AATTTTTATTAATATATAATATT
1 AATTATTATTAAT-TAAAATATT
17266 AATTATTATTAATTAAAATATT
1 AATTATTATTAATTAAAATATT
17288 A
1 A
17289 TTTTAATGAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
AATTATTATTAATTAAAATATT
Found at i:17280 original size:27 final size:27
Alignment explanation
Indices: 17250--17302 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
17240 ACAAATTTTT
* *
17250 ATTAATATATAATATTAATTATTATTA
1 ATTAAAATATAATATTAATGATTATTA
* *
17277 ATTAAAATATTATTTTAATGATTATT
1 ATTAAAATATAATATTAATGATTATT
17303 TAATAAACTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (27 bp):
ATTAAAATATAATATTAATGATTATTA
Found at i:17730 original size:21 final size:20
Alignment explanation
Indices: 17683--17744 Score: 65
Period size: 21 Copynumber: 3.1 Consensus size: 20
17673 AATGATTTGA
*
17683 AACTTAATTAT-TTATATAT
1 AACTTAATAATATTATATAT
*
17702 AACTTAATGATATTATATA-
1 AACTTAATAATATTATATAT
*
17721 ATACTATAATAATATTAAATAT
1 A-ACT-TAATAATATTATATAT
17743 AA
1 AA
17745 GAGATTATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
19 11 0.31
20 10 0.28
21 14 0.39
22 1 0.03
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.44
Consensus pattern (20 bp):
AACTTAATAATATTATATAT
Found at i:17951 original size:20 final size:20
Alignment explanation
Indices: 17928--17967 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
17918 TAAATTGTTA
*
17928 TTTAAACTTATAATGATAAG
1 TTTAAACATATAATGATAAG
**
17948 TTTAATGATATAATGATAAG
1 TTTAAACATATAATGATAAG
17968 AATGGATATG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.03, G:0.12, T:0.40
Consensus pattern (20 bp):
TTTAAACATATAATGATAAG
Found at i:18070 original size:10 final size:11
Alignment explanation
Indices: 18054--18082 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
18044 CATACCTTAC
18054 GTATATATTTA
1 GTATATATTTA
18065 -TATATATTTA
1 GTATATATTTA
18075 GTATATAT
1 GTATATAT
18083 ATTTTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (11 bp):
GTATATATTTA
Found at i:18121 original size:23 final size:24
Alignment explanation
Indices: 18090--18138 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
18080 TATATTTTTA
18090 TTAAATAATATA-AATT-AT-TATT
1 TTAAATAAT-TAGAATTAATATATT
18112 TTAAATTAATTAGAATTAATATATT
1 TTAAA-TAATTAGAATTAATATATT
18137 TT
1 TT
18139 TATTGAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
22 7 0.30
23 8 0.35
24 2 0.09
25 6 0.26
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (24 bp):
TTAAATAATTAGAATTAATATATT
Found at i:18511 original size:18 final size:19
Alignment explanation
Indices: 18477--18512 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
18467 TAATAGTCAT
18477 ATATTAGTTAATATTTATA
1 ATATTAGTTAATATTTATA
*
18496 ATATTA-TTACTATTTAT
1 ATATTAGTTAATATTTAT
18513 TATAATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.56
Consensus pattern (19 bp):
ATATTAGTTAATATTTATA
Found at i:19770 original size:18 final size:18
Alignment explanation
Indices: 19747--19791 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
19737 AACAATTTAT
*
19747 AATTATTAA-ATATTATTA
1 AATTA-TAATATAATATTA
19765 AATTATAATATAATATTA
1 AATTATAATATAATATTA
19783 AATTGATAA
1 AATT-ATAA
19792 ATTATAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 3 0.12
18 17 0.71
19 4 0.17
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (18 bp):
AATTATAATATAATATTA
Found at i:19774 original size:16 final size:16
Alignment explanation
Indices: 19751--19862 Score: 56
Period size: 16 Copynumber: 6.9 Consensus size: 16
19741 ATTTATAATT
19751 ATTA-AATATTATTAA
1 ATTATAATATTATTAA
19766 ATTATAATATAATATTAA
1 ATTATAATAT--TATTAA
*
19784 ATTGATAA-ATTATAAA
1 ATT-ATAATATTATTAA
* *
19800 AATATTAT-TTATCTAA
1 ATTATAATATTAT-TAA
* * *
19816 AATATTAATAACCTCTTAA
1 ATTA-TAAT-A-TTATTAA
19835 ATTATAATATATATT-A
1 ATTATAATAT-TATTAA
19851 A-TATAA-ATTATT
1 ATTATAATATTATT
19863 TTAGTTTATG
Statistics
Matches: 76, Mismatches: 10, Indels: 24
0.69 0.09 0.22
Matches are distributed among these distances:
13 4 0.05
14 2 0.03
15 16 0.21
16 20 0.26
17 7 0.09
18 15 0.20
19 10 0.13
20 2 0.03
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.45
Consensus pattern (16 bp):
ATTATAATATTATTAA
Found at i:19796 original size:26 final size:28
Alignment explanation
Indices: 19744--19806 Score: 80
Period size: 26 Copynumber: 2.4 Consensus size: 28
19734 ATTAACAATT
*
19744 TATAATTATTAAATATTATTAAATTATAA
1 TATAA-TATTAAATATGATTAAATTATAA
19773 TATAATATTAAAT-TGA-TAAATTATAA
1 TATAATATTAAATATGATTAAATTATAA
19799 -A-AATATTA
1 TATAATATTA
19807 TTTATCTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
24 7 0.21
25 1 0.03
26 10 0.30
27 2 0.06
28 8 0.24
29 5 0.15
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (28 bp):
TATAATATTAAATATGATTAAATTATAA
Found at i:19884 original size:23 final size:23
Alignment explanation
Indices: 19831--19903 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 23
19821 TAATAACCTC
* * *
19831 TTAAATTATAAT-ATATATTAAT
1 TTAAATTATTATAATTTATCAAT
* * * **
19853 ATAAATTATTTTAGTTTATGTAT
1 TTAAATTATTATAATTTATCAAT
19876 TTAAATTATTATAATTTATCAAT
1 TTAAATTATTATAATTTATCAAT
19899 TTAAA
1 TTAAA
19904 ATTAAAAAAT
Statistics
Matches: 38, Mismatches: 12, Indels: 1
0.75 0.24 0.02
Matches are distributed among these distances:
22 9 0.24
23 29 0.76
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (23 bp):
TTAAATTATTATAATTTATCAAT
Found at i:19921 original size:34 final size:34
Alignment explanation
Indices: 19877--19957 Score: 96
Period size: 34 Copynumber: 2.4 Consensus size: 34
19867 TTTATGTATT
19877 TAAATT-ATTATAATTT-ATCAATTTAAAATTAAA
1 TAAATTAATTATAATTTAAT-AATTTAAAATTAAA
**
19910 -AAATATAATTATAATTTAATAATTTATTATTAAA
1 TAAAT-TAATTATAATTTAATAATTTAAAATTAAA
*
19944 TTAATTAATTATAA
1 TAAATTAATTATAA
19958 AATTAGTTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
32 4 0.10
33 1 0.02
34 31 0.76
35 5 0.12
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (34 bp):
TAAATTAATTATAATTTAATAATTTAAAATTAAA
Found at i:19948 original size:16 final size:16
Alignment explanation
Indices: 19929--19992 Score: 67
Period size: 16 Copynumber: 4.0 Consensus size: 16
19919 TATAATTTAA
19929 TAATTTATTATTAAAT
1 TAATTTATTATTAAAT
* *
19945 TAATTAATTATAAAAT
1 TAATTTATTATTAAAT
* *
19961 TAGTTTATTAATT-GAT
1 TAATTTATT-ATTAAAT
*
19977 TAATTTAATATTAAAT
1 TAATTTATTATTAAAT
19993 CTATTTTGAT
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
15 3 0.08
16 32 0.86
17 2 0.05
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (16 bp):
TAATTTATTATTAAAT
Found at i:20425 original size:16 final size:16
Alignment explanation
Indices: 20404--20434 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20394 TATTGTACTA
*
20404 AATTAATCTTAATATT
1 AATTAATATTAATATT
20420 AATTAATATTAATAT
1 AATTAATATTAATAT
20435 AACATTAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (16 bp):
AATTAATATTAATATT
Found at i:21125 original size:179 final size:178
Alignment explanation
Indices: 20838--21269 Score: 532
Period size: 179 Copynumber: 2.4 Consensus size: 178
20828 TTCATATAGG
* * *
20838 CTTATTCGAAATAAAAT-ATTACTAATTTGTTAATATTCTAAAAATTAATGAGTAAGAGATTTTA
1 CTTATTCG-AATAAAATAATTAC-AATTTATTAATATT-TCAAAATTAATAAGTAA-A-ATTTTA
*
20902 AAAAATAAATTTGTTTACTGAACAAGTTTAAATAGTGATGACTATTTGAACAATTATCTATTTCA
61 AAAAATAAATTTGTTTACTGAACAAGTTCAAATAGTGATGACTATTTGAACAATTATCTATTTCA
* * *
20967 AATCA-TTTTAACTTTTTGTTTTGTGATAAACCAATTGTTTCTGTCCATACAAA
126 AAT-AGTTATAACATTTTGTTTTGTGATAAACCAATTGGTTCTGTCCATACAAA
21020 CTTATTTCGAATAAAATAATTA-AATTTATTAATATTTCAAAATTTAATAAGTAAAATTTTAAAA
1 CTTA-TTCGAATAAAATAATTACAATTTATTAATATTTCAAAA-TTAATAAGTAAAATTTTAAAA
** * *
21084 AATAAATTTGTTTTTTGAACATGTTCAAATAGAT-TTGACTATTTGAACAATTATCTATTTCAAA
64 AATAAATTTGTTTACTGAACAAGTTCAAATAG-TGATGACTATTTGAACAATTATCTATTTCAAA
* * * *
21148 TAGTTATGACATTTTGTTTTGTGATGAACCAATTGGTTCTGTCTATATAAA
128 TAGTTATAACATTTTGTTTTGTGATAAACCAATTGGTTCTGTCCATACAAA
* * * * *
21199 CTTATTCAAAATAAAATAA-TACTAGTTTAATAATATTCCAATAATTAATAAGTAAAAGATTTAA
1 CTTATTC-GAATAAAATAATTAC-AATTTATTAATATTTCAA-AATTAATAAGTAAAA-TTTTAA
21263 AAAATAA
62 AAAATAA
21270 TTTAAATTAA
Statistics
Matches: 220, Mismatches: 20, Indels: 21
0.84 0.08 0.08
Matches are distributed among these distances:
178 6 0.03
179 122 0.55
180 35 0.16
181 37 0.17
182 12 0.05
183 8 0.04
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.41
Consensus pattern (178 bp):
CTTATTCGAATAAAATAATTACAATTTATTAATATTTCAAAATTAATAAGTAAAATTTTAAAAAA
TAAATTTGTTTACTGAACAAGTTCAAATAGTGATGACTATTTGAACAATTATCTATTTCAAATAG
TTATAACATTTTGTTTTGTGATAAACCAATTGGTTCTGTCCATACAAA
Found at i:21843 original size:36 final size:37
Alignment explanation
Indices: 21798--21892 Score: 99
Period size: 36 Copynumber: 2.6 Consensus size: 37
21788 ATTAAGTTAT
* **
21798 TATAAAATAACATTA-TTATTATATTCCAT-TAACTA
1 TATATAATAACATTATTTATTATATAACATATAACTA
* * *
21833 TATCATAATAACA-CATTTATTATATAATATATAATTA
1 TAT-ATAATAACATTATTTATTATATAACATATAACTA
21870 TATATAATAA-ATTATTTATTATA
1 TATATAATAACATTATTTATTATA
21893 CTAATTATAA
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
35 5 0.10
36 36 0.73
37 8 0.16
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.45
Consensus pattern (37 bp):
TATATAATAACATTATTTATTATATAACATATAACTA
Found at i:21875 original size:17 final size:17
Alignment explanation
Indices: 21853--21907 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 17
21843 ACACATTTAT
21853 TATATAATATATAATTA
1 TATATAATATATAATTA
* *
21870 TATATAATAAATTATTTA
1 TATATAATATA-TAATTA
21888 TTATACTAAT-TATAATTA
1 -TATA-TAATATATAATTA
21906 TA
1 TA
21908 GAAAAACTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
17 12 0.39
18 10 0.32
19 5 0.16
20 4 0.13
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (17 bp):
TATATAATATATAATTA
Found at i:22085 original size:20 final size:21
Alignment explanation
Indices: 22040--22076 Score: 53
Period size: 18 Copynumber: 1.9 Consensus size: 21
22030 TTAACTAGCT
22040 ATATATA-TA-AA-TTATATT
1 ATATATATTATAATTTATATT
22058 ATATATATTATAATTTATA
1 ATATATATTATAATTTATA
22077 ATTTAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 3
0.84 0.00 0.16
Matches are distributed among these distances:
18 7 0.44
19 2 0.12
20 2 0.12
21 5 0.31
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATATATATTATAATTTATATT
Found at i:22090 original size:20 final size:21
Alignment explanation
Indices: 22039--22091 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 21
22029 ATTAACTAGC
*
22039 TATATAT-ATAAATTATATTA
1 TATATATAATAATTTATATTA
*
22059 TATATATTATAATTTATAATT-
1 TATATATAATAATTTAT-ATTA
22080 TA-ATATAATAAT
1 TATATATAATAAT
22092 CAAATATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 16 0.55
21 10 0.34
22 3 0.10
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TATATATAATAATTTATATTA
Found at i:22490 original size:12 final size:13
Alignment explanation
Indices: 22455--22515 Score: 61
Period size: 13 Copynumber: 4.6 Consensus size: 13
22445 TAACTATTAA
* *
22455 ATTATTATAAATT
1 ATTAATATATATT
22468 ATTAATATATATT
1 ATTAATATATATT
*
22481 -TTAATTTATATT
1 ATTAATATATATT
*
22493 ATTAAGATATTATAT
1 ATTAATATA-TAT-T
22508 ATTAATAT
1 ATTAATAT
22516 CTTAATATAA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
12 11 0.28
13 17 0.44
14 3 0.08
15 8 0.21
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (13 bp):
ATTAATATATATT
Found at i:23338 original size:181 final size:181
Alignment explanation
Indices: 23031--24087 Score: 786
Period size: 181 Copynumber: 5.9 Consensus size: 181
23021 ACTTTATCTG
** * * * *
23031 AAATAAGCTTGCATGAATAGAACCAATTGTTTAATGATAAAACAAAA-TATCATAATGTTTTGAA
1 AAATAAGCTTATATGAATAGAAACAATTGTTTTATGACAAAACAAAAGT-TCATAATGATTTGAA
* * ** * * *
23095 ATAGTTAATTGTTCATGTAATCATAACTATTTGAACTTATTCAGTAAACATATTCT-TTTTTTAA
65 ATAGATAATTATTCAAATAGTCATAACTATTTGAACTTGTTTAGTAAACATATT-TATTTTTTAA
* * * ** * * *
23159 TTCTCTTACTCATTAGTTTTTGGAATATTAATGAATTAGTACTATTTTACTTC
129 ATCTCTTACTTATTAATTTTTAAAATATTAATAAATTAGTATTATTTTAATTC
* * * *
23212 AAATAAGCTTATATGAATTGAAACAAGTGTTTTATTACAAAAGAAAAGTTCATAATGATTTGAAA
1 AAATAAGCTTATATGAATAGAAACAATTGTTTTATGACAAAACAAAAGTTCATAATGATTTGAAA
* * *
23277 TAGATAATTATTCAAATATTCATGACTATTTGAACTTGTTTAGTAAATATATTTATTTTTTAAAT
66 TAGATAATTATTCAAATAGTCATAACTATTTGAACTTGTTTAGTAAACATATTTATTTTTTAAAT
* * * * *
23342 CGT-TTACTTATTAATTGTCAAAATATTTATAAATTAATATTATTTTAATCC
131 C-TCTTACTTATTAATTTTTAAAATATTAATAAATTAGTATTATTTTAATTC
* * * * * * * ** *
23393 GAATAAACTTGTATAAACAGAAATAATTATTTTATGACAAAACAAAAAG-TCATAACAAGTTGAA
1 AAATAAGCTTATATGAATAGAAACAATTGTTTTATGACAAAAC-AAAAGTTCATAATGATTTGAA
* * * * *
23457 ATAAATAATTGCTT-AAATAGCCATAA-TGATTTGAACTTGTTTGGTAAACAGATTTATTTTTTA
65 ATAGATAATT-ATTCAAATAGTCATAACT-ATTTGAACTTGTTTAGTAAACATATTTATTTTTTA
*
23520 AATCTTTTACTTATTAATTATCTT--AATATTAATAAA-TATGTATTATTTT-ATTC
128 AATCTCTTACTTATTAATT-T-TTAAAATATTAATAAATTA-GTATTATTTTAATTC
* * * *
23573 GAAATAAGCTTAGATGAATAGAAAAAAAAATTATTTTATGACAAAACAAAAGGTT-ATAGCT-AT
1 -AAATAAGCTTATATGAATAG---AAACAATTGTTTTATGACAAAACAAAA-GTTCATA-ATGAT
* * * * * * * *
23636 TTCAAATAGATAATTATTTAAATAGTCCTAATTATTTAAATTTGTTTAG-AAA-ATAGTCATTTT
60 TTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTTGTTTAGTAAACATATTTATTTT
* * ** * * *
23699 TTAAATCTCTTTA-TTATAAAATTTTGGATTATTAATAAATTAGTATTATTTTATTTT
125 TTAAATCTC-TTACTTATTAATTTTTAAAATATTAATAAATTAGTATTATTTTAATTC
* * * * * * *
23756 GAATAAGTTTATATGAATTGATACAATTCTTTTATGACAAAGCAAAAGGTC-----G--TTGAAA
1 AAATAAGCTTATATGAATAGAAACAATTGTTTTATGACAAAACAAAAGTTCATAATGATTTGAAA
* * ** * * * * * * **
23814 TATATAATTATTCAAATTGTTGTGATTATTTGATCTAGTGTGGTAAACATATTTATTTTAAAAAT
66 TAGATAATTATTCAAATAGTCATAACTATTTGAACTTGTTTAGTAAACATATTTATTTTTTAAAT
* * * * * *
23879 TTTTTACTTATTAATTGTCAAAATATTAAAAAATTAGTATTATTTTAATCC
131 CTCTTACTTATTAATTTTTAAAATATTAATAAATTAGTATTATTTTAATTC
* * * * *
23930 AAATAAGCTTGTATAAATAGAAACAATTGTTTTATAACAGAACAAAAAG-TCATAACGATTTGAA
1 AAATAAGCTTATATGAATAGAAACAATTGTTTTATGACAAAAC-AAAAGTTCATAATGATTTGAA
* * * * * * *
23994 ATAAATAATTACTCAAATAGTCATAACTTTTTAAACTAGTTT-G-ATACATAGATTTATCTTTTA
65 ATAGATAATTATTCAAATAGTCATAACTATTTGAACTTGTTTAGTAAACAT--ATTTATTTTTTA
*
24057 AA----TTACTTATTAATTTTTGAAATATTAATAA
128 AATCTCTTACTTATTAATTTTTAAAATATTAATAA
24088 TTAAATAAAT
Statistics
Matches: 683, Mismatches: 154, Indels: 82
0.74 0.17 0.09
Matches are distributed among these distances:
172 36 0.05
173 6 0.01
174 82 0.12
175 5 0.01
177 25 0.04
178 2 0.00
179 29 0.04
180 11 0.02
181 336 0.49
182 69 0.10
183 17 0.02
184 63 0.09
185 2 0.00
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.42
Consensus pattern (181 bp):
AAATAAGCTTATATGAATAGAAACAATTGTTTTATGACAAAACAAAAGTTCATAATGATTTGAAA
TAGATAATTATTCAAATAGTCATAACTATTTGAACTTGTTTAGTAAACATATTTATTTTTTAAAT
CTCTTACTTATTAATTTTTAAAATATTAATAAATTAGTATTATTTTAATTC
Found at i:24551 original size:179 final size:173
Alignment explanation
Indices: 24135--24650 Score: 456
Period size: 179 Copynumber: 2.9 Consensus size: 173
24125 TTATGTACAA
** * * *
24135 TTTGTTTTGTCATAAAACAATTGTTTTTTTATCATATAAGCTAATTCAGATAAAAATAA-ATCTA
1 TTTGTTTTGTCATAAAACAATTGTTTTAGT-TCATAAAAGCTTATTCAAAT-AAAATAATA-CTA
* * ** *
24199 ATTTAATAATTTTTAAAAATTAATAAGTAAGAGATTTAAAAAATAAATTTGTTTGTTGATCAA-T
63 ATTTATTAA-TTTTGAAAATTAATAAG--AGA-ATTTAAAAAATAAATTTGTTTACTGAACAAGT
* * * * * *
24263 TCAAATAGTTAAGATTATTAGAATAATTATCTATTTCAAATCGTTTTGACAT
124 TCAAATAGTTATGACTATTTGAACAATTATCTATCTAAAATCG--TTGACAT
** * * * * *
24315 TTTGTTTAATCATAAAATAATTGTTTCAGTTCATACAAGCTTATTTGAAAGAAAATAATACTAAT
1 TTTGTTTTGTCATAAAACAATTGTTTTAGTTCATAAAAGCTTA-TTCAAATAAAATAATACTAAT
*
24380 TTATTAACTTTTGAAAGATTAATAAGCAGGATATTTGAAAAACTAAATTTGTTTACTGAACAAGT
65 TTATTAA-TTTTGAAA-ATTAATAAG-A-GA-ATTT-AAAAAATAAATTTGTTTACTGAACAAGT
24445 TCAAATAGTTATGACTATTTGAACAATTATCTATCTAAAATCG-TGA-ATT
124 TCAAATAGTTATGACTATTTGAACAATTATCTATCTAAAATCGTTGACA-T
* * * *
24494 TTTGTTTTGTCATAAAACAATTGTTTTAGTTCACAAAAGTTTATCCAAAATAAAATAATACTACT
1 TTTGTTTTGTCATAAAACAATTGTTTTAGTTCATAAAAGCTTATTC-AAATAAAATAATACTA-A
* ** * *
24559 TTTCTTAATATTTTGAAAA-T--TAAGAG-ATTTAAAAAATAAATCAGTTTACTG-ACTTAGTTT
64 TTTATT-A-ATTTTGAAAATTAATAAGAGAATTTAAAAAATAAATTTGTTTACTGAAC-AAGTTC
* *
24619 AAATAATTATGACAATTTGAACAATTATCTAT
126 AAATAGTTATGACTATTTGAACAATTATCTAT
24651 TTCAAGTCGT
Statistics
Matches: 279, Mismatches: 45, Indels: 32
0.78 0.13 0.09
Matches are distributed among these distances:
171 2 0.01
172 52 0.19
173 4 0.01
175 1 0.00
176 1 0.00
177 4 0.01
178 2 0.01
179 93 0.33
180 50 0.18
181 31 0.11
182 39 0.14
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (173 bp):
TTTGTTTTGTCATAAAACAATTGTTTTAGTTCATAAAAGCTTATTCAAATAAAATAATACTAATT
TATTAATTTTGAAAATTAATAAGAGAATTTAAAAAATAAATTTGTTTACTGAACAAGTTCAAATA
GTTATGACTATTTGAACAATTATCTATCTAAAATCGTTGACAT
Found at i:24761 original size:25 final size:25
Alignment explanation
Indices: 24733--24780 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
24723 TGTTCCTATA
24733 ATAT-TTTATAAATATTTAAAATATT
1 ATATGTTTA-AAATATTTAAAATATT
* *
24758 ATATGTTTAAATTATTTGAAATA
1 ATATGTTTAAAATATTTAAAATA
24781 AATTCTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (25 bp):
ATATGTTTAAAATATTTAAAATATT
Found at i:25874 original size:22 final size:24
Alignment explanation
Indices: 25839--25901 Score: 76
Period size: 22 Copynumber: 2.7 Consensus size: 24
25829 TTTTGTCATA
* *
25839 AAATAATTGTTTTATAT-TACTAT
1 AAATAATTATTTTATATATAATAT
25862 AAAT-ATTATTTTATATATAATAT
1 AAATAATTATTTTATATATAATAT
*
25885 ATAATAATTATATTATA
1 A-AATAATTATTTTATA
25902 AATTTTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
22 11 0.32
23 10 0.29
24 3 0.09
25 10 0.29
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (24 bp):
AAATAATTATTTTATATATAATAT
Found at i:26031 original size:18 final size:18
Alignment explanation
Indices: 25996--26034 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
25986 AGAAATTATT
*
25996 TAATAATATTTAACTTTA
1 TAATAATATTTAAATTTA
26014 TAATAAT-TTTAATATTTA
1 TAATAATATTTAA-ATTTA
26032 TAA
1 TAA
26035 ATATAACTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATAATATTTAAATTTA
Found at i:26239 original size:13 final size:13
Alignment explanation
Indices: 26223--26260 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
26213 TTATAAAATA
*
26223 AATATTTATTAAT
1 AATATGTATTAAT
26236 AATATGTATTAAT
1 AATATGTATTAAT
*
26249 -ATATGAATTAAT
1 AATATGTATTAAT
26261 TATTAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (13 bp):
AATATGTATTAAT
Found at i:26377 original size:22 final size:23
Alignment explanation
Indices: 26352--26398 Score: 55
Period size: 22 Copynumber: 2.1 Consensus size: 23
26342 TAATATTATA
26352 AATTTATAATT-TA-TAATTAATT
1 AATTTA-AATTATACTAATTAATT
*
26374 AA-TTAAATTATACTAATTATTT
1 AATTTAAATTATACTAATTAATT
26396 AAT
1 AAT
26399 GTAACTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
20 4 0.19
21 5 0.24
22 12 0.57
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
AATTTAAATTATACTAATTAATT
Found at i:26639 original size:65 final size:62
Alignment explanation
Indices: 26570--26697 Score: 134
Period size: 63 Copynumber: 2.0 Consensus size: 62
26560 TCCTAAATTT
* * *
26570 ATTATCAGTAAAC-TAATACTTATTATTAATTAAAAAAAATTGAATTATAAAT-TATATTGATAT
1 ATTATCA-TAAACATAATAATTATCATT-ATT-AAAAAAATTGAATTAAAAATAT-TA-TGATAT
26633 TA
61 TA
* * * *
26635 ATTATTATTAACATAATAATTATCATTATTAAACAAATTTAATTAAAAATATTATGATATTA
1 ATTATCATAAACATAATAATTATCATTATTAAAAAAATTGAATTAAAAATATTATGATATTA
26697 A
1 A
26698 ATTACTATAA
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
62 9 0.17
63 19 0.35
64 8 0.15
65 18 0.33
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (62 bp):
ATTATCATAAACATAATAATTATCATTATTAAAAAAATTGAATTAAAAATATTATGATATTA
Found at i:27191 original size:6 final size:6
Alignment explanation
Indices: 27172--27230 Score: 52
Period size: 6 Copynumber: 10.0 Consensus size: 6
27162 CGTTTTAAAT
* * *
27172 TATTAA AATT-A TATTAA TATTAA TATTAA TA-TAA T-TTAA GTACTGA
1 TATTAA TATTAA TATTAA TATTAA TATTAA TATTAA TATTAA -TATTAA
27218 TATTAA TTATTAA
1 TATTAA -TATTAA
27231 ATAACTTGAT
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
5 11 0.26
6 23 0.55
7 8 0.19
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.47
Consensus pattern (6 bp):
TATTAA
Found at i:27256 original size:23 final size:23
Alignment explanation
Indices: 27222--27266 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
27212 TACTGATATT
*
27222 AATTATTAAATAACTTGATAATA
1 AATTATTAAATAACTTAATAATA
*
27245 AATTAATT-AATAATTTAATAAT
1 AATT-ATTAAATAACTTAATAAT
27267 TATTTCTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
AATTATTAAATAACTTAATAATA
Found at i:27371 original size:15 final size:15
Alignment explanation
Indices: 27339--27383 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
27329 AGTAACTTAA
*
27339 TACTAATTTAATTAAT
1 TACTAATATAATT-AT
* *
27355 TAGTATTATAATTAT
1 TACTAATATAATTAT
27370 TACTAATATAATTA
1 TACTAATATAATTA
27384 ATTTTATAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
15 14 0.58
16 10 0.42
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.49
Consensus pattern (15 bp):
TACTAATATAATTAT
Found at i:27483 original size:26 final size:25
Alignment explanation
Indices: 27453--27505 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 25
27443 ATTAATTTAC
* * *
27453 AAGTAAATTGTTATTATTATATAATT
1 AAGTAAATTATTAATACT-TATAATT
27479 AAGTAAATTATTAATACTTATAATT
1 AAGTAAATTATTAATACTTATAATT
27504 AA
1 AA
27506 AACATGCTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 9 0.38
26 15 0.62
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (25 bp):
AAGTAAATTATTAATACTTATAATT
Found at i:27770 original size:20 final size:20
Alignment explanation
Indices: 27745--27830 Score: 81
Period size: 20 Copynumber: 4.5 Consensus size: 20
27735 TAATTTATTT
*
27745 ATATTACTTATTAATAATAA
1 ATATTAATTATTAATAATAA
* *
27765 ATATTAATTATTTATTATAA
1 ATATTAATTATTAATAATAA
*
27785 ATATTAA-T-TT-ATCATAA
1 ATATTAATTATTAATAATAA
* *
27802 ATATTAATAATTATTAAT-A
1 ATATTAATTATTAATAATAA
27821 ATATTTAATT
1 ATA-TTAATT
27831 CAATTAATAT
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
17 13 0.24
18 2 0.04
19 7 0.13
20 32 0.59
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (20 bp):
ATATTAATTATTAATAATAA
Found at i:27796 original size:17 final size:17
Alignment explanation
Indices: 27774--27809 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
27764 AATATTAATT
*
27774 ATTTATTATAAATATTA
1 ATTTATCATAAATATTA
27791 ATTTATCATAAATATTA
1 ATTTATCATAAATATTA
27808 AT
1 AT
27810 AATTATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTATCATAAATATTA
Found at i:27995 original size:22 final size:23
Alignment explanation
Indices: 27946--28005 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 23
27936 TCCAAAATAA
*
27946 AATAACTATTTTATTATAATATTAT
1 AATAA-TA-TTTATTATAATAGTAT
27971 AAT-ATATTTATTATAAT-GTACT
1 AATAATATTTATTATAATAGTA-T
27993 AATAAATATTTAT
1 AAT-AATATTTAT
28006 ACTTATGAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
21 2 0.06
22 15 0.48
23 2 0.06
24 9 0.29
25 3 0.10
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (23 bp):
AATAATATTTATTATAATAGTAT
Found at i:28319 original size:17 final size:19
Alignment explanation
Indices: 28285--28322 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
28275 AATATAAAAT
28285 TTAATAATAAGCTATTATTA
1 TTAATAATAA-CTATTATTA
28305 TTAATAATAA-T-TTATTA
1 TTAATAATAACTATTATTA
28322 T
1 T
28323 AAAATAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
18 1 0.06
20 10 0.56
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (19 bp):
TTAATAATAACTATTATTA
Found at i:29080 original size:19 final size:21
Alignment explanation
Indices: 29058--29098 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
29048 ATAATAAGAT
29058 TATTTAAT-TAAAAA-ATTAA
1 TATTTAATATAAAAATATTAA
29077 TATTTAATAATAAAAATATTAA
1 TATTTAAT-ATAAAAATATTAA
29099 ATTAGTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.42
21 6 0.32
22 5 0.26
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TATTTAATATAAAAATATTAA
Found at i:29274 original size:24 final size:21
Alignment explanation
Indices: 29213--29275 Score: 56
Period size: 21 Copynumber: 2.8 Consensus size: 21
29203 TATATAATTC
29213 AATATTATATATATTA-TTTTA
1 AATATTATATA-ATTATTTTTA
* *
29234 AATAATATATGATTTATTTATATA
1 AATATTATAT-AATTATTT-T-TA
29258 AATTATTATATAATTATT
1 AA-TATTATATAATTATT
29276 AATAGTTCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
21 12 0.36
22 3 0.09
23 1 0.03
24 10 0.30
25 7 0.21
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (21 bp):
AATATTATATAATTATTTTTA
Found at i:29422 original size:15 final size:14
Alignment explanation
Indices: 29365--29422 Score: 53
Period size: 15 Copynumber: 3.9 Consensus size: 14
29355 ATATTAATAT
*
29365 ATAATAATTTATTA
1 ATAATAGTTTATTA
* *
29379 TATTATAGTTTATAA
1 -ATAATAGTTTATTA
*
29394 ATAAATACTTTATTA
1 AT-AATAGTTTATTA
29409 ATAATAGTTATATT
1 ATAATAGTT-TATT
29423 TTAAATAATA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
14 8 0.24
15 26 0.76
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (14 bp):
ATAATAGTTTATTA
Found at i:30960 original size:19 final size:17
Alignment explanation
Indices: 30907--30960 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 17
30897 AATTATTTTA
* *
30907 AATATAAATATATTAATT
1 AATATAACTTTATT-ATT
30925 AATATAACTTTATTATT
1 AATATAACTTTATTATT
*
30942 AATATTAATTTTAATTATT
1 AATA-TAACTTT-ATTATT
30961 TGATAGTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
17 7 0.23
18 18 0.58
19 6 0.19
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
AATATAACTTTATTATT
Found at i:31568 original size:15 final size:15
Alignment explanation
Indices: 31530--31577 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
31520 GATTTAAAAT
*
31530 ATTAAATATGTTATTA
1 ATTAAATAT-TTAATA
31546 A-TATAATATTTAATA
1 ATTA-AATATTTAATA
*
31561 ATTAAATAGTTAATA
1 ATTAAATATTTAATA
31576 AT
1 AT
31578 ATATTAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
15 20 0.71
16 8 0.29
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (15 bp):
ATTAAATATTTAATA
Found at i:31580 original size:30 final size:32
Alignment explanation
Indices: 31521--31580 Score: 88
Period size: 30 Copynumber: 1.9 Consensus size: 32
31511 TTATTTTAAG
*
31521 ATTTAAAATATTAAATATGTTATTAATATAAT
1 ATTTAAAATATTAAATATGTTAATAATATAAT
*
31553 ATTTAATA-ATTAAATA-GTTAATAATATA
1 ATTTAAAATATTAAATATGTTAATAATATA
31581 TTAAATTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 11 0.42
31 8 0.31
32 7 0.27
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (32 bp):
ATTTAAAATATTAAATATGTTAATAATATAAT
Found at i:32863 original size:42 final size:41
Alignment explanation
Indices: 32774--32887 Score: 112
Period size: 42 Copynumber: 2.8 Consensus size: 41
32764 TATTAAGTTA
*
32774 TAAATAAATTTAATTATTTATATTAATATTAACTAATAAAT
1 TAAATTAATTTAATTATTTATATTAATATTAACTAATAAAT
* *
32815 TTAATTAATTATAATTA-TTATATTTAATAATATAAC-AAT-AGT
1 TAAATTAATT-TAATTATTTATA-TTAAT-AT-TAACTAATAAAT
*
32857 TAAATTATATTTAATTAATTA-A-TAATATTAA
1 TAAATTA-ATTTAATTATTTATATTAATATTAA
32888 TATAATTATA
Statistics
Matches: 63, Mismatches: 4, Indels: 15
0.77 0.05 0.18
Matches are distributed among these distances:
38 3 0.05
39 2 0.03
40 4 0.06
41 13 0.21
42 26 0.41
43 11 0.17
44 4 0.06
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (41 bp):
TAAATTAATTTAATTATTTATATTAATATTAACTAATAAAT
Found at i:32871 original size:29 final size:28
Alignment explanation
Indices: 32831--32887 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 28
32821 AATTATAATT
32831 ATTATATTTAA-TAATATAACAATAGTTAA
1 ATTATATTTAATTAAT-TAACAATA-TTAA
*
32860 ATTATATTTAATTAATTAATAATATTAA
1 ATTATATTTAATTAATTAACAATATTAA
32888 TATAATTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 4 0.15
29 18 0.69
30 4 0.15
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (28 bp):
ATTATATTTAATTAATTAACAATATTAA
Found at i:33107 original size:10 final size:10
Alignment explanation
Indices: 33092--33148 Score: 57
Period size: 10 Copynumber: 5.9 Consensus size: 10
33082 TTAACATTTT
33092 ATTAATTATA
1 ATTAATTATA
33102 ATTAATTATA
1 ATTAATTATA
33112 ATT-ATATATA
1 ATTAAT-TATA
*
33122 ATTGATTA-A
1 ATTAATTATA
*
33131 A-TAAATATA
1 ATTAATTATA
*
33140 ATTTATTAT
1 ATTAATTAT
33149 TTTACTAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 4 0.10
9 6 0.15
10 27 0.69
11 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (10 bp):
ATTAATTATA
Found at i:33138 original size:18 final size:20
Alignment explanation
Indices: 33092--33148 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
33082 TTAACATTTT
*
33092 ATTAATTATAATTAATTATA
1 ATTAAATATAATTAATTATA
* *
33112 ATTATATATAATTGATTA-A
1 ATTAAATATAATTAATTATA
*
33131 A-TAAATATAATTTATTAT
1 ATTAAATATAATTAATTAT
33149 TTTACTAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 14 0.45
19 2 0.06
20 15 0.48
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (20 bp):
ATTAAATATAATTAATTATA
Found at i:33655 original size:26 final size:26
Alignment explanation
Indices: 33620--33684 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
33610 TTATTAGTTT
33620 ATTATATATTAATAAATAAT-ATATAAG
1 ATTAT-TATTAAT-AATAATAATATAAG
* *
33647 ATTATTATTAGTAATAATAATATAAT
1 ATTATTATTAATAATAATAATATAAG
33673 ATTATTATTAAT
1 ATTATTATTAAT
33685 TATTAACTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
25 6 0.18
26 23 0.68
27 5 0.15
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (26 bp):
ATTATTATTAATAATAATAATATAAG
Found at i:33687 original size:33 final size:30
Alignment explanation
Indices: 33574--33689 Score: 83
Period size: 32 Copynumber: 3.7 Consensus size: 30
33564 ATGTATCAAT
* * **
33574 TAATAGTTAATATTATTATTAAAATCTTATAA
1 TAATA-TTATTATTATTATTATAATAATA-AA
*
33606 TAA-ATTATTAGTTTATTA-TATATTAATAAA
1 TAATATTATTA--TTATTATTATAATAATAAA
**
33636 TAATATATAAGATTATTATTAGTAATAATAATA
1 TAATAT-TATTATTATTATTA-TAATAATAA-A
33669 TAATATTATTATTAATTATTA
1 TAATATTATTATT-ATTATTA
33690 ACTAATCGAT
Statistics
Matches: 66, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
30 16 0.24
31 11 0.17
32 25 0.38
33 14 0.21
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.48
Consensus pattern (30 bp):
TAATATTATTATTATTATTATAATAATAAA
Found at i:33813 original size:21 final size:21
Alignment explanation
Indices: 33753--33817 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
33743 CTATTATAAT
* *
33753 TAAAATAGTTATAAAT-ATTT
1 TAAAATAGTTATTAATAATTA
*
33773 TGACAATAGTTTATTTAATAATTA
1 T-AAAATAG-TTA-TTAATAATTA
33797 TAAAATAGTTATTAATAATTA
1 TAAAATAGTTATTAATAATTA
33818 ATAATTGTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
20 1 0.03
21 16 0.43
22 6 0.16
23 10 0.27
24 4 0.11
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.45
Consensus pattern (21 bp):
TAAAATAGTTATTAATAATTA
Found at i:33829 original size:21 final size:22
Alignment explanation
Indices: 33777--33830 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
33767 ATATTTTGAC
33777 AATAGTTTATTTAATAATTATAA
1 AATAGTTTA-TTAATAATTATAA
*
33800 AATAG-TTATTAATAATTA-AT
1 AATAGTTTATTAATAATTATAA
*
33820 AATTGTTTATT
1 AATAGTTTATT
33831 TCAAATTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 5 0.18
21 15 0.54
22 3 0.11
23 5 0.18
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (22 bp):
AATAGTTTATTAATAATTATAA
Found at i:34211 original size:20 final size:20
Alignment explanation
Indices: 34188--34268 Score: 60
Period size: 23 Copynumber: 4.0 Consensus size: 20
34178 TTTGAAATAG
*
34188 TTATATATAATATTTATTAC
1 TTATATATAATATTTATTAA
*
34208 TTATAAACTATAATATATTAATAA
1 TTAT--A-TATAATAT-TTATTAA
* *
34232 TTATTATATATTATTCATTAA
1 TTA-TATATAATATTTATTAA
34253 TT-T-TATAA-ATTTATTA
1 TTATATATAATATTTATTA
34269 TCTAATCATT
Statistics
Matches: 49, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
17 7 0.14
18 4 0.08
19 1 0.02
20 4 0.08
21 7 0.14
22 8 0.16
23 9 0.18
24 8 0.16
25 1 0.02
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (20 bp):
TTATATATAATATTTATTAA
Found at i:34318 original size:24 final size:22
Alignment explanation
Indices: 34276--34322 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 22
34266 TTATCTAATC
*
34276 ATTTATTAAATTAAAATAATTT
1 ATTTATAAAATTAAAATAATTT
34298 ATTTATAACAATTATAAATAATTT
1 ATTTATAA-AATTA-AAATAATTT
34322 A
1 A
34323 ATCACATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 7 0.32
23 5 0.23
24 10 0.45
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
ATTTATAAAATTAAAATAATTT
Found at i:34364 original size:17 final size:18
Alignment explanation
Indices: 34342--34386 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
34332 AACAATTACT
34342 ATTATATATTAT-TTATA
1 ATTATATATTATGTTATA
*
34359 ATTATA-ATTTTGTTATA
1 ATTATATATTATGTTATA
34376 ATGTAT-TATTA
1 AT-TATATATTA
34387 ATCATAACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
16 4 0.17
17 13 0.57
18 6 0.26
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (18 bp):
ATTATATATTATGTTATA
Found at i:34453 original size:19 final size:18
Alignment explanation
Indices: 34429--34470 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 18
34419 CTATTTCAAC
34429 TAATTATACTAATTATTAA
1 TAATTATACTAATT-TTAA
*
34448 TAATTATATTAATTTTAA
1 TAATTATACTAATTTTAA
34466 TAATT
1 TAATT
34471 TTTAAATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (18 bp):
TAATTATACTAATTTTAA
Found at i:34599 original size:17 final size:18
Alignment explanation
Indices: 34574--34607 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
34564 ATAATATTAT
34574 AAATATT-AATAAAGATA
1 AAATATTAAATAAAGATA
*
34591 AAATCTTAAATAAAGAT
1 AAATATTAAATAAAGAT
34608 TATAAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (18 bp):
AAATATTAAATAAAGATA
Found at i:34794 original size:20 final size:19
Alignment explanation
Indices: 34769--34807 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
34759 AATAACTTTA
*
34769 TATTAACTAAAATTTATAAT
1 TATTAAATAAAA-TTATAAT
*
34789 TATTAAATAATATTATAAT
1 TATTAAATAAAATTATAAT
34808 AAACTATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (19 bp):
TATTAAATAAAATTATAAT
Found at i:34931 original size:20 final size:21
Alignment explanation
Indices: 34904--34964 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 21
34894 TATTCATTGT
* * *
34904 TAATATTATAATTATTTCTAA
1 TAATATTATAAATATATATAA
34925 T-ATATTATAAATATATATAA
1 TAATATTATAAATATATATAA
34945 TAATATTATATAAT-TATATA
1 TAATATTATA-AATATATATA
34965 GTATAAATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 17 0.49
21 15 0.43
22 3 0.09
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
TAATATTATAAATATATATAA
Found at i:34942 original size:13 final size:13
Alignment explanation
Indices: 34924--35015 Score: 67
Period size: 12 Copynumber: 7.7 Consensus size: 13
34914 ATTATTTCTA
34924 ATATATTATAAAT
1 ATATATTATAAAT
*
34937 ATATATAAT-AAT
1 ATATATTATAAAT
*
34949 AT-TA-TATAATT
1 ATATATTATAAAT
*
34960 ATATAGTATAAAT
1 ATATATTATAAAT
*
34973 -TATATTAT-ACT
1 ATATATTATAAAT
34984 A-A-ATTATTAAAT
1 ATATATTA-TAAAT
*
34996 AT-TATTATAATT
1 ATATATTATAAAT
35008 AT-TATTAT
1 ATATATTAT
35016 TTAATTAATT
Statistics
Matches: 63, Mismatches: 8, Indels: 17
0.72 0.09 0.19
Matches are distributed among these distances:
10 6 0.10
11 10 0.16
12 29 0.46
13 18 0.29
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (13 bp):
ATATATTATAAAT
Found at i:34956 original size:23 final size:24
Alignment explanation
Indices: 34922--35004 Score: 75
Period size: 23 Copynumber: 3.4 Consensus size: 24
34912 TAATTATTTC
34922 TAATA-TATTATAAATATATAT-AA
1 TAATATTA-TATAAATATATATAAA
34945 TAATATTATATAATTATATAGTATAAA
1 TAATATTATATAA--ATATA-TATAAA
*
34972 TTATATTATACTAAAT-TAT-TAAA
1 TAATATTATA-TAAATATATATAAA
*
34995 TATTATTATA
1 TAATATTATA
35005 ATTATTATTA
Statistics
Matches: 51, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
23 22 0.43
24 3 0.06
25 7 0.14
26 5 0.10
27 11 0.22
28 3 0.06
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (24 bp):
TAATATTATATAAATATATATAAA
Found at i:34986 original size:15 final size:14
Alignment explanation
Indices: 34936--34990 Score: 60
Period size: 15 Copynumber: 3.9 Consensus size: 14
34926 ATATTATAAA
*
34936 TATATATAATAATAT
1 TATATA-AATTATAT
34951 TATAT-AATTATA-
1 TATATAAATTATAT
34963 TAGTATAAATTATAT
1 TA-TATAAATTATAT
34978 TATACTAAATTAT
1 TATA-TAAATTAT
34991 TAAATATTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
12 2 0.06
13 9 0.26
14 9 0.26
15 15 0.43
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (14 bp):
TATATAAATTATAT
Found at i:35026 original size:12 final size:14
Alignment explanation
Indices: 34907--35026 Score: 52
Period size: 14 Copynumber: 8.1 Consensus size: 14
34897 TCATTGTTAA
34907 TATTATAATTAT-T
1 TATTATAATTATAT
* * *
34920 TCTAATATATTATAAA
1 TATTATA-ATTAT-AT
*
34936 TATATATAATAATAT
1 TAT-TATAATTATAT
34951 TA-TATAATTATA-
1 TATTATAATTATAT
*
34963 TAGTATAAATTATAT
1 TATTAT-AATTATAT
*
34978 TATACTAAATTATTAAATAT
1 TAT--T--ATAATT--ATAT
34998 TATTATAATTATTAT
1 TATTATAATTA-TAT
35013 TATT-TAATTA-AT
1 TATTATAATTATAT
35025 TA
1 TA
35027 CTAATACTAA
Statistics
Matches: 82, Mismatches: 11, Indels: 29
0.67 0.09 0.24
Matches are distributed among these distances:
12 6 0.07
13 17 0.21
14 19 0.23
15 12 0.15
16 11 0.13
17 4 0.05
18 4 0.05
19 2 0.02
20 7 0.09
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.51
Consensus pattern (14 bp):
TATTATAATTATAT
Found at i:35047 original size:48 final size:48
Alignment explanation
Indices: 34995--35120 Score: 134
Period size: 48 Copynumber: 2.6 Consensus size: 48
34985 AATTATTAAA
*
34995 TATTATTATAATTATTATTATTTAATTA-ATTACTAATACTAATAATAC
1 TATTATTATAATTATTATTATTTAATAATATTACTAAT-CTAATAATAC
* * * *
35043 TATTA-TATAATCATTATAATTATAATAATATTATTTATCTAATAATAC
1 TATTATTATAATTATTATTATT-TAATAATATTACTAATCTAATAATAC
35091 TATT-TTATAATTTAATTATTAATTT-ATAAT
1 TATTATTATAA-TT-ATTATT-ATTTAATAAT
35121 TCAAATAATT
Statistics
Matches: 65, Mismatches: 7, Indels: 11
0.78 0.08 0.13
Matches are distributed among these distances:
47 14 0.22
48 29 0.45
49 13 0.20
50 6 0.09
51 3 0.05
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.52
Consensus pattern (48 bp):
TATTATTATAATTATTATTATTTAATAATATTACTAATCTAATAATAC
Found at i:35679 original size:22 final size:23
Alignment explanation
Indices: 35636--35684 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
35626 ATATTAATTC
*
35636 TTATTAATAATAATATTATT-AA
1 TTATGAATAATAATATTATTAAA
*
35658 TTATGAATAATACTAATT-TTAAA
1 TTATGAATAATAAT-ATTATTAAA
35681 TTAT
1 TTAT
35685 CTTATTAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (23 bp):
TTATGAATAATAATATTATTAAA
Found at i:35694 original size:28 final size:29
Alignment explanation
Indices: 35653--35737 Score: 79
Period size: 28 Copynumber: 3.1 Consensus size: 29
35643 TAATAATATT
*
35653 ATTA-ATTATGAATAATACTAATTTTA-A
1 ATTAGATTATAAATAATACTAATTTTATA
** * * *
35680 ATTATCTTATTAAT-ATAATTATTTTATA
1 ATTAGATTATAAATAATACTAATTTTATA
*
35708 ATTAGATTA-AAATAATACTAATTTAATA
1 ATTAGATTATAAATAATACTAATTTTATA
35736 AT
1 AT
35738 ATCTCAAAAA
Statistics
Matches: 45, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
27 17 0.38
28 28 0.62
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (29 bp):
ATTAGATTATAAATAATACTAATTTTATA
Found at i:36008 original size:15 final size:15
Alignment explanation
Indices: 35988--36098 Score: 54
Period size: 15 Copynumber: 7.4 Consensus size: 15
35978 GACTATTATT
35988 TATTATTATAAATAA
1 TATTATTATAAATAA
*
36003 TATTATTACTATTATAA
1 TATTATTA-TA-AATAA
* *
36020 TA--ATAATTAATAA
1 TATTATTATAAATAA
36033 TATTATTATTTAAACTAA
1 TATTATTA--TAAA-TAA
* *
36051 TAAT-TTATAATTAA
1 TATTATTATAAATAA
**
36065 -ATTATTATTTAT-A
1 TATTATTATAAATAA
*
36078 TATTATT-TATAATTA
1 TATTATTATA-AATAA
36093 TATTAT
1 TATTAT
36099 AAATAGATTA
Statistics
Matches: 71, Mismatches: 14, Indels: 22
0.66 0.13 0.21
Matches are distributed among these distances:
13 10 0.14
14 17 0.24
15 24 0.34
16 2 0.03
17 12 0.17
18 6 0.08
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTATTATAAATAA
Found at i:36017 original size:21 final size:20
Alignment explanation
Indices: 35981--36038 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
35971 ATATTTTGAC
*
35981 TATTATTTATTATTATAAATAA
1 TATTA-TTAATATTAT-AATAA
*
36003 TATTATTACTATTATAATAA
1 TATTATTAATATTATAATAA
*
36023 TAATTAATAATATTAT
1 T-ATTATTAATATTAT
36039 TATTTAAACT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.19
21 21 0.66
22 5 0.16
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
TATTATTAATATTATAATAA
Found at i:36060 original size:28 final size:28
Alignment explanation
Indices: 35998--36077 Score: 90
Period size: 28 Copynumber: 2.7 Consensus size: 28
35988 TATTATTATA
35998 AATAATATTATTACTATTATAATAATAATT
1 AATAATATTATTA-T-TTATAATAATAATT
36028 AATAATATTATTATTTA-AACTAATAATT
1 AATAATATTATTATTTATAA-TAATAATT
*
36056 TATAATTAAATTATTATTTATA
1 AATAA-T--ATTATTATTTATA
36078 TATTATTTAT
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
27 2 0.05
28 15 0.34
29 2 0.05
30 13 0.30
31 11 0.25
32 1 0.02
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (28 bp):
AATAATATTATTATTTATAATAATAATT
Found at i:36081 original size:11 final size:11
Alignment explanation
Indices: 36067--36099 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
36057 ATAATTAAAT
36067 TATTATTTATA
1 TATTATTTATA
36078 TATTATTTATA
1 TATTATTTATA
36089 -ATTATATTATA
1 TATTAT-TTATA
36100 AATAGATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 5 0.24
11 16 0.76
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
TATTATTTATA
Found at i:36092 original size:29 final size:31
Alignment explanation
Indices: 35993--36098 Score: 89
Period size: 29 Copynumber: 3.5 Consensus size: 31
35983 TTATTTATTA
*
35993 TTATAAATAATATTATTACTATTATAA-TAATAAT
1 TTATAATTAA-ATTATTA-T-TTA-AACTAATAAT
*
36027 TAATAA-T--ATTATTATTTAAACTAATAAT
1 TTATAATTAAATTATTATTTAAACTAATAAT
* *
36055 TTATAATTAAATTATTATTTATA-T-ATTAT
1 TTATAATTAAATTATTATTTAAACTAATAAT
*
36084 TTATAATTATATTAT
1 TTATAATTAAATTAT
36099 AAATAGATTA
Statistics
Matches: 63, Mismatches: 5, Indels: 13
0.78 0.06 0.16
Matches are distributed among these distances:
27 2 0.03
28 15 0.24
29 20 0.32
30 8 0.13
31 12 0.19
33 1 0.02
34 5 0.08
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (31 bp):
TTATAATTAAATTATTATTTAAACTAATAAT
Done.