Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168211.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_446, 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: 26573
ACGTcount: A:0.54, C:0.06, G:0.09, T:0.31
Found at i:49 original size:30 final size:31
Alignment explanation
Indices: 2--64 Score: 85
Period size: 30 Copynumber: 2.0 Consensus size: 31
1 T
2 AATAAAAATATTATAATTA-TTAAAATTATC
1 AATAAAAATATTATAATTATTTAAAATTATC
*
32 AATAATAAT-TTATTAATTATTTTAAAATTATC
1 AATAAAAATATTA-TAATTA-TTTAAAATTATC
64 A
1 A
65 TTTTAAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 3 0.10
30 14 0.48
32 12 0.41
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.44
Consensus pattern (31 bp):
AATAAAAATATTATAATTATTTAAAATTATC
Found at i:893 original size:181 final size:181
Alignment explanation
Indices: 478--909 Score: 431
Period size: 181 Copynumber: 2.4 Consensus size: 181
468 TTTGAACCGA
* * * *
478 TTTGTTAAACAAATTTATTTTTTAAATCTCTTAGTTATTAATTTTTGAAATATTATTAAATTAG-
1 TTTGGTAAACAAATTTACTTTTTAAATCTCTTAGTTATTAATTTTTCAAATATTAATAAATTAGT
** * * * * *
542 TATTATTTTAATCCAAATAAGCTTGTATGAACAAAACAATTGTTTTATGACAAAAGAAAAGGTCA
66 TATTATTTTAATCCAAATAAAATAGAATAAACAAAACAATTGTTTGATGACAAAACAAAAGGTCA
** * * ** *
607 TAATGATTTGAAATAGATAATCATTCATATAGTCTTAACTATTTCAACTAG
131 TAATGATTCAAAATAGATAATCATTAAAATAGTCAAAACTATTTCAAATAG
* * ** * * * * * *
658 TTCGGCAATTAGATTTACTTTTTAATTTTCTTGGTTATTAA-GTTTCAGAATATTAGTAAATTAG
1 TTTGGTAAACAAATTTACTTTTTAAATCTCTTAGTTATTAATTTTTCA-AATATTAATAAATTAG
* *** * *
722 TTA-TATTTTATTTTGAATAAAATAGAATAAACATAACCAATTGTTTGATGATAAAACAAAAGGT
65 TTATTATTTTAATCCAAATAAAATAGAATAAACA-AAACAATTGTTTGATGACAAAACAAAAGGT
* ** * *
786 TATAATGATTCAAAATAGATAATTTTTAAAATAGTCAAAACTATTTGAAATGG
129 CATAATGATTCAAAATAGATAATCATTAAAATAGTCAAAACTATTTCAAATAG
* * * *
839 TTTGGTAAGCAAATTTACTTTTTAAATCTCTTACTAATTAATTTTTTAAATATTAATAAATTAG-
1 TTTGGTAAACAAATTTACTTTTTAAATCTCTTAGTTATTAATTTTTCAAATATTAATAAATTAGT
903 TATTATT
66 TATTATT
910 AATTATATTA
Statistics
Matches: 196, Mismatches: 51, Indels: 9
0.77 0.20 0.04
Matches are distributed among these distances:
179 4 0.02
180 69 0.35
181 119 0.61
182 4 0.02
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.43
Consensus pattern (181 bp):
TTTGGTAAACAAATTTACTTTTTAAATCTCTTAGTTATTAATTTTTCAAATATTAATAAATTAGT
TATTATTTTAATCCAAATAAAATAGAATAAACAAAACAATTGTTTGATGACAAAACAAAAGGTCA
TAATGATTCAAAATAGATAATCATTAAAATAGTCAAAACTATTTCAAATAG
Found at i:1021 original size:23 final size:22
Alignment explanation
Indices: 997--1087 Score: 78
Period size: 23 Copynumber: 4.0 Consensus size: 22
987 TTATATCAAT
997 TAATTCAATAAATATATATTTATTA
1 TAATT-AATAAATATATATTTA--A
* *
1022 TTATTAATAAAT-TA-ATATAA
1 TAATTAATAAATATATATTTAA
* *
1042 TCATTAATAAATTAAATATTTAA
1 TAATTAATAAA-TATATATTTAA
*
1065 TAATTAATAATTTATATATTTAA
1 TAATTAATAA-ATATATATTTAA
1088 ATTAATTTAT
Statistics
Matches: 54, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
20 11 0.20
21 1 0.02
22 5 0.09
23 26 0.48
24 7 0.13
25 4 0.07
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
TAATTAATAAATATATATTTAA
Found at i:1066 original size:16 final size:19
Alignment explanation
Indices: 1023--1122 Score: 70
Period size: 20 Copynumber: 5.3 Consensus size: 19
1013 TATTTATTAT
1023 TATTAATAAATTAATATAA
1 TATTAATAAATTAATATAA
1042 TCATTAATAAATTAA-AT-A
1 T-ATTAATAAATTAATATAA
1060 T-TTAAT-AATTAATAATTTATA
1 TATTAATAAATTAAT-A--TA-A
*
1081 TATT--TAAATTAAT-TTA
1 TATTAATAAATTAATATAA
*
1097 TATTAGTTAAATTAATATAA
1 TATTA-ATAAATTAATATAA
*
1117 AATTAA
1 TATTAA
1123 ATAATACAGT
Statistics
Matches: 64, Mismatches: 4, Indels: 26
0.68 0.04 0.28
Matches are distributed among these distances:
15 6 0.09
16 10 0.16
17 2 0.03
18 2 0.03
19 13 0.20
20 20 0.31
21 9 0.14
22 2 0.03
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (19 bp):
TATTAATAAATTAATATAA
Found at i:1095 original size:18 final size:19
Alignment explanation
Indices: 1072--1112 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
1062 TAATAATTAA
*
1072 TAATTTATA-TATTTAAAT
1 TAATTTATATTAGTTAAAT
1090 TAATTTATATTAGTTAAAT
1 TAATTTATATTAGTTAAAT
1109 TAAT
1 TAAT
1113 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:1275 original size:23 final size:23
Alignment explanation
Indices: 1238--1284 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
1228 AATTATTAAA
*
1238 TTAATTAAATAATAATTAAATAT
1 TTAATTAAATAATAAATAAATAT
* * *
1261 TTAATTAATTTATAAATAATTAT
1 TTAATTAAATAATAAATAAATAT
1284 T
1 T
1285 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:1780 original size:15 final size:15
Alignment explanation
Indices: 1750--1799 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
1740 AAACTATTAC
1750 TAATATATAAATTTAA
1 TAATATAT-AATTTAA
1766 TAATAGTAT-ATTTAA
1 TAATA-TATAATTTAA
* *
1781 TTATATATAATTAAA
1 TAATATATAATTTAA
1796 TAAT
1 TAAT
1800 TATTACTTAG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 3 0.10
15 18 0.62
16 5 0.17
17 3 0.10
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (15 bp):
TAATATATAATTTAA
Found at i:2915 original size:16 final size:16
Alignment explanation
Indices: 2894--2956 Score: 51
Period size: 16 Copynumber: 4.0 Consensus size: 16
2884 TGCATATTAT
2894 TAATTAATATTAATAA
1 TAATTAATATTAATAA
* *
2910 TAATTAATTACTAA-AT
1 TAATTAA-TATTAATAA
2926 TAATT-ATA-TAATAA
1 TAATTAATATTAATAA
* *
2940 GAATTTATATTTAATAA
1 TAATTAATA-TTAATAA
2957 ATTATTATTG
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
13 3 0.08
14 7 0.18
15 4 0.11
16 13 0.34
17 11 0.29
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (16 bp):
TAATTAATATTAATAA
Found at i:4678 original size:21 final size:20
Alignment explanation
Indices: 4652--4710 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 20
4642 AATTAAATAG
4652 TATTTAATTATTTAAATATT
1 TATTTAATTATTTAAATATT
*
4672 CTATTTATTTATTT-AATATT
1 -TATTTAATTATTTAAATATT
*
4692 TAATATTAATTAATTAAAT
1 T-AT-TTAATTATTTAAAT
4711 TGATTATATT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
19 1 0.03
20 8 0.25
21 20 0.62
22 3 0.09
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (20 bp):
TATTTAATTATTTAAATATT
Found at i:4970 original size:14 final size:12
Alignment explanation
Indices: 4944--4990 Score: 58
Period size: 12 Copynumber: 3.7 Consensus size: 12
4934 TAAAGTAAAC
4944 TAATTAAAAAAT
1 TAATTAAAAAAT
4956 TAATTAAAATGAAT
1 TAATTAAAA--AAT
*
4970 TAATTAATAAAT
1 TAATTAAAAAAT
4982 ATAATTAAA
1 -TAATTAAA
4991 TATTTATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
12 12 0.40
13 7 0.23
14 11 0.37
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (12 bp):
TAATTAAAAAAT
Found at i:5281 original size:19 final size:20
Alignment explanation
Indices: 5257--5309 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
5247 ATATTATTCA
5257 ATAATTATTAATA-TTATAT
1 ATAATTATTAATATTTATAT
5276 ATAATTTAATTTAATATTTATAT
1 ATAA-TT-A-TTAATATTTATAT
* *
5299 TTAATTTTTAA
1 ATAATTATTAA
5310 ATAGTAAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
19 4 0.14
20 6 0.21
21 1 0.04
22 8 0.29
23 9 0.32
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
ATAATTATTAATATTTATAT
Found at i:6164 original size:15 final size:14
Alignment explanation
Indices: 6144--6219 Score: 55
Period size: 15 Copynumber: 4.9 Consensus size: 14
6134 ATATTTTTAA
6144 ATATTAATCAATATT
1 ATATTAAT-AATATT
*
6159 ATATTATTAAATATT
1 ATATTAAT-AATATT
6174 AATATAATAATAATATT
1 -ATAT--TAATAATATT
6191 ATTATTAATTAATAGTT
1 A-TATTAA-TAATA-TT
*
6208 -TAATAATAATAT
1 ATATTAATAATAT
6220 AATAATACCA
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
13 1 0.02
14 5 0.10
15 21 0.41
16 10 0.20
17 11 0.22
18 3 0.06
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (14 bp):
ATATTAATAATATT
Found at i:6168 original size:25 final size:27
Alignment explanation
Indices: 6133--6194 Score: 83
Period size: 25 Copynumber: 2.4 Consensus size: 27
6123 TTATAATTAA
*
6133 TATATTTTTAAATATTAAT-CAAT-AT
1 TATATTATTAAATATTAATACAATAAT
*
6158 TATATTATTAAATATTAATATAATAAT
1 TATATTATTAAATATTAATACAATAAT
*
6185 AATATTATTA
1 TATATTATTA
6195 TTAATTAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
25 18 0.56
26 3 0.09
27 11 0.34
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (27 bp):
TATATTATTAAATATTAATACAATAAT
Found at i:6196 original size:30 final size:28
Alignment explanation
Indices: 6125--6220 Score: 90
Period size: 30 Copynumber: 3.4 Consensus size: 28
6115 TATTATGATT
* *
6125 ATAATTAATATATTTTTAAATATTAATCA
1 ATAA-TAATATATTATTAAATATTAATTA
6154 AT-AT--TATATTATTAAATATTAATATA
1 ATAATAATATATTATTAAATATTAAT-TA
* * *
6180 ATAATAATATTATTATTAATTAATAGTTTA
1 ATAATAATA-TATTATTAAATATTA-ATTA
6210 ATAATAATATA
1 ATAATAATATA
6221 ATAATACCAT
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
25 18 0.32
26 3 0.05
27 3 0.05
28 1 0.02
29 6 0.11
30 24 0.43
31 1 0.02
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (28 bp):
ATAATAATATATTATTAAATATTAATTA
Found at i:6282 original size:10 final size:10
Alignment explanation
Indices: 6249--6291 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
6239 TTAAAAGATA
6249 ATAATTAAAT
1 ATAATTAAAT
* *
6259 ATAGTT-TAT
1 ATAATTAAAT
*
6268 ATAATTAATT
1 ATAATTAAAT
6278 ATAATTAAAT
1 ATAATTAAAT
6288 ATAA
1 ATAA
6292 AACTAATTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
9 7 0.27
10 19 0.73
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (10 bp):
ATAATTAAAT
Found at i:6455 original size:26 final size:25
Alignment explanation
Indices: 6392--6459 Score: 63
Period size: 26 Copynumber: 2.8 Consensus size: 25
6382 AATTAAAAAT
*
6392 ATTATTAAT-TAT-TTAAATATTTTA
1 ATTA-TAATATATATTAAATATTATA
*
6416 ATAATAA-ATAATATTATAATATTATA
1 ATTATAATAT-ATATTA-AATATTATA
6442 ATTATAATATATA-TAAAT
1 ATTATAATATATATTAAAT
6460 TGAATAATAG
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
23 4 0.11
24 8 0.22
25 5 0.14
26 17 0.47
27 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
ATTATAATATATATTAAATATTATA
Found at i:7121 original size:177 final size:178
Alignment explanation
Indices: 6588--7506 Score: 697
Period size: 178 Copynumber: 5.2 Consensus size: 178
6578 TATTAATATA
* * * ** *
6588 AGTTATGACTATTTGAACAATTATCTATCTCAAATCATAATGAT-CTTTATTTT-GTCATACAAC
1 AGTTATGACTATTTAAATAATTATCTATTTCAAATCATTTTGATCCTTT-TTTTAGTCATAAAAC
* * * *
6651 AATTGTTTCCTTTCATACAAGCTTATTCAGAT----TAA-ACTGA--TA-TAATATTTCAAAAAT
65 AATTGTTT-C-ATCATACAAGCTTATTGAAATAAAATAATACTAATTTATTAATATTTCAAAAAT
* * ** *
6708 TAAT----AAGAGATTTAAAAAATAAATATG-TTAGTTGAACTCGATCAAAT
128 TAATAAACAAGAGATTTAAAAAATAAATATGTTTA-CTAAACAAGTTCAAAT
* * *
6755 AGTTAAGACTATTAAAATAATTATCTATTTCAAATCATTCT-ATCCTTTTGTTTAGTCATAAAAC
1 AGTTATGACTATTTAAATAATTATCTATTTCAAATCATTTTGATCCTTTT-TTTAGTCATAAAAC
* * * * *
6819 AATTATTTTAGTTTATACAAGCTTATTTGGAATAAAATAATACTAATTTATTAA-AATTCGAAAA
65 AATTGTTTCA--TCATACAAGCTTA-TTGAAATAAAATAATACTAATTTATTAATATTTC-AAAA
* *
6883 A-TAA-AAGCAAGAGATTTAGAAAAATAAATATGTTTACTAAACAATTTCAAAT
126 ATTAATAAACAAGAGATTTA-AAAAATAAATATGTTTACTAAACAAGTTCAAAT
* * * * * * *
6935 AGATATGACTATTTAAATAATTATTTGTTTAAAATTATTTTGA-CATTTTTTTTGTCATAAAACA
1 AGTTATGACTATTTAAATAATTATCTATTTCAAATCATTTTGATCCTTTTTTTAGTCATAAAACA
* * * *
6999 ATTGTTTCATAATAAAAACTTATCTGAAATAAAATAATACTACTTTATTAATATTTCAAAAATTA
66 ATTGTTTCATCATACAAGCTTAT-TGAAATAAAATAATACTAATTTATTAATATTTCAAAAATTA
* * * * *
7064 TTAAACAAGAGATTTAAAAACTAAAGT-TGTTTTCAAAACAA-TTCTAAT
130 ATAAACAAGAGATTTAAAAAATAAA-TATGTTTACTAAACAAGTTCAAAT
* * * ** * * * *
7112 AGTTATGACTATTTGAACAAATATAAATCTCAAATCGTTATGAT-CTTTGCTTT-GTCATAAAAC
1 AGTTATGACTATTTAAATAATTATCTATTTCAAATCATTTTGATCCTTT-TTTTAGTCATAAAAC
* * * * * * * **
7175 AATTATTTTTTATCATATAAGCTAATTCAGATAAAATAATACTAATTTAATAATATTTTGAAAAT
65 AA-T-TGTTTCATCATACAAGCTTATTGAAATAAAATAATACTAATTTATTAATATTTCAAAAAT
** * * * **
7240 TAATAAGTAAGAGATTTAAAAAATAAATGTGTTTGC-CAATTAGTTCAAAT
128 TAATAAACAAGAGATTTAAAAAATAAATATGTTTACTAAACAAGTTCAAAT
* * * * *
7290 AGTTAAGATTA-TTAGAATAATTTTCTATTTCAAATCATTTTGA-CCTTTTTTTAATCATAAAAT
1 AGTTATGACTATTTA-AATAATTATCTATTTCAAATCATTTTGATCCTTTTTTTAGTCATAAAAC
* * * *
7353 AATTGTTTCTGTTCATACAAGCTTATTCGAAAGAAAATAATACTAATTTATTAACT-TTTGAAAG
65 AATTGTTTC--ATCATACAAGCTTATT-GAAATAAAATAATACTAATTTATTAA-TATTTCAAAA
* * * * * *
7417 ATTAATAAGCAGGATATTTGAAAAACTAAATTTGTTTACTGAACAAGTTCAAAT
126 ATTAATAAACAAGAGATTT-AAAAAATAAATATGTTTACTAAACAAGTTCAAAT
* * *
7471 AGCTATGACTATTTGAATAATTATCTATTTAAAATC
1 AGTTATGACTATTTAAATAATTATCTATTTCAAATC
7507 GTTGTGAATT
Statistics
Matches: 586, Mismatches: 123, Indels: 72
0.75 0.16 0.09
Matches are distributed among these distances:
166 3 0.01
167 41 0.07
168 28 0.05
169 4 0.01
173 3 0.01
174 4 0.01
176 14 0.02
177 110 0.19
178 154 0.26
179 103 0.18
180 78 0.13
181 42 0.07
182 2 0.00
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.39
Consensus pattern (178 bp):
AGTTATGACTATTTAAATAATTATCTATTTCAAATCATTTTGATCCTTTTTTTAGTCATAAAACA
ATTGTTTCATCATACAAGCTTATTGAAATAAAATAATACTAATTTATTAATATTTCAAAAATTAA
TAAACAAGAGATTTAAAAAATAAATATGTTTACTAAACAAGTTCAAAT
Found at i:7311 original size:355 final size:358
Alignment explanation
Indices: 6801--7487 Score: 804
Period size: 355 Copynumber: 1.9 Consensus size: 358
6791 ATTCTATCCT
* **
6801 TTTGTTTAGTCATAAAACAATTATTTTAGTTTATACAAGCTTATTTGGAATAAAATAATACTAAT
1 TTTGTTTAGTCATAAAACAATTATTTTA-TTTATACAAGCTAATTCAGAATAAAATAATACTAAT
* *
6866 TTATTAAAATTCGAAAAATAAAAGCAAGAGATTTAGAAAAATAAATATGTTTACTAAACAATTTC
65 TTAATAAAATTCGAAAAATAAAAGCAAGAGATTTAGAAAAATAAATATGTTTACTAAACAAGTTC
* * * **
6931 AAATAGATATGACTATTTAAATAATTATT-TGTTTAAAATTATTTTGACATTTTTTTTGTCATAA
130 AAATAGATAAGACTATTTAAATAATT-TTCTATTTAAAATCATTTTGACATTTTTTTAATCATAA
* *
6995 AACAATTGTTTC-ATAATAAAAACTTA-TCTGAAATAAAATAATACTACTTTATTAA-TATTTCA
194 AACAATTGTTTCGATAATAAAAACTTATTC-GAAAGAAAATAATACTAATTTATTAACT-TTTCA
* * * *
7057 AAAATTATTAAACAAGAGATTT-AAAAACTAAAGTTGTTTTCAAAACAA-TTCTAATAGTTATGA
257 AAAATTAATAAACAAGAGATTTGAAAAACTAAAGTTGTTTACAAAACAAGTTCAAATAGCTATGA
7120 CTATTTGAACAAATATAAATCTCAAATCGTTATGATC
322 CTATTTGAACAAATATAAATCTCAAATCGTTATGATC
*
7157 TTTGCTTT-GTCATAAAACAATTATTTT-TTATCATATAAGCTAATTCAG-ATAAAATAATACTA
1 TTTG-TTTAGTCATAAAACAATTATTTTATT-T-ATACAAGCTAATTCAGAATAAAATAATACTA
* * * * * * * **
7219 ATTTAATAATATTTTGAAAATTAATAAGTAAGAGATTTA-AAAAATAAATGTGTTTGC-CAATTA
63 ATTTAATAA-AATTCGAAAAATAA-AAGCAAGAGATTTAGAAAAATAAATATGTTTACTAAACAA
* * * *
7282 GTTCAAATAGTTAAGATTA-TTAGAATAATTTTCTATTTCAAATCATTTTGACCTTTTTTTAATC
126 GTTCAAATAGATAAGACTATTTA-AATAATTTTCTATTTAAAATCATTTTGACATTTTTTTAATC
* * * * *
7346 ATAAAATAATTGTTTCTGTTCATACAAGCTTATTCGAAAGAAAATAATACTAATTTATTAACTTT
190 ATAAAACAATTGTTTC-GATAATAAAAACTTATTCGAAAGAAAATAATACTAATTTATTAACTTT
* * * * * * **
7411 TGAAAGATTAATAAGCAGGATATTTGAAAAACTAAATTTGTTTACTGAACAAGTTCAAATAGCTA
254 TCAAAAATTAATAAACAAGAGATTTGAAAAACTAAAGTTGTTTACAAAACAAGTTCAAATAGCTA
7476 TGACTATTTGAA
319 TGACTATTTGAA
7488 TAATTATCTA
Statistics
Matches: 275, Mismatches: 43, Indels: 23
0.81 0.13 0.07
Matches are distributed among these distances:
354 7 0.03
355 88 0.32
356 62 0.23
357 71 0.26
358 25 0.09
359 22 0.08
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.39
Consensus pattern (358 bp):
TTTGTTTAGTCATAAAACAATTATTTTATTTATACAAGCTAATTCAGAATAAAATAATACTAATT
TAATAAAATTCGAAAAATAAAAGCAAGAGATTTAGAAAAATAAATATGTTTACTAAACAAGTTCA
AATAGATAAGACTATTTAAATAATTTTCTATTTAAAATCATTTTGACATTTTTTTAATCATAAAA
CAATTGTTTCGATAATAAAAACTTATTCGAAAGAAAATAATACTAATTTATTAACTTTTCAAAAA
TTAATAAACAAGAGATTTGAAAAACTAAAGTTGTTTACAAAACAAGTTCAAATAGCTATGACTAT
TTGAACAAATATAAATCTCAAATCGTTATGATC
Found at i:7891 original size:21 final size:22
Alignment explanation
Indices: 7857--7903 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
7847 TATTTAATTT
7857 TATTATATATAATTCTTTAAAG
1 TATTATATATAATTCTTTAAAG
* *
7879 TATTA-ATTTAATTCTTTAAAT
1 TATTATATATAATTCTTTAAAG
7900 TATT
1 TATT
7904 TTAAAATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.55
Consensus pattern (22 bp):
TATTATATATAATTCTTTAAAG
Found at i:7921 original size:20 final size:18
Alignment explanation
Indices: 7896--7939 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 18
7886 TTAATTCTTT
7896 AAATTATTTTAAAATAATTA
1 AAATTA-TTT-AAATAATTA
*
7916 AAATTATTTATATAATTA
1 AAATTATTTAAATAATTA
7934 AAATTA
1 AAATTA
7940 ATCAAAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 14 0.61
19 3 0.13
20 6 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AAATTATTTAAATAATTA
Found at i:8472 original size:21 final size:20
Alignment explanation
Indices: 8442--8495 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 20
8432 TTATTATTTA
8442 ATAA-AGATTAAAATATTAATT
1 ATAATAGATTAAAATA--AATT
*
8463 ATAAT-TATT-AAATAAATT
1 ATAATAGATTAAAATAAATT
8481 ATAATAGATTAAAAT
1 ATAATAGATTAAAAT
8496 TAGTATTATG
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
18 9 0.32
19 3 0.11
20 9 0.32
21 7 0.25
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (20 bp):
ATAATAGATTAAAATAAATT
Found at i:8627 original size:14 final size:14
Alignment explanation
Indices: 8608--8637 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
8598 AATAATTAAG
*
8608 ATAATAATATATTT
1 ATAATAATATAATT
8622 ATAATAATATAATT
1 ATAATAATATAATT
8636 AT
1 AT
8638 TTAGTTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATAATATAATT
Found at i:8630 original size:29 final size:31
Alignment explanation
Indices: 8564--8630 Score: 72
Period size: 29 Copynumber: 2.3 Consensus size: 31
8554 ATAAATTTAA
* *
8564 ATAATTATAATTAAATACTAATTAATACTTT
1 ATAATAATAATTAAATAATAATTAATACTTT
8595 AT--TAATAATTAAGATAATAA-T-ATA-TTT
1 ATAATAATAATTAA-ATAATAATTAATACTTT
8622 ATAATAATA
1 ATAATAATA
8631 TAATTATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
27 5 0.16
28 3 0.10
29 15 0.48
30 6 0.19
31 2 0.06
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.43
Consensus pattern (31 bp):
ATAATAATAATTAAATAATAATTAATACTTT
Found at i:8697 original size:23 final size:23
Alignment explanation
Indices: 8626--8705 Score: 72
Period size: 23 Copynumber: 3.4 Consensus size: 23
8616 ATATTTATAA
*
8626 TAATATAATTATTTAGTTTTATATT
1 TAAT-TAATTATTTATTTTTA-ATT
* * *
8651 TAATTAATTAATGATTATCT-ATT
1 TAATTAATTATTTATT-TTTAATT
*
8674 TACTTAATTATTTATTTTTAATT
1 TAATTAATTATTTATTTTTAATT
*
8697 TAAATAATT
1 TAATTAATT
8706 GCAATAGTTT
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
22 2 0.05
23 26 0.60
24 9 0.21
25 6 0.14
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (23 bp):
TAATTAATTATTTATTTTTAATT
Found at i:9056 original size:18 final size:19
Alignment explanation
Indices: 9019--9056 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
9009 TAATTAATCT
*
9019 TTTATATATACTATATATTA
1 TTTATATATAC-ATAAATTA
9039 TTTATATATA-ATAAATTA
1 TTTATATATACATAAATTA
9057 AATATATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTATATATACATAAATTA
Found at i:9552 original size:21 final size:21
Alignment explanation
Indices: 9526--9571 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
9516 ACTATTAATA
**
9526 ATTATTATTAATATTTATATT
1 ATTATTACAAATATTTATATT
* *
9547 ATTATTACAAATATTTTTGTT
1 ATTATTACAAATATTTATATT
9568 ATTA
1 ATTA
9572 ATAATATTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (21 bp):
ATTATTACAAATATTTATATT
Found at i:9591 original size:22 final size:21
Alignment explanation
Indices: 9559--9601 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
9549 TATTACAAAT
*
9559 ATTTTTGTTATTAATAATATTA
1 ATTTTTCTTATTAATAA-ATTA
9581 ATTTTTCTTATTAATAAATTA
1 ATTTTTCTTATTAATAAATTA
9602 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (21 bp):
ATTTTTCTTATTAATAAATTA
Found at i:10345 original size:18 final size:19
Alignment explanation
Indices: 10311--10346 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
10301 TAATAGTCAT
10311 ATATTAGTTAATATTTATA
1 ATATTAGTTAATATTTATA
*
10330 ATATTA-TTACTATTTAT
1 ATATTAGTTAATATTTAT
10347 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:10603 original size:15 final size:14
Alignment explanation
Indices: 10579--10639 Score: 50
Period size: 15 Copynumber: 3.9 Consensus size: 14
10569 AAATAACTAA
10579 ATAATAATTAAGTAT
1 ATAATAATTAA-TAT
*
10594 ATAATTATTAATAT
1 ATAATAATTAATAT
*
10608 ACTGAATAATATATTTAT
1 A-T-AATAAT-TA-ATAT
10626 AATAATAATTAATA
1 -ATAATAATTAATA
10640 ATTATTATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
14 4 0.11
15 13 0.35
16 7 0.19
17 8 0.22
18 4 0.11
19 1 0.03
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (14 bp):
ATAATAATTAATAT
Found at i:10620 original size:24 final size:25
Alignment explanation
Indices: 10578--10658 Score: 73
Period size: 24 Copynumber: 3.4 Consensus size: 25
10568 TAAATAACTA
*
10578 AATAATAATTAAGT-ATATAATTATT
1 AATAATAATGAA-TAATATAATTATT
* *
10603 AAT-ATACTGAATAATATATTTA-T
1 AATAATAATGAATAATATAATTATT
*
10626 AATAATAATTAATAAT-T-ATTATT
1 AATAATAATGAATAATATAATTATT
10649 AATTAATAAT
1 AA-TAATAAT
10659 TTAATTACTT
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
22 3 0.07
23 9 0.20
24 31 0.67
25 3 0.07
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.44
Consensus pattern (25 bp):
AATAATAATGAATAATATAATTATT
Found at i:10649 original size:13 final size:13
Alignment explanation
Indices: 10612--10659 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
10602 TAATATACTG
*
10612 AATAATATATTTAT
1 AATAAT-TATTAAT
*
10626 AATAATAATTAAT
1 AATAATTATTAAT
*
10639 AATTATTATTAATT
1 AATAATTATTAA-T
10653 AATAATT
1 AATAATT
10660 TAATTACTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
13 15 0.54
14 13 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AATAATTATTAAT
Found at i:11364 original size:18 final size:17
Alignment explanation
Indices: 11325--11364 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
11315 TTAATTTTAC
*
11325 AAATAATTAATATTATT
1 AAATAATTAATAGTATT
11342 AAATAATTATATAGTATT
1 AAATAATTA-ATAGTATT
*
11360 TAATA
1 AAATA
11365 CTATAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (17 bp):
AAATAATTAATAGTATT
Found at i:12335 original size:181 final size:181
Alignment explanation
Indices: 11813--12395 Score: 607
Period size: 181 Copynumber: 3.2 Consensus size: 181
11803 GTCTCTTTCA
* * * * * *
11813 TATTAATTTTCCAAATGTTAATAAATTAGTATTAATTTATTCTAACTAAGCTTGTATGAACTGAA
1 TATTAATTTTCAAAATATTATTAAATTAGTATTATTTTATTCTAAATAAGCTTGTATGAACAGAA
* * * * * * * *
11878 ATAATTGTTTTATGACT-AAACAAAAGATCAAAATGATATGAAATAGATAATTATTCTAATAATT
66 ACAATTGTTTTATGA-TAAAATAAAAGGTCATAATGATTTGAAATAGATAATTATTCAAATAGTC
* * * * * * *
11942 TTAACAATTTGAACTGATTTAGTAAACAAATTTATTTTTTAAATCTCTTATT
130 TTAACTATTTGAAATGGTTTGGTAAATAGATTTATTTTTTAAATCTCTTAGT
* * *
11994 TATTAATTTTCAAAATATTATTAAATTAGTATTCTTTTAATCCAAATAAGCTTGTATGAACA-AA
1 TATTAATTTTCAAAATATTATTAAATTAGTATTATTTTATTCTAAATAAGCTTGTATGAACAGAA
* * * * *
12058 ACAATTGTTTTATGTTAAAATAAAAGGTCATAACGATTTGAAATAGATAATCATTTAAAGAGTCT
66 ACAATTGTTTTATGATAAAATAAAAGGTCATAATGATTTGAAATAGATAATTATTCAAATAGTCT
* * * * * * *
12123 TAACTATTTGAATTGGTTCGATAATTAGATTTATTTTTTAATTTTCTTGGT
131 TAACTATTTGAAATGGTTTGGTAAATAGATTTATTTTTTAAATCTCTTAGT
* ** *
12174 TATTAAGTTTT-GAAATATTATTAAATTAGTATTATTTTATTCTAAATAAAATAGTATGAACAGA
1 TATTAA-TTTTCAAAATATTATTAAATTAGTATTATTTTATTCTAAATAAGCTTGTATGAACAGA
* * * * *
12238 ACCAATTGTTTGATGATAAAATAAAAGGTTATAATGATTTGAAATAAATAATTATTGAAATAGTC
65 AACAATTGTTTTATGATAAAATAAAAGGTCATAATGATTTGAAATAGATAATTATTCAAATAGTC
** * **
12303 AAAACTATTTGAAATGGTTTGGTAAGTAGATTT-TCTTTTTAAATCTCTTACA
130 TTAACTATTTGAAATGGTTTGGTAAATAGATTTAT-TTTTTAAATCTCTTAGT
* * * * * *
12355 AATTTATTTTCTAAATATTAATAAAATAATATTATTTTATT
1 TATTAATTTTCAAAATATTATTAAATTAGTATTATTTTATT
12396 TCAAACAAAG
Statistics
Matches: 329, Mismatches: 68, Indels: 10
0.81 0.17 0.02
Matches are distributed among these distances:
179 1 0.00
180 145 0.44
181 183 0.56
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (181 bp):
TATTAATTTTCAAAATATTATTAAATTAGTATTATTTTATTCTAAATAAGCTTGTATGAACAGAA
ACAATTGTTTTATGATAAAATAAAAGGTCATAATGATTTGAAATAGATAATTATTCAAATAGTCT
TAACTATTTGAAATGGTTTGGTAAATAGATTTATTTTTTAAATCTCTTAGT
Found at i:12459 original size:17 final size:17
Alignment explanation
Indices: 12439--12476 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
12429 TGTATAAAAT
12439 TATAAA-TAATTTATAAA
1 TATAAATTAA-TTATAAA
*
12456 TATAAATTAATTATAAT
1 TATAAATTAATTATAAA
12473 TATA
1 TATA
12477 TTAATAATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TATAAATTAATTATAAA
Found at i:12500 original size:17 final size:14
Alignment explanation
Indices: 12463--12514 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
12453 AAATATAAAT
* *
12463 TAATTATAATTATA
1 TAATAATAAATATA
12477 TTAATAATTCAAATAATA
1 -TAATAA-T-AAAT-ATA
12495 TAATAATAAATATA
1 TAATAATAAATATA
12509 TAATAA
1 TAATAA
12515 GCAAGGAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
14 9 0.28
15 9 0.28
16 2 0.06
17 9 0.28
18 3 0.09
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (14 bp):
TAATAATAAATATA
Found at i:12781 original size:23 final size:26
Alignment explanation
Indices: 12727--12781 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 26
12717 GAAAAAGTAT
*
12727 CTATTTCAAATCTATTATTAATTATTA
1 CTATTTCAAATC-ATTATTAATTAATA
*
12754 ATATTTCAAA-C-TTA-TAATTAATA
1 CTATTTCAAATCATTATTAATTAATA
12777 CTATT
1 CTATT
12782 AAATAGTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
23 12 0.48
24 3 0.12
26 1 0.04
27 9 0.36
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (26 bp):
CTATTTCAAATCATTATTAATTAATA
Found at i:13153 original size:20 final size:20
Alignment explanation
Indices: 13120--13157 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
13110 ATACTTTAAA
*
13120 AATAAGTATATAATAATTCC
1 AATAAATATATAATAATTCC
*
13140 AATAAATATTTAATAATT
1 AATAAATATATAATAATT
13158 TATTACTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (20 bp):
AATAAATATATAATAATTCC
Found at i:13183 original size:18 final size:20
Alignment explanation
Indices: 13145--13190 Score: 69
Period size: 18 Copynumber: 2.4 Consensus size: 20
13135 ATTCCAATAA
*
13145 ATATTTAATAATTTATTACT
1 ATATTTAATAATATATTACT
13165 ATATTTAAT-ATAT-TTACT
1 ATATTTAATAATATATTACT
13183 ATATTTAA
1 ATATTTAA
13191 ATTAAATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 13 0.52
19 3 0.12
20 9 0.36
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.54
Consensus pattern (20 bp):
ATATTTAATAATATATTACT
Found at i:13742 original size:27 final size:26
Alignment explanation
Indices: 13687--13739 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
13677 ATGTTATTAT
* *
13687 ATAATTTATTAATTATTAATTAATAA
1 ATAATTTATTAAATATTAATAAATAA
13713 ATAATTTTATTAAATATT-ATAAATAA
1 ATAA-TTTATTAAATATTAATAAATAA
13739 A
1 A
13740 ATAGTAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 12 0.50
27 12 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (26 bp):
ATAATTTATTAAATATTAATAAATAA
Found at i:13763 original size:12 final size:12
Alignment explanation
Indices: 13746--13775 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
13736 TAAAATAGTA
13746 ATAATATATATT
1 ATAATATATATT
13758 ATAATATATATT
1 ATAATATATATT
13770 A-AATAT
1 ATAATAT
13776 TGTTAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.28
12 13 0.72
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
ATAATATATATT
Found at i:13958 original size:30 final size:29
Alignment explanation
Indices: 13924--13980 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
13914 CTATTATTAA
*
13924 ATTATAATAATATCATTATTTATAATTAGT
1 ATTATAATAATA-CATTAATTATAATTAGT
* *
13954 ATTATAGTAATACTTTAATTATAATTA
1 ATTATAATAATACATTAATTATAATTA
13981 TAGTTAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 13 0.54
30 11 0.46
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.49
Consensus pattern (29 bp):
ATTATAATAATACATTAATTATAATTAGT
Found at i:13999 original size:21 final size:22
Alignment explanation
Indices: 13973--14023 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
13963 ATACTTTAAT
13973 TATAATTAT-AGTTA-AATATAA
1 TATAATTATAAGTTATAATA-AA
*
13994 TATAATAATAAGTTATAATAAA
1 TATAATTATAAGTTATAATAAA
14016 T-TAATTAT
1 TATAATTAT
14024 TTGAACATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 14 0.54
22 8 0.31
23 4 0.15
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (22 bp):
TATAATTATAAGTTATAATAAA
Found at i:14573 original size:19 final size:19
Alignment explanation
Indices: 14551--14587 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
14541 ATAAAATACG
14551 AACAAAAAATAAAAAATAT
1 AACAAAAAATAAAAAATAT
* *
14570 AACAAATAATAAGAAATA
1 AACAAAAAATAAAAAATA
14588 AAGGTATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.76, C:0.05, G:0.03, T:0.16
Consensus pattern (19 bp):
AACAAAAAATAAAAAATAT
Found at i:14786 original size:24 final size:26
Alignment explanation
Indices: 14727--14787 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 26
14717 AGTAAAAAAT
*
14727 AAAAATAAAAACAAAACATGGAAGTGC
1 AAAAATAAAAACAAAACATGGAAG-AC
14754 AAAAA-AAAAA-AAAA-ATGGAA-AC
1 AAAAATAAAAACAAAACATGGAAGAC
14776 AAGAAATAAAAA
1 AA-AAATAAAAA
14788 GAAATTTGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
22 3 0.10
23 3 0.10
24 11 0.35
25 4 0.13
26 5 0.16
27 5 0.16
ACGTcount: A:0.74, C:0.07, G:0.11, T:0.08
Consensus pattern (26 bp):
AAAAATAAAAACAAAACATGGAAGAC
Found at i:14898 original size:19 final size:18
Alignment explanation
Indices: 14860--14899 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
14850 AGAAAATTTT
* *
14860 AAAACAAAGAAAAAAGTG
1 AAAACAAAAAAAAAAATG
14878 AAAACAAAAAAAAAATATG
1 AAAACAAAAAAAAAA-ATG
14897 AAA
1 AAA
14900 GGACATGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.78, C:0.05, G:0.10, T:0.07
Consensus pattern (18 bp):
AAAACAAAAAAAAAAATG
Found at i:15565 original size:13 final size:13
Alignment explanation
Indices: 15547--15591 Score: 51
Period size: 12 Copynumber: 3.7 Consensus size: 13
15537 GGAAAATTAT
15547 AAAATAGAACAAA
1 AAAATAGAACAAA
*
15560 AAAATAGCA-AAA
1 AAAATAGAACAAA
15572 AAAAT-G-ACAAA
1 AAAATAGAACAAA
*
15583 AAAAAAGAA
1 AAAATAGAA
15592 AATAAAAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
10 1 0.04
11 8 0.30
12 9 0.33
13 9 0.33
ACGTcount: A:0.78, C:0.07, G:0.09, T:0.07
Consensus pattern (13 bp):
AAAATAGAACAAA
Found at i:15598 original size:23 final size:26
Alignment explanation
Indices: 15545--15598 Score: 71
Period size: 23 Copynumber: 2.2 Consensus size: 26
15535 TTGGAAAATT
*
15545 ATAAAATAGAACAAAAAAATAGCAAA
1 ATAAAATAGAACAAAAAAAAAGCAAA
15571 A-AAAAT-G-ACAAAAAAAAAG-AAA
1 ATAAAATAGAACAAAAAAAAAGCAAA
15593 ATAAAA
1 ATAAAA
15599 AAGATTCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 4 0.15
23 15 0.58
24 1 0.04
25 5 0.19
26 1 0.04
ACGTcount: A:0.78, C:0.06, G:0.07, T:0.09
Consensus pattern (26 bp):
ATAAAATAGAACAAAAAAAAAGCAAA
Found at i:15782 original size:40 final size:41
Alignment explanation
Indices: 15696--15783 Score: 96
Period size: 40 Copynumber: 2.2 Consensus size: 41
15686 AAAAAATGAA
15696 ATAAAAT-TAAACAAAACAAAAAATAAAAAATTAGCAAATG
1 ATAAAATATAAACAAAACAAAAAATAAAAAATTAGCAAATG
* *
15736 AAAAAATAT-AACAAAGACAAAATGAAT-AAAAATT-TCAAAT-
1 ATAAAATATAAACAAA-ACAAAA--AATAAAAAATTAGCAAATG
15776 ATAAAATA
1 ATAAAATA
15784 GAAAAAACTT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
40 19 0.46
41 12 0.29
42 7 0.17
43 3 0.07
ACGTcount: A:0.69, C:0.07, G:0.05, T:0.19
Consensus pattern (41 bp):
ATAAAATATAAACAAAACAAAAAATAAAAAATTAGCAAATG
Found at i:16459 original size:31 final size:31
Alignment explanation
Indices: 16420--16508 Score: 85
Period size: 31 Copynumber: 2.8 Consensus size: 31
16410 TTATGAAAAT
16420 ATAAATAAAGAAAGAAATAAAAAAAACAAACC
1 ATAAATAAA-AAAGAAATAAAAAAAACAAACC
* *
16452 A-AAATAAAATAAGAAA-AAAAATAAATAAAGC
1 ATAAATAAAA-AAGAAATAAAAA-AAACAAACC
*
16483 ATAAA-AAAATAAAAAATAAACAAAAA
1 ATAAATAAAA-AAGAAATAAA-AAAAA
16509 TACAATAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
30 6 0.12
31 31 0.63
32 10 0.20
33 2 0.04
ACGTcount: A:0.79, C:0.06, G:0.04, T:0.11
Consensus pattern (31 bp):
ATAAATAAAAAAGAAATAAAAAAAACAAACC
Found at i:16472 original size:17 final size:17
Alignment explanation
Indices: 16452--16516 Score: 62
Period size: 17 Copynumber: 3.7 Consensus size: 17
16442 AAAACAAACC
16452 AAAATAAAATAAGAAAA
1 AAAATAAAATAAGAAAA
16469 AAAAT-AAATAAAGCATAAA
1 AAAATAAAAT-AAG-A-AAA
*
16488 AAAATAAAA-AATAAACA
1 AAAATAAAATAAGAAA-A
*
16505 AAAATACAATAA
1 AAAATAAAATAA
16517 AATTTTCGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
16 6 0.15
17 18 0.45
18 5 0.12
19 8 0.20
20 3 0.08
ACGTcount: A:0.78, C:0.05, G:0.03, T:0.14
Consensus pattern (17 bp):
AAAATAAAATAAGAAAA
Found at i:16499 original size:22 final size:21
Alignment explanation
Indices: 16452--16518 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 21
16442 AAAACAAACC
16452 AAAATAAA-ATAAGAAAAA-AA
1 AAAATAAACATAA-AAAAATAA
16472 ATAAATAAAGCATAAAAAAATAA
1 A-AAATAAA-CATAAAAAAATAA
16495 AAAATAAACA-AAAATACAATAA
1 AAAATAAACATAAAA-A-AATAA
16517 AA
1 AA
16519 TTTTCGAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
20 5 0.12
21 10 0.24
22 19 0.46
23 7 0.17
ACGTcount: A:0.79, C:0.04, G:0.03, T:0.13
Consensus pattern (21 bp):
AAAATAAACATAAAAAAATAA
Found at i:16509 original size:53 final size:52
Alignment explanation
Indices: 16415--16516 Score: 127
Period size: 53 Copynumber: 1.9 Consensus size: 52
16405 AAAATTTATG
* *
16415 AAAATATAAATAAAGAAAGAAATAAAAAAAACAAACCAAAATAAAATAAGAA
1 AAAAAATAAATAAAGAAAGAAATAAAAAAAACAAACAAAAATAAAATAAGAA
* *
16467 AAAAAATAAATAAAGCATAA-AAA-AATAAAAAATAAACAAAAATACAATAA
1 AAAAAATAAATAAAG-A-AAGAAATAA-AAAAAACAAACAAAAATAAAATAA
16517 AATTTTCGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
52 16 0.37
53 25 0.58
54 2 0.05
ACGTcount: A:0.77, C:0.06, G:0.04, T:0.13
Consensus pattern (52 bp):
AAAAAATAAATAAAGAAAGAAATAAAAAAAACAAACAAAAATAAAATAAGAA
Found at i:16518 original size:27 final size:26
Alignment explanation
Indices: 16440--16519 Score: 74
Period size: 27 Copynumber: 3.0 Consensus size: 26
16430 AAAGAAATAA
* *
16440 AAAAAACAAACCAAAATAAAATAAGAA-
1 AAAAAATAAACAAAAAT-AAATAA-AAT
* *
16467 AAAAAATAAATAAAGCATAAA-AAAAT
1 AAAAAATAAACAAA-AATAAATAAAAT
16493 AAAAAATAAACAAAAATACAATAAAAT
1 AAAAAATAAACAAAAATA-AATAAAAT
16520 TTTCGAAAAC
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
25 5 0.12
26 17 0.40
27 19 0.44
28 2 0.05
ACGTcount: A:0.78, C:0.07, G:0.03, T:0.12
Consensus pattern (26 bp):
AAAAAATAAACAAAAATAAATAAAAT
Found at i:16908 original size:12 final size:12
Alignment explanation
Indices: 16870--16912 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
16860 GAAAAATTAT
16870 AAAATAGAACAAA
1 AAAAT-GAACAAA
* *
16883 AAAAAGCAAAAAA
1 AAAATG-AACAAA
16896 AAAATGAACAAA
1 AAAATGAACAAA
16908 AAAAT
1 AAAAT
16913 AAATAAATGA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
12 11 0.44
13 14 0.56
ACGTcount: A:0.79, C:0.07, G:0.07, T:0.07
Consensus pattern (12 bp):
AAAATGAACAAA
Found at i:16908 original size:13 final size:13
Alignment explanation
Indices: 16870--16911 Score: 52
Period size: 12 Copynumber: 3.2 Consensus size: 13
16860 GAAAAATTAT
16870 AAAATAGAACAAAA
1 AAAAT-GAACAAAA
16884 AAAA-GCAA-AAAA
1 AAAATG-AACAAAA
16896 AAAATGAACAAAA
1 AAAATGAACAAAA
16909 AAA
1 AAA
16912 TAAATAAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
12 11 0.44
13 10 0.40
14 4 0.16
ACGTcount: A:0.81, C:0.07, G:0.07, T:0.05
Consensus pattern (13 bp):
AAAATGAACAAAA
Found at i:16925 original size:16 final size:16
Alignment explanation
Indices: 16906--16936 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16896 AAAATGAACA
*
16906 AAAAAATAAATAAATG
1 AAAAAATAAAAAAATG
16922 AAAAAATAAAAAAAT
1 AAAAAATAAAAAAAT
16937 TAAACTTTAT
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:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (16 bp):
AAAAAATAAAAAAATG
Found at i:16936 original size:20 final size:20
Alignment explanation
Indices: 16890--16936 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
16880 AAAAAAAAGC
16890 AAAAAAA-AAATGAACAAAA
1 AAAAAAATAAATGAACAAAA
*
16909 AAATAAATAAATGAA-AAAA
1 AAAAAAATAAATGAACAAAA
16928 TAAAAAAAT
1 -AAAAAAAT
16937 TAAACTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.81, C:0.02, G:0.04, T:0.13
Consensus pattern (20 bp):
AAAAAAATAAATGAACAAAA
Found at i:17799 original size:35 final size:34
Alignment explanation
Indices: 17740--17832 Score: 81
Period size: 35 Copynumber: 2.8 Consensus size: 34
17730 TTAGTTTATA
* *
17740 AAATAC-AAACAAAAAAT--AAA-AAAAATAAG-
1 AAATACAAAATAAAAAATAAAAACAAAAAAAAGT
*
17769 AAATA-AAGATATAAAAAATTAAAAGCAAAAAAAAGT
1 AAATACAA-A-ATAAAAAA-TAAAAACAAAAAAAAGT
*
17805 TAATACAAAATAAAAAATAAAAACAAAA
1 AAATACAAAATAAAAAATAAAAACAAAA
17833 GGAGGAAGTG
Statistics
Matches: 50, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
29 6 0.12
30 1 0.02
31 7 0.14
32 1 0.02
34 12 0.24
35 16 0.32
36 5 0.10
37 2 0.04
ACGTcount: A:0.76, C:0.05, G:0.04, T:0.14
Consensus pattern (34 bp):
AAATACAAAATAAAAAATAAAAACAAAAAAAAGT
Found at i:18110 original size:15 final size:14
Alignment explanation
Indices: 18088--18134 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
18078 CTGTAACACA
18088 AAAAAAAAAGAATG
1 AAAAAAAAAGAATG
*
18102 AAAATAAAAA-AAAG
1 AAAA-AAAAAGAATG
* *
18116 AAAAATAATGAATG
1 AAAAAAAAAGAATG
18130 AAAAA
1 AAAAA
18135 TTAAGAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
13 3 0.11
14 19 0.70
15 5 0.19
ACGTcount: A:0.79, C:0.00, G:0.11, T:0.11
Consensus pattern (14 bp):
AAAAAAAAAGAATG
Found at i:18966 original size:19 final size:19
Alignment explanation
Indices: 18944--18980 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
18934 ATAAAATACG
18944 AACAAAAAATAAAAAATAT
1 AACAAAAAATAAAAAATAT
* *
18963 AACAAATAATAAGAAATA
1 AACAAAAAATAAAAAATA
18981 AAGGTATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.76, C:0.05, G:0.03, T:0.16
Consensus pattern (19 bp):
AACAAAAAATAAAAAATAT
Found at i:19550 original size:34 final size:33
Alignment explanation
Indices: 19472--19552 Score: 83
Period size: 34 Copynumber: 2.4 Consensus size: 33
19462 GAAAGAAATA
*
19472 AAAAATAAACAAAAAAATAAGAACAAAAATTAAG
1 AAAAATAAA-AAAAAAATAAGAACAAAAATCAAG
* * * *
19506 CAAAAGAAAAAAATAAATAAGCAC-AAAATACAAT
1 AAAAATAAAAAAA-AAATAAGAACAAAAAT-CAAG
19540 AAAAATAAAAAAA
1 AAAAATAAAAAAA
19553 GTAAGAAATA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
33 9 0.24
34 29 0.76
ACGTcount: A:0.77, C:0.07, G:0.05, T:0.11
Consensus pattern (33 bp):
AAAAATAAAAAAAAAATAAGAACAAAAATCAAG
Found at i:19974 original size:13 final size:13
Alignment explanation
Indices: 19956--20000 Score: 51
Period size: 12 Copynumber: 3.7 Consensus size: 13
19946 GGAAAATTAT
19956 AAAATAGAACAAA
1 AAAATAGAACAAA
*
19969 AAAATAGCA-AAA
1 AAAATAGAACAAA
19981 AAAAT-G-ACAAA
1 AAAATAGAACAAA
*
19992 AAAAAAGAA
1 AAAATAGAA
20001 AATAAAAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
10 1 0.04
11 8 0.30
12 9 0.33
13 9 0.33
ACGTcount: A:0.78, C:0.07, G:0.09, T:0.07
Consensus pattern (13 bp):
AAAATAGAACAAA
Found at i:20007 original size:23 final size:26
Alignment explanation
Indices: 19954--20007 Score: 71
Period size: 23 Copynumber: 2.2 Consensus size: 26
19944 TTGGAAAATT
*
19954 ATAAAATAGAACAAAAAAATAGCAAA
1 ATAAAATAGAACAAAAAAAAAGCAAA
19980 A-AAAAT-G-ACAAAAAAAAAG-AAA
1 ATAAAATAGAACAAAAAAAAAGCAAA
20002 ATAAAA
1 ATAAAA
20008 AAGATTCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 4 0.15
23 15 0.58
24 1 0.04
25 5 0.19
26 1 0.04
ACGTcount: A:0.78, C:0.06, G:0.07, T:0.09
Consensus pattern (26 bp):
ATAAAATAGAACAAAAAAAAAGCAAA
Found at i:20112 original size:28 final size:28
Alignment explanation
Indices: 20057--20133 Score: 88
Period size: 28 Copynumber: 2.8 Consensus size: 28
20047 TTTTAAAAAT
*
20057 ATATAAAAAATAAATGAAAAAAATATTA
1 ATATAAAAAAAAAATGAAAAAAATATTA
*
20085 ATATAAAAGAAAAAATGAAATAAA-ATTA
1 ATATAAAA-AAAAAATGAAAAAAATATTA
*
20113 A-ACAAAACAAAAAAT-AAAAAA
1 ATATAAAA-AAAAAATGAAAAAA
20134 TTAGCAAATG
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
26 5 0.12
27 12 0.28
28 13 0.30
29 13 0.30
ACGTcount: A:0.75, C:0.03, G:0.04, T:0.18
Consensus pattern (28 bp):
ATATAAAAAAAAAATGAAAAAAATATTA
Found at i:20190 original size:40 final size:41
Alignment explanation
Indices: 20104--20191 Score: 96
Period size: 40 Copynumber: 2.2 Consensus size: 41
20094 AAAAAATGAA
20104 ATAAAAT-TAAACAAAACAAAAAATAAAAAATTAGCAAATG
1 ATAAAATATAAACAAAACAAAAAATAAAAAATTAGCAAATG
* *
20144 AAAAAATAT-AACAAAGACAAAATGAAT-AAAAATT-TCAAAT-
1 ATAAAATATAAACAAA-ACAAAA--AATAAAAAATTAGCAAATG
20184 ATAAAATA
1 ATAAAATA
20192 GAAAAAACTT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
40 19 0.46
41 12 0.29
42 7 0.17
43 3 0.07
ACGTcount: A:0.69, C:0.07, G:0.05, T:0.19
Consensus pattern (41 bp):
ATAAAATATAAACAAAACAAAAAATAAAAAATTAGCAAATG
Found at i:20841 original size:16 final size:15
Alignment explanation
Indices: 20817--20897 Score: 56
Period size: 16 Copynumber: 4.9 Consensus size: 15
20807 AAAATTTATG
*
20817 AAAATATAAATAAAGA
1 AAAAAATAAA-AAAGA
*
20833 AAGAAATAAAAAA-A
1 AAAAAATAAAAAAGA
20847 AACCAAAATAAAATAAGAA
1 AA--AAAATAAAA-AAG-A
20866 AAAAAATAAATAAAGCATA
1 AAAAAATAAA-AAAG---A
20885 AAAAAATAAAAAA
1 AAAAAATAAAAAA
20898 TAAACAAAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
14 3 0.06
15 3 0.06
16 16 0.30
17 13 0.25
18 4 0.08
19 14 0.26
ACGTcount: A:0.79, C:0.04, G:0.05, T:0.12
Consensus pattern (15 bp):
AAAAAATAAAAAAGA
Found at i:20848 original size:28 final size:26
Alignment explanation
Indices: 20817--20915 Score: 67
Period size: 28 Copynumber: 3.7 Consensus size: 26
20807 AAAATTTATG
20817 AAAATATAAATAAAGA-AAGAAATAAAAA
1 AAAATA-AAATAAA-ATAAGAAA-AAAAA
*
20845 AAAACCAAAATAAAATAAGAAAAAAAA
1 AAAA-TAAAATAAAATAAGAAAAAAAA
* * * *
20872 TAAATAAAGCATAAAAAAATAAAAAATA
1 AAAATAAA--ATAAAATAAGAAAAAAAA
* *
20900 AACA-AAAATACAATAA
1 AAAATAAAATAAAATAA
20916 AATTTTCAAA
Statistics
Matches: 57, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
25 7 0.12
26 3 0.05
27 12 0.21
28 34 0.60
29 1 0.02
ACGTcount: A:0.78, C:0.05, G:0.04, T:0.13
Consensus pattern (26 bp):
AAAATAAAATAAAATAAGAAAAAAAA
Found at i:20875 original size:49 final size:51
Alignment explanation
Indices: 20817--20915 Score: 130
Period size: 53 Copynumber: 1.9 Consensus size: 51
20807 AAAATTTATG
* * *
20817 AAAATATAAATAAAG-AAAGAAATAAAAAA-AAACCAAAATAAAATAAGAA
1 AAAAAATAAATAAAGAAAAAAAATAAAAAATAAACAAAAATAAAATAAGAA
*
20866 AAAAAATAAATAAAGCATAAAAAAATAAAAAATAAACAAAAATACAATAA
1 AAAAAATAAATAAAG-A-AAAAAAATAAAAAATAAACAAAAATAAAATAA
20916 AATTTTCAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
49 14 0.33
52 13 0.31
53 15 0.36
ACGTcount: A:0.78, C:0.05, G:0.04, T:0.13
Consensus pattern (51 bp):
AAAAAATAAATAAAGAAAAAAAATAAAAAATAAACAAAAATAAAATAAGAA
Found at i:20876 original size:21 final size:19
Alignment explanation
Indices: 20836--20901 Score: 69
Period size: 22 Copynumber: 3.1 Consensus size: 19
20826 ATAAAGAAAG
20836 AAATAAAAAAAAACCAAAATA
1 AAATAAAAAAAAA--AAAATA
20857 AAATAAGAAAAAAAATAAATA
1 AAATAA-AAAAAAAA-AAATA
20878 AAGCATAAAAAAATAAAAAATA
1 AA--ATAAAAAAA-AAAAAATA
20900 AA
1 AA
20902 CAAAAATACA
Statistics
Matches: 40, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
20 1 0.03
21 13 0.32
22 19 0.47
23 7 0.17
ACGTcount: A:0.80, C:0.05, G:0.03, T:0.12
Consensus pattern (19 bp):
AAATAAAAAAAAAAAAATA
Found at i:20914 original size:22 final size:22
Alignment explanation
Indices: 20838--20917 Score: 64
Period size: 22 Copynumber: 3.6 Consensus size: 22
20828 AAAGAAAGAA
20838 ATAAAAAAA-AACCAAAATAAA--
1 ATAAAAAAATAA--AAAATAAAGC
20859 ATAAGAAAAA-AAATAAATAAAGC
1 ATAA-AAAAATAAA-AAATAAAGC
20882 ATAAAAAAATAAAAAATAAA-C
1 ATAAAAAAATAAAAAATAAAGC
20903 A-AAAATACAATAAAA
1 ATAAAA-A-AATAAAA
20918 TTTTCAAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 13
0.80 0.00 0.20
Matches are distributed among these distances:
20 5 0.10
21 14 0.27
22 26 0.50
23 7 0.13
ACGTcount: A:0.79, C:0.06, G:0.03, T:0.12
Consensus pattern (22 bp):
ATAAAAAAATAAAAAATAAAGC
Found at i:21323 original size:16 final size:16
Alignment explanation
Indices: 21302--21332 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21292 AAAAATGACA
*
21302 AAAAAATAAATAAATG
1 AAAAAATAAAAAAATG
21318 AAAAAATAAAAAAAT
1 AAAAAATAAAAAAAT
21333 TAAACTTTAT
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:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (16 bp):
AAAAAATAAAAAAATG
Found at i:21368 original size:12 final size:12
Alignment explanation
Indices: 21353--21412 Score: 52
Period size: 12 Copynumber: 5.2 Consensus size: 12
21343 AAAAAATTTT
21353 AAAAATAAAT-A
1 AAAAATAAATAA
*
21364 AAAAATAAATGA
1 AAAAATAAATAA
*
21376 AAAAATAAATTA
1 AAAAATAAATAA
* * *
21388 AGATA-AAAGAA
1 AAAAATAAATAA
*
21399 AAAATTAAATAA
1 AAAAATAAATAA
21411 AA
1 AA
21413 TACCAAGAAA
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
11 16 0.42
12 22 0.58
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (12 bp):
AAAAATAAATAA
Found at i:21378 original size:22 final size:23
Alignment explanation
Indices: 21353--21412 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 23
21343 AAAAAATTTT
*
21353 AAAAATAAATAAAAAATAAATGA
1 AAAAATAAATAAAAAATAAAAGA
* *
21376 AAAAATAAAT-TAAGATAAAAGA
1 AAAAATAAATAAAAAATAAAAGA
21398 AAAAATTAAATAAAA
1 AAAAA-TAAATAAAA
21413 TACCAAGAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
22 14 0.45
23 15 0.48
24 2 0.06
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (23 bp):
AAAAATAAATAAAAAATAAAAGA
Found at i:22177 original size:35 final size:34
Alignment explanation
Indices: 22138--22210 Score: 87
Period size: 35 Copynumber: 2.1 Consensus size: 34
22128 CAAAAAATAA
*
22138 AAAAAAAAG-AAATA-AAGATATAAAAAATTAAAAGC
1 AAAAAAAAGTAAATACAA-A-ATAAAAAA-TAAAAAC
*
22173 AAAAAAAAGTTAATACAAAATAAAAAATAAAAAC
1 AAAAAAAAGTAAATACAAAATAAAAAATAAAAAC
22207 AAAA
1 AAAA
22211 GGAGGAAGTG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
34 10 0.29
35 17 0.50
36 5 0.15
37 2 0.06
ACGTcount: A:0.77, C:0.04, G:0.05, T:0.14
Consensus pattern (34 bp):
AAAAAAAAGTAAATACAAAATAAAAAATAAAAAC
Found at i:22505 original size:15 final size:16
Alignment explanation
Indices: 22476--22508 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
22466 TGTAACACAA
22476 AAAAAAAAGAGAAAAT
1 AAAAAAAAGAGAAAAT
22492 AAAAAAAAGA-AAAAT
1 AAAAAAAAGAGAAAAT
22507 AA
1 AA
22509 TGAATGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.85, C:0.00, G:0.09, T:0.06
Consensus pattern (16 bp):
AAAAAAAAGAGAAAAT
Found at i:22554 original size:17 final size:18
Alignment explanation
Indices: 22534--22567 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
22524 GAAAATACAT
*
22534 AAAAAGTAAAA-AAAAAC
1 AAAAAGGAAAAGAAAAAC
22551 AAAAAGGAAAAGAAAAA
1 AAAAAGGAAAAGAAAAA
22568 GAAGGTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.82, C:0.03, G:0.12, T:0.03
Consensus pattern (18 bp):
AAAAAGGAAAAGAAAAAC
Found at i:23339 original size:19 final size:19
Alignment explanation
Indices: 23317--23353 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
23307 ATAAAATACG
23317 AACAAAAAATAAAAAATAT
1 AACAAAAAATAAAAAATAT
* *
23336 AACAAATAATAAGAAATA
1 AACAAAAAATAAAAAATA
23354 AAGGTATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.76, C:0.05, G:0.03, T:0.16
Consensus pattern (19 bp):
AACAAAAAATAAAAAATAT
Found at i:23553 original size:24 final size:26
Alignment explanation
Indices: 23494--23554 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 26
23484 AGTGAAAAAT
*
23494 AAAAATAAAAACAAAACATGGAAGTGC
1 AAAAATAAAAACAAAACATGGAAG-AC
23521 AAAAA-AAAAA-AAAA-ATGGAA-AC
1 AAAAATAAAAACAAAACATGGAAGAC
23543 AAGAAATAAAAA
1 AA-AAATAAAAA
23555 GAAATTTGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
22 3 0.10
23 3 0.10
24 11 0.35
25 4 0.13
26 5 0.16
27 5 0.16
ACGTcount: A:0.74, C:0.07, G:0.11, T:0.08
Consensus pattern (26 bp):
AAAAATAAAAACAAAACATGGAAGAC
Found at i:23666 original size:19 final size:19
Alignment explanation
Indices: 23627--23667 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
23617 AGAAAATTTT
* *
23627 AAAACAAAGAAAAAAGCTG
1 AAAACAAAAAAAAAAGATG
*
23646 AAAACAAAAAAAAAATATG
1 AAAACAAAAAAAAAAGATG
23665 AAA
1 AAA
23668 GGACATGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.76, C:0.07, G:0.10, T:0.07
Consensus pattern (19 bp):
AAAACAAAAAAAAAAGATG
Found at i:23941 original size:36 final size:35
Alignment explanation
Indices: 23859--23942 Score: 89
Period size: 36 Copynumber: 2.3 Consensus size: 35
23849 GAAAGAAATA
23859 AAAAATAAACAAAAAAAATAAGAACAAAAATTAAAG
1 AAAAATAAA-AAAAAAAATAAGAACAAAAATTAAAG
* * * * *
23895 CAAAAGAAAAAAATAAATAAAGCACAAAAA-TACAAT
1 AAAAATAAAAAAAAAAAT-AAGAACAAAAATTA-AAG
23931 AAAAATAAAAAA
1 AAAAATAAAAAA
23943 GTAAGAAAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
35 10 0.26
36 29 0.74
ACGTcount: A:0.77, C:0.07, G:0.05, T:0.11
Consensus pattern (35 bp):
AAAAATAAAAAAAAAAATAAGAACAAAAATTAAAG
Found at i:24379 original size:9 final size:9
Alignment explanation
Indices: 24366--24395 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
24356 AATGACAAAA
24366 AAAAAAATT
1 AAAAAAATT
*
24375 CAAAAAATT
1 AAAAAAATT
24384 AAAAAAATT
1 AAAAAAATT
24393 AAA
1 AAA
24396 CTTTATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (9 bp):
AAAAAAATT
Found at i:24437 original size:22 final size:21
Alignment explanation
Indices: 24412--24460 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
24402 AAAATTTTTT
*
24412 AAAAATATATAAAAAATAAATG
1 AAAAATATAT-AAAAATAAAAG
* * *
24434 AAAAAAATATTAATATAAAAG
1 AAAAATATATAAAAATAAAAG
24455 AAAAAT
1 AAAAAT
24461 GAAAAAAATT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.22
Consensus pattern (21 bp):
AAAAATATATAAAAATAAAAG
Found at i:24449 original size:30 final size:28
Alignment explanation
Indices: 24418--24492 Score: 86
Period size: 26 Copynumber: 2.8 Consensus size: 28
24408 TTTTAAAAAT
*
24418 ATATAAAAAATAAATGAAAAAAATATTA
1 ATATAAAAAAAAAATGAAAAAAATATTA
*
24446 ATATAAAAGAAAAATG-AAAAAA-ATTA
1 ATATAAAAAAAAAATGAAAAAAATATTA
*
24472 A-ACAAAACAAAAAAT-AAAAAA
1 ATATAAAA-AAAAAATGAAAAAA
24493 TTAGCAAATG
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
25 5 0.12
26 16 0.39
27 6 0.15
28 14 0.34
ACGTcount: A:0.76, C:0.03, G:0.04, T:0.17
Consensus pattern (28 bp):
ATATAAAAAAAAAATGAAAAAAATATTA
Found at i:24484 original size:26 final size:27
Alignment explanation
Indices: 24422--24493 Score: 78
Period size: 25 Copynumber: 2.7 Consensus size: 27
24412 AAAAATATAT
* *
24422 AAAAAATAAATGAAAAAAATATTAATAT
1 AAAAAAAAAATG-AAAAAATATTAATAC
*
24450 AAAAGAAAAATGAAAAAA-ATTAA-AC
1 AAAAAAAAAATGAAAAAATATTAATAC
24475 AAAACAAAAAAT-AAAAAAT
1 AAAA-AAAAAATGAAAAAAT
24494 TAGCAAATGA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
25 11 0.29
26 11 0.29
27 6 0.16
28 10 0.26
ACGTcount: A:0.76, C:0.03, G:0.04, T:0.17
Consensus pattern (27 bp):
AAAAAAAAAATGAAAAAATATTAATAC
Found at i:24508 original size:25 final size:23
Alignment explanation
Indices: 24480--24534 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
24470 TAAACAAAAC
*
24480 AAAAAATAAAAAATTAGCAAATGAA
1 AAAAAATAAAAAA-GA-CAAATGAA
* *
24505 AAAATATAACAAAGACAAATGAA
1 AAAAAATAAAAAAGACAAATGAA
*
24528 TAAAAAT
1 AAAAAAT
24535 TTCAAATATA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
23 13 0.52
24 1 0.04
25 11 0.44
ACGTcount: A:0.71, C:0.05, G:0.07, T:0.16
Consensus pattern (23 bp):
AAAAAATAAAAAAGACAAATGAA
Found at i:24629 original size:15 final size:15
Alignment explanation
Indices: 24609--24641 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
24599 AATATAGGAA
24609 AAAGATATAAAAAT-C
1 AAAGATA-AAAAATAC
24624 AAAGATAAAAAATAC
1 AAAGATAAAAAATAC
24639 AAA
1 AAA
24642 TAAAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.73, C:0.06, G:0.06, T:0.15
Consensus pattern (15 bp):
AAAGATAAAAAATAC
Found at i:25219 original size:30 final size:31
Alignment explanation
Indices: 25185--25260 Score: 88
Period size: 30 Copynumber: 2.5 Consensus size: 31
25175 ATGAAAATAT
25185 AAATAAAGA-AAGAAATAAAAA-A-ATAAACCA
1 AAATAAA-ATAAGAAA-AAAAATATATAAACCA
*
25215 AAATAAAATAAGAAAAAAAATATATAAAGCA
1 AAATAAAATAAGAAAAAAAATATATAAACCA
*
25246 AAAAAAAATAA-AAAA
1 AAATAAAATAAGAAAA
25261 TAAACAAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
29 6 0.15
30 18 0.44
31 17 0.41
ACGTcount: A:0.79, C:0.04, G:0.05, T:0.12
Consensus pattern (31 bp):
AAATAAAATAAGAAAAAAAATATATAAACCA
Found at i:25234 original size:17 final size:17
Alignment explanation
Indices: 25178--25278 Score: 55
Period size: 17 Copynumber: 5.7 Consensus size: 17
25168 AAAATTTATG
25178 AAAATATAAATAA-AGAAA
1 AAAATA-AAATAAGA-AAA
* * * *
25196 GAAATAAAAAAATAAACC
1 AAAATAAAATAAGAAA-A
25214 AAAATAAAATAAGAAAA
1 AAAATAAAATAAGAAAA
*
25231 AAAAT-ATATAAAGCAAAAA
1 AAAATAAAAT-AAG--AAAA
*
25250 AAAATAAAA-AATAAACA
1 AAAATAAAATAAGAAA-A
*
25267 AAAATACAATAA
1 AAAATAAAATAA
25279 AATTTTCAAA
Statistics
Matches: 64, Mismatches: 11, Indels: 16
0.70 0.12 0.18
Matches are distributed among these distances:
16 6 0.09
17 24 0.38
18 23 0.36
19 9 0.14
20 2 0.03
ACGTcount: A:0.77, C:0.05, G:0.04, T:0.14
Consensus pattern (17 bp):
AAAATAAAATAAGAAAA
Found at i:25263 original size:22 final size:22
Alignment explanation
Indices: 25238--25280 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
25228 AAAAAAATAT
25238 ATAAAGCAAAAA-AAAATAAAAA
1 ATAAA-CAAAAATAAAATAAAAA
*
25260 ATAAACAAAAATACAATAAAA
1 ATAAACAAAAATAAAATAAAA
25281 TTTTCAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.79, C:0.07, G:0.02, T:0.12
Consensus pattern (22 bp):
ATAAACAAAAATAAAATAAAAA
Found at i:25692 original size:16 final size:16
Alignment explanation
Indices: 25671--25701 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25661 AAAAATGACA
*
25671 AAAAAATAAATAAATG
1 AAAAAATAAAAAAATG
25687 AAAAAATAAAAAAAT
1 AAAAAATAAAAAAAT
25702 TAAACTTTAT
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:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (16 bp):
AAAAAATAAAAAAATG
Found at i:25737 original size:12 final size:11
Alignment explanation
Indices: 25721--25782 Score: 54
Period size: 12 Copynumber: 5.5 Consensus size: 11
25711 TAAAAAATTT
*
25721 TAAAATATAAA
1 TAAAAAATAAA
25732 TAAAAAATAAA
1 TAAAAAATAAA
25743 TGAAAAAATAAA
1 T-AAAAAATAAA
* *
25755 T-TAAGATAAAA
1 TAAAAAAT-AAA
*
25766 GAAAAAATTAAA
1 TAAAAAA-TAAA
25778 TAAAA
1 TAAAA
25783 TACCAAGAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
10 4 0.10
11 14 0.35
12 21 0.52
13 1 0.03
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (11 bp):
TAAAAAATAAA
Done.